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= 018197
         (359 letters)

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

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



>pdb|3BZG|A Chain A, Uvde Ph4.4
          Length = 301

 Score = 29.6 bits (65), Expect = 2.8,   Method: Compositional matrix adjust.
 Identities = 24/81 (29%), Positives = 37/81 (45%), Gaps = 7/81 (8%)

Query: 153 VVVNGLDIVEKPNNMPIEDAE--WFKRLTGRNEVAISAQDYKFYSPRHKYRRVASNSVSN 210
           VVV+ L     P  +P+E+A    F    GR +V +++QD K     H +R    +    
Sbjct: 218 VVVDTLHHALNPGRLPLEEALRLAFPTWRGRPKVHLASQDPKKRPGAHAFRVTREDWERL 277

Query: 211 IPVLPGFPGTDNSSTMVTAQG 231
           +  LPG      +  MV A+G
Sbjct: 278 LSALPG-----PADVMVEAKG 293


>pdb|1WX6|A Chain A, Solution Structure Of The Sh3 Domain Of The Human
           Cytoplasmic Protein Nck2
          Length = 91

 Score = 29.3 bits (64), Expect = 3.8,   Method: Compositional matrix adjust.
 Identities = 16/57 (28%), Positives = 30/57 (52%), Gaps = 5/57 (8%)

Query: 135 TRTRFPELVIQEEKRVRFVVVNGLDIVEKPNNMPIEDAEWFKRLTGRNEVAISAQDY 191
            +T +P   + EE+ + F     ++++EKP N    D EW+K    R +V +  ++Y
Sbjct: 20  VQTLYPFSSVTEEE-LNFEKGETMEVIEKPEN----DPEWWKCKNARGQVGLVPKNY 71


>pdb|3C0L|A Chain A, Uvde K229r
          Length = 301

 Score = 29.3 bits (64), Expect = 3.8,   Method: Compositional matrix adjust.
 Identities = 24/81 (29%), Positives = 36/81 (44%), Gaps = 7/81 (8%)

Query: 153 VVVNGLDIVEKPNNMPIEDAE--WFKRLTGRNEVAISAQDYKFYSPRHKYRRVASNSVSN 210
           VVV+ L     P  +P+E+A    F    GR  V +++QD K     H +R    +    
Sbjct: 218 VVVDTLHHALNPGRLPLEEALRLAFPTWRGRPRVHLASQDPKKRPGAHAFRVTREDWERL 277

Query: 211 IPVLPGFPGTDNSSTMVTAQG 231
           +  LPG      +  MV A+G
Sbjct: 278 LSALPG-----PADVMVEAKG 293


>pdb|2FRY|A Chain A, Solution Structure Of The Third Sh3 Domain Of Human Nck2
           Adaptor Protein
          Length = 61

 Score = 28.5 bits (62), Expect = 5.3,   Method: Composition-based stats.
 Identities = 16/56 (28%), Positives = 30/56 (53%), Gaps = 5/56 (8%)

Query: 136 RTRFPELVIQEEKRVRFVVVNGLDIVEKPNNMPIEDAEWFKRLTGRNEVAISAQDY 191
           +T +P   + EE+ + F     ++++EKP N    D EW+K    R +V +  ++Y
Sbjct: 6   QTLYPFSSVTEEE-LNFEKGETMEVIEKPEN----DPEWWKCKNARGQVGLVPKNY 56


>pdb|1U5S|A Chain A, Nmr Structure Of The Complex Between Nck-2 Sh3 Domain And
           Pinch-1 Lim4 Domain
          Length = 71

 Score = 28.1 bits (61), Expect = 8.2,   Method: Compositional matrix adjust.
 Identities = 16/57 (28%), Positives = 30/57 (52%), Gaps = 5/57 (8%)

Query: 135 TRTRFPELVIQEEKRVRFVVVNGLDIVEKPNNMPIEDAEWFKRLTGRNEVAISAQDY 191
            +T +P   + EE+ + F     ++++EKP N    D EW+K    R +V +  ++Y
Sbjct: 9   VQTLYPFSSVTEEE-LNFEKGETMEVIEKPEN----DPEWWKCKNARGQVGLVPKNY 60


  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    0.134    0.402 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,211,968
Number of Sequences: 62578
Number of extensions: 390154
Number of successful extensions: 952
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 952
Number of HSP's gapped (non-prelim): 7
length of query: 359
length of database: 14,973,337
effective HSP length: 100
effective length of query: 259
effective length of database: 8,715,537
effective search space: 2257324083
effective search space used: 2257324083
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: 52 (24.6 bits)