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= 029445
(193 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2A8X|A Chain A, Crystal Structure Of Lipoamide Dehydrogenase From
Mycobacterium Tuberculosis
pdb|2A8X|B Chain B, Crystal Structure Of Lipoamide Dehydrogenase From
Mycobacterium Tuberculosis
Length = 464
Score = 28.9 bits (63), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 21/56 (37%), Positives = 29/56 (51%), Gaps = 4/56 (7%)
Query: 135 MCLHVHCYVSGPSLLRDLAAEFRYHIFTKEMPLVSFSLPATATVPILYEKNSKTAR 190
+CL+V C S +LLR+ AE HIFTK+ S T I Y+++ K A
Sbjct: 40 VCLNVGCIPS-KALLRN--AEL-VHIFTKDAKAFGISGEVTFDYGIAYDRSRKVAE 91
>pdb|3II4|A Chain A, Structure Of Mycobacterial Lipoamide Dehydrogenase Bound
To A Triazaspirodimethoxybenzoyl Inhibitor
pdb|3II4|B Chain B, Structure Of Mycobacterial Lipoamide Dehydrogenase Bound
To A Triazaspirodimethoxybenzoyl Inhibitor
Length = 466
Score = 28.9 bits (63), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 21/56 (37%), Positives = 29/56 (51%), Gaps = 4/56 (7%)
Query: 135 MCLHVHCYVSGPSLLRDLAAEFRYHIFTKEMPLVSFSLPATATVPILYEKNSKTAR 190
+CL+V C S +LLR+ AE HIFTK+ S T I Y+++ K A
Sbjct: 42 VCLNVGCIPS-KALLRN--AEL-VHIFTKDAKAFGISGEVTFDYGIAYDRSRKVAE 93
>pdb|1AXN|A Chain A, The High Resolution Structure Of Annexin Iii Shows
Differences With Annexin V
Length = 323
Score = 27.7 bits (60), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 15/37 (40%), Positives = 20/37 (54%)
Query: 50 GTFVSEAVRLLGPPASFEASKLKVVFLGEGMNDYSRI 86
G F V L+ PPA F+A +LK G G N+ + I
Sbjct: 78 GHFEHLMVALVTPPAVFDAKQLKKSMKGAGTNEDALI 114
>pdb|1AII|A Chain A, Annexin Iii
Length = 323
Score = 27.7 bits (60), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 15/37 (40%), Positives = 20/37 (54%)
Query: 50 GTFVSEAVRLLGPPASFEASKLKVVFLGEGMNDYSRI 86
G F V L+ PPA F+A +LK G G N+ + I
Sbjct: 78 GHFEHLMVALVTPPAVFDAKQLKKSMKGAGTNEDALI 114
>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 = 27.3 bits (59), Expect = 5.5, Method: Composition-based stats.
Identities = 16/54 (29%), Positives = 31/54 (57%), Gaps = 4/54 (7%)
Query: 82 DYSRILPRTYILSH-CDFTA--NLTLTISNVINLE-QLRGWYIKDDVVAEWKKV 131
+++R+L T LSH DF N +++ + + QL+ ++KD+ + WKK+
Sbjct: 381 EFNRLLEATSYLSHQLDFNVLNNKPVSLGQALEVVIQLQEKHVKDEQIEHWKKI 434
>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 = 27.3 bits (59), Expect = 5.5, Method: Composition-based stats.
Identities = 16/54 (29%), Positives = 31/54 (57%), Gaps = 4/54 (7%)
Query: 82 DYSRILPRTYILSH-CDFTA--NLTLTISNVINLE-QLRGWYIKDDVVAEWKKV 131
+++R+L T LSH DF N +++ + + QL+ ++KD+ + WKK+
Sbjct: 210 EFNRLLEATSYLSHQLDFNVLNNKPVSLGQALEVVIQLQEKHVKDEQIEHWKKI 263
>pdb|2DW4|A Chain A, Crystal Structure Of Human Lsd1 At 2.3 A Resolution
Length = 660
Score = 27.3 bits (59), Expect = 5.5, Method: Composition-based stats.
Identities = 16/54 (29%), Positives = 31/54 (57%), Gaps = 4/54 (7%)
Query: 82 DYSRILPRTYILSH-CDFTA--NLTLTISNVINLE-QLRGWYIKDDVVAEWKKV 131
+++R+L T LSH DF N +++ + + QL+ ++KD+ + WKK+
Sbjct: 210 EFNRLLEATSYLSHQLDFNVLNNKPVSLGQALEVVIQLQEKHVKDEQIEHWKKI 263
>pdb|2HKO|A Chain A, Crystal Structure Of Lsd1
Length = 664
Score = 27.3 bits (59), Expect = 5.5, Method: Composition-based stats.
Identities = 16/54 (29%), Positives = 31/54 (57%), Gaps = 4/54 (7%)
Query: 82 DYSRILPRTYILSH-CDFTA--NLTLTISNVINLE-QLRGWYIKDDVVAEWKKV 131
+++R+L T LSH DF N +++ + + QL+ ++KD+ + WKK+
Sbjct: 210 EFNRLLEATSYLSHQLDFNVLNNKPVSLGQALEVVIQLQEKHVKDEQIEHWKKI 263
>pdb|2H94|A Chain A, Crystal Structure And Mechanism Of Human Lysine-Specific
Demethylase-1
Length = 664
Score = 27.3 bits (59), Expect = 5.7, Method: Composition-based stats.
Identities = 16/54 (29%), Positives = 31/54 (57%), Gaps = 4/54 (7%)
Query: 82 DYSRILPRTYILSH-CDFTA--NLTLTISNVINLE-QLRGWYIKDDVVAEWKKV 131
+++R+L T LSH DF N +++ + + QL+ ++KD+ + WKK+
Sbjct: 210 EFNRLLEATSYLSHQLDFNVLNNKPVSLGQALEVVIQLQEKHVKDEQIEHWKKI 263
>pdb|2D0T|A Chain A, Crystal Structure Of 4-Phenylimidazole Bound Form Of Human
Indoleamine 2,3-Dioxygenase
pdb|2D0T|B Chain B, Crystal Structure Of 4-Phenylimidazole Bound Form Of Human
Indoleamine 2,3-Dioxygenase
pdb|2D0U|A Chain A, Crystal Structure Of Cyanide Bound Form Of Human
Indoleamine 2,3-Dioxygenase
pdb|2D0U|B Chain B, Crystal Structure Of Cyanide Bound Form Of Human
Indoleamine 2,3-Dioxygenase
Length = 406
Score = 27.3 bits (59), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 23/54 (42%), Gaps = 10/54 (18%)
Query: 77 GEGMNDYSRILPRTYILSHCDFTANLTLTISNVINLEQLRGWYIKDDVVAEWKK 130
G+G D ++LPR + +C + L L V D V+A WKK
Sbjct: 96 GKGHGDVRKVLPRNIAVPYCQLSKKLELPPILV----------YADCVLANWKK 139
>pdb|2X0L|A Chain A, Crystal Structure Of A Neuro-Specific Splicing Variant Of
Human Histone Lysine Demethylase Lsd1
Length = 734
Score = 27.3 bits (59), Expect = 5.9, Method: Composition-based stats.
Identities = 16/54 (29%), Positives = 31/54 (57%), Gaps = 4/54 (7%)
Query: 82 DYSRILPRTYILSH-CDFTA--NLTLTISNVINLE-QLRGWYIKDDVVAEWKKV 131
+++R+L T LSH DF N +++ + + QL+ ++KD+ + WKK+
Sbjct: 263 EFNRLLEATSYLSHQLDFNVLNNKPVSLGQALEVVIQLQEKHVKDEQIEHWKKI 316
>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 = 27.3 bits (59), Expect = 5.9, Method: Composition-based stats.
Identities = 16/54 (29%), Positives = 31/54 (57%), Gaps = 4/54 (7%)
Query: 82 DYSRILPRTYILSH-CDFTA--NLTLTISNVINLE-QLRGWYIKDDVVAEWKKV 131
+++R+L T LSH DF N +++ + + QL+ ++KD+ + WKK+
Sbjct: 259 EFNRLLEATSYLSHQLDFNVLNNKPVSLGQALEVVIQLQEKHVKDEQIEHWKKI 312
>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 = 27.3 bits (59), Expect = 5.9, Method: Composition-based stats.
Identities = 16/54 (29%), Positives = 31/54 (57%), Gaps = 4/54 (7%)
Query: 82 DYSRILPRTYILSH-CDFTA--NLTLTISNVINLE-QLRGWYIKDDVVAEWKKV 131
+++R+L T LSH DF N +++ + + QL+ ++KD+ + WKK+
Sbjct: 211 EFNRLLEATSYLSHQLDFNVLNNKPVSLGQALEVVIQLQEKHVKDEQIEHWKKI 264
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
0.323 0.135 0.411
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,592,344
Number of Sequences: 62578
Number of extensions: 206977
Number of successful extensions: 468
Number of sequences better than 100.0: 19
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 17
Number of HSP's that attempted gapping in prelim test: 466
Number of HSP's gapped (non-prelim): 19
length of query: 193
length of database: 14,973,337
effective HSP length: 93
effective length of query: 100
effective length of database: 9,153,583
effective search space: 915358300
effective search space used: 915358300
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 49 (23.5 bits)