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= psy3819
         (122 letters)

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

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



>pdb|1J0G|A Chain A, Solution Structure Of Mouse Hypothetical 9.1 Kda Protein,
           A Ubiquitin-Like Fold
          Length = 92

 Score = 76.6 bits (187), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 34/44 (77%), Positives = 38/44 (86%)

Query: 78  ECPLVTSAIITDDGIGINPQQTAGTVFMKHGCELRLIPRDRVGS 121
           + P  TSAIIT+DGIGINP QTAG VF+KHG ELR+IPRDRVGS
Sbjct: 48  KVPAATSAIITNDGIGINPAQTAGNVFLKHGSELRIIPRDRVGS 91


>pdb|1WXS|A Chain A, Solution Structure Of Ufm1, A Ubiquitin-Fold Modifier
          Length = 90

 Score = 76.3 bits (186), Expect = 4e-15,   Method: Compositional matrix adjust.
 Identities = 34/44 (77%), Positives = 38/44 (86%)

Query: 78  ECPLVTSAIITDDGIGINPQQTAGTVFMKHGCELRLIPRDRVGS 121
           + P  TSAIIT+DGIGINP QTAG VF+KHG ELR+IPRDRVGS
Sbjct: 46  KVPAATSAIITNDGIGINPAQTAGNVFLKHGSELRIIPRDRVGS 89


>pdb|1L7Y|A Chain A, Solution Nmr Structure Of C. Elegans Protein Zk652.3.
           Northeast Structural Genomics Consortium Target Wr41
          Length = 94

 Score = 72.0 bits (175), Expect = 8e-14,   Method: Compositional matrix adjust.
 Identities = 30/43 (69%), Positives = 36/43 (83%)

Query: 78  ECPLVTSAIITDDGIGINPQQTAGTVFMKHGCELRLIPRDRVG 120
           + P  TSAIIT+DG+G+NP Q AG +F+KHG ELRLIPRDRVG
Sbjct: 51  KVPAATSAIITNDGVGVNPAQPAGNIFLKHGSELRLIPRDRVG 93


>pdb|2KTY|A Chain A, Solution Structure Of Human Vaccinia Related Kinase-1
 pdb|2KUL|A Chain A, Solution Structure Of Human Vaccinia Related Kinase
          1(Vrk1)
          Length = 368

 Score = 25.8 bits (55), Expect = 5.7,   Method: Composition-based stats.
 Identities = 18/51 (35%), Positives = 24/51 (47%), Gaps = 7/51 (13%)

Query: 41 KQVRRGLRVSQGGTGCTYPILPNRSEEDCECPRVGLGECPLVTSAIITDDG 91
          K+ + GL + QGG GC Y    N SE       VG  + P V     +D+G
Sbjct: 35 KEWKVGLPIGQGGFGCIYLADMNSSES------VG-SDAPCVVKVEPSDNG 78


  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    0.144    0.473 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,977,097
Number of Sequences: 62578
Number of extensions: 151592
Number of successful extensions: 180
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 175
Number of HSP's gapped (non-prelim): 7
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 (21.9 bits)
S2: 45 (21.9 bits)