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= psy2697
         (165 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 = 32.3 bits (72), Expect = 0.11,   Method: Compositional matrix adjust.
 Identities = 23/79 (29%), Positives = 37/79 (46%), Gaps = 2/79 (2%)

Query: 36  DLMKEGMPDLMQNERPDLMQNKRLDLMKEENPDLMREEKPDLMKNERPDLMKEEMPDLMK 95
           DL + G+ D  QNE  +++ +  LD    +NP    +E+ DL        +  E    + 
Sbjct: 59  DLQRMGLSDHFQNEFKEILSSIYLDHHYYKNP--FPKEERDLYSTSLAFRLLREHGFQVA 116

Query: 96  EEKPDLMKEEKPDLKEILS 114
           +E  D  K E+ + KE LS
Sbjct: 117 QEVFDSFKNEEGEFKESLS 135


>pdb|2DB0|A Chain A, Crystal Structure Of Ph0542
 pdb|2DB0|B Chain B, Crystal Structure Of Ph0542
          Length = 253

 Score = 28.9 bits (63), Expect = 1.5,   Method: Compositional matrix adjust.
 Identities = 22/70 (31%), Positives = 32/70 (45%), Gaps = 5/70 (7%)

Query: 15  EEKPDLNEILPWKGVMKEEKPDLMKEGMPDLMQN-----ERPDLMQNKRLDLMKEENPDL 69
           E  P   EI    G M +EKP+L+K  +P L  N     E+  +  +  L+ + + NP L
Sbjct: 82  EAIPLTQEIAKAFGQMAKEKPELVKSMIPVLFANYRIGDEKTKINVSYALEEIAKANPML 141

Query: 70  MREEKPDLMK 79
           M     D M 
Sbjct: 142 MASIVRDFMS 151


>pdb|1FS2|A Chain A, Insights Into Scf Ubiquitin Ligases From The Structure Of
           The Skp1-Skp2 Complex
 pdb|1FS2|C Chain C, Insights Into Scf Ubiquitin Ligases From The Structure Of
           The Skp1-Skp2 Complex
          Length = 272

 Score = 28.1 bits (61), Expect = 2.5,   Method: Compositional matrix adjust.
 Identities = 13/31 (41%), Positives = 21/31 (67%), Gaps = 1/31 (3%)

Query: 130 EMPDLKEILPWKGVMKDGRLDLMKEEMPDLK 160
           E+P LK +  + G++ DG L L+KE +P L+
Sbjct: 232 EIPTLKTLQVF-GIVPDGTLQLLKEALPHLQ 261


>pdb|1FQV|A Chain A, Insights Into Scf Ubiquitin Ligases From The Structure Of
           The Skp1-Skp2 Complex
 pdb|1FQV|C Chain C, Insights Into Scf Ubiquitin Ligases From The Structure Of
           The Skp1-Skp2 Complex
 pdb|1FQV|E Chain E, Insights Into Scf Ubiquitin Ligases From The Structure Of
           The Skp1-Skp2 Complex
 pdb|1FQV|G Chain G, Insights Into Scf Ubiquitin Ligases From The Structure Of
           The Skp1-Skp2 Complex
 pdb|1FQV|I Chain I, Insights Into Scf Ubiquitin Ligases From The Structure Of
           The Skp1-Skp2 Complex
 pdb|1FQV|K Chain K, Insights Into Scf Ubiquitin Ligases From The Structure Of
           The Skp1-Skp2 Complex
 pdb|1FQV|M Chain M, Insights Into Scf Ubiquitin Ligases From The Structure Of
           The Skp1-Skp2 Complex
 pdb|1FQV|O Chain O, Insights Into Scf Ubiquitin Ligases From The Structure Of
           The Skp1-Skp2 Complex
 pdb|2ASS|B Chain B, Crystal Structure Of The Skp1-Skp2-Cks1 Complex
 pdb|2AST|B Chain B, Crystal Structure Of Skp1-Skp2-Cks1 In Complex With A P27
           Peptide
          Length = 336

 Score = 28.1 bits (61), Expect = 2.7,   Method: Compositional matrix adjust.
 Identities = 13/31 (41%), Positives = 21/31 (67%), Gaps = 1/31 (3%)

Query: 130 EMPDLKEILPWKGVMKDGRLDLMKEEMPDLK 160
           E+P LK +  + G++ DG L L+KE +P L+
Sbjct: 270 EIPTLKTLQVF-GIVPDGTLQLLKEALPHLQ 299


  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
   0.311    0.135    0.394 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,636,228
Number of Sequences: 62578
Number of extensions: 251519
Number of successful extensions: 506
Number of sequences better than 100.0: 27
Number of HSP's better than 100.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 14
Number of HSP's that attempted gapping in prelim test: 474
Number of HSP's gapped (non-prelim): 45
length of query: 165
length of database: 14,973,337
effective HSP length: 91
effective length of query: 74
effective length of database: 9,278,739
effective search space: 686626686
effective search space used: 686626686
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 47 (22.7 bits)