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= 027884
(217 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1WE9|A Chain A, Solution Structure Of Phd Domain In Nucleic Acid Binding
Protein-like Np_197993
Length = 64
Score = 93.2 bits (230), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 41/52 (78%), Positives = 46/52 (88%)
Query: 164 CGSCGGNYNADEFWIGCDICERWFHGKCVKITPAKAENIKQYKCPSCSMKRG 215
CG+CG +Y ADEFWI CD+CE WFHGKCVKITPA+AE+IKQYKCPSCS K G
Sbjct: 9 CGACGESYAADEFWICCDLCEMWFHGKCVKITPARAEHIKQYKCPSCSNKSG 60
>pdb|3QZV|A Chain A, Crystal Structure Of Bptf Phd-Linker-Bromo In Complex With
Histone H4k12ac Peptide
Length = 174
Score = 55.8 bits (133), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 21/45 (46%), Positives = 30/45 (66%)
Query: 167 CGGNYNADEFWIGCDICERWFHGKCVKITPAKAENIKQYKCPSCS 211
C Y+ +F+IGCD C+ W+HG+CV I ++AE I +Y CP C
Sbjct: 13 CKTPYDESKFYIGCDRCQNWYHGRCVGILQSEAELIDEYVCPQCQ 57
>pdb|2F6J|A Chain A, Crystal Structure Of Phd Finger-Linker-Bromodomain
Fragment Of Human Bptf In The H3(1-15)k4me3 Bound State
pdb|2F6J|B Chain B, Crystal Structure Of Phd Finger-Linker-Bromodomain
Fragment Of Human Bptf In The H3(1-15)k4me3 Bound State
pdb|2F6J|C Chain C, Crystal Structure Of Phd Finger-Linker-Bromodomain
Fragment Of Human Bptf In The H3(1-15)k4me3 Bound State
pdb|2F6N|A Chain A, Crystal Structure Of Phd Finger-Linker-Bromodomain
Fragment Of Human Bptf In The Free Form
pdb|2F6N|B Chain B, Crystal Structure Of Phd Finger-Linker-Bromodomain
Fragment Of Human Bptf In The Free Form
pdb|2FSA|A Chain A, Crystal Structure Of Phd Finger-Linker-Bromodomain
Fragment Of Human Bptf In The H3(1-15)k4me2 Bound State
pdb|2FSA|B Chain B, Crystal Structure Of Phd Finger-Linker-Bromodomain
Fragment Of Human Bptf In The H3(1-15)k4me2 Bound State
pdb|2FSA|C Chain C, Crystal Structure Of Phd Finger-Linker-Bromodomain
Fragment Of Human Bptf In The H3(1-15)k4me2 Bound State
Length = 174
Score = 55.5 bits (132), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 21/45 (46%), Positives = 30/45 (66%)
Query: 167 CGGNYNADEFWIGCDICERWFHGKCVKITPAKAENIKQYKCPSCS 211
C Y+ +F+IGCD C+ W+HG+CV I ++AE I +Y CP C
Sbjct: 13 CKTPYDESKFYIGCDRCQNWYHGRCVGILQSEAELIDEYVCPQCQ 57
>pdb|2FUI|A Chain A, Nmr Solution Structure Of Phd Finger Fragment Of Human
Bptf In Free State
pdb|2FUU|A Chain A, Nmr Solution Structure Of The Phd Domain From The Human
Bptf In Complex With H3(1-15)k4me3 Peptide
Length = 62
Score = 55.5 bits (132), Expect = 2e-08, Method: Composition-based stats.
Identities = 21/44 (47%), Positives = 30/44 (68%)
Query: 167 CGGNYNADEFWIGCDICERWFHGKCVKITPAKAENIKQYKCPSC 210
C Y+ +F+IGCD C+ W+HG+CV I ++AE I +Y CP C
Sbjct: 13 CKTPYDESKFYIGCDRCQNWYHGRCVGILQSEAELIDEYVCPQC 56
>pdb|3KV4|A Chain A, Structure Of Phf8 In Complex With Histone H3
Length = 447
Score = 53.5 bits (127), Expect = 8e-08, Method: Compositional matrix adjust.
Identities = 21/49 (42%), Positives = 28/49 (57%)
Query: 167 CGGNYNADEFWIGCDICERWFHGKCVKITPAKAENIKQYKCPSCSMKRG 215
C Y+ F I CD+C+ WFHG CV + KA +I Y CP+C + G
Sbjct: 10 CRLPYDVTRFMIECDMCQDWFHGSCVGVEEEKAADIDLYHCPNCEVLHG 58
>pdb|3KV5|D Chain D, Structure Of Kiaa1718, Human Jumonji Demethylase, In
Complex With N-Oxalylglycine
pdb|3KV5|A Chain A, Structure Of Kiaa1718, Human Jumonji Demethylase, In
Complex With N-Oxalylglycine
pdb|3KV6|A Chain A, Structure Of Kiaa1718, Human Jumonji Demethylase, In
Complex With Alpha-Ketoglutarate
pdb|3KV6|D Chain D, Structure Of Kiaa1718, Human Jumonji Demethylase, In
Complex With Alpha-Ketoglutarate
Length = 488
Score = 53.1 bits (126), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 21/49 (42%), Positives = 29/49 (59%)
Query: 167 CGGNYNADEFWIGCDICERWFHGKCVKITPAKAENIKQYKCPSCSMKRG 215
C Y+ + F I CDIC+ WFHG CV + A +I Y CP+C++ G
Sbjct: 42 CRQPYDVNRFMIECDICKDWFHGSCVGVEEHHAVDIDLYHCPNCAVLHG 90
>pdb|2RI7|A Chain A, Crystal Structure Of Phd Finger-Linker-Bromodomain Y17e
Mutant From Human Bptf In The H3(1-9)k4me2 Bound State
Length = 174
Score = 52.4 bits (124), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 20/45 (44%), Positives = 29/45 (64%)
Query: 167 CGGNYNADEFWIGCDICERWFHGKCVKITPAKAENIKQYKCPSCS 211
C + +F+IGCD C+ W+HG+CV I ++AE I +Y CP C
Sbjct: 13 CKTPEDESKFYIGCDRCQNWYHGRCVGILQSEAELIDEYVCPQCQ 57
>pdb|3KQI|A Chain A, Crystal Structure Of Phf2 Phd Domain Complexed With
H3k4me3 Peptide
Length = 75
Score = 48.5 bits (114), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 20/51 (39%), Positives = 27/51 (52%)
Query: 167 CGGNYNADEFWIGCDICERWFHGKCVKITPAKAENIKQYKCPSCSMKRGRQ 217
C Y+ F I CD C+ WFHG CV + +A +I Y CP+C G+
Sbjct: 15 CRLPYDVTRFMIECDACKDWFHGSCVGVEEEEAPDIDIYHCPNCEKTHGKS 65
>pdb|1WEP|A Chain A, Solution Structure Of Phd Domain In Phf8
Length = 79
Score = 47.8 bits (112), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 20/45 (44%), Positives = 24/45 (53%)
Query: 171 YNADEFWIGCDICERWFHGKCVKITPAKAENIKQYKCPSCSMKRG 215
YN + F I C +C+ WFHG CV I A +I Y CP C G
Sbjct: 21 YNVNHFMIECGLCQDWFHGSCVGIEEENAVDIDIYHCPDCEAVFG 65
>pdb|1WEM|A Chain A, Solution Structure Of Phd Domain In Death Inducer-
Obliterator 1(Dio-1)
Length = 76
Score = 43.1 bits (100), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 20/46 (43%), Positives = 27/46 (58%), Gaps = 4/46 (8%)
Query: 174 DEFWIGCDICERWFHGKCVKITPAKA----ENIKQYKCPSCSMKRG 215
+ F I CD CE WFHG CV I+ A+ N + Y CP+C++ G
Sbjct: 27 NRFMICCDRCEEWFHGDCVGISEARGRLLERNGEDYICPNCTILSG 72
>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 = 37.0 bits (84), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 17/36 (47%), Positives = 22/36 (61%), Gaps = 1/36 (2%)
Query: 178 IGCDICERWFHGKCVKITPAKAENIKQYKCPSCSMK 213
IGCD C+ W+H CV I A E + Q+ CP C+ K
Sbjct: 34 IGCDDCDDWYHWPCVGIMAAPPEEM-QWFCPKCANK 68
>pdb|3N9L|A Chain A, Cekdm7a From C.Elegans, Complex With H3k4me3 Peptide And
Nog
pdb|3N9M|A Chain A, Cekdm7a From C.Elegans, Alone
pdb|3N9M|C Chain C, Cekdm7a From C.Elegans, Alone
pdb|3N9N|A Chain A, Cekdm7a From C.Elegans, Complex With H3k4me3k9me2 Peptide
And Nog
pdb|3N9O|A Chain A, Cekdm7a From C.Elegans, Complex With H3k4me3 Peptide,
H3k9me2 Peptide And Nog
pdb|3N9P|A Chain A, Cekdm7a From C.Elegans, Complex With H3k4me3k27me2 Peptide
And Nog
pdb|3N9Q|A Chain A, Cekdm7a From C.Elegans, Complex With H3k4me3 Peptide,
H3k27me2 Peptide And Nog
pdb|3PUQ|A Chain A, Cekdm7a From C.Elegans, Complex With Alpha-Kg
pdb|3PUQ|C Chain C, Cekdm7a From C.Elegans, Complex With Alpha-Kg
pdb|3PUR|A Chain A, Cekdm7a From C.Elegans, Complex With D-2-Hg
pdb|3PUR|C Chain C, Cekdm7a From C.Elegans, Complex With D-2-Hg
Length = 528
Score = 35.0 bits (79), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 13/40 (32%), Positives = 20/40 (50%)
Query: 177 WIGCDICERWFHGKCVKITPAKAENIKQYKCPSCSMKRGR 216
WIGCD C+ W+H C + + +++ CP C G
Sbjct: 58 WIGCDSCQTWYHFLCSGLEQFEYYLYEKFFCPKCVPHTGH 97
>pdb|2KGG|A Chain A, Solution Structure Of Jarid1a C-Terminal Phd Finger
pdb|2KGI|A Chain A, Solution Structure Of Jarid1a C-Terminal Phd Finger In
Complex With H3(1-9)k4me3
pdb|3GL6|A Chain A, Crystal Structure Of Jarid1a-Phd3 Complexed With H3(1-9)
K4me3 Peptide
Length = 52
Score = 33.5 bits (75), Expect = 0.083, Method: Compositional matrix adjust.
Identities = 16/36 (44%), Positives = 23/36 (63%), Gaps = 2/36 (5%)
Query: 177 WIGCDI-CERWFHGKCVKITPAKAENIKQYKCPSCS 211
W+ CD C+ WFH CV ++P AEN + Y C +C+
Sbjct: 18 WVQCDGGCDEWFHQVCVGVSPEMAEN-EDYICINCA 52
>pdb|2XB1|A Chain A, Crystal Structure Of The Human Pygo2 Phd Finger In Complex
With The B9l Hd1 Domain
pdb|2XB1|C Chain C, Crystal Structure Of The Human Pygo2 Phd Finger In Complex
With The B9l Hd1 Domain
Length = 105
Score = 31.2 bits (69), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 13/35 (37%), Positives = 21/35 (60%), Gaps = 1/35 (2%)
Query: 164 CGSCGGNYNADEFWIGCDI-CERWFHGKCVKITPA 197
CG+C N D+ I C+ C++WFH +C +T +
Sbjct: 6 CGACRSEVNDDQDAILCEASCQKWFHRECTGMTES 40
>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 = 30.0 bits (66), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 14/47 (29%), Positives = 23/47 (48%), Gaps = 1/47 (2%)
Query: 164 CGSCGGNYNADEFWIGCDICERWFHGKCVKITPAKAENIKQYKCPSC 210
C CGG + D+ + CD C+ FH C+ + + ++ CP C
Sbjct: 177 CHLCGGRQDPDK-QLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 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 = 29.6 bits (65), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 14/47 (29%), Positives = 23/47 (48%), Gaps = 1/47 (2%)
Query: 164 CGSCGGNYNADEFWIGCDICERWFHGKCVKITPAKAENIKQYKCPSC 210
C CGG + D+ + CD C+ FH C+ + + ++ CP C
Sbjct: 193 CHLCGGRQDPDK-QLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 238
>pdb|2DX8|A Chain A, Crystal Structure Analysis Of The Phd Domain Of The
Transcription Coactivator Pygophus
pdb|2DX8|B Chain B, Crystal Structure Analysis Of The Phd Domain Of The
Transcription Coactivator Pygophus
Length = 67
Score = 29.6 bits (65), Expect = 1.4, Method: Composition-based stats.
Identities = 17/53 (32%), Positives = 24/53 (45%), Gaps = 6/53 (11%)
Query: 164 CGSCGGNYNADEFWIGCDI-CERWFHGKCVKITPA-----KAENIKQYKCPSC 210
CG C N D+ I C+ C++WFH C +T AE + C +C
Sbjct: 12 CGICTNEVNDDQDAILCEASCQKWFHRICTGMTETAYGLLTAEASAVWGCDTC 64
>pdb|2VPD|A Chain A, Decoding Of Methylated Histone H3 Tail By The Pygo-Bcl9
Wnt Signaling Complex
pdb|2VPD|C Chain C, Decoding Of Methylated Histone H3 Tail By The Pygo-Bcl9
Wnt Signaling Complex
Length = 67
Score = 29.6 bits (65), Expect = 1.4, Method: Composition-based stats.
Identities = 17/53 (32%), Positives = 24/53 (45%), Gaps = 6/53 (11%)
Query: 164 CGSCGGNYNADEFWIGCDI-CERWFHGKCVKITPA-----KAENIKQYKCPSC 210
CG C N D+ I C+ C++WFH C +T AE + C +C
Sbjct: 12 CGICTNEVNDDQDAILCEASCQKWFHRICTGMTETAYGLLTAEASAVWGCDTC 64
>pdb|2VPB|A Chain A, Decoding Of Methylated Histone H3 Tail By The Pygo-Bcl9
Wnt Signaling Complex
Length = 65
Score = 29.3 bits (64), Expect = 1.7, Method: Composition-based stats.
Identities = 17/53 (32%), Positives = 24/53 (45%), Gaps = 6/53 (11%)
Query: 164 CGSCGGNYNADEFWIGCDI-CERWFHGKCVKITPA-----KAENIKQYKCPSC 210
CG C N D+ I C+ C++WFH C +T AE + C +C
Sbjct: 11 CGICTNEVNDDQDAILCEASCQKWFHRICTGMTETAYGLLTAEASAVWGCDTC 63
>pdb|2VPE|A Chain A, Decoding Of Methylated Histone H3 Tail By The Pygo-bcl9
Wnt Signaling Complex
pdb|2VPE|C Chain C, Decoding Of Methylated Histone H3 Tail By The Pygo-bcl9
Wnt Signaling Complex
pdb|2VPG|A Chain A, Decoding Of Methylated Histone H3 Tail By The Pygo-Bcl9
Wnt Signaling Complex
pdb|2VPG|C Chain C, Decoding Of Methylated Histone H3 Tail By The Pygo-Bcl9
Wnt Signaling Complex
Length = 63
Score = 29.3 bits (64), Expect = 1.8, Method: Composition-based stats.
Identities = 17/53 (32%), Positives = 24/53 (45%), Gaps = 6/53 (11%)
Query: 164 CGSCGGNYNADEFWIGCDI-CERWFHGKCVKITPA-----KAENIKQYKCPSC 210
CG C N D+ I C+ C++WFH C +T AE + C +C
Sbjct: 8 CGICTNEVNDDQDAILCEASCQKWFHRICTGMTETAYGLLTAEASAVWGCDTC 60
>pdb|3ZVZ|B Chain B, Phd Finger Of Human Uhrf1
Length = 57
Score = 28.5 bits (62), Expect = 2.7, Method: Composition-based stats.
Identities = 14/47 (29%), Positives = 23/47 (48%), Gaps = 1/47 (2%)
Query: 164 CGSCGGNYNADEFWIGCDICERWFHGKCVKITPAKAENIKQYKCPSC 210
C CGG + D+ + CD C+ FH C+ + + ++ CP C
Sbjct: 8 CHLCGGRQDPDK-QLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 53
>pdb|2YYR|A Chain A, Structural Analysis Of Phd Domain Of Pygopus Complexed
With Trimethylated Histone H3 Peptide
pdb|2YYR|B Chain B, Structural Analysis Of Phd Domain Of Pygopus Complexed
With Trimethylated Histone H3 Peptide
Length = 67
Score = 28.1 bits (61), Expect = 3.5, Method: Composition-based stats.
Identities = 17/53 (32%), Positives = 23/53 (43%), Gaps = 6/53 (11%)
Query: 164 CGSCGGNYNADEFWIGCDI-CERWFHGKCVKITPA-----KAENIKQYKCPSC 210
CG C N D+ I C+ C++WFH C T AE + C +C
Sbjct: 12 CGICTNEVNDDQDAILCEASCQKWFHRICTGXTETAYGLLTAEASAVWGCDTC 64
>pdb|3SHB|A Chain A, Crystal Structure Of Phd Domain Of Uhrf1
Length = 77
Score = 26.9 bits (58), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 14/47 (29%), Positives = 23/47 (48%), Gaps = 1/47 (2%)
Query: 164 CGSCGGNYNADEFWIGCDICERWFHGKCVKITPAKAENIKQYKCPSC 210
C CGG + D+ + CD C+ FH C+ + + ++ CP C
Sbjct: 29 CHLCGGRQDPDK-QLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 74
>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 = 26.6 bits (57), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 14/47 (29%), Positives = 23/47 (48%), Gaps = 1/47 (2%)
Query: 164 CGSCGGNYNADEFWIGCDICERWFHGKCVKITPAKAENIKQYKCPSC 210
C CGG + D+ + CD C+ FH C+ + + ++ CP C
Sbjct: 23 CHLCGGRQDPDK-QLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPEC 68
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
0.322 0.136 0.454
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,097,336
Number of Sequences: 62578
Number of extensions: 146908
Number of successful extensions: 222
Number of sequences better than 100.0: 37
Number of HSP's better than 100.0 without gapping: 19
Number of HSP's successfully gapped in prelim test: 18
Number of HSP's that attempted gapping in prelim test: 200
Number of HSP's gapped (non-prelim): 40
length of query: 217
length of database: 14,973,337
effective HSP length: 95
effective length of query: 122
effective length of database: 9,028,427
effective search space: 1101468094
effective search space used: 1101468094
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 49 (23.5 bits)