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= psy9195
(139 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4A17|A Chain A, T.Thermophila 60s Ribosomal Subunit In Complex With
Initiation Factor 6. This File Contains 5s Rrna, 5.8s
Rrna And Proteins Of Molecule 2.
pdb|4A1A|A Chain A, T.Thermophila 60s Ribosomal Subunit In Complex With
Initiation Factor 6. This File Contains 5s Rrna, 5.8s
Rrna And Proteins Of Molecule 3.
pdb|4A1C|A Chain A, T.Thermophila 60s Ribosomal Subunit In Complex With
Initiation Factor 6. This File Contains 5s Rrna, 5.8s
Rrna And Proteins Of Molecule 4.
pdb|4A1E|A Chain A, T.Thermophila 60s Ribosomal Subunit In Complex With
Initiation Factor 6. This File Contains 5s Rrna, 5.8s
Rrna And Proteins Of Molecule 1
Length = 264
Score = 30.8 bits (68), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 25/48 (52%), Gaps = 2/48 (4%)
Query: 31 LLWQYFGSAKGFLRTYPDKEDAPAEDLIFDCRNRQWYIQATTCSKDVV 78
+ Q G A G +++ APA+ ++D RQ YI+ C +D+V
Sbjct: 5 IRAQRKGRANGVYKSHKSGRIAPAQYRVYDFAERQGYIRG--CIRDIV 50
>pdb|2WW8|A Chain A, Structure Of The Pilus Adhesin (Rrga) From Streptococcus
Pneumoniae
Length = 893
Score = 30.4 bits (67), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 13/21 (61%), Positives = 17/21 (80%)
Query: 76 DVVILVDNSGSMAGMRNTTAK 96
DVVIL+DNS SM+ +RN A+
Sbjct: 226 DVVILLDNSNSMSNIRNKNAR 246
>pdb|4A69|C Chain C, Structure Of Hdac3 Bound To Corepressor And Inositol
Tetraphosphate
pdb|4A69|D Chain D, Structure Of Hdac3 Bound To Corepressor And Inositol
Tetraphosphate
Length = 94
Score = 28.5 bits (62), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 20/43 (46%), Gaps = 4/43 (9%)
Query: 1 MAEHDDVRAGLMWSEGLDEVFRENYMADPTLLWQYFGSAKGFL 43
M + D + MWSE E FRE +M P + FG FL
Sbjct: 34 MKVYKDRQVMNMWSEQEKETFREKFMQHP----KNFGLIASFL 72
>pdb|1XC5|A Chain A, Solution Structure Of The Smrt Deacetylase Activation
Domain
Length = 71
Score = 28.1 bits (61), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 20/43 (46%), Gaps = 4/43 (9%)
Query: 1 MAEHDDVRAGLMWSEGLDEVFRENYMADPTLLWQYFGSAKGFL 43
M + D + MWSE E FRE +M P + FG FL
Sbjct: 11 MKVYKDRQVMNMWSEQEKETFREKFMQHP----KNFGLIASFL 49
>pdb|4HXZ|A Chain A, Pyrrolopyrimidine Inhibitors Of Dna Gyrase B And
Topoisomerase Iv, Part I: Structure Guided Discovery And
Optimization Of Dual Targeting Agents With Potent,
Broad-spectrum Enzymatic Activity.
pdb|4HXZ|B Chain B, Pyrrolopyrimidine Inhibitors Of Dna Gyrase B And
Topoisomerase Iv, Part I: Structure Guided Discovery And
Optimization Of Dual Targeting Agents With Potent,
Broad-spectrum Enzymatic Activity.
pdb|4HY1|A Chain A, Pyrrolopyrimidine Inhibitors Of Dna Gyrase B And
Topoisomerase Iv, Part I: Structure Guided Discovery And
Optimization Of Dual Targeting Agents With Potent,
Broad-spectrum Enzymatic Activity.
pdb|4HY1|B Chain B, Pyrrolopyrimidine Inhibitors Of Dna Gyrase B And
Topoisomerase Iv, Part I: Structure Guided Discovery And
Optimization Of Dual Targeting Agents With Potent,
Broad-spectrum Enzymatic Activity.
pdb|4HYM|A Chain A, Pyrrolopyrimidine Inhibitors Of Dna Gyrase B And
Topoisomerase Iv, Part I: Structure Guided Discovery And
Optimization Of Dual Targeting Agents With Potent,
Broad-spectrum Enzymatic Activity.
pdb|4HYM|B Chain B, Pyrrolopyrimidine Inhibitors Of Dna Gyrase B And
Topoisomerase Iv, Part I: Structure Guided Discovery And
Optimization Of Dual Targeting Agents With Potent,
Broad-spectrum Enzymatic Activity
Length = 390
Score = 27.7 bits (60), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 21/51 (41%), Gaps = 1/51 (1%)
Query: 24 NYMADPTLLWQYFGSAKGFLRTYPDKEDAPAEDLIFDC-RNRQWYIQATTC 73
N + L W + KG+L + E PAE I D N Y+ A C
Sbjct: 203 NEIKKEKLTWHFETGLKGYLDHKLEAETLPAEPFIIDNFSNGDSYLDAVFC 253
>pdb|3C6K|A Chain A, Crystal Structure Of Human Spermine Synthase In Complex
With Spermidine And 5-Methylthioadenosine
pdb|3C6K|B Chain B, Crystal Structure Of Human Spermine Synthase In Complex
With Spermidine And 5-Methylthioadenosine
pdb|3C6K|C Chain C, Crystal Structure Of Human Spermine Synthase In Complex
With Spermidine And 5-Methylthioadenosine
pdb|3C6K|D Chain D, Crystal Structure Of Human Spermine Synthase In Complex
With Spermidine And 5-Methylthioadenosine
pdb|3C6M|A Chain A, Crystal Structure Of Human Spermine Synthase In Complex
With Spermine And 5-Methylthioadenosine
pdb|3C6M|B Chain B, Crystal Structure Of Human Spermine Synthase In Complex
With Spermine And 5-Methylthioadenosine
pdb|3C6M|C Chain C, Crystal Structure Of Human Spermine Synthase In Complex
With Spermine And 5-Methylthioadenosine
pdb|3C6M|D Chain D, Crystal Structure Of Human Spermine Synthase In Complex
With Spermine And 5-Methylthioadenosine
Length = 381
Score = 26.2 bits (56), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 13/35 (37%), Positives = 19/35 (54%), Gaps = 4/35 (11%)
Query: 15 EGLDEVFRENYMADPTLLWQYFGSAKGFLRTYPDK 49
+GL +F+E MA+ WQ G+L TY +K
Sbjct: 39 KGLQSIFQEQGMAESVHTWQ----DHGYLATYTNK 69
>pdb|1PPT|A Chain A, X-Ray Analysis (1.4-Angstroms Resolution) Of Avian
Pancreatic Polypeptide. Small Globular Protein Hormone
Length = 36
Score = 25.8 bits (55), Expect = 8.0, Method: Composition-based stats.
Identities = 14/28 (50%), Positives = 16/28 (57%), Gaps = 1/28 (3%)
Query: 45 TYPDKEDAPAEDLIFDCRNRQWYIQATT 72
TYP +DAP EDLI N Q Y+ T
Sbjct: 6 TYPG-DDAPVEDLIRFYDNLQQYLNVVT 32
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 0.422
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,262,846
Number of Sequences: 62578
Number of extensions: 161735
Number of successful extensions: 354
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 353
Number of HSP's gapped (non-prelim): 7
length of query: 139
length of database: 14,973,337
effective HSP length: 89
effective length of query: 50
effective length of database: 9,403,895
effective search space: 470194750
effective search space used: 470194750
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 46 (22.3 bits)