RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy11842
         (163 letters)



>gnl|CDD|216332 pfam01151, ELO, GNS1/SUR4 family.  Members of this family are
           involved in long chain fatty acid elongation systems
           that produce the 26-carbon precursors for ceramide and
           sphingolipid synthesis. Predicted to be integral
           membrane proteins, in eukaryotes they are probably
           located on the endoplasmic reticulum. Yeast ELO3 affects
           plasma membrane H+-ATPase activity, and may act on a
           glucose-signaling pathway that controls the expression
           of several genes that are transcriptionally regulated by
           glucose such as PMA1.
          Length = 244

 Score = 63.8 bits (156), Expect = 5e-13
 Identities = 26/59 (44%), Positives = 36/59 (61%), Gaps = 1/59 (1%)

Query: 68  FLMQYQWPVITILVLYLAFVLKIGPAYMQNRKPMSLKYIMLAYNLFQTLFNAYIVSYIF 126
            L+   WPVI I+VLYL FV  +GP  M+NRKP  LK +++ +NLF  L + Y    + 
Sbjct: 1   PLLSSPWPVILIIVLYLVFV-FLGPKIMRNRKPFDLKRLLIVHNLFLVLLSLYGFYGLL 58


>gnl|CDD|187671 cd09811, 3b-HSD_HSDB1_like_SDR_e, human 3beta-HSD (hydroxysteroid
           dehydrogenase) and HSD3B1(delta 5-delta
           4-isomerase)-like, extended (e) SDRs.  This extended-SDR
           subgroup includes human 3 beta-HSD/HSD3B1 and C(27)
           3beta-HSD/ [3beta-hydroxy-delta(5)-C(27)-steroid
           oxidoreductase; HSD3B7], and related proteins. These
           proteins have the characteristic active site tetrad and
           NAD(P)-binding motif of extended SDRs. 3 beta-HSD
           catalyzes the oxidative conversion of delta 5-3
           beta-hydroxysteroids to the delta 4-3-keto
           configuration; this activity is essential for the
           biosynthesis of all classes of hormonal steroids. C(27)
           3beta-HSD is a membrane-bound enzyme of the endoplasmic
           reticulum, it catalyzes the isomerization and oxidation
           of 7alpha-hydroxylated sterol intermediates, an early
           step in bile acid biosynthesis. Mutations in the human
           gene encoding C(27) 3beta-HSD underlie a rare autosomal
           recessive form of neonatal cholestasis. Extended SDRs
           are distinct from classical SDRs. In addition to the
           Rossmann fold (alpha/beta folding pattern with a central
           beta-sheet) core region typical of all SDRs, extended
           SDRs have a less conserved C-terminal extension of
           approximately 100 amino acids. Extended SDRs are a
           diverse collection of proteins, and include isomerases,
           epimerases, oxidoreductases, and lyases; they typically
           have a TGXXGXXG cofactor binding motif. SDRs are a
           functionally diverse family of oxidoreductases that have
           a single domain with a structurally conserved Rossmann
           fold, an NAD(P)(H)-binding region, and a structurally
           diverse C-terminal region. Sequence identity between
           different SDR enzymes is typically in the 15-30% range;
           they catalyze a wide range of activities including the
           metabolism of steroids, cofactors, carbohydrates,
           lipids, aromatic compounds, and amino acids, and act in
           redox sensing. Classical SDRs have an TGXXX[AG]XG
           cofactor binding motif and a YXXXK active site motif,
           with the Tyr residue of the active site motif serving as
           a critical catalytic residue (Tyr-151, human
           15-hydroxyprostaglandin dehydrogenase numbering). In
           addition to the Tyr and Lys, there is often an upstream
           Ser and/or an Asn, contributing to the active site;
           while substrate binding is in the C-terminal region,
           which determines specificity. The standard reaction
           mechanism is a 4-pro-S hydride transfer and proton relay
           involving the conserved Tyr and Lys, a water molecule
           stabilized by Asn, and nicotinamide. Atypical SDRs
           generally lack the catalytic residues characteristic of
           the SDRs, and their glycine-rich NAD(P)-binding motif is
           often different from the forms normally seen in
           classical or extended SDRs. Complex (multidomain) SDRs
           such as ketoreductase domains of fatty acid sythase have
           a GGXGXXG NAD(P)-binding motif and an altered active
           site motif (YXXXN). Fungal type ketoacyl reductases have
           a TGXXXGX(1-2)G NAD(P)-binding motif.
          Length = 354

 Score = 29.4 bits (66), Expect = 0.88
 Identities = 17/62 (27%), Positives = 31/62 (50%), Gaps = 12/62 (19%)

Query: 74  WPVITILVLYLAFVLKIGPAYMQNRKPMSLKYIMLAYNLFQTLFNAYIVSYIFSPGSFSY 133
           W V   L+ +LAF+L+I            + +++  Y  ++  +N + V+   S  +FSY
Sbjct: 281 WYVPLFLLYFLAFLLEI------------VSFLLRPYVKYRPRYNRHAVALTNSMFTFSY 328

Query: 134 LK 135
           LK
Sbjct: 329 LK 330


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

 Score = 26.0 bits (58), Expect = 2.9
 Identities = 11/51 (21%), Positives = 21/51 (41%), Gaps = 12/51 (23%)

Query: 102 SLKYIMLAYNLFQTLFNAYIVSYIFSPGSFSYLKPMSLKYIMLAYNLFQTL 152
           +LK + L+ N    +            G+F  L   +LK + L+ N   ++
Sbjct: 1   NLKSLDLSNNRLTVI----------PDGAFKGLP--NLKVLDLSGNNLTSI 39


>gnl|CDD|184872 PRK14872, PRK14872, rod shape-determining protein MreC;
          Provisional.
          Length = 337

 Score = 26.3 bits (58), Expect = 8.1
 Identities = 14/38 (36%), Positives = 21/38 (55%)

Query: 27 YPKLGKVQFILVLIYALSLVAFQCLPRMSSILLEDETV 64
           P+  KV+FI+ LI AL ++    LPR     ++D  V
Sbjct: 4  GPRHKKVRFIVYLIIALGIIVSWSLPRPVYEKIQDTFV 41


>gnl|CDD|237262 PRK12997, PRK12997, PTS system ascorbate-specific transporter
           subunit IIC; Reviewed.
          Length = 466

 Score = 26.4 bits (59), Expect = 9.2
 Identities = 13/52 (25%), Positives = 22/52 (42%), Gaps = 8/52 (15%)

Query: 77  ITILVLYLAFVLKIGPAYMQNRKPMSLK-----YIMLAYNLFQTL-FNAYIV 122
           I +LV +   +L  GP  M N   ++       + M  Y + Q L F+  + 
Sbjct: 243 IVMLVFFGIILLAAGPDIMANVDLIAKGTGGQNWFM--YIIIQALTFSVGVF 292


  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
   0.330    0.142    0.421 

Gapped
Lambda     K      H
   0.267   0.0718    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,327,053
Number of extensions: 775516
Number of successful extensions: 1056
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1048
Number of HSP's successfully gapped: 63
Length of query: 163
Length of database: 10,937,602
Length adjustment: 89
Effective length of query: 74
Effective length of database: 6,990,096
Effective search space: 517267104
Effective search space used: 517267104
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 55 (25.0 bits)