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= psy5930
         (2426 letters)

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

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



>pdb|3AIB|A Chain A, Crystal Structure Of Glucansucrase
 pdb|3AIB|B Chain B, Crystal Structure Of Glucansucrase
 pdb|3AIB|C Chain C, Crystal Structure Of Glucansucrase
 pdb|3AIB|D Chain D, Crystal Structure Of Glucansucrase
 pdb|3AIB|G Chain G, Crystal Structure Of Glucansucrase
 pdb|3AIB|E Chain E, Crystal Structure Of Glucansucrase
 pdb|3AIB|F Chain F, Crystal Structure Of Glucansucrase
 pdb|3AIB|H Chain H, Crystal Structure Of Glucansucrase
 pdb|3AIC|A Chain A, Crystal Structure Of Glucansucrase From Streptococcus Mutans
 pdb|3AIC|B Chain B, Crystal Structure Of Glucansucrase From Streptococcus Mutans
 pdb|3AIC|C Chain C, Crystal Structure Of Glucansucrase From Streptococcus Mutans
 pdb|3AIC|D Chain D, Crystal Structure Of Glucansucrase From Streptococcus Mutans
 pdb|3AIC|E Chain E, Crystal Structure Of Glucansucrase From Streptococcus Mutans
 pdb|3AIC|F Chain F, Crystal Structure Of Glucansucrase From Streptococcus Mutans
 pdb|3AIC|G Chain G, Crystal Structure Of Glucansucrase From Streptococcus Mutans
 pdb|3AIC|H Chain H, Crystal Structure Of Glucansucrase From Streptococcus Mutans
 pdb|3AIE|A Chain A, Crystal Structure Of Glucansucrase From Streptococcus Mutans
 pdb|3AIE|B Chain B, Crystal Structure Of Glucansucrase From Streptococcus Mutans
 pdb|3AIE|C Chain C, Crystal Structure Of Glucansucrase From Streptococcus Mutans
 pdb|3AIE|D Chain D, Crystal Structure Of Glucansucrase From Streptococcus Mutans
 pdb|3AIE|E Chain E, Crystal Structure Of Glucansucrase From Streptococcus Mutans
 pdb|3AIE|F Chain F, Crystal Structure Of Glucansucrase From Streptococcus Mutans
 pdb|3AIE|G Chain G, Crystal Structure Of Glucansucrase From Streptococcus Mutans
 pdb|3AIE|H Chain H, Crystal Structure Of Glucansucrase From Streptococcus Mutans
          Length = 844

 Score = 31.6 bits (70), Expect = 5.2,   Method: Compositional matrix adjust.
 Identities = 34/136 (25%), Positives = 61/136 (44%), Gaps = 29/136 (21%)

Query: 1532 LLRAHASEVRPIVRQALEI-LTPAFPG---RVDDGQRMLLVYTKKILVEEG---HSNPQL 1584
             +RAH SEV+ ++R  ++  + P   G    +++ ++   +Y K +L  E    H N  L
Sbjct: 340  FIRAHDSEVQDLIRDIIKAEINPNVVGYSFTMEEIKKAFEIYNKDLLATEKKYTHYNTAL 399

Query: 1585 SHVLTLIVKHY--KVYYPVRHGLIQQMIASMQRLGFSSSAMDHKKLSVELADVIIKWELQ 1642
            S+ L L  K    +VYY        Q +A             HK ++ E  + ++K  ++
Sbjct: 400  SYALLLTNKSSVPRVYYGDMFTDDGQYMA-------------HKTINYEAIETLLKARIK 446

Query: 1643 RVKEEAEGTSGGKAIQ 1658
             V       SGG+A++
Sbjct: 447  YV-------SGGQAMR 455


>pdb|2Q2E|B Chain B, Crystal Structure Of The Topoisomerase Vi Holoenzyme From
            Methanosarcina Mazei
          Length = 621

 Score = 31.2 bits (69), Expect = 7.4,   Method: Compositional matrix adjust.
 Identities = 35/138 (25%), Positives = 62/138 (44%), Gaps = 27/138 (19%)

Query: 1924 QVGGELLIYCLDLVKTRFCSMSQETRKQFIGTIILGLI--------------DKTPDIKV 1969
            Q GG +  + ++ +K +   ++Q      +G +IL LI              D   DI V
Sbjct: 385  QQGGCVTTHAVEDIKWKQYGLNQPGGGIPVGPVIL-LIHVASINVPFTSESKDAIADIPV 443

Query: 1970 MKA----IIKMTEEWLKVNKVEQNNVPNLKEKCIILVKLM--------HFVEKRFPDLNT 2017
            +K      IK     LK    +Q+N+   +EK II+ K++        H +EK  PD+N 
Sbjct: 444  IKEEIDLAIKEVARKLKHYLSKQSNLKKRREKEIIITKVLPKLAAKVAHVLEKDVPDINP 503

Query: 2018 MFLEIVLYVYMDENLKNS 2035
            +  +I+  + +   +KN+
Sbjct: 504  VVAKIMGNLLVHRVIKNN 521


  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
   0.321    0.135    0.397 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 66,381,358
Number of Sequences: 62578
Number of extensions: 2610784
Number of successful extensions: 6058
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 6057
Number of HSP's gapped (non-prelim): 3
length of query: 2426
length of database: 14,973,337
effective HSP length: 115
effective length of query: 2311
effective length of database: 7,776,867
effective search space: 17972339637
effective search space used: 17972339637
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: 60 (27.7 bits)