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= 026730
(234 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4GU1|A Chain A, Crystal Structure Of Lsd2
pdb|4GU1|B Chain B, Crystal Structure Of Lsd2
Length = 784
Score = 28.5 bits (62), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 22/83 (26%), Positives = 36/83 (43%), Gaps = 9/83 (10%)
Query: 156 RMDLLS---LVTSGMNDNEVNGHDEDILGVVEGWQDDETHNPDVPAVSHK-----RGLTP 207
R DL+ +T D ++ H +L VV W+ D+T DVP + K +
Sbjct: 426 RCDLIQEGGRITDPTIDKRMDFHFNALLDVVSEWRKDKTQLQDVP-LGEKIEEIYKAFIK 484
Query: 208 FVFVPFEEVETSVLNLPVEKMDY 230
+ F E+E VL + ++Y
Sbjct: 485 ESGIQFSELEGQVLQFHLSNLEY 507
>pdb|4GUR|A Chain A, Crystal Structure Of Lsd2-npac With H3 In Space Group P21
pdb|4GUS|A Chain A, Crystal Structure Of Lsd2-npac With H3 In Space Group
P3221
pdb|4GUT|A Chain A, Crystal Structure Of Lsd2-npac
pdb|4GUU|A Chain A, Crystal Structure Of Lsd2-npac With Tranylcypromine
pdb|4GU0|A Chain A, Crystal Structure Of Lsd2 With H3
pdb|4GU0|B Chain B, Crystal Structure Of Lsd2 With H3
pdb|4GU0|C Chain C, Crystal Structure Of Lsd2 With H3
pdb|4GU0|D Chain D, Crystal Structure Of Lsd2 With H3
pdb|4HSU|A Chain A, Crystal Structure Of Lsd2-npac With H3(1-26)in Space Group
P21
Length = 776
Score = 28.5 bits (62), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 22/83 (26%), Positives = 36/83 (43%), Gaps = 9/83 (10%)
Query: 156 RMDLLS---LVTSGMNDNEVNGHDEDILGVVEGWQDDETHNPDVPAVSHK-----RGLTP 207
R DL+ +T D ++ H +L VV W+ D+T DVP + K +
Sbjct: 418 RCDLIQEGGRITDPTIDKRMDFHFNALLDVVSEWRKDKTQLQDVP-LGEKIEEIYKAFIK 476
Query: 208 FVFVPFEEVETSVLNLPVEKMDY 230
+ F E+E VL + ++Y
Sbjct: 477 ESGIQFSELEGQVLQFHLSNLEY 499
>pdb|4FWE|A Chain A, Native Structure Of Lsd2 /aof1/kdm1b In Spacegroup Of
C2221 At 2.13a
pdb|4FWF|A Chain A, Complex Structure Of Lsd2/aof1/kdm1b With H3k4 Mimic
pdb|4FWJ|A Chain A, Native Structure Of Lsd2/aof1/kdm1b In Spacegroup Of I222
At 2.9a
pdb|4FWJ|B Chain B, Native Structure Of Lsd2/aof1/kdm1b In Spacegroup Of I222
At 2.9a
Length = 796
Score = 28.1 bits (61), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 22/83 (26%), Positives = 36/83 (43%), Gaps = 9/83 (10%)
Query: 156 RMDLLS---LVTSGMNDNEVNGHDEDILGVVEGWQDDETHNPDVPAVSHK-----RGLTP 207
R DL+ +T D ++ H +L VV W+ D+T DVP + K +
Sbjct: 438 RCDLIQEGGRITDPTIDKRMDFHFNALLDVVSEWRKDKTQLQDVP-LGEKIEEIYKAFIK 496
Query: 208 FVFVPFEEVETSVLNLPVEKMDY 230
+ F E+E VL + ++Y
Sbjct: 497 ESGIQFSELEGQVLQFHLSNLEY 519
>pdb|2DLB|A Chain A, X-Ray Crystal Structure Of Protein Yopt From Bacillus
Subtilis. Northeast Structural Genomics Consortium
Target Sr412
pdb|2DLB|B Chain B, X-Ray Crystal Structure Of Protein Yopt From Bacillus
Subtilis. Northeast Structural Genomics Consortium
Target Sr412
Length = 80
Score = 27.7 bits (60), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 13/31 (41%), Positives = 18/31 (58%)
Query: 2 ISKSFKLETGVSFVKLSGVVENYKILQSRYE 32
I ++ L VSF+K G VEN+K+ YE
Sbjct: 33 ICENLLLSKEVSFLKADGSVENFKLSDXEYE 63
>pdb|1DYP|A Chain A, 1,3-Alpha-1,4-Beta-D-Galactose-4-Sulfate-3,6-Anhydro-D-
Galactose 4 Galactohydrolase
Length = 271
Score = 27.7 bits (60), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 29/133 (21%), Positives = 51/133 (38%), Gaps = 10/133 (7%)
Query: 106 FRAAKADCVFTGHYTLSEEKVEAAVLYPGLRPTVLRIRLRLRGTTAGAN---NRMDLLSL 162
+ + A TG+Y E +++ A +PG+ P R T + + +D++ L
Sbjct: 84 YTSGVAKSRATGNYGYYEARIKGASTFPGVSPAFWXYSTIDRSLTKEGDVQYSEIDVVEL 143
Query: 163 VTSGMNDNEVNGHDEDILGVVEGWQDDETHNP-DVPAVSHKRGLTPFVFVPFEEVETSVL 221
V D D+ +V P P +H P F P + T +
Sbjct: 144 TQKSA----VRESDHDLHNIVVKNGKPTWXRPGSFPQTNHNGYHLP--FDPRNDFHTYGV 197
Query: 222 NLPVEKMDYYVPG 234
N+ +K+ +YV G
Sbjct: 198 NVTKDKITWYVDG 210
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
0.321 0.138 0.417
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,203,379
Number of Sequences: 62578
Number of extensions: 297493
Number of successful extensions: 616
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: 612
Number of HSP's gapped (non-prelim): 12
length of query: 234
length of database: 14,973,337
effective HSP length: 96
effective length of query: 138
effective length of database: 8,965,849
effective search space: 1237287162
effective search space used: 1237287162
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: 50 (23.9 bits)