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= 026585
         (236 letters)

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

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



>pdb|3FZ0|A Chain A, Inosine-Guanosine Nucleoside Hydrolase (Ig-Nh)
 pdb|3FZ0|B Chain B, Inosine-Guanosine Nucleoside Hydrolase (Ig-Nh)
 pdb|3FZ0|C Chain C, Inosine-Guanosine Nucleoside Hydrolase (Ig-Nh)
 pdb|3FZ0|D Chain D, Inosine-Guanosine Nucleoside Hydrolase (Ig-Nh)
          Length = 360

 Score = 28.1 bits (61), Expect = 4.1,   Method: Compositional matrix adjust.
 Identities = 16/47 (34%), Positives = 23/47 (48%), Gaps = 4/47 (8%)

Query: 192 TWGLADVRINREKAGKGRPLSKKQREWR--LNTTFDSLR-LVRLHSD 235
           TWG  D  +NRE    GR ++  Q +W+  +   F  L    R+H D
Sbjct: 217 TWGFYDKLVNRESTPNGR-VAVNQNKWQEFIEKLFQRLEAFTRIHDD 262


>pdb|3ZEF|B Chain B, Crystal Structure Of Prp8:aar2 Complex: Second Crystal
           Form At 3.1 Angstrom Resolution
 pdb|3ZEF|E Chain E, Crystal Structure Of Prp8:aar2 Complex: Second Crystal
           Form At 3.1 Angstrom Resolution
          Length = 1531

 Score = 27.7 bits (60), Expect = 5.2,   Method: Compositional matrix adjust.
 Identities = 16/66 (24%), Positives = 31/66 (46%), Gaps = 1/66 (1%)

Query: 56  WDKEALAIAEDVCLSFDGDLKIYAFRTLPNSTIKVRIE-KMSNKSGSPSMEDIEAFCTTY 114
           W K   +I  D+C   DG+L +    ++   T+  R   KM++ +   +ME +  +  + 
Sbjct: 772 WQKIHESIVFDICQILDGELDVLQIESVTKETVHPRKSYKMNSSAADITMESVHEWEVSK 831

Query: 115 RARLDE 120
            + L E
Sbjct: 832 PSLLHE 837


>pdb|4I43|B Chain B, Crystal Structure Of Prp8:aar2 Complex
          Length = 1564

 Score = 27.7 bits (60), Expect = 5.4,   Method: Compositional matrix adjust.
 Identities = 16/66 (24%), Positives = 31/66 (46%), Gaps = 1/66 (1%)

Query: 56  WDKEALAIAEDVCLSFDGDLKIYAFRTLPNSTIKVRIE-KMSNKSGSPSMEDIEAFCTTY 114
           W K   +I  D+C   DG+L +    ++   T+  R   KM++ +   +ME +  +  + 
Sbjct: 805 WQKIHESIVFDICQILDGELDVLQIESVTKETVHPRKSYKMNSSAADITMESVHEWEVSK 864

Query: 115 RARLDE 120
            + L E
Sbjct: 865 PSLLHE 870


>pdb|2YNM|A Chain A, Structure Of The Adpxalf3-stabilized Transition State Of
           The Nitrogenase-like Dark-operative Protochlorophyllide
           Oxidoreductase Complex From Prochlorococcus Marinus With
           Its Substrate Protochlorophyllide A
 pdb|2YNM|B Chain B, Structure Of The Adpxalf3-stabilized Transition State Of
           The Nitrogenase-like Dark-operative Protochlorophyllide
           Oxidoreductase Complex From Prochlorococcus Marinus With
           Its Substrate Protochlorophyllide A
          Length = 301

 Score = 27.7 bits (60), Expect = 6.0,   Method: Compositional matrix adjust.
 Identities = 22/75 (29%), Positives = 35/75 (46%), Gaps = 6/75 (8%)

Query: 91  RIEKMSNKSGSPSMEDIEAFCTTYRARLDEAEIAKSIPENTS-LEVSSPGVERVVRI--- 146
           +IEK + K+G  +M          R+RL +  I +  PE    LEV +  +    ++   
Sbjct: 221 QIEKFNEKTGLKTMAHFRNVDAIRRSRLKKCTIFEMDPEEEGVLEVQNEYLSLAKKMIDN 280

Query: 147 --PLELERFKDRAMY 159
             PLE E  KDR ++
Sbjct: 281 VEPLEAEPLKDREIF 295


>pdb|1SVA|1 Chain 1, Simian Virus 40
 pdb|1SVA|2 Chain 2, Simian Virus 40
 pdb|1SVA|3 Chain 3, Simian Virus 40
 pdb|1SVA|4 Chain 4, Simian Virus 40
 pdb|1SVA|5 Chain 5, Simian Virus 40
 pdb|1SVA|6 Chain 6, Simian Virus 40
          Length = 361

 Score = 27.3 bits (59), Expect = 6.7,   Method: Compositional matrix adjust.
 Identities = 22/73 (30%), Positives = 32/73 (43%), Gaps = 7/73 (9%)

Query: 83  LPNSTIKVRIEKMSNKSGSPSMEDIEAFCTTYRARLDEAE--IAKSIPENTSLEVSSPGV 140
           +P   IK  IE +  K+G  S  ++E F        DE +  ++KS+         SP  
Sbjct: 23  VPKLVIKGGIEVLGVKTGVDSFTEVECFLNPQMGNPDEHQKGLSKSLAAEKQFTDDSPDK 82

Query: 141 ER-----VVRIPL 148
           E+     V RIPL
Sbjct: 83  EQLPCYSVARIPL 95


  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
   0.318    0.133    0.394 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,610,862
Number of Sequences: 62578
Number of extensions: 204032
Number of successful extensions: 466
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 466
Number of HSP's gapped (non-prelim): 5
length of query: 236
length of database: 14,973,337
effective HSP length: 96
effective length of query: 140
effective length of database: 8,965,849
effective search space: 1255218860
effective search space used: 1255218860
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 50 (23.9 bits)