RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780491|ref|YP_003064904.1| Mrp protein [Candidatus
Liberibacter asiaticus str. psy62]
         (101 letters)



>gnl|CDD|39111 KOG3908, KOG3908, KOG3908, Queuine-tRNA ribosyltransferase [RNA
           processing and modification].
          Length = 396

 Score = 26.9 bits (59), Expect = 1.2
 Identities = 10/44 (22%), Positives = 21/44 (47%), Gaps = 4/44 (9%)

Query: 29  QRLSEIFIVH----NTVYLSITVPHTIAHQLQSLRSNAQQIIQN 68
           ++ +  ++       TV   +   H IA+QLQ +R   + I ++
Sbjct: 316 KKYTRAYLHALVGKETVGCHLLTIHNIAYQLQLMRDVRESIQED 359


>gnl|CDD|107347 cd06352, PBP1_NPR_GC_like, Ligand-binding domain of membrane
           guanylyl-cyclase receptors.  Ligand-binding domain of
           membrane guanylyl-cyclase receptors. Membrane guanylyl
           cyclases (GC) have a single membrane-spanning region and
           are activated by endogenous and exogenous peptides. This
           family can be divided into three major subfamilies: the
           natriuretic peptide receptors (NPRs), sensory
           organ-specific membrane GCs, and the
           enterotoxin/guanylin receptors. The binding of peptide
           ligands to the receptor results in the activation of the
           cytosolic catalytic domain. Three types of NPRs have
           been cloned from mammalian tissues: NPR-A/GC-A, NPR-B/
           GC-B, and NPR-C. In addition, two of the GCs, GC-D and
           GC-G, appear to be pseudogenes in humans. Atrial
           natriuretic peptide (ANP) and brain natriuretic peptide
           (BNP) are produced in the heart, and both bind to the
           NPR-A. NPR-C, also termed the clearance receptor, binds
           each of the natriuretic peptides and can alter
           circulating levels of these peptides. The ligand binding
           domain of the NPRs exhibits strong structural similarity
           to the type I periplasmic binding fold protein family.
          Length = 389

 Score = 25.7 bits (57), Expect = 3.0
 Identities = 7/36 (19%), Positives = 17/36 (47%)

Query: 42  YLSITVPHTIAHQLQSLRSNAQQIIQNIPTVKNAVV 77
             ++TV H +  +  S   +  +I+Q+I      ++
Sbjct: 164 EFNLTVSHVVFMEDNSGAEDLLEILQDIKRRSRIII 199


>gnl|CDD|29070 cd00155, RasGEF, Guanine nucleotide exchange factor for Ras-like
           small GTPases. Small GTP-binding proteins of the Ras
           superfamily function as molecular switches in
           fundamental events such as signal transduction,
           cytoskeleton dynamics and intracellular trafficking.
           Guanine-nucleotide-exchange factors (GEFs) positively
           regulate these GTP-binding proteins in response to a
           variety of signals. GEFs catalyze the dissociation of
           GDP from the inactive GTP-binding proteins. GTP can then
           bind and induce structural changes that allow
           interaction with effectors..
          Length = 237

 Score = 25.6 bits (56), Expect = 3.5
 Identities = 12/49 (24%), Positives = 22/49 (44%), Gaps = 1/49 (2%)

Query: 53  HQLQSLRSNAQQIIQNIPTVKNAVVTLTENKNPPQQRNNLNVKKFVAVA 101
            +   L  N ++ I+    + N V +       P++R  L + KF+ VA
Sbjct: 38  DKNIHLSPNLERFIERFNNLSNWVASEILLCTNPKKRARL-LSKFIQVA 85


>gnl|CDD|147753 pfam05772, NinB, NinB protein.  The ninR region of phage lambda
          contains two recombination genes, orf (ninB) and rap
          (ninG), that have roles when the RecF and RecBCD
          recombination pathways of E. coli, respectively,
          operate on phage lambda.
          Length = 127

 Score = 25.4 bits (56), Expect = 3.8
 Identities = 12/39 (30%), Positives = 16/39 (41%), Gaps = 2/39 (5%)

Query: 56 QSLRSNAQQIIQNIPT--VKNAVVTLTENKNPPQQRNNL 92
            ++ NA Q I  +P    K  VVT+ E      Q   L
Sbjct: 5  PQIKQNAIQAILQLPVDPKKPLVVTIKERTRSLDQNAKL 43


>gnl|CDD|133246 cd05115, PTKc_Zap-70, Catalytic domain of the Protein Tyrosine
          Kinase, Zeta-chain-associated protein of 70kDa.
          Protein Tyrosine Kinase (PTK) family;
          Zeta-chain-associated protein of 70kDa (Zap-70);
          catalytic (c) domain. The PTKc family is part of a
          larger superfamily that includes the catalytic domains
          of other kinases such as protein serine/threonine
          kinases, RIO kinases, and phosphoinositide 3-kinase
          (PI3K). PTKs catalyze the transfer of the
          gamma-phosphoryl group from ATP to tyrosine (tyr)
          residues in protein substrates. Zap-70 is a member of
          the Syk subfamily of kinases, which are cytoplasmic (or
          nonreceptor) tyr kinases containing two Src homology 2
          (SH2) domains N-terminal to the catalytic tyr kinase
          domain. Zap-70 is primarily expressed in T-cells and NK
          cells, and is a crucial component in T-cell receptor
          (TCR) signaling. Zap-70 binds the phosphorylated ITAM
          (immunoreceptor tyr activation motif) sequences of the
          activated TCR zeta-chain through its SH2 domains,
          leading to its phosphorylation and activation. It then
          phosphorylates target proteins, which propagate the
          signals to downstream pathways. Zap-70 is hardly
          detected in normal peripheral B-cells, but is present
          in some B-cell malignancies. It is used as a diagnostic
          marker for chronic lymphocytic leukemia (CLL) as it is
          associated with the more aggressive subtype of the
          disease.
          Length = 257

 Score = 24.9 bits (54), Expect = 5.4
 Identities = 13/29 (44%), Positives = 17/29 (58%)

Query: 6  KNQIVDSLKVLSIPGEKNNIVEMQRLSEI 34
          K QI  ++KVL    EK+   EM R +EI
Sbjct: 20 KKQIDVAIKVLKNENEKSVRDEMMREAEI 48


>gnl|CDD|37248 KOG2037, KOG2037, KOG2037, Guanylate-binding protein [General
           function prediction only].
          Length = 552

 Score = 24.9 bits (54), Expect = 5.5
 Identities = 9/36 (25%), Positives = 16/36 (44%)

Query: 54  QLQSLRSNAQQIIQNIPTVKNAVVTLTENKNPPQQR 89
           +L  LR +A+   +++P   N    L   +NP    
Sbjct: 253 ELVQLRVHARSCFEDLPCFLNPHPGLAVAENPAFDG 288


>gnl|CDD|143653 cd07912, Tweety_N, N-terminal domain of the protein encoded by the
           Drosophila tweety gene and related proteins, a family of
           chloride ion channels.  The protein product of the
           Drosophila tweety (tty) gene is thought to form a
           trans-membrane protein with five membrane-spanning
           regions and a cytoplasmic C-terminus. This N-terminal
           domain contains the putative transmembrane spanning
           regions. Tweety has been suggested as a candidate for a
           large conductance chloride channel, both in vertebrate
           and insect cells. Three human homologs have been
           identified and designated TTYH1-3. TTYH2 has been
           associated with the progression of cancer, and
           Drosophila melanogaster tweety has been assumed to play
           a role in development. TTYH2, and TTYH3 bind to and are
           ubiquinated by Nedd4-2, a HECT type E3 ubiquitin ligase,
           which most likely plays a role in controlling the
           cellular levels of tweety family proteins.
          Length = 418

 Score = 24.6 bits (54), Expect = 5.9
 Identities = 18/57 (31%), Positives = 27/57 (47%), Gaps = 8/57 (14%)

Query: 27  EMQRLSEIFI--VHNTVYLSITVPHTIAHQLQSLRSNAQQIIQNIPTVKNAVVTLTE 81
           ++  L +IF   V+ T YL I         LQ + +NA Q +  IP      V+LT+
Sbjct: 146 QLTNLEDIFDARVNKTDYLQIVQ------GLQQMATNAAQQLTGIPFWSLVGVSLTK 196


  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
   0.316    0.129    0.343 

Gapped
Lambda     K      H
   0.267   0.0703    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 1,056,053
Number of extensions: 43466
Number of successful extensions: 127
Number of sequences better than 10.0: 1
Number of HSP's gapped: 127
Number of HSP's successfully gapped: 18
Length of query: 101
Length of database: 6,263,737
Length adjustment: 68
Effective length of query: 33
Effective length of database: 4,794,325
Effective search space: 158212725
Effective search space used: 158212725
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: 51 (23.5 bits)