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= 013990
         (432 letters)

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

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



>pdb|1X5I|A Chain A, The Solution Structure Of The Fourth Fibronectin Type Iii
           Domain Of Human Neogenin
          Length = 126

 Score = 32.7 bits (73), Expect = 0.39,   Method: Composition-based stats.
 Identities = 29/110 (26%), Positives = 44/110 (40%), Gaps = 19/110 (17%)

Query: 163 PKAGSSLSFCPLEKKMSNSWSPIEPSTFRVRGQNYLRDKKKDFAPNFAAYCPFAADVFLS 222
           P+  SSL   PL   +  SW+P E     VRG          +A  +    P A  +   
Sbjct: 28  PEVPSSLHVRPLVTSIVVSWTPPENQNIVVRG----------YAIGYGIGSPHAQTI--- 74

Query: 223 QRKIDHIARFVDLPVIDSSEE----LPSILVVNLQIPLYPAAIFQGENDG 268
             K+D+  R+  +  +D S      L +   V   IPLY +A+ +    G
Sbjct: 75  --KVDYKQRYYTIENLDPSSHYVITLKAFNNVGEGIPLYESAVTRPHTSG 122


>pdb|1XFI|A Chain A, X-Ray Structure Of Gene Product From Arabidopsis Thaliana
           At2g17340
 pdb|2Q40|A Chain A, Ensemble Refinement Of The Protein Crystal Structure Of
           Gene Product From Arabidopsis Thaliana At2g17340
          Length = 367

 Score = 30.4 bits (67), Expect = 1.8,   Method: Compositional matrix adjust.
 Identities = 31/109 (28%), Positives = 46/109 (42%), Gaps = 9/109 (8%)

Query: 319 ERLKILSRLV--NGEDLHLSTTEKKILNTYNEKPV--LSRPQHEFYLGENYFEIDLDVHR 374
           E  +ILS+L   NG+ L + T++  I N+ N+ PV  LSR   E      Y   D D+  
Sbjct: 261 ELTEILSQLKDENGQLLGVDTSKLLIANSGNDLPVIDLSRVSQELA----YLSSDADLVI 316

Query: 375 FSYLSRKTFAAFQDRFKLCKLDFGLTIQENKTENLPENML-CCIRLNEI 422
              + R        +FK   L  G+       E L   +  C  + NE+
Sbjct: 317 VEGMGRGIETNLYAQFKCDSLKIGMVKHLEVAEFLGGRLYDCVFKFNEV 365


>pdb|2WV0|A Chain A, Crystal Structure Of The Gntr-Hutc Family Member Yvoa From
           Bacillus Subtilis
 pdb|2WV0|B Chain B, Crystal Structure Of The Gntr-Hutc Family Member Yvoa From
           Bacillus Subtilis
 pdb|2WV0|C Chain C, Crystal Structure Of The Gntr-Hutc Family Member Yvoa From
           Bacillus Subtilis
 pdb|2WV0|D Chain D, Crystal Structure Of The Gntr-Hutc Family Member Yvoa From
           Bacillus Subtilis
 pdb|2WV0|E Chain E, Crystal Structure Of The Gntr-Hutc Family Member Yvoa From
           Bacillus Subtilis
 pdb|2WV0|F Chain F, Crystal Structure Of The Gntr-Hutc Family Member Yvoa From
           Bacillus Subtilis
 pdb|2WV0|G Chain G, Crystal Structure Of The Gntr-Hutc Family Member Yvoa From
           Bacillus Subtilis
 pdb|2WV0|H Chain H, Crystal Structure Of The Gntr-Hutc Family Member Yvoa From
           Bacillus Subtilis
 pdb|2WV0|I Chain I, Crystal Structure Of The Gntr-Hutc Family Member Yvoa From
           Bacillus Subtilis
 pdb|2WV0|J Chain J, Crystal Structure Of The Gntr-Hutc Family Member Yvoa From
           Bacillus Subtilis
          Length = 243

 Score = 30.0 bits (66), Expect = 2.7,   Method: Compositional matrix adjust.
 Identities = 50/207 (24%), Positives = 76/207 (36%), Gaps = 35/207 (16%)

Query: 190 FRVRGQNYLRDKKKDFAPNFAAYCPFAADVFLSQRKIDHIARFVDLPVIDSSEELPSILV 249
           +R++G+     K K           F  D  +  R +   +R +D  +IDS+EEL +IL 
Sbjct: 65  YRLKGRGTFVSKPK-MEQALQGLTSFTED--MKSRGMTPGSRLIDYQLIDSTEELAAILG 121

Query: 250 VNLQIPLYPAAIFQGEND------GEGMNLVLYFKLSESYSKDLPVHFQEHVNRIINDEV 303
                 ++     +  ND         +   L  +L+ES       HFQ      I D +
Sbjct: 122 CGHPSSIHKITRVRLANDIPMAIESSHIPFELAGELNES-------HFQSS----IYDHI 170

Query: 304 ERVKGFPLDTINSFRERLKILSRLVNGEDLHLSTTEKKILNTYNEKPVLSRPQHEFYLGE 363
           ER    P   I+  ++ L         E    +T E  IL      PVL   +  +    
Sbjct: 171 ERYNSIP---ISRAKQEL---------EPSAATTEEANILGIQKGAPVLLIKRTTYLQNG 218

Query: 364 NYFEIDLDVHRFSYLSRKTFAAFQDRF 390
             FE    V+R     R TF  + DR 
Sbjct: 219 TAFEHAKSVYRG---DRYTFVHYMDRL 242


  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    0.406 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,364,959
Number of Sequences: 62578
Number of extensions: 519884
Number of successful extensions: 1002
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 1001
Number of HSP's gapped (non-prelim): 5
length of query: 432
length of database: 14,973,337
effective HSP length: 102
effective length of query: 330
effective length of database: 8,590,381
effective search space: 2834825730
effective search space used: 2834825730
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: 53 (25.0 bits)