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= 026220
         (241 letters)

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

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



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

 Score = 67.4 bits (163), Expect = 7e-12,   Method: Compositional matrix adjust.
 Identities = 62/240 (25%), Positives = 99/240 (41%), Gaps = 11/240 (4%)

Query: 1   MYRGLSPTVLALLPNWAVYFTMYEQLKSFLCSEDKNHHLSXXXXXXXXXXXXXXXXXXXX 60
           +Y GL   +   +   +V   +Y+ +K F      + H                      
Sbjct: 66  LYNGLVAGLQRQMSFASVRIGLYDSVKQFY--TKGSEHAGIGSRLLAGSTTGALAVAVAQ 123

Query: 61  PLWVVKTRLQTQGMKAGVVPYRSTLSALSRIAQEEGIRGLYSGLVPALAGISHV-AIQFP 119
           P  VVK R Q Q    G   Y+ST+ A   IA+EEGIRGL+ G  P +A  + V   +  
Sbjct: 124 PTDVVKVRFQAQARAGGGRRYQSTVEAYKTIAREEGIRGLWKGTSPNVARNAIVNCAELV 183

Query: 120 TYEKIKMHLADQGNTSMDKLXXXXXXXXXXXXKIFAST-LTYPHEVVRSRLQEQGHHSEK 178
           TY+ IK  L  + N   D L              F +T +  P +VV++R     + +  
Sbjct: 184 TYDLIKDTLL-KANLMTDDLPCHFTSAFGAG---FCTTVIASPVDVVKTRYM---NSALG 236

Query: 179 RYSGVVDCIKKVFQQEGLPGFYRGCATNLLRTTPAAVITFTSFEMIHRFLVSYFPPDPQP 238
           +Y     C   + ++EG   FY+G   + LR     V+ F ++E + R L++ +     P
Sbjct: 237 QYHSAGHCALTMLRKEGPRAFYKGFMPSFLRLGSWNVVMFVTYEQLKRALMAAYQSREAP 296



 Score = 60.8 bits (146), Expect = 7e-10,   Method: Compositional matrix adjust.
 Identities = 45/177 (25%), Positives = 77/177 (43%), Gaps = 12/177 (6%)

Query: 61  PLWVVKTRLQTQGMKAGVV------PYRSTLSALSRIAQEEGIRGLYSGLVPALA-GISH 113
           PL   K RLQ QG   G+V       YR  L  +  + + EG R LY+GLV  L   +S 
Sbjct: 21  PLDTAKVRLQIQGESQGLVRTAASAQYRGVLGTILTMVRTEGPRSLYNGLVAGLQRQMSF 80

Query: 114 VAIQFPTYEKIKMHLADQGNTSMDKLXXXXXXXXXXXXKIFASTLTYPHEVVRSRLQEQG 173
            +++   Y+ +K     +G+   +                 A  +  P +VV+ R Q Q 
Sbjct: 81  ASVRIGLYDSVK-QFYTKGS---EHAGIGSRLLAGSTTGALAVAVAQPTDVVKVRFQAQA 136

Query: 174 HH-SEKRYSGVVDCIKKVFQQEGLPGFYRGCATNLLRTTPAAVITFTSFEMIHRFLV 229
                +RY   V+  K + ++EG+ G ++G + N+ R          ++++I   L+
Sbjct: 137 RAGGGRRYQSTVEAYKTIAREEGIRGLWKGTSPNVARNAIVNCAELVTYDLIKDTLL 193



 Score = 32.3 bits (72), Expect = 0.24,   Method: Compositional matrix adjust.
 Identities = 20/81 (24%), Positives = 34/81 (41%), Gaps = 7/81 (8%)

Query: 154 FASTLTYPHEVVRSRLQEQGHH-------SEKRYSGVVDCIKKVFQQEGLPGFYRGCATN 206
            A  +T+P +  + RLQ QG         +  +Y GV+  I  + + EG    Y G    
Sbjct: 14  IADLITFPLDTAKVRLQIQGESQGLVRTAASAQYRGVLGTILTMVRTEGPRSLYNGLVAG 73

Query: 207 LLRTTPAAVITFTSFEMIHRF 227
           L R    A +    ++ + +F
Sbjct: 74  LQRQMSFASVRIGLYDSVKQF 94


>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 = 65.5 bits (158), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 56/235 (23%), Positives = 96/235 (40%), Gaps = 13/235 (5%)

Query: 1   MYRGLSPTVLALLPNWAVYFTMYEQLKS-FLCSEDKNHHLSXXXXXXXXXXXXXXXXXX- 58
            +RG    V+   P  A+ F   ++ K  FL   D++                       
Sbjct: 69  FWRGNLANVIRYFPTQALNFAFKDKYKQIFLGGVDRHKQFWRYFAGNLASGGAAGATSLC 128

Query: 59  -XXPLWVVKTRLQTQ-GMKAGVVPYRSTLSALSRIAQEEGIRGLYSGLVPALAGIS-HVA 115
              PL   +TRL    G  A    +    + +++I + +G+RGLY G   ++ GI  + A
Sbjct: 129 FVYPLDFARTRLAADVGKGAAQREFTGLGNCITKIFKSDGLRGLYQGFNVSVQGIIIYRA 188

Query: 116 IQFPTYEKIKMHLADQGNTSMDKLXXXXXXXXXXXXKIFASTLTYPHEVVRSRLQEQGHH 175
             F  Y+  K  L D  N  +                  A  ++YP + VR R+  Q   
Sbjct: 189 AYFGVYDTAKGMLPDPKNVHI-----IVSWMIAQTVTAVAGLVSYPFDTVRRRMMMQSGR 243

Query: 176 --SEKRYSGVVDCIKKVFQQEGLPGFYRGCATNLLRTTPAAVITFTSFEMIHRFL 228
             ++  Y+G VDC +K+ + EG   F++G  +N+LR    A +    ++ I +F+
Sbjct: 244 KGADIMYTGTVDCWRKIAKDEGPKAFFKGAWSNVLRGMGGAFV-LVLYDEIKKFV 297



 Score = 44.3 bits (103), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 23/70 (32%), Positives = 38/70 (54%), Gaps = 6/70 (8%)

Query: 155 ASTLTYPHEVVRSRLQEQGHHS-----EKRYSGVVDCIKKVFQQEGLPGFYRGCATNLLR 209
           + T   P E V+  LQ Q H S     EK+Y G++DC+ ++ +++G   F+RG   N++R
Sbjct: 21  SKTAVAPIERVKLLLQVQ-HASKQISAEKQYKGIIDCVVRIPKEQGFLSFWRGNLANVIR 79

Query: 210 TTPAAVITFT 219
             P   + F 
Sbjct: 80  YFPTQALNFA 89


>pdb|3IWF|A Chain A, The Crystal Structure Of The N-Terminal Domain Of A Rpir
           Transcriptional Regulator From Staphylococcus
           Epidermidis To 1.4a
 pdb|3IWF|B Chain B, The Crystal Structure Of The N-Terminal Domain Of A Rpir
           Transcriptional Regulator From Staphylococcus
           Epidermidis To 1.4a
          Length = 107

 Score = 29.6 bits (65), Expect = 1.4,   Method: Compositional matrix adjust.
 Identities = 20/68 (29%), Positives = 28/68 (41%), Gaps = 5/68 (7%)

Query: 152 KIFASTLTYPHEVVRSRLQEQGHHSEKRYSGVVDCIKKVFQQEGLPGFYRGCATNLLRTT 211
           KI    L YPH+VV    QE  +  E   + ++   KKV      PG +    T L +  
Sbjct: 21  KIAQFILNYPHKVVNXTSQEIANQLETSSTSIIRLSKKV-----TPGGFNELKTRLSKFL 75

Query: 212 PAAVITFT 219
           P  V  + 
Sbjct: 76  PKEVTQYN 83


>pdb|2F3O|A Chain A, Crystal Structure Of A Glycyl Radical Enzyme From
           Archaeoglobus Fulgidus
 pdb|2F3O|B Chain B, Crystal Structure Of A Glycyl Radical Enzyme From
           Archaeoglobus Fulgidus
          Length = 776

 Score = 28.1 bits (61), Expect = 4.3,   Method: Compositional matrix adjust.
 Identities = 16/51 (31%), Positives = 30/51 (58%), Gaps = 5/51 (9%)

Query: 74  MKAGVVPY--RSTLSALSRIAQEEGIRGLYSG---LVPALAGISHVAIQFP 119
           ++  + PY  R T+ A +     + ++ LY+G   ++  +AGISHVA+ +P
Sbjct: 111 LREEIAPYWQRKTIEAFAFPLMPDIMQILYTGSVFVLTEIAGISHVAVNYP 161


  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    0.136    0.412 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,403,711
Number of Sequences: 62578
Number of extensions: 208128
Number of successful extensions: 386
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 372
Number of HSP's gapped (non-prelim): 10
length of query: 241
length of database: 14,973,337
effective HSP length: 96
effective length of query: 145
effective length of database: 8,965,849
effective search space: 1300048105
effective search space used: 1300048105
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: 50 (23.9 bits)