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= psy15468
(653 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 117 bits (293), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 54/104 (51%), Positives = 75/104 (72%)
Query: 278 CEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASL 337
E L A++ +T+ R + E+FQ LPSK +YP+YY +I PIDL+TIA+RIQ+G Y S+
Sbjct: 14 LEQLLEAIVVATNPSGRLISELFQKLPSKVQYPDYYAIIKEPIDLKTIAQRIQNGSYKSI 73
Query: 338 GDMEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTKKMEIEQ 381
M KD+ L+ KNA T+NEPGSQ++KDA ++KK+ KK EIE
Sbjct: 74 HAMAKDIDLLAKNAKTYNEPGSQVFKDANSIKKIFYMKKAEIEH 117
Score = 82.0 bits (201), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 35/92 (38%), Positives = 58/92 (63%)
Query: 478 TGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNA 537
+GR +S +FQ+LPS+ YPDYY +I++P+D++ IA +++ Y+ + M D + NA
Sbjct: 28 SGRLISELFQKLPSKVQYPDYYAIIKEPIDLKTIAQRIQNGSYKSIHAMAKDIDLLAKNA 87
Query: 538 CKYNEPDSHIYKDALSLQRIVLQTKMHLREDE 569
YNEP S ++KDA S+++I K + E
Sbjct: 88 KTYNEPGSQVFKDANSIKKIFYMKKAEIEHHE 119
Score = 49.3 bits (116), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 33/137 (24%), Positives = 60/137 (43%), Gaps = 33/137 (24%)
Query: 102 DAMQQIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYD 161
+ ++Q+ + I G L+ + F ++P K Q P Y+ ++ PID LKT
Sbjct: 12 EILEQLLEAIVVATNPSGRLISELFQKLPSKVQYPDYYAIIKEPID-------LKT---- 60
Query: 162 DLSDFQADIELLVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEH 221
I Q+++ Y + DI+LL KNAKT+ + SQ
Sbjct: 61 ----------------------IAQRIQNGSYKSIHAMAKDIDLLAKNAKTYNEPGSQVF 98
Query: 222 RDAQELMELFHSTRNKL 238
+DA + ++F+ + ++
Sbjct: 99 KDANSIKKIFYMKKAEI 115
>pdb|3HMF|A Chain A, Crystal Structure Of The Second Bromodomain Of Human
Poly-Bromodomain Containing Protein 1 (Pb1)
Length = 116
Score = 117 bits (293), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 54/104 (51%), Positives = 75/104 (72%)
Query: 278 CEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASL 337
E L A++ +T+ R + E+FQ LPSK +YP+YY +I PIDL+TIA+RIQ+G Y S+
Sbjct: 11 LEQLLEAIVVATNPSGRLISELFQKLPSKVQYPDYYAIIKEPIDLKTIAQRIQNGSYKSI 70
Query: 338 GDMEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTKKMEIEQ 381
M KD+ L+ KNA T+NEPGSQ++KDA ++KK+ KK EIE
Sbjct: 71 HAMAKDIDLLAKNAKTYNEPGSQVFKDANSIKKIFYMKKAEIEH 114
Score = 81.3 bits (199), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 35/92 (38%), Positives = 58/92 (63%)
Query: 478 TGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNA 537
+GR +S +FQ+LPS+ YPDYY +I++P+D++ IA +++ Y+ + M D + NA
Sbjct: 25 SGRLISELFQKLPSKVQYPDYYAIIKEPIDLKTIAQRIQNGSYKSIHAMAKDIDLLAKNA 84
Query: 538 CKYNEPDSHIYKDALSLQRIVLQTKMHLREDE 569
YNEP S ++KDA S+++I K + E
Sbjct: 85 KTYNEPGSQVFKDANSIKKIFYMKKAEIEHHE 116
Score = 48.9 bits (115), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 33/137 (24%), Positives = 60/137 (43%), Gaps = 33/137 (24%)
Query: 102 DAMQQIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYD 161
+ ++Q+ + I G L+ + F ++P K Q P Y+ ++ PID LKT
Sbjct: 9 EILEQLLEAIVVATNPSGRLISELFQKLPSKVQYPDYYAIIKEPID-------LKT---- 57
Query: 162 DLSDFQADIELLVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEH 221
I Q+++ Y + DI+LL KNAKT+ + SQ
Sbjct: 58 ----------------------IAQRIQNGSYKSIHAMAKDIDLLAKNAKTYNEPGSQVF 95
Query: 222 RDAQELMELFHSTRNKL 238
+DA + ++F+ + ++
Sbjct: 96 KDANSIKKIFYMKKAEI 112
>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 = 117 bits (293), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 54/104 (51%), Positives = 75/104 (72%)
Query: 278 CEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASL 337
E L A++ +T+ R + E+FQ LPSK +YP+YY +I PIDL+TIA+RIQ+G Y S+
Sbjct: 13 LEQLLEAIVVATNPSGRLISELFQKLPSKVQYPDYYAIIKEPIDLKTIAQRIQNGSYKSI 72
Query: 338 GDMEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTKKMEIEQ 381
M KD+ L+ KNA T+NEPGSQ++KDA ++KK+ KK EIE
Sbjct: 73 HAMAKDIDLLAKNAKTYNEPGSQVFKDANSIKKIFYMKKAEIEH 116
Score = 81.6 bits (200), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 35/92 (38%), Positives = 58/92 (63%)
Query: 478 TGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNA 537
+GR +S +FQ+LPS+ YPDYY +I++P+D++ IA +++ Y+ + M D + NA
Sbjct: 27 SGRLISELFQKLPSKVQYPDYYAIIKEPIDLKTIAQRIQNGSYKSIHAMAKDIDLLAKNA 86
Query: 538 CKYNEPDSHIYKDALSLQRIVLQTKMHLREDE 569
YNEP S ++KDA S+++I K + E
Sbjct: 87 KTYNEPGSQVFKDANSIKKIFYMKKAEIEHHE 118
Score = 49.3 bits (116), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 33/137 (24%), Positives = 60/137 (43%), Gaps = 33/137 (24%)
Query: 102 DAMQQIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYD 161
+ ++Q+ + I G L+ + F ++P K Q P Y+ ++ PID LKT
Sbjct: 11 EILEQLLEAIVVATNPSGRLISELFQKLPSKVQYPDYYAIIKEPID-------LKT---- 59
Query: 162 DLSDFQADIELLVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEH 221
I Q+++ Y + DI+LL KNAKT+ + SQ
Sbjct: 60 ----------------------IAQRIQNGSYKSIHAMAKDIDLLAKNAKTYNEPGSQVF 97
Query: 222 RDAQELMELFHSTRNKL 238
+DA + ++F+ + ++
Sbjct: 98 KDANSIKKIFYMKKAEI 114
>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 = 115 bits (289), Expect = 6e-26, Method: Compositional matrix adjust.
Identities = 56/108 (51%), Positives = 76/108 (70%), Gaps = 1/108 (0%)
Query: 461 QKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQY 520
QK+ +Y +K + K GR+LS IF RLPSR + PDYY I+KP+DME I S + N+Y
Sbjct: 18 QKLNEVYEAVKNYTD-KRGRRLSAIFLRLPSRSELPDYYLTIKKPMDMEKIRSHMMANKY 76
Query: 521 EHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQTKMHLRED 568
+ +D MV DF+ MF+NAC YNEP+S IYKDAL L +++L+T+ L D
Sbjct: 77 QDIDSMVEDFVMMFNNACTYNEPESLIYKDALVLHKVLLETRRDLEGD 124
Score = 79.3 bits (194), Expect = 7e-15, Method: Compositional matrix adjust.
Identities = 39/106 (36%), Positives = 59/106 (55%)
Query: 275 QNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKY 334
Q + +++ AV TD R L +F LPS+ P+YY I P+D+ I + KY
Sbjct: 17 QQKLNEVYEAVKNYTDKRGRRLSAIFLRLPSRSELPDYYLTIKKPMDMEKIRSHMMANKY 76
Query: 335 ASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTKKMEIE 380
+ M +D ++M NACT+NEP S IYKDA L K++ + ++E
Sbjct: 77 QDIDSMVEDFVMMFNNACTYNEPESLIYKDALVLHKVLLETRRDLE 122
Score = 43.9 bits (102), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 16/70 (22%), Positives = 38/70 (54%)
Query: 104 MQQIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDL 163
+ ++Y+ ++N+ + G L F+R+P + + P Y+ + P+D KI+ + ++Y D+
Sbjct: 20 LNEVYEAVKNYTDKRGRRLSAIFLRLPSRSELPDYYLTIKKPMDMEKIRSHMMANKYQDI 79
Query: 164 SDFQADIELL 173
D ++
Sbjct: 80 DSMVEDFVMM 89
Score = 31.2 bits (69), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 13/41 (31%), Positives = 26/41 (63%)
Query: 610 PLKRRLYTLCKCLMDYRDQDGRQPMLMFMELPSAKIYPEYY 650
P++++L + + + +Y D+ GR+ +F+ LPS P+YY
Sbjct: 15 PMQQKLNEVYEAVKNYTDKRGRRLSAIFLRLPSRSELPDYY 55
>pdb|2YQD|A Chain A, Solution Structure Of The Fifth Bromodomain From Mouse
Polybromo-1
Length = 120
Score = 113 bits (283), Expect = 3e-25, Method: Compositional matrix adjust.
Identities = 54/102 (52%), Positives = 74/102 (72%), Gaps = 1/102 (0%)
Query: 461 QKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQY 520
QK+ +Y +K + K GR+LS IF RLPSR + PDYY I+KP+DME I S + N+Y
Sbjct: 18 QKLNEVYEAVKNYTD-KRGRRLSAIFLRLPSRSELPDYYLTIKKPMDMEKIRSHMMANKY 76
Query: 521 EHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQTK 562
+ +D MV DF+ MF+NAC YNEP+S IYKDAL L +++L+T+
Sbjct: 77 QDIDSMVEDFVMMFNNACTYNEPESLIYKDALVLHKVLLETR 118
Score = 79.0 bits (193), Expect = 7e-15, Method: Compositional matrix adjust.
Identities = 40/103 (38%), Positives = 59/103 (57%), Gaps = 1/103 (0%)
Query: 275 QNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKY 334
Q + +++ AV TD R L +F LPS+ P+YY I P+D+ I + KY
Sbjct: 17 QQKLNEVYEAVKNYTDKRGRRLSAIFLRLPSRSELPDYYLTIKKPMDMEKIRSHMMANKY 76
Query: 335 ASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALKK-LVQTKK 376
+ M +D ++M NACT+NEP S IYKDA L K L++T++
Sbjct: 77 QDIDSMVEDFVMMFNNACTYNEPESLIYKDALVLHKVLLETRR 119
Score = 43.9 bits (102), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 16/70 (22%), Positives = 38/70 (54%)
Query: 104 MQQIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDL 163
+ ++Y+ ++N+ + G L F+R+P + + P Y+ + P+D KI+ + ++Y D+
Sbjct: 20 LNEVYEAVKNYTDKRGRRLSAIFLRLPSRSELPDYYLTIKKPMDMEKIRSHMMANKYQDI 79
Query: 164 SDFQADIELL 173
D ++
Sbjct: 80 DSMVEDFVMM 89
Score = 30.8 bits (68), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 13/41 (31%), Positives = 26/41 (63%)
Query: 610 PLKRRLYTLCKCLMDYRDQDGRQPMLMFMELPSAKIYPEYY 650
P++++L + + + +Y D+ GR+ +F+ LPS P+YY
Sbjct: 15 PMQQKLNEVYEAVKNYTDKRGRRLSAIFLRLPSRSELPDYY 55
>pdb|3IU5|A Chain A, Crystal Structure Of The First Bromodomain Of Human
Poly-Bromodomain Containing Protein 1 (Pb1)
Length = 116
Score = 100 bits (248), Expect = 3e-21, Method: Compositional matrix adjust.
Identities = 55/142 (38%), Positives = 80/142 (56%), Gaps = 33/142 (23%)
Query: 98 IDPSDAMQQIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKT 157
+DP ++Y+ IR++K E G LLC+ FIR PK+R +P Y+EVV+ PID +KIQQKLK
Sbjct: 4 VDPIAVCHELYNTIRDYKDEQGRLLCELFIRAPKRRNQPDYYEVVSQPIDLMKIQQKLKM 63
Query: 158 DEYDDLSDFQADIELLVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRN 217
+EYD D+ LL AD +LL NAK++YK +
Sbjct: 64 EEYD-------DVNLLT--------------------------ADFQLLFNNAKSYYKPD 90
Query: 218 SQEHRDAQELMELFHSTRNKLL 239
S E++ A +L +L+ TRN+ +
Sbjct: 91 SPEYKAACKLWDLYLRTRNEFV 112
Score = 77.4 bits (189), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 40/97 (41%), Positives = 62/97 (63%), Gaps = 1/97 (1%)
Query: 466 LYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDE 525
LYNTI++ + + GR L +F R P R + PDYYEV+ +P+D+ I KL+ +Y+ ++
Sbjct: 13 LYNTIRDY-KDEQGRLLCELFIRAPKRRNQPDYYEVVSQPIDLMKIQQKLKMEEYDDVNL 71
Query: 526 MVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQTK 562
+ ADF +F+NA Y +PDS YK A L + L+T+
Sbjct: 72 LTADFQLLFNNAKSYYKPDSPEYKAACKLWDLYLRTR 108
Score = 57.0 bits (136), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 32/107 (29%), Positives = 59/107 (55%), Gaps = 1/107 (0%)
Query: 278 CEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASL 337
C +L+N + D R L E+F P ++ P+YY+V+ PIDL I ++++ +Y +
Sbjct: 10 CHELYNTIRDYKDEQGRLLCELFIRAPKRRNQPDYYEVVSQPIDLMKIQQKLKMEEYDDV 69
Query: 338 GDMEKDLILMTKNACTFNEPGSQIYKDAKALKKL-VQTKKMEIEQGK 383
+ D L+ NA ++ +P S YK A L L ++T+ +++G+
Sbjct: 70 NLLTADFQLLFNNAKSYYKPDSPEYKAACKLWDLYLRTRNEFVQKGE 116
>pdb|2DAT|A Chain A, Solution Structure Of The Bromodomain Of Human SwiSNF
Related Matrix Associated Actin Dependent Regulator Of
Cromatin Subfamily A Member 2
Length = 123
Score = 92.8 bits (229), Expect = 5e-19, Method: Compositional matrix adjust.
Identities = 44/100 (44%), Positives = 66/100 (66%)
Query: 277 QCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYAS 336
Q + + V+ D+ R L EVF LPS+K PEYY++I P+D + I RI++ KY S
Sbjct: 17 QMNAIIDTVINYKDSSGRQLSEVFIQLPSRKELPEYYELIRKPVDFKKIKERIRNHKYRS 76
Query: 337 LGDMEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTKK 376
LGD+EKD++L+ NA TFN GSQIY+D+ L+ + ++ +
Sbjct: 77 LGDLEKDVMLLCHNAQTFNLEGSQIYEDSIVLQSVFKSAR 116
Score = 75.1 bits (183), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 34/80 (42%), Positives = 54/80 (67%)
Query: 478 TGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNA 537
+GRQLS +F +LPSR + P+YYE+IRKPVD + I ++R ++Y L ++ D + + NA
Sbjct: 32 SGRQLSEVFIQLPSRKELPEYYELIRKPVDFKKIKERIRNHKYRSLGDLEKDVMLLCHNA 91
Query: 538 CKYNEPDSHIYKDALSLQRI 557
+N S IY+D++ LQ +
Sbjct: 92 QTFNLEGSQIYEDSIVLQSV 111
Score = 59.7 bits (143), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 35/132 (26%), Positives = 59/132 (44%), Gaps = 33/132 (25%)
Query: 104 MQQIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDL 163
M I D + N+K G L + FI++P +++ P Y+E++ P+DF KI+++++ +Y L
Sbjct: 18 MNAIIDTVINYKDSSGRQLSEVFIQLPSRKELPEYYELIRKPVDFKKIKERIRNHKYRSL 77
Query: 164 SDFQADIELLVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRD 223
D + D+ LL NA+TF SQ + D
Sbjct: 78 GD---------------------------------LEKDVMLLCHNAQTFNLEGSQIYED 104
Query: 224 AQELMELFHSTR 235
+ L +F S R
Sbjct: 105 SIVLQSVFKSAR 116
Score = 37.4 bits (85), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 28/42 (66%)
Query: 611 LKRRLYTLCKCLMDYRDQDGRQPMLMFMELPSAKIYPEYYKV 652
L +++ + +++Y+D GRQ +F++LPS K PEYY++
Sbjct: 14 LTKQMNAIIDTVINYKDSSGRQLSEVFIQLPSRKELPEYYEL 55
>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 = 90.5 bits (223), Expect = 3e-18, Method: Compositional matrix adjust.
Identities = 41/105 (39%), Positives = 68/105 (64%)
Query: 461 QKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQY 520
Q+M+IL+N + E EP +GR+L +F PS+ DYPDYY++I +P+D+++I +R ++Y
Sbjct: 27 QRMKILFNVVLEAREPGSGRRLCDLFMVKPSKKDYPDYYKIILEPMDLKIIEHNIRNDKY 86
Query: 521 EHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQTKMHL 565
+ M+ D MF NA YNE S +Y DA L++++ + + L
Sbjct: 87 AGEEGMIEDMKLMFRNARHYNEEGSQVYNDAHILEKLLKEKRKEL 131
Score = 84.0 bits (206), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 49/129 (37%), Positives = 80/129 (62%), Gaps = 3/129 (2%)
Query: 254 DFMMASETEDSRDSSICTEDE--QNQCEDLFNAVMTSTDADS-RPLHEVFQLLPSKKRYP 310
D M++S T D+ + ++ + + + LFN V+ + + S R L ++F + PSKK YP
Sbjct: 3 DSMISSATSDTGSAKRKSKKNIRKQRMKILFNVVLEAREPGSGRRLCDLFMVKPSKKDYP 62
Query: 311 EYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALKK 370
+YY +I P+DL+ I I++ KYA M +D+ LM +NA +NE GSQ+Y DA L+K
Sbjct: 63 DYYKIILEPMDLKIIEHNIRNDKYAGEEGMIEDMKLMFRNARHYNEEGSQVYNDAHILEK 122
Query: 371 LVQTKKMEI 379
L++ K+ E+
Sbjct: 123 LLKEKRKEL 131
Score = 39.7 bits (91), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 28/120 (23%), Positives = 51/120 (42%), Gaps = 33/120 (27%)
Query: 119 GALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVTNP 178
G LCD F+ P K+ P Y++++ P+D I+ ++ D+Y A E ++
Sbjct: 45 GRRLCDLFMVKPSKKDYPDYYKIILEPMDLKIIEHNIRNDKY-------AGEEGMI---- 93
Query: 179 IDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHSTRNKL 238
D++L+ +NA+ + + SQ + DA L +L R +L
Sbjct: 94 ----------------------EDMKLMFRNARHYNEEGSQVYNDAHILEKLLKEKRKEL 131
Score = 30.8 bits (68), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 16/42 (38%), Positives = 26/42 (61%), Gaps = 1/42 (2%)
Query: 612 KRRLYTLCKCLMDYRD-QDGRQPMLMFMELPSAKIYPEYYKV 652
K+R+ L +++ R+ GR+ +FM PS K YP+YYK+
Sbjct: 26 KQRMKILFNVVLEAREPGSGRRLCDLFMVKPSKKDYPDYYKI 67
>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 = 87.4 bits (215), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 45/102 (44%), Positives = 69/102 (67%), Gaps = 1/102 (0%)
Query: 281 LFNAVMTSTDADS-RPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGD 339
+ +AV+ D+ S R L EVF LPS+K PEYY++I P+D + I RI++ KY SL D
Sbjct: 20 IVDAVIKYKDSSSGRQLSEVFIQLPSRKELPEYYELIRKPVDFKKIKERIRNHKYRSLND 79
Query: 340 MEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTKKMEIEQ 381
+EKD++L+ +NA TFN GS IY+D+ L+ + + + +IE+
Sbjct: 80 LEKDVMLLCQNAQTFNLEGSLIYEDSIVLQSVFTSVRQKIEK 121
Score = 80.5 bits (197), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 37/110 (33%), Positives = 70/110 (63%)
Query: 461 QKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQY 520
+KM+ + + + + + +GRQLS +F +LPSR + P+YYE+IRKPVD + I ++R ++Y
Sbjct: 15 KKMKKIVDAVIKYKDSSSGRQLSEVFIQLPSRKELPEYYELIRKPVDFKKIKERIRNHKY 74
Query: 521 EHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQTKMHLREDED 570
L+++ D + + NA +N S IY+D++ LQ + + + +++D
Sbjct: 75 RSLNDLEKDVMLLCQNAQTFNLEGSLIYEDSIVLQSVFTSVRQKIEKEDD 124
Score = 53.5 bits (127), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 23/71 (32%), Positives = 46/71 (64%), Gaps = 1/71 (1%)
Query: 104 MQQIYDVIRNFK-KEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDD 162
M++I D + +K G L + FI++P +++ P Y+E++ P+DF KI+++++ +Y
Sbjct: 17 MKKIVDAVIKYKDSSSGRQLSEVFIQLPSRKELPEYYELIRKPVDFKKIKERIRNHKYRS 76
Query: 163 LSDFQADIELL 173
L+D + D+ LL
Sbjct: 77 LNDLEKDVMLL 87
Score = 32.3 bits (72), Expect = 0.82, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 27/43 (62%), Gaps = 1/43 (2%)
Query: 611 LKRRLYTLCKCLMDYRDQD-GRQPMLMFMELPSAKIYPEYYKV 652
L +++ + ++ Y+D GRQ +F++LPS K PEYY++
Sbjct: 13 LTKKMKKIVDAVIKYKDSSSGRQLSEVFIQLPSRKELPEYYEL 55
>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 = 87.4 bits (215), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 45/102 (44%), Positives = 69/102 (67%), Gaps = 1/102 (0%)
Query: 281 LFNAVMTSTDADS-RPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGD 339
+ +AV+ D+ S R L EVF LPS+K PEYY++I P+D + I RI++ KY SL D
Sbjct: 19 IVDAVIKYKDSSSGRQLSEVFIQLPSRKELPEYYELIRKPVDFKKIKERIRNHKYRSLND 78
Query: 340 MEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTKKMEIEQ 381
+EKD++L+ +NA TFN GS IY+D+ L+ + + + +IE+
Sbjct: 79 LEKDVMLLCQNAQTFNLEGSLIYEDSIVLQSVFTSVRQKIEK 120
Score = 82.0 bits (201), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 38/111 (34%), Positives = 71/111 (63%)
Query: 461 QKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQY 520
+KM+ + + + + + +GRQLS +F +LPSR + P+YYE+IRKPVD + I ++R ++Y
Sbjct: 14 KKMKKIVDAVIKYKDSSSGRQLSEVFIQLPSRKELPEYYELIRKPVDFKKIKERIRNHKY 73
Query: 521 EHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQTKMHLREDEDS 571
L+++ D + + NA +N S IY+D++ LQ + + + +++DS
Sbjct: 74 RSLNDLEKDVMLLCQNAQTFNLEGSLIYEDSIVLQSVFTSVRQKIEKEDDS 124
Score = 54.7 bits (130), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 36/144 (25%), Positives = 65/144 (45%), Gaps = 34/144 (23%)
Query: 104 MQQIYDVIRNFK-KEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDD 162
M++I D + +K G L + FI++P +++ P Y+E++ P+DF KI+++++ +Y
Sbjct: 16 MKKIVDAVIKYKDSSSGRQLSEVFIQLPSRKELPEYYELIRKPVDFKKIKERIRNHKYRS 75
Query: 163 LSDFQADIELLVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHR 222
L+D + D+ LL +NA+TF S +
Sbjct: 76 LND---------------------------------LEKDVMLLCQNAQTFNLEGSLIYE 102
Query: 223 DAQELMELFHSTRNKLLNPQSHEG 246
D+ L +F S R K+ EG
Sbjct: 103 DSIVLQSVFTSVRQKIEKEDDSEG 126
Score = 32.7 bits (73), Expect = 0.67, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 27/43 (62%), Gaps = 1/43 (2%)
Query: 611 LKRRLYTLCKCLMDYRDQD-GRQPMLMFMELPSAKIYPEYYKV 652
L +++ + ++ Y+D GRQ +F++LPS K PEYY++
Sbjct: 12 LTKKMKKIVDAVIKYKDSSSGRQLSEVFIQLPSRKELPEYYEL 54
>pdb|2H60|A Chain A, Solution Structure Of Human Brg1 Bromodomain
Length = 128
Score = 87.4 bits (215), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 45/102 (44%), Positives = 69/102 (67%), Gaps = 1/102 (0%)
Query: 281 LFNAVMTSTDADS-RPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGD 339
+ +AV+ D+ S R L EVF LPS+K PEYY++I P+D + I RI++ KY SL D
Sbjct: 15 IVDAVIKYKDSSSGRQLSEVFIQLPSRKELPEYYELIRKPVDFKKIKERIRNHKYRSLND 74
Query: 340 MEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTKKMEIEQ 381
+EKD++L+ +NA TFN GS IY+D+ L+ + + + +IE+
Sbjct: 75 LEKDVMLLCQNAQTFNLEGSLIYEDSIVLQSVFTSVRQKIEK 116
Score = 82.0 bits (201), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 38/112 (33%), Positives = 72/112 (64%)
Query: 461 QKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQY 520
+KM+ + + + + + +GRQLS +F +LPSR + P+YYE+IRKPVD + I ++R ++Y
Sbjct: 10 KKMKKIVDAVIKYKDSSSGRQLSEVFIQLPSRKELPEYYELIRKPVDFKKIKERIRNHKY 69
Query: 521 EHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQTKMHLREDEDSV 572
L+++ D + + NA +N S IY+D++ LQ + + + +++DS+
Sbjct: 70 RSLNDLEKDVMLLCQNAQTFNLEGSLIYEDSIVLQSVFTSVRQKIEKEDDSL 121
Score = 53.1 bits (126), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 23/71 (32%), Positives = 46/71 (64%), Gaps = 1/71 (1%)
Query: 104 MQQIYDVIRNFK-KEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDD 162
M++I D + +K G L + FI++P +++ P Y+E++ P+DF KI+++++ +Y
Sbjct: 12 MKKIVDAVIKYKDSSSGRQLSEVFIQLPSRKELPEYYELIRKPVDFKKIKERIRNHKYRS 71
Query: 163 LSDFQADIELL 173
L+D + D+ LL
Sbjct: 72 LNDLEKDVMLL 82
Score = 32.3 bits (72), Expect = 0.90, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 27/43 (62%), Gaps = 1/43 (2%)
Query: 611 LKRRLYTLCKCLMDYRDQD-GRQPMLMFMELPSAKIYPEYYKV 652
L +++ + ++ Y+D GRQ +F++LPS K PEYY++
Sbjct: 8 LTKKMKKIVDAVIKYKDSSSGRQLSEVFIQLPSRKELPEYYEL 50
>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 = 84.0 bits (206), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 44/118 (37%), Positives = 69/118 (58%), Gaps = 2/118 (1%)
Query: 453 FGVTAASLQKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIA 512
G Q M+ LY+T++ +C G+ ++ F LPS+ YPDYY+ I+ P+ ++ I
Sbjct: 13 LGTENLYFQSMQ-LYDTVR-SCRNNQGQLIAEPFYHLPSKKKYPDYYQQIKMPISLQQIR 70
Query: 513 SKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQTKMHLREDED 570
+KL+ +YE LD + D MF+NA +YN P+S IYK L LQ+++ K L +D
Sbjct: 71 TKLKNQEYETLDHLECDLNLMFENAKRYNVPNSAIYKRVLKLQQVMQAKKKELARRDD 128
Score = 75.9 bits (185), Expect = 6e-14, Method: Compositional matrix adjust.
Identities = 43/123 (34%), Positives = 69/123 (56%)
Query: 257 MASETEDSRDSSICTEDEQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVI 316
M S + TE+ Q L++ V + + + + E F LPSKK+YP+YY I
Sbjct: 1 MHHHHHHSSGVDLGTENLYFQSMQLYDTVRSCRNNQGQLIAEPFYHLPSKKKYPDYYQQI 60
Query: 317 DVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTKK 376
+PI L+ I ++++ +Y +L +E DL LM +NA +N P S IYK L++++Q KK
Sbjct: 61 KMPISLQQIRTKLKNQEYETLDHLECDLNLMFENAKRYNVPNSAIYKRVLKLQQVMQAKK 120
Query: 377 MEI 379
E+
Sbjct: 121 KEL 123
Score = 57.4 bits (137), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 23/68 (33%), Positives = 41/68 (60%)
Query: 106 QIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSD 165
Q+YD +R+ + G L+ +PF +P K++ P Y++ + PI +I+ KLK EY+ L
Sbjct: 24 QLYDTVRSCRNNQGQLIAEPFYHLPSKKKYPDYYQQIKMPISLQQIRTKLKNQEYETLDH 83
Query: 166 FQADIELL 173
+ D+ L+
Sbjct: 84 LECDLNLM 91
>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 = 66.6 bits (161), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 57/208 (27%), Positives = 99/208 (47%), Gaps = 31/208 (14%)
Query: 177 NPIDFIKIQQKLKTDEY--------DDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELM 228
+P + KIQQ + +E D S+F D+ELL KN + + + +S +++ +++
Sbjct: 110 HPQYYYKIQQPMSINEIKSRDYEYEDGPSNFLLDVELLTKNCQAYNEYDSLIVKNSMQVV 169
Query: 229 ELF--------HSTRNKLLNPQSHEGTSQKRSMDFMMASETEDSRDSSICTEDEQNQCED 280
L + RN L+N S+ ++ ++ D+ TE + NQ
Sbjct: 170 MLIEFEVLKAKNLKRNYLIN-------SEVKAKLLHYLNKLVDA------TEKKINQA-- 214
Query: 281 LFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDM 340
L A D L E F L K PEYY+++ P+ L + + ++ G+Y+ + D
Sbjct: 215 LLGASSPKNLDDKVKLSEPFMELVDKDELPEYYEIVHSPMALSIVKQNLEIGQYSKIYDF 274
Query: 341 EKDLILMTKNACTFNEPGSQIYKDAKAL 368
D++L+ +NA FN+P + IYKDA L
Sbjct: 275 IIDMLLVFQNAHIFNDPSALIYKDATTL 302
Score = 55.1 bits (131), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 24/74 (32%), Positives = 43/74 (58%)
Query: 481 QLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKY 540
+LS F L + + P+YYE++ P+ + ++ L QY + + + D + +F NA +
Sbjct: 229 KLSEPFMELVDKDELPEYYEIVHSPMALSIVKQNLEIGQYSKIYDFIIDMLLVFQNAHIF 288
Query: 541 NEPDSHIYKDALSL 554
N+P + IYKDA +L
Sbjct: 289 NDPSALIYKDATTL 302
Score = 38.1 bits (87), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 35/61 (57%), Gaps = 1/61 (1%)
Query: 117 EDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVT 176
+D L +PF+ + K + P Y+E+V +P+ ++Q L+ +Y + DF D+ LLV
Sbjct: 225 DDKVKLSEPFMELVDKDELPEYYEIVHSPMALSIVKQNLEIGQYSKIYDFIIDM-LLVFQ 283
Query: 177 N 177
N
Sbjct: 284 N 284
Score = 38.1 bits (87), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 27/77 (35%), Positives = 41/77 (53%), Gaps = 7/77 (9%)
Query: 300 FQLLPSKKRYPEYYDVIDVPIDLRTIARR---IQDGKYASLGDMEKDLILMTKNACTFNE 356
F LPS+K +P+YY I P+ + I R +DG L D+E L+TKN +NE
Sbjct: 101 FIKLPSRKFHPQYYYKIQQPMSINEIKSRDYEYEDGPSNFLLDVE----LLTKNCQAYNE 156
Query: 357 PGSQIYKDAKALKKLVQ 373
S I K++ + L++
Sbjct: 157 YDSLIVKNSMQVVMLIE 173
Score = 35.0 bits (79), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 40/76 (52%), Gaps = 7/76 (9%)
Query: 486 FQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLD---EMVADFIQMFDNACKYNE 542
F +LPSR +P YY I++P+ + I S+ YE+ D + D + N YNE
Sbjct: 101 FIKLPSRKFHPQYYYKIQQPMSINEIKSR----DYEYEDGPSNFLLDVELLTKNCQAYNE 156
Query: 543 PDSHIYKDALSLQRIV 558
DS I K+++ + ++
Sbjct: 157 YDSLIVKNSMQVVMLI 172
Score = 31.6 bits (70), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 18/69 (26%), Positives = 35/69 (50%)
Query: 174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHS 233
+V +P+ ++Q L+ +Y + DF D+ L+ +NA F ++ ++DA L F+
Sbjct: 249 IVHSPMALSIVKQNLEIGQYSKIYDFIIDMLLVFQNAHIFNDPSALIYKDATTLTNYFNY 308
Query: 234 TRNKLLNPQ 242
K P+
Sbjct: 309 LIQKEFFPE 317
>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 = 66.2 bits (160), Expect = 5e-11, Method: Compositional matrix adjust.
Identities = 57/208 (27%), Positives = 99/208 (47%), Gaps = 31/208 (14%)
Query: 177 NPIDFIKIQQKLKTDEY--------DDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELM 228
+P + KIQQ + +E D S+F D+ELL KN + + + +S +++ +++
Sbjct: 95 HPQYYYKIQQPMSINEIKSRDYEYEDGPSNFLLDVELLTKNCQAYNEYDSLIVKNSMQVV 154
Query: 229 ELF--------HSTRNKLLNPQSHEGTSQKRSMDFMMASETEDSRDSSICTEDEQNQCED 280
L + RN L+N S+ ++ ++ D+ TE + NQ
Sbjct: 155 MLIEFEVLKAKNLKRNYLIN-------SEVKAKLLHYLNKLVDA------TEKKINQA-- 199
Query: 281 LFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDM 340
L A D L E F L K PEYY+++ P+ L + + ++ G+Y+ + D
Sbjct: 200 LLGASSPKNLDDKVKLSEPFMELVDKDELPEYYEIVHSPMALSIVKQNLEIGQYSKIYDF 259
Query: 341 EKDLILMTKNACTFNEPGSQIYKDAKAL 368
D++L+ +NA FN+P + IYKDA L
Sbjct: 260 IIDMLLVFQNAHIFNDPSALIYKDATTL 287
Score = 61.6 bits (148), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 63/259 (24%), Positives = 111/259 (42%), Gaps = 61/259 (23%)
Query: 300 FQLLPSKKRYPEYYDVIDVPIDLRTIARR---IQDGKYASLGDMEKDLILMTKNACTFNE 356
F LPS+K +P+YY I P+ + I R +DG L D+E L+TKN +NE
Sbjct: 86 FIKLPSRKFHPQYYYKIQQPMSINEIKSRDYEYEDGPSNFLLDVE----LLTKNCQAYNE 141
Query: 357 PGSQIYKDAKALKKLVQTKKMEIEQGKFTPAGKSERIRSKRIRGGQSL-SAITAALXXXX 415
S I K++ + L++ E +++K ++ + S + A L
Sbjct: 142 YDSLIVKNSMQVVMLIEF----------------EVLKAKNLKRNYLINSEVKAKLLHY- 184
Query: 416 XXXXXXXXXXXXXPNSPLWQVYDAIRNAKTQGVIFFFFGVTAASLQKMRILYNTIKETCE 475
L ++ DA Q ++ G ++ + L + +K E
Sbjct: 185 -----------------LNKLVDATEKKINQALL----GASSP-----KNLDDKVK-LSE 217
Query: 476 PKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFD 535
P F L + + P+YYE++ P+ + ++ L QY + + + D + +F
Sbjct: 218 P---------FMELVDKDELPEYYEIVHSPMALSIVKQNLEIGQYSKIYDFIIDMLLVFQ 268
Query: 536 NACKYNEPDSHIYKDALSL 554
NA +N+P + IYKDA +L
Sbjct: 269 NAHIFNDPSALIYKDATTL 287
Score = 38.1 bits (87), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 35/61 (57%), Gaps = 1/61 (1%)
Query: 117 EDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVT 176
+D L +PF+ + K + P Y+E+V +P+ ++Q L+ +Y + DF D+ LLV
Sbjct: 210 DDKVKLSEPFMELVDKDELPEYYEIVHSPMALSIVKQNLEIGQYSKIYDFIIDM-LLVFQ 268
Query: 177 N 177
N
Sbjct: 269 N 269
Score = 34.7 bits (78), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 40/76 (52%), Gaps = 7/76 (9%)
Query: 486 FQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLD---EMVADFIQMFDNACKYNE 542
F +LPSR +P YY I++P+ + I S+ YE+ D + D + N YNE
Sbjct: 86 FIKLPSRKFHPQYYYKIQQPMSINEIKSR----DYEYEDGPSNFLLDVELLTKNCQAYNE 141
Query: 543 PDSHIYKDALSLQRIV 558
DS I K+++ + ++
Sbjct: 142 YDSLIVKNSMQVVMLI 157
Score = 31.2 bits (69), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 18/69 (26%), Positives = 35/69 (50%)
Query: 174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHS 233
+V +P+ ++Q L+ +Y + DF D+ L+ +NA F ++ ++DA L F+
Sbjct: 234 IVHSPMALSIVKQNLEIGQYSKIYDFIIDMLLVFQNAHIFNDPSALIYKDATTLTNYFNY 293
Query: 234 TRNKLLNPQ 242
K P+
Sbjct: 294 LIQKEFFPE 302
>pdb|2R0S|A Chain A, Crystal Structure Of The Rsc4 Tandem Bromodomain
Length = 285
Score = 63.9 bits (154), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 58/208 (27%), Positives = 100/208 (48%), Gaps = 31/208 (14%)
Query: 177 NPIDFIKIQQ-----KLKTDEY---DDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELM 228
+P + KIQQ ++K+ +Y D S+F D+ELL KN + + + +S +++ +++
Sbjct: 54 HPQYYYKIQQPXSINEIKSRDYEYEDGPSNFLLDVELLTKNCQAYNEYDSLIVKNSXQVV 113
Query: 229 ELF--------HSTRNKLLNPQSHEGTSQKRSMDFMMASETEDSRDSSICTEDEQNQCED 280
L + RN L+N S+ ++ ++ D+ TE + NQ
Sbjct: 114 XLIEFEVLKAKNLKRNYLIN-------SEVKAKLLHYLNKLVDA------TEKKINQA-- 158
Query: 281 LFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDM 340
L A D L E F L K PEYY+++ P L + + ++ G+Y+ + D
Sbjct: 159 LLGASSPKNLDDKVKLSEPFXELVDKDELPEYYEIVHSPXALSIVKQNLEIGQYSKIYDF 218
Query: 341 EKDLILMTKNACTFNEPGSQIYKDAKAL 368
D +L+ +NA FN+P + IYKDA L
Sbjct: 219 IIDXLLVFQNAHIFNDPSALIYKDATTL 246
Score = 59.7 bits (143), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 60/256 (23%), Positives = 106/256 (41%), Gaps = 61/256 (23%)
Query: 303 LPSKKRYPEYYDVIDVPIDLRTIARR---IQDGKYASLGDMEKDLILMTKNACTFNEPGS 359
LPS+K +P+YY I P + I R +DG L D+E L+TKN +NE S
Sbjct: 48 LPSRKFHPQYYYKIQQPXSINEIKSRDYEYEDGPSNFLLDVE----LLTKNCQAYNEYDS 103
Query: 360 QIYKDAKALKKLVQTKKMEIEQGKFTPAGKSERIRSKRIRGGQSL-SAITAALXXXXXXX 418
I K++ + L++ E +++K ++ + S + A L
Sbjct: 104 LIVKNSXQVVXLIEF----------------EVLKAKNLKRNYLINSEVKAKLLHY---- 143
Query: 419 XXXXXXXXXXPNSPLWQVYDAIRNAKTQGVIFFFFGVTAASLQKMRILYNTIKETCEPKT 478
L ++ DA Q ++ G ++ ++ + EP
Sbjct: 144 --------------LNKLVDATEKKINQALL----GASSPKNLDDKV------KLSEP-- 177
Query: 479 GRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNAC 538
F L + + P+YYE++ P + ++ L QY + + + D + +F NA
Sbjct: 178 -------FXELVDKDELPEYYEIVHSPXALSIVKQNLEIGQYSKIYDFIIDXLLVFQNAH 230
Query: 539 KYNEPDSHIYKDALSL 554
+N+P + IYKDA +L
Sbjct: 231 IFNDPSALIYKDATTL 246
Score = 35.4 bits (80), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 32/61 (52%), Gaps = 1/61 (1%)
Query: 117 EDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVT 176
+D L +PF + K + P Y+E+V +P ++Q L+ +Y + DF D LLV
Sbjct: 169 DDKVKLSEPFXELVDKDELPEYYEIVHSPXALSIVKQNLEIGQYSKIYDFIID-XLLVFQ 227
Query: 177 N 177
N
Sbjct: 228 N 228
Score = 32.7 bits (73), Expect = 0.69, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 38/76 (50%), Gaps = 7/76 (9%)
Query: 486 FQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLD---EMVADFIQMFDNACKYNE 542
F +LPSR +P YY I++P + I S+ YE+ D + D + N YNE
Sbjct: 45 FIKLPSRKFHPQYYYKIQQPXSINEIKSR----DYEYEDGPSNFLLDVELLTKNCQAYNE 100
Query: 543 PDSHIYKDALSLQRIV 558
DS I K++ + ++
Sbjct: 101 YDSLIVKNSXQVVXLI 116
Score = 28.9 bits (63), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 18/69 (26%), Positives = 33/69 (47%)
Query: 174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHS 233
+V +P ++Q L+ +Y + DF D L+ +NA F ++ ++DA L F+
Sbjct: 193 IVHSPXALSIVKQNLEIGQYSKIYDFIIDXLLVFQNAHIFNDPSALIYKDATTLTNYFNY 252
Query: 234 TRNKLLNPQ 242
K P+
Sbjct: 253 LIQKEFFPE 261
>pdb|2R0Y|A Chain A, Structure Of The Rsc4 Tandem Bromodomain In Complex With
An Acetylated H3 Peptide
Length = 311
Score = 63.5 bits (153), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 58/208 (27%), Positives = 100/208 (48%), Gaps = 31/208 (14%)
Query: 177 NPIDFIKIQQ-----KLKTDEY---DDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELM 228
+P + KIQQ ++K+ +Y D S+F D+ELL KN + + + +S +++ +++
Sbjct: 60 HPQYYYKIQQPXSINEIKSRDYEYEDGPSNFLLDVELLTKNCQAYNEYDSLIVKNSXQVV 119
Query: 229 ELF--------HSTRNKLLNPQSHEGTSQKRSMDFMMASETEDSRDSSICTEDEQNQCED 280
L + RN L+N S+ ++ ++ D+ TE + NQ
Sbjct: 120 XLIEFEVLKAKNLKRNYLIN-------SEVKAKLLHYLNKLVDA------TEKKINQA-- 164
Query: 281 LFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDM 340
L A D L E F L K PEYY+++ P L + + ++ G+Y+ + D
Sbjct: 165 LLGASSPKNLDDKVKLSEPFXELVDKDELPEYYEIVHSPXALSIVKQNLEIGQYSKIYDF 224
Query: 341 EKDLILMTKNACTFNEPGSQIYKDAKAL 368
D +L+ +NA FN+P + IYKDA L
Sbjct: 225 IIDXLLVFQNAHIFNDPSALIYKDATTL 252
Score = 60.1 bits (144), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 61/259 (23%), Positives = 107/259 (41%), Gaps = 61/259 (23%)
Query: 300 FQLLPSKKRYPEYYDVIDVPIDLRTIARR---IQDGKYASLGDMEKDLILMTKNACTFNE 356
F LPS+K +P+YY I P + I R +DG L D+E L+TKN +NE
Sbjct: 51 FIKLPSRKFHPQYYYKIQQPXSINEIKSRDYEYEDGPSNFLLDVE----LLTKNCQAYNE 106
Query: 357 PGSQIYKDAKALKKLVQTKKMEIEQGKFTPAGKSERIRSKRIRGGQSL-SAITAALXXXX 415
S I K++ + L++ E +++K ++ + S + A L
Sbjct: 107 YDSLIVKNSXQVVXLIEF----------------EVLKAKNLKRNYLINSEVKAKLLHY- 149
Query: 416 XXXXXXXXXXXXXPNSPLWQVYDAIRNAKTQGVIFFFFGVTAASLQKMRILYNTIKETCE 475
L ++ DA Q ++ G ++ ++ + E
Sbjct: 150 -----------------LNKLVDATEKKINQALL----GASSPKNLDDKV------KLSE 182
Query: 476 PKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFD 535
P F L + + P+YYE++ P + ++ L QY + + + D + +F
Sbjct: 183 P---------FXELVDKDELPEYYEIVHSPXALSIVKQNLEIGQYSKIYDFIIDXLLVFQ 233
Query: 536 NACKYNEPDSHIYKDALSL 554
NA +N+P + IYKDA +L
Sbjct: 234 NAHIFNDPSALIYKDATTL 252
Score = 35.0 bits (79), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 32/61 (52%), Gaps = 1/61 (1%)
Query: 117 EDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVT 176
+D L +PF + K + P Y+E+V +P ++Q L+ +Y + DF D LLV
Sbjct: 175 DDKVKLSEPFXELVDKDELPEYYEIVHSPXALSIVKQNLEIGQYSKIYDFIID-XLLVFQ 233
Query: 177 N 177
N
Sbjct: 234 N 234
Score = 32.7 bits (73), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 38/76 (50%), Gaps = 7/76 (9%)
Query: 486 FQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLD---EMVADFIQMFDNACKYNE 542
F +LPSR +P YY I++P + I S+ YE+ D + D + N YNE
Sbjct: 51 FIKLPSRKFHPQYYYKIQQPXSINEIKSR----DYEYEDGPSNFLLDVELLTKNCQAYNE 106
Query: 543 PDSHIYKDALSLQRIV 558
DS I K++ + ++
Sbjct: 107 YDSLIVKNSXQVVXLI 122
Score = 28.9 bits (63), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 18/69 (26%), Positives = 33/69 (47%)
Query: 174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHS 233
+V +P ++Q L+ +Y + DF D L+ +NA F ++ ++DA L F+
Sbjct: 199 IVHSPXALSIVKQNLEIGQYSKIYDFIIDXLLVFQNAHIFNDPSALIYKDATTLTNYFNY 258
Query: 234 TRNKLLNPQ 242
K P+
Sbjct: 259 LIQKEFFPE 267
>pdb|3QZT|A Chain A, Crystal Structure Of Bptf Bromo In Complex With Histone
H4k16ac - Form Ii
Length = 115
Score = 56.2 bits (134), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 30/94 (31%), Positives = 48/94 (51%)
Query: 467 YNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEM 526
Y +K +++ F +D PDYY VI++P+D+ + +++ YE L E
Sbjct: 15 YEGLKRVLRSLQAHKMAWPFLEPVDPNDAPDYYGVIKEPMDLATMEERVQRRYYEKLTEF 74
Query: 527 VADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQ 560
VAD ++FDN YN DS Y+ A L+ +Q
Sbjct: 75 VADMTKIFDNCRYYNPSDSPFYQCAEVLESFFVQ 108
Score = 38.5 bits (88), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 21/66 (31%), Positives = 32/66 (48%)
Query: 310 PEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALK 369
P+YY VI P+DL T+ R+Q Y L + D+ + N +N S Y+ A+ L+
Sbjct: 44 PDYYGVIKEPMDLATMEERVQRRYYEKLTEFVADMTKIFDNCRYYNPSDSPFYQCAEVLE 103
Query: 370 KLVQTK 375
K
Sbjct: 104 SFFVQK 109
Score = 31.2 bits (69), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 12/46 (26%), Positives = 26/46 (56%)
Query: 125 PFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADI 170
PF+ P Y+ V+ P+D ++++++ Y+ L++F AD+
Sbjct: 33 PFLEPVDPNDAPDYYGVIKEPMDLATMEERVQRRYYEKLTEFVADM 78
Score = 29.3 bits (64), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 13/58 (22%), Positives = 32/58 (55%)
Query: 174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELF 231
V+ P+D ++++++ Y+ L++F AD+ + N + + +S ++ A+ L F
Sbjct: 49 VIKEPMDLATMEERVQRRYYEKLTEFVADMTKIFDNCRYYNPSDSPFYQCAEVLESFF 106
>pdb|3UV2|A Chain A, Crystal Structure Of The Bromodomain Of Human
Nucleosome-Remodeling Factor Subunit Bptf
Length = 126
Score = 55.8 bits (133), Expect = 8e-08, Method: Compositional matrix adjust.
Identities = 30/94 (31%), Positives = 48/94 (51%)
Query: 467 YNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEM 526
Y +K +++ F +D PDYY VI++P+D+ + +++ YE L E
Sbjct: 22 YEGLKRVLRSLQAHKMAWPFLEPVDPNDAPDYYGVIKEPMDLATMEERVQRRYYEKLTEF 81
Query: 527 VADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQ 560
VAD ++FDN YN DS Y+ A L+ +Q
Sbjct: 82 VADMTKIFDNCRYYNPSDSPFYQCAEVLESFFVQ 115
Score = 38.9 bits (89), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 21/66 (31%), Positives = 32/66 (48%)
Query: 310 PEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALK 369
P+YY VI P+DL T+ R+Q Y L + D+ + N +N S Y+ A+ L+
Sbjct: 51 PDYYGVIKEPMDLATMEERVQRRYYEKLTEFVADMTKIFDNCRYYNPSDSPFYQCAEVLE 110
Query: 370 KLVQTK 375
K
Sbjct: 111 SFFVQK 116
Score = 31.2 bits (69), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 15/61 (24%), Positives = 32/61 (52%), Gaps = 3/61 (4%)
Query: 110 VIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQAD 169
V+R+ + A PF+ P Y+ V+ P+D ++++++ Y+ L++F AD
Sbjct: 28 VLRSLQAHKMAW---PFLEPVDPNDAPDYYGVIKEPMDLATMEERVQRRYYEKLTEFVAD 84
Query: 170 I 170
+
Sbjct: 85 M 85
Score = 29.6 bits (65), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 15/71 (21%), Positives = 35/71 (49%)
Query: 174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHS 233
V+ P+D ++++++ Y+ L++F AD+ + N + + +S ++ A+ L F
Sbjct: 56 VIKEPMDLATMEERVQRRYYEKLTEFVADMTKIFDNCRYYNPSDSPFYQCAEVLESFFVQ 115
Query: 234 TRNKLLNPQSH 244
+SH
Sbjct: 116 KLKGFKASRSH 126
>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 = 55.8 bits (133), Expect = 8e-08, Method: Compositional matrix adjust.
Identities = 30/94 (31%), Positives = 47/94 (50%)
Query: 467 YNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEM 526
Y +K +++ F +D PDYY VI++P+D+ + +++ YE L E
Sbjct: 15 YEGLKRVLRSLQAHKMAWPFLEPVDPNDAPDYYGVIKEPMDLATMEERVQRRYYEKLTEF 74
Query: 527 VADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQ 560
VAD +FDN YN DS Y+ A L+ +Q
Sbjct: 75 VADMTAIFDNCRYYNPSDSPFYQCAEVLESFFVQ 108
Score = 38.9 bits (89), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 21/66 (31%), Positives = 32/66 (48%)
Query: 310 PEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALK 369
P+YY VI P+DL T+ R+Q Y L + D+ + N +N S Y+ A+ L+
Sbjct: 44 PDYYGVIKEPMDLATMEERVQRRYYEKLTEFVADMTAIFDNCRYYNPSDSPFYQCAEVLE 103
Query: 370 KLVQTK 375
K
Sbjct: 104 SFFVQK 109
Score = 31.6 bits (70), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 20/83 (24%), Positives = 40/83 (48%), Gaps = 6/83 (7%)
Query: 125 PFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLV----VTNPID 180
PF+ P Y+ V+ P+D ++++++ Y+ L++F AD+ + NP D
Sbjct: 33 PFLEPVDPNDAPDYYGVIKEPMDLATMEERVQRRYYEKLTEFVADMTAIFDNCRYYNPSD 92
Query: 181 --FIKIQQKLKTDEYDDLSDFQA 201
F + + L++ L F+A
Sbjct: 93 SPFYQCAEVLESFFVQKLKGFKA 115
Score = 30.0 bits (66), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 13/58 (22%), Positives = 32/58 (55%)
Query: 174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELF 231
V+ P+D ++++++ Y+ L++F AD+ + N + + +S ++ A+ L F
Sbjct: 49 VIKEPMDLATMEERVQRRYYEKLTEFVADMTAIFDNCRYYNPSDSPFYQCAEVLESFF 106
>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 = 55.8 bits (133), Expect = 8e-08, Method: Compositional matrix adjust.
Identities = 27/68 (39%), Positives = 41/68 (60%)
Query: 493 HDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDAL 552
+D PDYY VI++P+D+ + +++ YE L E VAD ++FDN YN DS Y+ A
Sbjct: 100 NDAPDYYGVIKEPMDLATMEERVQRRYYEKLTEFVADMTKIFDNCRYYNPSDSPFYQCAE 159
Query: 553 SLQRIVLQ 560
L+ +Q
Sbjct: 160 VLESFFVQ 167
Score = 38.1 bits (87), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 21/66 (31%), Positives = 32/66 (48%)
Query: 310 PEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALK 369
P+YY VI P+DL T+ R+Q Y L + D+ + N +N S Y+ A+ L+
Sbjct: 103 PDYYGVIKEPMDLATMEERVQRRYYEKLTEFVADMTKIFDNCRYYNPSDSPFYQCAEVLE 162
Query: 370 KLVQTK 375
K
Sbjct: 163 SFFVQK 168
Score = 31.2 bits (69), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 15/61 (24%), Positives = 32/61 (52%), Gaps = 3/61 (4%)
Query: 110 VIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQAD 169
V+R+ + A PF+ P Y+ V+ P+D ++++++ Y+ L++F AD
Sbjct: 80 VLRSLQAHKMAW---PFLEPVDPNDAPDYYGVIKEPMDLATMEERVQRRYYEKLTEFVAD 136
Query: 170 I 170
+
Sbjct: 137 M 137
Score = 30.0 bits (66), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 13/58 (22%), Positives = 32/58 (55%)
Query: 174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELF 231
V+ P+D ++++++ Y+ L++F AD+ + N + + +S ++ A+ L F
Sbjct: 108 VIKEPMDLATMEERVQRRYYEKLTEFVADMTKIFDNCRYYNPSDSPFYQCAEVLESFF 165
>pdb|3QZV|A Chain A, Crystal Structure Of Bptf Phd-Linker-Bromo In Complex With
Histone H4k12ac Peptide
Length = 174
Score = 55.5 bits (132), Expect = 9e-08, Method: Compositional matrix adjust.
Identities = 27/68 (39%), Positives = 41/68 (60%)
Query: 493 HDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDAL 552
+D PDYY VI++P+D+ + +++ YE L E VAD ++FDN YN DS Y+ A
Sbjct: 100 NDAPDYYGVIKEPMDLATMEERVQRRYYEKLTEFVADMTKIFDNCRYYNPSDSPFYQCAE 159
Query: 553 SLQRIVLQ 560
L+ +Q
Sbjct: 160 VLESFFVQ 167
Score = 38.5 bits (88), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 21/66 (31%), Positives = 32/66 (48%)
Query: 310 PEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALK 369
P+YY VI P+DL T+ R+Q Y L + D+ + N +N S Y+ A+ L+
Sbjct: 103 PDYYGVIKEPMDLATMEERVQRRYYEKLTEFVADMTKIFDNCRYYNPSDSPFYQCAEVLE 162
Query: 370 KLVQTK 375
K
Sbjct: 163 SFFVQK 168
Score = 31.6 bits (70), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 23/98 (23%), Positives = 46/98 (46%), Gaps = 9/98 (9%)
Query: 110 VIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQAD 169
V+R+ + A PF+ P Y+ V+ P+D ++++++ Y+ L++F AD
Sbjct: 80 VLRSLQAHKMAW---PFLEPVDPNDAPDYYGVIKEPMDLATMEERVQRRYYEKLTEFVAD 136
Query: 170 IELLV----VTNPID--FIKIQQKLKTDEYDDLSDFQA 201
+ + NP D F + + L++ L F+A
Sbjct: 137 MTKIFDNCRYYNPSDSPFYQCAEVLESFFVQKLKGFKA 174
Score = 30.4 bits (67), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 13/58 (22%), Positives = 32/58 (55%)
Query: 174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELF 231
V+ P+D ++++++ Y+ L++F AD+ + N + + +S ++ A+ L F
Sbjct: 108 VIKEPMDLATMEERVQRRYYEKLTEFVADMTKIFDNCRYYNPSDSPFYQCAEVLESFF 165
>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 = 54.7 bits (130), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 28/76 (36%), Positives = 42/76 (55%)
Query: 494 DYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALS 553
+ PDYY++I+ P+DM I +L N Y + E + DF MF N YN+P I A +
Sbjct: 56 NLPDYYKIIKTPMDMGTIKKRLENNYYWNAQECIQDFNTMFTNCYIYNKPGDDIVLMAEA 115
Query: 554 LQRIVLQTKMHLREDE 569
L+++ LQ L +E
Sbjct: 116 LEKLFLQKINELPTEE 131
Score = 48.1 bits (113), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 25/74 (33%), Positives = 41/74 (55%)
Query: 306 KKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDA 365
K P+YY +I P+D+ TI +R+++ Y + + +D M N +N+PG I A
Sbjct: 54 KLNLPDYYKIIKTPMDMGTIKKRLENNYYWNAQECIQDFNTMFTNCYIYNKPGDDIVLMA 113
Query: 366 KALKKLVQTKKMEI 379
+AL+KL K E+
Sbjct: 114 EALEKLFLQKINEL 127
>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 = 54.7 bits (130), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 49/198 (24%), Positives = 85/198 (42%), Gaps = 24/198 (12%)
Query: 174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHS 233
++T P+D +++ ++ Y +F+ +EL+VKN+ T+ N +H Q +
Sbjct: 83 IITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSATY---NGPKHSLTQISQSMLDL 139
Query: 234 TRNKLLNPQSHEGTSQKRSMDFMMASETEDSRDSSICTEDEQNQCEDLFNAVMTS---TD 290
KL + +K + + +D+Q + + ++T
Sbjct: 140 CDEKLKEKEDKLARLEKAI--------------NPLLDDDDQVAFSFILDNIVTQKMMAV 185
Query: 291 ADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKN 350
DS P H +KK P+YY VI P+DL TI + I KY S D+ L+ N
Sbjct: 186 PDSWPFHHPV----NKKFVPDYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLILAN 241
Query: 351 ACTFNEPGSQIYKDAKAL 368
+ +N P SQ K A+ +
Sbjct: 242 SVKYNGPESQYTKTAQEI 259
Score = 45.4 bits (106), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 22/66 (33%), Positives = 36/66 (54%)
Query: 496 PDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQ 555
PDYY+VI P+D+E I + ++Y+ + + D + N+ KYN P+S K A +
Sbjct: 201 PDYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPESQYTKTAQEIV 260
Query: 556 RIVLQT 561
+ QT
Sbjct: 261 NVCYQT 266
Score = 38.1 bits (87), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 20/70 (28%), Positives = 38/70 (54%)
Query: 311 EYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALKK 370
+YY +I P+DL+T+ ++ Y S + + L L+ KN+ T+N P + + ++++
Sbjct: 79 DYYKIITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSATYNGPKHSLTQISQSMLD 138
Query: 371 LVQTKKMEIE 380
L K E E
Sbjct: 139 LCDEKLKEKE 148
Score = 33.5 bits (75), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 21/87 (24%), Positives = 42/87 (48%), Gaps = 3/87 (3%)
Query: 497 DYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQR 556
DYY++I +P+D++ + +R Y +E + N+ YN P + + + S+
Sbjct: 79 DYYKIITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSATYNGPKHSLTQISQSMLD 138
Query: 557 IVLQTKMHLREDEDSVPDVPAAVQELL 583
+ + L+E ED + + A+ LL
Sbjct: 139 LCDEK---LKEKEDKLARLEKAINPLL 162
Score = 30.8 bits (68), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 14/53 (26%), Positives = 27/53 (50%)
Query: 125 PFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVTN 177
PF K+ P Y++V+ NP+D I++ + +Y F D+ L++ +
Sbjct: 190 PFHHPVNKKFVPDYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLILANS 242
>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 = 54.3 bits (129), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 28/76 (36%), Positives = 42/76 (55%)
Query: 494 DYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALS 553
+ PDYY++I+ P+DM I +L N Y + E + DF MF N YN+P I A +
Sbjct: 52 NLPDYYKIIKTPMDMGTIKKRLENNYYWNAQECIQDFNTMFTNCYIYNKPGDDIVLMAEA 111
Query: 554 LQRIVLQTKMHLREDE 569
L+++ LQ L +E
Sbjct: 112 LEKLFLQKINELPTEE 127
Score = 48.5 bits (114), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 25/74 (33%), Positives = 41/74 (55%)
Query: 306 KKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDA 365
K P+YY +I P+D+ TI +R+++ Y + + +D M N +N+PG I A
Sbjct: 50 KLNLPDYYKIIKTPMDMGTIKKRLENNYYWNAQECIQDFNTMFTNCYIYNKPGDDIVLMA 109
Query: 366 KALKKLVQTKKMEI 379
+AL+KL K E+
Sbjct: 110 EALEKLFLQKINEL 123
>pdb|1EQF|A Chain A, Crystal Structure Of The Double Bromodomain Module From
Human Tafii250
Length = 280
Score = 54.3 bits (129), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 49/198 (24%), Positives = 85/198 (42%), Gaps = 24/198 (12%)
Query: 174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHS 233
++T P+D +++ ++ Y +F+ +EL+VKN+ T+ N +H Q +
Sbjct: 62 IITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSATY---NGPKHSLTQISQSMLDL 118
Query: 234 TRNKLLNPQSHEGTSQKRSMDFMMASETEDSRDSSICTEDEQNQCEDLFNAVMTS---TD 290
KL + +K + + +D+Q + + ++T
Sbjct: 119 CDEKLKEKEDKLARLEKAI--------------NPLLDDDDQVAFSFILDNIVTQKMMAV 164
Query: 291 ADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKN 350
DS P H +KK P+YY VI P+DL TI + I KY S D+ L+ N
Sbjct: 165 PDSWPFHHPV----NKKFVPDYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLILAN 220
Query: 351 ACTFNEPGSQIYKDAKAL 368
+ +N P SQ K A+ +
Sbjct: 221 SVKYNGPESQYTKTAQEI 238
Score = 45.1 bits (105), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 22/66 (33%), Positives = 36/66 (54%)
Query: 496 PDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQ 555
PDYY+VI P+D+E I + ++Y+ + + D + N+ KYN P+S K A +
Sbjct: 180 PDYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPESQYTKTAQEIV 239
Query: 556 RIVLQT 561
+ QT
Sbjct: 240 NVCYQT 245
Score = 38.1 bits (87), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 20/70 (28%), Positives = 38/70 (54%)
Query: 311 EYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALKK 370
+YY +I P+DL+T+ ++ Y S + + L L+ KN+ T+N P + + ++++
Sbjct: 58 DYYKIITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSATYNGPKHSLTQISQSMLD 117
Query: 371 LVQTKKMEIE 380
L K E E
Sbjct: 118 LCDEKLKEKE 127
Score = 32.7 bits (73), Expect = 0.58, Method: Compositional matrix adjust.
Identities = 21/87 (24%), Positives = 42/87 (48%), Gaps = 3/87 (3%)
Query: 497 DYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQR 556
DYY++I +P+D++ + +R Y +E + N+ YN P + + + S+
Sbjct: 58 DYYKIITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSATYNGPKHSLTQISQSMLD 117
Query: 557 IVLQTKMHLREDEDSVPDVPAAVQELL 583
+ + L+E ED + + A+ LL
Sbjct: 118 LCDEK---LKEKEDKLARLEKAINPLL 141
Score = 30.8 bits (68), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 14/53 (26%), Positives = 27/53 (50%)
Query: 125 PFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVTN 177
PF K+ P Y++V+ NP+D I++ + +Y F D+ L++ +
Sbjct: 169 PFHHPVNKKFVPDYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLILANS 221
>pdb|4HBW|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With A Quinazoline Ligand
Length = 127
Score = 54.3 bits (129), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 28/76 (36%), Positives = 42/76 (55%)
Query: 494 DYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALS 553
+ PDYY++I+ P+DM I +L N Y + E + DF MF N YN+P I A +
Sbjct: 52 NLPDYYKIIKTPMDMGTIKKRLENNYYWNAQECIQDFNTMFTNCYIYNKPGDDIVLMAEA 111
Query: 554 LQRIVLQTKMHLREDE 569
L+++ LQ L +E
Sbjct: 112 LEKLFLQKINELPTEE 127
Score = 48.5 bits (114), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 25/74 (33%), Positives = 41/74 (55%)
Query: 306 KKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDA 365
K P+YY +I P+D+ TI +R+++ Y + + +D M N +N+PG I A
Sbjct: 50 KLNLPDYYKIIKTPMDMGTIKKRLENNYYWNAQECIQDFNTMFTNCYIYNKPGDDIVLMA 109
Query: 366 KALKKLVQTKKMEI 379
+AL+KL K E+
Sbjct: 110 EALEKLFLQKINEL 123
>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 = 54.3 bits (129), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 30/94 (31%), Positives = 49/94 (52%)
Query: 466 LYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDE 525
LY+T+K + Q + F R + P YYEVIR P+D++ ++ +L+ Y
Sbjct: 16 LYSTLKSILQQVKSHQSAWPFMEPVKRTEAPGYYEVIRFPMDLKTMSERLKNRYYVSKKL 75
Query: 526 MVADFIQMFDNACKYNEPDSHIYKDALSLQRIVL 559
+AD ++F N +YN P+S YK A L++
Sbjct: 76 FMADLQRVFTNCKEYNPPESEYYKCANILEKFFF 109
Score = 45.4 bits (106), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 24/66 (36%), Positives = 37/66 (56%)
Query: 310 PEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALK 369
P YY+VI P+DL+T++ R+++ Y S DL + N +N P S+ YK A L+
Sbjct: 46 PGYYEVIRFPMDLKTMSERLKNRYYVSKKLFMADLQRVFTNCKEYNPPESEYYKCANILE 105
Query: 370 KLVQTK 375
K +K
Sbjct: 106 KFFFSK 111
Score = 35.4 bits (80), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 22/79 (27%), Positives = 37/79 (46%), Gaps = 4/79 (5%)
Query: 99 DPSDAMQQIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTD 158
DP + +++ K A PF+ K+ + P Y+EV+ P+D + ++LK
Sbjct: 12 DPDQLYSTLKSILQQVKSHQSAW---PFMEPVKRTEAPGYYEVIRFPMDLKTMSERLKNR 68
Query: 159 EYDDLSDFQADIELLVVTN 177
Y F AD++ V TN
Sbjct: 69 YYVSKKLFMADLQ-RVFTN 86
>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 = 3e-07, Method: Compositional matrix adjust.
Identities = 30/94 (31%), Positives = 49/94 (52%)
Query: 466 LYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDE 525
LY+T+K + Q + F R + P YYEVIR P+D++ ++ +L+ Y
Sbjct: 14 LYSTLKSILQQVKSHQSAWPFMEPVKRTEAPGYYEVIRFPMDLKTMSERLKNRYYVSKKL 73
Query: 526 MVADFIQMFDNACKYNEPDSHIYKDALSLQRIVL 559
+AD ++F N +YN P+S YK A L++
Sbjct: 74 FMADLQRVFTNCKEYNPPESEYYKCANILEKFFF 107
Score = 45.8 bits (107), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 24/66 (36%), Positives = 37/66 (56%)
Query: 310 PEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALK 369
P YY+VI P+DL+T++ R+++ Y S DL + N +N P S+ YK A L+
Sbjct: 44 PGYYEVIRFPMDLKTMSERLKNRYYVSKKLFMADLQRVFTNCKEYNPPESEYYKCANILE 103
Query: 370 KLVQTK 375
K +K
Sbjct: 104 KFFFSK 109
Score = 35.4 bits (80), Expect = 0.090, Method: Compositional matrix adjust.
Identities = 22/79 (27%), Positives = 37/79 (46%), Gaps = 4/79 (5%)
Query: 99 DPSDAMQQIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTD 158
DP + +++ K A PF+ K+ + P Y+EV+ P+D + ++LK
Sbjct: 10 DPDQLYSTLKSILQQVKSHQSAW---PFMEPVKRTEAPGYYEVIRFPMDLKTMSERLKNR 66
Query: 159 EYDDLSDFQADIELLVVTN 177
Y F AD++ V TN
Sbjct: 67 YYVSKKLFMADLQ-RVFTN 84
>pdb|3UV5|A Chain A, Crystal Structure Of The Tandem Bromodomains Of Human
Transcription Initiation Factor Tfiid Subunit 1 (Taf1)
Length = 265
Score = 53.9 bits (128), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 49/198 (24%), Positives = 85/198 (42%), Gaps = 24/198 (12%)
Query: 174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHS 233
++T P+D +++ ++ Y +F+ +EL+VKN+ T+ N +H Q +
Sbjct: 50 IITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSATY---NGPKHSLTQISQSMLDL 106
Query: 234 TRNKLLNPQSHEGTSQKRSMDFMMASETEDSRDSSICTEDEQNQCEDLFNAVMTS---TD 290
KL + +K + + +D+Q + + ++T
Sbjct: 107 CDEKLKEKEDKLARLEKAI--------------NPLLDDDDQVAFSFILDNIVTQKMMAV 152
Query: 291 ADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKN 350
DS P H +KK P+YY VI P+DL TI + I KY S D+ L+ N
Sbjct: 153 PDSWPFHHPV----NKKFVPDYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLILAN 208
Query: 351 ACTFNEPGSQIYKDAKAL 368
+ +N P SQ K A+ +
Sbjct: 209 SVKYNGPESQYTKTAQEI 226
Score = 45.1 bits (105), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 22/66 (33%), Positives = 36/66 (54%)
Query: 496 PDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQ 555
PDYY+VI P+D+E I + ++Y+ + + D + N+ KYN P+S K A +
Sbjct: 168 PDYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPESQYTKTAQEIV 227
Query: 556 RIVLQT 561
+ QT
Sbjct: 228 NVCYQT 233
Score = 37.7 bits (86), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 20/70 (28%), Positives = 38/70 (54%)
Query: 311 EYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALKK 370
+YY +I P+DL+T+ ++ Y S + + L L+ KN+ T+N P + + ++++
Sbjct: 46 DYYKIITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSATYNGPKHSLTQISQSMLD 105
Query: 371 LVQTKKMEIE 380
L K E E
Sbjct: 106 LCDEKLKEKE 115
Score = 32.7 bits (73), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 21/87 (24%), Positives = 42/87 (48%), Gaps = 3/87 (3%)
Query: 497 DYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQR 556
DYY++I +P+D++ + +R Y +E + N+ YN P + + + S+
Sbjct: 46 DYYKIITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSATYNGPKHSLTQISQSMLD 105
Query: 557 IVLQTKMHLREDEDSVPDVPAAVQELL 583
+ + L+E ED + + A+ LL
Sbjct: 106 LCDEK---LKEKEDKLARLEKAINPLL 129
Score = 30.8 bits (68), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 14/53 (26%), Positives = 27/53 (50%)
Query: 125 PFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVTN 177
PF K+ P Y++V+ NP+D I++ + +Y F D+ L++ +
Sbjct: 157 PFHHPVNKKFVPDYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLILANS 209
>pdb|4DON|A Chain A, Brd4 Bromodomain 1 Complex With A Fragment
3,4-dihydro-3-methyl-2(1h)- Quinazolinon
Length = 145
Score = 53.9 bits (128), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 26/69 (37%), Positives = 40/69 (57%)
Query: 492 RHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDA 551
+ + PDYY++I+ P+DM I +L N Y + E + DF MF N YN+P I A
Sbjct: 70 KLNLPDYYKIIKTPMDMGTIKKRLENNYYWNAQECIQDFNTMFTNCYIYNKPGDDIVLMA 129
Query: 552 LSLQRIVLQ 560
+L+++ LQ
Sbjct: 130 EALEKLFLQ 138
Score = 48.5 bits (114), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 25/74 (33%), Positives = 41/74 (55%)
Query: 306 KKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDA 365
K P+YY +I P+D+ TI +R+++ Y + + +D M N +N+PG I A
Sbjct: 70 KLNLPDYYKIIKTPMDMGTIKKRLENNYYWNAQECIQDFNTMFTNCYIYNKPGDDIVLMA 129
Query: 366 KALKKLVQTKKMEI 379
+AL+KL K E+
Sbjct: 130 EALEKLFLQKINEL 143
>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 = 53.9 bits (128), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 27/68 (39%), Positives = 39/68 (57%)
Query: 493 HDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDAL 552
+D PDYY VI++P D+ +++ YE L E VAD ++FDN YN DS Y+ A
Sbjct: 100 NDAPDYYGVIKEPXDLATXEERVQRRYYEKLTEFVADXTKIFDNCRYYNPSDSPFYQCAE 159
Query: 553 SLQRIVLQ 560
L+ +Q
Sbjct: 160 VLESFFVQ 167
Score = 35.4 bits (80), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 21/66 (31%), Positives = 29/66 (43%)
Query: 310 PEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALK 369
P+YY VI P DL T R+Q Y L + D + N +N S Y+ A+ L+
Sbjct: 103 PDYYGVIKEPXDLATXEERVQRRYYEKLTEFVADXTKIFDNCRYYNPSDSPFYQCAEVLE 162
Query: 370 KLVQTK 375
K
Sbjct: 163 SFFVQK 168
Score = 28.9 bits (63), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 15/60 (25%), Positives = 29/60 (48%), Gaps = 3/60 (5%)
Query: 110 VIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQAD 169
V+R+ + A PF+ P Y+ V+ P D +++++ Y+ L++F AD
Sbjct: 80 VLRSLQAHKXAW---PFLEPVDPNDAPDYYGVIKEPXDLATXEERVQRRYYEKLTEFVAD 136
>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 = 53.5 bits (127), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 32/94 (34%), Positives = 48/94 (51%), Gaps = 10/94 (10%)
Query: 496 PDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQ 555
PDY+++I++P+DM I +L N Y E + DF MF N YN+P I A +L+
Sbjct: 65 PDYHKIIKQPMDMGTIKRRLENNYYWAASECMQDFNTMFTNCYIYNKPTDDIVLMAQTLE 124
Query: 556 RIVLQTKMHLREDEDSVPDVPAAVQELLTSLFTS 589
+I LQ V +P QEL+ ++ S
Sbjct: 125 KIFLQ----------KVASMPQEEQELVVTIPNS 148
Score = 42.4 bits (98), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 21/72 (29%), Positives = 38/72 (52%)
Query: 310 PEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALK 369
P+Y+ +I P+D+ TI RR+++ Y + + +D M N +N+P I A+ L+
Sbjct: 65 PDYHKIIKQPMDMGTIKRRLENNYYWAASECMQDFNTMFTNCYIYNKPTDDIVLMAQTLE 124
Query: 370 KLVQTKKMEIEQ 381
K+ K + Q
Sbjct: 125 KIFLQKVASMPQ 136
>pdb|2YW5|A Chain A, Solution Structure Of The Bromodomain From Human
Bromodomain Containing Protein 3
Length = 138
Score = 53.5 bits (127), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 29/86 (33%), Positives = 46/86 (53%), Gaps = 1/86 (1%)
Query: 494 DYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALS 553
+ PDY+++I+ P+DM I +L N Y E + DF MF N YN+P I A +
Sbjct: 52 NLPDYHKIIKNPMDMGTIKKRLENNYYWSASECMQDFNTMFTNCYIYNKPTDDIVLMAQA 111
Query: 554 LQRIVLQTKMHLREDE-DSVPDVPAA 578
L++I LQ + ++E + +P P
Sbjct: 112 LEKIFLQKVAQMPQEEVELLPPAPKG 137
Score = 45.1 bits (105), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 26/85 (30%), Positives = 44/85 (51%), Gaps = 5/85 (5%)
Query: 310 PEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALK 369
P+Y+ +I P+D+ TI +R+++ Y S + +D M N +N+P I A+AL+
Sbjct: 54 PDYHKIIKNPMDMGTIKKRLENNYYWSASECMQDFNTMFTNCYIYNKPTDDIVLMAQALE 113
Query: 370 KL-----VQTKKMEIEQGKFTPAGK 389
K+ Q + E+E P GK
Sbjct: 114 KIFLQKVAQMPQEEVELLPPAPKGK 138
Score = 29.3 bits (64), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 11/38 (28%), Positives = 22/38 (57%)
Query: 136 PSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELL 173
P YH+++ NP+D I+++L+ + Y S+ D +
Sbjct: 54 PDYHKIIKNPMDMGTIKKRLENNYYWSASECMQDFNTM 91
>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 = 53.5 bits (127), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 31/91 (34%), Positives = 47/91 (51%), Gaps = 10/91 (10%)
Query: 496 PDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQ 555
PDY+++I++P+DM I +L N Y E + DF MF N YN+P I A +L+
Sbjct: 65 PDYHKIIKQPMDMGTIKRRLENNYYWAASECMQDFNTMFTNCYIYNKPTDDIVLMAQTLE 124
Query: 556 RIVLQTKMHLREDEDSVPDVPAAVQELLTSL 586
+I LQ V +P QEL+ ++
Sbjct: 125 KIFLQ----------KVASMPQEEQELVVTI 145
Score = 42.0 bits (97), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 21/72 (29%), Positives = 38/72 (52%)
Query: 310 PEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALK 369
P+Y+ +I P+D+ TI RR+++ Y + + +D M N +N+P I A+ L+
Sbjct: 65 PDYHKIIKQPMDMGTIKRRLENNYYWAASECMQDFNTMFTNCYIYNKPTDDIVLMAQTLE 124
Query: 370 KLVQTKKMEIEQ 381
K+ K + Q
Sbjct: 125 KIFLQKVASMPQ 136
>pdb|2L5E|A Chain A, Complex Between Bd1 Of Brd3 And Gata-1 C-Tail
Length = 128
Score = 53.1 bits (126), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 27/76 (35%), Positives = 42/76 (55%)
Query: 494 DYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALS 553
+ PDY+++I+ P+DM I +L N Y E + DF MF N YN+P I A +
Sbjct: 50 NLPDYHKIIKNPMDMGTIKKRLENNYYWSASECMQDFNTMFTNCYIYNKPTDDIVLMAQA 109
Query: 554 LQRIVLQTKMHLREDE 569
L++I LQ + ++E
Sbjct: 110 LEKIFLQKVAQMPQEE 125
Score = 44.3 bits (103), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 23/76 (30%), Positives = 41/76 (53%)
Query: 306 KKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDA 365
K P+Y+ +I P+D+ TI +R+++ Y S + +D M N +N+P I A
Sbjct: 48 KLNLPDYHKIIKNPMDMGTIKKRLENNYYWSASECMQDFNTMFTNCYIYNKPTDDIVLMA 107
Query: 366 KALKKLVQTKKMEIEQ 381
+AL+K+ K ++ Q
Sbjct: 108 QALEKIFLQKVAQMPQ 123
Score = 29.6 bits (65), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 11/38 (28%), Positives = 22/38 (57%)
Query: 136 PSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELL 173
P YH+++ NP+D I+++L+ + Y S+ D +
Sbjct: 52 PDYHKIIKNPMDMGTIKKRLENNYYWSASECMQDFNTM 89
>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 = 53.1 bits (126), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 27/77 (35%), Positives = 45/77 (58%), Gaps = 3/77 (3%)
Query: 481 QLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLR--YNQYEHLDEMVADFIQMFDNAC 538
++S FQ P PDYY++I+ P+D+ I +L+ Y+ Y ++ VADF +F N
Sbjct: 36 EMSLAFQD-PVPLTVPDYYKIIKNPMDLSTIKKRLQEDYSMYSKPEDFVADFRLIFQNCA 94
Query: 539 KYNEPDSHIYKDALSLQ 555
++NEPDS + + L+
Sbjct: 95 EFNEPDSEVANAGIKLE 111
Score = 43.5 bits (101), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 21/54 (38%), Positives = 32/54 (59%), Gaps = 2/54 (3%)
Query: 310 PEYYDVIDVPIDLRTIARRIQD--GKYASLGDMEKDLILMTKNACTFNEPGSQI 361
P+YY +I P+DL TI +R+Q+ Y+ D D L+ +N FNEP S++
Sbjct: 50 PDYYKIIKNPMDLSTIKKRLQEDYSMYSKPEDFVADFRLIFQNCAEFNEPDSEV 103
Score = 30.4 bits (67), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 24/40 (60%), Gaps = 2/40 (5%)
Query: 136 PSYHEVVTNPIDFIKIQQKLKTDE--YDDLSDFQADIELL 173
P Y++++ NP+D I+++L+ D Y DF AD L+
Sbjct: 50 PDYYKIIKNPMDLSTIKKRLQEDYSMYSKPEDFVADFRLI 89
>pdb|2NXB|A Chain A, Crystal Structure Of Human Bromodomain Containing Protein
3 (Brd3)
pdb|2NXB|B Chain B, Crystal Structure Of Human Bromodomain Containing Protein
3 (Brd3)
pdb|3S91|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd3
In Complex With The Inhibitor Jq1
Length = 123
Score = 52.8 bits (125), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 27/76 (35%), Positives = 42/76 (55%)
Query: 494 DYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALS 553
+ PDY+++I+ P+DM I +L N Y E + DF MF N YN+P I A +
Sbjct: 48 NLPDYHKIIKNPMDMGTIKKRLENNYYWSASECMQDFNTMFTNCYIYNKPTDDIVLMAQA 107
Query: 554 LQRIVLQTKMHLREDE 569
L++I LQ + ++E
Sbjct: 108 LEKIFLQKVAQMPQEE 123
Score = 44.7 bits (104), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 22/72 (30%), Positives = 40/72 (55%)
Query: 310 PEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALK 369
P+Y+ +I P+D+ TI +R+++ Y S + +D M N +N+P I A+AL+
Sbjct: 50 PDYHKIIKNPMDMGTIKKRLENNYYWSASECMQDFNTMFTNCYIYNKPTDDIVLMAQALE 109
Query: 370 KLVQTKKMEIEQ 381
K+ K ++ Q
Sbjct: 110 KIFLQKVAQMPQ 121
Score = 29.6 bits (65), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 11/38 (28%), Positives = 22/38 (57%)
Query: 136 PSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELL 173
P YH+++ NP+D I+++L+ + Y S+ D +
Sbjct: 50 PDYHKIIKNPMDMGTIKKRLENNYYWSASECMQDFNTM 87
>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 = 52.8 bits (125), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 27/79 (34%), Positives = 45/79 (56%), Gaps = 3/79 (3%)
Query: 480 RQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLR--YNQYEHLDEMVADFIQMFDNA 537
++S FQ P PDYY++I+ P+D+ I +L+ Y+ Y ++ VADF +F N
Sbjct: 96 HEMSLAFQD-PVPLTVPDYYKIIKNPMDLSTIKKRLQEDYSMYSKPEDFVADFRLIFQNC 154
Query: 538 CKYNEPDSHIYKDALSLQR 556
++NEPDS + + L+
Sbjct: 155 AEFNEPDSEVANAGIKLEN 173
Score = 43.5 bits (101), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 21/54 (38%), Positives = 32/54 (59%), Gaps = 2/54 (3%)
Query: 310 PEYYDVIDVPIDLRTIARRIQD--GKYASLGDMEKDLILMTKNACTFNEPGSQI 361
P+YY +I P+DL TI +R+Q+ Y+ D D L+ +N FNEP S++
Sbjct: 111 PDYYKIIKNPMDLSTIKKRLQEDYSMYSKPEDFVADFRLIFQNCAEFNEPDSEV 164
Score = 30.4 bits (67), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 24/40 (60%), Gaps = 2/40 (5%)
Query: 136 PSYHEVVTNPIDFIKIQQKLKTDE--YDDLSDFQADIELL 173
P Y++++ NP+D I+++L+ D Y DF AD L+
Sbjct: 111 PDYYKIIKNPMDLSTIKKRLQEDYSMYSKPEDFVADFRLI 150
>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 = 51.2 bits (121), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 27/76 (35%), Positives = 43/76 (56%)
Query: 306 KKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDA 365
K + P+YY +I P+DL TI +R+++ YA + +D M N +N+PG I A
Sbjct: 42 KLQLPDYYTIIKNPMDLNTIKKRLENKYYAKASECIEDFNTMFSNCYLYNKPGDDIVLMA 101
Query: 366 KALKKLVQTKKMEIEQ 381
+AL+KL K ++ Q
Sbjct: 102 QALEKLFMQKLSQMPQ 117
Score = 50.4 bits (119), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 24/74 (32%), Positives = 39/74 (52%)
Query: 496 PDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQ 555
PDYY +I+ P+D+ I +L Y E + DF MF N YN+P I A +L+
Sbjct: 46 PDYYTIIKNPMDLNTIKKRLENKYYAKASECIEDFNTMFSNCYLYNKPGDDIVLMAQALE 105
Query: 556 RIVLQTKMHLREDE 569
++ +Q + ++E
Sbjct: 106 KLFMQKLSQMPQEE 119
>pdb|3FKM|X Chain X, Plasmodium Falciparum Bromodomain-Containing Protein
Pf10_0328
Length = 166
Score = 50.8 bits (120), Expect = 2e-06, Method: Composition-based stats.
Identities = 25/64 (39%), Positives = 36/64 (56%), Gaps = 2/64 (3%)
Query: 484 HIFQRL--PSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYN 541
HIF++L + + PDYY+VI+ P I +KL+ QY + E V D +FDN YN
Sbjct: 40 HIFEKLVDAKKQNCPDYYDVIKNPXSFSCIKTKLKKGQYAYPSEFVKDVQLIFDNCSLYN 99
Query: 542 EPDS 545
+S
Sbjct: 100 TSNS 103
Score = 37.0 bits (84), Expect = 0.030, Method: Composition-based stats.
Identities = 18/56 (32%), Positives = 29/56 (51%)
Query: 306 KKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQI 361
K+ P+YYDVI P I +++ G+YA + KD+ L+ N +N S +
Sbjct: 50 KQNCPDYYDVIKNPXSFSCIKTKLKKGQYAYPSEFVKDVQLIFDNCSLYNTSNSVV 105
Score = 37.0 bits (84), Expect = 0.034, Method: Composition-based stats.
Identities = 17/43 (39%), Positives = 27/43 (62%)
Query: 131 KKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELL 173
KK+ P Y++V+ NP F I+ KLK +Y S+F D++L+
Sbjct: 49 KKQNCPDYYDVIKNPXSFSCIKTKLKKGQYAYPSEFVKDVQLI 91
Score = 32.3 bits (72), Expect = 0.94, Method: Composition-based stats.
Identities = 16/45 (35%), Positives = 24/45 (53%)
Query: 174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNS 218
V+ NP F I+ KLK +Y S+F D++L+ N + NS
Sbjct: 59 VIKNPXSFSCIKTKLKKGQYAYPSEFVKDVQLIFDNCSLYNTSNS 103
>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 = 50.1 bits (118), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 29/92 (31%), Positives = 45/92 (48%)
Query: 466 LYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDE 525
LY T+K + F + + PDYYEVIR P+D++ + +LR Y
Sbjct: 8 LYTTLKNLLAQIKSHPSAWPFMEPVKKSEAPDYYEVIRFPIDLKTMTERLRSRYYVTRKL 67
Query: 526 MVADFIQMFDNACKYNEPDSHIYKDALSLQRI 557
VAD ++ N +YN PDS + A +L++
Sbjct: 68 FVADLQRVIANCREYNPPDSEYCRCASALEKF 99
Score = 43.5 bits (101), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 25/73 (34%), Positives = 37/73 (50%)
Query: 306 KKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDA 365
K P+YY+VI PIDL+T+ R++ Y + DL + N +N P S+ + A
Sbjct: 34 KSEAPDYYEVIRFPIDLKTMTERLRSRYYVTRKLFVADLQRVIANCREYNPPDSEYCRCA 93
Query: 366 KALKKLVQTKKME 378
AL+K K E
Sbjct: 94 SALEKFFYFKLKE 106
Score = 35.8 bits (81), Expect = 0.078, Method: Compositional matrix adjust.
Identities = 23/86 (26%), Positives = 40/86 (46%), Gaps = 7/86 (8%)
Query: 99 DPSDAMQQIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTD 158
DP + +++ K A PF+ KK + P Y+EV+ PID + ++L++
Sbjct: 4 DPDQLYTTLKNLLAQIKSHPSAW---PFMEPVKKSEAPDYYEVIRFPIDLKTMTERLRSR 60
Query: 159 EYDDLSDFQADIELLVVT----NPID 180
Y F AD++ ++ NP D
Sbjct: 61 YYVTRKLFVADLQRVIANCREYNPPD 86
>pdb|1F68|A Chain A, Nmr Solution Structure Of The Bromodomain From Human Gcn5
Length = 103
Score = 49.7 bits (117), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 29/92 (31%), Positives = 45/92 (48%)
Query: 466 LYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDE 525
LY T+K + F + + PDYYEVIR P+D++ + +LR Y
Sbjct: 4 LYTTLKNLLAQIKSHPSAWPFMEPVKKSEAPDYYEVIRFPIDLKTMTERLRSRYYVTRKL 63
Query: 526 MVADFIQMFDNACKYNEPDSHIYKDALSLQRI 557
VAD ++ N +YN PDS + A +L++
Sbjct: 64 FVADLQRVIANCREYNPPDSEYCRCASALEKF 95
Score = 43.9 bits (102), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 25/73 (34%), Positives = 37/73 (50%)
Query: 306 KKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDA 365
K P+YY+VI PIDL+T+ R++ Y + DL + N +N P S+ + A
Sbjct: 30 KSEAPDYYEVIRFPIDLKTMTERLRSRYYVTRKLFVADLQRVIANCREYNPPDSEYCRCA 89
Query: 366 KALKKLVQTKKME 378
AL+K K E
Sbjct: 90 SALEKFFYFKLKE 102
Score = 35.8 bits (81), Expect = 0.080, Method: Compositional matrix adjust.
Identities = 24/83 (28%), Positives = 40/83 (48%), Gaps = 11/83 (13%)
Query: 106 QIYDVIRNF----KKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYD 161
Q+Y ++N K A PF+ KK + P Y+EV+ PID + ++L++ Y
Sbjct: 3 QLYTTLKNLLAQIKSHPSAW---PFMEPVKKSEAPDYYEVIRFPIDLKTMTERLRSRYYV 59
Query: 162 DLSDFQADIELLVVT----NPID 180
F AD++ ++ NP D
Sbjct: 60 TRKLFVADLQRVIANCREYNPPD 82
>pdb|2WP2|A Chain A, Structure Of Brdt Bromodomain Bd1 Bound To A Diacetylated
Histone H4 Peptide.
pdb|2WP2|B Chain B, Structure Of Brdt Bromodomain Bd1 Bound To A Diacetylated
Histone H4 Peptide
Length = 120
Score = 49.3 bits (116), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 24/74 (32%), Positives = 39/74 (52%)
Query: 496 PDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQ 555
PDYY +I+ P+D+ I +L YE E + DF MF N YN+ I A +L+
Sbjct: 47 PDYYTIIKTPMDLNTIKKRLENKYYEKASECIEDFNTMFSNCYLYNKTGDDIVVMAQALE 106
Query: 556 RIVLQTKMHLREDE 569
++ +Q + ++E
Sbjct: 107 KLFMQKLSQMPQEE 120
Score = 47.4 bits (111), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 25/76 (32%), Positives = 41/76 (53%)
Query: 306 KKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDA 365
K + P+YY +I P+DL TI +R+++ Y + +D M N +N+ G I A
Sbjct: 43 KLKLPDYYTIIKTPMDLNTIKKRLENKYYEKASECIEDFNTMFSNCYLYNKTGDDIVVMA 102
Query: 366 KALKKLVQTKKMEIEQ 381
+AL+KL K ++ Q
Sbjct: 103 QALEKLFMQKLSQMPQ 118
>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 = 48.5 bits (114), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 23/65 (35%), Positives = 35/65 (53%)
Query: 496 PDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQ 555
PDY+++++ P+D+ I KL QY+ + V D MF+NA YN S +YK L
Sbjct: 50 PDYFDIVKSPMDLSTIKRKLDTGQYQEPWQYVDDIWLMFNNAWLYNRKTSRVYKYCSKLS 109
Query: 556 RIVLQ 560
+ Q
Sbjct: 110 EVFEQ 114
Score = 48.1 bits (113), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 29/101 (28%), Positives = 50/101 (49%), Gaps = 8/101 (7%)
Query: 279 EDLFNAVMTSTDA------DSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDG 332
E+L A+M + +A +S P + P P+Y+D++ P+DL TI R++ G
Sbjct: 15 EELRQALMPTLEALYRQDPESLPFRQPVD--PQLLGIPDYFDIVKSPMDLSTIKRKLDTG 72
Query: 333 KYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQ 373
+Y D+ LM NA +N S++YK L ++ +
Sbjct: 73 QYQEPWQYVDDIWLMFNNAWLYNRKTSRVYKYCSKLSEVFE 113
Score = 30.4 bits (67), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 22/82 (26%), Positives = 40/82 (48%), Gaps = 4/82 (4%)
Query: 94 KRKKIDPSDAMQQIYDVIRNFKKEDGALLCDPFIRI--PKKRQEPSYHEVVTNPIDFIKI 151
K+K P + Q + + ++D L PF + P+ P Y ++V +P+D I
Sbjct: 8 KKKIFKPEELRQALMPTLEALYRQDPESL--PFRQPVDPQLLGIPDYFDIVKSPMDLSTI 65
Query: 152 QQKLKTDEYDDLSDFQADIELL 173
++KL T +Y + + DI L+
Sbjct: 66 KRKLDTGQYQEPWQYVDDIWLM 87
>pdb|3MB3|A Chain A, Crystal Structure Of The Second Bromodomain Of Pleckstrin
Homology Domain Interacting Protein (Phip)
Length = 135
Score = 48.5 bits (114), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 29/89 (32%), Positives = 46/89 (51%), Gaps = 7/89 (7%)
Query: 275 QNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKY 334
+ QCE+L N + D S P + LL YP+Y D+ID P+D T+ ++ G Y
Sbjct: 23 KKQCEELLNLIFQCED--SEPFRQPVDLL----EYPDYRDIIDTPMDFATVRETLEAGNY 76
Query: 335 ASLGDMEKDLILMTKNACTFN-EPGSQIY 362
S ++ KD+ L+ N+ + S+IY
Sbjct: 77 ESPMELCKDVRLIFSNSKAYTPSKRSRIY 105
Score = 33.5 bits (75), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 29/62 (46%), Gaps = 1/62 (1%)
Query: 494 DYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYN-EPDSHIYKDAL 552
+YPDY ++I P+D + L YE E+ D +F N+ Y S IY +L
Sbjct: 50 EYPDYRDIIDTPMDFATVRETLEAGNYESPMELCKDVRLIFSNSKAYTPSKRSRIYSMSL 109
Query: 553 SL 554
L
Sbjct: 110 RL 111
>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 = 48.1 bits (113), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 23/65 (35%), Positives = 35/65 (53%)
Query: 496 PDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQ 555
PDY+++++ P+D+ I KL QY+ + V D MF+NA YN S +YK L
Sbjct: 47 PDYFDIVKNPMDLSTIKRKLDTGQYQEPWQYVDDVWLMFNNAWLYNRKTSRVYKFCSKLA 106
Query: 556 RIVLQ 560
+ Q
Sbjct: 107 EVFEQ 111
Score = 47.8 bits (112), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 36/64 (56%)
Query: 310 PEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALK 369
P+Y+D++ P+DL TI R++ G+Y D+ LM NA +N S++YK L
Sbjct: 47 PDYFDIVKNPMDLSTIKRKLDTGQYQEPWQYVDDVWLMFNNAWLYNRKTSRVYKFCSKLA 106
Query: 370 KLVQ 373
++ +
Sbjct: 107 EVFE 110
Score = 31.6 bits (70), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 13/38 (34%), Positives = 23/38 (60%)
Query: 136 PSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELL 173
P Y ++V NP+D I++KL T +Y + + D+ L+
Sbjct: 47 PDYFDIVKNPMDLSTIKRKLDTGQYQEPWQYVDDVWLM 84
>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 = 48.1 bits (113), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 21/54 (38%), Positives = 32/54 (59%)
Query: 496 PDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYK 549
PDY+++++ P+D+ I KL QY+ + V D MF+NA YN S +YK
Sbjct: 45 PDYFDIVKNPMDLSTIKRKLDTGQYQEPWQYVDDVWLMFNNAWLYNRKTSRVYK 98
Score = 47.8 bits (112), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 36/64 (56%)
Query: 310 PEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALK 369
P+Y+D++ P+DL TI R++ G+Y D+ LM NA +N S++YK L
Sbjct: 45 PDYFDIVKNPMDLSTIKRKLDTGQYQEPWQYVDDVWLMFNNAWLYNRKTSRVYKFCSKLA 104
Query: 370 KLVQ 373
++ +
Sbjct: 105 EVFE 108
Score = 31.6 bits (70), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 13/38 (34%), Positives = 23/38 (60%)
Query: 136 PSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELL 173
P Y ++V NP+D I++KL T +Y + + D+ L+
Sbjct: 45 PDYFDIVKNPMDLSTIKRKLDTGQYQEPWQYVDDVWLM 82
>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 = 47.8 bits (112), Expect = 2e-05, Method: Composition-based stats.
Identities = 29/91 (31%), Positives = 42/91 (46%), Gaps = 10/91 (10%)
Query: 496 PDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQ 555
PDY+++I++P D I +L N Y E DF F N YN+P I A +L+
Sbjct: 45 PDYHKIIKQPXDXGTIKRRLENNYYWAASECXQDFNTXFTNCYIYNKPTDDIVLXAQTLE 104
Query: 556 RIVLQTKMHLREDEDSVPDVPAAVQELLTSL 586
+I LQ V P QEL+ ++
Sbjct: 105 KIFLQ----------KVASXPQEEQELVVTI 125
Score = 38.5 bits (88), Expect = 0.013, Method: Composition-based stats.
Identities = 19/66 (28%), Positives = 33/66 (50%)
Query: 310 PEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALK 369
P+Y+ +I P D TI RR+++ Y + + +D N +N+P I A+ L+
Sbjct: 45 PDYHKIIKQPXDXGTIKRRLENNYYWAASECXQDFNTXFTNCYIYNKPTDDIVLXAQTLE 104
Query: 370 KLVQTK 375
K+ K
Sbjct: 105 KIFLQK 110
>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 = 47.8 bits (112), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 29/78 (37%), Positives = 40/78 (51%), Gaps = 6/78 (7%)
Query: 292 DSRPLHEVFQLLPSKKRY-PEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKN 350
DS P H P K++ P+YY VI P+DL TI + I KY S D+ L+ N
Sbjct: 47 DSWPFHH-----PVNKKFVPDYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLILAN 101
Query: 351 ACTFNEPGSQIYKDAKAL 368
+ +N P SQ K A+ +
Sbjct: 102 SVKYNGPESQYTKTAQEI 119
Score = 44.7 bits (104), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 22/66 (33%), Positives = 36/66 (54%)
Query: 496 PDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQ 555
PDYY+VI P+D+E I + ++Y+ + + D + N+ KYN P+S K A +
Sbjct: 61 PDYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPESQYTKTAQEIV 120
Query: 556 RIVLQT 561
+ QT
Sbjct: 121 NVCYQT 126
Score = 30.8 bits (68), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 14/50 (28%), Positives = 26/50 (52%)
Query: 125 PFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLV 174
PF K+ P Y++V+ NP+D I++ + +Y F D+ L++
Sbjct: 50 PFHHPVNKKFVPDYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLIL 99
>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 = 47.8 bits (112), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 25/61 (40%), Positives = 32/61 (52%)
Query: 497 DYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQR 556
DY ++I+ P+DM I SKL +Y E AD MF N KYN PD + A LQ
Sbjct: 59 DYCDIIKHPMDMSTIKSKLEAREYRDAQEFGADVRLMFSNCYKYNPPDHEVVAMARKLQD 118
Query: 557 I 557
+
Sbjct: 119 V 119
Score = 36.6 bits (83), Expect = 0.050, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 27/48 (56%), Gaps = 3/48 (6%)
Query: 174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEH 221
++ +P+D I+ KL+ EY D +F AD+ L+ N YK N +H
Sbjct: 63 IIKHPMDMSTIKSKLEAREYRDAQEFGADVRLMFSNC---YKYNPPDH 107
Score = 35.0 bits (79), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 16/65 (24%), Positives = 34/65 (52%)
Query: 311 EYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALKK 370
+Y D+I P+D+ TI +++ +Y + D+ LM N +N P ++ A+ L+
Sbjct: 59 DYCDIIKHPMDMSTIKSKLEAREYRDAQEFGADVRLMFSNCYKYNPPDHEVVAMARKLQD 118
Query: 371 LVQTK 375
+ + +
Sbjct: 119 VFEMR 123
Score = 33.1 bits (74), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 26/47 (55%), Gaps = 4/47 (8%)
Query: 138 YHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVT----NPID 180
Y +++ +P+D I+ KL+ EY D +F AD+ L+ NP D
Sbjct: 60 YCDIIKHPMDMSTIKSKLEAREYRDAQEFGADVRLMFSNCYKYNPPD 106
>pdb|2LSP|B Chain B, Solution Structures Of Brd4 Second Bromodomain With
Nf-Kb-K310ac Peptide
Length = 128
Score = 47.8 bits (112), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 25/61 (40%), Positives = 32/61 (52%)
Query: 497 DYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQR 556
DY ++I+ P+DM I SKL +Y E AD MF N KYN PD + A LQ
Sbjct: 57 DYCDIIKHPMDMSTIKSKLEAREYRDAQEFGADVRLMFSNCYKYNPPDHEVVAMARKLQD 116
Query: 557 I 557
+
Sbjct: 117 V 117
Score = 36.2 bits (82), Expect = 0.054, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 27/48 (56%), Gaps = 3/48 (6%)
Query: 174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEH 221
++ +P+D I+ KL+ EY D +F AD+ L+ N YK N +H
Sbjct: 61 IIKHPMDMSTIKSKLEAREYRDAQEFGADVRLMFSNC---YKYNPPDH 105
Score = 35.0 bits (79), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 16/65 (24%), Positives = 34/65 (52%)
Query: 311 EYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALKK 370
+Y D+I P+D+ TI +++ +Y + D+ LM N +N P ++ A+ L+
Sbjct: 57 DYCDIIKHPMDMSTIKSKLEAREYRDAQEFGADVRLMFSNCYKYNPPDHEVVAMARKLQD 116
Query: 371 LVQTK 375
+ + +
Sbjct: 117 VFEMR 121
Score = 33.1 bits (74), Expect = 0.55, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 26/47 (55%), Gaps = 4/47 (8%)
Query: 138 YHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVT----NPID 180
Y +++ +P+D I+ KL+ EY D +F AD+ L+ NP D
Sbjct: 58 YCDIIKHPMDMSTIKSKLEAREYRDAQEFGADVRLMFSNCYKYNPPD 104
>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 = 47.4 bits (111), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 25/61 (40%), Positives = 32/61 (52%)
Query: 497 DYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQR 556
DY ++I+ P+DM I SKL +Y E AD MF N KYN PD + A LQ
Sbjct: 46 DYCDIIKHPMDMSTIKSKLESREYRDAQEFGADVRLMFSNCYKYNPPDHEVVAMARKLQD 105
Query: 557 I 557
+
Sbjct: 106 V 106
Score = 37.0 bits (84), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 28/48 (58%), Gaps = 3/48 (6%)
Query: 174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEH 221
++ +P+D I+ KL++ EY D +F AD+ L+ N YK N +H
Sbjct: 50 IIKHPMDMSTIKSKLESREYRDAQEFGADVRLMFSNC---YKYNPPDH 94
Score = 35.0 bits (79), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 16/65 (24%), Positives = 34/65 (52%)
Query: 311 EYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALKK 370
+Y D+I P+D+ TI +++ +Y + D+ LM N +N P ++ A+ L+
Sbjct: 46 DYCDIIKHPMDMSTIKSKLESREYRDAQEFGADVRLMFSNCYKYNPPDHEVVAMARKLQD 105
Query: 371 LVQTK 375
+ + +
Sbjct: 106 VFEMR 110
Score = 33.9 bits (76), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 27/47 (57%), Gaps = 4/47 (8%)
Query: 138 YHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVT----NPID 180
Y +++ +P+D I+ KL++ EY D +F AD+ L+ NP D
Sbjct: 47 YCDIIKHPMDMSTIKSKLESREYRDAQEFGADVRLMFSNCYKYNPPD 93
>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 = 47.4 bits (111), Expect = 3e-05, Method: Composition-based stats.
Identities = 29/91 (31%), Positives = 42/91 (46%), Gaps = 10/91 (10%)
Query: 496 PDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQ 555
PDY+++I++P D I +L N Y E DF F N YN+P I A +L+
Sbjct: 39 PDYHKIIKQPXDXGTIKRRLENNYYWAASECXQDFNTXFTNCYIYNKPTDDIVLXAQTLE 98
Query: 556 RIVLQTKMHLREDEDSVPDVPAAVQELLTSL 586
+I LQ V P QEL+ ++
Sbjct: 99 KIFLQ----------KVASXPQEEQELVVTI 119
Score = 38.1 bits (87), Expect = 0.015, Method: Composition-based stats.
Identities = 19/66 (28%), Positives = 33/66 (50%)
Query: 310 PEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALK 369
P+Y+ +I P D TI RR+++ Y + + +D N +N+P I A+ L+
Sbjct: 39 PDYHKIIKQPXDXGTIKRRLENNYYWAASECXQDFNTXFTNCYIYNKPTDDIVLXAQTLE 98
Query: 370 KLVQTK 375
K+ K
Sbjct: 99 KIFLQK 104
>pdb|3HMH|A Chain A, Crystal Structure Of The Second Bromodomain Of Human
Tbp-Associated Factor Rna Polymerase 1-Like (Taf1l)
Length = 155
Score = 47.4 bits (111), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 28/78 (35%), Positives = 40/78 (51%), Gaps = 6/78 (7%)
Query: 292 DSRPLHEVFQLLPSKKRY-PEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKN 350
DS P H P K++ P+YY +I P+DL TI + I KY S D+ L+ N
Sbjct: 44 DSWPFHH-----PVNKKFVPDYYKMIVNPVDLETIRKNISKHKYQSRESFLDDVNLILAN 98
Query: 351 ACTFNEPGSQIYKDAKAL 368
+ +N P SQ K A+ +
Sbjct: 99 SVKYNGPESQYTKTAQEI 116
Score = 45.4 bits (106), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 23/66 (34%), Positives = 36/66 (54%)
Query: 496 PDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQ 555
PDYY++I PVD+E I + ++Y+ + + D + N+ KYN P+S K A +
Sbjct: 58 PDYYKMIVNPVDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPESQYTKTAQEIV 117
Query: 556 RIVLQT 561
I QT
Sbjct: 118 NICYQT 123
Score = 30.4 bits (67), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 13/50 (26%), Positives = 26/50 (52%)
Query: 125 PFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLV 174
PF K+ P Y++++ NP+D I++ + +Y F D+ L++
Sbjct: 47 PFHHPVNKKFVPDYYKMIVNPVDLETIRKNISKHKYQSRESFLDDVNLIL 96
>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 = 47.0 bits (110), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 23/56 (41%), Positives = 32/56 (57%)
Query: 496 PDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDA 551
P Y +I+ P+D + K+ N+Y+ + E ADF M DNA YN PD+ YK A
Sbjct: 44 PGYSMIIKHPMDFGTMKDKIVANEYKSVTEFKADFKLMCDNAMTYNRPDTVYYKLA 99
Score = 42.0 bits (97), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 35/72 (48%)
Query: 297 HEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNE 356
H F + P Y +I P+D T+ +I +Y S+ + + D LM NA T+N
Sbjct: 31 HGFFAFPVTDAIAPGYSMIIKHPMDFGTMKDKIVANEYKSVTEFKADFKLMCDNAMTYNR 90
Query: 357 PGSQIYKDAKAL 368
P + YK AK +
Sbjct: 91 PDTVYYKLAKKI 102
Score = 39.3 bits (90), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 14/57 (24%), Positives = 39/57 (68%)
Query: 173 LVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELME 229
+++ +P+DF ++ K+ +EY +++F+AD +L+ NA T+ + ++ ++ A++++
Sbjct: 48 MIIKHPMDFGTMKDKIVANEYKSVTEFKADFKLMCDNAMTYNRPDTVYYKLAKKILH 104
Score = 35.8 bits (81), Expect = 0.073, Method: Compositional matrix adjust.
Identities = 12/38 (31%), Positives = 26/38 (68%)
Query: 136 PSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELL 173
P Y ++ +P+DF ++ K+ +EY +++F+AD +L+
Sbjct: 44 PGYSMIIKHPMDFGTMKDKIVANEYKSVTEFKADFKLM 81
>pdb|2I8N|A Chain A, Solution Structure Of The Second Bromodomain Of Brd4
Length = 114
Score = 47.0 bits (110), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 25/61 (40%), Positives = 32/61 (52%)
Query: 497 DYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQR 556
DY ++I+ P+DM I SKL +Y E AD MF N KYN PD + A LQ
Sbjct: 38 DYCDIIKHPMDMSTIKSKLEAREYRDAQEFGADVRLMFSNCYKYNPPDHEVVAMARKLQD 97
Query: 557 I 557
+
Sbjct: 98 V 98
Score = 37.7 bits (86), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 22/70 (31%), Positives = 37/70 (52%), Gaps = 6/70 (8%)
Query: 174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRD---AQELMEL 230
++ +P+D I+ KL+ EY D +F AD+ L+ N YK N +H A++L ++
Sbjct: 42 IIKHPMDMSTIKSKLEAREYRDAQEFGADVRLMFSNC---YKYNPPDHEVVAMARKLQDV 98
Query: 231 FHSTRNKLLN 240
F K+L
Sbjct: 99 FEMRFAKMLQ 108
Score = 34.3 bits (77), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 16/65 (24%), Positives = 34/65 (52%)
Query: 311 EYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALKK 370
+Y D+I P+D+ TI +++ +Y + D+ LM N +N P ++ A+ L+
Sbjct: 38 DYCDIIKHPMDMSTIKSKLEAREYRDAQEFGADVRLMFSNCYKYNPPDHEVVAMARKLQD 97
Query: 371 LVQTK 375
+ + +
Sbjct: 98 VFEMR 102
Score = 33.1 bits (74), Expect = 0.55, Method: Compositional matrix adjust.
Identities = 13/36 (36%), Positives = 23/36 (63%)
Query: 138 YHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELL 173
Y +++ +P+D I+ KL+ EY D +F AD+ L+
Sbjct: 39 YCDIIKHPMDMSTIKSKLEAREYRDAQEFGADVRLM 74
>pdb|1E6I|A Chain A, Bromodomain From Gcn5 Complexed With Acetylated H4 Peptide
Length = 121
Score = 46.2 bits (108), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 25/75 (33%), Positives = 38/75 (50%)
Query: 305 SKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKD 364
+K+ P+YYD I P+DL T+ +++ KY + D D L+ N +N + YK
Sbjct: 39 NKEEVPDYYDFIKEPMDLSTMEIKLESNKYQKMEDFIYDARLVFNNCRMYNGENTSYYKY 98
Query: 365 AKALKKLVQTKKMEI 379
A L+K K EI
Sbjct: 99 ANRLEKFFNNKVKEI 113
Score = 44.3 bits (103), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 20/67 (29%), Positives = 41/67 (61%)
Query: 491 SRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKD 550
++ + PDYY+ I++P+D+ + KL N+Y+ +++ + D +F+N YN ++ YK
Sbjct: 39 NKEEVPDYYDFIKEPMDLSTMEIKLESNKYQKMEDFIYDARLVFNNCRMYNGENTSYYKY 98
Query: 551 ALSLQRI 557
A L++
Sbjct: 99 ANRLEKF 105
Score = 37.0 bits (84), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 23/82 (28%), Positives = 42/82 (51%), Gaps = 8/82 (9%)
Query: 92 RPKRKKIDPSDAMQQIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKI 151
RPKR P DA Q +++ + A PF++ K + P Y++ + P+D +
Sbjct: 8 RPKR---GPHDAAIQ--NILTELQNHAAAW---PFLQPVNKEEVPDYYDFIKEPMDLSTM 59
Query: 152 QQKLKTDEYDDLSDFQADIELL 173
+ KL++++Y + DF D L+
Sbjct: 60 EIKLESNKYQKMEDFIYDARLV 81
Score = 33.5 bits (75), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 19/81 (23%), Positives = 39/81 (48%), Gaps = 8/81 (9%)
Query: 153 QKLKTDEYDDLSDFQADIELLVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKT 212
Q + +E D DF + P+D ++ KL++++Y + DF D L+ N +
Sbjct: 36 QPVNKEEVPDYYDF--------IKEPMDLSTMEIKLESNKYQKMEDFIYDARLVFNNCRM 87
Query: 213 FYKRNSQEHRDAQELMELFHS 233
+ N+ ++ A L + F++
Sbjct: 88 YNGENTSYYKYANRLEKFFNN 108
>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 = 45.4 bits (106), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 32/106 (30%), Positives = 50/106 (47%), Gaps = 7/106 (6%)
Query: 275 QNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKY 334
+ QC++L N + DS P + L+ YP+Y D+ID P+D T+ + G Y
Sbjct: 12 KKQCKELVNLIFQC--EDSEPFRQPVDLV----EYPDYRDIIDTPMDFGTVRETLDAGNY 65
Query: 335 ASLGDMEKDLILMTKNACTFN-EPGSQIYKDAKALKKLVQTKKMEI 379
S + KD+ L+ NA + S+IY L L + K +I
Sbjct: 66 DSPLEFCKDIRLIFSNAKAYTPNKRSKIYSMTLRLSALFEEKMKKI 111
Score = 31.2 bits (69), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 13/40 (32%), Positives = 22/40 (55%)
Query: 174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTF 213
++ P+DF +++ L YD +F DI L+ NAK +
Sbjct: 46 IIDTPMDFGTVRETLDAGNYDSPLEFCKDIRLIFSNAKAY 85
Score = 31.2 bits (69), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 28/65 (43%), Gaps = 1/65 (1%)
Query: 494 DYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYN-EPDSHIYKDAL 552
+YPDY ++I P+D + L Y+ E D +F NA Y S IY L
Sbjct: 39 EYPDYRDIIDTPMDFGTVRETLDAGNYDSPLEFCKDIRLIFSNAKAYTPNKRSKIYSMTL 98
Query: 553 SLQRI 557
L +
Sbjct: 99 RLSAL 103
Score = 30.4 bits (67), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 12/38 (31%), Positives = 21/38 (55%)
Query: 136 PSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELL 173
P Y +++ P+DF +++ L YD +F DI L+
Sbjct: 41 PDYRDIIDTPMDFGTVRETLDAGNYDSPLEFCKDIRLI 78
>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 = 45.4 bits (106), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 24/73 (32%), Positives = 39/73 (53%)
Query: 483 SHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNE 542
+ IF + S + PDY + I+ P+D + +L Y++L E DF + DN KYN
Sbjct: 31 ARIFAQPVSLKEVPDYLDHIKHPMDFATMRKRLEAQGYKNLHEFEEDFDLIIDNCMKYNA 90
Query: 543 PDSHIYKDALSLQ 555
D+ Y+ A+ L+
Sbjct: 91 RDTVFYRAAVRLR 103
Score = 38.5 bits (88), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 34/65 (52%)
Query: 305 SKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKD 364
S K P+Y D I P+D T+ +R++ Y +L + E+D L+ N +N + Y+
Sbjct: 39 SLKEVPDYLDHIKHPMDFATMRKRLEAQGYKNLHEFEEDFDLIIDNCMKYNARDTVFYRA 98
Query: 365 AKALK 369
A L+
Sbjct: 99 AVRLR 103
Score = 32.3 bits (72), Expect = 0.88, Method: Compositional matrix adjust.
Identities = 11/42 (26%), Positives = 28/42 (66%)
Query: 133 RQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLV 174
++ P Y + + +P+DF ++++L+ Y +L +F+ D +L++
Sbjct: 41 KEVPDYLDHIKHPMDFATMRKRLEAQGYKNLHEFEEDFDLII 82
>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 = 45.1 bits (105), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 33/146 (22%), Positives = 62/146 (42%), Gaps = 41/146 (28%)
Query: 104 MQQIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDL 163
++I D I ++K L P + +P K++ Y+E +++P+D I I++++ T Y +
Sbjct: 14 FKEICDGIISYKDSSRQALAAPLLNLPPKKKNADYYEKISDPLDLITIEKQILTGYYKTV 73
Query: 164 SDFQADIELLVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRD 223
F AD+ LK + +NA+ +Y R S RD
Sbjct: 74 EAFDADM-----------------LK----------------VFRNAEKYYGRKSPVGRD 100
Query: 224 AQELMELFHSTRNKLLNPQSHEGTSQ 249
L + +++ R HE ++Q
Sbjct: 101 VCRLRKAYYNAR--------HEASAQ 118
Score = 41.6 bits (96), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 25/100 (25%), Positives = 52/100 (52%)
Query: 279 EDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLG 338
+++ + +++ D+ + L LP KK+ +YY+ I P+DL TI ++I G Y ++
Sbjct: 15 KEICDGIISYKDSSRQALAAPLLNLPPKKKNADYYEKISDPLDLITIEKQILTGYYKTVE 74
Query: 339 DMEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTKKME 378
+ D++ + +NA + S + +D L+K + E
Sbjct: 75 AFDADMLKVFRNAEKYYGRKSPVGRDVCRLRKAYYNARHE 114
Score = 39.3 bits (90), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 28/97 (28%), Positives = 46/97 (47%), Gaps = 6/97 (6%)
Query: 466 LYNTIKETCEP-----KTGRQ-LSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQ 519
L KE C+ + RQ L+ LP + DYYE I P+D+ I ++
Sbjct: 10 LAQIFKEICDGIISYKDSSRQALAAPLLNLPPKKKNADYYEKISDPLDLITIEKQILTGY 69
Query: 520 YEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQR 556
Y+ ++ AD +++F NA KY S + +D L++
Sbjct: 70 YKTVEAFDADMLKVFRNAEKYYGRKSPVGRDVCRLRK 106
>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 = 44.3 bits (103), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 22/61 (36%), Positives = 34/61 (55%)
Query: 496 PDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQ 555
P Y +VI+KP+D I KL QY +L+ D +FDN +NE DS I + +++
Sbjct: 44 PGYKKVIKKPMDFSTIREKLSSGQYPNLETFALDVRLVFDNCETFNEDDSDIGRAGHNMR 103
Query: 556 R 556
+
Sbjct: 104 K 104
Score = 42.4 bits (98), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 34/117 (29%), Positives = 53/117 (45%), Gaps = 20/117 (17%)
Query: 262 EDSRDSSICTEDEQNQCEDLFNAVMTS--TDADSRPLHEVFQLLPSK-KRYPEYYDVIDV 318
+DS+D ++C+ ++T T D+ P LLP K P Y VI
Sbjct: 10 DDSKDLALCS------------MILTEMETHEDAWPF-----LLPVNLKLVPGYKKVIKK 52
Query: 319 PIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTK 375
P+D TI ++ G+Y +L D+ L+ N TFNE S I + ++K + K
Sbjct: 53 PMDFSTIREKLSSGQYPNLETFALDVRLVFDNCETFNEDDSDIGRAGHNMRKYFEKK 109
Score = 38.9 bits (89), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 32/58 (55%)
Query: 174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELF 231
V+ P+DF I++KL + +Y +L F D+ L+ N +TF + +S R + + F
Sbjct: 49 VIKKPMDFSTIREKLSSGQYPNLETFALDVRLVFDNCETFNEDDSDIGRAGHNMRKYF 106
Score = 36.6 bits (83), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 28/49 (57%)
Query: 125 PFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELL 173
PF+ + P Y +V+ P+DF I++KL + +Y +L F D+ L+
Sbjct: 33 PFLLPVNLKLVPGYKKVIKKPMDFSTIREKLSSGQYPNLETFALDVRLV 81
>pdb|2D9E|A Chain A, Solution Structure Of The Bromodomain Of Peregrin
pdb|2RS9|B Chain B, Solution Structure Of The Bromodomain Of Human Brpf1 In
Complex With Histone H4k5ac Peptide
Length = 121
Score = 44.3 bits (103), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 28/100 (28%), Positives = 49/100 (49%), Gaps = 4/100 (4%)
Query: 456 TAASLQKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKL 515
++ S + +L T+++ E TG +IF + PDY + I+KP+D + L
Sbjct: 2 SSGSSGFLILLRKTLEQLQEKDTG----NIFSEPVPLSEVPDYLDHIKKPMDFFTMKQNL 57
Query: 516 RYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQ 555
+Y + D+ DF + N KYN D+ Y+ A+ L+
Sbjct: 58 EAYRYLNFDDFEEDFNLIVSNCLKYNAKDTIFYRAAVRLR 97
Score = 35.8 bits (81), Expect = 0.085, Method: Compositional matrix adjust.
Identities = 17/61 (27%), Positives = 32/61 (52%)
Query: 310 PEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALK 369
P+Y D I P+D T+ + ++ +Y + D E+D L+ N +N + Y+ A L+
Sbjct: 38 PDYLDHIKKPMDFFTMKQNLEAYRYLNFDDFEEDFNLIVSNCLKYNAKDTIFYRAAVRLR 97
Query: 370 K 370
+
Sbjct: 98 E 98
Score = 34.3 bits (77), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 16/55 (29%), Positives = 29/55 (52%)
Query: 175 VTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELME 229
+ P+DF ++Q L+ Y + DF+ D L+V N + +++ +R A L E
Sbjct: 44 IKKPMDFFTMKQNLEAYRYLNFDDFEEDFNLIVSNCLKYNAKDTIFYRAAVRLRE 98
Score = 33.1 bits (74), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 17/60 (28%), Positives = 32/60 (53%), Gaps = 4/60 (6%)
Query: 115 KKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLV 174
+K+ G + +P +P + P Y + + P+DF ++Q L+ Y + DF+ D L+V
Sbjct: 21 EKDTGNIFSEP---VPLS-EVPDYLDHIKKPMDFFTMKQNLEAYRYLNFDDFEEDFNLIV 76
>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 = 44.3 bits (103), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 26/80 (32%), Positives = 42/80 (52%), Gaps = 7/80 (8%)
Query: 497 DYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQR 556
+YY+V++ P+D+ I K+ +Y+ E AD MF N KYN PD + A +LQ
Sbjct: 51 NYYDVVKNPMDLGTIKGKMDNQEYKDAYEFAADVRLMFMNCYKYNPPDHEVVAMARTLQD 110
Query: 557 IVLQTKMHLREDEDSVPDVP 576
+ ++H + +PD P
Sbjct: 111 VF---ELHFAK----IPDEP 123
Score = 38.1 bits (87), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 23/85 (27%), Positives = 39/85 (45%), Gaps = 13/85 (15%)
Query: 289 TDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMT 348
DAD+ LH YYDV+ P+DL TI ++ + +Y + D+ LM
Sbjct: 42 VDADALGLHN-------------YYDVVKNPMDLGTIKGKMDNQEYKDAYEFAADVRLMF 88
Query: 349 KNACTFNEPGSQIYKDAKALKKLVQ 373
N +N P ++ A+ L+ + +
Sbjct: 89 MNCYKYNPPDHEVVAMARTLQDVFE 113
Score = 37.4 bits (85), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 23/63 (36%), Positives = 32/63 (50%), Gaps = 9/63 (14%)
Query: 174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEH------RDAQEL 227
VV NP+D I+ K+ EY D +F AD+ L+ N YK N +H R Q++
Sbjct: 55 VVKNPMDLGTIKGKMDNQEYKDAYEFAADVRLMFMNC---YKYNPPDHEVVAMARTLQDV 111
Query: 228 MEL 230
EL
Sbjct: 112 FEL 114
Score = 36.2 bits (82), Expect = 0.058, Method: Compositional matrix adjust.
Identities = 18/48 (37%), Positives = 28/48 (58%), Gaps = 4/48 (8%)
Query: 137 SYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVT----NPID 180
+Y++VV NP+D I+ K+ EY D +F AD+ L+ + NP D
Sbjct: 51 NYYDVVKNPMDLGTIKGKMDNQEYKDAYEFAADVRLMFMNCYKYNPPD 98
>pdb|2E7O|A Chain A, Solution Structure Of The Bromodomain From Human
Bromodomain Adjacent To Zinc Finger Domain 2b
Length = 112
Score = 44.3 bits (103), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 22/61 (36%), Positives = 34/61 (55%)
Query: 496 PDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQ 555
P Y +VI+KP+D I KL QY +L+ D +FDN +NE DS I + +++
Sbjct: 41 PGYKKVIKKPMDFSTIREKLSSGQYPNLETFALDVRLVFDNCETFNEDDSDIGRAGHNMR 100
Query: 556 R 556
+
Sbjct: 101 K 101
Score = 41.6 bits (96), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 29/88 (32%), Positives = 41/88 (46%), Gaps = 6/88 (6%)
Query: 289 TDADSRPLHEVFQLLPSK-KRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILM 347
T D+ P LLP K P Y VI P+D TI ++ G+Y +L D+ L+
Sbjct: 24 THEDAWPF-----LLPVNLKLVPGYKKVIKKPMDFSTIREKLSSGQYPNLETFALDVRLV 78
Query: 348 TKNACTFNEPGSQIYKDAKALKKLVQTK 375
N TFNE S I + ++K + K
Sbjct: 79 FDNCETFNEDDSDIGRAGHNMRKYFEKK 106
Score = 38.9 bits (89), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 32/58 (55%)
Query: 174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELF 231
V+ P+DF I++KL + +Y +L F D+ L+ N +TF + +S R + + F
Sbjct: 46 VIKKPMDFSTIREKLSSGQYPNLETFALDVRLVFDNCETFNEDDSDIGRAGHNMRKYF 103
Score = 37.0 bits (84), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 28/49 (57%)
Query: 125 PFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELL 173
PF+ + P Y +V+ P+DF I++KL + +Y +L F D+ L+
Sbjct: 30 PFLLPVNLKLVPGYKKVIKKPMDFSTIREKLSSGQYPNLETFALDVRLV 78
>pdb|2I7K|A Chain A, Solution Structure Of The Bromodomain Of Human Brd7
Protein
Length = 117
Score = 43.5 bits (101), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 34/59 (57%)
Query: 310 PEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKAL 368
P Y +I P+D T+ +I++ Y S+ +++ + LM NA +N+P + YK AK L
Sbjct: 39 PGYSMIIKHPMDFSTMKEKIKNNDYQSIEELKDNFKLMCTNAMIYNKPETIYYKAAKKL 97
Score = 42.4 bits (98), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 34/59 (57%)
Query: 496 PDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSL 554
P Y +I+ P+D + K++ N Y+ ++E+ +F M NA YN+P++ YK A L
Sbjct: 39 PGYSMIIKHPMDFSTMKEKIKNNDYQSIEELKDNFKLMCTNAMIYNKPETIYYKAAKKL 97
Score = 36.2 bits (82), Expect = 0.065, Method: Compositional matrix adjust.
Identities = 15/66 (22%), Positives = 41/66 (62%)
Query: 163 LSDFQADIELLVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHR 222
++DF A +++ +P+DF +++K+K ++Y + + + + +L+ NA + K + ++
Sbjct: 33 VTDFIAPGYSMIIKHPMDFSTMKEKIKNNDYQSIEELKDNFKLMCTNAMIYNKPETIYYK 92
Query: 223 DAQELM 228
A++L+
Sbjct: 93 AAKKLL 98
Score = 30.4 bits (67), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 9/38 (23%), Positives = 25/38 (65%)
Query: 136 PSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELL 173
P Y ++ +P+DF +++K+K ++Y + + + + +L+
Sbjct: 39 PGYSMIIKHPMDFSTMKEKIKNNDYQSIEELKDNFKLM 76
>pdb|3ONI|A Chain A, Crystal Structure Of The Second Bromodomain Of Human Brd2
In Complex With The Inhibitor Jq1
Length = 114
Score = 43.1 bits (100), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 21/61 (34%), Positives = 31/61 (50%)
Query: 497 DYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQR 556
DY+++I+ P+D+ + K+ Y E AD MF N KYN PD + A LQ
Sbjct: 44 DYHDIIKHPMDLSTVKRKMENRDYRDAQEFAADVRLMFSNCYKYNPPDHDVVAMARKLQD 103
Query: 557 I 557
+
Sbjct: 104 V 104
Score = 38.1 bits (87), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 17/65 (26%), Positives = 35/65 (53%)
Query: 311 EYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALKK 370
+Y+D+I P+DL T+ R++++ Y + D+ LM N +N P + A+ L+
Sbjct: 44 DYHDIIKHPMDLSTVKRKMENRDYRDAQEFAADVRLMFSNCYKYNPPDHDVVAMARKLQD 103
Query: 371 LVQTK 375
+ + +
Sbjct: 104 VFEFR 108
Score = 34.7 bits (78), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 14/47 (29%), Positives = 28/47 (59%), Gaps = 4/47 (8%)
Query: 138 YHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVT----NPID 180
YH+++ +P+D +++K++ +Y D +F AD+ L+ NP D
Sbjct: 45 YHDIIKHPMDLSTVKRKMENRDYRDAQEFAADVRLMFSNCYKYNPPD 91
Score = 33.5 bits (75), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 14/48 (29%), Positives = 28/48 (58%), Gaps = 3/48 (6%)
Query: 174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEH 221
++ +P+D +++K++ +Y D +F AD+ L+ N YK N +H
Sbjct: 48 IIKHPMDLSTVKRKMENRDYRDAQEFAADVRLMFSNC---YKYNPPDH 92
>pdb|2DWW|A Chain A, Crystal Structure Of Bromodomain-Containing Protein 4
Length = 114
Score = 43.1 bits (100), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 23/61 (37%), Positives = 29/61 (47%)
Query: 497 DYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQR 556
DY ++I+ P D I SKL +Y E AD F N KYN PD + A LQ
Sbjct: 44 DYCDIIKHPXDXSTIKSKLESREYRDAQEFGADVRLXFSNCYKYNPPDHEVVAXARKLQD 103
Query: 557 I 557
+
Sbjct: 104 V 104
Score = 34.7 bits (78), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 33/61 (54%), Gaps = 6/61 (9%)
Query: 174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHR---DAQELMEL 230
++ +P D I+ KL++ EY D +F AD+ L N YK N +H A++L ++
Sbjct: 48 IIKHPXDXSTIKSKLESREYRDAQEFGADVRLXFSNC---YKYNPPDHEVVAXARKLQDV 104
Query: 231 F 231
F
Sbjct: 105 F 105
Score = 31.2 bits (69), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 15/65 (23%), Positives = 31/65 (47%)
Query: 311 EYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALKK 370
+Y D+I P D TI +++ +Y + D+ L N +N P ++ A+ L+
Sbjct: 44 DYCDIIKHPXDXSTIKSKLESREYRDAQEFGADVRLXFSNCYKYNPPDHEVVAXARKLQD 103
Query: 371 LVQTK 375
+ + +
Sbjct: 104 VFEXR 108
Score = 30.8 bits (68), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 13/35 (37%), Positives = 22/35 (62%)
Query: 138 YHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIEL 172
Y +++ +P D I+ KL++ EY D +F AD+ L
Sbjct: 45 YCDIIKHPXDXSTIKSKLESREYRDAQEFGADVRL 79
>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 = 42.7 bits (99), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 21/61 (34%), Positives = 31/61 (50%)
Query: 497 DYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQR 556
DY+++I+ P+D+ + K+ Y E AD MF N KYN PD + A LQ
Sbjct: 42 DYHDIIKHPMDLSTVKRKMENRDYRDAQEFAADVRLMFSNCYKYNPPDHDVVAMARKLQD 101
Query: 557 I 557
+
Sbjct: 102 V 102
Score = 38.5 bits (88), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 17/65 (26%), Positives = 35/65 (53%)
Query: 311 EYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALKK 370
+Y+D+I P+DL T+ R++++ Y + D+ LM N +N P + A+ L+
Sbjct: 42 DYHDIIKHPMDLSTVKRKMENRDYRDAQEFAADVRLMFSNCYKYNPPDHDVVAMARKLQD 101
Query: 371 LVQTK 375
+ + +
Sbjct: 102 VFEFR 106
Score = 34.7 bits (78), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 14/47 (29%), Positives = 28/47 (59%), Gaps = 4/47 (8%)
Query: 138 YHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVT----NPID 180
YH+++ +P+D +++K++ +Y D +F AD+ L+ NP D
Sbjct: 43 YHDIIKHPMDLSTVKRKMENRDYRDAQEFAADVRLMFSNCYKYNPPD 89
Score = 33.9 bits (76), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 14/48 (29%), Positives = 28/48 (58%), Gaps = 3/48 (6%)
Query: 174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEH 221
++ +P+D +++K++ +Y D +F AD+ L+ N YK N +H
Sbjct: 46 IIKHPMDLSTVKRKMENRDYRDAQEFAADVRLMFSNC---YKYNPPDH 90
>pdb|2G4A|A Chain A, Solution Structure Of A Bromodomain From Ring3 Protein
Length = 116
Score = 42.7 bits (99), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 21/61 (34%), Positives = 31/61 (50%)
Query: 497 DYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQR 556
DY+++I+ P+D+ + K+ Y E AD MF N KYN PD + A LQ
Sbjct: 38 DYHDIIKHPMDLSTVKRKMENRDYRDAQEFAADVRLMFSNCYKYNPPDHDVVAMARKLQD 97
Query: 557 I 557
+
Sbjct: 98 V 98
Score = 38.5 bits (88), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 17/65 (26%), Positives = 35/65 (53%)
Query: 311 EYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALKK 370
+Y+D+I P+DL T+ R++++ Y + D+ LM N +N P + A+ L+
Sbjct: 38 DYHDIIKHPMDLSTVKRKMENRDYRDAQEFAADVRLMFSNCYKYNPPDHDVVAMARKLQD 97
Query: 371 LVQTK 375
+ + +
Sbjct: 98 VFEFR 102
Score = 34.3 bits (77), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 11/36 (30%), Positives = 25/36 (69%)
Query: 138 YHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELL 173
YH+++ +P+D +++K++ +Y D +F AD+ L+
Sbjct: 39 YHDIIKHPMDLSTVKRKMENRDYRDAQEFAADVRLM 74
Score = 33.1 bits (74), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 14/48 (29%), Positives = 28/48 (58%), Gaps = 3/48 (6%)
Query: 174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEH 221
++ +P+D +++K++ +Y D +F AD+ L+ N YK N +H
Sbjct: 42 IIKHPMDLSTVKRKMENRDYRDAQEFAADVRLMFSNC---YKYNPPDH 86
>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 = 40.8 bits (94), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 31/61 (50%)
Query: 497 DYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQR 556
DY+++I+ P+D+ + K+ +Y AD MF N KYN PD + A LQ
Sbjct: 44 DYHDIIKHPMDLSTVKRKMDGREYPDAQGFAADVRLMFSNCYKYNPPDHEVVAMARKLQD 103
Query: 557 I 557
+
Sbjct: 104 V 104
Score = 38.5 bits (88), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 17/65 (26%), Positives = 34/65 (52%)
Query: 311 EYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALKK 370
+Y+D+I P+DL T+ R++ +Y D+ LM N +N P ++ A+ L+
Sbjct: 44 DYHDIIKHPMDLSTVKRKMDGREYPDAQGFAADVRLMFSNCYKYNPPDHEVVAMARKLQD 103
Query: 371 LVQTK 375
+ + +
Sbjct: 104 VFEMR 108
Score = 37.4 bits (85), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 24/99 (24%), Positives = 43/99 (43%), Gaps = 18/99 (18%)
Query: 123 CDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVTNPIDFI 182
CD +R ++ +Y P+D + L+ +Y D ++ +P+D
Sbjct: 12 CDSILREMLSKKHAAYAWPFYKPVD----AEALELHDYHD-----------IIKHPMDLS 56
Query: 183 KIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEH 221
+++K+ EY D F AD+ L+ N YK N +H
Sbjct: 57 TVKRKMDGREYPDAQGFAADVRLMFSNC---YKYNPPDH 92
>pdb|2E7N|A Chain A, Solution Structure Of The Second Bromodomain From Human
Bromodomain-Containing Protein 3
Length = 117
Score = 40.4 bits (93), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 31/61 (50%)
Query: 497 DYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQR 556
DY+++I+ P+D+ + K+ +Y AD MF N KYN PD + A LQ
Sbjct: 49 DYHDIIKHPMDLSTVKRKMDGREYPDAQGFAADVRLMFSNCYKYNPPDHEVVAMARKLQD 108
Query: 557 I 557
+
Sbjct: 109 V 109
Score = 38.5 bits (88), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 17/65 (26%), Positives = 34/65 (52%)
Query: 311 EYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALKK 370
+Y+D+I P+DL T+ R++ +Y D+ LM N +N P ++ A+ L+
Sbjct: 49 DYHDIIKHPMDLSTVKRKMDGREYPDAQGFAADVRLMFSNCYKYNPPDHEVVAMARKLQD 108
Query: 371 LVQTK 375
+ + +
Sbjct: 109 VFEMR 113
Score = 37.0 bits (84), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 24/99 (24%), Positives = 43/99 (43%), Gaps = 18/99 (18%)
Query: 123 CDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVTNPIDFI 182
CD +R ++ +Y P+D + L+ +Y D ++ +P+D
Sbjct: 17 CDSILREMLSKKHAAYAWPFYKPVD----AEALELHDYHD-----------IIKHPMDLS 61
Query: 183 KIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEH 221
+++K+ EY D F AD+ L+ N YK N +H
Sbjct: 62 TVKRKMDGREYPDAQGFAADVRLMFSNC---YKYNPPDH 97
>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 = 40.4 bits (93), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 23/66 (34%), Positives = 37/66 (56%), Gaps = 4/66 (6%)
Query: 480 RQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHL---DEMVADFIQMFDN 536
+LS FQ P P+YY++I+KP+D+ + KL+ +H D+ VAD +F N
Sbjct: 96 HELSIEFQE-PVPASIPNYYKIIKKPMDLSTVKKKLQKKHSQHYQIPDDFVADVRLIFKN 154
Query: 537 ACKYNE 542
++NE
Sbjct: 155 CERFNE 160
Score = 33.5 bits (75), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 22/70 (31%), Positives = 33/70 (47%), Gaps = 5/70 (7%)
Query: 304 PSKKRYPEYYDVIDVPIDLRTIARRIQ---DGKYASLGDMEKDLILMTKNACTFNE--PG 358
P P YY +I P+DL T+ +++Q Y D D+ L+ KN FNE
Sbjct: 105 PVPASIPNYYKIIKKPMDLSTVKKKLQKKHSQHYQIPDDFVADVRLIFKNCERFNEMMKV 164
Query: 359 SQIYKDAKAL 368
Q+Y D + +
Sbjct: 165 VQVYADTQEI 174
>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 = 40.4 bits (93), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 23/68 (33%), Positives = 35/68 (51%)
Query: 496 PDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQ 555
P+YY++I+ P+D+ + KL Y +E V D MF N KYN S K + +L+
Sbjct: 47 PNYYQIIKAPMDISSMEKKLNGGLYCTKEEFVNDMKTMFRNCRKYNGESSEYTKMSDNLE 106
Query: 556 RIVLQTKM 563
R + M
Sbjct: 107 RCFHRAMM 114
Score = 36.2 bits (82), Expect = 0.060, Method: Compositional matrix adjust.
Identities = 22/88 (25%), Positives = 41/88 (46%), Gaps = 6/88 (6%)
Query: 292 DSRPLHEVFQLLPSKKRY-PEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKN 350
DS P L P + Y P YY +I P+D+ ++ +++ G Y + + D+ M +N
Sbjct: 33 DSWPF-----LEPVDESYAPNYYQIIKAPMDISSMEKKLNGGLYCTKEEFVNDMKTMFRN 87
Query: 351 ACTFNEPGSQIYKDAKALKKLVQTKKME 378
+N S+ K + L++ M+
Sbjct: 88 CRKYNGESSEYTKMSDNLERCFHRAMMK 115
Score = 28.9 bits (63), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 16/71 (22%), Positives = 35/71 (49%), Gaps = 6/71 (8%)
Query: 103 AMQQIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDD 162
AM ++ DV++ K PF+ + P+Y++++ P+D +++KL Y
Sbjct: 20 AMYKVLDVVKAHKDSW------PFLEPVDESYAPNYYQIIKAPMDISSMEKKLNGGLYCT 73
Query: 163 LSDFQADIELL 173
+F D++ +
Sbjct: 74 KEEFVNDMKTM 84
>pdb|2DKW|A Chain A, Solution Structure Of The Bromodomain Of Human Protein
Kiaa1240
Length = 131
Score = 37.7 bits (86), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 24/78 (30%), Positives = 40/78 (51%), Gaps = 10/78 (12%)
Query: 296 LHEVFQLLPSKKRY-------PEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMT 348
L +V + L + KR+ +Y +VI P+DL T+ +I Y + D KD+ L+
Sbjct: 17 LRDVTKRLATDKRFNIFSKPVSDYLEVIKEPMDLSTVITKIDKHNYLTAKDFLKDIDLIC 76
Query: 349 KNACTFN---EPGSQIYK 363
NA +N +PG +I +
Sbjct: 77 SNALEYNPDKDPGDKIIR 94
Score = 33.1 bits (74), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 28/48 (58%), Gaps = 1/48 (2%)
Query: 497 DYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPD 544
DY EVI++P+D+ + +K+ + Y + + D + NA +YN PD
Sbjct: 39 DYLEVIKEPMDLSTVITKIDKHNYLTAKDFLKDIDLICSNALEYN-PD 85
>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 = 36.6 bits (83), Expect = 0.047, Method: Compositional matrix adjust.
Identities = 24/83 (28%), Positives = 40/83 (48%), Gaps = 15/83 (18%)
Query: 296 LHEVFQLLPSKKRY------------PEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKD 343
L +V + L + KR+ +Y +VI P+DL T+ +I Y + D KD
Sbjct: 17 LRDVTKRLATDKRFNIFSKPVDIEEVSDYLEVIKEPMDLSTVITKIDKHNYLTAKDFLKD 76
Query: 344 LILMTKNACTFN---EPGSQIYK 363
+ L+ NA +N +PG +I +
Sbjct: 77 IDLICSNALEYNPDKDPGDKIIR 99
Score = 33.5 bits (75), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 33/61 (54%), Gaps = 1/61 (1%)
Query: 484 HIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEP 543
+IF + + DY EVI++P+D+ + +K+ + Y + + D + NA +YN P
Sbjct: 31 NIFSKPVDIEEVSDYLEVIKEPMDLSTVITKIDKHNYLTAKDFLKDIDLICSNALEYN-P 89
Query: 544 D 544
D
Sbjct: 90 D 90
>pdb|3DAI|A Chain A, Crystal Structure Of The Bromodomain Of The Human Atad2
Length = 130
Score = 36.2 bits (82), Expect = 0.054, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 33/57 (57%), Gaps = 3/57 (5%)
Query: 310 PEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFN---EPGSQIYK 363
P+Y VI P+DL ++ +I KY ++ D +D+ L+ NA +N +PG ++ +
Sbjct: 41 PDYVTVIKQPMDLSSVISKIDLHKYLTVKDYLRDIDLICSNALEYNPDRDPGDRLIR 97
Score = 33.9 bits (76), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 30/49 (61%), Gaps = 1/49 (2%)
Query: 496 PDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPD 544
PDY VI++P+D+ + SK+ ++Y + + + D + NA +YN PD
Sbjct: 41 PDYVTVIKQPMDLSSVISKIDLHKYLTVKDYLRDIDLICSNALEYN-PD 88
>pdb|3IU6|A Chain A, Crystal Structure Of The Sixth Bromodomain Of Human
Poly-Bromodomain Containing Protein 1 (Pb1)
Length = 147
Score = 35.4 bits (80), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 21/85 (24%), Positives = 42/85 (49%), Gaps = 6/85 (7%)
Query: 479 GRQLSHIFQRLPSRH-DYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNA 537
GR S +P+ ++P+ + P+ ++I + N+Y LD ++ + A
Sbjct: 27 GRXYSDSLAEIPAVDPNFPN-----KPPLTFDIIRKNVENNRYRRLDLFQEHMFEVLERA 81
Query: 538 CKYNEPDSHIYKDALSLQRIVLQTK 562
+ N DS IY+DA+ LQ+ ++ +
Sbjct: 82 RRMNRTDSEIYEDAVELQQFFIKIR 106
Score = 29.6 bits (65), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 21/98 (21%), Positives = 44/98 (44%), Gaps = 6/98 (6%)
Query: 275 QNQCEDLFNAVMTSTDADSRPLHEVFQLLPS-KKRYPEYYDVIDVPIDLRTIARRIQDGK 333
Q +LF +VM+ D + R + +P+ +P P+ I + +++ +
Sbjct: 9 QELIHNLFVSVMSHQDDEGRXYSDSLAEIPAVDPNFPN-----KPPLTFDIIRKNVENNR 63
Query: 334 YASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALKKL 371
Y L ++ + + + A N S+IY+DA L++
Sbjct: 64 YRRLDLFQEHMFEVLERARRMNRTDSEIYEDAVELQQF 101
>pdb|1K7S|N Chain N, Fhud Complexed With Albomycin-Delta 2
Length = 265
Score = 31.2 bits (69), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 14/41 (34%), Positives = 24/41 (58%), Gaps = 1/41 (2%)
Query: 431 SPLWQVYDAIRNAKTQGV-IFFFFGVTAASLQKMRILYNTI 470
+PLWQ +R + Q V +F+G T +++ +R+L N I
Sbjct: 221 TPLWQAMPFVRAGRFQRVPAVWFYGATLSAMHFVRVLDNAI 261
>pdb|1ESZ|A Chain A, Structure Of The Periplasmic Ferric Siderophore Binding
Protein Fhud Complexed With Coprogen
pdb|1K2V|N Chain N, E. Coli Periplasmic Protein Fhud Complexed With Desferal
Length = 266
Score = 31.2 bits (69), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 14/41 (34%), Positives = 24/41 (58%), Gaps = 1/41 (2%)
Query: 431 SPLWQVYDAIRNAKTQGV-IFFFFGVTAASLQKMRILYNTI 470
+PLWQ +R + Q V +F+G T +++ +R+L N I
Sbjct: 222 TPLWQAMPFVRAGRFQRVPAVWFYGATLSAMHFVRVLDNAI 262
>pdb|1EFD|N Chain N, Periplasmic Ferric Siderophore Binding Protein Fhud
Complexed With Gallichrome
Length = 266
Score = 31.2 bits (69), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 14/41 (34%), Positives = 24/41 (58%), Gaps = 1/41 (2%)
Query: 431 SPLWQVYDAIRNAKTQGV-IFFFFGVTAASLQKMRILYNTI 470
+PLWQ +R + Q V +F+G T +++ +R+L N I
Sbjct: 222 TPLWQAMPFVRAGRFQRVPAVWFYGATLSAMHFVRVLDNAI 262
>pdb|1IHP|A Chain A, Structure Of Phosphomonoesterase
Length = 438
Score = 29.3 bits (64), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 34/124 (27%), Positives = 55/124 (44%), Gaps = 27/124 (21%)
Query: 188 LKTDEY----DDLSDFQADIELLVKNAKTFYKRNSQEHRD----------------AQEL 227
LKT Y DDL+ F + LV + FY+R R+ ++
Sbjct: 87 LKTYNYSLGADDLTPFGE--QELVNSGIKFYQRYESLTRNIVPFIRSSGSSRVIASGKKF 144
Query: 228 MELFHSTRNKLLNPQSHEGTSQKRSMDFMM--ASETEDSRDSSICTEDEQNQCEDLFNAV 285
+E F ST KL +P++ G S + +D ++ AS + ++ D CT E ++ D A
Sbjct: 145 IEGFQST--KLKDPRAQPGQSSPK-IDVVISEASSSNNTLDPGTCTVFEDSELADTVEAN 201
Query: 286 MTST 289
T+T
Sbjct: 202 FTAT 205
>pdb|3K4P|A Chain A, Aspergillus Niger Phytase
pdb|3K4P|B Chain B, Aspergillus Niger Phytase
pdb|3K4Q|A Chain A, Aspergillus Niger Phytase In Complex With Myo-Inositol
Hexakis Sulfate
pdb|3K4Q|B Chain B, Aspergillus Niger Phytase In Complex With Myo-Inositol
Hexakis Sulfate
Length = 444
Score = 29.3 bits (64), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 34/124 (27%), Positives = 55/124 (44%), Gaps = 27/124 (21%)
Query: 188 LKTDEY----DDLSDFQADIELLVKNAKTFYKRNSQEHRD----------------AQEL 227
LKT Y DDL+ F + LV + FY+R R+ ++
Sbjct: 93 LKTYNYSLGADDLTPFGE--QELVNSGIKFYQRYESLTRNIVPFIRSSGSSRVIASGKKF 150
Query: 228 MELFHSTRNKLLNPQSHEGTSQKRSMDFMM--ASETEDSRDSSICTEDEQNQCEDLFNAV 285
+E F ST KL +P++ G S + +D ++ AS + ++ D CT E ++ D A
Sbjct: 151 IEGFQST--KLKDPRAQPGQSSPK-IDVVISEASSSNNTLDPGTCTVFEDSELADTVEAN 207
Query: 286 MTST 289
T+T
Sbjct: 208 FTAT 211
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
0.320 0.135 0.393
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 17,206,019
Number of Sequences: 62578
Number of extensions: 669657
Number of successful extensions: 2046
Number of sequences better than 100.0: 85
Number of HSP's better than 100.0 without gapping: 77
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 1703
Number of HSP's gapped (non-prelim): 335
length of query: 653
length of database: 14,973,337
effective HSP length: 105
effective length of query: 548
effective length of database: 8,402,647
effective search space: 4604650556
effective search space used: 4604650556
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 55 (25.8 bits)