RPS-BLAST 2.2.22 [Sep-27-2009]

Database: CddB 
           21,608 sequences; 5,994,473 total letters

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

Query= gi|254780549|ref|YP_003064962.1| signal peptide protein
[Candidatus Liberibacter asiaticus str. psy62]
         (271 letters)



>gnl|CDD|165319 PHA03020, PHA03020, hypothetical protein; Provisional.
          Length = 352

 Score = 28.0 bits (62), Expect = 2.4
 Identities = 15/56 (26%), Positives = 26/56 (46%), Gaps = 3/56 (5%)

Query: 21  LYFNFNVQLLVPISRREMLSVDNIYNEDYHSSKYKKIEEPVVQFKGSSQENLVRDF 76
           LYFNF++   V +S +  L   +  N      +   I + + QFK  ++ N +  F
Sbjct: 194 LYFNFDINTFVILSCKTKLYTADGINS---IIESIYICDALAQFKEKTEYNFIEYF 246


>gnl|CDD|129856 TIGR00774, NhaB, Na+/H+ antiporter NhaB.  These proteins are
           members of the NhaB Na+:H+ Antiporter (NhaB) Family (TC
           2.A.34). The only characterised member of this family is
           the Escherichia coli NhaB protein, which has 12 GES
           predicted transmembrane regions, and catalyses
           sodium/proton exchange. Unlike NhaA this activity is not
           pH dependent.
          Length = 515

 Score = 27.5 bits (61), Expect = 3.7
 Identities = 12/38 (31%), Positives = 20/38 (52%), Gaps = 1/38 (2%)

Query: 156 PDK-KELLSKVEKSSRKRIPSQDAIAIVRNRVIANWNI 192
           PD  +++L   ++  RK   +QD I +    +IA W I
Sbjct: 275 PDNVRQILVDFDREERKTRTNQDKIKLWVQALIAVWLI 312


>gnl|CDD|177389 PHA02555, 14, neck protein; Provisional.
          Length = 216

 Score = 27.3 bits (61), Expect = 3.8
 Identities = 16/51 (31%), Positives = 24/51 (47%), Gaps = 5/51 (9%)

Query: 35 RREMLSVDNIYNEDYHSSKYKK---IEEPVVQFKG-SSQENLVRDFSVQEN 81
           RE ++ D I+ ED   SK+ K   I   +  F+G   Q +    F +Q N
Sbjct: 38 PREYVNPDLIFGED-VQSKFTKAWKIAAYLNSFEGYEGQGDFFSKFGMQIN 87


>gnl|CDD|183115 PRK11394, PRK11394, 23S rRNA pseudouridine synthase E; Provisional.
          Length = 217

 Score = 26.6 bits (58), Expect = 6.6
 Identities = 30/132 (22%), Positives = 55/132 (41%), Gaps = 15/132 (11%)

Query: 73  VRDFSVQENGDRFSDQTKTHATENETKRSSSSKGEQALKESALLRMP--VSPYDKQKISK 130
           +R F + EN  + +           ++RS+  K E       L   P  V P    +  +
Sbjct: 1   MRQFIISENTMQKTSFRNHQVKRFSSQRSTRRKPENQPTRVILFNKPYDVLPQFTDEAGR 60

Query: 131 ATNKE-QDLQGISFAEKKSIDT--VVVRPDKKELLSKVEKSSRKR----------IPSQD 177
            T KE   +QG+  A +   D+  ++V  +   L +++ +  ++           IP+QD
Sbjct: 61  KTLKEFIPVQGVYAAGRLDRDSEGLLVLTNNGALQARLTQPGKRTGKIYYVQVEGIPTQD 120

Query: 178 AIAIVRNRVIAN 189
           A+  +RN V  N
Sbjct: 121 ALEALRNGVTLN 132


>gnl|CDD|179068 PRK00566, PRK00566, DNA-directed RNA polymerase subunit beta';
           Provisional.
          Length = 1156

 Score = 26.2 bits (59), Expect = 9.6
 Identities = 12/28 (42%), Positives = 18/28 (64%), Gaps = 4/28 (14%)

Query: 140 GISFAEKKSIDTVVVRPDKKELLSKVEK 167
           GIS      ID +V+ P+KKE++ + EK
Sbjct: 614 GISI----GIDDIVIPPEKKEIIEEAEK 637


  Database: CddB
    Posted date:  Feb 4, 2011  9:54 PM
  Number of letters in database: 5,994,473
  Number of sequences in database:  21,608
  
Lambda     K      H
   0.317    0.131    0.359 

Gapped
Lambda     K      H
   0.267   0.0623    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 4,231,830
Number of extensions: 259503
Number of successful extensions: 521
Number of sequences better than 10.0: 1
Number of HSP's gapped: 521
Number of HSP's successfully gapped: 17
Length of query: 271
Length of database: 5,994,473
Length adjustment: 92
Effective length of query: 179
Effective length of database: 4,006,537
Effective search space: 717170123
Effective search space used: 717170123
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 56 (25.6 bits)