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= 018995
         (348 letters)

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

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



>pdb|3R31|A Chain A, Crystal Structure Of Betaine Aldehyde Dehydrogenase From
           Agrobacterium Tumefaciens
 pdb|3R31|B Chain B, Crystal Structure Of Betaine Aldehyde Dehydrogenase From
           Agrobacterium Tumefaciens
          Length = 517

 Score = 29.6 bits (65), Expect = 2.3,   Method: Compositional matrix adjust.
 Identities = 17/45 (37%), Positives = 21/45 (46%)

Query: 142 AMVLGAPLDDARHLAQRYDRMRQEAEAQAIEVSKRQAKVRETPGN 186
           AM+LG PLD A HL     + +QE     IE  K +     T G 
Sbjct: 318 AMILGDPLDYATHLGPLVSKAQQEKVLSYIEKGKAEGATLITGGG 362


>pdb|2DA9|A Chain A, Solution Structure Of The Third Sh3 Domain Of Sh3-Domain
           Kinase Binding Protein 1 (Regulator Of Ubiquitous
           Kinase, Ruk)
          Length = 70

 Score = 29.6 bits (65), Expect = 2.5,   Method: Composition-based stats.
 Identities = 14/35 (40%), Positives = 24/35 (68%), Gaps = 1/35 (2%)

Query: 299 GSTDAMGYFLGEVVHPYQAESDVELTLSVGDYVVV 333
           GS+ + G +  +V+ PY+A++D ELT+  GD V +
Sbjct: 1   GSSGSSGDYC-KVIFPYEAQNDDELTIKEGDIVTL 34


>pdb|2YDL|A Chain A, Crystal Structure Of Sh3c From Cin85
          Length = 69

 Score = 28.9 bits (63), Expect = 4.8,   Method: Composition-based stats.
 Identities = 11/24 (45%), Positives = 18/24 (75%)

Query: 310 EVVHPYQAESDVELTLSVGDYVVV 333
           +V+ PY+A++D ELT+  GD V +
Sbjct: 6   KVIFPYEAQNDDELTIKEGDIVTL 29


>pdb|2K9G|A Chain A, Solution Structure Of The Third Sh3 Domain Of The Cin85
           Adapter Protein
          Length = 73

 Score = 28.9 bits (63), Expect = 4.8,   Method: Composition-based stats.
 Identities = 11/24 (45%), Positives = 18/24 (75%)

Query: 310 EVVHPYQAESDVELTLSVGDYVVV 333
           +V+ PY+A++D ELT+  GD V +
Sbjct: 13  KVIFPYEAQNDDELTIKEGDIVTL 36


>pdb|2K6D|A Chain A, Cin85 Sh3-C Domain In Complex With Ubiquitin
          Length = 62

 Score = 28.9 bits (63), Expect = 4.8,   Method: Composition-based stats.
 Identities = 11/24 (45%), Positives = 18/24 (75%)

Query: 310 EVVHPYQAESDVELTLSVGDYVVV 333
           +V+ PY+A++D ELT+  GD V +
Sbjct: 7   KVIFPYEAQNDDELTIKEGDIVTL 30


  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
   0.315    0.129    0.347 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,072,093
Number of Sequences: 62578
Number of extensions: 282315
Number of successful extensions: 838
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 828
Number of HSP's gapped (non-prelim): 12
length of query: 348
length of database: 14,973,337
effective HSP length: 100
effective length of query: 248
effective length of database: 8,715,537
effective search space: 2161453176
effective search space used: 2161453176
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 52 (24.6 bits)