RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= 044569
         (116 letters)



>gnl|CDD|235586 PRK05738, rplW, 50S ribosomal protein L23; Reviewed.
          Length = 92

 Score = 39.7 bits (94), Expect = 2e-05
 Identities = 15/35 (42%), Positives = 22/35 (62%)

Query: 67  GFEVDEARTLNKGGKKKKWGGLLNAKPDYKKAYVT 101
           G +V+   TLN  GK K++G  +  + D+KKA VT
Sbjct: 45  GVKVESVNTLNVKGKTKRFGRRIGKRSDWKKAIVT 79


>gnl|CDD|223167 COG0089, RplW, Ribosomal protein L23 [Translation, ribosomal
           structure and biogenesis].
          Length = 94

 Score = 35.3 bits (82), Expect = 9e-04
 Identities = 16/39 (41%), Positives = 22/39 (56%), Gaps = 1/39 (2%)

Query: 67  GFEVDEARTLN-KGGKKKKWGGLLNAKPDYKKAYVTSPP 104
           G +V++  TLN KG  K+     +  + DYKKAYVT   
Sbjct: 46  GVKVEKVNTLNTKGKTKRAGVKRIGLRKDYKKAYVTLKE 84


>gnl|CDD|144021 pfam00276, Ribosomal_L23, Ribosomal protein L23. 
          Length = 90

 Score = 28.8 bits (65), Expect = 0.28
 Identities = 16/38 (42%), Positives = 20/38 (52%)

Query: 67  GFEVDEARTLNKGGKKKKWGGLLNAKPDYKKAYVTSPP 104
           G +V++  TL   GK K+ G  L  K  YKKA VT   
Sbjct: 44  GVKVEKVNTLILPGKVKRNGQYLGRKKSYKKAIVTLEE 81


>gnl|CDD|221253 pfam11834, DUF3354, Domain of unknown function (DUF3354).  This
          domain is functionally uncharacterized. This domain is
          found in eukaryotes. This presumed domain is about 60
          amino acids in length.
          Length = 69

 Score = 26.0 bits (58), Expect = 2.3
 Identities = 12/49 (24%), Positives = 20/49 (40%), Gaps = 6/49 (12%)

Query: 33 QNGKQAAGNLPIKL-LMPNTFQNIKEIAAKTIPSNGFEVDEARTLNKGG 80
          +      G    KL L+P + + + EIA +      F     + LN+ G
Sbjct: 8  RGHPPEKGKEAGKLILLPGSLEELLEIAGEK-----FGFAPTKVLNEDG 51


>gnl|CDD|171585 PRK12566, PRK12566, glycine dehydrogenase; Provisional.
          Length = 954

 Score = 27.2 bits (60), Expect = 2.3
 Identities = 16/51 (31%), Positives = 26/51 (50%), Gaps = 3/51 (5%)

Query: 7   EKTEAQNTERERRSTE--WEIRSEITEAQNGKQAAGNLPIKLLMPNTFQNI 55
           E TE+++     R  E    IR+EI + Q G   A + P+K   P+T  ++
Sbjct: 853 EPTESESKAELDRFVEAMLSIRAEIGKVQEGNWPAEDNPLK-RAPHTLADV 902


>gnl|CDD|176971 CHL00030, rpl23, ribosomal protein L23.
          Length = 93

 Score = 25.6 bits (57), Expect = 3.6
 Identities = 7/27 (25%), Positives = 14/27 (51%)

Query: 75  TLNKGGKKKKWGGLLNAKPDYKKAYVT 101
           +     KK++ G ++  K  YK+  +T
Sbjct: 52  SHRLPRKKRRMGPIMGHKMHYKRMIIT 78


>gnl|CDD|173748 cd07853, STKc_NLK, Catalytic domain of the Serine/Threonine
          Kinase, Nemo-Like Kinase.  Serine/Threonine Kinases
          (STKs), Nemo-Like Kinase (NLK) subfamily, catalytic (c)
          domain. STKs catalyze the transfer of the
          gamma-phosphoryl group from ATP to serine/threonine
          residues on protein substrates. The NLK subfamily is
          part of a larger superfamily that includes the
          catalytic domains of other protein STKs, protein
          tyrosine kinases, RIO kinases, aminoglycoside
          phosphotransferase, choline kinase, and
          phosphoinositide 3-kinase. Mitogen-activated protein
          kinases (MAPKs) are important mediators of cellular
          responses to extracellular signals. NLK is an atypical
          MAPK that is not regulated by a MAPK kinase. It
          functions downstream of the MAPK kinase kinase Tak1,
          which also plays a role in activating the JNK and p38
          MAPKs. The Tak1/NLK pathways are regulated by Wnts, a
          family of secreted proteins that is critical in the
          control of asymmetric division and cell polarity. NLK
          can phosphorylate transcription factors from the
          TCF/LEF family, inhibiting their ability to activate
          the transcription of target genes. In prostate cancer
          cells, NLK is involved in regulating androgen
          receptor-mediated transcription and its expression is
          altered during cancer progression.
          Length = 372

 Score = 26.2 bits (58), Expect = 4.3
 Identities = 11/27 (40%), Positives = 18/27 (66%), Gaps = 5/27 (18%)

Query: 29 ITEAQNGKQAAGNLPIKLLMPNTFQNI 55
          +T+ ++GK+ A    +K  MPN FQN+
Sbjct: 19 VTDPRDGKRVA----LKK-MPNVFQNL 40


>gnl|CDD|201814 pfam01470, Peptidase_C15, Pyroglutamyl peptidase. 
          Length = 203

 Score = 25.8 bits (57), Expect = 5.3
 Identities = 6/39 (15%), Positives = 17/39 (43%)

Query: 28 EITEAQNGKQAAGNLPIKLLMPNTFQNIKEIAAKTIPSN 66
          E  +  +G+   G   +  ++P +F+   ++  + I   
Sbjct: 21 EAAKQLDGRTIGGATIVGRILPTSFKKAADVLQQAIAEI 59


>gnl|CDD|227950 COG5663, COG5663, Uncharacterized conserved protein [Function
           unknown].
          Length = 194

 Score = 25.6 bits (56), Expect = 6.1
 Identities = 11/33 (33%), Positives = 16/33 (48%)

Query: 34  NGKQAAGNLPIKLLMPNTFQNIKEIAAKTIPSN 66
           N  Q A N  I +++ N+  N K  A   I +N
Sbjct: 145 NAGQIAKNAGIPVILINSPYNRKPAAKNIIRAN 177


>gnl|CDD|180567 PRK06452, sdhA, succinate dehydrogenase flavoprotein subunit;
           Reviewed.
          Length = 566

 Score = 25.6 bits (56), Expect = 8.5
 Identities = 13/30 (43%), Positives = 18/30 (60%), Gaps = 4/30 (13%)

Query: 83  KKWGGLLNAKPDYKKA--YV--TSPPRTRF 108
           ++WG L N +PD + A  Y    + PRTRF
Sbjct: 100 ERWGALFNRQPDGRVAVRYFGGQTYPRTRF 129


>gnl|CDD|132245 TIGR03201, dearomat_had, 6-hydroxycyclohex-1-ene-1-carbonyl-CoA
           dehydrogenase.  Members of this protein family are
           6-hydroxycyclohex-1-ene-1-carbonyl-CoA dehydrogenase, an
           enzyme in the anaerobic metabolism of aromatic enzymes
           by way of benzoyl-CoA, as seen in Thauera aromatica,
           Geobacter metallireducens, and Azoarcus sp. The
           experimentally characterized form from T. aromatica uses
           only NAD+, not NADP+. Note that Rhodopseudomonas
           palustris uses a different pathway to perform a similar
           degradation of benzoyl-CoA to 3-hydroxpimelyl-CoA.
          Length = 349

 Score = 25.2 bits (55), Expect = 8.5
 Identities = 14/42 (33%), Positives = 24/42 (57%), Gaps = 1/42 (2%)

Query: 1   SARTAPEKTEAQNTERERRSTEWEIRSEITEAQNGKQAAGNL 42
           SAR   +  +A    R  RST W+I  E + ++ G+++A +L
Sbjct: 221 SAREVKKLIKAFAKARGLRSTGWKI-FECSGSKPGQESALSL 261


  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
   0.312    0.129    0.375 

Gapped
Lambda     K      H
   0.267   0.0722    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,700,134
Number of extensions: 467611
Number of successful extensions: 269
Number of sequences better than 10.0: 1
Number of HSP's gapped: 268
Number of HSP's successfully gapped: 20
Length of query: 116
Length of database: 10,937,602
Length adjustment: 79
Effective length of query: 37
Effective length of database: 7,433,636
Effective search space: 275044532
Effective search space used: 275044532
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 53 (24.2 bits)