RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254781106|ref|YP_003065519.1| cell division protein MraZ
[Candidatus Liberibacter asiaticus str. psy62]
         (145 letters)



>gnl|CDD|32184 COG2001, COG2001, Uncharacterized protein conserved in bacteria
           [Function unknown].
          Length = 146

 Score =  113 bits (284), Expect = 2e-26
 Identities = 40/135 (29%), Positives = 66/135 (48%), Gaps = 2/135 (1%)

Query: 3   RFLSNVTQKIDSKGRVSVPFVFRTILAQRCITDLYCFQDFFFPAISVGNSDLLEYFEQKI 62
            FL      +DSKGR+SVP  FR  L +     L   +      + V      E  E+K+
Sbjct: 1   MFLGAYEHNLDSKGRLSVPAKFRAALGENA-AGLVVTRGIDHC-LEVYPLAEWERLEEKL 58

Query: 63  AEYNPFSIQANQLSLLVHGGGIFLKMDSEGRILMTDFIRVFTGIENEVTFVGRGNYFQLW 122
           +       +A     L+ GG + +++D  GRIL+   +R + G+E EV  VG+G+ F++W
Sbjct: 59  SALPSTDPEARAFQRLLFGGAVEVELDGAGRILIPQNLREYAGLEKEVVLVGQGDRFEIW 118

Query: 123 NPQTFRKLQEESRNE 137
           + Q +   Q E+ + 
Sbjct: 119 DKQAWEAYQAEAEDA 133


>gnl|CDD|111290 pfam02381, MraZ, MraZ protein.  This small 70 amino acid domain is
           found duplicated in a family of bacterial proteins.
           These proteins may be DNA-binding transcription factors
           (Pers. comm. A Andreeva & A Murzin).
          Length = 72

 Score = 41.9 bits (99), Expect = 6e-05
 Identities = 15/57 (26%), Positives = 33/57 (57%)

Query: 81  GGGIFLKMDSEGRILMTDFIRVFTGIENEVTFVGRGNYFQLWNPQTFRKLQEESRNE 137
            G   +++DS+GRI++   +R + G+E E   +G+ N  ++W    + + +E++  E
Sbjct: 3   AGATEVELDSKGRIILPAKLREYAGLEKECVTIGQDNCLEIWPRAEWEQYEEKANEE 59



 Score = 25.7 bits (57), Expect = 4.8
 Identities = 8/22 (36%), Positives = 12/22 (54%)

Query: 4  FLSNVTQKIDSKGRVSVPFVFR 25
          F      ++DSKGR+ +P   R
Sbjct: 2  FAGATEVELDSKGRIILPAKLR 23


>gnl|CDD|36609 KOG1395, KOG1395, KOG1395, Tryptophan synthase beta chain [Amino
           acid transport and metabolism].
          Length = 477

 Score = 27.7 bits (61), Expect = 1.2
 Identities = 13/64 (20%), Positives = 29/64 (45%), Gaps = 6/64 (9%)

Query: 80  HGGGIFLKMDSEGRILMTDFIRV---FTGIENEVTFV---GRGNYFQLWNPQTFRKLQEE 133
           HG   ++  D++G+I     I     + G+  E++ +   GR  +  + + +     ++ 
Sbjct: 348 HGVTTYVLQDTDGQIFDPHSISAGLDYPGVGPELSHLKETGRAEFISITDAECLEGFKQL 407

Query: 134 SRNE 137
           SR E
Sbjct: 408 SRLE 411


>gnl|CDD|35812 KOG0592, KOG0592, KOG0592, 3-phosphoinositide-dependent protein
           kinase (PDK1) [Signal transduction mechanisms].
          Length = 604

 Score = 27.3 bits (60), Expect = 1.7
 Identities = 24/84 (28%), Positives = 35/84 (41%), Gaps = 18/84 (21%)

Query: 33  ITDLYC-FQD---FFFPAISVGNSDLLEYFEQKIAEYNPFSIQ---ANQLSLL--VHGGG 83
           I  LY  FQD    +F      N DLL+   +K   ++    +   A  L  L  +H  G
Sbjct: 136 IVKLYFTFQDEESLYFVLEYAPNGDLLDLI-KKYGSFDETCARFYAAEILDALEYLHSNG 194

Query: 84  IF--------LKMDSEGRILMTDF 99
           I         + +D +G I +TDF
Sbjct: 195 IIHRDLKPENILLDKDGHIKITDF 218


>gnl|CDD|173694 cd05603, STKc_SGK2, Catalytic domain of the Protein
           Serine/Threonine Kinase, Serum- and
           Glucocorticoid-induced Kinase 2.  Serine/Threonine
           Kinases (STKs), Serum- and Glucocorticoid-induced Kinase
           (SGK) subfamily, SGK2 isoform, catalytic (c) domain.
           STKs catalyze the transfer of the gamma-phosphoryl group
           from ATP to serine/threonine residues on protein
           substrates. The SGK subfamily is part of a larger
           superfamily that includes the catalytic domains of other
           protein STKs, protein tyrosine kinases, RIO kinases,
           aminoglycoside phosphotransferase, choline kinase, and
           phosphoinositide 3-kinase. There are three isoforms of
           SGK, named SGK1, SGK2, and SGK3. SGK2 shows a more
           restricted distribution that SGK1 and is most abundantly
           expressed in epithelial tissues including kidney, liver,
           pancreas, and the choroid plexus of the brain. In vitro
           cellular assays show that SGK2 can stimulate the
           activity of ion channels, the glutamate transporter
           EEAT4, and the glutamate receptors, GluR6 and GLUR1.
          Length = 321

 Score = 26.5 bits (58), Expect = 2.7
 Identities = 16/45 (35%), Positives = 23/45 (51%), Gaps = 6/45 (13%)

Query: 88  MDSEGRILMTDFIRVFTGIENE---VTFVGRGNYFQLWNPQTFRK 129
           +DS+G +++TDF     G+E E    TF G   Y     P+  RK
Sbjct: 129 LDSQGHVVLTDFGLCKEGVEPEETTSTFCGTPEYLA---PEVLRK 170


>gnl|CDD|133074 cd03863, M14_CPD_II, The second carboxypeptidase (CP)-like domain
           of  Carboxypeptidase D (CPD; EC 3.4.17.22), domain II.
           CPD differs from all other metallocarboxypeptidases in
           that it contains multiple CP-like domains. CPD belongs
           to the N/E-like subfamily of the M14 family of
           metallocarboxypeptidases (MCPs).The M14 family are
           zinc-binding CPs which hydrolyze single, C-terminal
           amino acids from polypeptide chains, and have a
           recognition site for the free C-terminal carboxyl group,
           which is a key determinant of specificity. CPD is a
           single-chain protein containing a signal peptide, three
           tandem repeats of CP-like domains separated by short
           bridge regions, followed by a transmembrane domain, and
           a C-terminal cytosolic tail. The first two CP-like
           domains of CPD contain all of the essential active site
           and substrate-binding residues, while the third CP-like
           domain lacks critical residues necessary for enzymatic
           activity and is inactive towards standard CP substrates.
           Domain I is optimally active at pH 6.3-7.5 and prefers
           substrates with C-terminal Arg, whereas domain II is
           active at pH 5.0-6.5 and prefers substrates with
           C-terminal Lys. CPD functions in the processing of
           proteins that transit the secretory pathway, and is
           present in all vertebrates as well as Drosophila. It is
           broadly distributed in all tissue types. Within cells,
           CPD is present in the trans-Golgi network and immature
           secretory vesicles, but is excluded from mature
           vesicles. It is thought to play a role in the processing
           of proteins that are initially processed by furin or
           related endopeptidases present in the trans-Golgi
           network, such as growth factors and receptors. CPD is
           implicated in the pathogenesis of lupus erythematosus
           (LE), it is regulated by TGF-beta in various cell types
           of murine and human origin and is significantly
           down-regulated in CD14 positive cells isolated from
           patients with LE. As down -regulation of CPD leads to
           down-modulation of TGF-beta, CPD may have a role in a
           positive feedback loop.
          Length = 375

 Score = 26.5 bits (58), Expect = 3.0
 Identities = 17/64 (26%), Positives = 31/64 (48%), Gaps = 7/64 (10%)

Query: 71  QANQLSLLVHGGGI------FLKMDSEGRILMTDFIRVFTGIENEVTFVGRGNYFQLWNP 124
           + N+ SLL     +      F+   ++GR ++   I V   I + VT    G+Y++L  P
Sbjct: 282 EQNRRSLLQFMKQVHRGVRGFVLDATDGRGILNATISV-ADINHPVTTYKDGDYWRLLVP 340

Query: 125 QTFR 128
            T++
Sbjct: 341 GTYK 344


>gnl|CDD|147211 pfam04928, PAP_central, Poly(A) polymerase central domain.  The
           central domain of Poly(A) polymerase shares structural
           similarity with the allosteric activity domain of
           ribonucleotide reductase R1, which comprises a
           four-helix bundle and a three-stranded mixed beta-
           sheet. Even though the two enzymes bind ATP, the
           ATP-recognition motifs are different.
          Length = 347

 Score = 26.1 bits (58), Expect = 4.2
 Identities = 10/26 (38%), Positives = 14/26 (53%), Gaps = 1/26 (3%)

Query: 23  VFRTILAQRC-ITDLYCFQDFFFPAI 47
            F  IL  R  +T+L+  +D F P I
Sbjct: 116 SFYEILKGRPEVTELHPVEDAFVPII 141


>gnl|CDD|31371 COG1178, ThiP, ABC-type Fe3+ transport system, permease component
           [Inorganic ion transport and metabolism].
          Length = 540

 Score = 25.6 bits (56), Expect = 5.1
 Identities = 16/64 (25%), Positives = 30/64 (46%), Gaps = 4/64 (6%)

Query: 17  RVSVPFVFRTILAQRCITDLYCFQDFFFPAISVGNSDLLEY--FEQKIAEYNPFSIQANQ 74
           +V++P +   I A   +  + C  DF  P I  G    LE   ++  ++ ++    +A  
Sbjct: 187 KVTLPLLRPAIAAGALLVFMLCLADFGTPLILGGGYTTLETAIYQAIMSSFDL--ARAAL 244

Query: 75  LSLL 78
           L+LL
Sbjct: 245 LALL 248


>gnl|CDD|32307 COG2124, CypX, Cytochrome P450 [Secondary metabolites biosynthesis,
           transport, and catabolism].
          Length = 411

 Score = 25.4 bits (55), Expect = 5.1
 Identities = 22/95 (23%), Positives = 32/95 (33%), Gaps = 9/95 (9%)

Query: 54  LLEYFEQKIAEYNPFSIQANQLSLLVH----GGGIFLKMDSEGRILMTDFIRVFTGIENE 109
           L  Y    IAE        + LSLL+     GGG      S+  I       +  G E  
Sbjct: 198 LDAYLRALIAERRAAPRD-DLLSLLLSAEDDGGGRL----SDDEIRDELITLLVAGHETT 252

Query: 110 VTFVGRGNYFQLWNPQTFRKLQEESRNEYCRQLLQ 144
              +    Y  L +P    KL+ E        +++
Sbjct: 253 ANALAWALYALLRHPDQLAKLRAEPDRPLLEAVVE 287


>gnl|CDD|173695 cd05604, STKc_SGK3, Catalytic domain of the Protein
           Serine/Threonine Kinase, Serum- and
           Glucocorticoid-induced Kinase 3.  Serine/Threonine
           Kinases (STKs), Serum- and Glucocorticoid-induced Kinase
           (SGK) subfamily, SGK3 isoform, catalytic (c) domain.
           STKs catalyze the transfer of the gamma-phosphoryl group
           from ATP to serine/threonine residues on protein
           substrates. The SGK subfamily is part of a larger
           superfamily that includes the catalytic domains of other
           protein STKs, protein tyrosine kinases, RIO kinases,
           aminoglycoside phosphotransferase, choline kinase, and
           phosphoinositide 3-kinase. There are three isoforms of
           SGK, named SGK1, SGK2, and SGK3 (also called
           cytokine-independent survival kinase CISK). SGK3 is
           expressed in most tissues and is most abundant in the
           embryo and adult heart and spleen. It was originally
           discovered in a screen for antiapoptotic genes. It
           phosphorylates and inhibits the proapoptotic proteins,
           Bad and FKHRL1. SGK3 also regulates many transporters,
           ion channels, and receptors. It plays a critical role in
           hair follicle morphogenesis and hair cycling.
          Length = 325

 Score = 25.4 bits (55), Expect = 6.5
 Identities = 15/45 (33%), Positives = 22/45 (48%), Gaps = 6/45 (13%)

Query: 88  MDSEGRILMTDFIRVFTGI---ENEVTFVGRGNYFQLWNPQTFRK 129
           +DS+G +++TDF     GI   +   TF G   Y     P+  RK
Sbjct: 129 LDSQGHVVLTDFGLCKEGIAQSDTTTTFCGTPEYLA---PEVIRK 170


  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
   0.327    0.142    0.423 

Gapped
Lambda     K      H
   0.267   0.0758    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 1,781,959
Number of extensions: 88000
Number of successful extensions: 286
Number of sequences better than 10.0: 1
Number of HSP's gapped: 285
Number of HSP's successfully gapped: 15
Length of query: 145
Length of database: 6,263,737
Length adjustment: 85
Effective length of query: 60
Effective length of database: 4,426,972
Effective search space: 265618320
Effective search space used: 265618320
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 (21.7 bits)
S2: 53 (24.1 bits)