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= psy1348
         (87 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 = 46.6 bits (109), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 26/84 (30%), Positives = 43/84 (51%), Gaps = 5/84 (5%)

Query: 5  LAGGLSGLISWALIMPFDVVKSTLQSDSLT-----DPKYKGMFDCFRKNYRQYGWTFFFR 59
          LAGG++  IS   + P + VK  LQ    +     + +YKG+ DC  +  ++ G+  F+R
Sbjct: 12 LAGGVAAAISKTAVAPIERVKLLLQVQHASKQISAEKQYKGIIDCVVRIPKEQGFLSFWR 71

Query: 60 GISITTIRAFPVNYIMFVTYEEFK 83
          G     IR FP   + F   +++K
Sbjct: 72 GNLANVIRYFPTQALNFAFKDKYK 95



 Score = 35.8 bits (81), Expect = 0.006,   Method: Compositional matrix adjust.
 Identities = 24/78 (30%), Positives = 38/78 (48%), Gaps = 8/78 (10%)

Query: 9   LSGLISWALIMPFDVVKSTLQSDSL---TDPKYKGMFDCFRKNYRQYGWTFFFRGISITT 65
           ++GL+S+    PFD V+  +   S     D  Y G  DC+RK  +  G   FF+G     
Sbjct: 222 VAGLVSY----PFDTVRRRMMMQSGRKGADIMYTGTVDCWRKIAKDEGPKAFFKGAWSNV 277

Query: 66  IRAFPVNYIMFVTYEEFK 83
           +R     +++ V Y+E K
Sbjct: 278 LRGMGGAFVL-VLYDEIK 294



 Score = 28.5 bits (62), Expect = 1.0,   Method: Compositional matrix adjust.
 Identities = 13/63 (20%), Positives = 30/63 (47%), Gaps = 3/63 (4%)

Query: 6   AGGLSGLISWALIMPFDVVKSTLQSD---SLTDPKYKGMFDCFRKNYRQYGWTFFFRGIS 62
           +GG +G  S   + P D  ++ L +D        ++ G+ +C  K ++  G    ++G +
Sbjct: 118 SGGAAGATSLCFVYPLDFARTRLAADVGKGAAQREFTGLGNCITKIFKSDGLRGLYQGFN 177

Query: 63  ITT 65
           ++ 
Sbjct: 178 VSV 180


>pdb|2LCK|A Chain A, Structure Of The Mitochondrial Uncoupling Protein 2
           Determined By Nmr Molecular Fragment Replacement
          Length = 303

 Score = 37.4 bits (85), Expect = 0.002,   Method: Composition-based stats.
 Identities = 22/74 (29%), Positives = 36/74 (48%), Gaps = 2/74 (2%)

Query: 10  SGLISWALIMPFDVVKSTLQSDSLTDPKYKGMFDCFRKNYRQYGWTFFFRGISITTIRAF 69
           +G  +  +  P DVVK+   + +L   +Y     C     R+ G   F++G   + +R  
Sbjct: 212 AGFCTTVIASPVDVVKTRYMNSALG--QYHSAGHCALTMLRKEGPRAFYKGFMPSFLRLG 269

Query: 70  PVNYIMFVTYEEFK 83
             N +MFVTYE+ K
Sbjct: 270 SWNVVMFVTYEQLK 283



 Score = 34.7 bits (78), Expect = 0.013,   Method: Composition-based stats.
 Identities = 23/81 (28%), Positives = 38/81 (46%), Gaps = 2/81 (2%)

Query: 5   LAGGLSGLISWALIMPFDVVKSTLQSDSLT--DPKYKGMFDCFRKNYRQYGWTFFFRGIS 62
           LAG  +G ++ A+  P DVVK   Q+ +      +Y+   + ++   R+ G    ++G S
Sbjct: 109 LAGSTTGALAVAVAQPTDVVKVRFQAQARAGGGRRYQSTVEAYKTIAREEGIRGLWKGTS 168

Query: 63  ITTIRAFPVNYIMFVTYEEFK 83
               R   VN    VTY+  K
Sbjct: 169 PNVARNAIVNCAELVTYDLIK 189


>pdb|2ZUQ|C Chain C, Crystal Structure Of Dsbb-Fab Complex
 pdb|2ZUQ|F Chain F, Crystal Structure Of Dsbb-Fab Complex
 pdb|2LTQ|C Chain C, High Resolution Structure Of Dsbb C41s By Joint
           Calculation With Solid-state Nmr And X-ray Data
 pdb|2LTQ|F Chain F, High Resolution Structure Of Dsbb C41s By Joint
           Calculation With Solid-state Nmr And X-ray Data
          Length = 221

 Score = 26.6 bits (57), Expect = 3.3,   Method: Compositional matrix adjust.
 Identities = 17/49 (34%), Positives = 25/49 (51%), Gaps = 3/49 (6%)

Query: 22  DVVKSTL--QSDSLTDPKYKGMFDCFRKNYRQYGWTFFFRGISITTIRA 68
           D  K+TL  Q  SL   +   M+ C R +YR Y   ++ +G S+T   A
Sbjct: 73  DNAKNTLYLQMSSLKS-EDTAMYYCARPDYRSYAMDYWGQGTSVTVSSA 120


  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
   0.331    0.144    0.485 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,625,225
Number of Sequences: 62578
Number of extensions: 86403
Number of successful extensions: 227
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 221
Number of HSP's gapped (non-prelim): 8
length of query: 87
length of database: 14,973,337
effective HSP length: 55
effective length of query: 32
effective length of database: 11,531,547
effective search space: 369009504
effective search space used: 369009504
T: 11
A: 40
X1: 15 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.9 bits)
S2: 45 (21.9 bits)