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= psy6875
         (201 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 = 59.7 bits (143), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 43/151 (28%), Positives = 62/151 (41%), Gaps = 33/151 (21%)

Query: 49  GIKKCLLHLLHEGGFLSLWRGNGINVLKIAPESALKFMAYEQAKRLIRGNYTRELSIYER 108
           GI  C++ +  E GFLS WRGN  NV++  P  AL F   ++ K++  G   R    + R
Sbjct: 52  GIIDCVVRIPKEQGFLSFWRGNLANVIRYFPTQALNFAFKDKYKQIFLGGVDRHKQFW-R 110

Query: 109 FVAGSLAGGVSLNVPDDFTAKEMLTGMWWRHLVAGGVAGAVSRTCTAPLDRLKVYLQVHG 168
           + AG+LA                          +GG AGA S     PLD  +  L    
Sbjct: 111 YFAGNLA--------------------------SGGAAGATSLCFVYPLDFARTRLAADV 144

Query: 169 NK------TTGIKKCLLHLLHEGGFLSLWRG 193
            K       TG+  C+  +    G   L++G
Sbjct: 145 GKGAAQREFTGLGNCITKIFKSDGLRGLYQG 175



 Score = 58.2 bits (139), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 29/65 (44%), Positives = 41/65 (63%), Gaps = 8/65 (12%)

Query: 138 RHLVAGGVAGAVSRTCTAPLDRLKVYLQV-HGNKTT-------GIKKCLLHLLHEGGFLS 189
           +  +AGGVA A+S+T  AP++R+K+ LQV H +K         GI  C++ +  E GFLS
Sbjct: 9   KDFLAGGVAAAISKTAVAPIERVKLLLQVQHASKQISAEKQYKGIIDCVVRIPKEQGFLS 68

Query: 190 LWRGN 194
            WRGN
Sbjct: 69  FWRGN 73



 Score = 26.6 bits (57), Expect = 9.1,   Method: Compositional matrix adjust.
 Identities = 14/55 (25%), Positives = 25/55 (45%)

Query: 41  GVHGNKTTGIKKCLLHLLHEGGFLSLWRGNGINVLKIAPESALKFMAYEQAKRLI 95
           G    + TG+  C+  +    G   L++G  ++V  I    A  F  Y+ AK ++
Sbjct: 147 GAAQREFTGLGNCITKIFKSDGLRGLYQGFNVSVQGIIIYRAAYFGVYDTAKGML 201


>pdb|4AEZ|A Chain A, Crystal Structure Of Mitotic Checkpoint Complex
 pdb|4AEZ|D Chain D, Crystal Structure Of Mitotic Checkpoint Complex
 pdb|4AEZ|G Chain G, Crystal Structure Of Mitotic Checkpoint Complex
          Length = 401

 Score = 28.9 bits (63), Expect = 2.2,   Method: Compositional matrix adjust.
 Identities = 13/35 (37%), Positives = 23/35 (65%), Gaps = 1/35 (2%)

Query: 59  HEGGFLSLWRGNG-INVLKIAPESALKFMAYEQAK 92
           H+G FLS+  GNG +++  +  ++ L+ MA  QA+
Sbjct: 144 HDGSFLSVGLGNGLVDIYDVESQTKLRTMAGHQAR 178


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

 Score = 28.5 bits (62), Expect = 2.8,   Method: Compositional matrix adjust.
 Identities = 15/51 (29%), Positives = 28/51 (54%), Gaps = 1/51 (1%)

Query: 53  CLLHLLHEGGFLSLWRGNGINVLKIAPESALKFMAYEQAKRLIRGNY-TRE 102
           C L +L + G  + ++G   + L++   + + F+ YEQ KR +   Y +RE
Sbjct: 244 CALTMLRKEGPRAFYKGFMPSFLRLGSWNVVMFVTYEQLKRALMAAYQSRE 294



 Score = 26.9 bits (58), Expect = 6.6,   Method: Compositional matrix adjust.
 Identities = 16/65 (24%), Positives = 25/65 (38%), Gaps = 5/65 (7%)

Query: 139 HLVAGGVAGAVSRTCTAPLDRLKVYLQVH-----GNKTTGIKKCLLHLLHEGGFLSLWRG 193
            L+AG   GA++     P D +KV  Q       G +     +    +  E G   LW+G
Sbjct: 107 RLLAGSTTGALAVAVAQPTDVVKVRFQAQARAGGGRRYQSTVEAYKTIAREEGIRGLWKG 166

Query: 194 NGSKI 198
               +
Sbjct: 167 TSPNV 171


  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    0.428 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,337,610
Number of Sequences: 62578
Number of extensions: 206139
Number of successful extensions: 499
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 490
Number of HSP's gapped (non-prelim): 9
length of query: 201
length of database: 14,973,337
effective HSP length: 94
effective length of query: 107
effective length of database: 9,091,005
effective search space: 972737535
effective search space used: 972737535
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: 49 (23.5 bits)