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= 040197
         (416 letters)

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

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



>pdb|3OC3|A Chain A, Crystal Structure Of The Mot1 N-Terminal Domain In Complex
           With Tbp
 pdb|3OC3|B Chain B, Crystal Structure Of The Mot1 N-Terminal Domain In Complex
           With Tbp
          Length = 800

 Score = 33.1 bits (74), Expect = 0.30,   Method: Compositional matrix adjust.
 Identities = 22/67 (32%), Positives = 32/67 (47%), Gaps = 14/67 (20%)

Query: 267 LGAAIYPISNPNGLPYQITIYLFKDPDTGNWWMQYGEKINVGYWPP----------KLFS 316
           L + IYP+  PN +  Q+  +L    D+G+W +Q+   I +GY             KL S
Sbjct: 251 LLSRIYPLIGPNDIIEQLVGFL----DSGDWQVQFSGLIALGYLKEFVEDKDGLCRKLVS 306

Query: 317 LLPSGAE 323
           LL S  E
Sbjct: 307 LLSSPDE 313


>pdb|1FN9|A Chain A, Crystal Structure Of The Reovirus Outer Capsid Protein
           Sigma 3
 pdb|1FN9|B Chain B, Crystal Structure Of The Reovirus Outer Capsid Protein
           Sigma 3
          Length = 365

 Score = 30.0 bits (66), Expect = 2.3,   Method: Compositional matrix adjust.
 Identities = 16/36 (44%), Positives = 18/36 (50%)

Query: 207 LQSGPYYDFESIESGWAVNPRVYGDRKTRLFVYWTA 242
           LQ  P   F SI S W    +V  D  T+L  YWTA
Sbjct: 134 LQVDPNSMFRSIHSSWTDPLQVVDDLDTKLDQYWTA 169


>pdb|1JMU|G Chain G, Crystal Structure Of The Reovirus Mu1SIGMA3 COMPLEX
 pdb|1JMU|H Chain H, Crystal Structure Of The Reovirus Mu1SIGMA3 COMPLEX
 pdb|1JMU|I Chain I, Crystal Structure Of The Reovirus Mu1SIGMA3 COMPLEX
          Length = 366

 Score = 30.0 bits (66), Expect = 2.4,   Method: Compositional matrix adjust.
 Identities = 16/36 (44%), Positives = 18/36 (50%)

Query: 207 LQSGPYYDFESIESGWAVNPRVYGDRKTRLFVYWTA 242
           LQ  P   F SI S W    +V  D  T+L  YWTA
Sbjct: 135 LQVDPNSMFRSIHSSWTDPLQVVDDLDTKLDQYWTA 170


>pdb|2CSE|S Chain S, Features Of Reovirus Outer-Capsid Protein Mu1 Revealed By
           Electron And Image Reconstruction Of The Virion At 7.0-A
           Resolution
 pdb|2CSE|D Chain D, Features Of Reovirus Outer-Capsid Protein Mu1 Revealed By
           Electron And Image Reconstruction Of The Virion At 7.0-A
           Resolution
 pdb|2CSE|E Chain E, Features Of Reovirus Outer-Capsid Protein Mu1 Revealed By
           Electron And Image Reconstruction Of The Virion At 7.0-A
           Resolution
 pdb|2CSE|F Chain F, Features Of Reovirus Outer-Capsid Protein Mu1 Revealed By
           Electron And Image Reconstruction Of The Virion At 7.0-A
           Resolution
 pdb|2CSE|M Chain M, Features Of Reovirus Outer-Capsid Protein Mu1 Revealed By
           Electron And Image Reconstruction Of The Virion At 7.0-A
           Resolution
 pdb|2CSE|N Chain N, Features Of Reovirus Outer-Capsid Protein Mu1 Revealed By
           Electron And Image Reconstruction Of The Virion At 7.0-A
           Resolution
 pdb|2CSE|O Chain O, Features Of Reovirus Outer-Capsid Protein Mu1 Revealed By
           Electron And Image Reconstruction Of The Virion At 7.0-A
           Resolution
 pdb|2CSE|G Chain G, Features Of Reovirus Outer-Capsid Protein Mu1 Revealed By
           Electron And Image Reconstruction Of The Virion At 7.0-A
           Resolution
 pdb|2CSE|H Chain H, Features Of Reovirus Outer-Capsid Protein Mu1 Revealed By
           Electron And Image Reconstruction Of The Virion At 7.0-A
           Resolution
 pdb|2CSE|I Chain I, Features Of Reovirus Outer-Capsid Protein Mu1 Revealed By
           Electron And Image Reconstruction Of The Virion At 7.0-A
           Resolution
          Length = 365

 Score = 30.0 bits (66), Expect = 2.4,   Method: Compositional matrix adjust.
 Identities = 16/36 (44%), Positives = 18/36 (50%)

Query: 207 LQSGPYYDFESIESGWAVNPRVYGDRKTRLFVYWTA 242
           LQ  P   F SI S W    +V  D  T+L  YWTA
Sbjct: 134 LQVDPNSMFRSIHSSWTDPLQVVDDLDTKLDQYWTA 169


  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    0.138    0.442 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,023,201
Number of Sequences: 62578
Number of extensions: 617625
Number of successful extensions: 1071
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 1068
Number of HSP's gapped (non-prelim): 9
length of query: 416
length of database: 14,973,337
effective HSP length: 101
effective length of query: 315
effective length of database: 8,652,959
effective search space: 2725682085
effective search space used: 2725682085
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: 53 (25.0 bits)