RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy9121
         (203 letters)



>gnl|CDD|224157 COG1236, YSH1, Predicted exonuclease of the beta-lactamase fold
           involved in RNA processing [Translation, ribosomal
           structure and biogenesis].
          Length = 427

 Score = 29.3 bits (66), Expect = 1.6
 Identities = 25/65 (38%), Positives = 36/65 (55%), Gaps = 7/65 (10%)

Query: 73  CGKVFVDSAPEFQPPLSQLVDFSEVNMILISNYLS--MLALPFITEGTGFEGVVYATEPT 130
           CG    D +PE   PL  L  F +V+ +L+++     + ALP++    GFEG VYAT PT
Sbjct: 30  CGLFPGDPSPER--PL--LPPFPKVDAVLLTHAHLDHIGALPYLVR-NGFEGPVYATPPT 84

Query: 131 LQIGK 135
             + K
Sbjct: 85  AALLK 89


>gnl|CDD|162728 TIGR02146, LysS_fung_arch, homocitrate synthase.  This model
           includes the yeast LYS21 gene which carries out the
           first step of the alpha-aminoadipate (AAA) lysine
           biosynthesis pathway. A related pathway is found in
           Thermus thermophilus. This enzyme is closely related to
           2-isopropylmalate synthase (LeuA) and citramalate
           synthase (CimA), both of which are present in the
           euryarchaeota. Some archaea have a separate homocitrate
           synthase (AksA) which also synthesizes longer
           homocitrate analogs.
          Length = 344

 Score = 29.0 bits (65), Expect = 1.6
 Identities = 17/50 (34%), Positives = 23/50 (46%)

Query: 116 EGTGFEGVVYATEPTLQIGKFYLEELVQYIEKTPKLTSASHWKDISHLIS 165
           EG  F G  ++TE  ++I K   E  + YIE T    S     DI  + S
Sbjct: 8   EGEQFPGANFSTEQKIEIAKALDEFGIDYIEVTHPAASKQSRIDIEIIAS 57


>gnl|CDD|189017 cd09610, M3B_PepF_5, Peptidase family M3B Oligopeptidase F (PepF). 
           Peptidase family M3B Oligopeptidase F (PepF;
           Pz-peptidase B; EC 3.4.24.-) is mostly bacterial and
           includes oligoendopeptidase F from Lactococcus lactis.
           This enzyme hydrolyzes peptides containing between 7 and
           17 amino acids with fairly broad specificity. The PepF
           gene is duplicated in L. lactis on the plasmid that
           bears it, while a shortened second copy is found in
           Bacillus subtilis. Most bacterial PepFs are cytoplasmic
           endopeptidases; however, the PepF Bacillus
           amyloliquefaciens oligopeptidase is a secreted protein
           and may facilitate the process of sporulation.
           Specifically, the yjbG gene encoding the homolog of the
           PepF1 and PepF2 oligoendopeptidases of Lactococcus
           lactis has been identified in Bacillus subtilis as an
           inhibitor of sporulation initiation when over expressed
           from a multicopy plasmid.
          Length = 472

 Score = 28.0 bits (63), Expect = 4.2
 Identities = 12/39 (30%), Positives = 20/39 (51%), Gaps = 3/39 (7%)

Query: 132 QIGKFYLEELVQYIEKTPKLTSASH--WKDISHLI-SPF 167
           ++ + +LEEL +    + +LT      W  I H I +PF
Sbjct: 367 ELSELWLEELREMFGDSVELTENYRWWWSYIPHFIHTPF 405


>gnl|CDD|216325 pfam01140, Gag_MA, Matrix protein (MA), p15.  The matrix protein,
           p15, is encoded by the gag gene. MA is involved in
           pathogenicity.
          Length = 129

 Score = 26.7 bits (59), Expect = 5.2
 Identities = 10/32 (31%), Positives = 15/32 (46%)

Query: 148 TPKLTSASHWKDISHLISPFSEDIKPRSWRQL 179
           TP   +  HWKD+       S ++K   W+ L
Sbjct: 6   TPLSLTLDHWKDVRRRAHNQSVEVKKGKWQTL 37


>gnl|CDD|225655 COG3113, COG3113, Predicted NTP binding protein (contains STAS
           domain) [General function prediction only].
          Length = 99

 Score = 25.8 bits (57), Expect = 8.2
 Identities = 10/52 (19%), Positives = 13/52 (25%), Gaps = 7/52 (13%)

Query: 151 LTSASHW---KDISHLISPFSEDIKPRSWRQLYNLQS----VYASLARVQMV 195
           ++    W    D   L      D     W Q          V   L+ V  V
Sbjct: 1   MSWPLSWNLDGDTLVLSGELDRDTLLPLWSQREAQLKQLDTVRIDLSGVSRV 52


  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    0.138    0.424 

Gapped
Lambda     K      H
   0.267   0.0738    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 10,358,377
Number of extensions: 938818
Number of successful extensions: 796
Number of sequences better than 10.0: 1
Number of HSP's gapped: 796
Number of HSP's successfully gapped: 15
Length of query: 203
Length of database: 10,937,602
Length adjustment: 92
Effective length of query: 111
Effective length of database: 6,857,034
Effective search space: 761130774
Effective search space used: 761130774
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 (21.9 bits)
S2: 57 (25.7 bits)