RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy17136
         (225 letters)



>gnl|CDD|191973 pfam08232, Striatin, Striatin family.  Striatin is an intracellular
           protein which has a caveolin-binding motif, a
           coiled-coil structure, a calmodulin-binding site, and a
           WD (pfam00400) repeat domain. It acts as a scaffold
           protein and is involved in signalling pathways.
          Length = 133

 Score =  172 bits (437), Expect = 4e-55
 Identities = 68/138 (49%), Positives = 90/138 (65%), Gaps = 5/138 (3%)

Query: 40  SIPGILHFIQHEWARFEMERSQWEVDKAELNARIAFLQGERKGQENLKHDLIRRIKMLEY 99
           ++PG++H++Q EW R E +R+ WE+++AE+ ARIA L+GER+G ENLK DL RRIKMLEY
Sbjct: 1   TLPGVMHYLQTEWTRHERDRNAWEIERAEMKARIAQLEGERRGLENLKEDLKRRIKMLEY 60

Query: 100 ALKQERAKYHQLKYGTELQQGDMNPPTFDEPGVPEVNVDSEAPFTSVSNISWKQGRQILR 159
           ALKQERAK  +LKYGT+  Q    P   +E    E + D E+    V     K+ R  LR
Sbjct: 61  ALKQERAKLKKLKYGTDSPQK---PSKEEEEEELEEDDDEESNSEKVDESELKKSRLYLR 117

Query: 160 QYLQEIGYTDTIIDVRSN 177
           + LQEIGY   +   RS 
Sbjct: 118 KSLQEIGY--LLKSPRSP 133


>gnl|CDD|130902 TIGR01843, type_I_hlyD, type I secretion membrane fusion protein,
           HlyD family.  Type I secretion is an ABC transport
           process that exports proteins, without cleavage of any
           signal sequence, from the cytosol to extracellular
           medium across both inner and outer membranes. The
           secretion signal is found in the C-terminus of the
           transported protein. This model represents the adaptor
           protein between the ATP-binding cassette (ABC) protein
           of the inner membrane and the outer membrane protein,
           and is called the membrane fusion protein. This model
           selects a subfamily closely related to HlyD; it is
           defined narrowly and excludes, for example, colicin V
           secretion protein CvaA and multidrug efflux proteins
           [Protein fate, Protein and peptide secretion and
           trafficking].
          Length = 423

 Score = 31.1 bits (71), Expect = 0.46
 Identities = 15/62 (24%), Positives = 31/62 (50%), Gaps = 3/62 (4%)

Query: 48  IQHEWARFEMERSQWEVDKAELNARIAFLQGERKGQENLKHD-LIRRIKMLEYALKQERA 106
           I  +  + E E +  +     L  ++  +  E + +  LK   L+ R+++LE  L++ERA
Sbjct: 149 ILAQIKQLEAELAGLQAQLQALRQQLEVISEELEARRKLKEKGLVSRLELLE--LERERA 206

Query: 107 KY 108
           + 
Sbjct: 207 EA 208


>gnl|CDD|240896 cd12450, RRM1_NUCLs, RNA recognition motif 1 found in
           nucleolin-like proteins mainly from plants.  This
           subfamily corresponds to the RRM1 of a group of plant
           nucleolin-like proteins, including nucleolin 1 (also
           termed protein nucleolin like 1) and nucleolin 2 (also
           termed protein nucleolin like 2, or protein parallel
           like 1). They play roles in the regulation of ribosome
           synthesis and in the growth and development of plants.
           Like yeast nucleolin, nucleolin-like proteins possess
           two RNA recognition motifs (RRMs), also termed RBDs (RNA
           binding domains) or RNPs (ribonucleoprotein domains).  .
          Length = 77

 Score = 27.3 bits (61), Expect = 1.7
 Identities = 10/30 (33%), Positives = 17/30 (56%), Gaps = 3/30 (10%)

Query: 146 VSNISWKQGRQILRQYLQEIGYTDTIIDVR 175
           V N+SW   +  L ++ +E G    ++DVR
Sbjct: 4   VGNLSWSAEQDDLEEFFKECG---EVVDVR 30


>gnl|CDD|217620 pfam03572, Peptidase_S41, Peptidase family S41. 
          Length = 166

 Score = 27.6 bits (62), Expect = 3.8
 Identities = 8/36 (22%), Positives = 18/36 (50%), Gaps = 1/36 (2%)

Query: 143 FTSVSNISWKQGRQILRQYLQEIGYTDTIIDVRSNR 178
             S S  + ++  + L++ L++      I+D+R N 
Sbjct: 7   IPSFSENTPEELAEALKK-LKKKNVKGLILDLRGNP 41


>gnl|CDD|224755 COG1842, PspA, Phage shock protein A (IM30), suppresses
           sigma54-dependent transcription [Transcription / Signal
           transduction mechanisms].
          Length = 225

 Score = 27.7 bits (62), Expect = 3.9
 Identities = 12/61 (19%), Positives = 25/61 (40%), Gaps = 6/61 (9%)

Query: 54  RFEMERSQWEVDKAEL--NARIAFLQGERKGQENLKHDLIRRIKMLEYALKQERAKYHQL 111
           + E +  + +    +L   A +A     + G E+L  + +   + LE   K   A+  Q 
Sbjct: 56  QLERKLEEAQARAEKLEEKAELAL----QAGNEDLAREALEEKQSLEDLAKALEAELQQA 111

Query: 112 K 112
           +
Sbjct: 112 E 112


>gnl|CDD|234628 PRK00093, PRK00093, GTP-binding protein Der; Reviewed.
          Length = 435

 Score = 27.7 bits (63), Expect = 5.8
 Identities = 9/21 (42%), Positives = 12/21 (57%), Gaps = 3/21 (14%)

Query: 107 KYHQLKYGTELQQGDMNPPTF 127
           +  ++KY T   Q   NPPTF
Sbjct: 374 RRLKIKYAT---QVGTNPPTF 391


>gnl|CDD|237106 PRK12459, PRK12459, S-adenosylmethionine synthetase; Provisional.
          Length = 386

 Score = 27.3 bits (61), Expect = 7.2
 Identities = 11/30 (36%), Positives = 17/30 (56%)

Query: 155 RQILRQYLQEIGYTDTIIDVRSNRVRTLLG 184
            +I+R  ++EIGY +   D R+  V   LG
Sbjct: 66  EKIVRNVIKEIGYDELGFDPRTCTVLVSLG 95


  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
   0.311    0.130    0.371 

Gapped
Lambda     K      H
   0.267   0.0643    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 11,261,268
Number of extensions: 1034903
Number of successful extensions: 773
Number of sequences better than 10.0: 1
Number of HSP's gapped: 771
Number of HSP's successfully gapped: 26
Length of query: 225
Length of database: 10,937,602
Length adjustment: 93
Effective length of query: 132
Effective length of database: 6,812,680
Effective search space: 899273760
Effective search space used: 899273760
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 57 (25.9 bits)