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|254780239|ref|YP_003064652.1| 30S ribosomal protein S13
[Candidatus Liberibacter asiaticus str. psy62]
         (122 letters)

Database: las_proteome 
           1233 sequences; 328,796 total letters

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



>gi|254780239|ref|YP_003064652.1| 30S ribosomal protein S13 [Candidatus Liberibacter asiaticus str.
           psy62]
          Length = 122

 Score =  247 bits (630), Expect = 5e-68,   Method: Compositional matrix adjust.
 Identities = 122/122 (100%), Positives = 122/122 (100%)

Query: 1   MARIAGVNIPRAKRVVRALCYIHGIGFKSSQDICNKLAIPPERRVHQLVESEVIQIRQAI 60
           MARIAGVNIPRAKRVVRALCYIHGIGFKSSQDICNKLAIPPERRVHQLVESEVIQIRQAI
Sbjct: 1   MARIAGVNIPRAKRVVRALCYIHGIGFKSSQDICNKLAIPPERRVHQLVESEVIQIRQAI 60

Query: 61  EQDYQVEGDLRRTVAMNIKRLMDLGCYRGLRHRRGLPVRGQRTHTNARTRKKFGKGGVAR 120
           EQDYQVEGDLRRTVAMNIKRLMDLGCYRGLRHRRGLPVRGQRTHTNARTRKKFGKGGVAR
Sbjct: 61  EQDYQVEGDLRRTVAMNIKRLMDLGCYRGLRHRRGLPVRGQRTHTNARTRKKFGKGGVAR 120

Query: 121 KR 122
           KR
Sbjct: 121 KR 122


>gi|254780598|ref|YP_003065011.1| outer membrane protein [Candidatus Liberibacter asiaticus str.
           psy62]
          Length = 205

 Score = 23.5 bits (49), Expect = 1.2,   Method: Compositional matrix adjust.
 Identities = 18/39 (46%), Positives = 20/39 (51%), Gaps = 5/39 (12%)

Query: 64  YQVEGDLRRTV---AMNIKRLMDLGCYRGLRHRRGLPVR 99
           Y VEGD+R TV   A NI  L  +G    LR R G  V 
Sbjct: 93  YGVEGDVRYTVPVLADNIHSLHGIG--GSLRIRGGYEVS 129


>gi|255764496|ref|YP_003065012.2| excinuclease ABC subunit C [Candidatus Liberibacter asiaticus str.
           psy62]
          Length = 616

 Score = 22.3 bits (46), Expect = 3.0,   Method: Composition-based stats.
 Identities = 9/23 (39%), Positives = 15/23 (65%)

Query: 30  SQDICNKLAIPPERRVHQLVESE 52
           +QD C  + +  ERR  QL+++E
Sbjct: 424 TQDDCAMMRMVLERRFSQLIKNE 446


>gi|254780143|ref|YP_003064556.1| DNA-directed RNA polymerase subunit beta [Candidatus Liberibacter
           asiaticus str. psy62]
          Length = 1386

 Score = 22.3 bits (46), Expect = 3.0,   Method: Composition-based stats.
 Identities = 9/18 (50%), Positives = 11/18 (61%)

Query: 105 TNARTRKKFGKGGVARKR 122
           T+ R     G+GGVAR R
Sbjct: 536 THTRRLSALGQGGVARAR 553


>gi|254780351|ref|YP_003064764.1| MarR family transcriptional regulator [Candidatus Liberibacter
           asiaticus str. psy62]
          Length = 171

 Score = 21.9 bits (45), Expect = 4.0,   Method: Compositional matrix adjust.
 Identities = 10/24 (41%), Positives = 15/24 (62%)

Query: 70  LRRTVAMNIKRLMDLGCYRGLRHR 93
           L   V+ N+K+L+DLG  +  R R
Sbjct: 83  LGSNVSYNLKKLIDLGFIKHQRSR 106


>gi|254781100|ref|YP_003065513.1| phospho-N-acetylmuramoyl-pentapeptide-transferase [Candidatus
           Liberibacter asiaticus str. psy62]
          Length = 366

 Score = 21.6 bits (44), Expect = 4.2,   Method: Compositional matrix adjust.
 Identities = 12/33 (36%), Positives = 15/33 (45%)

Query: 86  CYRGLRHRRGLPVRGQRTHTNARTRKKFGKGGV 118
           C R L+  RG PVR      +AR       GG+
Sbjct: 46  CLRSLQEFRGQPVRVPNLPIHARKIDTPTMGGI 78


  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
   0.326    0.141    0.416 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 68,256
Number of Sequences: 1233
Number of extensions: 2229
Number of successful extensions: 8
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 2
Number of HSP's gapped (non-prelim): 7
length of query: 122
length of database: 328,796
effective HSP length: 64
effective length of query: 58
effective length of database: 249,884
effective search space: 14493272
effective search space used: 14493272
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 33 (17.3 bits)