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= psy11166
(1746 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2OZB|B Chain B, Structure Of A Human Prp31-15.5k-U4 Snrna Complex
pdb|2OZB|E Chain E, Structure Of A Human Prp31-15.5k-U4 Snrna Complex
Length = 260
Score = 309 bits (792), Expect = 7e-84, Method: Compositional matrix adjust.
Identities = 155/282 (54%), Positives = 197/282 (69%), Gaps = 28/282 (9%)
Query: 1215 IVGPVESDPEYQLIVEANNLAVEIDTEIGLIHRFAVEKYNKRFPELDTLVVSPLEYLRTV 1274
++GPVE+ PEY++IV+ANNL VEI+ E+ +IH+F +KY+KRFPEL++LV + L+Y+RTV
Sbjct: 7 VMGPVEAAPEYRVIVDANNLTVEIENELNIIHKFIRDKYSKRFPELESLVPNALDYIRTV 66
Query: 1275 RELGNDLDQTKNNETLQQVLTQATIMVVSVTASTTQGQXXXXXXXXXVYQACDMAFELNQ 1334
+ELGN LD+ KNNE LQQ+LT ATIMVVSVTASTTQGQ + +ACDMA ELN
Sbjct: 67 KELGNSLDKCKNNENLQQILTNATIMVVSVTASTTQGQQLSEEELERLEEACDMALELNA 126
Query: 1335 FKTSIFEYVESRMTYIAPNLSAIVGASTAAKMMGVAGGLSRLSKMPGVAGGLSRLSKMPA 1394
K I+EYVESRM++IAPNLS I+GASTAAK+MGVAG GL+ LSKMPA
Sbjct: 127 SKHRIYEYVESRMSFIAPNLSIIIGASTAAKIMGVAG-------------GLTNLSKMPA 173
Query: 1395 CNILLQGAQKKLLSGFSQTSVLPHTGFVYYSSLVQDYPADMRRKAARLVQDYPADMXXXX 1454
CNI+L GAQ+K LSGFS TSVLPHTG++Y+S +VQ P D+RRKAARLV
Sbjct: 174 CNIMLLGAQRKTLSGFSSTSVLPHTGYIYHSDIVQSLPPDLRRKAARLV----------- 222
Query: 1455 XXXXXXXXXXXXXXXXXHDSVDGAIGRSFREDIEKKLDKLTE 1496
H+S +G +G +++IE+K DK E
Sbjct: 223 ----AAKCTLAARVDSFHESTEGKVGYELKDEIERKFDKWQE 260
>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 = 304 bits (778), Expect = 3e-82, Method: Compositional matrix adjust.
Identities = 160/294 (54%), Positives = 193/294 (65%), Gaps = 5/294 (1%)
Query: 452 LLLKVPKEALHAKKKRKANNPDNQLDYLKRHQKPANRRRTDPVVVLTSILEKILNEMRDM 511
++LK PK+ L KKKR+ DYL R K +RRRTDP+V L+SILE I+N+MRD+
Sbjct: 4 MVLKFPKQQLPPKKKRRVGT-TVHCDYLNRPHKSIHRRRTDPMVTLSSILESIINDMRDL 62
Query: 512 SQTEPNVKQFSFPVNAKLVPDYYKIVTRPMDLQTIRENLRSKKYQSREEFLADVNQIVEN 571
PN F PVNAK+V DYYKI+TRPMDLQT+REN+R + Y SREEF + IV+N
Sbjct: 63 ----PNTYPFHTPVNAKVVKDYYKIITRPMDLQTLRENVRKRLYPSREEFREHLELIVKN 118
Query: 572 STLYNGAKSILTDAARRMLTLCVELLGKKEELLMRLEKAINPLLDDNDQVALSFIFDDIV 631
S YNG K LT ++ ML LC E L +KE+ L RLEKAINPLLDD+DQVA SFI D+IV
Sbjct: 119 SATYNGPKHSLTQISQSMLDLCDEKLKEKEDKLARLEKAINPLLDDDDQVAFSFILDNIV 178
Query: 632 NNKLKNMADAWIFIKPVNKKFFKDYYSVVQKPMDLETIGKKAQSHKYHSRYEFLADIELI 691
K+ + D+W F PVNKKF DYY V+ PMDLETI K HKY SR FL D+ LI
Sbjct: 179 TQKMMAVPDSWPFHHPVNKKFVPDYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLI 238
Query: 692 LSNSVLYNGPGSQVTXXXXXXXXXXXXXXXXYDDHLTQLEKTISQVRARAMEQA 745
L+NSV YNGP SQ T YD+HLTQLEK I + A+E+A
Sbjct: 239 LANSVKYNGPESQYTKTAQEIVNVCYQTLTEYDEHLTQLEKDICTAKEAALEEA 292
Score = 59.7 bits (143), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 28/42 (66%), Positives = 30/42 (71%)
Query: 1070 PMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNGPGSQ 1111
PMDLETI K HKY SR FL D+ LIL+NSV YNGP SQ
Sbjct: 210 PMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPESQ 251
Score = 45.8 bits (107), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 26/76 (34%), Positives = 40/76 (52%), Gaps = 3/76 (3%)
Query: 1036 SLADELLADMRLLQCCSETHGSRNHR---EESTVSQKPMDLETIGKKAQSHKYHSRYEFL 1092
S+ + ++ DMR L H N + + + +PMDL+T+ + + Y SR EF
Sbjct: 50 SILESIINDMRDLPNTYPFHTPVNAKVVKDYYKIITRPMDLQTLRENVRKRLYPSREEFR 109
Query: 1093 ADIELILSNSVLYNGP 1108
+ELI+ NS YNGP
Sbjct: 110 EHLELIVKNSATYNGP 125
>pdb|3SIU|B Chain B, Structure Of A Hprp31-15.5k-U4atac 5' Stem Loop Complex,
Monomeric Form
pdb|3SIU|E Chain E, Structure Of A Hprp31-15.5k-U4atac 5' Stem Loop Complex,
Monomeric Form
pdb|3SIV|B Chain B, Structure Of A Hprp31-15.5k-U4atac 5' Stem Loop Complex,
Dimeric Form
pdb|3SIV|E Chain E, Structure Of A Hprp31-15.5k-U4atac 5' Stem Loop Complex,
Dimeric Form
pdb|3SIV|H Chain H, Structure Of A Hprp31-15.5k-U4atac 5' Stem Loop Complex,
Dimeric Form
pdb|3SIV|K Chain K, Structure Of A Hprp31-15.5k-U4atac 5' Stem Loop Complex,
Dimeric Form
Length = 254
Score = 302 bits (773), Expect = 1e-81, Method: Compositional matrix adjust.
Identities = 154/282 (54%), Positives = 195/282 (69%), Gaps = 30/282 (10%)
Query: 1217 GPV--ESDPEYQLIVEANNLAVEIDTEIGLIHRFAVEKYNKRFPELDTLVVSPLEYLRTV 1274
GP+ E+ PEY++IV+ANNL VEI+ E+ +IH+F +KY+KRFPEL++LV + L+Y+RTV
Sbjct: 1 GPLGSEAAPEYRVIVDANNLTVEIENELNIIHKFIRDKYSKRFPELESLVPNALDYIRTV 60
Query: 1275 RELGNDLDQTKNNETLQQVLTQATIMVVSVTASTTQGQXXXXXXXXXVYQACDMAFELNQ 1334
+ELGN LD+ KNNE LQQ+LT ATIMVVSVTASTTQGQ + +ACDMA ELN
Sbjct: 61 KELGNSLDKCKNNENLQQILTNATIMVVSVTASTTQGQQLSEEELERLEEACDMALELNA 120
Query: 1335 FKTSIFEYVESRMTYIAPNLSAIVGASTAAKMMGVAGGLSRLSKMPGVAGGLSRLSKMPA 1394
K I+EYVESRM++IAPNLS I+GASTAAK+MGVAG GL+ LSKMPA
Sbjct: 121 SKHRIYEYVESRMSFIAPNLSIIIGASTAAKIMGVAG-------------GLTNLSKMPA 167
Query: 1395 CNILLQGAQKKLLSGFSQTSVLPHTGFVYYSSLVQDYPADMRRKAARLVQDYPADMXXXX 1454
CNI+L GAQ+K LSGFS TSVLPHTG++Y+S +VQ P D+RRKAARLV
Sbjct: 168 CNIMLLGAQRKTLSGFSSTSVLPHTGYIYHSDIVQSLPPDLRRKAARLV----------- 216
Query: 1455 XXXXXXXXXXXXXXXXXHDSVDGAIGRSFREDIEKKLDKLTE 1496
H+S +G +G +++IE+K DK E
Sbjct: 217 ----AAKCTLAARVDSFHESTEGKVGYELKDEIERKFDKWQE 254
>pdb|1EQF|A Chain A, Crystal Structure Of The Double Bromodomain Module From
Human Tafii250
Length = 280
Score = 287 bits (735), Expect = 3e-77, Method: Compositional matrix adjust.
Identities = 148/264 (56%), Positives = 175/264 (66%), Gaps = 4/264 (1%)
Query: 475 QLDYLKRHQKPANRRRTDPVVVLTSILEKILNEMRDMSQTEPNVKQFSFPVNAKLVPDYY 534
DYL R K +RRRTDP+V L+SILE I+N+MRD+ PN F PVNAK+V DYY
Sbjct: 5 HCDYLNRPHKSIHRRRTDPMVTLSSILESIINDMRDL----PNTYPFHTPVNAKVVKDYY 60
Query: 535 KIVTRPMDLQTIRENLRSKKYQSREEFLADVNQIVENSTLYNGAKSILTDAARRMLTLCV 594
KI+TRPMDLQT+REN+R + Y SREEF + IV+NS YNG K LT ++ ML LC
Sbjct: 61 KIITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSATYNGPKHSLTQISQSMLDLCD 120
Query: 595 ELLGKKEELLMRLEKAINPLLDDNDQVALSFIFDDIVNNKLKNMADAWIFIKPVNKKFFK 654
E L +KE+ L RLEKAINPLLDD+DQVA SFI D+IV K+ + D+W F PVNKKF
Sbjct: 121 EKLKEKEDKLARLEKAINPLLDDDDQVAFSFILDNIVTQKMMAVPDSWPFHHPVNKKFVP 180
Query: 655 DYYSVVQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNGPGSQVTXXXXXXXX 714
DYY V+ PMDLETI K HKY SR FL D+ LIL+NSV YNGP SQ T
Sbjct: 181 DYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPESQYTKTAQEIVN 240
Query: 715 XXXXXXXXYDDHLTQLEKTISQVR 738
YD+HLTQLEK I +
Sbjct: 241 VCYQTLTEYDEHLTQLEKDICTAK 264
Score = 59.7 bits (143), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 28/42 (66%), Positives = 30/42 (71%)
Query: 1070 PMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNGPGSQ 1111
PMDLETI K HKY SR FL D+ LIL+NSV YNGP SQ
Sbjct: 189 PMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPESQ 230
Score = 45.4 bits (106), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 26/76 (34%), Positives = 40/76 (52%), Gaps = 3/76 (3%)
Query: 1036 SLADELLADMRLLQCCSETHGSRNHR---EESTVSQKPMDLETIGKKAQSHKYHSRYEFL 1092
S+ + ++ DMR L H N + + + +PMDL+T+ + + Y SR EF
Sbjct: 29 SILESIINDMRDLPNTYPFHTPVNAKVVKDYYKIITRPMDLQTLRENVRKRLYPSREEFR 88
Query: 1093 ADIELILSNSVLYNGP 1108
+ELI+ NS YNGP
Sbjct: 89 EHLELIVKNSATYNGP 104
>pdb|3UV5|A Chain A, Crystal Structure Of The Tandem Bromodomains Of Human
Transcription Initiation Factor Tfiid Subunit 1 (Taf1)
Length = 265
Score = 278 bits (712), Expect = 1e-74, Method: Compositional matrix adjust.
Identities = 143/252 (56%), Positives = 170/252 (67%), Gaps = 4/252 (1%)
Query: 487 NRRRTDPVVVLTSILEKILNEMRDMSQTEPNVKQFSFPVNAKLVPDYYKIVTRPMDLQTI 546
+RRRTDP+V L+SILE I+N+MRD+ PN F PVNAK+V DYYKI+TRPMDLQT+
Sbjct: 5 HRRRTDPMVTLSSILESIINDMRDL----PNTYPFHTPVNAKVVKDYYKIITRPMDLQTL 60
Query: 547 RENLRSKKYQSREEFLADVNQIVENSTLYNGAKSILTDAARRMLTLCVELLGKKEELLMR 606
REN+R + Y SREEF + IV+NS YNG K LT ++ ML LC E L +KE+ L R
Sbjct: 61 RENVRKRLYPSREEFREHLELIVKNSATYNGPKHSLTQISQSMLDLCDEKLKEKEDKLAR 120
Query: 607 LEKAINPLLDDNDQVALSFIFDDIVNNKLKNMADAWIFIKPVNKKFFKDYYSVVQKPMDL 666
LEKAINPLLDD+DQVA SFI D+IV K+ + D+W F PVNKKF DYY V+ PMDL
Sbjct: 121 LEKAINPLLDDDDQVAFSFILDNIVTQKMMAVPDSWPFHHPVNKKFVPDYYKVIVNPMDL 180
Query: 667 ETIGKKAQSHKYHSRYEFLADIELILSNSVLYNGPGSQVTXXXXXXXXXXXXXXXXYDDH 726
ETI K HKY SR FL D+ LIL+NSV YNGP SQ T YD+H
Sbjct: 181 ETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPESQYTKTAQEIVNVCYQTLTEYDEH 240
Query: 727 LTQLEKTISQVR 738
LTQLEK I +
Sbjct: 241 LTQLEKDICTAK 252
Score = 60.1 bits (144), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 28/42 (66%), Positives = 30/42 (71%)
Query: 1070 PMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNGPGSQ 1111
PMDLETI K HKY SR FL D+ LIL+NSV YNGP SQ
Sbjct: 177 PMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPESQ 218
Score = 45.8 bits (107), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 26/76 (34%), Positives = 40/76 (52%), Gaps = 3/76 (3%)
Query: 1036 SLADELLADMRLLQCCSETHGSRNHR---EESTVSQKPMDLETIGKKAQSHKYHSRYEFL 1092
S+ + ++ DMR L H N + + + +PMDL+T+ + + Y SR EF
Sbjct: 17 SILESIINDMRDLPNTYPFHTPVNAKVVKDYYKIITRPMDLQTLRENVRKRLYPSREEFR 76
Query: 1093 ADIELILSNSVLYNGP 1108
+ELI+ NS YNGP
Sbjct: 77 EHLELIVKNSATYNGP 92
>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 = 127 bits (318), Expect = 7e-29, Method: Compositional matrix adjust.
Identities = 64/122 (52%), Positives = 74/122 (60%)
Query: 617 DNDQVALSFIFDDIVNNKLKNMADAWIFIKPVNKKFFKDYYSVVQKPMDLETIGKKAQSH 676
D+DQVA SFI D+IV K+ + D+W F PVNKKF DYY V+ PMDLETI K H
Sbjct: 24 DDDQVAFSFILDNIVTQKMMAVPDSWPFHHPVNKKFVPDYYKVIVNPMDLETIRKNISKH 83
Query: 677 KYHSRYEFLADIELILSNSVLYNGPGSQVTXXXXXXXXXXXXXXXXYDDHLTQLEKTISQ 736
KY SR FL D+ LIL+NSV YNGP SQ T YD+HLTQLEK I
Sbjct: 84 KYQSRESFLDDVNLILANSVKYNGPESQYTKTAQEIVNVCYQTLTEYDEHLTQLEKDICT 143
Query: 737 VR 738
+
Sbjct: 144 AK 145
Score = 102 bits (254), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 53/120 (44%), Positives = 73/120 (60%), Gaps = 3/120 (2%)
Query: 492 DPVVVLTSILEKILNEMRDMSQTEPNVKQFSFPVNAKLVPDYYKIVTRPMDLQTIRENLR 551
D V + IL+ I+ + P+ F PVN K VPDYYK++ PMDL+TIR+N+
Sbjct: 25 DDQVAFSFILDNIVTQKM---MAVPDSWPFHHPVNKKFVPDYYKVIVNPMDLETIRKNIS 81
Query: 552 SKKYQSREEFLADVNQIVENSTLYNGAKSILTDAARRMLTLCVELLGKKEELLMRLEKAI 611
KYQSRE FL DVN I+ NS YNG +S T A+ ++ +C + L + +E L +LEK I
Sbjct: 82 KHKYQSRESFLDDVNLILANSVKYNGPESQYTKTAQEIVNVCYQTLTEYDEHLTQLEKDI 141
Score = 59.3 bits (142), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 28/42 (66%), Positives = 30/42 (71%)
Query: 1070 PMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNGPGSQ 1111
PMDLETI K HKY SR FL D+ LIL+NSV YNGP SQ
Sbjct: 70 PMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPESQ 111
>pdb|3HMH|A Chain A, Crystal Structure Of The Second Bromodomain Of Human
Tbp-Associated Factor Rna Polymerase 1-Like (Taf1l)
Length = 155
Score = 119 bits (298), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 60/119 (50%), Positives = 71/119 (59%)
Query: 620 QVALSFIFDDIVNNKLKNMADAWIFIKPVNKKFFKDYYSVVQKPMDLETIGKKAQSHKYH 679
QVA SFI D+IV K+ + D+W F PVNKKF DYY ++ P+DLETI K HKY
Sbjct: 24 QVAFSFILDNIVTQKMMAVPDSWPFHHPVNKKFVPDYYKMIVNPVDLETIRKNISKHKYQ 83
Query: 680 SRYEFLADIELILSNSVLYNGPGSQVTXXXXXXXXXXXXXXXXYDDHLTQLEKTISQVR 738
SR FL D+ LIL+NSV YNGP SQ T YD+HLTQLEK I +
Sbjct: 84 SRESFLDDVNLILANSVKYNGPESQYTKTAQEIVNICYQTITEYDEHLTQLEKDICTAK 142
Score = 98.6 bits (244), Expect = 3e-20, Method: Compositional matrix adjust.
Identities = 50/117 (42%), Positives = 72/117 (61%), Gaps = 3/117 (2%)
Query: 495 VVLTSILEKILNEMRDMSQTEPNVKQFSFPVNAKLVPDYYKIVTRPMDLQTIRENLRSKK 554
V + IL+ I+ + P+ F PVN K VPDYYK++ P+DL+TIR+N+ K
Sbjct: 25 VAFSFILDNIVTQKM---MAVPDSWPFHHPVNKKFVPDYYKMIVNPVDLETIRKNISKHK 81
Query: 555 YQSREEFLADVNQIVENSTLYNGAKSILTDAARRMLTLCVELLGKKEELLMRLEKAI 611
YQSRE FL DVN I+ NS YNG +S T A+ ++ +C + + + +E L +LEK I
Sbjct: 82 YQSRESFLDDVNLILANSVKYNGPESQYTKTAQEIVNICYQTITEYDEHLTQLEKDI 138
Score = 57.4 bits (137), Expect = 7e-08, Method: Compositional matrix adjust.
Identities = 30/58 (51%), Positives = 36/58 (62%), Gaps = 6/58 (10%)
Query: 1070 PMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNGPGSQV------LINIWWHFI 1121
P+DLETI K HKY SR FL D+ LIL+NSV YNGP SQ ++NI + I
Sbjct: 67 PVDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPESQYTKTAQEIVNICYQTI 124
>pdb|2NNW|A Chain A, Alternative Conformations Of Nop56/58-fibrillarin Complex
And Implication For Induced-fit Assenly Of Box C/d Rnps
pdb|2NNW|C Chain C, Alternative Conformations Of Nop56/58-fibrillarin Complex
And Implication For Induced-fit Assenly Of Box C/d Rnps
Length = 376
Score = 76.6 bits (187), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 58/217 (26%), Positives = 98/217 (45%), Gaps = 16/217 (7%)
Query: 1226 QLIVEANNLAVEIDTEIGLIHRFAVEKYNKRFPELDTLVVSPLEYLRTVRELGNDLDQTK 1285
+++++A ++D I L+ E Y+ FPELD L+ +Y+ V+ +G+
Sbjct: 139 KMVIQAIEALDDVDKVINLLVARLREWYSLHFPELDELLPKHPQYVAFVKTVGHR--DNI 196
Query: 1286 NNETLQQV-LTQATIMVVSVTASTTQGQXXXXXXXXXVYQACDMAFELNQFKTSIFEYVE 1344
N E L+++ L++ I + T G V Q + L Q + + +Y++
Sbjct: 197 NEEVLRELGLSEEKIKKILEAKEKTMGAWMDQTDIEVVRQLAEEIDRLYQLRKKLEDYID 256
Query: 1345 SRMTYIAPNLSAIVGASTAAKMMGVAGGLSRLSKMPGVAGGLSRLSKMPACNILLQGAQK 1404
M +APNL A+VGA AA+++ +AGGL L+ MP+ I + GA+K
Sbjct: 257 RAMDDVAPNLKALVGAKLAARLI-------------SLAGGLRELAMMPSSTIQVLGAEK 303
Query: 1405 KLLSGFSQTSVLPHTGFVYYSSLVQDYPADMRRKAAR 1441
L + P G +Y + P R K AR
Sbjct: 304 ALFRHLRTGAKPPKHGVIYQYPAINRSPWWQRGKIAR 340
>pdb|3NMU|A Chain A, Crystal Structure Of Substrate-Bound Halfmer Box CD RNP
pdb|3NMU|B Chain B, Crystal Structure Of Substrate-Bound Halfmer Box CD RNP
pdb|3NVI|A Chain A, Structure Of N-Terminal Truncated Nop5658 BOUND WITH L7AE
AND BOX CD Rna
pdb|3NVI|C Chain C, Structure Of N-Terminal Truncated Nop5658 BOUND WITH L7AE
AND BOX CD Rna
Length = 379
Score = 76.6 bits (187), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 58/217 (26%), Positives = 98/217 (45%), Gaps = 16/217 (7%)
Query: 1226 QLIVEANNLAVEIDTEIGLIHRFAVEKYNKRFPELDTLVVSPLEYLRTVRELGNDLDQTK 1285
+++++A ++D I L+ E Y+ FPELD L+ +Y+ V+ +G+
Sbjct: 139 KMVIQAIEALDDVDKVINLLVARLREWYSLHFPELDELLPKHPQYVAFVKTVGHR--DNI 196
Query: 1286 NNETLQQV-LTQATIMVVSVTASTTQGQXXXXXXXXXVYQACDMAFELNQFKTSIFEYVE 1344
N E L+++ L++ I + T G V Q + L Q + + +Y++
Sbjct: 197 NEEVLRELGLSEEKIKKILEAKEKTMGAWMDQTDIEVVRQLAEEIDRLYQLRKKLEDYID 256
Query: 1345 SRMTYIAPNLSAIVGASTAAKMMGVAGGLSRLSKMPGVAGGLSRLSKMPACNILLQGAQK 1404
M +APNL A+VGA AA+++ +AGGL L+ MP+ I + GA+K
Sbjct: 257 RAMDDVAPNLKALVGAKLAARLI-------------SLAGGLRELAMMPSSTIQVLGAEK 303
Query: 1405 KLLSGFSQTSVLPHTGFVYYSSLVQDYPADMRRKAAR 1441
L + P G +Y + P R K AR
Sbjct: 304 ALFRHLRTGAKPPKHGVIYQYPAINRSPWWQRGKIAR 340
>pdb|3NVK|A Chain A, Structural Basis For Substrate Placement By An Archaeal Box
CD Ribonucleoprotein Particle
pdb|3NVK|F Chain F, Structural Basis For Substrate Placement By An Archaeal Box
CD Ribonucleoprotein Particle
Length = 376
Score = 76.3 bits (186), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 58/217 (26%), Positives = 98/217 (45%), Gaps = 16/217 (7%)
Query: 1226 QLIVEANNLAVEIDTEIGLIHRFAVEKYNKRFPELDTLVVSPLEYLRTVRELGNDLDQTK 1285
+++++A ++D I L+ E Y+ FPELD L+ +Y+ V+ +G+
Sbjct: 139 KMVIQAIEALDDVDKVINLLVARLREWYSLHFPELDELLPKHPQYVAFVKTVGHR--DNI 196
Query: 1286 NNETLQQV-LTQATIMVVSVTASTTQGQXXXXXXXXXVYQACDMAFELNQFKTSIFEYVE 1344
N E L+++ L++ I + T G V Q + L Q + + +Y++
Sbjct: 197 NEEVLRELGLSEEKIKKILEAKEKTMGAWMDQTDIEVVRQLAEEIDRLYQLRKKLEDYID 256
Query: 1345 SRMTYIAPNLSAIVGASTAAKMMGVAGGLSRLSKMPGVAGGLSRLSKMPACNILLQGAQK 1404
M +APNL A+VGA AA+++ +AGGL L+ MP+ I + GA+K
Sbjct: 257 RAMDDVAPNLKALVGAKLAARLI-------------SLAGGLRELAMMPSSTIQVLGAEK 303
Query: 1405 KLLSGFSQTSVLPHTGFVYYSSLVQDYPADMRRKAAR 1441
L + P G +Y + P R K AR
Sbjct: 304 ALFRHLRTGAKPPKHGVIYQYPAINRSPWWQRGKIAR 340
>pdb|3NVM|A Chain A, Structural Basis For Substrate Placement By An Archaeal Box
CD Ribonucleoprotein Particle
Length = 371
Score = 70.5 bits (171), Expect = 9e-12, Method: Compositional matrix adjust.
Identities = 58/208 (27%), Positives = 92/208 (44%), Gaps = 20/208 (9%)
Query: 1235 AVEIDTEIGLIHRFAVEKYNKRFPELDTLVVSPLEYLRTVRELGNDLDQTKNNETLQQV- 1293
A+E +I L+ E Y+ FPELD L+ +Y+ V+ +G+ N E L+++
Sbjct: 144 AIEALDDINLLVARLREWYSLHFPELDELLPKHPQYVAFVKTVGHR--DNINEEVLRELG 201
Query: 1294 LTQATIMVVSVTASTTQGQXXXXXXXXXVYQACDMAFELNQFKTSIFEYVESRMTYIAPN 1353
L++ I + T G V Q E Q + + +Y++ M +APN
Sbjct: 202 LSEEKIKKILEAKEKTMGAWMDQTDIEVVRQLA----EEIQLRKKLEDYIDRAMDDVAPN 257
Query: 1354 LSAIVGASTAAKMMGVAGGLSRLSKMPGVAGGLSRLSKMPACNILLQGAQKKLLSGFSQT 1413
L A+VGA AA+++ +AGGL L+ MP+ I + GA+K L
Sbjct: 258 LKALVGAKLAARLI-------------SLAGGLRELAMMPSSTIQVLGAEKALFRHLRTG 304
Query: 1414 SVLPHTGFVYYSSLVQDYPADMRRKAAR 1441
+ P G +Y + P R K AR
Sbjct: 305 AKPPKHGVIYQYPAINRSPWWQRGKIAR 332
>pdb|1E6I|A Chain A, Bromodomain From Gcn5 Complexed With Acetylated H4 Peptide
Length = 121
Score = 65.9 bits (159), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 29/67 (43%), Positives = 45/67 (67%)
Query: 634 KLKNMADAWIFIKPVNKKFFKDYYSVVQKPMDLETIGKKAQSHKYHSRYEFLADIELILS 693
+L+N A AW F++PVNK+ DYY +++PMDL T+ K +S+KY +F+ D L+ +
Sbjct: 24 ELQNHAAAWPFLQPVNKEEVPDYYDFIKEPMDLSTMEIKLESNKYQKMEDFIYDARLVFN 83
Query: 694 NSVLYNG 700
N +YNG
Sbjct: 84 NCRMYNG 90
Score = 62.4 bits (150), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 32/91 (35%), Positives = 48/91 (52%), Gaps = 4/91 (4%)
Query: 499 SILEKILNEMRDMSQTEPNVKQFSFPVNAKLVPDYYKIVTRPMDLQTIRENLRSKKYQSR 558
+ ++ IL E+++ + P F PVN + VPDYY + PMDL T+ L S KYQ
Sbjct: 16 AAIQNILTELQNHAAAWP----FLQPVNKEEVPDYYDFIKEPMDLSTMEIKLESNKYQKM 71
Query: 559 EEFLADVNQIVENSTLYNGAKSILTDAARRM 589
E+F+ D + N +YNG + A R+
Sbjct: 72 EDFIYDARLVFNNCRMYNGENTSYYKYANRL 102
Score = 38.1 bits (87), Expect = 0.049, Method: Compositional matrix adjust.
Identities = 16/40 (40%), Positives = 26/40 (65%)
Query: 1068 QKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNG 1107
++PMDL T+ K +S+KY +F+ D L+ +N +YNG
Sbjct: 51 KEPMDLSTMEIKLESNKYQKMEDFIYDARLVFNNCRMYNG 90
>pdb|3ICX|A Chain A, Crystal Structure Of Sulfolobus Solfataricus Nop5 (135-380)
pdb|3ICX|B Chain B, Crystal Structure Of Sulfolobus Solfataricus Nop5 (135-380)
pdb|3ICX|C Chain C, Crystal Structure Of Sulfolobus Solfataricus Nop5 (135-380)
Length = 255
Score = 64.3 bits (155), Expect = 5e-10, Method: Compositional matrix adjust.
Identities = 53/215 (24%), Positives = 86/215 (40%), Gaps = 36/215 (16%)
Query: 1227 LIVEANNLAVEIDTEIGLIHRFAVEKYNKRFPELDTLVVSPLEYLRTVRELGN----DLD 1282
L ++A +ID I L E Y+ FPELD L+ EY V G+ +D
Sbjct: 6 LAIQAVRAMDDIDKTINLFSERLREWYSIHFPELDKLIEDHEEYATIVSRFGDRGFLTID 65
Query: 1283 QTK----NNETLQQVLTQATIMVVSVTASTTQGQXXXXXXXXXVYQACDMAFELNQFKTS 1338
K N + + ++L A + G + + +L + +
Sbjct: 66 SLKELGFNEQRINRILD---------AAKKSIGADISEDDLSAMRMIANTILDLYNIRRN 116
Query: 1339 IFEYVESRMTYIAPNLSAIVGASTAAKMMGVAGGLSRLSKMPGVAGGLSRLSKMPACNIL 1398
+ Y+E M +APN++A+VG + A+++ +AG L L+KMPA I
Sbjct: 117 LNNYLEGVMKEVAPNVTALVGPALGARLL-------------SIAGSLDELAKMPASTIQ 163
Query: 1399 LQGAQKKLLSGFSQTSVLPHTGFVYYSSLVQDYPA 1433
+ GA+K L P G ++ YPA
Sbjct: 164 VLGAEKALFRALRSGGRPPKHGIIF------QYPA 192
>pdb|3ID5|A Chain A, Crystal Structure Of Sulfolobus Solfataricus CD RNP
ASSEMBLED WITH Nop5, Fibrillarin, L7ae And A Split Half
CD RNA
pdb|3ID5|E Chain E, Crystal Structure Of Sulfolobus Solfataricus CD RNP
ASSEMBLED WITH Nop5, Fibrillarin, L7ae And A Split Half
CD RNA
pdb|3PLA|A Chain A, Crystal Structure Of A Catalytically Active Substrate-Bound
Box CD Rnp From Sulfolobus Solfataricus
pdb|3PLA|B Chain B, Crystal Structure Of A Catalytically Active Substrate-Bound
Box CD Rnp From Sulfolobus Solfataricus
pdb|3PLA|K Chain K, Crystal Structure Of A Catalytically Active Substrate-Bound
Box CD Rnp From Sulfolobus Solfataricus
Length = 388
Score = 63.9 bits (154), Expect = 8e-10, Method: Compositional matrix adjust.
Identities = 53/215 (24%), Positives = 86/215 (40%), Gaps = 36/215 (16%)
Query: 1227 LIVEANNLAVEIDTEIGLIHRFAVEKYNKRFPELDTLVVSPLEYLRTVRELGN----DLD 1282
L ++A +ID I L E Y+ FPELD L+ EY V G+ +D
Sbjct: 139 LAIQAVRAMDDIDKTINLFSERLREWYSIHFPELDKLIEDHEEYATIVSRFGDRGFLTID 198
Query: 1283 QTK----NNETLQQVLTQATIMVVSVTASTTQGQXXXXXXXXXVYQACDMAFELNQFKTS 1338
K N + + ++L A + G + + +L + +
Sbjct: 199 SLKELGFNEQRINRILD---------AAKKSIGADISEDDLSAMRMIANTILDLYNIRRN 249
Query: 1339 IFEYVESRMTYIAPNLSAIVGASTAAKMMGVAGGLSRLSKMPGVAGGLSRLSKMPACNIL 1398
+ Y+E M +APN++A+VG + A+++ +AG L L+KMPA I
Sbjct: 250 LNNYLEGVMKEVAPNVTALVGPALGARLL-------------SIAGSLDELAKMPASTIQ 296
Query: 1399 LQGAQKKLLSGFSQTSVLPHTGFVYYSSLVQDYPA 1433
+ GA+K L P G ++ YPA
Sbjct: 297 VLGAEKALFRALRSGGRPPKHGIIF------QYPA 325
>pdb|2E7O|A Chain A, Solution Structure Of The Bromodomain From Human
Bromodomain Adjacent To Zinc Finger Domain 2b
Length = 112
Score = 62.0 bits (149), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 34/91 (37%), Positives = 47/91 (51%), Gaps = 4/91 (4%)
Query: 499 SILEKILNEMRDMSQTEPNVKQFSFPVNAKLVPDYYKIVTRPMDLQTIRENLRSKKYQSR 558
++ IL EM +T + F PVN KLVP Y K++ +PMD TIRE L S +Y +
Sbjct: 13 ALCSMILTEM----ETHEDAWPFLLPVNLKLVPGYKKVIKKPMDFSTIREKLSSGQYPNL 68
Query: 559 EEFLADVNQIVENSTLYNGAKSILTDAARRM 589
E F DV + +N +N S + A M
Sbjct: 69 ETFALDVRLVFDNCETFNEDDSDIGRAGHNM 99
Score = 52.0 bits (123), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 25/76 (32%), Positives = 40/76 (52%)
Query: 630 IVNNKLKNMADAWIFIKPVNKKFFKDYYSVVQKPMDLETIGKKAQSHKYHSRYEFLADIE 689
++ +++ DAW F+ PVN K Y V++KPMD TI +K S +Y + F D+
Sbjct: 17 MILTEMETHEDAWPFLLPVNLKLVPGYKKVIKKPMDFSTIREKLSSGQYPNLETFALDVR 76
Query: 690 LILSNSVLYNGPGSQV 705
L+ N +N S +
Sbjct: 77 LVFDNCETFNEDDSDI 92
Score = 33.1 bits (74), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 24/47 (51%)
Query: 1066 VSQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNGPGSQV 1112
V +KPMD TI +K S +Y + F D+ L+ N +N S +
Sbjct: 46 VIKKPMDFSTIREKLSSGQYPNLETFALDVRLVFDNCETFNEDDSDI 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 = 61.6 bits (148), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 34/91 (37%), Positives = 47/91 (51%), Gaps = 4/91 (4%)
Query: 499 SILEKILNEMRDMSQTEPNVKQFSFPVNAKLVPDYYKIVTRPMDLQTIRENLRSKKYQSR 558
++ IL EM +T + F PVN KLVP Y K++ +PMD TIRE L S +Y +
Sbjct: 16 ALCSMILTEM----ETHEDAWPFLLPVNLKLVPGYKKVIKKPMDFSTIREKLSSGQYPNL 71
Query: 559 EEFLADVNQIVENSTLYNGAKSILTDAARRM 589
E F DV + +N +N S + A M
Sbjct: 72 ETFALDVRLVFDNCETFNEDDSDIGRAGHNM 102
Score = 54.7 bits (130), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 30/93 (32%), Positives = 47/93 (50%), Gaps = 4/93 (4%)
Query: 613 PLLDDNDQVALSFIFDDIVNNKLKNMADAWIFIKPVNKKFFKDYYSVVQKPMDLETIGKK 672
P DD+ +AL ++ +++ DAW F+ PVN K Y V++KPMD TI +K
Sbjct: 7 PKRDDSKDLALC----SMILTEMETHEDAWPFLLPVNLKLVPGYKKVIKKPMDFSTIREK 62
Query: 673 AQSHKYHSRYEFLADIELILSNSVLYNGPGSQV 705
S +Y + F D+ L+ N +N S +
Sbjct: 63 LSSGQYPNLETFALDVRLVFDNCETFNEDDSDI 95
Score = 33.1 bits (74), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 24/47 (51%)
Query: 1066 VSQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNGPGSQV 1112
V +KPMD TI +K S +Y + F D+ L+ N +N S +
Sbjct: 49 VIKKPMDFSTIREKLSSGQYPNLETFALDVRLVFDNCETFNEDDSDI 95
>pdb|2I7K|A Chain A, Solution Structure Of The Bromodomain Of Human Brd7
Protein
Length = 117
Score = 60.8 bits (146), Expect = 7e-09, Method: Compositional matrix adjust.
Identities = 32/101 (31%), Positives = 60/101 (59%), Gaps = 2/101 (1%)
Query: 501 LEKILNE-MRDMSQTEPNVKQFSFPVNAKLVPDYYKIVTRPMDLQTIRENLRSKKYQSRE 559
L++ LN+ MR + + +P+ FSFPV + P Y I+ PMD T++E +++ YQS E
Sbjct: 9 LQEALNQLMRQLQRKDPSAF-FSFPVTDFIAPGYSMIIKHPMDFSTMKEKIKNNDYQSIE 67
Query: 560 EFLADVNQIVENSTLYNGAKSILTDAARRMLTLCVELLGKK 600
E + + N+ +YN ++I AA+++L +++L ++
Sbjct: 68 ELKDNFKLMCTNAMIYNKPETIYYKAAKKLLHSGMKILSQE 108
Score = 36.2 bits (82), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 17/59 (28%), Positives = 32/59 (54%)
Query: 643 IFIKPVNKKFFKDYYSVVQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNGP 701
F PV Y +++ PMD T+ +K +++ Y S E + +L+ +N+++YN P
Sbjct: 28 FFSFPVTDFIAPGYSMIIKHPMDFSTMKEKIKNNDYQSIEELKDNFKLMCTNAMIYNKP 86
Score = 33.9 bits (76), Expect = 0.85, Method: Compositional matrix adjust.
Identities = 14/45 (31%), Positives = 28/45 (62%)
Query: 1064 STVSQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNGP 1108
S + + PMD T+ +K +++ Y S E + +L+ +N+++YN P
Sbjct: 42 SMIIKHPMDFSTMKEKIKNNDYQSIEELKDNFKLMCTNAMIYNKP 86
>pdb|3NXB|A Chain A, Crystal Structure Of The Bromodomain Of Human Cecr2
pdb|3NXB|B Chain B, Crystal Structure Of The Bromodomain Of Human Cecr2
Length = 116
Score = 60.8 bits (146), Expect = 7e-09, Method: Compositional matrix adjust.
Identities = 32/103 (31%), Positives = 58/103 (56%), Gaps = 6/103 (5%)
Query: 605 MRLEKAINPLLD-DNDQVALSFIFDDIVNNKLKNMADAWIFIKPVNKKFFKDYYSVVQKP 663
MR EK L + D+D A+ + D + +K D+W F++PV++ + +YY +++ P
Sbjct: 2 MREEKKTKDLFELDDDFTAMYKVLDVVKAHK-----DSWPFLEPVDESYAPNYYQIIKAP 56
Query: 664 MDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNGPGSQVT 706
MD+ ++ KK Y ++ EF+ D++ + N YNG S+ T
Sbjct: 57 MDISSMEKKLNGGLYCTKEEFVNDMKTMFRNCRKYNGESSEYT 99
Score = 49.3 bits (116), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 21/60 (35%), Positives = 34/60 (56%)
Query: 524 PVNAKLVPDYYKIVTRPMDLQTIRENLRSKKYQSREEFLADVNQIVENSTLYNGAKSILT 583
PV+ P+YY+I+ PMD+ ++ + L Y ++EEF+ D+ + N YNG S T
Sbjct: 40 PVDESYAPNYYQIIKAPMDISSMEKKLNGGLYCTKEEFVNDMKTMFRNCRKYNGESSEYT 99
Score = 32.3 bits (72), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 26/46 (56%)
Query: 1066 VSQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNGPGSQ 1111
+ + PMD+ ++ KK Y ++ EF+ D++ + N YNG S+
Sbjct: 52 IIKAPMDISSMEKKLNGGLYCTKEEFVNDMKTMFRNCRKYNGESSE 97
>pdb|1F68|A Chain A, Nmr Solution Structure Of The Bromodomain From Human Gcn5
Length = 103
Score = 58.9 bits (141), Expect = 2e-08, Method: Composition-based stats.
Identities = 26/71 (36%), Positives = 47/71 (66%)
Query: 634 KLKNMADAWIFIKPVNKKFFKDYYSVVQKPMDLETIGKKAQSHKYHSRYEFLADIELILS 693
++K+ AW F++PV K DYY V++ P+DL+T+ ++ +S Y +R F+AD++ +++
Sbjct: 14 QIKSHPSAWPFMEPVKKSEAPDYYEVIRFPIDLKTMTERLRSRYYVTRKLFVADLQRVIA 73
Query: 694 NSVLYNGPGSQ 704
N YN P S+
Sbjct: 74 NCREYNPPDSE 84
Score = 57.8 bits (138), Expect = 6e-08, Method: Composition-based stats.
Identities = 28/84 (33%), Positives = 50/84 (59%), Gaps = 4/84 (4%)
Query: 497 LTSILEKILNEMRDMSQTEPNVKQFSFPVNAKLVPDYYKIVTRPMDLQTIRENLRSKKYQ 556
L + L+ +L +++ + P+ F PV PDYY+++ P+DL+T+ E LRS+ Y
Sbjct: 4 LYTTLKNLLAQIK----SHPSAWPFMEPVKKSEAPDYYEVIRFPIDLKTMTERLRSRYYV 59
Query: 557 SREEFLADVNQIVENSTLYNGAKS 580
+R+ F+AD+ +++ N YN S
Sbjct: 60 TRKLFVADLQRVIANCREYNPPDS 83
Score = 36.2 bits (82), Expect = 0.19, Method: Composition-based stats.
Identities = 15/42 (35%), Positives = 29/42 (69%)
Query: 1070 PMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNGPGSQ 1111
P+DL+T+ ++ +S Y +R F+AD++ +++N YN P S+
Sbjct: 43 PIDLKTMTERLRSRYYVTRKLFVADLQRVIANCREYNPPDSE 84
>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 = 58.9 bits (141), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 26/71 (36%), Positives = 47/71 (66%)
Query: 634 KLKNMADAWIFIKPVNKKFFKDYYSVVQKPMDLETIGKKAQSHKYHSRYEFLADIELILS 693
++K+ AW F++PV K DYY V++ P+DL+T+ ++ +S Y +R F+AD++ +++
Sbjct: 18 QIKSHPSAWPFMEPVKKSEAPDYYEVIRFPIDLKTMTERLRSRYYVTRKLFVADLQRVIA 77
Query: 694 NSVLYNGPGSQ 704
N YN P S+
Sbjct: 78 NCREYNPPDSE 88
Score = 57.0 bits (136), Expect = 9e-08, Method: Compositional matrix adjust.
Identities = 28/84 (33%), Positives = 50/84 (59%), Gaps = 4/84 (4%)
Query: 497 LTSILEKILNEMRDMSQTEPNVKQFSFPVNAKLVPDYYKIVTRPMDLQTIRENLRSKKYQ 556
L + L+ +L +++ + P+ F PV PDYY+++ P+DL+T+ E LRS+ Y
Sbjct: 8 LYTTLKNLLAQIK----SHPSAWPFMEPVKKSEAPDYYEVIRFPIDLKTMTERLRSRYYV 63
Query: 557 SREEFLADVNQIVENSTLYNGAKS 580
+R+ F+AD+ +++ N YN S
Sbjct: 64 TRKLFVADLQRVIANCREYNPPDS 87
Score = 36.6 bits (83), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 31/46 (67%)
Query: 1066 VSQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNGPGSQ 1111
V + P+DL+T+ ++ +S Y +R F+AD++ +++N YN P S+
Sbjct: 43 VIRFPIDLKTMTERLRSRYYVTRKLFVADLQRVIANCREYNPPDSE 88
>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 = 58.5 bits (140), Expect = 3e-08, Method: Composition-based stats.
Identities = 31/93 (33%), Positives = 54/93 (58%), Gaps = 4/93 (4%)
Query: 497 LTSILEKILNEMRDMSQTEPNVKQFSFPVNAKLVPDYYKIVTRPMDLQTIRENLRSKKYQ 556
LT +L +L++++D +P + F+ PV+ K VPDY + PMD T+R+ L ++ Y+
Sbjct: 14 LTVLLRSVLDQLQD---KDP-ARIFAQPVSLKEVPDYLDHIKHPMDFATMRKRLEAQGYK 69
Query: 557 SREEFLADVNQIVENSTLYNGAKSILTDAARRM 589
+ EF D + I++N YN ++ AA R+
Sbjct: 70 NLHEFEEDFDLIIDNCMKYNARDTVFYRAAVRL 102
Score = 48.5 bits (114), Expect = 3e-05, Method: Composition-based stats.
Identities = 24/70 (34%), Positives = 41/70 (58%)
Query: 631 VNNKLKNMADAWIFIKPVNKKFFKDYYSVVQKPMDLETIGKKAQSHKYHSRYEFLADIEL 690
V ++L++ A IF +PV+ K DY ++ PMD T+ K+ ++ Y + +EF D +L
Sbjct: 21 VLDQLQDKDPARIFAQPVSLKEVPDYLDHIKHPMDFATMRKRLEAQGYKNLHEFEEDFDL 80
Query: 691 ILSNSVLYNG 700
I+ N + YN
Sbjct: 81 IIDNCMKYNA 90
Score = 34.3 bits (77), Expect = 0.61, Method: Composition-based stats.
Identities = 14/40 (35%), Positives = 24/40 (60%)
Query: 1068 QKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNG 1107
+ PMD T+ K+ ++ Y + +EF D +LI+ N + YN
Sbjct: 51 KHPMDFATMRKRLEAQGYKNLHEFEEDFDLIIDNCMKYNA 90
>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 = 58.5 bits (140), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 34/116 (29%), Positives = 56/116 (48%), Gaps = 3/116 (2%)
Query: 485 PANRRRTDPVVVLTSILEKILNEMRDMS---QTEPNVKQFSFPVNAKLVPDYYKIVTRPM 541
P + D + VLT + EK ++ + Q F PV+ PDYY ++ PM
Sbjct: 54 PQCQSTEDAMTVLTPLTEKDYEGLKRVLRSLQAHKMAWPFLEPVDPNDAPDYYGVIKEPM 113
Query: 542 DLQTIRENLRSKKYQSREEFLADVNQIVENSTLYNGAKSILTDAARRMLTLCVELL 597
DL T+ E ++ + Y+ EF+AD+ +I +N YN + S A + + V+ L
Sbjct: 114 DLATMEERVQRRYYEKLTEFVADMTKIFDNCRYYNPSDSPFYQCAEVLESFFVQKL 169
Score = 54.7 bits (130), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 24/59 (40%), Positives = 35/59 (59%)
Query: 641 AWIFIKPVNKKFFKDYYSVVQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYN 699
AW F++PV+ DYY V+++PMDL T+ ++ Q Y EF+AD+ I N YN
Sbjct: 90 AWPFLEPVDPNDAPDYYGVIKEPMDLATMEERVQRRYYEKLTEFVADMTKIFDNCRYYN 148
Score = 35.0 bits (79), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 34/72 (47%), Gaps = 8/72 (11%)
Query: 1066 VSQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNGPGSQVLINIWWHFIEIKS 1125
V ++PMDL T+ ++ Q Y EF+AD+ I N YN S ++ E+
Sbjct: 108 VIKEPMDLATMEERVQRRYYEKLTEFVADMTKIFDNCRYYNPSDSP-----FYQCAEVLE 162
Query: 1126 SFKTNNVQILSG 1137
SF VQ L G
Sbjct: 163 SF---FVQKLKG 171
>pdb|3QZV|A Chain A, Crystal Structure Of Bptf Phd-Linker-Bromo In Complex With
Histone H4k12ac Peptide
Length = 174
Score = 58.2 bits (139), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 34/116 (29%), Positives = 56/116 (48%), Gaps = 3/116 (2%)
Query: 485 PANRRRTDPVVVLTSILEKILNEMRDMS---QTEPNVKQFSFPVNAKLVPDYYKIVTRPM 541
P + D + VLT + EK ++ + Q F PV+ PDYY ++ PM
Sbjct: 54 PQCQSTEDAMTVLTPLTEKDYEGLKRVLRSLQAHKMAWPFLEPVDPNDAPDYYGVIKEPM 113
Query: 542 DLQTIRENLRSKKYQSREEFLADVNQIVENSTLYNGAKSILTDAARRMLTLCVELL 597
DL T+ E ++ + Y+ EF+AD+ +I +N YN + S A + + V+ L
Sbjct: 114 DLATMEERVQRRYYEKLTEFVADMTKIFDNCRYYNPSDSPFYQCAEVLESFFVQKL 169
Score = 54.3 bits (129), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 24/59 (40%), Positives = 35/59 (59%)
Query: 641 AWIFIKPVNKKFFKDYYSVVQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYN 699
AW F++PV+ DYY V+++PMDL T+ ++ Q Y EF+AD+ I N YN
Sbjct: 90 AWPFLEPVDPNDAPDYYGVIKEPMDLATMEERVQRRYYEKLTEFVADMTKIFDNCRYYN 148
Score = 34.7 bits (78), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 34/72 (47%), Gaps = 8/72 (11%)
Query: 1066 VSQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNGPGSQVLINIWWHFIEIKS 1125
V ++PMDL T+ ++ Q Y EF+AD+ I N YN S ++ E+
Sbjct: 108 VIKEPMDLATMEERVQRRYYEKLTEFVADMTKIFDNCRYYNPSDSP-----FYQCAEVLE 162
Query: 1126 SFKTNNVQILSG 1137
SF VQ L G
Sbjct: 163 SF---FVQKLKG 171
>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 = 58.2 bits (139), Expect = 4e-08, Method: Composition-based stats.
Identities = 28/72 (38%), Positives = 40/72 (55%), Gaps = 2/72 (2%)
Query: 636 KNMADAWIFIKPVNKKFF--KDYYSVVQKPMDLETIGKKAQSHKYHSRYEFLADIELILS 693
K+ A AW F KPV+ DY+ +++ PMDL T+ +K ++ Y EF AD+ L+ S
Sbjct: 21 KHAAYAWPFYKPVDASALGLHDYHDIIKHPMDLSTVKRKMENRDYRDAQEFAADVRLMFS 80
Query: 694 NSVLYNGPGSQV 705
N YN P V
Sbjct: 81 NCYKYNPPDHDV 92
Score = 46.2 bits (108), Expect = 2e-04, Method: Composition-based stats.
Identities = 23/71 (32%), Positives = 38/71 (53%), Gaps = 2/71 (2%)
Query: 521 FSFPVNAKLVP--DYYKIVTRPMDLQTIRENLRSKKYQSREEFLADVNQIVENSTLYNGA 578
F PV+A + DY+ I+ PMDL T++ + ++ Y+ +EF ADV + N YN
Sbjct: 29 FYKPVDASALGLHDYHDIIKHPMDLSTVKRKMENRDYRDAQEFAADVRLMFSNCYKYNPP 88
Query: 579 KSILTDAARRM 589
+ AR++
Sbjct: 89 DHDVVAMARKL 99
Score = 41.6 bits (96), Expect = 0.004, Method: Composition-based stats.
Identities = 18/48 (37%), Positives = 27/48 (56%)
Query: 1066 VSQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNGPGSQVL 1113
+ + PMDL T+ +K ++ Y EF AD+ L+ SN YN P V+
Sbjct: 46 IIKHPMDLSTVKRKMENRDYRDAQEFAADVRLMFSNCYKYNPPDHDVV 93
>pdb|3ONI|A Chain A, Crystal Structure Of The Second Bromodomain Of Human Brd2
In Complex With The Inhibitor Jq1
Length = 114
Score = 58.2 bits (139), Expect = 4e-08, Method: Composition-based stats.
Identities = 28/72 (38%), Positives = 40/72 (55%), Gaps = 2/72 (2%)
Query: 636 KNMADAWIFIKPVNKKFF--KDYYSVVQKPMDLETIGKKAQSHKYHSRYEFLADIELILS 693
K+ A AW F KPV+ DY+ +++ PMDL T+ +K ++ Y EF AD+ L+ S
Sbjct: 23 KHAAYAWPFYKPVDASALGLHDYHDIIKHPMDLSTVKRKMENRDYRDAQEFAADVRLMFS 82
Query: 694 NSVLYNGPGSQV 705
N YN P V
Sbjct: 83 NCYKYNPPDHDV 94
Score = 45.8 bits (107), Expect = 2e-04, Method: Composition-based stats.
Identities = 23/71 (32%), Positives = 38/71 (53%), Gaps = 2/71 (2%)
Query: 521 FSFPVNAKLVP--DYYKIVTRPMDLQTIRENLRSKKYQSREEFLADVNQIVENSTLYNGA 578
F PV+A + DY+ I+ PMDL T++ + ++ Y+ +EF ADV + N YN
Sbjct: 31 FYKPVDASALGLHDYHDIIKHPMDLSTVKRKMENRDYRDAQEFAADVRLMFSNCYKYNPP 90
Query: 579 KSILTDAARRM 589
+ AR++
Sbjct: 91 DHDVVAMARKL 101
Score = 41.6 bits (96), Expect = 0.004, Method: Composition-based stats.
Identities = 18/48 (37%), Positives = 27/48 (56%)
Query: 1066 VSQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNGPGSQVL 1113
+ + PMDL T+ +K ++ Y EF AD+ L+ SN YN P V+
Sbjct: 48 IIKHPMDLSTVKRKMENRDYRDAQEFAADVRLMFSNCYKYNPPDHDVV 95
>pdb|2G4A|A Chain A, Solution Structure Of A Bromodomain From Ring3 Protein
Length = 116
Score = 58.2 bits (139), Expect = 5e-08, Method: Composition-based stats.
Identities = 28/72 (38%), Positives = 40/72 (55%), Gaps = 2/72 (2%)
Query: 636 KNMADAWIFIKPVNKKFF--KDYYSVVQKPMDLETIGKKAQSHKYHSRYEFLADIELILS 693
K+ A AW F KPV+ DY+ +++ PMDL T+ +K ++ Y EF AD+ L+ S
Sbjct: 17 KHAAYAWPFYKPVDASALGLHDYHDIIKHPMDLSTVKRKMENRDYRDAQEFAADVRLMFS 76
Query: 694 NSVLYNGPGSQV 705
N YN P V
Sbjct: 77 NCYKYNPPDHDV 88
Score = 45.8 bits (107), Expect = 2e-04, Method: Composition-based stats.
Identities = 23/71 (32%), Positives = 38/71 (53%), Gaps = 2/71 (2%)
Query: 521 FSFPVNAKLVP--DYYKIVTRPMDLQTIRENLRSKKYQSREEFLADVNQIVENSTLYNGA 578
F PV+A + DY+ I+ PMDL T++ + ++ Y+ +EF ADV + N YN
Sbjct: 25 FYKPVDASALGLHDYHDIIKHPMDLSTVKRKMENRDYRDAQEFAADVRLMFSNCYKYNPP 84
Query: 579 KSILTDAARRM 589
+ AR++
Sbjct: 85 DHDVVAMARKL 95
Score = 41.6 bits (96), Expect = 0.004, Method: Composition-based stats.
Identities = 18/48 (37%), Positives = 27/48 (56%)
Query: 1066 VSQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNGPGSQVL 1113
+ + PMDL T+ +K ++ Y EF AD+ L+ SN YN P V+
Sbjct: 42 IIKHPMDLSTVKRKMENRDYRDAQEFAADVRLMFSNCYKYNPPDHDVV 89
>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 = 57.0 bits (136), Expect = 9e-08, Method: Composition-based stats.
Identities = 29/72 (40%), Positives = 41/72 (56%), Gaps = 2/72 (2%)
Query: 636 KNMADAWIFIKPVNKKFF--KDYYSVVQKPMDLETIGKKAQSHKYHSRYEFLADIELILS 693
K+ A AW F KPV+ + DY +++ PMD+ TI K +S +Y EF AD+ L+ S
Sbjct: 25 KHAAYAWPFYKPVDVEALGLHDYCDIIKHPMDMSTIKSKLESREYRDAQEFGADVRLMFS 84
Query: 694 NSVLYNGPGSQV 705
N YN P +V
Sbjct: 85 NCYKYNPPDHEV 96
Score = 45.1 bits (105), Expect = 3e-04, Method: Composition-based stats.
Identities = 21/58 (36%), Positives = 32/58 (55%)
Query: 532 DYYKIVTRPMDLQTIRENLRSKKYQSREEFLADVNQIVENSTLYNGAKSILTDAARRM 589
DY I+ PMD+ TI+ L S++Y+ +EF ADV + N YN + AR++
Sbjct: 46 DYCDIIKHPMDMSTIKSKLESREYRDAQEFGADVRLMFSNCYKYNPPDHEVVAMARKL 103
Score = 42.4 bits (98), Expect = 0.002, Method: Composition-based stats.
Identities = 19/48 (39%), Positives = 28/48 (58%)
Query: 1066 VSQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNGPGSQVL 1113
+ + PMD+ TI K +S +Y EF AD+ L+ SN YN P +V+
Sbjct: 50 IIKHPMDMSTIKSKLESREYRDAQEFGADVRLMFSNCYKYNPPDHEVV 97
>pdb|3UV2|A Chain A, Crystal Structure Of The Bromodomain Of Human
Nucleosome-Remodeling Factor Subunit Bptf
Length = 126
Score = 56.6 bits (135), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 33/109 (30%), Positives = 54/109 (49%), Gaps = 3/109 (2%)
Query: 492 DPVVVLTSILEKILNEMRDMS---QTEPNVKQFSFPVNAKLVPDYYKIVTRPMDLQTIRE 548
D + VLT + EK ++ + Q F PV+ PDYY ++ PMDL T+ E
Sbjct: 9 DAMTVLTPLTEKDYEGLKRVLRSLQAHKMAWPFLEPVDPNDAPDYYGVIKEPMDLATMEE 68
Query: 549 NLRSKKYQSREEFLADVNQIVENSTLYNGAKSILTDAARRMLTLCVELL 597
++ + Y+ EF+AD+ +I +N YN + S A + + V+ L
Sbjct: 69 RVQRRYYEKLTEFVADMTKIFDNCRYYNPSDSPFYQCAEVLESFFVQKL 117
Score = 54.3 bits (129), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 25/63 (39%), Positives = 36/63 (57%)
Query: 641 AWIFIKPVNKKFFKDYYSVVQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNG 700
AW F++PV+ DYY V+++PMDL T+ ++ Q Y EF+AD+ I N YN
Sbjct: 38 AWPFLEPVDPNDAPDYYGVIKEPMDLATMEERVQRRYYEKLTEFVADMTKIFDNCRYYNP 97
Query: 701 PGS 703
S
Sbjct: 98 SDS 100
Score = 35.4 bits (80), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 34/72 (47%), Gaps = 8/72 (11%)
Query: 1066 VSQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNGPGSQVLINIWWHFIEIKS 1125
V ++PMDL T+ ++ Q Y EF+AD+ I N YN S ++ E+
Sbjct: 56 VIKEPMDLATMEERVQRRYYEKLTEFVADMTKIFDNCRYYNPSDSP-----FYQCAEVLE 110
Query: 1126 SFKTNNVQILSG 1137
SF VQ L G
Sbjct: 111 SF---FVQKLKG 119
>pdb|2I8N|A Chain A, Solution Structure Of The Second Bromodomain Of Brd4
Length = 114
Score = 56.6 bits (135), Expect = 1e-07, Method: Composition-based stats.
Identities = 28/72 (38%), Positives = 41/72 (56%), Gaps = 2/72 (2%)
Query: 636 KNMADAWIFIKPVNKKFF--KDYYSVVQKPMDLETIGKKAQSHKYHSRYEFLADIELILS 693
K+ A AW F KPV+ + DY +++ PMD+ TI K ++ +Y EF AD+ L+ S
Sbjct: 17 KHAAYAWPFYKPVDVEALGLHDYCDIIKHPMDMSTIKSKLEAREYRDAQEFGADVRLMFS 76
Query: 694 NSVLYNGPGSQV 705
N YN P +V
Sbjct: 77 NCYKYNPPDHEV 88
Score = 44.7 bits (104), Expect = 5e-04, Method: Composition-based stats.
Identities = 20/58 (34%), Positives = 32/58 (55%)
Query: 532 DYYKIVTRPMDLQTIRENLRSKKYQSREEFLADVNQIVENSTLYNGAKSILTDAARRM 589
DY I+ PMD+ TI+ L +++Y+ +EF ADV + N YN + AR++
Sbjct: 38 DYCDIIKHPMDMSTIKSKLEAREYRDAQEFGADVRLMFSNCYKYNPPDHEVVAMARKL 95
Score = 41.6 bits (96), Expect = 0.004, Method: Composition-based stats.
Identities = 18/48 (37%), Positives = 28/48 (58%)
Query: 1066 VSQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNGPGSQVL 1113
+ + PMD+ TI K ++ +Y EF AD+ L+ SN YN P +V+
Sbjct: 42 IIKHPMDMSTIKSKLEAREYRDAQEFGADVRLMFSNCYKYNPPDHEVV 89
>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 = 56.2 bits (134), Expect = 1e-07, Method: Composition-based stats.
Identities = 29/72 (40%), Positives = 39/72 (54%), Gaps = 2/72 (2%)
Query: 636 KNMADAWIFIKPVNKKFF--KDYYSVVQKPMDLETIGKKAQSHKYHSRYEFLADIELILS 693
K++ AW F PV+ +YY VV+ PMDL TI K + +Y YEF AD+ L+
Sbjct: 30 KHLPYAWPFYNPVDADALGLHNYYDVVKNPMDLGTIKGKMDNQEYKDAYEFAADVRLMFM 89
Query: 694 NSVLYNGPGSQV 705
N YN P +V
Sbjct: 90 NCYKYNPPDHEV 101
Score = 42.4 bits (98), Expect = 0.002, Method: Composition-based stats.
Identities = 20/48 (41%), Positives = 27/48 (56%)
Query: 1066 VSQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNGPGSQVL 1113
V + PMDL TI K + +Y YEF AD+ L+ N YN P +V+
Sbjct: 55 VVKNPMDLGTIKGKMDNQEYKDAYEFAADVRLMFMNCYKYNPPDHEVV 102
Score = 41.6 bits (96), Expect = 0.004, Method: Composition-based stats.
Identities = 29/89 (32%), Positives = 43/89 (48%), Gaps = 3/89 (3%)
Query: 503 KILNEMRDMSQTEPNVKQFSFPVNAKLVP--DYYKIVTRPMDLQTIRENLRSKKYQSREE 560
+IL EM P F PV+A + +YY +V PMDL TI+ + +++Y+ E
Sbjct: 21 EILKEMLAKKHL-PYAWPFYNPVDADALGLHNYYDVVKNPMDLGTIKGKMDNQEYKDAYE 79
Query: 561 FLADVNQIVENSTLYNGAKSILTDAARRM 589
F ADV + N YN + AR +
Sbjct: 80 FAADVRLMFMNCYKYNPPDHEVVAMARTL 108
>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 = 55.8 bits (133), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 30/115 (26%), Positives = 65/115 (56%), Gaps = 3/115 (2%)
Query: 498 TSILEKILNEMRDMSQTEPNVKQFSFPVNAKLVPDYYKIVTRPMDLQTIRENLRSKKYQS 557
T I + + + +R + + +P+ F+FPV + P Y I+ PMD T+++ + + +Y+S
Sbjct: 12 TPIQQLLEHFLRQLQRKDPH-GFFAFPVTDAIAPGYSMIIKHPMDFGTMKDKIVANEYKS 70
Query: 558 REEFLADVNQIVENSTLYNGAKSILTDAARRMLTLCVELLGKKEELLMRLEKAIN 612
EF AD + +N+ YN ++ A+++L +++ K E L+ L+++++
Sbjct: 71 VTEFKADFKLMCDNAMTYNRPDTVYYKLAKKILHAGFKMMSK--ERLLALKRSMS 123
Score = 40.4 bits (93), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 32/61 (52%)
Query: 643 IFIKPVNKKFFKDYYSVVQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNGPG 702
F PV Y +++ PMD T+ K +++Y S EF AD +L+ N++ YN P
Sbjct: 33 FFAFPVTDAIAPGYSMIIKHPMDFGTMKDKIVANEYKSVTEFKADFKLMCDNAMTYNRPD 92
Query: 703 S 703
+
Sbjct: 93 T 93
Score = 36.6 bits (83), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 28/47 (59%)
Query: 1064 STVSQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNGPGS 1110
S + + PMD T+ K +++Y S EF AD +L+ N++ YN P +
Sbjct: 47 SMIIKHPMDFGTMKDKIVANEYKSVTEFKADFKLMCDNAMTYNRPDT 93
>pdb|2E7N|A Chain A, Solution Structure Of The Second Bromodomain From Human
Bromodomain-Containing Protein 3
Length = 117
Score = 55.8 bits (133), Expect = 2e-07, Method: Composition-based stats.
Identities = 27/72 (37%), Positives = 41/72 (56%), Gaps = 2/72 (2%)
Query: 636 KNMADAWIFIKPVNKKFFK--DYYSVVQKPMDLETIGKKAQSHKYHSRYEFLADIELILS 693
K+ A AW F KPV+ + + DY+ +++ PMDL T+ +K +Y F AD+ L+ S
Sbjct: 28 KHAAYAWPFYKPVDAEALELHDYHDIIKHPMDLSTVKRKMDGREYPDAQGFAADVRLMFS 87
Query: 694 NSVLYNGPGSQV 705
N YN P +V
Sbjct: 88 NCYKYNPPDHEV 99
Score = 42.7 bits (99), Expect = 0.002, Method: Composition-based stats.
Identities = 22/71 (30%), Positives = 37/71 (52%), Gaps = 2/71 (2%)
Query: 521 FSFPVNAKLVP--DYYKIVTRPMDLQTIRENLRSKKYQSREEFLADVNQIVENSTLYNGA 578
F PV+A+ + DY+ I+ PMDL T++ + ++Y + F ADV + N YN
Sbjct: 36 FYKPVDAEALELHDYHDIIKHPMDLSTVKRKMDGREYPDAQGFAADVRLMFSNCYKYNPP 95
Query: 579 KSILTDAARRM 589
+ AR++
Sbjct: 96 DHEVVAMARKL 106
Score = 38.1 bits (87), Expect = 0.038, Method: Composition-based stats.
Identities = 17/48 (35%), Positives = 26/48 (54%)
Query: 1066 VSQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNGPGSQVL 1113
+ + PMDL T+ +K +Y F AD+ L+ SN YN P +V+
Sbjct: 53 IIKHPMDLSTVKRKMDGREYPDAQGFAADVRLMFSNCYKYNPPDHEVV 100
>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 = 55.8 bits (133), Expect = 2e-07, Method: Composition-based stats.
Identities = 27/72 (37%), Positives = 41/72 (56%), Gaps = 2/72 (2%)
Query: 636 KNMADAWIFIKPVNKKFFK--DYYSVVQKPMDLETIGKKAQSHKYHSRYEFLADIELILS 693
K+ A AW F KPV+ + + DY+ +++ PMDL T+ +K +Y F AD+ L+ S
Sbjct: 23 KHAAYAWPFYKPVDAEALELHDYHDIIKHPMDLSTVKRKMDGREYPDAQGFAADVRLMFS 82
Query: 694 NSVLYNGPGSQV 705
N YN P +V
Sbjct: 83 NCYKYNPPDHEV 94
Score = 42.7 bits (99), Expect = 0.002, Method: Composition-based stats.
Identities = 22/71 (30%), Positives = 37/71 (52%), Gaps = 2/71 (2%)
Query: 521 FSFPVNAKLVP--DYYKIVTRPMDLQTIRENLRSKKYQSREEFLADVNQIVENSTLYNGA 578
F PV+A+ + DY+ I+ PMDL T++ + ++Y + F ADV + N YN
Sbjct: 31 FYKPVDAEALELHDYHDIIKHPMDLSTVKRKMDGREYPDAQGFAADVRLMFSNCYKYNPP 90
Query: 579 KSILTDAARRM 589
+ AR++
Sbjct: 91 DHEVVAMARKL 101
Score = 38.1 bits (87), Expect = 0.038, Method: Composition-based stats.
Identities = 17/48 (35%), Positives = 26/48 (54%)
Query: 1066 VSQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNGPGSQVL 1113
+ + PMDL T+ +K +Y F AD+ L+ SN YN P +V+
Sbjct: 48 IIKHPMDLSTVKRKMDGREYPDAQGFAADVRLMFSNCYKYNPPDHEVV 95
>pdb|3QZT|A Chain A, Crystal Structure Of Bptf Bromo In Complex With Histone
H4k16ac - Form Ii
Length = 115
Score = 55.5 bits (132), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 29/97 (29%), Positives = 50/97 (51%), Gaps = 4/97 (4%)
Query: 501 LEKILNEMRDMSQTEPNVKQFSFPVNAKLVPDYYKIVTRPMDLQTIRENLRSKKYQSREE 560
L+++L ++ P F PV+ PDYY ++ PMDL T+ E ++ + Y+ E
Sbjct: 18 LKRVLRSLQAHKMAWP----FLEPVDPNDAPDYYGVIKEPMDLATMEERVQRRYYEKLTE 73
Query: 561 FLADVNQIVENSTLYNGAKSILTDAARRMLTLCVELL 597
F+AD+ +I +N YN + S A + + V+ L
Sbjct: 74 FVADMTKIFDNCRYYNPSDSPFYQCAEVLESFFVQKL 110
Score = 53.5 bits (127), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 24/59 (40%), Positives = 35/59 (59%)
Query: 641 AWIFIKPVNKKFFKDYYSVVQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYN 699
AW F++PV+ DYY V+++PMDL T+ ++ Q Y EF+AD+ I N YN
Sbjct: 31 AWPFLEPVDPNDAPDYYGVIKEPMDLATMEERVQRRYYEKLTEFVADMTKIFDNCRYYN 89
Score = 34.7 bits (78), Expect = 0.49, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 34/72 (47%), Gaps = 8/72 (11%)
Query: 1066 VSQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNGPGSQVLINIWWHFIEIKS 1125
V ++PMDL T+ ++ Q Y EF+AD+ I N YN S ++ E+
Sbjct: 49 VIKEPMDLATMEERVQRRYYEKLTEFVADMTKIFDNCRYYNPSDSP-----FYQCAEVLE 103
Query: 1126 SFKTNNVQILSG 1137
SF VQ L G
Sbjct: 104 SF---FVQKLKG 112
>pdb|2LSP|B Chain B, Solution Structures Of Brd4 Second Bromodomain With
Nf-Kb-K310ac Peptide
Length = 128
Score = 55.1 bits (131), Expect = 4e-07, Method: Composition-based stats.
Identities = 28/72 (38%), Positives = 41/72 (56%), Gaps = 2/72 (2%)
Query: 636 KNMADAWIFIKPVNKKFF--KDYYSVVQKPMDLETIGKKAQSHKYHSRYEFLADIELILS 693
K+ A AW F KPV+ + DY +++ PMD+ TI K ++ +Y EF AD+ L+ S
Sbjct: 36 KHAAYAWPFYKPVDVEALGLHDYCDIIKHPMDMSTIKSKLEAREYRDAQEFGADVRLMFS 95
Query: 694 NSVLYNGPGSQV 705
N YN P +V
Sbjct: 96 NCYKYNPPDHEV 107
Score = 43.5 bits (101), Expect = 0.001, Method: Composition-based stats.
Identities = 20/58 (34%), Positives = 32/58 (55%)
Query: 532 DYYKIVTRPMDLQTIRENLRSKKYQSREEFLADVNQIVENSTLYNGAKSILTDAARRM 589
DY I+ PMD+ TI+ L +++Y+ +EF ADV + N YN + AR++
Sbjct: 57 DYCDIIKHPMDMSTIKSKLEAREYRDAQEFGADVRLMFSNCYKYNPPDHEVVAMARKL 114
Score = 40.4 bits (93), Expect = 0.008, Method: Composition-based stats.
Identities = 18/48 (37%), Positives = 28/48 (58%)
Query: 1066 VSQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNGPGSQVL 1113
+ + PMD+ TI K ++ +Y EF AD+ L+ SN YN P +V+
Sbjct: 61 IIKHPMDMSTIKSKLEAREYRDAQEFGADVRLMFSNCYKYNPPDHEVV 108
>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 = 55.1 bits (131), Expect = 4e-07, Method: Composition-based stats.
Identities = 28/72 (38%), Positives = 41/72 (56%), Gaps = 2/72 (2%)
Query: 636 KNMADAWIFIKPVNKKFF--KDYYSVVQKPMDLETIGKKAQSHKYHSRYEFLADIELILS 693
K+ A AW F KPV+ + DY +++ PMD+ TI K ++ +Y EF AD+ L+ S
Sbjct: 38 KHAAYAWPFYKPVDVEALGLHDYCDIIKHPMDMSTIKSKLEAREYRDAQEFGADVRLMFS 97
Query: 694 NSVLYNGPGSQV 705
N YN P +V
Sbjct: 98 NCYKYNPPDHEV 109
Score = 43.5 bits (101), Expect = 0.001, Method: Composition-based stats.
Identities = 20/58 (34%), Positives = 32/58 (55%)
Query: 532 DYYKIVTRPMDLQTIRENLRSKKYQSREEFLADVNQIVENSTLYNGAKSILTDAARRM 589
DY I+ PMD+ TI+ L +++Y+ +EF ADV + N YN + AR++
Sbjct: 59 DYCDIIKHPMDMSTIKSKLEAREYRDAQEFGADVRLMFSNCYKYNPPDHEVVAMARKL 116
Score = 40.4 bits (93), Expect = 0.008, Method: Composition-based stats.
Identities = 18/48 (37%), Positives = 28/48 (58%)
Query: 1066 VSQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNGPGSQVL 1113
+ + PMD+ TI K ++ +Y EF AD+ L+ SN YN P +V+
Sbjct: 63 IIKHPMDMSTIKSKLEAREYRDAQEFGADVRLMFSNCYKYNPPDHEVV 110
>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 = 54.7 bits (130), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 28/97 (28%), Positives = 50/97 (51%), Gaps = 4/97 (4%)
Query: 501 LEKILNEMRDMSQTEPNVKQFSFPVNAKLVPDYYKIVTRPMDLQTIRENLRSKKYQSREE 560
L+++L ++ P ++ PV+ PDYY ++ PMDL T+ E ++ + Y+ E
Sbjct: 18 LKRVLRSLQAHKMAWPFLE----PVDPNDAPDYYGVIKEPMDLATMEERVQRRYYEKLTE 73
Query: 561 FLADVNQIVENSTLYNGAKSILTDAARRMLTLCVELL 597
F+AD+ I +N YN + S A + + V+ L
Sbjct: 74 FVADMTAIFDNCRYYNPSDSPFYQCAEVLESFFVQKL 110
Score = 54.3 bits (129), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 24/59 (40%), Positives = 35/59 (59%)
Query: 641 AWIFIKPVNKKFFKDYYSVVQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYN 699
AW F++PV+ DYY V+++PMDL T+ ++ Q Y EF+AD+ I N YN
Sbjct: 31 AWPFLEPVDPNDAPDYYGVIKEPMDLATMEERVQRRYYEKLTEFVADMTAIFDNCRYYN 89
Score = 35.0 bits (79), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 34/72 (47%), Gaps = 8/72 (11%)
Query: 1066 VSQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNGPGSQVLINIWWHFIEIKS 1125
V ++PMDL T+ ++ Q Y EF+AD+ I N YN S ++ E+
Sbjct: 49 VIKEPMDLATMEERVQRRYYEKLTEFVADMTAIFDNCRYYNPSDSP-----FYQCAEVLE 103
Query: 1126 SFKTNNVQILSG 1137
SF VQ L G
Sbjct: 104 SF---FVQKLKG 112
>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 = 54.7 bits (130), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 33/102 (32%), Positives = 49/102 (48%), Gaps = 11/102 (10%)
Query: 521 FSFPVNAKLVPDYYKIVTRPMDLQTIRENLRSKKYQSREEFLADVNQIVENSTLYNGAKS 580
F + K PDYYKI+ PMDL+ I N+R+ KY E + D+ + N+ YN S
Sbjct: 52 FMVKPSKKDYPDYYKIILEPMDLKIIEHNIRNDKYAGEEGMIEDMKLMFRNARHYNEEGS 111
Query: 581 ILTDAARRMLTLCVELLGKKEELLMRLEKAINPLLDDNDQVA 622
+ + A + E+LL K + PL DD+D +
Sbjct: 112 QVYNDAHIL-----------EKLLKEKRKELGPLPDDDDMAS 142
Score = 46.6 bits (109), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 22/63 (34%), Positives = 37/63 (58%)
Query: 643 IFIKPVNKKFFKDYYSVVQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNGPG 702
+F+ +KK + DYY ++ +PMDL+ I ++ KY + D++L+ N+ YN G
Sbjct: 51 LFMVKPSKKDYPDYYKIILEPMDLKIIEHNIRNDKYAGEEGMIEDMKLMFRNARHYNEEG 110
Query: 703 SQV 705
SQV
Sbjct: 111 SQV 113
Score = 32.7 bits (73), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 24/43 (55%)
Query: 1070 PMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNGPGSQV 1112
PMDL+ I ++ KY + D++L+ N+ YN GSQV
Sbjct: 71 PMDLKIIEHNIRNDKYAGEEGMIEDMKLMFRNARHYNEEGSQV 113
>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 = 54.7 bits (130), Expect = 5e-07, Method: Composition-based stats.
Identities = 28/66 (42%), Positives = 41/66 (62%), Gaps = 3/66 (4%)
Query: 643 IFIKPVNKKFFKDYYSVVQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYN--- 699
IF KPV+ + DY V+++PMDL T+ K H Y + +FL DI+LI SN++ YN
Sbjct: 32 IFSKPVDIEEVSDYLEVIKEPMDLSTVITKIDKHNYLTAKDFLKDIDLICSNALEYNPDK 91
Query: 700 GPGSQV 705
PG ++
Sbjct: 92 DPGDKI 97
Score = 46.2 bits (108), Expect = 1e-04, Method: Composition-based stats.
Identities = 24/75 (32%), Positives = 42/75 (56%), Gaps = 3/75 (4%)
Query: 508 MRDMSQ---TEPNVKQFSFPVNAKLVPDYYKIVTRPMDLQTIRENLRSKKYQSREEFLAD 564
+RD+++ T+ FS PV+ + V DY +++ PMDL T+ + Y + ++FL D
Sbjct: 17 LRDVTKRLATDKRFNIFSKPVDIEEVSDYLEVIKEPMDLSTVITKIDKHNYLTAKDFLKD 76
Query: 565 VNQIVENSTLYNGAK 579
++ I N+ YN K
Sbjct: 77 IDLICSNALEYNPDK 91
Score = 41.6 bits (96), Expect = 0.004, Method: Composition-based stats.
Identities = 21/51 (41%), Positives = 32/51 (62%), Gaps = 3/51 (5%)
Query: 1066 VSQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYN---GPGSQVL 1113
V ++PMDL T+ K H Y + +FL DI+LI SN++ YN PG +++
Sbjct: 48 VIKEPMDLSTVITKIDKHNYLTAKDFLKDIDLICSNALEYNPDKDPGDKII 98
>pdb|2D9E|A Chain A, Solution Structure Of The Bromodomain Of Peregrin
pdb|2RS9|B Chain B, Solution Structure Of The Bromodomain Of Human Brpf1 In
Complex With Histone H4k5ac Peptide
Length = 121
Score = 54.3 bits (129), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 27/69 (39%), Positives = 39/69 (56%)
Query: 521 FSFPVNAKLVPDYYKIVTRPMDLQTIRENLRSKKYQSREEFLADVNQIVENSTLYNGAKS 580
FS PV VPDY + +PMD T+++NL + +Y + ++F D N IV N YN +
Sbjct: 28 FSEPVPLSEVPDYLDHIKKPMDFFTMKQNLEAYRYLNFDDFEEDFNLIVSNCLKYNAKDT 87
Query: 581 ILTDAARRM 589
I AA R+
Sbjct: 88 IFYRAAVRL 96
Score = 40.0 bits (92), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 20/58 (34%), Positives = 33/58 (56%)
Query: 643 IFIKPVNKKFFKDYYSVVQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNG 700
IF +PV DY ++KPMD T+ + ++++Y + +F D LI+SN + YN
Sbjct: 27 IFSEPVPLSEVPDYLDHIKKPMDFFTMKQNLEAYRYLNFDDFEEDFNLIVSNCLKYNA 84
Score = 32.3 bits (72), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 25/40 (62%)
Query: 1068 QKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNG 1107
+KPMD T+ + ++++Y + +F D LI+SN + YN
Sbjct: 45 KKPMDFFTMKQNLEAYRYLNFDDFEEDFNLIVSNCLKYNA 84
>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 = 54.3 bits (129), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 25/63 (39%), Positives = 42/63 (66%)
Query: 643 IFIKPVNKKFFKDYYSVVQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNGPG 702
+F K +K + DYY+++++P+DL+TI ++ Q+ Y S + DI+L+ N+ YN PG
Sbjct: 34 LFQKLPSKVQYPDYYAIIKEPIDLKTIAQRIQNGSYKSIHAMAKDIDLLAKNAKTYNEPG 93
Query: 703 SQV 705
SQV
Sbjct: 94 SQV 96
Score = 42.7 bits (99), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 19/49 (38%), Positives = 31/49 (63%)
Query: 1065 TVSQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNGPGSQVL 1113
+ ++P+DL+TI ++ Q+ Y S + DI+L+ N+ YN PGSQV
Sbjct: 49 AIIKEPIDLKTIAQRIQNGSYKSIHAMAKDIDLLAKNAKTYNEPGSQVF 97
Score = 42.0 bits (97), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 29/46 (63%)
Query: 531 PDYYKIVTRPMDLQTIRENLRSKKYQSREEFLADVNQIVENSTLYN 576
PDYY I+ P+DL+TI + +++ Y+S D++ + +N+ YN
Sbjct: 45 PDYYAIIKEPIDLKTIAQRIQNGSYKSIHAMAKDIDLLAKNAKTYN 90
>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 = 54.3 bits (129), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 25/63 (39%), Positives = 42/63 (66%)
Query: 643 IFIKPVNKKFFKDYYSVVQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNGPG 702
+F K +K + DYY+++++P+DL+TI ++ Q+ Y S + DI+L+ N+ YN PG
Sbjct: 35 LFQKLPSKVQYPDYYAIIKEPIDLKTIAQRIQNGSYKSIHAMAKDIDLLAKNAKTYNEPG 94
Query: 703 SQV 705
SQV
Sbjct: 95 SQV 97
Score = 42.7 bits (99), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 19/49 (38%), Positives = 31/49 (63%)
Query: 1065 TVSQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNGPGSQVL 1113
+ ++P+DL+TI ++ Q+ Y S + DI+L+ N+ YN PGSQV
Sbjct: 50 AIIKEPIDLKTIAQRIQNGSYKSIHAMAKDIDLLAKNAKTYNEPGSQVF 98
Score = 42.0 bits (97), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 29/46 (63%)
Query: 531 PDYYKIVTRPMDLQTIRENLRSKKYQSREEFLADVNQIVENSTLYN 576
PDYY I+ P+DL+TI + +++ Y+S D++ + +N+ YN
Sbjct: 46 PDYYAIIKEPIDLKTIAQRIQNGSYKSIHAMAKDIDLLAKNAKTYN 91
>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 = 53.9 bits (128), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 24/71 (33%), Positives = 45/71 (63%)
Query: 634 KLKNMADAWIFIKPVNKKFFKDYYSVVQKPMDLETIGKKAQSHKYHSRYEFLADIELILS 693
++K+ AW F++PV + YY V++ PMDL+T+ ++ ++ Y S+ F+AD++ + +
Sbjct: 26 QVKSHQSAWPFMEPVKRTEAPGYYEVIRFPMDLKTMSERLKNRYYVSKKLFMADLQRVFT 85
Query: 694 NSVLYNGPGSQ 704
N YN P S+
Sbjct: 86 NCKEYNPPESE 96
Score = 53.1 bits (126), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 28/84 (33%), Positives = 47/84 (55%), Gaps = 4/84 (4%)
Query: 497 LTSILEKILNEMRDMSQTEPNVKQFSFPVNAKLVPDYYKIVTRPMDLQTIRENLRSKKYQ 556
L S L+ IL +++ P F PV P YY+++ PMDL+T+ E L+++ Y
Sbjct: 16 LYSTLKSILQQVKSHQSAWP----FMEPVKRTEAPGYYEVIRFPMDLKTMSERLKNRYYV 71
Query: 557 SREEFLADVNQIVENSTLYNGAKS 580
S++ F+AD+ ++ N YN +S
Sbjct: 72 SKKLFMADLQRVFTNCKEYNPPES 95
Score = 36.6 bits (83), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 28/42 (66%)
Query: 1070 PMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNGPGSQ 1111
PMDL+T+ ++ ++ Y S+ F+AD++ + +N YN P S+
Sbjct: 55 PMDLKTMSERLKNRYYVSKKLFMADLQRVFTNCKEYNPPESE 96
>pdb|3HMF|A Chain A, Crystal Structure Of The Second Bromodomain Of Human
Poly-Bromodomain Containing Protein 1 (Pb1)
Length = 116
Score = 53.9 bits (128), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 25/63 (39%), Positives = 42/63 (66%)
Query: 643 IFIKPVNKKFFKDYYSVVQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNGPG 702
+F K +K + DYY+++++P+DL+TI ++ Q+ Y S + DI+L+ N+ YN PG
Sbjct: 32 LFQKLPSKVQYPDYYAIIKEPIDLKTIAQRIQNGSYKSIHAMAKDIDLLAKNAKTYNEPG 91
Query: 703 SQV 705
SQV
Sbjct: 92 SQV 94
Score = 42.7 bits (99), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 19/49 (38%), Positives = 31/49 (63%)
Query: 1065 TVSQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNGPGSQVL 1113
+ ++P+DL+TI ++ Q+ Y S + DI+L+ N+ YN PGSQV
Sbjct: 47 AIIKEPIDLKTIAQRIQNGSYKSIHAMAKDIDLLAKNAKTYNEPGSQVF 95
Score = 41.6 bits (96), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 33/56 (58%), Gaps = 1/56 (1%)
Query: 531 PDYYKIVTRPMDLQTIRENLRSKKYQSREEFLADVNQIVENSTLYNGAKS-ILTDA 585
PDYY I+ P+DL+TI + +++ Y+S D++ + +N+ YN S + DA
Sbjct: 43 PDYYAIIKEPIDLKTIAQRIQNGSYKSIHAMAKDIDLLAKNAKTYNEPGSQVFKDA 98
>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 = 53.9 bits (128), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 24/71 (33%), Positives = 45/71 (63%)
Query: 634 KLKNMADAWIFIKPVNKKFFKDYYSVVQKPMDLETIGKKAQSHKYHSRYEFLADIELILS 693
++K+ AW F++PV + YY V++ PMDL+T+ ++ ++ Y S+ F+AD++ + +
Sbjct: 24 QVKSHQSAWPFMEPVKRTEAPGYYEVIRFPMDLKTMSERLKNRYYVSKKLFMADLQRVFT 83
Query: 694 NSVLYNGPGSQ 704
N YN P S+
Sbjct: 84 NCKEYNPPESE 94
Score = 53.1 bits (126), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 28/84 (33%), Positives = 47/84 (55%), Gaps = 4/84 (4%)
Query: 497 LTSILEKILNEMRDMSQTEPNVKQFSFPVNAKLVPDYYKIVTRPMDLQTIRENLRSKKYQ 556
L S L+ IL +++ P F PV P YY+++ PMDL+T+ E L+++ Y
Sbjct: 14 LYSTLKSILQQVKSHQSAWP----FMEPVKRTEAPGYYEVIRFPMDLKTMSERLKNRYYV 69
Query: 557 SREEFLADVNQIVENSTLYNGAKS 580
S++ F+AD+ ++ N YN +S
Sbjct: 70 SKKLFMADLQRVFTNCKEYNPPES 93
Score = 36.2 bits (82), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 28/42 (66%)
Query: 1070 PMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNGPGSQ 1111
PMDL+T+ ++ ++ Y S+ F+AD++ + +N YN P S+
Sbjct: 53 PMDLKTMSERLKNRYYVSKKLFMADLQRVFTNCKEYNPPESE 94
>pdb|2R10|A Chain A, Structure Of An Acetylated Rsc4 Tandem Bromodomain Histone
Chimera
pdb|2R10|B Chain B, Structure Of An Acetylated Rsc4 Tandem Bromodomain Histone
Chimera
Length = 361
Score = 53.5 bits (127), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 48/201 (23%), Positives = 91/201 (45%), Gaps = 36/201 (17%)
Query: 528 KLVPDYYKIVTRPMDLQTIRENLRSKKYQSRE---EFLADVNQIVENSTLYNGAKSILTD 584
K P YY + +PM + I+ S+ Y+ + FL DV + +N YN S++
Sbjct: 108 KFHPQYYYKIQQPMSINEIK----SRDYEYEDGPSNFLLDVELLTKNCQAYNEYDSLIVK 163
Query: 585 AARRMLTLC-VELLGKKE---------ELLMRLEKAINPLLDDNDQVALSFIFDDIVNNK 634
+ +++ L E+L K E+ +L +N L+D ++ +N
Sbjct: 164 NSMQVVMLIEFEVLKAKNLKRNYLINSEVKAKLLHYLNKLVDATEKK---------INQA 214
Query: 635 L------KNMAD----AWIFIKPVNKKFFKDYYSVVQKPMDLETIGKKAQSHKYHSRYEF 684
L KN+ D + F++ V+K +YY +V PM L + + + +Y Y+F
Sbjct: 215 LLGASSPKNLDDKVKLSEPFMELVDKDELPEYYEIVHSPMALSIVKQNLEIGQYSKIYDF 274
Query: 685 LADIELILSNSVLYNGPGSQV 705
+ D+ L+ N+ ++N P + +
Sbjct: 275 IIDMLLVFQNAHIFNDPSALI 295
Score = 31.2 bits (69), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 12/51 (23%), Positives = 26/51 (50%)
Query: 1062 EESTVSQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNGPGSQV 1112
E + PM L + + + +Y Y+F+ D+ L+ N+ ++N P + +
Sbjct: 245 EYYEIVHSPMALSIVKQNLEIGQYSKIYDFIIDMLLVFQNAHIFNDPSALI 295
>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 = 53.5 bits (127), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 25/68 (36%), Positives = 38/68 (55%), Gaps = 2/68 (2%)
Query: 641 AWIFIKPVN--KKFFKDYYSVVQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLY 698
+W F +PV+ K DYY++++ PMDL TI K+ ++ Y E + D + SN LY
Sbjct: 31 SWPFQRPVDAVKLQLPDYYTIIKNPMDLNTIKKRLENKYYAKASECIEDFNTMFSNCYLY 90
Query: 699 NGPGSQVT 706
N PG +
Sbjct: 91 NKPGDDIV 98
Score = 50.4 bits (119), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 27/58 (46%), Positives = 35/58 (60%), Gaps = 2/58 (3%)
Query: 521 FSFPVNA-KL-VPDYYKIVTRPMDLQTIRENLRSKKYQSREEFLADVNQIVENSTLYN 576
F PV+A KL +PDYY I+ PMDL TI++ L +K Y E + D N + N LYN
Sbjct: 34 FQRPVDAVKLQLPDYYTIIKNPMDLNTIKKRLENKYYAKASECIEDFNTMFSNCYLYN 91
Score = 42.0 bits (97), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 28/50 (56%)
Query: 1065 TVSQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNGPGSQVLI 1114
T+ + PMDL TI K+ ++ Y E + D + SN LYN PG +++
Sbjct: 50 TIIKNPMDLNTIKKRLENKYYAKASECIEDFNTMFSNCYLYNKPGDDIVL 99
>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 = 53.1 bits (126), Expect = 1e-06, Method: Composition-based stats.
Identities = 33/116 (28%), Positives = 52/116 (44%), Gaps = 3/116 (2%)
Query: 485 PANRRRTDPVVVLTSILEKILNEMRDMS---QTEPNVKQFSFPVNAKLVPDYYKIVTRPM 541
P + D VLT + EK ++ + Q F PV+ PDYY ++ P
Sbjct: 54 PQCQSTEDAXTVLTPLTEKDYEGLKRVLRSLQAHKXAWPFLEPVDPNDAPDYYGVIKEPX 113
Query: 542 DLQTIRENLRSKKYQSREEFLADVNQIVENSTLYNGAKSILTDAARRMLTLCVELL 597
DL T E ++ + Y+ EF+AD +I +N YN + S A + + V+ L
Sbjct: 114 DLATXEERVQRRYYEKLTEFVADXTKIFDNCRYYNPSDSPFYQCAEVLESFFVQKL 169
Score = 49.7 bits (117), Expect = 1e-05, Method: Composition-based stats.
Identities = 24/65 (36%), Positives = 34/65 (52%)
Query: 635 LKNMADAWIFIKPVNKKFFKDYYSVVQKPMDLETIGKKAQSHKYHSRYEFLADIELILSN 694
L+ AW F++PV+ DYY V+++P DL T ++ Q Y EF+AD I N
Sbjct: 84 LQAHKXAWPFLEPVDPNDAPDYYGVIKEPXDLATXEERVQRRYYEKLTEFVADXTKIFDN 143
Query: 695 SVLYN 699
YN
Sbjct: 144 CRYYN 148
>pdb|2R0V|A Chain A, Structure Of The Rsc4 Tandem Bromodomain Acetylated At K25
pdb|2R0V|B Chain B, Structure Of The Rsc4 Tandem Bromodomain Acetylated At K25
pdb|2R0V|C Chain C, Structure Of The Rsc4 Tandem Bromodomain Acetylated At K25
Length = 346
Score = 52.8 bits (125), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 48/201 (23%), Positives = 91/201 (45%), Gaps = 36/201 (17%)
Query: 528 KLVPDYYKIVTRPMDLQTIRENLRSKKYQSRE---EFLADVNQIVENSTLYNGAKSILTD 584
K P YY + +PM + I+ S+ Y+ + FL DV + +N YN S++
Sbjct: 93 KFHPQYYYKIQQPMSINEIK----SRDYEYEDGPSNFLLDVELLTKNCQAYNEYDSLIVK 148
Query: 585 AARRMLTLC-VELLGKKE---------ELLMRLEKAINPLLDDNDQVALSFIFDDIVNNK 634
+ +++ L E+L K E+ +L +N L+D ++ +N
Sbjct: 149 NSMQVVMLIEFEVLKAKNLKRNYLINSEVKAKLLHYLNKLVDATEKK---------INQA 199
Query: 635 L------KNMAD----AWIFIKPVNKKFFKDYYSVVQKPMDLETIGKKAQSHKYHSRYEF 684
L KN+ D + F++ V+K +YY +V PM L + + + +Y Y+F
Sbjct: 200 LLGASSPKNLDDKVKLSEPFMELVDKDELPEYYEIVHSPMALSIVKQNLEIGQYSKIYDF 259
Query: 685 LADIELILSNSVLYNGPGSQV 705
+ D+ L+ N+ ++N P + +
Sbjct: 260 IIDMLLVFQNAHIFNDPSALI 280
Score = 31.2 bits (69), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 12/51 (23%), Positives = 26/51 (50%)
Query: 1062 EESTVSQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNGPGSQV 1112
E + PM L + + + +Y Y+F+ D+ L+ N+ ++N P + +
Sbjct: 230 EYYEIVHSPMALSIVKQNLEIGQYSKIYDFIIDMLLVFQNAHIFNDPSALI 280
>pdb|3DAI|A Chain A, Crystal Structure Of The Bromodomain Of The Human Atad2
Length = 130
Score = 52.8 bits (125), Expect = 2e-06, Method: Composition-based stats.
Identities = 24/57 (42%), Positives = 38/57 (66%)
Query: 643 IFIKPVNKKFFKDYYSVVQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYN 699
+F KPV+ DY +V+++PMDL ++ K HKY + ++L DI+LI SN++ YN
Sbjct: 30 VFTKPVDPDEVPDYVTVIKQPMDLSSVISKIDLHKYLTVKDYLRDIDLICSNALEYN 86
Score = 44.7 bits (104), Expect = 5e-04, Method: Composition-based stats.
Identities = 19/56 (33%), Positives = 34/56 (60%)
Query: 521 FSFPVNAKLVPDYYKIVTRPMDLQTIRENLRSKKYQSREEFLADVNQIVENSTLYN 576
F+ PV+ VPDY ++ +PMDL ++ + KY + +++L D++ I N+ YN
Sbjct: 31 FTKPVDPDEVPDYVTVIKQPMDLSSVISKIDLHKYLTVKDYLRDIDLICSNALEYN 86
Score = 40.8 bits (94), Expect = 0.007, Method: Composition-based stats.
Identities = 21/52 (40%), Positives = 34/52 (65%), Gaps = 3/52 (5%)
Query: 1065 TVSQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYN---GPGSQVL 1113
TV ++PMDL ++ K HKY + ++L DI+LI SN++ YN PG +++
Sbjct: 45 TVIKQPMDLSSVISKIDLHKYLTVKDYLRDIDLICSNALEYNPDRDPGDRLI 96
>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 = 51.6 bits (122), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 23/68 (33%), Positives = 39/68 (57%), Gaps = 2/68 (2%)
Query: 641 AWIFIKPVN--KKFFKDYYSVVQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLY 698
AW F +PV+ K DYY +++ PMD+ TI K+ +++ Y + E + D + +N +Y
Sbjct: 43 AWPFQQPVDAVKLNLPDYYKIIKTPMDMGTIKKRLENNYYWNAQECIQDFNTMFTNCYIY 102
Query: 699 NGPGSQVT 706
N PG +
Sbjct: 103 NKPGDDIV 110
Score = 48.5 bits (114), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 30/76 (39%), Positives = 43/76 (56%), Gaps = 4/76 (5%)
Query: 521 FSFPVNA-KL-VPDYYKIVTRPMDLQTIRENLRSKKYQSREEFLADVNQIVENSTLYN-- 576
F PV+A KL +PDYYKI+ PMD+ TI++ L + Y + +E + D N + N +YN
Sbjct: 46 FQQPVDAVKLNLPDYYKIIKTPMDMGTIKKRLENNYYWNAQECIQDFNTMFTNCYIYNKP 105
Query: 577 GAKSILTDAARRMLTL 592
G +L A L L
Sbjct: 106 GDDIVLMAEALEKLFL 121
Score = 37.7 bits (86), Expect = 0.051, Method: Compositional matrix adjust.
Identities = 14/49 (28%), Positives = 29/49 (59%)
Query: 1066 VSQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNGPGSQVLI 1114
+ + PMD+ TI K+ +++ Y + E + D + +N +YN PG +++
Sbjct: 63 IIKTPMDMGTIKKRLENNYYWNAQECIQDFNTMFTNCYIYNKPGDDIVL 111
>pdb|4HBW|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With A Quinazoline Ligand
Length = 127
Score = 51.6 bits (122), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 23/68 (33%), Positives = 39/68 (57%), Gaps = 2/68 (2%)
Query: 641 AWIFIKPVN--KKFFKDYYSVVQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLY 698
AW F +PV+ K DYY +++ PMD+ TI K+ +++ Y + E + D + +N +Y
Sbjct: 39 AWPFQQPVDAVKLNLPDYYKIIKTPMDMGTIKKRLENNYYWNAQECIQDFNTMFTNCYIY 98
Query: 699 NGPGSQVT 706
N PG +
Sbjct: 99 NKPGDDIV 106
Score = 48.1 bits (113), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 30/76 (39%), Positives = 43/76 (56%), Gaps = 4/76 (5%)
Query: 521 FSFPVNA-KL-VPDYYKIVTRPMDLQTIRENLRSKKYQSREEFLADVNQIVENSTLYN-- 576
F PV+A KL +PDYYKI+ PMD+ TI++ L + Y + +E + D N + N +YN
Sbjct: 42 FQQPVDAVKLNLPDYYKIIKTPMDMGTIKKRLENNYYWNAQECIQDFNTMFTNCYIYNKP 101
Query: 577 GAKSILTDAARRMLTL 592
G +L A L L
Sbjct: 102 GDDIVLMAEALEKLFL 117
Score = 37.7 bits (86), Expect = 0.054, Method: Compositional matrix adjust.
Identities = 14/49 (28%), Positives = 29/49 (59%)
Query: 1066 VSQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNGPGSQVLI 1114
+ + PMD+ TI K+ +++ Y + E + D + +N +YN PG +++
Sbjct: 59 IIKTPMDMGTIKKRLENNYYWNAQECIQDFNTMFTNCYIYNKPGDDIVL 107
>pdb|2DWW|A Chain A, Crystal Structure Of Bromodomain-Containing Protein 4
Length = 114
Score = 51.6 bits (122), Expect = 4e-06, Method: Composition-based stats.
Identities = 28/72 (38%), Positives = 38/72 (52%), Gaps = 2/72 (2%)
Query: 636 KNMADAWIFIKPVNKKFF--KDYYSVVQKPMDLETIGKKAQSHKYHSRYEFLADIELILS 693
K+ A AW F KPV+ + DY +++ P D TI K +S +Y EF AD+ L S
Sbjct: 23 KHAAYAWPFYKPVDVEALGLHDYCDIIKHPXDXSTIKSKLESREYRDAQEFGADVRLXFS 82
Query: 694 NSVLYNGPGSQV 705
N YN P +V
Sbjct: 83 NCYKYNPPDHEV 94
Score = 40.0 bits (92), Expect = 0.012, Method: Composition-based stats.
Identities = 20/58 (34%), Positives = 29/58 (50%)
Query: 532 DYYKIVTRPMDLQTIRENLRSKKYQSREEFLADVNQIVENSTLYNGAKSILTDAARRM 589
DY I+ P D TI+ L S++Y+ +EF ADV N YN + AR++
Sbjct: 44 DYCDIIKHPXDXSTIKSKLESREYRDAQEFGADVRLXFSNCYKYNPPDHEVVAXARKL 101
Score = 37.0 bits (84), Expect = 0.098, Method: Composition-based stats.
Identities = 18/48 (37%), Positives = 25/48 (52%)
Query: 1066 VSQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNGPGSQVL 1113
+ + P D TI K +S +Y EF AD+ L SN YN P +V+
Sbjct: 48 IIKHPXDXSTIKSKLESREYRDAQEFGADVRLXFSNCYKYNPPDHEVV 95
>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 = 51.6 bits (122), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 23/68 (33%), Positives = 39/68 (57%), Gaps = 2/68 (2%)
Query: 641 AWIFIKPVN--KKFFKDYYSVVQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLY 698
AW F +PV+ K DYY +++ PMD+ TI K+ +++ Y + E + D + +N +Y
Sbjct: 39 AWPFQQPVDAVKLNLPDYYKIIKTPMDMGTIKKRLENNYYWNAQECIQDFNTMFTNCYIY 98
Query: 699 NGPGSQVT 706
N PG +
Sbjct: 99 NKPGDDIV 106
Score = 48.1 bits (113), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 30/76 (39%), Positives = 43/76 (56%), Gaps = 4/76 (5%)
Query: 521 FSFPVNA-KL-VPDYYKIVTRPMDLQTIRENLRSKKYQSREEFLADVNQIVENSTLYN-- 576
F PV+A KL +PDYYKI+ PMD+ TI++ L + Y + +E + D N + N +YN
Sbjct: 42 FQQPVDAVKLNLPDYYKIIKTPMDMGTIKKRLENNYYWNAQECIQDFNTMFTNCYIYNKP 101
Query: 577 GAKSILTDAARRMLTL 592
G +L A L L
Sbjct: 102 GDDIVLMAEALEKLFL 117
Score = 37.7 bits (86), Expect = 0.055, Method: Compositional matrix adjust.
Identities = 14/49 (28%), Positives = 29/49 (59%)
Query: 1066 VSQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNGPGSQVLI 1114
+ + PMD+ TI K+ +++ Y + E + D + +N +YN PG +++
Sbjct: 59 IIKTPMDMGTIKKRLENNYYWNAQECIQDFNTMFTNCYIYNKPGDDIVL 107
>pdb|4DON|A Chain A, Brd4 Bromodomain 1 Complex With A Fragment
3,4-dihydro-3-methyl-2(1h)- Quinazolinon
Length = 145
Score = 51.6 bits (122), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 23/68 (33%), Positives = 39/68 (57%), Gaps = 2/68 (2%)
Query: 641 AWIFIKPVN--KKFFKDYYSVVQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLY 698
AW F +PV+ K DYY +++ PMD+ TI K+ +++ Y + E + D + +N +Y
Sbjct: 59 AWPFQQPVDAVKLNLPDYYKIIKTPMDMGTIKKRLENNYYWNAQECIQDFNTMFTNCYIY 118
Query: 699 NGPGSQVT 706
N PG +
Sbjct: 119 NKPGDDIV 126
Score = 48.5 bits (114), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 30/76 (39%), Positives = 43/76 (56%), Gaps = 4/76 (5%)
Query: 521 FSFPVNA-KL-VPDYYKIVTRPMDLQTIRENLRSKKYQSREEFLADVNQIVENSTLYN-- 576
F PV+A KL +PDYYKI+ PMD+ TI++ L + Y + +E + D N + N +YN
Sbjct: 62 FQQPVDAVKLNLPDYYKIIKTPMDMGTIKKRLENNYYWNAQECIQDFNTMFTNCYIYNKP 121
Query: 577 GAKSILTDAARRMLTL 592
G +L A L L
Sbjct: 122 GDDIVLMAEALEKLFL 137
Score = 37.7 bits (86), Expect = 0.057, Method: Compositional matrix adjust.
Identities = 14/49 (28%), Positives = 29/49 (59%)
Query: 1066 VSQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNGPGSQVLI 1114
+ + PMD+ TI K+ +++ Y + E + D + +N +YN PG +++
Sbjct: 79 IIKTPMDMGTIKKRLENNYYWNAQECIQDFNTMFTNCYIYNKPGDDIVL 127
>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 = 51.2 bits (121), Expect = 5e-06, Method: Composition-based stats.
Identities = 35/114 (30%), Positives = 56/114 (49%), Gaps = 3/114 (2%)
Query: 486 ANRRRTDPVVVLTSILEKILNEMRDMSQTEPNVKQFSFPVNAKLVPDYYKIVTRPMDLQT 545
+ +++T+ +V LT I ++ + F PV VPDYYKI+ PMDL T
Sbjct: 67 SEKKKTEGLVKLTPIDKRKCERLLLFLYCHEMSLAFQDPVPLT-VPDYYKIIKNPMDLST 125
Query: 546 IRENLRS--KKYQSREEFLADVNQIVENSTLYNGAKSILTDAARRMLTLCVELL 597
I++ L+ Y E+F+AD I +N +N S + +A ++ ELL
Sbjct: 126 IKKRLQEDYSMYSKPEDFVADFRLIFQNCAEFNEPDSEVANAGIKLENYFEELL 179
Score = 46.2 bits (108), Expect = 1e-04, Method: Composition-based stats.
Identities = 22/53 (41%), Positives = 30/53 (56%), Gaps = 2/53 (3%)
Query: 655 DYYSVVQKPMDLETIGKKAQS--HKYHSRYEFLADIELILSNSVLYNGPGSQV 705
DYY +++ PMDL TI K+ Q Y +F+AD LI N +N P S+V
Sbjct: 112 DYYKIIKNPMDLSTIKKRLQEDYSMYSKPEDFVADFRLIFQNCAEFNEPDSEV 164
Score = 36.6 bits (83), Expect = 0.12, Method: Composition-based stats.
Identities = 19/49 (38%), Positives = 26/49 (53%), Gaps = 2/49 (4%)
Query: 1066 VSQKPMDLETIGKKAQS--HKYHSRYEFLADIELILSNSVLYNGPGSQV 1112
+ + PMDL TI K+ Q Y +F+AD LI N +N P S+V
Sbjct: 116 IIKNPMDLSTIKKRLQEDYSMYSKPEDFVADFRLIFQNCAEFNEPDSEV 164
>pdb|2DKW|A Chain A, Solution Structure Of The Bromodomain Of Human Protein
Kiaa1240
Length = 131
Score = 51.2 bits (121), Expect = 5e-06, Method: Composition-based stats.
Identities = 28/66 (42%), Positives = 40/66 (60%), Gaps = 8/66 (12%)
Query: 643 IFIKPVNKKFFKDYYSVVQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYN--- 699
IF KPV+ DY V+++PMDL T+ K H Y + +FL DI+LI SN++ YN
Sbjct: 32 IFSKPVS-----DYLEVIKEPMDLSTVITKIDKHNYLTAKDFLKDIDLICSNALEYNPDK 86
Query: 700 GPGSQV 705
PG ++
Sbjct: 87 DPGDKI 92
Score = 43.1 bits (100), Expect = 0.001, Method: Composition-based stats.
Identities = 22/72 (30%), Positives = 41/72 (56%), Gaps = 2/72 (2%)
Query: 508 MRDMSQTEPNVKQFSFPVNAKLVPDYYKIVTRPMDLQTIRENLRSKKYQSREEFLADVNQ 567
+RD+++ K+F+ + +K V DY +++ PMDL T+ + Y + ++FL D++
Sbjct: 17 LRDVTKRLATDKRFN--IFSKPVSDYLEVIKEPMDLSTVITKIDKHNYLTAKDFLKDIDL 74
Query: 568 IVENSTLYNGAK 579
I N+ YN K
Sbjct: 75 ICSNALEYNPDK 86
Score = 42.0 bits (97), Expect = 0.003, Method: Composition-based stats.
Identities = 21/51 (41%), Positives = 32/51 (62%), Gaps = 3/51 (5%)
Query: 1066 VSQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYN---GPGSQVL 1113
V ++PMDL T+ K H Y + +FL DI+LI SN++ YN PG +++
Sbjct: 43 VIKEPMDLSTVITKIDKHNYLTAKDFLKDIDLICSNALEYNPDKDPGDKII 93
>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 = 50.8 bits (120), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 25/60 (41%), Positives = 40/60 (66%), Gaps = 4/60 (6%)
Query: 520 QFSFPVNAKLVPDYYKIVTRPMDLQTIRENLR---SKKYQSREEFLADVNQIVENSTLYN 576
+F PV A +P+YYKI+ +PMDL T+++ L+ S+ YQ ++F+ADV I +N +N
Sbjct: 101 EFQEPVPAS-IPNYYKIIKKPMDLSTVKKKLQKKHSQHYQIPDDFVADVRLIFKNCERFN 159
Score = 42.4 bits (98), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 20/48 (41%), Positives = 29/48 (60%), Gaps = 3/48 (6%)
Query: 655 DYYSVVQKPMDLETIGKKAQ---SHKYHSRYEFLADIELILSNSVLYN 699
+YY +++KPMDL T+ KK Q S Y +F+AD+ LI N +N
Sbjct: 112 NYYKIIKKPMDLSTVKKKLQKKHSQHYQIPDDFVADVRLIFKNCERFN 159
Score = 35.0 bits (79), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 18/44 (40%), Positives = 25/44 (56%), Gaps = 3/44 (6%)
Query: 1066 VSQKPMDLETIGKKAQ---SHKYHSRYEFLADIELILSNSVLYN 1106
+ +KPMDL T+ KK Q S Y +F+AD+ LI N +N
Sbjct: 116 IIKKPMDLSTVKKKLQKKHSQHYQIPDDFVADVRLIFKNCERFN 159
>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 = 50.8 bits (120), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 27/58 (46%), Positives = 36/58 (62%), Gaps = 2/58 (3%)
Query: 521 FSFPVNA-KL-VPDYYKIVTRPMDLQTIRENLRSKKYQSREEFLADVNQIVENSTLYN 576
F PV+A KL +PDYY I+ PMDL TI++ L +K Y+ E + D N + N LYN
Sbjct: 35 FQQPVDAVKLKLPDYYTIIKTPMDLNTIKKRLENKYYEKASECIEDFNTMFSNCYLYN 92
Score = 49.7 bits (117), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 24/68 (35%), Positives = 37/68 (54%), Gaps = 2/68 (2%)
Query: 641 AWIFIKPVNKKFFK--DYYSVVQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLY 698
+W F +PV+ K DYY++++ PMDL TI K+ ++ Y E + D + SN LY
Sbjct: 32 SWPFQQPVDAVKLKLPDYYTIIKTPMDLNTIKKRLENKYYEKASECIEDFNTMFSNCYLY 91
Query: 699 NGPGSQVT 706
N G +
Sbjct: 92 NKTGDDIV 99
Score = 38.9 bits (89), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 27/50 (54%)
Query: 1065 TVSQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNGPGSQVLI 1114
T+ + PMDL TI K+ ++ Y E + D + SN LYN G +++
Sbjct: 51 TIIKTPMDLNTIKKRLENKYYEKASECIEDFNTMFSNCYLYNKTGDDIVV 100
>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 = 50.8 bits (120), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 29/97 (29%), Positives = 50/97 (51%), Gaps = 9/97 (9%)
Query: 502 EKILNEMRDMSQTEPNVKQFSFPVNAKL--VPDYYKIVTRPMDLQTIRENLRSKKYQSRE 559
+ ++ + + + +P F PV+ +L +PDY+ IV PMDL TI+ L + +YQ
Sbjct: 16 QALMPTLEALYRQDPESLPFRQPVDPQLLGIPDYFDIVKNPMDLSTIKRKLDTGQYQEPW 75
Query: 560 EFLADVNQIVENSTLYNGAKSILTDAARRMLTLCVEL 596
+++ DV + N+ LYN S R+ C +L
Sbjct: 76 QYVDDVWLMFNNAWLYNRKTS-------RVYKFCSKL 105
Score = 48.9 bits (115), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 22/64 (34%), Positives = 40/64 (62%), Gaps = 2/64 (3%)
Query: 644 FIKPVNKKFF--KDYYSVVQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNGP 701
F +PV+ + DY+ +V+ PMDL TI +K + +Y ++++ D+ L+ +N+ LYN
Sbjct: 35 FRQPVDPQLLGIPDYFDIVKNPMDLSTIKRKLDTGQYQEPWQYVDDVWLMFNNAWLYNRK 94
Query: 702 GSQV 705
S+V
Sbjct: 95 TSRV 98
Score = 39.3 bits (90), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 30/47 (63%)
Query: 1066 VSQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNGPGSQV 1112
+ + PMDL TI +K + +Y ++++ D+ L+ +N+ LYN S+V
Sbjct: 52 IVKNPMDLSTIKRKLDTGQYQEPWQYVDDVWLMFNNAWLYNRKTSRV 98
>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 = 50.4 bits (119), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 29/97 (29%), Positives = 50/97 (51%), Gaps = 9/97 (9%)
Query: 502 EKILNEMRDMSQTEPNVKQFSFPVNAKL--VPDYYKIVTRPMDLQTIRENLRSKKYQSRE 559
+ ++ + + + +P F PV+ +L +PDY+ IV PMDL TI+ L + +YQ
Sbjct: 14 QALMPTLEALYRQDPESLPFRQPVDPQLLGIPDYFDIVKNPMDLSTIKRKLDTGQYQEPW 73
Query: 560 EFLADVNQIVENSTLYNGAKSILTDAARRMLTLCVEL 596
+++ DV + N+ LYN S R+ C +L
Sbjct: 74 QYVDDVWLMFNNAWLYNRKTS-------RVYKFCSKL 103
Score = 48.9 bits (115), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 22/64 (34%), Positives = 40/64 (62%), Gaps = 2/64 (3%)
Query: 644 FIKPVNKKFF--KDYYSVVQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNGP 701
F +PV+ + DY+ +V+ PMDL TI +K + +Y ++++ D+ L+ +N+ LYN
Sbjct: 33 FRQPVDPQLLGIPDYFDIVKNPMDLSTIKRKLDTGQYQEPWQYVDDVWLMFNNAWLYNRK 92
Query: 702 GSQV 705
S+V
Sbjct: 93 TSRV 96
Score = 39.7 bits (91), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 30/47 (63%)
Query: 1066 VSQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNGPGSQV 1112
+ + PMDL TI +K + +Y ++++ D+ L+ +N+ LYN S+V
Sbjct: 50 IVKNPMDLSTIKRKLDTGQYQEPWQYVDDVWLMFNNAWLYNRKTSRV 96
>pdb|3I3J|A Chain A, Crystal Structure Of The Bromodomain Of Human Ep300
pdb|3I3J|B Chain B, Crystal Structure Of The Bromodomain Of Human Ep300
pdb|3I3J|C Chain C, Crystal Structure Of The Bromodomain Of Human Ep300
pdb|3I3J|D Chain D, Crystal Structure Of The Bromodomain Of Human Ep300
pdb|3I3J|E Chain E, Crystal Structure Of The Bromodomain Of Human Ep300
pdb|3I3J|F Chain F, Crystal Structure Of The Bromodomain Of Human Ep300
pdb|3I3J|G Chain G, Crystal Structure Of The Bromodomain Of Human Ep300
pdb|3I3J|H Chain H, Crystal Structure Of The Bromodomain Of Human Ep300
pdb|3I3J|I Chain I, Crystal Structure Of The Bromodomain Of Human Ep300
pdb|3I3J|J Chain J, Crystal Structure Of The Bromodomain Of Human Ep300
pdb|3I3J|K Chain K, Crystal Structure Of The Bromodomain Of Human Ep300
pdb|3I3J|L Chain L, Crystal Structure Of The Bromodomain Of Human Ep300
Length = 124
Score = 50.1 bits (118), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 25/81 (30%), Positives = 45/81 (55%), Gaps = 2/81 (2%)
Query: 502 EKILNEMRDMSQTEPNVKQFSFPVNAKL--VPDYYKIVTRPMDLQTIRENLRSKKYQSRE 559
+ ++ + + + +P F PV+ +L +PDY+ IV PMDL TI+ L + +YQ
Sbjct: 19 QALMPTLEALYRQDPESLPFRQPVDPQLLGIPDYFDIVKSPMDLSTIKRKLDTGQYQEPW 78
Query: 560 EFLADVNQIVENSTLYNGAKS 580
+++ D+ + N+ LYN S
Sbjct: 79 QYVDDIWLMFNNAWLYNRKTS 99
Score = 49.3 bits (116), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 23/64 (35%), Positives = 40/64 (62%), Gaps = 2/64 (3%)
Query: 644 FIKPVNKKFF--KDYYSVVQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNGP 701
F +PV+ + DY+ +V+ PMDL TI +K + +Y ++++ DI L+ +N+ LYN
Sbjct: 38 FRQPVDPQLLGIPDYFDIVKSPMDLSTIKRKLDTGQYQEPWQYVDDIWLMFNNAWLYNRK 97
Query: 702 GSQV 705
S+V
Sbjct: 98 TSRV 101
Score = 39.7 bits (91), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 30/47 (63%)
Query: 1066 VSQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNGPGSQV 1112
+ + PMDL TI +K + +Y ++++ DI L+ +N+ LYN S+V
Sbjct: 55 IVKSPMDLSTIKRKLDTGQYQEPWQYVDDIWLMFNNAWLYNRKTSRV 101
>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 = 49.7 bits (117), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 27/70 (38%), Positives = 39/70 (55%), Gaps = 2/70 (2%)
Query: 530 VPDYYKIVTRPMDLQTIRENLRS--KKYQSREEFLADVNQIVENSTLYNGAKSILTDAAR 587
VPDYYKI+ PMDL TI++ L+ Y E+F+AD I +N +N S + +A
Sbjct: 49 VPDYYKIIKNPMDLSTIKKRLQEDYSMYSKPEDFVADFRLIFQNCAEFNEPDSEVANAGI 108
Query: 588 RMLTLCVELL 597
++ ELL
Sbjct: 109 KLENYFEELL 118
Score = 45.8 bits (107), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 23/54 (42%), Positives = 33/54 (61%), Gaps = 2/54 (3%)
Query: 655 DYYSVVQKPMDLETIGKKAQS-HKYHSRYE-FLADIELILSNSVLYNGPGSQVT 706
DYY +++ PMDL TI K+ Q + +S+ E F+AD LI N +N P S+V
Sbjct: 51 DYYKIIKNPMDLSTIKKRLQEDYSMYSKPEDFVADFRLIFQNCAEFNEPDSEVA 104
Score = 36.2 bits (82), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 20/49 (40%), Positives = 29/49 (59%), Gaps = 2/49 (4%)
Query: 1066 VSQKPMDLETIGKKAQS-HKYHSRYE-FLADIELILSNSVLYNGPGSQV 1112
+ + PMDL TI K+ Q + +S+ E F+AD LI N +N P S+V
Sbjct: 55 IIKNPMDLSTIKKRLQEDYSMYSKPEDFVADFRLIFQNCAEFNEPDSEV 103
>pdb|3MB3|A Chain A, Crystal Structure Of The Second Bromodomain Of Pleckstrin
Homology Domain Interacting Protein (Phip)
Length = 135
Score = 49.7 bits (117), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 29/78 (37%), Positives = 39/78 (50%), Gaps = 4/78 (5%)
Query: 502 EKILNEMRDMSQTEPNVKQFSFPVNAKLVPDYYKIVTRPMDLQTIRENLRSKKYQSREEF 561
E++LN + +EP F PV+ PDY I+ PMD T+RE L + Y+S E
Sbjct: 27 EELLNLIFQCEDSEP----FRQPVDLLEYPDYRDIIDTPMDFATVRETLEAGNYESPMEL 82
Query: 562 LADVNQIVENSTLYNGAK 579
DV I NS Y +K
Sbjct: 83 CKDVRLIFSNSKAYTPSK 100
Score = 40.8 bits (94), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 21/66 (31%), Positives = 33/66 (50%)
Query: 633 NKLKNMADAWIFIKPVNKKFFKDYYSVVQKPMDLETIGKKAQSHKYHSRYEFLADIELIL 692
N + D+ F +PV+ + DY ++ PMD T+ + ++ Y S E D+ LI
Sbjct: 31 NLIFQCEDSEPFRQPVDLLEYPDYRDIIDTPMDFATVRETLEAGNYESPMELCKDVRLIF 90
Query: 693 SNSVLY 698
SNS Y
Sbjct: 91 SNSKAY 96
Score = 30.8 bits (68), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 14/36 (38%), Positives = 19/36 (52%)
Query: 1070 PMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLY 1105
PMD T+ + ++ Y S E D+ LI SNS Y
Sbjct: 61 PMDFATVRETLEAGNYESPMELCKDVRLIFSNSKAY 96
>pdb|3GQU|A Chain A, Pyrococcus Horikoshii Nop5 Rna Binding Domain
pdb|3GQX|B Chain B, Pyrococcus Horikoshii Nop5 Rna Binding Domain From A Twinned
Crystal Form
pdb|3GQX|A Chain A, Pyrococcus Horikoshii Nop5 Rna Binding Domain From A Twinned
Crystal Form
Length = 169
Score = 49.3 bits (116), Expect = 2e-05, Method: Composition-based stats.
Identities = 30/101 (29%), Positives = 47/101 (46%), Gaps = 13/101 (12%)
Query: 1341 EYVESRMTYIAPNLSAIVGASTAAKMMGVAGGLSRLSKMPGVAGGLSRLSKMPACNILLQ 1400
+Y++ M +APNL A+VGA A+++ +AGGL L+ +P+ I +
Sbjct: 24 DYIDKAMDDVAPNLKALVGAKLGARLI-------------SLAGGLKELAMLPSSTIQVL 70
Query: 1401 GAQKKLLSGFSQTSVLPHTGFVYYSSLVQDYPADMRRKAAR 1441
GA+K L + P G +Y + P R K AR
Sbjct: 71 GAEKALFRHLRTGAKPPKHGVIYQYPAINRSPWWQRGKIAR 111
>pdb|1NT2|B Chain B, Crystal Structure Of FibrillarinNOP5P COMPLEX
Length = 258
Score = 49.3 bits (116), Expect = 2e-05, Method: Composition-based stats.
Identities = 34/117 (29%), Positives = 53/117 (45%), Gaps = 18/117 (15%)
Query: 1331 ELNQFKTSIFEYVESRMTYIAPNLSAIVGASTAAKMMGVAGGLSRLSKMPGVAGGLSRLS 1390
EL + + + +E M IAPN++ +VGA AAK+ L R AG + RL
Sbjct: 119 ELRELRRDVEREIEEVMEKIAPNMTELVGAKVAAKL------LER-------AGSMERLV 165
Query: 1391 KMPACNILLQGAQKKLLSGFSQTSVLPHT-----GFVYYSSLVQDYPADMRRKAARL 1442
++PA I + GA+K L F++ G ++ ++ P R K AR
Sbjct: 166 RLPASKIQVIGAEKSLYKAFARMKKGKKAKIPKHGIIFLHPFIRTLPKAKRGKMARF 222
>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 = 48.5 bits (114), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 22/68 (32%), Positives = 38/68 (55%), Gaps = 2/68 (2%)
Query: 641 AWIFIKPVN--KKFFKDYYSVVQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLY 698
AW F +PV+ K DY+ +++ PMD+ TI K+ +++ Y S E + D + +N +Y
Sbjct: 35 AWPFYQPVDAIKLNLPDYHKIIKNPMDMGTIKKRLENNYYWSASECMQDFNTMFTNCYIY 94
Query: 699 NGPGSQVT 706
N P +
Sbjct: 95 NKPTDDIV 102
Score = 47.0 bits (110), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 25/58 (43%), Positives = 36/58 (62%), Gaps = 2/58 (3%)
Query: 521 FSFPVNA-KL-VPDYYKIVTRPMDLQTIRENLRSKKYQSREEFLADVNQIVENSTLYN 576
F PV+A KL +PDY+KI+ PMD+ TI++ L + Y S E + D N + N +YN
Sbjct: 38 FYQPVDAIKLNLPDYHKIIKNPMDMGTIKKRLENNYYWSASECMQDFNTMFTNCYIYN 95
Score = 36.2 bits (82), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 14/49 (28%), Positives = 28/49 (57%)
Query: 1066 VSQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNGPGSQVLI 1114
+ + PMD+ TI K+ +++ Y S E + D + +N +YN P +++
Sbjct: 55 IIKNPMDMGTIKKRLENNYYWSASECMQDFNTMFTNCYIYNKPTDDIVL 103
>pdb|2L5E|A Chain A, Complex Between Bd1 Of Brd3 And Gata-1 C-Tail
Length = 128
Score = 48.1 bits (113), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 22/68 (32%), Positives = 38/68 (55%), Gaps = 2/68 (2%)
Query: 641 AWIFIKPVN--KKFFKDYYSVVQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLY 698
AW F +PV+ K DY+ +++ PMD+ TI K+ +++ Y S E + D + +N +Y
Sbjct: 37 AWPFYQPVDAIKLNLPDYHKIIKNPMDMGTIKKRLENNYYWSASECMQDFNTMFTNCYIY 96
Query: 699 NGPGSQVT 706
N P +
Sbjct: 97 NKPTDDIV 104
Score = 47.0 bits (110), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 25/58 (43%), Positives = 36/58 (62%), Gaps = 2/58 (3%)
Query: 521 FSFPVNA-KL-VPDYYKIVTRPMDLQTIRENLRSKKYQSREEFLADVNQIVENSTLYN 576
F PV+A KL +PDY+KI+ PMD+ TI++ L + Y S E + D N + N +YN
Sbjct: 40 FYQPVDAIKLNLPDYHKIIKNPMDMGTIKKRLENNYYWSASECMQDFNTMFTNCYIYN 97
Score = 35.8 bits (81), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 14/49 (28%), Positives = 28/49 (57%)
Query: 1066 VSQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNGPGSQVLI 1114
+ + PMD+ TI K+ +++ Y S E + D + +N +YN P +++
Sbjct: 57 IIKNPMDMGTIKKRLENNYYWSASECMQDFNTMFTNCYIYNKPTDDIVL 105
>pdb|2YW5|A Chain A, Solution Structure Of The Bromodomain From Human
Bromodomain Containing Protein 3
Length = 138
Score = 48.1 bits (113), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 22/68 (32%), Positives = 38/68 (55%), Gaps = 2/68 (2%)
Query: 641 AWIFIKPVN--KKFFKDYYSVVQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLY 698
AW F +PV+ K DY+ +++ PMD+ TI K+ +++ Y S E + D + +N +Y
Sbjct: 39 AWPFYQPVDAIKLNLPDYHKIIKNPMDMGTIKKRLENNYYWSASECMQDFNTMFTNCYIY 98
Query: 699 NGPGSQVT 706
N P +
Sbjct: 99 NKPTDDIV 106
Score = 47.0 bits (110), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 25/58 (43%), Positives = 36/58 (62%), Gaps = 2/58 (3%)
Query: 521 FSFPVNA-KL-VPDYYKIVTRPMDLQTIRENLRSKKYQSREEFLADVNQIVENSTLYN 576
F PV+A KL +PDY+KI+ PMD+ TI++ L + Y S E + D N + N +YN
Sbjct: 42 FYQPVDAIKLNLPDYHKIIKNPMDMGTIKKRLENNYYWSASECMQDFNTMFTNCYIYN 99
Score = 35.8 bits (81), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 14/49 (28%), Positives = 28/49 (57%)
Query: 1066 VSQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNGPGSQVLI 1114
+ + PMD+ TI K+ +++ Y S E + D + +N +YN P +++
Sbjct: 59 IIKNPMDMGTIKKRLENNYYWSASECMQDFNTMFTNCYIYNKPTDDIVL 107
>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 = 47.4 bits (111), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 27/79 (34%), Positives = 45/79 (56%), Gaps = 3/79 (3%)
Query: 528 KLVPDYYKIVTRPMDLQTIRENLRSKKYQSREEFLADVNQIVENSTLYNGAKSILTDAAR 587
K PDYY+ + P+ LQ IR L++++Y++ + D+N + EN+ YN S + +
Sbjct: 51 KKYPDYYQQIKMPISLQQIRTKLKNQEYETLDHLECDLNLMFENAKRYNVPNSAIY---K 107
Query: 588 RMLTLCVELLGKKEELLMR 606
R+L L + KK+EL R
Sbjct: 108 RVLKLQQVMQAKKKELARR 126
Score = 37.0 bits (84), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 30/56 (53%)
Query: 650 KKFFKDYYSVVQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNGPGSQV 705
KK + DYY ++ P+ L+ I K ++ +Y + D+ L+ N+ YN P S +
Sbjct: 50 KKKYPDYYQQIKMPISLQQIRTKLKNQEYETLDHLECDLNLMFENAKRYNVPNSAI 105
>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 = 47.4 bits (111), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 24/84 (28%), Positives = 50/84 (59%), Gaps = 1/84 (1%)
Query: 623 LSFIFDDIVNNKLKNMAD-AWIFIKPVNKKFFKDYYSVVQKPMDLETIGKKAQSHKYHSR 681
++ I D ++N K + + +FI+ ++K +YY +++KP+D + I ++ ++HKY S
Sbjct: 18 MNAIIDTVINYKDSSGRQLSEVFIQLPSRKELPEYYELIRKPVDFKKIKERIRNHKYRSL 77
Query: 682 YEFLADIELILSNSVLYNGPGSQV 705
+ D+ L+ N+ +N GSQ+
Sbjct: 78 GDLEKDVMLLCHNAQTFNLEGSQI 101
Score = 40.8 bits (94), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 32/49 (65%)
Query: 528 KLVPDYYKIVTRPMDLQTIRENLRSKKYQSREEFLADVNQIVENSTLYN 576
K +P+YY+++ +P+D + I+E +R+ KY+S + DV + N+ +N
Sbjct: 47 KELPEYYELIRKPVDFKKIKERIRNHKYRSLGDLEKDVMLLCHNAQTFN 95
Score = 36.2 bits (82), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 36/62 (58%), Gaps = 4/62 (6%)
Query: 1068 QKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNGPGSQVLINIWWHFIEIKSSF 1127
+KP+D + I ++ ++HKY S + D+ L+ N+ +N GSQ I+ I ++S F
Sbjct: 57 RKPVDFKKIKERIRNHKYRSLGDLEKDVMLLCHNAQTFNLEGSQ----IYEDSIVLQSVF 112
Query: 1128 KT 1129
K+
Sbjct: 113 KS 114
>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 = 47.4 bits (111), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 24/58 (41%), Positives = 36/58 (62%), Gaps = 2/58 (3%)
Query: 521 FSFPVNA-KL-VPDYYKIVTRPMDLQTIRENLRSKKYQSREEFLADVNQIVENSTLYN 576
F PV+A KL +PDY+KI+ +PMD+ TI+ L + Y + E + D N + N +YN
Sbjct: 53 FRQPVDAVKLGLPDYHKIIKQPMDMGTIKRRLENNYYWAASECMQDFNTMFTNCYIYN 110
Score = 45.8 bits (107), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 20/68 (29%), Positives = 39/68 (57%), Gaps = 2/68 (2%)
Query: 641 AWIFIKPVN--KKFFKDYYSVVQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLY 698
AW F +PV+ K DY+ ++++PMD+ TI ++ +++ Y + E + D + +N +Y
Sbjct: 50 AWPFRQPVDAVKLGLPDYHKIIKQPMDMGTIKRRLENNYYWAASECMQDFNTMFTNCYIY 109
Query: 699 NGPGSQVT 706
N P +
Sbjct: 110 NKPTDDIV 117
Score = 33.9 bits (76), Expect = 0.79, Method: Compositional matrix adjust.
Identities = 12/49 (24%), Positives = 29/49 (59%)
Query: 1066 VSQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNGPGSQVLI 1114
+ ++PMD+ TI ++ +++ Y + E + D + +N +YN P +++
Sbjct: 70 IIKQPMDMGTIKRRLENNYYWAASECMQDFNTMFTNCYIYNKPTDDIVL 118
>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 = 47.0 bits (110), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 24/58 (41%), Positives = 36/58 (62%), Gaps = 2/58 (3%)
Query: 521 FSFPVNA-KL-VPDYYKIVTRPMDLQTIRENLRSKKYQSREEFLADVNQIVENSTLYN 576
F PV+A KL +PDY+KI+ +PMD+ TI+ L + Y + E + D N + N +YN
Sbjct: 53 FRQPVDAVKLGLPDYHKIIKQPMDMGTIKRRLENNYYWAASECMQDFNTMFTNCYIYN 110
Score = 45.8 bits (107), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 20/68 (29%), Positives = 39/68 (57%), Gaps = 2/68 (2%)
Query: 641 AWIFIKPVN--KKFFKDYYSVVQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLY 698
AW F +PV+ K DY+ ++++PMD+ TI ++ +++ Y + E + D + +N +Y
Sbjct: 50 AWPFRQPVDAVKLGLPDYHKIIKQPMDMGTIKRRLENNYYWAASECMQDFNTMFTNCYIY 109
Query: 699 NGPGSQVT 706
N P +
Sbjct: 110 NKPTDDIV 117
Score = 33.9 bits (76), Expect = 0.79, Method: Compositional matrix adjust.
Identities = 12/49 (24%), Positives = 29/49 (59%)
Query: 1066 VSQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNGPGSQVLI 1114
+ ++PMD+ TI ++ +++ Y + E + D + +N +YN P +++
Sbjct: 70 IIKQPMDMGTIKRRLENNYYWAASECMQDFNTMFTNCYIYNKPTDDIVL 118
>pdb|3FKM|X Chain X, Plasmodium Falciparum Bromodomain-Containing Protein
Pf10_0328
Length = 166
Score = 45.8 bits (107), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 32/62 (51%)
Query: 530 VPDYYKIVTRPMDLQTIRENLRSKKYQSREEFLADVNQIVENSTLYNGAKSILTDAARRM 589
PDYY ++ P I+ L+ +Y EF+ DV I +N +LYN + S++ + +
Sbjct: 53 CPDYYDVIKNPXSFSCIKTKLKKGQYAYPSEFVKDVQLIFDNCSLYNTSNSVVAITGKNI 112
Query: 590 LT 591
T
Sbjct: 113 ET 114
Score = 40.0 bits (92), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 19/52 (36%), Positives = 26/52 (50%)
Query: 655 DYYSVVQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNGPGSQVT 706
DYY V++ P I K + +Y EF+ D++LI N LYN S V
Sbjct: 55 DYYDVIKNPXSFSCIKTKLKKGQYAYPSEFVKDVQLIFDNCSLYNTSNSVVA 106
Score = 31.6 bits (70), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 23/49 (46%)
Query: 1066 VSQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNGPGSQVLI 1114
V + P I K + +Y EF+ D++LI N LYN S V I
Sbjct: 59 VIKNPXSFSCIKTKLKKGQYAYPSEFVKDVQLIFDNCSLYNTSNSVVAI 107
>pdb|2R0Y|A Chain A, Structure Of The Rsc4 Tandem Bromodomain In Complex With
An Acetylated H3 Peptide
Length = 311
Score = 45.4 bits (106), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 46/201 (22%), Positives = 86/201 (42%), Gaps = 36/201 (17%)
Query: 528 KLVPDYYKIVTRPMDLQTIRENLRSKKYQSRE---EFLADVNQIVENSTLYNGAKSILTD 584
K P YY + +P + I+ S+ Y+ + FL DV + +N YN S++
Sbjct: 58 KFHPQYYYKIQQPXSINEIK----SRDYEYEDGPSNFLLDVELLTKNCQAYNEYDSLIVK 113
Query: 585 AARRMLTLC-VELLGKKE---------ELLMRLEKAINPLLDDNDQVALSFIFDDIVNNK 634
+ +++ L E+L K E+ +L +N L+D ++ +N
Sbjct: 114 NSXQVVXLIEFEVLKAKNLKRNYLINSEVKAKLLHYLNKLVDATEKK---------INQA 164
Query: 635 L------KNMADAWIFIKP----VNKKFFKDYYSVVQKPMDLETIGKKAQSHKYHSRYEF 684
L KN+ D +P V+K +YY +V P L + + + +Y Y+F
Sbjct: 165 LLGASSPKNLDDKVKLSEPFXELVDKDELPEYYEIVHSPXALSIVKQNLEIGQYSKIYDF 224
Query: 685 LADIELILSNSVLYNGPGSQV 705
+ D L+ N+ ++N P + +
Sbjct: 225 IIDXLLVFQNAHIFNDPSALI 245
>pdb|2R0S|A Chain A, Crystal Structure Of The Rsc4 Tandem Bromodomain
Length = 285
Score = 45.1 bits (105), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 46/201 (22%), Positives = 86/201 (42%), Gaps = 36/201 (17%)
Query: 528 KLVPDYYKIVTRPMDLQTIRENLRSKKYQSRE---EFLADVNQIVENSTLYNGAKSILTD 584
K P YY + +P + I+ S+ Y+ + FL DV + +N YN S++
Sbjct: 52 KFHPQYYYKIQQPXSINEIK----SRDYEYEDGPSNFLLDVELLTKNCQAYNEYDSLIVK 107
Query: 585 AARRMLTLC-VELLGKKE---------ELLMRLEKAINPLLDDNDQVALSFIFDDIVNNK 634
+ +++ L E+L K E+ +L +N L+D ++ +N
Sbjct: 108 NSXQVVXLIEFEVLKAKNLKRNYLINSEVKAKLLHYLNKLVDATEKK---------INQA 158
Query: 635 L------KNMADAWIFIKP----VNKKFFKDYYSVVQKPMDLETIGKKAQSHKYHSRYEF 684
L KN+ D +P V+K +YY +V P L + + + +Y Y+F
Sbjct: 159 LLGASSPKNLDDKVKLSEPFXELVDKDELPEYYEIVHSPXALSIVKQNLEIGQYSKIYDF 218
Query: 685 LADIELILSNSVLYNGPGSQV 705
+ D L+ N+ ++N P + +
Sbjct: 219 IIDXLLVFQNAHIFNDPSALI 239
>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 = 44.7 bits (104), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 26/78 (33%), Positives = 38/78 (48%), Gaps = 4/78 (5%)
Query: 502 EKILNEMRDMSQTEPNVKQFSFPVNAKLVPDYYKIVTRPMDLQTIRENLRSKKYQSREEF 561
++++N + +EP F PV+ PDY I+ PMD T+RE L + Y S EF
Sbjct: 16 KELVNLIFQCEDSEP----FRQPVDLVEYPDYRDIIDTPMDFGTVRETLDAGNYDSPLEF 71
Query: 562 LADVNQIVENSTLYNGAK 579
D+ I N+ Y K
Sbjct: 72 CKDIRLIFSNAKAYTPNK 89
Score = 41.2 bits (95), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 21/59 (35%), Positives = 31/59 (52%)
Query: 640 DAWIFIKPVNKKFFKDYYSVVQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLY 698
D+ F +PV+ + DY ++ PMD T+ + + Y S EF DI LI SN+ Y
Sbjct: 27 DSEPFRQPVDLVEYPDYRDIIDTPMDFGTVRETLDAGNYDSPLEFCKDIRLIFSNAKAY 85
Score = 32.0 bits (71), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 15/36 (41%), Positives = 19/36 (52%)
Query: 1070 PMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLY 1105
PMD T+ + + Y S EF DI LI SN+ Y
Sbjct: 50 PMDFGTVRETLDAGNYDSPLEFCKDIRLIFSNAKAY 85
>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 = 44.7 bits (104), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 39/63 (61%)
Query: 643 IFIKPVNKKFFKDYYSVVQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNGPG 702
+FI+ ++K +YY +++KP+D + I ++ ++HKY S + D+ L+ N+ +N G
Sbjct: 38 VFIQLPSRKELPEYYELIRKPVDFKKIKERIRNHKYRSLNDLEKDVMLLCQNAQTFNLEG 97
Query: 703 SQV 705
S +
Sbjct: 98 SLI 100
Score = 42.4 bits (98), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 36/55 (65%)
Query: 528 KLVPDYYKIVTRPMDLQTIRENLRSKKYQSREEFLADVNQIVENSTLYNGAKSIL 582
K +P+YY+++ +P+D + I+E +R+ KY+S + DV + +N+ +N S++
Sbjct: 46 KELPEYYELIRKPVDFKKIKERIRNHKYRSLNDLEKDVMLLCQNAQTFNLEGSLI 100
Score = 32.7 bits (73), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 14/45 (31%), Positives = 27/45 (60%)
Query: 1068 QKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNGPGSQV 1112
+KP+D + I ++ ++HKY S + D+ L+ N+ +N GS +
Sbjct: 56 RKPVDFKKIKERIRNHKYRSLNDLEKDVMLLCQNAQTFNLEGSLI 100
>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 = 44.3 bits (103), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 39/63 (61%)
Query: 643 IFIKPVNKKFFKDYYSVVQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNGPG 702
+FI+ ++K +YY +++KP+D + I ++ ++HKY S + D+ L+ N+ +N G
Sbjct: 39 VFIQLPSRKELPEYYELIRKPVDFKKIKERIRNHKYRSLNDLEKDVMLLCQNAQTFNLEG 98
Query: 703 SQV 705
S +
Sbjct: 99 SLI 101
Score = 42.0 bits (97), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 36/55 (65%)
Query: 528 KLVPDYYKIVTRPMDLQTIRENLRSKKYQSREEFLADVNQIVENSTLYNGAKSIL 582
K +P+YY+++ +P+D + I+E +R+ KY+S + DV + +N+ +N S++
Sbjct: 47 KELPEYYELIRKPVDFKKIKERIRNHKYRSLNDLEKDVMLLCQNAQTFNLEGSLI 101
Score = 32.7 bits (73), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 14/45 (31%), Positives = 27/45 (60%)
Query: 1068 QKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNGPGSQV 1112
+KP+D + I ++ ++HKY S + D+ L+ N+ +N GS +
Sbjct: 57 RKPVDFKKIKERIRNHKYRSLNDLEKDVMLLCQNAQTFNLEGSLI 101
>pdb|2H60|A Chain A, Solution Structure Of Human Brg1 Bromodomain
Length = 128
Score = 44.3 bits (103), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 39/63 (61%)
Query: 643 IFIKPVNKKFFKDYYSVVQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNGPG 702
+FI+ ++K +YY +++KP+D + I ++ ++HKY S + D+ L+ N+ +N G
Sbjct: 34 VFIQLPSRKELPEYYELIRKPVDFKKIKERIRNHKYRSLNDLEKDVMLLCQNAQTFNLEG 93
Query: 703 SQV 705
S +
Sbjct: 94 SLI 96
Score = 42.0 bits (97), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 36/55 (65%)
Query: 528 KLVPDYYKIVTRPMDLQTIRENLRSKKYQSREEFLADVNQIVENSTLYNGAKSIL 582
K +P+YY+++ +P+D + I+E +R+ KY+S + DV + +N+ +N S++
Sbjct: 42 KELPEYYELIRKPVDFKKIKERIRNHKYRSLNDLEKDVMLLCQNAQTFNLEGSLI 96
Score = 32.7 bits (73), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 14/45 (31%), Positives = 27/45 (60%)
Query: 1068 QKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNGPGSQV 1112
+KP+D + I ++ ++HKY S + D+ L+ N+ +N GS +
Sbjct: 52 RKPVDFKKIKERIRNHKYRSLNDLEKDVMLLCQNAQTFNLEGSLI 96
>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 = 8e-04, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 33/57 (57%)
Query: 530 VPDYYKIVTRPMDLQTIRENLRSKKYQSREEFLADVNQIVENSTLYNGAKSILTDAA 586
+PDYY + +PMD++ IR ++ + KYQ + + D + N+ YN +S++ A
Sbjct: 51 LPDYYLTIKKPMDMEKIRSHMMANKYQDIDSMVEDFVMMFNNACTYNEPESLIYKDA 107
Score = 42.4 bits (98), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 34/63 (53%)
Query: 643 IFIKPVNKKFFKDYYSVVQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNGPG 702
IF++ ++ DYY ++KPMD+E I ++KY + D ++ +N+ YN P
Sbjct: 41 IFLRLPSRSELPDYYLTIKKPMDMEKIRSHMMANKYQDIDSMVEDFVMMFNNACTYNEPE 100
Query: 703 SQV 705
S +
Sbjct: 101 SLI 103
Score = 32.3 bits (72), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 14/45 (31%), Positives = 24/45 (53%)
Query: 1068 QKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNGPGSQV 1112
+KPMD+E I ++KY + D ++ +N+ YN P S +
Sbjct: 59 KKPMDMEKIRSHMMANKYQDIDSMVEDFVMMFNNACTYNEPESLI 103
>pdb|2YQD|A Chain A, Solution Structure Of The Fifth Bromodomain From Mouse
Polybromo-1
Length = 120
Score = 43.5 bits (101), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 33/57 (57%)
Query: 530 VPDYYKIVTRPMDLQTIRENLRSKKYQSREEFLADVNQIVENSTLYNGAKSILTDAA 586
+PDYY + +PMD++ IR ++ + KYQ + + D + N+ YN +S++ A
Sbjct: 51 LPDYYLTIKKPMDMEKIRSHMMANKYQDIDSMVEDFVMMFNNACTYNEPESLIYKDA 107
Score = 42.4 bits (98), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 34/63 (53%)
Query: 643 IFIKPVNKKFFKDYYSVVQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNGPG 702
IF++ ++ DYY ++KPMD+E I ++KY + D ++ +N+ YN P
Sbjct: 41 IFLRLPSRSELPDYYLTIKKPMDMEKIRSHMMANKYQDIDSMVEDFVMMFNNACTYNEPE 100
Query: 703 SQV 705
S +
Sbjct: 101 SLI 103
Score = 32.3 bits (72), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 14/45 (31%), Positives = 24/45 (53%)
Query: 1068 QKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNGPGSQV 1112
+KPMD+E I ++KY + D ++ +N+ YN P S +
Sbjct: 59 KKPMDMEKIRSHMMANKYQDIDSMVEDFVMMFNNACTYNEPESLI 103
>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 = 40.4 bits (93), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 23/58 (39%), Positives = 32/58 (55%), Gaps = 2/58 (3%)
Query: 521 FSFPVNA-KL-VPDYYKIVTRPMDLQTIRENLRSKKYQSREEFLADVNQIVENSTLYN 576
F PV+A KL +PDY+KI+ +P D TI+ L + Y + E D N N +YN
Sbjct: 33 FRQPVDAVKLGLPDYHKIIKQPXDXGTIKRRLENNYYWAASECXQDFNTXFTNCYIYN 90
Score = 40.0 bits (92), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 21/79 (26%), Positives = 38/79 (48%), Gaps = 2/79 (2%)
Query: 630 IVNNKLKNMADAWIFIKPVN--KKFFKDYYSVVQKPMDLETIGKKAQSHKYHSRYEFLAD 687
+V L AW F +PV+ K DY+ ++++P D TI ++ +++ Y + E D
Sbjct: 19 VVXKALWKHQFAWPFRQPVDAVKLGLPDYHKIIKQPXDXGTIKRRLENNYYWAASECXQD 78
Query: 688 IELILSNSVLYNGPGSQVT 706
+N +YN P +
Sbjct: 79 FNTXFTNCYIYNKPTDDIV 97
>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 = 40.0 bits (92), Expect = 0.011, Method: Composition-based stats.
Identities = 23/58 (39%), Positives = 32/58 (55%), Gaps = 2/58 (3%)
Query: 521 FSFPVNA-KL-VPDYYKIVTRPMDLQTIRENLRSKKYQSREEFLADVNQIVENSTLYN 576
F PV+A KL +PDY+KI+ +P D TI+ L + Y + E D N N +YN
Sbjct: 27 FRQPVDAVKLGLPDYHKIIKQPXDXGTIKRRLENNYYWAASECXQDFNTXFTNCYIYN 84
Score = 39.7 bits (91), Expect = 0.014, Method: Composition-based stats.
Identities = 19/67 (28%), Positives = 35/67 (52%), Gaps = 2/67 (2%)
Query: 641 AWIFIKPVN--KKFFKDYYSVVQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLY 698
AW F +PV+ K DY+ ++++P D TI ++ +++ Y + E D +N +Y
Sbjct: 24 AWPFRQPVDAVKLGLPDYHKIIKQPXDXGTIKRRLENNYYWAASECXQDFNTXFTNCYIY 83
Query: 699 NGPGSQV 705
N P +
Sbjct: 84 NKPTDDI 90
>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 = 39.3 bits (90), Expect = 0.019, Method: Composition-based stats.
Identities = 18/49 (36%), Positives = 31/49 (63%)
Query: 532 DYYKIVTRPMDLQTIRENLRSKKYQSREEFLADVNQIVENSTLYNGAKS 580
DYY+ ++ P+DL TI + + + Y++ E F AD+ ++ N+ Y G KS
Sbjct: 47 DYYEKISDPLDLITIEKQILTGYYKTVEAFDADMLKVFRNAEKYYGRKS 95
Score = 32.7 bits (73), Expect = 1.9, Method: Composition-based stats.
Identities = 20/56 (35%), Positives = 28/56 (50%)
Query: 650 KKFFKDYYSVVQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNGPGSQV 705
KK DYY + P+DL TI K+ + Y + F AD+ + N+ Y G S V
Sbjct: 42 KKKNADYYEKISDPLDLITIEKQILTGYYKTVEAFDADMLKVFRNAEKYYGRKSPV 97
>pdb|3IU5|A Chain A, Crystal Structure Of The First Bromodomain Of Human
Poly-Bromodomain Containing Protein 1 (Pb1)
Length = 116
Score = 38.9 bits (89), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 33/61 (54%)
Query: 643 IFIKPVNKKFFKDYYSVVQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNGPG 702
+FI+ ++ DYY VV +P+DL I +K + +Y AD +L+ +N+ Y P
Sbjct: 31 LFIRAPKRRNQPDYYEVVSQPIDLMKIQQKLKMEEYDDVNLLTADFQLLFNNAKSYYKPD 90
Query: 703 S 703
S
Sbjct: 91 S 91
Score = 37.0 bits (84), Expect = 0.093, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 33/62 (53%)
Query: 531 PDYYKIVTRPMDLQTIRENLRSKKYQSREEFLADVNQIVENSTLYNGAKSILTDAARRML 590
PDYY++V++P+DL I++ L+ ++Y AD + N+ Y S AA ++
Sbjct: 42 PDYYEVVSQPIDLMKIQQKLKMEEYDDVNLLTADFQLLFNNAKSYYKPDSPEYKAACKLW 101
Query: 591 TL 592
L
Sbjct: 102 DL 103
Score = 31.2 bits (69), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 18/73 (24%), Positives = 34/73 (46%), Gaps = 3/73 (4%)
Query: 1058 RNHREESTVSQKPMDLETIGKKAQSHKYHSRYEFLADIELILSNSVLYNGPGS---QVLI 1114
RN + V +P+DL I +K + +Y AD +L+ +N+ Y P S +
Sbjct: 39 RNQPDYYEVVSQPIDLMKIQQKLKMEEYDDVNLLTADFQLLFNNAKSYYKPDSPEYKAAC 98
Query: 1115 NIWWHFIEIKSSF 1127
+W ++ ++ F
Sbjct: 99 KLWDLYLRTRNEF 111
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
0.315 0.131 0.374
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 44,543,354
Number of Sequences: 62578
Number of extensions: 1722800
Number of successful extensions: 4207
Number of sequences better than 100.0: 90
Number of HSP's better than 100.0 without gapping: 87
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 3906
Number of HSP's gapped (non-prelim): 256
length of query: 1746
length of database: 14,973,337
effective HSP length: 112
effective length of query: 1634
effective length of database: 7,964,601
effective search space: 13014158034
effective search space used: 13014158034
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.5 bits)
S2: 59 (27.3 bits)