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= 031243
(163 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1W4S|A Chain A, Crystal Structure Of The Proximal Bah Domain Of Polybromo
Length = 174
Score = 53.9 bits (128), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 36/131 (27%), Positives = 62/131 (47%), Gaps = 4/131 (3%)
Query: 26 GDCVLMRPSEPSKPSYVAKIERIESDARGANVKVHVRWYYRPEESIGGRRQFHGSKEVFL 85
GD V + P+E + ++ IER+ D+ G ++ W+YRP E+ + KEVF
Sbjct: 30 GDYVYVEPAEANLQPHIVCIERLWEDSAGEK-WLYGCWFYRPNETFHLATRKFLEKEVFK 88
Query: 86 SDHHDIQSADTIEGKCTVHSFKSYTKL---DAVGNDDFFCRFEYNSSSGAFNPDRVAVYC 142
SD+++ I GKC V K Y KL + D + C Y++ + +F ++
Sbjct: 89 SDYYNKVPVSKILGKCVVMFVKEYFKLCPENFRDEDVYVCESRYSAKTKSFKKIKLWTMP 148
Query: 143 KCEMPYNPDDL 153
+ + P D+
Sbjct: 149 VSSVRFVPRDV 159
>pdb|1WEP|A Chain A, Solution Structure Of Phd Domain In Phf8
Length = 79
Score = 38.1 bits (87), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 16/36 (44%), Positives = 20/36 (55%)
Query: 128 SSSGAFNPDRVAVYCKCEMPYNPDDLMVQCEGCSDW 163
SSG+ V VYC C PYN + M++C C DW
Sbjct: 1 GSSGSSGMALVPVYCLCRQPYNVNHFMIECGLCQDW 36
>pdb|3KV4|A Chain A, Structure Of Phf8 In Complex With Histone H3
Length = 447
Score = 37.4 bits (85), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 12/26 (46%), Positives = 17/26 (65%)
Query: 138 VAVYCKCEMPYNPDDLMVQCEGCSDW 163
V VYC C +PY+ M++C+ C DW
Sbjct: 4 VPVYCLCRLPYDVTRFMIECDMCQDW 29
>pdb|3PTA|A Chain A, Crystal Structure Of Human Dnmt1(646-1600) In Complex With
Dna
Length = 956
Score = 36.2 bits (82), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 22/84 (26%), Positives = 40/84 (47%), Gaps = 3/84 (3%)
Query: 20 SKTIKPGDCVLMRPSEPSKPSYVAKIERIESDARGANVKVHVRWYYRPEESIGGRRQFHG 79
++T++ GDCV + P + SKP Y+A++ + D+ + H W+ +++ G
Sbjct: 110 AETLEVGDCVSVIPDDSSKPLYLARVTALWEDSSNGQM-FHAHWFCAGTDTVLGATS--D 166
Query: 80 SKEVFLSDHHDIQSADTIEGKCTV 103
E+FL D + I K V
Sbjct: 167 PLELFLVDECEDMQLSYIHSKVKV 190
Score = 28.1 bits (61), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 25/108 (23%), Positives = 49/108 (45%), Gaps = 12/108 (11%)
Query: 38 KPSYVAKIERI----ESDARG--ANVKVHVRWYYRPEESIGGR-RQFHGS-KEVFLSDHH 89
+P + +I+ I +S+ R ++K+ V +YRPE + +H ++ SD
Sbjct: 345 EPYRIGRIKEIFCPKKSNGRPNETDIKIRVNKFYRPENTHKSTPASYHADINLLYWSDEE 404
Query: 90 DIQSADTIEGKCTVHSFKSYTKLDAV----GNDDFFCRFEYNSSSGAF 133
+ ++G+CTV + + V G + F+ YN+ S +F
Sbjct: 405 AVVDFKAVQGRCTVEYGEDLPECVQVYSMGGPNRFYFLEAYNAKSKSF 452
>pdb|3SWR|A Chain A, Structure Of Human Dnmt1 (601-1600) In Complex With
Sinefungin
Length = 1002
Score = 36.2 bits (82), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 22/84 (26%), Positives = 40/84 (47%), Gaps = 3/84 (3%)
Query: 20 SKTIKPGDCVLMRPSEPSKPSYVAKIERIESDARGANVKVHVRWYYRPEESIGGRRQFHG 79
++T++ GDCV + P + SKP Y+A++ + D+ + H W+ +++ G
Sbjct: 156 AETLEVGDCVSVIPDDSSKPLYLARVTALWEDSSNGQM-FHAHWFCAGTDTVLGATS--D 212
Query: 80 SKEVFLSDHHDIQSADTIEGKCTV 103
E+FL D + I K V
Sbjct: 213 PLELFLVDECEDMQLSYIHSKVKV 236
Score = 28.1 bits (61), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 25/108 (23%), Positives = 49/108 (45%), Gaps = 12/108 (11%)
Query: 38 KPSYVAKIERI----ESDAR--GANVKVHVRWYYRPEESIGGR-RQFHGS-KEVFLSDHH 89
+P + +I+ I +S+ R ++K+ V +YRPE + +H ++ SD
Sbjct: 391 EPYRIGRIKEIFCPKKSNGRPNETDIKIRVNKFYRPENTHKSTPASYHADINLLYWSDEE 450
Query: 90 DIQSADTIEGKCTVHSFKSYTKLDAV----GNDDFFCRFEYNSSSGAF 133
+ ++G+CTV + + V G + F+ YN+ S +F
Sbjct: 451 AVVDFKAVQGRCTVEYGEDLPECVQVYSMGGPNRFYFLEAYNAKSKSF 498
>pdb|3KQI|A Chain A, Crystal Structure Of Phf2 Phd Domain Complexed With
H3k4me3 Peptide
Length = 75
Score = 35.8 bits (81), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 12/26 (46%), Positives = 17/26 (65%)
Query: 138 VAVYCKCEMPYNPDDLMVQCEGCSDW 163
V VYC C +PY+ M++C+ C DW
Sbjct: 9 VPVYCVCRLPYDVTRFMIECDACKDW 34
>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 = 35.0 bits (79), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 11/24 (45%), Positives = 16/24 (66%)
Query: 140 VYCKCEMPYNPDDLMVQCEGCSDW 163
VYC C PY+ + M++C+ C DW
Sbjct: 38 VYCVCRQPYDVNRFMIECDICKDW 61
>pdb|3PT6|A Chain A, Crystal Structure Of Mouse Dnmt1(650-1602) In Complex With
Dna
pdb|3PT6|B Chain B, Crystal Structure Of Mouse Dnmt1(650-1602) In Complex With
Dna
Length = 954
Score = 33.5 bits (75), Expect = 0.055, Method: Compositional matrix adjust.
Identities = 15/53 (28%), Positives = 29/53 (54%), Gaps = 1/53 (1%)
Query: 21 KTIKPGDCVLMRPSEPSKPSYVAKIERIESDARGANVKVHVRWYYRPEESIGG 73
+ ++ GDCV + P + SKP Y+A++ + D G + H W+ +++ G
Sbjct: 110 EMLEVGDCVSVIPDDSSKPLYLARVTALWEDKNG-QMMFHAHWFCAGTDTVLG 161
>pdb|3PT9|A Chain A, Crystal Structure Of Mouse Dnmt1(731-1602) In The Free
State
pdb|4DA4|A Chain A, Structure Of Mouse Dnmt1 (731-1602) Bound To
Hemimethylated Cpg Dna
pdb|4DA4|B Chain B, Structure Of Mouse Dnmt1 (731-1602) Bound To
Hemimethylated Cpg Dna
Length = 873
Score = 33.5 bits (75), Expect = 0.056, Method: Compositional matrix adjust.
Identities = 15/53 (28%), Positives = 29/53 (54%), Gaps = 1/53 (1%)
Query: 21 KTIKPGDCVLMRPSEPSKPSYVAKIERIESDARGANVKVHVRWYYRPEESIGG 73
+ ++ GDCV + P + SKP Y+A++ + D G + H W+ +++ G
Sbjct: 29 EMLEVGDCVSVIPDDSSKPLYLARVTALWEDKNG-QMMFHAHWFCAGTDTVLG 80
>pdb|3AV4|A Chain A, Crystal Structure Of Mouse Dna Methyltransferase 1
pdb|3AV5|A Chain A, Crystal Structure Of Mouse Dna Methyltransferase 1 With
Adohcy
pdb|3AV6|A Chain A, Crystal Structure Of Mouse Dna Methyltransferase 1 With
Adomet
Length = 1330
Score = 33.5 bits (75), Expect = 0.058, Method: Compositional matrix adjust.
Identities = 15/53 (28%), Positives = 29/53 (54%), Gaps = 1/53 (1%)
Query: 21 KTIKPGDCVLMRPSEPSKPSYVAKIERIESDARGANVKVHVRWYYRPEESIGG 73
+ ++ GDCV + P + SKP Y+A++ + D G + H W+ +++ G
Sbjct: 468 EMLEVGDCVSVIPDDSSKPLYLARVTALWEDKNG-QMMFHAHWFCAGTDTVLG 519
>pdb|1ZLP|A Chain A, Petal Death Protein Psr132 With Cysteine-Linked
Glutaraldehyde Forming A Thiohemiacetal Adduct
pdb|1ZLP|B Chain B, Petal Death Protein Psr132 With Cysteine-Linked
Glutaraldehyde Forming A Thiohemiacetal Adduct
Length = 318
Score = 28.1 bits (61), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 23/48 (47%), Gaps = 4/48 (8%)
Query: 79 GSKEVFLSDHHDIQSADTIEGKCTV----HSFKSYTKLDAVGNDDFFC 122
G+K VFL D + + GK V H+ K +A+G+ DFF
Sbjct: 129 GAKGVFLEDQVWPKKCGHMRGKAVVPAEEHALKIAAAREAIGDSDFFL 176
>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 = 28.1 bits (61), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 8/24 (33%), Positives = 14/24 (58%)
Query: 140 VYCKCEMPYNPDDLMVQCEGCSDW 163
+YC C+ PY+ + C+ C +W
Sbjct: 9 LYCICKTPYDESKFYIGCDRCQNW 32
>pdb|3QZV|A Chain A, Crystal Structure Of Bptf Phd-Linker-Bromo In Complex With
Histone H4k12ac Peptide
Length = 174
Score = 27.7 bits (60), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 8/24 (33%), Positives = 14/24 (58%)
Query: 140 VYCKCEMPYNPDDLMVQCEGCSDW 163
+YC C+ PY+ + C+ C +W
Sbjct: 9 LYCICKTPYDESKFYIGCDRCQNW 32
>pdb|1WEM|A Chain A, Solution Structure Of Phd Domain In Death Inducer-
Obliterator 1(Dio-1)
Length = 76
Score = 26.6 bits (57), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 11/28 (39%), Positives = 17/28 (60%), Gaps = 1/28 (3%)
Query: 136 DRVAVYCKCEMPYNPDDLMVQCEGCSDW 163
D A+YC C P+N + M+ C+ C +W
Sbjct: 13 DPNALYCICRQPHN-NRFMICCDRCEEW 39
>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 = 26.6 bits (57), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 8/24 (33%), Positives = 14/24 (58%)
Query: 140 VYCKCEMPYNPDDLMVQCEGCSDW 163
+YC C+ PY+ + C+ C +W
Sbjct: 9 LYCICKTPYDESKFYIGCDRCQNW 32
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 0.420
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,298,138
Number of Sequences: 62578
Number of extensions: 209630
Number of successful extensions: 451
Number of sequences better than 100.0: 19
Number of HSP's better than 100.0 without gapping: 17
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 431
Number of HSP's gapped (non-prelim): 21
length of query: 163
length of database: 14,973,337
effective HSP length: 91
effective length of query: 72
effective length of database: 9,278,739
effective search space: 668069208
effective search space used: 668069208
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: 47 (22.7 bits)