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= psy12696
(267 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1WEN|A Chain A, Solution Structure Of Phd Domain In Ing1-Like Protein
Bac25079
Length = 71
Score = 128 bits (321), Expect = 4e-30, Method: Composition-based stats.
Identities = 48/58 (82%), Positives = 54/58 (93%)
Query: 206 DMPVDPNEPTYCVCQQVSYGEMIGCDNPDCPIEWFHFACVSLTTKPKGKWYCPKCTSD 263
DMPVDPNEPTYC+C QVSYGEMIGCDNPDC IEWFHFACV LTTKP+GKW+CP+C+ +
Sbjct: 8 DMPVDPNEPTYCLCHQVSYGEMIGCDNPDCSIEWFHFACVGLTTKPRGKWFCPRCSQE 65
>pdb|2K1J|A Chain A, Plan Homeodomain Finger Of Tumour Supressor Ing4
Length = 63
Score = 127 bits (319), Expect = 6e-30, Method: Compositional matrix adjust.
Identities = 52/63 (82%), Positives = 59/63 (93%)
Query: 205 LDMPVDPNEPTYCVCQQVSYGEMIGCDNPDCPIEWFHFACVSLTTKPKGKWYCPKCTSDR 264
+DMPVDPNEPTYC+C QVSYGEMIGCDNPDC IEWFHFACV LTTKP+GKW+CP+C+ +R
Sbjct: 1 MDMPVDPNEPTYCLCHQVSYGEMIGCDNPDCSIEWFHFACVGLTTKPRGKWFCPRCSQER 60
Query: 265 KKK 267
KKK
Sbjct: 61 KKK 63
>pdb|1WEU|A Chain A, Solution Structure Of Phd Domain In Ing1-Like Protein
Bac25009
Length = 91
Score = 125 bits (314), Expect = 2e-29, Method: Compositional matrix adjust.
Identities = 51/65 (78%), Positives = 57/65 (87%)
Query: 203 DVLDMPVDPNEPTYCVCQQVSYGEMIGCDNPDCPIEWFHFACVSLTTKPKGKWYCPKCTS 262
DVLDMPVDPNEPTYC+C QVSYGEMIGCDNPDC IEWFHFACV LTTKP+GKW+CP+C+
Sbjct: 25 DVLDMPVDPNEPTYCLCHQVSYGEMIGCDNPDCSIEWFHFACVGLTTKPRGKWFCPRCSQ 84
Query: 263 DRKKK 267
+
Sbjct: 85 ESGPS 89
>pdb|2M1R|A Chain A, Phd Domain Of Ing4 N214d Mutant
Length = 63
Score = 125 bits (313), Expect = 3e-29, Method: Compositional matrix adjust.
Identities = 51/63 (80%), Positives = 59/63 (93%)
Query: 205 LDMPVDPNEPTYCVCQQVSYGEMIGCDNPDCPIEWFHFACVSLTTKPKGKWYCPKCTSDR 264
+DMPVDPNEPTYC+C QVSYGEMIGCD+PDC IEWFHFACV LTTKP+GKW+CP+C+ +R
Sbjct: 1 MDMPVDPNEPTYCLCHQVSYGEMIGCDDPDCSIEWFHFACVGLTTKPRGKWFCPRCSQER 60
Query: 265 KKK 267
KKK
Sbjct: 61 KKK 63
>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 = 122 bits (306), Expect = 2e-28, Method: Compositional matrix adjust.
Identities = 49/60 (81%), Positives = 56/60 (93%)
Query: 205 LDMPVDPNEPTYCVCQQVSYGEMIGCDNPDCPIEWFHFACVSLTTKPKGKWYCPKCTSDR 264
+DMPVDPNEPTYC+C QVSYGEMIGCDNPDC IEWFHFACV LTTKP+GKW+CP+C+ +R
Sbjct: 1 MDMPVDPNEPTYCLCHQVSYGEMIGCDNPDCSIEWFHFACVGLTTKPRGKWFCPRCSQER 60
>pdb|1WES|A Chain A, Solution Structure Of Phd Domain In Inhibitor Of Growth
Family, Member 1-Like
Length = 71
Score = 118 bits (295), Expect = 3e-27, Method: Composition-based stats.
Identities = 46/58 (79%), Positives = 50/58 (86%)
Query: 206 DMPVDPNEPTYCVCQQVSYGEMIGCDNPDCPIEWFHFACVSLTTKPKGKWYCPKCTSD 263
+ +DPNEPTYC+C QVSYGEMIGCDN CPIEWFHF+CVSLT KPKGKWYCPKC D
Sbjct: 8 EFAIDPNEPTYCLCNQVSYGEMIGCDNEQCPIEWFHFSCVSLTYKPKGKWYCPKCRGD 65
>pdb|2QIC|A Chain A, Crystal Structure Of The Ing1 Phd Finger In Complex With A
Histone H3k4me3 Peptide
Length = 62
Score = 116 bits (290), Expect = 2e-26, Method: Composition-based stats.
Identities = 45/60 (75%), Positives = 52/60 (86%)
Query: 206 DMPVDPNEPTYCVCQQVSYGEMIGCDNPDCPIEWFHFACVSLTTKPKGKWYCPKCTSDRK 265
D+P+DPNEPTYC+C QVSYGEMIGCDN +CPIEWFHF+CV L KPKGKWYCPKC + +
Sbjct: 3 DLPIDPNEPTYCLCNQVSYGEMIGCDNDECPIEWFHFSCVGLNHKPKGKWYCPKCRGENE 62
>pdb|4AFL|A Chain A, The Crystal Structure Of The Ing4 Dimerization Domain
Reveals The Functional Organization Of The Ing Family Of
Chromatin Binding Proteins.
pdb|4AFL|B Chain B, The Crystal Structure Of The Ing4 Dimerization Domain
Reveals The Functional Organization Of The Ing Family Of
Chromatin Binding Proteins.
pdb|4AFL|C Chain C, The Crystal Structure Of The Ing4 Dimerization Domain
Reveals The Functional Organization Of The Ing Family Of
Chromatin Binding Proteins.
pdb|4AFL|D Chain D, The Crystal Structure Of The Ing4 Dimerization Domain
Reveals The Functional Organization Of The Ing Family Of
Chromatin Binding Proteins.
pdb|4AFL|E Chain E, The Crystal Structure Of The Ing4 Dimerization Domain
Reveals The Functional Organization Of The Ing Family Of
Chromatin Binding Proteins.
pdb|4AFL|F Chain F, The Crystal Structure Of The Ing4 Dimerization Domain
Reveals The Functional Organization Of The Ing Family Of
Chromatin Binding Proteins
Length = 104
Score = 114 bits (285), Expect = 5e-26, Method: Compositional matrix adjust.
Identities = 56/103 (54%), Positives = 76/103 (73%)
Query: 2 STSYLEQYLDSLDSLPIELQRNFTLMRELDSRAQDVMKTIDRVAEDYLDNMKHYSKDKKK 61
+ YLE YLDS+++LP ELQRNF L R+LD R +D+ ID++A +Y + + S ++K
Sbjct: 2 AGXYLEHYLDSIENLPFELQRNFQLXRDLDQRTEDLKAEIDKLATEYXSSARSLSSEEKL 61
Query: 62 ETLAEIQKYFDKTKEYGDDKVQLAIQTYEMVDKYIRKLDTDLA 104
L +IQ+ + K KE+GDDKVQLA QTYE VDK+IR+LDTDLA
Sbjct: 62 ALLKQIQEAYGKCKEFGDDKVQLAXQTYEXVDKHIRRLDTDLA 104
>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 = 114 bits (284), Expect = 7e-26, Method: Composition-based stats.
Identities = 43/53 (81%), Positives = 49/53 (92%)
Query: 212 NEPTYCVCQQVSYGEMIGCDNPDCPIEWFHFACVSLTTKPKGKWYCPKCTSDR 264
NEPTYC+C QVSYGEMIGCDNPDC IEWFHFACV LTTKP+GKW+CP+C+ +R
Sbjct: 3 NEPTYCLCHQVSYGEMIGCDNPDCSIEWFHFACVGLTTKPRGKWFCPRCSQER 55
>pdb|2G6Q|A Chain A, Crystal Structure Of Ing2 Phd Domain In Complex With
H3k4me3 Peptide
Length = 62
Score = 111 bits (277), Expect = 5e-25, Method: Compositional matrix adjust.
Identities = 46/60 (76%), Positives = 51/60 (85%)
Query: 206 DMPVDPNEPTYCVCQQVSYGEMIGCDNPDCPIEWFHFACVSLTTKPKGKWYCPKCTSDRK 265
+ +DPNEPTYC+C QVSYGEMIGCDN CPIEWFHF+CVSLT KPKGKWYCPKC D +
Sbjct: 3 EFAIDPNEPTYCLCNQVSYGEMIGCDNEQCPIEWFHFSCVSLTYKPKGKWYCPKCRGDNE 62
>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 = 109 bits (272), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 44/53 (83%), Positives = 49/53 (92%)
Query: 212 NEPTYCVCQQVSYGEMIGCDNPDCPIEWFHFACVSLTTKPKGKWYCPKCTSDR 264
NEPTYC+C QVSYGEMIGCDNPDCPIEWFHFACV LTTKPKGKW+CP+C ++
Sbjct: 7 NEPTYCLCHQVSYGEMIGCDNPDCPIEWFHFACVDLTTKPKGKWFCPRCVQEK 59
>pdb|1X4I|A Chain A, Solution Structure Of Phd Domain In Inhibitor Of Growth
Protein 3 (Ing3)
Length = 70
Score = 104 bits (260), Expect = 5e-23, Method: Composition-based stats.
Identities = 37/52 (71%), Positives = 44/52 (84%)
Query: 216 YCVCQQVSYGEMIGCDNPDCPIEWFHFACVSLTTKPKGKWYCPKCTSDRKKK 267
YC+C QVSYGEM+GCDN DCPIEWFH+ CV LT PKGKWYCP+CT+ K++
Sbjct: 8 YCICNQVSYGEMVGCDNQDCPIEWFHYGCVGLTEAPKGKWYCPQCTAAMKRR 59
>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 = 80.1 bits (196), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 30/47 (63%), Positives = 33/47 (70%)
Query: 213 EPTYCVCQQVSYGEMIGCDNPDCPIEWFHFACVSLTTKPKGKWYCPK 259
E YC C+ VSYG M+ CDNP CP EWFH+ CV L PKGKWYC K
Sbjct: 25 EEVYCFCRNVSYGPMVACDNPACPFEWFHYGCVGLKQAPKGKWYCSK 71
>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 = 42.0 bits (97), Expect = 3e-04, Method: Composition-based stats.
Identities = 18/42 (42%), Positives = 27/42 (64%), Gaps = 5/42 (11%)
Query: 227 MIGCDNPDCPIEWFHFACVSLTTKP--KGKWYCPKCTSDRKK 266
MIGCD+ D +W+H+ CV + P + +W+CPKC + KK
Sbjct: 33 MIGCDDCD---DWYHWPCVGIMAAPPEEMQWFCPKCANKIKK 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 = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 17/34 (50%), Positives = 23/34 (67%), Gaps = 1/34 (2%)
Query: 225 GEMIGCDNPDCPIEWFHFACVSLTTKPKGKWYCP 258
GE++ CD DCP + +H C++LT P GKW CP
Sbjct: 25 GELVMCDKKDCP-KAYHLLCLNLTQPPYGKWECP 57
>pdb|1WEM|A Chain A, Solution Structure Of Phd Domain In Death Inducer-
Obliterator 1(Dio-1)
Length = 76
Score = 36.2 bits (82), Expect = 0.022, Method: Composition-based stats.
Identities = 22/61 (36%), Positives = 31/61 (50%), Gaps = 14/61 (22%)
Query: 210 DPNEPTYCVCQQVSYGE-MIGCDNPDCPIEWFHFACVSLTTKPKGK--------WYCPKC 260
DPN YC+C+Q MI CD + EWFH CV + ++ +G+ + CP C
Sbjct: 13 DPN-ALYCICRQPHNNRFMICCDRCE---EWFHGDCVGI-SEARGRLLERNGEDYICPNC 67
Query: 261 T 261
T
Sbjct: 68 T 68
>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 = 34.7 bits (78), Expect = 0.056, Method: Composition-based stats.
Identities = 16/39 (41%), Positives = 23/39 (58%), Gaps = 5/39 (12%)
Query: 225 GEMIGCDNPDCPIEWFHFACVS--LTTKPKGKWYCPKCT 261
GE++ CD CP +H C++ L P G+W CP+CT
Sbjct: 19 GELLCCDT--CPSS-YHIHCLNPPLPEIPNGEWLCPRCT 54
>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 = 33.5 bits (75), Expect = 0.11, Method: Composition-based stats.
Identities = 16/39 (41%), Positives = 23/39 (58%), Gaps = 5/39 (12%)
Query: 225 GEMIGCDNPDCPIEWFHFACV--SLTTKPKGKWYCPKCT 261
GE++ CD CP +H C+ +L P G+W CP+CT
Sbjct: 19 GELLCCDT--CPSS-YHIHCLRPALYEVPDGEWQCPRCT 54
>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 = 33.1 bits (74), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 21/52 (40%), Positives = 29/52 (55%), Gaps = 7/52 (13%)
Query: 211 PNEPTYCVCQQVSYGEMIGCDNPDCPIEWFHFAC--VSLTTKPKGKWYCPKC 260
PNE VCQ + GE++ C+ CP + FH +C +LT P G+W C C
Sbjct: 2 PNEDWCAVCQ--NGGELLCCEK--CP-KVFHLSCHVPTLTNFPSGEWICTFC 48
>pdb|2L5U|A Chain A, Structure Of The First Phd Finger (Phd1) From Chd4 (Mi2b)
Length = 61
Score = 32.7 bits (73), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 22/48 (45%), Positives = 27/48 (56%), Gaps = 8/48 (16%)
Query: 216 YC-VCQQVSYGEMIGCDNPDCPIEWFHFACVS--LTTKPKGKWYCPKC 260
YC VCQQ GE+I CD CP +H C+ + P+GKW CP C
Sbjct: 13 YCEVCQQG--GEIILCDT--CP-RAYHMVCLDPDMEKAPEGKWSCPHC 55
>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 = 30.4 bits (67), Expect = 0.96, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 22/45 (48%), Gaps = 5/45 (11%)
Query: 225 GEMIGCDNPDCPIEWFHFACV--SLTTKPKGKWYCPKCTSDRKKK 267
G+++ CD +H C+ L T PKG W CP+C KK
Sbjct: 15 GQLLMCDTCS---RVYHLDCLDPPLKTIPKGMWICPRCQDQMLKK 56
>pdb|2YQL|A Chain A, Solution Structure Of The Phd Domain In Phd Finger Protein
21a
Length = 56
Score = 28.1 bits (61), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 20/38 (52%), Gaps = 5/38 (13%)
Query: 225 GEMIGCDNPDCPIEWFHFACV--SLTTKPKGKWYCPKC 260
G+++ CD +H C+ L T PKG W CP+C
Sbjct: 19 GQLLMCDTCS---RVYHLDCLDPPLKTIPKGMWICPRC 53
>pdb|2E6R|A Chain A, Solution Structure Of The Phd Domain In Smcy Protein
Length = 92
Score = 28.1 bits (61), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 25/50 (50%), Gaps = 9/50 (18%)
Query: 218 VCQQVSYGE----MIGCDNPDCPIEWFHFACV--SLTTKPKGKWYCPKCT 261
+CQ S G+ ++ CD D + +H C+ L P+G W CPKC
Sbjct: 18 ICQVCSRGDEDDKLLFCDGCD---DNYHIFCLLPPLPEIPRGIWRCPKCI 64
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
0.316 0.132 0.395
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,649,958
Number of Sequences: 62578
Number of extensions: 203232
Number of successful extensions: 673
Number of sequences better than 100.0: 51
Number of HSP's better than 100.0 without gapping: 20
Number of HSP's successfully gapped in prelim test: 31
Number of HSP's that attempted gapping in prelim test: 651
Number of HSP's gapped (non-prelim): 51
length of query: 267
length of database: 14,973,337
effective HSP length: 97
effective length of query: 170
effective length of database: 8,903,271
effective search space: 1513556070
effective search space used: 1513556070
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 50 (23.9 bits)