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= 038303
         (461 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 = 32.7 bits (73), Expect = 0.49,   Method: Compositional matrix adjust.
 Identities = 38/159 (23%), Positives = 69/159 (43%), Gaps = 17/159 (10%)

Query: 295 QALQLFSLMIINAVFPDDVTFIALISACSHGGLVDQGLILFKAMSTVYEIVPQMQHYACV 354
           +   +F  MI++ V P++ TF             +    + K M   + I P+++ Y   
Sbjct: 88  RGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMK-AFGIQPRLRSYGPA 146

Query: 355 VDMYGRAGLLEEA---EAFIREMPIEAEWSVWGALLNACRIHRN-DEMFDRIR--QDLVN 408
           +  + R G  ++A   +A + E  +  E     ALL      +N D+++  ++  +DLV 
Sbjct: 147 LFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLV- 205

Query: 409 KKGVSVGTFALMSNTF-------AGADRWEDTNKIRDEI 440
            + VS  TF ++   F        G  +W D  KIRD +
Sbjct: 206 -RQVSKSTFDMIEEWFKSEVATKTGVKKW-DVKKIRDAV 242


>pdb|3CMG|A Chain A, Crystal Structure Of Putative Beta-Galactosidase From
           Bacteroides Fragilis
          Length = 667

 Score = 30.8 bits (68), Expect = 1.5,   Method: Compositional matrix adjust.
 Identities = 14/44 (31%), Positives = 22/44 (50%), Gaps = 4/44 (9%)

Query: 154 IRCGSLASCGYLFVKMPKRNVVSWTTMI----GGYAERGFCKEA 193
           IR        Y++  M K  +V+W  +     GGYA++GF  +A
Sbjct: 321 IRLAHYPQATYMYDLMDKHGIVTWAEIPFVGPGGYADKGFVDQA 364


>pdb|2VVW|A Chain A, Structure Of Vaccinia Virus Protein A52
 pdb|2VVW|B Chain B, Structure Of Vaccinia Virus Protein A52
 pdb|2VVX|A Chain A, Structure Of Vaccinia Virus Protein A52
 pdb|2VVX|B Chain B, Structure Of Vaccinia Virus Protein A52
          Length = 162

 Score = 29.3 bits (64), Expect = 4.3,   Method: Compositional matrix adjust.
 Identities = 20/70 (28%), Positives = 31/70 (44%), Gaps = 16/70 (22%)

Query: 340 TVYEIVPQMQHYACVVDMYGRAGLLEEAEAFIREMPIEAEWSVWGALLNACRIHRNDEMF 399
           TVY+ +  +   ACVVD++    L                +S W   L A ++  ND M 
Sbjct: 95  TVYDCISMIGLCACVVDVWRNEKL----------------FSRWKYCLRAIKLFINDHML 138

Query: 400 DRIRQDLVNK 409
           D+I+  L N+
Sbjct: 139 DKIKSILQNR 148


  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
   0.324    0.136    0.418 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,374,413
Number of Sequences: 62578
Number of extensions: 515081
Number of successful extensions: 1555
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 1553
Number of HSP's gapped (non-prelim): 4
length of query: 461
length of database: 14,973,337
effective HSP length: 102
effective length of query: 359
effective length of database: 8,590,381
effective search space: 3083946779
effective search space used: 3083946779
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 53 (25.0 bits)