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= psy17733
         (388 letters)

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

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



>pdb|1T77|A Chain A, Crystal Structure Of The Ph-Beach Domains Of Human LrbaBGL
 pdb|1T77|B Chain B, Crystal Structure Of The Ph-Beach Domains Of Human LrbaBGL
 pdb|1T77|C Chain C, Crystal Structure Of The Ph-Beach Domains Of Human LrbaBGL
 pdb|1T77|D Chain D, Crystal Structure Of The Ph-Beach Domains Of Human LrbaBGL
          Length = 414

 Score = 65.5 bits (158), Expect = 5e-11,   Method: Compositional matrix adjust.
 Identities = 27/46 (58%), Positives = 39/46 (84%)

Query: 279 GPVNISTRARLISPGVSAQGTLSITSTELYFEVDEDCPDFRNTDPE 324
           GPV++ST A+L++P V  +GTLS+TS+ELYFEVDE+ P+F+  DP+
Sbjct: 1   GPVSLSTPAQLVAPSVVVKGTLSVTSSELYFEVDEEDPNFKKIDPK 46



 Score = 65.5 bits (158), Expect = 5e-11,   Method: Compositional matrix adjust.
 Identities = 27/46 (58%), Positives = 39/46 (84%)

Query: 343 GPVNISTRARLISPGVSAQGTLSITSTELYFEVDEDCPDFRNTDPE 388
           GPV++ST A+L++P V  +GTLS+TS+ELYFEVDE+ P+F+  DP+
Sbjct: 1   GPVSLSTPAQLVAPSVVVKGTLSVTSSELYFEVDEEDPNFKKIDPK 46


>pdb|1MI1|A Chain A, Crystal Structure Of The Ph-Beach Domain Of Human
           Neurobeachin
 pdb|1MI1|B Chain B, Crystal Structure Of The Ph-Beach Domain Of Human
           Neurobeachin
          Length = 414

 Score = 58.5 bits (140), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 28/44 (63%), Positives = 35/44 (79%)

Query: 279 GPVNISTRARLISPGVSAQGTLSITSTELYFEVDEDCPDFRNTD 322
           GPV +ST A+LI+P V A+GTLSIT+TE+YFEVDED   F+  D
Sbjct: 1   GPVVLSTPAQLIAPVVVAKGTLSITTTEIYFEVDEDDSAFKKID 44



 Score = 58.5 bits (140), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 28/44 (63%), Positives = 35/44 (79%)

Query: 343 GPVNISTRARLISPGVSAQGTLSITSTELYFEVDEDCPDFRNTD 386
           GPV +ST A+LI+P V A+GTLSIT+TE+YFEVDED   F+  D
Sbjct: 1   GPVVLSTPAQLIAPVVVAKGTLSITTTEIYFEVDEDDSAFKKID 44


>pdb|1X9F|A Chain A, Hemoglobin Dodecamer From Lumbricus Erythrocruorin
 pdb|1X9F|E Chain E, Hemoglobin Dodecamer From Lumbricus Erythrocruorin
 pdb|1X9F|I Chain I, Hemoglobin Dodecamer From Lumbricus Erythrocruorin
 pdb|2GTL|A Chain A, Lumbricus Erythrocruorin At 3.5a Resolution
 pdb|2GTL|E Chain E, Lumbricus Erythrocruorin At 3.5a Resolution
 pdb|2GTL|I Chain I, Lumbricus Erythrocruorin At 3.5a Resolution
          Length = 151

 Score = 28.5 bits (62), Expect = 6.0,   Method: Compositional matrix adjust.
 Identities = 17/49 (34%), Positives = 23/49 (46%), Gaps = 2/49 (4%)

Query: 34  MKDHIVRVANEAEFILNRMRADDVLKHAELLSHAMKDHIVRVANEAEFI 82
            K H+VRVAN  + ++N +  DD L     L H    HI R     E+ 
Sbjct: 66  FKSHLVRVANGLKLLINLL--DDTLVLQSHLGHLADQHIQRKGVTKEYF 112


  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
   0.316    0.131    0.378 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,926,231
Number of Sequences: 62578
Number of extensions: 410378
Number of successful extensions: 1077
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 1070
Number of HSP's gapped (non-prelim): 16
length of query: 388
length of database: 14,973,337
effective HSP length: 101
effective length of query: 287
effective length of database: 8,652,959
effective search space: 2483399233
effective search space used: 2483399233
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 52 (24.6 bits)