RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy13191
         (139 letters)



>gnl|CDD|233143 TIGR00834, ae, anion exchange protein.  The Anion Exchanger (AE)
           Family (TC 2.A.31)Characterized protein members of the
           AE family are found only in animals.They preferentially
           catalyze anion exchange (antiport) reactions, typically
           acting as HCO3-:Cl- antiporters, but also transporting a
           range of other inorganic and organic anions.
           Additionally, renal Na+:HCO3- cotransporters have been
           found to be members of the AE family. They catalyze the
           reabsorption of HCO3- in the renal proximal tubule
           [Transport and binding proteins, Anions].
          Length = 900

 Score =  127 bits (320), Expect = 6e-35
 Identities = 48/89 (53%), Positives = 61/89 (68%), Gaps = 1/89 (1%)

Query: 34  FSEMEELVRN-GEEMEWKETARWIKFEEDVEEGGNRWSKPHVATLSLHSLFELRSLLLNG 92
           F E+ EL+ +  +E EW+ETARWIKFEEDVEEGG RW KPHVATLS HSL ELR     G
Sbjct: 1   FVELNELMLDRNQEPEWRETARWIKFEEDVEEGGGRWGKPHVATLSFHSLLELRRCFAKG 60

Query: 93  CVMLDLEANSLEQIVDLFIEKLRTTESIP 121
            ++LDL A SL  + ++ ++ L  +  I 
Sbjct: 61  AILLDLAATSLPGVANMVVDHLIYSGQIR 89


>gnl|CDD|219468 pfam07565, Band_3_cyto, Band 3 cytoplasmic domain.  This family
           contains the cytoplasmic domain of the Band 3 anion
           exchange proteins that exchange Cl-/HCO3-. Band 3
           constitutes the most abundant polypeptide in the red
           blood cell membrane, comprising 25% of the total
           membrane protein. The cytoplasmic domain of band 3
           functions primarily as an anchoring site for other
           membrane-associated proteins. Included among the protein
           ligands of cdb3 are ankyrin, protein 4.2, protein 4.1,
           glyceraldehyde-3-phosphate dehydrogenase (GAPDH),
           phosphofructokinase, aldolase, hemoglobin, hemichromes,
           and the protein tyrosine kinase (p72syk).
          Length = 250

 Score = 93.1 bits (232), Expect = 3e-24
 Identities = 34/61 (55%), Positives = 44/61 (72%)

Query: 61  DVEEGGNRWSKPHVATLSLHSLFELRSLLLNGCVMLDLEANSLEQIVDLFIEKLRTTESI 120
           DVEEGG RW KPHVATLS HSL ELR  L NG V+LDL+A SL  + D  ++++ +++ I
Sbjct: 1   DVEEGGGRWGKPHVATLSFHSLLELRRCLSNGTVLLDLDATSLPGVADKVVDQMISSDQI 60

Query: 121 P 121
            
Sbjct: 61  R 61


>gnl|CDD|180994 PRK07480, PRK07480, putative aminotransferase; Validated.
          Length = 456

 Score = 28.7 bits (65), Expect = 0.96
 Identities = 11/20 (55%), Positives = 14/20 (70%), Gaps = 1/20 (5%)

Query: 25 DASHHAHPLFSEMEELVRNG 44
          DA+HH HP FS+M+ L   G
Sbjct: 14 DAAHHLHP-FSDMKALNEKG 32


>gnl|CDD|236324 PRK08652, PRK08652, acetylornithine deacetylase; Provisional.
          Length = 347

 Score = 27.8 bits (62), Expect = 2.1
 Identities = 14/58 (24%), Positives = 22/58 (37%), Gaps = 5/58 (8%)

Query: 9   TPPSQRVQFILGEDVDDASHHAHPLFSEMEELVRNGEEMEWKETARWIKFEEDVEEGG 66
                   ++ G    DA      +   +EEL +     E+++    I F  D EEGG
Sbjct: 71  AEFFVDGVYVYGTGACDAKGGVAAILLALEELGK-----EFEDLNVGIAFVSDEEEGG 123


>gnl|CDD|165398 PHA03126, PHA03126, dUTPase; Provisional.
          Length = 326

 Score = 27.7 bits (61), Expect = 2.1
 Identities = 16/59 (27%), Positives = 24/59 (40%), Gaps = 7/59 (11%)

Query: 1   LNFSPLSVTPPSQRVQFILGEDVDDA-------SHHAHPLFSEMEELVRNGEEMEWKET 52
           +N  P+S+T   +  Q +L ED+DDA            P +S           + WK T
Sbjct: 246 VNKYPVSITKGQRVAQLLLTEDIDDALIPTTVNYDTPFPTYSPTGATKAPQSPVLWKFT 304


>gnl|CDD|235988 PRK07318, PRK07318, dipeptidase PepV; Reviewed.
          Length = 466

 Score = 26.3 bits (59), Expect = 5.4
 Identities = 13/51 (25%), Positives = 19/51 (37%), Gaps = 22/51 (43%)

Query: 10  PPSQRVQFILGEDVDDASHHAHPLFSEMEELVRNGEEMEWKETARWIKFEE 60
           P S++V+FI+G D                      EE  WK    + + EE
Sbjct: 139 PLSKKVRFIVGTD----------------------EESGWKCMDYYFEHEE 167


>gnl|CDD|213985 cd07309, PHP, Polymerase and Histidinol Phosphatase domain.  The
          PHP (also called histidinol phosphatase-2/HIS2) domain
          is associated with several types of DNA polymerases,
          such as PolIIIA and family X DNA polymerases, stand
          alone histidinol phosphate phosphatases (HisPPases),
          and a number of uncharacterized protein families. The
          PHP domain has four conserved sequence motifs and
          contains an invariant histidine that is involved in
          metal ion coordination. PHP in polymerases has
          trinuclear zinc/magnesium dependent proofreading
          activity. It has also been shown that the PHP domain
          functions in DNA repair. The PHP structures have a
          distorted (beta/alpha)7 barrel fold with a trinuclear
          metal site on the C-terminal side of the barrel.
          Length = 88

 Score = 25.5 bits (56), Expect = 5.4
 Identities = 18/81 (22%), Positives = 23/81 (28%), Gaps = 3/81 (3%)

Query: 2  NFSPLSVTPPSQRV-QFI-LGEDVDDASHHAHPLFSEMEELVRNGEEMEWKETARWIKFE 59
           FS       ++ V +   LG D    + H   L    E              A  IK  
Sbjct: 8  VFSDGDHAKLTELVDKAKELGPDALAITDHG-NLRGLAEFNTAGKXNHIKAAEAAGIKII 66

Query: 60 EDVEEGGNRWSKPHVATLSLH 80
             E      + P VAT   H
Sbjct: 67 IGSEVNLTVLAHPVVATSDSH 87


>gnl|CDD|131219 TIGR02164, torA, trimethylamine-N-oxide reductase TorA.  This very
           narrowly defined family represents TorA, part of a
           family of related molybdoenzymes that include biotin
           sulfoxide reductases, dimethyl sulfoxide reductases, and
           at least two different subfamilies of
           trimethylamine-N-oxide reductases. A single enzyme from
           the larger family may have more than one activity. TorA
           typically is located in the periplasm, has a Tat
           (twin-arginine translocation)-dependent signal sequence,
           and is encoded in a torCAD operon.
          Length = 822

 Score = 26.4 bits (58), Expect = 6.9
 Identities = 12/43 (27%), Positives = 20/43 (46%), Gaps = 4/43 (9%)

Query: 34  FSEMEELVRNGEEMEWKETARWIKFEEDVEEGGNRWSKPHVAT 76
           F + +E  RN +EMEW +T     + E  +    ++  P  A 
Sbjct: 562 FGKEKEYTRNMDEMEWLKTL----YNECKQANAGKFEMPDFAE 600


>gnl|CDD|143650 cd07934, RHD-n_NFkB2, N-terminal sub-domain of the Rel homology
           domain (RHD) of nuclear factor kappa B2 (NF-kappa B2).
           Proteins containing the Rel homology domain (RHD) are
           metazoan transcription factors. The RHD is composed of
           two structural sub-domains; this model characterizes the
           N-terminal RHD sub-domain of the NF-kappa B2 family of
           transcription factors, a class I member of the NF-kappa
           B family. In class I NF-kappa Bs, the RHD domain
           co-occurs with C-terminal ankyrin repeats. NF-kappa B2
           is commonly referred to as p100 or p52 (proteolytically
           processed form). NF-kappa B proteins are part of a
           protein complex that acts as a transcription factor,
           which is responsible for regulating a host of cellular
           responses to a variety of stimuli. This complex tightly
           regulates the expression of a large number of genes, and
           is involved in processes such as adaptive and innate
           immunity, stress response, inflammation, cell adhesion,
           proliferation and apoptosis. The cytosolic NF-kappa B
           complex is activated via phosphorylation of the
           ankyrin-repeat containing inhibitory protein I-kappa B,
           which dissociates from the complex and exposes the
           nuclear localization signal of the heterodimer (NF-kappa
           B and REL). NF-kappa B2 is involved in the alternative
           NF-kappa B signaling pathway which is activated by few
           agonists and plays an important role in secondary
           lymphoid organogenesis, maturation of B-cells, and
           adaptive humoral immunity. p100 may also act as an
           I-kappa B due to its C-terminal ankyrin repeats.
          Length = 185

 Score = 25.6 bits (56), Expect = 9.3
 Identities = 11/31 (35%), Positives = 19/31 (61%)

Query: 96  LDLEANSLEQIVDLFIEKLRTTESIPDHESS 126
           L+ EA  L++++DL I +L+ T  + D   S
Sbjct: 138 LEQEAKELKKVMDLSIVRLKFTAYLRDSNGS 168


>gnl|CDD|236418 PRK09225, PRK09225, threonine synthase; Validated.
          Length = 462

 Score = 25.9 bits (58), Expect = 9.7
 Identities = 8/14 (57%), Positives = 8/14 (57%)

Query: 51  ETARWIKFEEDVEE 64
            TA   KF E VEE
Sbjct: 407 STAHPAKFPEVVEE 420


  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
   0.315    0.131    0.390 

Gapped
Lambda     K      H
   0.267   0.0767    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,160,134
Number of extensions: 627671
Number of successful extensions: 567
Number of sequences better than 10.0: 1
Number of HSP's gapped: 566
Number of HSP's successfully gapped: 16
Length of query: 139
Length of database: 10,937,602
Length adjustment: 87
Effective length of query: 52
Effective length of database: 7,078,804
Effective search space: 368097808
Effective search space used: 368097808
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 (21.6 bits)
S2: 54 (24.5 bits)