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= 044883
         (180 letters)

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

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



>pdb|1NC2|A Chain A, Crystal Structure Of Monoclonal Antibody 2d12.5 Fab
           Complexed With Y- Dota
 pdb|1NC2|C Chain C, Crystal Structure Of Monoclonal Antibody 2d12.5 Fab
           Complexed With Y- Dota
 pdb|1NC4|A Chain A, Crystal Structure Of Monoclonal Antibody 2d12.5 Fab
           Complexed With Gd- Dota
 pdb|1NC4|C Chain C, Crystal Structure Of Monoclonal Antibody 2d12.5 Fab
           Complexed With Gd- Dota
          Length = 215

 Score = 30.0 bits (66), Expect = 0.68,   Method: Compositional matrix adjust.
 Identities = 18/49 (36%), Positives = 22/49 (44%), Gaps = 4/49 (8%)

Query: 27  KPTKEDVRRCFMLEFDRAAFIIASTATEDEMLN----WYREHVVWADKT 71
           +P     R    L  D+AA  IA T TEDE +     WY  H V+   T
Sbjct: 56  RPPGVPARFSGSLIGDKAALTIAGTQTEDEAIYFCALWYSNHWVFGGGT 104


>pdb|1GJI|A Chain A, Crystal Structure Of C-Rel Bound To Dna
 pdb|1GJI|B Chain B, Crystal Structure Of C-Rel Bound To Dna
          Length = 275

 Score = 27.7 bits (60), Expect = 4.0,   Method: Compositional matrix adjust.
 Identities = 21/83 (25%), Positives = 33/83 (39%), Gaps = 14/83 (16%)

Query: 99  GIYASVIASANTMLSKDKILSSVESRNNTRESKSVNSSRKIGGFGQSQATARRVLE---- 154
           G Y +       +LS   +      + + +ES S+  S+KI  F   +     + E    
Sbjct: 80  GYYEAEFGPERRVLSFQNLGIQCVKKKDLKESISLRISKKINPFNVPEEQLHNIDEYDLN 139

Query: 155 --------FIDD--ANYTLAIPP 167
                   F+ D   NYTLA+PP
Sbjct: 140 VVRLCFQAFLPDEHGNYTLALPP 162


>pdb|2EO5|A Chain A, Crystal Structure Of 4-Aminobutyrate Aminotransferase From
           Sulfolobus Tokodaii Strain7
          Length = 419

 Score = 27.3 bits (59), Expect = 5.2,   Method: Compositional matrix adjust.
 Identities = 12/34 (35%), Positives = 17/34 (50%)

Query: 139 IGGFGQSQATARRVLEFIDDANYTLAIPPESPPG 172
           I G+        RV+EFI+D  +   +PPE   G
Sbjct: 182 INGYENPSELVNRVIEFIEDYIFVNLVPPEEVAG 215


>pdb|3C7N|A Chain A, Structure Of The Hsp110:hsc70 Nucleotide Exchange Complex
          Length = 668

 Score = 26.9 bits (58), Expect = 5.8,   Method: Compositional matrix adjust.
 Identities = 11/26 (42%), Positives = 17/26 (65%)

Query: 104 VIASANTMLSKDKILSSVESRNNTRE 129
           +I   N ML++DK+++  E R NT E
Sbjct: 552 LIEKENEMLAQDKLVAETEDRKNTLE 577


>pdb|2QXL|A Chain A, Crystal Structure Analysis Of Sse1, A Yeast Hsp110
 pdb|2QXL|B Chain B, Crystal Structure Analysis Of Sse1, A Yeast Hsp110
          Length = 658

 Score = 26.9 bits (58), Expect = 5.9,   Method: Compositional matrix adjust.
 Identities = 11/26 (42%), Positives = 17/26 (65%)

Query: 104 VIASANTMLSKDKILSSVESRNNTRE 129
           +I   N ML++DK+++  E R NT E
Sbjct: 549 LIEKENEMLAQDKLVAETEDRKNTLE 574


>pdb|3D2F|A Chain A, Crystal Structure Of A Complex Of Sse1p And Hsp70
 pdb|3D2F|C Chain C, Crystal Structure Of A Complex Of Sse1p And Hsp70
          Length = 675

 Score = 26.9 bits (58), Expect = 6.0,   Method: Compositional matrix adjust.
 Identities = 11/26 (42%), Positives = 17/26 (65%)

Query: 104 VIASANTMLSKDKILSSVESRNNTRE 129
           +I   N ML++DK+++  E R NT E
Sbjct: 532 LIEKENEMLAQDKLVAETEDRKNTLE 557


  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    0.132    0.381 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,894,341
Number of Sequences: 62578
Number of extensions: 163838
Number of successful extensions: 368
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 363
Number of HSP's gapped (non-prelim): 7
length of query: 180
length of database: 14,973,337
effective HSP length: 93
effective length of query: 87
effective length of database: 9,153,583
effective search space: 796361721
effective search space used: 796361721
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: 48 (23.1 bits)