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= psy111
(85 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2WSP|A Chain A, Thermotoga Maritima Alpha-L-Fucosynthase, Tmd224g, In
Complex With Alpha-L-Fuc-(1-2)-Beta-L-Fuc-N3
pdb|2WSP|B Chain B, Thermotoga Maritima Alpha-L-Fucosynthase, Tmd224g, In
Complex With Alpha-L-Fuc-(1-2)-Beta-L-Fuc-N3
Length = 449
Score = 30.8 bits (68), Expect = 0.20, Method: Composition-based stats.
Identities = 25/78 (32%), Positives = 39/78 (50%), Gaps = 8/78 (10%)
Query: 4 VNDRWCNTCLCKHGGYLTCEDKYN-PGKFQSRKFENCFTLD-KYSWGYRRDANIDDILNM 61
VNDRW H + T E N PG K+E FT S+GY R+ + +L++
Sbjct: 251 VNDRWG----VPHWDFKTAEYHVNYPGDLPGYKWE--FTRGIGLSFGYNRNEGPEHMLSV 304
Query: 62 TEVLQTMMNTVSFGDKTL 79
+++ T+++ VS G L
Sbjct: 305 EQLVYTLVDVVSKGGNLL 322
>pdb|2WVT|A Chain A, Crystal Structure Of An Alpha-L-Fucosidase Gh29 From
Bacteroides Thetaiotaomicron In Complex With A Novel
Iminosugar Fucosidase Inhibitor
pdb|2WVT|B Chain B, Crystal Structure Of An Alpha-L-Fucosidase Gh29 From
Bacteroides Thetaiotaomicron In Complex With A Novel
Iminosugar Fucosidase Inhibitor
pdb|2WVU|A Chain A, Crystal Structure Of A Michaelis Complex Of Alpha-L-
Fucosidase Gh29 From Bacteroides Thetaiotaomicron With
The Synthetic Substrate 4-Nitrophenyl-Alpha-L-Fucose
pdb|2WVU|B Chain B, Crystal Structure Of A Michaelis Complex Of Alpha-L-
Fucosidase Gh29 From Bacteroides Thetaiotaomicron With
The Synthetic Substrate 4-Nitrophenyl-Alpha-L-Fucose
pdb|2WVU|C Chain C, Crystal Structure Of A Michaelis Complex Of Alpha-L-
Fucosidase Gh29 From Bacteroides Thetaiotaomicron With
The Synthetic Substrate 4-Nitrophenyl-Alpha-L-Fucose
pdb|2WVU|D Chain D, Crystal Structure Of A Michaelis Complex Of Alpha-L-
Fucosidase Gh29 From Bacteroides Thetaiotaomicron With
The Synthetic Substrate 4-Nitrophenyl-Alpha-L-Fucose
Length = 443
Score = 30.8 bits (68), Expect = 0.20, Method: Composition-based stats.
Identities = 12/40 (30%), Positives = 23/40 (57%)
Query: 36 FENCFTLDKYSWGYRRDANIDDILNMTEVLQTMMNTVSFG 75
+E C T+ + WGY +D ++ + EV+ +++ VS G
Sbjct: 275 WEACMTIPENQWGYHKDWSLSYVKTPIEVIDRIVHAVSMG 314
>pdb|2WVS|A Chain A, Crystal Structure Of An Alpha-L-Fucosidase Gh29 Trapped
Covalent Intermediate From Bacteroides Thetaiotaomicron
In Complex With 2-Fluoro-Fucosyl Fluoride Using An E288q
Mutant
pdb|2WVS|B Chain B, Crystal Structure Of An Alpha-L-Fucosidase Gh29 Trapped
Covalent Intermediate From Bacteroides Thetaiotaomicron
In Complex With 2-Fluoro-Fucosyl Fluoride Using An E288q
Mutant
pdb|2WVS|C Chain C, Crystal Structure Of An Alpha-L-Fucosidase Gh29 Trapped
Covalent Intermediate From Bacteroides Thetaiotaomicron
In Complex With 2-Fluoro-Fucosyl Fluoride Using An E288q
Mutant
pdb|2WVS|D Chain D, Crystal Structure Of An Alpha-L-Fucosidase Gh29 Trapped
Covalent Intermediate From Bacteroides Thetaiotaomicron
In Complex With 2-Fluoro-Fucosyl Fluoride Using An E288q
Mutant
Length = 443
Score = 30.8 bits (68), Expect = 0.20, Method: Composition-based stats.
Identities = 12/40 (30%), Positives = 23/40 (57%)
Query: 36 FENCFTLDKYSWGYRRDANIDDILNMTEVLQTMMNTVSFG 75
+E C T+ + WGY +D ++ + EV+ +++ VS G
Sbjct: 275 WEACMTIPENQWGYHKDWSLSYVKTPIEVIDRIVHAVSMG 314
>pdb|1HL8|A Chain A, Crystal Structure Of Thermotoga Maritima Alpha-Fucosidase
pdb|1HL8|B Chain B, Crystal Structure Of Thermotoga Maritima Alpha-Fucosidase
pdb|1HL9|A Chain A, Crystal Structure Of Thermotoga Maritima Alpha-Fucosidase
In Complex With A Mechanism Based Inhibitor
pdb|1HL9|B Chain B, Crystal Structure Of Thermotoga Maritima Alpha-Fucosidase
In Complex With A Mechanism Based Inhibitor
Length = 449
Score = 30.8 bits (68), Expect = 0.20, Method: Composition-based stats.
Identities = 25/78 (32%), Positives = 39/78 (50%), Gaps = 8/78 (10%)
Query: 4 VNDRWCNTCLCKHGGYLTCEDKYN-PGKFQSRKFENCFTLD-KYSWGYRRDANIDDILNM 61
VNDRW H + T E N PG K+E FT S+GY R+ + +L++
Sbjct: 251 VNDRWG----VPHWDFKTAEYHVNYPGDLPGYKWE--FTRGIGLSFGYNRNEGPEHMLSV 304
Query: 62 TEVLQTMMNTVSFGDKTL 79
+++ T+++ VS G L
Sbjct: 305 EQLVYTLVDVVSKGGNLL 322
>pdb|2ZWY|A Chain A, Alpha-L-Fucosidase
pdb|2ZWY|B Chain B, Alpha-L-Fucosidase
pdb|2ZWZ|A Chain A, Alpha-L-Fucosidase Complexed With Inhibitor, Core1
pdb|2ZWZ|B Chain B, Alpha-L-Fucosidase Complexed With Inhibitor, Core1
pdb|2ZX5|A Chain A, Alpha-L-Fucosidase Complexed With Inhibitor, F10
pdb|2ZX5|B Chain B, Alpha-L-Fucosidase Complexed With Inhibitor, F10
pdb|2ZX6|A Chain A, Alpha-L-Fucosidase Complexed With Inhibitor, F10-1c
pdb|2ZX6|B Chain B, Alpha-L-Fucosidase Complexed With Inhibitor, F10-1c
pdb|2ZX7|A Chain A, Alpha-L-Fucosidase Complexed With Inhibitor, F10-2c
pdb|2ZX7|B Chain B, Alpha-L-Fucosidase Complexed With Inhibitor, F10-2c
pdb|2ZX8|A Chain A, Alpha-L-Fucosidase Complexed With Inhibitor, F10-2c-O
pdb|2ZX8|B Chain B, Alpha-L-Fucosidase Complexed With Inhibitor, F10-2c-O
pdb|2ZX9|A Chain A, Alpha-L-Fucosidase Complexed With Inhibitor, B4
pdb|2ZX9|B Chain B, Alpha-L-Fucosidase Complexed With Inhibitor, B4
pdb|2ZXA|A Chain A, Alpha-L-Fucosidase Complexed With Inhibitor, Fnj-Acetyl
pdb|2ZXA|B Chain B, Alpha-L-Fucosidase Complexed With Inhibitor, Fnj-Acetyl
pdb|2ZXB|A Chain A, Alpha-L-Fucosidase Complexed With Inhibitor, Ph-6fnj
pdb|2ZXB|B Chain B, Alpha-L-Fucosidase Complexed With Inhibitor, Ph-6fnj
pdb|2ZXD|A Chain A, Alpha-L-Fucosidase Complexed With Inhibitor, Iso-6fnj
pdb|2ZXD|B Chain B, Alpha-L-Fucosidase Complexed With Inhibitor, Iso-6fnj
Length = 455
Score = 30.8 bits (68), Expect = 0.20, Method: Composition-based stats.
Identities = 25/78 (32%), Positives = 39/78 (50%), Gaps = 8/78 (10%)
Query: 4 VNDRWCNTCLCKHGGYLTCEDKYN-PGKFQSRKFENCFTLD-KYSWGYRRDANIDDILNM 61
VNDRW H + T E N PG K+E FT S+GY R+ + +L++
Sbjct: 251 VNDRWG----VPHWDFKTAEYHVNYPGDLPGYKWE--FTRGIGLSFGYNRNEGPEHMLSV 304
Query: 62 TEVLQTMMNTVSFGDKTL 79
+++ T+++ VS G L
Sbjct: 305 EQLVYTLVDVVSKGGNLL 322
>pdb|1ODU|A Chain A, Crystal Structure Of Thermotoga Maritima Alpha-Fucosidase
In Complex With Fucose
pdb|1ODU|B Chain B, Crystal Structure Of Thermotoga Maritima Alpha-Fucosidase
In Complex With Fucose
Length = 449
Score = 30.8 bits (68), Expect = 0.20, Method: Composition-based stats.
Identities = 25/78 (32%), Positives = 39/78 (50%), Gaps = 8/78 (10%)
Query: 4 VNDRWCNTCLCKHGGYLTCEDKYN-PGKFQSRKFENCFTLD-KYSWGYRRDANIDDILNM 61
VNDRW H + T E N PG K+E FT S+GY R+ + +L++
Sbjct: 251 VNDRWG----VPHWDFKTAEYHVNYPGDLPGYKWE--FTRGIGLSFGYNRNEGPEHMLSV 304
Query: 62 TEVLQTMMNTVSFGDKTL 79
+++ T+++ VS G L
Sbjct: 305 EQLVYTLVDVVSKGGNLL 322
>pdb|2XIB|A Chain A, Crystal Structure Of An Alpha-L-Fucosidase Gh29 From
Bacteroides Thetaiotaomicron In Complex With
Deoxyfuconojirimycin
pdb|2XIB|B Chain B, Crystal Structure Of An Alpha-L-Fucosidase Gh29 From
Bacteroides Thetaiotaomicron In Complex With
Deoxyfuconojirimycin
pdb|2XIB|C Chain C, Crystal Structure Of An Alpha-L-Fucosidase Gh29 From
Bacteroides Thetaiotaomicron In Complex With
Deoxyfuconojirimycin
pdb|2XIB|D Chain D, Crystal Structure Of An Alpha-L-Fucosidase Gh29 From
Bacteroides Thetaiotaomicron In Complex With
Deoxyfuconojirimycin
pdb|2XII|A Chain A, Crystal Structure Of An Alpha-L-Fucosidase Gh29 From
Bacteroides Thetaiotaomicron In Complex With An Extended
9- Fluorenone Iminosugar Inhibitor
pdb|2XII|B Chain B, Crystal Structure Of An Alpha-L-Fucosidase Gh29 From
Bacteroides Thetaiotaomicron In Complex With An Extended
9- Fluorenone Iminosugar Inhibitor
Length = 453
Score = 30.8 bits (68), Expect = 0.21, Method: Composition-based stats.
Identities = 12/40 (30%), Positives = 23/40 (57%)
Query: 36 FENCFTLDKYSWGYRRDANIDDILNMTEVLQTMMNTVSFG 75
+E C T+ + WGY +D ++ + EV+ +++ VS G
Sbjct: 274 WEACMTIPENQWGYHKDWSLSYVKTPIEVIDRIVHAVSMG 313
>pdb|2WVV|A Chain A, Crystal Structure Of An Alpha-L-Fucosidase Gh29 From
Bacteroides Thetaiotaomicron
pdb|2WVV|C Chain C, Crystal Structure Of An Alpha-L-Fucosidase Gh29 From
Bacteroides Thetaiotaomicron
pdb|2WVV|D Chain D, Crystal Structure Of An Alpha-L-Fucosidase Gh29 From
Bacteroides Thetaiotaomicron
Length = 450
Score = 30.8 bits (68), Expect = 0.21, Method: Composition-based stats.
Identities = 12/40 (30%), Positives = 23/40 (57%)
Query: 36 FENCFTLDKYSWGYRRDANIDDILNMTEVLQTMMNTVSFG 75
+E C T+ + WGY +D ++ + EV+ +++ VS G
Sbjct: 271 WEACMTIPENQWGYHKDWSLSYVKTPIEVIDRIVHAVSMG 310
>pdb|2WVV|B Chain B, Crystal Structure Of An Alpha-L-Fucosidase Gh29 From
Bacteroides Thetaiotaomicron
Length = 450
Score = 30.8 bits (68), Expect = 0.21, Method: Composition-based stats.
Identities = 12/40 (30%), Positives = 23/40 (57%)
Query: 36 FENCFTLDKYSWGYRRDANIDDILNMTEVLQTMMNTVSFG 75
+E C T+ + WGY +D ++ + EV+ +++ VS G
Sbjct: 271 WEACMTIPENQWGYHKDWSLSYVKTPIEVIDRIVHAVSMG 310
>pdb|1YGH|A Chain A, Hat Domain Of Gcn5 From Saccharomyces Cerevisiae
pdb|1YGH|B Chain B, Hat Domain Of Gcn5 From Saccharomyces Cerevisiae
Length = 164
Score = 27.7 bits (60), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 19/50 (38%), Positives = 25/50 (50%), Gaps = 3/50 (6%)
Query: 4 VNDRWCNTCLCKHGGYLTCEDKYNPGKFQSRKFENCFTLDKYSW-GYRRD 52
+ D NT K+ +LT D Y G F+ + F TLDK W GY +D
Sbjct: 98 LKDYVRNTSNIKY--FLTYADNYAIGYFKKQGFTKEITLDKSIWMGYIKD 145
>pdb|1ET9|A Chain A, Crystal Structure Of The Superantigen Spe-H From
Streptococcus Pyogenes
pdb|1EU4|A Chain A, Crystal Structure Of The Superantigen Spe-H (Zinc Bound)
From Streptococcus Pyogenes
Length = 204
Score = 25.4 bits (54), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 13/38 (34%), Positives = 21/38 (55%), Gaps = 3/38 (7%)
Query: 49 YRRDANI---DDILNMTEVLQTMMNTVSFGDKTLSILF 83
Y+ D+N+ D I N +++ + M S DK LS+ F
Sbjct: 15 YKHDSNLIEADSIKNSPDIVTSHMLKYSVKDKNLSVFF 52
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 0.137 0.449
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,616,035
Number of Sequences: 62578
Number of extensions: 94614
Number of successful extensions: 183
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 172
Number of HSP's gapped (non-prelim): 16
length of query: 85
length of database: 14,973,337
effective HSP length: 53
effective length of query: 32
effective length of database: 11,656,703
effective search space: 373014496
effective search space used: 373014496
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: 45 (21.9 bits)