RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy13160
         (186 letters)



>gnl|CDD|238450 cd00885, cinA, Competence-damaged protein. CinA is the first gene
           in the competence- inducible (cin) operon and is thought
           to be specifically required at some stage in the process
           of transformation. This domain is closely related to a
           domain, found in a variety of proteins involved in
           biosynthesis of molybdopterin cofactor, where the domain
           is presumed to bind molybdopterin.
          Length = 170

 Score = 33.2 bits (77), Expect = 0.035
 Identities = 13/34 (38%), Positives = 13/34 (38%), Gaps = 1/34 (2%)

Query: 66  MA-FPEGDECSPNPCGPYTGCRVVSGSAVCFCLP 98
            A  PEG    PNP G   G  V       F LP
Sbjct: 116 QAMLPEGATLLPNPVGTAPGFSVEHNGKNVFLLP 149


>gnl|CDD|234993 PRK01966, ddl, D-alanyl-alanine synthetase A; Reviewed.
          Length = 333

 Score = 29.3 bits (67), Expect = 1.1
 Identities = 7/15 (46%), Positives = 9/15 (60%), Gaps = 1/15 (6%)

Query: 81  PYTGCRVVSGSAVCF 95
           PY GC V+  SA+  
Sbjct: 109 PYVGCGVL-ASALSM 122


>gnl|CDD|215423 PLN02789, PLN02789, farnesyltranstransferase.
          Length = 320

 Score = 28.2 bits (63), Expect = 2.7
 Identities = 17/77 (22%), Positives = 21/77 (27%), Gaps = 5/77 (6%)

Query: 103 DP-PSVPCTLPLNPCHNSPCGPNTQCSLLDNGFAQCTCLPGYVESPNTIRGCVERRQPCE 161
           DP  S  C   L+   N     +    LL  G          V++               
Sbjct: 237 DPEVSSVCLEVLSKDSNHVFALSDLLDLLCEGLQPTAEFRDTVDTLA----EELSDSTLA 292

Query: 162 PNVCGAGAVCDPNRAPY 178
             VC    V DP R  Y
Sbjct: 293 QAVCSELEVADPMRRNY 309


>gnl|CDD|201524 pfam00954, S_locus_glycop, S-locus glycoprotein family.  In
           Brassicaceae, self-incompatible plants have a
           self/non-self recognition system. This is
           sporophytically controlled by multiple alleles at a
           single locus (S). S-locus glycoproteins, as well as
           S-receptor kinases, are in linkage with the S-alleles.
          Length = 110

 Score = 26.5 bits (59), Expect = 4.4
 Identities = 9/22 (40%), Positives = 11/22 (50%)

Query: 163 NVCGAGAVCDPNRAPYCFCPEG 184
             CG    CD N +P C C +G
Sbjct: 84  GRCGPYGYCDVNTSPKCNCIKG 105


>gnl|CDD|188093 TIGR00864, PCC, polycystin cation channel protein.  The Polycystin
           Cation Channel (PCC) Family (TC 1.A.5) Polycystin is a
           huge protein of 4303aas. Its repeated leucine-rich (LRR)
           segment is found in many proteins. It contains 16
           polycystic kidney disease (PKD) domains, one
           LDL-receptor class A domain, one C-type lectin family
           domain, and 16-18 putative TMSs in positions between
           residues 2200 and 4100. Polycystin-L has been shown to
           be a cation (Na+, K+ and Ca2+) channel that is activated
           by Ca2+. Two members of the PCC family (polycystin 1 and
           2) are mutated in autosomal dominant polycystic kidney
           disease, and polycystin-L is deleted in mice with renal
           and retinal defects. Note: this model is restricted to
           the amino half for technical reasons.
          Length = 2740

 Score = 26.6 bits (58), Expect = 9.7
 Identities = 12/34 (35%), Positives = 14/34 (41%)

Query: 53  RPECLCNSDCPFNMAFPEGDECSPNPCGPYTGCR 86
           + ECLC +  P    F     CS  P  P   CR
Sbjct: 135 QGECLCGAAQPSEANFACESLCSGPPPPPAAACR 168


  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
   0.322    0.141    0.522 

Gapped
Lambda     K      H
   0.267   0.0746    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,864,083
Number of extensions: 723300
Number of successful extensions: 569
Number of sequences better than 10.0: 1
Number of HSP's gapped: 563
Number of HSP's successfully gapped: 56
Length of query: 186
Length of database: 10,937,602
Length adjustment: 91
Effective length of query: 95
Effective length of database: 6,901,388
Effective search space: 655631860
Effective search space used: 655631860
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 56 (25.3 bits)