RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780840|ref|YP_003065253.1| hypothetical protein
CLIBASIA_03675 [Candidatus Liberibacter asiaticus str. psy62]
         (52 letters)



>gnl|CDD|180941 PRK07352, PRK07352, F0F1 ATP synthase subunit B; Validated.
          Length = 174

 Score = 29.2 bits (66), Expect = 0.22
 Identities = 12/38 (31%), Positives = 22/38 (57%), Gaps = 4/38 (10%)

Query: 15 GIGLFLWDVLDGRVFQFYRVVVRIALIFEYGRRFIGNI 52
          G GL L ++L+  +     + + I L++ +GR F+G I
Sbjct: 14 GFGLNL-NLLETNLIN---LAIVIGLLYYFGRGFLGKI 47


>gnl|CDD|185461 PTZ00125, PTZ00125, ornithine aminotransferase-like protein;
          Provisional.
          Length = 400

 Score = 24.6 bits (54), Expect = 5.3
 Identities = 7/20 (35%), Positives = 12/20 (60%)

Query: 12 ISHGIGLFLWDVLDGRVFQF 31
          +  G G+F+WDV   + + F
Sbjct: 17 LKRGKGVFVWDVEGKKYYDF 36


>gnl|CDD|162251 TIGR01209, TIGR01209, RNA ligase, Pab1020 family.  Members of this
           family are found, so far, in a single copy per genome
           and largely in thermophiles, of which only Aquifex
           aeolicus is bacterial rather than archaeal. PSI-BLAST
           converges after a single iteration to the whole of this
           family and reveals no convincing similarity to any other
           protein. The member protein Pab1020 has been
           characterized as an RNA ligase with circularization
           activity.
          Length = 374

 Score = 24.7 bits (54), Expect = 5.4
 Identities = 11/42 (26%), Positives = 23/42 (54%)

Query: 4   YPFYFWGKISHGIGLFLWDVLDGRVFQFYRVVVRIALIFEYG 45
           Y   ++ ++   +G FL+D+ +G+  +   V  R+ L  +YG
Sbjct: 146 YTPEYYPEVKEDLGFFLFDIREGKTNRSLPVEERLELAEKYG 187


>gnl|CDD|180471 PRK06209, PRK06209, glutamate-1-semialdehyde 2,1-aminomutase;
          Provisional.
          Length = 431

 Score = 24.2 bits (53), Expect = 8.0
 Identities = 12/29 (41%), Positives = 14/29 (48%), Gaps = 1/29 (3%)

Query: 4  YPFYFWGKISHGIGLFLWDVLDGRVFQFY 32
          YP    G I  G G  +WDV DG  +  Y
Sbjct: 26 YPELAPGFIQRGSGAHVWDV-DGNEYIEY 53


>gnl|CDD|150861 pfam10255, Paf67, RNA polymerase I-associated factor PAF67.  RNA
          polymerase I is a multisubunit enzyme and its
          transcription competence is dependent on the presence
          of PAF67. This family of proteins is conserved from
          worms to humans.
          Length = 402

 Score = 24.2 bits (53), Expect = 8.3
 Identities = 7/14 (50%), Positives = 11/14 (78%)

Query: 19 FLWDVLDGRVFQFY 32
          +LWD++D  V+QF 
Sbjct: 32 WLWDIIDEFVYQFQ 45


  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
   0.339    0.159    0.552 

Gapped
Lambda     K      H
   0.267   0.0754    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 974,755
Number of extensions: 45044
Number of successful extensions: 142
Number of sequences better than 10.0: 1
Number of HSP's gapped: 142
Number of HSP's successfully gapped: 12
Length of query: 52
Length of database: 5,994,473
Length adjustment: 25
Effective length of query: 27
Effective length of database: 5,454,273
Effective search space: 147265371
Effective search space used: 147265371
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 39 (21.7 bits)
S2: 50 (23.0 bits)