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= 009006
         (546 letters)

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

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



>pdb|2HGC|A Chain A, Solution Nmr Structure Of The Yjcq Protein From Bacillus
           Subtilis. Northeast Structural Genomics Target Sr346
          Length = 102

 Score = 30.8 bits (68), Expect = 2.0,   Method: Composition-based stats.
 Identities = 14/37 (37%), Positives = 21/37 (56%)

Query: 509 MEHIFRSYIPLSLNSEKVDDDQFEDALSQASRSGSFV 545
           ++ IF    PLS N   V +DQF+DA++   R G  +
Sbjct: 11  LKEIFEGNTPLSENDIGVTEDQFDDAVNFLKREGYII 47


>pdb|3HBZ|A Chain A, Crystal Structure Of A Putative Glycoside Hydrolase
           (Bt_2081) From Bacteroides Thetaiotaomicron Vpi-5482 At
           2.05 A Resolution
          Length = 342

 Score = 30.4 bits (67), Expect = 2.4,   Method: Compositional matrix adjust.
 Identities = 15/46 (32%), Positives = 26/46 (56%), Gaps = 3/46 (6%)

Query: 307 EKDPNSIVDVLANSLPG---NATFFLTYVALQFFVGYGLELSRIVP 349
           E+ PN+  D+L+  LPG     +  +T  ++  FVG G ++S + P
Sbjct: 3   EEAPNAEADILSCRLPGVVXTTSPIITNNSINIFVGPGTDISSLAP 48


>pdb|2YWG|A Chain A, Crystal Structure Of Gtp-Bound Lepa From Aquifex Aeolicus
          Length = 600

 Score = 28.5 bits (62), Expect = 9.1,   Method: Compositional matrix adjust.
 Identities = 16/63 (25%), Positives = 30/63 (47%)

Query: 340 YGLELSRIVPLIIYHLKRKYLCKTEAELKEAWFPGDLGYGTRVPSDMLIVTIVFCYSCIA 399
           YG+++    P +IY +K+K+  +         FP + G    V    ++VTI+     + 
Sbjct: 361 YGVKIITTAPNVIYRVKKKFTDEVIEVRNPXDFPDNAGLIEYVEEPFVLVTIITPKEYVG 420

Query: 400 PLI 402
           P+I
Sbjct: 421 PII 423


  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    0.139    0.409 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,840,637
Number of Sequences: 62578
Number of extensions: 523018
Number of successful extensions: 1020
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 1019
Number of HSP's gapped (non-prelim): 4
length of query: 546
length of database: 14,973,337
effective HSP length: 104
effective length of query: 442
effective length of database: 8,465,225
effective search space: 3741629450
effective search space used: 3741629450
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 54 (25.4 bits)