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= 010807
         (500 letters)

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

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



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

 Score = 32.3 bits (72), Expect = 0.69,   Method: Compositional matrix adjust.
 Identities = 13/46 (28%), Positives = 24/46 (52%)

Query: 258 YNGVMDAYGKNGMIKEMESVLSRMKSNQCKPDIITFNLLIDSYGKR 303
           YN VM  + + G  KE+  VL  +K     PD++++   +   G++
Sbjct: 168 YNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQ 213


>pdb|2O96|A Chain A, Crystal Structure Of The Metal-Free Dimeric Human Mov34
           Mpn Domain (Residues 1-177)
 pdb|2O96|B Chain B, Crystal Structure Of The Metal-Free Dimeric Human Mov34
           Mpn Domain (Residues 1-177)
          Length = 178

 Score = 31.2 bits (69), Expect = 1.4,   Method: Compositional matrix adjust.
 Identities = 36/154 (23%), Positives = 64/154 (41%), Gaps = 31/154 (20%)

Query: 296 LIDSYGKRQAFDKMEQVFKSLMHSKEKPTLPTFNSMIINYGKARLQGKAEYVFQKMTAMK 355
           ++D + +       ++V   L+ S +K  L   NS  + + +     K + V+       
Sbjct: 20  VVDHFNRIGKVGNQKRVVGVLLGSWQKKVLDVSNSFAVPFDE---DDKDDSVW------- 69

Query: 356 YTPSFITYECIITMYGYCDNVSRAREIFDELSKLGKDMKVS--TLNAMLEAYCMN----- 408
               F+ ++ +  MYG    V+ ARE        G  +  +   +N +++ YC N     
Sbjct: 70  ----FLDHDYLENMYGMFKKVN-ARERIVGWYHTGPKLHKNDIAINELMKRYCPNSVLVI 124

Query: 409 --------GLPTEADLLFENSHNMGVTPDSSTYK 434
                   GLPTEA +  E  H+ G TP S T++
Sbjct: 125 IDVKPKDLGLPTEAYISVEEVHDDG-TPTSKTFE 157


>pdb|2O95|A Chain A, Crystal Structure Of The Metal-Free Dimeric Human Mov34
           Mpn Domain (Residues 1-186)
 pdb|2O95|B Chain B, Crystal Structure Of The Metal-Free Dimeric Human Mov34
           Mpn Domain (Residues 1-186)
          Length = 187

 Score = 30.8 bits (68), Expect = 1.7,   Method: Compositional matrix adjust.
 Identities = 36/154 (23%), Positives = 64/154 (41%), Gaps = 31/154 (20%)

Query: 296 LIDSYGKRQAFDKMEQVFKSLMHSKEKPTLPTFNSMIINYGKARLQGKAEYVFQKMTAMK 355
           ++D + +       ++V   L+ S +K  L   NS  + + +     K + V+       
Sbjct: 20  VVDHFNRIGKVGNQKRVVGVLLGSWQKKVLDVSNSFAVPFDE---DDKDDSVW------- 69

Query: 356 YTPSFITYECIITMYGYCDNVSRAREIFDELSKLGKDMKVS--TLNAMLEAYCMN----- 408
               F+ ++ +  MYG    V+ ARE        G  +  +   +N +++ YC N     
Sbjct: 70  ----FLDHDYLENMYGMFKKVN-ARERIVGWYHTGPKLHKNDIAINELMKRYCPNSVLVI 124

Query: 409 --------GLPTEADLLFENSHNMGVTPDSSTYK 434
                   GLPTEA +  E  H+ G TP S T++
Sbjct: 125 IDVKPKDLGLPTEAYISVEEVHDDG-TPTSKTFE 157


  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
   0.321    0.133    0.394 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,785,067
Number of Sequences: 62578
Number of extensions: 509070
Number of successful extensions: 1344
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 1342
Number of HSP's gapped (non-prelim): 5
length of query: 500
length of database: 14,973,337
effective HSP length: 103
effective length of query: 397
effective length of database: 8,527,803
effective search space: 3385537791
effective search space used: 3385537791
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: 53 (25.0 bits)