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= 005906
(670 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 = 54.3 bits (129), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 22/48 (45%), Positives = 34/48 (70%), Gaps = 2/48 (4%)
Query: 358 KQNDEICSICQYGGELVLCDDCPSSFHKSCLV--LNDLPKGNWFCPSC 403
++N++ C++C+ GGEL+ CD CP +FH +CL L ++P G W C SC
Sbjct: 5 QKNEDECAVCRDGGELICCDGCPRAFHLACLSPPLREIPSGTWRCSSC 52
>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 = 52.8 bits (125), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 22/48 (45%), Positives = 33/48 (68%), Gaps = 2/48 (4%)
Query: 358 KQNDEICSICQYGGELVLCDDCPSSFHKSCLV--LNDLPKGNWFCPSC 403
+N++ C++C+ GGEL+ CD CP +FH +CL L ++P G W C SC
Sbjct: 2 SKNEDECAVCRDGGELICCDGCPRAFHLACLSPPLREIPSGTWRCSSC 49
>pdb|2L5U|A Chain A, Structure Of The First Phd Finger (Phd1) From Chd4 (Mi2b)
Length = 61
Score = 52.4 bits (124), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 22/53 (41%), Positives = 32/53 (60%), Gaps = 2/53 (3%)
Query: 353 ITSDEKQNDEICSICQYGGELVLCDDCPSSFHKSCL--VLNDLPKGNWFCPSC 403
+ S E + + C +CQ GGE++LCD CP ++H CL + P+G W CP C
Sbjct: 3 LGSYETDHQDYCEVCQQGGEIILCDTCPRAYHMVCLDPDMEKAPEGKWSCPHC 55
>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 = 52.4 bits (124), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 24/46 (52%), Positives = 30/46 (65%), Gaps = 2/46 (4%)
Query: 362 EICSICQYGGELVLCDDCPSSFHKSCL--VLNDLPKGNWFCPSCCC 405
E C +C+ GGEL+ CD CPSS+H CL L ++P G W CP C C
Sbjct: 10 EFCRVCKDGGELLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTC 55
>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 = 52.4 bits (124), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 22/51 (43%), Positives = 32/51 (62%), Gaps = 2/51 (3%)
Query: 355 SDEKQNDEICSICQYGGELVLCDDCPSSFHKSCLV--LNDLPKGNWFCPSC 403
SD+ N++ C++CQ GG+L+ C+ CP FH +C V L P G+W C C
Sbjct: 1 SDDDPNEDWCAVCQNGGDLLCCEKCPKVFHLTCHVPTLLSFPSGDWICTFC 51
>pdb|3O33|A Chain A, Crystal Structure Of Trim24 Phd-Bromo In The Free State
pdb|3O33|B Chain B, Crystal Structure Of Trim24 Phd-Bromo In The Free State
pdb|3O33|C Chain C, Crystal Structure Of Trim24 Phd-Bromo In The Free State
pdb|3O33|D Chain D, Crystal Structure Of Trim24 Phd-Bromo In The Free State
pdb|3O34|A Chain A, Crystal Structure Of Trim24 Phd-Bromo Complexed With
H3(13-32)k23ac Peptide
pdb|3O35|A Chain A, Crystal Structure Of Trim24 Phd-Bromo Complexed With
H3(23-31)k27ac Peptide
pdb|3O35|B Chain B, Crystal Structure Of Trim24 Phd-Bromo Complexed With
H3(23-31)k27ac Peptide
pdb|3O36|A Chain A, Crystal Structure Of Trim24 Phd-Bromo Complexed With
H4(14-19)k16ac Peptide
pdb|3O36|B Chain B, Crystal Structure Of Trim24 Phd-Bromo Complexed With
H4(14-19)k16ac Peptide
pdb|3O37|A Chain A, Crystal Structure Of Trim24 Phd-Bromo Complexed With
H3(1-10)k4 Peptide
pdb|3O37|B Chain B, Crystal Structure Of Trim24 Phd-Bromo Complexed With
H3(1-10)k4 Peptide
pdb|3O37|C Chain C, Crystal Structure Of Trim24 Phd-Bromo Complexed With
H3(1-10)k4 Peptide
pdb|3O37|D Chain D, Crystal Structure Of Trim24 Phd-Bromo Complexed With
H3(1-10)k4 Peptide
Length = 184
Score = 51.6 bits (122), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 22/46 (47%), Positives = 29/46 (63%), Gaps = 2/46 (4%)
Query: 360 NDEICSICQYGGELVLCDDCPSSFHKSCLV--LNDLPKGNWFCPSC 403
N++ C++CQ GGEL+ C+ CP FH SC V L + P G W C C
Sbjct: 3 NEDWCAVCQNGGELLCCEKCPKVFHLSCHVPTLTNFPSGEWICTFC 48
>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 = 51.6 bits (122), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 24/46 (52%), Positives = 30/46 (65%), Gaps = 2/46 (4%)
Query: 362 EICSICQYGGELVLCDDCPSSFHKSCL--VLNDLPKGNWFCPSCCC 405
E C +C+ GGEL+ CD CPSS+H CL L ++P G W CP C C
Sbjct: 10 EFCRVCKDGGELLCCDTCPSSYHIHCLRPALYEVPDGEWQCPRCTC 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 = 48.1 bits (113), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 28/72 (38%), Positives = 36/72 (50%), Gaps = 2/72 (2%)
Query: 354 TSDEKQNDEICSICQYGGELVLCD--DCPSSFHKSCLVLNDLPKGNWFCPSCCCRICGIG 411
T ++ +++ C C GGELV+CD DCP ++H CL L P G W CP C C
Sbjct: 8 TEPKQMHEDYCFQCGDGGELVMCDKKDCPKAYHLLCLNLTQPPYGKWECPWHQCDECSSA 67
Query: 412 KRKFEEKTEHSV 423
F E HS
Sbjct: 68 AVSFCEFCPHSF 79
>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 = 47.4 bits (111), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 19/46 (41%), Positives = 29/46 (63%), Gaps = 2/46 (4%)
Query: 360 NDEICSICQYGGELVLCDDCPSSFHKSCL--VLNDLPKGNWFCPSC 403
+++ CS+C+ G+L++CD C +H CL L +PKG W CP C
Sbjct: 4 HEDFCSVCRKSGQLLMCDTCSRVYHLDCLDPPLKTIPKGMWICPRC 49
>pdb|2YQL|A Chain A, Solution Structure Of The Phd Domain In Phd Finger Protein
21a
Length = 56
Score = 46.6 bits (109), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 20/52 (38%), Positives = 31/52 (59%), Gaps = 2/52 (3%)
Query: 354 TSDEKQNDEICSICQYGGELVLCDDCPSSFHKSCL--VLNDLPKGNWFCPSC 403
+S +++ CS+C+ G+L++CD C +H CL L +PKG W CP C
Sbjct: 2 SSGSSGHEDFCSVCRKSGQLLMCDTCSRVYHLDCLDPPLKTIPKGMWICPRC 53
>pdb|1F62|A Chain A, Wstf-Phd
Length = 51
Score = 43.5 bits (101), Expect = 4e-04, Method: Composition-based stats.
Identities = 20/45 (44%), Positives = 28/45 (62%), Gaps = 5/45 (11%)
Query: 364 CSICQYGGE---LVLCDDCPSSFHKSCL--VLNDLPKGNWFCPSC 403
C +C+ GE L+LCD+C +FH CL L ++P G W CP+C
Sbjct: 3 CKVCRKKGEDDKLILCDECNKAFHLFCLRPALYEVPDGEWQCPAC 47
>pdb|1X4I|A Chain A, Solution Structure Of Phd Domain In Inhibitor Of Growth
Protein 3 (Ing3)
Length = 70
Score = 43.1 bits (100), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 22/44 (50%), Positives = 27/44 (61%), Gaps = 4/44 (9%)
Query: 363 ICSICQYGGELVLCD--DCP-SSFHKSCLVLNDLPKGNWFCPSC 403
IC+ YG E+V CD DCP FH C+ L + PKG W+CP C
Sbjct: 10 ICNQVSYG-EMVGCDNQDCPIEWFHYGCVGLTEAPKGKWYCPQC 52
>pdb|2RO1|A Chain A, Nmr Solution Structures Of Human Kap1 Phd
Finger-Bromodomain
Length = 189
Score = 39.7 bits (91), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 18/43 (41%), Positives = 24/43 (55%), Gaps = 2/43 (4%)
Query: 363 ICSICQYGGELVLCDDCPSSFHKSCLV--LNDLPKGNWFCPSC 403
IC +CQ G+LV+C+ C FH C + L D+P W C C
Sbjct: 4 ICRVCQKPGDLVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLC 46
>pdb|2QIC|A Chain A, Crystal Structure Of The Ing1 Phd Finger In Complex With A
Histone H3k4me3 Peptide
Length = 62
Score = 39.3 bits (90), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 19/36 (52%), Positives = 24/36 (66%), Gaps = 3/36 (8%)
Query: 371 GELVLCD--DCP-SSFHKSCLVLNDLPKGNWFCPSC 403
GE++ CD +CP FH SC+ LN PKG W+CP C
Sbjct: 22 GEMIGCDNDECPIEWFHFSCVGLNHKPKGKWYCPKC 57
>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 = 38.9 bits (89), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 19/36 (52%), Positives = 23/36 (63%), Gaps = 3/36 (8%)
Query: 371 GELVLCD--DCPSS-FHKSCLVLNDLPKGNWFCPSC 403
GE++ CD DCP FH +C+ L PKG WFCP C
Sbjct: 20 GEMIGCDNPDCPIEWFHFACVDLTTKPKGKWFCPRC 55
>pdb|2E6R|A Chain A, Solution Structure Of The Phd Domain In Smcy Protein
Length = 92
Score = 38.5 bits (88), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 19/46 (41%), Positives = 27/46 (58%), Gaps = 5/46 (10%)
Query: 363 ICSICQYGGE---LVLCDDCPSSFHKSCLV--LNDLPKGNWFCPSC 403
IC +C G E L+ CD C ++H CL+ L ++P+G W CP C
Sbjct: 18 ICQVCSRGDEDDKLLFCDGCDDNYHIFCLLPPLPEIPRGIWRCPKC 63
>pdb|1WES|A Chain A, Solution Structure Of Phd Domain In Inhibitor Of Growth
Family, Member 1-Like
Length = 71
Score = 37.7 bits (86), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 18/36 (50%), Positives = 23/36 (63%), Gaps = 3/36 (8%)
Query: 371 GELVLCDD--CP-SSFHKSCLVLNDLPKGNWFCPSC 403
GE++ CD+ CP FH SC+ L PKG W+CP C
Sbjct: 27 GEMIGCDNEQCPIEWFHFSCVSLTYKPKGKWYCPKC 62
>pdb|1FP0|A Chain A, Solution Structure Of The Phd Domain From The Kap-1
Corepressor
Length = 88
Score = 37.7 bits (86), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 18/43 (41%), Positives = 24/43 (55%), Gaps = 2/43 (4%)
Query: 363 ICSICQYGGELVLCDDCPSSFHKSCLV--LNDLPKGNWFCPSC 403
IC +CQ G+LV+C+ C FH C + L D+P W C C
Sbjct: 27 ICRVCQKPGDLVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLC 69
>pdb|2G6Q|A Chain A, Crystal Structure Of Ing2 Phd Domain In Complex With
H3k4me3 Peptide
Length = 62
Score = 37.7 bits (86), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 18/36 (50%), Positives = 23/36 (63%), Gaps = 3/36 (8%)
Query: 371 GELVLCDD--CP-SSFHKSCLVLNDLPKGNWFCPSC 403
GE++ CD+ CP FH SC+ L PKG W+CP C
Sbjct: 22 GEMIGCDNEQCPIEWFHFSCVSLTYKPKGKWYCPKC 57
>pdb|2KU3|A Chain A, Solution Structure Of Brd1 Phd1 Finger
Length = 71
Score = 37.4 bits (85), Expect = 0.027, Method: Composition-based stats.
Identities = 16/48 (33%), Positives = 24/48 (50%), Gaps = 5/48 (10%)
Query: 361 DEICSIC-----QYGGELVLCDDCPSSFHKSCLVLNDLPKGNWFCPSC 403
D +CSIC Q ++ CD C + H+ C + +P+G W C C
Sbjct: 16 DAVCSICMDGESQNSNVILFCDMCNLAVHQECYGVPYIPEGQWLCRHC 63
>pdb|2M1R|A Chain A, Phd Domain Of Ing4 N214d Mutant
Length = 63
Score = 37.0 bits (84), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 17/36 (47%), Positives = 22/36 (61%), Gaps = 3/36 (8%)
Query: 371 GELVLCDDCPSS---FHKSCLVLNDLPKGNWFCPSC 403
GE++ CDD S FH +C+ L P+G WFCP C
Sbjct: 21 GEMIGCDDPDCSIEWFHFACVGLTTKPRGKWFCPRC 56
>pdb|2JM1|A Chain A, Structures And Chemical Shift Assignments For The Add
Domain Of The Atrx Protein
Length = 141
Score = 37.0 bits (84), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 20/54 (37%), Positives = 28/54 (51%), Gaps = 1/54 (1%)
Query: 338 ILCKNRSSTRSQHDSITSDEKQNDEICSICQYGGELVLCDDCPSSFHKSCLVLN 391
++CKN D I+ D DE C C GG L+ CD C ++F K C++ N
Sbjct: 40 LICKN-CFKYYMSDDISRDSDGMDEQCRWCAEGGNLICCDFCHNAFCKKCILRN 92
>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 = 37.0 bits (84), Expect = 0.039, Method: Compositional matrix adjust.
Identities = 20/54 (37%), Positives = 28/54 (51%), Gaps = 1/54 (1%)
Query: 338 ILCKNRSSTRSQHDSITSDEKQNDEICSICQYGGELVLCDDCPSSFHKSCLVLN 391
++CKN D I+ D DE C C GG L+ CD C ++F K C++ N
Sbjct: 41 LICKN-CFKYYMSDDISRDSDGMDEQCRWCAEGGNLICCDFCHNAFCKKCILRN 93
>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 = 36.6 bits (83), Expect = 0.046, Method: Compositional matrix adjust.
Identities = 20/54 (37%), Positives = 28/54 (51%), Gaps = 1/54 (1%)
Query: 338 ILCKNRSSTRSQHDSITSDEKQNDEICSICQYGGELVLCDDCPSSFHKSCLVLN 391
++CKN D I+ D DE C C GG L+ CD C ++F K C++ N
Sbjct: 35 LICKN-CFKYYMSDDISRDSDGMDEQCRWCAEGGNLICCDFCHNAFCKKCILRN 87
>pdb|2L43|A Chain A, Structural Basis For Histone Code Recognition By
Brpf2-Phd1 Finger
Length = 88
Score = 35.8 bits (81), Expect = 0.076, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 24/48 (50%), Gaps = 5/48 (10%)
Query: 361 DEICSIC-----QYGGELVLCDDCPSSFHKSCLVLNDLPKGNWFCPSC 403
D +CSIC Q ++ CD C + H+ C + +P+G W C C
Sbjct: 25 DAVCSICMDGESQNSNVILFCDMCNLAVHQECYGVPYIPEGQWLCRHC 72
>pdb|2PNX|A Chain A, The Phd Finger Of Ing4 In Complex With An H3k4me3 Histone
Peptide
pdb|2PNX|C Chain C, The Phd Finger Of Ing4 In Complex With An H3k4me3 Histone
Peptide
Length = 55
Score = 35.4 bits (80), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 17/36 (47%), Positives = 22/36 (61%), Gaps = 3/36 (8%)
Query: 371 GELVLCD--DCP-SSFHKSCLVLNDLPKGNWFCPSC 403
GE++ CD DC FH +C+ L P+G WFCP C
Sbjct: 16 GEMIGCDNPDCSIEWFHFACVGLTTKPRGKWFCPRC 51
>pdb|2K1J|A Chain A, Plan Homeodomain Finger Of Tumour Supressor Ing4
Length = 63
Score = 35.4 bits (80), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 16/36 (44%), Positives = 22/36 (61%), Gaps = 3/36 (8%)
Query: 371 GELVLCDDCPSS---FHKSCLVLNDLPKGNWFCPSC 403
GE++ CD+ S FH +C+ L P+G WFCP C
Sbjct: 21 GEMIGCDNPDCSIEWFHFACVGLTTKPRGKWFCPRC 56
>pdb|1WEU|A Chain A, Solution Structure Of Phd Domain In Ing1-Like Protein
Bac25009
Length = 91
Score = 35.0 bits (79), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 16/36 (44%), Positives = 22/36 (61%), Gaps = 3/36 (8%)
Query: 371 GELVLCDDCPSS---FHKSCLVLNDLPKGNWFCPSC 403
GE++ CD+ S FH +C+ L P+G WFCP C
Sbjct: 47 GEMIGCDNPDCSIEWFHFACVGLTTKPRGKWFCPRC 82
>pdb|1WEN|A Chain A, Solution Structure Of Phd Domain In Ing1-Like Protein
Bac25079
Length = 71
Score = 35.0 bits (79), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 16/36 (44%), Positives = 22/36 (61%), Gaps = 3/36 (8%)
Query: 371 GELVLCDDCPSS---FHKSCLVLNDLPKGNWFCPSC 403
GE++ CD+ S FH +C+ L P+G WFCP C
Sbjct: 27 GEMIGCDNPDCSIEWFHFACVGLTTKPRGKWFCPRC 62
>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 = 35.0 bits (79), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 16/36 (44%), Positives = 22/36 (61%), Gaps = 3/36 (8%)
Query: 371 GELVLCDDCPSS---FHKSCLVLNDLPKGNWFCPSC 403
GE++ CD+ S FH +C+ L P+G WFCP C
Sbjct: 21 GEMIGCDNPDCSIEWFHFACVGLTTKPRGKWFCPRC 56
>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 = 34.3 bits (77), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 27/57 (47%), Gaps = 5/57 (8%)
Query: 353 ITSDEKQNDEICSICQ--YGGELVLCDD--CPSS-FHKSCLVLNDLPKGNWFCPSCC 404
+T +E+ C+ G +V CD+ CP FH C+ L PKG W+C C
Sbjct: 17 VTEGNNNQEEVYCFCRNVSYGPMVACDNPACPFEWFHYGCVGLKQAPKGKWYCSKDC 73
>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 = 34.3 bits (77), Expect = 0.26, Method: Composition-based stats.
Identities = 17/50 (34%), Positives = 24/50 (48%), Gaps = 5/50 (10%)
Query: 363 ICSICQY---GGELVLCDDCPSSFHKSCLVLNDLP--KGNWFCPSCCCRI 407
IC C G ++ CDDC +H C+ + P + WFCP C +I
Sbjct: 20 ICPGCNKPDDGSPMIGCDDCDDWYHWPCVGIMAAPPEEMQWFCPKCANKI 69
>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 = 33.5 bits (75), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 22/85 (25%), Positives = 38/85 (44%), Gaps = 14/85 (16%)
Query: 364 CSICQYGGELV---LCDDCPSSFHKSCL--VLNDLPKGNWFCPSCCCRICGIGKRKFEEK 418
C++C G+L+ C C +H CL + L + W CP C ++C K+ E
Sbjct: 10 CAVCDSPGDLLDQFFCTTCGQHYHGMCLDIAVTPLKRAGWQCPEC--KVCQNCKQSGE-- 65
Query: 419 TEHSVDDVLRICGQCEHNFHVGCIE 443
D + +C C+ +H C++
Sbjct: 66 -----DSKMLVCDTCDKGYHTFCLQ 85
Score = 31.6 bits (70), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 18/52 (34%), Positives = 28/52 (53%), Gaps = 7/52 (13%)
Query: 362 EICSICQYGGE---LVLCDDCPSSFHKSCL--VLNDLPKGNWFCPSCCCRIC 408
++C C+ GE +++CD C +H CL V+ +P W C + CRIC
Sbjct: 55 KVCQNCKQSGEDSKMLVCDTCDKGYHTFCLQPVMKSVPTNGWKCKN--CRIC 104
>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 = 31.2 bits (69), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 26/46 (56%), Gaps = 6/46 (13%)
Query: 364 CSIC---QYGGELVLCDDCPSSFHKSCL--VLNDLP-KGNWFCPSC 403
C +C Q + ++CD+C +FH CL L+ +P + W+CP C
Sbjct: 177 CHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 222
Score = 28.9 bits (63), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 15/66 (22%), Positives = 34/66 (51%), Gaps = 13/66 (19%)
Query: 397 NWFCPSCCCRICGIGKRKFEEKTEHSVDDVLRICGQCEHNFHVGCIEKSRAINLNNCSQN 456
N C C C +CG G++ +++ +C +C+ FH+ C++ + + S++
Sbjct: 169 NRLCRVCACHLCG-GRQDPDKQL---------MCDECDMAFHIYCLDPPLS---SVPSED 215
Query: 457 KWFCSD 462
+W+C +
Sbjct: 216 EWYCPE 221
>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 = 31.2 bits (69), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 25/44 (56%), Gaps = 3/44 (6%)
Query: 363 ICSICQYGGELVLCDDCPSSFHKSCL--VLNDLP-KGNWFCPSC 403
+C Q + ++CD+C +FH CL L+ +P + W+CP C
Sbjct: 195 LCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 238
Score = 28.9 bits (63), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 15/66 (22%), Positives = 34/66 (51%), Gaps = 13/66 (19%)
Query: 397 NWFCPSCCCRICGIGKRKFEEKTEHSVDDVLRICGQCEHNFHVGCIEKSRAINLNNCSQN 456
N C C C +CG G++ +++ +C +C+ FH+ C++ + + S++
Sbjct: 185 NRLCRVCACHLCG-GRQDPDKQL---------MCDECDMAFHIYCLDPPLS---SVPSED 231
Query: 457 KWFCSD 462
+W+C +
Sbjct: 232 EWYCPE 237
>pdb|3V43|A Chain A, Crystal Structure Of Moz
Length = 112
Score = 30.0 bits (66), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 23/48 (47%), Gaps = 6/48 (12%)
Query: 362 EICSICQYGGE----LVLCDDCPSSFHKSCL--VLNDLPKGNWFCPSC 403
+ CS C+ G+ ++ CD C FH C L +PKG W C C
Sbjct: 62 KTCSSCRDQGKNADNMLFCDSCDRGFHMECCDPPLTRMPKGMWICQIC 109
>pdb|2LN0|A Chain A, Structure Of Moz
Length = 110
Score = 30.0 bits (66), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 23/48 (47%), Gaps = 6/48 (12%)
Query: 362 EICSICQYGGE----LVLCDDCPSSFHKSCL--VLNDLPKGNWFCPSC 403
+ CS C+ G+ ++ CD C FH C L +PKG W C C
Sbjct: 60 KTCSSCRDQGKNADNMLFCDSCDRGFHMECCDPPLTRMPKGMWICQIC 107
>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 = 29.6 bits (65), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 33/82 (40%), Gaps = 16/82 (19%)
Query: 372 ELVLCDDCPSSFHKSCL-----VLNDLPKGNWFCPSC-CCRICGIGKRKFEEKTEHSVDD 425
ELV C DC S H +CL + + W C C C +CG + DD
Sbjct: 22 ELVSCADCGRSGHPTCLQFTLNMTEAVKTYKWQCIECKSCILCGTSEN----------DD 71
Query: 426 VLRICGQCEHNFHVGCIEKSRA 447
L C C+ +H+ C+ A
Sbjct: 72 QLLFCDDCDRGYHMYCLNPPVA 93
Score = 29.3 bits (64), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 23/43 (53%), Gaps = 2/43 (4%)
Query: 363 ICSICQYGGELVLCDDCPSSFHKSCL--VLNDLPKGNWFCPSC 403
+C + +L+ CDDC +H CL + + P+G+W C C
Sbjct: 63 LCGTSENDDQLLFCDDCDRGYHMYCLNPPVAEPPEGSWSCHLC 105
>pdb|1JEQ|A Chain A, Crystal Structure Of The Ku Heterodimer
pdb|1JEY|A Chain A, Crystal Structure Of The Ku Heterodimer Bound To Dna
Length = 609
Score = 29.3 bits (64), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 16/60 (26%), Positives = 33/60 (55%), Gaps = 4/60 (6%)
Query: 510 EALMENQSKLSVA-LDVMHECFEPI---KDVLTERDLVEDVIFNRRSDLNRLNFQGFYTI 565
+A+ E+QS+ + D+ +C + + K + ++RDL+ V + D N +NF+ Y +
Sbjct: 46 KAMFESQSEDELTPFDMSIQCIQSVYISKIISSDRDLLAVVFYGTEKDKNSVNFKNIYVL 105
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.320 0.135 0.423
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 20,298,185
Number of Sequences: 62578
Number of extensions: 851346
Number of successful extensions: 1743
Number of sequences better than 100.0: 56
Number of HSP's better than 100.0 without gapping: 34
Number of HSP's successfully gapped in prelim test: 22
Number of HSP's that attempted gapping in prelim test: 1659
Number of HSP's gapped (non-prelim): 80
length of query: 670
length of database: 14,973,337
effective HSP length: 105
effective length of query: 565
effective length of database: 8,402,647
effective search space: 4747495555
effective search space used: 4747495555
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 55 (25.8 bits)