RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy7193
         (136 letters)



>gnl|CDD|201987 pfam01813, ATP-synt_D, ATP synthase subunit D.  This is a family of
           subunit D form various ATP synthases including V-type H+
           transporting and Na+ dependent. Subunit D is suggested
           to be an integral part of the catalytic sector of the
           V-ATPase.
          Length = 191

 Score = 73.0 bits (180), Expect = 4e-17
 Identities = 34/119 (28%), Positives = 61/119 (51%), Gaps = 2/119 (1%)

Query: 16  NQSAIEARLVSAKRGHGLLKRKADALQFRFRSIHCKIVETRYLMADIMREAAIALSRAKF 75
               ++ RL  A+RGH LLK+K DAL   FR++  +  E R  + + ++EA  +L+ A  
Sbjct: 1   ELIRLKRRLKLAQRGHKLLKKKRDALIREFRALLREAKELREELEEALKEAYFSLALANA 60

Query: 76  ETNAVFNQIVIQNIGKAQMKLRLTRENIGGVFLTEYEAVENGPDVYQIAGLSTNGHHLN 134
                F + V +++ K  ++++++  NI GV +  +E VE         GL +    L+
Sbjct: 61  AEGIDFVESVAESV-KRVVEVKVSTRNIMGVKVPVFELVEVETAERPY-GLLSTSAWLD 117


>gnl|CDD|224312 COG1394, NtpD, Archaeal/vacuolar-type H+-ATPase subunit D [Energy
           production and conversion].
          Length = 211

 Score = 59.6 bits (145), Expect = 9e-12
 Identities = 43/125 (34%), Positives = 65/125 (52%), Gaps = 5/125 (4%)

Query: 7   KLPILPSRGNQSAIEARLVSAKRGHGLLKRKADALQFRFRSIHCKIVETRYLMADIMREA 66
            L + P+R     ++ RL  A+RGH LLK K DAL   FR+I  +  E R  +   + EA
Sbjct: 2   SLQVKPTRMELIRLKRRLKLARRGHKLLKLKRDALIMEFRAIVKEAKELREELEKELEEA 61

Query: 67  A--IALSRAKFETNAVFNQIVIQNIGKAQMKLRLTRENIGGVFLTEYEAVENGPDVYQIA 124
              +AL+ A    +AV     I  + K ++++ +  ENI GV +  +E VE  P  Y + 
Sbjct: 62  YESLALASAAEGIDAVEE---IALVQKEKLEVDVDVENIMGVVVPTFELVELTPPPYDLG 118

Query: 125 GLSTN 129
            LST+
Sbjct: 119 ILSTS 123


>gnl|CDD|129409 TIGR00309, V_ATPase_subD, H(+)-transporting ATP synthase, vacuolar
           type, subunit D.  Although this ATPase can run
           backwards, using a proton gradient to synthesize ATP,
           the primary biological role is to acidify some
           compartment, such as yeast vacuole (a lysosomal homolog)
           or the interior of a prokaryote [Transport and binding
           proteins, Cations and iron carrying compounds].
          Length = 209

 Score = 52.5 bits (126), Expect = 4e-09
 Identities = 29/106 (27%), Positives = 52/106 (49%)

Query: 10  ILPSRGNQSAIEARLVSAKRGHGLLKRKADALQFRFRSIHCKIVETRYLMADIMREAAIA 69
           + P+R     ++ +L  AKRG+ LLK K DAL   FR I  +  + +  M   ++EA   
Sbjct: 4   VNPTRMELLKLKDKLKMAKRGYSLLKLKRDALIMEFRQILERAKDIKNKMEQKLKEAISD 63

Query: 70  LSRAKFETNAVFNQIVIQNIGKAQMKLRLTRENIGGVFLTEYEAVE 115
           L  A+         I   ++  A+ ++ +  +NI GV +  +++ E
Sbjct: 64  LIEAQSVMGPFAVWIAALSVVTARFEVDMKSKNIMGVVVPVFDSYE 109


>gnl|CDD|178991 PRK00373, PRK00373, V-type ATP synthase subunit D; Reviewed.
          Length = 204

 Score = 39.4 bits (93), Expect = 1e-04
 Identities = 16/39 (41%), Positives = 21/39 (53%)

Query: 10 ILPSRGNQSAIEARLVSAKRGHGLLKRKADALQFRFRSI 48
          + P+R     ++ RL  A+RGH LLK K D L   F  I
Sbjct: 6  VKPTRMELINLKRRLKLAERGHKLLKDKRDELIMEFFDI 44


>gnl|CDD|225073 COG2162, NhoA, Arylamine N-acetyltransferase [Secondary
          metabolites biosynthesis, transport, and catabolism].
          Length = 275

 Score = 30.0 bits (68), Expect = 0.34
 Identities = 17/54 (31%), Positives = 26/54 (48%), Gaps = 6/54 (11%)

Query: 6  DKLPILPSRGNQSAIEARLVSAKRG------HGLLKRKADALQFRFRSIHCKIV 53
          D L   P + +  A+E +LV A+RG      +GL  R    L F  R +  ++V
Sbjct: 43 DVLLGRPIQLDPQALEDKLVLARRGGYCFELNGLFGRVLRELGFNVRLLLARVV 96


>gnl|CDD|234155 TIGR03282, methan_mark_13, putative methanogenesis marker 13
           metalloprotein.  Members of this protein family, to
           date, are found in a completed prokaryotic genome if and
           only if the species is one of the archaeal methanogens.
           The exact function is unknown, but likely is linked to
           methanogenesis or a process closely connected to it.
           This metal cluster-binding family is related to
           nitrogenase structural protein NifD and accessory
           protein NifE, among others [Energy metabolism,
           Methanogenesis].
          Length = 352

 Score = 29.0 bits (65), Expect = 0.78
 Identities = 21/75 (28%), Positives = 31/75 (41%), Gaps = 9/75 (12%)

Query: 54  ETRYLMADIMREAAIALSRAKFETNAVFNQIVIQNIGKAQMKLRLTRENIGGVF---LTE 110
           ET YL AD +    +AL++   +   V   I   +      K+R   E I   F     E
Sbjct: 200 ETAYLFADPL----LALNKLGPDNPPVN--IANLDPNIGLPKVRRDAEVILSDFDATGLE 253

Query: 111 YEAVENGPDVYQIAG 125
           Y+ +  G D Y + G
Sbjct: 254 YDYITGGLDEYPVTG 268


>gnl|CDD|131459 TIGR02406, ectoine_EctA, diaminobutyrate acetyltransferase.  This
           enzyme family is the EctA of ectoine biosynthesis.
           Ectoine is a compatible solute, analagous to trehalose,
           betaines, etc., found often in halotolerant organisms.
           EctA is L-2,4-diaminobutyric acid acetyltransferase,
           also called DABA acetyltransferase [Cellular processes,
           Adaptations to atypical conditions].
          Length = 157

 Score = 27.0 bits (60), Expect = 2.8
 Identities = 13/41 (31%), Positives = 19/41 (46%), Gaps = 4/41 (9%)

Query: 17  QSAIEARLVSAKRGHGLLKRKADALQFRFRSIHCKIVETRY 57
           Q A++ R     RG GL +R  +AL  R      + +ET  
Sbjct: 71  QVAVDPR----ARGKGLARRLLEALLERVACERVRHLETTI 107


>gnl|CDD|187640 cd08935, mannonate_red_SDR_c, putative D-mannonate
          oxidoreductase, classical (c) SDR.  D-mannonate
          oxidoreductase catalyzes the NAD-dependent
          interconversion of D-mannonate and D-fructuronate. This
          subgroup includes Bacillus subtitils UxuB/YjmF, a
          putative D-mannonate oxidoreductase; the B. subtilis
          UxuB gene is part of a putative ten-gene operon (the
          Yjm operon) involved in hexuronate catabolism.
          Escherichia coli UxuB does not belong to this subgroup.
          This subgroup has a canonical active site tetrad and a
          typical Gly-rich NAD-binding motif. SDRs are a
          functionally diverse family of oxidoreductases that
          have a single domain with a structurally conserved
          Rossmann fold (alpha/beta folding pattern with a
          central beta-sheet), an NAD(P)(H)-binding region, and a
          structurally diverse C-terminal region. Classical SDRs
          are typically about 250 residues long, while extended
          SDRs are approximately 350 residues. Sequence identity
          between different SDR enzymes are typically in the
          15-30% range, but the enzymes share the Rossmann fold
          NAD-binding motif and characteristic NAD-binding and
          catalytic sequence patterns. These enzymes catalyze a
          wide range of activities including the metabolism of
          steroids, cofactors, carbohydrates, lipids, aromatic
          compounds, and amino acids, and act in redox sensing.
          Classical SDRs have an TGXXX[AG]XG cofactor binding
          motif and a YXXXK active site motif, with the Tyr
          residue of the active site motif serving as a critical
          catalytic residue (Tyr-151, human
          15-hydroxyprostaglandin dehydrogenase (15-PGDH)
          numbering). In addition to the Tyr and Lys, there is
          often an upstream Ser (Ser-138, 15-PGDH numbering)
          and/or an Asn (Asn-107, 15-PGDH numbering) contributing
          to the active site; while substrate binding is in the
          C-terminal region, which determines specificity. The
          standard reaction mechanism is a 4-pro-S hydride
          transfer and proton relay involving the conserved Tyr
          and Lys, a water molecule stabilized by Asn, and
          nicotinamide. Extended SDRs have additional elements in
          the C-terminal region, and typically have a TGXXGXXG
          cofactor binding motif. Complex (multidomain) SDRs such
          as ketoreductase domains of fatty acid synthase have a
          GGXGXXG NAD(P)-binding motif and an altered active site
          motif (YXXXN). Fungal type ketoacyl reductases have a
          TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
          have lost catalytic activity and/or have an unusual
          NAD(P)-binding motif and missing or unusual active site
          residues. Reactions catalyzed within the SDR family
          include isomerization, decarboxylation, epimerization,
          C=N bond reduction, dehydratase activity,
          dehalogenation, Enoyl-CoA reduction, and
          carbonyl-alcohol oxidoreduction.
          Length = 271

 Score = 26.3 bits (58), Expect = 5.1
 Identities = 17/69 (24%), Positives = 25/69 (36%), Gaps = 2/69 (2%)

Query: 18 SAIEARLVSAKRGHGLLKRKADALQFRFRSIHCKIVETRYLMADIMREAAIALSRAKFET 77
           A+   L  A      L R  +      + I         L AD++  A  +L RA+ E 
Sbjct: 19 GAMARALAQAGAKVAALGRNQEKGDKVAKEITALGGRAIALAADVLDRA--SLERAREEI 76

Query: 78 NAVFNQIVI 86
           A F  + I
Sbjct: 77 VAQFGTVDI 85


  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    0.135    0.377 

Gapped
Lambda     K      H
   0.267   0.0858    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,840,653
Number of extensions: 607717
Number of successful extensions: 416
Number of sequences better than 10.0: 1
Number of HSP's gapped: 414
Number of HSP's successfully gapped: 16
Length of query: 136
Length of database: 10,937,602
Length adjustment: 87
Effective length of query: 49
Effective length of database: 7,078,804
Effective search space: 346861396
Effective search space used: 346861396
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: 54 (24.3 bits)