RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy8052
         (67 letters)



>gnl|CDD|131097 TIGR02042, sir, ferredoxin-sulfite reductase.  Distantly related to
           the iron-sulfur hemoprotein of sulfite reductase (NADPH)
           found in Proteobacteria and Eubacteria, sulfite
           reductase (ferredoxin) is a cyanobacterial and plant
           monomeric enzyme that also catalyzes the reduction of
           sulfite to sulfide [Central intermediary metabolism,
           Sulfur metabolism].
          Length = 577

 Score = 28.7 bits (64), Expect = 0.17
 Identities = 8/20 (40%), Positives = 14/20 (70%)

Query: 42  LHGIEPRNVRAVMKRIIEEL 61
           LHGI  +N++ V+  I++ L
Sbjct: 107 LHGILKKNLKTVISTIVKNL 126


>gnl|CDD|147988 pfam06120, Phage_HK97_TLTM, Tail length tape measure protein.  This
           family consists of the tail length tape measure protein
           from bacteriophage HK97 and related sequences from
           Escherichia coli O157:H7.
          Length = 311

 Score = 27.5 bits (60), Expect = 0.49
 Identities = 10/40 (25%), Positives = 18/40 (45%)

Query: 21  LEIERSIISQMLRKSVEAKDWLHGIEPRNVRAVMKRIIEE 60
           L +E   + QML K  E +  +  IE + +  +  +  E 
Sbjct: 146 LAVEEERLEQMLAKRKEIQQLIEDIEDQAIDLIRNKAAEM 185


>gnl|CDD|236846 PRK11100, PRK11100, sensory histidine kinase CreC; Provisional.
          Length = 475

 Score = 26.7 bits (60), Expect = 0.79
 Identities = 11/51 (21%), Positives = 27/51 (52%), Gaps = 3/51 (5%)

Query: 15  FLGVVVLEIER--SIISQMLRKS-VEAKDWLHGIEPRNVRAVMKRIIEELT 62
           F G ++ +  R   +I ++L  + +E +  L  +EP  + A+++ ++E   
Sbjct: 293 FTGNILTQSARLQQLIDRLLELARLEQRQELEVLEPVALAALLEELVEARE 343


>gnl|CDD|237402 PRK13504, PRK13504, sulfite reductase subunit beta; Provisional.
          Length = 569

 Score = 26.7 bits (60), Expect = 0.86
 Identities = 7/20 (35%), Positives = 12/20 (60%)

Query: 42  LHGIEPRNVRAVMKRIIEEL 61
            HGI  +N++ V++ I   L
Sbjct: 117 FHGILKKNLKPVIQTINSVL 136


>gnl|CDD|233960 TIGR02642, phage_xxxx, uncharacterized phage protein.  This
           uncharacterized protein is found in prophage regions of
           Shewanella oneidensis MR-1, Vibrio vulnificus YJ016,
           Yersinia pseudotuberculosis IP 32953, and Aeromonas
           hydrophila ATCC7966. It appears to have regions of
           sequence similarity to phage lambda antitermination
           protein Q [Mobile and extrachromosomal element
           functions, Prophage functions].
          Length = 186

 Score = 25.2 bits (55), Expect = 2.8
 Identities = 9/31 (29%), Positives = 12/31 (38%)

Query: 30  QMLRKSVEAKDWLHGIEPRNVRAVMKRIIEE 60
           Q++       D L   E    R V +RI  E
Sbjct: 154 QVVTSVRAQVDALRRHESDAARVVERRIRLE 184


>gnl|CDD|181174 PRK07938, PRK07938, enoyl-CoA hydratase; Provisional.
          Length = 249

 Score = 24.9 bits (55), Expect = 3.2
 Identities = 12/35 (34%), Positives = 22/35 (62%), Gaps = 6/35 (17%)

Query: 21  LEIERSIISQ---MLRKSVEAKDWLHGIEPRNVRA 52
           LE+ R I ++   ++R    AK+ L+GI+P++V  
Sbjct: 187 LEVARKIAAKDTRVIRA---AKEALNGIDPQDVER 218


>gnl|CDD|223120 COG0042, COG0042, tRNA-dihydrouridine synthase [Translation,
          ribosomal structure and biogenesis].
          Length = 323

 Score = 24.2 bits (53), Expect = 5.4
 Identities = 11/32 (34%), Positives = 17/32 (53%)

Query: 1  MVTSLSLLFGSSPDFLGVVVLEIERSIISQML 32
          MV++ +LL G     L +  LE ER +  Q+ 
Sbjct: 43 MVSAKALLHGRKKFLLLLDELEEERPVAVQLG 74


>gnl|CDD|213231 cd03264, ABC_drug_resistance_like, ABC-type multidrug transport
           system, ATPase component.  The biological function of
           this family is not well characterized, but display ABC
           domains similar to members of ABCA subfamily. ABC
           transporters are a large family of proteins involved in
           the transport of a wide variety of different compounds,
           like sugars, ions, peptides, and more complex organic
           molecules. The nucleotide binding domain shows the
           highest similarity between all members of the family.
           ABC transporters are a subset of nucleotide hydrolases
           that contain a signature motif, Q-loop, and
           H-loop/switch region, in addition to, the Walker A
           motif/P-loop and Walker B motif commonly found in a
           number of ATP- and GTP-binding and hydrolyzing proteins.
          Length = 211

 Score = 24.1 bits (53), Expect = 6.7
 Identities = 9/25 (36%), Positives = 15/25 (60%)

Query: 41  WLHGIEPRNVRAVMKRIIEELTLVD 65
           WL GI  + V+A +  ++E + L D
Sbjct: 98  WLKGIPSKEVKARVDEVLELVNLGD 122


>gnl|CDD|173195 PRK14733, coaE, dephospho-CoA kinase; Provisional.
          Length = 204

 Score = 23.8 bits (51), Expect = 7.1
 Identities = 13/48 (27%), Positives = 27/48 (56%), Gaps = 4/48 (8%)

Query: 22  EIERSIISQMLRKSVEAKDW----LHGIEPRNVRAVMKRIIEELTLVD 65
           +I R+++  ++ +S EAK W    LH +  + ++  +K     +T+VD
Sbjct: 67  QINRAMLRAIITESKEAKKWLEDYLHPVINKEIKKQVKESDTVMTIVD 114


>gnl|CDD|182100 PRK09834, PRK09834, DNA-binding transcriptional activator MhpR;
           Provisional.
          Length = 263

 Score = 23.8 bits (52), Expect = 7.8
 Identities = 8/34 (23%), Positives = 15/34 (44%), Gaps = 1/34 (2%)

Query: 24  ERSIISQMLRKSVEAKDWLHGIEPRNVRAVMKRI 57
           ER  + ++L      +D L     R + A++ R 
Sbjct: 155 EREALLELLASRPGDEDQLARDPAR-LEAMLART 187


>gnl|CDD|222709 pfam14362, DUF4407, Domain of unknown function (DUF4407).  This
          family of proteins is found in bacteria. Proteins in
          this family are typically between 366 and 597 amino
          acids in length. There is a single completely conserved
          residue R that may be functionally important.
          Length = 297

 Score = 23.8 bits (52), Expect = 9.3
 Identities = 13/49 (26%), Positives = 27/49 (55%), Gaps = 4/49 (8%)

Query: 6  SLLFGSSPDFLGVVVLEIERSIISQMLRKSVEAKDWLHGIEPRNVRAVM 54
          ++LFG      G+V+  ++R I+S + ++    +  L  + PR + AV+
Sbjct: 48 AILFGL---VWGLVIFNLDRFIVSTIKKRDSGRRRLLQAL-PRLLLAVL 92


  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
   0.321    0.137    0.373 

Gapped
Lambda     K      H
   0.267   0.0791    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,481,096
Number of extensions: 261495
Number of successful extensions: 274
Number of sequences better than 10.0: 1
Number of HSP's gapped: 273
Number of HSP's successfully gapped: 18
Length of query: 67
Length of database: 10,937,602
Length adjustment: 38
Effective length of query: 29
Effective length of database: 9,252,150
Effective search space: 268312350
Effective search space used: 268312350
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 (24.1 bits)