RPS-BLAST 2.2.26 [Sep-21-2011]

Database: CDD.v3.10 
           44,354 sequences; 10,937,602 total letters

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

Query= psy5233
         (178 letters)



>gnl|CDD|201464 pfam00832, Ribosomal_L39, Ribosomal L39 protein. 
          Length = 43

 Score = 75.4 bits (186), Expect = 6e-19
 Identities = 29/43 (67%), Positives = 37/43 (86%)

Query: 136 IKMKLAKKLKQNRPIPQWIRMRTGNTIRYNAKRRHWRRTKLKL 178
            K++LAK LKQNRP+P W+R++TG  +RYN KRRHWRRTKLK+
Sbjct: 1   KKLRLAKALKQNRPVPAWVRLKTGRKVRYNPKRRHWRRTKLKV 43


>gnl|CDD|225078 COG2167, RPL39, Ribosomal protein L39E [Translation, ribosomal
           structure and biogenesis].
          Length = 51

 Score = 74.8 bits (184), Expect = 1e-18
 Identities = 28/49 (57%), Positives = 36/49 (73%)

Query: 129 SAHKTFRIKMKLAKKLKQNRPIPQWIRMRTGNTIRYNAKRRHWRRTKLK 177
             +K    K++LAK LKQNR +P W+R++T   +RYN KRRHWRRTKLK
Sbjct: 2   GRNKPLGKKLRLAKALKQNRRVPVWVRVKTNRRVRYNPKRRHWRRTKLK 50


>gnl|CDD|179261 PRK01242, rpl39e, 50S ribosomal protein L39e; Validated.
          Length = 50

 Score = 59.6 bits (145), Expect = 7e-13
 Identities = 24/47 (51%), Positives = 34/47 (72%)

Query: 131 HKTFRIKMKLAKKLKQNRPIPQWIRMRTGNTIRYNAKRRHWRRTKLK 177
           +K    K++LAK LKQNR +P W+ ++T   +R + KRRHWRR+KLK
Sbjct: 3   NKPLGKKLRLAKALKQNRRVPAWVIVKTNRRVRRHPKRRHWRRSKLK 49


>gnl|CDD|219095 pfam06585, JHBP, Haemolymph juvenile hormone binding protein
           (JHBP).  This family consists of several insect-specific
           haemolymph juvenile hormone binding proteins (JHBP).
           Juvenile hormone regulates embryogenesis, maintains the
           status quo of larval development and stimulates
           reproductive maturation in the adult insect. JH is
           transported from the sites of its synthesis to target
           tissues by a haemolymph carrier called juvenile
           hormone-binding protein (JHBP). JHBP protects the JH
           molecules from hydrolysis by non-specific esterases
           present in the insect haemolymph. The crystal structure
           of the JHBP from Galleria mellonella shows an unusual
           fold consisting of a long alpha-helix wrapped in a much
           curved antiparallel beta-sheet. The folding pattern for
           this structure closely resembles that found in some
           tandem-repeat mammalian lipid-binding and bactericidal
           permeability-increasing proteins, with a similar
           organisation of the major cavity and a disulfide bond
           linking the long helix and the beta-sheet. It would
           appear that JHBP forms two cavities, only one of which,
           the one near the N- and C-termini, binds the hormone;
           binding induces a conformational change, of unknown
           significance. This family now includes DUF233,
           pfam03027.
          Length = 246

 Score = 48.9 bits (117), Expect = 2e-07
 Identities = 19/47 (40%), Positives = 26/47 (55%)

Query: 31  GTIALTFINQFWKVVYDALLPFAEEGFAKVAKPVLNKVFLSVPYEQL 77
           G     FIN+ WK + + L P  EE   K+   +LNK+F  VPY+ L
Sbjct: 199 GDAMNKFINENWKELLNELKPAIEEALEKIFVDILNKIFKKVPYDDL 245



 Score = 40.8 bits (96), Expect = 1e-04
 Identities = 11/30 (36%), Positives = 19/30 (63%)

Query: 2  YAEICYRNSPDFNECIKNTLQSLIPKFKDG 31
          + E C R+ P+ N+C+K ++Q+L P    G
Sbjct: 26 FLEKCSRSDPNDNKCLKESIQALRPYLAKG 55


>gnl|CDD|214779 smart00700, JHBP, Juvenile hormone binding protein domains in
           insects.  The juvenile hormone exerts pleiotropic
           functions during insect life cycles and its binding
           proteins regulate these functions.
          Length = 224

 Score = 40.0 bits (94), Expect = 2e-04
 Identities = 14/41 (34%), Positives = 23/41 (56%)

Query: 37  FINQFWKVVYDALLPFAEEGFAKVAKPVLNKVFLSVPYEQL 77
           F+N+ WK + + LLP   E    +   ++NKVF  VP ++ 
Sbjct: 182 FLNENWKALINELLPAIVEKLESIFLDLVNKVFAKVPIDEF 222



 Score = 29.2 bits (66), Expect = 0.94
 Identities = 8/26 (30%), Positives = 18/26 (69%), Gaps = 2/26 (7%)

Query: 6  CYRNSPDFNECIKNTLQSLIPKFKDG 31
          C     D +EC+++ +++L+P+ K+G
Sbjct: 10 CKLG--DPSECLRDAIEALLPQLKNG 33


>gnl|CDD|213337 cd05135, RasGAP_RASAL, Ras-GTPase Activating Domain of RASAL1 and
           similar proteins.  Ras GTPase activating-like protein
           (RASAL) or RASAL1 is a member of the GAP1 family, and a
           Ca2+ sensor responding in-phase to repetitive Ca2+
           signals by associating with the plasma membrane and
           deactivating Ras. It contains a conserved domain
           structure comprising N-terminal tandem C2 domains, a
           highly conserved central RasGAP domain, and a C-terminal
           pleckstrin-homology domain that is associated with a
           Bruton's tyrosine kinase motif. RASAL, like Ca2+
           -promoted Ras inactivator (CAPRI, or RASAL4), is a
           cytosolic protein that undergoes a rapid translocation
           to the plasma membrane in response to receptor-mediated
           elevation in the concentration of intracellular free
           Ca2+, a translocation that activates its ability to
           function as a RasGAP. However, unlike RASAL4, RASAL
           undergoes an oscillatory translocation to the plasma
           membrane that occurs in synchrony with repetitive Ca2+
           spikes.
          Length = 287

 Score = 30.2 bits (68), Expect = 0.45
 Identities = 25/78 (32%), Positives = 40/78 (51%), Gaps = 15/78 (19%)

Query: 19  NTLQSLIPKFKDGTIALTFINQFWKVVYDALLPFAEEGFAKVAKPVLNKVFLSVPYEQLD 78
           NTL      F+  ++A   + QF KVV    +P+  E    V KPV+N++F    Y +LD
Sbjct: 76  NTL------FRSNSLASKSMEQFMKVVG---MPYLHE----VLKPVINRIFEEKKYVELD 122

Query: 79  --QIGTNRSAHKTFRIKM 94
             +I  NR+   +F+  +
Sbjct: 123 PCKIDLNRTRRISFKGSL 140


>gnl|CDD|217839 pfam04005, Hus1, Hus1-like protein.  Hus1, Rad1, and Rad9 are three
           evolutionarily conserved proteins required for
           checkpoint control in fission yeast. These proteins are
           known to form a stable complex in vivo. Hus1-Rad1-Rad9
           complex may form a PCNA-like ring structure, and could
           function as a sliding clamp during checkpoint control.
          Length = 287

 Score = 28.0 bits (63), Expect = 2.4
 Identities = 10/37 (27%), Positives = 19/37 (51%), Gaps = 2/37 (5%)

Query: 66  NKVFLSVPYEQLDQIGTNRSAHKTFRIKMKLAKKLKQ 102
           N++ L V  + L +    +SA     +K++L KK + 
Sbjct: 71  NEINLEVDLDNLLR--ALKSADNASSLKIRLTKKDRT 105


>gnl|CDD|223097 COG0018, ArgS, Arginyl-tRNA synthetase [Translation, ribosomal
           structure and biogenesis].
          Length = 577

 Score = 28.0 bits (63), Expect = 2.8
 Identities = 13/50 (26%), Positives = 19/50 (38%), Gaps = 3/50 (6%)

Query: 64  VLNKVFLSV--PYEQLDQIGTNRSAHKTFRIKMKLAKKLKQN-RPIPQWI 110
            L+   L V      ++             I  +LAKKL +N R I + I
Sbjct: 14  ALSAAGLDVEEIEILVEPPKDPEHGDFATNIAFQLAKKLGKNPREIAEEI 63



 Score = 27.6 bits (62), Expect = 4.0
 Identities = 11/32 (34%), Positives = 14/32 (43%), Gaps = 1/32 (3%)

Query: 124 CKSRHSAHKTFRIKMKLAKKLKQN-RPIPQWI 154
            K          I  +LAKKL +N R I + I
Sbjct: 32  PKDPEHGDFATNIAFQLAKKLGKNPREIAEEI 63


>gnl|CDD|217643 pfam03619, Solute_trans_a, Organic solute transporter Ostalpha.
           This family is a transmembrane organic solute transport
           protein. In vertebrates these proteins form a complex
           with Ostbeta, and function as bile transporters. In
           plants they may transport brassinosteroid-like compounds
           and act as regulators of cell death.
          Length = 272

 Score = 27.1 bits (61), Expect = 5.0
 Identities = 13/41 (31%), Positives = 20/41 (48%), Gaps = 11/41 (26%)

Query: 32  TIALTFINQFWKVVYDALLPFAEEGFAKVAKPVLNKVFLSV 72
           ++AL  +  F+K + D L PF         KP+L   FL +
Sbjct: 180 SLALYCLVLFYKALKDELAPF---------KPLLK--FLCI 209


>gnl|CDD|204705 pfam11663, Toxin_YhaV, Toxin with endonuclease activity YhaV.  YhaV
           causes reversible bacteriostasis and is part of a
           toxin-antitoxin system in Escherichia coli along with
           PrlF. The toxicity of YhaV is counteracted by PrlF by
           the formation of a tight complex which binds to the
           promoter of the prlF-yhaV operon. In vitro, YhaV also
           has endonuclease activity.
          Length = 141

 Score = 26.1 bits (58), Expect = 7.7
 Identities = 10/26 (38%), Positives = 13/26 (50%), Gaps = 2/26 (7%)

Query: 151 PQWIRMRTGNTIRYNAKRRHWRRTKL 176
           P     R GNT+    + +HWRR K 
Sbjct: 54  PARPEYRQGNTL--GPEHKHWRRAKF 77


>gnl|CDD|151722 pfam11281, DUF3083, Protein of unknown function (DUF3083).  This
           family of proteins with unknown function appears to be
           restricted to Gammaproteobacteria.
          Length = 316

 Score = 26.1 bits (58), Expect = 9.7
 Identities = 13/56 (23%), Positives = 25/56 (44%), Gaps = 7/56 (12%)

Query: 121 LYHCKSRHSAHKTFRIKMKLAKKLKQNRPIPQWIRMRTGNTIRYNAKRRHWRRTKL 176
            ++    H AHK F      A+K++        + + TG+ IR N+ + H +  + 
Sbjct: 50  FFYNPEYHEAHKLFFDGDYRARKIR-------ILFLATGDEIRVNSAKFHSKVQQF 98


  Database: CDD.v3.10
    Posted date:  Mar 20, 2013  7:55 AM
  Number of letters in database: 10,937,602
  Number of sequences in database:  44,354
  
Lambda     K      H
   0.324    0.136    0.422 

Gapped
Lambda     K      H
   0.267   0.0740    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,950,297
Number of extensions: 793170
Number of successful extensions: 1022
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1021
Number of HSP's successfully gapped: 28
Length of query: 178
Length of database: 10,937,602
Length adjustment: 91
Effective length of query: 87
Effective length of database: 6,901,388
Effective search space: 600420756
Effective search space used: 600420756
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 56 (25.3 bits)