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= 005000
         (720 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 = 38.1 bits (87), Expect = 0.015,   Method: Compositional matrix adjust.
 Identities = 39/173 (22%), Positives = 68/173 (39%), Gaps = 20/173 (11%)

Query: 390 IDMYCKCGDVEKAQRVFREMLRK----DKFTWTAMIVGLAI---------NGHGDKSLDM 436
           +DM  K GDV +A R++ E  R      ++ +  ++   ++         N    +  D+
Sbjct: 33  LDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDI 92

Query: 437 FSQMLRASIIPDEVTYVGVLSACTHTGMVDEGREYFADMTIQ---HGIEPNEAHYGCMVD 493
           F QM+   ++P+E T+           +  +  E   DM  Q    GI+P    YG  + 
Sbjct: 93  FKQMIVDKVVPNEATFTN----GARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALF 148

Query: 494 LLGRAGHLNEALEVIKNMPMKPNSIVWGALLGACRVHRDAEMAEMAAKQILEL 546
              R G  ++A EV  +M           L    +V  D + A+   K +  L
Sbjct: 149 GFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVSMDTKNADKVYKTLQRL 201


>pdb|1W3B|A Chain A, The Superhelical Tpr Domain Of O-Linked Glcnac Transferase
           Reveals Structural Similarities To Importin Alpha.
 pdb|1W3B|B Chain B, The Superhelical Tpr Domain Of O-Linked Glcnac Transferase
           Reveals Structural Similarities To Importin Alpha
          Length = 388

 Score = 30.4 bits (67), Expect = 3.8,   Method: Compositional matrix adjust.
 Identities = 18/55 (32%), Positives = 25/55 (45%), Gaps = 4/55 (7%)

Query: 532 DAEMAEMAAKQILELDPDNEAVYVLLCNIYAACNRWDNFRELRQMILDRGIKKTP 586
           D E AE    Q+   +PDN  V +LL +I+  C R D       +     IK+ P
Sbjct: 14  DFEAAERHCMQLWRQEPDNTGVLLLLSSIHFQCRRLDRSAHFSTL----AIKQNP 64


>pdb|1NA0|A Chain A, Design Of Stable Alpha-Helical Arrays From An Idealized
           Tpr Motif
 pdb|1NA0|B Chain B, Design Of Stable Alpha-Helical Arrays From An Idealized
           Tpr Motif
          Length = 125

 Score = 30.4 bits (67), Expect = 4.0,   Method: Composition-based stats.
 Identities = 25/85 (29%), Positives = 38/85 (44%), Gaps = 2/85 (2%)

Query: 497 RAGHLNEALEVI-KNMPMKPNSI-VWGALLGACRVHRDAEMAEMAAKQILELDPDNEAVY 554
           + G  +EA+E   K + + PN+   W  L  A     D + A    ++ LELDP+N   +
Sbjct: 21  KQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAW 80

Query: 555 VLLCNIYAACNRWDNFRELRQMILD 579
             L N Y     +D   E  Q  L+
Sbjct: 81  YNLGNAYYKQGDYDEAIEYYQKALE 105


  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    0.138    0.422 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 21,413,296
Number of Sequences: 62578
Number of extensions: 906630
Number of successful extensions: 1852
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 1847
Number of HSP's gapped (non-prelim): 6
length of query: 720
length of database: 14,973,337
effective HSP length: 106
effective length of query: 614
effective length of database: 8,340,069
effective search space: 5120802366
effective search space used: 5120802366
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 55 (25.8 bits)