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= 016422
         (390 letters)

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

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



>pdb|1SGV|A Chain A, Structure Of Trna Psi55 Pseudouridine Synthase (Trub)
 pdb|1SGV|B Chain B, Structure Of Trna Psi55 Pseudouridine Synthase (Trub)
          Length = 316

 Score = 32.3 bits (72), Expect = 0.48,   Method: Compositional matrix adjust.
 Identities = 23/80 (28%), Positives = 41/80 (51%), Gaps = 14/80 (17%)

Query: 304 ASGLLREIYQIEKSTRLMNELLDSA-----------QFPITEEKEGEVRQRVQELSMVFE 352
           A+G+L  +  IE++T+++  LL +A           Q   TE+ EG+V Q V    +  E
Sbjct: 45  ATGVL--VIGIERATKILG-LLTAAPKSYAATIRLGQTTSTEDAEGQVLQSVPAKHLTIE 101

Query: 353 SIKRGLNPLEGQVREVFHKI 372
           +I   +  L G++R+V   +
Sbjct: 102 AIDAAMERLRGEIRQVPSSV 121


>pdb|1NT2|B Chain B, Crystal Structure Of FibrillarinNOP5P COMPLEX
          Length = 258

 Score = 30.0 bits (66), Expect = 2.0,   Method: Compositional matrix adjust.
 Identities = 24/93 (25%), Positives = 50/93 (53%), Gaps = 7/93 (7%)

Query: 286 LMLHERIMEESKRRDRRNASGLLREIYQIEKSTRLMNELLDSAQFPITEEKEGEVRQRVQ 345
           L + E+++E+  RR+ R    L++ + +I++S  ++NE L+     I   KE E+ ++ +
Sbjct: 59  LAVSEKMVEKELRREDRYVVALVKALEEIDESINMLNEKLED----IRAVKESEITEKFE 114

Query: 346 ELSMVFESIKRGLNPLEGQVREVFHKIVRSRTE 378
           +       ++R    +E ++ EV  KI  + TE
Sbjct: 115 KKIRELRELRRD---VEREIEEVMEKIAPNMTE 144


  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    0.387 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,457,892
Number of Sequences: 62578
Number of extensions: 322262
Number of successful extensions: 814
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 810
Number of HSP's gapped (non-prelim): 4
length of query: 390
length of database: 14,973,337
effective HSP length: 101
effective length of query: 289
effective length of database: 8,652,959
effective search space: 2500705151
effective search space used: 2500705151
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: 52 (24.6 bits)