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= 013653
         (439 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 = 0.51,   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 = 31.6 bits (70), Expect = 0.88,   Method: Compositional matrix adjust.
 Identities = 25/78 (32%), Positives = 33/78 (42%), Gaps = 19/78 (24%)

Query: 53  ITALIIGLCTGIVILL----------------TTNGTSSHVLMFSEDLFFIYLLPPIIFN 96
           I  L+IG+CTG  ILL                 T     H + F+ DL    L+   I+N
Sbjct: 36  INRLLIGICTGGHILLEGVPGLAKTLSVNTLAKTXDLDFHRIQFTPDLLPSDLIGTXIYN 95

Query: 97  ---AGFQVKKKQFFRNFM 111
                F+VKK   F NF+
Sbjct: 96  QHKGNFEVKKGPVFSNFI 113


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

 Score = 31.2 bits (69), Expect = 1.1,   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|2HTG|A Chain A, Structural And Functional Characterization Of Tm Vii Of
           The Nhe1 Isoform Of The Na+H+ EXCHANGER
          Length = 28

 Score = 30.0 bits (66), Expect = 3.0,   Method: Compositional matrix adjust.
 Identities = 13/23 (56%), Positives = 18/23 (78%)

Query: 173 TPLLYSLVFGEGVVNDATSVVLF 195
             LL+ LVFGE ++NDA +VVL+
Sbjct: 3   NELLHILVFGESLLNDAVTVVLY 25


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

 Score = 29.6 bits (65), Expect = 3.9,   Method: Composition-based stats.
 Identities = 11/20 (55%), Positives = 16/20 (80%)

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


  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
   0.329    0.140    0.408 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,878,953
Number of Sequences: 62578
Number of extensions: 385759
Number of successful extensions: 937
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 934
Number of HSP's gapped (non-prelim): 6
length of query: 439
length of database: 14,973,337
effective HSP length: 102
effective length of query: 337
effective length of database: 8,590,381
effective search space: 2894958397
effective search space used: 2894958397
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 53 (25.0 bits)