RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy842
         (111 letters)



>gnl|CDD|220631 pfam10210, MRP-S32, Mitochondrial 28S ribosomal protein S32.
          This entry is of a family of short, approximately 100
          amino acid residues, proteins which are mitochondrial
          28S ribosomal proteins named as MRP-S32. Their exact
          function could not be confirmed.
          Length = 96

 Score = 86.8 bits (215), Expect = 8e-24
 Identities = 34/85 (40%), Positives = 52/85 (61%)

Query: 15 IAITADGTTVVCWHPEQPFPYEHSLPLPVTEQQSTNSILKVQNVQEIYNVFKPKKEEFVR 74
          +A+T+DG T+VCWHP    PYEH+ PLP  +   +N+    Q ++     FK K  E +R
Sbjct: 6  VALTSDGRTIVCWHPSVDVPYEHTKPLPRPDPLHSNAETHEQVLKTALEKFKHKHPEPMR 65

Query: 75 QDLMNITFTNKHRWFPVRKMRQKKR 99
          ++L  + FT KHRW+P  + R+ K+
Sbjct: 66 EELSKVFFTTKHRWYPRGRDRRAKK 90


>gnl|CDD|234031 TIGR02840, spore_YtaF, putative sporulation protein YtaF.  This
           protein family was identified, at the time of the
           publication of the Carboxydothermus hydrogenoformans
           genome, as having a phylogenetic profile that exactly
           matches the subset of the Firmicutes capable of forming
           endospores. The species include Bacillus anthracis,
           Clostridium tetani, Thermoanaerobacter tengcongensis,
           Geobacillus kaustophilus, etc. This protein, previously
           named YtaF, is therefore a putative sporulation protein
           [Cellular processes, Sporulation and germination].
          Length = 206

 Score = 26.5 bits (59), Expect = 2.8
 Identities = 22/70 (31%), Positives = 29/70 (41%), Gaps = 7/70 (10%)

Query: 39  LPLPVTEQQSTNSILKVQNVQEIYNVFKPKKEEFVRQDLMNITFTNKHRWFPVRKMRQKK 98
           LP  VTE      IL    +  IYN F+PKKE   R    + T   K   F ++ +R   
Sbjct: 58  LPPKVTEILGA-FILIAIGIWIIYNAFRPKKEVKDRSSEPDSTKELKSFGFVIQILR--- 113

Query: 99  RYFKPLIPDR 108
               P + D 
Sbjct: 114 ---NPEVADL 120


>gnl|CDD|235708 PRK06131, PRK06131, dihydroxy-acid dehydratase; Validated.
          Length = 571

 Score = 26.3 bits (59), Expect = 3.5
 Identities = 9/24 (37%), Positives = 15/24 (62%)

Query: 1   MSSLLRRLVPLTHKIAITADGTTV 24
           + ++LR L  L H  A+T +G T+
Sbjct: 323 LPAVLRELGELLHLDALTVNGKTL 346


>gnl|CDD|224965 COG2054, COG2054, Uncharacterized archaeal kinase related to
           aspartokinases, uridylate kinases [General function
           prediction only].
          Length = 212

 Score = 25.9 bits (57), Expect = 4.3
 Identities = 14/68 (20%), Positives = 24/68 (35%), Gaps = 17/68 (25%)

Query: 2   SSLLRRLVPLTHKIAITADGTTVVCWHPEQPFPYEHSLPLPVTEQQSTNSILKVQNVQEI 61
             LLR+  PL H   +T+D                 S+ + +  +     ++K  +V  I
Sbjct: 101 YRLLRKTDPLPHSWEVTSD-----------------SISVWIAAKAGATEVVKATDVDGI 143

Query: 62  YNVFKPKK 69
           Y      K
Sbjct: 144 YEEDPKGK 151


>gnl|CDD|188997 cd06459, M3B_PepF, 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 = 450

 Score = 26.3 bits (58), Expect = 4.5
 Identities = 15/76 (19%), Positives = 28/76 (36%), Gaps = 9/76 (11%)

Query: 35  YEHSLPLPVTEQQSTNSILKVQNVQEIYNVFKPKKEEFVRQDLMNITFTNKHRW--FPVR 92
           Y+   PLP   +    +   V N++E Y+   P+  EF+R          + RW      
Sbjct: 163 YDVPAPLPTGNEPKGTADEAVNNIREXYSRLSPEYAEFLRYAF-------EERWIDAVAN 215

Query: 93  KMRQKKRYFKPLIPDR 108
           K ++   +   +    
Sbjct: 216 KGKRPGAFCTYIYDYA 231


>gnl|CDD|215391 PLN02735, PLN02735, carbamoyl-phosphate synthase.
          Length = 1102

 Score = 25.5 bits (56), Expect = 8.0
 Identities = 9/44 (20%), Positives = 23/44 (52%), Gaps = 3/44 (6%)

Query: 53  LKVQNVQEIYNVFKPKKEEFVRQDLMNITFTNKHRWFPVRKMRQ 96
           L+V N   I+ ++   K+     ++  +TF +   WF + ++++
Sbjct: 444 LRVPNPDRIHAIYAAMKKGMTVDEIHELTFIDP--WF-LTQLKE 484


  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    0.136    0.421 

Gapped
Lambda     K      H
   0.267   0.0649    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,702,027
Number of extensions: 462593
Number of successful extensions: 464
Number of sequences better than 10.0: 1
Number of HSP's gapped: 464
Number of HSP's successfully gapped: 15
Length of query: 111
Length of database: 10,937,602
Length adjustment: 75
Effective length of query: 36
Effective length of database: 7,611,052
Effective search space: 273997872
Effective search space used: 273997872
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: 53 (24.4 bits)