RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780582|ref|YP_003064995.1| Methyltransferase type 11
[Candidatus Liberibacter asiaticus str. psy62]
         (242 letters)



>gnl|CDD|32408 COG2226, UbiE, Methylase involved in ubiquinone/menaquinone
           biosynthesis [Coenzyme metabolism].
          Length = 238

 Score = 40.6 bits (95), Expect = 4e-04
 Identities = 18/44 (40%), Positives = 25/44 (56%)

Query: 88  NLPLADSSVDCVLMVHYLEFAEDPFLMLHEIWRVLTSGGRMIVV 131
           NLP  D+S D V +   L    D    L E++RVL  GGR++V+
Sbjct: 112 NLPFPDNSFDAVTISFGLRNVTDIDKALKEMYRVLKPGGRLLVL 155


>gnl|CDD|147424 pfam05219, DREV, DREV methyltransferase.  This family contains DREV
           protein homologues from several eukaryotes. The function
           of this protein is unknown. However, these proteins
           appear to be related to other methyltransferases
           (Bateman A pers obs).
          Length = 265

 Score = 34.5 bits (79), Expect = 0.030
 Identities = 21/95 (22%), Positives = 39/95 (41%), Gaps = 10/95 (10%)

Query: 83  LVSEGNLPLADSSVDCVLMVHYLEFAEDPFLMLHEIWRVLTSGGRMIV--VVP------N 134
           +++E      D ++D +L ++ L+   DPF +L +I   L   GR+IV  V+P       
Sbjct: 139 VLTEIEWQETDVNLDLILCLNLLDRCFDPFKLLEDIHLALAPNGRVIVALVLPYMHYVET 198

Query: 135 KRGMWARMEHTPFGSGQPYS--WYQMISLLREANF 167
             G           +G  +     + + +   A F
Sbjct: 199 NTGSHLPPRPLLENNGASFEEEVARFMEVFENAGF 233


>gnl|CDD|39501 KOG4300, KOG4300, KOG4300, Predicted methyltransferase [General
           function prediction only].
          Length = 252

 Score = 34.2 bits (78), Expect = 0.038
 Identities = 25/69 (36%), Positives = 33/69 (47%), Gaps = 3/69 (4%)

Query: 88  NLP-LADSSVDCVLMVHYLEFAEDPFLMLHEIWRVLTSGGRMIVV--VPNKRGMWARMEH 144
           NLP LAD S D V+    L   EDP   L+E+ R+L  GGR+I +  V  + G W R+  
Sbjct: 137 NLPQLADGSYDTVVCTLVLCSVEDPVKQLNEVRRLLRPGGRIIFIEHVAGEYGFWNRILQ 196

Query: 145 TPFGSGQPY 153
                    
Sbjct: 197 QVAEPLWHL 205


>gnl|CDD|100107 cd02440, AdoMet_MTases, S-adenosylmethionine-dependent
           methyltransferases (SAM or AdoMet-MTase), class I;
           AdoMet-MTases are enzymes that use
           S-adenosyl-L-methionine (SAM or AdoMet) as a substrate
           for methyltransfer, creating the product
           S-adenosyl-L-homocysteine (AdoHcy). There are at least
           five structurally distinct families of AdoMet-MTases,
           class I being the largest and most diverse. Within this
           class enzymes can be classified by different substrate
           specificities (small molecules, lipids, nucleic acids,
           etc.) and different target atoms for methylation
           (nitrogen, oxygen, carbon, sulfur, etc.)..
          Length = 107

 Score = 33.2 bits (76), Expect = 0.067
 Identities = 15/49 (30%), Positives = 23/49 (46%), Gaps = 1/49 (2%)

Query: 85  SEGNLPLADSSVDCVLMVHYLE-FAEDPFLMLHEIWRVLTSGGRMIVVV 132
           +E   P AD S D ++    L    ED    L E  R+L  GG +++ +
Sbjct: 56  AEELPPEADESFDVIISDPPLHHLVEDLARFLEEARRLLKPGGVLVLTL 104


>gnl|CDD|110227 pfam01209, Ubie_methyltran, ubiE/COQ5 methyltransferase family. 
          Length = 233

 Score = 29.0 bits (65), Expect = 1.1
 Identities = 16/43 (37%), Positives = 22/43 (51%)

Query: 89  LPLADSSVDCVLMVHYLEFAEDPFLMLHEIWRVLTSGGRMIVV 131
           LP  D S D V +   L    D   +L E +RVL  GGR++ +
Sbjct: 110 LPFEDDSFDIVTISFGLRNFPDYLKVLKEAFRVLKPGGRVVCL 152


>gnl|CDD|30846 COG0500, SmtA, SAM-dependent methyltransferases [Secondary
           metabolites biosynthesis, transport, and catabolism /
           General function prediction only].
          Length = 257

 Score = 29.0 bits (61), Expect = 1.2
 Identities = 22/80 (27%), Positives = 33/80 (41%)

Query: 86  EGNLPLADSSVDCVLMVHYLEFAEDPFLMLHEIWRVLTSGGRMIVVVPNKRGMWARMEHT 145
            G LP  DS+   +++   +     P   L E+ RVL  GGR+++    + G+       
Sbjct: 109 GGVLPFEDSASFDLVISLLVLHLLPPAKALRELLRVLKPGGRLVLSDLLRDGLLEGRLAA 168

Query: 146 PFGSGQPYSWYQMISLLREA 165
             G G P      I L  EA
Sbjct: 169 LLGFGDPVLERGDILLELEA 188


>gnl|CDD|147365 pfam05148, Methyltransf_8, Hypothetical methyltransferase.  This
           family consists of several uncharacterized eukaryotic
           proteins which are related to methyltransferases
           pfam01209.
          Length = 214

 Score = 28.6 bits (64), Expect = 1.5
 Identities = 13/39 (33%), Positives = 18/39 (46%), Gaps = 1/39 (2%)

Query: 88  NLPLADSSVDCVLMVHYLEFAEDPFLMLHEIWRVLTSGG 126
            +PL D SVD  +    L    +    L E  R+L +GG
Sbjct: 110 RVPLEDESVDVAVFCLSL-MGTNIADFLKEANRILKNGG 147


>gnl|CDD|36753 KOG1540, KOG1540, KOG1540, Ubiquinone biosynthesis
           methyltransferase COQ5 [Coenzyme transport and
           metabolism].
          Length = 296

 Score = 28.4 bits (63), Expect = 1.7
 Identities = 17/52 (32%), Positives = 21/52 (40%), Gaps = 3/52 (5%)

Query: 79  SSTALVSEGN---LPLADSSVDCVLMVHYLEFAEDPFLMLHEIWRVLTSGGR 127
           SS     EG+   LP  D S D   +   +         L E +RVL  GGR
Sbjct: 158 SSRVEWVEGDAEDLPFDDDSFDAYTIAFGIRNVTHIQKALREAYRVLKPGGR 209


>gnl|CDD|36483 KOG1269, KOG1269, KOG1269, SAM-dependent methyltransferases [Lipid
           transport and metabolism, General function prediction
           only].
          Length = 364

 Score = 28.4 bits (63), Expect = 2.0
 Identities = 17/50 (34%), Positives = 24/50 (48%)

Query: 87  GNLPLADSSVDCVLMVHYLEFAEDPFLMLHEIWRVLTSGGRMIVVVPNKR 136
           G +P  D++ D V  +  +  A D   +  EI+RVL  GG  IV    K 
Sbjct: 170 GKMPFEDNTFDGVRFLEVVCHAPDLEKVYAEIYRVLKPGGLFIVKEWIKT 219


>gnl|CDD|32409 COG2227, UbiG,
           2-polyprenyl-3-methyl-5-hydroxy-6-metoxy-1,4-benzoquinol
           methylase [Coenzyme metabolism].
          Length = 243

 Score = 28.3 bits (63), Expect = 2.1
 Identities = 10/39 (25%), Positives = 17/39 (43%)

Query: 97  DCVLMVHYLEFAEDPFLMLHEIWRVLTSGGRMIVVVPNK 135
           D V  +  LE   DP   L    +++  GG + +   N+
Sbjct: 126 DVVTCMEVLEHVPDPESFLRACAKLVKPGGILFLSTINR 164


>gnl|CDD|39548 KOG4347, KOG4347, KOG4347, GTPase-activating protein VRP [General
          function prediction only].
          Length = 671

 Score = 28.0 bits (62), Expect = 2.1
 Identities = 10/62 (16%), Positives = 18/62 (29%), Gaps = 2/62 (3%)

Query: 2  RVDIVELRQFYSSFLGKCTTDAISKVLSTTWDDVTGCRLLGLGYAIPFFSCFHGKVERTL 61
           +D     + ++ F      D     +   W   +     G  +    F CF    E   
Sbjct: 3  DLDARLKSEDFAFFRLPEKLDG--STMCNLWTPYSRYHEQGRLFLSTNFICFASDTEWLC 60

Query: 62 AF 63
          +F
Sbjct: 61 SF 62


>gnl|CDD|147105 pfam04780, DUF629, Protein of unknown function (DUF629).  This
          family represents a region of several plant proteins of
          unknown function. A C2H2 zinc finger is predicted in
          this region in some family members, but the spacing
          between the cysteine residues is not conserved
          throughout the family.
          Length = 466

 Score = 28.1 bits (63), Expect = 2.4
 Identities = 8/29 (27%), Positives = 17/29 (58%)

Query: 1  MRVDIVELRQFYSSFLGKCTTDAISKVLS 29
          ++V I +L+ +     G+   +A+S+ LS
Sbjct: 19 LKVSISKLKSYVERVYGREGREALSEALS 47


>gnl|CDD|39190 KOG3987, KOG3987, KOG3987, Uncharacterized conserved protein
           DREV/CGI-81 [Function unknown].
          Length = 288

 Score = 27.7 bits (61), Expect = 2.8
 Identities = 26/94 (27%), Positives = 46/94 (48%), Gaps = 12/94 (12%)

Query: 93  DSSVDCVLMVHYLEFAEDPFLMLHEIWRVLT-SGGRMIV--VVP-------NKRGMWARM 142
           D  +D +L ++ L+   DPF +L +I  VL  S GR+IV  V+P       N  G+  R 
Sbjct: 167 DVKLDLILCLNLLDRCFDPFKLLEDIHLVLAPSNGRVIVALVLPYMHYVETNTSGLPLRP 226

Query: 143 EHTPFGSGQPYSWY--QMISLLREANFTLSITSR 174
           ++    +G+ +     + + LLR   + +   +R
Sbjct: 227 DNLLENNGRSFEEEVARFMELLRNCGYRVEAWTR 260


>gnl|CDD|33543 COG3748, COG3748, Predicted membrane protein [Function unknown].
          Length = 407

 Score = 27.3 bits (60), Expect = 3.8
 Identities = 9/50 (18%), Positives = 18/50 (36%), Gaps = 6/50 (12%)

Query: 142 MEHTPFGSGQPYSWYQMISLLREANFTLSITSRSLFFPPTHKKCILKLWS 191
             H P   G  ++W     ++    F + +  R  +F   H +     W+
Sbjct: 238 SNHYPLAFGTQFNW-----IIAALVFLMGVLIRH-WFNTRHARKGKPTWT 281


>gnl|CDD|31029 COG0685, MetF, 5,10-methylenetetrahydrofolate reductase [Amino acid
           transport and metabolism].
          Length = 291

 Score = 27.3 bits (60), Expect = 4.3
 Identities = 13/50 (26%), Positives = 19/50 (38%)

Query: 158 MISLLREANFTLSITSRSLFFPPTHKKCILKLWSVFEKIGNIFGPGFAGI 207
               L EA     I      FPP   +    L  + E++  + GPGF  +
Sbjct: 2   RERNLTEALKEGKIEVSFELFPPKTDEGEENLEKLLERLAILLGPGFDSV 51


>gnl|CDD|31225 COG1022, FAA1, Long-chain acyl-CoA synthetases (AMP-forming) [Lipid
           metabolism].
          Length = 613

 Score = 26.8 bits (59), Expect = 4.9
 Identities = 10/52 (19%), Positives = 15/52 (28%), Gaps = 4/52 (7%)

Query: 162 LREANFTLSITSRSLFFPPTHKK----CILKLWSVFEKIGNIFGPGFAGIYV 209
           L   N    +       PP          L L  +FE+        + G+ V
Sbjct: 211 LTHRNLLAQVAGIDEVLPPIGPGDRVLSFLPLAHIFERAFEGGLALYGGVTV 262


>gnl|CDD|34247 COG4627, COG4627, Uncharacterized protein conserved in bacteria
           [Function unknown].
          Length = 185

 Score = 26.9 bits (59), Expect = 5.6
 Identities = 16/49 (32%), Positives = 23/49 (46%), Gaps = 4/49 (8%)

Query: 89  LPLADSSVDCVLMVHYLE---FAEDPFLMLHEIWRVLTSGGRMIVVVPN 134
               D+SVD +   H LE   + E     L E  R L  GG++ + VP+
Sbjct: 41  SMFEDNSVDAIYAEHVLEHLTYDEGTS-ALKECHRFLRPGGKLRIAVPD 88


>gnl|CDD|34716 COG5113, UFD2, Ubiquitin fusion degradation protein 2
           [Posttranslational modification, protein turnover,
           chaperones].
          Length = 929

 Score = 26.2 bits (57), Expect = 8.4
 Identities = 14/61 (22%), Positives = 23/61 (37%), Gaps = 1/61 (1%)

Query: 77  YFSSTALVSEGNLPLADSSVDCVLMVHYLEFAEDPFLMLHEIWRVLTSGGRMIVVVPNKR 136
                A    G+  L ++S D +L+     +  + F  L E  + L    + IV  P   
Sbjct: 27  ELFKEAECIRGS-YLTNNSSDNILLTLLPRYKNNTFSYLQESAKFLIQTIKRIVKNPEMA 85

Query: 137 G 137
           G
Sbjct: 86  G 86


>gnl|CDD|176179 cd05195, enoyl_red, enoyl reductase of polyketide synthase.
           Putative enoyl reductase of polyketide synthase.
           Polyketide synthases produce polyketides in step by step
           mechanism that is similar to fatty acid synthesis. Enoyl
           reductase reduces a double to single bond. Erythromycin
           is one example of a polyketide generated by 3 complex
           enzymes (megasynthases). 2-enoyl thioester reductase
           (ETR) catalyzes the NADPH-dependent dependent conversion
           of trans-2-enoyl acyl carrier protein/coenzyme A
           (ACP/CoA) to acyl-(ACP/CoA) in fatty acid synthesis.
           2-enoyl thioester reductase activity has been linked in 
           Candida tropicalis as essential in maintaining
           mitiochondrial respiratory function. This ETR family is
           a part of the medium chain dehydrogenase/reductase
           family, but lack the zinc coordination sites
           characteristic of the alcohol dehydrogenases in this
           family. NAD(P)(H)-dependent oxidoreductases are the
           major enzymes in the interconversion of alcohols and
           aldehydes or ketones. Alcohol dehydrogenase in the liver
           converts ethanol and NAD+ to acetaldehyde and NADH,
           while in yeast and some other microorganisms ADH
           catalyzes the conversion acetaldehyde to ethanol in
           alcoholic fermentation.   ADH is a member of the medium
           chain alcohol dehydrogenase family (MDR), which has a
           NAD(P)(H)-binding domain in a Rossmann fold of a
           beta-alpha form.  The NAD(H)-binding region is comprised
           of 2 structurally similar halves, each of which contacts
           a mononucleotide. The N-terminal catalytic domain has a
           distant homology  to GroES. These proteins typically
           form dimers (typically higher plants, mammals) or
           tetramers (yeast, bacteria), and have 2 tightly bound
           zinc atoms per subunit, a catalytic zinc at the active
           site, and a structural zinc in a lobe of the catalytic
           domain. NAD(H) binding occurs in the cleft between the
           catalytic  and coenzyme-binding domains, at the active
           site, and coenzyme binding induces a conformational
           closing of this cleft. Coenzyme binding typically
           precedes and contributes to substrate binding.
          Length = 293

 Score = 26.0 bits (58), Expect = 9.0
 Identities = 8/28 (28%), Positives = 13/28 (46%), Gaps = 2/28 (7%)

Query: 114 MLHEIWRVLTSGGRMIVVVPNKRGMWAR 141
           +L   WR L   GR + +   KR + + 
Sbjct: 191 LLRASWRCLAPFGRFVEI--GKRDILSN 216


>gnl|CDD|36780 KOG1567, KOG1567, KOG1567, Ribonucleotide reductase, beta subunit
           [Nucleotide transport and metabolism].
          Length = 344

 Score = 26.1 bits (57), Expect = 9.2
 Identities = 18/79 (22%), Positives = 33/79 (41%), Gaps = 25/79 (31%)

Query: 89  LPLADSSVDCVLMVHYLEFAEDPFLMLHEIWRVLTSGGRMIVVVPNKRGMWARMEHTPFG 148
           LP+    ++C LM  Y+EF  D                R++V + N++          + 
Sbjct: 263 LPVNLIGMNCDLMSQYIEFVAD----------------RLLVELGNEK---------YYN 297

Query: 149 SGQPYSWYQMISLLREANF 167
           +  P+ + + ISL  + NF
Sbjct: 298 AENPFDFMENISLAGKTNF 316


>gnl|CDD|38036 KOG2825, KOG2825, KOG2825, Putative arsenite-translocating ATPase
           [Inorganic ion transport and metabolism].
          Length = 323

 Score = 26.1 bits (57), Expect = 9.4
 Identities = 23/85 (27%), Positives = 40/85 (47%), Gaps = 15/85 (17%)

Query: 137 GMWARMEHTPFGSGQPYSWYQMISLLREANFTLSI--------TSRSLFFPPTHKKCILK 188
           GM   + +   G  +  S+ +++ L++  NF + +        T R L FP T +K + K
Sbjct: 113 GMLQELANAFPGIDEAMSFAEVMKLVKGMNFDVVVFDTAPTGHTLRLLQFPTTLEKGLGK 172

Query: 189 LWSVFEK-------IGNIFGPGFAG 206
           L S+  K       +G++FG   AG
Sbjct: 173 LLSLKNKIGPMLSQMGSMFGMEDAG 197


  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
   0.324    0.139    0.442 

Gapped
Lambda     K      H
   0.267   0.0604    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 3,135,322
Number of extensions: 164465
Number of successful extensions: 422
Number of sequences better than 10.0: 1
Number of HSP's gapped: 421
Number of HSP's successfully gapped: 25
Length of query: 242
Length of database: 6,263,737
Length adjustment: 91
Effective length of query: 151
Effective length of database: 4,297,318
Effective search space: 648895018
Effective search space used: 648895018
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 56 (25.6 bits)