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= 004715
(734 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 = 48.1 bits (113), Expect = 2e-05, Method: Composition-based stats.
Identities = 20/57 (35%), Positives = 34/57 (59%)
Query: 26 RWTEEEHNRFLEALKLYGRAWQRIEEHIGTKKAVQIRSHAQKFFSKLEKEALSKGVP 82
+WT EE F + L +GR W +I + IG++ +Q++S+A+++F K L K P
Sbjct: 11 KWTIEEKELFEQGLAKFGRRWTKISKLIGSRTVLQVKSYARQYFKNKVKCGLDKETP 67
>pdb|2X0L|B Chain B, Crystal Structure Of A Neuro-Specific Splicing Variant Of
Human Histone Lysine Demethylase Lsd1
Length = 133
Score = 42.0 bits (97), Expect = 0.001, Method: Composition-based stats.
Identities = 20/49 (40%), Positives = 29/49 (59%)
Query: 15 RKPYTITKQRERWTEEEHNRFLEALKLYGRAWQRIEEHIGTKKAVQIRS 63
R P I K RWT EE ++A++ YGR +Q I + IG K VQ+++
Sbjct: 64 RLPEVIQKCNARWTTEEQLLAVQAIRKYGRDFQAISDVIGNKSVVQVKN 112
>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 = 42.0 bits (97), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 22/55 (40%), Positives = 31/55 (56%), Gaps = 4/55 (7%)
Query: 15 RKPYTITKQRERWTEEEHNRFLEALKLYGRAWQRIEEHIGTKKAVQIRSHAQKFF 69
R P I K RWT EE ++A++ YGR +Q I + IG K VQ+++ FF
Sbjct: 124 RLPEVIQKCNARWTTEEQLLAVQAIRKYGRDFQAISDVIGNKSVVQVKN----FF 174
>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 = 41.6 bits (96), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 22/55 (40%), Positives = 31/55 (56%), Gaps = 4/55 (7%)
Query: 15 RKPYTITKQRERWTEEEHNRFLEALKLYGRAWQRIEEHIGTKKAVQIRSHAQKFF 69
R P I K RWT EE ++A++ YGR +Q I + IG K VQ+++ FF
Sbjct: 67 RLPEVIQKCNARWTTEEQLLAVQAIRKYGRDFQAISDVIGNKSVVQVKN----FF 117
>pdb|2YUM|A Chain A, Solution Structure Of The Myb-Like Dna-Binding Domain Of
Human Zzz3 Protein
Length = 75
Score = 41.6 bits (96), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 22/63 (34%), Positives = 32/63 (50%), Gaps = 10/63 (15%)
Query: 27 WTEEEHNRFLEALKLY------GRAWQRIEEHIGTKKAVQIRSHAQKFFSKLEKEALSKG 80
WT EE + + L Y R WQ+I + +G + A Q+ S QK+F KL K G
Sbjct: 11 WTVEEQKKLEQLLIKYPPEEVESRRWQKIADELGNRTAKQVASQVQKYFIKLTK----AG 66
Query: 81 VPI 83
+P+
Sbjct: 67 IPV 69
>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 = 41.2 bits (95), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 20/49 (40%), Positives = 29/49 (59%)
Query: 15 RKPYTITKQRERWTEEEHNRFLEALKLYGRAWQRIEEHIGTKKAVQIRS 63
R P I K RWT EE ++A++ YGR +Q I + IG K VQ+++
Sbjct: 371 RLPEVIQKCNARWTTEEQLLAVQAIRKYGRDFQAISDVIGNKSVVQVKN 419
>pdb|2A9V|A Chain A, Crystal Structure Of A Putative Gmp Synthase Subunit A
Protein (Ta0944m) From Thermoplasma Acidophilum At 2.45
A Resolution
pdb|2A9V|B Chain B, Crystal Structure Of A Putative Gmp Synthase Subunit A
Protein (Ta0944m) From Thermoplasma Acidophilum At 2.45
A Resolution
pdb|2A9V|C Chain C, Crystal Structure Of A Putative Gmp Synthase Subunit A
Protein (Ta0944m) From Thermoplasma Acidophilum At 2.45
A Resolution
pdb|2A9V|D Chain D, Crystal Structure Of A Putative Gmp Synthase Subunit A
Protein (Ta0944m) From Thermoplasma Acidophilum At 2.45
A Resolution
Length = 212
Score = 30.0 bits (66), Expect = 4.8, Method: Composition-based stats.
Identities = 16/62 (25%), Positives = 32/62 (51%)
Query: 289 EVHGNPNLFTNPAASATTENESNVPKSTHQSFPTFHPPFTQFRHDQDDYRSFLHISSAFS 348
E+ P+ FT A+SAT + + K+ FHP ++ +D +R+F+ I +++
Sbjct: 144 EIINLPDDFTLAASSATCQVQGFYHKTRPIYATQFHPEVEHTQYGRDIFRNFIGICASYR 203
Query: 349 SL 350
+
Sbjct: 204 EI 205
>pdb|2YQK|A Chain A, Solution Structure Of The Sant Domain In
Arginine-Glutamic Acid Dipeptide (Re) Repeats
Length = 63
Score = 30.0 bits (66), Expect = 4.9, Method: Composition-based stats.
Identities = 11/27 (40%), Positives = 19/27 (70%)
Query: 27 WTEEEHNRFLEALKLYGRAWQRIEEHI 53
WTE+E RF++ L+ YG+ + RI + +
Sbjct: 12 WTEDEVKRFVKGLRQYGKNFFRIRKEL 38
>pdb|1IRZ|A Chain A, Solution Structure Of Arr10-B Belonging To The Garp
Family Of Plant Myb-Related Dna Binding Motifs Of The
Arabidopsis Response Regulators
Length = 64
Score = 29.3 bits (64), Expect = 7.3, Method: Composition-based stats.
Identities = 21/69 (30%), Positives = 29/69 (42%), Gaps = 27/69 (39%)
Query: 22 KQRERWTEEEHNRFLEALKLYGRAWQRIEEHIGTKKAV----------------QIRSHA 65
K R WT E HN+FL A+ +H+G ++AV + SH
Sbjct: 5 KPRVLWTHELHNKFLAAV-----------DHLGVERAVPKKILDLMNVDKLTRENVASHL 53
Query: 66 QKFFSKLEK 74
QKF L+K
Sbjct: 54 QKFRVALKK 62
>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 = 29.3 bits (64), Expect = 9.3, Method: Composition-based stats.
Identities = 13/37 (35%), Positives = 19/37 (51%)
Query: 27 WTEEEHNRFLEALKLYGRAWQRIEEHIGTKKAVQIRS 63
WTEEE + L +GR W I +G+K Q ++
Sbjct: 19 WTEEEMGTAKKGLLEHGRNWSAIARMVGSKTVSQCKN 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
0.311 0.127 0.370
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 19,722,136
Number of Sequences: 62578
Number of extensions: 741633
Number of successful extensions: 1142
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 1131
Number of HSP's gapped (non-prelim): 14
length of query: 734
length of database: 14,973,337
effective HSP length: 106
effective length of query: 628
effective length of database: 8,340,069
effective search space: 5237563332
effective search space used: 5237563332
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 55 (25.8 bits)