RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy17380
         (107 letters)



>gnl|CDD|233194 TIGR00930, 2a30, K-Cl cotransporter.  [Transport and binding
           proteins, Other].
          Length = 953

 Score = 92.1 bits (229), Expect = 4e-23
 Identities = 33/87 (37%), Positives = 57/87 (65%)

Query: 14  GLTLLLPYIISTRHSWASCKLRVFALANRKEELEFEQRNIASLLAKFRIDYADLIIITTI 73
           GLTLLLPY+++T+  W  CK+R+F  A + +  E E++++A+LL KFRID   ++++  I
Sbjct: 773 GLTLLLPYLLTTKKVWKKCKIRIFVGAQKDDRSEQEKKDMATLLYKFRIDAEVIVVLMDI 832

Query: 74  TRRPHEETVEFYNHLVRPYLAKDEEAD 100
             +P  E++E +  ++RP+     E D
Sbjct: 833 NAKPQTESMEAFEEMIRPFRLHKTEKD 859


>gnl|CDD|213736 TIGR02773, addB_Gpos, helicase-exonuclease AddAB, AddB subunit.
           DNA repair is accomplished by several different systems
           in prokaryotes. Recombinational repair of
           double-stranded DNA breaks involves the RecBCD pathway
           in some lineages, and AddAB (also called RexAB) in
           other. The AddA protein is conserved between the
           firmicutes and the alphaproteobacteria, while the
           partner protein is not. Nevertheless, the partner is
           designated AddB in both systems. This model describes
           the AddB protein as found Bacillus subtilis and related
           species. Although the RexB protein of Streptococcus and
           Lactococcus is considered to be orthologous,
           functionally equivalent, and merely named differently,
           all members of this protein family have a P-loop
           nucleotide binding motif GxxGxGK[ST] at the N-terminus,
           unlike RexB proteins, and a CxxCxxxxxC motif at the
           C-terminus, both of which may be relevant to function
           [DNA metabolism, DNA replication, recombination, and
           repair].
          Length = 1160

 Score = 28.5 bits (64), Expect = 0.56
 Identities = 13/38 (34%), Positives = 19/38 (50%)

Query: 34  LRVFALANRKEELEFEQRNIASLLAKFRIDYADLIIIT 71
           L +F   NR+ E+E   R I  L+      Y D+ I+T
Sbjct: 306 LSIFQANNRRAEVEGVAREILRLVRDKGYRYKDIAILT 343


>gnl|CDD|237143 PRK12576, PRK12576, succinate dehydrogenase iron-sulfur subunit;
           Provisional.
          Length = 279

 Score = 28.6 bits (64), Expect = 0.59
 Identities = 11/26 (42%), Positives = 14/26 (53%), Gaps = 2/26 (7%)

Query: 83  EFYN--HLVRPYLAKDEEADCGDAEH 106
           EFY     V+P L + +E   G AEH
Sbjct: 113 EFYERMFKVKPRLYRAKEVLEGKAEH 138


>gnl|CDD|181225 PRK08085, PRK08085, gluconate 5-dehydrogenase; Provisional.
          Length = 254

 Score = 25.5 bits (56), Expect = 7.1
 Identities = 15/48 (31%), Positives = 21/48 (43%)

Query: 36 VFALANRKEELEFEQRNIASLLAKFRIDYADLIIITTITRRPHEETVE 83
          +F+LA +   +    + I  LLA    +Y   III  IT    E  V 
Sbjct: 4  LFSLAGKNILITGSAQGIGFLLATGLAEYGAEIIINDITAERAELAVA 51


>gnl|CDD|212164 cd11650, AT4G37440_like, Uncharacterized protein domain conserved
           in plants.  This domain contains an extensive protein
           sequence fragment that appears conserved in a number of
           plant proteins, including the gene product of
           Arabidopsis thaliana locus AT4G37440, which has been
           identified in transcriptional profiling as expressed at
           different levels in white cabbage cultivars.
          Length = 253

 Score = 25.5 bits (56), Expect = 7.2
 Identities = 14/51 (27%), Positives = 23/51 (45%), Gaps = 3/51 (5%)

Query: 35  RVFALANRKEELEFEQRNI---ASLLAKFRIDYADLIIITTITRRPHEETV 82
           R  AL  +++EL+ E        S  A F  +  +  ++    R+  EETV
Sbjct: 115 RELALIEQEKELQLEGTKAEGENSKSAPFSGERHERKVMKRRKRKRVEETV 165


>gnl|CDD|238846 cd01713, PAPS_reductase, This domain is found in phosphoadenosine
           phosphosulphate (PAPS) reductase enzymes or PAPS
           sulphotransferase. PAPS reductase is part of the adenine
           nucleotide alpha hydrolases superfamily also including N
           type ATP PPases and ATP sulphurylases. A highly modified
           version of the P loop, the fingerprint peptide of
           mononucleotide-binding proteins, is present in the
           active site of the protein, which appears to be a
           positively charged cleft containing a number of
           conserved arginine and lysine residues. Although PAPS
           reductase has no ATPase activity, it shows a striking
           similarity to the structure of the ATP pyrophosphatase
           (ATP PPase) domain of GMP synthetase, indicating that
           both enzyme families have evolved from a common
           ancestral nucleotide-binding fold.   The enzyme uses
           thioredoxin as an electron donor for the reduction of
           PAPS to phospho-adenosine-phosphate (PAP) . It is also
           found in NodP nodulation protein P from Rhizobium
           meliloti which has ATP sulphurylase activity (sulphate
           adenylate transferase) .
          Length = 173

 Score = 25.1 bits (55), Expect = 7.5
 Identities = 10/51 (19%), Positives = 16/51 (31%)

Query: 56  LLAKFRIDYADLIIITTITRRPHEETVEFYNHLVRPYLAKDEEADCGDAEH 106
           L  K   +   + +I   T     ET EF + +   Y          D+  
Sbjct: 18  LALKALPELKPVPVIFLDTGYEFPETYEFVDRVAERYGLPLVVVRPPDSPA 68


>gnl|CDD|99919 cd05536, POLBc_B3, DNA polymerase type-B B3 subfamily catalytic
           domain. Archaeal proteins that are involved in DNA
           replication are similar to those from eukaryotes. Some
           members of the archaea also possess multiple family B
           DNA polymerases (B1, B2 and B3). So far there is no
           specific function(s) has been assigned for different
           members of the archaea type B DNA polymerases.
           Phylogenetic analyses of eubacterial, archaeal, and
           eukaryotic family B DNA polymerases are support
           independent gene duplications during the evolution of
           archaeal and eukaryotic family B DNA polymerases.
           Structural comparison of the thermostable DNA polymerase
           type B to its mesostable homolog suggests several
           adaptations to high temperature such as shorter loops,
           disulfide bridges, and increasing electrostatic
           interaction at subdomain interfaces.
          Length = 371

 Score = 25.0 bits (55), Expect = 9.3
 Identities = 5/29 (17%), Positives = 12/29 (41%)

Query: 51  RNIASLLAKFRIDYADLIIITTITRRPHE 79
           + +   L +  +    L+I   +T+   E
Sbjct: 260 KEVIEKLKRGEVPPEKLVIWKQLTKDLSE 288


>gnl|CDD|235176 PRK03932, asnC, asparaginyl-tRNA synthetase; Validated.
          Length = 450

 Score = 25.1 bits (56), Expect = 9.6
 Identities = 12/44 (27%), Positives = 18/44 (40%), Gaps = 10/44 (22%)

Query: 37  FALANRKEELEFEQRNIASLL---------AKF-RIDYADLIII 70
           + L N  ++LEF  R +             + F RI Y + I I
Sbjct: 260 YVLENCPDDLEFLNRRVDKGDIERLENFIESPFPRITYTEAIEI 303


  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
   0.325    0.139    0.406 

Gapped
Lambda     K      H
   0.267   0.0698    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,572,271
Number of extensions: 485954
Number of successful extensions: 581
Number of sequences better than 10.0: 1
Number of HSP's gapped: 581
Number of HSP's successfully gapped: 26
Length of query: 107
Length of database: 10,937,602
Length adjustment: 72
Effective length of query: 35
Effective length of database: 7,744,114
Effective search space: 271043990
Effective search space used: 271043990
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 53 (24.3 bits)