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= psy2137
(382 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2CRG|A Chain A, Solution Structure Of The Myb-Like Dna-Binding Domain Of
Mouse Mta3 Protein
Length = 70
Score = 116 bits (290), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 52/57 (91%), Positives = 54/57 (94%)
Query: 158 MEEWSASEANLFEEALEKYGKDFNDIRNDFLPWKTLKNIIEYYYMWKTTDRYVQQKR 214
MEEWSASEA LFEEALEKYGKDFNDIR DFLPWK+L +IIEYYYMWKTTDRYVQQKR
Sbjct: 8 MEEWSASEACLFEEALEKYGKDFNDIRQDFLPWKSLTSIIEYYYMWKTTDRYVQQKR 64
>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 = 45.4 bits (106), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 31/111 (27%), Positives = 60/111 (54%), Gaps = 15/111 (13%)
Query: 112 HMSAAAASRDITLFHAMDTLDKHKYSLAEAISSLVPSTGPVLCRDEMEEWSASEANLFEE 171
+++ A + A+ L HK+++ ++++ L P+ P +EW+ + LFE+
Sbjct: 149 YIAIAKEKHGYNMEQALGMLFWHKHNIEKSLADL-PNFTPFP-----DEWTVEDKVLFEQ 202
Query: 172 ALEKYGKDFNDIRNDFLPWKTLKNIIEYYYMWKTT-------DRYV-QQKR 214
A +GK F+ I+ LP K++ +++++YY WK T DR+ +QKR
Sbjct: 203 AFSFHGKTFHRIQ-QMLPDKSIASLVKFYYSWKKTRTKTSVMDRHARKQKR 252
Score = 38.9 bits (89), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 34/56 (60%), Gaps = 1/56 (1%)
Query: 306 GEIRVGSKYQSDITPYLGEASKDPNCRESKDFETLVWTPHHSLTDKQIDQFLVISR 361
G +RVG +YQ+ + P A +E + LVW+P+ +L++ ++D+++ I++
Sbjct: 100 GGMRVGPQYQA-VVPDFDPAKLARRSQERDNLGMLVWSPNQNLSEAKLDEYIAIAK 154
Score = 28.1 bits (61), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 36/167 (21%), Positives = 70/167 (41%), Gaps = 16/167 (9%)
Query: 83 KEPRSFVVS---LPSTFARALDCSSSVKQPSLHMSAAAASRDITLFHAMDTLDKHKYSLA 139
K P+ +S + + A A ++ ++Q L M + R I ++ K K
Sbjct: 309 KPPKGMFLSQEDVEAVSANATAATTVLRQ--LDMELVSVKRQIQNIKQTNSALKEKLD-- 364
Query: 140 EAISSLVPSTGPVLCRDEMEEWSASEANLFEEALEKYGKDFNDIRNDFLPWKTLKNIIEY 199
+ P P + + W+ E L +A+ KYG+DF I +D + K++ + +
Sbjct: 365 ---GGIEPYRLPEVIQKCNARWTTEEQLLAVQAIRKYGRDFQAI-SDVIGNKSVVQVKNF 420
Query: 200 YYMWKTTDRYVQQKRVKAVEAESKLKQVYIPNYNKP---PQGSAATP 243
+ ++ R+ + ++ EAE ++ P+ KP P S P
Sbjct: 421 FVNYRR--RFNIDEVLQEWEAEHGKEETNGPSNQKPVKSPDNSIKMP 465
>pdb|2YQK|A Chain A, Solution Structure Of The Sant Domain In Arginine-Glutamic
Acid Dipeptide (Re) Repeats
Length = 63
Score = 45.1 bits (105), Expect = 7e-05, Method: Composition-based stats.
Identities = 19/46 (41%), Positives = 26/46 (56%)
Query: 161 WSASEANLFEEALEKYGKDFNDIRNDFLPWKTLKNIIEYYYMWKTT 206
W+ E F + L +YGK+F IR + LP K +I +YY WK T
Sbjct: 12 WTEDEVKRFVKGLRQYGKNFFRIRKELLPNKETGELITFYYYWKKT 57
>pdb|4A69|C Chain C, Structure Of Hdac3 Bound To Corepressor And Inositol
Tetraphosphate
pdb|4A69|D Chain D, Structure Of Hdac3 Bound To Corepressor And Inositol
Tetraphosphate
Length = 94
Score = 35.0 bits (79), Expect = 0.079, Method: Composition-based stats.
Identities = 19/55 (34%), Positives = 27/55 (49%), Gaps = 1/55 (1%)
Query: 155 RDEMEEWSASEANLFEEALEKYGKDFNDIRNDFLPWKTLKNIIEYYYMWKTTDRY 209
R M WS E F E ++ K+F I + FL KT+ + YYY+ K + Y
Sbjct: 40 RQVMNMWSEQEKETFREKFMQHPKNFGLIAS-FLERKTVAECVLYYYLTKKNENY 93
>pdb|1XC5|A Chain A, Solution Structure Of The Smrt Deacetylase Activation
Domain
Length = 71
Score = 31.6 bits (70), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 19/55 (34%), Positives = 27/55 (49%), Gaps = 1/55 (1%)
Query: 155 RDEMEEWSASEANLFEEALEKYGKDFNDIRNDFLPWKTLKNIIEYYYMWKTTDRY 209
R M WS E F E ++ K+F I + FL KT+ + YYY+ K + Y
Sbjct: 17 RQVMNMWSEQEKETFREKFMQHPKNFGLIAS-FLERKTVAECVLYYYLTKKNENY 70
>pdb|3QE9|Y Chain Y, Crystal Structure Of Human Exonuclease 1 Exo1 (D173a) In
Complex With Dna (Complex I)
pdb|3QE9|Z Chain Z, Crystal Structure Of Human Exonuclease 1 Exo1 (D173a) In
Complex With Dna (Complex I)
Length = 352
Score = 31.2 bits (69), Expect = 0.92, Method: Compositional matrix adjust.
Identities = 26/96 (27%), Positives = 38/96 (39%), Gaps = 17/96 (17%)
Query: 269 KFGHAFSTRLAMPRDELD-------TFFYCLVFDPAQKTLL--------ADKGEIRVGSK 313
K GH + +P D ++ TF Y LVFDP ++ L+ D + +
Sbjct: 256 KIGHYLKMNITVPEDYINGFIRANNTFLYQLVFDPIKRKLIPLNAYEDDVDPETLSYAGQ 315
Query: 314 YQSD-ITPYLGEASKDPNCRES-KDFETLVWTPHHS 347
Y D I + +KD N E D+ P HS
Sbjct: 316 YVDDSIALQIALGNKDINTFEQIDDYNPDTAMPAHS 351
>pdb|3QEA|Z Chain Z, Crystal Structure Of Human Exonuclease 1 Exo1 (Wt) In
Complex With Dna (Complex Ii)
pdb|3QEB|Z Chain Z, Crystal Structure Of Human Exonuclease 1 Exo1 (Wt) In
Complex With Dna And Mn2+ (Complex Iii)
Length = 352
Score = 31.2 bits (69), Expect = 0.95, Method: Compositional matrix adjust.
Identities = 26/96 (27%), Positives = 38/96 (39%), Gaps = 17/96 (17%)
Query: 269 KFGHAFSTRLAMPRDELD-------TFFYCLVFDPAQKTLL--------ADKGEIRVGSK 313
K GH + +P D ++ TF Y LVFDP ++ L+ D + +
Sbjct: 256 KIGHYLKMNITVPEDYINGFIRANNTFLYQLVFDPIKRKLIPLNAYEDDVDPETLSYAGQ 315
Query: 314 YQSD-ITPYLGEASKDPNCRES-KDFETLVWTPHHS 347
Y D I + +KD N E D+ P HS
Sbjct: 316 YVDDSIALQIALGNKDINTFEQIDDYNPDTAMPAHS 351
>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 = 29.3 bits (64), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 33/156 (21%), Positives = 67/156 (42%), Gaps = 13/156 (8%)
Query: 83 KEPRSFVVS---LPSTFARALDCSSSVKQPSLHMSAAAASRDITLFHAMDTLDKHKYSLA 139
K P+ +S + + A A ++ ++Q L M + R I ++ K K
Sbjct: 62 KPPKGMFLSQEDVEAVSANATAATTVLRQ--LDMELVSVKRQIQNIKQTNSALKEKLD-- 117
Query: 140 EAISSLVPSTGPVLCRDEMEEWSASEANLFEEALEKYGKDFNDIRNDFLPWKTLKNIIEY 199
+ P P + + W+ E L +A+ KYG+DF I +D + K++ + +
Sbjct: 118 ---GGIEPYRLPEVIQKCNARWTTEEQLLAVQAIRKYGRDFQAI-SDVIGNKSVVQVKNF 173
Query: 200 YYMWKTTDRYVQQKRVKAVEAESKLKQVYIPNYNKP 235
+ ++ R+ + ++ EAE ++ P+ KP
Sbjct: 174 FVNYRR--RFNIDEVLQEWEAEHGKEETNGPSNQKP 207
>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 = 28.9 bits (63), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 36/167 (21%), Positives = 70/167 (41%), Gaps = 16/167 (9%)
Query: 83 KEPRSFVVS---LPSTFARALDCSSSVKQPSLHMSAAAASRDITLFHAMDTLDKHKYSLA 139
K P+ +S + + A A ++ ++Q L M + R I ++ K K
Sbjct: 5 KPPKGMFLSQEDVEAVSANATAATTVLRQ--LDMELVSVKRQIQNIKQTNSALKEKLD-- 60
Query: 140 EAISSLVPSTGPVLCRDEMEEWSASEANLFEEALEKYGKDFNDIRNDFLPWKTLKNIIEY 199
+ P P + + W+ E L +A+ KYG+DF I +D + K++ + +
Sbjct: 61 ---GGIEPYRLPEVIQKCNARWTTEEQLLAVQAIRKYGRDFQAI-SDVIGNKSVVQVKNF 116
Query: 200 YYMWKTTDRYVQQKRVKAVEAESKLKQVYIPNYNKP---PQGSAATP 243
+ ++ R+ + ++ EAE ++ P+ KP P S P
Sbjct: 117 FVNYRR--RFNIDEVLQEWEAEHGKEETNGPSNQKPVKSPDNSIKMP 161
>pdb|3LP8|A Chain A, Crystal Structure Of Phosphoribosylamine-Glycine Ligase
From Ehrlichia Chaffeensis
Length = 442
Score = 28.5 bits (62), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 18/63 (28%), Positives = 26/63 (41%), Gaps = 2/63 (3%)
Query: 131 LDKHKYSLAEAISSLVPSTGPVLCRDEMEEWSASEANLFEEALEKYGKDFNDIRNDFLPW 190
+DKHK L L G V+C E ++A +A L + G I +FL
Sbjct: 154 IDKHKLPLVVKADGLAQGKGTVICHTHEEAYNAVDAMLVHHKFGEAGCAI--IIEEFLEG 211
Query: 191 KTL 193
K +
Sbjct: 212 KEI 214
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 0.377
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,399,844
Number of Sequences: 62578
Number of extensions: 412608
Number of successful extensions: 1019
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 1009
Number of HSP's gapped (non-prelim): 13
length of query: 382
length of database: 14,973,337
effective HSP length: 101
effective length of query: 281
effective length of database: 8,652,959
effective search space: 2431481479
effective search space used: 2431481479
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: 52 (24.6 bits)