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= 018715
         (351 letters)

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

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



>pdb|2K3C|A Chain A, Structural And Functional Characterization Of Tm Ix Of The
           Nhe1 Isoform Of The Na+H+ EXCHANGER
          Length = 33

 Score = 32.3 bits (72), Expect = 0.35,   Method: Compositional matrix adjust.
 Identities = 13/26 (50%), Positives = 21/26 (80%)

Query: 261 AYLSYMLAELFYLSGILTVFFCGIVM 286
           +Y++Y+ AELF+LSGI+ +   G+VM
Sbjct: 3   SYMAYLSAELFHLSGIMALIASGVVM 28


>pdb|2R44|A Chain A, Crystal Structure Of A Putative Atpase (Chu_0153) From
           Cytophaga Hutchinsonii Atcc 33406 At 2.00 A Resolution
          Length = 331

 Score = 32.0 bits (71), Expect = 0.58,   Method: Compositional matrix adjust.
 Identities = 32/119 (26%), Positives = 48/119 (40%), Gaps = 29/119 (24%)

Query: 14  SMLSSDHKSVVSMNLFVALL--CACIVIGHLLEENRWMNESITALIIGLCTGIVILL--- 68
            + S++ KS+   N    ++     +V+G     NR        L+IG+CTG  ILL   
Sbjct: 3   ELKSAEEKSLYYRNKIKEVIDEVGKVVVGQKYXINR--------LLIGICTGGHILLEGV 54

Query: 69  -------------TTNGTSSHVLMFSEDLFFIYLLPPIIFN---AGFQVKKKQFFRNFM 111
                         T     H + F+ DL    L+   I+N     F+VKK   F NF+
Sbjct: 55  PGLAKTLSVNTLAKTXDLDFHRIQFTPDLLPSDLIGTXIYNQHKGNFEVKKGPVFSNFI 113


>pdb|1GOJ|A Chain A, Structure Of A Fast Kinesin: Implications For Atpase
           Mechanism And Interactions With Microtubules
          Length = 355

 Score = 31.6 bits (70), Expect = 0.71,   Method: Compositional matrix adjust.
 Identities = 17/38 (44%), Positives = 24/38 (63%), Gaps = 6/38 (15%)

Query: 40  GHLLEENRWMNESITALIIGLCTGIVILLTTNGTSSHV 77
           G  LEE + +N+S++AL      G+VI   T+G SSHV
Sbjct: 249 GQTLEEAKKINKSLSAL------GMVINALTDGKSSHV 280


>pdb|1ZG6|A Chain A, Tem1 Beta Lactamase Mutant S70g
          Length = 286

 Score = 31.2 bits (69), Expect = 0.91,   Method: Compositional matrix adjust.
 Identities = 17/54 (31%), Positives = 24/54 (44%), Gaps = 13/54 (24%)

Query: 264 SYMLAELFYLSGILTVFFCGIVMS-------------HYTWHNVTESSRVTTKH 304
           S+   E F + G   V  CG V+S             HY+ +++ E S VT KH
Sbjct: 57  SFRPEERFPMMGTFKVLLCGAVLSRIDAGQEQLGRRIHYSQNDLVEYSPVTEKH 110


>pdb|1Y4E|A Chain A, Nmr Structure Of Transmembrane Segment Iv Of The Nhe1
          Isoform Of The Na+H+ EXCHANGER
          Length = 27

 Score = 28.5 bits (62), Expect = 5.2,   Method: Composition-based stats.
 Identities = 11/20 (55%), Positives = 16/20 (80%)

Query: 80 FSEDLFFIYLLPPIIFNAGF 99
             D+FF++LLPPII +AG+
Sbjct: 2  LQSDVFFLFLLPPIILDAGY 21


>pdb|2ALM|A Chain A, Crystal Structure Analysis Of A Mutant Beta-Ketoacyl-[acyl
           Carrier Protein] Synthase Ii From Streptococcus
           Pneumoniae
          Length = 431

 Score = 28.1 bits (61), Expect = 6.7,   Method: Compositional matrix adjust.
 Identities = 25/76 (32%), Positives = 33/76 (43%), Gaps = 10/76 (13%)

Query: 112 TIMLFGAVGTLISFVIISAGAVHFFKQMNIGTLKIGDYLAIGAIFAATDSVCTLQVLNQD 171
           T  L GA G + + V I A   H F  M  GT ++ DY+    ++A        Q L + 
Sbjct: 355 TGHLLGAAGAVEAIVTIEA-MRHNFVPMTAGTSEVSDYIEANVVYA--------QGL-EK 404

Query: 172 ETPLLYSLVFGEGVVN 187
           E P   S  FG G  N
Sbjct: 405 EIPYAISNTFGFGGHN 420


>pdb|2HTG|A Chain A, Structural And Functional Characterization Of Tm Vii Of
           The Nhe1 Isoform Of The Na+H+ EXCHANGER
          Length = 28

 Score = 27.7 bits (60), Expect = 9.6,   Method: Composition-based stats.
 Identities = 13/21 (61%), Positives = 18/21 (85%)

Query: 175 LLYSLVFGEGVVNDATSVVLF 195
           LL+ LVFGE ++NDA +VVL+
Sbjct: 5   LLHILVFGESLLNDAVTVVLY 25


  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
   0.330    0.141    0.413 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,633,329
Number of Sequences: 62578
Number of extensions: 307412
Number of successful extensions: 724
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 721
Number of HSP's gapped (non-prelim): 7
length of query: 351
length of database: 14,973,337
effective HSP length: 100
effective length of query: 251
effective length of database: 8,715,537
effective search space: 2187599787
effective search space used: 2187599787
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.9 bits)
S2: 52 (24.6 bits)