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= 040811
(258 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2CU7|A Chain A, Solution Structure Of The Sant Domain Of Human Kiaa1915
Protein
Length = 72
Score = 50.8 bits (120), Expect = 6e-07, Method: Composition-based stats.
Identities = 22/50 (44%), Positives = 32/50 (64%)
Query: 3 WTDEEHDKFLEALQLFDRDWKKIEDFVGSKTVIQIRSHAQKYFLKVQKNG 52
WT EE + F + L F R W KI +GS+TV+Q++S+A++YF K G
Sbjct: 12 WTIEEKELFEQGLAKFGRRWTKISKLIGSRTVLQVKSYARQYFKNKVKCG 61
>pdb|2YUM|A Chain A, Solution Structure Of The Myb-Like Dna-Binding Domain Of
Human Zzz3 Protein
Length = 75
Score = 42.0 bits (97), Expect = 3e-04, Method: Composition-based stats.
Identities = 22/56 (39%), Positives = 32/56 (57%), Gaps = 6/56 (10%)
Query: 3 WTDEEHDKFLEAL------QLFDRDWKKIEDFVGSKTVIQIRSHAQKYFLKVQKNG 52
WT EE K + L ++ R W+KI D +G++T Q+ S QKYF+K+ K G
Sbjct: 11 WTVEEQKKLEQLLIKYPPEEVESRRWQKIADELGNRTAKQVASQVQKYFIKLTKAG 66
>pdb|2IW5|B Chain B, Structural Basis For Corest-dependent Demethylation Of
Nucleosomes By The Human Lsd1 Histone Demethylase
pdb|2UXN|B Chain B, Structural Basis Of Histone Demethylation By Lsd1 Revealed
By Suicide Inactivation
pdb|2UXX|B Chain B, Human Lsd1 Histone Demethylase-Corest In Complex With An
Fad-Tranylcypromine Adduct
Length = 235
Score = 37.4 bits (85), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 16/55 (29%), Positives = 34/55 (61%), Gaps = 4/55 (7%)
Query: 3 WTDEEHDKFLEALQLFDRDWKKIEDFVGSKTVIQIRSHAQKYFLKVQKNGTIAHV 57
WT EE ++A++ + RD++ I D +G+K+V+Q+++ +F+ ++ I V
Sbjct: 136 WTTEEQLLAVQAIRKYGRDFQAISDVIGNKSVVQVKN----FFVNYRRRFNIDEV 186
>pdb|2V1D|B Chain B, Structural Basis Of Lsd1-Corest Selectivity In Histone H3
Recognition
pdb|2Y48|B Chain B, Crystal Structure Of Lsd1-Corest In Complex With A N-
Terminal Snail Peptide
Length = 178
Score = 36.6 bits (83), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 16/55 (29%), Positives = 34/55 (61%), Gaps = 4/55 (7%)
Query: 3 WTDEEHDKFLEALQLFDRDWKKIEDFVGSKTVIQIRSHAQKYFLKVQKNGTIAHV 57
WT EE ++A++ + RD++ I D +G+K+V+Q+++ +F+ ++ I V
Sbjct: 79 WTTEEQLLAVQAIRKYGRDFQAISDVIGNKSVVQVKN----FFVNYRRRFNIDEV 129
>pdb|2XAF|B Chain B, Crystal Structure Of Lsd1-Corest In Complex With
Para-Bromo- (+)-Cis-2-Phenylcyclopropyl-1-Amine
pdb|2XAG|B Chain B, Crystal Structure Of Lsd1-Corest In Complex With
Para-Bromo- (-)-Trans-2-Phenylcyclopropyl-1-Amine
pdb|2XAH|B Chain B, Crystal Structure Of Lsd1-Corest In Complex With (+)-
Trans-2-Phenylcyclopropyl-1-Amine
pdb|2XAJ|B Chain B, Crystal Structure Of Lsd1-Corest In Complex With
(-)-Trans- 2-Phenylcyclopropyl-1-Amine
pdb|2XAQ|B Chain B, Crystal Structure Of Lsd1-Corest In Complex With A
Tranylcypromine Derivative (Mc2584, 13b)
pdb|2XAS|B Chain B, Crystal Structure Of Lsd1-Corest In Complex With A
Tranylcypromine Derivative (Mc2580, 14e)
Length = 482
Score = 36.6 bits (83), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 16/55 (29%), Positives = 34/55 (61%), Gaps = 4/55 (7%)
Query: 3 WTDEEHDKFLEALQLFDRDWKKIEDFVGSKTVIQIRSHAQKYFLKVQKNGTIAHV 57
WT EE ++A++ + RD++ I D +G+K+V+Q+++ +F+ ++ I V
Sbjct: 383 WTTEEQLLAVQAIRKYGRDFQAISDVIGNKSVVQVKN----FFVNYRRRFNIDEV 433
>pdb|2X0L|B Chain B, Crystal Structure Of A Neuro-Specific Splicing Variant Of
Human Histone Lysine Demethylase Lsd1
Length = 133
Score = 35.8 bits (81), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 16/55 (29%), Positives = 34/55 (61%), Gaps = 4/55 (7%)
Query: 3 WTDEEHDKFLEALQLFDRDWKKIEDFVGSKTVIQIRSHAQKYFLKVQKNGTIAHV 57
WT EE ++A++ + RD++ I D +G+K+V+Q+++ +F+ ++ I V
Sbjct: 76 WTTEEQLLAVQAIRKYGRDFQAISDVIGNKSVVQVKN----FFVNYRRRFNIDEV 126
>pdb|2LTP|A Chain A, Solution Structure Of The Sant2 Domain Of The Human
Nuclear Receptor Corepressor 2 (Ncor2), Northeast
Structural Genomics Consortium (Nesg) Target Id Hr4636e
Length = 89
Score = 30.4 bits (67), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 15/39 (38%), Positives = 21/39 (53%)
Query: 1 ESWTDEEHDKFLEALQLFDRDWKKIEDFVGSKTVIQIRS 39
+ WT+EE + L R+W I VGSKTV Q ++
Sbjct: 17 QGWTEEEMGTAKKGLLEHGRNWSAIARMVGSKTVSQCKN 55
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
0.315 0.130 0.382
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,567,731
Number of Sequences: 62578
Number of extensions: 216538
Number of successful extensions: 604
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 594
Number of HSP's gapped (non-prelim): 11
length of query: 258
length of database: 14,973,337
effective HSP length: 97
effective length of query: 161
effective length of database: 8,903,271
effective search space: 1433426631
effective search space used: 1433426631
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)