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= psy9523
         (107 letters)

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

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



>pdb|4ARZ|B Chain B, The Crystal Structure Of Gtr1p-Gtr2p Complexed With
           Gtp-Gdp
          Length = 341

 Score =  106 bits (265), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 50/93 (53%), Positives = 69/93 (74%)

Query: 13  GYDQITLSFHLTSIYDHSIFEAFSKVIQKLIPQLPTXXXXXXXXXXXSGIEKAFLFDVVS 72
           G D + +SF+LTSI+DHSI+EAFS+++QKLIP+L             S IEKAFLFDV S
Sbjct: 153 GLDGVQVSFYLTSIFDHSIYEAFSRIVQKLIPELSFLENMLDNLIQHSKIEKAFLFDVNS 212

Query: 73  KIYIATDSSPVDMQSYELCCDMVDLVIDVSGIY 105
           KIY++TDS+PVD+Q YE+C + +D+ ID+  +Y
Sbjct: 213 KIYVSTDSNPVDIQMYEVCSEFIDVTIDLFDLY 245


>pdb|3R7W|B Chain B, Crystal Structure Of Gtr1p-Gtr2p Complex
 pdb|3R7W|D Chain D, Crystal Structure Of Gtr1p-Gtr2p Complex
          Length = 331

 Score =  105 bits (263), Expect = 4e-24,   Method: Composition-based stats.
 Identities = 51/93 (54%), Positives = 70/93 (75%)

Query: 13  GYDQITLSFHLTSIYDHSIFEAFSKVIQKLIPQLPTXXXXXXXXXXXSGIEKAFLFDVVS 72
           G D + +SF+LTSI+DHSI+EAFS+++QKLIP+L             S IEKAFLFDV S
Sbjct: 143 GLDGVQVSFYLTSIFDHSIYEAFSRIVQKLIPELSFLENXLDNLIQHSKIEKAFLFDVNS 202

Query: 73  KIYIATDSSPVDMQSYELCCDMVDLVIDVSGIY 105
           KIY++TDS+PVD+Q YE+C + +D+ ID+  +Y
Sbjct: 203 KIYVSTDSNPVDIQXYEVCSEFIDVTIDLFDLY 235


>pdb|2Q3F|A Chain A, X-Ray Crystal Structure Of Putative Human Ras-Related Gtp
           Binding D In Complex With Gmppnp
 pdb|2Q3F|B Chain B, X-Ray Crystal Structure Of Putative Human Ras-Related Gtp
           Binding D In Complex With Gmppnp
          Length = 181

 Score = 56.2 bits (134), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 26/33 (78%), Positives = 30/33 (90%)

Query: 12  GGYDQITLSFHLTSIYDHSIFEAFSKVIQKLIP 44
            G ++I LSF+LTSIYDHSIFEAFSKV+QKLIP
Sbjct: 149 AGLEKIHLSFYLTSIYDHSIFEAFSKVVQKLIP 181


>pdb|3LLU|A Chain A, Crystal Structure Of The Nucleotide-Binding Domain Of Ras-
           Related Gtp-Binding Protein C
          Length = 196

 Score = 52.4 bits (124), Expect = 7e-08,   Method: Compositional matrix adjust.
 Identities = 24/32 (75%), Positives = 29/32 (90%)

Query: 12  GGYDQITLSFHLTSIYDHSIFEAFSKVIQKLI 43
            G +++ LSF+LTSIYDHSIFEAFSKV+QKLI
Sbjct: 165 AGLEKLHLSFYLTSIYDHSIFEAFSKVVQKLI 196


>pdb|4ARZ|A Chain A, The Crystal Structure Of Gtr1p-Gtr2p Complexed With
           Gtp-Gdp
          Length = 310

 Score = 27.7 bits (60), Expect = 1.6,   Method: Compositional matrix adjust.
 Identities = 10/25 (40%), Positives = 19/25 (76%)

Query: 24  TSIYDHSIFEAFSKVIQKLIPQLPT 48
           TSI+D S+++A+S+++  LIP +  
Sbjct: 164 TSIWDESLYKAWSQIVCSLIPNMSN 188


>pdb|3MB8|A Chain A, Crystal Structure Of Purine Nucleoside Phosphorylase From
           Toxoplasma Gondii In Complex With Immucillin-H
 pdb|3MB8|B Chain B, Crystal Structure Of Purine Nucleoside Phosphorylase From
           Toxoplasma Gondii In Complex With Immucillin-H
          Length = 279

 Score = 27.3 bits (59), Expect = 2.0,   Method: Compositional matrix adjust.
 Identities = 14/46 (30%), Positives = 23/46 (50%), Gaps = 2/46 (4%)

Query: 61  GIEKAFLFDVVSKIYIATDSSPVDMQSYELCCDMVDLVIDVSGIYG 106
           GIE A    V    +      P  ++ Y  CCD++D+  ++SG+ G
Sbjct: 151 GIEAASGIGVTQDYFYQNGILPSKLEMYSKCCDVIDM--EMSGVLG 194


>pdb|3R7W|A Chain A, Crystal Structure Of Gtr1p-Gtr2p Complex
 pdb|3R7W|C Chain C, Crystal Structure Of Gtr1p-Gtr2p Complex
          Length = 307

 Score = 26.6 bits (57), Expect = 3.6,   Method: Compositional matrix adjust.
 Identities = 10/22 (45%), Positives = 18/22 (81%)

Query: 24  TSIYDHSIFEAFSKVIQKLIPQ 45
           TSI+D S+++A+S+++  LIP 
Sbjct: 161 TSIWDESLYKAWSQIVCSLIPN 182


  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
   0.322    0.139    0.410 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,832,767
Number of Sequences: 62578
Number of extensions: 82558
Number of successful extensions: 178
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 171
Number of HSP's gapped (non-prelim): 7
length of query: 107
length of database: 14,973,337
effective HSP length: 72
effective length of query: 35
effective length of database: 10,467,721
effective search space: 366370235
effective search space used: 366370235
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: 45 (21.9 bits)