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= 034922
         (78 letters)

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

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



>pdb|3CJH|B Chain B, Tim8-Tim13 Complex
 pdb|3CJH|D Chain D, Tim8-Tim13 Complex
 pdb|3CJH|F Chain F, Tim8-Tim13 Complex
 pdb|3CJH|H Chain H, Tim8-Tim13 Complex
 pdb|3CJH|J Chain J, Tim8-Tim13 Complex
 pdb|3CJH|L Chain L, Tim8-Tim13 Complex
          Length = 64

 Score = 49.7 bits (117), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 22/64 (34%), Positives = 35/64 (54%)

Query: 15 LNQEKEKAMLNEMVAKLTNVCWDKCITSTPGSKFSSSESACLANCAQRYLDMSVIIMKRF 74
          L  E  K  +   + + TN+C+ KC+ S   S  SS E  CL+NC  R+LD ++ I+   
Sbjct: 1  LEGENSKQKVQMSIHQFTNICFKKCVESVNDSNLSSQEEQCLSNCVNRFLDTNIRIVNGL 60

Query: 75 QSMQ 78
          Q+ +
Sbjct: 61 QNTR 64


>pdb|3DXR|B Chain B, Crystal Structure Of The Yeast Inter-Membrane Space
          Chaperone Assembly Tim9.10
          Length = 95

 Score = 41.6 bits (96), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 21/61 (34%), Positives = 34/61 (55%), Gaps = 1/61 (1%)

Query: 18 EKEKAMLNEMVAKLTNVCWDKCI-TSTPGSKFSSSESACLANCAQRYLDMSVIIMKRFQS 76
          E E  ++ +M  KL N C+ KCI TS    + + +ES+CL  C  +Y + +V + +  Q 
Sbjct: 25 EAELDLVTDMFNKLVNNCYKKCINTSYSEGELNKNESSCLDRCVAKYFETNVQVGENMQK 84

Query: 77 M 77
          M
Sbjct: 85 M 85


>pdb|3DXR|A Chain A, Crystal Structure Of The Yeast Inter-Membrane Space
          Chaperone Assembly Tim9.10
          Length = 89

 Score = 41.6 bits (96), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 21/73 (28%), Positives = 39/73 (53%), Gaps = 2/73 (2%)

Query: 5  ALNSAQMQQFLNQEKEKAMLN--EMVAKLTNVCWDKCITSTPGSKFSSSESACLANCAQR 62
          ALNS + Q+F    ++K M +   + + L   C+  C+     SK ++ E  C+  C+++
Sbjct: 5  ALNSKEQQEFQKVVEQKQMKDFMRLYSNLVERCFTDCVNDFTTSKLTNKEQTCIMKCSEK 64

Query: 63 YLDMSVIIMKRFQ 75
          +L  S  + +RFQ
Sbjct: 65 FLKHSERVGQRFQ 77


>pdb|2BSK|A Chain A, Crystal Structure Of The Tim9 Tim10 Hexameric Complex
 pdb|2BSK|C Chain C, Crystal Structure Of The Tim9 Tim10 Hexameric Complex
 pdb|2BSK|E Chain E, Crystal Structure Of The Tim9 Tim10 Hexameric Complex
          Length = 89

 Score = 35.8 bits (81), Expect = 0.007,   Method: Compositional matrix adjust.
 Identities = 16/49 (32%), Positives = 23/49 (46%)

Query: 30 KLTNVCWDKCITSTPGSKFSSSESACLANCAQRYLDMSVIIMKRFQSMQ 78
          KLT  C+  C+      +    E+ C  +C Q+YL M+  I  RFQ   
Sbjct: 23 KLTETCFLDCVKDFTTREVKPEETTCSEHCLQKYLKMTQRISMRFQEYH 71


>pdb|2BSK|B Chain B, Crystal Structure Of The Tim9 Tim10 Hexameric Complex
 pdb|2BSK|D Chain D, Crystal Structure Of The Tim9 Tim10 Hexameric Complex
 pdb|2BSK|F Chain F, Crystal Structure Of The Tim9 Tim10 Hexameric Complex
          Length = 90

 Score = 30.8 bits (68), Expect = 0.22,   Method: Compositional matrix adjust.
 Identities = 14/49 (28%), Positives = 23/49 (46%), Gaps = 1/49 (2%)

Query: 30 KLTNVCWDKCITST-PGSKFSSSESACLANCAQRYLDMSVIIMKRFQSM 77
          + T+ C  KC+      ++ S  ES CL  C  +YLD+     K+   +
Sbjct: 24 RXTSACHRKCVPPHYKEAELSKGESVCLDRCVSKYLDIHERXGKKLTEL 72


>pdb|3CJH|A Chain A, Tim8-Tim13 Complex
 pdb|3CJH|C Chain C, Tim8-Tim13 Complex
 pdb|3CJH|E Chain E, Tim8-Tim13 Complex
 pdb|3CJH|G Chain G, Tim8-Tim13 Complex
 pdb|3CJH|I Chain I, Tim8-Tim13 Complex
 pdb|3CJH|K Chain K, Tim8-Tim13 Complex
          Length = 64

 Score = 29.6 bits (65), Expect = 0.42,   Method: Compositional matrix adjust.
 Identities = 15/51 (29%), Positives = 29/51 (56%), Gaps = 4/51 (7%)

Query: 26 EMVAKLTNVCWDKCITSTPGSKFSSSESACLANCAQRYLDMSVIIMKRFQS 76
          E+V K++  C++KC+T    S +++   AC+  C  +Y+    +I K + S
Sbjct: 7  ELVNKISENCFEKCLT----SPYATRNDACIDQCLAKYMRSWNVISKAYIS 53


  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
   0.317    0.122    0.348 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,648,454
Number of Sequences: 62578
Number of extensions: 39022
Number of successful extensions: 133
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 126
Number of HSP's gapped (non-prelim): 7
length of query: 78
length of database: 14,973,337
effective HSP length: 47
effective length of query: 31
effective length of database: 12,032,171
effective search space: 372997301
effective search space used: 372997301
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 45 (21.9 bits)