RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254781191|ref|YP_003065604.1| hypothetical protein
CLIBASIA_05490 [Candidatus Liberibacter asiaticus str. psy62]
         (165 letters)



>gnl|CDD|33471 COG3673, COG3673, Uncharacterized conserved protein [Function
           unknown].
          Length = 423

 Score = 30.4 bits (68), Expect = 0.24
 Identities = 11/57 (19%), Positives = 22/57 (38%), Gaps = 1/57 (1%)

Query: 16  GALAVKALSTFSEHMQILSNRQLSQVMNVLPLIETWMKGVKEEALNVLSS-GEDLPN 71
           GA + + L+    H+ +LS +  +++          + G+  E   V     E   N
Sbjct: 132 GAFSARVLAGMIRHVGLLSRKHAARIDEAWAHYRQRLSGLDPEGQKVTRFRAEYFRN 188


>gnl|CDD|58116 cd03767, SR_Res_par, Serine recombinase (SR) family, Partitioning
           (par)-Resolvase subfamily, catalytic domain; Serine
           recombinases catalyze site-specific recombination of DNA
           molecules by a concerted, four-strand cleavage and
           rejoining mechanism which involves a transient
           phosphoserine linkage between DNA and the enzyme. They
           are functionally versatile and include resolvases,
           invertases, integrases, and transposases. This subgroup
           is composed of proteins similar to the E. coli resolvase
           found in the par region of the RP4 plasmid, which
           encodes a highly efficient partitioning system. This
           protein is part of a complex stabilization system
           involved in the resolution of plasmid dimers during cell
           division. Similar to Tn3 and other resolvases, members
           of this family may contain a C-terminal DNA binding
           domain..
          Length = 146

 Score = 26.8 bits (59), Expect = 2.9
 Identities = 18/60 (30%), Positives = 26/60 (43%), Gaps = 6/60 (10%)

Query: 94  LMRELGDEAYNRTLLSPTETEQLVKRKKVSETTWEQLQKFITRKDGKQVIVPCDLPVNHL 153
           L R L D      LL     EQ+ +  ++    WE L+  I  K  +  +V  DLP +H 
Sbjct: 50  LFRLLDDAQSGDVLL----VEQIDRLSRLPLDDWETLKASIAAKGLR--VVSLDLPTSHS 103


>gnl|CDD|153346 cd07662, BAR_SNX6, The Bin/Amphiphysin/Rvs (BAR) domain of Sorting
           Nexin 6.  BAR domains are dimerization, lipid binding
           and curvature sensing modules found in many different
           proteins with diverse functions. Sorting nexins (SNXs)
           are Phox homology (PX) domain containing proteins that
           are involved in regulating membrane traffic and protein
           sorting in the endosomal system. SNXs differ from each
           other in their lipid-binding specificity, subcellular
           localization and specific function in the endocytic
           pathway. A subset of SNXs also contain BAR domains. The
           PX-BAR structural unit determines the specific membrane
           targeting of SNXs. SNX6 forms a stable complex with SNX1
           and may be a component of the retromer complex, a
           membrane coat multimeric complex required for endosomal
           retrieval of lysosomal hydrolase receptors to the Golgi,
           acting as a mammalian equivalent of yeast Vsp17p. It
           interacts with the receptor serine/threonine kinases
           from the transforming growth factor-beta family. It also
           plays roles in enhancing the degradation of EGFR and in
           regulating the activity of Na,K-ATPase through its
           interaction with Translationally Controlled Tumor
           Protein (TCTP). BAR domains form dimers that bind to
           membranes, induce membrane bending and curvature, and
           may also be involved in protein-protein interactions.
          Length = 218

 Score = 26.2 bits (57), Expect = 4.4
 Identities = 19/61 (31%), Positives = 33/61 (54%), Gaps = 5/61 (8%)

Query: 102 AYNRTLLSPTETEQLV--KRKKVSETTWEQLQKFITRKDG---KQVIVPCDLPVNHLKAN 156
           A N+ +L    T+QL   K +K+SE+  ++L  F TR+     K ++   +L + H K N
Sbjct: 147 AKNKDVLQAETTQQLCCQKFEKISESAKQELIDFKTRRVAAFRKNLVELAELELKHAKGN 206

Query: 157 I 157
           +
Sbjct: 207 L 207


>gnl|CDD|114021 pfam05272, VirE, Virulence-associated protein E.  This family
           contains several bacterial virulence-associated protein
           E like proteins.
          Length = 198

 Score = 26.2 bits (58), Expect = 4.8
 Identities = 12/54 (22%), Positives = 22/54 (40%), Gaps = 11/54 (20%)

Query: 96  RELGDEAYNRTLLSPTETEQLVKRKKV-----------SETTWEQLQKFITRKD 138
           ++LG E +  ++ S    +   K + V           S+   E ++ FITR  
Sbjct: 70  KKLGGEWFTDSIRSFEGKDAYEKLQGVWIVEIAELDGFSKAEVEAIKAFITRTV 123


>gnl|CDD|143183 cd04982, IgV_TCR_gamma, Immunoglobulin (Ig) variable (V) domain of
           T-cell receptor (TCR) gamma chain.  IgV_TCR_gamma:
           immunoglobulin (Ig) variable (V) domain of the gamma
           chain of gamma/delta T-cell receptors (TCRs). TCRs
           mediate antigen recognition by T lymphocytes, and are
           heterodimers consisting of alpha and beta chains or
           gamma and delta chains.  Each chain contains a variable
           (V) and a constant (C) region. The majority of T cells
           contain alpha/beta TCRs but a small subset contain
           gamma/delta TCRs. Alpha/beta TCRs recognize antigen as
           peptide fragments presented by major histocompatibility
           complex (MHC) molecules. Gamma/delta TCRs recognize
           intact protein antigens; they recognize protein antigens
           directly and without antigen processing, and MHC
           independently of the bound peptide. Gamma/delta T cells
           can also be stimulated by non-peptide antigens such as
           small phosphate- or amine-containing compounds. The
           variable domain of gamma/delta TCRs is responsible for
           antigen recognition and is located at the N-terminus of
           the receptor.
          Length = 116

 Score = 26.2 bits (58), Expect = 5.0
 Identities = 9/21 (42%), Positives = 13/21 (61%)

Query: 128 EQLQKFITRKDGKQVIVPCDL 148
           EQ Q  ITR++ K V + C +
Sbjct: 2   EQPQLSITREESKSVTISCKV 22


>gnl|CDD|39762 KOG4562, KOG4562, KOG4562, Uncharacterized conserved protein
           (tumor-rejection antigen MAGE in humans) [Function
           unknown].
          Length = 329

 Score = 25.8 bits (56), Expect = 6.0
 Identities = 28/118 (23%), Positives = 50/118 (42%), Gaps = 14/118 (11%)

Query: 41  VMNVLPLIETWMKG--VKEEAL-NVLSSGEDLPNYELKEGRKGSRTYNNDNQVEQLLMRE 97
           +M +L +I  +MKG    EE +  VL          + +GR+ S        + Q L++E
Sbjct: 206 LMIILGII--FMKGNCAPEEEIWEVLRR------LGVYDGREHSIFGEPRKLLTQDLVQE 257

Query: 98  LGDEAYNRTLLSPTETEQLVKRKKVSETTWEQLQKFITRKDGKQVIVPCDLPVNHLKA 155
              E        P   E L   +  +ET+  ++ +F+ + +GK    P   P  + +A
Sbjct: 258 KYLEYRQVPDSDPPRYEFLWGPRAHAETSKMKVLEFVAKVNGK---DPISWPSLYEEA 312


>gnl|CDD|132868 cd07230, Pat_TGL4-5_like, Triacylglycerol lipase 4 and 5.  TGL4 and
           TGL5 are triacylglycerol lipases that are involved in
           triacylglycerol mobilization and degradation; they are
           found in lipid particles. Tgl4 is a functional ortholog
           of mammalian adipose TG lipase (ATGL) and is
           phosphorylated and activated by cyclin-dependent kinase
           1 (Cdk1/Cdc28). TGL4 is 30% homologus to TGL3, whereas
           TGL5 is 26% homologus to TGL3. This family includes TGL4
           (STC1) and TGL5 (STC2) from Saccharomyces cerevisiae.
          Length = 421

 Score = 25.6 bits (57), Expect = 6.9
 Identities = 12/25 (48%), Positives = 13/25 (52%), Gaps = 5/25 (20%)

Query: 87  DNQVEQLLMRE-LGD----EAYNRT 106
           D      +MR  LGD    EAYNRT
Sbjct: 165 DISHLTRVMRGFLGDLTFQEAYNRT 189


>gnl|CDD|35433 KOG0212, KOG0212, KOG0212, Uncharacterized conserved protein
           [Function unknown].
          Length = 675

 Score = 25.3 bits (55), Expect = 7.4
 Identities = 13/45 (28%), Positives = 24/45 (53%), Gaps = 1/45 (2%)

Query: 90  VEQLLMRELGDEAYNRTLLSPTETEQLVKRKKVSETTWEQLQKFI 134
           +   + R L D+ Y +   +  E E+LVK   V+   ++Q++K I
Sbjct: 1   MSASIARGLTDKLYEKRKAAALELEKLVK-DLVNNNDYDQIRKVI 44


  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
   0.315    0.130    0.371 

Gapped
Lambda     K      H
   0.267   0.0719    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 1,833,644
Number of extensions: 84374
Number of successful extensions: 217
Number of sequences better than 10.0: 1
Number of HSP's gapped: 217
Number of HSP's successfully gapped: 15
Length of query: 165
Length of database: 6,263,737
Length adjustment: 87
Effective length of query: 78
Effective length of database: 4,383,754
Effective search space: 341932812
Effective search space used: 341932812
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 (21.6 bits)
S2: 54 (24.6 bits)