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= psy1544
(1331 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3MWY|W Chain W, Crystal Structure Of The Chromodomain-atpase Portion Of The
Yeast Chd1 Chromatin Remodeler
Length = 800
Score = 429 bits (1102), Expect = e-120, Method: Compositional matrix adjust.
Identities = 227/521 (43%), Positives = 328/521 (62%), Gaps = 36/521 (6%)
Query: 532 ATYYSIAHTVHEIVTEQASILVNGKLKEYQIKGLEWMVSLFNNNLNGILADEMGLGKTIQ 591
++ Y+ E ++ Q + G+L+++Q+ G+ WM L++ NGILADEMGLGKT+Q
Sbjct: 212 SSNYTSQRPRFEKLSVQPPFIKGGELRDFQLTGINWMAFLWSKGDNGILADEMGLGKTVQ 271
Query: 592 TIALITYLMEKKKVNGPFLIIVPLSTLSNWSLEFERWAPSVNVVAYKGSPHLRKTLQ--- 648
T+A I++L+ ++ NGP +I+VPLST+ W FE+WAP +N + Y G+ R T++
Sbjct: 272 TVAFISWLIFARRQNGPHIIVVPLSTMPAWLDTFEKWAPDLNCICYMGNQKSRDTIREYE 331
Query: 649 -------AQMKASKFNVLLTTYEYVIKDKGPLAKLHWKYMIIDEGHRMKNHHCKLTHILN 701
K KFNVLLTTYEY++KD+ L + W++M +DE HR+KN L LN
Sbjct: 332 FYTNPRAKGKKTMKFNVLLTTYEYILKDRAELGSIKWQFMAVDEAHRLKNAESSLYESLN 391
Query: 702 TFYVAPHRLLLTGTPLQNKLPELWALLNFLLPSIFKSVSTFEQWFNAPFATTGEKVELNE 761
+F VA +R+L+TGTPLQN + EL AL+NFL+P F T +Q + E +
Sbjct: 392 SFKVA-NRMLITGTPLQNNIKELAALVNFLMPGRF----TIDQEID---------FENQD 437
Query: 762 EETILIIRRLHKVLRPFLLRRLKKEVESQLPDKVEYIIKCDMSGLQKVLYRHMHTKGI-L 820
EE I LH+ ++PF+LRRLKK+VE LP K E I++ ++S +Q Y+++ TK
Sbjct: 438 EEQEEYIHDLHRRIQPFILRRLKKDVEKSLPSKTERILRVELSDVQTEYYKNILTKNYSA 497
Query: 821 LTDGSEXXXXXXXXXXXLMNTIVQLRKLCNHPFMFQNIEEKFSDHVGGSGIVSGPDLYR- 879
LT G++ L+N + +L+K NHP++F N EE+ G G ++ ++ R
Sbjct: 498 LTAGAKGGHFS------LLNIMNELKKASNHPYLFDNAEERVLQKFG-DGKMTRENVLRG 550
Query: 880 ---VSGKFELLDRILPKLKSTGHRVLLFCQMTQLMNILEDYFSYRGFKYMRLDGTTKAED 936
SGK LLD++L +LK GHRVL+F QM ++++IL DY S +G + RLDGT +
Sbjct: 551 LIMSSGKMVLLDQLLTRLKKDGHRVLIFSQMVRMLDILGDYLSIKGINFQRLDGTVPSAQ 610
Query: 937 RGDLLKKFNAPDSEYFIFVLSTRAGGLGLNLQTADTVIIFDSDWNPHQDLQAQDRAHRIG 996
R + FN+PDS F+F+LSTRAGGLG+NL TADTV+IFDSDWNP DLQA RAHRIG
Sbjct: 611 RRISIDHFNSPDSNDFVFLLSTRAGGLGINLMTADTVVIFDSDWNPQADLQAMARAHRIG 670
Query: 997 QKNEVRVLRLMTVNSVEERILAAARYKLNMDEKVIQAGMFD 1037
QKN V V RL++ ++VEE +L AR K+ ++ +I G+ D
Sbjct: 671 QKNHVMVYRLVSKDTVEEEVLERARKKMILEYAIISLGVTD 711
>pdb|1Z6A|A Chain A, Sulfolobus Solfataricus Swi2SNF2 ATPASE CORE DOMAIN
Length = 500
Score = 221 bits (564), Expect = 1e-57, Method: Compositional matrix adjust.
Identities = 150/491 (30%), Positives = 252/491 (51%), Gaps = 56/491 (11%)
Query: 553 VNGKLKEYQIKGLEWMVSLFNNNLNGILADEMGLGKTIQTIALITYLMEKKKVN--GPFL 610
+ L+ YQIKG WM + LAD+MGLGKT+QTIA+ + + KK N P L
Sbjct: 34 IKANLRPYQIKGFSWMRFMNKLGFGICLADDMGLGKTLQTIAVFS---DAKKENELTPSL 90
Query: 611 IIVPLSTLSNWSLEFERWAPSVNVVAYKGSPHLRKTL----QAQMKASKFNVLLTTYEYV 666
+I PLS L NW E ++AP HLR + ++++K ++++LTTY +
Sbjct: 91 VICPLSVLKNWEEELSKFAP-----------HLRFAVFHEDRSKIKLEDYDIILTTYAVL 139
Query: 667 IKDKGPLAKLHWKYMIIDEGHRMKNHHCKLTHILNTFYVAPHRLLLTGTPLQNKLPELWA 726
++D L ++ WKY++IDE +KN K+ + + +R+ LTGTP++NK+ +LW+
Sbjct: 140 LRDT-RLKEVEWKYIVIDEAQNIKNPQTKIFKAVKELK-SKYRIALTGTPIENKVDDLWS 197
Query: 727 LLNFLLPSIFKSVSTFEQWFNAPFATTGEKVELNEEETILIIRRLHKVLRPFLLRRLK-- 784
++ FL P + S S F+ F P G+ + E L ++ PF+LRR K
Sbjct: 198 IMTFLNPGLLGSYSEFKSKFATPIKK-GDNMAKEE---------LKAIISPFILRRTKYD 247
Query: 785 KEVESQLPDKVEYIIKCDMSGLQKVLYRHMHTKGILLTDGSEXXXXXXXXXXXLMNTIVQ 844
K + + LPDK+E + C+++ Q +Y+ + + S +++T+++
Sbjct: 248 KAIINDLPDKIETNVYCNLTPEQAAMYKA-EVENLFNNIDS---VTGIKRKGMILSTLLK 303
Query: 845 LRKLCNHPFMFQNIEEKFSDHVGGSGIVSGPDLYRVSGKFELLDRILPKLKSTGHRVLLF 904
L+++ +HP + + E+ R SGK I+ + G ++ +F
Sbjct: 304 LKQIVDHPALLKGGEQSV----------------RRSGKMIRTMEIIEEALDEGDKIAIF 347
Query: 905 CQMTQLMNILEDYFSYR-GFKYMRLDGTTKAEDRGDLLKKFNAPDSEYFIFVLSTRAGGL 963
Q + I+ + + L G ++R D++ KF S FI VLS +AGG
Sbjct: 348 TQFVDMGKIIRNIIEKELNTEVPFLYGELSKKERDDIISKFQNNPSVKFI-VLSVKAGGF 406
Query: 964 GLNLQTADTVIIFDSDWNPHQDLQAQDRAHRIGQKNEVRVLRLMTVNSVEERILAAARYK 1023
G+NL +A+ VI FD WNP + QA DR +RIGQ V V +L++V ++EE+I +K
Sbjct: 407 GINLTSANRVIHFDRWWNPAVEDQATDRVYRIGQTRNVIVHKLISVGTLEEKIDQLLAFK 466
Query: 1024 LNMDEKVIQAG 1034
++ + +I +G
Sbjct: 467 RSLFKDIISSG 477
>pdb|1Z63|A Chain A, Sulfolobus Solfataricus Swi2SNF2 ATPASE CORE IN COMPLEX With
Dsdna
pdb|1Z63|B Chain B, Sulfolobus Solfataricus Swi2SNF2 ATPASE CORE IN COMPLEX With
Dsdna
Length = 500
Score = 214 bits (544), Expect = 4e-55, Method: Compositional matrix adjust.
Identities = 157/497 (31%), Positives = 254/497 (51%), Gaps = 68/497 (13%)
Query: 553 VNGKLKEYQIKGLEWMVSLFNNNLN-GI-LADEMGLGKTIQTIALITYLMEKKKVN--GP 608
+ L+ YQIKG W F N L GI LAD+ GLGKT+QTIA+ + + KK N P
Sbjct: 34 IKANLRPYQIKGFSWX--RFXNKLGFGICLADDXGLGKTLQTIAVFS---DAKKENELTP 88
Query: 609 FLIIVPLSTLSNWSLEFERWAPSVNVVAYKGSPHLRKTL----QAQMKASKFNVLLTTYE 664
L+I PLS L NW E ++AP HLR + ++++K ++++LTTY
Sbjct: 89 SLVICPLSVLKNWEEELSKFAP-----------HLRFAVFHEDRSKIKLEDYDIILTTYA 137
Query: 665 YVIKDKGPLAKLHWKYMIIDEGHRMKNHHCKLTHILNTFYVAPHRLLLTGTPLQNKLPEL 724
+++D L ++ WKY++IDE +KN K+ + + +R+ LTGTP++NK+ +L
Sbjct: 138 VLLRDT-RLKEVEWKYIVIDEAQNIKNPQTKIFKAVKELK-SKYRIALTGTPIENKVDDL 195
Query: 725 WALLNFLLPSIFKSVSTFEQWFNAPFATTGEKVELNEEETILIIRRLHKVLRPFLLRRLK 784
W++ FL P + S S F+ F P G+ E L ++ PF+LRR K
Sbjct: 196 WSIXTFLNPGLLGSYSEFKSKFATPIKK-GDNXAKEE---------LKAIISPFILRRTK 245
Query: 785 --KEVESQLPDKVEYIIKCDMSGLQKVLYRHMHTKGILLTDGSEXXXXXXXXXXXLMNTI 842
K + + LPDK+E + C+++ Q Y+ + + S +++T+
Sbjct: 246 YDKAIINDLPDKIETNVYCNLTPEQAAXYK-AEVENLFNNIDS---VTGIKRKGXILSTL 301
Query: 843 VQLRKLCNHPFMFQNIEEKFSDHVGGSGIVSGPDLYRVSGKFELLDRILPKLKSTGHRVL 902
++L+++ +HP + + E+ R SGK I+ + G ++
Sbjct: 302 LKLKQIVDHPALLKGGEQSV----------------RRSGKXIRTXEIIEEALDEGDKIA 345
Query: 903 LFCQMTQ----LMNILEDYFSYR-GFKYMRLDGTTKAEDRGDLLKKFNAPDSEYFIFVLS 957
+F Q + NI+E + F Y G ++R D++ KF S FI VLS
Sbjct: 346 IFTQFVDXGKIIRNIIEKELNTEVPFLY----GELSKKERDDIISKFQNNPSVKFI-VLS 400
Query: 958 TRAGGLGLNLQTADTVIIFDSDWNPHQDLQAQDRAHRIGQKNEVRVLRLMTVNSVEERIL 1017
+AGG G+NL +A+ VI FD WNP + QA DR +RIGQ V V +L++V ++EE+I
Sbjct: 401 VKAGGFGINLTSANRVIHFDRWWNPAVEDQATDRVYRIGQTRNVIVHKLISVGTLEEKID 460
Query: 1018 AAARYKLNMDEKVIQAG 1034
+K ++ + +I +G
Sbjct: 461 QLLAFKRSLFKDIISSG 477
>pdb|1Z3I|X Chain X, Structure Of The Swi2SNF2 CHROMATIN REMODELING DOMAIN OF
EUKARYOTIC Rad54
Length = 644
Score = 207 bits (526), Expect = 4e-53, Method: Compositional matrix adjust.
Identities = 157/508 (30%), Positives = 248/508 (48%), Gaps = 47/508 (9%)
Query: 557 LKEYQIKGLEWMVSLFN-----NNLNGILADEMGLGKTIQTIALITYLMEKKKVNGP--- 608
L+ +Q +G++++ N+ I+ADEMGLGKT+Q I LI L+++ P
Sbjct: 56 LRPHQREGVKFLWDCVTGRRIENSYGCIMADEMGLGKTLQCITLIWTLLKQSPDCKPEID 115
Query: 609 -FLIIVPLSTLSNWSLEFERW-APSVNVVAYKGSPH------LRKTLQAQMKASKFNVLL 660
+++ P S + NW E +W V VA G L + Q +L+
Sbjct: 116 KVIVVSPSSLVRNWYNEVGKWLGGRVQPVAIDGGSKDEIDSKLVNFISQQGMRIPTPILI 175
Query: 661 TTYEYVIKDKGPLAKLHWKYMIIDEGHRMKNHHCKLTHILNTFYVAPHRLLLTGTPLQNK 720
+YE L K +I DEGHR+KN + LN+ A R+L++GTP+QN
Sbjct: 176 ISYETFRLHAEVLHKGKVGLVICDEGHRLKNSDNQTYLALNSMN-AQRRVLISGTPIQND 234
Query: 721 LPELWALLNFLLPSIFKSVSTFEQWFNAPF-----ATTGEKVELNEEETILIIRRLHKVL 775
L E ++L++F+ I + F++ F P A +K E+ + + L ++
Sbjct: 235 LLEYFSLVHFVNSGILGTAQEFKKRFEIPILKGRDADASDKDRAAGEQKL---QELISIV 291
Query: 776 RPFLLRRLKKEVESQLPDKVEYIIKCDMSGLQKVLYRHMHTKGILLTDGSEXXXXXXXXX 835
L+RR + LP K+E ++ C+++ LQK LY K L
Sbjct: 292 NRCLIRRTSDILSKYLPVKIEQVVCCNLTPLQKELY-----KLFLKQAKPVESLQTGKIS 346
Query: 836 XXLMNTIVQLRKLCNHPFMFQNIEEKFSDHVGGSGIVSGPDLY-----------RVSGKF 884
+++I L+KLCNHP + I EK G G DL+ ++SGK
Sbjct: 347 VSSLSSITSLKKLCNHPAL---IYEKCL--TGEEGFDGALDLFPQNYSTKAVEPQLSGKM 401
Query: 885 ELLDRILPKLKST-GHRVLLFCQMTQLMNILEDYFSYRGFKYMRLDGTTKAEDRGDLLKK 943
+LD IL ++T +V+L TQ +++ E R + Y+RLDGT + R ++++
Sbjct: 402 LVLDYILAMTRTTTSDKVVLVSNYTQTLDLFEKLCRNRRYLYVRLDGTMSIKKRAKIVER 461
Query: 944 FNAPDSEYFIFVLSTRAGGLGLNLQTADTVIIFDSDWNPHQDLQAQDRAHRIGQKNEVRV 1003
FN P S FIF+LS++AGG GLNL A+ +++FD DWNP D QA R R GQK +
Sbjct: 462 FNNPSSPEFIFMLSSKAGGCGLNLIGANRLVMFDPDWNPANDEQAMARVWRDGQKKTCYI 521
Query: 1004 LRLMTVNSVEERILAAARYKLNMDEKVI 1031
RL++ ++EE+IL +K + V+
Sbjct: 522 YRLLSTGTIEEKILQRQAHKKALSSCVV 549
>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 = 123 bits (308), Expect = 8e-28, Method: Compositional matrix adjust.
Identities = 62/105 (59%), Positives = 81/105 (77%), Gaps = 1/105 (0%)
Query: 1225 IMRVVIKYTDSD-GRVLSEPFIKLPSRKELPDYYEVIDRPMDIKKILGRIEDGKYSSVDE 1283
I+ VIKY DS GR LSE FI+LPSRKELP+YYE+I +P+D KKI RI + KY S+++
Sbjct: 19 IVDAVIKYKDSSSGRQLSEVFIQLPSRKELPEYYELIRKPVDFKKIKERIRNHKYRSLND 78
Query: 1284 LQKDFKTLCRNAQIYNEELSLIHEDSVVLESVFTKARQRVESGED 1328
L+KD LC+NAQ +N E SLI+EDS+VL+SVFT RQ++E +D
Sbjct: 79 LEKDVMLLCQNAQTFNLEGSLIYEDSIVLQSVFTSVRQKIEKEDD 123
>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 = 123 bits (308), Expect = 8e-28, Method: Compositional matrix adjust.
Identities = 62/105 (59%), Positives = 81/105 (77%), Gaps = 1/105 (0%)
Query: 1225 IMRVVIKYTDSD-GRVLSEPFIKLPSRKELPDYYEVIDRPMDIKKILGRIEDGKYSSVDE 1283
I+ VIKY DS GR LSE FI+LPSRKELP+YYE+I +P+D KKI RI + KY S+++
Sbjct: 20 IVDAVIKYKDSSSGRQLSEVFIQLPSRKELPEYYELIRKPVDFKKIKERIRNHKYRSLND 79
Query: 1284 LQKDFKTLCRNAQIYNEELSLIHEDSVVLESVFTKARQRVESGED 1328
L+KD LC+NAQ +N E SLI+EDS+VL+SVFT RQ++E +D
Sbjct: 80 LEKDVMLLCQNAQTFNLEGSLIYEDSIVLQSVFTSVRQKIEKEDD 124
>pdb|2H60|A Chain A, Solution Structure Of Human Brg1 Bromodomain
Length = 128
Score = 123 bits (308), Expect = 9e-28, Method: Compositional matrix adjust.
Identities = 62/105 (59%), Positives = 81/105 (77%), Gaps = 1/105 (0%)
Query: 1225 IMRVVIKYTDSD-GRVLSEPFIKLPSRKELPDYYEVIDRPMDIKKILGRIEDGKYSSVDE 1283
I+ VIKY DS GR LSE FI+LPSRKELP+YYE+I +P+D KKI RI + KY S+++
Sbjct: 15 IVDAVIKYKDSSSGRQLSEVFIQLPSRKELPEYYELIRKPVDFKKIKERIRNHKYRSLND 74
Query: 1284 LQKDFKTLCRNAQIYNEELSLIHEDSVVLESVFTKARQRVESGED 1328
L+KD LC+NAQ +N E SLI+EDS+VL+SVFT RQ++E +D
Sbjct: 75 LEKDVMLLCQNAQTFNLEGSLIYEDSIVLQSVFTSVRQKIEKEDD 119
>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 = 115 bits (289), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 58/97 (59%), Positives = 72/97 (74%)
Query: 1225 IMRVVIKYTDSDGRVLSEPFIKLPSRKELPDYYEVIDRPMDIKKILGRIEDGKYSSVDEL 1284
I+ VI Y DS GR LSE FI+LPSRKELP+YYE+I +P+D KKI RI + KY S+ +L
Sbjct: 21 IIDTVINYKDSSGRQLSEVFIQLPSRKELPEYYELIRKPVDFKKIKERIRNHKYRSLGDL 80
Query: 1285 QKDFKTLCRNAQIYNEELSLIHEDSVVLESVFTKARQ 1321
+KD LC NAQ +N E S I+EDS+VL+SVF ARQ
Sbjct: 81 EKDVMLLCHNAQTFNLEGSQIYEDSIVLQSVFKSARQ 117
>pdb|1Z5Z|A Chain A, Sulfolobus Solfataricus Swi2SNF2 ATPASE C-Terminal Domain
pdb|1Z5Z|B Chain B, Sulfolobus Solfataricus Swi2SNF2 ATPASE C-Terminal Domain
Length = 271
Score = 95.1 bits (235), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 68/247 (27%), Positives = 121/247 (48%), Gaps = 22/247 (8%)
Query: 789 SQLPDKVEYIIKCDMSGLQKVLYRHMHTKGILLTDGSEXXXXXXXXXXXLMNTIVQLRKL 848
S LPDK+E + C+++ Q +Y+ + + S +++T+++L+++
Sbjct: 23 SDLPDKIETNVYCNLTPEQAAMYK-AEVENLFNNIDS---VTGIKRKGMILSTLLKLKQI 78
Query: 849 CNHPFMFQNIEEKFSDHVGGSGIVSGPDLYRVSGKFELLDRILPKLKSTGHRVLLFCQMT 908
+HP + + E+ R SGK I+ + G ++ +F Q
Sbjct: 79 VDHPALLKGGEQSV----------------RRSGKMIRTMEIIEEALDEGDKIAIFTQFV 122
Query: 909 QLMNILEDYFSYR-GFKYMRLDGTTKAEDRGDLLKKFNAPDSEYFIFVLSTRAGGLGLNL 967
+ I+ + + L G ++R D++ KF S FI VLS +AGG G+NL
Sbjct: 123 DMGKIIRNIIEKELNTEVPFLYGELSKKERDDIISKFQNNPSVKFI-VLSVKAGGFGINL 181
Query: 968 QTADTVIIFDSDWNPHQDLQAQDRAHRIGQKNEVRVLRLMTVNSVEERILAAARYKLNMD 1027
+A+ VI FD WNP + QA DR +RIGQ V V +L++V ++EE+I +K ++
Sbjct: 182 TSANRVIHFDRWWNPAVEDQATDRVYRIGQTRNVIVHKLISVGTLEEKIDQLLAFKRSLF 241
Query: 1028 EKVIQAG 1034
+ +I +G
Sbjct: 242 KDIISSG 248
>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 = 89.0 bits (219), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 44/100 (44%), Positives = 62/100 (62%)
Query: 1225 IMRVVIKYTDSDGRVLSEPFIKLPSRKELPDYYEVIDRPMDIKKILGRIEDGKYSSVDEL 1284
+ V YTD GR LS F++LPSR ELPDYY I +PMD++KI + KY +D +
Sbjct: 23 VYEAVKNYTDKRGRRLSAIFLRLPSRSELPDYYLTIKKPMDMEKIRSHMMANKYQDIDSM 82
Query: 1285 QKDFKTLCRNAQIYNEELSLIHEDSVVLESVFTKARQRVE 1324
+DF + NA YNE SLI++D++VL V + R+ +E
Sbjct: 83 VEDFVMMFNNACTYNEPESLIYKDALVLHKVLLETRRDLE 122
>pdb|2YQD|A Chain A, Solution Structure Of The Fifth Bromodomain From Mouse
Polybromo-1
Length = 120
Score = 87.8 bits (216), Expect = 4e-17, Method: Compositional matrix adjust.
Identities = 43/97 (44%), Positives = 60/97 (61%)
Query: 1225 IMRVVIKYTDSDGRVLSEPFIKLPSRKELPDYYEVIDRPMDIKKILGRIEDGKYSSVDEL 1284
+ V YTD GR LS F++LPSR ELPDYY I +PMD++KI + KY +D +
Sbjct: 23 VYEAVKNYTDKRGRRLSAIFLRLPSRSELPDYYLTIKKPMDMEKIRSHMMANKYQDIDSM 82
Query: 1285 QKDFKTLCRNAQIYNEELSLIHEDSVVLESVFTKARQ 1321
+DF + NA YNE SLI++D++VL V + R+
Sbjct: 83 VEDFVMMFNNACTYNEPESLIYKDALVLHKVLLETRR 119
>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 = 83.6 bits (205), Expect = 7e-16, Method: Compositional matrix adjust.
Identities = 37/103 (35%), Positives = 63/103 (61%)
Query: 1225 IMRVVIKYTDSDGRVLSEPFIKLPSRKELPDYYEVIDRPMDIKKILGRIEDGKYSSVDEL 1284
++ ++ T+ GR++SE F KLPS+ + PDYY +I P+D+K I RI++G Y S+ +
Sbjct: 16 LLEAIVVATNPSGRLISELFQKLPSKVQYPDYYAIIKEPIDLKTIAQRIQNGSYKSIHAM 75
Query: 1285 QKDFKTLCRNAQIYNEELSLIHEDSVVLESVFTKARQRVESGE 1327
KD L +NA+ YNE S + +D+ ++ +F + +E E
Sbjct: 76 AKDIDLLAKNAKTYNEPGSQVFKDANSIKKIFYMKKAEIEHHE 118
>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 = 83.6 bits (205), Expect = 7e-16, Method: Compositional matrix adjust.
Identities = 37/103 (35%), Positives = 63/103 (61%)
Query: 1225 IMRVVIKYTDSDGRVLSEPFIKLPSRKELPDYYEVIDRPMDIKKILGRIEDGKYSSVDEL 1284
++ ++ T+ GR++SE F KLPS+ + PDYY +I P+D+K I RI++G Y S+ +
Sbjct: 17 LLEAIVVATNPSGRLISELFQKLPSKVQYPDYYAIIKEPIDLKTIAQRIQNGSYKSIHAM 76
Query: 1285 QKDFKTLCRNAQIYNEELSLIHEDSVVLESVFTKARQRVESGE 1327
KD L +NA+ YNE S + +D+ ++ +F + +E E
Sbjct: 77 AKDIDLLAKNAKTYNEPGSQVFKDANSIKKIFYMKKAEIEHHE 119
>pdb|3HMF|A Chain A, Crystal Structure Of The Second Bromodomain Of Human
Poly-Bromodomain Containing Protein 1 (Pb1)
Length = 116
Score = 83.6 bits (205), Expect = 8e-16, Method: Compositional matrix adjust.
Identities = 37/103 (35%), Positives = 63/103 (61%)
Query: 1225 IMRVVIKYTDSDGRVLSEPFIKLPSRKELPDYYEVIDRPMDIKKILGRIEDGKYSSVDEL 1284
++ ++ T+ GR++SE F KLPS+ + PDYY +I P+D+K I RI++G Y S+ +
Sbjct: 14 LLEAIVVATNPSGRLISELFQKLPSKVQYPDYYAIIKEPIDLKTIAQRIQNGSYKSIHAM 73
Query: 1285 QKDFKTLCRNAQIYNEELSLIHEDSVVLESVFTKARQRVESGE 1327
KD L +NA+ YNE S + +D+ ++ +F + +E E
Sbjct: 74 AKDIDLLAKNAKTYNEPGSQVFKDANSIKKIFYMKKAEIEHHE 116
>pdb|3TLP|A Chain A, Crystal Structure Of The Fourth Bromodomain Of Human
Poly-Bromodomain Containing Protein 1 (Pb1)
pdb|3TLP|B Chain B, Crystal Structure Of The Fourth Bromodomain Of Human
Poly-Bromodomain Containing Protein 1 (Pb1)
Length = 150
Score = 70.1 bits (170), Expect = 9e-12, Method: Compositional matrix adjust.
Identities = 38/95 (40%), Positives = 60/95 (63%), Gaps = 2/95 (2%)
Query: 1237 GRVLSEPFIKLPSRKELPDYYEVIDRPMDIKKILGRIEDGKYSSVDELQKDFKTLCRNAQ 1296
GR L + F+ PS+K+ PDYY++I PMD+K I I + KY+ + + +D K + RNA+
Sbjct: 45 GRRLCDLFMVKPSKKDYPDYYKIILEPMDLKIIEHNIRNDKYAGEEGMIEDMKLMFRNAR 104
Query: 1297 IYNEELSLIHEDSVVLESVFTKARQRVESGEDPDE 1331
YNEE S ++ D+ +LE + + R+ E G PD+
Sbjct: 105 HYNEEGSQVYNDAHILEKLLKEKRK--ELGPLPDD 137
>pdb|3IU5|A Chain A, Crystal Structure Of The First Bromodomain Of Human
Poly-Bromodomain Containing Protein 1 (Pb1)
Length = 116
Score = 64.3 bits (155), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 35/97 (36%), Positives = 57/97 (58%), Gaps = 1/97 (1%)
Query: 1232 YTDSDGRVLSEPFIKLPSRKELPDYYEVIDRPMDIKKILGRIEDGKYSSVDELQKDFKTL 1291
Y D GR+L E FI+ P R+ PDYYEV+ +P+D+ KI +++ +Y V+ L DF+ L
Sbjct: 20 YKDEQGRLLCELFIRAPKRRNQPDYYEVVSQPIDLMKIQQKLKMEEYDDVNLLTADFQLL 79
Query: 1292 CRNAQIYNEELSLIHEDSVVLESVFTKARQR-VESGE 1327
NA+ Y + S ++ + L ++ + R V+ GE
Sbjct: 80 FNNAKSYYKPDSPEYKAACKLWDLYLRTRNEFVQKGE 116
>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 = 62.4 bits (150), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 28/95 (29%), Positives = 59/95 (62%)
Query: 1234 DSDGRVLSEPFIKLPSRKELPDYYEVIDRPMDIKKILGRIEDGKYSSVDELQKDFKTLCR 1293
++ G++++EPF LPS+K+ PDYY+ I P+ +++I ++++ +Y ++D L+ D +
Sbjct: 34 NNQGQLIAEPFYHLPSKKKYPDYYQQIKMPISLQQIRTKLKNQEYETLDHLECDLNLMFE 93
Query: 1294 NAQIYNEELSLIHEDSVVLESVFTKARQRVESGED 1328
NA+ YN S I++ + L+ V ++ + +D
Sbjct: 94 NAKRYNVPNSAIYKRVLKLQQVMQAKKKELARRDD 128
>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 = 62.0 bits (149), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 31/88 (35%), Positives = 54/88 (61%), Gaps = 1/88 (1%)
Query: 1236 DGRV-LSEPFIKLPSRKELPDYYEVIDRPMDIKKILGRIEDGKYSSVDELQKDFKTLCRN 1294
D +V LSEPF++L + ELP+YYE++ PM + + +E G+YS + + D + +N
Sbjct: 210 DDKVKLSEPFMELVDKDELPEYYEIVHSPMALSIVKQNLEIGQYSKIYDFIIDMLLVFQN 269
Query: 1295 AQIYNEELSLIHEDSVVLESVFTKARQR 1322
A I+N+ +LI++D+ L + F Q+
Sbjct: 270 AHIFNDPSALIYKDATTLTNYFNYLIQK 297
Score = 45.8 bits (107), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 31/70 (44%), Positives = 40/70 (57%), Gaps = 7/70 (10%)
Query: 1244 FIKLPSRKELPDYYEVIDRPMDIKKILGR---IEDGKYSSVDELQKDFKTLCRNAQIYNE 1300
FIKLPSRK P YY I +PM I +I R EDG + + D + L +N Q YNE
Sbjct: 86 FIKLPSRKFHPQYYYKIQQPMSINEIKSRDYEYEDGPSNFL----LDVELLTKNCQAYNE 141
Query: 1301 ELSLIHEDSV 1310
SLI ++S+
Sbjct: 142 YDSLIVKNSM 151
>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 = 62.0 bits (149), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 31/88 (35%), Positives = 54/88 (61%), Gaps = 1/88 (1%)
Query: 1236 DGRV-LSEPFIKLPSRKELPDYYEVIDRPMDIKKILGRIEDGKYSSVDELQKDFKTLCRN 1294
D +V LSEPF++L + ELP+YYE++ PM + + +E G+YS + + D + +N
Sbjct: 225 DDKVKLSEPFMELVDKDELPEYYEIVHSPMALSIVKQNLEIGQYSKIYDFIIDMLLVFQN 284
Query: 1295 AQIYNEELSLIHEDSVVLESVFTKARQR 1322
A I+N+ +LI++D+ L + F Q+
Sbjct: 285 AHIFNDPSALIYKDATTLTNYFNYLIQK 312
Score = 46.2 bits (108), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 31/70 (44%), Positives = 38/70 (54%), Gaps = 7/70 (10%)
Query: 1244 FIKLPSRKELPDYYEVIDRPMDIKKILGR---IEDGKYSSVDELQKDFKTLCRNAQIYNE 1300
FIKLPSRK P YY I +PM I +I R EDG D + L +N Q YNE
Sbjct: 101 FIKLPSRKFHPQYYYKIQQPMSINEIKSRDYEYEDGP----SNFLLDVELLTKNCQAYNE 156
Query: 1301 ELSLIHEDSV 1310
SLI ++S+
Sbjct: 157 YDSLIVKNSM 166
>pdb|2R0S|A Chain A, Crystal Structure Of The Rsc4 Tandem Bromodomain
Length = 285
Score = 58.2 bits (139), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 30/88 (34%), Positives = 52/88 (59%), Gaps = 1/88 (1%)
Query: 1236 DGRV-LSEPFIKLPSRKELPDYYEVIDRPMDIKKILGRIEDGKYSSVDELQKDFKTLCRN 1294
D +V LSEPF +L + ELP+YYE++ P + + +E G+YS + + D + +N
Sbjct: 169 DDKVKLSEPFXELVDKDELPEYYEIVHSPXALSIVKQNLEIGQYSKIYDFIIDXLLVFQN 228
Query: 1295 AQIYNEELSLIHEDSVVLESVFTKARQR 1322
A I+N+ +LI++D+ L + F Q+
Sbjct: 229 AHIFNDPSALIYKDATTLTNYFNYLIQK 256
Score = 42.7 bits (99), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 30/69 (43%), Positives = 36/69 (52%), Gaps = 7/69 (10%)
Query: 1244 FIKLPSRKELPDYYEVIDRPMDIKKILGR---IEDGKYSSVDELQKDFKTLCRNAQIYNE 1300
FIKLPSRK P YY I +P I +I R EDG D + L +N Q YNE
Sbjct: 45 FIKLPSRKFHPQYYYKIQQPXSINEIKSRDYEYEDGP----SNFLLDVELLTKNCQAYNE 100
Query: 1301 ELSLIHEDS 1309
SLI ++S
Sbjct: 101 YDSLIVKNS 109
>pdb|2R0Y|A Chain A, Structure Of The Rsc4 Tandem Bromodomain In Complex With An
Acetylated H3 Peptide
Length = 311
Score = 58.2 bits (139), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 30/88 (34%), Positives = 52/88 (59%), Gaps = 1/88 (1%)
Query: 1236 DGRV-LSEPFIKLPSRKELPDYYEVIDRPMDIKKILGRIEDGKYSSVDELQKDFKTLCRN 1294
D +V LSEPF +L + ELP+YYE++ P + + +E G+YS + + D + +N
Sbjct: 175 DDKVKLSEPFXELVDKDELPEYYEIVHSPXALSIVKQNLEIGQYSKIYDFIIDXLLVFQN 234
Query: 1295 AQIYNEELSLIHEDSVVLESVFTKARQR 1322
A I+N+ +LI++D+ L + F Q+
Sbjct: 235 AHIFNDPSALIYKDATTLTNYFNYLIQK 262
Score = 42.4 bits (98), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 30/69 (43%), Positives = 36/69 (52%), Gaps = 7/69 (10%)
Query: 1244 FIKLPSRKELPDYYEVIDRPMDIKKILGR---IEDGKYSSVDELQKDFKTLCRNAQIYNE 1300
FIKLPSRK P YY I +P I +I R EDG D + L +N Q YNE
Sbjct: 51 FIKLPSRKFHPQYYYKIQQPXSINEIKSRDYEYEDGP----SNFLLDVELLTKNCQAYNE 106
Query: 1301 ELSLIHEDS 1309
SLI ++S
Sbjct: 107 YDSLIVKNS 115
>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 = 57.8 bits (138), Expect = 4e-08, Method: Composition-based stats.
Identities = 32/100 (32%), Positives = 48/100 (48%)
Query: 1229 VIKYTDSDGRVLSEPFIKLPSRKELPDYYEVIDRPMDIKKILGRIEDGKYSSVDELQKDF 1288
+I Y DS + L+ P + LP +K+ DYYE I P+D+ I +I G Y +V+ D
Sbjct: 21 IISYKDSSRQALAAPLLNLPPKKKNADYYEKISDPLDLITIEKQILTGYYKTVEAFDADM 80
Query: 1289 KTLCRNAQIYNEELSLIHEDSVVLESVFTKARQRVESGED 1328
+ RNA+ Y S + D L + AR + D
Sbjct: 81 LKVFRNAEKYYGRKSPVGRDVCRLRKAYYNARHEASAQID 120
>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 = 52.4 bits (124), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 25/64 (39%), Positives = 36/64 (56%)
Query: 1253 LPDYYEVIDRPMDIKKILGRIEDGKYSSVDELQKDFKTLCRNAQIYNEELSLIHEDSVVL 1312
LPDY+++I PMD+ I R+E+ Y S E +DF T+ N IYN+ I + L
Sbjct: 49 LPDYHKIIKNPMDMGTIKKRLENNYYWSASECMQDFNTMFTNCYIYNKPTDDIVLMAQAL 108
Query: 1313 ESVF 1316
E +F
Sbjct: 109 EKIF 112
>pdb|2YW5|A Chain A, Solution Structure Of The Bromodomain From Human Bromodomain
Containing Protein 3
Length = 138
Score = 52.4 bits (124), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 25/64 (39%), Positives = 36/64 (56%)
Query: 1253 LPDYYEVIDRPMDIKKILGRIEDGKYSSVDELQKDFKTLCRNAQIYNEELSLIHEDSVVL 1312
LPDY+++I PMD+ I R+E+ Y S E +DF T+ N IYN+ I + L
Sbjct: 53 LPDYHKIIKNPMDMGTIKKRLENNYYWSASECMQDFNTMFTNCYIYNKPTDDIVLMAQAL 112
Query: 1313 ESVF 1316
E +F
Sbjct: 113 EKIF 116
>pdb|2L5E|A Chain A, Complex Between Bd1 Of Brd3 And Gata-1 C-Tail
Length = 128
Score = 52.0 bits (123), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 25/64 (39%), Positives = 36/64 (56%)
Query: 1253 LPDYYEVIDRPMDIKKILGRIEDGKYSSVDELQKDFKTLCRNAQIYNEELSLIHEDSVVL 1312
LPDY+++I PMD+ I R+E+ Y S E +DF T+ N IYN+ I + L
Sbjct: 51 LPDYHKIIKNPMDMGTIKKRLENNYYWSASECMQDFNTMFTNCYIYNKPTDDIVLMAQAL 110
Query: 1313 ESVF 1316
E +F
Sbjct: 111 EKIF 114
>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 = 51.6 bits (122), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 24/64 (37%), Positives = 37/64 (57%)
Query: 1253 LPDYYEVIDRPMDIKKILGRIEDGKYSSVDELQKDFKTLCRNAQIYNEELSLIHEDSVVL 1312
LPDY+++I +PMD+ I R+E+ Y + E +DF T+ N IYN+ I + L
Sbjct: 64 LPDYHKIIKQPMDMGTIKRRLENNYYWAASECMQDFNTMFTNCYIYNKPTDDIVLMAQTL 123
Query: 1313 ESVF 1316
E +F
Sbjct: 124 EKIF 127
>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 = 51.6 bits (122), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 24/64 (37%), Positives = 37/64 (57%)
Query: 1253 LPDYYEVIDRPMDIKKILGRIEDGKYSSVDELQKDFKTLCRNAQIYNEELSLIHEDSVVL 1312
LPDY+++I +PMD+ I R+E+ Y + E +DF T+ N IYN+ I + L
Sbjct: 64 LPDYHKIIKQPMDMGTIKRRLENNYYWAASECMQDFNTMFTNCYIYNKPTDDIVLMAQTL 123
Query: 1313 ESVF 1316
E +F
Sbjct: 124 EKIF 127
>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 = 50.4 bits (119), Expect = 7e-06, Method: Composition-based stats.
Identities = 28/82 (34%), Positives = 43/82 (52%)
Query: 1241 SEPFIKLPSRKELPDYYEVIDRPMDIKKILGRIEDGKYSSVDELQKDFKTLCRNAQIYNE 1300
S PF++ P+YY++I PMDI + ++ G Y + +E D KT+ RN + YN
Sbjct: 34 SWPFLEPVDESYAPNYYQIIKAPMDISSMEKKLNGGLYCTKEEFVNDMKTMFRNCRKYNG 93
Query: 1301 ELSLIHEDSVVLESVFTKARQR 1322
E S + S LE F +A +
Sbjct: 94 ESSEYTKMSDNLERCFHRAMMK 115
>pdb|3JVJ|A Chain A, Crystal Structure Of The Bromodomain 1 In Mouse Brd4
pdb|3JVK|A Chain A, Crystal Structure Of Bromodomain 1 Of Mouse Brd4 In Complex
With Histone H3-K(Ac)14
pdb|3MUK|A Chain A, Crystal Structure Of Brd4 Bromodomain 1 With Propionylated
Histone H3- K(Prop)23
pdb|3MUL|A Chain A, Crystal Structure Of Brd4 Bromodomain 1 With Butyrylated
Histone H3- K(Buty)14
Length = 131
Score = 50.1 bits (118), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 25/64 (39%), Positives = 36/64 (56%)
Query: 1253 LPDYYEVIDRPMDIKKILGRIEDGKYSSVDELQKDFKTLCRNAQIYNEELSLIHEDSVVL 1312
LPDYY++I PMD+ I R+E+ Y + E +DF T+ N IYN+ I + L
Sbjct: 57 LPDYYKIIKTPMDMGTIKKRLENNYYWNAQECIQDFNTMFTNCYIYNKPGDDIVLMAEAL 116
Query: 1313 ESVF 1316
E +F
Sbjct: 117 EKLF 120
>pdb|4DON|A Chain A, Brd4 Bromodomain 1 Complex With A Fragment
3,4-dihydro-3-methyl-2(1h)- Quinazolinon
Length = 145
Score = 49.7 bits (117), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 25/64 (39%), Positives = 36/64 (56%)
Query: 1253 LPDYYEVIDRPMDIKKILGRIEDGKYSSVDELQKDFKTLCRNAQIYNEELSLIHEDSVVL 1312
LPDYY++I PMD+ I R+E+ Y + E +DF T+ N IYN+ I + L
Sbjct: 73 LPDYYKIIKTPMDMGTIKKRLENNYYWNAQECIQDFNTMFTNCYIYNKPGDDIVLMAEAL 132
Query: 1313 ESVF 1316
E +F
Sbjct: 133 EKLF 136
>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 = 49.7 bits (117), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 26/75 (34%), Positives = 40/75 (53%)
Query: 1253 LPDYYEVIDRPMDIKKILGRIEDGKYSSVDELQKDFKTLCRNAQIYNEELSLIHEDSVVL 1312
LPDYY++I PMD+ I R+E+ Y + E +DF T+ N IYN+ I + L
Sbjct: 53 LPDYYKIIKTPMDMGTIKKRLENNYYWNAQECIQDFNTMFTNCYIYNKPGDDIVLMAEAL 112
Query: 1313 ESVFTKARQRVESGE 1327
E +F + + + E
Sbjct: 113 EKLFLQKINELPTEE 127
>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 = 49.7 bits (117), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 24/65 (36%), Positives = 36/65 (55%)
Query: 1252 ELPDYYEVIDRPMDIKKILGRIEDGKYSSVDELQKDFKTLCRNAQIYNEELSLIHEDSVV 1311
+LPDYY +I PMD+ I R+E+ Y+ E +DF T+ N +YN+ I +
Sbjct: 44 QLPDYYTIIKNPMDLNTIKKRLENKYYAKASECIEDFNTMFSNCYLYNKPGDDIVLMAQA 103
Query: 1312 LESVF 1316
LE +F
Sbjct: 104 LEKLF 108
>pdb|4HBW|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd4 In
Complex With A Quinazoline Ligand
Length = 127
Score = 49.7 bits (117), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 26/75 (34%), Positives = 40/75 (53%)
Query: 1253 LPDYYEVIDRPMDIKKILGRIEDGKYSSVDELQKDFKTLCRNAQIYNEELSLIHEDSVVL 1312
LPDYY++I PMD+ I R+E+ Y + E +DF T+ N IYN+ I + L
Sbjct: 53 LPDYYKIIKTPMDMGTIKKRLENNYYWNAQECIQDFNTMFTNCYIYNKPGDDIVLMAEAL 112
Query: 1313 ESVFTKARQRVESGE 1327
E +F + + + E
Sbjct: 113 EKLFLQKINELPTEE 127
>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 = 49.7 bits (117), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 34/98 (34%), Positives = 48/98 (48%), Gaps = 12/98 (12%)
Query: 1225 IMRVVIKYTDSDGRVLSEPF------IKLPSRKELPDYYEVIDRPMDIKKILGRIEDGKY 1278
+ RVV+K G S PF +KL +LPDYY +I PMD+ I R+E+ Y
Sbjct: 18 LQRVVLKALWKHG--FSWPFQQPVDAVKL----KLPDYYTIIKTPMDLNTIKKRLENKYY 71
Query: 1279 SSVDELQKDFKTLCRNAQIYNEELSLIHEDSVVLESVF 1316
E +DF T+ N +YN+ I + LE +F
Sbjct: 72 EKASECIEDFNTMFSNCYLYNKTGDDIVVMAQALEKLF 109
>pdb|1E6I|A Chain A, Bromodomain From Gcn5 Complexed With Acetylated H4 Peptide
Length = 121
Score = 49.3 bits (116), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 23/85 (27%), Positives = 47/85 (55%)
Query: 1233 TDSDGRVLSEPFIKLPSRKELPDYYEVIDRPMDIKKILGRIEDGKYSSVDELQKDFKTLC 1292
T+ + PF++ +++E+PDYY+ I PMD+ + ++E KY +++ D + +
Sbjct: 23 TELQNHAAAWPFLQPVNKEEVPDYYDFIKEPMDLSTMEIKLESNKYQKMEDFIYDARLVF 82
Query: 1293 RNAQIYNEELSLIHEDSVVLESVFT 1317
N ++YN E + ++ + LE F
Sbjct: 83 NNCRMYNGENTSYYKYANRLEKFFN 107
>pdb|2I7K|A Chain A, Solution Structure Of The Bromodomain Of Human Brd7 Protein
Length = 117
Score = 48.1 bits (113), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 19/47 (40%), Positives = 30/47 (63%)
Query: 1254 PDYYEVIDRPMDIKKILGRIEDGKYSSVDELQKDFKTLCRNAQIYNE 1300
P Y +I PMD + +I++ Y S++EL+ +FK +C NA IYN+
Sbjct: 39 PGYSMIIKHPMDFSTMKEKIKNNDYQSIEELKDNFKLMCTNAMIYNK 85
>pdb|3QZV|A Chain A, Crystal Structure Of Bptf Phd-Linker-Bromo In Complex With
Histone H4k12ac Peptide
Length = 174
Score = 47.4 bits (111), Expect = 5e-05, Method: Composition-based stats.
Identities = 24/79 (30%), Positives = 40/79 (50%)
Query: 1240 LSEPFIKLPSRKELPDYYEVIDRPMDIKKILGRIEDGKYSSVDELQKDFKTLCRNAQIYN 1299
++ PF++ + PDYY VI PMD+ + R++ Y + E D + N + YN
Sbjct: 89 MAWPFLEPVDPNDAPDYYGVIKEPMDLATMEERVQRRYYEKLTEFVADMTKIFDNCRYYN 148
Query: 1300 EELSLIHEDSVVLESVFTK 1318
S ++ + VLES F +
Sbjct: 149 PSDSPFYQCAEVLESFFVQ 167
>pdb|3Q2E|A Chain A, Crystal Structure Of The Second Bromodomain Of Human
Bromodomain And Wd Repeat-Containing Protein 1 Isoform A
(Wdr9)
Length = 123
Score = 47.4 bits (111), Expect = 5e-05, Method: Composition-based stats.
Identities = 27/86 (31%), Positives = 46/86 (53%), Gaps = 1/86 (1%)
Query: 1241 SEPFIKLPSRKELPDYYEVIDRPMDIKKILGRIEDGKYSSVDELQKDFKTLCRNAQIYN- 1299
SEPF + E PDY ++ID PMD + ++ G Y S E KD + + NA+ Y
Sbjct: 28 SEPFRQPVDLVEYPDYRDIIDTPMDFGTVRETLDAGNYDSPLEFCKDIRLIFSNAKAYTP 87
Query: 1300 EELSLIHEDSVVLESVFTKARQRVES 1325
+ S I+ ++ L ++F + +++ S
Sbjct: 88 NKRSKIYSMTLRLSALFEEKMKKISS 113
>pdb|2RI7|A Chain A, Crystal Structure Of Phd Finger-Linker-Bromodomain Y17e
Mutant From Human Bptf In The H3(1-9)k4me2 Bound State
Length = 174
Score = 47.4 bits (111), Expect = 6e-05, Method: Composition-based stats.
Identities = 24/79 (30%), Positives = 40/79 (50%)
Query: 1240 LSEPFIKLPSRKELPDYYEVIDRPMDIKKILGRIEDGKYSSVDELQKDFKTLCRNAQIYN 1299
++ PF++ + PDYY VI PMD+ + R++ Y + E D + N + YN
Sbjct: 89 MAWPFLEPVDPNDAPDYYGVIKEPMDLATMEERVQRRYYEKLTEFVADMTKIFDNCRYYN 148
Query: 1300 EELSLIHEDSVVLESVFTK 1318
S ++ + VLES F +
Sbjct: 149 PSDSPFYQCAEVLESFFVQ 167
>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 = 47.0 bits (110), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 31/103 (30%), Positives = 52/103 (50%), Gaps = 9/103 (8%)
Query: 1228 VVIKYTDSD-GRVLSEPFIKLPSRKELPDYYEVIDRPMDIKKILGRIEDGKYSSVDELQK 1286
V+ + D D R+ ++P S KE+PDY + I PMD + R+E Y ++ E ++
Sbjct: 21 VLDQLQDKDPARIFAQPV----SLKEVPDYLDHIKHPMDFATMRKRLEAQGYKNLHEFEE 76
Query: 1287 DFKTLCRNAQIYNEELSLIHEDSVVLES----VFTKARQRVES 1325
DF + N YN ++ + +V L V +AR+ V+S
Sbjct: 77 DFDLIIDNCMKYNARDTVFYRAAVRLRDQGGVVLRQARREVDS 119
>pdb|3UV2|A Chain A, Crystal Structure Of The Bromodomain Of Human
Nucleosome-Remodeling Factor Subunit Bptf
Length = 126
Score = 47.0 bits (110), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 24/79 (30%), Positives = 40/79 (50%)
Query: 1240 LSEPFIKLPSRKELPDYYEVIDRPMDIKKILGRIEDGKYSSVDELQKDFKTLCRNAQIYN 1299
++ PF++ + PDYY VI PMD+ + R++ Y + E D + N + YN
Sbjct: 37 MAWPFLEPVDPNDAPDYYGVIKEPMDLATMEERVQRRYYEKLTEFVADMTKIFDNCRYYN 96
Query: 1300 EELSLIHEDSVVLESVFTK 1318
S ++ + VLES F +
Sbjct: 97 PSDSPFYQCAEVLESFFVQ 115
>pdb|3QZT|A Chain A, Crystal Structure Of Bptf Bromo In Complex With Histone
H4k16ac - Form Ii
Length = 115
Score = 47.0 bits (110), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 24/79 (30%), Positives = 40/79 (50%)
Query: 1240 LSEPFIKLPSRKELPDYYEVIDRPMDIKKILGRIEDGKYSSVDELQKDFKTLCRNAQIYN 1299
++ PF++ + PDYY VI PMD+ + R++ Y + E D + N + YN
Sbjct: 30 MAWPFLEPVDPNDAPDYYGVIKEPMDLATMEERVQRRYYEKLTEFVADMTKIFDNCRYYN 89
Query: 1300 EELSLIHEDSVVLESVFTK 1318
S ++ + VLES F +
Sbjct: 90 PSDSPFYQCAEVLESFFVQ 108
>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 = 46.6 bits (109), Expect = 8e-05, Method: Composition-based stats.
Identities = 24/79 (30%), Positives = 40/79 (50%)
Query: 1240 LSEPFIKLPSRKELPDYYEVIDRPMDIKKILGRIEDGKYSSVDELQKDFKTLCRNAQIYN 1299
++ PF++ + PDYY VI PMD+ + R++ Y + E D + N + YN
Sbjct: 30 MAWPFLEPVDPNDAPDYYGVIKEPMDLATMEERVQRRYYEKLTEFVADMTAIFDNCRYYN 89
Query: 1300 EELSLIHEDSVVLESVFTK 1318
S ++ + VLES F +
Sbjct: 90 PSDSPFYQCAEVLESFFVQ 108
>pdb|3MB3|A Chain A, Crystal Structure Of The Second Bromodomain Of Pleckstrin
Homology Domain Interacting Protein (Phip)
Length = 135
Score = 46.2 bits (108), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 28/77 (36%), Positives = 41/77 (53%), Gaps = 1/77 (1%)
Query: 1241 SEPFIKLPSRKELPDYYEVIDRPMDIKKILGRIEDGKYSSVDELQKDFKTLCRNAQIYN- 1299
SEPF + E PDY ++ID PMD + +E G Y S EL KD + + N++ Y
Sbjct: 39 SEPFRQPVDLLEYPDYRDIIDTPMDFATVRETLEAGNYESPMELCKDVRLIFSNSKAYTP 98
Query: 1300 EELSLIHEDSVVLESVF 1316
+ S I+ S+ L + F
Sbjct: 99 SKRSRIYSMSLRLSAFF 115
>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 = 45.1 bits (105), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 25/74 (33%), Positives = 39/74 (52%)
Query: 1243 PFIKLPSRKELPDYYEVIDRPMDIKKILGRIEDGKYSSVDELQKDFKTLCRNAQIYNEEL 1302
PF++ R E P YYEVI PMD+K + R+++ Y S D + + N + YN
Sbjct: 33 PFMEPVKRTEAPGYYEVIRFPMDLKTMSERLKNRYYVSKKLFMADLQRVFTNCKEYNPPE 92
Query: 1303 SLIHEDSVVLESVF 1316
S ++ + +LE F
Sbjct: 93 SEYYKCANILEKFF 106
>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 = 45.1 bits (105), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 25/74 (33%), Positives = 39/74 (52%)
Query: 1243 PFIKLPSRKELPDYYEVIDRPMDIKKILGRIEDGKYSSVDELQKDFKTLCRNAQIYNEEL 1302
PF++ R E P YYEVI PMD+K + R+++ Y S D + + N + YN
Sbjct: 35 PFMEPVKRTEAPGYYEVIRFPMDLKTMSERLKNRYYVSKKLFMADLQRVFTNCKEYNPPE 94
Query: 1303 SLIHEDSVVLESVF 1316
S ++ + +LE F
Sbjct: 95 SEYYKCANILEKFF 108
>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 = 44.7 bits (104), Expect = 3e-04, Method: Composition-based stats.
Identities = 23/66 (34%), Positives = 35/66 (53%)
Query: 1253 LPDYYEVIDRPMDIKKILGRIEDGKYSSVDELQKDFKTLCRNAQIYNEELSLIHEDSVVL 1312
LPDY+++I +P D I R+E+ Y + E +DF T N IYN+ I + L
Sbjct: 44 LPDYHKIIKQPXDXGTIKRRLENNYYWAASECXQDFNTXFTNCYIYNKPTDDIVLXAQTL 103
Query: 1313 ESVFTK 1318
E +F +
Sbjct: 104 EKIFLQ 109
>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 = 44.7 bits (104), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 21/57 (36%), Positives = 28/57 (49%), Gaps = 1/57 (1%)
Query: 1244 FIKLPSRKEL-PDYYEVIDRPMDIKKILGRIEDGKYSSVDELQKDFKTLCRNAQIYN 1299
F P + P Y +I PMD + +I +Y SV E + DFK +C NA YN
Sbjct: 33 FFAFPVTDAIAPGYSMIIKHPMDFGTMKDKIVANEYKSVTEFKADFKLMCDNAMTYN 89
>pdb|3DAI|A Chain A, Crystal Structure Of The Bromodomain Of The Human Atad2
Length = 130
Score = 44.3 bits (103), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 21/56 (37%), Positives = 32/56 (57%)
Query: 1244 FIKLPSRKELPDYYEVIDRPMDIKKILGRIEDGKYSSVDELQKDFKTLCRNAQIYN 1299
F K E+PDY VI +PMD+ ++ +I+ KY +V + +D +C NA YN
Sbjct: 31 FTKPVDPDEVPDYVTVIKQPMDLSSVISKIDLHKYLTVKDYLRDIDLICSNALEYN 86
>pdb|1X0J|A Chain A, Crystal Structure Analysis Of The N-Terminal Bromodomain Of
Human Brd2
pdb|1X0J|B Chain B, Crystal Structure Analysis Of The N-Terminal Bromodomain Of
Human Brd2
pdb|1X0J|C Chain C, Crystal Structure Analysis Of The N-Terminal Bromodomain Of
Human Brd2
pdb|2DVQ|A Chain A, Crystal Structure Analysis Of The N-Terminal Bromodomain Of
Human Brd2 Complexed With Acetylated Histone H4 Peptide
pdb|2DVQ|B Chain B, Crystal Structure Analysis Of The N-Terminal Bromodomain Of
Human Brd2 Complexed With Acetylated Histone H4 Peptide
pdb|2DVQ|C Chain C, Crystal Structure Analysis Of The N-Terminal Bromodomain Of
Human Brd2 Complexed With Acetylated Histone H4 Peptide
pdb|2DVR|A Chain A, Crystal Structure Analysis Of The N-Terminal Bromodomain Of
Human Brd2 Complexed With Acetylated Histone H4 Peptide
pdb|2DVR|B Chain B, Crystal Structure Analysis Of The N-Terminal Bromodomain Of
Human Brd2 Complexed With Acetylated Histone H4 Peptide
pdb|2DVR|C Chain C, Crystal Structure Analysis Of The N-Terminal Bromodomain Of
Human Brd2 Complexed With Acetylated Histone H4 Peptide
pdb|2DVS|A Chain A, Crystal Structure Analysis Of The N-Terminal Bromodomain Of
Human Brd2 Complexed With Acetylated Histone H4 Peptide
pdb|2DVS|B Chain B, Crystal Structure Analysis Of The N-Terminal Bromodomain Of
Human Brd2 Complexed With Acetylated Histone H4 Peptide
pdb|2DVS|C Chain C, Crystal Structure Analysis Of The N-Terminal Bromodomain Of
Human Brd2 Complexed With Acetylated Histone H4 Peptide
Length = 122
Score = 44.3 bits (103), Expect = 4e-04, Method: Composition-based stats.
Identities = 23/66 (34%), Positives = 35/66 (53%)
Query: 1253 LPDYYEVIDRPMDIKKILGRIEDGKYSSVDELQKDFKTLCRNAQIYNEELSLIHEDSVVL 1312
LPDY+++I +P D I R+E+ Y + E +DF T N IYN+ I + L
Sbjct: 38 LPDYHKIIKQPXDXGTIKRRLENNYYWAASECXQDFNTXFTNCYIYNKPTDDIVLXAQTL 97
Query: 1313 ESVFTK 1318
E +F +
Sbjct: 98 EKIFLQ 103
>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 = 44.3 bits (103), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 29/98 (29%), Positives = 51/98 (52%), Gaps = 9/98 (9%)
Query: 1237 GRVLSEPFIKLPSRKELPDYYEVIDRPMDIKKILGRIEDGKYSSVDELQKDFKTLCRNAQ 1296
G + SEP +P E+PDY + I +PMD + +E +Y + D+ ++DF + N
Sbjct: 25 GNIFSEP---VP-LSEVPDYLDHIKKPMDFFTMKQNLEAYRYLNFDDFEEDFNLIVSNCL 80
Query: 1297 IYNEELSLIHEDSVVLE----SVFTKARQRVES-GEDP 1329
YN + ++ + +V L +V +AR++ E G P
Sbjct: 81 KYNAKDTIFYRAAVRLREQGGAVLRQARRQAEKMGSGP 118
>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 = 43.9 bits (102), Expect = 5e-04, Method: Composition-based stats.
Identities = 22/71 (30%), Positives = 38/71 (53%), Gaps = 2/71 (2%)
Query: 1248 PSRKELPDYYEVIDRPMDIKKILGRIED--GKYSSVDELQKDFKTLCRNAQIYNEELSLI 1305
P +PDYY++I PMD+ I R+++ YS ++ DF+ + +N +NE S +
Sbjct: 105 PVPLTVPDYYKIIKNPMDLSTIKKRLQEDYSMYSKPEDFVADFRLIFQNCAEFNEPDSEV 164
Query: 1306 HEDSVVLESVF 1316
+ LE+ F
Sbjct: 165 ANAGIKLENYF 175
>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 = 43.1 bits (100), Expect = 0.001, Method: Composition-based stats.
Identities = 23/76 (30%), Positives = 36/76 (47%)
Query: 1243 PFIKLPSRKELPDYYEVIDRPMDIKKILGRIEDGKYSSVDELQKDFKTLCRNAQIYNEEL 1302
PF++ + PDYY VI P D+ R++ Y + E D + N + YN
Sbjct: 92 PFLEPVDPNDAPDYYGVIKEPXDLATXEERVQRRYYEKLTEFVADXTKIFDNCRYYNPSD 151
Query: 1303 SLIHEDSVVLESVFTK 1318
S ++ + VLES F +
Sbjct: 152 SPFYQCAEVLESFFVQ 167
>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 = 42.4 bits (98), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 25/76 (32%), Positives = 39/76 (51%), Gaps = 6/76 (7%)
Query: 1226 MRVVIKYTDSDGR--VLSEPFIKLPSRKELPDYYEVIDRPMDIKKILGRIEDGKYSSVDE 1283
+R V K +D R + S+P +E+ DY EVI PMD+ ++ +I+ Y + +
Sbjct: 17 LRDVTKRLATDKRFNIFSKPV----DIEEVSDYLEVIKEPMDLSTVITKIDKHNYLTAKD 72
Query: 1284 LQKDFKTLCRNAQIYN 1299
KD +C NA YN
Sbjct: 73 FLKDIDLICSNALEYN 88
>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 = 42.0 bits (97), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 18/64 (28%), Positives = 35/64 (54%)
Query: 1253 LPDYYEVIDRPMDIKKILGRIEDGKYSSVDELQKDFKTLCRNAQIYNEELSLIHEDSVVL 1312
+PDY++++ PMD+ I +++ G+Y + D + NA +YN + S +++ L
Sbjct: 49 IPDYFDIVKSPMDLSTIKRKLDTGQYQEPWQYVDDIWLMFNNAWLYNRKTSRVYKYCSKL 108
Query: 1313 ESVF 1316
VF
Sbjct: 109 SEVF 112
>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 = 42.0 bits (97), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 21/66 (31%), Positives = 37/66 (56%), Gaps = 2/66 (3%)
Query: 1253 LPDYYEVIDRPMDIKKILGRIED--GKYSSVDELQKDFKTLCRNAQIYNEELSLIHEDSV 1310
+PDYY++I PMD+ I R+++ YS ++ DF+ + +N +NE S + +
Sbjct: 49 VPDYYKIIKNPMDLSTIKKRLQEDYSMYSKPEDFVADFRLIFQNCAEFNEPDSEVANAGI 108
Query: 1311 VLESVF 1316
LE+ F
Sbjct: 109 KLENYF 114
>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 = 42.0 bits (97), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 18/64 (28%), Positives = 35/64 (54%)
Query: 1253 LPDYYEVIDRPMDIKKILGRIEDGKYSSVDELQKDFKTLCRNAQIYNEELSLIHEDSVVL 1312
+PDY++++ PMD+ I +++ G+Y + D + NA +YN + S +++ L
Sbjct: 46 IPDYFDIVKNPMDLSTIKRKLDTGQYQEPWQYVDDVWLMFNNAWLYNRKTSRVYKFCSKL 105
Query: 1313 ESVF 1316
VF
Sbjct: 106 AEVF 109
>pdb|2DKW|A Chain A, Solution Structure Of The Bromodomain Of Human Protein
Kiaa1240
Length = 131
Score = 41.6 bits (96), Expect = 0.003, Method: Composition-based stats.
Identities = 18/51 (35%), Positives = 28/51 (54%)
Query: 1251 KELPDYYEVIDRPMDIKKILGRIEDGKYSSVDELQKDFKTLCRNAQIYNEE 1301
K + DY EVI PMD+ ++ +I+ Y + + KD +C NA YN +
Sbjct: 35 KPVSDYLEVIKEPMDLSTVITKIDKHNYLTAKDFLKDIDLICSNALEYNPD 85
>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 = 41.6 bits (96), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 18/64 (28%), Positives = 35/64 (54%)
Query: 1253 LPDYYEVIDRPMDIKKILGRIEDGKYSSVDELQKDFKTLCRNAQIYNEELSLIHEDSVVL 1312
+PDY++++ PMD+ I +++ G+Y + D + NA +YN + S +++ L
Sbjct: 44 IPDYFDIVKNPMDLSTIKRKLDTGQYQEPWQYVDDVWLMFNNAWLYNRKTSRVYKFCSKL 103
Query: 1313 ESVF 1316
VF
Sbjct: 104 AEVF 107
>pdb|2HJV|A Chain A, Structure Of The Second Domain (Residues 207-368) Of The
Bacillus Subtilis Yxin Protein
pdb|2HJV|B Chain B, Structure Of The Second Domain (Residues 207-368) Of The
Bacillus Subtilis Yxin Protein
Length = 163
Score = 41.6 bits (96), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 33/140 (23%), Positives = 59/140 (42%), Gaps = 9/140 (6%)
Query: 879 RVSGKFELLDRILPKLKSTGHRVLLFCQMTQLMNILEDYFSYRGFKYMRLDGTTKAEDRG 938
R KF LL +L + ++FC+ + +N L D G+ ++ G EDR
Sbjct: 18 REENKFSLLKDVL--MTENPDSCIIFCRTKEHVNQLTDELDDLGYPCDKIHGGMIQEDRF 75
Query: 939 DLLKKFNAPDSEYFIFVLSTRAGGLGLNLQTADTVIIFDSDWNPHQDLQAQDRAHRIGQK 998
D++ +F + Y + +T G++++ VI +D + R R G K
Sbjct: 76 DVMNEFKRGEYRYLV---ATDVAARGIDIENISLVINYDLPLEKESYVHRTGRTGRAGNK 132
Query: 999 NEVRVLRLMTVNSVEERILA 1018
+ + V + E+R LA
Sbjct: 133 GKA----ISFVTAFEKRFLA 148
>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 = 40.4 bits (93), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 27/83 (32%), Positives = 38/83 (45%), Gaps = 11/83 (13%)
Query: 1241 SEPFIKLPSRKELPDYYEVIDRPMDIKKILGRIEDGKYSSVDELQKDFKTLCRNAQIYNE 1300
S PF ++K +PDYY+VI PMD++ I I KY S + D + N+ YN
Sbjct: 48 SWPFHHPVNKKFVPDYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNG 107
Query: 1301 ELSLIHEDSVVLESVFTKARQRV 1323
ES +TK Q +
Sbjct: 108 P-----------ESQYTKTAQEI 119
>pdb|1F68|A Chain A, Nmr Solution Structure Of The Bromodomain From Human Gcn5
Length = 103
Score = 40.0 bits (92), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 23/74 (31%), Positives = 35/74 (47%)
Query: 1243 PFIKLPSRKELPDYYEVIDRPMDIKKILGRIEDGKYSSVDELQKDFKTLCRNAQIYNEEL 1302
PF++ + E PDYYEVI P+D+K + R+ Y + D + + N + YN
Sbjct: 23 PFMEPVKKSEAPDYYEVIRFPIDLKTMTERLRSRYYVTRKLFVADLQRVIANCREYNPPD 82
Query: 1303 SLIHEDSVVLESVF 1316
S + LE F
Sbjct: 83 SEYCRCASALEKFF 96
>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 = 40.0 bits (92), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 22/59 (37%), Positives = 31/59 (52%)
Query: 1241 SEPFIKLPSRKELPDYYEVIDRPMDIKKILGRIEDGKYSSVDELQKDFKTLCRNAQIYN 1299
S PF ++K +PDYY+VI PMD++ I I KY S + D + N+ YN
Sbjct: 188 SWPFHHPVNKKFVPDYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYN 246
Score = 37.0 bits (84), Expect = 0.079, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 32/57 (56%)
Query: 1243 PFIKLPSRKELPDYYEVIDRPMDIKKILGRIEDGKYSSVDELQKDFKTLCRNAQIYN 1299
PF + K + DYY++I RPMD++ + + Y S +E ++ + + +N+ YN
Sbjct: 67 PFHTPVNAKVVKDYYKIITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSATYN 123
>pdb|3UV5|A Chain A, Crystal Structure Of The Tandem Bromodomains Of Human
Transcription Initiation Factor Tfiid Subunit 1 (Taf1)
Length = 265
Score = 39.7 bits (91), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 22/59 (37%), Positives = 31/59 (52%)
Query: 1241 SEPFIKLPSRKELPDYYEVIDRPMDIKKILGRIEDGKYSSVDELQKDFKTLCRNAQIYN 1299
S PF ++K +PDYY+VI PMD++ I I KY S + D + N+ YN
Sbjct: 155 SWPFHHPVNKKFVPDYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYN 213
Score = 36.6 bits (83), Expect = 0.093, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 32/57 (56%)
Query: 1243 PFIKLPSRKELPDYYEVIDRPMDIKKILGRIEDGKYSSVDELQKDFKTLCRNAQIYN 1299
PF + K + DYY++I RPMD++ + + Y S +E ++ + + +N+ YN
Sbjct: 34 PFHTPVNAKVVKDYYKIITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSATYN 90
>pdb|1EQF|A Chain A, Crystal Structure Of The Double Bromodomain Module From
Human Tafii250
Length = 280
Score = 39.7 bits (91), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 22/59 (37%), Positives = 31/59 (52%)
Query: 1241 SEPFIKLPSRKELPDYYEVIDRPMDIKKILGRIEDGKYSSVDELQKDFKTLCRNAQIYN 1299
S PF ++K +PDYY+VI PMD++ I I KY S + D + N+ YN
Sbjct: 167 SWPFHHPVNKKFVPDYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYN 225
Score = 36.6 bits (83), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 32/57 (56%)
Query: 1243 PFIKLPSRKELPDYYEVIDRPMDIKKILGRIEDGKYSSVDELQKDFKTLCRNAQIYN 1299
PF + K + DYY++I RPMD++ + + Y S +E ++ + + +N+ YN
Sbjct: 46 PFHTPVNAKVVKDYYKIITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSATYN 102
>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 = 39.7 bits (91), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 23/74 (31%), Positives = 35/74 (47%)
Query: 1243 PFIKLPSRKELPDYYEVIDRPMDIKKILGRIEDGKYSSVDELQKDFKTLCRNAQIYNEEL 1302
PF++ + E PDYYEVI P+D+K + R+ Y + D + + N + YN
Sbjct: 27 PFMEPVKKSEAPDYYEVIRFPIDLKTMTERLRSRYYVTRKLFVADLQRVIANCREYNPPD 86
Query: 1303 SLIHEDSVVLESVF 1316
S + LE F
Sbjct: 87 SEYCRCASALEKFF 100
>pdb|2E7O|A Chain A, Solution Structure Of The Bromodomain From Human Bromodomain
Adjacent To Zinc Finger Domain 2b
Length = 112
Score = 38.9 bits (89), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 35/63 (55%)
Query: 1243 PFIKLPSRKELPDYYEVIDRPMDIKKILGRIEDGKYSSVDELQKDFKTLCRNAQIYNEEL 1302
PF+ + K +P Y +VI +PMD I ++ G+Y +++ D + + N + +NE+
Sbjct: 30 PFLLPVNLKLVPGYKKVIKKPMDFSTIREKLSSGQYPNLETFALDVRLVFDNCETFNEDD 89
Query: 1303 SLI 1305
S I
Sbjct: 90 SDI 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 = 38.9 bits (89), Expect = 0.018, Method: Composition-based stats.
Identities = 19/63 (30%), Positives = 35/63 (55%)
Query: 1243 PFIKLPSRKELPDYYEVIDRPMDIKKILGRIEDGKYSSVDELQKDFKTLCRNAQIYNEEL 1302
PF+ + K +P Y +VI +PMD I ++ G+Y +++ D + + N + +NE+
Sbjct: 33 PFLLPVNLKLVPGYKKVIKKPMDFSTIREKLSSGQYPNLETFALDVRLVFDNCETFNEDD 92
Query: 1303 SLI 1305
S I
Sbjct: 93 SDI 95
>pdb|3FKM|X Chain X, Plasmodium Falciparum Bromodomain-Containing Protein
Pf10_0328
Length = 166
Score = 38.9 bits (89), Expect = 0.020, Method: Composition-based stats.
Identities = 19/67 (28%), Positives = 34/67 (50%)
Query: 1250 RKELPDYYEVIDRPMDIKKILGRIEDGKYSSVDELQKDFKTLCRNAQIYNEELSLIHEDS 1309
++ PDYY+VI P I +++ G+Y+ E KD + + N +YN S++
Sbjct: 50 KQNCPDYYDVIKNPXSFSCIKTKLKKGQYAYPSEFVKDVQLIFDNCSLYNTSNSVVAITG 109
Query: 1310 VVLESVF 1316
+E+ F
Sbjct: 110 KNIETYF 116
>pdb|3DMQ|A Chain A, Crystal Structure Of Rapa, A Swi2SNF2 PROTEIN THAT
Recycles Rna Polymerase During Transcription
pdb|3DMQ|B Chain B, Crystal Structure Of Rapa, A Swi2SNF2 PROTEIN THAT
Recycles Rna Polymerase During Transcription
Length = 968
Score = 38.5 bits (88), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 42/174 (24%), Positives = 72/174 (41%), Gaps = 15/174 (8%)
Query: 579 ILADEMGLGKTIQTIALITYLMEKKKVNGP---FLIIVPLSTLSNWSLEFERWAPSVNVV 635
+LADE+GLGKTI+ ++ ++ ++G LIIVP + W +E R ++
Sbjct: 174 LLADEVGLGKTIEA----GXILHQQLLSGAAERVLIIVPETLQHQWLVEXLRRF-NLRFA 228
Query: 636 AYKGSPHLRKTLQAQMKASKFNVLLTTYEYVIKDKGPLAKL---HWKYMIIDEGHRM--- 689
+ + A +++ + ++ + K L L W +++DE H +
Sbjct: 229 LFDDERYAEAQHDAYNPFDTEQLVICSLDFARRSKQRLEHLCEAEWDLLVVDEAHHLVWS 288
Query: 690 -KNHHCKLTHILNTFYVAPHRLLLTGTPLQNKLPELWALLNFLLPSIFKSVSTF 742
+ I P LLLT TP Q +A L L P+ F + F
Sbjct: 289 EDAPSREYQAIEQLAEHVPGVLLLTATPEQLGXESHFARLRLLDPNRFHDFAQF 342
Score = 30.0 bits (66), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 25/49 (51%)
Query: 955 VLSTRAGGLGLNLQTADTVIIFDSDWNPHQDLQAQDRAHRIGQKNEVRV 1003
+L + G G N Q A + FD +NP Q R RIGQ +++++
Sbjct: 560 LLCSEIGSEGRNFQFASHXVXFDLPFNPDLLEQRIGRLDRIGQAHDIQI 608
>pdb|2JGN|A Chain A, Ddx3 Helicase Domain
pdb|2JGN|B Chain B, Ddx3 Helicase Domain
pdb|2JGN|C Chain C, Ddx3 Helicase Domain
Length = 185
Score = 38.1 bits (87), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 33/123 (26%), Positives = 53/123 (43%), Gaps = 15/123 (12%)
Query: 890 ILPKLKSTGHR--VLLFCQMTQLMNILEDYFSYRGFKYMRLDGTTKAEDRGDLLKKFNAP 947
+L L +TG L+F + + + LED+ + G+ + G DR + L +F +
Sbjct: 36 LLDLLNATGKDSLTLVFVETKKGADSLEDFLYHEGYACTSIHGDRSQRDREEALHQFRSG 95
Query: 948 DSEYFIFVLSTRAGGLGLNLQTADTVIIFD--SDWNPHQDLQAQDRAHRIGQKNEVRVLR 1005
S + +T GL++ VI FD SD ++ HRIG+ V L
Sbjct: 96 KSPILV---ATAVAARGLDISNVKHVINFDLPSD--------IEEYVHRIGRTGRVGNLG 144
Query: 1006 LMT 1008
L T
Sbjct: 145 LAT 147
>pdb|2I4I|A Chain A, Crystal Structure Of Human Dead-Box Rna Helicase Ddx3x
Length = 417
Score = 37.4 bits (85), Expect = 0.054, Method: Compositional matrix adjust.
Identities = 31/121 (25%), Positives = 52/121 (42%), Gaps = 11/121 (9%)
Query: 890 ILPKLKSTGHR--VLLFCQMTQLMNILEDYFSYRGFKYMRLDGTTKAEDRGDLLKKFNAP 947
+L L +TG L+F + + + LED+ + G+ + G DR + L +F +
Sbjct: 266 LLDLLNATGKDSLTLVFVETKKGADSLEDFLYHEGYACTSIHGDRSQRDREEALHQFRSG 325
Query: 948 DSEYFIFVLSTRAGGLGLNLQTADTVIIFDSDWNPHQDLQAQDRAHRIGQKNEVRVLRLM 1007
S + +T GL++ VI FD + ++ HRIG+ V L L
Sbjct: 326 KSPILV---ATAVAARGLDISNVKHVINFDLPSD------IEEYVHRIGRTGRVGNLGLA 376
Query: 1008 T 1008
T
Sbjct: 377 T 377
>pdb|3HMH|A Chain A, Crystal Structure Of The Second Bromodomain Of Human
Tbp-Associated Factor Rna Polymerase 1-Like (Taf1l)
Length = 155
Score = 37.4 bits (85), Expect = 0.056, Method: Compositional matrix adjust.
Identities = 25/83 (30%), Positives = 38/83 (45%), Gaps = 11/83 (13%)
Query: 1241 SEPFIKLPSRKELPDYYEVIDRPMDIKKILGRIEDGKYSSVDELQKDFKTLCRNAQIYNE 1300
S PF ++K +PDYY++I P+D++ I I KY S + D + N+ YN
Sbjct: 45 SWPFHHPVNKKFVPDYYKMIVNPVDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNG 104
Query: 1301 ELSLIHEDSVVLESVFTKARQRV 1323
ES +TK Q +
Sbjct: 105 P-----------ESQYTKTAQEI 116
>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 = 36.2 bits (82), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 17/61 (27%), Positives = 33/61 (54%), Gaps = 3/61 (4%)
Query: 1248 PSRKELPDYYEVIDRPMD---IKKILGRIEDGKYSSVDELQKDFKTLCRNAQIYNEELSL 1304
P +P+YY++I +PMD +KK L + Y D+ D + + +N + +NE + +
Sbjct: 105 PVPASIPNYYKIIKKPMDLSTVKKKLQKKHSQHYQIPDDFVADVRLIFKNCERFNEMMKV 164
Query: 1305 I 1305
+
Sbjct: 165 V 165
>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 = 35.8 bits (81), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 26/47 (55%)
Query: 1253 LPDYYEVIDRPMDIKKILGRIEDGKYSSVDELQKDFKTLCRNAQIYN 1299
L +YY+V+ PMD+ I G++++ +Y E D + + N YN
Sbjct: 49 LHNYYDVVKNPMDLGTIKGKMDNQEYKDAYEFAADVRLMFMNCYKYN 95
>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 = 34.3 bits (77), Expect = 0.53, Method: Composition-based stats.
Identities = 14/47 (29%), Positives = 24/47 (51%)
Query: 1253 LPDYYEVIDRPMDIKKILGRIEDGKYSSVDELQKDFKTLCRNAQIYN 1299
L DY+++I PMD+ + ++E+ Y E D + + N YN
Sbjct: 40 LHDYHDIIKHPMDLSTVKRKMENRDYRDAQEFAADVRLMFSNCYKYN 86
>pdb|3ONI|A Chain A, Crystal Structure Of The Second Bromodomain Of Human Brd2 In
Complex With The Inhibitor Jq1
Length = 114
Score = 33.9 bits (76), Expect = 0.57, Method: Composition-based stats.
Identities = 14/47 (29%), Positives = 24/47 (51%)
Query: 1253 LPDYYEVIDRPMDIKKILGRIEDGKYSSVDELQKDFKTLCRNAQIYN 1299
L DY+++I PMD+ + ++E+ Y E D + + N YN
Sbjct: 42 LHDYHDIIKHPMDLSTVKRKMENRDYRDAQEFAADVRLMFSNCYKYN 88
>pdb|2CKA|A Chain A, Solution Structures Of The Brk Domains Of The Human Chromo
Helicase Domain 7 And 8, Reveals Structural Similarity
With Gyf Domain Suggesting A Role In Protein Interaction
Length = 95
Score = 33.9 bits (76), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 16/35 (45%), Positives = 20/35 (57%)
Query: 453 ISVREISSGKVLKGEDAPLAAHLKQWIQDHPGWEV 487
I V G +L GEDAP A L+ W+Q HP + V
Sbjct: 46 IPVINKVDGTLLVGEDAPRRAELEMWLQGHPEFAV 80
>pdb|2I8N|A Chain A, Solution Structure Of The Second Bromodomain Of Brd4
Length = 114
Score = 33.9 bits (76), Expect = 0.63, Method: Composition-based stats.
Identities = 21/73 (28%), Positives = 33/73 (45%), Gaps = 4/73 (5%)
Query: 1253 LPDYYEVIDRPMDIKKILGRIEDGKYSSVDELQKDFKTLCRNAQIYN----EELSLIHED 1308
L DY ++I PMD+ I ++E +Y E D + + N YN E +++ +
Sbjct: 36 LHDYCDIIKHPMDMSTIKSKLEAREYRDAQEFGADVRLMFSNCYKYNPPDHEVVAMARKL 95
Query: 1309 SVVLESVFTKARQ 1321
V E F K Q
Sbjct: 96 QDVFEMRFAKMLQ 108
>pdb|2G4A|A Chain A, Solution Structure Of A Bromodomain From Ring3 Protein
Length = 116
Score = 33.9 bits (76), Expect = 0.69, Method: Composition-based stats.
Identities = 14/47 (29%), Positives = 24/47 (51%)
Query: 1253 LPDYYEVIDRPMDIKKILGRIEDGKYSSVDELQKDFKTLCRNAQIYN 1299
L DY+++I PMD+ + ++E+ Y E D + + N YN
Sbjct: 36 LHDYHDIIKHPMDLSTVKRKMENRDYRDAQEFAADVRLMFSNCYKYN 82
>pdb|3IU6|A Chain A, Crystal Structure Of The Sixth Bromodomain Of Human
Poly-Bromodomain Containing Protein 1 (Pb1)
Length = 147
Score = 33.9 bits (76), Expect = 0.71, Method: Compositional matrix adjust.
Identities = 26/100 (26%), Positives = 49/100 (49%), Gaps = 5/100 (5%)
Query: 1229 VIKYTDSDGRVLSEPFIKLPSRKELPDYYEVIDRPMDIKKILGRIEDGKYSSVDELQKDF 1288
V+ + D +GR S+ ++P+ P++ P+ I +E+ +Y +D Q+
Sbjct: 19 VMSHQDDEGRXYSDSLAEIPAVD--PNFPN--KPPLTFDIIRKNVENNRYRRLDLFQEHM 74
Query: 1289 KTLCRNAQIYNEELSLIHEDSVVLESVFTKARQRV-ESGE 1327
+ A+ N S I+ED+V L+ F K R + ++GE
Sbjct: 75 FEVLERARRMNRTDSEIYEDAVELQQFFIKIRDELCKNGE 114
>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 = 33.5 bits (75), Expect = 0.80, Method: Composition-based stats.
Identities = 20/70 (28%), Positives = 32/70 (45%), Gaps = 4/70 (5%)
Query: 1253 LPDYYEVIDRPMDIKKILGRIEDGKYSSVDELQKDFKTLCRNAQIYN----EELSLIHED 1308
L DY ++I PMD+ I ++E +Y E D + + N YN E +++ +
Sbjct: 44 LHDYCDIIKHPMDMSTIKSKLESREYRDAQEFGADVRLMFSNCYKYNPPDHEVVAMARKL 103
Query: 1309 SVVLESVFTK 1318
V E F K
Sbjct: 104 QDVFEMRFAK 113
>pdb|2LSP|B Chain B, Solution Structures Of Brd4 Second Bromodomain With
Nf-Kb-K310ac Peptide
Length = 128
Score = 32.7 bits (73), Expect = 1.5, Method: Composition-based stats.
Identities = 15/47 (31%), Positives = 23/47 (48%)
Query: 1253 LPDYYEVIDRPMDIKKILGRIEDGKYSSVDELQKDFKTLCRNAQIYN 1299
L DY ++I PMD+ I ++E +Y E D + + N YN
Sbjct: 55 LHDYCDIIKHPMDMSTIKSKLEAREYRDAQEFGADVRLMFSNCYKYN 101
>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 = 32.7 bits (73), Expect = 1.6, Method: Composition-based stats.
Identities = 15/47 (31%), Positives = 23/47 (48%)
Query: 1253 LPDYYEVIDRPMDIKKILGRIEDGKYSSVDELQKDFKTLCRNAQIYN 1299
L DY ++I PMD+ I ++E +Y E D + + N YN
Sbjct: 57 LHDYCDIIKHPMDMSTIKSKLEAREYRDAQEFGADVRLMFSNCYKYN 103
>pdb|2DL6|A Chain A, Solution Structure Of The First Brk Domain From Human
Chromodomain-Helicase-Dna-Binding Protein 8
Length = 83
Score = 32.3 bits (72), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 13/23 (56%), Positives = 16/23 (69%)
Query: 461 GKVLKGEDAPLAAHLKQWIQDHP 483
G +L GEDAP A L+ W+Q HP
Sbjct: 28 GTLLVGEDAPRRAELEMWLQGHP 50
>pdb|2CKC|A Chain A, Solution Structures Of The Brk Domains Of The Human Chromo
Helicase Domain 7 And 8, Reveals Structural Similarity
With Gyf Domain Suggesting A Role In Protein Interaction
Length = 80
Score = 32.0 bits (71), Expect = 2.4, Method: Composition-based stats.
Identities = 15/38 (39%), Positives = 20/38 (52%)
Query: 450 DMHISVREISSGKVLKGEDAPLAAHLKQWIQDHPGWEV 487
D I V + G L GEDAP L +W++ HP + V
Sbjct: 24 DTRIPVINLEDGTRLVGEDAPKNKDLVEWLKLHPTYTV 61
>pdb|2V0E|A Chain A, Brk Domain From Human Chd7
Length = 55
Score = 31.6 bits (70), Expect = 3.1, Method: Composition-based stats.
Identities = 15/38 (39%), Positives = 20/38 (52%)
Query: 450 DMHISVREISSGKVLKGEDAPLAAHLKQWIQDHPGWEV 487
D I V + G L GEDAP L +W++ HP + V
Sbjct: 7 DTRIPVINLEDGTRLVGEDAPKNKDLVEWLKLHPTYTV 44
>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 = 31.2 bits (69), Expect = 3.7, Method: Composition-based stats.
Identities = 13/48 (27%), Positives = 24/48 (50%)
Query: 1252 ELPDYYEVIDRPMDIKKILGRIEDGKYSSVDELQKDFKTLCRNAQIYN 1299
EL DY+++I PMD+ + +++ +Y D + + N YN
Sbjct: 41 ELHDYHDIIKHPMDLSTVKRKMDGREYPDAQGFAADVRLMFSNCYKYN 88
>pdb|2E7N|A Chain A, Solution Structure Of The Second Bromodomain From Human
Bromodomain-Containing Protein 3
Length = 117
Score = 31.2 bits (69), Expect = 4.0, Method: Composition-based stats.
Identities = 13/48 (27%), Positives = 24/48 (50%)
Query: 1252 ELPDYYEVIDRPMDIKKILGRIEDGKYSSVDELQKDFKTLCRNAQIYN 1299
EL DY+++I PMD+ + +++ +Y D + + N YN
Sbjct: 46 ELHDYHDIIKHPMDLSTVKRKMDGREYPDAQGFAADVRLMFSNCYKYN 93
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
0.317 0.133 0.379
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 31,748,978
Number of Sequences: 62578
Number of extensions: 1200209
Number of successful extensions: 3571
Number of sequences better than 100.0: 105
Number of HSP's better than 100.0 without gapping: 86
Number of HSP's successfully gapped in prelim test: 19
Number of HSP's that attempted gapping in prelim test: 3431
Number of HSP's gapped (non-prelim): 126
length of query: 1331
length of database: 14,973,337
effective HSP length: 110
effective length of query: 1221
effective length of database: 8,089,757
effective search space: 9877593297
effective search space used: 9877593297
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 57 (26.6 bits)