RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy6173
         (137 letters)



>gnl|CDD|235162 PRK03815, murD, UDP-N-acetylmuramoyl-L-alanyl-D-glutamate
           synthetase; Provisional.
          Length = 401

 Score = 28.8 bits (65), Expect = 0.80
 Identities = 12/38 (31%), Positives = 17/38 (44%)

Query: 77  DSFVWKGHARLGVKHTDSKDKEPSKALLKSVSPGFQPT 114
           D F        G     S D +P+K+ L+  SPG  P+
Sbjct: 30  DKFTESHKDEEGNLLLPSNDFDPNKSDLEIPSPGIPPS 67


>gnl|CDD|149877 pfam08943, CsiD, CsiD.  This family consists of various bacterial
           proteins pertaining to the non-haem Fe(II)-dependent
           oxygenase family. Exact function is unknown, but a
           putative role includes involvement in the control of
           utilisation of gamma-aminobutyric acid.
          Length = 297

 Score = 27.7 bits (62), Expect = 2.0
 Identities = 18/63 (28%), Positives = 26/63 (41%), Gaps = 5/63 (7%)

Query: 39  GTLLIAGTAGHVI-LAKLSTKTSTDVTVKIST----MNIVSDRDSFVWKGHARLGVKHTD 93
           G +    T G +I    L      D  VK ST    +    + D+   K +AR  VK+ D
Sbjct: 66  GIVKDRETGGFLIGPQGLDAVAQADDMVKFSTAVAHLIGRPNFDAMSGKYYARFVVKNED 125

Query: 94  SKD 96
           + D
Sbjct: 126 NSD 128


>gnl|CDD|177725 PLN00110, PLN00110, flavonoid 3',5'-hydroxylase (F3'5'H);
          Provisional.
          Length = 504

 Score = 27.1 bits (60), Expect = 3.1
 Identities = 12/38 (31%), Positives = 22/38 (57%)

Query: 36 PVTGTLLIAGTAGHVILAKLSTKTSTDVTVKISTMNIV 73
          P+ G L + G   HV LAK++ +    + +K+ T ++V
Sbjct: 40 PLLGALPLLGNMPHVALAKMAKRYGPVMFLKMGTNSMV 77


>gnl|CDD|235092 PRK02963, PRK02963, carbon starvation induced protein; Validated.
          Length = 316

 Score = 26.9 bits (60), Expect = 3.7
 Identities = 16/63 (25%), Positives = 27/63 (42%), Gaps = 5/63 (7%)

Query: 39  GTLLIAGTAGHVI-LAKLSTKTSTDVTVKIST----MNIVSDRDSFVWKGHARLGVKHTD 93
            TLL       +I    +      D  VK++T    +   S+ D+   + +AR  VK+ D
Sbjct: 79  KTLLDRAEGAFLINAVGIDDVAQADEMVKLATAVAHLIGRSNFDAMSGQYYARFVVKNVD 138

Query: 94  SKD 96
           + D
Sbjct: 139 NSD 141


>gnl|CDD|226588 COG4103, COG4103, Uncharacterized protein conserved in bacteria
          [Function unknown].
          Length = 148

 Score = 26.2 bits (58), Expect = 5.3
 Identities = 8/16 (50%), Positives = 10/16 (62%)

Query: 19 DPYSDDPRLAVKKICF 34
          D  +DDPRLA   + F
Sbjct: 21 DNSADDPRLAAAALLF 36


>gnl|CDD|240897 cd12451, RRM2_NUCLs, RNA recognition motif 2 in nucleolin-like
          proteins mainly from plants.  This subfamily
          corresponds to the RRM2 of a group of plant
          nucleolin-like proteins, including nucleolin 1 (also
          termed protein nucleolin like 1) and nucleolin 2 (also
          termed protein nucleolin like 2, or protein parallel
          like 1). They play roles in the regulation of ribosome
          synthesis and in the growth and development of plants.
          Like yeast nucleolin, nucleolin-like proteins possess
          two RNA recognition motifs (RRMs), also termed RBDs
          (RNA binding domains) or RNPs (ribonucleoprotein
          domains).  .
          Length = 79

 Score = 25.4 bits (56), Expect = 5.3
 Identities = 10/31 (32%), Positives = 18/31 (58%)

Query: 67 ISTMNIVSDRDSFVWKGHARLGVKHTDSKDK 97
          I+ ++I +DR++   KG A +  K  D  +K
Sbjct: 30 ITRVSIPTDRETGASKGFAYIEFKSVDGVEK 60


>gnl|CDD|130212 TIGR01142, purT, phosphoribosylglycinamide formyltransferase 2.
           This enzyme is an alternative to PurN (TIGR00639)
           [Purines, pyrimidines, nucleosides, and nucleotides,
           Purine ribonucleotide biosynthesis].
          Length = 380

 Score = 26.2 bits (58), Expect = 5.9
 Identities = 20/88 (22%), Positives = 32/88 (36%), Gaps = 11/88 (12%)

Query: 27  LAVKKICFCPVTGTLLIAGTAGHVILAKLSTKTSTDVTVKISTMNIVSDRDSFV------ 80
           L V+ I   P+ G   +   A  VI AK+   T      +      +S  ++ V      
Sbjct: 290 LHVRAILGLPIPGIPQLGPAASAVIKAKV---TGYSPAFR-GLEKALSVPNTQVRLFGKP 345

Query: 81  -WKGHARLGVKHTDSKDKEPSKALLKSV 107
                 RLGV    +K  E ++   + V
Sbjct: 346 EAYVGRRLGVALATAKSVEAARERAEEV 373


  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
   0.317    0.132    0.403 

Gapped
Lambda     K      H
   0.267   0.0706    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,393,364
Number of extensions: 522708
Number of successful extensions: 357
Number of sequences better than 10.0: 1
Number of HSP's gapped: 357
Number of HSP's successfully gapped: 11
Length of query: 137
Length of database: 10,937,602
Length adjustment: 87
Effective length of query: 50
Effective length of database: 7,078,804
Effective search space: 353940200
Effective search space used: 353940200
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 (21.7 bits)
S2: 54 (24.6 bits)