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= psy4659
         (132 letters)

Database: pdbaa 
           62,578 sequences; 14,973,337 total letters

Searching..................................................done



>pdb|1KCM|A Chain A, Crystal Structure Of Mouse Pitp Alpha Void Of Bound
           Phospholipid At 2.0 Angstroms Resolution
          Length = 270

 Score = 62.4 bits (150), Expect = 7e-11,   Method: Compositional matrix adjust.
 Identities = 31/70 (44%), Positives = 40/70 (57%), Gaps = 9/70 (12%)

Query: 24  DYVREEDPSIYVSKTTGRGPLSENWISEYWNAVKEDPTVSHDNKSMMCAYKLCKIQLNYW 83
           DY  EEDP+ + S  TGRGPL  NW  E          V+  +   MCAYKL  ++  +W
Sbjct: 153 DYKAEEDPAKFKSVKTGRGPLGPNWKQE---------LVNQKDCPYMCAYKLVTVKFKWW 203

Query: 84  GIQSKVERFI 93
           G+Q+KVE FI
Sbjct: 204 GLQNKVENFI 213


>pdb|1T27|A Chain A, The Structure Of Pitp Complexed To Phosphatidylcholine
          Length = 271

 Score = 62.4 bits (150), Expect = 8e-11,   Method: Compositional matrix adjust.
 Identities = 31/70 (44%), Positives = 40/70 (57%), Gaps = 9/70 (12%)

Query: 24  DYVREEDPSIYVSKTTGRGPLSENWISEYWNAVKEDPTVSHDNKSMMCAYKLCKIQLNYW 83
           DY  EEDP+ + S  TGRGPL  NW  E          V+  +   MCAYKL  ++  +W
Sbjct: 154 DYKAEEDPAKFKSIKTGRGPLGPNWKQE---------LVNQKDCPYMCAYKLVTVKFKWW 204

Query: 84  GIQSKVERFI 93
           G+Q+KVE FI
Sbjct: 205 GLQNKVENFI 214


>pdb|2A1L|A Chain A, Rat Pitp-Beta Complexed To Phosphatidylcholine
          Length = 270

 Score = 60.5 bits (145), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 32/76 (42%), Positives = 40/76 (52%), Gaps = 9/76 (11%)

Query: 23  GDYVREEDPSIYVSKTTGRGPLSENWISEYWNAVKEDPTVSHDNKSMMCAYKLCKIQLNY 82
            DY  +EDP+++ S  T RGPL  NW  E  N           +   MCAYKL  I+  +
Sbjct: 151 ADYKADEDPALFQSVKTKRGPLGPNWKKELANT---------PDCPKMCAYKLVTIKFKW 201

Query: 83  WGIQSKVERFIADTGK 98
           WG+QSKVE FI    K
Sbjct: 202 WGLQSKVENFIQKQEK 217


>pdb|1UW5|A Chain A, Structure Of Pitp-Alpha Complexed To Phosphatidylinositol
 pdb|1UW5|B Chain B, Structure Of Pitp-Alpha Complexed To Phosphatidylinositol
 pdb|1UW5|C Chain C, Structure Of Pitp-Alpha Complexed To Phosphatidylinositol
 pdb|1UW5|D Chain D, Structure Of Pitp-Alpha Complexed To Phosphatidylinositol
          Length = 270

 Score = 60.5 bits (145), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 35/89 (39%), Positives = 45/89 (50%), Gaps = 13/89 (14%)

Query: 24  DYVREEDPSIYVSKTTGRGPLSENWISEYWNAVKEDPTVSHDNKSMMCAYKLCKIQLNYW 83
           DY  EEDP+ + S  TGRGPL  NW  E          V+  +    CAYKL  ++  +W
Sbjct: 153 DYKAEEDPAKFKSIKTGRGPLGPNWKQE---------LVNQKDCPYXCAYKLVTVKFKWW 203

Query: 84  GIQSKVERFIADTGKPSGRALPRHFRRAL 112
           G+Q+KVE FI        R L  +F R L
Sbjct: 204 GLQNKVENFI----HKQERRLFTNFHRQL 228


>pdb|3E90|B Chain B, West Nile Vi Rus Ns2b-Ns3protease In Complexed With
           Inhibitor Naph-Kkr-H
 pdb|3E90|D Chain D, West Nile Vi Rus Ns2b-Ns3protease In Complexed With
           Inhibitor Naph-Kkr-H
          Length = 198

 Score = 26.6 bits (57), Expect = 4.4,   Method: Compositional matrix adjust.
 Identities = 24/82 (29%), Positives = 35/82 (42%), Gaps = 14/82 (17%)

Query: 45  SENWISEYWNAVKEDPTVSHDNKSMMCAYKLCKIQLNYWGIQSKVERFIADTGK--PSGR 102
            E  +  YW +VKED          +C     K+Q + W  Q +V+  + + GK   + R
Sbjct: 65  GEGRLDPYWGSVKED---------RLCYGGPWKLQ-HKWNGQDEVQMIVVEPGKNVKNVR 114

Query: 103 ALPRHFR--RALRFAVTLDKPC 122
             P  F+       AVTLD P 
Sbjct: 115 TKPGVFKTPEGEIGAVTLDFPT 136


>pdb|1WIY|A Chain A, Crystal Structure Analysis Of A 6-Coordinated Cytochorome
           P450 From Thermus Thermophilus Hb8
 pdb|1WIY|B Chain B, Crystal Structure Analysis Of A 6-Coordinated Cytochorome
           P450 From Thermus Thermophilus Hb8
          Length = 389

 Score = 26.2 bits (56), Expect = 5.7,   Method: Compositional matrix adjust.
 Identities = 11/22 (50%), Positives = 14/22 (63%)

Query: 84  GIQSKVERFIADTGKPSGRALP 105
           G   + ERF+A+ G PSGR  P
Sbjct: 307 GEAFQPERFLAERGTPSGRYFP 328


  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
   0.319    0.133    0.419 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,022,228
Number of Sequences: 62578
Number of extensions: 152170
Number of successful extensions: 513
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 500
Number of HSP's gapped (non-prelim): 13
length of query: 132
length of database: 14,973,337
effective HSP length: 88
effective length of query: 44
effective length of database: 9,466,473
effective search space: 416524812
effective search space used: 416524812
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 46 (22.3 bits)