RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy15248
         (75 letters)



>gnl|CDD|233199 TIGR00939, 2a57, Equilibrative Nucleoside Transporter (ENT).
          [Transport and binding proteins, Nucleosides, purines
          and pyrimidines].
          Length = 437

 Score = 32.0 bits (73), Expect = 0.013
 Identities = 11/14 (78%), Positives = 12/14 (85%)

Query: 26 GVGTLMPWNMFITA 39
          GVG L+PWN FITA
Sbjct: 5  GVGVLLPWNAFITA 18


>gnl|CDD|233136 TIGR00805, oat, sodium-independent organic anion transporter.  The
           Organo Anion Transporter (OAT) Family (TC
           2.A.60)Proteins of the OAT family catalyze the
           Na+-independent facilitated transport of organic anions
           such as bromosulfobromophthalein and prostaglandins as
           well as conjugated and unconjugated bile acids
           (taurocholate and cholate, respectively). These
           transporters have been characterized in mammals, but
           homologues are present in C. elegans and A. thaliana.
           Some of the mammalian proteins exhibit a high degree of
           tissue specificity. For example, the rat OAT is found at
           high levels in liver and kidney and at lower levels in
           other tissues. These proteins possess 10-12 putative
           a-helical transmembrane spanners. They may catalyze
           electrogenic anion uniport or anion exchange.
          Length = 633

 Score = 27.4 bits (61), Expect = 0.66
 Identities = 16/64 (25%), Positives = 27/64 (42%), Gaps = 15/64 (23%)

Query: 15  WKLVYLTLLLHGVGTLMPWNMFIT-----AKAQRLSANIIIIIIVLIYTARLGLKSPFTP 69
           W L  ++ LL G+G    + + I+     AK++     I I     + +  +     F P
Sbjct: 172 WLLFLVSQLLRGIGATPIFPLGISYIDDFAKSKNSPLYIGI-----LESIAV-----FGP 221

Query: 70  AVGY 73
           A GY
Sbjct: 222 AFGY 225


>gnl|CDD|223550 COG0474, MgtA, Cation transport ATPase [Inorganic ion transport and
           metabolism].
          Length = 917

 Score = 25.8 bits (57), Expect = 2.1
 Identities = 9/27 (33%), Positives = 14/27 (51%)

Query: 43  RLSANIIIIIIVLIYTARLGLKSPFTP 69
            LS N+  ++ +LIY+       P TP
Sbjct: 708 LLSKNVGEVLTLLIYSLFNLFFLPLTP 734


>gnl|CDD|233773 TIGR02193, heptsyl_trn_I, lipopolysaccharide heptosyltransferase I.
            This family consists of examples of ADP-heptose:LPS
           heptosyltransferase I, an enzyme of LPS inner core
           region biosynthesis. LPS, composed of lipid A, a core
           region, and O antigen, is found in the outer membrane of
           Gram-negative bacteria [Cell envelope, Biosynthesis and
           degradation of surface polysaccharides and
           lipopolysaccharides].
          Length = 319

 Score = 25.0 bits (55), Expect = 3.8
 Identities = 11/39 (28%), Positives = 22/39 (56%), Gaps = 1/39 (2%)

Query: 11  PRDRWKLVYLTLLLHGVGTLMPW-NMFITAKAQRLSANI 48
           P +RW+ +   LL  G+  ++PW N     +A+R++  +
Sbjct: 196 PEERWRELARLLLARGLQIVLPWGNDAEKQRAERIAEAL 234


>gnl|CDD|217936 pfam04161, Arv1, Arv1-like family.  Arv1 is a transmembrane protein
           with potential zinc-binding motifs. ARV1 is a novel
           mediator of eukaryotic sterol homeostasis.
          Length = 194

 Score = 24.2 bits (53), Expect = 7.8
 Identities = 16/50 (32%), Positives = 22/50 (44%)

Query: 11  PRDRWKLVYLTLLLHGVGTLMPWNMFITAKAQRLSANIIIIIIVLIYTAR 60
            R R  ++  T+LL   G L P  M I      L +  II +IVL+    
Sbjct: 143 LRYRTLILLYTVLLSYYGKLFPILMLIWPYDTTLISMSIIDLIVLLSNIE 192


>gnl|CDD|234463 TIGR04089, exp_by_SipW_III, alternate signal-mediated exported
          protein, RER_14450 family.  Members of this
          Actinobacterial protein family contain the cognate
          signal peptide domain, modeled by TIGR04088, for the
          variant SipW form of the signal peptidase I family. The
          remainder of this protein, however, differs from
          families such as Peptidase_M73 (pfam12389) and YqxM
          (TIGR04087) that share the same signal peptide domain.
          Some additional homologs to this family lack
          full-length homology and are excluded by the trusted
          cutoff as set. The two known targets for export by the
          SipW signal peptidase in Bacillus subtilis act in
          producing biofilm matrix material.
          Length = 179

 Score = 23.9 bits (52), Expect = 8.2
 Identities = 10/25 (40%), Positives = 12/25 (48%)

Query: 22 LLLHGVGTLMPWNMFITAKAQRLSA 46
          LLL G GT   WN   T     ++A
Sbjct: 17 LLLGGAGTFALWNDSATVSGGTITA 41


>gnl|CDD|213748 TIGR02891, CtaD_CoxA, cytochrome c oxidase, subunit I.  This large
           family represents subunit I's (CtaD, CoxA, CaaA) of
           cytochrome c oxidases of bacterial origin. Cytochrome c
           oxidase is the component of the respiratory chain that
           catalyzes the reduction of oxygen to water. Subunits
           I-III form the functional core of the enzyme complex.
           Subunit I is the catalytic subunit of the enzyme.
           Electrons originating in cytochrome c are transferred
           via the copper A center of subunit II and heme a of
           subunit I to the bimetallic center formed by heme a3 and
           copper B. This cytochrome c oxidase shows proton pump
           activity across the membrane in addition to the electron
           transfer. In the bacilli an apparent split (paralogism)
           has created a sister clade (TIGR02882) encoding subunits
           (QoxA) of the aa3-type quinone oxidase complex which
           reacts directly with quinones, bypassing the interaction
           with soluble cytochrome c. This model attempts to
           exclude these sequences, placing them between the
           trusted and noise cutoffs. These families, as well as
           archaeal and eukaryotic cytochrome c subunit I's are
           included within the superfamily model, pfam00115 [Energy
           metabolism, Electron transport].
          Length = 499

 Score = 24.1 bits (53), Expect = 8.7
 Identities = 11/38 (28%), Positives = 19/38 (50%)

Query: 32  PWNMFITAKAQRLSANIIIIIIVLIYTARLGLKSPFTP 69
             N+  T  A  L+A  ++ +  LI++ R G K+   P
Sbjct: 443 TLNLISTIGAFILAAGFLVFLWNLIWSLRKGPKAGANP 480


>gnl|CDD|218033 pfam04339, DUF482, Protein of unknown function, DUF482.  This
           family contains several proteins of uncharacterized
           function.
          Length = 370

 Score = 24.0 bits (53), Expect = 9.4
 Identities = 8/23 (34%), Positives = 9/23 (39%), Gaps = 8/23 (34%)

Query: 59  ARLGLK--------SPFTPAVGY 73
            R GL+         PFTP  G 
Sbjct: 82  ERAGLRYYPKLLGAVPFTPVTGP 104


  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
   0.326    0.142    0.443 

Gapped
Lambda     K      H
   0.267   0.0785    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,973,617
Number of extensions: 310626
Number of successful extensions: 519
Number of sequences better than 10.0: 1
Number of HSP's gapped: 517
Number of HSP's successfully gapped: 33
Length of query: 75
Length of database: 10,937,602
Length adjustment: 45
Effective length of query: 30
Effective length of database: 8,941,672
Effective search space: 268250160
Effective search space used: 268250160
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 53 (24.1 bits)