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= psy5258
         (252 letters)

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

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



>pdb|1JVA|A Chain A, Crystal Structure Of The Vma1-Derived Endonuclease Bearing
           The N And C Extein Propeptides
 pdb|1JVA|B Chain B, Crystal Structure Of The Vma1-Derived Endonuclease Bearing
           The N And C Extein Propeptides
          Length = 475

 Score = 27.7 bits (60), Expect = 7.0,   Method: Compositional matrix adjust.
 Identities = 23/89 (25%), Positives = 34/89 (38%), Gaps = 17/89 (19%)

Query: 173 PQWANVLGVAIASSSVIMIPGMAVYQMIITPGTFMQRL-----------------NTLLT 215
           P W  ++G+      V  IP       I T  TF+  L                  T+ T
Sbjct: 296 PLWDAIVGLGFLKDGVKNIPSFLSTDNIGTRETFLAGLIDSDGYVTDEHGIKATIKTIHT 355

Query: 216 PWRDHQTVLARSLSLNGGITSDPAQIRLT 244
             RD    LARSL L   + ++PA++ + 
Sbjct: 356 SVRDGLVSLARSLGLVVSVNAEPAKVDMN 384


>pdb|1EF0|A Chain A, Crystal Structure Of Pi-Scei Miniprecursor
 pdb|1EF0|B Chain B, Crystal Structure Of Pi-Scei Miniprecursor
          Length = 462

 Score = 27.7 bits (60), Expect = 7.1,   Method: Compositional matrix adjust.
 Identities = 23/89 (25%), Positives = 34/89 (38%), Gaps = 17/89 (19%)

Query: 173 PQWANVLGVAIASSSVIMIPGMAVYQMIITPGTFMQRL-----------------NTLLT 215
           P W  ++G+      V  IP       I T  TF+  L                  T+ T
Sbjct: 289 PLWDAIVGLGFLKDGVKNIPSFLSTDNIGTRETFLAGLIDSDGYVTDEHGIKATIKTIHT 348

Query: 216 PWRDHQTVLARSLSLNGGITSDPAQIRLT 244
             RD    LARSL L   + ++PA++ + 
Sbjct: 349 SVRDGLVSLARSLGLVVSVNAEPAKVDMN 377


>pdb|1VDE|A Chain A, Pi-Scei, A Homing Endonuclease With Protein Splicing
           Activity
 pdb|1VDE|B Chain B, Pi-Scei, A Homing Endonuclease With Protein Splicing
           Activity
 pdb|1DFA|A Chain A, Crystal Structure Of Pi-Scei In C2 Space Group
          Length = 454

 Score = 27.7 bits (60), Expect = 7.1,   Method: Compositional matrix adjust.
 Identities = 23/89 (25%), Positives = 34/89 (38%), Gaps = 17/89 (19%)

Query: 173 PQWANVLGVAIASSSVIMIPGMAVYQMIITPGTFMQRL-----------------NTLLT 215
           P W  ++G+      V  IP       I T  TF+  L                  T+ T
Sbjct: 285 PLWDAIVGLGFLKDGVKNIPSFLSTDNIGTRETFLAGLIDSDGYVTDEHGIKATIKTIHT 344

Query: 216 PWRDHQTVLARSLSLNGGITSDPAQIRLT 244
             RD    LARSL L   + ++PA++ + 
Sbjct: 345 SVRDGLVSLARSLGLVVSVNAEPAKVDMN 373


>pdb|1UM2|A Chain A, Crystal Structure Of The Vma1-Derived Endonuclease With
           The Ligated Extein Segment
 pdb|1UM2|B Chain B, Crystal Structure Of The Vma1-Derived Endonuclease With
           The Ligated Extein Segment
          Length = 454

 Score = 27.3 bits (59), Expect = 7.5,   Method: Compositional matrix adjust.
 Identities = 23/89 (25%), Positives = 34/89 (38%), Gaps = 17/89 (19%)

Query: 173 PQWANVLGVAIASSSVIMIPGMAVYQMIITPGTFMQRL-----------------NTLLT 215
           P W  ++G+      V  IP       I T  TF+  L                  T+ T
Sbjct: 285 PLWDAIVGLGFLKDGVKNIPSFLSTDNIGTRETFLAGLIDSDGYVTDEHGIKATIKTIHT 344

Query: 216 PWRDHQTVLARSLSLNGGITSDPAQIRLT 244
             RD    LARSL L   + ++PA++ + 
Sbjct: 345 SVRDGLVSLARSLGLVVSVNAEPAKVDMN 373


>pdb|1LWS|A Chain A, Crystal Structure Of The Intein Homing Endonuclease
           Pi-Scei Bound To Its Recognition Sequence
 pdb|1LWT|A Chain A, Crystal Structure Of The Intein Homing Endonuclease
           Pi-Scei Bound To Its Substrate Dna (Ca2+ Free)
          Length = 454

 Score = 27.3 bits (59), Expect = 8.6,   Method: Compositional matrix adjust.
 Identities = 23/86 (26%), Positives = 33/86 (38%), Gaps = 17/86 (19%)

Query: 173 PQWANVLGVAIASSSVIMIPGMAVYQMIITPGTFMQRL-----------------NTLLT 215
           P W  ++G+      V  IP       I T  TF+  L                  T+ T
Sbjct: 285 PLWDAIVGLGFLKDGVKNIPSFLSTDNIGTRETFLAGLIDSDGYVTDEHGIKATIKTIHT 344

Query: 216 PWRDHQTVLARSLSLNGGITSDPAQI 241
             RD    LARSL L   + ++PA++
Sbjct: 345 SVRDGLVSLARSLGLVVSVNAEPAKV 370


  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    0.422 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,075,581
Number of Sequences: 62578
Number of extensions: 265833
Number of successful extensions: 664
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 657
Number of HSP's gapped (non-prelim): 10
length of query: 252
length of database: 14,973,337
effective HSP length: 97
effective length of query: 155
effective length of database: 8,903,271
effective search space: 1380007005
effective search space used: 1380007005
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: 50 (23.9 bits)