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= 016002
         (397 letters)

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

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



>pdb|2LNM|A Chain A, Solution Structure Of The C-Terminal Np-Repeat Domain Of
           Tic40, A Co- Chaperone During Protein Import Into
           Chloroplasts
          Length = 62

 Score =  105 bits (262), Expect = 5e-23,   Method: Compositional matrix adjust.
 Identities = 45/62 (72%), Positives = 57/62 (91%)

Query: 334 PEEVITKMMANPEIALGFQSPRVQAAIMECSQNPMNIIKYQNDKEVMSVITKIAELFPGV 393
           PEEVI+K+M NP++A+ FQ+PRVQAA+MECS+NPMNI+KYQNDKEVM V  KI++LFPG+
Sbjct: 1   PEEVISKIMENPDVAMAFQNPRVQAALMECSENPMNIMKYQNDKEVMDVFNKISQLFPGM 60

Query: 394 TG 395
           TG
Sbjct: 61  TG 62


>pdb|2LLW|A Chain A, Solution Structure Of The Yeast Sti1 Dp2 Domain
          Length = 71

 Score = 35.8 bits (81), Expect = 0.048,   Method: Compositional matrix adjust.
 Identities = 17/51 (33%), Positives = 28/51 (54%)

Query: 333 TPEEVITKMMANPEIALGFQSPRVQAAIMECSQNPMNIIKYQNDKEVMSVI 383
           TPEE   + M +PE+A   Q P +Q+ + +  QNP  + ++  + EV   I
Sbjct: 8   TPEETYQRAMKDPEVAAIMQDPVMQSILQQAQQNPAALQEHMKNPEVFKKI 58



 Score = 28.5 bits (62), Expect = 7.3,   Method: Compositional matrix adjust.
 Identities = 19/60 (31%), Positives = 36/60 (60%), Gaps = 6/60 (10%)

Query: 250 DTLEKLMEDPQV----QKMVYPS-LPEEMRNPASFKLMLQNPEYRKQLQEML-DGMCESG 303
           +T ++ M+DP+V    Q  V  S L +  +NPA+ +  ++NPE  K++Q ++  G+  +G
Sbjct: 11  ETYQRAMKDPEVAAIMQDPVMQSILQQAQQNPAALQEHMKNPEVFKKIQTLIAAGIIRTG 70


>pdb|3BLC|A Chain A, Crystal Structure Of The Periplasmic Domain Of The
           Escherichia Coli Yidc
 pdb|3BLC|B Chain B, Crystal Structure Of The Periplasmic Domain Of The
           Escherichia Coli Yidc
          Length = 330

 Score = 28.5 bits (62), Expect = 7.4,   Method: Compositional matrix adjust.
 Identities = 17/66 (25%), Positives = 33/66 (50%), Gaps = 4/66 (6%)

Query: 237 GQSAKKEGRFLTVDT----LEKLMEDPQVQKMVYPSLPEEMRNPASFKLMLQNPEYRKQL 292
           G  A  +G+ ++V T    L        V++ + P+ P+E+ +   F+L+  +P++  Q 
Sbjct: 27  GVPASGQGKLISVKTDVLDLTINTRGGDVEQALLPAYPKELNSTQPFQLLETSPQFIYQA 86

Query: 293 QEMLDG 298
           Q  L G
Sbjct: 87  QSGLTG 92


  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
   0.313    0.129    0.361 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,980,052
Number of Sequences: 62578
Number of extensions: 359507
Number of successful extensions: 644
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 641
Number of HSP's gapped (non-prelim): 8
length of query: 397
length of database: 14,973,337
effective HSP length: 101
effective length of query: 296
effective length of database: 8,652,959
effective search space: 2561275864
effective search space used: 2561275864
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 52 (24.6 bits)