BLASTP 2.2.22 [Sep-27-2009]


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.


Reference for composition-based statistics starting in round 2:
Schaffer, Alejandro A., L. Aravind, Thomas L. Madden,
Sergei Shavirin, John L. Spouge, Yuri I. Wolf,  
Eugene V. Koonin, and Stephen F. Altschul (2001), 
"Improving the accuracy of PSI-BLAST protein database searches with 
composition-based statistics and other refinements",  Nucleic Acids Res. 29:2994-3005.

Query= gi|254780931|ref|YP_003065344.1| hypothetical protein
CLIBASIA_04150 [Candidatus Liberibacter asiaticus str. psy62]
         (56 letters)

Database: nr 
           14,124,377 sequences; 4,842,793,630 total letters

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


Results from round 1


>gi|254780931|ref|YP_003065344.1| hypothetical protein CLIBASIA_04150 [Candidatus Liberibacter
          asiaticus str. psy62]
 gi|254040608|gb|ACT57404.1| hypothetical protein CLIBASIA_04150 [Candidatus Liberibacter
          asiaticus str. psy62]
          Length = 56

 Score =  114 bits (284), Expect = 6e-24,   Method: Compositional matrix adjust.
 Identities = 56/56 (100%), Positives = 56/56 (100%)

Query: 1  MDYPCNKEYFKTISTVFGKLGDMRAQNIFLKDIKDKDIIFYLHILIAFEKVIDYLL 56
          MDYPCNKEYFKTISTVFGKLGDMRAQNIFLKDIKDKDIIFYLHILIAFEKVIDYLL
Sbjct: 1  MDYPCNKEYFKTISTVFGKLGDMRAQNIFLKDIKDKDIIFYLHILIAFEKVIDYLL 56


>gi|125974804|ref|YP_001038714.1| restriction endonuclease (HaeIII) [Clostridium thermocellum ATCC
           27405]
 gi|125715029|gb|ABN53521.1| restriction endonuclease (HaeIII) [Clostridium thermocellum ATCC
           27405]
          Length = 319

 Score = 38.1 bits (87), Expect = 0.40,   Method: Composition-based stats.
 Identities = 17/52 (32%), Positives = 33/52 (63%)

Query: 4   PCNKEYFKTISTVFGKLGDMRAQNIFLKDIKDKDIIFYLHILIAFEKVIDYL 55
           PC++ YF  I+ +F +L ++R Q    ++I +K+  FY+ +L AF + ++ L
Sbjct: 141 PCSESYFIEINPLFDELEELREQGELWRNISNKEERFYVPLLEAFIRELERL 192


>gi|304390096|ref|ZP_07372050.1| type II site-specific deoxyribonuclease [Mobiluncus curtisii subsp.
           curtisii ATCC 35241]
 gi|304326578|gb|EFL93822.1| type II site-specific deoxyribonuclease [Mobiluncus curtisii subsp.
           curtisii ATCC 35241]
          Length = 317

 Score = 36.6 bits (83), Expect = 1.1,   Method: Composition-based stats.
 Identities = 15/45 (33%), Positives = 26/45 (57%)

Query: 4   PCNKEYFKTISTVFGKLGDMRAQNIFLKDIKDKDIIFYLHILIAF 48
           PC++ Y+  +  +F  L   +AQ +   +I+DKD   Y+ +L AF
Sbjct: 141 PCSQRYWDDVEPIFTCLAAKKAQGLKWSEIRDKDTTVYVPLLQAF 185


>gi|298346144|ref|YP_003718831.1| type II site-specific deoxyribonuclease [Mobiluncus curtisii ATCC
           43063]
 gi|315657353|ref|ZP_07910235.1| type II restriction enzyme HaeIII [Mobiluncus curtisii subsp.
           holmesii ATCC 35242]
 gi|298236205|gb|ADI67337.1| type II site-specific deoxyribonuclease [Mobiluncus curtisii ATCC
           43063]
 gi|315491825|gb|EFU81434.1| type II restriction enzyme HaeIII [Mobiluncus curtisii subsp.
           holmesii ATCC 35242]
          Length = 317

 Score = 36.6 bits (83), Expect = 1.1,   Method: Composition-based stats.
 Identities = 15/45 (33%), Positives = 26/45 (57%)

Query: 4   PCNKEYFKTISTVFGKLGDMRAQNIFLKDIKDKDIIFYLHILIAF 48
           PC++ Y+  +  +F  L   +AQ +   +I+DKD   Y+ +L AF
Sbjct: 141 PCSQRYWDDVEPIFTCLAAKKAQGLKWSEIRDKDTTVYVPLLQAF 185


>gi|315654723|ref|ZP_07907629.1| type II restriction enzyme HaeIII [Mobiluncus curtisii ATCC 51333]
 gi|315491187|gb|EFU80806.1| type II restriction enzyme HaeIII [Mobiluncus curtisii ATCC 51333]
          Length = 317

 Score = 36.6 bits (83), Expect = 1.3,   Method: Composition-based stats.
 Identities = 15/45 (33%), Positives = 26/45 (57%)

Query: 4   PCNKEYFKTISTVFGKLGDMRAQNIFLKDIKDKDIIFYLHILIAF 48
           PC++ Y+  +  +F  L   +AQ +   +I+DKD   Y+ +L AF
Sbjct: 141 PCSQRYWDDVEPIFTCLAAKKAQGLKWSEIRDKDATVYVPLLQAF 185


>gi|148910486|gb|ABR18318.1| unknown [Picea sitchensis]
          Length = 403

 Score = 34.7 bits (78), Expect = 4.0,   Method: Composition-based stats.
 Identities = 18/44 (40%), Positives = 26/44 (59%), Gaps = 1/44 (2%)

Query: 5   CNKEYFKTISTVFGKLGDMRAQNIFLKDIKDKDIIFYLHILIAF 48
           C+++ FKT+ TVF K  D+R   I  + +K +   F LHILI  
Sbjct: 255 CDRKLFKTVLTVFCKDTDLR-NTITTRVVKKQSATFILHILITL 297


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


Results from round 2





CONVERGED!
>gi|254780931|ref|YP_003065344.1| hypothetical protein CLIBASIA_04150 [Candidatus Liberibacter
          asiaticus str. psy62]
 gi|254040608|gb|ACT57404.1| hypothetical protein CLIBASIA_04150 [Candidatus Liberibacter
          asiaticus str. psy62]
          Length = 56

 Score = 96.1 bits (238), Expect = 1e-18,   Method: Composition-based stats.
 Identities = 56/56 (100%), Positives = 56/56 (100%)

Query: 1  MDYPCNKEYFKTISTVFGKLGDMRAQNIFLKDIKDKDIIFYLHILIAFEKVIDYLL 56
          MDYPCNKEYFKTISTVFGKLGDMRAQNIFLKDIKDKDIIFYLHILIAFEKVIDYLL
Sbjct: 1  MDYPCNKEYFKTISTVFGKLGDMRAQNIFLKDIKDKDIIFYLHILIAFEKVIDYLL 56


>gi|125974804|ref|YP_001038714.1| restriction endonuclease (HaeIII) [Clostridium thermocellum ATCC
           27405]
 gi|125715029|gb|ABN53521.1| restriction endonuclease (HaeIII) [Clostridium thermocellum ATCC
           27405]
          Length = 319

 Score = 36.8 bits (84), Expect = 1.1,   Method: Composition-based stats.
 Identities = 17/52 (32%), Positives = 33/52 (63%)

Query: 4   PCNKEYFKTISTVFGKLGDMRAQNIFLKDIKDKDIIFYLHILIAFEKVIDYL 55
           PC++ YF  I+ +F +L ++R Q    ++I +K+  FY+ +L AF + ++ L
Sbjct: 141 PCSESYFIEINPLFDELEELREQGELWRNISNKEERFYVPLLEAFIRELERL 192


>gi|304390096|ref|ZP_07372050.1| type II site-specific deoxyribonuclease [Mobiluncus curtisii subsp.
           curtisii ATCC 35241]
 gi|304326578|gb|EFL93822.1| type II site-specific deoxyribonuclease [Mobiluncus curtisii subsp.
           curtisii ATCC 35241]
          Length = 317

 Score = 35.3 bits (80), Expect = 2.9,   Method: Composition-based stats.
 Identities = 15/45 (33%), Positives = 26/45 (57%)

Query: 4   PCNKEYFKTISTVFGKLGDMRAQNIFLKDIKDKDIIFYLHILIAF 48
           PC++ Y+  +  +F  L   +AQ +   +I+DKD   Y+ +L AF
Sbjct: 141 PCSQRYWDDVEPIFTCLAAKKAQGLKWSEIRDKDTTVYVPLLQAF 185


>gi|298346144|ref|YP_003718831.1| type II site-specific deoxyribonuclease [Mobiluncus curtisii ATCC
           43063]
 gi|315657353|ref|ZP_07910235.1| type II restriction enzyme HaeIII [Mobiluncus curtisii subsp.
           holmesii ATCC 35242]
 gi|298236205|gb|ADI67337.1| type II site-specific deoxyribonuclease [Mobiluncus curtisii ATCC
           43063]
 gi|315491825|gb|EFU81434.1| type II restriction enzyme HaeIII [Mobiluncus curtisii subsp.
           holmesii ATCC 35242]
          Length = 317

 Score = 35.3 bits (80), Expect = 2.9,   Method: Composition-based stats.
 Identities = 15/45 (33%), Positives = 26/45 (57%)

Query: 4   PCNKEYFKTISTVFGKLGDMRAQNIFLKDIKDKDIIFYLHILIAF 48
           PC++ Y+  +  +F  L   +AQ +   +I+DKD   Y+ +L AF
Sbjct: 141 PCSQRYWDDVEPIFTCLAAKKAQGLKWSEIRDKDTTVYVPLLQAF 185


>gi|315654723|ref|ZP_07907629.1| type II restriction enzyme HaeIII [Mobiluncus curtisii ATCC 51333]
 gi|315491187|gb|EFU80806.1| type II restriction enzyme HaeIII [Mobiluncus curtisii ATCC 51333]
          Length = 317

 Score = 34.9 bits (79), Expect = 3.5,   Method: Composition-based stats.
 Identities = 15/45 (33%), Positives = 26/45 (57%)

Query: 4   PCNKEYFKTISTVFGKLGDMRAQNIFLKDIKDKDIIFYLHILIAF 48
           PC++ Y+  +  +F  L   +AQ +   +I+DKD   Y+ +L AF
Sbjct: 141 PCSQRYWDDVEPIFTCLAAKKAQGLKWSEIRDKDATVYVPLLQAF 185


>gi|148910486|gb|ABR18318.1| unknown [Picea sitchensis]
          Length = 403

 Score = 33.7 bits (76), Expect = 7.5,   Method: Composition-based stats.
 Identities = 18/44 (40%), Positives = 26/44 (59%), Gaps = 1/44 (2%)

Query: 5   CNKEYFKTISTVFGKLGDMRAQNIFLKDIKDKDIIFYLHILIAF 48
           C+++ FKT+ TVF K  D+R   I  + +K +   F LHILI  
Sbjct: 255 CDRKLFKTVLTVFCKDTDLR-NTITTRVVKKQSATFILHILITL 297


  Database: nr
    Posted date:  May 22, 2011 12:22 AM
  Number of letters in database: 999,999,966
  Number of sequences in database:  2,987,313
  
  Database: /data/usr2/db/fasta/nr.01
    Posted date:  May 22, 2011 12:30 AM
  Number of letters in database: 999,999,796
  Number of sequences in database:  2,903,041
  
  Database: /data/usr2/db/fasta/nr.02
    Posted date:  May 22, 2011 12:36 AM
  Number of letters in database: 999,999,281
  Number of sequences in database:  2,904,016
  
  Database: /data/usr2/db/fasta/nr.03
    Posted date:  May 22, 2011 12:41 AM
  Number of letters in database: 999,999,960
  Number of sequences in database:  2,935,328
  
  Database: /data/usr2/db/fasta/nr.04
    Posted date:  May 22, 2011 12:46 AM
  Number of letters in database: 842,794,627
  Number of sequences in database:  2,394,679
  
Lambda     K      H
   0.331    0.150    0.447 

Lambda     K      H
   0.267   0.0475    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,308,414,723
Number of Sequences: 14124377
Number of extensions: 48777859
Number of successful extensions: 143310
Number of sequences better than 10.0: 11
Number of HSP's better than 10.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 143296
Number of HSP's gapped (non-prelim): 18
length of query: 56
length of database: 4,842,793,630
effective HSP length: 29
effective length of query: 27
effective length of database: 4,433,186,697
effective search space: 119696040819
effective search space used: 119696040819
T: 11
A: 40
X1: 16 ( 7.6 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 76 (33.7 bits)