RPS-BLAST 2.2.22 [Sep-27-2009]

Database: CddA 
           21,609 sequences; 6,263,737 total letters

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

Query= gi|254780990|ref|YP_003065403.1| hypothetical protein
CLIBASIA_04455 [Candidatus Liberibacter asiaticus str. psy62]
         (66 letters)



>gnl|CDD|37440 KOG2229, KOG2229, KOG2229, Protein required for actin cytoskeleton
           organization and cell cycle progression [Cell cycle
           control, cell division, chromosome partitioning,
           Cytoskeleton].
          Length = 616

 Score = 24.9 bits (54), Expect = 5.0
 Identities = 8/42 (19%), Positives = 23/42 (54%), Gaps = 1/42 (2%)

Query: 9   IDDLFEEDLFQYDANKSELVLISSLWSIDFF-EINCALLRRR 49
           + +   +DL  Y  +K ++V++++   I  + E+   +L ++
Sbjct: 350 MTEELLQDLASYKTSKKKVVMMAARSLIALYREVLPDMLIKK 391


>gnl|CDD|30502 COG0153, GalK, Galactokinase [Carbohydrate transport and
           metabolism].
          Length = 390

 Score = 24.5 bits (53), Expect = 7.8
 Identities = 9/32 (28%), Positives = 16/32 (50%)

Query: 16  DLFQYDANKSELVLISSLWSIDFFEINCALLR 47
            LF    +K+EL  I+ +    F  +NC ++ 
Sbjct: 146 RLFNLPLDKAELAKIAQVAENQFVGVNCGIMD 177


>gnl|CDD|185751 cd09238, V_Alix_like_1, Protein-interacting V-domain of an
           uncharacterized family of the V_Alix_like superfamily.
           This domain family is comprised of uncharacterized plant
           proteins. It belongs to the V_Alix_like superfamily
           which includes the V-shaped (V) domains of Bro1 and
           Rim20 (also known as PalA) from Saccharomyces
           cerevisiae, mammalian Alix (apoptosis-linked gene-2
           interacting protein X), (His-Domain) type N23 protein
           tyrosine phosphatase (HD-PTP, also known as PTPN23), and
           related domains. Alix, also known as apoptosis-linked
           gene-2 interacting protein 1 (AIP1), participates in
           membrane remodeling processes during the budding of
           enveloped viruses, vesicle budding inside late endosomal
           multivesicular bodies (MVBs), and the abscission
           reactions of mammalian cell division. It also functions
           in apoptosis. HD-PTP functions in cell migration and
           endosomal trafficking, Bro1 in endosomal trafficking,
           and Rim20 in the response to the external pH via the
           Rim101 pathway. Alix, HD-PTP, Bro1, and Rim20 all
           interact with the ESCRT (Endosomal Sorting Complexes
           Required for Transport) system. The mammalian Alix
           V-domain (belonging to a different family) contains a
           binding site, partially conserved in the superfamily,
           for the retroviral late assembly (L) domain YPXnL motif.
           The Alix V-domain is also a dimerization domain. In
           addition to this V-domain, members of the
           V_Alix_Rim20_Bro1_like superfamily also have an
           N-terminal Bro1-like domain, which binds components of
           the ESCRT-III complex. The Bro1-like domains of Alix and
           HD-PTP can also bind to human immunodeficiency virus
           type 1 (HIV-1) nucleocapsid. Many members of the
           V_Alix_like superfamily also have a proline-rich region
           (PRR).
          Length = 339

 Score = 24.0 bits (52), Expect = 8.5
 Identities = 7/21 (33%), Positives = 13/21 (61%)

Query: 7   DGIDDLFEEDLFQYDANKSEL 27
              D LF+E+L +YD+ +  +
Sbjct: 236 GSYDALFKEELKKYDSVREAV 256


  Database: CddA
    Posted date:  Feb 4, 2011  9:38 PM
  Number of letters in database: 6,263,737
  Number of sequences in database:  21,609
  
Lambda     K      H
   0.326    0.144    0.442 

Gapped
Lambda     K      H
   0.267   0.0713    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 884,923
Number of extensions: 35552
Number of successful extensions: 101
Number of sequences better than 10.0: 1
Number of HSP's gapped: 101
Number of HSP's successfully gapped: 5
Length of query: 66
Length of database: 6,263,737
Length adjustment: 37
Effective length of query: 29
Effective length of database: 5,464,204
Effective search space: 158461916
Effective search space used: 158461916
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 51 (23.5 bits)