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= psy4122
(162 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3GBP|A Chain A, Structure Of The Periplasmic GlucoseGALACTOSE RECEPTOR OF
Salmonella Typhimurium
Length = 307
Score = 33.1 bits (74), Expect = 0.065, Method: Compositional matrix adjust.
Identities = 20/73 (27%), Positives = 34/73 (46%), Gaps = 2/73 (2%)
Query: 21 VNTDALTQDWLSHLRWILQKDNMSQDVFLIGKPGSLRRSLAMSYL--ELTQREVEYICLS 78
+ D + + W ++ W L KD Q V L G+PG +Y+ EL + ++ L+
Sbjct: 118 IQGDLIAKHWQANQGWDLNKDGKIQYVLLKGEPGHPDAEARTTYVVKELNDKGIQTEQLA 177
Query: 79 RDTTEADIKQRRE 91
DT D Q ++
Sbjct: 178 LDTAMWDTAQAKD 190
>pdb|1GCA|A Chain A, The 1.7 Angstroms Refined X-Ray Structure Of The
Periplasmic Glucose(Slash)galactose Receptor From
Salmonella Typhimurium
pdb|1GCG|A Chain A, The 1.9 Angstroms X-Ray Structure Of A Closed Unliganded
Form Of The Periplasmic Glucose(Slash)galactose Receptor
From Salmonella Typhimurium
pdb|3GA5|A Chain A, X-Ray Structure Of GlucoseGALACTOSE RECEPTOR FROM
Salmonella Typhimurium In Complex With
(2r)-Glyceryl-Beta- D-Galactopyranoside
pdb|3GA5|B Chain B, X-Ray Structure Of GlucoseGALACTOSE RECEPTOR FROM
Salmonella Typhimurium In Complex With
(2r)-Glyceryl-Beta- D-Galactopyranoside
Length = 309
Score = 33.1 bits (74), Expect = 0.065, Method: Compositional matrix adjust.
Identities = 20/73 (27%), Positives = 34/73 (46%), Gaps = 2/73 (2%)
Query: 21 VNTDALTQDWLSHLRWILQKDNMSQDVFLIGKPGSLRRSLAMSYL--ELTQREVEYICLS 78
+ D + + W ++ W L KD Q V L G+PG +Y+ EL + ++ L+
Sbjct: 118 IQGDLIAKHWQANQGWDLNKDGKIQYVLLKGEPGHPDAEARTTYVVKELNDKGIQTEQLA 177
Query: 79 RDTTEADIKQRRE 91
DT D Q ++
Sbjct: 178 LDTAMWDTAQAKD 190
>pdb|2FVY|A Chain A, High Resolution Glucose Bound Crystal Structure Of Ggbp
pdb|2FW0|A Chain A, Apo Open Form Of GlucoseGALACTOSE BINDING PROTEIN
pdb|1GLG|A Chain A, Crystallographic Analysis Of The Epimeric And Anomeric
Specificity Of The Periplasmic
Transport(Slash)chemotactic Protein Receptor For
D-Glucose And D-Galactose
pdb|2GBP|A Chain A, Sugar And Signal-Transducer Binding Sites Of The
Escherichia Coli Galactose Chemoreceptor Protein
pdb|2QW1|A Chain A, GlucoseGALACTOSE BINDING PROTEIN BOUND TO 3-O-Methyl
D-Glucose
Length = 309
Score = 32.7 bits (73), Expect = 0.084, Method: Compositional matrix adjust.
Identities = 20/73 (27%), Positives = 33/73 (45%), Gaps = 2/73 (2%)
Query: 21 VNTDALTQDWLSHLRWILQKDNMSQDVFLIGKPGSLRRSLAMSYL--ELTQREVEYICLS 78
+ D + + W ++ W L KD Q V L G+PG +Y+ EL + ++ L
Sbjct: 118 IQGDLIAKHWAANQGWDLNKDGQIQFVLLKGEPGHPDAEARTTYVIKELNDKGIKTEQLQ 177
Query: 79 RDTTEADIKQRRE 91
DT D Q ++
Sbjct: 178 LDTAMWDTAQAKD 190
>pdb|2HPH|A Chain A, High Resolution Structure Of E. Coli GlucoseGALACTOSE
Binding Protein Bound With Glucose
Length = 316
Score = 32.7 bits (73), Expect = 0.084, Method: Compositional matrix adjust.
Identities = 20/73 (27%), Positives = 33/73 (45%), Gaps = 2/73 (2%)
Query: 21 VNTDALTQDWLSHLRWILQKDNMSQDVFLIGKPGSLRRSLAMSYL--ELTQREVEYICLS 78
+ D + + W ++ W L KD Q V L G+PG +Y+ EL + ++ L
Sbjct: 119 IQGDLIAKHWAANQGWDLNKDGQIQFVLLKGEPGHPDAEARTTYVIKELNDKGIKTEQLQ 178
Query: 79 RDTTEADIKQRRE 91
DT D Q ++
Sbjct: 179 LDTAMWDTAQAKD 191
>pdb|2IPN|A Chain A, Crystal Structure Of A Disulfide Mutant Glucose Binding
Protein
Length = 318
Score = 32.7 bits (73), Expect = 0.087, Method: Compositional matrix adjust.
Identities = 20/73 (27%), Positives = 33/73 (45%), Gaps = 2/73 (2%)
Query: 21 VNTDALTQDWLSHLRWILQKDNMSQDVFLIGKPGSLRRSLAMSYL--ELTQREVEYICLS 78
+ D + + W ++ W L KD Q V L G+PG +Y+ EL + ++ L
Sbjct: 119 IQGDLIAKHWAANQGWDLNKDGQIQFVLLKGEPGHPDAEARTTYVIKELNDKGIKTEQLQ 178
Query: 79 RDTTEADIKQRRE 91
DT D Q ++
Sbjct: 179 LDTAMWDTAQAKD 191
>pdb|2IPM|A Chain A, Crystal Structure Of A Disulfide Mutant Glucose Binding
Protein
Length = 318
Score = 32.7 bits (73), Expect = 0.093, Method: Compositional matrix adjust.
Identities = 20/73 (27%), Positives = 33/73 (45%), Gaps = 2/73 (2%)
Query: 21 VNTDALTQDWLSHLRWILQKDNMSQDVFLIGKPGSLRRSLAMSYL--ELTQREVEYICLS 78
+ D + + W ++ W L KD Q V L G+PG +Y+ EL + ++ L
Sbjct: 119 IQGDLIAKHWAANQGWDLNKDGQIQFVLLKGEPGHPDAEARTTYVIKELNDKGIKTEQLQ 178
Query: 79 RDTTEADIKQRRE 91
DT D Q ++
Sbjct: 179 LDTAMWDTAQAKD 191
>pdb|2IPL|A Chain A, Crystal Structure Of A Disulfide Mutant Glucose Binding
Protein
Length = 318
Score = 28.9 bits (63), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 19/73 (26%), Positives = 32/73 (43%), Gaps = 2/73 (2%)
Query: 21 VNTDALTQDWLSHLRWILQKDNMSQDVFLIGKPGSLRRSLAMSYL--ELTQREVEYICLS 78
+ D + + W ++ W L KD Q V L G+P +Y+ EL + ++ L
Sbjct: 119 IQGDLIAKHWAANQGWDLNKDGQIQFVLLKGEPCHPDAEARTTYVIKELNDKGIKTEQLQ 178
Query: 79 RDTTEADIKQRRE 91
DT D Q ++
Sbjct: 179 LDTAMWDTAQAKD 191
>pdb|1C3P|A Chain A, Crystal Structure Of An Hdac Homolog From Aquifex Aeolicus
Length = 375
Score = 28.9 bits (63), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 21/69 (30%), Positives = 34/69 (49%), Gaps = 12/69 (17%)
Query: 16 IYLFSVNTDALTQDWLSHLRW----ILQKDNMSQDVFLIG--------KPGSLRRSLAMS 63
+YL + TD L +D+LS L+ N+ ++VF G P +L R+ +
Sbjct: 250 VYLLQLGTDPLLEDYLSKFNLSNVAFLKAFNIVREVFGEGVYLGGGGYHPYALARAWTLI 309
Query: 64 YLELTQREV 72
+ EL+ REV
Sbjct: 310 WCELSGREV 318
>pdb|1C3R|A Chain A, Crystal Structure Of An Hdac Homolog Complexed With
Trichostatin A
pdb|1C3R|B Chain B, Crystal Structure Of An Hdac Homolog Complexed With
Trichostatin A
pdb|1C3S|A Chain A, Crystal Structure Of An Hdac Homolog Complexed With Saha
Length = 375
Score = 28.5 bits (62), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 21/69 (30%), Positives = 34/69 (49%), Gaps = 12/69 (17%)
Query: 16 IYLFSVNTDALTQDWLSHLRW----ILQKDNMSQDVFLIG--------KPGSLRRSLAMS 63
+YL + TD L +D+LS L+ N+ ++VF G P +L R+ +
Sbjct: 250 VYLLQLGTDPLLEDYLSKFNLSNVAFLKAFNIVREVFGEGVYLGGGGYHPYALARAWTLI 309
Query: 64 YLELTQREV 72
+ EL+ REV
Sbjct: 310 WCELSGREV 318
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 0.135 0.377
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,831,796
Number of Sequences: 62578
Number of extensions: 120020
Number of successful extensions: 253
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 246
Number of HSP's gapped (non-prelim): 9
length of query: 162
length of database: 14,973,337
effective HSP length: 91
effective length of query: 71
effective length of database: 9,278,739
effective search space: 658790469
effective search space used: 658790469
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: 47 (22.7 bits)