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= 016995
(379 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3EIQ|C Chain C, Crystal Structure Of Pdcd4-eif4a
Length = 358
Score = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 28/134 (20%), Positives = 57/134 (42%), Gaps = 28/134 (20%)
Query: 79 RAAMGDNTVIITTLNQAWAEPNSIFDIFLESFRTGNGTGKL-LDHLV----------VVA 127
RAA+ D ++ ++++ +S++ G+G G+ ++HLV +++
Sbjct: 181 RAAL-DKATVLLSMSKGGKRKDSVW---------GSGGGQQPVNHLVKEIDMLLKEYLLS 230
Query: 128 LDSKALDHCLST-------HPHCYALNTSGLDFSGKEAYFMTSSYLEMMWIRIRLLSDVL 180
D +HCL H Y L+ +G+ A+ M L+ +W + D +
Sbjct: 231 GDISEAEHCLKELEVPHFHHELVYEAIVMVLESTGESAFKMILDLLKSLWKSSTITIDQM 290
Query: 181 AMGYNFVFTQDADI 194
GY ++ + DI
Sbjct: 291 KRGYERIYNEIPDI 304
>pdb|2HM8|A Chain A, Solution Structure Of The C-Terminal Ma-3 Domain Of Pdcd4
Length = 136
Score = 28.1 bits (61), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 22/99 (22%), Positives = 41/99 (41%), Gaps = 17/99 (17%)
Query: 113 GNGTGKLLDHLV----------VVALDSKALDHCLST-------HPHCYALNTSGLDFSG 155
G+G + ++HLV +++ D +HCL H Y L+ +G
Sbjct: 4 GSGGQQPVNHLVKEIDMLLKEYLLSGDISEAEHCLKELEVPHFHHELVYEAIVMVLESTG 63
Query: 156 KEAYFMTSSYLEMMWIRIRLLSDVLAMGYNFVFTQDADI 194
+ A+ M L+ +W + D + GY ++ + DI
Sbjct: 64 ESAFKMILDLLKSLWKSSTITIDQMKRGYERIYNEIPDI 102
>pdb|1LN8|A Chain A, Crystal Structure Of A New Isoform Of Phospholipase A2
From Naja Naja Sagittifera At 1.6 A Resolution
pdb|1MF4|A Chain A, Structure-Based Design Of Potent And Selective Inhibitors
Of Phospholipase A2: Crystal Structure Of The Complex
Formed Between Phosholipase A2 From Naja Naja
Sagittifera And A Designed Peptide Inhibitor At 1.9 A
Resolution
pdb|3JQ5|A Chain A, Phospholipase A2 Prevents The Aggregation Of Amyloid Beta
Peptides: Crystal Structure Of The Complex Of
Phospholipase A2 With Octapeptide Fragment Of Amyloid
Beta Peptide, Asp- Ala-Glu-Phe-Arg-His-Asp-Ser At 2 A
Resolution
pdb|3JQL|A Chain A, Crystal Structure Of The Complex Formed Between
Phospholipase A2 And A Hexapeptide Fragment Of Amyloid
Beta Peptide, Lys-Leu-Val-Phe-Phe-Ala At 1.2 A
Resolution
pdb|3NJU|A Chain A, Crystal Structure Of The Complex Of Group I Phospholipase
A2 With 4- Methoxy-Benzoicacid At 1.4a Resolution
pdb|3JTI|A Chain A, Crystal Structure Of The Complex Formed Between
Phospholipase A2 With Beta-Amyloid Fragment,
Lys-Gly-Ala-Ile-Ile-Gly-Leu-Met At 1.8 A Resolution
pdb|3OSH|A Chain A, Crystal Structure Of The Complex Of Group 1 Phospholipase
A2 With Atropin At 1.5 A Resolution
pdb|3Q4Y|A Chain A, Crystal Structure Of Group I Phospholipase A2 At 2.3 A
Resolution In 40% Ethanol Revealed The Critical Elements
Of Hydrophobicity Of The Substrate-Binding Site
Length = 119
Score = 28.1 bits (61), Expect = 7.9, Method: Composition-based stats.
Identities = 14/33 (42%), Positives = 16/33 (48%), Gaps = 3/33 (9%)
Query: 133 LDHCLSTHPHCYALNTSGLDFSGKEAYFMTSSY 165
LD C TH +CY + SG YF T SY
Sbjct: 40 LDRCCQTHDNCY---NEAENISGCRPYFKTYSY 69
>pdb|2X40|A Chain A, Structure Of Beta-Glucosidase 3b From Thermotoga
Neapolitana In Complex With Glycerol
pdb|2X41|A Chain A, Structure Of Beta-Glucosidase 3b From Thermotoga
Neapolitana In Complex With Glucose
Length = 721
Score = 28.1 bits (61), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 31/67 (46%), Gaps = 6/67 (8%)
Query: 57 VIAPSMKAQKSSNDPSLEKILKRA--AMGDNTVIITTLNQAWAEPNSIFDIF----LESF 110
V APS K + SN P LEK K A A + V++ NS +F +E+
Sbjct: 305 VNAPSFKNYRYSNKPDLEKHAKVAYEAGAEGVVLLRNEEALPLSENSKIALFGTGQIETI 364
Query: 111 RTGNGTG 117
+ G G+G
Sbjct: 365 KGGTGSG 371
>pdb|1T37|A Chain A, Design Of Specific Inhibitors Of Phospholipase A2: Crystal
Structure Of The Complex Formed Between Group I
Phospholipase A2 And A Designed Pentapeptide
Leu-Ala-Ile- Tyr-Ser At 2.6a Resolution
pdb|1ZM6|A Chain A, Crystal Structure Of The Complex Formed Beween A Group I
Phospholipase A2 And Designed Penta Peptide Leu-ala-ile-
Tyr-ser At 2.6a Resolution
Length = 119
Score = 28.1 bits (61), Expect = 8.3, Method: Composition-based stats.
Identities = 14/33 (42%), Positives = 16/33 (48%), Gaps = 3/33 (9%)
Query: 133 LDHCLSTHPHCYALNTSGLDFSGKEAYFMTSSY 165
LD C TH +CY + SG YF T SY
Sbjct: 40 LDRCCQTHDNCY---NEAENISGCRPYFKTYSY 69
>pdb|2X42|A Chain A, Structure Of Beta-Glucosidase 3b From Thermotoga
Neapolitana In Complex With Alpha-D-Glucose
Length = 721
Score = 28.1 bits (61), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 31/67 (46%), Gaps = 6/67 (8%)
Query: 57 VIAPSMKAQKSSNDPSLEKILKRA--AMGDNTVIITTLNQAWAEPNSIFDIF----LESF 110
V APS K + SN P LEK K A A + V++ NS +F +E+
Sbjct: 305 VNAPSFKNYRYSNKPDLEKHAKVAYEAGAEGVVLLRNEEALPLSENSKIALFGTGQIETI 364
Query: 111 RTGNGTG 117
+ G G+G
Sbjct: 365 KGGTGSG 371
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 0.421
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,983,792
Number of Sequences: 62578
Number of extensions: 499057
Number of successful extensions: 1033
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 15
Number of HSP's that attempted gapping in prelim test: 1033
Number of HSP's gapped (non-prelim): 15
length of query: 379
length of database: 14,973,337
effective HSP length: 100
effective length of query: 279
effective length of database: 8,715,537
effective search space: 2431634823
effective search space used: 2431634823
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: 52 (24.6 bits)