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= 033003
         (129 letters)

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

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



>pdb|2VEQ|A Chain A, Insights Into Kinetochore-Dna Interactions From The
           Structure Of Cep3p
          Length = 565

 Score = 27.3 bits (59), Expect = 2.4,   Method: Compositional matrix adjust.
 Identities = 11/25 (44%), Positives = 16/25 (64%)

Query: 102 LYWSIFRICKYYKDVQRLEEVEKRY 126
           L WS+F +C YY  V++L E+   Y
Sbjct: 119 LIWSVFTMCIYYMPVEKLAEIFSVY 143


>pdb|2QUQ|A Chain A, Crystal Structure Of The Essential Inner Kinetochore
           Protein Cep3p
          Length = 562

 Score = 27.3 bits (59), Expect = 2.5,   Method: Compositional matrix adjust.
 Identities = 11/25 (44%), Positives = 16/25 (64%)

Query: 102 LYWSIFRICKYYKDVQRLEEVEKRY 126
           L WS+F +C YY  V++L E+   Y
Sbjct: 116 LIWSVFTMCIYYMPVEKLAEIFSVY 140


>pdb|3DP7|A Chain A, Crystal Structure Of Sam-Dependent Methyltransferase From
           Bacteroides Vulgatus Atcc 8482
 pdb|3DP7|B Chain B, Crystal Structure Of Sam-Dependent Methyltransferase From
           Bacteroides Vulgatus Atcc 8482
          Length = 363

 Score = 26.9 bits (58), Expect = 3.1,   Method: Compositional matrix adjust.
 Identities = 17/56 (30%), Positives = 28/56 (50%), Gaps = 2/56 (3%)

Query: 70  TSEICTAAERDRYEKSIYKAQRNVILCAAACLLYWSIFRICKYYKDVQRLEEVEKR 125
           T E CTAAE  R  + I  A   V+   +  +L + IF++    ++   L+E+  R
Sbjct: 6   TKEQCTAAEAQRLAQEI--AFGPVVFQVSRLMLKFGIFQLLSGKREGYTLQEISGR 59


  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
   0.327    0.138    0.435 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,069,097
Number of Sequences: 62578
Number of extensions: 96828
Number of successful extensions: 176
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 174
Number of HSP's gapped (non-prelim): 3
length of query: 129
length of database: 14,973,337
effective HSP length: 88
effective length of query: 41
effective length of database: 9,466,473
effective search space: 388125393
effective search space used: 388125393
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 45 (21.9 bits)