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= 016654
         (385 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 =  257 bits (657), Expect = 6e-69,   Method: Compositional matrix adjust.
 Identities = 145/299 (48%), Positives = 183/299 (61%), Gaps = 16/299 (5%)

Query: 85  FAIDFLMGGVSAAVSKTAAAPIERVKLLIQNQDEMIKSGRLSEPYKGIGDCFKRTMKDEG 144
           F  DFL GGV+AA+SKTA APIERVKLL+Q Q    K     + YKGI DC  R  K++G
Sbjct: 7   FLKDFLAGGVAAAISKTAVAPIERVKLLLQVQHAS-KQISAEKQYKGIIDCVVRIPKEQG 65

Query: 145 IVALWRGNTANVIRYFPTQALNFAFKDYFKRLFNFKKDRDG-YWKWFAGNXXXXXXXXXX 203
            ++ WRGN ANVIRYFPTQALNFAFKD +K++F    DR   +W++FAGN          
Sbjct: 66  FLSFWRGNLANVIRYFPTQALNFAFKDKYKQIFLGGVDRHKQFWRYFAGNLASGGAAGAT 125

Query: 204 XXXFVYSLDYARTRLANDAKAAKKGGERQFNGLVDVYRKTMKSDGIAGLYRGFNISCVGI 263
              FVY LD+ARTRLA D    K   +R+F GL +   K  KSDG+ GLY+GFN+S  GI
Sbjct: 126 SLCFVYPLDFARTRLAAD--VGKGAAQREFTGLGNCITKIFKSDGLRGLYQGFNVSVQGI 183

Query: 264 IVYRGLYFGMYDSLKPVVLTGKLQDSFFASFALGWLI----TNGAGLASYPIDTVRRRMM 319
           I+YR  YFG+YD+ K     G L D       + W+I    T  AGL SYP DTVRRRMM
Sbjct: 184 IIYRAAYFGVYDTAK-----GMLPDPKNVHIIVSWMIAQTVTAVAGLVSYPFDTVRRRMM 238

Query: 320 MTSGEA---VKYKSSLDAFSQILKNEGAKSLFKGAGANILRXXXXXXXXXXYDKLQLIV 375
           M SG     + Y  ++D + +I K+EG K+ FKGA +N+LR          YD+++  V
Sbjct: 239 MQSGRKGADIMYTGTVDCWRKIAKDEGPKAFFKGAWSNVLRGMGGAFVLVLYDEIKKFV 297


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

 Score = 48.9 bits (115), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 35/156 (22%), Positives = 66/156 (42%), Gaps = 5/156 (3%)

Query: 207 FVYSLDYARTRLANDAKA---AKKGGERQFNGLVDVYRKTMKSDGIAGLYRGFNISCVGI 263
             + LD A+ RL    ++    +     Q+ G++      ++++G   LY G        
Sbjct: 18  ITFPLDTAKVRLQIQGESQGLVRTAASAQYRGVLGTILTMVRTEGPRSLYNGLVAGLQRQ 77

Query: 264 IVYRGLYFGMYDSLKPVVLTGKLQDSFFASFALGWLITNGAGLASYPIDTVRRRMMMTS- 322
           + +  +  G+YDS+K     G       +    G      A   + P D V+ R    + 
Sbjct: 78  MSFASVRIGLYDSVKQFYTKGSEHAGIGSRLLAGSTTGALAVAVAQPTDVVKVRFQAQAR 137

Query: 323 -GEAVKYKSSLDAFSQILKNEGAKSLFKGAGANILR 357
            G   +Y+S+++A+  I + EG + L+KG   N+ R
Sbjct: 138 AGGGRRYQSTVEAYKTIAREEGIRGLWKGTSPNVAR 173



 Score = 38.5 bits (88), Expect = 0.006,   Method: Compositional matrix adjust.
 Identities = 23/76 (30%), Positives = 35/76 (46%), Gaps = 4/76 (5%)

Query: 83  AGFAIDFLMGGVSAAVSKTAAAPIERVKLLIQNQDEMIKSGRLSEPYKGIGDCFKRTMKD 142
           AG     L G  + A++   A P + VK+  Q Q       R    Y+   + +K   ++
Sbjct: 102 AGIGSRLLAGSTTGALAVAVAQPTDVVKVRFQAQARAGGGRR----YQSTVEAYKTIARE 157

Query: 143 EGIVALWRGNTANVIR 158
           EGI  LW+G + NV R
Sbjct: 158 EGIRGLWKGTSPNVAR 173


>pdb|1FNS|H Chain H, Crystal Structure Of The Von Willebrand Factor (Vwf) A1
           Domain I546v Mutant In Complex With The Function
           Blocking Fab Nmc4
          Length = 225

 Score = 28.1 bits (61), Expect = 8.3,   Method: Compositional matrix adjust.
 Identities = 14/38 (36%), Positives = 19/38 (50%)

Query: 68  TASAICVQAPAEKGFAGFAIDFLMGGVSAAVSKTAAAP 105
           TA   CV+ PA+ G   +A+D+   G S  VS     P
Sbjct: 90  TARYYCVRDPADYGNYDYALDYWGQGTSVTVSSAKTTP 127


>pdb|1OAK|H Chain H, Crystal Structure Of The Von Willebrand Factor (Vwf) A1
           Domain In Complex With The Function Blocking Nmc-4 Fab
          Length = 223

 Score = 28.1 bits (61), Expect = 8.4,   Method: Compositional matrix adjust.
 Identities = 14/38 (36%), Positives = 19/38 (50%)

Query: 68  TASAICVQAPAEKGFAGFAIDFLMGGVSAAVSKTAAAP 105
           TA   CV+ PA+ G   +A+D+   G S  VS     P
Sbjct: 90  TARYYCVRDPADYGNYDYALDYWGQGTSVTVSSAKTTP 127


  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    0.136    0.403 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,496,711
Number of Sequences: 62578
Number of extensions: 406093
Number of successful extensions: 831
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 814
Number of HSP's gapped (non-prelim): 6
length of query: 385
length of database: 14,973,337
effective HSP length: 101
effective length of query: 284
effective length of database: 8,652,959
effective search space: 2457440356
effective search space used: 2457440356
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: 52 (24.6 bits)