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= 030895
         (169 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 = 55.8 bits (133), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 44/160 (27%), Positives = 68/160 (42%), Gaps = 21/160 (13%)

Query: 5   FVDIISTRGFRGLYAGLSPTLVEIIPYAGLQFGTYDTFKRWTMDWNRIRSSNTSSTGADN 64
            + ++ T G R LY GL   L   + +A ++ G YD+ K++       + S  +  G+  
Sbjct: 54  ILTMVRTEGPRSLYNGLVAGLQRQMSFASVRIGLYDSVKQFY-----TKGSEHAGIGSR- 107

Query: 65  NLSSFQLFVCGLAAGTCAKLVCHPLDVVKKRFQIEGLQRHPKYGARVEHRAYRNMSDALS 124
                   + G   G  A  V  P DVVK RFQ +      + G     R Y++  +A  
Sbjct: 108 -------LLAGSTTGALAVAVAQPTDVVKVRFQAQA-----RAGG---GRRYQSTVEAYK 152

Query: 125 RIVQAEGWAGLYKGIVPSTVKAAPAGAVTFVAYEYASDWL 164
            I + EG  GL+KG  P+  + A       V Y+   D L
Sbjct: 153 TIAREEGIRGLWKGTSPNVARNAIVNCAELVTYDLIKDTL 192



 Score = 48.1 bits (113), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 39/155 (25%), Positives = 59/155 (38%), Gaps = 24/155 (15%)

Query: 4   AFVDIISTRGFRGLYAGLSPTLVEIIPYAGLQFGTYDTFKRWTMDWNRIRSSNTSSTGAD 63
           A+  I    G RGL+ G SP +         +  TYD  K   +  N +           
Sbjct: 150 AYKTIAREEGIRGLWKGTSPNVARNAIVNCAELVTYDLIKDTLLKANLM----------T 199

Query: 64  NNLSSFQLFVCGLAAGTCAKLVCHPLDVVKKRFQIEGLQRHPKYGARVEHRAYRNMSDAL 123
           ++L     F     AG C  ++  P+DVVK R+    L +            Y +     
Sbjct: 200 DDLPCH--FTSAFGAGFCTTVIASPVDVVKTRYMNSALGQ------------YHSAGHCA 245

Query: 124 SRIVQAEGWAGLYKGIVPSTVKAAPAGAVTFVAYE 158
             +++ EG    YKG +PS ++      V FV YE
Sbjct: 246 LTMLRKEGPRAFYKGFMPSFLRLGSWNVVMFVTYE 280



 Score = 33.1 bits (74), Expect = 0.070,   Method: Compositional matrix adjust.
 Identities = 25/69 (36%), Positives = 34/69 (49%), Gaps = 7/69 (10%)

Query: 76  LAAGTCA---KLVCHPLDVVKKRFQIEG-LQRHPKYGARVEHRAYRNMSDALSRIVQAEG 131
           L AGT A    L+  PLD  K R QI+G  Q   +  A  +   YR +   +  +V+ EG
Sbjct: 6   LGAGTAACIADLITFPLDTAKVRLQIQGESQGLVRTAASAQ---YRGVLGTILTMVRTEG 62

Query: 132 WAGLYKGIV 140
              LY G+V
Sbjct: 63  PRSLYNGLV 71


>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 = 42.7 bits (99), Expect = 9e-05,   Method: Compositional matrix adjust.
 Identities = 40/151 (26%), Positives = 59/151 (39%), Gaps = 22/151 (14%)

Query: 8   IISTRGFRGLYAGLSPTLVEIIPYAGLQFGTYDTFKRWTMDWNRIRSSNTSSTGADNNLS 67
           I  + G RGLY G + ++  II Y    FG YDT K    D                N+ 
Sbjct: 163 IFKSDGLRGLYQGFNVSVQGIIIYRAAYFGVYDTAKGMLPD--------------PKNVH 208

Query: 68  SFQLFVCGLAAGTCAKLVCHPLDVVKKRFQIEGLQRHPKYGARVEHRAYRNMSDALSRIV 127
               ++        A LV +P D V++R  ++  ++    GA +    Y    D   +I 
Sbjct: 209 IIVSWMIAQTVTAVAGLVSYPFDTVRRRMMMQSGRK----GADI---MYTGTVDCWRKIA 261

Query: 128 QAEGWAGLYKGIVPSTVKAAPAGAVTFVAYE 158
           + EG    +KG   S V     GA   V Y+
Sbjct: 262 KDEGPKAFFKG-AWSNVLRGMGGAFVLVLYD 291


>pdb|2V6B|A Chain A, Crystal Structure Of Lactate Dehydrogenase From
           Deinococcus Radiodurans (Apo Form)
 pdb|2V6B|B Chain B, Crystal Structure Of Lactate Dehydrogenase From
           Deinococcus Radiodurans (Apo Form)
 pdb|2V6B|C Chain C, Crystal Structure Of Lactate Dehydrogenase From
           Deinococcus Radiodurans (Apo Form)
 pdb|2V6B|D Chain D, Crystal Structure Of Lactate Dehydrogenase From
           Deinococcus Radiodurans (Apo Form)
          Length = 304

 Score = 27.3 bits (59), Expect = 4.7,   Method: Compositional matrix adjust.
 Identities = 21/86 (24%), Positives = 38/86 (44%), Gaps = 16/86 (18%)

Query: 79  GTCAKLVCHPLDVVKKRFQIEGLQRHP--KYGARVEHRAYRNMSDAL------------- 123
           G+C++LV    D  + + + E +       +G RV H  +  ++DA              
Sbjct: 23  GSCSELVLVDRDEDRAQAEAEDIAHAAPVSHGTRVWHGGHSELADAQVVILTAGANQKPG 82

Query: 124 -SRIVQAEGWAGLYKGIVPSTVKAAP 148
            SR+   E  A +++ +VP   +AAP
Sbjct: 83  ESRLDLLEKNADIFRELVPQITRAAP 108


  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    0.135    0.418 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,942,038
Number of Sequences: 62578
Number of extensions: 184641
Number of successful extensions: 355
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 345
Number of HSP's gapped (non-prelim): 6
length of query: 169
length of database: 14,973,337
effective HSP length: 92
effective length of query: 77
effective length of database: 9,216,161
effective search space: 709644397
effective search space used: 709644397
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: 48 (23.1 bits)