RPS-BLAST 2.2.22 [Sep-27-2009]

Database: CddA 
           21,609 sequences; 6,263,737 total letters

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

Query= gi|254780693|ref|YP_003065106.1| transcriptional regulator
protein [Candidatus Liberibacter asiaticus str. psy62]
         (235 letters)



>gnl|CDD|99777 cd06170, LuxR_C_like, C-terminal DNA-binding domain of LuxR-like
           proteins. This domain contains a helix-turn-helix motif
           and binds DNA. Proteins belonging to this group are
           response regulators; some act as transcriptional
           activators, others as transcriptional repressors. Many
           are active as homodimers. Many are two domain proteins
           in which the DNA binding property of the C-terminal DNA
           binding domain is modulated by modifications of the
           N-terminal domain.  For example in the case of Lux R
           which participates in the regulation of gene expression
           in response to fluctuations in cell-population density
           (quorum-sensing), a signaling molecule, the pheromone
           Acyl HSL (N-acyl derivatives of homoserine lactone),
           binds to the N-terminal domain and leads to LuxR
           dimerization.  For others phophorylation of the
           N-terminal domain leads to multimerization, for example
           Escherichia coli NarL and Sinorhizobium melilot FixJ.
           NarL controls gene expression of many
           respiratory-related operons when environmental nitrate
           or nitrite is present under anerobic conditions. FixJ is
           involved in the transcriptional activation of nitrogen
           fixation genes. The group also includes small proteins
           which lack an N-terminal signaling domain, such as
           Bacillus subtilis GerE.  GerE is dimeric and acts in
           conjunction with sigmaK as an activator or a repressor
           modulating the expression of various genes in particular
           those encoding the spore-coat. These LuxR family
           regulators may share a similar organization of their
           target binding sites. For example the LuxR dimer binds
           the lux box, a 20bp inverted repeat, GerE dimers bind
           two 12bp consensus sequences in inverted orientation
           having the central four bases overlap, and the NarL
           dimer binds two 7bp inverted repeats separated by 2 bp..
          Length = 57

 Score = 70.6 bits (174), Expect = 3e-13
 Identities = 25/57 (43%), Positives = 35/57 (61%)

Query: 174 LTERETSCLQLAGDGYTSEEIAEKLGLSVHTVNAYLGSATVKLDAVNRIQAIAKAIR 230
           LT RE   L+L  +G T++EIA+ LG+S  TV  +L +   KL   +R Q +A AIR
Sbjct: 1   LTPREREVLRLLAEGKTNKEIADILGISEKTVKTHLRNIMRKLGVKSRTQLVAYAIR 57


>gnl|CDD|32632 COG2771, CsgD, DNA-binding HTH domain-containing proteins
           [Transcription].
          Length = 65

 Score = 65.0 bits (158), Expect = 2e-11
 Identities = 25/61 (40%), Positives = 36/61 (59%)

Query: 174 LTERETSCLQLAGDGYTSEEIAEKLGLSVHTVNAYLGSATVKLDAVNRIQAIAKAIRFGY 233
           LT RE   L+L   G +++EIA  LG+S  TV  +L +   KL   NR++ +A A+R G 
Sbjct: 5   LTPREREILRLVAQGKSNKEIARILGISEETVKTHLRNIYRKLGVKNRVELVALALRLGL 64

Query: 234 I 234
           I
Sbjct: 65  I 65


>gnl|CDD|32379 COG2197, CitB, Response regulator containing a CheY-like receiver
           domain and an HTH DNA-binding domain [Signal
           transduction mechanisms / Transcription].
          Length = 211

 Score = 63.4 bits (154), Expect = 5e-11
 Identities = 33/112 (29%), Positives = 53/112 (47%), Gaps = 6/112 (5%)

Query: 129 NGYVIFTSEFLMLANEVIIEAHGACY------QVITDFLELFKKRSSAARNLTERETSCL 182
           +GY++  +    L   +   A G  Y      + +   L      +  A  LT RE   L
Sbjct: 98  DGYLLKDASPEELVEAIRAVAAGGTYLPPDIARKLAGLLPSSSAEAPLAELLTPRELEVL 157

Query: 183 QLAGDGYTSEEIAEKLGLSVHTVNAYLGSATVKLDAVNRIQAIAKAIRFGYI 234
           +L  +G +++EIAE+L LS  TV  ++ +   KL   NR +A  +A+R G I
Sbjct: 158 RLLAEGLSNKEIAEELNLSEKTVKTHVSNILRKLGVRNRTEAAIRALRLGLI 209


>gnl|CDD|109261 pfam00196, GerE, Bacterial regulatory proteins, luxR family. 
          Length = 58

 Score = 59.9 bits (146), Expect = 6e-10
 Identities = 19/56 (33%), Positives = 33/56 (58%)

Query: 173 NLTERETSCLQLAGDGYTSEEIAEKLGLSVHTVNAYLGSATVKLDAVNRIQAIAKA 228
           +L+ RE   L+L   G +++EIA+ LG+S  TV  +  +   KL+  +R++ I  A
Sbjct: 3   SLSPREREVLRLLAAGKSNKEIADILGISEKTVKVHRSNIMRKLNVHSRVELIRLA 58


>gnl|CDD|32733 COG2909, MalT, ATP-dependent transcriptional regulator
           [Transcription].
          Length = 894

 Score = 54.2 bits (130), Expect = 3e-08
 Identities = 24/74 (32%), Positives = 38/74 (51%)

Query: 159 DFLELFKKRSSAARNLTERETSCLQLAGDGYTSEEIAEKLGLSVHTVNAYLGSATVKLDA 218
              E F +       L++RE   L L   G ++EEIA++L +S+ TV  ++ +   KL  
Sbjct: 817 HLDEEFVEGLLNELPLSQRELEVLGLIAQGLSNEEIAQELFISLTTVKTHIRNIYQKLGV 876

Query: 219 VNRIQAIAKAIRFG 232
            NR QA+ +A   G
Sbjct: 877 ANRTQAVQRAKELG 890


>gnl|CDD|34204 COG4566, TtrR, Response regulator [Signal transduction mechanisms].
          Length = 202

 Score = 36.8 bits (85), Expect = 0.005
 Identities = 18/60 (30%), Positives = 29/60 (48%)

Query: 173 NLTERETSCLQLAGDGYTSEEIAEKLGLSVHTVNAYLGSATVKLDAVNRIQAIAKAIRFG 232
            LT RE   L L   G  +++IA  LG+S  TV  +  +   K+ A +  + +  A+  G
Sbjct: 142 TLTPRERQVLDLVVRGLMNKQIAFDLGISERTVELHRANVMEKMQARSLAELVRMALSLG 201


>gnl|CDD|100119 cd06171, Sigma70_r4, Sigma70, region (SR) 4 refers to the most
           C-terminal of four conserved domains found in
           Escherichia coli (Ec) sigma70, the main housekeeping
           sigma, and related sigma-factors (SFs). A SF is a
           dissociable subunit of RNA polymerase, it directs
           bacterial or plastid core RNA polymerase to specific
           promoter elements located upstream of transcription
           initiation points. The SR4 of Ec sigma70 and other
           essential primary SFs contact promoter sequences located
           35 base-pairs upstream of the initiation point,
           recognizing a 6-base-pair -35 consensus TTGACA.  Sigma70
           related SFs also include SFs which are dispensable for
           bacterial cell growth for example Ec sigmaS, SFs which
           activate regulons in response to a specific signal for
           example heat-shock Ec sigmaH, and a group of SFs which
           includes the extracytoplasmic function (ECF) SFs and is
           typified by Ec sigmaE which contains SR2 and -4 only.
           ECF SFs direct the transcription of genes that regulate
           various responses including periplasmic stress and
           pathogenesis.   Ec sigmaE SR4 also contacts the -35
           element, but recognizes a different consensus (a
           7-base-pair GGAACTT).  Plant SFs recognize sigma70 type
           promoters and direct transcription of the major plastid
           RNA polymerase, plastid-encoded RNA polymerase (PEP)..
          Length = 55

 Score = 35.2 bits (82), Expect = 0.017
 Identities = 21/44 (47%), Positives = 25/44 (56%), Gaps = 1/44 (2%)

Query: 174 LTERETSCLQLA-GDGYTSEEIAEKLGLSVHTVNAYLGSATVKL 216
           L ERE   + L  G+G + EEIAE LG+S  TV   L  A  KL
Sbjct: 11  LPEREREVILLRFGEGLSYEEIAEILGISRSTVRQRLHRALKKL 54


>gnl|CDD|31783 COG1595, RpoE, DNA-directed RNA polymerase specialized sigma
           subunit, sigma24 homolog [Transcription].
          Length = 182

 Score = 34.3 bits (78), Expect = 0.032
 Identities = 20/51 (39%), Positives = 25/51 (49%), Gaps = 1/51 (1%)

Query: 169 SAARNLTERETSCLQLA-GDGYTSEEIAEKLGLSVHTVNAYLGSATVKLDA 218
            A   L  R+     L   +G + EEIAE LG+SV TV + L  A  KL  
Sbjct: 123 RALARLPPRQREAFLLRYLEGLSYEEIAEILGISVGTVKSRLHRARKKLRE 173


>gnl|CDD|146939 pfam04545, Sigma70_r4, Sigma-70, region 4.  Region 4 of sigma-70
           like sigma-factors are involved in binding to the -35
           promoter element via a helix-turn-helix motif. Due to
           the way Pfam works, the threshold has been set
           artificially high to prevent overlaps with other
           helix-turn-helix families. Therefore there are many
           false negatives.
          Length = 50

 Score = 33.9 bits (79), Expect = 0.034
 Identities = 16/33 (48%), Positives = 19/33 (57%), Gaps = 1/33 (3%)

Query: 174 LTERETSCLQLA-GDGYTSEEIAEKLGLSVHTV 205
           L  RE   L L  G+G T EEI E+LG+S   V
Sbjct: 5   LPPREREVLVLRFGEGLTLEEIGERLGISRERV 37


>gnl|CDD|143331 cd01392, HTH_LacI, Helix-turn-helix (HTH) DNA binding domain of the
           LacI family of transcriptional regulators.  HTH-DNA
           binding domain of the LacI (lactose operon repressor)
           family of bacterial transcriptional regulators and their
           putative homologs found in plants. The LacI family has
           more than 500 members distributed among almost all
           bacterial species. The monomeric proteins of the LacI
           family contain common structural features that include a
           small DNA-binding domain with a helix-turn-helix motif
           in the N-terminus, a regulatory ligand-binding domain
           which exhibits the type I periplasmic binding protein
           fold in the C-terminus for oligomerization and for
           effector binding, and an approximately 18-amino acid
           linker connecting these two functional domains. In
           LacI-like transcriptional regulators, the ligands are
           monosaccharides including lactose, ribose, fructose,
           xylose, arabinose, galactose/glucose, and other sugars,
           with a few exceptions. When the C-terminal domain of the
           LacI family repressor binds its ligand, it undergoes a
           conformational change which affects the DNA-binding
           affinity of the repressor. In Escherichia coli, LacI
           represses transcription by binding with high affinity to
           the lac operon at a specific operator DNA sequence until
           it interacts with the physiological inducer allolactose
           or a non-degradable analog IPTG
           (isopropyl-beta-D-thiogalactopyranoside). Induction of
           the repressor lowers its affinity for the operator
           sequence, thereby allowing transcription of the lac
           operon structural genes (lacZ, lacY, and LacA). The lac
           repressor occurs as a tetramer made up of two functional
           dimers. Thus, two DNA binding domains of a dimer are
           required to bind the inverted repeat sequences of the
           operator DNA binding sites.
          Length = 52

 Score = 32.8 bits (76), Expect = 0.090
 Identities = 15/43 (34%), Positives = 22/43 (51%), Gaps = 3/43 (6%)

Query: 193 EIAEKLGLSVHTVNAYL-GSATVKLDAVNRIQAIAKAIRFGYI 234
           +IA   G+SV TV+  L G   V  +   R+ A A+ +  GY 
Sbjct: 2   DIARAAGVSVATVSRVLNGKPRVSEETRERVLAAAEEL--GYR 42


>gnl|CDD|33219 COG3413, COG3413, Predicted DNA binding protein [General function
           prediction only].
          Length = 215

 Score = 30.4 bits (68), Expect = 0.47
 Identities = 17/52 (32%), Positives = 31/52 (59%), Gaps = 8/52 (15%)

Query: 173 NLTERETSCLQLAGD-GY-------TSEEIAEKLGLSVHTVNAYLGSATVKL 216
           +LT+R+   L+LA   GY       + +++A++LG+S  T++ +L  A  KL
Sbjct: 155 DLTDRQLEVLRLAYKMGYFDYPRRVSLKDLAKELGISKSTLSEHLRRAERKL 206


>gnl|CDD|31797 COG1609, PurR, Transcriptional regulators [Transcription].
          Length = 333

 Score = 30.3 bits (68), Expect = 0.49
 Identities = 14/46 (30%), Positives = 24/46 (52%), Gaps = 3/46 (6%)

Query: 190 TSEEIAEKLGLSVHTVNAYL-GSATVKLDAVNRIQAIAKAIRFGYI 234
           T +++A+  G+S  TV+  L GS  V  +   ++ A  K +  GY 
Sbjct: 2   TIKDVAKLAGVSKATVSRVLNGSPYVSEETREKVLAAIKEL--GYR 45


>gnl|CDD|113729 pfam04967, HTH_10, HTH DNA binding domain. 
          Length = 53

 Score = 30.3 bits (69), Expect = 0.51
 Identities = 18/51 (35%), Positives = 30/51 (58%), Gaps = 8/51 (15%)

Query: 174 LTERETSCLQLAGD-GY-------TSEEIAEKLGLSVHTVNAYLGSATVKL 216
           LT+R+   L+LA   GY       T +++A++LG+S  T++ +L  A  KL
Sbjct: 1   LTDRQREILRLAYKMGYFDYPRRVTLKDLAKELGISKSTLSEHLRRAESKL 51


>gnl|CDD|31509 COG1318, COG1318, Predicted transcriptional regulators
           [Transcription].
          Length = 182

 Score = 29.2 bits (65), Expect = 0.97
 Identities = 13/35 (37%), Positives = 16/35 (45%)

Query: 188 GYTSEEIAEKLGLSVHTVNAYLGSATVKLDAVNRI 222
           G T  EIAE+LG +  TV  +L   T     V   
Sbjct: 61  GMTISEIAEELGRTEQTVRNHLKGETKAGQLVRET 95


>gnl|CDD|32535 COG2390, DeoR, Transcriptional regulator, contains sigma
           factor-related N-terminal domain [Transcription].
          Length = 321

 Score = 29.4 bits (66), Expect = 0.98
 Identities = 13/26 (50%), Positives = 17/26 (65%)

Query: 187 DGYTSEEIAEKLGLSVHTVNAYLGSA 212
           +G T  EIAE+LG+S  TV+  L  A
Sbjct: 25  EGLTQSEIAERLGISRATVSRLLAKA 50


>gnl|CDD|144828 pfam01381, HTH_3, Helix-turn-helix.  This large family of DNA
           binding helix-turn helix proteins includes Cro and CI.
          Length = 55

 Score = 28.7 bits (65), Expect = 1.5
 Identities = 14/44 (31%), Positives = 25/44 (56%), Gaps = 4/44 (9%)

Query: 188 GYTSEEIAEKLGLSVHTVNAYL-GSATVKLDAVNRIQAIAKAIR 230
           G + EE+AEKLG+S  T++    G     L+    ++ +A+A+ 
Sbjct: 9   GLSQEELAEKLGVSRSTISKIENGKREPSLE---TLKKLAEALG 49


>gnl|CDD|33163 COG3355, COG3355, Predicted transcriptional regulator
           [Transcription].
          Length = 126

 Score = 28.3 bits (63), Expect = 1.7
 Identities = 15/65 (23%), Positives = 26/65 (40%), Gaps = 4/65 (6%)

Query: 173 NLTERETSCLQL---AGDGYTSEEIAEKLGLSVHTVNAYLGSATVKLDAVNRIQAIAKAI 229
            L+E +    +         T +E+AE L  S  TV   L +  ++   V R +   K  
Sbjct: 24  GLSELDVEVYKALLEENGPLTVDELAEILNRSRSTVYRSLQN-LLEAGLVEREKVNLKGG 82

Query: 230 RFGYI 234
            + Y+
Sbjct: 83  GYYYL 87


>gnl|CDD|31547 COG1356, COG1356, Uncharacterized protein conserved in archaea
           [Function unknown].
          Length = 143

 Score = 28.0 bits (62), Expect = 2.5
 Identities = 15/57 (26%), Positives = 23/57 (40%)

Query: 174 LTERETSCLQLAGDGYTSEEIAEKLGLSVHTVNAYLGSATVKLDAVNRIQAIAKAIR 230
           LTE++   L L   G T  EIA  L  +   V+A    A   ++       + + I 
Sbjct: 9   LTEQQIKVLVLREKGLTQSEIARILKTTRANVSAIEKRALENIEKARNTLLLWEQIN 65


>gnl|CDD|37022 KOG1811, KOG1811, KOG1811, Predicted Zn2+-binding protein, contains
           FYVE domain [General function prediction only].
          Length = 1141

 Score = 27.1 bits (59), Expect = 3.9
 Identities = 24/88 (27%), Positives = 33/88 (37%), Gaps = 7/88 (7%)

Query: 131 YVIFTSEFLMLANEVIIEAHGACYQVITDFLELFKKRSSAARNLTERETSCLQLAGDGYT 190
                 +F +L      E  GA Y   +  L+LF      A    +     LQLAG G  
Sbjct: 124 IAGKRLKFFLL----FEEMFGASYAHCSS-LKLFMGEQLEAECKEDPAGLALQLAGKGAV 178

Query: 191 SE--EIAEKLGLSVHTVNAYLGSATVKL 216
               E+AE+ G S+   +  LG    K 
Sbjct: 179 GAALEVAEEAGFSIDERDELLGRQAEKA 206


>gnl|CDD|28977 cd00093, HTH_XRE, Helix-turn-helix XRE-family like proteins.
           Prokaryotic DNA binding proteins belonging to the
           xenobiotic response element family of transcriptional
           regulators..
          Length = 58

 Score = 27.0 bits (60), Expect = 4.0
 Identities = 16/43 (37%), Positives = 25/43 (58%), Gaps = 4/43 (9%)

Query: 188 GYTSEEIAEKLGLSVHTVNAYL-GSATVKLDAVNRIQAIAKAI 229
           G T EE+AEKLG+S  T++    G     L+    ++ +AKA+
Sbjct: 12  GLTQEELAEKLGVSRSTISRIENGKRNPSLE---TLEKLAKAL 51


>gnl|CDD|109553 pfam00502, Phycobilisome, Phycobilisome protein. 
          Length = 157

 Score = 26.8 bits (60), Expect = 5.0
 Identities = 5/26 (19%), Positives = 12/26 (46%)

Query: 204 TVNAYLGSATVKLDAVNRIQAIAKAI 229
           ++  ++     +L+A   + A A  I
Sbjct: 21  SLKGFVQRGNARLEAAEALTANASKI 46


>gnl|CDD|33221 COG3415, COG3415, Transposase and inactivated derivatives [DNA
           replication, recombination, and repair].
          Length = 138

 Score = 26.8 bits (59), Expect = 5.1
 Identities = 10/39 (25%), Positives = 20/39 (51%)

Query: 173 NLTERETSCLQLAGDGYTSEEIAEKLGLSVHTVNAYLGS 211
           +   RE     + G+G +  E A++ G+S+ TV  ++  
Sbjct: 6   SNDLRERVVDAVVGEGLSCREAAKRFGVSISTVYRWVRR 44


>gnl|CDD|133386 cd01111, HTH_MerD, Helix-Turn-Helix DNA binding domain of the MerD
           transcription regulator.  Helix-turn-helix (HTH)
           transcription regulator MerD. The putative secondary
           regulator of mercury resistance (mer) operons, MerD, has
           been shown to down-regulate the expression of this
           operon in gram-negative bacteria. It binds to the same
           operator DNA as MerR that activates transcription of the
           operon in the presence of mercury ions. The MerD protein
           shares the N-terminal DNA binding domain with other
           transcription regulators of the MerR superfamily, which
           promote transcription by reconfiguring the spacer
           between the -35 and -10 promoter elements. A typical
           MerR regulator is comprised of two distinct domains that
           harbor the regulatory (effector-binding) site and the
           active (DNA-binding) site. Their N-terminal domains are
           conserved and contain predicted winged HTH motifs that
           mediate DNA binding, while the dissimilar C-terminal
           domains bind specific coactivator molecules such as
           metal ions, drugs, and organic substrates.
          Length = 107

 Score = 27.0 bits (60), Expect = 5.3
 Identities = 9/21 (42%), Positives = 13/21 (61%)

Query: 189 YTSEEIAEKLGLSVHTVNAYL 209
           Y+  ++A   G+SVH V  YL
Sbjct: 1   YSISQLALDAGVSVHIVRDYL 21


>gnl|CDD|133384 cd01109, HTH_YyaN, Helix-Turn-Helix DNA binding domain of the
           MerR-like transcription regulators YyaN and YraB.
           Putative helix-turn-helix (HTH) MerR-like transcription
           regulators of Bacillus subtilis, YyaN and YraB, and
           related proteins; N-terminal domain. Based on sequence
           similarity, these proteins are predicted to function as
           transcription regulators that mediate responses to
           stress in eubacteria. They belong to the MerR
           superfamily of transcription regulators that promote
           transcription of various stress regulons by
           reconfiguring the operator sequence located between the
           -35 and -10 promoter elements. A typical MerR regulator
           is comprised of distinct domains that harbor the
           regulatory (effector-binding) site and the active
           (DNA-binding) site. Their N-terminal domains are
           homologous and contain a DNA-binding winged HTH motif,
           while the C-terminal domains are often dissimilar and
           bind specific coactivator molecules such as metal ions,
           drugs, and organic substrates.
          Length = 113

 Score = 26.7 bits (60), Expect = 5.6
 Identities = 10/16 (62%), Positives = 12/16 (75%)

Query: 189 YTSEEIAEKLGLSVHT 204
           YT +E+AEK GLS  T
Sbjct: 1   YTIKEVAEKTGLSADT 16


>gnl|CDD|32494 COG2345, COG2345, Predicted transcriptional regulator
           [Transcription].
          Length = 218

 Score = 26.4 bits (58), Expect = 6.9
 Identities = 10/35 (28%), Positives = 17/35 (48%)

Query: 175 TERETSCLQLAGDGYTSEEIAEKLGLSVHTVNAYL 209
           T      L       +++E+AE+LG+S   V  +L
Sbjct: 12  TRERILELLKKSGPVSADELAEELGISPMAVRRHL 46


>gnl|CDD|35043 COG5484, COG5484, Uncharacterized conserved protein [Function
           unknown].
          Length = 279

 Score = 26.3 bits (57), Expect = 7.0
 Identities = 9/22 (40%), Positives = 16/22 (72%)

Query: 187 DGYTSEEIAEKLGLSVHTVNAY 208
            G   ++IAEKLG+S +T+ ++
Sbjct: 18  KGMKLKDIAEKLGVSPNTIKSW 39


>gnl|CDD|36988 KOG1777, KOG1777, KOG1777, Putative Zn-finger protein [General
           function prediction only].
          Length = 625

 Score = 26.5 bits (58), Expect = 7.3
 Identities = 19/76 (25%), Positives = 26/76 (34%), Gaps = 10/76 (13%)

Query: 20  RLHLIQNRIKARNFALYTINSALDFPRRQQLICELHN------YDLDSGDIPNILIETYG 73
               ++N I A NFA   I S  +   RQ    E+        Y    G       E YG
Sbjct: 267 LGQFLENSIYANNFAGVWITSNSNPTIRQ---NEIIFGAQGGVYIFGDGRGLFEFNEIYG 323

Query: 74  DDFL-FHFNSGLLPII 88
           +  L     +   PI+
Sbjct: 324 NALLGIQIRTNSTPIV 339


>gnl|CDD|31840 COG1654, BirA, Biotin operon repressor [Transcription].
          Length = 79

 Score = 26.0 bits (57), Expect = 8.0
 Identities = 10/39 (25%), Positives = 21/39 (53%), Gaps = 1/39 (2%)

Query: 172 RNLTERETSCLQLAGDGYTS-EEIAEKLGLSVHTVNAYL 209
           ++ ++     L L    + S E++AE+LG+S   V  ++
Sbjct: 2   KDTSQMLLLLLLLLTGNFVSGEKLAEELGISRTAVWKHI 40


>gnl|CDD|34203 COG4565, CitB, Response regulator of citrate/malate metabolism
           [Transcription / Signal transduction mechanisms].
          Length = 224

 Score = 26.3 bits (58), Expect = 8.2
 Identities = 11/28 (39%), Positives = 16/28 (57%)

Query: 182 LQLAGDGYTSEEIAEKLGLSVHTVNAYL 209
           L+      T+EE+A+ LG+S  T   YL
Sbjct: 167 LKEPDQELTAEELAQALGISRVTARRYL 194


>gnl|CDD|28976 cd00092, HTH_CRP, helix_turn_helix, cAMP Regulatory protein
           C-terminus; DNA binding domain of prokaryotic regulatory
           proteins belonging to the catabolite activator protein
           family..
          Length = 67

 Score = 26.0 bits (57), Expect = 8.4
 Identities = 10/22 (45%), Positives = 14/22 (63%)

Query: 190 TSEEIAEKLGLSVHTVNAYLGS 211
           T +EIA+ LGL+  TV+  L  
Sbjct: 27  TRQEIADYLGLTRETVSRTLKE 48


>gnl|CDD|144749 pfam01268, FTHFS, Formate--tetrahydrofolate ligase. 
          Length = 555

 Score = 26.2 bits (59), Expect = 8.9
 Identities = 15/34 (44%), Positives = 20/34 (58%), Gaps = 3/34 (8%)

Query: 192 EEIAEKLGLSVHTVNAYLGS--ATVKLDAVNRIQ 223
            EIAEKLGL    +  Y G   A V LD ++R++
Sbjct: 17  TEIAEKLGLPEDELEPY-GKYKAKVSLDVLDRLK 49


  Database: CddA
    Posted date:  Feb 4, 2011  9:38 PM
  Number of letters in database: 6,263,737
  Number of sequences in database:  21,609
  
Lambda     K      H
   0.321    0.138    0.395 

Gapped
Lambda     K      H
   0.267   0.0783    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 2,735,490
Number of extensions: 143139
Number of successful extensions: 439
Number of sequences better than 10.0: 1
Number of HSP's gapped: 439
Number of HSP's successfully gapped: 38
Length of query: 235
Length of database: 6,263,737
Length adjustment: 91
Effective length of query: 144
Effective length of database: 4,297,318
Effective search space: 618813792
Effective search space used: 618813792
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: 56 (25.2 bits)