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= 031673
         (155 letters)

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

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



>pdb|3B6V|A Chain A, Crystal Structure Of The Motor Domain Of Human Kinesin
           Family Member 3c In Complex With Adp
 pdb|3B6V|B Chain B, Crystal Structure Of The Motor Domain Of Human Kinesin
           Family Member 3c In Complex With Adp
          Length = 395

 Score = 28.5 bits (62), Expect = 1.8,   Method: Compositional matrix adjust.
 Identities = 14/33 (42%), Positives = 19/33 (57%)

Query: 94  IGITFSALWQPISALQGVGKVFEPYKDSKVDLL 126
           I ++ SAL   I+AL G      PY+DSK+  L
Sbjct: 305 INLSLSALGNVIAALAGNRSTHIPYRDSKLTRL 337


>pdb|3LVQ|E Chain E, The Crystal Structure Of Asap3 In Complex With Arf6 In
           Trans State
 pdb|3LVR|E Chain E, The Crystal Structure Of Asap3 In Complex With Arf6 In
           Trans State Soaked With Calcium
          Length = 497

 Score = 27.3 bits (59), Expect = 4.0,   Method: Compositional matrix adjust.
 Identities = 12/28 (42%), Positives = 17/28 (60%)

Query: 111 VGKVFEPYKDSKVDLLGPKLLFIALNLG 138
           +G  F   +   +DLLGP  L +ALN+G
Sbjct: 56  LGVRFSRMQSLTLDLLGPSELLLALNMG 83


>pdb|2B0O|E Chain E, Crystal Structure Of Uplc1 Gap Domain
 pdb|2B0O|F Chain F, Crystal Structure Of Uplc1 Gap Domain
 pdb|2B0O|G Chain G, Crystal Structure Of Uplc1 Gap Domain
 pdb|2B0O|H Chain H, Crystal Structure Of Uplc1 Gap Domain
          Length = 301

 Score = 26.9 bits (58), Expect = 4.1,   Method: Compositional matrix adjust.
 Identities = 12/28 (42%), Positives = 17/28 (60%)

Query: 111 VGKVFEPYKDSKVDLLGPKLLFIALNLG 138
           +G  F   +   +DLLGP  L +ALN+G
Sbjct: 75  LGVRFSRMQSLTLDLLGPSELLLALNMG 102


  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
   0.317    0.133    0.406 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,747,339
Number of Sequences: 62578
Number of extensions: 170413
Number of successful extensions: 350
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 347
Number of HSP's gapped (non-prelim): 3
length of query: 155
length of database: 14,973,337
effective HSP length: 91
effective length of query: 64
effective length of database: 9,278,739
effective search space: 593839296
effective search space used: 593839296
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: 47 (22.7 bits)