RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy17986
         (147 letters)



>gnl|CDD|128913 smart00667, LisH, Lissencephaly type-1-like homology motif.
           Alpha-helical motif present in Lis1, treacle, Nopp140,
           some katanin p60 subunits, muskelin, tonneau, LEUNIG and
           numerous WD40 repeat-containing proteins. It is
           suggested that LisH motifs contribute to the regulation
           of microtubule dynamics, either by mediating
           dimerisation, or else by binding cytoplasmic dynein
           heavy chain or microtubules directly.
          Length = 34

 Score = 40.9 bits (97), Expect = 4e-06
 Identities = 12/34 (35%), Positives = 22/34 (64%)

Query: 68  WKKTRLDRMLIEYFLRKGYYSTAQKLAQASNITD 101
             ++ L+R+++EY LR GY  TA+ L + S ++ 
Sbjct: 1   ISRSELNRLILEYLLRNGYEETAETLQKESGLSL 34


>gnl|CDD|149534 pfam08513, LisH, LisH.  The LisH (lis homology) domain mediates
          protein dimerisation and tetramerisation. The LisH
          domain is found in Sif2, a component of the Set3
          complex which is responsible for repressing meiotic
          genes. It has been shown that the LisH domain helps
          mediate interaction with components of the Set3
          complex.
          Length = 27

 Score = 26.1 bits (59), Expect = 1.0
 Identities = 8/24 (33%), Positives = 16/24 (66%)

Query: 72 RLDRMLIEYFLRKGYYSTAQKLAQ 95
           L+R++ +Y ++ GY  TA+  A+
Sbjct: 2  ELNRLIYDYLVKSGYKETAEAFAK 25


>gnl|CDD|226753 COG4303, EutB, Ethanolamine ammonia-lyase, large subunit [Amino
           acid transport and metabolism].
          Length = 453

 Score = 29.0 bits (65), Expect = 1.0
 Identities = 11/30 (36%), Positives = 17/30 (56%)

Query: 99  ITDLTNIDLREWIKGIETNVDSLSPVSSGL 128
           I + T  +LREW+   ET+ D ++    GL
Sbjct: 88  IKNWTVSELREWLLSDETSEDDIAFTRKGL 117


>gnl|CDD|178049 PLN02430, PLN02430, long-chain-fatty-acid-CoA ligase.
          Length = 660

 Score = 28.2 bits (63), Expect = 1.8
 Identities = 12/19 (63%), Positives = 13/19 (68%), Gaps = 4/19 (21%)

Query: 73  LDRMLIEYFLRK----GYY 87
           LDRM+ EYF RK    GYY
Sbjct: 279 LDRMIEEYFFRKGASVGYY 297


>gnl|CDD|203514 pfam06751, EutB, Ethanolamine ammonia lyase large subunit (EutB).
           This family consists of several bacterial ethanolamine
           ammonia lyase large subunit (EutB) proteins
           (EC:4.3.1.7). Ethanolamine ammonia-lyase is a bacterial
           enzyme that catalyzes the adenosylcobalamin-dependent
           conversion of certain vicinal amino alcohols to oxo
           compounds and ammonia. The enzyme is a heterodimer
           composed of subunits of Mr approximately 55,000 (EutB)
           and 35,000 (EutC).
          Length = 443

 Score = 27.0 bits (60), Expect = 4.0
 Identities = 7/30 (23%), Positives = 14/30 (46%)

Query: 99  ITDLTNIDLREWIKGIETNVDSLSPVSSGL 128
           +  LT  + REW+         ++ ++ GL
Sbjct: 78  VKHLTVGEFREWLLSDAATEADIAALAPGL 107


>gnl|CDD|215287 PLN02524, PLN02524, S-adenosylmethionine decarboxylase.
          Length = 355

 Score = 26.9 bits (60), Expect = 4.6
 Identities = 10/32 (31%), Positives = 17/32 (53%)

Query: 71  TRLDRMLIEYFLRKGYYSTAQKLAQASNITDL 102
           T LDR     F +    S+A+++ +AS I  +
Sbjct: 186 TGLDREKASVFFKDSSLSSAEEMTKASGIRKI 217


>gnl|CDD|223373 COG0296, GlgB, 1,4-alpha-glucan branching enzyme [Carbohydrate
           transport and metabolism].
          Length = 628

 Score = 26.9 bits (60), Expect = 5.3
 Identities = 16/60 (26%), Positives = 19/60 (31%), Gaps = 14/60 (23%)

Query: 3   VSDADSYEWNGEDSNTGKAVRTWAGESIGEELQAG------------HVIKRRIEHLKEH 50
           V D   YEW  E  +     R W    I  EL  G              I   + +LKE 
Sbjct: 120 VVDLPDYEWQDERWDRAWRGRFWEPIVI-YELHVGSFTPDRFLGYFELAI-ELLPYLKEL 177


>gnl|CDD|240533 cd13128, MATE_Wzx_like, Wzx, a subfamily of the multidrug and toxic
           compound extrusion (MATE)-like proteins.  Escherichia
           coli Wzx and related proteins from other gram-negative
           bacteria are thought to act as flippases, assisting in
           the membrane translocation of lipopolysaccharides
           including those containing O-antigens. Proteins from the
           MATE family are involved in exporting metabolites across
           the cell membrane and are often responsible for
           multidrug resistance (MDR).
          Length = 402

 Score = 26.4 bits (59), Expect = 5.9
 Identities = 10/32 (31%), Positives = 18/32 (56%), Gaps = 3/32 (9%)

Query: 71  TRLDRMLIEYFLRK---GYYSTAQKLAQASNI 99
           TR+D +++ YFL     G Y+ A ++A+    
Sbjct: 226 TRIDTIMLGYFLGDAAVGIYNAAYRIAELLLF 257


>gnl|CDD|237897 PRK15067, PRK15067, ethanolamine ammonia lyase large subunit;
           Provisional.
          Length = 461

 Score = 26.0 bits (58), Expect = 8.4
 Identities = 12/30 (40%), Positives = 18/30 (60%)

Query: 99  ITDLTNIDLREWIKGIETNVDSLSPVSSGL 128
           I  LT  +LREW+   ET+   L+ ++ GL
Sbjct: 88  IKHLTVGELREWLLSDETDEADLAAIAPGL 117


  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    0.127    0.368 

Gapped
Lambda     K      H
   0.267   0.0874    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,295,074
Number of extensions: 625350
Number of successful extensions: 430
Number of sequences better than 10.0: 1
Number of HSP's gapped: 430
Number of HSP's successfully gapped: 20
Length of query: 147
Length of database: 10,937,602
Length adjustment: 88
Effective length of query: 59
Effective length of database: 7,034,450
Effective search space: 415032550
Effective search space used: 415032550
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: 54 (24.3 bits)