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= 004240
         (766 letters)

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

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



>pdb|2R55|A Chain A, Human Star-Related Lipid Transfer Protein 5
 pdb|2R55|B Chain B, Human Star-Related Lipid Transfer Protein 5
          Length = 231

 Score = 36.2 bits (82), Expect = 0.067,   Method: Compositional matrix adjust.
 Identities = 36/132 (27%), Positives = 52/132 (39%), Gaps = 3/132 (2%)

Query: 235 WKCVRTLNGVRIFEDVADSKSGRGVLVKAVGVIDASADTVFEVVLNLERHQRYEWDMLTG 294
           WK  R  NGV +      S    G L +  G++  + + V++ V       R +WD    
Sbjct: 45  WKICREGNGVSV--SWRPSVEFPGNLYRGEGIVYGTLEEVWDCVKPAVGGLRVKWDENVT 102

Query: 295 DLELVDSYDGHYDVVYGTYDPKYLTRWQSKRDFVFSRQWFRGQDGTYTILQFPAVHKKRP 354
             E++ S       V  T  P    +  S RDFV      R +DGT +       H   P
Sbjct: 103 GFEIIQSITDTL-CVSRTSTPSAAMKLISPRDFVDLVLVKRYEDGTISSNATHVEHPLCP 161

Query: 355 PKSGYRRTKINP 366
           PK G+ R   +P
Sbjct: 162 PKPGFVRGFNHP 173


>pdb|1M1C|A Chain A, Structure Of The L-A Virus
 pdb|1M1C|B Chain B, Structure Of The L-A Virus
          Length = 680

 Score = 32.0 bits (71), Expect = 1.3,   Method: Compositional matrix adjust.
 Identities = 17/55 (30%), Positives = 27/55 (49%), Gaps = 1/55 (1%)

Query: 626 KPNYSLVLYYASERPVNKNSLLGKFVDGTDMFRDARFKLIPSIAEGY-WMVKRAV 679
           +P  S V+  A  + VN N L  +F     +      K +P+ AEGY W++  A+
Sbjct: 265 RPPSSKVMLSALRKYVNHNRLYNQFYTAAQLLAQIMMKPVPNCAEGYAWLMHDAL 319


>pdb|1K8K|E Chain E, Crystal Structure Of Arp23 COMPLEX
 pdb|1TYQ|E Chain E, Crystal Structure Of Arp23 COMPLEX WITH BOUND ATP AND
           Calcium
 pdb|1U2V|E Chain E, Crystal Structure Of Arp23 COMPLEX WITH BOUND ADP AND
           Calcium
 pdb|2P9I|E Chain E, Crystal Structure Of Bovine Arp23 COMPLEX CO-Crystallized
           With Adp And Crosslinked With Gluteraldehyde
 pdb|2P9K|E Chain E, Crystal Structure Of Bovine Arp23 COMPLEX CO-Crystallized
           With Atp And Crosslinked With Glutaraldehyde
 pdb|2P9L|E Chain E, Crystal Structure Of Bovine Arp23 COMPLEX
 pdb|2P9N|E Chain E, Crystal Structure Of Bovine Arp23 COMPLEX CO-Crystallized
           With Adp
 pdb|2P9P|E Chain E, Crystal Structure Of Bovine Arp23 COMPLEX CO-Crystallized
           With Adp
 pdb|2P9S|E Chain E, Structure Of Bovine Arp23 COMPLEX CO-Crystallized With
           AtpMG2+
 pdb|2P9U|E Chain E, Crystal Structure Of Bovine Arp23 COMPLEX CO-Crystallized
           With Amp-Pnp And Calcium
 pdb|3DXK|E Chain E, Structure Of Bos Taurus Arp23 COMPLEX WITH BOUND INHIBITOR
           Ck0944636
 pdb|3DXM|E Chain E, Structure Of Bos Taurus Arp23 COMPLEX WITH BOUND INHIBITOR
           Ck0993548
 pdb|3RSE|E Chain E, Structural And Biochemical Characterization Of Two Binding
           Sites For Nucleation Promoting Factor Wasp-Vca On Arp23
           COMPLEX
 pdb|3UKR|E Chain E, Crystal Structure Of Bos Taurus Arp2/3 Complex With Bound
           Inhibitor Ck-666
 pdb|3UKU|E Chain E, Structure Of Arp2/3 Complex With Bound Inhibitor Ck-869
 pdb|3ULE|E Chain E, Structure Of Bos Taurus Arp2/3 Complex With Bound
           Inhibitor Ck-869 And Atp
          Length = 178

 Score = 30.0 bits (66), Expect = 4.6,   Method: Composition-based stats.
 Identities = 14/42 (33%), Positives = 24/42 (57%), Gaps = 2/42 (4%)

Query: 602 KCLVQSEAGKKLPFILVINLQVPGKPNYSLVLYYASERPVNK 643
           KC  +S+  K++  + + N  +PG+P + L   YA  +P NK
Sbjct: 84  KCNSKSQGEKEMYTLGITNFPIPGEPGFPLNAIYA--KPANK 123


  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
   0.319    0.136    0.415 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 21,631,017
Number of Sequences: 62578
Number of extensions: 922435
Number of successful extensions: 1695
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 1691
Number of HSP's gapped (non-prelim): 10
length of query: 766
length of database: 14,973,337
effective HSP length: 106
effective length of query: 660
effective length of database: 8,340,069
effective search space: 5504445540
effective search space used: 5504445540
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: 55 (25.8 bits)