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= 047304
         (139 letters)

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

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



>pdb|3SNH|A Chain A, Crystal Structure Of Nucleotide-Free Human Dynamin1
          Length = 743

 Score = 38.9 bits (89), Expect = 0.001,   Method: Composition-based stats.
 Identities = 21/92 (22%), Positives = 46/92 (50%), Gaps = 3/92 (3%)

Query: 12  LISPEKGLRSLIKGVLELAKEPSHLCVDEVHRVLVDIVSAAANATLGLGRCPPFKREVAA 71
           L +P+    +++K  ++  +EP   CVD    V+ +++S     T  L + P  + E+  
Sbjct: 399 LFTPDMAFETIVKKQVKKIREPCLKCVD---MVISELISTVRQCTKKLQQYPRLREEMER 455

Query: 72  IASPALDGFKNEARKMVVALVDMERAFVPPQH 103
           I +  +   +   ++ V+ L+D+E A++   H
Sbjct: 456 IVTTHIREREGRTKEQVMLLIDIELAYMNTNH 487


>pdb|3ZVR|A Chain A, Crystal Structure Of Dynamin
          Length = 772

 Score = 37.0 bits (84), Expect = 0.004,   Method: Composition-based stats.
 Identities = 22/92 (23%), Positives = 45/92 (48%), Gaps = 3/92 (3%)

Query: 12  LISPEKGLRSLIKGVLELAKEPSHLCVDEVHRVLVDIVSAAANATLGLGRCPPFKREVAA 71
           L +P+    + +K  ++  KEPS  CVD    V+ ++ S     +  L + P  + E+  
Sbjct: 422 LFTPDLAFEATVKKQVQKLKEPSIKCVD---MVVSELTSTIRKCSEKLQQYPRLREEMER 478

Query: 72  IASPALDGFKNEARKMVVALVDMERAFVPPQH 103
           I +  +   +   ++ V+ L+D+E A++   H
Sbjct: 479 IVTTHIREREGRTKEQVMLLIDIELAYMNTNH 510


>pdb|1GD5|A Chain A, Solution Structure Of The Px Domain From Human P47phox
           Nadph Oxidase
          Length = 130

 Score = 26.2 bits (56), Expect = 6.3,   Method: Compositional matrix adjust.
 Identities = 8/20 (40%), Positives = 15/20 (75%)

Query: 89  VALVDMERAFVPPQHFIHLV 108
           +AL+  E+ FVP QH++++ 
Sbjct: 11  IALLGFEKRFVPSQHYVYMF 30


>pdb|4GMR|A Chain A, Crystal Structure Of Engineered Protein. Northeast
           Structural Genomics Consortium Target Or266.
 pdb|4GMR|B Chain B, Crystal Structure Of Engineered Protein. Northeast
           Structural Genomics Consortium Target Or266
          Length = 169

 Score = 25.8 bits (55), Expect = 8.7,   Method: Compositional matrix adjust.
 Identities = 17/73 (23%), Positives = 33/73 (45%), Gaps = 13/73 (17%)

Query: 4   EADGYQPYLISPEKGLRSLIKGVLELAKEPS----------HLCVDEVHRVLVDIV---S 50
           ++DG  P  ++ E G + ++K +L    +P+          HL  +  H+ +V ++    
Sbjct: 67  DSDGKTPLHLAAENGHKEVVKLLLSQGADPNAKDSDGKTPLHLAAENGHKEVVKLLLSQG 126

Query: 51  AAANATLGLGRCP 63
           A  N +   GR P
Sbjct: 127 ADPNTSDSDGRTP 139


  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
   0.320    0.135    0.383 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,249,863
Number of Sequences: 62578
Number of extensions: 104020
Number of successful extensions: 218
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 215
Number of HSP's gapped (non-prelim): 6
length of query: 139
length of database: 14,973,337
effective HSP length: 89
effective length of query: 50
effective length of database: 9,403,895
effective search space: 470194750
effective search space used: 470194750
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 46 (22.3 bits)