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= 039792
         (819 letters)

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

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



>pdb|4G24|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
           A. Thaliana With Mn
 pdb|4G26|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
           A. Thaliana With Ca
          Length = 501

 Score = 34.7 bits (78), Expect = 0.22,   Method: Compositional matrix adjust.
 Identities = 15/56 (26%), Positives = 25/56 (44%)

Query: 650 LFREMIIEGLEPNYITFVGVLSACSHAGLIEDGLDHFQSMAGFGIEPGMEHYASVV 705
           +F++MI++ + PN  TF             E   D  + M  FGI+P +  Y   +
Sbjct: 92  IFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPAL 147


>pdb|3VKG|A Chain A, X-Ray Structure Of An Mtbd Truncation Mutant Of Dynein Motor
            Domain
 pdb|3VKG|B Chain B, X-Ray Structure Of An Mtbd Truncation Mutant Of Dynein Motor
            Domain
          Length = 3245

 Score = 29.6 bits (65), Expect = 6.9,   Method: Compositional matrix adjust.
 Identities = 22/65 (33%), Positives = 32/65 (49%), Gaps = 4/65 (6%)

Query: 297  INVLMDFYSKCGRVKMARRLFDEIEVKNIISWTTLIGGYMQNSFDREAMKLFTE--MTRS 354
            I+  +D YSK GR  +       I V+ I+  +T+ GG + N FD   +  F E   T S
Sbjct: 2825 IDYWVDLYSK-GRSNIDPDKIPWIAVRTILG-STIYGGRIDNEFDMRLLYSFLEQLFTPS 2882

Query: 355  GWKPD 359
             + PD
Sbjct: 2883 AFNPD 2887


>pdb|3VKH|A Chain A, X-Ray Structure Of A Functional Full-Length Dynein Motor
            Domain
 pdb|3VKH|B Chain B, X-Ray Structure Of A Functional Full-Length Dynein Motor
            Domain
          Length = 3367

 Score = 29.6 bits (65), Expect = 7.1,   Method: Compositional matrix adjust.
 Identities = 22/65 (33%), Positives = 32/65 (49%), Gaps = 4/65 (6%)

Query: 297  INVLMDFYSKCGRVKMARRLFDEIEVKNIISWTTLIGGYMQNSFDREAMKLFTE--MTRS 354
            I+  +D YSK GR  +       I V+ I+  +T+ GG + N FD   +  F E   T S
Sbjct: 2947 IDYWVDLYSK-GRSNIDPDKIPWIAVRTILG-STIYGGRIDNEFDMRLLYSFLEQLFTPS 3004

Query: 355  GWKPD 359
             + PD
Sbjct: 3005 AFNPD 3009


  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    0.135    0.402 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 22,873,766
Number of Sequences: 62578
Number of extensions: 893777
Number of successful extensions: 2088
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 2087
Number of HSP's gapped (non-prelim): 5
length of query: 819
length of database: 14,973,337
effective HSP length: 107
effective length of query: 712
effective length of database: 8,277,491
effective search space: 5893573592
effective search space used: 5893573592
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: 56 (26.2 bits)