RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy2555
         (90 letters)



>gnl|CDD|215358 PLN02666, PLN02666, 5-oxoprolinase.
          Length = 1275

 Score =  129 bits (325), Expect = 2e-36
 Identities = 48/81 (59%), Positives = 64/81 (79%), Gaps = 5/81 (6%)

Query: 10  FGPDGGLVSNAPHIPVHLGSMQEAVKFQIDHRKGNFKKGSVILSNHPKAGGSHLPDLTVI 69
           FGPDGGLV+NAPH+PVHLG+M   V++Q+++   N  +G V+++NHP+AGGSHLPD+TVI
Sbjct: 786 FGPDGGLVANAPHVPVHLGAMSSTVRWQLEYWGENLNEGDVLVTNHPQAGGSHLPDITVI 845

Query: 70  TPVFIDSQPVEEGPVFFVANR 90
           TPVF D +      VFFVA+R
Sbjct: 846 TPVFRDGK-----IVFFVASR 861


>gnl|CDD|217092 pfam02538, Hydantoinase_B, Hydantoinase B/oxoprolinase.  This
           family includes N-methylhydaintoinase B which converts
           hydantoin to N-carbamyl-amino acids, and 5-oxoprolinase
           EC:3.5.2.9 which catalyzes the formation of L-glutamate
           from 5-oxo-L-proline. These enzymes are part of the
           oxoprolinase family and are related to pfam01968.
          Length = 527

 Score =  102 bits (256), Expect = 3e-27
 Identities = 40/81 (49%), Positives = 53/81 (65%), Gaps = 5/81 (6%)

Query: 10  FGPDGGLVSNAPHIPVHLGSMQEAVKFQIDHRKGNFKKGSVILSNHPKAGGSHLPDLTVI 69
           F  +G LV+NAPHIPVHLGSM  +VK  +   +G  + G V + N P  GG+HLPD+TVI
Sbjct: 44  FDANGNLVANAPHIPVHLGSMGTSVKEMVKLWEGGIEPGDVYIVNDPYIGGTHLPDITVI 103

Query: 70  TPVFIDSQPVEEGPVFFVANR 90
           TP+F        G +F+VA+R
Sbjct: 104 TPIFYS-----GGLIFYVASR 119


>gnl|CDD|223224 COG0146, HyuB, N-methylhydantoinase B/acetone carboxylase, alpha
           subunit [Amino acid transport and metabolism / Secondary
           metabolites biosynthesis, transport, and catabolism].
          Length = 563

 Score =  102 bits (256), Expect = 3e-27
 Identities = 39/83 (46%), Positives = 53/83 (63%), Gaps = 7/83 (8%)

Query: 10  FGPDGGLVSNAPHIPVHLGSMQEAVKFQIDHRKGN--FKKGSVILSNHPKAGGSHLPDLT 67
           F  +G LV+ APHIPVHLGSM  +VK  I + K N   + G V ++N P  GG+HLPD+T
Sbjct: 45  FDAEGNLVAQAPHIPVHLGSMSVSVKAMIRNNKENPDLEPGDVFITNDPYIGGTHLPDVT 104

Query: 68  VITPVFIDSQPVEEGPVFFVANR 90
           ++TPVF      +   + +VANR
Sbjct: 105 LVTPVF-----HDGKLIGYVANR 122


>gnl|CDD|216692 pfam01771, Herpes_alk_exo, Herpesvirus alkaline exonuclease.  This
           family includes various alkaline exonucleases from
           members of the herpesviridae. Alkaline exonuclease
           appears to have an important role in the replication of
           herpes simplex virus.
          Length = 458

 Score = 25.8 bits (57), Expect = 3.7
 Identities = 7/20 (35%), Positives = 13/20 (65%)

Query: 62  HLPDLTVITPVFIDSQPVEE 81
            +P L ++TPV +D +  E+
Sbjct: 412 EIPVLLIVTPVVVDPEVTED 431


>gnl|CDD|238038 cd00085, HNHc, HNH nucleases; HNH endonuclease signature which is
          found in viral, prokaryotic, and eukaryotic proteins.
          The alignment includes members of the large group of
          homing endonucleases, yeast intron 1 protein, MutS, as
          well as bacterial colicins, pyocins, and anaredoxins.
          Length = 57

 Score = 24.4 bits (53), Expect = 4.1
 Identities = 6/28 (21%), Positives = 9/28 (32%)

Query: 28 GSMQEAVKFQIDHRKGNFKKGSVILSNH 55
          G        ++DH       G+  L N 
Sbjct: 18 GKPGGTEGLEVDHIIPLSDGGNNDLDNL 45


>gnl|CDD|219558 pfam07759, DUF1615, Protein of unknown function (DUF1615).  This is
           a family of proteins of unknown function expressed by
           various bacterial species. Some members of this family
           are thought to be lipoproteins. Another member of this
           family is thought to be involved in photosynthesis.
          Length = 318

 Score = 25.3 bits (56), Expect = 4.9
 Identities = 9/21 (42%), Positives = 11/21 (52%), Gaps = 1/21 (4%)

Query: 24  PVH-LGSMQEAVKFQIDHRKG 43
           PV   G MQ ++ F   H KG
Sbjct: 123 PVTTGGPMQVSIAFAEQHAKG 143


>gnl|CDD|129392 TIGR00291, RNA_SBDS, rRNA metabolism protein, SBDS family.  This
           protein family, possibly universal in both archaea and
           eukaryotes, appears to be involved in (ribosomal) RNA
           metabolism. Mutations in the human ortholog are
           associated with Shwachman-Bodian-Diamond syndrome
           [Protein synthesis, Other].
          Length = 231

 Score = 25.2 bits (55), Expect = 5.8
 Identities = 10/39 (25%), Positives = 16/39 (41%), Gaps = 4/39 (10%)

Query: 1   MNNFVSKESFGPDGGLVSNAPHIPVHLGSMQEAVKFQID 39
           + N +S+ +  P     +  PH P  +    E  K  ID
Sbjct: 103 IINIISRNTINP----QTKKPHPPTRIEKALEEAKVHID 137


>gnl|CDD|223841 COG0770, MurF, UDP-N-acetylmuramyl pentapeptide synthase [Cell
          envelope biogenesis, outer membrane].
          Length = 451

 Score = 25.0 bits (55), Expect = 7.5
 Identities = 10/28 (35%), Positives = 15/28 (53%)

Query: 59 GGSHLPDLTVITPVFIDSQPVEEGPVFF 86
          G     D  V++ V IDS+ V+ G +F 
Sbjct: 14 GALVGADPVVVSGVSIDSRKVKPGDLFV 41


  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
   0.318    0.138    0.411 

Gapped
Lambda     K      H
   0.267   0.0750    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,585,770
Number of extensions: 363202
Number of successful extensions: 273
Number of sequences better than 10.0: 1
Number of HSP's gapped: 272
Number of HSP's successfully gapped: 11
Length of query: 90
Length of database: 10,937,602
Length adjustment: 58
Effective length of query: 32
Effective length of database: 8,365,070
Effective search space: 267682240
Effective search space used: 267682240
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 (21.6 bits)
S2: 53 (24.2 bits)