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= 002464
(919 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 = 70.1 bits (170), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 29/47 (61%), Positives = 38/47 (80%), Gaps = 2/47 (4%)
Query: 739 KNDDSCGICGDGGELICCDNCPSAFHQACLS--IQDLPTGSWFCSNC 783
KN+D C +C DGGELICCD CP AFH ACLS ++++P+G+W CS+C
Sbjct: 6 KNEDECAVCRDGGELICCDGCPRAFHLACLSPPLREIPSGTWRCSSC 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 = 68.2 bits (165), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 29/47 (61%), Positives = 38/47 (80%), Gaps = 2/47 (4%)
Query: 739 KNDDSCGICGDGGELICCDNCPSAFHQACLS--IQDLPTGSWFCSNC 783
KN+D C +C DGGELICCD CP AFH ACLS ++++P+G+W CS+C
Sbjct: 3 KNEDECAVCRDGGELICCDGCPRAFHLACLSPPLREIPSGTWRCSSC 49
>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 = 63.9 bits (154), Expect = 4e-10, Method: Composition-based stats.
Identities = 24/50 (48%), Positives = 34/50 (68%), Gaps = 2/50 (4%)
Query: 738 DKNDDSCGICGDGGELICCDNCPSAFHQACLS--IQDLPTGSWFCSNCTC 785
D + + C +C DGGEL+CCD CPS++H CL+ + ++P G W C CTC
Sbjct: 6 DHHMEFCRVCKDGGELLCCDTCPSSYHIHCLNPPLPEIPNGEWLCPRCTC 55
>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 = 61.6 bits (148), Expect = 2e-09, Method: Composition-based stats.
Identities = 24/50 (48%), Positives = 34/50 (68%), Gaps = 2/50 (4%)
Query: 738 DKNDDSCGICGDGGELICCDNCPSAFHQACL--SIQDLPTGSWFCSNCTC 785
D + + C +C DGGEL+CCD CPS++H CL ++ ++P G W C CTC
Sbjct: 6 DHHMEFCRVCKDGGELLCCDTCPSSYHIHCLRPALYEVPDGEWQCPRCTC 55
>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 = 58.9 bits (141), Expect = 1e-08, Method: Composition-based stats.
Identities = 20/46 (43%), Positives = 31/46 (67%), Gaps = 2/46 (4%)
Query: 740 NDDSCGICGDGGELICCDNCPSAFHQACL--SIQDLPTGSWFCSNC 783
N+D C +C +GGEL+CC+ CP FH +C ++ + P+G W C+ C
Sbjct: 3 NEDWCAVCQNGGELLCCEKCPKVFHLSCHVPTLTNFPSGEWICTFC 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 = 58.5 bits (140), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 21/50 (42%), Positives = 32/50 (64%), Gaps = 2/50 (4%)
Query: 736 EDDKNDDSCGICGDGGELICCDNCPSAFHQAC--LSIQDLPTGSWFCSNC 783
+DD N+D C +C +GG+L+CC+ CP FH C ++ P+G W C+ C
Sbjct: 2 DDDPNEDWCAVCQNGGDLLCCEKCPKVFHLTCHVPTLLSFPSGDWICTFC 51
>pdb|2L5U|A Chain A, Structure Of The First Phd Finger (Phd1) From Chd4 (Mi2b)
Length = 61
Score = 53.9 bits (128), Expect = 4e-07, Method: Composition-based stats.
Identities = 24/56 (42%), Positives = 32/56 (57%), Gaps = 6/56 (10%)
Query: 730 GTVETDEDDKNDDSCGICGDGGELICCDNCPSAFHQACL--SIQDLPTGSWFCSNC 783
G+ ETD + D C +C GGE+I CD CP A+H CL ++ P G W C +C
Sbjct: 4 GSYETD----HQDYCEVCQQGGEIILCDTCPRAYHMVCLDPDMEKAPEGKWSCPHC 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 = 52.4 bits (124), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 36/102 (35%), Positives = 50/102 (49%), Gaps = 16/102 (15%)
Query: 727 TRAGTVETDEDDKNDDSCGICGDGGELICCD--NCPSAFHQACLSIQDLPTGSWFCSNCT 784
+ A ++T+ ++D C CGDGGEL+ CD +CP A+H CL++ P G W C
Sbjct: 1 SNARKIKTEPKQMHEDYCFQCGDGGELVMCDKKDCPKAYHLLCLNLTQPPYGKWECPWHQ 60
Query: 785 CWICGDLVNDKEASSSFDALKCSQCEHKYHGECLKDMSKGAV 826
C C A+ SF C C H + KD KGA+
Sbjct: 61 CDECSS------AAVSF----CEFCPHSF----CKDHEKGAL 88
>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 = 43.9 bits (102), Expect = 4e-04, Method: Composition-based stats.
Identities = 16/46 (34%), Positives = 25/46 (54%), Gaps = 2/46 (4%)
Query: 740 NDDSCGICGDGGELICCDNCPSAFHQACLS--IQDLPTGSWFCSNC 783
++D C +C G+L+ CD C +H CL ++ +P G W C C
Sbjct: 4 HEDFCSVCRKSGQLLMCDTCSRVYHLDCLDPPLKTIPKGMWICPRC 49
>pdb|2KU3|A Chain A, Solution Structure Of Brd1 Phd1 Finger
Length = 71
Score = 41.2 bits (95), Expect = 0.003, Method: Composition-based stats.
Identities = 18/48 (37%), Positives = 23/48 (47%), Gaps = 5/48 (10%)
Query: 741 DDSCGICGDGGE-----LICCDNCPSAFHQACLSIQDLPTGSWFCSNC 783
D C IC DG ++ CD C A HQ C + +P G W C +C
Sbjct: 16 DAVCSICMDGESQNSNVILFCDMCNLAVHQECYGVPYIPEGQWLCRHC 63
>pdb|2RO1|A Chain A, Nmr Solution Structures Of Human Kap1 Phd
Finger-Bromodomain
Length = 189
Score = 39.7 bits (91), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 34/140 (24%), Positives = 59/140 (42%), Gaps = 10/140 (7%)
Query: 744 CGICGDGGELICCDNCPSAFHQAC--LSIQDLPTGSWFCSNCTCWICGDLVNDKEASSSF 801
C +C G+L+ C+ C FH C ++QD+P W CS C + DL +++ S S
Sbjct: 5 CRVCQKPGDLVMCNQCEFCFHLDCHLPALQDVPGEEWSCS--LCHVLPDL-KEEDGSLSL 61
Query: 802 DALKCSQCEHKYHGECLKDMSKGAVSEAWFCNQSCQEVYSGLHSHIGIINHAADGFSWTL 861
D + K + + V A FC++ C+ ++ ++ TL
Sbjct: 62 DGADSTGVVAKLSPANQRKCER--VLLALFCHEPCRPLHQLATDSTFSLDQPGGTLDLTL 119
Query: 862 LRCIHEDQ---KVHSAQRFA 878
+R +++ S Q FA
Sbjct: 120 IRARLQEKLSPPYSSPQEFA 139
>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 = 39.3 bits (90), Expect = 0.010, Method: Composition-based stats.
Identities = 18/36 (50%), Positives = 21/36 (58%), Gaps = 3/36 (8%)
Query: 751 GELICCDN--CP-SAFHQACLSIQDLPTGSWFCSNC 783
GE+I CDN CP FH AC+ + P G WFC C
Sbjct: 20 GEMIGCDNPDCPIEWFHFACVDLTTKPKGKWFCPRC 55
>pdb|2L43|A Chain A, Structural Basis For Histone Code Recognition By
Brpf2-Phd1 Finger
Length = 88
Score = 38.9 bits (89), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 18/48 (37%), Positives = 23/48 (47%), Gaps = 5/48 (10%)
Query: 741 DDSCGICGDGGE-----LICCDNCPSAFHQACLSIQDLPTGSWFCSNC 783
D C IC DG ++ CD C A HQ C + +P G W C +C
Sbjct: 25 DAVCSICMDGESQNSNVILFCDMCNLAVHQECYGVPYIPEGQWLCRHC 72
>pdb|1X4I|A Chain A, Solution Structure Of Phd Domain In Inhibitor Of Growth
Protein 3 (Ing3)
Length = 70
Score = 38.9 bits (89), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 16/37 (43%), Positives = 22/37 (59%), Gaps = 3/37 (8%)
Query: 751 GELICCDN--CP-SAFHQACLSIQDLPTGSWFCSNCT 784
GE++ CDN CP FH C+ + + P G W+C CT
Sbjct: 17 GEMVGCDNQDCPIEWFHYGCVGLTEAPKGKWYCPQCT 53
>pdb|2YQL|A Chain A, Solution Structure Of The Phd Domain In Phd Finger Protein
21a
Length = 56
Score = 38.9 bits (89), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 25/46 (54%), Gaps = 2/46 (4%)
Query: 740 NDDSCGICGDGGELICCDNCPSAFHQACL--SIQDLPTGSWFCSNC 783
++D C +C G+L+ CD C +H CL ++ +P G W C C
Sbjct: 8 HEDFCSVCRKSGQLLMCDTCSRVYHLDCLDPPLKTIPKGMWICPRC 53
>pdb|1F62|A Chain A, Wstf-Phd
Length = 51
Score = 38.5 bits (88), Expect = 0.017, Method: Composition-based stats.
Identities = 19/45 (42%), Positives = 24/45 (53%), Gaps = 5/45 (11%)
Query: 744 CGICGDGGE---LICCDNCPSAFHQACL--SIQDLPTGSWFCSNC 783
C +C GE LI CD C AFH CL ++ ++P G W C C
Sbjct: 3 CKVCRKKGEDDKLILCDECNKAFHLFCLRPALYEVPDGEWQCPAC 47
>pdb|2G6Q|A Chain A, Crystal Structure Of Ing2 Phd Domain In Complex With
H3k4me3 Peptide
Length = 62
Score = 38.1 bits (87), Expect = 0.020, Method: Composition-based stats.
Identities = 20/51 (39%), Positives = 28/51 (54%), Gaps = 5/51 (9%)
Query: 738 DKNDDSCGICG--DGGELICCDN--CP-SAFHQACLSIQDLPTGSWFCSNC 783
D N+ + +C GE+I CDN CP FH +C+S+ P G W+C C
Sbjct: 7 DPNEPTYCLCNQVSYGEMIGCDNEQCPIEWFHFSCVSLTYKPKGKWYCPKC 57
>pdb|2QIC|A Chain A, Crystal Structure Of The Ing1 Phd Finger In Complex With A
Histone H3k4me3 Peptide
Length = 62
Score = 37.4 bits (85), Expect = 0.034, Method: Composition-based stats.
Identities = 19/51 (37%), Positives = 27/51 (52%), Gaps = 5/51 (9%)
Query: 738 DKNDDSCGICG--DGGELICCDN--CP-SAFHQACLSIQDLPTGSWFCSNC 783
D N+ + +C GE+I CDN CP FH +C+ + P G W+C C
Sbjct: 7 DPNEPTYCLCNQVSYGEMIGCDNDECPIEWFHFSCVGLNHKPKGKWYCPKC 57
>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 = 37.4 bits (85), Expect = 0.041, Method: Composition-based stats.
Identities = 16/37 (43%), Positives = 21/37 (56%), Gaps = 3/37 (8%)
Query: 751 GELICCDNCPSA---FHQACLSIQDLPTGSWFCSNCT 784
GE+I CDN + FH AC+ + P G WFC C+
Sbjct: 21 GEMIGCDNPDCSIEWFHFACVGLTTKPRGKWFCPRCS 57
>pdb|2K1J|A Chain A, Plan Homeodomain Finger Of Tumour Supressor Ing4
Length = 63
Score = 37.4 bits (85), Expect = 0.041, Method: Composition-based stats.
Identities = 16/37 (43%), Positives = 21/37 (56%), Gaps = 3/37 (8%)
Query: 751 GELICCDNCPSA---FHQACLSIQDLPTGSWFCSNCT 784
GE+I CDN + FH AC+ + P G WFC C+
Sbjct: 21 GEMIGCDNPDCSIEWFHFACVGLTTKPRGKWFCPRCS 57
>pdb|2LRI|C Chain C, Nmr Structure Of The Second Phd Finger Of Aire (aire-phd2)
Length = 66
Score = 37.4 bits (85), Expect = 0.042, Method: Composition-based stats.
Identities = 14/38 (36%), Positives = 23/38 (60%)
Query: 730 GTVETDEDDKNDDSCGICGDGGELICCDNCPSAFHQAC 767
G +E ++ CG+CGDG +++ C +C +AFH C
Sbjct: 1 GAMEGQQNLAPGARCGVCGDGTDVLRCTHCAAAFHWRC 38
>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 = 0.047, Method: Compositional matrix adjust.
Identities = 21/57 (36%), Positives = 29/57 (50%), Gaps = 9/57 (15%)
Query: 736 EDDKNDDSCGICGDGGELICCDNCPSAFHQAC----LSIQDLPT-----GSWFCSNC 783
+ D D+ C C +GG LICCD C +AF + C L ++L T W+C C
Sbjct: 57 DSDGMDEQCRWCAEGGNLICCDFCHNAFCKKCILRNLGRKELSTIMDENNQWYCYIC 113
>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 = 37.0 bits (84), Expect = 0.049, Method: Composition-based stats.
Identities = 16/37 (43%), Positives = 21/37 (56%), Gaps = 3/37 (8%)
Query: 751 GELICCDNCPSA---FHQACLSIQDLPTGSWFCSNCT 784
GE+I CDN + FH AC+ + P G WFC C+
Sbjct: 16 GEMIGCDNPDCSIEWFHFACVGLTTKPRGKWFCPRCS 52
>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 = 0.053, Method: Compositional matrix adjust.
Identities = 21/57 (36%), Positives = 29/57 (50%), Gaps = 9/57 (15%)
Query: 736 EDDKNDDSCGICGDGGELICCDNCPSAFHQAC----LSIQDLPT-----GSWFCSNC 783
+ D D+ C C +GG LICCD C +AF + C L ++L T W+C C
Sbjct: 58 DSDGMDEQCRWCAEGGNLICCDFCHNAFCKKCILRNLGRKELSTIMDENNQWYCYIC 114
>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 = 36.6 bits (83), Expect = 0.063, Method: Composition-based stats.
Identities = 17/51 (33%), Positives = 26/51 (50%), Gaps = 7/51 (13%)
Query: 751 GELICCDN--CP-SAFHQACLSIQDLPTGSWFCSNCTCWICGDLVNDKEAS 798
G ++ CDN CP FH C+ ++ P G W+CS C ++ N + S
Sbjct: 37 GPMVACDNPACPFEWFHYGCVGLKQAPKGKWYCSK----DCKEIANQRSKS 83
>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 = 36.2 bits (82), Expect = 0.078, Method: Compositional matrix adjust.
Identities = 21/57 (36%), Positives = 29/57 (50%), Gaps = 9/57 (15%)
Query: 736 EDDKNDDSCGICGDGGELICCDNCPSAFHQAC----LSIQDLPT-----GSWFCSNC 783
+ D D+ C C +GG LICCD C +AF + C L ++L T W+C C
Sbjct: 52 DSDGMDEQCRWCAEGGNLICCDFCHNAFCKKCILRNLGRRELSTIMDENNQWYCYIC 108
>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 = 35.8 bits (81), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 31/108 (28%), Positives = 46/108 (42%), Gaps = 11/108 (10%)
Query: 743 SCGICGDGGELI---CCDNCPSAFHQACLSIQDLPT--GSWFCSNCTCWICGDLVNDKEA 797
+C +C G+L+ C C +H CL I P W C C +C N K++
Sbjct: 9 NCAVCDSPGDLLDQFFCTTCGQHYHGMCLDIAVTPLKRAGWQCPECK--VC---QNCKQS 63
Query: 798 SSSFDALKCSQCEHKYHGECLKDMSKGAVSEAWFCNQSCQEVYSGLHS 845
L C C+ YH CL+ + K + W C ++C+ SG S
Sbjct: 64 GEDSKMLVCDTCDKGYHTFCLQPVMKSVPTNGWKC-KNCRICISGPSS 110
>pdb|1WES|A Chain A, Solution Structure Of Phd Domain In Inhibitor Of Growth
Family, Member 1-Like
Length = 71
Score = 35.4 bits (80), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 17/36 (47%), Positives = 22/36 (61%), Gaps = 3/36 (8%)
Query: 751 GELICCDN--CP-SAFHQACLSIQDLPTGSWFCSNC 783
GE+I CDN CP FH +C+S+ P G W+C C
Sbjct: 27 GEMIGCDNEQCPIEWFHFSCVSLTYKPKGKWYCPKC 62
>pdb|2M1R|A Chain A, Phd Domain Of Ing4 N214d Mutant
Length = 63
Score = 35.4 bits (80), Expect = 0.15, Method: Composition-based stats.
Identities = 15/37 (40%), Positives = 21/37 (56%), Gaps = 3/37 (8%)
Query: 751 GELICCDNCPSA---FHQACLSIQDLPTGSWFCSNCT 784
GE+I CD+ + FH AC+ + P G WFC C+
Sbjct: 21 GEMIGCDDPDCSIEWFHFACVGLTTKPRGKWFCPRCS 57
>pdb|2E6R|A Chain A, Solution Structure Of The Phd Domain In Smcy Protein
Length = 92
Score = 34.7 bits (78), Expect = 0.24, Method: Composition-based stats.
Identities = 17/50 (34%), Positives = 23/50 (46%), Gaps = 5/50 (10%)
Query: 744 CGICGDGGE---LICCDNCPSAFHQACL--SIQDLPTGSWFCSNCTCWIC 788
C +C G E L+ CD C +H CL + ++P G W C C C
Sbjct: 19 CQVCSRGDEDDKLLFCDGCDDNYHIFCLLPPLPEIPRGIWRCPKCILAEC 68
>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 = 0.25, Method: Composition-based stats.
Identities = 15/42 (35%), Positives = 19/42 (45%), Gaps = 2/42 (4%)
Query: 744 CGICGDGGELICCDNCPSAFHQACLSIQDLPTG--SWFCSNC 783
C DG +I CD+C +H C+ I P WFC C
Sbjct: 24 CNKPDDGSPMIGCDDCDDWYHWPCVGIMAAPPEEMQWFCPKC 65
>pdb|1WEU|A Chain A, Solution Structure Of Phd Domain In Ing1-Like Protein
Bac25009
Length = 91
Score = 34.3 bits (77), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 17/38 (44%), Positives = 21/38 (55%), Gaps = 5/38 (13%)
Query: 751 GELICCDNCPSA----FHQACLSIQDLPTGSWFCSNCT 784
GE+I CDN P FH AC+ + P G WFC C+
Sbjct: 47 GEMIGCDN-PDCSIEWFHFACVGLTTKPRGKWFCPRCS 83
>pdb|1FP0|A Chain A, Solution Structure Of The Phd Domain From The Kap-1
Corepressor
Length = 88
Score = 34.3 bits (77), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 22/59 (37%), Positives = 30/59 (50%), Gaps = 5/59 (8%)
Query: 730 GTVETDEDDKNDDS---CGICGDGGELICCDNCPSAFHQAC--LSIQDLPTGSWFCSNC 783
G+ DE DDS C +C G+L+ C+ C FH C ++QD+P W CS C
Sbjct: 11 GSDIIDEFGTLDDSATICRVCQKPGDLVMCNQCEFCFHLDCHLPALQDVPGEEWSCSLC 69
>pdb|1WEN|A Chain A, Solution Structure Of Phd Domain In Ing1-Like Protein
Bac25079
Length = 71
Score = 33.9 bits (76), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 17/38 (44%), Positives = 21/38 (55%), Gaps = 5/38 (13%)
Query: 751 GELICCDNCPSA----FHQACLSIQDLPTGSWFCSNCT 784
GE+I CDN P FH AC+ + P G WFC C+
Sbjct: 27 GEMIGCDN-PDCSIEWFHFACVGLTTKPRGKWFCPRCS 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 = 32.7 bits (73), Expect = 0.84, Method: Composition-based stats.
Identities = 16/47 (34%), Positives = 24/47 (51%), Gaps = 6/47 (12%)
Query: 743 SCGICG---DGGELICCDNCPSAFHQACLS--IQDLPT-GSWFCSNC 783
+C +CG D + + CD C AFH CL + +P+ W+C C
Sbjct: 176 ACHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 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 = 32.7 bits (73), Expect = 0.90, Method: Composition-based stats.
Identities = 16/47 (34%), Positives = 24/47 (51%), Gaps = 6/47 (12%)
Query: 743 SCGICG---DGGELICCDNCPSAFHQACLS--IQDLPT-GSWFCSNC 783
+C +CG D + + CD C AFH CL + +P+ W+C C
Sbjct: 192 ACHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 238
>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 = 31.2 bits (69), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 33/58 (56%), Gaps = 10/58 (17%)
Query: 743 SCGICG---DGGELICCDNCPSAFHQACLS--IQDLPTGSWFCSNCTCWICGDLVNDK 795
SC +CG + +L+ CD+C +H CL+ + + P GSW +C +C +L+ +K
Sbjct: 60 SCILCGTSENDDQLLFCDDCDRGYHMYCLNPPVAEPPEGSW-----SCHLCWELLKEK 112
Score = 30.4 bits (67), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 25/88 (28%), Positives = 36/88 (40%), Gaps = 12/88 (13%)
Query: 752 ELICCDNCPSAFHQACLSI-----QDLPTGSWFCSNC-TCWICGDLVNDKEASSSFDALK 805
EL+ C +C + H CL + + T W C C +C +CG ND + L
Sbjct: 22 ELVSCADCGRSGHPTCLQFTLNMTEAVKTYKWQCIECKSCILCGTSENDDQL------LF 75
Query: 806 CSQCEHKYHGECLKDMSKGAVSEAWFCN 833
C C+ YH CL +W C+
Sbjct: 76 CDDCDRGYHMYCLNPPVAEPPEGSWSCH 103
>pdb|2LV9|A Chain A, Solution Nmr Structure Of The Phd Domain Of Human Mll5,
Northeast Structural Genomics Consortium Target Hr6512a
Length = 98
Score = 30.8 bits (68), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 16/42 (38%), Positives = 21/42 (50%), Gaps = 3/42 (7%)
Query: 744 CGICGDGGELICCDNCPSAFHQACLSI--QDLPTGSWFCSNC 783
CG D G +ICCD C H C+ I Q +P ++ C C
Sbjct: 33 CGFTHDDGYMICCDKCSVWQHIDCMGIDRQHIPD-TYLCERC 73
>pdb|3ZVZ|B Chain B, Phd Finger Of Human Uhrf1
Length = 57
Score = 30.8 bits (68), Expect = 3.6, Method: Composition-based stats.
Identities = 16/47 (34%), Positives = 24/47 (51%), Gaps = 6/47 (12%)
Query: 743 SCGICG---DGGELICCDNCPSAFHQACLS--IQDLPT-GSWFCSNC 783
+C +CG D + + CD C AFH CL + +P+ W+C C
Sbjct: 7 ACHLCGGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 53
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
0.317 0.132 0.401
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 27,191,492
Number of Sequences: 62578
Number of extensions: 1135870
Number of successful extensions: 2521
Number of sequences better than 100.0: 57
Number of HSP's better than 100.0 without gapping: 28
Number of HSP's successfully gapped in prelim test: 29
Number of HSP's that attempted gapping in prelim test: 2444
Number of HSP's gapped (non-prelim): 84
length of query: 919
length of database: 14,973,337
effective HSP length: 108
effective length of query: 811
effective length of database: 8,214,913
effective search space: 6662294443
effective search space used: 6662294443
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)