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= 027603
         (221 letters)

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

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



>pdb|2ONG|A Chain A, Crystal Structure Of Of Limonene Synthase With 2-
           Fluorogeranyl Diphosphate (Fgpp).
 pdb|2ONG|B Chain B, Crystal Structure Of Of Limonene Synthase With 2-
           Fluorogeranyl Diphosphate (Fgpp).
 pdb|2ONH|A Chain A, Crystal Structure Of Of Limonene Synthase With 2-
           Fluorolinalyl Diphosphate(flpp)
 pdb|2ONH|B Chain B, Crystal Structure Of Of Limonene Synthase With 2-
           Fluorolinalyl Diphosphate(flpp)
          Length = 543

 Score = 30.8 bits (68), Expect = 0.57,   Method: Compositional matrix adjust.
 Identities = 18/58 (31%), Positives = 31/58 (53%), Gaps = 2/58 (3%)

Query: 163 EQSEIDVASGFYVLFASGLMLSFILSIYILESSREKFTRFLQETVAESSMPGDGVAKV 220
           ++S  D   G   L+ +  +L+       LES+RE  T+FL+E V E  + GD + ++
Sbjct: 131 KESLSDDTRGLLQLYEASFLLT--EGETTLESAREFATKFLEEKVNEGGVDGDLLTRI 186


>pdb|1JDI|A Chain A, Crystal Structure Of L-Ribulose-5-Phosphate 4-Epimerase
 pdb|1JDI|B Chain B, Crystal Structure Of L-Ribulose-5-Phosphate 4-Epimerase
 pdb|1JDI|C Chain C, Crystal Structure Of L-Ribulose-5-Phosphate 4-Epimerase
 pdb|1JDI|D Chain D, Crystal Structure Of L-Ribulose-5-Phosphate 4-Epimerase
 pdb|1JDI|E Chain E, Crystal Structure Of L-Ribulose-5-Phosphate 4-Epimerase
 pdb|1JDI|F Chain F, Crystal Structure Of L-Ribulose-5-Phosphate 4-Epimerase
          Length = 231

 Score = 28.5 bits (62), Expect = 2.7,   Method: Compositional matrix adjust.
 Identities = 13/37 (35%), Positives = 20/37 (54%)

Query: 152 PKHVLIRYTWEEQSEIDVASGFYVLFASGLMLSFILS 188
           PKH L+  TW   S +D   G +V+  SG+  S + +
Sbjct: 17  PKHNLVTLTWGNVSAVDRERGVFVIKPSGVDYSIMTA 53


>pdb|1K0W|A Chain A, Crystal Structure Of L-Ribulose-5-Phosphate 4-Epimerase
 pdb|1K0W|B Chain B, Crystal Structure Of L-Ribulose-5-Phosphate 4-Epimerase
 pdb|1K0W|C Chain C, Crystal Structure Of L-Ribulose-5-Phosphate 4-Epimerase
 pdb|1K0W|D Chain D, Crystal Structure Of L-Ribulose-5-Phosphate 4-Epimerase
 pdb|1K0W|E Chain E, Crystal Structure Of L-Ribulose-5-Phosphate 4-Epimerase
 pdb|1K0W|F Chain F, Crystal Structure Of L-Ribulose-5-Phosphate 4-Epimerase
          Length = 231

 Score = 28.5 bits (62), Expect = 2.8,   Method: Compositional matrix adjust.
 Identities = 13/37 (35%), Positives = 20/37 (54%)

Query: 152 PKHVLIRYTWEEQSEIDVASGFYVLFASGLMLSFILS 188
           PKH L+  TW   S +D   G +V+  SG+  S + +
Sbjct: 17  PKHNLVTLTWGNVSAVDRERGVFVIKPSGVDYSIMTA 53


>pdb|3ZYJ|B Chain B, Netring1 In Complex With Ngl1
 pdb|3ZYJ|D Chain D, Netring1 In Complex With Ngl1
          Length = 426

 Score = 26.9 bits (58), Expect = 9.4,   Method: Compositional matrix adjust.
 Identities = 17/75 (22%), Positives = 28/75 (37%), Gaps = 3/75 (4%)

Query: 116 SGNDLLGVTAKIVDMPQRYVEIHPDLPKYFWQPESW---PKHVLIRYTWEEQSEIDVASG 172
             N+    T ++   P+   +     P  FWQ  +W   PK + +  T      I++   
Sbjct: 88  CNNECDASTPELAHPPELMFDFEGRHPSTFWQSATWKEYPKPLQVNITLSWSKTIELTDN 147

Query: 173 FYVLFASGLMLSFIL 187
             + F SG     IL
Sbjct: 148 IVITFESGRPDQMIL 162


  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
   0.323    0.138    0.427 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,176,376
Number of Sequences: 62578
Number of extensions: 245832
Number of successful extensions: 637
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 634
Number of HSP's gapped (non-prelim): 4
length of query: 221
length of database: 14,973,337
effective HSP length: 95
effective length of query: 126
effective length of database: 9,028,427
effective search space: 1137581802
effective search space used: 1137581802
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 49 (23.5 bits)