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= psy9008
(89 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3AMK|A Chain A, Structure Of The Starch Branching Enzyme I (Bei) From
Oryza Sativa L
Length = 702
Score = 34.7 bits (78), Expect = 0.013, Method: Composition-based stats.
Identities = 19/53 (35%), Positives = 32/53 (60%), Gaps = 3/53 (5%)
Query: 6 GIEKFTTSYNKYGIHVQADNSVRCFEWAPSAQQLYLTVYWNEVSKNGERQELE 58
G+E+F+ Y K+GI+ D + EWAP+AQ+ L +N + NG + ++E
Sbjct: 47 GLEEFSKGYLKFGINT-VDGATIYREWAPAAQEAQLIGEFN--NWNGAKHKME 96
>pdb|3AML|A Chain A, Structure Of The Starch Branching Enzyme I (Bei) From
Oryza Sativa L
Length = 755
Score = 34.7 bits (78), Expect = 0.014, Method: Composition-based stats.
Identities = 19/53 (35%), Positives = 32/53 (60%), Gaps = 3/53 (5%)
Query: 6 GIEKFTTSYNKYGIHVQADNSVRCFEWAPSAQQLYLTVYWNEVSKNGERQELE 58
G+E+F+ Y K+GI+ D + EWAP+AQ+ L +N + NG + ++E
Sbjct: 47 GLEEFSKGYLKFGINT-VDGATIYREWAPAAQEAQLIGEFN--NWNGAKHKME 96
>pdb|2FGZ|A Chain A, Crystal Structure Analysis Of Apo Pullulanase From
Klebsiella Pneumoniae
Length = 926
Score = 26.2 bits (56), Expect = 5.1, Method: Composition-based stats.
Identities = 12/28 (42%), Positives = 17/28 (60%), Gaps = 1/28 (3%)
Query: 17 YGIHVQADNSVRCFEWAPSAQQLYLTVY 44
YG + D+ V WAP+AQQ+ L +Y
Sbjct: 140 YGAQL-TDSGVTFRVWAPTAQQVELVIY 166
>pdb|2FHB|A Chain A, Crystal Structure Analysis Of Klebsiella Pneumoniae
Pullulanase Complexed With Maltose
pdb|2FHC|A Chain A, Crystal Structure Analysis Of Klebsiella Pneumoniae
Pullulanase Complexed With Maltotriose
pdb|2FHF|A Chain A, Crystal Structure Analysis Of Klebsiella Pneumoniae
Pullulanase Complexed With Maltotetraose
Length = 1083
Score = 26.2 bits (56), Expect = 5.1, Method: Composition-based stats.
Identities = 12/28 (42%), Positives = 17/28 (60%), Gaps = 1/28 (3%)
Query: 17 YGIHVQADNSVRCFEWAPSAQQLYLTVY 44
YG + D+ V WAP+AQQ+ L +Y
Sbjct: 297 YGAQL-TDSGVTFRVWAPTAQQVELVIY 323
>pdb|2FH8|A Chain A, Crystal Structure Analysis Of Klebsiella Pneumoniae
Pullulanase Complexed With Isomaltose
Length = 922
Score = 26.2 bits (56), Expect = 5.1, Method: Composition-based stats.
Identities = 12/28 (42%), Positives = 17/28 (60%), Gaps = 1/28 (3%)
Query: 17 YGIHVQADNSVRCFEWAPSAQQLYLTVY 44
YG + D+ V WAP+AQQ+ L +Y
Sbjct: 136 YGAQL-TDSGVTFRVWAPTAQQVELVIY 162
>pdb|1LFB|A Chain A, The X-Ray Structure Of An Atypical Homeodomain Present
In The Rat Liver Transcription Factor Lfb1(Slash)hnf1
And Implications For Dna Binding
Length = 99
Score = 26.2 bits (56), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 30/61 (49%), Gaps = 5/61 (8%)
Query: 30 FEWAPSAQQLYLTVYWNEVSKNGERQELESTF-LCN-AKCFLKDNHIGNGKG-NKMLVEE 86
F+W P++QQ+ Y E KN ++E E+ CN A+C + +G LV E
Sbjct: 14 FKWGPASQQILFQAY--ERQKNPSKEERETLVEECNRAECIQRGVSPSQAQGLGSNLVTE 71
Query: 87 V 87
V
Sbjct: 72 V 72
>pdb|2FH6|A Chain A, Crystal Structure Analysis Of Klebsiella Pneumoniae
Pullulanase Complexed With Glucose
Length = 920
Score = 26.2 bits (56), Expect = 5.2, Method: Composition-based stats.
Identities = 12/28 (42%), Positives = 17/28 (60%), Gaps = 1/28 (3%)
Query: 17 YGIHVQADNSVRCFEWAPSAQQLYLTVY 44
YG + D+ V WAP+AQQ+ L +Y
Sbjct: 134 YGAQL-TDSGVTFRVWAPTAQQVELVIY 160
>pdb|1IC8|A Chain A, Hepatocyte Nuclear Factor 1a Bound To Dna : Mody3 Gene
Product
pdb|1IC8|B Chain B, Hepatocyte Nuclear Factor 1a Bound To Dna : Mody3 Gene
Product
Length = 194
Score = 26.2 bits (56), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 16/52 (30%), Positives = 26/52 (50%), Gaps = 4/52 (7%)
Query: 30 FEWAPSAQQLYLTVYWNEVSKNGERQELESTF-LCN-AKCFLKDNHIGNGKG 79
F+W P++QQ+ Y E KN ++E E+ CN A+C + +G
Sbjct: 120 FKWGPASQQILFQAY--ERQKNPSKEERETLVEECNRAECIQRGVSPSQAQG 169
>pdb|2LFB|A Chain A, Homeodomain From Rat Liver Lfb1HNF1 TRANSCRIPTION
FACTOR, Nmr, 20 Structures
Length = 100
Score = 26.2 bits (56), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 30/61 (49%), Gaps = 5/61 (8%)
Query: 30 FEWAPSAQQLYLTVYWNEVSKNGERQELESTF-LCN-AKCFLKDNHIGNGKG-NKMLVEE 86
F+W P++QQ+ Y E KN ++E E+ CN A+C + +G LV E
Sbjct: 15 FKWGPASQQILFQAY--ERQKNPSKEERETLVEECNRAECIQRGVSPSQAQGLGSNLVTE 72
Query: 87 V 87
V
Sbjct: 73 V 73
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
0.314 0.130 0.400
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,873,342
Number of Sequences: 62578
Number of extensions: 101101
Number of successful extensions: 79
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 77
Number of HSP's gapped (non-prelim): 9
length of query: 89
length of database: 14,973,337
effective HSP length: 56
effective length of query: 33
effective length of database: 11,468,969
effective search space: 378475977
effective search space used: 378475977
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 45 (21.9 bits)