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= 048575
(172 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2DW4|A Chain A, Crystal Structure Of Human Lsd1 At 2.3 A Resolution
Length = 660
Score = 26.6 bits (57), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 17/42 (40%), Positives = 24/42 (57%), Gaps = 2/42 (4%)
Query: 59 PLHNASTSTVPKGYLAVCVGEELKRFIIPTDYLSHQA-FHIL 99
PL+ A+ VPK + V +E R + T YLSHQ F++L
Sbjct: 190 PLYEANGQAVPKEKDEM-VEQEFNRLLEATSYLSHQLDFNVL 230
>pdb|2EJR|A Chain A, Lsd1-Tranylcypromine Complex
pdb|2Z3Y|A Chain A, Crystal Structure Of Lysine-Specific Demethylase1
pdb|2Z5U|A Chain A, Crystal Structure Of Lysine-Specific Histone Demethylase 1
pdb|3ABT|A Chain A, Crystal Structure Of Lsd1 In Complex With Trans-2-
Pentafluorophenylcyclopropylamine
pdb|3ABU|A Chain A, Crystal Structure Of Lsd1 In Complex With A 2-Pcpa
Derivative, S1201
Length = 662
Score = 26.6 bits (57), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 17/42 (40%), Positives = 24/42 (57%), Gaps = 2/42 (4%)
Query: 59 PLHNASTSTVPKGYLAVCVGEELKRFIIPTDYLSHQA-FHIL 99
PL+ A+ VPK + V +E R + T YLSHQ F++L
Sbjct: 190 PLYEANGQAVPKEKDEM-VEQEFNRLLEATSYLSHQLDFNVL 230
>pdb|2V1D|A Chain A, Structural Basis Of Lsd1-Corest Selectivity In Histone H3
Recognition
pdb|2Y48|A Chain A, Crystal Structure Of Lsd1-Corest In Complex With A N-
Terminal Snail Peptide
Length = 730
Score = 26.6 bits (57), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 17/42 (40%), Positives = 24/42 (57%), Gaps = 2/42 (4%)
Query: 59 PLHNASTSTVPKGYLAVCVGEELKRFIIPTDYLSHQA-FHIL 99
PL+ A+ VPK + V +E R + T YLSHQ F++L
Sbjct: 239 PLYEANGQAVPKEKDEM-VEQEFNRLLEATSYLSHQLDFNVL 279
>pdb|2HKO|A Chain A, Crystal Structure Of Lsd1
Length = 664
Score = 26.6 bits (57), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 17/42 (40%), Positives = 24/42 (57%), Gaps = 2/42 (4%)
Query: 59 PLHNASTSTVPKGYLAVCVGEELKRFIIPTDYLSHQA-FHIL 99
PL+ A+ VPK + V +E R + T YLSHQ F++L
Sbjct: 190 PLYEANGQAVPKEKDEM-VEQEFNRLLEATSYLSHQLDFNVL 230
>pdb|2H94|A Chain A, Crystal Structure And Mechanism Of Human Lysine-Specific
Demethylase-1
Length = 664
Score = 26.6 bits (57), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 17/42 (40%), Positives = 24/42 (57%), Gaps = 2/42 (4%)
Query: 59 PLHNASTSTVPKGYLAVCVGEELKRFIIPTDYLSHQA-FHIL 99
PL+ A+ VPK + V +E R + T YLSHQ F++L
Sbjct: 190 PLYEANGQAVPKEKDEM-VEQEFNRLLEATSYLSHQLDFNVL 230
>pdb|2IW5|A Chain A, Structural Basis For Corest-dependent Demethylation Of
Nucleosomes By The Human Lsd1 Histone Demethylase
pdb|2UXN|A Chain A, Structural Basis Of Histone Demethylation By Lsd1 Revealed
By Suicide Inactivation
pdb|2UXX|A Chain A, Human Lsd1 Histone Demethylase-Corest In Complex With An
Fad-Tranylcypromine Adduct
Length = 666
Score = 26.6 bits (57), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 17/42 (40%), Positives = 24/42 (57%), Gaps = 2/42 (4%)
Query: 59 PLHNASTSTVPKGYLAVCVGEELKRFIIPTDYLSHQA-FHIL 99
PL+ A+ VPK + V +E R + T YLSHQ F++L
Sbjct: 191 PLYEANGQAVPKEKDEM-VEQEFNRLLEATSYLSHQLDFNVL 231
>pdb|2XAF|A Chain A, Crystal Structure Of Lsd1-Corest In Complex With
Para-Bromo- (+)-Cis-2-Phenylcyclopropyl-1-Amine
pdb|2XAG|A Chain A, Crystal Structure Of Lsd1-Corest In Complex With
Para-Bromo- (-)-Trans-2-Phenylcyclopropyl-1-Amine
pdb|2XAH|A Chain A, Crystal Structure Of Lsd1-Corest In Complex With (+)-
Trans-2-Phenylcyclopropyl-1-Amine
pdb|2XAJ|A Chain A, Crystal Structure Of Lsd1-Corest In Complex With
(-)-Trans- 2-Phenylcyclopropyl-1-Amine
pdb|2XAQ|A Chain A, Crystal Structure Of Lsd1-Corest In Complex With A
Tranylcypromine Derivative (Mc2584, 13b)
pdb|2XAS|A Chain A, Crystal Structure Of Lsd1-Corest In Complex With A
Tranylcypromine Derivative (Mc2580, 14e)
Length = 852
Score = 26.2 bits (56), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 17/42 (40%), Positives = 24/42 (57%), Gaps = 2/42 (4%)
Query: 59 PLHNASTSTVPKGYLAVCVGEELKRFIIPTDYLSHQA-FHIL 99
PL+ A+ VPK + V +E R + T YLSHQ F++L
Sbjct: 361 PLYEANGQAVPKEKDEM-VEQEFNRLLEATSYLSHQLDFNVL 401
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 0.135 0.403
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,283,387
Number of Sequences: 62578
Number of extensions: 141129
Number of successful extensions: 263
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 262
Number of HSP's gapped (non-prelim): 9
length of query: 172
length of database: 14,973,337
effective HSP length: 92
effective length of query: 80
effective length of database: 9,216,161
effective search space: 737292880
effective search space used: 737292880
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: 48 (23.1 bits)