RPS-BLAST 2.2.22 [Sep-27-2009]

Database: CddB 
           21,608 sequences; 5,994,473 total letters

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

Query= gi|254780322|ref|YP_003064735.1| SAM-dependent
methyltransferase protein [Candidatus Liberibacter asiaticus str.
psy62]
         (273 letters)



>gnl|CDD|162684 TIGR02072, BioC, biotin biosynthesis protein BioC.  This enzyme,
           which is found in biotin biosynthetic gene clusters in
           proteobacteria, firmicutes, green-sulfur bacteria,
           fusobacterium and bacteroides, is believed to carry out
           an enzymatic step prior to the formation of pimeloyl-CoA
           (although attribution of this annotation is not
           traceable). The enzyme appears related to
           methyltransferases by homology.
          Length = 240

 Score = 80.0 bits (198), Expect = 7e-16
 Identities = 39/170 (22%), Positives = 76/170 (44%), Gaps = 18/170 (10%)

Query: 94  LEEIPSISQSVDLILSPLNLHIINDTLEMFSKINHMLKPGGMFLAAIPGIGTLHELRKAL 153
            E++P    S DLI+S L L   +D  +  S++  +LKPGG+   +  G GTLHELR   
Sbjct: 89  AEKLPLEDSSFDLIVSNLALQWCDDLSQALSELARVLKPGGLLAFSTFGPGTLHELR--- 145

Query: 154 LKAETELTGGASPRVIPFMDIKSAGTLMEKSGFISPIIDQDTYTVYYKSMLHLMHDLRGM 213
                +  G      + ++ +     L++ S F    ++++  T+ +   L ++  L+  
Sbjct: 146 -----QSFG---QHGLRYLSLDELKALLKNS-FELLTLEEELITLSFDDPLDVLRHLKKT 196

Query: 214 GMSNPLIRRSKTPPYKSLFKRASTIYTEENSDLTGNVTASFSIIYVMGWK 263
           G +     R+     K+  +R    Y +E       +  ++ ++Y +  K
Sbjct: 197 GANGLSSGRTSRKQLKAFLER----YEQEFQ--PDGLPLTYHVVYGIAKK 240


>gnl|CDD|149353 pfam08241, Methyltransf_11, Methyltransferase domain.  Members of
           this family are SAM dependent methyltransferases.
          Length = 95

 Score = 38.0 bits (89), Expect = 0.002
 Identities = 15/50 (30%), Positives = 26/50 (52%)

Query: 88  EVISCPLEEIPSISQSVDLILSPLNLHIINDTLEMFSKINHMLKPGGMFL 137
             +    E++P   +S D+++S L LH + D      +I  +LKPGG  +
Sbjct: 45  TFVVGDAEDLPFPDESFDVVVSSLVLHHLPDPERALREIARVLKPGGKLV 94


>gnl|CDD|149354 pfam08242, Methyltransf_12, Methyltransferase domain.  Members of
           this family are SAM dependent methyltransferases.
          Length = 98

 Score = 34.7 bits (80), Expect = 0.025
 Identities = 12/44 (27%), Positives = 22/44 (50%)

Query: 93  PLEEIPSISQSVDLILSPLNLHIINDTLEMFSKINHMLKPGGMF 136
            L+ I     S D++++   LH + D   +   +  +LKPGG+ 
Sbjct: 55  VLDAIDLDPGSFDVVVASNVLHHLADPRAVLRNLRRLLKPGGVL 98


>gnl|CDD|183351 PRK11873, arsM, arsenite S-adenosylmethyltransferase; Reviewed.
          Length = 272

 Score = 31.8 bits (73), Expect = 0.18
 Identities = 29/112 (25%), Positives = 49/112 (43%), Gaps = 19/112 (16%)

Query: 94  LEEIPSISQSVDLILSPLNLHIIN---DTLEMFSKINHMLKPGGMFLAAIPGIGTLHELR 150
           +E +P    SVD+I+S  N  +IN   D   +F +   +LKPGG F  AI  +    EL 
Sbjct: 137 IEALPVADNSVDVIIS--NC-VINLSPDKERVFKEAFRVLKPGGRF--AISDVVLRGELP 191

Query: 151 KALLKAETELTG---GASPRVIPFMDIKSAGTLMEKSGFISPIID-QDTYTV 198
           + +        G   GA       +  +    ++ ++GF+   I  +  Y +
Sbjct: 192 EEIRNDAELYAGCVAGA-------LQEEEYLAMLAEAGFVDITIQPKREYRI 236


>gnl|CDD|181665 PRK09130, PRK09130, NADH dehydrogenase subunit G; Validated.
          Length = 687

 Score = 29.8 bits (68), Expect = 0.71
 Identities = 18/87 (20%), Positives = 32/87 (36%), Gaps = 28/87 (32%)

Query: 145 TLHELRKAL------LKAETELTGGASPRVIPFMDIKSAGTLMEKSGFISPIIDQDTYTV 198
           +L +LR  L        A  ++T     + +    + S    + K+ F SP+ D      
Sbjct: 606 SLAQLRAKLAAAYPHFAAIDQITPSKDAKDLAA--LASKKGKLSKAPFTSPVKD------ 657

Query: 199 YYKSMLHLMHDLRGMGMSNPLIRRSKT 225
           +Y              ++NP+ R S T
Sbjct: 658 FY--------------LTNPIARASAT 670


>gnl|CDD|181282 PRK08195, PRK08195, 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic
           acid aldolase,; Validated.
          Length = 337

 Score = 29.4 bits (67), Expect = 1.0
 Identities = 7/13 (53%), Positives = 11/13 (84%)

Query: 140 IPGIGTLHELRKA 152
           +PGIGT+ +L+ A
Sbjct: 85  LPGIGTVDDLKMA 97


>gnl|CDD|151603 pfam11161, DUF2944, Protein of unknown function (DUF2946).  This
           family of proteins with unknown function appear to be
           restricted to Proteobacteria.
          Length = 178

 Score = 28.9 bits (65), Expect = 1.5
 Identities = 20/61 (32%), Positives = 29/61 (47%), Gaps = 5/61 (8%)

Query: 133 GGMFLAAIPGIGTLHELRKALLKAETELTG---GASPRVIPFMDIKSAGTLMEKSGFI-S 188
           G ++LA   G+G LH+    L     +L G   G   R +P   + SA  L  + GF+ S
Sbjct: 116 GRVYLATPAGLGLLHDHDMDLFAEALDLGGDACGGDGRTLPLEPVLSA-ELPRRFGFVRS 174

Query: 189 P 189
           P
Sbjct: 175 P 175


>gnl|CDD|129061 smart00828, PKS_MT, Methyltransferase  in polyketide synthase (PKS)
           enzymes. 
          Length = 224

 Score = 28.5 bits (64), Expect = 1.7
 Identities = 13/35 (37%), Positives = 20/35 (57%)

Query: 105 DLILSPLNLHIINDTLEMFSKINHMLKPGGMFLAA 139
           DL+     +H I D +++FS I+  LK GG  + A
Sbjct: 69  DLVFGFEVIHHIKDKMDLFSNISRHLKDGGHLVLA 103


>gnl|CDD|132261 TIGR03217, 4OH_2_O_val_ald, 4-hydroxy-2-oxovalerate aldolase.
           Members of this protein family are
           4-hydroxy-2-oxovalerate aldolase, also called
           4-hydroxy-2-ketovalerate aldolase and
           2-oxo-4-hydroxypentanoate aldolase. This enzyme, part of
           the pathway for the meta-cleavage of catechol, produces
           pyruvate and acetaldehyde. Acetaldehyde is then
           converted by acetaldehyde dehydrogenase (acylating)
           (DmpF; EC 1.2.1.10) to acetyl-CoA. The two enzymes are
           tightly associated.
          Length = 333

 Score = 28.5 bits (64), Expect = 2.1
 Identities = 8/13 (61%), Positives = 12/13 (92%)

Query: 140 IPGIGTLHELRKA 152
           +PGIGT+H+L+ A
Sbjct: 84  LPGIGTVHDLKAA 96


>gnl|CDD|180713 PRK06826, dnaE, DNA polymerase III DnaE; Reviewed.
          Length = 1151

 Score = 28.3 bits (64), Expect = 2.4
 Identities = 11/24 (45%), Positives = 14/24 (58%), Gaps = 3/24 (12%)

Query: 30  DRVAKEIAFRLNMINQTFENALEL 53
           DR+AK I   L +   T + ALEL
Sbjct: 454 DRIAKMIPTELGI---TIDKALEL 474


>gnl|CDD|151230 pfam10758, DUF2586, Protein of unknown function (DUF2586).  This
           bacterial family of proteins has no known function.
          Length = 363

 Score = 27.3 bits (61), Expect = 4.5
 Identities = 13/36 (36%), Positives = 16/36 (44%), Gaps = 1/36 (2%)

Query: 136 FLAAIPGIGTLHELRKALLKAETELTGG-ASPRVIP 170
           FL A+ GI    +     L A   LT G A+ RV  
Sbjct: 133 FLLAVAGIDAEGQTWSDYLAALAALTDGVAAERVAL 168


>gnl|CDD|149453 pfam08397, IMD, IRSp53/MIM homology domain.  The N-terminal
          predicted helical stretch of the insulin receptor
          tyrosine kinase substrate p53 (IRSp53) is an
          evolutionary conserved F-actin bundling domain involved
          in filopodium formation. The domain has been named IMD
          after the IRSp53 and missing in metastasis (MIM)
          proteins in which it occurs. Filopodium-inducing IMD
          activity is regulated by Cdc42 and Rac1 and is
          SH3-independent.
          Length = 218

 Score = 27.0 bits (60), Expect = 5.3
 Identities = 13/49 (26%), Positives = 22/49 (44%), Gaps = 2/49 (4%)

Query: 48 ENALELHGITGIVGYTCMETKKIHRMIRAEISTEFSTLKREVISCPLEE 96
          E A    G +  +G        +HR I +++   F     E+I+ PLE+
Sbjct: 45 EMASNSPG-SRELGSVLTRMSMVHRSINSKLEEFFKAFHDELIN-PLEK 91


>gnl|CDD|132559 TIGR03520, GldE, gliding motility-associated protein GldE.  Members
           of this protein family are exclusive to the
           Bacteroidetes phylum (previously
           Cytophaga-Flavobacteria-Bacteroides). GldC is a protein
           linked to a type of rapid surface gliding motility found
           in certain Bacteroidetes, such as Flavobacterium
           johnsoniae and Cytophaga hutchinsonii. GldE was
           discovered because of its adjacency to GldD in F.
           johnsonii. Overexpression of GldE partially supresses
           the effects of a GldB point mutant suggesting that GldB
           and GldE interact. Gliding motility appears closely
           linked to chitin utilization in the model species
           Flavobacterium johnsoniae. Not all Bacteroidetes with
           members of this protein family appear to have all of the
           genes associated with gliding motility and in fact some
           do not appear to express the gliding phenotype.
          Length = 408

 Score = 26.9 bits (60), Expect = 5.7
 Identities = 15/54 (27%), Positives = 27/54 (50%), Gaps = 4/54 (7%)

Query: 58  GIVGYTCMETKKIHR----MIRAEISTEFSTLKREVISCPLEEIPSISQSVDLI 107
           GIV +   +TK++ R    +   +I T FS +  ++I      IP   +++D I
Sbjct: 184 GIVSFGNTDTKQVMRPRLDIFALDIETSFSEIIPKIIENGYSRIPVYKETIDNI 237


>gnl|CDD|162355 TIGR01429, AMP_deaminase, AMP deaminase.  This model describes AMP
           deaminase, a large, well-conserved eukaryotic protein
           involved in energy metabolism. Most members of the
           family have an additional, poorly alignable region of
           150 amino acids or more N-terminal to the region
           included in the model.
          Length = 611

 Score = 26.7 bits (59), Expect = 6.4
 Identities = 25/111 (22%), Positives = 38/111 (34%), Gaps = 29/111 (26%)

Query: 63  TCMETKKIHRMIRAEISTE-----------FSTLKREVISCPLEEIPSISQSVDLILSPL 111
             M  K + R I+ ++ TE             TL+    S  L+         DL +  L
Sbjct: 180 ASMNQKHLLRFIKHKLKTEPDETVIERDGKKLTLREVFDSLHLD-------PYDLSVDTL 232

Query: 112 NLHIINDTLEMFSKINHMLKPGGMFLAAIPGIGTLHELRKALLKAETELTG 162
           ++H   +T   F K N    P G              LR+  LK +  + G
Sbjct: 233 DVHADRNTFHRFDKFNLKYNPVGE-----------SRLREIFLKTDNYIGG 272


>gnl|CDD|140236 PTZ00209, PTZ00209, retrotransposon hot spot protein; Provisional.
          Length = 693

 Score = 26.1 bits (57), Expect = 9.1
 Identities = 17/55 (30%), Positives = 21/55 (38%), Gaps = 13/55 (23%)

Query: 229 KSLFKRASTIYTEENSDLTG---NVTAS----------FSIIYVMGWKSTTFKTG 270
           K  F R   I+TEE  D+T     V A           F +   MGW S  F+  
Sbjct: 74  KVFFGRPQHIWTEEEVDITPEHCEVDAELEERPTGLEIFVLTSKMGWPSDRFQCS 128


>gnl|CDD|182457 PRK10434, srlR, DNA-bindng transcriptional repressor SrlR;
           Provisional.
          Length = 256

 Score = 26.2 bits (58), Expect = 9.9
 Identities = 14/46 (30%), Positives = 27/46 (58%), Gaps = 1/46 (2%)

Query: 91  SCPLEEIPSISQSVDLILSPLNLHIINDTLEMFSKINHMLKPGGMF 136
           S  L+ +P +S+  ++ +   +LHI+N   E+ ++   +L PGG F
Sbjct: 101 STVLQMVPLLSRFNNITVMTNSLHIVNALSELDNEQT-ILMPGGTF 145


  Database: CddB
    Posted date:  Feb 4, 2011  9:54 PM
  Number of letters in database: 5,994,473
  Number of sequences in database:  21,608
  
Lambda     K      H
   0.322    0.136    0.389 

Gapped
Lambda     K      H
   0.267   0.0710    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 4,429,750
Number of extensions: 281230
Number of successful extensions: 524
Number of sequences better than 10.0: 1
Number of HSP's gapped: 522
Number of HSP's successfully gapped: 27
Length of query: 273
Length of database: 5,994,473
Length adjustment: 92
Effective length of query: 181
Effective length of database: 4,006,537
Effective search space: 725183197
Effective search space used: 725183197
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 (25.4 bits)