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= psy12737
         (60 letters)

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

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



>pdb|3CIG|A Chain A, Crystal Structure Of Mouse Tlr3 Ectodomain
 pdb|3CIY|A Chain A, Mouse Toll-Like Receptor 3 Ectodomain Complexed With
           Double-Stranded Rna
 pdb|3CIY|B Chain B, Mouse Toll-Like Receptor 3 Ectodomain Complexed With
           Double-Stranded Rna
          Length = 697

 Score = 26.6 bits (57), Expect = 4.1,   Method: Composition-based stats.
 Identities = 12/23 (52%), Positives = 18/23 (78%), Gaps = 3/23 (13%)

Query: 22  SMDVQRNIESVVEKRTKDVFGPP 44
           S+++Q+N+ + VEK   DVFGPP
Sbjct: 588 SLNLQKNLITSVEK---DVFGPP 607


>pdb|3QMZ|A Chain A, Crystal Structure Of The Cytoplasmic Dynein Heavy Chain
            Motor Domain
 pdb|3QMZ|B Chain B, Crystal Structure Of The Cytoplasmic Dynein Heavy Chain
            Motor Domain
          Length = 2486

 Score = 26.2 bits (56), Expect = 5.5,   Method: Composition-based stats.
 Identities = 14/51 (27%), Positives = 25/51 (49%), Gaps = 4/51 (7%)

Query: 14   VNFSSRTTSMDV----QRNIESVVEKRTKDVFGPPPDKKLILFIDDLNMPQ 60
            +NFS  TT+  +     R+   V   +   +      K L+LF D++N+P+
Sbjct: 1080 INFSKDTTTEHILSALHRHTNYVTTSKGLTLLPKSDIKNLVLFCDEINLPK 1130


>pdb|4AI6|A Chain A, Dynein Motor Domain - Adp Complex
 pdb|4AI6|B Chain B, Dynein Motor Domain - Adp Complex
 pdb|4AKG|A Chain A, Dynein Motor Domain - Atp Complex
 pdb|4AKG|B Chain B, Dynein Motor Domain - Atp Complex
 pdb|4AKH|A Chain A, Dynein Motor Domain - Amppnp Complex
 pdb|4AKH|B Chain B, Dynein Motor Domain - Amppnp Complex
 pdb|4AKI|A Chain A, Dynein Motor Domain - Luac Derivative
 pdb|4AKI|B Chain B, Dynein Motor Domain - Luac Derivative
          Length = 2695

 Score = 26.2 bits (56), Expect = 5.5,   Method: Composition-based stats.
 Identities = 14/51 (27%), Positives = 25/51 (49%), Gaps = 4/51 (7%)

Query: 14   VNFSSRTTSMDV----QRNIESVVEKRTKDVFGPPPDKKLILFIDDLNMPQ 60
            +NFS  TT+  +     R+   V   +   +      K L+LF D++N+P+
Sbjct: 1299 INFSKDTTTEHILSALHRHTNYVTTSKGLTLLPKSDIKNLVLFCDEINLPK 1349


>pdb|3DLI|A Chain A, Crystal Structure Of A Sam Dependent Methyltransferase
           From Archaeoglobus Fulgidus
 pdb|3DLI|B Chain B, Crystal Structure Of A Sam Dependent Methyltransferase
           From Archaeoglobus Fulgidus
 pdb|3DLI|C Chain C, Crystal Structure Of A Sam Dependent Methyltransferase
           From Archaeoglobus Fulgidus
          Length = 240

 Score = 25.4 bits (54), Expect = 9.1,   Method: Composition-based stats.
 Identities = 13/37 (35%), Positives = 18/37 (48%)

Query: 7   CGAVQLLVNFSSRTTSMDVQRNIESVVEKRTKDVFGP 43
           C  +  L    S T S +V R I   +EK  + +FGP
Sbjct: 187 CEELTKLAKIDSNTVSEEVIRVINENIEKLNRILFGP 223


  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
   0.322    0.137    0.396 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,567,445
Number of Sequences: 62578
Number of extensions: 40408
Number of successful extensions: 81
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 79
Number of HSP's gapped (non-prelim): 5
length of query: 60
length of database: 14,973,337
effective HSP length: 31
effective length of query: 29
effective length of database: 13,033,419
effective search space: 377969151
effective search space used: 377969151
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: 45 (21.9 bits)