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= 015408
         (407 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 = 95.1 bits (235), Expect = 6e-20,   Method: Compositional matrix adjust.
 Identities = 82/294 (27%), Positives = 126/294 (42%), Gaps = 47/294 (15%)

Query: 137 KHLFAGAVAAAVSRTCVAPLERLKLEYIVR---------GEQKSLFDLIKTIGATQGLKG 187
           K   AG VAAA+S+T VAP+ER+KL   V+          + K + D +  I   QG   
Sbjct: 9   KDFLAGGVAAAISKTAVAPIERVKLLLQVQHASKQISAEKQYKGIIDCVVRIPKEQGFLS 68

Query: 188 FWKGNFVNILRTAPFKAINFYAYDTYRNQLLKLSGKDKSTNFERFVXXXXX---XXXXXX 244
           FW+GN  N++R  P +A+NF   D Y+   + L G D+   F R+               
Sbjct: 69  FWRGNLANVIRYFPTQALNFAFKDKYKQ--IFLGGVDRHKQFWRYFAGNLASGGAAGATS 126

Query: 245 XCL--PLDTIRTVMVAPGGEA-----LGGLIGAFRHMIQTEGFFSLYKGLVPSIVSMAPS 297
            C   PLD  RT + A  G+        GL      + +++G   LY+G   S+  +   
Sbjct: 127 LCFVYPLDFARTRLAADVGKGAAQREFTGLGNCITKIFKSDGLRGLYQGFNVSVQGIIIY 186

Query: 298 GAVFYGVYDILKSAYLHSPEGKKRLQNMRKDQDLSALEQLELGPVRTLLYGAIAGCCSEA 357
            A ++GVYD  K   L  P+    + +    Q ++                A+AG  S  
Sbjct: 187 RAAYFGVYDTAKGM-LPDPKNVHIIVSWMIAQTVT----------------AVAGLVS-- 227

Query: 358 ATYPFEVVRRQLQMQVCATKLNALATCV-----KIVEQGGVPALYAGLTPSLLQ 406
             YPF+ VRR++ MQ      + + T       KI +  G  A + G   ++L+
Sbjct: 228 --YPFDTVRRRMMMQSGRKGADIMYTGTVDCWRKIAKDEGPKAFFKGAWSNVLR 279


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

 Score = 54.7 bits (130), Expect = 9e-08,   Method: Compositional matrix adjust.
 Identities = 46/194 (23%), Positives = 80/194 (41%), Gaps = 17/194 (8%)

Query: 138 HLFAGAVAAAVSRTCVAPLERLKLEYIVRGEQ------KSLFDLIKTIGATQGLKGFWKG 191
            L AG+   A++     P + +K+ +  +         +S  +  KTI   +G++G WKG
Sbjct: 107 RLLAGSTTGALAVAVAQPTDVVKVRFQAQARAGGGRRYQSTVEAYKTIAREEGIRGLWKG 166

Query: 192 NFVNILRTAPFKAINFYAYDTYRNQLLK--LSGKDKSTNFERFVXXXXXXXXXXXXCLPL 249
              N+ R A         YD  ++ LLK  L   D   +   F               P+
Sbjct: 167 TSPNVARNAIVNCAELVTYDLIKDTLLKANLMTDDLPCH---FTSAFGAGFCTTVIASPV 223

Query: 250 DTIRTVMVAPGGEALGGLIGAFR---HMIQTEGFFSLYKGLVPSIVSMAPSGAVFYGVYD 306
           D ++T  +     ALG    A      M++ EG  + YKG +PS + +     V +  Y+
Sbjct: 224 DVVKTRYM---NSALGQYHSAGHCALTMLRKEGPRAFYKGFMPSFLRLGSWNVVMFVTYE 280

Query: 307 ILKSAYLHSPEGKK 320
            LK A + + + ++
Sbjct: 281 QLKRALMAAYQSRE 294



 Score = 48.5 bits (114), Expect = 7e-06,   Method: Compositional matrix adjust.
 Identities = 61/289 (21%), Positives = 105/289 (36%), Gaps = 38/289 (13%)

Query: 135 TTKHLFAGAVAAAVSRTCVAPLERLKLEYIVRGEQKSL------------FDLIKTIGAT 182
           T K L AG  AA ++     PL+  K+   ++GE + L               I T+  T
Sbjct: 2   TVKFLGAG-TAACIADLITFPLDTAKVRLQIQGESQGLVRTAASAQYRGVLGTILTMVRT 60

Query: 183 QGLKGFWKGNFVNILRTAPFKAINFYAYDTYRNQLLKLSGKDKSTNFERFVXXXXXXXXX 242
           +G +  + G    + R   F ++    YD+ +    K  G + +    R +         
Sbjct: 61  EGPRSLYNGLVAGLQRQMSFASVRIGLYDSVKQFYTK--GSEHAGIGSRLLAGSTTGALA 118

Query: 243 XXXCLPLDTIRTVMVAP----GGEALGGLIGAFRHMIQTEGFFSLYKGLVPSIVSMAPSG 298
                P D ++    A     GG      + A++ + + EG   L+KG  P++   A   
Sbjct: 119 VAVAQPTDVVKVRFQAQARAGGGRRYQSTVEAYKTIAREEGIRGLWKGTSPNVARNAIVN 178

Query: 299 AVFYGVYDILKSAYLHSPEGKKRLQNMRKDQDLSALEQLELGPVRTLLYGAIAGCCSEAA 358
                 YD++K   L +        N+  D DL        G          AG C+   
Sbjct: 179 CAELVTYDLIKDTLLKA--------NLMTD-DLPCHFTSAFG----------AGFCTTVI 219

Query: 359 TYPFEVVRRQLQMQVCATKLNALATCVKIVEQGGVPALYAGLTPSLLQV 407
             P +VV+ +          +A    + ++ + G  A Y G  PS L++
Sbjct: 220 ASPVDVVKTRYMNSALGQYHSAGHCALTMLRKEGPRAFYKGFMPSFLRL 268


>pdb|3IPI|A Chain A, Crystal Structure Of A Geranyltranstransferase From The
           Methanosarcina Mazei
          Length = 295

 Score = 28.1 bits (61), Expect = 8.9,   Method: Compositional matrix adjust.
 Identities = 15/32 (46%), Positives = 19/32 (59%)

Query: 296 PSGAVFYGVYDILKSAYLHSPEGKKRLQNMRK 327
           PSGA+  G Y I KS    SP G+K +Q+  K
Sbjct: 103 PSGALLCGDYLIAKSIAFISPYGEKVIQDFGK 134


  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
   0.321    0.137    0.405 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,264,303
Number of Sequences: 62578
Number of extensions: 434548
Number of successful extensions: 710
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 693
Number of HSP's gapped (non-prelim): 5
length of query: 407
length of database: 14,973,337
effective HSP length: 101
effective length of query: 306
effective length of database: 8,652,959
effective search space: 2647805454
effective search space used: 2647805454
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: 53 (25.0 bits)