RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy6200
         (112 letters)



>gnl|CDD|224446 COG1529, CoxL, Aerobic-type carbon monoxide dehydrogenase, large
           subunit CoxL/CutL homologs [Energy production and
           conversion].
          Length = 731

 Score = 29.2 bits (66), Expect = 0.37
 Identities = 6/16 (37%), Positives = 7/16 (43%)

Query: 87  ANKGPTGTFRGPGAAS 102
            N  P G +RG G   
Sbjct: 337 TNMPPNGAYRGAGRPE 352


>gnl|CDD|217210 pfam02738, Ald_Xan_dh_C2, Molybdopterin-binding domain of aldehyde
           dehydrogenase. 
          Length = 543

 Score = 28.8 bits (65), Expect = 0.62
 Identities = 8/25 (32%), Positives = 8/25 (32%), Gaps = 3/25 (12%)

Query: 77  HRCLQCGTSWANKGPTGTFRGPGAA 101
                  T   N  P G FRG G  
Sbjct: 197 IEGTAVYT---NLPPNGAFRGFGGP 218


>gnl|CDD|236170 PRK08166, PRK08166, NADH dehydrogenase subunit G; Validated.
          Length = 791

 Score = 28.0 bits (63), Expect = 1.2
 Identities = 13/37 (35%), Positives = 16/37 (43%), Gaps = 6/37 (16%)

Query: 50  SDGEATESSDEEHKRVDFRYLFIQ----NHPHRCLQC 82
           +DG      D E K   FR   ++    NHPH C  C
Sbjct: 72  TDGTFISIDDPEAKA--FRASVVEWLMTNHPHDCPVC 106


>gnl|CDD|239122 cd02657, Peptidase_C19A, A subfamily of Peptidase C19. Peptidase
           C19 contains ubiquitinyl hydrolases. They are
           intracellular peptidases that remove ubiquitin molecules
           from polyubiquinated peptides by cleavage of isopeptide
           bonds. They hydrolyse bonds involving the carboxyl group
           of the C-terminal Gly residue of ubiquitin. The purpose
           of the de-ubiquitination is thought to be editing of the
           ubiquitin conjugates, which could rescue them from
           degradation, as well as recycling of the ubiquitin. The
           ubiquitin/proteasome system is responsible for most
           protein turnover in the mammalian cell, and with over 50
           members, family C19 is one of the largest families of
           peptidases in the human genome.
          Length = 305

 Score = 27.3 bits (61), Expect = 1.9
 Identities = 17/56 (30%), Positives = 26/56 (46%), Gaps = 3/56 (5%)

Query: 10  NECFQSVLKSSQRKLLKASRDKSFLLDRLL--EYEKPVWSDSSDGEATESSDEEHK 63
            EC+  +L    +KL  A    SF +D+L   E E  +    S  E   S++ E+K
Sbjct: 94  EECWSQLLSVLSQKLPGAGSKGSF-IDQLFGIELETKMKCTESPDEEEVSTESEYK 148


>gnl|CDD|233401 TIGR01413, Dyp_perox_fam, Dyp-type peroxidase family.  A defined
           member of this superfamily is Dyp, a dye-decolorizing
           peroxidase that lacks a typical heme-binding region. A
           distinct, uncharacterized branch (TIGR01412) of this
           superfamily has a typical twin-arginine dependent signal
           sequence characteristic of exported proteins with bound
           redox cofactors.
          Length = 308

 Score = 26.9 bits (60), Expect = 2.4
 Identities = 15/43 (34%), Positives = 23/43 (53%), Gaps = 5/43 (11%)

Query: 3   LLFIFQENECFQSVLKSSQRKLLKASRDKSFLLDRLLEYEKPV 45
           LLFI      +Q  L++ + +L +   D     DRLLE+ +PV
Sbjct: 258 LLFI-----AYQRSLENGEIQLQRMFGDNDGATDRLLEFTRPV 295


>gnl|CDD|223965 COG1034, NuoG, NADH dehydrogenase/NADH:ubiquinone oxidoreductase 75
           kD subunit (chain G) [Energy production and conversion].
          Length = 693

 Score = 26.6 bits (59), Expect = 3.2
 Identities = 12/38 (31%), Positives = 17/38 (44%), Gaps = 8/38 (21%)

Query: 50  SDGEATESSDEE-----HKRVDFRYLFIQNHPHRCLQC 82
           +DG    ++ EE        ++F  L I NHP  C  C
Sbjct: 67  TDGMVISTNSEEVKKAREGVMEF--LLI-NHPLDCPVC 101


>gnl|CDD|217993 pfam04261, Dyp_perox, Dyp-type peroxidase family.  This family of
           dye-decolourising peroxidases lack a typical
           heme-binding region.
          Length = 311

 Score = 25.8 bits (57), Expect = 5.3
 Identities = 14/43 (32%), Positives = 20/43 (46%), Gaps = 5/43 (11%)

Query: 3   LLFIFQENECFQSVLKSSQRKLLKASRDKSFLLDRLLEYEKPV 45
           LLFI      +Q  L++ +  LL+         D LLE+  PV
Sbjct: 261 LLFI-----AYQRTLENGEVMLLRMFGGTDGKTDALLEFTTPV 298


>gnl|CDD|182108 PRK09847, PRK09847, gamma-glutamyl-gamma-aminobutyraldehyde
          dehydrogenase; Provisional.
          Length = 494

 Score = 25.6 bits (56), Expect = 6.8
 Identities = 18/47 (38%), Positives = 26/47 (55%), Gaps = 5/47 (10%)

Query: 9  ENECFQSVLKSSQRKLLKASRDKSFLLDRLLE-----YEKPVWSDSS 50
          ENE F++V   +Q  L K +R KS  +DR +      +E+  WS SS
Sbjct: 33 ENETFETVDPVTQAPLAKIARGKSVDIDRAVSAARGVFERGDWSLSS 79


>gnl|CDD|234515 TIGR04234, seadorna_RNAP, seadornavirus RNA-directed RNA
           polymerase.  Members of this protein family are the
           seadornavirus VP1 protein, the RNA-directed RNA
           polymerase.
          Length = 1144

 Score = 25.6 bits (56), Expect = 8.5
 Identities = 17/62 (27%), Positives = 26/62 (41%), Gaps = 11/62 (17%)

Query: 10  NECFQSVLKSSQRKLLKASRDKSFLLDRLLEYEKPVWSDSSDGEATESSDEEHKRVDFRY 69
           N  F+ V +   + L +   DKS  LD L +           G ++ SS   HK +  RY
Sbjct: 369 NNMFEYV-REGFQPLERGMLDKSTRLDILFK----------GGTSSASSTNPHKSIGARY 417

Query: 70  LF 71
            +
Sbjct: 418 RY 419


  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   0.0723    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,364,849
Number of extensions: 424210
Number of successful extensions: 393
Number of sequences better than 10.0: 1
Number of HSP's gapped: 393
Number of HSP's successfully gapped: 14
Length of query: 112
Length of database: 10,937,602
Length adjustment: 76
Effective length of query: 36
Effective length of database: 7,566,698
Effective search space: 272401128
Effective search space used: 272401128
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)