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= 015281
         (410 letters)

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

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



>pdb|2YUD|A Chain A, Solution Structure Of The Yth Domain In Yth Domain-
           Containing Protein 1 (Putative Splicing Factor Yt521)
          Length = 180

 Score = 69.7 bits (169), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 43/135 (31%), Positives = 70/135 (51%), Gaps = 12/135 (8%)

Query: 257 YSDAKFFIIKSYSEDDVHKSVKYNMWTSTPNGNKKLDAAYREAKEKSSDCPVFLLFSVNA 316
             DA+FF+IKS + ++V  +    +W++ P   KKL+ A+R A+       V L+FSV  
Sbjct: 23  LQDARFFLIKSNNHENVSLAKAKGVWSTLPVNEKKLNLAFRSARS------VILIFSVRE 76

Query: 317 SGQFVGVAEMVGPVDFDKTVEYW-----QQDKWV-GCFPLKWLIIKDVPNSSLRHITLEN 370
           SG+F G A +        +  +W        K + G F + W+  +++P +   H+T   
Sbjct: 77  SGKFQGFARLSSESHHGGSPIHWVLPAGMSAKMLGGVFKIDWICRRELPFTKSAHLTNPW 136

Query: 371 NENKPVTNSRDTQEV 385
           NE+KPV   RD QE+
Sbjct: 137 NEHKPVKIGRDGQEI 151


>pdb|2YU6|A Chain A, Solution Structure Of The Yth Domain In Yth Domain-
           Containing Protein 2
          Length = 141

 Score = 66.6 bits (161), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 40/130 (30%), Positives = 70/130 (53%), Gaps = 7/130 (5%)

Query: 258 SDAKFFIIKSYSEDDVHKSVKYNMWTSTPNGNKKLDAAYREAKEKSSDCPVFLLFSVNAS 317
           S  ++FI+KS +  ++  S +  +W++TP+  +KL+ A+ E+        V+L+FSV  S
Sbjct: 6   SGVRYFIMKSSNLRNLEISQQKGIWSTTPSNERKLNRAFWES------SIVYLVFSVQGS 59

Query: 318 GQFVGVAEMVGPVDFDKTVEYWQQDKWVGCFPLKWLIIKDVPNSSLRHITLENNENKPVT 377
           G F G + M   +  +K+ + W      G F ++W+  + +P     H+    N+NK V 
Sbjct: 60  GHFQGFSRMSSEIGREKSQD-WGSAGLGGVFKVEWIRKESLPFQFAHHLLNPWNDNKKVQ 118

Query: 378 NSRDTQEVCP 387
            SRD QE+ P
Sbjct: 119 ISRDGQELEP 128


>pdb|2HYX|A Chain A, Structure Of The C-Terminal Domain Of Dipz From
           Mycobacterium Tuberculosis
 pdb|2HYX|B Chain B, Structure Of The C-Terminal Domain Of Dipz From
           Mycobacterium Tuberculosis
 pdb|2HYX|C Chain C, Structure Of The C-Terminal Domain Of Dipz From
           Mycobacterium Tuberculosis
 pdb|2HYX|D Chain D, Structure Of The C-Terminal Domain Of Dipz From
           Mycobacterium Tuberculosis
          Length = 352

 Score = 30.0 bits (66), Expect = 2.4,   Method: Compositional matrix adjust.
 Identities = 17/56 (30%), Positives = 29/56 (51%), Gaps = 2/56 (3%)

Query: 60  SYQDPGYSFDGIHSPITWLDTSIFGGGQSKHNANAGYTSPISHSNNFPSGRNQNHR 115
           +Y+D G +  G+H+P    +     G  +K  AN G + PI+  NN+ +  N  +R
Sbjct: 110 AYKDSGLAVIGVHTPEYAFEK--VPGNVAKGAANLGISYPIALDNNYATWTNYRNR 163


>pdb|3DWL|A Chain A, Crystal Structure Of Fission Yeast Arp2/3 Complex Lacking
           The Arp2 Subunit
 pdb|3DWL|B Chain B, Crystal Structure Of Fission Yeast Arp2/3 Complex Lacking
           The Arp2 Subunit
          Length = 427

 Score = 28.1 bits (61), Expect = 9.6,   Method: Compositional matrix adjust.
 Identities = 27/88 (30%), Positives = 35/88 (39%), Gaps = 3/88 (3%)

Query: 17  MANGPGVSGNGRSKPQRPNYQYPYLDPNSSHGRGGLSTVVPSPSYQDPGYSFDGIHSPIT 76
           M NG G S  G +    P+Y +P +    S G      V   PSY     S   + S   
Sbjct: 10  MDNGTGYSKLGYAGNDAPSYVFPTVIATRSAGASSGPAVSSKPSYMASKGS-GHLSSKRA 68

Query: 77  WLDTSIFGGGQSKHNANAGYTS--PISH 102
             D   F G  +   A+AGY+   PI H
Sbjct: 69  TEDLDFFIGNDALKKASAGYSLDYPIRH 96


  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
   0.313    0.133    0.415 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,938,141
Number of Sequences: 62578
Number of extensions: 744493
Number of successful extensions: 936
Number of sequences better than 100.0: 22
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 19
Number of HSP's that attempted gapping in prelim test: 928
Number of HSP's gapped (non-prelim): 23
length of query: 410
length of database: 14,973,337
effective HSP length: 101
effective length of query: 309
effective length of database: 8,652,959
effective search space: 2673764331
effective search space used: 2673764331
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 53 (25.0 bits)