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= 002334
(935 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 48.1 bits (113), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 22/37 (59%), Positives = 23/37 (62%), Gaps = 2/37 (5%)
Query: 564 DGGNLLPCDGCPRAFHKECAS--LSSIPQGDWYCKYC 598
DGG L+ CDGCPRAFH C S L IP G W C C
Sbjct: 16 DGGELICCDGCPRAFHLACLSPPLREIPSGTWRCSSC 52
Score = 35.8 bits (81), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 15/34 (44%), Positives = 19/34 (55%), Gaps = 4/34 (11%)
Query: 665 ILLCDQCEREFHVGCLKKHKMADLRELPKGKWFC 698
++ CD C R FH+ CL LRE+P G W C
Sbjct: 20 LICCDGCPRAFHLACLSP----PLREIPSGTWRC 49
>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 = 48.1 bits (113), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 26/83 (31%), Positives = 48/83 (57%), Gaps = 10/83 (12%)
Query: 564 DGGNLLPCDGCPRAFHKEC--ASLSSIPQGDWYCKYCQNMFERKRFLQHDANAVEAGR-- 619
+GG+LL C+ CP+ FH C +L S P GDW C +C+++ K +++D + ++ +
Sbjct: 15 NGGDLLCCEKCPKVFHLTCHVPTLLSFPSGDWICTFCRDI--GKPEVEYDCDNLQHSKKG 72
Query: 620 --VSGVDSVEQITKRCIRIVKNL 640
G+ V+Q ++C R++ L
Sbjct: 73 KTAQGLSPVDQ--RKCERLLLYL 93
>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 = 47.8 bits (112), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 26/81 (32%), Positives = 46/81 (56%), Gaps = 9/81 (11%)
Query: 564 DGGNLLPCDGCPRAFHKEC--ASLSSIPQGDWYCKYCQNMFERKRFLQHDANA----VEA 617
+GG LL C+ CP+ FH C +L++ P G+W C +C+++ K +++D +A E
Sbjct: 12 NGGELLCCEKCPKVFHLSCHVPTLTNFPSGEWICTFCRDL--SKPEVEYDCDAPSHNSEK 69
Query: 618 GRVSGVDSVEQITKR-CIRIV 637
+ G+ + I KR C R++
Sbjct: 70 KKTEGLVKLTPIDKRKCERLL 90
Score = 30.0 bits (66), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 22/42 (52%), Gaps = 6/42 (14%)
Query: 665 ILLCDQCEREFHVGCLKKHKMADLRELPKGKWFC--CMDCSR 704
+L C++C + FH+ C + L P G+W C C D S+
Sbjct: 16 LLCCEKCPKVFHLSC----HVPTLTNFPSGEWICTFCRDLSK 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 = 47.4 bits (111), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 22/37 (59%), Positives = 23/37 (62%), Gaps = 2/37 (5%)
Query: 564 DGGNLLPCDGCPRAFHKECAS--LSSIPQGDWYCKYC 598
DGG L+ CDGCPRAFH C S L IP G W C C
Sbjct: 13 DGGELICCDGCPRAFHLACLSPPLREIPSGTWRCSSC 49
Score = 35.4 bits (80), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 15/34 (44%), Positives = 19/34 (55%), Gaps = 4/34 (11%)
Query: 665 ILLCDQCEREFHVGCLKKHKMADLRELPKGKWFC 698
++ CD C R FH+ CL LRE+P G W C
Sbjct: 17 LICCDGCPRAFHLACLSP----PLREIPSGTWRC 46
>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 = 41.6 bits (96), Expect = 0.002, Method: Composition-based stats.
Identities = 17/37 (45%), Positives = 22/37 (59%), Gaps = 2/37 (5%)
Query: 564 DGGNLLPCDGCPRAFHKEC--ASLSSIPQGDWYCKYC 598
DGG LL CD CP ++H C +L +P G+W C C
Sbjct: 17 DGGELLCCDTCPSSYHIHCLRPALYEVPDGEWQCPRC 53
Score = 30.8 bits (68), Expect = 3.2, Method: Composition-based stats.
Identities = 13/34 (38%), Positives = 19/34 (55%), Gaps = 4/34 (11%)
Query: 665 ILLCDQCEREFHVGCLKKHKMADLRELPKGKWFC 698
+L CD C +H+ CL+ L E+P G+W C
Sbjct: 21 LLCCDTCPSSYHIHCLR----PALYEVPDGEWQC 50
>pdb|2L5U|A Chain A, Structure Of The First Phd Finger (Phd1) From Chd4 (Mi2b)
Length = 61
Score = 41.2 bits (95), Expect = 0.003, Method: Composition-based stats.
Identities = 16/42 (38%), Positives = 23/42 (54%), Gaps = 2/42 (4%)
Query: 560 EAHADGGNLLPCDGCPRAFHKEC--ASLSSIPQGDWYCKYCQ 599
E GG ++ CD CPRA+H C + P+G W C +C+
Sbjct: 15 EVCQQGGEIILCDTCPRAYHMVCLDPDMEKAPEGKWSCPHCE 56
Score = 36.2 bits (82), Expect = 0.095, Method: Composition-based stats.
Identities = 15/34 (44%), Positives = 21/34 (61%), Gaps = 4/34 (11%)
Query: 665 ILLCDQCEREFHVGCLKKHKMADLRELPKGKWFC 698
I+LCD C R +H+ CL D+ + P+GKW C
Sbjct: 23 IILCDTCPRAYHMVCLD----PDMEKAPEGKWSC 52
>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 = 40.8 bits (94), Expect = 0.003, Method: Composition-based stats.
Identities = 18/42 (42%), Positives = 24/42 (57%), Gaps = 2/42 (4%)
Query: 566 GNLLPCDGCPRAFHKEC--ASLSSIPQGDWYCKYCQNMFERK 605
G LL CD C R +H +C L +IP+G W C CQ+ +K
Sbjct: 15 GQLLMCDTCSRVYHLDCLDPPLKTIPKGMWICPRCQDQMLKK 56
Score = 36.6 bits (83), Expect = 0.061, Method: Composition-based stats.
Identities = 22/57 (38%), Positives = 29/57 (50%), Gaps = 15/57 (26%)
Query: 647 CLLCRGCDFSKSGFGPRTILLCDQCEREFHVGCLKKHKMADLRELPKGKWFC--CMD 701
C +CR KSG +L+CD C R +H+ CL L+ +PKG W C C D
Sbjct: 8 CSVCR-----KSG----QLLMCDTCSRVYHLDCLD----PPLKTIPKGMWICPRCQD 51
>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 = 40.0 bits (92), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 29/108 (26%), Positives = 47/108 (43%), Gaps = 11/108 (10%)
Query: 594 YCKYC---QNMFERKRFLQHDANAVEAGRVSGVDSVEQITKRCIRIVKNLEAELSGCLLC 650
YC +C NM ++ + + + GR SG + Q T VK + + C+ C
Sbjct: 3 YCDFCLGGSNMNKKSGRPEELVSCADCGR-SGHPTCLQFTLNMTEAVKTYKWQ---CIEC 58
Query: 651 RGCDFSKSGFGPRTILLCDQCEREFHVGCLKKHKMADLRELPKGKWFC 698
+ C + +L CD C+R +H+ CL + E P+G W C
Sbjct: 59 KSCILCGTSENDDQLLFCDDCDRGYHMYCLN----PPVAEPPEGSWSC 102
Score = 31.6 bits (70), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 21/40 (52%), Gaps = 2/40 (5%)
Query: 568 LLPCDGCPRAFHKECAS--LSSIPQGDWYCKYCQNMFERK 605
LL CD C R +H C + ++ P+G W C C + + K
Sbjct: 73 LLFCDDCDRGYHMYCLNPPVAEPPEGSWSCHLCWELLKEK 112
>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 = 0.009, Method: Compositional matrix adjust.
Identities = 18/37 (48%), Positives = 21/37 (56%), Gaps = 2/37 (5%)
Query: 564 DGGNLLPCDGCPRAFHKEC--ASLSSIPQGDWYCKYC 598
DGG LL CD CP ++H C L IP G+W C C
Sbjct: 17 DGGELLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRC 53
Score = 32.3 bits (72), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 18/34 (52%), Gaps = 4/34 (11%)
Query: 665 ILLCDQCEREFHVGCLKKHKMADLRELPKGKWFC 698
+L CD C +H+ CL L E+P G+W C
Sbjct: 21 LLCCDTCPSSYHIHCLN----PPLPEIPNGEWLC 50
>pdb|2KU3|A Chain A, Solution Structure Of Brd1 Phd1 Finger
Length = 71
Score = 39.3 bits (90), Expect = 0.010, Method: Composition-based stats.
Identities = 14/31 (45%), Positives = 20/31 (64%)
Query: 568 LLPCDGCPRAFHKECASLSSIPQGDWYCKYC 598
+L CD C A H+EC + IP+G W C++C
Sbjct: 33 ILFCDMCNLAVHQECYGVPYIPEGQWLCRHC 63
>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 = 39.3 bits (90), Expect = 0.012, Method: Composition-based stats.
Identities = 22/57 (38%), Positives = 25/57 (43%), Gaps = 12/57 (21%)
Query: 547 CHCCNSEVSPSQFEAHADGGNLLPCDGCPRAFHKEC--ASLSSIPQGD-WYCKYCQN 600
CH C P + L CD C AFH C LSS+P D WYC C+N
Sbjct: 177 CHLCGGRQDPDK---------QLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPECRN 224
Score = 31.6 bits (70), Expect = 2.4, Method: Composition-based stats.
Identities = 17/53 (32%), Positives = 25/53 (47%), Gaps = 7/53 (13%)
Query: 649 LCR--GCDFSKSGFGPRTILLCDQCEREFHVGCLKKHKMADLRELP-KGKWFC 698
LCR C P L+CD+C+ FH+ CL L +P + +W+C
Sbjct: 171 LCRVCACHLCGGRQDPDKQLMCDECDMAFHIYCLD----PPLSSVPSEDEWYC 219
>pdb|2L43|A Chain A, Structural Basis For Histone Code Recognition By
Brpf2-Phd1 Finger
Length = 88
Score = 38.9 bits (89), Expect = 0.013, Method: Composition-based stats.
Identities = 14/31 (45%), Positives = 20/31 (64%)
Query: 568 LLPCDGCPRAFHKECASLSSIPQGDWYCKYC 598
+L CD C A H+EC + IP+G W C++C
Sbjct: 42 ILFCDMCNLAVHQECYGVPYIPEGQWLCRHC 72
>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 = 38.9 bits (89), Expect = 0.015, Method: Composition-based stats.
Identities = 22/57 (38%), Positives = 25/57 (43%), Gaps = 12/57 (21%)
Query: 547 CHCCNSEVSPSQFEAHADGGNLLPCDGCPRAFHKEC--ASLSSIPQGD-WYCKYCQN 600
CH C P + L CD C AFH C LSS+P D WYC C+N
Sbjct: 193 CHLCGGRQDPDK---------QLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPECRN 240
Score = 31.2 bits (69), Expect = 2.9, Method: Composition-based stats.
Identities = 17/53 (32%), Positives = 25/53 (47%), Gaps = 7/53 (13%)
Query: 649 LCR--GCDFSKSGFGPRTILLCDQCEREFHVGCLKKHKMADLRELP-KGKWFC 698
LCR C P L+CD+C+ FH+ CL L +P + +W+C
Sbjct: 187 LCRVCACHLCGGRQDPDKQLMCDECDMAFHIYCLD----PPLSSVPSEDEWYC 235
>pdb|3V43|A Chain A, Crystal Structure Of Moz
Length = 112
Score = 38.1 bits (87), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 16/38 (42%), Positives = 23/38 (60%), Gaps = 2/38 (5%)
Query: 564 DGGNLLPCDGCPRAFHKECAS--LSSIPQGDWYCKYCQ 599
+ N+L CD C R FH EC L+ +P+G W C+ C+
Sbjct: 73 NADNMLFCDSCDRGFHMECCDPPLTRMPKGMWICQICR 110
Score = 37.0 bits (84), Expect = 0.053, Method: Compositional matrix adjust.
Identities = 31/109 (28%), Positives = 44/109 (40%), Gaps = 15/109 (13%)
Query: 595 CKYC-----QNMFERKRFLQHDANAVEAGRVSGVDSVEQITKRCIRIVKNLEAELSGCLL 649
C +C QN ++ L A+ +G S + ++T R VK L + C
Sbjct: 8 CSFCLGTKEQNREKKPEELISCADCGNSGHPSCLKFSPELTVR----VKALRWQCIECKT 63
Query: 650 CRGCDFSKSGFGPRTILLCDQCEREFHVGCLKKHKMADLRELPKGKWFC 698
C C G +L CD C+R FH+ C L +PKG W C
Sbjct: 64 CSSC--RDQGKNADNMLFCDSCDRGFHMECCD----PPLTRMPKGMWIC 106
>pdb|2LN0|A Chain A, Structure Of Moz
Length = 110
Score = 37.7 bits (86), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 16/38 (42%), Positives = 23/38 (60%), Gaps = 2/38 (5%)
Query: 564 DGGNLLPCDGCPRAFHKECAS--LSSIPQGDWYCKYCQ 599
+ N+L CD C R FH EC L+ +P+G W C+ C+
Sbjct: 71 NADNMLFCDSCDRGFHMECCDPPLTRMPKGMWICQICR 108
Score = 37.0 bits (84), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 29/100 (29%), Positives = 41/100 (41%), Gaps = 10/100 (10%)
Query: 599 QNMFERKRFLQHDANAVEAGRVSGVDSVEQITKRCIRIVKNLEAELSGCLLCRGCDFSKS 658
QN ++ L A+ +G S + ++T R VK L + C C C
Sbjct: 15 QNREKKPEELISCADCGNSGHPSCLKFSPELTVR----VKALRWQCIECKTCSSC--RDQ 68
Query: 659 GFGPRTILLCDQCEREFHVGCLKKHKMADLRELPKGKWFC 698
G +L CD C+R FH+ C L +PKG W C
Sbjct: 69 GKNADNMLFCDSCDRGFHMECCD----PPLTRMPKGMWIC 104
>pdb|2YQL|A Chain A, Solution Structure Of The Phd Domain In Phd Finger Protein
21a
Length = 56
Score = 37.4 bits (85), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 17/37 (45%), Positives = 22/37 (59%), Gaps = 2/37 (5%)
Query: 566 GNLLPCDGCPRAFHKECAS--LSSIPQGDWYCKYCQN 600
G LL CD C R +H +C L +IP+G W C CQ+
Sbjct: 19 GQLLMCDTCSRVYHLDCLDPPLKTIPKGMWICPRCQD 55
Score = 34.7 bits (78), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 20/34 (58%), Gaps = 4/34 (11%)
Query: 665 ILLCDQCEREFHVGCLKKHKMADLRELPKGKWFC 698
+L+CD C R +H+ CL L+ +PKG W C
Sbjct: 21 LLMCDTCSRVYHLDCLD----PPLKTIPKGMWIC 50
>pdb|3ZVZ|B Chain B, Phd Finger Of Human Uhrf1
Length = 57
Score = 37.0 bits (84), Expect = 0.049, Method: Composition-based stats.
Identities = 22/57 (38%), Positives = 25/57 (43%), Gaps = 12/57 (21%)
Query: 547 CHCCNSEVSPSQFEAHADGGNLLPCDGCPRAFHKEC--ASLSSIPQGD-WYCKYCQN 600
CH C P + L CD C AFH C LSS+P D WYC C+N
Sbjct: 8 CHLCGGRQDPDK---------QLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPECRN 55
>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 = 36.2 bits (82), Expect = 0.092, Method: Compositional matrix adjust.
Identities = 16/37 (43%), Positives = 22/37 (59%), Gaps = 2/37 (5%)
Query: 563 ADGGNLLPCD--GCPRAFHKECASLSSIPQGDWYCKY 597
DGG L+ CD CP+A+H C +L+ P G W C +
Sbjct: 22 GDGGELVMCDKKDCPKAYHLLCLNLTQPPYGKWECPW 58
>pdb|2JMI|A Chain A, Nmr Solution Structure Of Phd Finger Fragment Of Yeast
Yng1 Protein In Free State
pdb|2JMJ|A Chain A, Nmr Solution Structure Of The Phd Domain From The Yeast
Yng1 Protein In Complex With H3(1-9)k4me3 Peptide
Length = 90
Score = 35.8 bits (81), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 20/49 (40%), Positives = 27/49 (55%), Gaps = 11/49 (22%)
Query: 660 FGPRTILLCDQ--CERE-FHVGCLKKHKMADLRELPKGKWFCCMDCSRI 705
+GP ++ CD C E FH GC+ L++ PKGKW+C DC I
Sbjct: 36 YGP--MVACDNPACPFEWFHYGCV------GLKQAPKGKWYCSKDCKEI 76
Score = 32.7 bits (73), Expect = 0.93, Method: Compositional matrix adjust.
Identities = 20/64 (31%), Positives = 25/64 (39%), Gaps = 14/64 (21%)
Query: 535 LLEGYKNGLGIICHCCNSEVSPSQFEAHADGGNLLPCD--GCP-RAFHKECASLSSIPQG 591
+ EG N + C C N P ++ CD CP FH C L P+G
Sbjct: 17 VTEGNNNQEEVYCFCRNVSYGP-----------MVACDNPACPFEWFHYGCVGLKQAPKG 65
Query: 592 DWYC 595
WYC
Sbjct: 66 KWYC 69
>pdb|1X4I|A Chain A, Solution Structure Of Phd Domain In Inhibitor Of Growth
Protein 3 (Ing3)
Length = 70
Score = 34.3 bits (77), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 22/43 (51%), Gaps = 3/43 (6%)
Query: 566 GNLLPCDG--CP-RAFHKECASLSSIPQGDWYCKYCQNMFERK 605
G ++ CD CP FH C L+ P+G WYC C +R+
Sbjct: 17 GEMVGCDNQDCPIEWFHYGCVGLTEAPKGKWYCPQCTAAMKRR 59
>pdb|1F62|A Chain A, Wstf-Phd
Length = 51
Score = 34.3 bits (77), Expect = 0.32, Method: Composition-based stats.
Identities = 15/34 (44%), Positives = 20/34 (58%), Gaps = 2/34 (5%)
Query: 568 LLPCDGCPRAFHKEC--ASLSSIPQGDWYCKYCQ 599
L+ CD C +AFH C +L +P G+W C CQ
Sbjct: 15 LILCDECNKAFHLFCLRPALYEVPDGEWQCPACQ 48
Score = 33.9 bits (76), Expect = 0.42, Method: Composition-based stats.
Identities = 14/34 (41%), Positives = 22/34 (64%), Gaps = 4/34 (11%)
Query: 665 ILLCDQCEREFHVGCLKKHKMADLRELPKGKWFC 698
++LCD+C + FH+ CL+ L E+P G+W C
Sbjct: 15 LILCDECNKAFHLFCLR----PALYEVPDGEWQC 44
>pdb|2LD1|A Chain A, Structures And Chemical Shift Assignments For The Add
Domain Of The Atrx Protein
pdb|2LBM|A Chain A, Solution Structure Of The Add Domain Of Atrx Complexed
With Histone Tail H3 1-15 K9me3
Length = 142
Score = 34.3 bits (77), Expect = 0.36, Method: Composition-based stats.
Identities = 19/46 (41%), Positives = 23/46 (50%), Gaps = 9/46 (19%)
Query: 563 ADGGNLLPCDGCPRAFHKEC-------ASLSSI--PQGDWYCKYCQ 599
A+GGNL+ CD C AF K+C LS+I WYC C
Sbjct: 70 AEGGNLICCDFCHNAFCKKCILRNLGRKELSTIMDENNQWYCYICH 115
>pdb|2JM1|A Chain A, Structures And Chemical Shift Assignments For The Add
Domain Of The Atrx Protein
Length = 141
Score = 33.9 bits (76), Expect = 0.41, Method: Composition-based stats.
Identities = 19/46 (41%), Positives = 23/46 (50%), Gaps = 9/46 (19%)
Query: 563 ADGGNLLPCDGCPRAFHKEC-------ASLSSI--PQGDWYCKYCQ 599
A+GGNL+ CD C AF K+C LS+I WYC C
Sbjct: 69 AEGGNLICCDFCHNAFCKKCILRNLGRKELSTIMDENNQWYCYICH 114
>pdb|3QL9|A Chain A, Monoclinic Complex Structure Of Atrx Add Bound To Histone
H3k9me3 Peptide
pdb|3QLA|A Chain A, Hexagonal Complex Structure Of Atrx Add Bound To H3k9me3
Peptide
pdb|3QLA|D Chain D, Hexagonal Complex Structure Of Atrx Add Bound To H3k9me3
Peptide
pdb|3QLC|A Chain A, Complex Structure Of Atrx Add Domain Bound To Unmodified
H3 1-15 Peptide
pdb|3QLC|B Chain B, Complex Structure Of Atrx Add Domain Bound To Unmodified
H3 1-15 Peptide
pdb|3QLN|A Chain A, Crystal Structure Of Atrx Add Domain In Free State
pdb|3QLN|B Chain B, Crystal Structure Of Atrx Add Domain In Free State
Length = 129
Score = 33.9 bits (76), Expect = 0.49, Method: Composition-based stats.
Identities = 19/46 (41%), Positives = 23/46 (50%), Gaps = 9/46 (19%)
Query: 563 ADGGNLLPCDGCPRAFHKECA-------SLSSI--PQGDWYCKYCQ 599
A+GGNL+ CD C AF K+C LS+I WYC C
Sbjct: 64 AEGGNLICCDFCHNAFCKKCILRNLGRRELSTIMDENNQWYCYICH 109
>pdb|2E6R|A Chain A, Solution Structure Of The Phd Domain In Smcy Protein
Length = 92
Score = 33.1 bits (74), Expect = 0.79, Method: Composition-based stats.
Identities = 15/46 (32%), Positives = 22/46 (47%), Gaps = 4/46 (8%)
Query: 653 CDFSKSGFGPRTILLCDQCEREFHVGCLKKHKMADLRELPKGKWFC 698
C G +L CD C+ +H+ CL + L E+P+G W C
Sbjct: 19 CQVCSRGDEDDKLLFCDGCDDNYHIFCL----LPPLPEIPRGIWRC 60
Score = 31.2 bits (69), Expect = 3.0, Method: Composition-based stats.
Identities = 15/33 (45%), Positives = 17/33 (51%), Gaps = 2/33 (6%)
Query: 568 LLPCDGCPRAFHKEC--ASLSSIPQGDWYCKYC 598
LL CDGC +H C L IP+G W C C
Sbjct: 31 LLFCDGCDDNYHIFCLLPPLPEIPRGIWRCPKC 63
>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 = 33.1 bits (74), Expect = 0.80, Method: Composition-based stats.
Identities = 16/63 (25%), Positives = 26/63 (41%), Gaps = 11/63 (17%)
Query: 546 ICHCCNSEVSPSQFEAHADGGNLLPCDGCPRAFHKECASLSSIP--QGDWYCKYCQNMFE 603
IC CN DG ++ CD C +H C + + P + W+C C N +
Sbjct: 20 ICPGCNKP---------DDGSPMIGCDDCDDWYHWPCVGIMAAPPEEMQWFCPKCANKIK 70
Query: 604 RKR 606
+ +
Sbjct: 71 KDK 73
>pdb|2G6Q|A Chain A, Crystal Structure Of Ing2 Phd Domain In Complex With
H3k4me3 Peptide
Length = 62
Score = 32.3 bits (72), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 16/37 (43%), Positives = 21/37 (56%), Gaps = 3/37 (8%)
Query: 566 GNLLPCDG--CP-RAFHKECASLSSIPQGDWYCKYCQ 599
G ++ CD CP FH C SL+ P+G WYC C+
Sbjct: 22 GEMIGCDNEQCPIEWFHFSCVSLTYKPKGKWYCPKCR 58
>pdb|1WES|A Chain A, Solution Structure Of Phd Domain In Inhibitor Of Growth
Family, Member 1-Like
Length = 71
Score = 32.3 bits (72), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 16/38 (42%), Positives = 21/38 (55%), Gaps = 3/38 (7%)
Query: 566 GNLLPCDG--CP-RAFHKECASLSSIPQGDWYCKYCQN 600
G ++ CD CP FH C SL+ P+G WYC C+
Sbjct: 27 GEMIGCDNEQCPIEWFHFSCVSLTYKPKGKWYCPKCRG 64
>pdb|1WIL|A Chain A, Solution Structure Of The Ring Finger Domain Of The Human
Kiaa1045 Protein
Length = 89
Score = 31.6 bits (70), Expect = 2.1, Method: Composition-based stats.
Identities = 16/49 (32%), Positives = 18/49 (36%), Gaps = 14/49 (28%)
Query: 567 NLLPCDGCPRAFHKECASLSSIPQGD--------------WYCKYCQNM 601
+L PC C R FH C QGD W C YC N+
Sbjct: 28 SLFPCRVCTRVFHDGCLRRMGYIQGDSAAEVTEMAHTETGWSCHYCDNI 76
>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 = 31.6 bits (70), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 19/40 (47%), Positives = 21/40 (52%), Gaps = 3/40 (7%)
Query: 564 DGGNLLPCDGCPRAFHKEC--ASLSSIPQGD-WYCKYCQN 600
D L CD C AFH C LSS+P D WYC C+N
Sbjct: 31 DPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPECRN 70
>pdb|1FP0|A Chain A, Solution Structure Of The Phd Domain From The Kap-1
Corepressor
Length = 88
Score = 31.2 bits (69), Expect = 2.6, Method: Composition-based stats.
Identities = 15/52 (28%), Positives = 27/52 (51%), Gaps = 10/52 (19%)
Query: 649 LCRGCDFSKSGFGPRTILLCDQCEREFHVGCLKKHKMADLRELPKGKWFCCM 700
+CR C P +++C+QCE FH+ C + L+++P +W C +
Sbjct: 27 ICRVCQ------KPGDLVMCNQCEFCFHLDC----HLPALQDVPGEEWSCSL 68
Score = 30.4 bits (67), Expect = 4.4, Method: Composition-based stats.
Identities = 12/36 (33%), Positives = 19/36 (52%), Gaps = 2/36 (5%)
Query: 566 GNLLPCDGCPRAFHKEC--ASLSSIPQGDWYCKYCQ 599
G+L+ C+ C FH +C +L +P +W C C
Sbjct: 35 GDLVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCH 70
>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 = 31.2 bits (69), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 19/40 (47%), Positives = 21/40 (52%), Gaps = 3/40 (7%)
Query: 564 DGGNLLPCDGCPRAFHKEC--ASLSSIPQGD-WYCKYCQN 600
D L CD C AFH C LSS+P D WYC C+N
Sbjct: 29 DPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPECRN 68
>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 = 31.2 bits (69), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 19/40 (47%), Positives = 21/40 (52%), Gaps = 3/40 (7%)
Query: 564 DGGNLLPCDGCPRAFHKEC--ASLSSIPQGD-WYCKYCQN 600
D L CD C AFH C LSS+P D WYC C+N
Sbjct: 29 DPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPECRN 68
>pdb|3SHB|A Chain A, Crystal Structure Of Phd Domain Of Uhrf1
Length = 77
Score = 31.2 bits (69), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 19/40 (47%), Positives = 21/40 (52%), Gaps = 3/40 (7%)
Query: 564 DGGNLLPCDGCPRAFHKEC--ASLSSIPQGD-WYCKYCQN 600
D L CD C AFH C LSS+P D WYC C+N
Sbjct: 37 DPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPECRN 76
>pdb|2M1R|A Chain A, Phd Domain Of Ing4 N214d Mutant
Length = 63
Score = 30.8 bits (68), Expect = 3.9, Method: Composition-based stats.
Identities = 16/44 (36%), Positives = 23/44 (52%), Gaps = 5/44 (11%)
Query: 566 GNLLPCDG--CP-RAFHKECASLSSIPQGDWYCKYCQNMFERKR 606
G ++ CD C FH C L++ P+G W+C C ERK+
Sbjct: 21 GEMIGCDDPDCSIEWFHFACVGLTTKPRGKWFCPRCSQ--ERKK 62
>pdb|2QIC|A Chain A, Crystal Structure Of The Ing1 Phd Finger In Complex With A
Histone H3k4me3 Peptide
Length = 62
Score = 30.8 bits (68), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 15/37 (40%), Positives = 20/37 (54%), Gaps = 3/37 (8%)
Query: 566 GNLLPCDG--CP-RAFHKECASLSSIPQGDWYCKYCQ 599
G ++ CD CP FH C L+ P+G WYC C+
Sbjct: 22 GEMIGCDNDECPIEWFHFSCVGLNHKPKGKWYCPKCR 58
>pdb|2RO1|A Chain A, Nmr Solution Structures Of Human Kap1 Phd
Finger-Bromodomain
Length = 189
Score = 30.4 bits (67), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 22/42 (52%), Gaps = 2/42 (4%)
Query: 566 GNLLPCDGCPRAFHKEC--ASLSSIPQGDWYCKYCQNMFERK 605
G+L+ C+ C FH +C +L +P +W C C + + K
Sbjct: 12 GDLVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLCHVLPDLK 53
Score = 30.4 bits (67), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 15/52 (28%), Positives = 27/52 (51%), Gaps = 10/52 (19%)
Query: 649 LCRGCDFSKSGFGPRTILLCDQCEREFHVGCLKKHKMADLRELPKGKWFCCM 700
+CR C P +++C+QCE FH+ C + L+++P +W C +
Sbjct: 4 ICRVCQ------KPGDLVMCNQCEFCFHLDC----HLPALQDVPGEEWSCSL 45
>pdb|3C6W|A Chain A, Crystal Structure Of The Ing5 Phd Finger In Complex With
H3k4me3 Peptide
pdb|3C6W|C Chain C, Crystal Structure Of The Ing5 Phd Finger In Complex With
H3k4me3 Peptide
Length = 59
Score = 30.0 bits (66), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 14/36 (38%), Positives = 20/36 (55%), Gaps = 3/36 (8%)
Query: 566 GNLLPCDG--CP-RAFHKECASLSSIPQGDWYCKYC 598
G ++ CD CP FH C L++ P+G W+C C
Sbjct: 20 GEMIGCDNPDCPIEWFHFACVDLTTKPKGKWFCPRC 55
>pdb|2H59|A Chain A, Sir2 H116a-Deacetylated P53 Peptide-3'-O-Acetyl Adp Ribose
pdb|2H59|B Chain B, Sir2 H116a-Deacetylated P53 Peptide-3'-O-Acetyl Adp Ribose
pdb|3JR3|A Chain A, Sir2 Bound To Acetylated Peptide
Length = 246
Score = 29.6 bits (65), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 37/151 (24%), Positives = 65/151 (43%), Gaps = 12/151 (7%)
Query: 589 PQGDWYCKYCQNMFERKRFLQHDANAVEAGRVSGVDSVEQITKRCIRIV--KNLEAELSG 646
P G Y KY QN+F+ F H + G+ + Q ++ K E L
Sbjct: 36 PNG-IYKKYSQNVFDIDFFYSHPEEFYRFAK-EGIFPMLQAKPNLAHVLLAKLEEKGLIE 93
Query: 647 CLLCRGCDFSKSGFGPRTIL-LCDQCEREFHVGCLKKHKMAD-LRELPKGKWFCCMDCSR 704
++ + D G + ++ L E + V C KK+ + D +++L C DC
Sbjct: 94 AVITQNIDRLHQRAGSKKVIELAGNVEEYYCVRCEKKYTVEDVIKKLESSDVPLCDDC-- 151
Query: 705 INSVLQNLLVQEAEKLPEFHLNAIKKYAGNS 735
NS+++ +V E LP+ +A+++ G S
Sbjct: 152 -NSLIRPNIVFFGENLPQ---DALREAIGLS 178
>pdb|2VNF|A Chain A, Molecular Basis Of Histone H3k4me3 Recognition By Ing4
pdb|2VNF|C Chain C, Molecular Basis Of Histone H3k4me3 Recognition By Ing4
Length = 60
Score = 29.6 bits (65), Expect = 7.7, Method: Composition-based stats.
Identities = 13/36 (36%), Positives = 19/36 (52%), Gaps = 3/36 (8%)
Query: 566 GNLLPCDG--CP-RAFHKECASLSSIPQGDWYCKYC 598
G ++ CD C FH C L++ P+G W+C C
Sbjct: 21 GEMIGCDNPDCSIEWFHFACVGLTTKPRGKWFCPRC 56
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
0.318 0.134 0.398
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 25,405,271
Number of Sequences: 62578
Number of extensions: 1003373
Number of successful extensions: 2256
Number of sequences better than 100.0: 51
Number of HSP's better than 100.0 without gapping: 25
Number of HSP's successfully gapped in prelim test: 26
Number of HSP's that attempted gapping in prelim test: 2146
Number of HSP's gapped (non-prelim): 101
length of query: 935
length of database: 14,973,337
effective HSP length: 108
effective length of query: 827
effective length of database: 8,214,913
effective search space: 6793733051
effective search space used: 6793733051
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 56 (26.2 bits)