RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy5433
         (100 letters)



>gnl|CDD|217935 pfam04158, Sof1, Sof1-like domain.  Sof1 is essential for cell
          growth and is a component of the nucleolar rRNA
          processing machinery.
          Length = 88

 Score = 81.6 bits (202), Expect = 5e-22
 Identities = 42/81 (51%), Positives = 60/81 (74%)

Query: 16 GYVNNKQRQALDYSESLKQKYAHHPQIRRIARHRQVPRHIYNAQAEHRAIRSKQKRKESN 75
          G ++ ++RQAL+Y+E+LK+KY H P+I+RIARHR VP+ I  AQ   R ++  +KRKE N
Sbjct: 8  GVLSPRERQALEYNEALKEKYKHMPEIKRIARHRHVPKAIKKAQKIKREMKEAKKRKEEN 67

Query: 76 KRTHSAPGTVPQTKERQRAVV 96
          +R HS PG+VP   ER++ VV
Sbjct: 68 RRKHSKPGSVPPKPERKKHVV 88


>gnl|CDD|238309 cd00553, NAD_synthase, NAD+ synthase is a homodimer, which
           catalyzes the final step in de novo nicotinamide adenine
           dinucleotide (NAD+) biosynthesis, an amide transfer from
           either ammonia or glutamine to nicotinic acid adenine
           dinucleotide (NaAD). The conversion of NaAD to NAD+
           occurs via an NAD-adenylate intermediate and requires
           ATP and Mg2+. The intemediate is subsequently cleaved
           into NAD+ and AMP. In many prokaryotes, such as E. coli
           , NAD synthetase consists of a single domain and is
           strictly ammonia dependent. In contrast, eukaryotes and
           other prokaryotes have an additional N-terminal
           amidohydrolase domain that prefer glutamine,
           Interestingly, NAD+ synthases in these prokaryotes, can
           also utilize ammonia as an amide source .
          Length = 248

 Score = 26.0 bits (58), Expect = 3.2
 Identities = 7/18 (38%), Positives = 11/18 (61%)

Query: 41  QIRRIARHRQVPRHIYNA 58
           Q+R +AR+  VP  I + 
Sbjct: 167 QVRELARYLGVPESIIDK 184


>gnl|CDD|235668 PRK06007, fliF, flagellar MS-ring protein; Reviewed.
          Length = 542

 Score = 26.0 bits (58), Expect = 3.5
 Identities = 8/26 (30%), Positives = 13/26 (50%)

Query: 61  EHRAIRSKQKRKESNKRTHSAPGTVP 86
               +RS+Q  +E++      PG VP
Sbjct: 286 NQGVVRSEQTVEETSTGQGGNPGGVP 311


>gnl|CDD|178768 PLN03229, PLN03229, acetyl-coenzyme A carboxylase carboxyl
           transferase subunit alpha; Provisional.
          Length = 762

 Score = 26.0 bits (57), Expect = 3.8
 Identities = 15/35 (42%), Positives = 19/35 (54%), Gaps = 5/35 (14%)

Query: 28  YSESLKQKYAHHPQIRR--IARHRQVPR---HIYN 57
           Y ++LK  Y H   I+R  IARH   P    HI+N
Sbjct: 135 YQQALKDLYTHLTPIQRVNIARHPNRPTFLDHIFN 169


>gnl|CDD|234528 TIGR04264, hyperosmo_Ebh, hyperosmolarity resistance protein Ebh,
           N-terminal domain.  Staphylococcal protein Ebh
           (extracellular matrix-binding protein homolog) is a
           giant protein, sometimes over 10,000 amino acids long as
           reported. This model describes a non-repetitive
           amino-terminal domain of about 2400 amino acids.
          Length = 2354

 Score = 25.6 bits (56), Expect = 5.8
 Identities = 12/38 (31%), Positives = 17/38 (44%), Gaps = 3/38 (7%)

Query: 3   WSPVGPELSFRVKGYVNNKQRQALDYSESLKQKYAHHP 40
              V PEL   +  + NN+ +   +  ES   K A HP
Sbjct: 487 NLYVKPELQQNIGFFSNNETQNREESPES---KAAGHP 521


>gnl|CDD|236584 PRK09602, PRK09602, translation-associated GTPase; Reviewed.
          Length = 396

 Score = 25.2 bits (56), Expect = 7.3
 Identities = 9/26 (34%), Positives = 17/26 (65%)

Query: 11  SFRVKGYVNNKQRQALDYSESLKQKY 36
            F + G ++ KQ++AL+Y   + +KY
Sbjct: 275 DFEILGELSEKQKKALEYIREVLKKY 300


>gnl|CDD|223249 COG0171, NadE, NAD synthase [Coenzyme metabolism].
          Length = 268

 Score = 24.9 bits (55), Expect = 8.4
 Identities = 6/18 (33%), Positives = 9/18 (50%)

Query: 41  QIRRIARHRQVPRHIYNA 58
           Q+  +ARH  +P  I   
Sbjct: 174 QVYALARHLGIPEEILKK 191


>gnl|CDD|184435 PRK13980, PRK13980, NAD synthetase; Provisional.
          Length = 265

 Score = 24.8 bits (55), Expect = 9.4
 Identities = 8/15 (53%), Positives = 10/15 (66%)

Query: 41  QIRRIARHRQVPRHI 55
           Q+R +ARH  VP  I
Sbjct: 169 QVRELARHLGVPEDI 183


  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
   0.316    0.127    0.370 

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: 4,978,239
Number of extensions: 397096
Number of successful extensions: 514
Number of sequences better than 10.0: 1
Number of HSP's gapped: 514
Number of HSP's successfully gapped: 30
Length of query: 100
Length of database: 10,937,602
Length adjustment: 66
Effective length of query: 34
Effective length of database: 8,010,238
Effective search space: 272348092
Effective search space used: 272348092
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: 53 (24.2 bits)