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= 008551
(561 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3A21|A Chain A, Crystal Structure Of Streptomyces Avermitilis Beta-L-
Arabinopyranosidase
pdb|3A21|B Chain B, Crystal Structure Of Streptomyces Avermitilis Beta-L-
Arabinopyranosidase
pdb|3A22|A Chain A, Crystal Structure Of Beta-L-Arabinopyranosidase
Complexed With L- Arabinose
pdb|3A22|B Chain B, Crystal Structure Of Beta-L-Arabinopyranosidase
Complexed With L- Arabinose
pdb|3A23|A Chain A, Crystal Structure Of Beta-l-arabinopyranosidase
Complexed With D- Galactose
pdb|3A23|B Chain B, Crystal Structure Of Beta-l-arabinopyranosidase
Complexed With D- Galactose
Length = 614
Score = 33.5 bits (75), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 15/53 (28%), Positives = 28/53 (52%), Gaps = 3/53 (5%)
Query: 8 FGWCTWDAFYTDVTGEGVKQGLESFEKGGIPP---KFIIIDDGWQSVGMDPSG 57
GW +W++F + +K+ +++F G+P +I ID+GW D +G
Sbjct: 14 MGWASWNSFAAKIDYSVIKKQVDAFVAAGLPAAGYTYINIDEGWWQGTRDSAG 66
>pdb|3LRK|A Chain A, Structure Of Alfa-Galactosidase (Mel1) From Saccharomyces
Cerevisiae
pdb|3LRL|A Chain A, Structure Of Alfa-Galactosidase (Mel1) From Saccharomyces
Cerevisiae With Melibiose
Length = 479
Score = 32.3 bits (72), Expect = 0.67, Method: Compositional matrix adjust.
Identities = 23/73 (31%), Positives = 34/73 (46%), Gaps = 6/73 (8%)
Query: 8 FGWCTWDAFYTDVTGEGVKQGLESFEKGGIPP---KFIIIDDGWQSVGMDPSGFEFRADN 64
GW W+ F DV+ + + + G+ K+II+DD W S G D GF AD
Sbjct: 32 MGWDNWNTFACDVSEQLLLDTADRISDLGLKDMGYKYIILDDCWSS-GRDSDGF-LVADE 89
Query: 65 TANFANRLTHIKE 77
F N + H+ +
Sbjct: 90 Q-KFPNGMGHVAD 101
>pdb|3LRM|A Chain A, Structure Of Alfa-Galactosidase From Saccharomyces
Cerevisiae With Raffinose
pdb|3LRM|B Chain B, Structure Of Alfa-Galactosidase From Saccharomyces
Cerevisiae With Raffinose
pdb|3LRM|C Chain C, Structure Of Alfa-Galactosidase From Saccharomyces
Cerevisiae With Raffinose
pdb|3LRM|D Chain D, Structure Of Alfa-Galactosidase From Saccharomyces
Cerevisiae With Raffinose
Length = 479
Score = 32.3 bits (72), Expect = 0.68, Method: Compositional matrix adjust.
Identities = 23/73 (31%), Positives = 34/73 (46%), Gaps = 6/73 (8%)
Query: 8 FGWCTWDAFYTDVTGEGVKQGLESFEKGGIPP---KFIIIDDGWQSVGMDPSGFEFRADN 64
GW W+ F DV+ + + + G+ K+II+DD W S G D GF AD
Sbjct: 32 MGWDNWNTFACDVSEQLLLDTADRISDLGLKDMGYKYIILDDCWSS-GRDSDGF-LVADE 89
Query: 65 TANFANRLTHIKE 77
F N + H+ +
Sbjct: 90 Q-KFPNGMGHVAD 101
>pdb|3I0Z|A Chain A, Crystal Structure Of Putative Putative
Tagatose-6-Phosphate KetoseALDOSE ISOMERASE
(NP_344614.1) FROM STREPTOCOCCUS PNEUMONIAE Tigr4 At
1.70 A Resolution
pdb|3I0Z|B Chain B, Crystal Structure Of Putative Putative
Tagatose-6-Phosphate KetoseALDOSE ISOMERASE
(NP_344614.1) FROM STREPTOCOCCUS PNEUMONIAE Tigr4 At
1.70 A Resolution
Length = 389
Score = 29.6 bits (65), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 17/39 (43%), Positives = 23/39 (58%), Gaps = 4/39 (10%)
Query: 390 RVGKKNLIHDEQP----GTTTGFIRAKDVDYLPRVAGDE 424
R G K+LI+D GTTT + R D+D + VAGD+
Sbjct: 271 RHGPKSLINDNTVVLVFGTTTDYTRKYDLDLVREVAGDQ 309
>pdb|1UAS|A Chain A, Crystal Structure Of Rice Alpha-Galactosidase
Length = 362
Score = 29.3 bits (64), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 12/53 (22%), Positives = 25/53 (47%), Gaps = 3/53 (5%)
Query: 8 FGWCTWDAFYTDVTGEGVKQGLESFEKGGIPP---KFIIIDDGWQSVGMDPSG 57
GW +W+ FY + + +++ ++ G+ +++ IDD W D G
Sbjct: 11 MGWNSWNHFYCGINEQIIRETADALVNTGLAKLGYQYVNIDDCWAEYSRDSQG 63
>pdb|2WC1|A Chain A, Three-Dimensional Structure Of The Nitrogen Fixation
Flavodoxin (Niff) From Rhodobacter Capsulatus At 2.2 A
Length = 182
Score = 29.3 bits (64), Expect = 6.0, Method: Composition-based stats.
Identities = 15/51 (29%), Positives = 25/51 (49%)
Query: 391 VGKKNLIHDEQPGTTTGFIRAKDVDYLPRVAGDEWTGDAIAYSHLGGEVAY 441
+G L + PG + ++LPR+A +++G IA LG +V Y
Sbjct: 53 LGTPTLGDGQLPGLSANAASESWEEFLPRIADQDFSGKTIALFGLGDQVTY 103
>pdb|1KSF|X Chain X, Crystal Structure Of Clpa, An Hsp100 Chaperone And
Regulator Of Clpap Protease: Structural Basis Of
Differences In Function Of The Two Aaa+ Atpase Domains
pdb|1R6B|X Chain X, High Resolution Crystal Structure Of Clpa
Length = 758
Score = 29.3 bits (64), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 18/64 (28%), Positives = 32/64 (50%), Gaps = 5/64 (7%)
Query: 178 FYDELHSYLASAGIDGVKVDVQNILETLGAGHGGRVKLSRKYHQ-----ALEASIARNFR 232
F DE+H+ + + G +VD N+++ L + RV S Y + + ++AR F+
Sbjct: 283 FIDEIHTIIGAGAASGGQVDAANLIKPLLSSGKIRVIGSTTYQEFSNIFEKDRALARRFQ 342
Query: 233 NNDI 236
DI
Sbjct: 343 KIDI 346
>pdb|2BL0|B Chain B, Physarum Polycephalum Myosin Ii Regulatory Domain
Length = 145
Score = 28.9 bits (63), Expect = 8.3, Method: Composition-based stats.
Identities = 15/62 (24%), Positives = 31/62 (50%)
Query: 137 YESKMQYPVSSPGVQSNEPCDAFDSIAKNGLGLVNPEKVFHFYDELHSYLASAGIDGVKV 196
+++ + P+ +P QS E DAF ++ K G G + ++ L L S+ ++ +
Sbjct: 60 FKTVYRKPIKTPTEQSKEMLDAFRALDKEGNGTIQEAELRQLLLNLGDALTSSEVEELMK 119
Query: 197 DV 198
+V
Sbjct: 120 EV 121
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
0.319 0.138 0.431
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 18,879,991
Number of Sequences: 62578
Number of extensions: 871508
Number of successful extensions: 1810
Number of sequences better than 100.0: 28
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 23
Number of HSP's that attempted gapping in prelim test: 1805
Number of HSP's gapped (non-prelim): 28
length of query: 561
length of database: 14,973,337
effective HSP length: 104
effective length of query: 457
effective length of database: 8,465,225
effective search space: 3868607825
effective search space used: 3868607825
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 54 (25.4 bits)