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= psy16824
         (85 letters)

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

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



>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 =  116 bits (290), Expect = 4e-27,   Method: Compositional matrix adjust.
 Identities = 48/84 (57%), Positives = 67/84 (79%)

Query: 1   MYSLALAKFDLPGEAGFPLNSVYAKPQSQNEADLMKNYLTQVRQETGLRVCERVFNTPDG 60
           MY+L +  F +PGE GFPLN++YAKP ++ E ++M+ YL Q+RQETGLR+CE+VF+  + 
Sbjct: 95  MYTLGITNFPIPGEPGFPLNAIYAKPANKQEDEVMRAYLQQLRQETGLRLCEKVFDPQND 154

Query: 61  KPSKWWLCFSKKRFMDKSLTALGQ 84
           KPSKWW CF K++FM+KSL+  GQ
Sbjct: 155 KPSKWWTCFVKRQFMNKSLSGPGQ 178


>pdb|3DWL|E Chain E, Crystal Structure Of Fission Yeast Arp2/3 Complex Lacking
           The Arp2 Subunit
 pdb|3DWL|J Chain J, Crystal Structure Of Fission Yeast Arp2/3 Complex Lacking
           The Arp2 Subunit
          Length = 174

 Score = 98.6 bits (244), Expect = 9e-22,   Method: Compositional matrix adjust.
 Identities = 43/77 (55%), Positives = 55/77 (71%)

Query: 3   SLALAKFDLPGEAGFPLNSVYAKPQSQNEADLMKNYLTQVRQETGLRVCERVFNTPDGKP 62
           SLAL  F +PG AGFPLN++YA P S  +A++M+ YLTQ RQE   R+   V+ T    P
Sbjct: 98  SLALENFSIPGSAGFPLNALYAPPLSPQDAEIMRTYLTQFRQELAYRLLSHVYATEKDHP 157

Query: 63  SKWWLCFSKKRFMDKSL 79
           SKWW CFSK+RFM+K+L
Sbjct: 158 SKWWTCFSKRRFMNKAL 174


>pdb|1M5H|A Chain A, Formylmethanofuran:tetrahydromethanopterin
          Formyltransferase From Archaeoglobus Fulgidus
 pdb|1M5H|B Chain B, Formylmethanofuran:tetrahydromethanopterin
          Formyltransferase From Archaeoglobus Fulgidus
 pdb|1M5H|C Chain C, Formylmethanofuran:tetrahydromethanopterin
          Formyltransferase From Archaeoglobus Fulgidus
 pdb|1M5H|D Chain D, Formylmethanofuran:tetrahydromethanopterin
          Formyltransferase From Archaeoglobus Fulgidus
 pdb|1M5H|E Chain E, Formylmethanofuran:tetrahydromethanopterin
          Formyltransferase From Archaeoglobus Fulgidus
 pdb|1M5H|F Chain F, Formylmethanofuran:tetrahydromethanopterin
          Formyltransferase From Archaeoglobus Fulgidus
 pdb|1M5H|G Chain G, Formylmethanofuran:tetrahydromethanopterin
          Formyltransferase From Archaeoglobus Fulgidus
 pdb|1M5H|H Chain H, Formylmethanofuran:tetrahydromethanopterin
          Formyltransferase From Archaeoglobus Fulgidus
          Length = 297

 Score = 28.1 bits (61), Expect = 1.4,   Method: Composition-based stats.
 Identities = 18/59 (30%), Positives = 28/59 (47%), Gaps = 2/59 (3%)

Query: 28 SQNEADLMKNYLTQVRQETGLRVCERVFNTPDGKPSKW-WLC-FSKKRFMDKSLTALGQ 84
          + NEA      +     E G+ +  +   TPDG+P  +  +C  SKK   ++ L  LGQ
Sbjct: 36 AANEATGFGTSVIMCPAEAGIEIKAKPSETPDGRPGYYIQICHMSKKGLEEQLLARLGQ 94


  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    0.132    0.408 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,580,618
Number of Sequences: 62578
Number of extensions: 88016
Number of successful extensions: 162
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 160
Number of HSP's gapped (non-prelim): 3
length of query: 85
length of database: 14,973,337
effective HSP length: 53
effective length of query: 32
effective length of database: 11,656,703
effective search space: 373014496
effective search space used: 373014496
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: 45 (21.9 bits)