RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy16508
         (385 letters)



>gnl|CDD|216919 pfam02181, FH2, Formin Homology 2 Domain. 
          Length = 372

 Score =  189 bits (481), Expect = 2e-56
 Identities = 73/200 (36%), Positives = 125/200 (62%)

Query: 180 LLDGKRSLNVNIFLKQFRSSNEDIIHLIKNGDHDEIGTEKLRGLLKILPQLDELEMLRNF 239
           +LD KRS N+ I L++ +   E+I+  I   D   +G E L  LLK+ P  +EL+ L+ +
Sbjct: 77  VLDPKRSQNIAILLRKLKLPPEEIVQAILEMDESVLGLELLENLLKMAPTKEELKKLKEY 136

Query: 240 DGDKSRLGNAEKFLLQLIQVPNYKLRIESMLLKEEFATNMSYLEPSINSMIVAGEDLMSN 299
            GD S+LG AE+FLL+L ++P  + R+E++L K  F   +  L+PS+ ++  A E+L  +
Sbjct: 137 KGDPSKLGRAEQFLLELSKIPRLEERLEALLFKSTFEEEVEELKPSLETLEAASEELRES 196

Query: 300 KALQEVLYMVICAGNFLNSGGYAGNAAGVKLSSLQKLTDIRANKPGMNLIHYVALQAEKK 359
           +  +++L +++  GN++NSG   GNA G KLSSL KL+D ++      L+HY+     +K
Sbjct: 197 RKFKKLLELILALGNYMNSGTRRGNAKGFKLSSLLKLSDTKSTDNKTTLLHYLVKIIREK 256

Query: 360 RKELLNFTEDMGFLEEATKL 379
             +LL+F+ ++  +E+A K+
Sbjct: 257 LPDLLDFSSELSHVEKAAKV 276


>gnl|CDD|214697 smart00498, FH2, Formin Homology 2 Domain.  FH proteins control
           rearrangements of the actin cytoskeleton, especially in
           the context of cytokinesis and cell polarisation.
           Members of this family have been found to interact with
           Rho-GTPases, profilin and other actin-assoziated
           proteins. These interactions are mediated by the
           proline-rich FH1 domain, usually located in front of FH2
           (but not listed in SMART). Despite this cytosolic
           function, vertebrate formins have been assigned
           functions within the nucleus. A set of Formin-Binding
           Proteins (FBPs) has been shown to bind FH1 with their WW
           domain.
          Length = 392

 Score =  133 bits (337), Expect = 2e-35
 Identities = 62/188 (32%), Positives = 102/188 (54%), Gaps = 3/188 (1%)

Query: 180 LLDGKRSLNVNIFLKQFRSSNEDIIHLIKNGDHDEIGTEKLRGLLKILPQLDELEMLRNF 239
           +LD KRS N+ I L++   S E+I   I  GD D +  + L  LLK  P  +EL+ LR +
Sbjct: 76  ILDPKRSQNLAILLRKLHMSYEEIKEAILEGDEDVLSVDLLEQLLKYAPTKEELKKLREY 135

Query: 240 DGDK-SRLGNAEKFLLQLIQVPNYKLRIESMLLKEEFATNMSYLEPSINSMIVAGEDLMS 298
             +    L  AE+FLL +  +P  + R+ ++L K  F   +  L+P I  +  A E+L  
Sbjct: 136 KEEDPEELARAEQFLLLISNIPYLEERLNALLFKANFEEEVEDLKPQIEKVEAACEELRE 195

Query: 299 NKALQEVLYMVICAGNFLNSGGYAGNAAGVKLSSLQKLTDIRANKPGMNLIHYVALQAEK 358
           +K  +++L +++  GN++N G   G A G KLSSL KL+D+++      L+H++      
Sbjct: 196 SKKFRKLLELILAIGNYMNGGSRRGQAYGFKLSSLLKLSDVKSADNKTTLLHFLV--KII 253

Query: 359 KRKELLNF 366
           ++K L   
Sbjct: 254 RKKYLGGL 261


>gnl|CDD|219000 pfam06367, Drf_FH3, Diaphanous FH3 Domain.  This region is found in
           the Formin-like and and diaphanous proteins.
          Length = 197

 Score = 51.1 bits (123), Expect = 1e-07
 Identities = 34/100 (34%), Positives = 49/100 (49%), Gaps = 2/100 (2%)

Query: 55  DLSVQLDVFDEQKESDEAQILGAPD--GVDLNSHLDVFYAVLRQVAETPQEIPFLSILQH 112
            L  QL +F+E +E D  ++L   D   VDL+  +++F  +  +V +T  E  FLSILQH
Sbjct: 87  KLDDQLQIFEENREEDVEELLERFDDVNVDLDDPVELFELLKNKVKDTEAEPHFLSILQH 146

Query: 113 LLRIDPKEAVSDIIWDTAETLVHRATLLESRQDATKLLRS 152
           LL I   E      W   E LV +  L  ++ D     R 
Sbjct: 147 LLLIRDDEEELPQYWKLLEELVSQIVLHRTKPDPDFDERK 186


>gnl|CDD|187847 cd09716, Cas5_I, CRISPR/Cas system-associated RAMP superfamily
           protein Cas5.  CRISPR (Clustered Regularly Interspaced
           Short Palindromic Repeats) and associated Cas proteins
           comprise a system for heritable host defense by
           prokaryotic cells against phage and other foreign DNA;
           Cas5 is a RAMP superfamily protein; Subunit of the
           Cascade complex.
          Length = 220

 Score = 33.1 bits (75), Expect = 0.19
 Identities = 8/48 (16%), Positives = 20/48 (41%)

Query: 181 LDGKRSLNVNIFLKQFRSSNEDIIHLIKNGDHDEIGTEKLRGLLKILP 228
             G ++++  + + +FR   E+   L      D+   + LR  +  + 
Sbjct: 119 FGGTQNIDYTLVMDKFRFMCENERTLETEEKTDQKEEKFLRENIDRIS 166


>gnl|CDD|214395 CHL00204, ycf1, Ycf1; Provisional.
          Length = 1832

 Score = 32.8 bits (75), Expect = 0.33
 Identities = 16/50 (32%), Positives = 24/50 (48%), Gaps = 2/50 (4%)

Query: 176  LLILLLDGKRSLNVNIFLKQ--FRSSNEDIIHLIKNGDHDEIGTEKLRGL 223
            LL+L L+G  ++N  I  K+  F  SNE     I+N + +E        L
Sbjct: 1487 LLLLNLNGNENVNKKINQKKKGFIPSNEKKSIEIENRNQEEKEPAGQGEL 1536


>gnl|CDD|114788 pfam06086, Pox_A30L_A26L, Orthopoxvirus A26L/A30L protein.  This
           family consists of several Orthopoxvirus A26L and A30L
           proteins. The Vaccinia A30L gene is regulated by a late
           promoter and encodes a protein of approximately 9 kDa.
           It is thought that the A30L protein is needed for
           vaccinia virus morphogenesis, specifically the
           association of the dense viroplasm with viral membranes.
          Length = 220

 Score = 30.0 bits (67), Expect = 1.5
 Identities = 26/100 (26%), Positives = 40/100 (40%), Gaps = 19/100 (19%)

Query: 212 HDEIGTEKLRGLLKILPQLDELEMLRNFDGDKSRLGNAEKFLLQLIQVPNYKLRIESMLL 271
           H  I  E +R  +K  P++DE          KS LG   ++L Q   + N          
Sbjct: 48  HRNIIHEVIRDFMKAYPKMDE--------NRKSPLGAPMQWLTQYYILKN---------- 89

Query: 272 KEEFATNMSYLEPSINSMIVAGEDLMSNKALQEVLYMVIC 311
            E + T ++Y   S+N+        M     Q +LY+V C
Sbjct: 90  -EYYKTMLAYDNGSLNTKFKTLNIYMITNVGQYILYIVFC 128


>gnl|CDD|182986 PRK11131, PRK11131, ATP-dependent RNA helicase HrpA; Provisional.
          Length = 1294

 Score = 28.9 bits (65), Expect = 6.1
 Identities = 12/28 (42%), Positives = 18/28 (64%)

Query: 355 QAEKKRKELLNFTEDMGFLEEATKLTKL 382
           +A ++  ELLNF + M   E A K++KL
Sbjct: 815 KASRETPELLNFEKSMLIKEGAEKVSKL 842


>gnl|CDD|215520 PLN02964, PLN02964, phosphatidylserine decarboxylase.
          Length = 644

 Score = 28.7 bits (64), Expect = 7.0
 Identities = 15/43 (34%), Positives = 24/43 (55%), Gaps = 4/43 (9%)

Query: 283 EPSINSMIVAGEDLMSNKALQEVLYMVIC----AGNFLNSGGY 321
           EP IN+  V GE L  +  L  +++M +C     GN + +GG+
Sbjct: 248 EPIINNCPVCGEALGVSDKLNAMIHMTLCFDEGTGNQVMTGGF 290


  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
   0.317    0.136    0.376 

Gapped
Lambda     K      H
   0.267   0.0735    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 19,470,238
Number of extensions: 1932467
Number of successful extensions: 1570
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1567
Number of HSP's successfully gapped: 21
Length of query: 385
Length of database: 10,937,602
Length adjustment: 99
Effective length of query: 286
Effective length of database: 6,546,556
Effective search space: 1872315016
Effective search space used: 1872315016
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: 60 (26.9 bits)