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= 012365
         (465 letters)

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

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



>pdb|3HKO|A Chain A, Crystal Structure Of A Cdpk Kinase Domain From
           Cryptosporidium Parvum, Cgd7_40
          Length = 345

 Score = 35.4 bits (80), Expect = 0.061,   Method: Compositional matrix adjust.
 Identities = 24/84 (28%), Positives = 40/84 (47%), Gaps = 16/84 (19%)

Query: 30  ALDVVEQMVQGELVPSTETINSILHACEESYEF--------NLVRRIYPM--------IC 73
           A+DVV+  +      + E IN  +H   ES +F        N++R+I+          IC
Sbjct: 131 AMDVVKTQICPCPECNEEAINGSIHGFRESLDFVQREKLISNIMRQIFSALHYLHNQGIC 190

Query: 74  HHNLKPNSETFRSMISLNVKIKDF 97
           H ++KP +  F +  S  +K+ DF
Sbjct: 191 HRDIKPENFLFSTNKSFEIKLVDF 214


>pdb|3SPA|A Chain A, Crystal Structure Of Human Mitochondrial Rna Polymerase
          Length = 1134

 Score = 30.8 bits (68), Expect = 1.6,   Method: Compositional matrix adjust.
 Identities = 21/81 (25%), Positives = 42/81 (51%), Gaps = 7/81 (8%)

Query: 115 TASMYNAIMAGYFRKKDVQGALMVLKEMEQANVKPDSQTFSYLIHNCSNEED-----IIK 169
           T  MYNA+M G+ R+   +  + VL  ++ A + PD  +++  +  C   +D     I +
Sbjct: 164 TLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAAL-QCMGRQDQDAGTIER 222

Query: 170 YYEQLKSAGGQITKYVFMALI 190
             EQ+   G ++ + +F A++
Sbjct: 223 CLEQMSQEGLKL-QALFTAVL 242


  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    0.134    0.394 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,825,846
Number of Sequences: 62578
Number of extensions: 488490
Number of successful extensions: 1414
Number of sequences better than 100.0: 2
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 1414
Number of HSP's gapped (non-prelim): 2
length of query: 465
length of database: 14,973,337
effective HSP length: 102
effective length of query: 363
effective length of database: 8,590,381
effective search space: 3118308303
effective search space used: 3118308303
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: 53 (25.0 bits)