RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy3537
         (117 letters)



>gnl|CDD|218493 pfam05199, GMC_oxred_C, GMC oxidoreductase.  This domain found
           associated with pfam00732.
          Length = 139

 Score = 96.7 bits (241), Expect = 5e-27
 Identities = 27/85 (31%), Positives = 42/85 (49%)

Query: 21  VDAIVCDGFHYDSDDYWKCTIKRRSSSYYHLSSTARMGDNILTSVVNYKLQVHGLENVRI 80
               V  G    SDD     I+  + + +H   T RMG +    VV+  L+VHG++N+R+
Sbjct: 55  GPVEVVPGAAEASDDEILEYIRAAAVTSWHPMGTCRMGADPDDGVVDPDLRVHGVDNLRV 114

Query: 81  ADASVMPYTVNANIHATCVMIGEKC 105
            DASV P + + N   T   + E+ 
Sbjct: 115 VDASVFPSSPSGNPTLTIYALAERA 139


>gnl|CDD|225186 COG2303, BetA, Choline dehydrogenase and related flavoproteins
           [Amino acid transport and metabolism].
          Length = 542

 Score = 91.4 bits (227), Expect = 8e-23
 Identities = 31/88 (35%), Positives = 47/88 (53%)

Query: 23  AIVCDGFHYDSDDYWKCTIKRRSSSYYHLSSTARMGDNILTSVVNYKLQVHGLENVRIAD 82
           A +  G    +D+     I+  + + YH   T RMG +    V +  L+VHGLEN+R+ D
Sbjct: 447 AELAPGPRVTTDEDISAAIRFLARTAYHPMGTCRMGSDPAAVVDDPYLRVHGLENLRVVD 506

Query: 83  ASVMPYTVNANIHATCVMIGEKCADLIK 110
           ASVMP +   N + T + + E+ AD I 
Sbjct: 507 ASVMPTSTGVNPNLTIIALAERAADHIL 534


>gnl|CDD|235000 PRK02106, PRK02106, choline dehydrogenase; Validated.
          Length = 560

 Score = 91.0 bits (227), Expect = 1e-22
 Identities = 29/70 (41%), Positives = 48/70 (68%), Gaps = 1/70 (1%)

Query: 41  IKRRSSSYYHLSSTARMGDNILTSVVNYKLQVHGLENVRIADASVMPYTVNANIHATCVM 100
           ++  + + YH S T +MG + + +VV+ + +VHG+E +R+ DAS+MP   N N++A  +M
Sbjct: 464 VREHAETAYHPSCTCKMGTDPM-AVVDPEGRVHGVEGLRVVDASIMPTITNGNLNAPTIM 522

Query: 101 IGEKCADLIK 110
           I EK ADLI+
Sbjct: 523 IAEKAADLIR 532


>gnl|CDD|233581 TIGR01810, betA, choline dehydrogenase.  Choline dehydrogenase
           catalyzes the conversion of exogenously supplied choline
           into the intermediate glycine betaine aldehyde, as part
           of a two-step oxidative reaction leading to the
           formation of osmoprotectant betaine. This enzymatic
           system can be found in both gram-positive and
           gram-negative bacteria. As in Escherichia coli ,
           Staphylococcus xylosus , and Sinorhizobium meliloti,
           this enzyme is found associated in a transciptionally
           co-induced gene cluster with betaine aldehyde
           dehydrogenase, the second catalytic enzyme in this
           reaction. Other gram-positive organisms have been shown
           to employ a different enzymatic system, utlizing a
           soluable choline oxidase or type III alcohol
           dehydrogenase instead of choline dehydrogenase. This
           enzyme is a member of the GMC oxidoreductase family
           (pfam00732 and pfam05199), sharing a common
           evoluntionary origin and enzymatic reaction with alcohol
           dehydrogenase. Outgrouping from this model, Caulobacter
           crescentus shares sequence homology with choline
           dehydrogenase, yet other genes participating in this
           enzymatic reaction have not currently been identified
           [Cellular processes, Adaptations to atypical
           conditions].
          Length = 532

 Score = 77.2 bits (190), Expect = 7e-18
 Identities = 29/73 (39%), Positives = 47/73 (64%), Gaps = 5/73 (6%)

Query: 41  IKRRSSSYYHLSSTARMG---DNILTSVVNYKLQVHGLENVRIADASVMPYTVNANIHAT 97
           ++R   +  H   T +MG   D +  SVV+ + +VHG+E +R+ DAS+MP   N N++A 
Sbjct: 457 VRRHGETALHPCGTCKMGPASDEM--SVVDPETRVHGMEGLRVVDASIMPRITNGNLNAP 514

Query: 98  CVMIGEKCADLIK 110
            +M+GEK AD+I+
Sbjct: 515 VIMMGEKAADIIR 527


>gnl|CDD|234421 TIGR03970, Rv0697, dehydrogenase, Rv0697 family.  This model
           describes a set of dehydrogenases belonging to the
           glucose-methanol-choline oxidoreductase (GMC
           oxidoreductase) family. Members of the present family
           are restricted to Actinobacterial genome contexts
           containing also members of families TIGR03962 and
           TIGR03969 (the mycofactocin system), and are proposed to
           be uniform in function.
          Length = 487

 Score = 57.9 bits (140), Expect = 4e-11
 Identities = 21/67 (31%), Positives = 39/67 (58%), Gaps = 1/67 (1%)

Query: 44  RSSSYYHLSSTARMG-DNILTSVVNYKLQVHGLENVRIADASVMPYTVNANIHATCVMIG 102
           R ++  HL  + RMG  +   +VV+ + +V G+E + + D S++P   +   HAT VM+ 
Sbjct: 420 RLATSQHLCGSCRMGGRDDPGAVVDARCRVRGVEGLWVVDGSILPVIPSRGPHATAVMVA 479

Query: 103 EKCADLI 109
           E+ A+ +
Sbjct: 480 ERAAEFL 486


>gnl|CDD|131515 TIGR02462, pyranose_ox, pyranose oxidase.  Pyranose oxidase (also
           called glucose 2-oxidase) converts D-glucose and
           molecular oxygen to 2-dehydro-D-glucose and hydrogen
           peroxide. Peroxide production is believed to be
           important to the wood rot fungi in which this enzyme is
           found for lignin degradation.
          Length = 544

 Score = 36.0 bits (83), Expect = 0.002
 Identities = 18/63 (28%), Positives = 29/63 (46%)

Query: 50  HLSSTARMGDNILTSVVNYKLQVHGLENVRIADASVMPYTVNANIHATCVMIGEKCADLI 109
           HL+ T R+G +  T+V N   +VH  +N+ +     +P    AN   T +    K A+ I
Sbjct: 480 HLAGTTRIGFDEQTTVANTDSKVHNFKNLYVGGNGNIPTAFGANPTLTSMCYAIKSAEYI 539

Query: 110 KQY 112
              
Sbjct: 540 INN 542


>gnl|CDD|215420 PLN02785, PLN02785, Protein HOTHEAD.
          Length = 587

 Score = 28.2 bits (63), Expect = 1.0
 Identities = 12/38 (31%), Positives = 20/38 (52%)

Query: 65  VVNYKLQVHGLENVRIADASVMPYTVNANIHATCVMIG 102
           VV+   +V G+  +R+ D S    +   N  AT +M+G
Sbjct: 532 VVDQNYKVLGVSRLRVIDGSTFDESPGTNPQATVMMMG 569


>gnl|CDD|131700 TIGR02652, TIGR02652, TIGR02652 family protein.  Members of this
           family of conserved hypothetical proteins are found, so
           far, only in the Cyanobacteria. Members are about 170
           amino acids long and share a motif CxxCx(14)CxxH near
           the amino end [Hypothetical proteins, Conserved].
          Length = 163

 Score = 27.9 bits (62), Expect = 1.1
 Identities = 9/22 (40%), Positives = 15/22 (68%)

Query: 95  HATCVMIGEKCADLIKQYWEKS 116
            AT V+I E+  +L++ Y E+S
Sbjct: 88  RATRVIIAERYRELLRSYLERS 109


>gnl|CDD|118186 pfam09654, DUF2396, Protein of unknown function (DUF2396).  These
           conserved hypothetical proteins have so far been found
           only in the Cyanobacteria. They are about 170 amino
           acids long and contain a CxxCx(14)CxxH motif near the
           N-terminus.
          Length = 161

 Score = 26.7 bits (59), Expect = 3.0
 Identities = 9/22 (40%), Positives = 14/22 (63%)

Query: 95  HATCVMIGEKCADLIKQYWEKS 116
            AT V+I E+  +L+  Y E+S
Sbjct: 85  RATRVIIAERYRELVSAYLERS 106


>gnl|CDD|235414 PRK05331, PRK05331, putative phosphate acyltransferase;
           Provisional.
          Length = 334

 Score = 25.4 bits (57), Expect = 8.0
 Identities = 6/9 (66%), Positives = 7/9 (77%)

Query: 21  VDAIVCDGF 29
            D +VCDGF
Sbjct: 223 ADVVVCDGF 231


>gnl|CDD|240160 cd05124, AFK, Actin-Fragmin Kinase (AFK); catalytic domain. The AFK
           catalytic domain is part of a larger superfamily that
           includes the catalytic domains of other kinases such as
           the typical serine/threonine/tyrosine protein kinases
           (PKs), RIO kinases, aminoglycoside phosphotransferase,
           choline kinase, and phosphoinositide 3-kinase (PI3K).
           AFK is found in slime molds, ciliates, and flowering
           plants. It catalyzes the transfer of the
           gamma-phosphoryl group from ATP specifically to
           threonine residues in the actin-fragmin complex. The
           phosphorylation sites are located at a minor contact
           site for DNase I and at an actin-actin contact site.
           Fragmin is an actin-binding protein that functions as a
           regulator of the microfilament system. It interferes
           with the growth of F-actin by severing actin filaments
           and capping their ends. The phosphorylation of the
           actin-fragmin complex inhibits its nucleation activity
           and results in calcium-dependent capping activity. Thus,
           AFK plays a role in regulating actin polymerization.
          Length = 238

 Score = 25.4 bits (56), Expect = 8.7
 Identities = 12/63 (19%), Positives = 20/63 (31%), Gaps = 1/63 (1%)

Query: 9   MTLNFLNWPKTMVD-AIVCDGFHYDSDDYWKCTIKRRSSSYYHLSSTARMGDNILTSVVN 67
              N     + ++D        HY++      T+  +   Y   SS  R    IL   +N
Sbjct: 158 DIPNKNGATEDLIDSNNTSLNNHYETIRSLDRTLIAKPVDYSFESSQLRSMREILQKQLN 217

Query: 68  YKL 70
              
Sbjct: 218 DLS 220


>gnl|CDD|240483 cd12903, SPRY_PRY_SPRYD4, PRY/SPRY domain containing protein 4
          (SPRYD4).  This domain, consisting of the distinct
          N-terminal PRY subdomain followed by the SPRY subdomain
          and is encoded by the SPRYD4 gene. SPRYD4 (SPRY
          containing domain 4) is ubiquitously expressed in many
          human tissues, most strongly in kidney, bladder, brain,
          thymus and stomach. Subcellular localization
          demonstrates that SPRYD4 protein is localized in the
          nucleus when overexpressed in COS-7 green monkey cell.
          It has remained uncharacterized thus far.
          Length = 169

 Score = 25.2 bits (55), Expect = 8.8
 Identities = 11/33 (33%), Positives = 15/33 (45%), Gaps = 5/33 (15%)

Query: 11 LNFLNWPKTMVDAIVCDGFHYDSDDYWKCTIKR 43
            F +W   + D  V  G H     YW+ T+KR
Sbjct: 38 ERFRDWAVVLADTPVESGRH-----YWEVTVKR 65


  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
   0.321    0.132    0.414 

Gapped
Lambda     K      H
   0.267   0.0691    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,533,377
Number of extensions: 434573
Number of successful extensions: 354
Number of sequences better than 10.0: 1
Number of HSP's gapped: 351
Number of HSP's successfully gapped: 17
Length of query: 117
Length of database: 10,937,602
Length adjustment: 80
Effective length of query: 37
Effective length of database: 7,389,282
Effective search space: 273403434
Effective search space used: 273403434
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: 53 (24.3 bits)