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= psy16727
(210 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1PK1|B Chain B, Hetero Sam Domain Structure Of Ph And Scm.
pdb|1PK1|D Chain D, Hetero Sam Domain Structure Of Ph And Scm
Length = 89
Score = 35.4 bits (80), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 27/83 (32%), Positives = 42/83 (50%), Gaps = 18/83 (21%)
Query: 16 IQEVGVYIASLMGLGDVIAQSLAVHNFTSLMGLGDVIAQTFIDGKQLTQINPMRTLQYSV 75
I+EV YI S SLAVH GD+ + IDGK L ++N R ++Y
Sbjct: 19 IEEVIQYIES-------NDNSLAVH--------GDLFRKHEIDGKALLRLNSERMMKY-- 61
Query: 76 VGLVVGPTVGKWYRILEGIYGKE 98
+GL +GP + K ++ + G++
Sbjct: 62 MGLKLGPAL-KICNLVNKVNGRD 83
>pdb|1PK3|A Chain A, Scm Sam Domain
pdb|1PK3|B Chain B, Scm Sam Domain
pdb|1PK3|C Chain C, Scm Sam Domain
Length = 89
Score = 32.0 bits (71), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 26/83 (31%), Positives = 41/83 (49%), Gaps = 18/83 (21%)
Query: 16 IQEVGVYIASLMGLGDVIAQSLAVHNFTSLMGLGDVIAQTFIDGKQLTQINPMRTLQYSV 75
I+EV YI S SLAVH GD+ + IDGK L ++N ++Y
Sbjct: 19 IEEVIQYIES-------NDNSLAVH--------GDLFRKHEIDGKALLRLNSEMMMKY-- 61
Query: 76 VGLVVGPTVGKWYRILEGIYGKE 98
+GL +GP + K ++ + G++
Sbjct: 62 MGLKLGPAL-KICNLVNKVNGRD 83
>pdb|1GAI|A Chain A, Glucoamylase-471 Complexed With D-Gluco-Dihydroacarbose
Length = 472
Score = 29.6 bits (65), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 21/40 (52%), Gaps = 1/40 (2%)
Query: 148 TGYQIWPAVQVVNFYFIPIQYRVLLV-QAVAVVWNTYLSW 186
TGY +W V +F+ I +Q+R L+ A A + SW
Sbjct: 172 TGYDLWEEVNGSSFFTIAVQHRALVEGSAFATAVGSSCSW 211
>pdb|1GAH|A Chain A, Glucoamylase-471 Complexed With Acarbose
Length = 471
Score = 29.6 bits (65), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 21/40 (52%), Gaps = 1/40 (2%)
Query: 148 TGYQIWPAVQVVNFYFIPIQYRVLLV-QAVAVVWNTYLSW 186
TGY +W V +F+ I +Q+R L+ A A + SW
Sbjct: 172 TGYDLWEEVNGSSFFTIAVQHRALVEGSAFATAVGSSCSW 211
>pdb|1AGM|A Chain A, Refined Structure For The Complex Of Acarbose With
Glucoamylase From Aspergillus Awamori Var. X100 To 2.4
Angstroms Resolution
pdb|1DOG|A Chain A, Refined Structure For The Complex Of 1-deoxynojirimycin
With Glucoamylase From (aspergillus Awamori) Var. X100
To 2.4 Angstroms Resolution
pdb|1GLM|A Chain A, Refined Crystal Structures Of Glucoamylase From
Aspergillus Awamori Var. X100
pdb|3GLY|A Chain A, Refined Crystal Structures Of Glucoamylase From
Aspergillus Awamori Var. X100
Length = 470
Score = 29.6 bits (65), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 21/40 (52%), Gaps = 1/40 (2%)
Query: 148 TGYQIWPAVQVVNFYFIPIQYRVLLV-QAVAVVWNTYLSW 186
TGY +W V +F+ I +Q+R L+ A A + SW
Sbjct: 172 TGYDLWEEVNGSSFFTIAVQHRALVEGSAFATAVGSSCSW 211
>pdb|3EQA|A Chain A, Catalytic Domain Of Glucoamylase From Aspergillus Niger
Complexed With Tris And Glycerol
Length = 470
Score = 29.6 bits (65), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 21/40 (52%), Gaps = 1/40 (2%)
Query: 148 TGYQIWPAVQVVNFYFIPIQYRVLLV-QAVAVVWNTYLSW 186
TGY +W V +F+ I +Q+R L+ A A + SW
Sbjct: 173 TGYDLWEEVNGSSFFTIAVQHRALVEGSAFATAVGSSCSW 212
>pdb|2XL4|A Chain A, Lnta, A Virulence Factor From Listeria Monocytogenes
Length = 175
Score = 29.3 bits (64), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 16/38 (42%), Positives = 21/38 (55%)
Query: 90 ILEGIYGKEAVVKKVLTDQLIFSPVFIAILVTSLNLLQ 127
+L G EAV KK +Q+IF V L T+LN L+
Sbjct: 128 LLNGKKDSEAVFKKTYPNQIIFKKVRTNKLQTALNNLK 165
>pdb|2V6V|A Chain A, The Structure Of The Bem1p Px Domain
pdb|2V6V|B Chain B, The Structure Of The Bem1p Px Domain
Length = 156
Score = 29.3 bits (64), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 11/44 (25%), Positives = 26/44 (59%)
Query: 6 YLGTYLVSRKIQEVGVYIASLMGLGDVIAQSLAVHNFTSLMGLG 49
Y+ + ++ +++ +Y+A L+ L D I++S VH+ ++ G
Sbjct: 95 YVTNSITKKRKEDLNIYVADLVNLPDYISRSEXVHSLFVVLNNG 138
>pdb|2CZO|A Chain A, Solution Structure Of The Px Domain Of Bem1p
Length = 155
Score = 28.5 bits (62), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 11/44 (25%), Positives = 26/44 (59%)
Query: 6 YLGTYLVSRKIQEVGVYIASLMGLGDVIAQSLAVHNFTSLMGLG 49
Y+ + ++ +++ +Y+A L+ L D I++S VH+ ++ G
Sbjct: 97 YVTNSITKKRKEDLNIYVADLVNLPDYISRSEMVHSLFVVLNNG 140
>pdb|1L28|A Chain A, Replacements Of Pro86 In Phage T4 Lysozyme Extend An
Alpha-Helix But Do Not Alter Protein Stability
Length = 164
Score = 27.3 bits (59), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 15/53 (28%), Positives = 24/53 (45%), Gaps = 2/53 (3%)
Query: 91 LEGIYGKEAVVKKVLTDQLIF--SPVFIAILVTSLNLLQGLSWDEAVTKVQNS 141
L+G+Y V++ ++F +A SL +LQ WDEA + S
Sbjct: 84 LKGVYDSLDAVRRCALINMVFQMGETGVAGFTNSLRMLQQKRWDEAAVNLAKS 136
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 0.404
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,567,344
Number of Sequences: 62578
Number of extensions: 203118
Number of successful extensions: 761
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 754
Number of HSP's gapped (non-prelim): 12
length of query: 210
length of database: 14,973,337
effective HSP length: 95
effective length of query: 115
effective length of database: 9,028,427
effective search space: 1038269105
effective search space used: 1038269105
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: 49 (23.5 bits)