RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254781180|ref|YP_003065593.1| hypothetical protein
CLIBASIA_05435 [Candidatus Liberibacter asiaticus str. psy62]
         (71 letters)



>gnl|CDD|152532 pfam12097, DUF3573, Protein of unknown function (DUF3573).  This
           family of proteins is functionally uncharacterized. This
           protein is found in bacteria. Proteins in this family
           are typically between 372 to 530 amino acids in length.
          Length = 375

 Score = 26.8 bits (59), Expect = 1.3
 Identities = 12/28 (42%), Positives = 17/28 (60%)

Query: 14  VNNEQLTEIEEPQKVTVDQINNAIASLI 41
           VN+  LT   E + +++ Q NN IAS I
Sbjct: 80  VNDSTLTGNGETKVLSLGQRNNNIASDI 107


>gnl|CDD|180871 PRK07191, flgK, flagellar hook-associated protein FlgK; Validated.
          Length = 456

 Score = 25.6 bits (56), Expect = 3.3
 Identities = 9/35 (25%), Positives = 16/35 (45%)

Query: 6   QSTNSCDLVNNEQLTEIEEPQKVTVDQINNAIASL 40
              N+ +    +Q   I + +  TV QIN+   S+
Sbjct: 141 LRFNNVNNFIVQQKKSIGQQRDATVKQINSLTRSI 175


>gnl|CDD|183571 PRK12522, PRK12522, RNA polymerase sigma factor; Provisional.
          Length = 173

 Score = 24.4 bits (53), Expect = 5.7
 Identities = 12/42 (28%), Positives = 19/42 (45%), Gaps = 2/42 (4%)

Query: 12  DLVNNEQLTEIEEPQKVTVDQ--INNAIASLIPEERRDLQDR 51
           DL + E   EIE    V + +  I    A +I E  + L ++
Sbjct: 82  DLFHKEDGGEIEFADDVNISEEFIQKVEAEMIREVIQLLNEK 123


>gnl|CDD|178411 PLN02815, PLN02815, L-aspartate oxidase.
          Length = 594

 Score = 24.7 bits (54), Expect = 5.8
 Identities = 10/36 (27%), Positives = 16/36 (44%), Gaps = 5/36 (13%)

Query: 31  DQINNAIASLIPEERRDLQDRMAKY-----STRKLK 61
           D + + I       R++LQ  M  Y     ST +L+
Sbjct: 457 DSVMDEILEWTAVVRKELQRIMWNYVGIVRSTERLE 492


>gnl|CDD|149702 pfam08726, efhand_Ca_insen, Ca2+ insensitive EF hand.  EF hands
          are helix-loop-helix binding motifs involved in the
          regulation of many cellular processes. EF hands usually
          bind to Ca2+ ions which causes a major conformational
          change that allows the protein to interact with its
          designated targets. This domain corresponds to an EF
          hand which has partially or entirely lost its
          calcium-binding properties. The calcium insensitive EF
          hand is still able to mediate protein-protein
          recognition.
          Length = 69

 Score = 24.5 bits (54), Expect = 6.8
 Identities = 7/19 (36%), Positives = 9/19 (47%)

Query: 38 ASLIPEERRDLQDRMAKYS 56
           +L PE+      RM  YS
Sbjct: 29 RALTPEQAEYCIARMPPYS 47


>gnl|CDD|183652 PRK12652, PRK12652, putative monovalent cation/H+ antiporter
           subunit E; Reviewed.
          Length = 357

 Score = 24.3 bits (53), Expect = 7.9
 Identities = 15/40 (37%), Positives = 19/40 (47%), Gaps = 6/40 (15%)

Query: 13  LVNNEQLTEIEEPQKVTVDQINNA--IASLIPEERRDLQD 50
           L N+  LT    P  +TVD  +    + SL P  R DL D
Sbjct: 276 LANSITLT----PGTLTVDVDDRHLLVHSLTPSAREDLFD 311


>gnl|CDD|130268 TIGR01201, HU_rel, DNA-binding protein, histone-like, putative.
           This model describes a set of proteins related to but
           longer than DNA-binding protein HU. Its distinctive
           domain architecture compared to HU and related
           histone-like DNA-binding proteins justifies the
           designation as superfamily. Members include, so far, one
           from Bacteroides fragilis, a gut bacterium, and ten from
           Porphyromonas gingivalis, an oral anaerobe.
          Length = 145

 Score = 24.2 bits (53), Expect = 8.5
 Identities = 9/26 (34%), Positives = 15/26 (57%)

Query: 21  EIEEPQKVTVDQINNAIASLIPEERR 46
            +EE ++V+ +Q+N A     PE R 
Sbjct: 90  GVEEAEEVSAEQVNKARVLFTPEMRL 115


>gnl|CDD|147884 pfam05970, DUF889, PIF1 helicase.  The PIF1 helicase inhibits
           telomerase activity and is cell cycle regulated.
          Length = 418

 Score = 23.8 bits (52), Expect = 9.7
 Identities = 8/23 (34%), Positives = 13/23 (56%)

Query: 25  PQKVTVDQINNAIASLIPEERRD 47
           P    VD+IN+ I   +P E ++
Sbjct: 243 PTNEDVDEINDYILDQLPGEEKE 265


  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
   0.314    0.129    0.353 

Gapped
Lambda     K      H
   0.267   0.0697    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 1,100,304
Number of extensions: 53824
Number of successful extensions: 137
Number of sequences better than 10.0: 1
Number of HSP's gapped: 137
Number of HSP's successfully gapped: 20
Length of query: 71
Length of database: 5,994,473
Length adjustment: 42
Effective length of query: 29
Effective length of database: 5,086,937
Effective search space: 147521173
Effective search space used: 147521173
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 50 (23.1 bits)