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= psy6193
         (122 letters)

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

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



>pdb|1ZBD|B Chain B, Structural Basis Of Rab Effector Specificity: Crystal
           Structure Of The Small G Protein Rab3a Complexed With
           The Effector Domain Of Rabphilin-3a
          Length = 134

 Score = 28.5 bits (62), Expect = 1.1,   Method: Compositional matrix adjust.
 Identities = 8/25 (32%), Positives = 17/25 (68%)

Query: 62  IWVCILCRKKQELLSKTGQWINKGM 86
           +W+C +C +++E+  ++G W  KG 
Sbjct: 98  VWLCKICLEQREVWKRSGAWFFKGF 122


>pdb|2A20|A Chain A, Solution Structure Of Rim2 Zinc Finger Domain
 pdb|2CJS|C Chain C, Structural Basis For A Munc13-1 Dimeric - Munc13-1 - Rim
          Heterodimer Switch: C2-domains As Versatile Protein-
          Protein Interaction Modules
          Length = 62

 Score = 26.6 bits (57), Expect = 4.2,   Method: Compositional matrix adjust.
 Identities = 10/13 (76%), Positives = 12/13 (92%)

Query: 61 VIWVCILCRKKQE 73
          V+WVC LCRK+QE
Sbjct: 50 VMWVCNLCRKQQE 62


>pdb|2OHF|A Chain A, Crystal Structure Of Human Ola1 In Complex With Amppcp
          Length = 396

 Score = 26.2 bits (56), Expect = 5.1,   Method: Composition-based stats.
 Identities = 22/85 (25%), Positives = 43/85 (50%), Gaps = 10/85 (11%)

Query: 45  ERELEIMR------SACQVYLMVIWVCILCRKKQELLSKTGQWINK---GMNSTPQGDAI 95
           ++E+E++       S   VYL+ +      RKK + L K  +W++K   G    P   A+
Sbjct: 208 DKEIEVLNKHLFLTSKPMVYLVNLSEKDYIRKKNKWLIKIKEWVDKYDPGALVIPFSGAL 267

Query: 96  MRKIEADMMFEDKRPKLERGTTKSS 120
             K++ ++  E+++  LE   T+S+
Sbjct: 268 ELKLQ-ELSAEERQKYLEANMTQSA 291


  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
   0.319    0.130    0.371 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,097,860
Number of Sequences: 62578
Number of extensions: 97742
Number of successful extensions: 183
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 176
Number of HSP's gapped (non-prelim): 8
length of query: 122
length of database: 14,973,337
effective HSP length: 84
effective length of query: 38
effective length of database: 9,716,785
effective search space: 369237830
effective search space used: 369237830
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 45 (21.9 bits)