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= 044114
         (431 letters)

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

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



>pdb|1XIO|A Chain A, Anabaena Sensory Rhodopsin
          Length = 261

 Score = 30.0 bits (66), Expect = 2.5,   Method: Compositional matrix adjust.
 Identities = 27/88 (30%), Positives = 42/88 (47%), Gaps = 14/88 (15%)

Query: 176 LFILNGLFN--LAKTETFE---ANLYEE-ISFMTITCFWFRDDIVGYLPIQENLLEINFS 229
           L IL G++N   AKT T     ANLY++ +++ T+         +GY PI   +    F 
Sbjct: 140 LIILWGIWNPLRAKTRTQSSELANLYDKLVTYFTVLW-------IGY-PIVWIIGPSGFG 191

Query: 230 KAKHFVDLLILCLQPSQSRAVFALKDLN 257
                +D  + CL P  S+  F+  DL+
Sbjct: 192 WINQTIDTFLFCLLPFFSKVGFSFLDLH 219


>pdb|3TWO|A Chain A, The Crystal Structure Of Cad From Helicobacter Pylori
           Complexed With Nadp(H)
 pdb|3TWO|B Chain B, The Crystal Structure Of Cad From Helicobacter Pylori
           Complexed With Nadp(H)
          Length = 348

 Score = 29.6 bits (65), Expect = 3.3,   Method: Compositional matrix adjust.
 Identities = 17/61 (27%), Positives = 29/61 (47%)

Query: 319 YLNDYIIMMNYLVSTSKDAELLLQNEIIGLGNTEAVPTVFRNLDKGCAISYSYFQYSGVV 378
           Y N+ ++  NY++S  K+A L     ++  G T   P  F  + KG  +  + F   G +
Sbjct: 132 YSNNIVVDENYVISVDKNAPLEKVAPLLCAGITTYSPLKFSKVTKGTKVGVAGFGGLGSM 191

Query: 379 A 379
           A
Sbjct: 192 A 192


  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
   0.324    0.139    0.418 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,114,550
Number of Sequences: 62578
Number of extensions: 495049
Number of successful extensions: 910
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: 909
Number of HSP's gapped (non-prelim): 4
length of query: 431
length of database: 14,973,337
effective HSP length: 102
effective length of query: 329
effective length of database: 8,590,381
effective search space: 2826235349
effective search space used: 2826235349
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 53 (25.0 bits)