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= 047434
         (93 letters)

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

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



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

 Score = 90.5 bits (223), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 37/81 (45%), Positives = 58/81 (71%)

Query: 7  AGLDGLPEQDKARMAAMIDHLQLRDSLRMYNSLVERCFNDCVDNFTRKTLQKQEETCVMR 66
            +D L  +++     +++  Q++D +R+Y++LVERCF DCV++FT   L  +E+TC+M+
Sbjct: 1  GSMDALNSKEQQEFQKVVEQKQMKDFMRLYSNLVERCFTDCVNDFTTSKLTNKEQTCIMK 60

Query: 67 CAEKFLKHSMRVGMRFAELNS 87
          C+EKFLKHS RVG RF E N+
Sbjct: 61 CSEKFLKHSERVGQRFQEQNA 81


>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 = 61.6 bits (148), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 29/77 (37%), Positives = 44/77 (57%), Gaps = 8/77 (10%)

Query: 12 LPEQDKARMAAMIDHLQLRDSLRMYNSLVERCFNDCVDNFTRKTLQKQEETCVMRCAEKF 71
          +PE D+ +        Q ++ L  YN L E CF DCV +FT + ++ +E TC   C +K+
Sbjct: 5  IPESDQIK--------QFKEFLGTYNKLTETCFLDCVKDFTTREVKPEETTCSEHCLQKY 56

Query: 72 LKHSMRVGMRFAELNSQ 88
          LK + R+ MRF E + Q
Sbjct: 57 LKMTQRISMRFQEYHIQ 73


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

 Score = 39.7 bits (91), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 15/46 (32%), Positives = 29/46 (63%), Gaps = 1/46 (2%)

Query: 35 MYNSLVERCFNDCVD-NFTRKTLQKQEETCVMRCAEKFLKHSMRVG 79
          M+N LV  C+  C++ +++   L K E +C+ RC  K+ + +++VG
Sbjct: 34 MFNKLVNNCYKKCINTSYSEGELNKNESSCLDRCVAKYFETNVQVG 79


>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 = 37.4 bits (85), Expect = 0.002,   Method: Compositional matrix adjust.
 Identities = 21/74 (28%), Positives = 30/74 (40%), Gaps = 1/74 (1%)

Query: 16 DKARMAAMIDHLQLRDSLRMYNSLVERCFNDCVD-NFTRKTLQKQEETCVMRCAEKFLKH 74
          D  R   +   L++      YN     C   CV  ++    L K E  C+ RC  K+L  
Sbjct: 2  DPLRAQQLAAELEVEXXADXYNRXTSACHRKCVPPHYKEAELSKGESVCLDRCVSKYLDI 61

Query: 75 SMRVGMRFAELNSQ 88
            R G +  EL+ Q
Sbjct: 62 HERXGKKLTELSXQ 75


>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 = 33.5 bits (75), Expect = 0.028,   Method: Compositional matrix adjust.
 Identities = 13/36 (36%), Positives = 20/36 (55%)

Query: 43 CFNDCVDNFTRKTLQKQEETCVMRCAEKFLKHSMRV 78
          CF  CV++     L  QEE C+  C  +FL  ++R+
Sbjct: 21 CFKKCVESVNDSNLSSQEEQCLSNCVNRFLDTNIRI 56


>pdb|2XGW|A Chain A, Zinc-Bound Crystal Structure Of Streptococcus Pyogenes
          Dpr
          Length = 199

 Score = 29.6 bits (65), Expect = 0.41,   Method: Compositional matrix adjust.
 Identities = 16/44 (36%), Positives = 23/44 (52%), Gaps = 1/44 (2%)

Query: 20 MAAMIDHLQL-RDSLRMYNSLVERCFNDCVDNFTRKTLQKQEET 62
          MA+M    Q+ RD   M N+LVE  +     N ++K   K E+T
Sbjct: 1  MASMTGGQQMGRDPNSMTNTLVENIYASVTHNISKKEASKNEKT 44


  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
   0.323    0.132    0.381 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,246,285
Number of Sequences: 62578
Number of extensions: 66391
Number of successful extensions: 176
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 168
Number of HSP's gapped (non-prelim): 9
length of query: 93
length of database: 14,973,337
effective HSP length: 60
effective length of query: 33
effective length of database: 11,218,657
effective search space: 370215681
effective search space used: 370215681
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 45 (21.9 bits)