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= psy11251
(190 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2KWJ|A Chain A, Solution Structures Of The Double Phd Fingers Of Human
Transcriptional Protein Dpf3 Bound To A Histone Peptide
Containing Acetylation At Lysine 14
pdb|2KWK|A Chain A, Solution Structures Of The Double Phd Fingers Of Human
Transcriptional Protein Dpf3b Bound To A H3 Peptide Wild
Type
pdb|2KWN|A Chain A, Solution Structure Of The Double Phd (Plant Homeodomain)
Fingers Of Human Transcriptional Protein Dpf3b Bound To
A Histone H4 Peptide Containing Acetylation At Lysine 16
pdb|2KWO|A Chain A, Solution Structure Of The Double Phd (Plant Homeodomain)
Fingers Of Human Transcriptional Protein Dpf3b Bound To
A Histone H4 Peptide Containing N-Terminal Acetylation
At Serine 1
Length = 114
Score = 162 bits (410), Expect = 1e-40, Method: Compositional matrix adjust.
Identities = 73/98 (74%), Positives = 83/98 (84%)
Query: 8 EKSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECKCCSVCGTSDNDDQLL 67
+KSG+PE+LVSC+DCGRSGHPTCLQFT NM +VK Y+WQCIECK C +CGTS+NDDQLL
Sbjct: 15 KKSGRPEELVSCADCGRSGHPTCLQFTLNMTEAVKTYKWQCIECKSCILCGTSENDDQLL 74
Query: 68 FCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKEFHRK 105
FCDDCDRGYHMYCL PP+ PPEGSWSC LC + K
Sbjct: 75 FCDDCDRGYHMYCLNPPVAEPPEGSWSCHLCWELLKEK 112
>pdb|3V43|A Chain A, Crystal Structure Of Moz
Length = 112
Score = 112 bits (280), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 50/94 (53%), Positives = 65/94 (69%), Gaps = 1/94 (1%)
Query: 6 QAEKSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECKCCSVC-GTSDNDD 64
+ + +PE+L+SC+DCG SGHP+CL+F+ + V VK RWQCIECK CS C N D
Sbjct: 16 EQNREKKPEELISCADCGNSGHPSCLKFSPELTVRVKALRWQCIECKTCSSCRDQGKNAD 75
Query: 65 QLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLC 98
+LFCD CDRG+HM C PP+ P+G W CQ+C
Sbjct: 76 NMLFCDSCDRGFHMECCDPPLTRMPKGMWICQIC 109
>pdb|2LN0|A Chain A, Structure Of Moz
Length = 110
Score = 112 bits (280), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 50/94 (53%), Positives = 65/94 (69%), Gaps = 1/94 (1%)
Query: 6 QAEKSGQPEDLVSCSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECKCCSVC-GTSDNDD 64
+ + +PE+L+SC+DCG SGHP+CL+F+ + V VK RWQCIECK CS C N D
Sbjct: 14 EQNREKKPEELISCADCGNSGHPSCLKFSPELTVRVKALRWQCIECKTCSSCRDQGKNAD 73
Query: 65 QLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLC 98
+LFCD CDRG+HM C PP+ P+G W CQ+C
Sbjct: 74 NMLFCDSCDRGFHMECCDPPLTRMPKGMWICQIC 107
>pdb|2YSM|A Chain A, Solution Structure Of The First And Second Phd Domain From
MyeloidLYMPHOID OR MIXED-Lineage Leukemia Protein 3
Homolog
Length = 111
Score = 67.4 bits (163), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 35/89 (39%), Positives = 48/89 (53%), Gaps = 6/89 (6%)
Query: 13 PEDLVS---CSDCGRSGHPTCLQFTNNMKVSVKQYRWQCIECKCCSVCGTSDNDDQLLFC 69
P DL+ C+ CG+ H CL +K+ WQC ECK C C S D ++L C
Sbjct: 16 PGDLLDQFFCTTCGQHYHGMCLDIA---VTPLKRAGWQCPECKVCQNCKQSGEDSKMLVC 72
Query: 70 DDCDRGYHMYCLVPPIQTPPEGSWSCQLC 98
D CD+GYH +CL P +++ P W C+ C
Sbjct: 73 DTCDKGYHTFCLQPVMKSVPTNGWKCKNC 101
>pdb|2E6R|A Chain A, Solution Structure Of The Phd Domain In Smcy Protein
Length = 92
Score = 60.5 bits (145), Expect = 6e-10, Method: Compositional matrix adjust.
Identities = 26/53 (49%), Positives = 33/53 (62%)
Query: 47 QCIECKCCSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCL 99
Q I+ C VC D DD+LLFCD CD YH++CL+PP+ P G W C C+
Sbjct: 12 QFIDSYICQVCSRGDEDDKLLFCDGCDDNYHIFCLLPPLPEIPRGIWRCPKCI 64
>pdb|1F62|A Chain A, Wstf-Phd
Length = 51
Score = 50.8 bits (120), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 18/45 (40%), Positives = 28/45 (62%)
Query: 54 CSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLC 98
C VC DD+L+ CD+C++ +H++CL P + P+G W C C
Sbjct: 3 CKVCRKKGEDDKLILCDECNKAFHLFCLRPALYEVPDGEWQCPAC 47
>pdb|2PUY|A Chain A, Crystal Structure Of The Bhc80 Phd Finger
pdb|2PUY|B Chain B, Crystal Structure Of The Bhc80 Phd Finger
Length = 60
Score = 49.3 bits (116), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 26/54 (48%), Positives = 32/54 (59%), Gaps = 3/54 (5%)
Query: 54 CSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKEFHRKIE 107
CSVC S QLL CD C R YH+ CL PP++T P+G W C C + +K E
Sbjct: 8 CSVCRKSG---QLLMCDTCSRVYHLDCLDPPLKTIPKGMWICPRCQDQMLKKEE 58
>pdb|3ASK|A Chain A, Structure Of Uhrf1 In Complex With Histone Tail
pdb|3ASK|B Chain B, Structure Of Uhrf1 In Complex With Histone Tail
pdb|3ASK|C Chain C, Structure Of Uhrf1 In Complex With Histone Tail
pdb|3ASK|D Chain D, Structure Of Uhrf1 In Complex With Histone Tail
Length = 226
Score = 48.5 bits (114), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 20/46 (43%), Positives = 28/46 (60%), Gaps = 1/46 (2%)
Query: 54 CSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQT-PPEGSWSCQLC 98
C +CG + D+ L CD+CD +H+YCL PP+ + P E W C C
Sbjct: 177 CHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 222
>pdb|4GY5|A Chain A, Crystal Structure Of The Tandem Tudor Domain And Plant
Homeodomain Of Uhrf1 With Histone H3k9me3
pdb|4GY5|B Chain B, Crystal Structure Of The Tandem Tudor Domain And Plant
Homeodomain Of Uhrf1 With Histone H3k9me3
pdb|4GY5|C Chain C, Crystal Structure Of The Tandem Tudor Domain And Plant
Homeodomain Of Uhrf1 With Histone H3k9me3
pdb|4GY5|D Chain D, Crystal Structure Of The Tandem Tudor Domain And Plant
Homeodomain Of Uhrf1 With Histone H3k9me3
Length = 241
Score = 48.1 bits (113), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 20/46 (43%), Positives = 28/46 (60%), Gaps = 1/46 (2%)
Query: 54 CSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQT-PPEGSWSCQLC 98
C +CG + D+ L CD+CD +H+YCL PP+ + P E W C C
Sbjct: 193 CHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 238
>pdb|1XWH|A Chain A, Nmr Structure Of The First Phd Finger Of Autoimmune
Regulator Protein (Aire1): Insights Into Apeced
pdb|2KE1|A Chain A, Molecular Basis Of Non-Modified Histone H3 Tail
Recognition By The First Phd Finger Of Autoimmune
Regulator
Length = 66
Score = 47.4 bits (111), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 30/51 (58%)
Query: 57 CGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKEFHRKIE 107
C + +L+ CD C R +H+ CL PP++ P G+W C CL+ ++++
Sbjct: 11 CAVCRDGGELICCDGCPRAFHLACLSPPLREIPSGTWRCSSCLQATVQEVQ 61
>pdb|2L5U|A Chain A, Structure Of The First Phd Finger (Phd1) From Chd4 (Mi2b)
Length = 61
Score = 46.6 bits (109), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 22/48 (45%), Positives = 27/48 (56%), Gaps = 3/48 (6%)
Query: 54 CSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKE 101
C VC +++ CD C R YHM CL P ++ PEG WSC C KE
Sbjct: 14 CEVC---QQGGEIILCDTCPRAYHMVCLDPDMEKAPEGKWSCPHCEKE 58
>pdb|2YQL|A Chain A, Solution Structure Of The Phd Domain In Phd Finger
Protein 21a
Length = 56
Score = 46.6 bits (109), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 24/45 (53%), Positives = 28/45 (62%), Gaps = 3/45 (6%)
Query: 54 CSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLC 98
CSVC S QLL CD C R YH+ CL PP++T P+G W C C
Sbjct: 12 CSVCRKSG---QLLMCDTCSRVYHLDCLDPPLKTIPKGMWICPRC 53
>pdb|2KFT|A Chain A, Nmr Solution Structure Of The First Phd Finger Domain Of
Human Autoimmune Regulator (Aire) In Complex With
Histone H3(1-20cys) Peptide
Length = 56
Score = 45.8 bits (107), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 17/44 (38%), Positives = 26/44 (59%)
Query: 57 CGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLK 100
C + +L+ CD C R +H+ CL PP++ P G+W C CL+
Sbjct: 8 CAVCRDGGELICCDGCPRAFHLACLSPPLREIPSGTWRCSSCLQ 51
>pdb|3ZVY|A Chain A, Phd Finger Of Human Uhrf1 In Complex With Unmodified
Histone H3 N-Terminal Tail
pdb|3ZVY|B Chain B, Phd Finger Of Human Uhrf1 In Complex With Unmodified
Histone H3 N-Terminal Tail
Length = 72
Score = 45.8 bits (107), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 20/46 (43%), Positives = 28/46 (60%), Gaps = 1/46 (2%)
Query: 54 CSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQT-PPEGSWSCQLC 98
C +CG + D+ L CD+CD +H+YCL PP+ + P E W C C
Sbjct: 23 CHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 68
>pdb|3ZVZ|B Chain B, Phd Finger Of Human Uhrf1
Length = 57
Score = 45.8 bits (107), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 20/46 (43%), Positives = 28/46 (60%), Gaps = 1/46 (2%)
Query: 54 CSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQT-PPEGSWSCQLC 98
C +CG + D+ L CD+CD +H+YCL PP+ + P E W C C
Sbjct: 8 CHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 53
>pdb|3SOU|A Chain A, Structure Of Uhrf1 Phd Finger In Complex With Histone H3
1-9 Peptide
pdb|3SOU|B Chain B, Structure Of Uhrf1 Phd Finger In Complex With Histone H3
1-9 Peptide
pdb|3SOW|A Chain A, Structure Of Uhrf1 Phd Finger In Complex With Histone
H3k4me3 1-9 Peptide
pdb|3SOW|B Chain B, Structure Of Uhrf1 Phd Finger In Complex With Histone
H3k4me3 1-9 Peptide
pdb|3SOX|A Chain A, Structure Of Uhrf1 Phd Finger In The Free Form
pdb|3SOX|B Chain B, Structure Of Uhrf1 Phd Finger In The Free Form
pdb|3ASL|A Chain A, Structure Of Uhrf1 In Complex With Histone Tail
Length = 70
Score = 45.4 bits (106), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 20/46 (43%), Positives = 28/46 (60%), Gaps = 1/46 (2%)
Query: 54 CSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQT-PPEGSWSCQLC 98
C +CG + D+ L CD+CD +H+YCL PP+ + P E W C C
Sbjct: 21 CHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 66
>pdb|3T6R|A Chain A, Structure Of Uhrf1 In Complex With Unmodified H3
N-Terminal Tail
pdb|3T6R|B Chain B, Structure Of Uhrf1 In Complex With Unmodified H3
N-Terminal Tail
Length = 72
Score = 45.4 bits (106), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 20/46 (43%), Positives = 28/46 (60%), Gaps = 1/46 (2%)
Query: 54 CSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQT-PPEGSWSCQLC 98
C +CG + D+ L CD+CD +H+YCL PP+ + P E W C C
Sbjct: 26 CHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 71
>pdb|2LGG|A Chain A, Structure Of Phd Domain Of Uhrf1 In Complex With H3
Peptide
pdb|2LGK|A Chain A, Nmr Structure Of Uhrf1 Phd Domains In A Complex With
Histone H3 Peptide
pdb|2LGL|A Chain A, Nmr Structure Of The Uhrf1 Phd Domain
Length = 69
Score = 45.1 bits (105), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 20/46 (43%), Positives = 28/46 (60%), Gaps = 1/46 (2%)
Query: 54 CSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQT-PPEGSWSCQLC 98
C +CG + D+ L CD+CD +H+YCL PP+ + P E W C C
Sbjct: 21 CHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 66
>pdb|3SHB|A Chain A, Crystal Structure Of Phd Domain Of Uhrf1
Length = 77
Score = 45.1 bits (105), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 20/46 (43%), Positives = 28/46 (60%), Gaps = 1/46 (2%)
Query: 54 CSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQT-PPEGSWSCQLC 98
C +CG + D+ L CD+CD +H+YCL PP+ + P E W C C
Sbjct: 29 CHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 74
>pdb|2E6S|A Chain A, Solution Structure Of The Phd Domain In Ring Finger
Protein 107
Length = 77
Score = 43.1 bits (100), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 20/46 (43%), Positives = 26/46 (56%), Gaps = 1/46 (2%)
Query: 54 CSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPI-QTPPEGSWSCQLC 98
C VCG + L CD+C+ YH+YCL PP+ + P E W C C
Sbjct: 29 CRVCGGKHEPNMQLLCDECNVAYHIYCLNPPLDKVPEEEYWYCPSC 74
>pdb|2L43|A Chain A, Structural Basis For Histone Code Recognition By
Brpf2-Phd1 Finger
Length = 88
Score = 41.2 bits (95), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 24/54 (44%), Positives = 30/54 (55%), Gaps = 6/54 (11%)
Query: 54 CSVC--GTSDNDDQLLFCDDCDRGYHMYCL-VPPIQTPPEGSWSCQLCLKEFHR 104
CS+C G S N + +LFCD C+ H C VP I PEG W C+ CL+ R
Sbjct: 28 CSICMDGESQNSNVILFCDMCNLAVHQECYGVPYI---PEGQWLCRHCLQSRAR 78
>pdb|2KU3|A Chain A, Solution Structure Of Brd1 Phd1 Finger
Length = 71
Score = 40.0 bits (92), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 24/54 (44%), Positives = 30/54 (55%), Gaps = 6/54 (11%)
Query: 54 CSVC--GTSDNDDQLLFCDDCDRGYHMYCL-VPPIQTPPEGSWSCQLCLKEFHR 104
CS+C G S N + +LFCD C+ H C VP I PEG W C+ CL+ R
Sbjct: 19 CSICMDGESQNSNVILFCDMCNLAVHQECYGVPYI---PEGQWLCRHCLQSRAR 69
>pdb|1MM2|A Chain A, Solution Structure Of The 2nd Phd Domain From Mi2b
pdb|2L75|A Chain A, Solution Structure Of Chd4-Phd2 In Complex With H3k9me3
Length = 61
Score = 39.3 bits (90), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 17/43 (39%), Positives = 22/43 (51%)
Query: 56 VCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLC 98
C + +LL CD C YH++CL PP+ P G W C C
Sbjct: 11 FCRVCKDGGELLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRC 53
>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 = 38.5 bits (88), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 21/42 (50%)
Query: 57 CGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLC 98
C N +LL C+ C + +H+ C VP + P G W C C
Sbjct: 7 CAVCQNGGELLCCEKCPKVFHLSCHVPTLTNFPSGEWICTFC 48
>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 = 37.7 bits (86), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 21/42 (50%)
Query: 57 CGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLC 98
C N LL C+ C + +H+ C VP + + P G W C C
Sbjct: 10 CAVCQNGGDLLCCEKCPKVFHLTCHVPTLLSFPSGDWICTFC 51
>pdb|1MM3|A Chain A, Solution Structure Of The 2nd Phd Domain From Mi2b With
C- Terminal Loop Replaced By Corresponding Loop From
Wstf
Length = 61
Score = 37.4 bits (85), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 22/43 (51%)
Query: 56 VCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLC 98
C + +LL CD C YH++CL P + P+G W C C
Sbjct: 11 FCRVCKDGGELLCCDTCPSSYHIHCLRPALYEVPDGEWQCPRC 53
>pdb|2RO1|A Chain A, Nmr Solution Structures Of Human Kap1 Phd
Finger-Bromodomain
Length = 189
Score = 35.4 bits (80), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 23/44 (52%)
Query: 55 SVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLC 98
++C L+ C+ C+ +H+ C +P +Q P WSC LC
Sbjct: 3 TICRVCQKPGDLVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLC 46
>pdb|1FP0|A Chain A, Solution Structure Of The Phd Domain From The Kap-1
Corepressor
Length = 88
Score = 35.0 bits (79), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 23/44 (52%)
Query: 55 SVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLC 98
++C L+ C+ C+ +H+ C +P +Q P WSC LC
Sbjct: 26 TICRVCQKPGDLVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLC 69
>pdb|2K16|A Chain A, Solution Structure Of The Free Taf3 Phd Domain
pdb|2K17|A Chain A, Solution Structure Of The Taf3 Phd Domain In Complex With
A H3k4me3 Peptide
Length = 75
Score = 34.7 bits (78), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 22/51 (43%)
Query: 54 CSVCGTSDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGSWSCQLCLKEFHR 104
C C D+ ++ CDDCD YH C+ P E W C C + +
Sbjct: 21 CPGCNKPDDGSPMIGCDDCDDWYHWPCVGIMAAPPEEMQWFCPKCANKIKK 71
>pdb|4GND|A Chain A, Crystal Structure Of Nsd3 Tandem Phd5-C5hch Domains
pdb|4GND|C Chain C, Crystal Structure Of Nsd3 Tandem Phd5-C5hch Domains
pdb|4GNE|A Chain A, Crystal Structure Of Nsd3 Tandem Phd5-C5hch Domains
Complexed With H3 Peptide 1-7
pdb|4GNF|A Chain A, Crystal Structure Of Nsd3 Tandem Phd5-C5hch Domains
Complexed With H3 Peptide 1-15
pdb|4GNG|A Chain A, Crystal Structure Of Nsd3 Tandem Phd5-C5hch Domains
Complexed With H3k9me3 Peptide
pdb|4GNG|D Chain D, Crystal Structure Of Nsd3 Tandem Phd5-C5hch Domains
Complexed With H3k9me3 Peptide
Length = 107
Score = 33.9 bits (76), Expect = 0.057, Method: Compositional matrix adjust.
Identities = 25/91 (27%), Positives = 37/91 (40%), Gaps = 16/91 (17%)
Query: 57 CGTSDNDDQLLFCD--DCDRGYHMYCLVPPIQTPPEGSWSCQLCLKEFHRKIEQGRTVLK 114
C + +L+ CD DC + YH+ CL + PP G W C +H+ E +
Sbjct: 18 CFQCGDGGELVMCDKKDCPKAYHLLCLN--LTQPPYGKWECP-----WHQCDECSSAAVS 70
Query: 115 IGGFLPAETLEKLRK-------VEGRIACDE 138
F P + K +EGR+ C E
Sbjct: 71 FCEFCPHSFCKDHEKGALVPSALEGRLCCSE 101
>pdb|2YT5|A Chain A, Solution Structure Of The Phd Domain Of Metal-Response
Element-Binding Transcription Factor 2
Length = 66
Score = 31.2 bits (69), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 27/51 (52%), Gaps = 5/51 (9%)
Query: 54 CSVCGT--SDNDDQLLFCDDCDRGYHMYCLVPPIQTPPEGS---WSCQLCL 99
C++C S+ ++++ CD C +GYH C P I + S W C+ C+
Sbjct: 9 CTICQEEYSEAPNEMVICDKCGQGYHQLCHTPHIDSSVIDSDEKWLCRQCV 59
>pdb|3N77|A Chain A, Crystal Structure Of Idp01880, Putative Ntp
Pyrophosphohydrolase Of Salmonella Typhimurium Lt2
pdb|3N77|B Chain B, Crystal Structure Of Idp01880, Putative Ntp
Pyrophosphohydrolase Of Salmonella Typhimurium Lt2
Length = 144
Score = 29.6 bits (65), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 26/56 (46%)
Query: 97 LCLKEFHRKIEQGRTVLKIGGFLPAETLEKLRKVEGRIACDEDLKLSDTLRYYMRD 152
LC +R + G+ L GG P E +E+ + E R E L LSD + RD
Sbjct: 22 LCKMADNRGVFPGQWALSGGGVEPGERIEEALRREIREELGEQLILSDITPWTFRD 77
>pdb|3OGA|A Chain A, 1.75 Angstrom Resolution Crystal Structure Of A Putative
Ntp Pyrophosphohydrolase (Yfao) From Salmonella
Typhimurium Lt2
pdb|3OGA|B Chain B, 1.75 Angstrom Resolution Crystal Structure Of A Putative
Ntp Pyrophosphohydrolase (Yfao) From Salmonella
Typhimurium Lt2
Length = 165
Score = 29.3 bits (64), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 26/56 (46%)
Query: 97 LCLKEFHRKIEQGRTVLKIGGFLPAETLEKLRKVEGRIACDEDLKLSDTLRYYMRD 152
LC +R + G+ L GG P E +E+ + E R E L LSD + RD
Sbjct: 43 LCKMADNRGVFPGQWALSGGGVEPGERIEEALRREIREELGEQLILSDITPWTFRD 98
>pdb|4FZ2|A Chain A, Crystal Structure Of The Fourth Type Of Archaeal Trna
Splicing Endonuclease From Candidatus Micrarchaeum
Acidiphilum Arman-2
pdb|4FZ2|B Chain B, Crystal Structure Of The Fourth Type Of Archaeal Trna
Splicing Endonuclease From Candidatus Micrarchaeum
Acidiphilum Arman-2
Length = 395
Score = 28.9 bits (63), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 21/49 (42%)
Query: 31 LQFTNNMKVSVKQYRWQCIECKCCSVCGTSDNDDQLLFCDDCDRGYHMY 79
L+F V K+Y I K SV G DD + DD + G +Y
Sbjct: 101 LRFGEEEHVQAKRYPSSAINLKKYSVTGIFFPDDMVTVIDDDESGKDLY 149
>pdb|2XB1|A Chain A, Crystal Structure Of The Human Pygo2 Phd Finger In Complex
With The B9l Hd1 Domain
pdb|2XB1|C Chain C, Crystal Structure Of The Human Pygo2 Phd Finger In Complex
With The B9l Hd1 Domain
Length = 105
Score = 27.7 bits (60), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 24/55 (43%), Gaps = 8/55 (14%)
Query: 54 CSVCGTSDNDDQ-LLFCD-DCDRGYHMYCL------VPPIQTPPEGSWSCQLCLK 100
C C + NDDQ + C+ C + +H C + T W+C LCLK
Sbjct: 6 CGACRSEVNDDQDAILCEASCQKWFHRECTGMTESAYGLLTTEASAVWACDLCLK 60
>pdb|1WEV|A Chain A, Solution Structure Of Phd Domain In Protein Np_082203
Length = 88
Score = 26.9 bits (58), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 17/63 (26%), Positives = 27/63 (42%), Gaps = 6/63 (9%)
Query: 54 CSVC--GTSDNDDQLLFCDDCDRGYHMYCLVPPIQ----TPPEGSWSCQLCLKEFHRKIE 107
C VC T + +QL+ C +C YH C P + P W C C ++ R +
Sbjct: 19 CVVCRQMTVASGNQLVECQECHNLYHQDCHKPQVTDKEVNDPRLVWYCARCTRQMKRMAQ 78
Query: 108 QGR 110
+ +
Sbjct: 79 KNQ 81
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
0.323 0.137 0.447
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,110,314
Number of Sequences: 62578
Number of extensions: 251541
Number of successful extensions: 555
Number of sequences better than 100.0: 51
Number of HSP's better than 100.0 without gapping: 38
Number of HSP's successfully gapped in prelim test: 13
Number of HSP's that attempted gapping in prelim test: 496
Number of HSP's gapped (non-prelim): 64
length of query: 190
length of database: 14,973,337
effective HSP length: 93
effective length of query: 97
effective length of database: 9,153,583
effective search space: 887897551
effective search space used: 887897551
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 48 (23.1 bits)