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= psy1296
         (283 letters)

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

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



>pdb|1OKC|A Chain A, Structure Of Mitochondrial AdpATP CARRIER IN COMPLEX WITH
           Carboxyatractyloside
 pdb|2C3E|A Chain A, The Bovine Mitochondrial Adp-Atp Carrier
          Length = 297

 Score = 54.3 bits (129), Expect = 8e-08,   Method: Compositional matrix adjust.
 Identities = 44/200 (22%), Positives = 90/200 (45%), Gaps = 7/200 (3%)

Query: 85  GMLDCVTKILQKEKIFGFYKGMGAPLVGVAPLNALNYFGYGTGLKFFTNEKNMGQLELWQ 144
           G++DCV +I +++    F++G  A ++   P  ALN+       + F    +  + + W+
Sbjct: 52  GIIDCVVRIPKEQGFLSFWRGNLANVIRYFPTQALNFAFKDKYKQIFLGGVDRHK-QFWR 110

Query: 145 YFL----SGSLGGIVTAALVAPGE--RIKCLLQVQEGGLSNVYSGPVDVIRKLIQQHGLG 198
           YF     SG   G  +   V P +  R +    V +G     ++G  + I K+ +  GL 
Sbjct: 111 YFAGNLASGGAAGATSLCFVYPLDFARTRLAADVGKGAAQREFTGLGNCITKIFKSDGLR 170

Query: 199 SVFKGFSATLLRDVPAFGAYYAMYETVKHVFSGQGDSVIEVSDQTRKTTPLVGTITAGSM 258
            +++GF+ ++   +    AY+ +Y+T K +     +  I VS    +T   V  + +   
Sbjct: 171 GLYQGFNVSVQGIIIYRAAYFGVYDTAKGMLPDPKNVHIIVSWMIAQTVTAVAGLVSYPF 230

Query: 259 AGISYWIVVDSVDRRGESMY 278
             +   +++ S  +  + MY
Sbjct: 231 DTVRRRMMMQSGRKGADIMY 250



 Score = 49.7 bits (117), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 29/99 (29%), Positives = 48/99 (48%), Gaps = 4/99 (4%)

Query: 140 LELWQYFLSGSLGGIVTAALVAPGERIKCLLQVQEG----GLSNVYSGPVDVIRKLIQQH 195
           L   + FL+G +   ++   VAP ER+K LLQVQ           Y G +D + ++ ++ 
Sbjct: 5   LSFLKDFLAGGVAAAISKTAVAPIERVKLLLQVQHASKQISAEKQYKGIIDCVVRIPKEQ 64

Query: 196 GLGSVFKGFSATLLRDVPAFGAYYAMYETVKHVFSGQGD 234
           G  S ++G  A ++R  P     +A  +  K +F G  D
Sbjct: 65  GFLSFWRGNLANVIRYFPTQALNFAFKDKYKQIFLGGVD 103



 Score = 47.4 bits (111), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 41/148 (27%), Positives = 76/148 (51%), Gaps = 12/148 (8%)

Query: 85  GMLDCVTKILQKEKIFGFYKGMGAPLVGVAPLNALNYFG-YGTGLKFFTNEKNMGQLELW 143
           G+ +C+TKI + + + G Y+G    + G+    A  YFG Y T      + KN+  +  W
Sbjct: 155 GLGNCITKIFKSDGLRGLYQGFNVSVQGIIIYRA-AYFGVYDTAKGMLPDPKNVHIIVSW 213

Query: 144 QYFLSGSLGGIVTAALVA-PGERIKCLLQVQEG--GLSNVYSGPVDVIRKLIQQHGLGSV 200
              ++ ++  +  A LV+ P + ++  + +Q G  G   +Y+G VD  RK+ +  G  + 
Sbjct: 214 --MIAQTVTAV--AGLVSYPFDTVRRRMMMQSGRKGADIMYTGTVDCWRKIAKDEGPKAF 269

Query: 201 FKGFSATLLRDVPAFGAY-YAMYETVKH 227
           FKG  + +LR +   GA+   +Y+ +K 
Sbjct: 270 FKGAWSNVLRGMG--GAFVLVLYDEIKK 295


>pdb|1RIQ|A Chain A, The Crystal Structure Of The Catalytic Fragment Of The
           Alanyl-Trna Synthetase
          Length = 465

 Score = 28.1 bits (61), Expect = 6.3,   Method: Compositional matrix adjust.
 Identities = 24/85 (28%), Positives = 41/85 (48%), Gaps = 15/85 (17%)

Query: 139 QLELWQYFLSGSLGG---IVTAALVAPGERIKCLLQ--VQEGGLS----------NVYSG 183
           +LEL + F+ G + G        L A  E I+ ++Q  ++EG  +          + Y  
Sbjct: 334 ELELSREFVKGIVKGEEKRFIKTLKAGXEYIQEVIQKALEEGRKTLSGKEVFTAYDTYGF 393

Query: 184 PVDVIRKLIQQHGLGSVFKGFSATL 208
           PVD+I ++ ++ GLG   +GF   L
Sbjct: 394 PVDLIDEIAREKGLGIDLEGFQCEL 418


  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    0.140    0.441 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,478,068
Number of Sequences: 62578
Number of extensions: 367014
Number of successful extensions: 640
Number of sequences better than 100.0: 2
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 634
Number of HSP's gapped (non-prelim): 4
length of query: 283
length of database: 14,973,337
effective HSP length: 98
effective length of query: 185
effective length of database: 8,840,693
effective search space: 1635528205
effective search space used: 1635528205
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 51 (24.3 bits)