RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy10386
         (166 letters)



>gnl|CDD|206026 pfam13855, LRR_8, Leucine rich repeat. 
          Length = 60

 Score = 52.2 bits (126), Expect = 5e-10
 Identities = 23/47 (48%), Positives = 31/47 (65%)

Query: 24 NLDSLVLAHNQLRTIPPRVFAHLPLLNSLELDGNHIHTVDPAAFSGL 70
          NL SL L++N+L  IP   F  LP L  L+L GN++ ++ P AFSGL
Sbjct: 1  NLKSLDLSNNRLTVIPDGAFKGLPNLKVLDLSGNNLTSISPEAFSGL 47



 Score = 48.7 bits (117), Expect = 1e-08
 Identities = 19/40 (47%), Positives = 25/40 (62%)

Query: 20 GGLHNLDSLVLAHNQLRTIPPRVFAHLPLLNSLELDGNHI 59
           GL NL  L L+ N L +I P  F+ LP L SL+L GN++
Sbjct: 21 KGLPNLKVLDLSGNNLTSISPEAFSGLPSLRSLDLSGNNL 60



 Score = 27.1 bits (61), Expect = 1.1
 Identities = 9/23 (39%), Positives = 12/23 (52%)

Query: 49 LNSLELDGNHIHTVDPAAFSGLE 71
          L SL+L  N +  +   AF GL 
Sbjct: 2  LKSLDLSNNRLTVIPDGAFKGLP 24


>gnl|CDD|205079 pfam12799, LRR_4, Leucine Rich repeats (2 copies).  Leucine rich
          repeats are short sequence motifs present in a number
          of proteins with diverse functions and cellular
          locations. These repeats are usually involved in
          protein-protein interactions. Each Leucine Rich Repeat
          is composed of a beta-alpha unit. These units form
          elongated non-globular structures. Leucine Rich Repeats
          are often flanked by cysteine rich domains.
          Length = 43

 Score = 37.5 bits (88), Expect = 1e-04
 Identities = 17/42 (40%), Positives = 28/42 (66%), Gaps = 2/42 (4%)

Query: 23 HNLDSLVLAHNQLRTIPPRVFAHLPLLNSLELDGNHIHTVDP 64
           NL++L L++NQ+  +PP   ++LP L +L+L GN I  + P
Sbjct: 1  TNLETLDLSNNQITDLPP--LSNLPNLETLDLSGNKITDLSP 40



 Score = 24.8 bits (55), Expect = 5.3
 Identities = 7/21 (33%), Positives = 13/21 (61%)

Query: 20 GGLHNLDSLVLAHNQLRTIPP 40
            L NL++L L+ N++  + P
Sbjct: 20 SNLPNLETLDLSGNKITDLSP 40


>gnl|CDD|197688 smart00370, LRR, Leucine-rich repeats, outliers. 
          Length = 24

 Score = 34.2 bits (80), Expect = 0.001
 Identities = 11/24 (45%), Positives = 15/24 (62%)

Query: 22 LHNLDSLVLAHNQLRTIPPRVFAH 45
          L NL  L L++NQL ++PP  F  
Sbjct: 1  LPNLRELDLSNNQLSSLPPGAFQG 24



 Score = 26.2 bits (59), Expect = 1.1
 Identities = 10/24 (41%), Positives = 14/24 (58%)

Query: 46 LPLLNSLELDGNHIHTVDPAAFSG 69
          LP L  L+L  N + ++ P AF G
Sbjct: 1  LPNLRELDLSNNQLSSLPPGAFQG 24


>gnl|CDD|197687 smart00369, LRR_TYP, Leucine-rich repeats, typical (most
          populated) subfamily. 
          Length = 24

 Score = 34.2 bits (80), Expect = 0.001
 Identities = 11/24 (45%), Positives = 15/24 (62%)

Query: 22 LHNLDSLVLAHNQLRTIPPRVFAH 45
          L NL  L L++NQL ++PP  F  
Sbjct: 1  LPNLRELDLSNNQLSSLPPGAFQG 24



 Score = 26.2 bits (59), Expect = 1.1
 Identities = 10/24 (41%), Positives = 14/24 (58%)

Query: 46 LPLLNSLELDGNHIHTVDPAAFSG 69
          LP L  L+L  N + ++ P AF G
Sbjct: 1  LPNLRELDLSNNQLSSLPPGAFQG 24


>gnl|CDD|227223 COG4886, COG4886, Leucine-rich repeat (LRR) protein [Function
           unknown].
          Length = 394

 Score = 33.0 bits (75), Expect = 0.048
 Identities = 17/45 (37%), Positives = 26/45 (57%), Gaps = 1/45 (2%)

Query: 20  GGLHNLDSLVLAHNQLRTIPPRVFAHLPLLNSLELDGNHIHTVDP 64
             L NL +L L+ N L  +P  + ++L  LN+L+L GN I  + P
Sbjct: 160 RNLPNLKNLDLSFNDLSDLPK-LLSNLSNLNNLDLSGNKISDLPP 203



 Score = 30.3 bits (68), Expect = 0.38
 Identities = 12/36 (33%), Positives = 22/36 (61%), Gaps = 1/36 (2%)

Query: 24  NLDSLVLAHNQLRTIPPRVFAHLPLLNSLELDGNHI 59
           NL  L L+ N++ ++P  +  +LP L +L+L  N +
Sbjct: 141 NLKELDLSDNKIESLPSPL-RNLPNLKNLDLSFNDL 175



 Score = 28.8 bits (64), Expect = 1.6
 Identities = 14/50 (28%), Positives = 25/50 (50%), Gaps = 1/50 (2%)

Query: 10  SSIFEKVATSGGLHNLDSLVLAHNQLRTIPPRVFAHLPLLNSLELDGNHI 59
           + + +       L NL++L L+ N++  +PP +   L  L  L+L  N I
Sbjct: 173 NDLSDLPKLLSNLSNLNNLDLSGNKISDLPPEI-ELLSALEELDLSNNSI 221


>gnl|CDD|214507 smart00082, LRRCT, Leucine rich repeat C-terminal domain. 
          Length = 51

 Score = 30.5 bits (69), Expect = 0.065
 Identities = 7/15 (46%), Positives = 9/15 (60%)

Query: 73 NPLVCTCDLMWYKEW 87
          NP +C C+L W   W
Sbjct: 1  NPFICDCELRWLLRW 15


>gnl|CDD|215061 PLN00113, PLN00113, leucine-rich repeat receptor-like protein
           kinase; Provisional.
          Length = 968

 Score = 31.7 bits (72), Expect = 0.17
 Identities = 17/48 (35%), Positives = 25/48 (52%)

Query: 24  NLDSLVLAHNQLRTIPPRVFAHLPLLNSLELDGNHIHTVDPAAFSGLE 71
            L SL L+HNQL    P  F+ +P+L+ L+L  N +    P     +E
Sbjct: 524 KLVSLDLSHNQLSGQIPASFSEMPVLSQLDLSQNQLSGEIPKNLGNVE 571



 Score = 31.0 bits (70), Expect = 0.29
 Identities = 17/62 (27%), Positives = 25/62 (40%)

Query: 10  SSIFEKVATSGGLHNLDSLVLAHNQLRTIPPRVFAHLPLLNSLELDGNHIHTVDPAAFSG 69
           +  F  +  S G   L++L L+ NQ     PR    L  L  L+L  N +    P   S 
Sbjct: 462 NKFFGGLPDSFGSKRLENLDLSRNQFSGAVPRKLGSLSELMQLKLSENKLSGEIPDELSS 521

Query: 70  LE 71
            +
Sbjct: 522 CK 523


>gnl|CDD|178695 PLN03150, PLN03150, hypothetical protein; Provisional.
          Length = 623

 Score = 29.4 bits (66), Expect = 0.84
 Identities = 19/67 (28%), Positives = 27/67 (40%), Gaps = 9/67 (13%)

Query: 20  GGLHNLDSLVLAHNQLRTIPPRVFAHLPLLNSLELDGNHIHTVDPAAFSGL--------- 70
           G + +L+ L L++N      P     L  L  L L+GN +    PAA  G          
Sbjct: 463 GSITSLEVLDLSYNSFNGSIPESLGQLTSLRILNLNGNSLSGRVPAALGGRLLHRASFNF 522

Query: 71  EDNPLVC 77
            DN  +C
Sbjct: 523 TDNAGLC 529


>gnl|CDD|218093 pfam04453, OstA_C, Organic solvent tolerance protein.  Family
           involved in organic solvent tolerance in bacteria. The
           region contains several highly conserved, potentially
           catalytic, residues.
          Length = 385

 Score = 28.2 bits (63), Expect = 2.1
 Identities = 11/39 (28%), Positives = 18/39 (46%), Gaps = 1/39 (2%)

Query: 30  LAHNQLRTIPP-RVFAHLPLLNSLELDGNHIHTVDPAAF 67
           L  +  R +P   + + LP     EL G +  T++P A 
Sbjct: 172 LDSSVSRVLPTFSLDSGLPFERDTELGGGYTQTLEPRAQ 210


>gnl|CDD|237374 PRK13388, PRK13388, acyl-CoA synthetase; Provisional.
          Length = 540

 Score = 27.7 bits (62), Expect = 3.5
 Identities = 11/27 (40%), Positives = 16/27 (59%)

Query: 44  AHLPLLNSLELDGNHIHTVDPAAFSGL 70
            H PLL+ L+L G  +  VD  A++ L
Sbjct: 108 EHRPLLDGLDLPGVRVLDVDTPAYAEL 134


>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 = 27.4 bits (60), Expect = 5.6
 Identities = 16/65 (24%), Positives = 27/65 (41%), Gaps = 16/65 (24%)

Query: 30 LAHNQLRTIPPRVFAHLPLLNSLELDGNHIHTVDPAAFSGLEDNPLVCTCDLMWYKEWST 89
          +++N++ TI   + A+L  L+ ++L GN                P  C C L     W+ 
Sbjct: 2  ISNNKISTIEEGICANLCNLSEIDLSGN----------------PFECDCGLARLPRWAE 45

Query: 90 SLGEK 94
            G K
Sbjct: 46 EKGVK 50


>gnl|CDD|173611 PTZ00421, PTZ00421, coronin; Provisional.
          Length = 493

 Score = 26.8 bits (59), Expect = 6.4
 Identities = 12/25 (48%), Positives = 14/25 (56%)

Query: 101 RKRTVCTLGSSNVHQREIKLSDLPK 125
           RK  + TLG S   QR+I L D  K
Sbjct: 222 RKDLIITLGCSKSQQRQIMLWDTRK 246


>gnl|CDD|237205 PRK12792, flhA, flagellar biosynthesis protein FlhA; Reviewed.
          Length = 694

 Score = 27.0 bits (60), Expect = 6.5
 Identities = 15/54 (27%), Positives = 26/54 (48%)

Query: 1   MIEIWGGQLSSIFEKVATSGGLHNLDSLVLAHNQLRTIPPRVFAHLPLLNSLEL 54
           ++E +G + S    +    G    L +   A   +R I  R+F  LP+L+ LE+
Sbjct: 628 LVEQFGTEASEAIRERMDQGHQFVLVTAPEARPYVRMIIERLFPTLPVLSHLEI 681


  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
   0.318    0.134    0.405 

Gapped
Lambda     K      H
   0.267   0.0925    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,250,325
Number of extensions: 722140
Number of successful extensions: 557
Number of sequences better than 10.0: 1
Number of HSP's gapped: 553
Number of HSP's successfully gapped: 23
Length of query: 166
Length of database: 10,937,602
Length adjustment: 90
Effective length of query: 76
Effective length of database: 6,945,742
Effective search space: 527876392
Effective search space used: 527876392
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 (21.7 bits)
S2: 55 (24.6 bits)