RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy15468
(653 letters)
>gnl|CDD|99946 cd05515, Bromo_polybromo_V, Bromodomain, polybromo repeat V.
Polybromo is a nuclear protein of unknown function,
which contains 6 bromodomains. The human ortholog BAF180
is part of a SWI/SNF chromatin-remodeling complex, and
it may carry out the functions of Yeast Rsc-1 and Rsc-2.
It was shown that polybromo bromodomains bind to histone
H3 at specific acetyl-lysine positions. Bromodomains are
found in many chromatin-associated proteins and in
nuclear histone acetyltransferases. They interact
specifically with acetylated lysine, but not all the
bromodomains in polybromo may bind to acetyl-lysine.
Length = 105
Score = 159 bits (404), Expect = 1e-46
Identities = 64/102 (62%), Positives = 84/102 (82%), Gaps = 1/102 (0%)
Query: 461 QKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQY 520
QK+ LYN +K + + GR+LS IF RLPS+ +YPDYY+VI+KP+DME I SK+ NQY
Sbjct: 3 QKLWELYNAVKNYTDGR-GRRLSLIFMRLPSKSEYPDYYDVIKKPIDMEKIRSKIEGNQY 61
Query: 521 EHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQTK 562
+ LD+MV+DF+ MFDNACKYNEPDS IYKDAL+LQ+++L+TK
Sbjct: 62 QSLDDMVSDFVLMFDNACKYNEPDSQIYKDALTLQKVLLETK 103
Score = 112 bits (282), Expect = 1e-29
Identities = 51/105 (48%), Positives = 65/105 (61%)
Query: 274 EQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGK 333
Q + +L+NAV TD R L +F LPSK YP+YYDVI PID+ I +I+ +
Sbjct: 1 MQQKLWELYNAVKNYTDGRGRRLSLIFMRLPSKSEYPDYYDVIKKPIDMEKIRSKIEGNQ 60
Query: 334 YASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTKKME 378
Y SL DM D +LM NAC +NEP SQIYKDA L+K++ K E
Sbjct: 61 YQSLDDMVSDFVLMFDNACKYNEPDSQIYKDALTLQKVLLETKRE 105
Score = 65.8 bits (161), Expect = 4e-13
Identities = 22/71 (30%), Positives = 42/71 (59%)
Query: 104 MQQIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDL 163
+ ++Y+ ++N+ G L F+R+P K + P Y++V+ PID KI+ K++ ++Y L
Sbjct: 5 LWELYNAVKNYTDGRGRRLSLIFMRLPSKSEYPDYYDVIKKPIDMEKIRSKIEGNQYQSL 64
Query: 164 SDFQADIELLV 174
D +D L+
Sbjct: 65 DDMVSDFVLMF 75
Score = 46.9 bits (112), Expect = 1e-06
Identities = 17/42 (40%), Positives = 27/42 (64%)
Query: 611 LKRRLYTLCKCLMDYRDQDGRQPMLMFMELPSAKIYPEYYKV 652
++++L+ L + +Y D GR+ L+FM LPS YP+YY V
Sbjct: 1 MQQKLWELYNAVKNYTDGRGRRLSLIFMRLPSKSEYPDYYDV 42
>gnl|CDD|99948 cd05517, Bromo_polybromo_II, Bromodomain, polybromo repeat II.
Polybromo is a nuclear protein of unknown function,
which contains 6 bromodomains. The human ortholog BAF180
is part of a SWI/SNF chromatin-remodeling complex, and
it may carry out the functions of Yeast Rsc-1 and Rsc-2.
It was shown that polybromo bromodomains bind to histone
H3 at specific acetyl-lysine positions. Bromodomains are
found in many chromatin-associated proteins and in
nuclear histone acetyltransferases. They interact
specifically with acetylated lysine, but not all the
bromodomains in polybromo may bind to acetyl-lysine.
Length = 103
Score = 155 bits (393), Expect = 4e-45
Identities = 63/103 (61%), Positives = 74/103 (71%)
Query: 274 EQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGK 333
+ E L AVMT+TD R + E+FQ LPSK YP+YY VI PIDL+TIA+RIQ G
Sbjct: 1 LKQILEQLLEAVMTATDPSGRLISELFQKLPSKVLYPDYYAVIKEPIDLKTIAQRIQSGY 60
Query: 334 YASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTKK 376
Y S+ DMEKDL LM KNA TFNEPGSQ+YKDA A+KK+ KK
Sbjct: 61 YKSIEDMEKDLDLMVKNAKTFNEPGSQVYKDANAIKKIFTAKK 103
Score = 92.5 bits (230), Expect = 1e-22
Identities = 36/90 (40%), Positives = 59/90 (65%)
Query: 473 TCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQ 532
T +GR +S +FQ+LPS+ YPDYY VI++P+D++ IA +++ Y+ +++M D
Sbjct: 14 TATDPSGRLISELFQKLPSKVLYPDYYAVIKEPIDLKTIAQRIQSGYYKSIEDMEKDLDL 73
Query: 533 MFDNACKYNEPDSHIYKDALSLQRIVLQTK 562
M NA +NEP S +YKDA ++++I K
Sbjct: 74 MVKNAKTFNEPGSQVYKDANAIKKIFTAKK 103
Score = 52.8 bits (127), Expect = 1e-08
Identities = 32/113 (28%), Positives = 53/113 (46%), Gaps = 33/113 (29%)
Query: 119 GALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVTNP 178
G L+ + F ++P K P Y+ V+ PID LKT
Sbjct: 20 GRLISELFQKLPSKVLYPDYYAVIKEPID-------LKT--------------------- 51
Query: 179 IDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELF 231
I Q++++ Y + D + D++L+VKNAKTF + SQ ++DA + ++F
Sbjct: 52 -----IAQRIQSGYYKSIEDMEKDLDLMVKNAKTFNEPGSQVYKDANAIKKIF 99
Score = 34.0 bits (78), Expect = 0.049
Identities = 17/42 (40%), Positives = 24/42 (57%)
Query: 611 LKRRLYTLCKCLMDYRDQDGRQPMLMFMELPSAKIYPEYYKV 652
LK+ L L + +M D GR +F +LPS +YP+YY V
Sbjct: 1 LKQILEQLLEAVMTATDPSGRLISELFQKLPSKVLYPDYYAV 42
>gnl|CDD|99954 cd05524, Bromo_polybromo_I, Bromodomain, polybromo repeat I.
Polybromo is a nuclear protein of unknown function,
which contains 6 bromodomains. The human ortholog BAF180
is part of a SWI/SNF chromatin-remodeling complex, and
it may carry out the functions of Yeast Rsc-1 and Rsc-2.
It was shown that polybromo bromodomains bind to histone
H3 at specific acetyl-lysine positions. Bromodomains are
found in many chromatin-associated proteins and in
nuclear histone acetyltransferases. They interact
specifically with acetylated lysine, but not all the
bromodomains in polybromo may bind to acetyl-lysine.
Length = 113
Score = 146 bits (370), Expect = 1e-41
Identities = 66/141 (46%), Positives = 85/141 (60%), Gaps = 33/141 (23%)
Query: 99 DPSDAMQQIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTD 158
DP Q++YD IRN+K EDG +LC+ FIR+PK+R EP Y+EVV+NPID +KIQQKL
Sbjct: 2 DPIAVCQELYDTIRNYKSEDGRILCESFIRVPKRRNEPEYYEVVSNPIDLLKIQQKL--- 58
Query: 159 EYDDLSDFQADIELLVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNS 218
KT+EYDD+ D AD ELL+ NAK +YK +S
Sbjct: 59 ------------------------------KTEEYDDVDDLTADFELLINNAKAYYKPDS 88
Query: 219 QEHRDAQELMELFHSTRNKLL 239
EH+DA +L ELF S RN++L
Sbjct: 89 PEHKDACKLWELFLSARNEVL 109
Score = 82.0 bits (203), Expect = 9e-19
Identities = 37/105 (35%), Positives = 61/105 (58%), Gaps = 1/105 (0%)
Query: 466 LYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDE 525
LY+TI+ + + GR L F R+P R + P+YYEV+ P+D+ I KL+ +Y+ +D+
Sbjct: 10 LYDTIRNY-KSEDGRILCESFIRVPKRRNEPEYYEVVSNPIDLLKIQQKLKTEEYDDVDD 68
Query: 526 MVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQTKMHLREDED 570
+ ADF + +NA Y +PDS +KDA L + L + + +
Sbjct: 69 LTADFELLINNAKAYYKPDSPEHKDACKLWELFLSARNEVLSGGE 113
Score = 78.9 bits (195), Expect = 1e-17
Identities = 34/111 (30%), Positives = 59/111 (53%)
Query: 272 EDEQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQD 331
D C++L++ + D R L E F +P ++ PEYY+V+ PIDL I ++++
Sbjct: 1 LDPIAVCQELYDTIRNYKSEDGRILCESFIRVPKRRNEPEYYEVVSNPIDLLKIQQKLKT 60
Query: 332 GKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTKKMEIEQG 382
+Y + D+ D L+ NA + +P S +KDA L +L + + E+ G
Sbjct: 61 EEYDDVDDLTADFELLINNAKAYYKPDSPEHKDACKLWELFLSARNEVLSG 111
Score = 28.5 bits (64), Expect = 3.9
Identities = 14/39 (35%), Positives = 22/39 (56%), Gaps = 4/39 (10%)
Query: 618 LCKCLMD----YRDQDGRQPMLMFMELPSAKIYPEYYKV 652
+C+ L D Y+ +DGR F+ +P + PEYY+V
Sbjct: 6 VCQELYDTIRNYKSEDGRILCESFIRVPKRRNEPEYYEV 44
>gnl|CDD|99951 cd05520, Bromo_polybromo_III, Bromodomain, polybromo repeat III.
Polybromo is a nuclear protein of unknown function,
which contains 6 bromodomains. The human ortholog BAF180
is part of a SWI/SNF chromatin-remodeling complex, and
it may carry out the functions of Yeast Rsc-1 and Rsc-2.
It was shown that polybromo bromodomains bind to histone
H3 at specific acetyl-lysine positions. Bromodomains are
found in many chromatin-associated proteins and in
nuclear histone acetyltransferases. They interact
specifically with acetylated lysine, but not all the
bromodomains in polybromo may bind to acetyl-lysine.
Length = 103
Score = 107 bits (269), Expect = 7e-28
Identities = 42/100 (42%), Positives = 65/100 (65%), Gaps = 1/100 (1%)
Query: 463 MRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEH 522
+ LY+TI+ G+ L+ F +LPS+ YPDYY+ I+ P+ ++ I +KL+ +YE
Sbjct: 5 LWQLYDTIR-NARNNQGQLLAEPFLKLPSKRKYPDYYQEIKNPISLQQIRTKLKNGEYET 63
Query: 523 LDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQTK 562
L+E+ AD MF+NA +YN P+S IYKDA LQ+++ K
Sbjct: 64 LEELEADLNLMFENAKRYNVPNSRIYKDAEKLQKLMQAKK 103
Score = 97.8 bits (244), Expect = 2e-24
Identities = 41/96 (42%), Positives = 65/96 (67%)
Query: 281 LFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDM 340
L++ + + + + L E F LPSK++YP+YY I PI L+ I ++++G+Y +L ++
Sbjct: 8 LYDTIRNARNNQGQLLAEPFLKLPSKRKYPDYYQEIKNPISLQQIRTKLKNGEYETLEEL 67
Query: 341 EKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTKK 376
E DL LM +NA +N P S+IYKDA+ L+KL+Q KK
Sbjct: 68 EADLNLMFENAKRYNVPNSRIYKDAEKLQKLMQAKK 103
Score = 73.5 bits (181), Expect = 6e-16
Identities = 41/135 (30%), Positives = 69/135 (51%), Gaps = 33/135 (24%)
Query: 101 SDAMQQIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEY 160
S+ + Q+YD IRN + G LL +PF+++P KR+ P Y++ IK
Sbjct: 2 SNPLWQLYDTIRNARNNQGQLLAEPFLKLPSKRKYPDYYQE-------IK---------- 44
Query: 161 DDLSDFQADIELLVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQE 220
NPI +I+ KLK EY+ L + +AD+ L+ +NAK + NS+
Sbjct: 45 ----------------NPISLQQIRTKLKNGEYETLEELEADLNLMFENAKRYNVPNSRI 88
Query: 221 HRDAQELMELFHSTR 235
++DA++L +L + +
Sbjct: 89 YKDAEKLQKLMQAKK 103
Score = 30.8 bits (70), Expect = 0.65
Identities = 8/16 (50%), Positives = 13/16 (81%)
Query: 637 FMELPSAKIYPEYYKV 652
F++LPS + YP+YY+
Sbjct: 27 FLKLPSKRKYPDYYQE 42
>gnl|CDD|197636 smart00297, BROMO, bromo domain.
Length = 107
Score = 103 bits (259), Expect = 2e-26
Identities = 36/82 (43%), Positives = 51/82 (62%)
Query: 480 RQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACK 539
LS F + SR + PDYY++I+KP+D++ I KL +Y ++E VADF MF NA
Sbjct: 22 HPLSWPFLKPVSRKEAPDYYDIIKKPMDLKTIKKKLENGKYSSVEEFVADFNLMFSNART 81
Query: 540 YNEPDSHIYKDALSLQRIVLQT 561
YN PDS +YKDA L++ +
Sbjct: 82 YNGPDSEVYKDAKKLEKFFEKK 103
Score = 102 bits (257), Expect = 3e-26
Identities = 42/104 (40%), Positives = 64/104 (61%), Gaps = 2/104 (1%)
Query: 272 EDEQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQD 331
Q + ++L AV+ DS PL F S+K P+YYD+I P+DL+TI +++++
Sbjct: 2 PKLQKKLQELLKAVLD--KLDSHPLSWPFLKPVSRKEAPDYYDIIKKPMDLKTIKKKLEN 59
Query: 332 GKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTK 375
GKY+S+ + D LM NA T+N P S++YKDAK L+K + K
Sbjct: 60 GKYSSVEEFVADFNLMFSNARTYNGPDSEVYKDAKKLEKFFEKK 103
Score = 75.8 bits (187), Expect = 1e-16
Identities = 28/135 (20%), Positives = 60/135 (44%), Gaps = 35/135 (25%)
Query: 104 MQQIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDL 163
+Q++ + + L PF++ +++ P Y++++ P+D LKT
Sbjct: 8 LQELLKAVLDKLDSH--PLSWPFLKPVSRKEAPDYYDIIKKPMD-------LKT------ 52
Query: 164 SDFQADIELLVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRD 223
I++KL+ +Y + +F AD L+ NA+T+ +S+ ++D
Sbjct: 53 --------------------IKKKLENGKYSSVEEFVADFNLMFSNARTYNGPDSEVYKD 92
Query: 224 AQELMELFHSTRNKL 238
A++L + F +L
Sbjct: 93 AKKLEKFFEKKLREL 107
Score = 33.4 bits (77), Expect = 0.077
Identities = 12/44 (27%), Positives = 21/44 (47%), Gaps = 2/44 (4%)
Query: 609 KPLKRRLYTLCKCLMDYRDQDGRQPMLMFMELPSAKIYPEYYKV 652
L+++L L K ++D D F++ S K P+YY +
Sbjct: 2 PKLQKKLQELLKAVLDKLDS--HPLSWPFLKPVSRKEAPDYYDI 43
>gnl|CDD|99947 cd05516, Bromo_SNF2L2, Bromodomain, SNF2L2-like subfamily, specific
to animals. SNF2L2 (SNF2-alpha) or SWI/SNF-related
matrix-associated actin-dependent regulator of chromatin
subfamily A member 2 is a global transcriptional
activator, which cooperates with nuclear hormone
receptors to boost transcriptional activation.
Bromodomains are 110 amino acid long domains, that are
found in many chromatin associated proteins.
Bromodomains can interact specifically with acetylated
lysine.
Length = 107
Score = 101 bits (254), Expect = 9e-26
Identities = 42/95 (44%), Positives = 63/95 (66%)
Query: 277 QCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYAS 336
+ + + V+ D+D R L EVF LPS+K PEYY++I P+D + I RI++ KY S
Sbjct: 5 KMNKIVDVVIKYKDSDGRQLAEVFIQLPSRKELPEYYELIRKPVDFKKIKERIRNHKYRS 64
Query: 337 LGDMEKDLILMTKNACTFNEPGSQIYKDAKALKKL 371
L D+EKD++L+ +NA TFN GS IY+D+ L+ +
Sbjct: 65 LEDLEKDVMLLCQNAQTFNLEGSLIYEDSIVLQSV 99
Score = 84.0 bits (208), Expect = 1e-19
Identities = 33/80 (41%), Positives = 54/80 (67%)
Query: 478 TGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNA 537
GRQL+ +F +LPSR + P+YYE+IRKPVD + I ++R ++Y L+++ D + + NA
Sbjct: 20 DGRQLAEVFIQLPSRKELPEYYELIRKPVDFKKIKERIRNHKYRSLEDLEKDVMLLCQNA 79
Query: 538 CKYNEPDSHIYKDALSLQRI 557
+N S IY+D++ LQ +
Sbjct: 80 QTFNLEGSLIYEDSIVLQSV 99
Score = 67.1 bits (164), Expect = 1e-13
Identities = 25/71 (35%), Positives = 46/71 (64%)
Query: 104 MQQIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDL 163
M +I DV+ +K DG L + FI++P +++ P Y+E++ P+DF KI+++++ +Y L
Sbjct: 6 MNKIVDVVIKYKDSDGRQLAEVFIQLPSRKELPEYYELIRKPVDFKKIKERIRNHKYRSL 65
Query: 164 SDFQADIELLV 174
D + D+ LL
Sbjct: 66 EDLEKDVMLLC 76
Score = 36.6 bits (85), Expect = 0.005
Identities = 16/42 (38%), Positives = 28/42 (66%)
Query: 611 LKRRLYTLCKCLMDYRDQDGRQPMLMFMELPSAKIYPEYYKV 652
L +++ + ++ Y+D DGRQ +F++LPS K PEYY++
Sbjct: 2 LTKKMNKIVDVVIKYKDSDGRQLAEVFIQLPSRKELPEYYEL 43
>gnl|CDD|99922 cd04369, Bromodomain, Bromodomain. Bromodomains are found in many
chromatin-associated proteins and in nuclear histone
acetyltransferases. They interact specifically with
acetylated lysine.
Length = 99
Score = 97.8 bits (244), Expect = 2e-24
Identities = 39/101 (38%), Positives = 56/101 (55%), Gaps = 5/101 (4%)
Query: 460 LQKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQ 519
+K+R L + +K K R LS F + PDYYEVI+ P+D+ I KL+ +
Sbjct: 2 KKKLRSLLDALK-----KLKRDLSEPFLEPVDPKEAPDYYEVIKNPMDLSTIKKKLKNGE 56
Query: 520 YEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQ 560
Y+ L+E AD +F NA YN P S IYKDA L+++ +
Sbjct: 57 YKSLEEFEADVRLIFSNAKTYNGPGSPIYKDAKKLEKLFEK 97
Score = 95.1 bits (237), Expect = 1e-23
Identities = 40/102 (39%), Positives = 59/102 (57%), Gaps = 4/102 (3%)
Query: 274 EQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGK 333
+ + L +A+ R L E F K P+YY+VI P+DL TI +++++G+
Sbjct: 1 LKKKLRSLLDALKK----LKRDLSEPFLEPVDPKEAPDYYEVIKNPMDLSTIKKKLKNGE 56
Query: 334 YASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTK 375
Y SL + E D+ L+ NA T+N PGS IYKDAK L+KL +
Sbjct: 57 YKSLEEFEADVRLIFSNAKTYNGPGSPIYKDAKKLEKLFEKL 98
Score = 70.1 bits (172), Expect = 1e-14
Identities = 29/89 (32%), Positives = 47/89 (52%), Gaps = 7/89 (7%)
Query: 150 KIQQKLKTDEYDDLSDFQADIELL-------VVTNPIDFIKIQQKLKTDEYDDLSDFQAD 202
+ LK + D F ++ V+ NP+D I++KLK EY L +F+AD
Sbjct: 7 SLLDALKKLKRDLSEPFLEPVDPKEAPDYYEVIKNPMDLSTIKKKLKNGEYKSLEEFEAD 66
Query: 203 IELLVKNAKTFYKRNSQEHRDAQELMELF 231
+ L+ NAKT+ S ++DA++L +LF
Sbjct: 67 VRLIFSNAKTYNGPGSPIYKDAKKLEKLF 95
Score = 30.4 bits (69), Expect = 0.67
Identities = 11/38 (28%), Positives = 17/38 (44%)
Query: 615 LYTLCKCLMDYRDQDGRQPMLMFMELPSAKIYPEYYKV 652
L + L+D + R F+E K P+YY+V
Sbjct: 1 LKKKLRSLLDALKKLKRDLSEPFLEPVDPKEAPDYYEV 38
>gnl|CDD|99949 cd05518, Bromo_polybromo_IV, Bromodomain, polybromo repeat IV.
Polybromo is a nuclear protein of unknown function,
which contains 6 bromodomains. The human ortholog BAF180
is part of a SWI/SNF chromatin-remodeling complex, and
it may carry out the functions of Yeast Rsc-1 and Rsc-2.
It was shown that polybromo bromodomains bind to histone
H3 at specific acetyl-lysine positions. Bromodomains are
found in many chromatin-associated proteins and in
nuclear histone acetyltransferases. They interact
specifically with acetylated lysine, but not all the
bromodomains in polybromo may bind to acetyl-lysine.
Length = 103
Score = 96.7 bits (241), Expect = 4e-24
Identities = 37/97 (38%), Positives = 62/97 (63%), Gaps = 1/97 (1%)
Query: 461 QKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQY 520
++M L+ + E E +GR+L +F PS+ DYPDYY++I +P+D++ I +R ++Y
Sbjct: 3 KRMLALFLYVLEYRE-GSGRRLCDLFMEKPSKKDYPDYYKIILEPIDLKTIEHNIRNDKY 61
Query: 521 EHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRI 557
+E++ DF MF NA YNE S +Y+DA L+++
Sbjct: 62 ATEEELMDDFKLMFRNARHYNEEGSQVYEDANILEKV 98
Score = 94.8 bits (236), Expect = 2e-23
Identities = 41/96 (42%), Positives = 62/96 (64%)
Query: 281 LFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDM 340
LF V+ + R L ++F PSKK YP+YY +I PIDL+TI I++ KYA+ ++
Sbjct: 8 LFLYVLEYREGSGRRLCDLFMEKPSKKDYPDYYKIILEPIDLKTIEHNIRNDKYATEEEL 67
Query: 341 EKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTKK 376
D LM +NA +NE GSQ+Y+DA L+K+++ K+
Sbjct: 68 MDDFKLMFRNARHYNEEGSQVYEDANILEKVLKEKR 103
Score = 60.9 bits (148), Expect = 2e-11
Identities = 18/42 (42%), Positives = 28/42 (66%)
Query: 611 LKRRLYTLCKCLMDYRDQDGRQPMLMFMELPSAKIYPEYYKV 652
K+R+ L +++YR+ GR+ +FME PS K YP+YYK+
Sbjct: 1 RKKRMLALFLYVLEYREGSGRRLCDLFMEKPSKKDYPDYYKI 42
Score = 44.0 bits (104), Expect = 2e-05
Identities = 18/70 (25%), Positives = 37/70 (52%)
Query: 104 MQQIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDL 163
M ++ + +++ G LCD F+ P K+ P Y++++ PID I+ ++ D+Y
Sbjct: 5 MLALFLYVLEYREGSGRRLCDLFMEKPSKKDYPDYYKIILEPIDLKTIEHNIRNDKYATE 64
Query: 164 SDFQADIELL 173
+ D +L+
Sbjct: 65 EELMDDFKLM 74
>gnl|CDD|99950 cd05519, Bromo_SNF2, Bromodomain, SNF2-like subfamily, specific to
fungi. SNF2 is a yeast protein involved in
transcriptional activation, it is the catalytic
component of the SWI/SNF ATP-dependent chromatin
remodeling complex. The protein is essential for the
regulation of gene expression (both positive and
negative) of a large number of genes. The SWI/SNF
complex changes chromatin structure by altering
DNA-histone contacts within the nucleosome, which
results in a re-positioning of the nucleosome and
facilitates or represses the binding of gene-specific
transcription factors. Bromodomains are 110 amino acid
long domains, that are found in many chromatin
associated proteins. Bromodomains can interact
specifically with acetylated lysine.
Length = 103
Score = 91.6 bits (228), Expect = 2e-22
Identities = 40/101 (39%), Positives = 59/101 (58%)
Query: 275 QNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKY 334
+ ++++AV+ D R L E+F PSKK YP+YY +I PI L I RRI+ Y
Sbjct: 2 KAAMLEIYDAVLNCEDETGRKLSELFLEKPSKKLYPDYYVIIKRPIALDQIKRRIEGRAY 61
Query: 335 ASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTK 375
SL + +D LM NA T+N+ GS +Y+DA ++K + K
Sbjct: 62 KSLEEFLEDFHLMFANARTYNQEGSIVYEDAVEMEKAFKKK 102
Score = 89.7 bits (223), Expect = 1e-21
Identities = 35/99 (35%), Positives = 61/99 (61%), Gaps = 1/99 (1%)
Query: 463 MRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEH 522
M +Y+ + CE +TGR+LS +F PS+ YPDYY +I++P+ ++ I ++ Y+
Sbjct: 5 MLEIYDAV-LNCEDETGRKLSELFLEKPSKKLYPDYYVIIKRPIALDQIKRRIEGRAYKS 63
Query: 523 LDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQT 561
L+E + DF MF NA YN+ S +Y+DA+ +++ +
Sbjct: 64 LEEFLEDFHLMFANARTYNQEGSIVYEDAVEMEKAFKKK 102
Score = 55.4 bits (134), Expect = 1e-09
Identities = 22/72 (30%), Positives = 39/72 (54%)
Query: 103 AMQQIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDD 162
AM +IYD + N + E G L + F+ P K+ P Y+ ++ PI +I+++++ Y
Sbjct: 4 AMLEIYDAVLNCEDETGRKLSELFLEKPSKKLYPDYYVIIKRPIALDQIKRRIEGRAYKS 63
Query: 163 LSDFQADIELLV 174
L +F D L+
Sbjct: 64 LEEFLEDFHLMF 75
Score = 39.2 bits (92), Expect = 6e-04
Identities = 14/40 (35%), Positives = 25/40 (62%)
Query: 611 LKRRLYTLCKCLMDYRDQDGRQPMLMFMELPSAKIYPEYY 650
LK + + +++ D+ GR+ +F+E PS K+YP+YY
Sbjct: 1 LKAAMLEIYDAVLNCEDETGRKLSELFLEKPSKKLYPDYY 40
>gnl|CDD|99953 cd05522, Bromo_Rsc1_2_II, Bromodomain, repeat II in Rsc1/2_like
subfamily, specific to fungi. Rsc1 and Rsc2 are
components of the RSC complex (remodeling the structure
of chromatin), are essential for transcriptional
control, and have a specific domain architecture
including two bromodomains. The RSC complex has also
been linked to homologous recombination and
nonhomologous end-joining repair of DNA double strand
breaks. Bromodomains are 110 amino acid long domains,
that are found in many chromatin associated proteins.
Bromodomains can interact specifically with acetylated
lysine.
Length = 104
Score = 85.4 bits (212), Expect = 4e-20
Identities = 30/78 (38%), Positives = 49/78 (62%)
Query: 479 GRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNAC 538
GR L+ F++LP + P+YY+ I P+ ++ I K++ +Y+ D+ + D MF+NA
Sbjct: 21 GRLLTLHFEKLPDKAREPEYYQEISNPISLDDIKKKVKRRKYKSFDQFLNDLNLMFENAK 80
Query: 539 KYNEPDSHIYKDALSLQR 556
YNE DS YKDA+ L++
Sbjct: 81 LYNENDSQEYKDAVLLEK 98
Score = 73.4 bits (181), Expect = 7e-16
Identities = 36/82 (43%), Positives = 45/82 (54%)
Query: 289 TDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMT 348
D + R L F+ LP K R PEYY I PI L I ++++ KY S DL LM
Sbjct: 17 RDENGRLLTLHFEKLPDKAREPEYYQEISNPISLDDIKKKVKRRKYKSFDQFLNDLNLMF 76
Query: 349 KNACTFNEPGSQIYKDAKALKK 370
+NA +NE SQ YKDA L+K
Sbjct: 77 ENAKLYNENDSQEYKDAVLLEK 98
Score = 70.0 bits (172), Expect = 1e-14
Identities = 33/129 (25%), Positives = 57/129 (44%), Gaps = 33/129 (25%)
Query: 104 MQQIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDL 163
++ I +R + E+G LL F ++P K +EP Y++ ++NPI
Sbjct: 6 IKNILKGLRKERDENGRLLTLHFEKLPDKAREPEYYQEISNPI----------------- 48
Query: 164 SDFQADIELLVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRD 223
+D IK K+K +Y F D+ L+ +NAK + + +SQE++D
Sbjct: 49 --------------SLDDIKK--KVKRRKYKSFDQFLNDLNLMFENAKLYNENDSQEYKD 92
Query: 224 AQELMELFH 232
A L +
Sbjct: 93 AVLLEKEAR 101
Score = 30.7 bits (70), Expect = 0.65
Identities = 16/43 (37%), Positives = 23/43 (53%)
Query: 610 PLKRRLYTLCKCLMDYRDQDGRQPMLMFMELPSAKIYPEYYKV 652
P + R+ + K L RD++GR L F +LP PEYY+
Sbjct: 1 PYEARIKNILKGLRKERDENGRLLTLHFEKLPDKAREPEYYQE 43
>gnl|CDD|99952 cd05521, Bromo_Rsc1_2_I, Bromodomain, repeat I in Rsc1/2_like
subfamily, specific to fungi. Rsc1 and Rsc2 are
components of the RSC complex (remodeling the structure
of chromatin), are essential for transcriptional
control, and have a specific domain architecture
including two bromodomains. The RSC complex has also
been linked to homologous recombination and
nonhomologous end-joining repair of DNA double strand
breaks. Bromodomains are 110 amino acid long domains,
that are found in many chromatin associated proteins.
Bromodomains can interact specifically with acetylated
lysine.
Length = 106
Score = 81.6 bits (202), Expect = 1e-18
Identities = 30/101 (29%), Positives = 53/101 (52%), Gaps = 2/101 (1%)
Query: 275 QNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKY 334
+ + L++ + T + + +H +F +LP +K YP+YY +I P+ L T+ +R+ Y
Sbjct: 3 SKKLKPLYDGIYTLKEENGIEIHPIFNVLPLRKDYPDYYKIIKNPLSLNTVKKRLP--HY 60
Query: 335 ASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTK 375
+ + DL + NA +N GS IYK A L+K +
Sbjct: 61 TNAQEFVNDLAQIPWNARLYNTKGSVIYKYALILEKYINDV 101
Score = 71.6 bits (176), Expect = 3e-15
Identities = 37/105 (35%), Positives = 56/105 (53%), Gaps = 3/105 (2%)
Query: 462 KMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYE 521
K++ LY+ I T + + G ++ IF LP R DYPDYY++I+ P+ + + K R Y
Sbjct: 5 KLKPLYDGIY-TLKEENGIEIHPIFNVLPLRKDYPDYYKIIKNPLSLNTV--KKRLPHYT 61
Query: 522 HLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQTKMHLR 566
+ E V D Q+ NA YN S IYK AL L++ + +
Sbjct: 62 NAQEFVNDLAQIPWNARLYNTKGSVIYKYALILEKYINDVIIPNL 106
Score = 38.8 bits (91), Expect = 9e-04
Identities = 17/70 (24%), Positives = 38/70 (54%), Gaps = 2/70 (2%)
Query: 101 SDAMQQIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEY 160
S ++ +YD I K+E+G + F +P ++ P Y++++ NP+ ++++L Y
Sbjct: 3 SKKLKPLYDGIYTLKEENGIEIHPIFNVLPLRKDYPDYYKIIKNPLSLNTVKKRLPH--Y 60
Query: 161 DDLSDFQADI 170
+ +F D+
Sbjct: 61 TNAQEFVNDL 70
Score = 28.1 bits (63), Expect = 6.1
Identities = 13/43 (30%), Positives = 24/43 (55%)
Query: 610 PLKRRLYTLCKCLMDYRDQDGRQPMLMFMELPSAKIYPEYYKV 652
L ++L L + ++++G + +F LP K YP+YYK+
Sbjct: 1 KLSKKLKPLYDGIYTLKEENGIEIHPIFNVLPLRKDYPDYYKI 43
>gnl|CDD|215921 pfam00439, Bromodomain, Bromodomain. Bromodomains are 110 amino
acid long domains, that are found in many chromatin
associated proteins. Bromodomains can interact
specifically with acetylated lysine.
Length = 84
Score = 79.8 bits (197), Expect = 2e-18
Identities = 35/78 (44%), Positives = 47/78 (60%)
Query: 289 TDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMT 348
D PL E F + YP+YY+VI P+DL TI ++++ GKY SL + KD+ L+
Sbjct: 6 EDLMEHPLAEPFLEPVDPEEYPDYYEVIKEPMDLSTIRQKLKSGKYKSLAEFLKDVELIF 65
Query: 349 KNACTFNEPGSQIYKDAK 366
NA T+N S IYKDAK
Sbjct: 66 SNAITYNGEDSDIYKDAK 83
Score = 78.2 bits (193), Expect = 9e-18
Identities = 33/82 (40%), Positives = 44/82 (53%)
Query: 470 IKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVAD 529
E E L+ F +YPDYYEVI++P+D+ I KL+ +Y+ L E + D
Sbjct: 1 CLEILEDLMEHPLAEPFLEPVDPEEYPDYYEVIKEPMDLSTIRQKLKSGKYKSLAEFLKD 60
Query: 530 FIQMFDNACKYNEPDSHIYKDA 551
+F NA YN DS IYKDA
Sbjct: 61 VELIFSNAITYNGEDSDIYKDA 82
Score = 63.2 bits (154), Expect = 2e-12
Identities = 20/53 (37%), Positives = 35/53 (66%)
Query: 174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQE 226
V+ P+D I+QKLK+ +Y L++F D+EL+ NA T+ +S ++DA++
Sbjct: 32 VIKEPMDLSTIRQKLKSGKYKSLAEFLKDVELIFSNAITYNGEDSDIYKDAKK 84
>gnl|CDD|227408 COG5076, COG5076, Transcription factor involved in chromatin
remodeling, contains bromodomain [Chromatin structure
and dynamics / Transcription].
Length = 371
Score = 82.5 bits (204), Expect = 7e-17
Identities = 38/81 (46%), Positives = 52/81 (64%)
Query: 475 EPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMF 534
+ GR LS IF LPS+ +YPDYYE+I+ P+D+ I KL+ +Y+ +E V+D MF
Sbjct: 158 FLRDGRFLSSIFLGLPSKREYPDYYEIIKSPMDLLTIQKKLKNGRYKSFEEFVSDLNLMF 217
Query: 535 DNACKYNEPDSHIYKDALSLQ 555
DN YN PDS +Y DA L+
Sbjct: 218 DNCKLYNGPDSSVYVDAKELE 238
Score = 76.8 bits (189), Expect = 6e-15
Identities = 44/154 (28%), Positives = 69/154 (44%), Gaps = 9/154 (5%)
Query: 292 DSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNA 351
D R L +F LPSK+ YP+YY++I P+DL TI +++++G+Y S + DL LM N
Sbjct: 161 DGRFLSSIFLGLPSKREYPDYYEIIKSPMDLLTIQKKLKNGRYKSFEEFVSDLNLMFDNC 220
Query: 352 CTFNEPGSQIYKDAKALKKLVQTKKMEIEQGKFTPAGKSERIRSKRIRGGQSLSAITAAL 411
+N P S +Y DAK L+K IE + I+ R + S +
Sbjct: 221 KLYNGPDSSVYVDAKELEKYF---LKLIE--EIPEEMLELSIKPGREEREERESVLITNS 275
Query: 412 ESEDDESEDDEEIDQEDPNSPLWQVYDAIRNAKT 445
++ + E+ Y IR+
Sbjct: 276 QAHVGAWPFLRPVSDEEV----PDYYKDIRDPMD 305
Score = 68.7 bits (168), Expect = 2e-12
Identities = 57/270 (21%), Positives = 98/270 (36%), Gaps = 59/270 (21%)
Query: 104 MQQIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDL 163
+ I + DG L F+ +P KR+ P Y+E++ +P+D + IQ+KLK Y
Sbjct: 147 NKAIAKFKKQLFLRDGRFLSSIFLGLPSKREYPDYYEIIKSPMDLLTIQKKLKNGRYKSF 206
Query: 164 SDFQADIELLVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRD 223
+F +D+ L+ N K + +S + D
Sbjct: 207 EEFVSDLNLMFD---------------------------------NCKLYNGPDSSVYVD 233
Query: 224 AQELMELFHSTRNKLLNPQSHEGTSQKRSMDFMMASETEDSRDSSICTEDEQNQCEDLFN 283
A+EL + F KL+ + + E + R+S + T + +
Sbjct: 234 AKELEKYF----LKLIEEIP----EEMLELSIKPGREEREERESVLITNSQAH------- 278
Query: 284 AVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKD 343
RP S + P+YY I P+DL T ++++ Y +D
Sbjct: 279 ---VGAWPFLRP--------VSDEEVPDYYKDIRDPMDLSTKELKLRNNYYRPEETFVRD 327
Query: 344 LILMTKNACTFNEPGSQIYKDAKALKKLVQ 373
L N +N + YK+A L+ V
Sbjct: 328 AKLFFDNCVMYNGEVTDYYKNANVLEDFVI 357
Score = 32.5 bits (74), Expect = 0.65
Identities = 26/67 (38%), Positives = 33/67 (49%)
Query: 488 RLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHI 547
R S + PDYY+ IR P+D+ KLR N Y + V D FDN YN +
Sbjct: 286 RPVSDEEVPDYYKDIRDPMDLSTKELKLRNNYYRPEETFVRDAKLFFDNCVMYNGEVTDY 345
Query: 548 YKDALSL 554
YK+A L
Sbjct: 346 YKNANVL 352
>gnl|CDD|99941 cd05509, Bromo_gcn5_like, Bromodomain; Gcn5_like subfamily. Gcn5p
is a histone acetyltransferase (HAT) which mediates
acetylation of histones at lysine residues; such
acetylation is generally correlated with the activation
of transcription. Bromodomains are 110 amino acid long
domains, that are found in many chromatin associated
proteins. Bromodomains can interact specifically with
acetylated lysine.
Length = 101
Score = 74.5 bits (184), Expect = 2e-16
Identities = 28/65 (43%), Positives = 39/65 (60%)
Query: 496 PDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQ 555
PDYY+VI+KP+D+ + KL Y L+E VAD +FDN YN PD+ YK A L+
Sbjct: 32 PDYYDVIKKPMDLSTMEEKLENGYYVTLEEFVADLKLIFDNCRLYNGPDTEYYKCANKLE 91
Query: 556 RIVLQ 560
+ +
Sbjct: 92 KFFWK 96
Score = 64.9 bits (159), Expect = 5e-13
Identities = 26/70 (37%), Positives = 41/70 (58%)
Query: 310 PEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALK 369
P+YYDVI P+DL T+ ++++G Y +L + DL L+ N +N P ++ YK A L+
Sbjct: 32 PDYYDVIKKPMDLSTMEEKLENGYYVTLEEFVADLKLIFDNCRLYNGPDTEYYKCANKLE 91
Query: 370 KLVQTKKMEI 379
K K E+
Sbjct: 92 KFFWKKLKEL 101
Score = 49.9 bits (120), Expect = 1e-07
Identities = 15/59 (25%), Positives = 34/59 (57%)
Query: 174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFH 232
V+ P+D +++KL+ Y L +F AD++L+ N + + +++ ++ A +L + F
Sbjct: 37 VIKKPMDLSTMEEKLENGYYVTLEEFVADLKLIFDNCRLYNGPDTEYYKCANKLEKFFW 95
>gnl|CDD|99930 cd05498, Bromo_Brdt_II_like, Bromodomain, Brdt_like subfamily,
repeat II. Human Brdt is a testis-specific member of the
BET subfamily of bromodomain proteins; the first
bromodomain in Brdt has been shown to be essential for
male germ cell differentiation. Bromodomains are 110
amino acid long domains, that are found in many
chromatin associated proteins. Bromodomains can interact
specifically with acetylated lysine.
Length = 102
Score = 69.2 bits (170), Expect = 2e-14
Identities = 23/62 (37%), Positives = 33/62 (53%)
Query: 496 PDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQ 555
DY+++I+ P+D+ I KL +Y E AD MF N KYN PD ++ A LQ
Sbjct: 36 HDYHDIIKHPMDLSTIKKKLDNREYADAQEFAADVRLMFSNCYKYNPPDHPVHAMARKLQ 95
Query: 556 RI 557
+
Sbjct: 96 DV 97
Score = 55.7 bits (135), Expect = 9e-10
Identities = 18/66 (27%), Positives = 37/66 (56%)
Query: 310 PEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALK 369
+Y+D+I P+DL TI +++ + +YA + D+ LM N +N P ++ A+ L+
Sbjct: 36 HDYHDIIKHPMDLSTIKKKLDNREYADAQEFAADVRLMFSNCYKYNPPDHPVHAMARKLQ 95
Query: 370 KLVQTK 375
+ + +
Sbjct: 96 DVFEDR 101
Score = 43.4 bits (103), Expect = 2e-05
Identities = 14/39 (35%), Positives = 24/39 (61%)
Query: 136 PSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLV 174
YH+++ +P+D I++KL EY D +F AD+ L+
Sbjct: 36 HDYHDIIKHPMDLSTIKKKLDNREYADAQEFAADVRLMF 74
Score = 39.2 bits (92), Expect = 6e-04
Identities = 17/58 (29%), Positives = 32/58 (55%)
Query: 174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELF 231
++ +P+D I++KL EY D +F AD+ L+ N + + H A++L ++F
Sbjct: 41 IIKHPMDLSTIKKKLDNREYADAQEFAADVRLMFSNCYKYNPPDHPVHAMARKLQDVF 98
>gnl|CDD|99931 cd05499, Bromo_BDF1_2_II, Bromodomain. BDF1/BDF2 like subfamily,
restricted to fungi, repeat II. BDF1 and BDF2 are yeast
transcription factors involved in the expression of a
wide range of genes, including snRNAs; they are required
for sporulation and DNA repair and protect histone H4
from deacetylation. Bromodomains are 110 amino acid long
domains, that are found in many chromatin associated
proteins. Bromodomains can interact specifically with
acetylated lysine.
Length = 102
Score = 68.9 bits (169), Expect = 3e-14
Identities = 24/66 (36%), Positives = 42/66 (63%)
Query: 310 PEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALK 369
P Y+ +I P+DL TI++++Q+G+Y S + E+D+ L+ KN TFN G+ +Y L+
Sbjct: 36 PNYFSIIKKPMDLGTISKKLQNGQYQSAKEFERDVRLIFKNCYTFNPEGTDVYMMGHQLE 95
Query: 370 KLVQTK 375
++ K
Sbjct: 96 EVFNDK 101
Score = 51.9 bits (125), Expect = 2e-08
Identities = 18/63 (28%), Positives = 33/63 (52%)
Query: 496 PDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQ 555
P+Y+ +I+KP+D+ I+ KL+ QY+ E D +F N +N + +Y L+
Sbjct: 36 PNYFSIIKKPMDLGTISKKLQNGQYQSAKEFERDVRLIFKNCYTFNPEGTDVYMMGHQLE 95
Query: 556 RIV 558
+
Sbjct: 96 EVF 98
Score = 45.0 bits (107), Expect = 6e-06
Identities = 16/58 (27%), Positives = 30/58 (51%)
Query: 174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELF 231
++ P+D I +KL+ +Y +F+ D+ L+ KN TF + + +L E+F
Sbjct: 41 IIKKPMDLGTISKKLQNGQYQSAKEFERDVRLIFKNCYTFNPEGTDVYMMGHQLEEVF 98
Score = 43.4 bits (103), Expect = 2e-05
Identities = 11/39 (28%), Positives = 22/39 (56%)
Query: 136 PSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLV 174
P+Y ++ P+D I +KL+ +Y +F+ D+ L+
Sbjct: 36 PNYFSIIKKPMDLGTISKKLQNGQYQSAKEFERDVRLIF 74
>gnl|CDD|99955 cd05525, Bromo_ASH1, Bromodomain; ASH1_like sub-family. ASH1
(absent, small, or homeotic 1) is a member of the
trithorax-group in Drosophila melanogaster, an
epigenetic transcriptional regulator of HOX genes.
Drosophila ASH1 has been shown to methylate specific
lysines in histones H3 and H4. Mammalian ASH1 has been
shown to methylate histone H3. Bromodomains are 110
amino acid long domains, that are found in many
chromatin associated proteins. Bromodomains can interact
specifically with acetylated lysine.
Length = 106
Score = 66.3 bits (162), Expect = 2e-13
Identities = 33/134 (24%), Positives = 59/134 (44%), Gaps = 33/134 (24%)
Query: 102 DAMQQIYDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYD 161
+++I D I +K +G L PFI +P K++ P Y+E +T+P+D I++++ T Y
Sbjct: 5 QVLKEICDAIITYKDSNGQSLAIPFINLPSKKKNPDYYERITDPVDLSTIEKQILTGYY- 63
Query: 162 DLSDFQADIELLVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEH 221
KT E F +D+ + +NA+ +Y R S
Sbjct: 64 ---------------------------KTPE-----AFDSDMLKVFRNAEKYYGRKSPIG 91
Query: 222 RDAQELMELFHSTR 235
RD L + ++ +
Sbjct: 92 RDVCRLRKAYYQAK 105
Score = 63.6 bits (155), Expect = 2e-12
Identities = 31/97 (31%), Positives = 54/97 (55%)
Query: 280 DLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGD 339
++ +A++T D++ + L F LPSKK+ P+YY+ I P+DL TI ++I G Y +
Sbjct: 9 EICDAIITYKDSNGQSLAIPFINLPSKKKNPDYYERITDPVDLSTIEKQILTGYYKTPEA 68
Query: 340 MEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTKK 376
+ D++ + +NA + S I +D L+K K
Sbjct: 69 FDSDMLKVFRNAEKYYGRKSPIGRDVCRLRKAYYQAK 105
Score = 55.5 bits (134), Expect = 1e-09
Identities = 32/102 (31%), Positives = 52/102 (50%), Gaps = 1/102 (0%)
Query: 461 QKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQY 520
Q ++ + + I T + G+ L+ F LPS+ PDYYE I PVD+ I ++ Y
Sbjct: 5 QVLKEICDAI-ITYKDSNGQSLAIPFINLPSKKKNPDYYERITDPVDLSTIEKQILTGYY 63
Query: 521 EHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQTK 562
+ + +D +++F NA KY S I +D L++ Q K
Sbjct: 64 KTPEAFDSDMLKVFRNAEKYYGRKSPIGRDVCRLRKAYYQAK 105
>gnl|CDD|99932 cd05500, Bromo_BDF1_2_I, Bromodomain. BDF1/BDF2 like subfamily,
restricted to fungi, repeat I. BDF1 and BDF2 are yeast
transcription factors involved in the expression of a
wide range of genes, including snRNAs; they are required
for sporulation and DNA repair and protect histone H4
from deacetylation. Bromodomains are 110 amino acid long
domains, that are found in many chromatin associated
proteins. Bromodomains can interact specifically with
acetylated lysine.
Length = 103
Score = 64.3 bits (157), Expect = 1e-12
Identities = 23/67 (34%), Positives = 36/67 (53%)
Query: 490 PSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYK 549
P + + P Y +I+KP+D+ I KL+ N Y ++E ADF M DN +N P+ + +
Sbjct: 31 PVKLNIPHYPTIIKKPMDLGTIERKLKSNVYTSVEEFTADFNLMVDNCLTFNGPEHPVSQ 90
Query: 550 DALSLQR 556
LQ
Sbjct: 91 MGKRLQA 97
Score = 59.6 bits (145), Expect = 4e-11
Identities = 23/67 (34%), Positives = 33/67 (49%)
Query: 304 PSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYK 363
P K P Y +I P+DL TI R+++ Y S+ + D LM N TFN P + +
Sbjct: 31 PVKLNIPHYPTIIKKPMDLGTIERKLKSNVYTSVEEFTADFNLMVDNCLTFNGPEHPVSQ 90
Query: 364 DAKALKK 370
K L+
Sbjct: 91 MGKRLQA 97
Score = 42.7 bits (101), Expect = 3e-05
Identities = 16/46 (34%), Positives = 27/46 (58%), Gaps = 1/46 (2%)
Query: 136 PSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVTNPIDF 181
P Y ++ P+D I++KLK++ Y + +F AD L+V N + F
Sbjct: 37 PHYPTIIKKPMDLGTIERKLKSNVYTSVEEFTADFN-LMVDNCLTF 81
Score = 42.3 bits (100), Expect = 6e-05
Identities = 20/58 (34%), Positives = 31/58 (53%), Gaps = 3/58 (5%)
Query: 174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELF 231
++ P+D I++KLK++ Y + +F AD L+V N TF N EH +Q L
Sbjct: 42 IIKKPMDLGTIERKLKSNVYTSVEEFTADFNLMVDNCLTF---NGPEHPVSQMGKRLQ 96
>gnl|CDD|99936 cd05504, Bromo_Acf1_like, Bromodomain; Acf1_like or BAZ1A_like
subfamily. Bromo adjacent to zinc finger 1A (BAZ1A) was
identified as a novel human bromodomain gene by cDNA
library screening. The Drosophila homologue, Acf1, is
part of the CHRAC (chromatin accessibility complex) and
regulates ISWI-induced nucleosome remodeling.
Bromodomains are 110 amino acid long domains, that are
found in many chromatin associated proteins.
Bromodomains can interact specifically with acetylated
lysine.
Length = 115
Score = 64.3 bits (157), Expect = 1e-12
Identities = 26/74 (35%), Positives = 42/74 (56%)
Query: 486 FQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDS 545
F R S+ + PDYY++I+KP+D+ I KL +Y+ +E ++D +F N YN +
Sbjct: 33 FLRPVSKIEVPDYYDIIKKPMDLGTIKEKLNMGEYKLAEEFLSDIQLVFSNCFLYNPEHT 92
Query: 546 HIYKDALSLQRIVL 559
+YK LQR +
Sbjct: 93 SVYKAGTRLQRFFI 106
Score = 57.0 bits (138), Expect = 5e-10
Identities = 27/98 (27%), Positives = 44/98 (44%), Gaps = 6/98 (6%)
Query: 278 CEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASL 337
E L ++ DS P F SK P+YYD+I P+DL TI ++ G+Y
Sbjct: 17 LEQLLVEIVK--HKDSWP----FLRPVSKIEVPDYYDIIKKPMDLGTIKEKLNMGEYKLA 70
Query: 338 GDMEKDLILMTKNACTFNEPGSQIYKDAKALKKLVQTK 375
+ D+ L+ N +N + +YK L++ +
Sbjct: 71 EEFLSDIQLVFSNCFLYNPEHTSVYKAGTRLQRFFIKR 108
Score = 50.9 bits (122), Expect = 6e-08
Identities = 18/66 (27%), Positives = 34/66 (51%), Gaps = 3/66 (4%)
Query: 108 YDVIRNFKKEDGALLCDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQ 167
++ K + PF+R K + P Y++++ P+D I++KL EY +F
Sbjct: 18 EQLLVEIVKHKDSW---PFLRPVSKIEVPDYYDIIKKPMDLGTIKEKLNMGEYKLAEEFL 74
Query: 168 ADIELL 173
+DI+L+
Sbjct: 75 SDIQLV 80
Score = 46.6 bits (111), Expect = 2e-06
Identities = 16/65 (24%), Positives = 30/65 (46%)
Query: 174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHS 233
++ P+D I++KL EY +F +DI+L+ N + ++ ++ L F
Sbjct: 48 IIKKPMDLGTIKEKLNMGEYKLAEEFLSDIQLVFSNCFLYNPEHTSVYKAGTRLQRFFIK 107
Query: 234 TRNKL 238
KL
Sbjct: 108 RCRKL 112
>gnl|CDD|99934 cd05502, Bromo_tif1_like, Bromodomain; tif1_like subfamily. Tif1
(transcription intermediary factor 1) is a member of the
tripartite motif (TRIM) protein family, which is
characterized by a particular domain architecture. It
functions by recruiting coactivators and/or corepressors
to modulate transcription. Vertebrate Tif1-gamma, also
labeled E3 ubiquitin-protein ligase TRIM33, plays a role
in the control of hematopoiesis. Its homologue in
Xenopus laevis, Ectodermin, has been shown to function
in germ-layer specification and control of cell growth
during embryogenesis. Bromodomains are 110 amino acid
long domains, that are found in many chromatin
associated proteins. Bromodomains can interact
specifically with acetylated lysine.
Length = 109
Score = 61.2 bits (149), Expect = 1e-11
Identities = 27/82 (32%), Positives = 39/82 (47%), Gaps = 8/82 (9%)
Query: 292 DSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDG---KYASLGDMEKDLILMT 348
S P HE P P YY +I P+DL I +++Q Y+S + D+ LM
Sbjct: 21 LSLPFHE-----PVSPSVPNYYKIIKTPMDLSLIRKKLQPKSPQHYSSPEEFVADVRLMF 75
Query: 349 KNACTFNEPGSQIYKDAKALKK 370
KN FNE S++ + K L+
Sbjct: 76 KNCYKFNEEDSEVAQAGKELEL 97
Score = 58.5 bits (142), Expect = 1e-10
Identities = 27/78 (34%), Positives = 40/78 (51%), Gaps = 4/78 (5%)
Query: 482 LSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLR---YNQYEHLDEMVADFIQMFDNAC 538
LS F P P+YY++I+ P+D+ +I KL+ Y +E VAD MF N
Sbjct: 21 LSLPFHE-PVSPSVPNYYKIIKTPMDLSLIRKKLQPKSPQHYSSPEEFVADVRLMFKNCY 79
Query: 539 KYNEPDSHIYKDALSLQR 556
K+NE DS + + L+
Sbjct: 80 KFNEEDSEVAQAGKELEL 97
Score = 41.1 bits (97), Expect = 1e-04
Identities = 21/72 (29%), Positives = 37/72 (51%), Gaps = 4/72 (5%)
Query: 174 VVTNPIDFIKIQQKLK---TDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMEL 230
++ P+D I++KL+ Y +F AD+ L+ KN F + +S+ + +EL EL
Sbjct: 39 IIKTPMDLSLIRKKLQPKSPQHYSSPEEFVADVRLMFKNCYKFNEEDSEVAQAGKEL-EL 97
Query: 231 FHSTRNKLLNPQ 242
F + K + P
Sbjct: 98 FFEEQLKEILPD 109
>gnl|CDD|99929 cd05497, Bromo_Brdt_I_like, Bromodomain, Brdt_like subfamily,
repeat I. Human Brdt is a testis-specific member of the
BET subfamily of bromodomain proteins; the first
bromodomain in Brdt has been shown to be essential for
male germ cell differentiation. Bromodomains are 110
amino acid long domains, that are found in many
chromatin associated proteins. Bromodomains can interact
specifically with acetylated lysine.
Length = 107
Score = 58.6 bits (142), Expect = 1e-10
Identities = 23/65 (35%), Positives = 37/65 (56%)
Query: 496 PDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQ 555
PDY+++I+ P+D+ I +L N Y E + DF MF N YN+P + A +L+
Sbjct: 38 PDYHKIIKTPMDLGTIKKRLENNYYWSASECIQDFNTMFTNCYIYNKPGDDVVLMAQTLE 97
Query: 556 RIVLQ 560
++ LQ
Sbjct: 98 KLFLQ 102
Score = 55.1 bits (133), Expect = 2e-09
Identities = 22/66 (33%), Positives = 37/66 (56%)
Query: 310 PEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALK 369
P+Y+ +I P+DL TI +R+++ Y S + +D M N +N+PG + A+ L+
Sbjct: 38 PDYHKIIKTPMDLGTIKKRLENNYYWSASECIQDFNTMFTNCYIYNKPGDDVVLMAQTLE 97
Query: 370 KLVQTK 375
KL K
Sbjct: 98 KLFLQK 103
Score = 30.5 bits (69), Expect = 0.77
Identities = 12/42 (28%), Positives = 23/42 (54%), Gaps = 1/42 (2%)
Query: 136 PSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVTN 177
P YH+++ P+D I+++L+ + Y S+ D + TN
Sbjct: 38 PDYHKIIKTPMDLGTIKKRLENNYYWSASECIQDFN-TMFTN 78
Score = 27.8 bits (62), Expect = 6.3
Identities = 14/60 (23%), Positives = 26/60 (43%)
Query: 174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHS 233
++ P+D I+++L+ + Y S+ D + N + K AQ L +LF
Sbjct: 43 IIKTPMDLGTIKKRLENNYYWSASECIQDFNTMFTNCYIYNKPGDDVVLMAQTLEKLFLQ 102
>gnl|CDD|99945 cd05513, Bromo_brd7_like, Bromodomain, brd7_like subgroup. The BRD7
gene encodes a nuclear protein that has been shown to
inhibit cell growth and the progression of the cell
cycle by regulating cell-cycle genes at the
transcriptional level. BRD7 has been identified as a
gene involved in nasopharyngeal carcinoma. The protein
interacts with acetylated histone H3 via its
bromodomain. Bromodomains are 110 amino acid long
domains that are found in many chromatin associated
proteins. Bromodomains can interact specifically with
acetylated lysine.
Length = 98
Score = 55.9 bits (135), Expect = 8e-10
Identities = 22/56 (39%), Positives = 34/56 (60%)
Query: 496 PDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDA 551
P Y +I+ P+D + K++ N Y+ ++E DF M +NA KYN+PD+ YK A
Sbjct: 32 PGYSSIIKHPMDFSTMKEKIKNNDYQSIEEFKDDFKLMCENAMKYNKPDTIYYKAA 87
Score = 45.5 bits (108), Expect = 3e-06
Identities = 21/59 (35%), Positives = 34/59 (57%)
Query: 310 PEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKAL 368
P Y +I P+D T+ +I++ Y S+ + + D LM +NA +N+P + YK AK L
Sbjct: 32 PGYSSIIKHPMDFSTMKEKIKNNDYQSIEEFKDDFKLMCENAMKYNKPDTIYYKAAKKL 90
Score = 38.9 bits (91), Expect = 8e-04
Identities = 14/56 (25%), Positives = 38/56 (67%)
Query: 173 LVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELM 228
++ +P+DF +++K+K ++Y + +F+ D +L+ +NA + K ++ ++ A++L+
Sbjct: 36 SIIKHPMDFSTMKEKIKNNDYQSIEEFKDDFKLMCENAMKYNKPDTIYYKAAKKLL 91
Score = 37.4 bits (87), Expect = 0.002
Identities = 11/38 (28%), Positives = 26/38 (68%)
Query: 136 PSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELL 173
P Y ++ +P+DF +++K+K ++Y + +F+ D +L+
Sbjct: 32 PGYSSIIKHPMDFSTMKEKIKNNDYQSIEEFKDDFKLM 69
>gnl|CDD|99938 cd05506, Bromo_plant1, Bromodomain, uncharacterized subfamily
specific to plants. Might function as a global
transcription factor. Bromodomains are 110 amino acid
long domains, that are found in many chromatin
associated proteins. Bromodomains can interact
specifically with acetylated lysine.
Length = 99
Score = 55.8 bits (135), Expect = 8e-10
Identities = 23/72 (31%), Positives = 43/72 (59%)
Query: 304 PSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYK 363
P+Y+D+I P+DL T+ ++++ G+Y+S + D+ L NA +N PG+ ++
Sbjct: 27 VVALGLPDYFDIIKKPMDLGTVKKKLEKGEYSSPEEFAADVRLTFANAMRYNPPGNDVHT 86
Query: 364 DAKALKKLVQTK 375
AK L K+ +T+
Sbjct: 87 MAKELLKIFETR 98
Score = 51.6 bits (124), Expect = 3e-08
Identities = 22/66 (33%), Positives = 32/66 (48%), Gaps = 2/66 (3%)
Query: 490 PSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEP--DSHI 547
PDY+++I+KP+D+ + KL +Y +E AD F NA +YN P D H
Sbjct: 27 VVALGLPDYFDIIKKPMDLGTVKKKLEKGEYSSPEEFAADVRLTFANAMRYNPPGNDVHT 86
Query: 548 YKDALS 553
L
Sbjct: 87 MAKELL 92
Score = 38.9 bits (91), Expect = 8e-04
Identities = 17/60 (28%), Positives = 33/60 (55%)
Query: 174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHS 233
++ P+D +++KL+ EY +F AD+ L NA + + H A+EL+++F +
Sbjct: 38 IIKKPMDLGTVKKKLEKGEYSSPEEFAADVRLTFANAMRYNPPGNDVHTMAKELLKIFET 97
Score = 35.8 bits (83), Expect = 0.009
Identities = 12/43 (27%), Positives = 22/43 (51%)
Query: 130 PKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIEL 172
P Y +++ P+D +++KL+ EY +F AD+ L
Sbjct: 27 VVALGLPDYFDIIKKPMDLGTVKKKLEKGEYSSPEEFAADVRL 69
>gnl|CDD|99927 cd05495, Bromo_cbp_like, Bromodomain, cbp_like subfamily. Cbp (CREB
binding protein or CREBBP) is an acetyltransferase
acting on histone, which gives a specific tag for
transcriptional activation and also acetylates
non-histone proteins. CREBBP binds specifically to
phosphorylated CREB protein and augments the activity of
phosphorylated CREB to activate transcription of
cAMP-responsive genes. Bromodomains are 110 amino acid
long domains, that are found in many chromatin
associated proteins. Bromodomains can interact
specifically with acetylated lysine.
Length = 108
Score = 55.9 bits (135), Expect = 1e-09
Identities = 24/65 (36%), Positives = 35/65 (53%)
Query: 496 PDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQ 555
PDY+++++ P+D+ I KL QY+ + V D MFDNA YN S +YK L
Sbjct: 37 PDYFDIVKNPMDLSTIRRKLDTGQYQDPWQYVDDVWLMFDNAWLYNRKTSRVYKYCTKLA 96
Query: 556 RIVLQ 560
+ Q
Sbjct: 97 EVFEQ 101
Score = 50.1 bits (120), Expect = 1e-07
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: 37 PDYFDIVKNPMDLSTIRRKLDTGQYQDPWQYVDDVWLMFDNAWLYNRKTSRVYKYCTKLA 96
Query: 370 KLVQ 373
++ +
Sbjct: 97 EVFE 100
Score = 37.8 bits (88), Expect = 0.002
Identities = 18/60 (30%), Positives = 34/60 (56%)
Query: 174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHS 233
+V NP+D I++KL T +Y D + D+ L+ NA + ++ S+ ++ +L E+F
Sbjct: 42 IVKNPMDLSTIRRKLDTGQYQDPWQYVDDVWLMFDNAWLYNRKTSRVYKYCTKLAEVFEQ 101
Score = 36.3 bits (84), Expect = 0.007
Identities = 16/44 (36%), Positives = 25/44 (56%)
Query: 130 PKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELL 173
PK P Y ++V NP+D I++KL T +Y D + D+ L+
Sbjct: 31 PKLLGIPDYFDIVKNPMDLSTIRRKLDTGQYQDPWQYVDDVWLM 74
>gnl|CDD|99943 cd05511, Bromo_TFIID, Bromodomain, TFIID-like subfamily. Human
TAFII250 (or TAF250) is the largest subunit of TFIID, a
large multi-domain complex, which initiates the assembly
of the transcription machinery. TAFII250 contains two
bromodomains that specifically bind to acetylated
histone H4. Bromodomains are 110 amino acid long
domains, that are found in many chromatin associated
proteins. Bromodomains can interact specifically with
acetylated lysine.
Length = 112
Score = 55.3 bits (134), Expect = 2e-09
Identities = 24/75 (32%), Positives = 44/75 (58%), Gaps = 3/75 (4%)
Query: 496 PDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQ 555
PDYY++I++P+D++ I K+ ++Y+ +E + D + DN+ YN PDS K A +
Sbjct: 31 PDYYKIIKRPMDLQTIRKKISKHKYQSREEFLEDIELIVDNSVLYNGPDSVYTKKA---K 87
Query: 556 RIVLQTKMHLREDED 570
++ + L E E+
Sbjct: 88 EMLELAEELLAEREE 102
Score = 53.8 bits (130), Expect = 6e-09
Identities = 27/76 (35%), Positives = 44/76 (57%)
Query: 306 KKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDA 365
KK+ P+YY +I P+DL+TI ++I KY S + +D+ L+ N+ +N P S K A
Sbjct: 27 KKKVPDYYKIIKRPMDLQTIRKKISKHKYQSREEFLEDIELIVDNSVLYNGPDSVYTKKA 86
Query: 366 KALKKLVQTKKMEIEQ 381
K + +L + E E+
Sbjct: 87 KEMLELAEELLAEREE 102
Score = 44.2 bits (105), Expect = 2e-05
Identities = 16/52 (30%), Positives = 29/52 (55%)
Query: 123 CDPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLV 174
PF K++ P Y++++ P+D I++K+ +Y +F DIEL+V
Sbjct: 18 SWPFHTPVNKKKVPDYYKIIKRPMDLQTIRKKISKHKYQSREEFLEDIELIV 69
Score = 40.7 bits (96), Expect = 3e-04
Identities = 17/57 (29%), Positives = 33/57 (57%)
Query: 174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMEL 230
++ P+D I++K+ +Y +F DIEL+V N+ + +S + A+E++EL
Sbjct: 36 IIKRPMDLQTIRKKISKHKYQSREEFLEDIELIVDNSVLYNGPDSVYTKKAKEMLEL 92
>gnl|CDD|99958 cd05529, Bromo_WDR9_I_like, Bromodomain; WDR9 repeat I_like
subfamily. WDR9 is a human gene located in the Down
Syndrome critical region-2 of chromosome 21. It encodes
for a nuclear protein containing WD40 repeats and two
bromodomains, which may function as a transcriptional
regulator involved in chromatin remodeling and play a
role in embryonic development. Bromodomains are 110
amino acid long domains, that are found in many
chromatin associated proteins. Bromodomains can interact
specifically with acetylated lysine.
Length = 128
Score = 55.4 bits (134), Expect = 3e-09
Identities = 35/108 (32%), Positives = 54/108 (50%), Gaps = 3/108 (2%)
Query: 263 DSRDSSICTEDEQNQCEDLFNAVMTSTDADSRPLHEVF-QLLPSKKRYPEYYDVIDVPID 321
D DE+ E L + + + + E F + + YP+Y++ + VP+D
Sbjct: 13 DPGWEQPHIRDEE--RERLISGLDKLLLSLQLEIAEYFEYPVDLRAWYPDYWNRVPVPMD 70
Query: 322 LRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALK 369
L TI R+++ Y SL + D+ L+ NA TFNEP S+I K AK L
Sbjct: 71 LETIRSRLENRYYRSLEALRHDVRLILSNAETFNEPNSEIAKKAKRLS 118
Score = 45.8 bits (109), Expect = 5e-06
Identities = 24/68 (35%), Positives = 36/68 (52%)
Query: 495 YPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSL 554
YPDY+ + P+D+E I S+L Y L+ + D + NA +NEP+S I K A L
Sbjct: 58 YPDYWNRVPVPMDLETIRSRLENRYYRSLEALRHDVRLILSNAETFNEPNSEIAKKAKRL 117
Query: 555 QRIVLQTK 562
+L+
Sbjct: 118 SDWLLRIL 125
Score = 42.3 bits (100), Expect = 8e-05
Identities = 18/65 (27%), Positives = 33/65 (50%)
Query: 174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHS 233
V P+D I+ +L+ Y L + D+ L++ NA+TF + NS+ + A+ L +
Sbjct: 64 RVPVPMDLETIRSRLENRYYRSLEALRHDVRLILSNAETFNEPNSEIAKKAKRLSDWLLR 123
Query: 234 TRNKL 238
+ L
Sbjct: 124 ILSSL 128
Score = 31.5 bits (72), Expect = 0.45
Identities = 11/45 (24%), Positives = 20/45 (44%)
Query: 129 IPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELL 173
+ + P Y V P+D I+ +L+ Y L + D+ L+
Sbjct: 52 VDLRAWYPDYWNRVPVPMDLETIRSRLENRYYRSLEALRHDVRLI 96
>gnl|CDD|99935 cd05503, Bromo_BAZ2A_B_like, Bromodomain, BAZ2A/BAZ2B_like
subfamily. Bromo adjacent to zinc finger 2A (BAZ2A) and
2B (BAZ2B) were identified as a novel human bromodomain
gene by cDNA library screening. BAZ2A is also known as
Tip5 (Transcription termination factor I-interacting
protein 5) and hWALp3. The proteins may play roles in
transcriptional regulation. Human Tip5 is part of a
complex termed NoRC (nucleolar remodeling complex),
which induces nucleosome sliding and may play a role in
the regulation of the rDNA locus. Bromodomains are 110
amino acid long domains, that are found in many
chromatin associated proteins. Bromodomains can interact
specifically with acetylated lysine.
Length = 97
Score = 53.5 bits (129), Expect = 6e-09
Identities = 21/61 (34%), Positives = 35/61 (57%)
Query: 496 PDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQ 555
P Y ++I+KP+D I KL QY+ L+E D +FDN +NE DS + + +++
Sbjct: 31 PGYRKIIKKPMDFSTIREKLESGQYKTLEEFAEDVRLVFDNCETFNEDDSEVGRAGHNMR 90
Query: 556 R 556
+
Sbjct: 91 K 91
Score = 50.1 bits (120), Expect = 8e-08
Identities = 21/76 (27%), Positives = 40/76 (52%)
Query: 300 FQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGS 359
F + K P Y +I P+D TI +++ G+Y +L + +D+ L+ N TFNE S
Sbjct: 21 FLEPVNTKLVPGYRKIIKKPMDFSTIREKLESGQYKTLEEFAEDVRLVFDNCETFNEDDS 80
Query: 360 QIYKDAKALKKLVQTK 375
++ + ++K + +
Sbjct: 81 EVGRAGHNMRKFFEKR 96
Score = 38.9 bits (91), Expect = 7e-04
Identities = 15/49 (30%), Positives = 29/49 (59%)
Query: 125 PFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELL 173
PF+ + P Y +++ P+DF I++KL++ +Y L +F D+ L+
Sbjct: 20 PFLEPVNTKLVPGYRKIIKKPMDFSTIREKLESGQYKTLEEFAEDVRLV 68
Score = 37.4 bits (87), Expect = 0.002
Identities = 15/45 (33%), Positives = 29/45 (64%)
Query: 174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNS 218
++ P+DF I++KL++ +Y L +F D+ L+ N +TF + +S
Sbjct: 36 IIKKPMDFSTIREKLESGQYKTLEEFAEDVRLVFDNCETFNEDDS 80
>gnl|CDD|99944 cd05512, Bromo_brd1_like, Bromodomain; brd1_like subfamily. BRD1 is
a mammalian gene which encodes for a nuclear protein
assumed to be a transcriptional regulator. BRD1 has been
implicated with brain development and susceptibility to
schizophrenia and bipolar affective disorder.
Bromodomains are 110 amino acid long domains that are
found in many chromatin associated proteins.
Bromodomains can interact specifically with acetylated
lysine.
Length = 98
Score = 52.0 bits (125), Expect = 2e-08
Identities = 22/72 (30%), Positives = 37/72 (51%)
Query: 484 HIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEP 543
IF + PDY + I++P+D + KL +Y L++ ADF + +N YN
Sbjct: 20 EIFSEPVDLSEVPDYLDHIKQPMDFSTMRKKLESQRYRTLEDFEADFNLIINNCLAYNAK 79
Query: 544 DSHIYKDALSLQ 555
D+ Y+ A+ L+
Sbjct: 80 DTIFYRAAVRLR 91
Score = 46.2 bits (110), Expect = 2e-06
Identities = 18/63 (28%), Positives = 32/63 (50%)
Query: 307 KRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAK 366
P+Y D I P+D T+ ++++ +Y +L D E D L+ N +N + Y+ A
Sbjct: 29 SEVPDYLDHIKQPMDFSTMRKKLESQRYRTLEDFEADFNLIINNCLAYNAKDTIFYRAAV 88
Query: 367 ALK 369
L+
Sbjct: 89 RLR 91
Score = 40.1 bits (94), Expect = 3e-04
Identities = 14/39 (35%), Positives = 25/39 (64%)
Query: 136 PSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLV 174
P Y + + P+DF +++KL++ Y L DF+AD L++
Sbjct: 32 PDYLDHIKQPMDFSTMRKKLESQRYRTLEDFEADFNLII 70
Score = 38.9 bits (91), Expect = 7e-04
Identities = 16/57 (28%), Positives = 32/57 (56%)
Query: 174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMEL 230
+ P+DF +++KL++ Y L DF+AD L++ N + +++ +R A L +
Sbjct: 37 HIKQPMDFSTMRKKLESQRYRTLEDFEADFNLIINNCLAYNAKDTIFYRAAVRLRDQ 93
>gnl|CDD|99928 cd05496, Bromo_WDR9_II, Bromodomain; WDR9 repeat II_like subfamily.
WDR9 is a human gene located in the Down Syndrome
critical region-2 of chromosome 21. It encodes for a
nuclear protein containing WD40 repeats and two
bromodomains, which may function as a transcriptional
regulator involved in chromatin remodeling and play a
role in embryonic development. Bromodomains are 110
amino acid long domains, that are found in many
chromatin associated proteins. Bromodomains can interact
specifically with acetylated lysine.
Length = 119
Score = 52.1 bits (125), Expect = 3e-08
Identities = 28/87 (32%), Positives = 45/87 (51%), Gaps = 7/87 (8%)
Query: 277 QCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYAS 336
QC++L N + D S P + LL +YP+Y D+ID P+DL T+ + G Y
Sbjct: 9 QCKELVNLMWDCED--SEPFRQPVDLL----KYPDYRDIIDTPMDLGTVKETLFGGNYDD 62
Query: 337 LGDMEKDLILMTKNACTFN-EPGSQIY 362
+ KD+ L+ N+ ++ S+IY
Sbjct: 63 PMEFAKDVRLIFSNSKSYTPNKRSRIY 89
Score = 36.7 bits (85), Expect = 0.007
Identities = 19/62 (30%), Positives = 27/62 (43%), Gaps = 1/62 (1%)
Query: 494 DYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYN-EPDSHIYKDAL 552
YPDY ++I P+D+ + L Y+ E D +F N+ Y S IY L
Sbjct: 34 KYPDYRDIIDTPMDLGTVKETLFGGNYDDPMEFAKDVRLIFSNSKSYTPNKRSRIYSMTL 93
Query: 553 SL 554
L
Sbjct: 94 RL 95
Score = 35.1 bits (81), Expect = 0.024
Identities = 13/49 (26%), Positives = 25/49 (51%)
Query: 125 PFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELL 173
PF + + P Y +++ P+D +++ L YDD +F D+ L+
Sbjct: 25 PFRQPVDLLKYPDYRDIIDTPMDLGTVKETLFGGNYDDPMEFAKDVRLI 73
Score = 34.4 bits (79), Expect = 0.040
Identities = 15/62 (24%), Positives = 30/62 (48%), Gaps = 8/62 (12%)
Query: 152 QQKLKTDEYDDLSDFQADIELLVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAK 211
+Q + +Y D D ++ P+D +++ L YDD +F D+ L+ N+K
Sbjct: 27 RQPVDLLKYPDYRD--------IIDTPMDLGTVKETLFGGNYDDPMEFAKDVRLIFSNSK 78
Query: 212 TF 213
++
Sbjct: 79 SY 80
>gnl|CDD|99942 cd05510, Bromo_SPT7_like, Bromodomain; SPT7_like subfamily. SPT7 is
a yeast protein that functions as a component of the
transcription regulatory histone acetylation (HAT)
complexes SAGA, SALSA, and SLIK. SAGA is involved in the
RNA polymerase II-dependent transcriptional regulation
of about 10% of all yeast genes. The SPT7 bromodomain
has been shown to weakly interact with acetylated
histone H3, but not H4. The human representative of this
subfamily is cat eye syndrome critical region protein 2
(CECR2). Bromodomains are 110 amino acid long domains,
that are found in many chromatin associated proteins.
Bromodomains can interact specifically with acetylated
lysine.
Length = 112
Score = 51.7 bits (124), Expect = 3e-08
Identities = 26/75 (34%), Positives = 40/75 (53%)
Query: 475 EPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMF 534
E KT + S F S+ + PDYY++I+KP+D+ + KL+ QY+ E V D ++
Sbjct: 18 ELKTYTEHSTPFLTKVSKREAPDYYDIIKKPMDLGTMLKKLKNLQYKSKAEFVDDLNLIW 77
Query: 535 DNACKYNEPDSHIYK 549
N YN SH +
Sbjct: 78 KNCLLYNSDPSHPLR 92
Score = 46.3 bits (110), Expect = 2e-06
Identities = 29/95 (30%), Positives = 49/95 (51%), Gaps = 6/95 (6%)
Query: 277 QCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYAS 336
+ + N + T T+ S P F SK+ P+YYD+I P+DL T+ +++++ +Y S
Sbjct: 11 SLDKVLNELKTYTE-HSTP----FLTKVSKREAPDYYDIIKKPMDLGTMLKKLKNLQYKS 65
Query: 337 LGDMEKDLILMTKNACTFNEPGSQIYKD-AKALKK 370
+ DL L+ KN +N S + A +KK
Sbjct: 66 KAEFVDDLNLIWKNCLLYNSDPSHPLRRHANFMKK 100
Score = 43.2 bits (102), Expect = 3e-05
Identities = 15/49 (30%), Positives = 29/49 (59%)
Query: 125 PFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELL 173
PF+ KR+ P Y++++ P+D + +KLK +Y ++F D+ L+
Sbjct: 28 PFLTKVSKREAPDYYDIIKKPMDLGTMLKKLKNLQYKSKAEFVDDLNLI 76
Score = 33.6 bits (77), Expect = 0.070
Identities = 13/47 (27%), Positives = 23/47 (48%), Gaps = 3/47 (6%)
Query: 174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQE 220
++ P+D + +KLK +Y ++F D+ L+ KN NS
Sbjct: 44 IIKKPMDLGTMLKKLKNLQYKSKAEFVDDLNLIWKNC---LLYNSDP 87
>gnl|CDD|99937 cd05505, Bromo_WSTF_like, Bromodomain; Williams syndrome
transcription factor-like subfamily (WSTF-like). The
Williams-Beuren syndrome deletion transcript 9 is a
putative transcriptional regulator. WSTF was found to
play a role in vitamin D-mediated transcription as part
of two chromatin remodeling complexes, WINAC and WICH.
Bromodomains are 110 amino acid long domains, that are
found in many chromatin associated proteins.
Bromodomains can interact specifically with acetylated
lysine.
Length = 97
Score = 49.8 bits (119), Expect = 1e-07
Identities = 18/62 (29%), Positives = 32/62 (51%)
Query: 486 FQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDS 545
F+ + + DY +VI P+D++ + +K Y + E + D +F NA KY E S
Sbjct: 21 FREPVTADEAEDYKKVITNPMDLQTMQTKCSCGSYSSVQEFLDDMKLVFSNAEKYYENGS 80
Query: 546 HI 547
++
Sbjct: 81 YV 82
Score = 43.3 bits (102), Expect = 2e-05
Identities = 23/88 (26%), Positives = 42/88 (47%), Gaps = 6/88 (6%)
Query: 274 EQNQCEDLFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGK 333
E +CE++ + ++ S P E + +Y VI P+DL+T+ + G
Sbjct: 1 ELQKCEEILSKILKYRF--SWPFREP----VTADEAEDYKKVITNPMDLQTMQTKCSCGS 54
Query: 334 YASLGDMEKDLILMTKNACTFNEPGSQI 361
Y+S+ + D+ L+ NA + E GS +
Sbjct: 55 YSSVQEFLDDMKLVFSNAEKYYENGSYV 82
Score = 38.3 bits (89), Expect = 0.001
Identities = 16/73 (21%), Positives = 29/73 (39%), Gaps = 4/73 (5%)
Query: 125 PFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLV----VTNPID 180
PF + Y +V+TNP+D +Q K Y + +F D++L+
Sbjct: 20 PFREPVTADEAEDYKKVITNPMDLQTMQTKCSCGSYSSVQEFLDDMKLVFSNAEKYYENG 79
Query: 181 FIKIQQKLKTDEY 193
+ KT++
Sbjct: 80 SYVLSCMRKTEQC 92
Score = 37.5 bits (87), Expect = 0.002
Identities = 15/45 (33%), Positives = 26/45 (57%)
Query: 174 VVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNS 218
V+TNP+D +Q K Y + +F D++L+ NA+ +Y+ S
Sbjct: 36 VITNPMDLQTMQTKCSCGSYSSVQEFLDDMKLVFSNAEKYYENGS 80
>gnl|CDD|99957 cd05528, Bromo_AAA, Bromodomain; sub-family co-occurring with AAA
domains. Bromodomains are 110 amino acid long domains,
that are found in many chromatin associated proteins.
Bromodomains can interact specifically with acetylated
lysine. The structure(2DKW) in this alignment is an
uncharacterized protein predicted from analysis of cDNA
clones from human fetal liver.
Length = 112
Score = 46.6 bits (111), Expect = 2e-06
Identities = 18/48 (37%), Positives = 30/48 (62%)
Query: 494 DYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYN 541
+ PDYYE+I++P+D++ I KL +QY + + D + NA +YN
Sbjct: 32 EVPDYYEIIKQPMDLQTILQKLDTHQYLTAKDFLKDIDLIVTNALEYN 79
Score = 45.0 bits (107), Expect = 8e-06
Identities = 21/70 (30%), Positives = 35/70 (50%), Gaps = 4/70 (5%)
Query: 310 PEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFN----EPGSQIYKDA 365
P+YY++I P+DL+TI +++ +Y + D KD+ L+ NA +N I A
Sbjct: 34 PDYYEIIKQPMDLQTILQKLDTHQYLTAKDFLKDIDLIVTNALEYNPDRDPADKLIRSRA 93
Query: 366 KALKKLVQTK 375
L+ V
Sbjct: 94 CELRDEVHAM 103
Score = 39.6 bits (93), Expect = 6e-04
Identities = 16/43 (37%), Positives = 23/43 (53%)
Query: 172 LLVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFY 214
++ P+D I QKL T +Y DF DI+L+V NA +
Sbjct: 37 YEIIKQPMDLQTILQKLDTHQYLTAKDFLKDIDLIVTNALEYN 79
Score = 38.9 bits (91), Expect = 0.001
Identities = 19/44 (43%), Positives = 27/44 (61%), Gaps = 1/44 (2%)
Query: 134 QEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVTN 177
+ P Y+E++ P+D I QKL T +Y DF DI+ L+VTN
Sbjct: 32 EVPDYYEIIKQPMDLQTILQKLDTHQYLTAKDFLKDID-LIVTN 74
>gnl|CDD|99939 cd05507, Bromo_brd8_like, Bromodomain, brd8_like subgroup. In
mammals, brd8 (bromodomain containing 8) interacts with
the thyroid hormone receptor in a ligand-dependent
fashion and enhances thyroid hormone-dependent
activation from thyroid response elements. Brd8 is
thought to be a nuclear receptor coactivator.
Bromodomains are 110 amino acid long domains, that are
found in many chromatin associated proteins.
Bromodomains can interact specifically with acetylated
lysine.
Length = 104
Score = 45.4 bits (108), Expect = 4e-06
Identities = 22/72 (30%), Positives = 38/72 (52%), Gaps = 4/72 (5%)
Query: 310 PEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALK 369
P Y+ V+ P+DL TI + I++G S + ++D++LM +NA +N +Y A
Sbjct: 34 PGYHSVVYRPMDLSTIKKNIENGTIRSTAEFQRDVLLMFQNAIMYNSSDHDVYLMA---- 89
Query: 370 KLVQTKKMEIEQ 381
+Q + M Q
Sbjct: 90 VEMQREVMSQIQ 101
Score = 40.0 bits (94), Expect = 3e-04
Identities = 21/76 (27%), Positives = 34/76 (44%), Gaps = 2/76 (2%)
Query: 486 FQR-LPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPD 544
F + + P Y+ V+ +P+D+ I + E D + MF NA YN D
Sbjct: 24 FLKPVTEDIA-PGYHSVVYRPMDLSTIKKNIENGTIRSTAEFQRDVLLMFQNAIMYNSSD 82
Query: 545 SHIYKDALSLQRIVLQ 560
+Y A+ +QR V+
Sbjct: 83 HDVYLMAVEMQREVMS 98
Score = 33.9 bits (78), Expect = 0.054
Identities = 14/67 (20%), Positives = 31/67 (46%)
Query: 163 LSDFQADIELLVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHR 222
+++ A VV P+D I++ ++ ++FQ D+ L+ +NA + + +
Sbjct: 28 VTEDIAPGYHSVVYRPMDLSTIKKNIENGTIRSTAEFQRDVLLMFQNAIMYNSSDHDVYL 87
Query: 223 DAQELME 229
A E+
Sbjct: 88 MAVEMQR 94
Score = 33.5 bits (77), Expect = 0.069
Identities = 16/55 (29%), Positives = 28/55 (50%), Gaps = 1/55 (1%)
Query: 125 PFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVVTNPI 179
F++ + P YH VV P+D I++ ++ ++FQ D+ LL+ N I
Sbjct: 23 VFLKPVTEDIAPGYHSVVYRPMDLSTIKKNIENGTIRSTAEFQRDV-LLMFQNAI 76
>gnl|CDD|99924 cd05492, Bromo_ZMYND11, Bromodomain; ZMYND11_like sub-family.
ZMYND11 or BS69 is a ubiquitously expressed nuclear
protein that has been shown to associate with chromatin.
It interacts with chromatin remodeling factors and might
play a role in chromatin remodeling and gene expression.
Bromodomains are 110 amino acid long domains, that are
found in many chromatin associated proteins.
Bromodomains can interact specifically with acetylated
lysine.
Length = 109
Score = 39.7 bits (93), Expect = 6e-04
Identities = 16/57 (28%), Positives = 33/57 (57%)
Query: 172 LLVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELM 228
++ +D IQ+K+ +++Y L +F+AD LL+ N F+ +S+++ A+ L
Sbjct: 40 RRLIHTHLDVADIQEKINSEKYTSLEEFKADALLLLHNTAIFHGADSEQYDAARWLY 96
Score = 33.5 bits (77), Expect = 0.072
Identities = 13/47 (27%), Positives = 26/47 (55%)
Query: 128 RIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLV 174
+ K + P ++ +D IQ+K+ +++Y L +F+AD LL+
Sbjct: 29 KRGKATKLPKRRRLIHTHLDVADIQEKINSEKYTSLEEFKADALLLL 75
Score = 30.0 bits (68), Expect = 1.3
Identities = 15/52 (28%), Positives = 26/52 (50%)
Query: 319 PIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKALKK 370
+D+ I +I KY SL + + D +L+ N F+ S+ Y A+ L +
Sbjct: 46 HLDVADIQEKINSEKYTSLEEFKADALLLLHNTAIFHGADSEQYDAARWLYR 97
>gnl|CDD|99956 cd05526, Bromo_polybromo_VI, Bromodomain, polybromo repeat VI.
Polybromo is a nuclear protein of unknown function,
which contains 6 bromodomains. The human ortholog BAF180
is part of a SWI/SNF chromatin-remodeling complex, and
it may carry out the functions of Yeast Rsc-1 and Rsc-2.
It was shown that polybromo bromodomains bind to histone
H3 at specific acetyl-lysine positions. Bromodomains are
found in many chromatin-associated proteins and in
nuclear histone acetyltransferases. They interact
specifically with acetylated lysine, but not all the
bromodomains in polybromo may bind to acetyl-lysine.
Length = 110
Score = 35.4 bits (82), Expect = 0.015
Identities = 15/60 (25%), Positives = 34/60 (56%)
Query: 503 RKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPDSHIYKDALSLQRIVLQTK 562
+ P+ +++I + +Y LD+ D ++ + A + + DS IY+DA+ LQ+ ++ +
Sbjct: 45 KIPLTLDIIKRNVDKGRYRRLDKFQEDMFEVLERARRLSRTDSEIYEDAVELQQFFIKIR 104
Score = 34.7 bits (80), Expect = 0.032
Identities = 23/90 (25%), Positives = 40/90 (44%), Gaps = 2/90 (2%)
Query: 281 LFNAVMTSTDADSRPLHEVFQLLPSKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDM 340
LF +VM D + R + LP +P+ L I R + G+Y L
Sbjct: 11 LFVSVMNHQDEEGRCYSDSLAELPELAVDGV--GPKKIPLTLDIIKRNVDKGRYRRLDKF 68
Query: 341 EKDLILMTKNACTFNEPGSQIYKDAKALKK 370
++D+ + + A + S+IY+DA L++
Sbjct: 69 QEDMFEVLERARRLSRTDSEIYEDAVELQQ 98
Score = 34.3 bits (79), Expect = 0.042
Identities = 20/50 (40%), Positives = 23/50 (46%), Gaps = 7/50 (14%)
Query: 576 PAAVQELLTSLFTSVYNHQKQ---C----LGSFHVLNVDNKPLKRRLYTL 618
VQELL +LF SV NHQ + C L L VD K+ TL
Sbjct: 1 QLLVQELLATLFVSVMNHQDEEGRCYSDSLAELPELAVDGVGPKKIPLTL 50
Score = 27.3 bits (61), Expect = 9.1
Identities = 16/61 (26%), Positives = 32/61 (52%)
Query: 178 PIDFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQELMELFHSTRNK 237
P+ I++ + Y L FQ D+ +++ A+ + +S+ + DA EL + F R++
Sbjct: 47 PLTLDIIKRNVDKGRYRRLDKFQEDMFEVLERARRLSRTDSEIYEDAVELQQFFIKIRDE 106
Query: 238 L 238
L
Sbjct: 107 L 107
>gnl|CDD|99940 cd05508, Bromo_RACK7, Bromodomain, RACK7_like subfamily. RACK7
(also called human protein kinase C-binding protein) was
identified as a potential tumor suppressor genes, it
shares domain architecture with BS69/ZMYND11; both have
been implicated in the regulation of cellular
proliferation. Bromodomains are 110 amino acid long
domains, that are found in many chromatin associated
proteins. Bromodomains can interact specifically with
acetylated lysine.
Length = 99
Score = 34.3 bits (79), Expect = 0.031
Identities = 16/67 (23%), Positives = 33/67 (49%)
Query: 305 SKKRYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKD 364
+++P+Y + P+DL T+ + ++ Y S D + NA +N ++ +
Sbjct: 28 DLEQFPDYAQYVFKPMDLSTLEKNVRKKAYGSTDAFLADAKWILHNAIIYNGGDHKLTQA 87
Query: 365 AKALKKL 371
AKA+ K+
Sbjct: 88 AKAIVKI 94
Score = 32.4 bits (74), Expect = 0.16
Identities = 17/63 (26%), Positives = 28/63 (44%)
Query: 483 SHIFQRLPSRHDYPDYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNE 542
+ F + +PDY + + KP+D+ + +R Y D +AD + NA YN
Sbjct: 20 AEPFLKPVDLEQFPDYAQYVFKPMDLSTLEKNVRKKAYGSTDAFLADAKWILHNAIIYNG 79
Query: 543 PDS 545
D
Sbjct: 80 GDH 82
Score = 29.7 bits (67), Expect = 1.5
Identities = 12/46 (26%), Positives = 22/46 (47%)
Query: 124 DPFIRIPKKRQEPSYHEVVTNPIDFIKIQQKLKTDEYDDLSDFQAD 169
+PF++ Q P Y + V P+D +++ ++ Y F AD
Sbjct: 21 EPFLKPVDLEQFPDYAQYVFKPMDLSTLEKNVRKKAYGSTDAFLAD 66
Score = 27.7 bits (62), Expect = 5.4
Identities = 11/81 (13%), Positives = 36/81 (44%), Gaps = 8/81 (9%)
Query: 150 KIQQKLKTDEYDDLSDFQADIELLVVTNPIDFIKIQQKLKTDEYDDLSDFQADIELLVKN 209
+ + +++ D + + V P+D +++ ++ Y F AD + ++ N
Sbjct: 22 PFLKPVDLEQFPDYAQY--------VFKPMDLSTLEKNVRKKAYGSTDAFLADAKWILHN 73
Query: 210 AKTFYKRNSQEHRDAQELMEL 230
A + + + + A+ ++++
Sbjct: 74 AIIYNGGDHKLTQAAKAIVKI 94
>gnl|CDD|99933 cd05501, Bromo_SP100C_like, Bromodomain, SP100C_like subfamily. The
SP100C protein is a splice variant of SP100, a major
component of PML-SP100 nuclear bodies (NBs), which are
poorly understood. It is covalently modified by SUMO-1
and may play a role in processes at the chromatin level.
Bromodomains are 110 amino acid long domains, that are
found in many chromatin associated proteins.
Bromodomains can interact specifically with acetylated
lysine.
Length = 102
Score = 31.6 bits (72), Expect = 0.27
Identities = 11/35 (31%), Positives = 19/35 (54%)
Query: 183 KIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRN 217
K++++L Y + F D+ L+ N K FYK +
Sbjct: 45 KVKERLNERVYHTVEGFVRDMRLIFHNHKLFYKDD 79
Score = 30.1 bits (68), Expect = 1.1
Identities = 11/48 (22%), Positives = 23/48 (47%)
Query: 497 DYYEVIRKPVDMEMIASKLRYNQYEHLDEMVADFIQMFDNACKYNEPD 544
DY + I++P+ + + +L Y ++ V D +F N + + D
Sbjct: 32 DYCQGIKEPMWLNKVKERLNERVYHTVEGFVRDMRLIFHNHKLFYKDD 79
>gnl|CDD|133887 PHA00438, PHA00438, hypothetical protein.
Length = 81
Score = 28.6 bits (64), Expect = 2.6
Identities = 12/28 (42%), Positives = 16/28 (57%)
Query: 564 HLREDEDSVPDVPAAVQELLTSLFTSVY 591
HL E+ + +PDVP A E L F + Y
Sbjct: 7 HLLENPNDIPDVPRAAAEYLQVRFNASY 34
>gnl|CDD|215597 PLN03137, PLN03137, ATP-dependent DNA helicase; Q4-like; Provisional.
Length = 1195
Score = 30.6 bits (69), Expect = 3.6
Identities = 17/68 (25%), Positives = 32/68 (47%), Gaps = 4/68 (5%)
Query: 61 GKRRRASSLTRSVDDDDDSSSHTSETPTMQTRPKRKKIDPSDAMQ----QIYDVIRNFKK 116
GKRRR ++ +V +DDD + TS++ + K K ++ ++ + D +FK
Sbjct: 1121 GKRRRDENINPNVAEDDDFTKSTSQSKKKTVKNKNKGVEHGNSRETDRRNQCDDDLDFKD 1180
Query: 117 EDGALLCD 124
D +
Sbjct: 1181 SDHDEERN 1188
>gnl|CDD|117912 pfam09370, TIM-br_sig_trns, TIM-barrel signal transduction protein.
This domain is likely to have a TIM barrel fold related
to IGPS. Although this family of proteins are
functionally uncharacterized this domain is found as an
N-terminal domain of sigma 54 -dependent transcriptional
activators (enhancer-binding proteins) suggesting a
potential role in signal recognition/receiving and
signal transduction.
Length = 268
Score = 29.2 bits (66), Expect = 6.2
Identities = 17/52 (32%), Positives = 20/52 (38%), Gaps = 8/52 (15%)
Query: 1 LGLATAGLVTEEEEAEGPAPLELAVPGVDRLDIICIMVELTYSGVMAGDCAT 52
GL T V EEA +A G DII + LT G + D A
Sbjct: 149 KGLLTTPYVFNVEEAR-----AMAEAGA---DIIVAHMGLTTGGTIGADTAL 192
>gnl|CDD|99923 cd05491, Bromo_TBP7_like, Bromodomain; TBP7_like subfamily, limited
to fungi. TBP7, or TAT-binding protein homolog 7, is a
yeast protein of unknown function that contains
AAA-superfamily ATP-ase domains and a bromodomain.
Bromodomains are found in many chromatin-associated
proteins and in nuclear histone acetyltransferases. They
interact specifically with acetylated lysine.
Length = 119
Score = 28.2 bits (63), Expect = 6.6
Identities = 15/48 (31%), Positives = 24/48 (50%), Gaps = 2/48 (4%)
Query: 180 DFIKIQQKLKTDEYDDLSDFQADIELLVKNAKTFYKRNSQEHRDAQEL 227
D I+++L Y DF DI+ +V++AKT R + A E+
Sbjct: 66 DLDTIEERLWNGYYATPKDFLKDIKRIVRDAKTIGDRERL-LK-ANEM 111
>gnl|CDD|240271 PTZ00108, PTZ00108, DNA topoisomerase 2-like protein; Provisional.
Length = 1388
Score = 29.6 bits (67), Expect = 6.8
Identities = 15/74 (20%), Positives = 28/74 (37%), Gaps = 5/74 (6%)
Query: 358 GSQIYKDAKALKKLVQTKKMEIEQGKFTPAGKSERIRSKRIRGGQSLSAITAALESEDDE 417
GS K + +K + + + +R R +S S +DD+
Sbjct: 1316 GSLAALKKKKKSEKKTARKKKSKTRVKQASASQSSRLLRRPRKKKSDS-----SSEDDDD 1370
Query: 418 SEDDEEIDQEDPNS 431
SE D+ D++D +
Sbjct: 1371 SEVDDSEDEDDEDD 1384
>gnl|CDD|178714 PLN03170, PLN03170, chalcone synthase; Provisional.
Length = 401
Score = 29.3 bits (65), Expect = 7.1
Identities = 19/70 (27%), Positives = 29/70 (41%), Gaps = 11/70 (15%)
Query: 494 DYPDYYEVIRKPVDMEMIASKLR--------YNQYEHLDEMVADFIQMFDNACKYNEPDS 545
DYPDYY I K M + K + +Y HL E +++ N C Y P
Sbjct: 39 DYPDYYFRITKSEHMTELKEKFKRMCDKSQIRKRYMHLTE---EYLAENPNMCAYMAPSL 95
Query: 546 HIYKDALSLQ 555
+D + ++
Sbjct: 96 DARQDIVVVE 105
>gnl|CDD|206591 pfam14425, Imm3, Immunity protein Imm3. A predicted Immunity
protein, with a mostly all-alpha fold, present in
bacterial polymorphic toxin systems as an immediate gene
neighbor of the toxin gene.
Length = 114
Score = 27.7 bits (62), Expect = 7.9
Identities = 6/21 (28%), Positives = 12/21 (57%)
Query: 144 NPIDFIKIQQKLKTDEYDDLS 164
+ +F + + +L +E DLS
Sbjct: 76 SMFNFQEAEGELTQEEIKDLS 96
Score = 27.7 bits (62), Expect = 7.9
Identities = 6/21 (28%), Positives = 12/21 (57%)
Query: 177 NPIDFIKIQQKLKTDEYDDLS 197
+ +F + + +L +E DLS
Sbjct: 76 SMFNFQEAEGELTQEEIKDLS 96
>gnl|CDD|215600 PLN03141, PLN03141, 3-epi-6-deoxocathasterone 23-monooxygenase;
Provisional.
Length = 452
Score = 29.3 bits (66), Expect = 8.0
Identities = 9/29 (31%), Positives = 19/29 (65%)
Query: 355 NEPGSQIYKDAKALKKLVQTKKMEIEQGK 383
PG+++Y+ +A K++V+ K IE+ +
Sbjct: 190 KLPGTRLYRSLQAKKRMVKLVKKIIEEKR 218
>gnl|CDD|217392 pfam03153, TFIIA, Transcription factor IIA, alpha/beta subunit.
Transcription initiation factor IIA (TFIIA) is a
heterotrimer, the three subunits being known as alpha,
beta, and gamma, in order of molecular weight. The N and
C-terminal domains of the gamma subunit are represented
in pfam02268 and pfam02751, respectively. This family
represents the precursor that yields both the alpha and
beta subunits. The TFIIA heterotrimer is an essential
general transcription initiation factor for the
expression of genes transcribed by RNA polymerase II.
Together with TFIID, TFIIA binds to the promoter region;
this is the first step in the formation of a
pre-initiation complex (PIC). Binding of the rest of the
transcription machinery follows this step. After
initiation, the PIC does not completely dissociate from
the promoter. Some components, including TFIIA, remain
attached and re-initiate a subsequent round of
transcription.
Length = 332
Score = 28.9 bits (65), Expect = 8.6
Identities = 10/71 (14%), Positives = 24/71 (33%), Gaps = 4/71 (5%)
Query: 364 DAKALKKLVQTKKMEIEQGKFTPAGKS-ERIRSKRIRGGQSLSAITAALESEDDESEDDE 422
+ ++ + E G K ++ R + +S+D+ D+
Sbjct: 202 RLREADGTLEQRIKGAEGGGAMKVLKQPKKQAKSSKRRTIAQIDGI---DSDDEGDGSDD 258
Query: 423 EIDQEDPNSPL 433
+ D++ S L
Sbjct: 259 DDDEDAIESDL 269
>gnl|CDD|145949 pfam03066, Nucleoplasmin, Nucleoplasmin. Nucleoplasmins are also
known as chromatin decondensation proteins. They bind to
core histones and transfer DNA to them in a reaction
that requires ATP. This is thought to play a role in the
assembly of regular nucleosomal arrays.
Length = 146
Score = 28.1 bits (63), Expect = 8.7
Identities = 14/28 (50%), Positives = 19/28 (67%), Gaps = 1/28 (3%)
Query: 401 GQSLSAITAALESEDDESEDDEEIDQED 428
GQ L A ES+DDE +++EE D+ED
Sbjct: 103 GQHLVASEED-ESDDDEEDEEEEDDEED 129
>gnl|CDD|234352 TIGR03779, Bac_Flav_CT_M, Bacteroides conjugative transposon TraM
protein. Members of this protein family are designated
TraM and are found in a proposed transfer region of a
class of conjugative transposon found in the Bacteroides
lineage [Cellular processes, DNA transformation].
Length = 410
Score = 28.9 bits (65), Expect = 9.0
Identities = 26/153 (16%), Positives = 52/153 (33%), Gaps = 31/153 (20%)
Query: 391 ERIRSKRIRGGQSLSAITAALESEDDESEDDEEIDQEDPNSPLWQVYDAIRNAKTQGVIF 450
E+ + + R Q L+ + E D ES+D D P A+T G
Sbjct: 68 EQKQKDKKRTLQDLAD---SFEKSDKESQDYSSSDSGFDEEPD-------EPAETAG--- 114
Query: 451 FFFGVTAASLQKMRILYNTIKETCEPKTGRQLSHIFQRLPSRHDYPDYYEVIRKPVDMEM 510
SL+ +R ++ R+L ++ + + + + + V+
Sbjct: 115 --------SLRPIRSSAAAYRDI-----NRELGSFYEYPKTDEE-----KELLREVEELE 156
Query: 511 IASKLRYNQYEHLDEMVADFIQMFDNACKYNEP 543
+ L+E +A + ++ A KY
Sbjct: 157 SRLATEPSPAPELEEQLALMEKSYELAAKYMPR 189
>gnl|CDD|223137 COG0059, IlvC, Ketol-acid reductoisomerase [Amino acid transport
and metabolism / Coenzyme metabolism].
Length = 338
Score = 28.7 bits (65), Expect = 9.4
Identities = 21/85 (24%), Positives = 36/85 (42%), Gaps = 24/85 (28%)
Query: 308 RYPEYYDVIDVPIDLRTIARRIQDGKYASLGDMEKDLILMTKNACTFNEPGSQIYKDAKA 367
R P D + +++ + + IQ G++A K+ IL N+ G +A
Sbjct: 263 RGPRIID-AETKEEMKKVLKDIQSGEFA------KEWIL-------ENQAG---RPKLEA 305
Query: 368 LKKLVQTKKMEIEQGKFTPAGKSER 392
L++ T + EIE+ GK R
Sbjct: 306 LREE--TAEHEIEK-----VGKELR 323
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.317 0.134 0.382
Gapped
Lambda K H
0.267 0.0745 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 33,509,054
Number of extensions: 3309451
Number of successful extensions: 4011
Number of sequences better than 10.0: 1
Number of HSP's gapped: 3969
Number of HSP's successfully gapped: 185
Length of query: 653
Length of database: 10,937,602
Length adjustment: 103
Effective length of query: 550
Effective length of database: 6,369,140
Effective search space: 3503027000
Effective search space used: 3503027000
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 62 (27.6 bits)