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= 039931
         (783 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 = 35.0 bits (79), Expect = 0.18,   Method: Compositional matrix adjust.
 Identities = 26/113 (23%), Positives = 49/113 (43%), Gaps = 9/113 (7%)

Query: 509 RGKLNEALKLEREMRQKGLLPDNFTFNIII-----NGFCKQGRMKPAI----DAFMDMYR 559
           +G + EAL+L  E R+ G+    + +N+++          +    P +    D F  M  
Sbjct: 39  KGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIV 98

Query: 560 TGLVPDIVTYNTLIGGYCKALDIVRADELVNKMYAGGLDPDITTYNIRMHGYC 612
             +VP+  T+           D   A ++V +M A G+ P + +Y   + G+C
Sbjct: 99  DKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFC 151



 Score = 29.6 bits (65), Expect = 7.0,   Method: Compositional matrix adjust.
 Identities = 28/134 (20%), Positives = 57/134 (42%), Gaps = 11/134 (8%)

Query: 433 LDGYFRIGDLIGAQSLWNELNRRKIFPDAVAFSA--YINGLSKAGL-------VDEAYGV 483
           LD   + GD++ A  L++E  R  +      ++   Y+  L++A         +   + +
Sbjct: 33  LDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDI 92

Query: 484 FLEMSRIGFVPNNFAYNSLIAGFCNRGKLNEALKLEREMRQKGLLPDNFTFNIIINGFCK 543
           F +M     VPN   + +       +     A  + ++M+  G+ P   ++   + GFC+
Sbjct: 93  FKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCR 152

Query: 544 QGRMKPA--IDAFM 555
           +G    A  +DA M
Sbjct: 153 KGDADKAYEVDAHM 166


>pdb|4G23|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
           A. Thaliana With Mn
 pdb|4G25|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
           A. Thaliana, Semet Substituted Form With Sr
          Length = 501

 Score = 32.0 bits (71), Expect = 1.3,   Method: Compositional matrix adjust.
 Identities = 25/113 (22%), Positives = 50/113 (44%), Gaps = 9/113 (7%)

Query: 509 RGKLNEALKLEREMRQKGLLPDNFTFNII-----INGFCKQGRMKPAIDAFMDMYRTGLV 563
           +G + EAL+L  E R+ G+    + +N++     +     +    P +    D+++  +V
Sbjct: 39  KGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQXIV 98

Query: 564 PDIVTYN-TLIGGYCKAL---DIVRADELVNKMYAGGLDPDITTYNIRMHGYC 612
             +V    T   G   A+   D   A + V +  A G+ P + +Y   + G+C
Sbjct: 99  DKVVPNEATFTNGARLAVAKDDPEXAFDXVKQXKAFGIQPRLRSYGPALFGFC 151


  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
   0.326    0.141    0.432 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 21,815,009
Number of Sequences: 62578
Number of extensions: 877457
Number of successful extensions: 2155
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 2138
Number of HSP's gapped (non-prelim): 18
length of query: 783
length of database: 14,973,337
effective HSP length: 106
effective length of query: 677
effective length of database: 8,340,069
effective search space: 5646226713
effective search space used: 5646226713
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: 55 (25.8 bits)