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.

Query= gi|254780313|ref|YP_003064726.1| ribosomal RNA
methyltransferase RrmJ/FtsJ [Candidatus Liberibacter asiaticus str.
psy62]
         (227 letters)

Database: las_proteome 
           1233 sequences; 328,796 total letters

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



>gi|254780313|ref|YP_003064726.1| ribosomal RNA methyltransferase RrmJ/FtsJ [Candidatus Liberibacter
           asiaticus str. psy62]
          Length = 227

 Score =  472 bits (1215), Expect = e-135,   Method: Compositional matrix adjust.
 Identities = 227/227 (100%), Positives = 227/227 (100%)

Query: 1   MVKPPGSSSRRGLTQKVKNRSCQGSSRDWLNRHINDPYVQRAQLEGWRARSAYKLLQINE 60
           MVKPPGSSSRRGLTQKVKNRSCQGSSRDWLNRHINDPYVQRAQLEGWRARSAYKLLQINE
Sbjct: 1   MVKPPGSSSRRGLTQKVKNRSCQGSSRDWLNRHINDPYVQRAQLEGWRARSAYKLLQINE 60

Query: 61  KHQILQSNRRIVDLGSSPGSWSQVAARITGSNANNTRVVAIDILDMEPILGVKFFKFDFL 120
           KHQILQSNRRIVDLGSSPGSWSQVAARITGSNANNTRVVAIDILDMEPILGVKFFKFDFL
Sbjct: 61  KHQILQSNRRIVDLGSSPGSWSQVAARITGSNANNTRVVAIDILDMEPILGVKFFKFDFL 120

Query: 121 DLDSWEFIRQAIGGNPDLVLSDMAYPTIGHRKIDHLRTMSLCEAATFFALEMLNIGGDFL 180
           DLDSWEFIRQAIGGNPDLVLSDMAYPTIGHRKIDHLRTMSLCEAATFFALEMLNIGGDFL
Sbjct: 121 DLDSWEFIRQAIGGNPDLVLSDMAYPTIGHRKIDHLRTMSLCEAATFFALEMLNIGGDFL 180

Query: 181 VKTFQGGTTNDILCLLKKHFQKVIHVKPVASRAESVEMFLLAKGFRK 227
           VKTFQGGTTNDILCLLKKHFQKVIHVKPVASRAESVEMFLLAKGFRK
Sbjct: 181 VKTFQGGTTNDILCLLKKHFQKVIHVKPVASRAESVEMFLLAKGFRK 227


>gi|254780947|ref|YP_003065360.1| transcription-repair coupling factor [Candidatus Liberibacter
           asiaticus str. psy62]
          Length = 1187

 Score = 23.9 bits (50), Expect = 2.4,   Method: Compositional matrix adjust.
 Identities = 14/46 (30%), Positives = 25/46 (54%), Gaps = 1/46 (2%)

Query: 50  RSAYKLLQINEKHQILQSNRRIVDLGSSPG-SWSQVAARITGSNAN 94
           ++ +KL+Q+   +Q   ++ R+V L + PG SW   A +   S  N
Sbjct: 342 QTTHKLVQMTAFNQQETAHNRVVHLNAFPGKSWVPSAVQKIESQDN 387


>537021.9.peg.363_1 
          Length = 79

 Score = 23.5 bits (49), Expect = 3.7,   Method: Compositional matrix adjust.
 Identities = 13/35 (37%), Positives = 18/35 (51%)

Query: 9  SRRGLTQKVKNRSCQGSSRDWLNRHINDPYVQRAQ 43
          S R    K+ +R    SSRD L + IN P  Q+ +
Sbjct: 35 SARSFLVKLSSRRVAKSSRDGLVKDINTPDKQQTK 69


>gi|254780746|ref|YP_003065159.1| hypothetical protein CLIBASIA_03165 [Candidatus Liberibacter
           asiaticus str. psy62]
          Length = 215

 Score = 23.1 bits (48), Expect = 4.3,   Method: Compositional matrix adjust.
 Identities = 9/20 (45%), Positives = 14/20 (70%)

Query: 100 AIDILDMEPILGVKFFKFDF 119
           +ID+LD EP++  KF   D+
Sbjct: 57  SIDLLDFEPMIMKKFILSDY 76


>gi|254781178|ref|YP_003065591.1| cell division protein [Candidatus Liberibacter asiaticus str.
           psy62]
          Length = 304

 Score = 22.3 bits (46), Expect = 6.3,   Method: Compositional matrix adjust.
 Identities = 17/67 (25%), Positives = 36/67 (53%), Gaps = 3/67 (4%)

Query: 8   SSRRGLTQKVKNRSCQGSSRDWLNRHINDPYVQRAQLEGWRARSAYKLLQINEKHQILQS 67
           S+  G+T+ VK  +     R W + H+++  + +   E +    A K+L++  K+QIL  
Sbjct: 208 SNIAGITKFVKAYNWIAERR-W-DLHLHNGIIIKLPEEKFDVAIA-KILELQNKYQILDR 264

Query: 68  NRRIVDL 74
           +  ++D+
Sbjct: 265 DISVIDM 271


  Database: las_proteome
    Posted date:  Jun 5, 2011  6:30 PM
  Number of letters in database: 328,796
  Number of sequences in database:  1233
  
Lambda     K      H
   0.322    0.137    0.410 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 144,208
Number of Sequences: 1233
Number of extensions: 5519
Number of successful extensions: 10
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 5
Number of HSP's gapped (non-prelim): 6
length of query: 227
length of database: 328,796
effective HSP length: 71
effective length of query: 156
effective length of database: 241,253
effective search space: 37635468
effective search space used: 37635468
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 37 (18.9 bits)