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= 031269
(162 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|3PTA|A Chain A, Crystal Structure Of Human Dnmt1(646-1600) In Complex With
Dna
Length = 956
Score = 36.2 bits (82), Expect = 0.007, 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 = 2.5, Method: Compositional matrix adjust.
Identities = 20/85 (23%), Positives = 38/85 (44%), Gaps = 6/85 (7%)
Query: 55 ANVKVHVRWYYRPEESIGGR-RQFHGS-KEVFLSDHHDIQSADTIEGKCTVHSFKSYTKL 112
++K+ V +YRPE + +H ++ SD + ++G+CTV + +
Sbjct: 368 TDIKIRVNKFYRPENTHKSTPASYHADINLLYWSDEEAVVDFKAVQGRCTVEYGEDLPEC 427
Query: 113 DAV----GNDDFFCRFEYNSSSGAF 133
V G + F+ YN+ S +F
Sbjct: 428 VQVYSMGGPNRFYFLEAYNAKSKSF 452
>pdb|3SWR|A Chain A, Structure Of Human Dnmt1 (601-1600) In Complex With
Sinefungin
Length = 1002
Score = 36.2 bits (82), Expect = 0.008, 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 = 27.7 bits (60), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 20/85 (23%), Positives = 38/85 (44%), Gaps = 6/85 (7%)
Query: 55 ANVKVHVRWYYRPEESIGGR-RQFHGS-KEVFLSDHHDIQSADTIEGKCTVHSFKSYTKL 112
++K+ V +YRPE + +H ++ SD + ++G+CTV + +
Sbjct: 414 TDIKIRVNKFYRPENTHKSTPASYHADINLLYWSDEEAVVDFKAVQGRCTVEYGEDLPEC 473
Query: 113 DAV----GNDDFFCRFEYNSSSGAF 133
V G + F+ YN+ S +F
Sbjct: 474 VQVYSMGGPNRFYFLEAYNAKSKSF 498
>pdb|1WEP|A Chain A, Solution Structure Of Phd Domain In Phf8
Length = 79
Score = 33.9 bits (76), Expect = 0.040, Method: Compositional matrix adjust.
Identities = 15/35 (42%), Positives = 19/35 (54%)
Query: 128 SSSGAFNPDRVAVYCKCEMPYNPDDLMVQCEGCSD 162
SSG+ V VYC C PYN + M++C C D
Sbjct: 1 GSSGSSGMALVPVYCLCRQPYNVNHFMIECGLCQD 35
>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 = 33.9 bits (76), Expect = 0.043, 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|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 = 33.9 bits (76), Expect = 0.044, 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|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 = 33.9 bits (76), Expect = 0.045, 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|3KV4|A Chain A, Structure Of Phf8 In Complex With Histone H3
Length = 447
Score = 33.1 bits (74), Expect = 0.065, Method: Compositional matrix adjust.
Identities = 11/25 (44%), Positives = 16/25 (64%)
Query: 138 VAVYCKCEMPYNPDDLMVQCEGCSD 162
V VYC C +PY+ M++C+ C D
Sbjct: 4 VPVYCLCRLPYDVTRFMIECDMCQD 28
>pdb|3KQI|A Chain A, Crystal Structure Of Phf2 Phd Domain Complexed With
H3k4me3 Peptide
Length = 75
Score = 32.0 bits (71), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 11/25 (44%), Positives = 16/25 (64%)
Query: 138 VAVYCKCEMPYNPDDLMVQCEGCSD 162
V VYC C +PY+ M++C+ C D
Sbjct: 9 VPVYCVCRLPYDVTRFMIECDACKD 33
>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 = 30.8 bits (68), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 10/23 (43%), Positives = 15/23 (65%)
Query: 140 VYCKCEMPYNPDDLMVQCEGCSD 162
VYC C PY+ + M++C+ C D
Sbjct: 38 VYCVCRQPYDVNRFMIECDICKD 60
>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 = 28.5 bits (62), Expect = 2.0, 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
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 0.413
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,227,236
Number of Sequences: 62578
Number of extensions: 205086
Number of successful extensions: 446
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 12
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 431
Number of HSP's gapped (non-prelim): 15
length of query: 162
length of database: 14,973,337
effective HSP length: 91
effective length of query: 71
effective length of database: 9,278,739
effective search space: 658790469
effective search space used: 658790469
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)