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= 042580
         (241 letters)

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

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



>pdb|1X1N|A Chain A, Structure Determination And Refinement At 1.8 A Resolution
           Of Disproportionating Enzyme From Potato
          Length = 524

 Score = 28.5 bits (62), Expect = 3.6,   Method: Compositional matrix adjust.
 Identities = 14/37 (37%), Positives = 23/37 (62%), Gaps = 1/37 (2%)

Query: 122 DIKQQLQQFRPN-NIGLWVELKSYFTEARNSSSTLGF 157
           ++K QL+ FR + NI  W+E  +YF    NS +T+ +
Sbjct: 148 ELKDQLENFRRDPNISSWLEDAAYFAAIDNSVNTISW 184


>pdb|2OIL|A Chain A, Crystal Structure Of Human Rab25 In Complex With Gdp
          Length = 193

 Score = 27.3 bits (59), Expect = 6.9,   Method: Compositional matrix adjust.
 Identities = 14/47 (29%), Positives = 22/47 (46%), Gaps = 3/47 (6%)

Query: 183 LFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVGCEYYLHKVL 229
           +F V ++G SG  KTN       N ++    D R  +G E+    V+
Sbjct: 25  VFKVVLIGESGVGKTNLLSRFTRNEFSH---DSRTTIGVEFSTRTVM 68


>pdb|3TSO|A Chain A, Structure Of The Cancer Associated Rab25 Protein In
           Complex With Fip2
 pdb|3TSO|B Chain B, Structure Of The Cancer Associated Rab25 Protein In
           Complex With Fip2
          Length = 178

 Score = 27.3 bits (59), Expect = 7.6,   Method: Compositional matrix adjust.
 Identities = 14/47 (29%), Positives = 22/47 (46%), Gaps = 3/47 (6%)

Query: 183 LFIVAIVGNSGFDKTNFAGEAYNNNYAKNYFDCRAWVGCEYYLHKVL 229
           +F V ++G SG  KTN       N ++    D R  +G E+    V+
Sbjct: 10  VFKVVLIGESGVGKTNLLSRFTRNEFSH---DSRTTIGVEFSTRTVM 53


  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
   0.320    0.136    0.388 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,922,091
Number of Sequences: 62578
Number of extensions: 212254
Number of successful extensions: 467
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 465
Number of HSP's gapped (non-prelim): 9
length of query: 241
length of database: 14,973,337
effective HSP length: 96
effective length of query: 145
effective length of database: 8,965,849
effective search space: 1300048105
effective search space used: 1300048105
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: 50 (23.9 bits)