Citrus Sinensis ID: 024350

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------27
Protein Sequence
MASIADQEEEANNFSYAMELASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSKYFVRNNQNGASLRPYMALSLDKVLMDGWFRLKGQILEGGIAFNKAHGMHIYDYLGVDSSFNDVFSNGMLSHTSIVMEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPSYPGIDHVGGDLFESVPKADTIFMKVICVCYLNSLS
Secondary Structure (PSIPRED)
ccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcHHHHHHHccccccccHHHHHHHccccccccHHHHHHHHHHHHHHHHcccEEEEEEcccccEEcccccccccccccccccHHHHHHHcccHHHHHHHHcHHHHHHccccccHHcccccHHHHccccccHHHHHHHHHHHHHHHHHHHHHHHHcccccccEEEEEcccccHHHHHHHHHccccEEEEcccHHHHHccccccccEEEcccccccccccccHHHcccccccccccc
Secondary Structure Prediction (SSPRO)
cccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHccHHHHHHcccccccEcHHHHHccccccccccccHHHHHHHHHHHHHHcccEEEEEcccEEEEEEcHHHcccccccEccEccHHHHHHHccHHHHHHHccHHHHHHHcccHHHHHHcccHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccEEEEccccccHHHHHHcccccccEEEEEcHHHHccccccccEEEEEcccccccccccEEEccccHcccccccc
Coil and Loop (DISEMBL)
MASIADQEEEANNFSYAMELASAIVLPAAMQAVVELDVFEIItkagpgaklsVSEIVAqiplkdnnpEAAAMMLDRVLRLLVSYNAlhcsfvdgqrlyslapvskyfvrnnqngaslrPYMALSLDKVLMDGWFRLKGQILEGGIAFNKAHGMHiydylgvdssfndvfsngmlsHTSIVMEKVLESYKGFEHVKKLVDVGGGLGATLNMIISkyphikginyDLLYVIknapsypgidhvggdlfesvpkadTIFMKVICVCYLNSLS
Flexible Loop (DISEMBL)
MASIADQEEEANNFSYAMELASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSKYFVRNNQNGASLRPYMALSLDKVLMDGWFRLKGQILEGGIAFNKAHGMHIYDYLGVDSSFNDVFSNGMLSHTSIVMEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPSYPGIDHVGGDLFESVPKADTIFMKVICVCYLNSLS
Low Complexity Region (SEG)
MASIADQEEEANNFSYAMELASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSKYFVRNNQNGASLRPYMALSLDKVLMDGWFRLKGQILEGGIAFNKAHGMHIYDYLGVDSSFNDVFSNGMLSHTSIVMEKVLESYKGFEHvkklvdvggglgATLNMIISKYPHIKGINYDLLYVIKNAPSYPGIDHVGGDLFESVPKADTIFMKVICVCYLNSLS
Disordered region (IsUnstruct)
*************FSYAMELASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSKYFVRNNQNGASLRPYMALSLDKVLMDGWFRLKGQILEGGIAFNKAHGMHIYDYLGVDSSFNDVFSNGMLSHTSIVMEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPSYPGIDHVGGDLFESVPKADTIFMKVICVCYLN***
Disordered Region (DISOPRED)
************NFSYAMELASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSKYFVRNNQNGASLRPYMALSLDKVLMDGWFRLKGQILEGGIAFNKAHGMHIYDYLGVDSSFNDVFSNGMLSHTSIVMEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPSYPGIDHVGGDLFESVPKADTIFMKVICVCYLN***
Disordered Region (DISEMBL)
*********EANNFSYAMELASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSKYFVRNNQNGASLRPYMALSLDKVLMDGWFRLKGQILEGGIAFNKAHGMHIYDYLGVDSSFNDVFSNGMLSHTSIVMEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPSYPGIDHVGGDLFESVPKADTIFMKVICVCYLNSLS
Disordered Region (DISPRO)
*****DQEEEANNFSYAMELASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSKYFVRNNQNGASLRPYMALSLDKVLMDGWFRLKGQILEGGIAFNKAHGMHIYDYLGVDSSFNDVFSNGMLSHTSIVMEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPSYPGIDHVGGDLFESVPKADTIFMKVICVCY*****
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooohhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MASIADQEEEANNFSYAMELASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSKYFVRNNQNGASLRPYMALSLDKVLMDGWFRLKGQILEGGIAFNKAHGMHIYDYLGVDSSFNDVFSNGMLSHTSIVMEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPSYPGIDHVGGDLFESVPKADTIFMKVICVCYLNSLS
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	269	2.2.26 [Sep-21-2011]
Q8W013	363	Caffeic acid 3-O-methyltr	N/A	no	0.940	0.696	0.553	5e-79
O81646	359	Caffeic acid 3-O-methyltr	N/A	no	0.940	0.704	0.549	1e-78
Q00763	365	Caffeic acid 3-O-methyltr	N/A	no	0.947	0.698	0.556	3e-78
Q43046	365	Caffeic acid 3-O-methyltr	N/A	no	0.947	0.698	0.552	6e-78
Q9FQY8	359	Caffeic acid 3-O-methyltr	N/A	no	0.940	0.704	0.541	8e-78
Q9XGV9	361	Caffeic acid 3-O-methyltr	N/A	no	0.929	0.692	0.553	5e-77
Q8LL87	350	Caffeic acid 3-O-methyltr	N/A	no	0.921	0.708	0.555	6e-77
Q43609	365	Caffeic acid 3-O-methyltr	N/A	no	0.947	0.698	0.548	3e-76
A9X7L0	364	Anthranilate N-methyltran	N/A	no	0.918	0.678	0.562	4e-76
P28002	365	Caffeic acid 3-O-methyltr	N/A	no	0.921	0.679	0.559	6e-76

>sp|Q8W013|COMT1_CATRO Caffeic acid 3-O-methyltransferase OS=Catharanthus roseus GN=COMT1 PE=2 SV=1

 Score =  294 bits (752), Expect = 5e-79,   Method: Compositional matrix adjust.
 Identities = 146/264 (55%), Positives = 198/264 (75%), Gaps = 11/264 (4%)

Query: 3   SIADQEEEANNFSYAMELASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPL 62
           S+  +EEEA     AM LASA VLP  +++ +ELD+ E+I K+GPGA +S SE+ AQ+P 
Sbjct: 11  SMTKEEEEA--CLSAMRLASASVLPMVLKSAIELDLLELIKKSGPGAYVSPSELAAQLPT 68

Query: 63  KDNNPEAAAMMLDRVLRLLVSYNALHCSFVDG-----QRLYSLAPVSKYFVRNNQNGASL 117
           +  NP+A  +MLDR+LRLL SY+ L+C+  D      +RLYSLAPV K+  +N ++G S+
Sbjct: 69  Q--NPDAP-VMLDRILRLLASYSVLNCTLKDLPDGGIERLYSLAPVCKFLTKN-EDGVSM 124

Query: 118 RPYMALSLDKVLMDGWFRLKGQILEGGIAFNKAHGMHIYDYLGVDSSFNDVFSNGMLSHT 177
              + ++ DKVLM+ W+ LK  +LEGGI FNKA+GM  ++Y G D  FN VF+ GM +H+
Sbjct: 125 AALLLMNQDKVLMESWYHLKDAVLEGGIPFNKAYGMTAFEYHGKDPRFNKVFNQGMSNHS 184

Query: 178 SIVMEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPSYPG 237
           +I+M+K+LE Y+GF+ +K +VDVGGG GATLNMI+SKYP IKGIN+DL +VI++APSYPG
Sbjct: 185 TIIMKKILEIYQGFQGLKTVVDVGGGTGATLNMIVSKYPSIKGINFDLPHVIEDAPSYPG 244

Query: 238 IDHVGGDLFESVPKADTIFMKVIC 261
           +DHVGGD+F SVPK D IFMK IC
Sbjct: 245 VDHVGGDMFVSVPKGDAIFMKWIC 268

Catalyzes the conversion of caffeic acid to ferulic acid and of 5-hydroxyferulic acid to sinapic acid. The resulting products may subsequently be converted to the corresponding alcohols that are incorporated into lignins.
Catharanthus roseus (taxid: 4058)
EC: 2EC: .EC: 1EC: .EC: 1EC: .EC: 6EC: 8

>sp|O81646|COMT1_CAPCH Caffeic acid 3-O-methyltransferase OS=Capsicum chinense GN=COMT PE=2 SV=1

 Score =  293 bits (749), Expect = 1e-78,   Method: Compositional matrix adjust.
 Identities = 145/264 (54%), Positives = 195/264 (73%), Gaps = 11/264 (4%)

Query: 3   SIADQEEEANNFSYAMELASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPL 62
           S+   E+EA  F +AM+LASA VLP  ++A VELD+ EI+ K+GPGA +S SE+ AQ+P 
Sbjct: 7   SLTQTEDEA--FVFAMQLASASVLPMVLKATVELDLLEIMAKSGPGAFISPSELAAQLPT 64

Query: 63  KDNNPEAAAMMLDRVLRLLVSYNALHCSF---VDG--QRLYSLAPVSKYFVRNNQNGASL 117
           K  NPEA  +MLDR+ RLL +Y+ L+C+     DG  +RLYSLAPV K+  +N  +G S+
Sbjct: 65  K--NPEAP-VMLDRMFRLLATYSVLNCTLRTLPDGRVERLYSLAPVCKFLTKNG-DGVSI 120

Query: 118 RPYMALSLDKVLMDGWFRLKGQILEGGIAFNKAHGMHIYDYLGVDSSFNDVFSNGMLSHT 177
            P + ++ DKVLM+ W+ L   +L+GG+ FNKA+GM  ++Y G D  FN VF+ GM  HT
Sbjct: 121 APILLMNQDKVLMESWYHLTDAVLDGGVPFNKAYGMTTFEYHGTDPRFNKVFNCGMSDHT 180

Query: 178 SIVMEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPSYPG 237
           ++ M+K+LE Y GFE +  +VDVGGG GAT+NMI+SKYP IKGIN+DL +VI++APSYPG
Sbjct: 181 TLSMKKILEDYTGFEGLNSIVDVGGGTGATVNMIVSKYPSIKGINFDLPHVIRDAPSYPG 240

Query: 238 IDHVGGDLFESVPKADTIFMKVIC 261
           ++ VGGD+F SVPKAD IFMK IC
Sbjct: 241 VEQVGGDMFVSVPKADAIFMKWIC 264

Catalyzes the conversion of caffeic acid to ferulic acid and of 5-hydroxyferulic acid to sinapic acid. The resulting products may subsequently be converted to the corresponding alcohols that are incorporated into lignins.

Capsicum chinense (taxid: 80379)

EC: 2

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 6

EC: 8

>sp|Q00763|COMT1_POPTM Caffeic acid 3-O-methyltransferase 1 OS=Populus tremuloides GN=OMT1 PE=1 SV=1

 Score =  291 bits (745), Expect = 3e-78,   Method: Compositional matrix adjust.
 Identities = 148/266 (55%), Positives = 192/266 (72%), Gaps = 11/266 (4%)

Query: 1   MASIADQEEEANNFSYAMELASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQI 60
           M      +EEA+ F  AM+LASA VLP  ++  +ELD+ EI+ KAGPGA LS SEI + +
Sbjct: 9   MTPTQVSDEEAHLF--AMQLASASVLPMILKTAIELDLLEIMAKAGPGAFLSTSEIASHL 66

Query: 61  PLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVD-----GQRLYSLAPVSKYFVRNNQNGA 115
           P K  NP+A  +MLDR+LRLL SY+ L CS  D      +RLY LAPV K F+  N++G 
Sbjct: 67  PTK--NPDAP-VMLDRILRLLASYSILTCSLKDLPDGKVERLYGLAPVCK-FLTKNEDGV 122

Query: 116 SLRPYMALSLDKVLMDGWFRLKGQILEGGIAFNKAHGMHIYDYLGVDSSFNDVFSNGMLS 175
           S+ P   ++ DKVLM+ W+ LK  IL+GGI FNKA+GM  ++Y G D  FN VF+ GM  
Sbjct: 123 SVSPLCLMNQDKVLMESWYYLKDAILDGGIPFNKAYGMTAFEYHGTDPRFNKVFNKGMSD 182

Query: 176 HTSIVMEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPSY 235
           H++I M+K+LE+YKGFE +  LVDVGGG GA +N I+SKYP IKGIN+DL +VI++APSY
Sbjct: 183 HSTITMKKILETYKGFEGLTSLVDVGGGTGAVVNTIVSKYPSIKGINFDLPHVIEDAPSY 242

Query: 236 PGIDHVGGDLFESVPKADTIFMKVIC 261
           PG++HVGGD+F SVPKAD +FMK IC
Sbjct: 243 PGVEHVGGDMFVSVPKADAVFMKWIC 268

Catalyzes the conversion of caffeic acid to ferulic acid and of 5-hydroxyferulic acid to sinapic acid. The resulting products may subsequently be converted to the corresponding alcohols that are incorporated into lignins.

Populus tremuloides (taxid: 3693)

EC: 2

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 6

EC: 8

>sp|Q43046|COMT1_POPKI Caffeic acid 3-O-methyltransferase 1 OS=Populus kitakamiensis GN=HOMT1 PE=3 SV=1

 Score =  290 bits (743), Expect = 6e-78,   Method: Compositional matrix adjust.
 Identities = 147/266 (55%), Positives = 191/266 (71%), Gaps = 11/266 (4%)

Query: 1   MASIADQEEEANNFSYAMELASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQI 60
           M      +EEA+ F  AM+LASA VLP  ++  +ELD+ EI+ KAGPGA LS SEI + +
Sbjct: 9   MTPTQVSDEEAHLF--AMQLASASVLPMILKTAIELDLLEIMAKAGPGAFLSTSEIASHL 66

Query: 61  PLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVD-----GQRLYSLAPVSKYFVRNNQNGA 115
           P K  NP+A  +MLDR+LRLL SY+ L CS  D      +RLY LAPV K+  +N ++G 
Sbjct: 67  PTK--NPDAP-VMLDRILRLLASYSILTCSLKDLPDGKVERLYGLAPVCKFLTKN-EDGV 122

Query: 116 SLRPYMALSLDKVLMDGWFRLKGQILEGGIAFNKAHGMHIYDYLGVDSSFNDVFSNGMLS 175
           S+ P   ++ DKVLM+ W+ LK  ILEGGI FNKA+GM  ++Y G D  FN VF+ GM  
Sbjct: 123 SVSPLCLMNQDKVLMESWYYLKDAILEGGIPFNKAYGMTAFEYHGTDPRFNKVFNKGMSD 182

Query: 176 HTSIVMEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPSY 235
           H++I M+K+LE+YKGFE +  LVDVGGG GA +N I+SKYP IKGIN+DL +VI++APSY
Sbjct: 183 HSTITMKKILETYKGFEGLTSLVDVGGGTGAVVNTIVSKYPSIKGINFDLPHVIEDAPSY 242

Query: 236 PGIDHVGGDLFESVPKADTIFMKVIC 261
           PG++HVGGD+F SVP AD +FMK IC
Sbjct: 243 PGVEHVGGDMFVSVPNADAVFMKWIC 268

Catalyzes the conversion of caffeic acid to ferulic acid and of 5-hydroxyferulic acid to sinapic acid. The resulting products may subsequently be converted to the corresponding alcohols that are incorporated into lignins.

Populus kitakamiensis (taxid: 34292)

EC: 2

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 6

EC: 8

>sp|Q9FQY8|COMT1_CAPAN Caffeic acid 3-O-methyltransferase OS=Capsicum annuum GN=COMT PE=2 SV=2

 Score =  290 bits (742), Expect = 8e-78,   Method: Compositional matrix adjust.
 Identities = 143/264 (54%), Positives = 196/264 (74%), Gaps = 11/264 (4%)

Query: 3   SIADQEEEANNFSYAMELASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPL 62
           ++   E+EA  F +AM+LASA VLP  +++ +ELD+ EI+ KAGPGA +S SE+ AQ+P 
Sbjct: 7   NLTQTEDEA--FLFAMQLASASVLPMVLKSALELDLLEIMAKAGPGAAISPSELAAQLPT 64

Query: 63  KDNNPEAAAMMLDRVLRLLVSYNALHCSFV---DG--QRLYSLAPVSKYFVRNNQNGASL 117
           K  NPEA  +MLDR+LRLL +Y+ L+C+     DG  +RLYSLAPV K   +N  +G S+
Sbjct: 65  K--NPEAP-VMLDRMLRLLATYSVLNCTLRTLPDGRVERLYSLAPVCKLLTKN-ADGVSV 120

Query: 118 RPYMALSLDKVLMDGWFRLKGQILEGGIAFNKAHGMHIYDYLGVDSSFNDVFSNGMLSHT 177
            P + ++ DKVLM+ W+ L   +L+GG+ FNKA+GM  ++Y G D  FN VF+ GM  H+
Sbjct: 121 APLLLMNQDKVLMESWYHLTDAVLDGGVPFNKAYGMTAFEYHGTDPRFNKVFNRGMSDHS 180

Query: 178 SIVMEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPSYPG 237
           ++ M+K+LE YKGFE +  +VDVGGG GAT+NMI+SKYP IKGIN+DL +VI++AP+YPG
Sbjct: 181 TMTMKKILEDYKGFEGLNSIVDVGGGTGATVNMIVSKYPSIKGINFDLSHVIEDAPAYPG 240

Query: 238 IDHVGGDLFESVPKADTIFMKVIC 261
           ++HVG D+F SVPKAD IFMK IC
Sbjct: 241 VEHVGRDMFVSVPKADAIFMKWIC 264

Catalyzes the conversion of caffeic acid to ferulic acid and of 5-hydroxyferulic acid to sinapic acid. The resulting products may subsequently be converted to the corresponding alcohols that are incorporated into lignins.

Capsicum annuum (taxid: 4072)

EC: 2

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 6

EC: 8

>sp|Q9XGV9|COMT2_OCIBA Caffeic acid 3-O-methyltransferase 2 OS=Ocimum basilicum GN=COMT2 PE=2 SV=1

 Score =  287 bits (735), Expect = 5e-77,   Method: Compositional matrix adjust.
 Identities = 145/262 (55%), Positives = 193/262 (73%), Gaps = 12/262 (4%)

Query: 5   ADQEEEANNFSYAMELASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKD 64
           +D+EE   NF +AM+LASA VLP  +++ +ELD+ E+I KAG GA +S +E+ AQ  L  
Sbjct: 12  SDEEE---NFLFAMQLASASVLPMVLKSAIELDLLELIKKAGAGAFVSPAELAAQ--LLT 66

Query: 65  NNPEAAAMMLDRVLRLLVSYNALHC---SFVDG--QRLYSLAPVSKYFVRNNQNGASLRP 119
            N EA  +MLDR+LRLL SY  L C   +  DG  QRLY LAPV K+  +N ++G S+ P
Sbjct: 67  TNAEAH-VMLDRILRLLTSYAILECRLKTLPDGGVQRLYGLAPVCKFLTKN-EDGVSMAP 124

Query: 120 YMALSLDKVLMDGWFRLKGQILEGGIAFNKAHGMHIYDYLGVDSSFNDVFSNGMLSHTSI 179
              ++ DKVLM+ W+ LK  +L+GGI FNKA+GM  ++Y G D  FN VF+ GM +H++I
Sbjct: 125 LALMNQDKVLMESWYHLKDAVLDGGIPFNKAYGMTAFEYHGTDPRFNKVFNQGMSNHSTI 184

Query: 180 VMEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPSYPGID 239
            M+K+LE+Y GF+ +K +VDVGGG GATLNMIISKYP IKGIN+DL +V+++APSYPG++
Sbjct: 185 TMKKILETYTGFDGLKTVVDVGGGTGATLNMIISKYPSIKGINFDLPHVVEDAPSYPGVE 244

Query: 240 HVGGDLFESVPKADTIFMKVIC 261
           HVGGD+F SVPK D IFMK IC
Sbjct: 245 HVGGDMFVSVPKGDAIFMKWIC 266

Catalyzes the conversion of caffeic acid to ferulic acid and of 5-hydroxyferulic acid to sinapic acid. The resulting products may subsequently be converted to the corresponding alcohols that are incorporated into lignins.

Ocimum basilicum (taxid: 39350)

EC: 2

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 6

EC: 8

>sp|Q8LL87|COMT1_COFCA Caffeic acid 3-O-methyltransferase OS=Coffea canephora PE=2 SV=1

 Score =  287 bits (734), Expect = 6e-77,   Method: Compositional matrix adjust.
 Identities = 144/259 (55%), Positives = 193/259 (74%), Gaps = 11/259 (4%)

Query: 8   EEEANNFSYAMELASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNP 67
           EEEA  F  AM LASA VLP  +++ +ELD+ E+I KAGPGA +S SE+ AQ+P   +NP
Sbjct: 3   EEEACLF--AMSLASASVLPMVLKSAIELDLLELIAKAGPGAYVSPSELAAQLP--THNP 58

Query: 68  EAAAMMLDRVLRLLVSYNALHC---SFVDG--QRLYSLAPVSKYFVRNNQNGASLRPYMA 122
           EA  +MLDR+LRLL +Y+ L C   +  DG  +RLY LAPV K+  +N  +G S+ P + 
Sbjct: 59  EAP-IMLDRILRLLATYSVLDCKLNNLADGGVERLYGLAPVCKFLTKN-ADGVSMAPLLL 116

Query: 123 LSLDKVLMDGWFRLKGQILEGGIAFNKAHGMHIYDYLGVDSSFNDVFSNGMLSHTSIVME 182
           ++ DKVLM+ W+ LK  +L+GGI FNKA+GM  ++Y G D  FN VF+ GM +H++I M+
Sbjct: 117 MNQDKVLMESWYHLKDAVLDGGIPFNKAYGMTAFEYHGTDPRFNKVFNQGMSNHSTITMK 176

Query: 183 KVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPSYPGIDHVG 242
           K+LE Y+GFE +K +VDVGGG GATLNMIISKYP IKGIN++L +V+++APS+ G++HVG
Sbjct: 177 KILEVYRGFEGLKTVVDVGGGTGATLNMIISKYPTIKGINFELPHVVEDAPSHSGVEHVG 236

Query: 243 GDLFESVPKADTIFMKVIC 261
           GD+F SVPK D IFMK IC
Sbjct: 237 GDMFVSVPKGDAIFMKWIC 255

Catalyzes the conversion of caffeic acid to ferulic acid and of 5-hydroxyferulic acid to sinapic acid. The resulting products may subsequently be converted to the corresponding alcohols that are incorporated into lignins.

Coffea canephora (taxid: 49390)

EC: 2

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 6

EC: 8

>sp|Q43609|COMT1_PRUDU Caffeic acid 3-O-methyltransferase OS=Prunus dulcis GN=COMT1 PE=2 SV=1

 Score =  285 bits (729), Expect = 3e-76,   Method: Compositional matrix adjust.
 Identities = 146/266 (54%), Positives = 190/266 (71%), Gaps = 11/266 (4%)

Query: 1   MASIADQEEEANNFSYAMELASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQI 60
           M      +EEAN F  AM+LASA VLP  ++A +ELD+ EI+ KAGPG  LS ++I +Q+
Sbjct: 9   MTPTQVSDEEANLF--AMQLASASVLPMVLKAAIELDLLEIMAKAGPGVFLSPTDIASQL 66

Query: 61  PLKDNNPEAAAMMLDRVLRLLVSYNALHCSF---VDG--QRLYSLAPVSKYFVRNNQNGA 115
           P K  NP+A  +MLDR+LRLL SY+ L  S     DG  +RLY L PV K F+  N+ G 
Sbjct: 67  PTK--NPDAP-VMLDRMLRLLASYSILTYSLRTLADGKVERLYGLGPVCK-FLTKNEEGV 122

Query: 116 SLRPYMALSLDKVLMDGWFRLKGQILEGGIAFNKAHGMHIYDYLGVDSSFNDVFSNGMLS 175
           S+ P   ++ DKVL++ W+ LK  +LEGGI FNKA+GM  ++Y G D  FN VF+ GM  
Sbjct: 123 SIAPLCLMNQDKVLLESWYHLKDAVLEGGIPFNKAYGMTAFEYHGTDPRFNKVFNRGMAD 182

Query: 176 HTSIVMEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPSY 235
           H++I M+K+LE+YKGFE +  +VDVGGG GA LNMI+SKYP IKGIN+DL +VI++AP Y
Sbjct: 183 HSTITMKKILETYKGFEGLTSVVDVGGGTGAVLNMIVSKYPSIKGINFDLPHVIEDAPQY 242

Query: 236 PGIDHVGGDLFESVPKADTIFMKVIC 261
           PG++HVGGD+F SVPK D IFMK IC
Sbjct: 243 PGVEHVGGDMFVSVPKGDAIFMKWIC 268

Catalyzes the conversion of caffeic acid to ferulic acid and of 5-hydroxyferulic acid to sinapic acid. The resulting products may subsequently be converted to the corresponding alcohols that are incorporated into lignins.

Prunus dulcis (taxid: 3755)

EC: 2

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 6

EC: 8

>sp|A9X7L0|ANMT_RUTGR Anthranilate N-methyltransferase OS=Ruta graveolens PE=1 SV=1

 Score =  284 bits (727), Expect = 4e-76,   Method: Compositional matrix adjust.
 Identities = 143/254 (56%), Positives = 191/254 (75%), Gaps = 7/254 (2%)

Query: 13  NFSYAMELASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAM 72
           ++S AM+L+ AIVLP A Q+ ++L VFEII KA PG +LS SEI A I L+  NP+A  +
Sbjct: 24  SYSRAMQLSMAIVLPMATQSAIQLGVFEIIAKA-PGGRLSASEI-ATI-LQAQNPKAP-V 79

Query: 73  MLDRVLRLLVSYNALHCSFVD--GQRLYSLAPVSKYFVRNNQNGASLRPYMALSLDKVLM 130
           MLDR+LRLLVS+  L CS     G+RLY L  VSKYFV  +Q+GASL  +MAL LDKV M
Sbjct: 80  MLDRMLRLLVSHRVLDCSVSGPAGERLYGLTSVSKYFV-PDQDGASLGNFMALPLDKVFM 138

Query: 131 DGWFRLKGQILEGGIAFNKAHGMHIYDYLGVDSSFNDVFSNGMLSHTSIVMEKVLESYKG 190
           + W  +KG ++EGGI FN+ HGMHI++Y   +S F+D +   M +H++I ++++LE YKG
Sbjct: 139 ESWMGVKGAVMEGGIPFNRVHGMHIFEYASSNSKFSDTYHRAMFNHSTIALKRILEHYKG 198

Query: 191 FEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPSYPGIDHVGGDLFESVP 250
           FE+V KLVDVGGGLG TL+MI SKYPHI+ IN+DL +V+++A SYPG++HVGG++FESVP
Sbjct: 199 FENVTKLVDVGGGLGVTLSMIASKYPHIQAINFDLPHVVQDAASYPGVEHVGGNMFESVP 258

Query: 251 KADTIFMKVICVCY 264
           + D I MK I  C+
Sbjct: 259 EGDAILMKWILHCW 272

Involved in the biosynthesis of acridine alkaloids. N-methyltransferase with a strict substrate specificity for anthranilate. No activity with anthranilic acid methyl ester, anthraniloyl CoA, 3- or 4-amino-benzoic acid, salicylic acid, catechol, eugenol, caffeic acid, quercetin, theobromin, theophyllin, putrescine and nicotinic acid among others.

Ruta graveolens (taxid: 37565)

EC: 2

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 1

EC: 1

EC: 1

>sp|P28002|COMT1_MEDSA Caffeic acid 3-O-methyltransferase OS=Medicago sativa PE=1 SV=1

 Score =  284 bits (726), Expect = 6e-76,   Method: Compositional matrix adjust.
 Identities = 145/259 (55%), Positives = 191/259 (73%), Gaps = 11/259 (4%)

Query: 8   EEEANNFSYAMELASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNP 67
           +EEAN F  AM+LASA VLP  +++ +ELD+ EII KAGPGA++S  EI +Q+P    NP
Sbjct: 16  DEEANLF--AMQLASASVLPMILKSALELDLLEIIAKAGPGAQISPIEIASQLPT--TNP 71

Query: 68  EAAAMMLDRVLRLLVSYNALHCSF---VDG--QRLYSLAPVSKYFVRNNQNGASLRPYMA 122
           +A  +MLDR+LRLL  Y  L CS     DG  QRLY LA V+KY V+N ++G S+     
Sbjct: 72  DAP-VMLDRMLRLLACYIILTCSVRTQQDGKVQRLYGLATVAKYLVKN-EDGVSISALNL 129

Query: 123 LSLDKVLMDGWFRLKGQILEGGIAFNKAHGMHIYDYLGVDSSFNDVFSNGMLSHTSIVME 182
           ++ DKVLM+ W+ LK  +L+GGI FNKA+GM  ++Y G D  FN VF+ GM  H++I M+
Sbjct: 130 MNQDKVLMESWYHLKDAVLDGGIPFNKAYGMTAFEYHGTDPRFNKVFNKGMSDHSTITMK 189

Query: 183 KVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPSYPGIDHVG 242
           K+LE+Y GFE +K LVDVGGG GA +N I+SKYP IKGIN+DL +VI++APSYPG++HVG
Sbjct: 190 KILETYTGFEGLKSLVDVGGGTGAVINTIVSKYPTIKGINFDLPHVIEDAPSYPGVEHVG 249

Query: 243 GDLFESVPKADTIFMKVIC 261
           GD+F S+PKAD +FMK IC
Sbjct: 250 GDMFVSIPKADAVFMKWIC 268

Catalyzes the conversion of caffeic acid to ferulic acid and of 5-hydroxyferulic acid to sinapic acid. The resulting products may subsequently be converted to the corresponding alcohols that are incorporated into lignins.

Medicago sativa (taxid: 3879)

EC: 2

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 6

EC: 8

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	269
97974184	364	Caffeic acid 3-O-methyltransferase [Ipom	0.947	0.700	0.575	1e-80
97974173	364	Caffeic acid 3-O-methyltransferase [Ipom	0.947	0.700	0.571	3e-80
255548061	359	o-methyltransferase, putative [Ricinus c	0.929	0.696	0.596	5e-80
359490763	364	PREDICTED: caffeic acid 3-O-methyltransf	0.944	0.697	0.573	9e-79
359490765	360	PREDICTED: caffeic acid 3-O-methyltransf	0.936	0.7	0.574	6e-78
71482940	362	S-methyltransferase [Catharanthus roseus	0.936	0.696	0.544	2e-77
154091348	365	caffeic acid O-methyl transferase [Leuca	0.925	0.682	0.576	2e-77
224128073	358	catechol o-methyltransferase related [Po	0.925	0.695	0.553	2e-77
29839377	363	RecName: Full=Caffeic acid 3-O-methyltra	0.940	0.696	0.553	3e-77
307090030	363	caffeic acid O-methyltransferase [Camell	0.940	0.696	0.556	3e-77

>gi|97974184|dbj|BAE94403.1| Caffeic acid 3-O-methyltransferase [Ipomoea nil]

 Score =  305 bits (781), Expect = 1e-80,   Method: Compositional matrix adjust.
 Identities = 153/266 (57%), Positives = 200/266 (75%), Gaps = 11/266 (4%)

Query: 1   MASIADQEEEANNFSYAMELASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQI 60
           M +  D +EEA+ F  AM+LASA VLP  +++ +ELD+ E+I KAGPGA +S SE+ AQ+
Sbjct: 10  MTNRVDSDEEASLF--AMQLASASVLPMVLKSAIELDLLELIAKAGPGAAVSPSELAAQL 67

Query: 61  PLKDNNPEAAAMMLDRVLRLLVSYNALHCSF---VDG--QRLYSLAPVSKYFVRNNQNGA 115
           P    NP+AA +MLDR+LRLL +Y+ L+CS     DG  +RLYSLAPV KY  +N  +G 
Sbjct: 68  PT--TNPDAA-VMLDRILRLLCTYSVLNCSLRTLPDGRVERLYSLAPVCKYLTKNG-DGV 123

Query: 116 SLRPYMALSLDKVLMDGWFRLKGQILEGGIAFNKAHGMHIYDYLGVDSSFNDVFSNGMLS 175
           S+ P + ++ DKVLM+ W+ LK  +LEGGI FNKA+GM  ++Y G D  FN VF+ GM  
Sbjct: 124 SMAPLLLMNQDKVLMESWYHLKDAVLEGGIPFNKAYGMTAFEYHGTDPRFNKVFNRGMSD 183

Query: 176 HTSIVMEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPSY 235
           H++I M+K+L+ YKGFE +K LVDVGGG GATLNMI+SKYP+IKGIN+DL +VI++AP Y
Sbjct: 184 HSTITMKKILDDYKGFEGLKSLVDVGGGTGATLNMILSKYPNIKGINFDLPHVIEDAPKY 243

Query: 236 PGIDHVGGDLFESVPKADTIFMKVIC 261
           PGI+HVGGD+F SVPK D IFMK IC
Sbjct: 244 PGIEHVGGDMFVSVPKGDAIFMKWIC 269

Source: Ipomoea nil

Species: Ipomoea nil

Genus: Ipomoea

Family: Convolvulaceae

Order: Solanales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|97974173|dbj|BAE94400.1| Caffeic acid 3-O-methyltransferase [Ipomoea nil] gi|97974195|dbj|BAE94406.1| Caffeic acid 3-O-methyltransferase [Ipomoea nil]

 Score =  303 bits (777), Expect = 3e-80,   Method: Compositional matrix adjust.
 Identities = 152/266 (57%), Positives = 200/266 (75%), Gaps = 11/266 (4%)

Query: 1   MASIADQEEEANNFSYAMELASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQI 60
           M +  D +EEA+ F  AM+LASA VLP  +++ +ELD+ E+I KAGPGA +S SE+ AQ+
Sbjct: 10  MTNRVDSDEEASLF--AMQLASASVLPMVLKSAIELDLLELIAKAGPGAAVSPSELAAQL 67

Query: 61  PLKDNNPEAAAMMLDRVLRLLVSYNALHCSF---VDG--QRLYSLAPVSKYFVRNNQNGA 115
           P    NP+AA +MLDR+LRLL +Y+ L+CS     DG  +RLYSLAPV KY  +N  +G 
Sbjct: 68  PT--TNPDAA-VMLDRILRLLCTYSVLNCSLRTLPDGRVERLYSLAPVCKYLTKNG-DGV 123

Query: 116 SLRPYMALSLDKVLMDGWFRLKGQILEGGIAFNKAHGMHIYDYLGVDSSFNDVFSNGMLS 175
           S+ P + ++ DKVLM+ W+ LK  +LEGGI FNKA+GM  ++Y G D  FN VF+ GM  
Sbjct: 124 SMAPLLLMNQDKVLMESWYHLKDAVLEGGIPFNKAYGMTAFEYHGTDPRFNKVFNRGMSD 183

Query: 176 HTSIVMEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPSY 235
           H++I M+K+L+ YKGFE +K LVDVGGG GATLNMI+SKYP+IKGIN+DL +VI+++P Y
Sbjct: 184 HSTITMKKILDDYKGFEGLKSLVDVGGGTGATLNMILSKYPNIKGINFDLPHVIEDSPKY 243

Query: 236 PGIDHVGGDLFESVPKADTIFMKVIC 261
           PGI+HVGGD+F SVPK D IFMK IC
Sbjct: 244 PGIEHVGGDMFVSVPKGDAIFMKWIC 269

Source: Ipomoea nil

Species: Ipomoea nil

Genus: Ipomoea

Family: Convolvulaceae

Order: Solanales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255548061|ref|XP_002515087.1| o-methyltransferase, putative [Ricinus communis] gi|223545567|gb|EEF47071.1| o-methyltransferase, putative [Ricinus communis]

 Score =  303 bits (776), Expect = 5e-80,   Method: Compositional matrix adjust.
 Identities = 151/253 (59%), Positives = 187/253 (73%), Gaps = 3/253 (1%)

Query: 8   EEEANNFSYAMELASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNP 67
           EE   NF YAM+LA    LP ++ A +EL VFEII KAGP +KLS SEI A+IP    NP
Sbjct: 14  EEHDENFGYAMQLALGSALPMSLHAAIELGVFEIIAKAGPESKLSASEITAEIP-DVQNP 72

Query: 68  EAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSKYFVRNNQNGASLRPYMALSLDK 127
           +AA + LDRVLRLL S+N L CS    +RLYSL PVSKYFV N Q+G SL P+MAL  DK
Sbjct: 73  DAA-ITLDRVLRLLASHNVLGCSLNGLERLYSLNPVSKYFVPN-QDGISLGPFMALIQDK 130

Query: 128 VLMDGWFRLKGQILEGGIAFNKAHGMHIYDYLGVDSSFNDVFSNGMLSHTSIVMEKVLES 187
           V +D W +LK  +LEGG  FNK HG H + Y G+DS FN VF+  M  HT++V+ K+LE+
Sbjct: 131 VFLDSWTKLKDAVLEGGSPFNKFHGTHCFGYSGLDSRFNHVFNTAMFHHTNLVITKILET 190

Query: 188 YKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPSYPGIDHVGGDLFE 247
           YKGF+ +K+L+DVGGGLG TL  IISKYPH+KGIN+DL +V+K AP+ PG++HV GD+FE
Sbjct: 191 YKGFKQLKQLIDVGGGLGHTLKAIISKYPHLKGINFDLPHVVKYAPAIPGVEHVAGDMFE 250

Query: 248 SVPKADTIFMKVI 260
           SVPK + IFMK I
Sbjct: 251 SVPKGEAIFMKWI 263

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359490763|ref|XP_003634161.1| PREDICTED: caffeic acid 3-O-methyltransferase 1-like isoform 1 [Vitis vinifera]

 Score =  299 bits (765), Expect = 9e-79,   Method: Compositional matrix adjust.
 Identities = 152/265 (57%), Positives = 197/265 (74%), Gaps = 11/265 (4%)

Query: 2   ASIADQEEEANNFSYAMELASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIP 61
            +I + +EEA+ FS  M+L SA VLP  +++ +ELD+ EII KAGPGA +S SEI AQIP
Sbjct: 9   TTILESDEEASLFS--MQLVSASVLPMVLKSALELDLLEIIAKAGPGAFVSTSEIAAQIP 66

Query: 62  LKDNNPEAAAMMLDRVLRLLVSYNALHCSF---VDG--QRLYSLAPVSKYFVRNNQNGAS 116
              +NPEA  +MLDR+LRLL +Y  + CS     DG  +RLY LAPV KY  RN ++G S
Sbjct: 67  --THNPEAP-VMLDRILRLLATYAVVKCSLRNLPDGGVERLYGLAPVCKYLTRN-EDGVS 122

Query: 117 LRPYMALSLDKVLMDGWFRLKGQILEGGIAFNKAHGMHIYDYLGVDSSFNDVFSNGMLSH 176
           + P + ++ DKVLM+ W+ LK  +L+GGI FNKA+GM  ++Y G D  FN VF+NGM  H
Sbjct: 123 VAPLLLMNQDKVLMESWYYLKDAVLDGGIPFNKAYGMTAFEYHGTDPRFNKVFNNGMSGH 182

Query: 177 TSIVMEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPSYP 236
           ++I M+K+LE+YKGFE +  +VDVGGG GATLNMIISKYP IKGIN+DL +VI +APSYP
Sbjct: 183 STITMKKILEAYKGFEGLTSIVDVGGGTGATLNMIISKYPTIKGINFDLPHVIDDAPSYP 242

Query: 237 GIDHVGGDLFESVPKADTIFMKVIC 261
           G+++VGGD+F SVPK D IFMK IC
Sbjct: 243 GVENVGGDMFVSVPKGDAIFMKWIC 267

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359490765|ref|XP_003634162.1| PREDICTED: caffeic acid 3-O-methyltransferase 1-like isoform 2 [Vitis vinifera]

 Score =  296 bits (758), Expect = 6e-78,   Method: Compositional matrix adjust.
 Identities = 151/263 (57%), Positives = 196/263 (74%), Gaps = 11/263 (4%)

Query: 2   ASIADQEEEANNFSYAMELASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIP 61
            +I + +EEA+ FS  M+L SA VLP  +++ +ELD+ EII KAGPGA +S SEI AQIP
Sbjct: 9   TTILESDEEASLFS--MQLVSASVLPMVLKSALELDLLEIIAKAGPGAFVSTSEIAAQIP 66

Query: 62  LKDNNPEAAAMMLDRVLRLLVSYNALHCSF---VDG--QRLYSLAPVSKYFVRNNQNGAS 116
              +NPEA  +MLDR+LRLL +Y  + CS     DG  +RLY LAPV KY  RN ++G S
Sbjct: 67  --THNPEAP-VMLDRILRLLATYAVVKCSLRNLPDGGVERLYGLAPVCKYLTRN-EDGVS 122

Query: 117 LRPYMALSLDKVLMDGWFRLKGQILEGGIAFNKAHGMHIYDYLGVDSSFNDVFSNGMLSH 176
           + P + ++ DKVLM+ W+ LK  +L+GGI FNKA+GM  ++Y G D  FN VF+NGM  H
Sbjct: 123 VAPLLLMNQDKVLMESWYYLKDAVLDGGIPFNKAYGMTAFEYHGTDPRFNKVFNNGMSGH 182

Query: 177 TSIVMEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPSYP 236
           ++I M+K+LE+YKGFE +  +VDVGGG GATLNMIISKYP IKGIN+DL +VI +APSYP
Sbjct: 183 STITMKKILEAYKGFEGLTSIVDVGGGTGATLNMIISKYPTIKGINFDLPHVIDDAPSYP 242

Query: 237 GIDHVGGDLFESVPKADTIFMKV 259
           G+++VGGD+F SVPK D IFMKV
Sbjct: 243 GVENVGGDMFVSVPKGDAIFMKV 265

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|71482940|gb|AAZ32409.1| S-methyltransferase [Catharanthus roseus]

 Score =  295 bits (754), Expect = 2e-77,   Method: Compositional matrix adjust.
 Identities = 142/261 (54%), Positives = 197/261 (75%), Gaps = 9/261 (3%)

Query: 5   ADQEEEANNFSYAMELASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKD 64
           +  +E+ ++ SYA++L  +  LP  + AV++L+VFEII KAGPGAKLS S+IV+Q+P K 
Sbjct: 9   SSNKEDDDHSSYALQLVFSGALPMVLNAVIKLNVFEIIAKAGPGAKLSPSQIVSQMPTK- 67

Query: 65  NNPEAAAMMLDRVLRLLVSYNALHCSFVD-----GQRLYSLAPVSKYFVRNNQNGASLRP 119
            NPEA  ++LDR+LR+L SY+ L CS VD     GQR+Y L+PVSKYFV+N +NG    P
Sbjct: 68  -NPEAP-VVLDRMLRMLASYSVLTCSVVDFSHGSGQRVYGLSPVSKYFVKN-ENGGCFGP 124

Query: 120 YMALSLDKVLMDGWFRLKGQILEGGIAFNKAHGMHIYDYLGVDSSFNDVFSNGMLSHTSI 179
            + L  DKVL D W+ L   +LEGG AFN+A+ MHI+ Y G++  FN+ F+   ++H  +
Sbjct: 125 LLDLLQDKVLTDIWYELAPAVLEGGTAFNRAYNMHIFKYTGINQKFNETFNTATINHAKV 184

Query: 180 VMEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPSYPGID 239
           +++++L++YKGFE++K LVDVGGGLG TL++I SKYP++KGINYDL +V +NAP+YPG+ 
Sbjct: 185 IVQEILKNYKGFENLKTLVDVGGGLGVTLDLITSKYPNLKGINYDLPHVTQNAPTYPGVV 244

Query: 240 HVGGDLFESVPKADTIFMKVI 260
           HVGGD+FESVPK D IFMK I
Sbjct: 245 HVGGDMFESVPKGDAIFMKWI 265

Source: Catharanthus roseus

Species: Catharanthus roseus

Genus: Catharanthus

Family: Apocynaceae

Order: Gentianales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|154091348|gb|ABS57468.1| caffeic acid O-methyl transferase [Leucaena leucocephala] gi|155966780|gb|ABU41320.1| caffeic acid o-methyl transferase [Leucaena leucocephala]

 Score =  294 bits (753), Expect = 2e-77,   Method: Compositional matrix adjust.
 Identities = 150/260 (57%), Positives = 194/260 (74%), Gaps = 11/260 (4%)

Query: 7   QEEEANNFSYAMELASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNN 66
            +EEAN F  AM+LASA VLP  +++ +ELD+ EII KAGP A+LS S I AQ+P K  N
Sbjct: 15  NDEEANLF--AMQLASASVLPMILKSALELDLLEIIAKAGPNAQLSPSNIAAQLPTK--N 70

Query: 67  PEAAAMMLDRVLRLLVSYNALHCS---FVDG--QRLYSLAPVSKYFVRNNQNGASLRPYM 121
           P+AA +MLDR++RLL  YN L CS     DG  +RLY LAPV+KY V+N ++G S+ P  
Sbjct: 71  PDAA-VMLDRMMRLLACYNVLSCSVRTLPDGKIERLYGLAPVAKYLVKN-EDGVSIAPLN 128

Query: 122 ALSLDKVLMDGWFRLKGQILEGGIAFNKAHGMHIYDYLGVDSSFNDVFSNGMLSHTSIVM 181
            ++ DKVLM+ W+ LK  +LEGGI FNKAHGM  ++Y G D  FN VF+ GM  H++I M
Sbjct: 129 LMNQDKVLMESWYYLKDAVLEGGIPFNKAHGMTSFEYHGKDLRFNKVFNKGMADHSTITM 188

Query: 182 EKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPSYPGIDHV 241
           +K+LE+Y GFE +  LVDVGGG GA ++MI+SKYP I GIN+DL +VI++APSYPG++HV
Sbjct: 189 KKILETYTGFEGLTSLVDVGGGTGAVISMIVSKYPSINGINFDLPHVIEDAPSYPGVEHV 248

Query: 242 GGDLFESVPKADTIFMKVIC 261
           GGD+F SVPKAD +FMK IC
Sbjct: 249 GGDMFVSVPKADAVFMKWIC 268

Source: Leucaena leucocephala

Species: Leucaena leucocephala

Genus: Leucaena

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224128073|ref|XP_002320237.1| catechol o-methyltransferase related [Populus trichocarpa] gi|118481911|gb|ABK92890.1| unknown [Populus trichocarpa] gi|222861010|gb|EEE98552.1| catechol o-methyltransferase related [Populus trichocarpa]

 Score =  294 bits (753), Expect = 2e-77,   Method: Compositional matrix adjust.
 Identities = 140/253 (55%), Positives = 192/253 (75%), Gaps = 4/253 (1%)

Query: 8   EEEANNFSYAMELASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNP 67
           E +  NF YAM+LA + VLP  M + ++L +FEII KAGP AKLS S++ AQ+P K  NP
Sbjct: 14  EAKDENFGYAMQLALSSVLPMTMYSAIQLGIFEIIAKAGPDAKLSASDVAAQLPTK--NP 71

Query: 68  EAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSKYFVRNNQNGASLRPYMALSLDK 127
           +A  MMLDR+LRLL S++ L CS    +RLYSLAPVSK++VRN ++G SL P+MAL  D 
Sbjct: 72  DAP-MMLDRILRLLASHDVLGCSVDGSERLYSLAPVSKHYVRN-KDGVSLGPFMALIQDN 129

Query: 128 VLMDGWFRLKGQILEGGIAFNKAHGMHIYDYLGVDSSFNDVFSNGMLSHTSIVMEKVLES 187
           V +  W +LK  +LEGG+AF++ HG H ++Y G+D  FN VF+  M + T++V+E +LE+
Sbjct: 130 VFLQSWSQLKDAVLEGGVAFDRVHGAHAFEYPGLDPRFNQVFNTAMYNQTTVVLENMLEA 189

Query: 188 YKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPSYPGIDHVGGDLFE 247
           Y GF+++K+LV++GGG+G T+  IISKYP IKGIN+DL +VI++APS PG++HVGGD+FE
Sbjct: 190 YTGFKNLKQLVEIGGGMGHTIKAIISKYPQIKGINFDLPHVIEHAPSCPGVEHVGGDMFE 249

Query: 248 SVPKADTIFMKVI 260
           SVPK D IF+K I
Sbjct: 250 SVPKGDAIFLKWI 262

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|29839377|sp|Q8W013.1|COMT1_CATRO RecName: Full=Caffeic acid 3-O-methyltransferase; Short=CAOMT; Short=COMT; AltName: Full=S-adenosysl-L-methionine:caffeic acid 3-O-methyltransferase gi|18025321|gb|AAK20170.1| caffeic acid O-methyltransferase [Catharanthus roseus]

 Score =  294 bits (752), Expect = 3e-77,   Method: Compositional matrix adjust.
 Identities = 146/264 (55%), Positives = 198/264 (75%), Gaps = 11/264 (4%)

Query: 3   SIADQEEEANNFSYAMELASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPL 62
           S+  +EEEA     AM LASA VLP  +++ +ELD+ E+I K+GPGA +S SE+ AQ+P 
Sbjct: 11  SMTKEEEEA--CLSAMRLASASVLPMVLKSAIELDLLELIKKSGPGAYVSPSELAAQLPT 68

Query: 63  KDNNPEAAAMMLDRVLRLLVSYNALHCSFVDG-----QRLYSLAPVSKYFVRNNQNGASL 117
           +  NP+A  +MLDR+LRLL SY+ L+C+  D      +RLYSLAPV K+  +N ++G S+
Sbjct: 69  Q--NPDAP-VMLDRILRLLASYSVLNCTLKDLPDGGIERLYSLAPVCKFLTKN-EDGVSM 124

Query: 118 RPYMALSLDKVLMDGWFRLKGQILEGGIAFNKAHGMHIYDYLGVDSSFNDVFSNGMLSHT 177
              + ++ DKVLM+ W+ LK  +LEGGI FNKA+GM  ++Y G D  FN VF+ GM +H+
Sbjct: 125 AALLLMNQDKVLMESWYHLKDAVLEGGIPFNKAYGMTAFEYHGKDPRFNKVFNQGMSNHS 184

Query: 178 SIVMEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPSYPG 237
           +I+M+K+LE Y+GF+ +K +VDVGGG GATLNMI+SKYP IKGIN+DL +VI++APSYPG
Sbjct: 185 TIIMKKILEIYQGFQGLKTVVDVGGGTGATLNMIVSKYPSIKGINFDLPHVIEDAPSYPG 244

Query: 238 IDHVGGDLFESVPKADTIFMKVIC 261
           +DHVGGD+F SVPK D IFMK IC
Sbjct: 245 VDHVGGDMFVSVPKGDAIFMKWIC 268

Source: Catharanthus roseus

Species: Catharanthus roseus

Genus: Catharanthus

Family: Apocynaceae

Order: Gentianales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|307090030|gb|ADN27527.1| caffeic acid O-methyltransferase [Camellia sinensis]

 Score =  294 bits (752), Expect = 3e-77,   Method: Compositional matrix adjust.
 Identities = 147/264 (55%), Positives = 196/264 (74%), Gaps = 11/264 (4%)

Query: 3   SIADQEEEANNFSYAMELASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPL 62
           +I   EEEA  F  AM+LASA VLP  +++ +ELD+ EI+ KAGPGA +S SE+ AQ+P 
Sbjct: 9   TIHTDEEEACLF--AMQLASASVLPMVLKSAIELDLLEIMAKAGPGAYVSPSEVAAQLPT 66

Query: 63  KDNNPEAAAMMLDRVLRLLVSYNALHCSFVD-----GQRLYSLAPVSKYFVRNNQNGASL 117
           K  NP+AA +MLDR+LRLL SY+ L+C+  D      +RLY LAPV K+  RN  +G S+
Sbjct: 67  K--NPDAA-VMLDRILRLLTSYSVLNCTLRDLPNGGVERLYGLAPVCKFLTRN-ADGVSM 122

Query: 118 RPYMALSLDKVLMDGWFRLKGQILEGGIAFNKAHGMHIYDYLGVDSSFNDVFSNGMLSHT 177
            P + ++ DKVLM+ W+ LK  +LEGGI FNKA+GM  ++Y G D  FN VF+ GM +H+
Sbjct: 123 APLLLMNQDKVLMESWYYLKDTVLEGGIPFNKAYGMTAFEYHGTDPRFNKVFNQGMSNHS 182

Query: 178 SIVMEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPSYPG 237
           +I M+K+L+ Y GF+ +  +VDVGGG GATLNMI+SK+P IKGIN+DL +VI++APSYPG
Sbjct: 183 TITMKKILDIYGGFDGLTTVVDVGGGTGATLNMIVSKHPTIKGINFDLPHVIEDAPSYPG 242

Query: 238 IDHVGGDLFESVPKADTIFMKVIC 261
           ++HVGGD+F SVPK D IFMK IC
Sbjct: 243 VEHVGGDMFVSVPKGDAIFMKWIC 266

Source: Camellia sinensis

Species: Camellia sinensis

Genus: Camellia

Family: Theaceae

Order: Ericales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	269
TAIR|locus:2153423	363	OMT1 "AT5G54160" [Arabidopsis	0.892	0.661	0.521	2.6e-63
UNIPROTKB|Q84N28	360	OMT1 "Flavone O-methyltransfer	0.936	0.7	0.441	9.2e-52
UNIPROTKB|Q6ZD89	368	ROMT-9 "Flavone 3'-O-methyltra	0.940	0.687	0.430	1.5e-51
TAIR|locus:2204695	381	AT1G77530 [Arabidopsis thalian	0.944	0.666	0.407	2.9e-48
TAIR|locus:2204680	381	AT1G77520 [Arabidopsis thalian	0.944	0.666	0.396	2e-47
TAIR|locus:2164087	378	AT5G53810 [Arabidopsis thalian	0.944	0.671	0.415	9.1e-45
TAIR|locus:2030081	367	IGMT5 "indole glucosinolate O-	0.929	0.681	0.374	3.9e-44
TAIR|locus:2199582	373	IGMT4 "indole glucosinolate O-	0.895	0.646	0.394	5e-44
TAIR|locus:2038026	352	AT1G33030 [Arabidopsis thalian	0.914	0.698	0.380	5e-44
TAIR|locus:2199587	373	IGMT2 "indole glucosinolate O-	0.936	0.675	0.382	8.1e-44

TAIR|locus:2153423 OMT1 "AT5G54160" [Arabidopsis thaliana (taxid:3702)]

 Score = 646 (232.5 bits), Expect = 2.6e-63, P = 2.6e-63
 Identities = 131/251 (52%), Positives = 179/251 (71%)

Query:    16 YAMELASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLD 75
             +AM+LASA VLP A+++ +ELD+ EI+ K G  + +S +EI +++P K  NPEA  +MLD
Sbjct:    22 FAMQLASASVLPMALKSALELDLLEIMAKNG--SPMSPTEIASKLPTK--NPEAP-VMLD 76

Query:    76 RVLRLLVSYNALHCS----FVDG-QRLYSLAPVSKYFVRNNQNGASLRPYMALSLDKVLM 130
             R+LRLL SY+ L CS      DG +R+Y L PV KY  +N ++G S+     ++ DKVLM
Sbjct:    77 RILRLLTSYSVLTCSNRKLSGDGVERIYGLGPVCKYLTKN-EDGVSIAALCLMNQDKVLM 135

Query:   131 DGWFRLKGQILEGGIAFNKAHGMHIYDYLGVDSSFNDVFSNGMLSHTSIVMEKVLESYKG 190
             + W+ LK  IL+GGI FNKA+GM  ++Y G D  FN VF+NGM +H++I M+K+LE+YKG
Sbjct:   136 ESWYHLKDAILDGGIPFNKAYGMSAFEYHGTDPRFNKVFNNGMSNHSTITMKKILETYKG 195

Query:   191 FEHXXXXXXXXXXXXATLNMIISKYPHIKGINYDLLYVIKNAPSYPGIDHVGGDLFESVP 250
             FE             ATL MI+SKYP++KGIN+DL +VI++APS+PGI+HVGGD+F SVP
Sbjct:   196 FEGLTSLVDVGGGIGATLKMIVSKYPNLKGINFDLPHVIEDAPSHPGIEHVGGDMFVSVP 255

Query:   251 KADTIFMKVIC 261
             K D IFMK IC
Sbjct:   256 KGDAIFMKWIC 266

GO:0030744 "luteolin O-methyltransferase activity" evidence=IDA

GO:0030755 "quercetin 3-O-methyltransferase activity" evidence=IDA

GO:0033799 "myricetin 3'-O-methyltransferase activity" evidence=IDA

GO:0047763 "caffeate O-methyltransferase activity" evidence=ISS;IMP

GO:0051555 "flavonol biosynthetic process" evidence=IDA

GO:0009809 "lignin biosynthetic process" evidence=IMP

GO:0005634 "nucleus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

GO:0005886 "plasma membrane" evidence=IDA

GO:0009506 "plasmodesma" evidence=IDA

GO:0006598 "polyamine catabolic process" evidence=RCA

GO:0009611 "response to wounding" evidence=RCA

GO:0009698 "phenylpropanoid metabolic process" evidence=RCA

GO:0009805 "coumarin biosynthetic process" evidence=RCA

GO:0009963 "positive regulation of flavonoid biosynthetic process" evidence=RCA

GO:0016126 "sterol biosynthetic process" evidence=RCA

GO:0042398 "cellular modified amino acid biosynthetic process" evidence=RCA

GO:0005829 "cytosol" evidence=TAS

UNIPROTKB|Q84N28 OMT1 "Flavone O-methyltransferase 1" [Triticum aestivum (taxid:4565)]

 Score = 537 (194.1 bits), Expect = 9.2e-52, P = 9.2e-52
 Identities = 117/265 (44%), Positives = 165/265 (62%)

Query:     1 MASIADQEEEANNFSYAMELASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQI 60
             MA+ AD  EEA    YA++L S+ +LP  ++  +EL + E +  AG G  L+ +E+ A++
Sbjct:     8 MAASAD--EEA--CMYALQLVSSSILPMTLKNAIELGLLETLVAAG-GKLLTPAEVAAKL 62

Query:    61 PLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQ-----RLYSLAPVSKYFVRNNQNGA 115
             P    NP AAA M+DR+LRLL SYN + C+  +G+     R Y  APV K F+  N++G 
Sbjct:    63 P-STANP-AAADMVDRMLRLLASYNVVSCTMEEGKDGRLSRRYRAAPVCK-FLTPNEDGV 119

Query:   116 SLRPYMALSLDKVLMDGWFRLKGQILEGGIAFNKAHGMHIYDYLGVDSSFNDVFSNGMLS 175
             S+     ++ DKVLM+ W+ LK  +L+GGI FNKA+GM  ++Y G D  FN VF+ GM +
Sbjct:   120 SMAALALMNQDKVLMESWYYLKDAVLDGGIPFNKAYGMSAFEYHGTDPRFNRVFNEGMKN 179

Query:   176 HTSIVMEKVLESYKGFEHXXXXXXXXXXXXATLNMIISKYPHIKGINYDLLYVIKNAPSY 235
             H+ I+ +K+LE YKGFE             AT+  I + YP IKGIN+DL +VI  A  +
Sbjct:   180 HSIIITKKLLEVYKGFEGLGTIVDVGGGVGATVGAITAAYPAIKGINFDLPHVISEAQPF 239

Query:   236 PGIDHVGGDLFESVPKADTIFMKVI 260
             PG+ HVGGD+F+ VP  D I MK I
Sbjct:   240 PGVTHVGGDMFQKVPSGDAILMKWI 264

GO:0009611 "response to wounding" evidence=IDA

GO:0009723 "response to ethylene stimulus" evidence=IDA

GO:0009751 "response to salicylic acid stimulus" evidence=IDA

GO:0042542 "response to hydrogen peroxide" evidence=IDA

UNIPROTKB|Q6ZD89 ROMT-9 "Flavone 3'-O-methyltransferase 1" [Oryza sativa Japonica Group (taxid:39947)]

 Score = 535 (193.4 bits), Expect = 1.5e-51, P = 1.5e-51
 Identities = 117/272 (43%), Positives = 171/272 (62%)

Query:     1 MASIADQEEEANNFSYAMELASAIVLPAAMQAVVELDVFEIITKA---GPGAK---LSVS 54
             MA+ AD  EEA    YA++LAS+ +LP  ++  +EL + E +  A   G G K   L+ +
Sbjct:     8 MAAAAD--EEA--CMYALQLASSSILPMTLKNAIELGLLETLQSAAVAGGGGKAALLTPA 63

Query:    55 EIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDG-----QRLYSLAPVSKYFVR 109
             E+  ++P K N P AAA M+DR+LRLL SYN + C   +G      R Y+ APV K+   
Sbjct:    64 EVADKLPSKAN-P-AAADMVDRMLRLLASYNVVRCEMEEGADGKLSRRYAAAPVCKWLTP 121

Query:   110 NNQNGASLRPYMALSLDKVLMDGWFRLKGQILEGGIAFNKAHGMHIYDYLGVDSSFNDVF 169
             N ++G S+     ++ DKVLM+ W+ LK  +L+GGI FNKA+GM  ++Y G D+ FN VF
Sbjct:   122 N-EDGVSMAALALMNQDKVLMESWYYLKDAVLDGGIPFNKAYGMTAFEYHGTDARFNRVF 180

Query:   170 SNGMLSHTSIVMEKVLESYKGFEHXXXXXXXXXXXXATLNMIISKYPHIKGINYDLLYVI 229
             + GM +H+ I+ +K+L+ Y GF+             AT+  ++S++PHI+GINYDL +VI
Sbjct:   181 NEGMKNHSVIITKKLLDLYTGFDAASTVVDVGGGVGATVAAVVSRHPHIRGINYDLPHVI 240

Query:   230 KNAPSYPGIDHVGGDLFESVPKA-DTIFMKVI 260
               AP +PG++HVGGD+F SVP+  D I MK I
Sbjct:   241 SEAPPFPGVEHVGGDMFASVPRGGDAILMKWI 272

GO:0030744 "luteolin O-methyltransferase activity" evidence=IDA

GO:0032259 "methylation" evidence=IDA

TAIR|locus:2204695 AT1G77530 [Arabidopsis thaliana (taxid:3702)]

 Score = 504 (182.5 bits), Expect = 2.9e-48, P = 2.9e-48
 Identities = 108/265 (40%), Positives = 153/265 (57%)

Query:     6 DQEEEANNFSYAME-LASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKD 64
             +QE +    S   E + +A+  P  ++A +EL V + I  A  G  LS SEI   +P K 
Sbjct:    21 EQEIDEKMVSLQAESIVNAVAFPMVLKAALELGVIDTIAAASNGTWLSPSEIAVSLPNKP 80

Query:    65 NNPEAAAMMLDRVLRLLVSYNALHCSFVD----GQ-----RLYSLAPVSKYFVRNNQNGA 115
              NPEA  ++LDR+LRLLVS++ L C  V+    GQ     R+Y+  P+ KYF++++    
Sbjct:    81 TNPEAP-VLLDRMLRLLVSHSILKCCMVESRENGQTGKIERVYAAEPICKYFLKDSDGSG 139

Query:   116 SLRPYMALSLDKVLMDGWFRLKGQILEGGIAFNKAHGMHIYDYLGVDSSFNDVFSNGMLS 175
             SL   + L   +V++  W  LK  ILEG  AF+ AH M +++Y+  D  F+ +F   M  
Sbjct:   140 SLSSLLLLLHSQVILKTWTNLKDVILEGKDAFSSAHDMRLFEYISSDDQFSKLFHRAMSE 199

Query:   176 HTSIVMEKVLESYKGFEHXXXXXXXXXXXXATLNMIISKYPHIKGINYDLLYVIKNAPSY 235
              +++VM+KVLE Y+GFE               L +I SKYPHIKG+N+DL  V+  AP Y
Sbjct:   200 SSTMVMKKVLEEYRGFEDVNTLVDVGGGIGTILGLITSKYPHIKGVNFDLAQVLTQAPFY 259

Query:   236 PGIDHVGGDLFESVPKADTIFMKVI 260
             PG+ HV GD+F  VPK D IFMK I
Sbjct:   260 PGVKHVSGDMFIEVPKGDAIFMKWI 284

GO:0005634 "nucleus" evidence=ISM

GO:0008168 "methyltransferase activity" evidence=IEA

GO:0008171 "O-methyltransferase activity" evidence=IEA;ISS

GO:0046983 "protein dimerization activity" evidence=IEA

GO:0009809 "lignin biosynthetic process" evidence=ISS

GO:0005829 "cytosol" evidence=TAS

TAIR|locus:2204680 AT1G77520 [Arabidopsis thaliana (taxid:3702)]

 Score = 496 (179.7 bits), Expect = 2.0e-47, P = 2.0e-47
 Identities = 105/265 (39%), Positives = 150/265 (56%)

Query:     6 DQEEEANNFSYAME-LASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKD 64
             +QE +    S   E + + +  P  ++A  EL V + I  AG    LS  EI   +P K 
Sbjct:    21 EQEVDEKMVSLQAESIVNTVAFPMVLKAAFELGVIDTIAAAGNDTWLSPCEIACSLPTKP 80

Query:    65 NNPEAAAMMLDRVLRLLVSYNALHCSFVD-GQ--------RLYSLAPVSKYFVRNNQNGA 115
              NPEA  ++LDR+L LLVS++ L C  ++ G+        R+Y+  PV KYF+R++    
Sbjct:    81 TNPEAP-VLLDRMLSLLVSHSILKCRMIETGENGRTGKIERVYAAEPVCKYFLRDSDGTG 139

Query:   116 SLRPYMALSLDKVLMDGWFRLKGQILEGGIAFNKAHGMHIYDYLGVDSSFNDVFSNGMLS 175
             SL P   L   +V    W  LK  ILEG  AFN AHGM I++Y+  D  F ++F+  M  
Sbjct:   140 SLVPLFMLLHTQVFFKTWTNLKDVILEGRDAFNSAHGMKIFEYINSDQPFAELFNRAMSE 199

Query:   176 HTSIVMEKVLESYKGFEHXXXXXXXXXXXXATLNMIISKYPHIKGINYDLLYVIKNAPSY 235
              ++++M+KVL+ Y+GFE               L ++ SKYPHIKG+N+DL  V+  AP Y
Sbjct:   200 PSTMIMKKVLDVYRGFEDVNTLVDVGGGNGTVLGLVTSKYPHIKGVNFDLAQVLTQAPFY 259

Query:   236 PGIDHVGGDLFESVPKADTIFMKVI 260
             PG++HV GD+F  VPK D +FMK I
Sbjct:   260 PGVEHVSGDMFVEVPKGDAVFMKWI 284

GO:0005634 "nucleus" evidence=ISM

GO:0008168 "methyltransferase activity" evidence=IEA

GO:0008171 "O-methyltransferase activity" evidence=IEA;ISS

GO:0046983 "protein dimerization activity" evidence=IEA

GO:0009809 "lignin biosynthetic process" evidence=ISS

GO:0005829 "cytosol" evidence=TAS

TAIR|locus:2164087 AT5G53810 [Arabidopsis thaliana (taxid:3702)]

 Score = 471 (170.9 bits), Expect = 9.1e-45, P = 9.1e-45
 Identities = 110/265 (41%), Positives = 150/265 (56%)

Query:     6 DQEEEANNFSYAMELASAIVLPAAMQAVVELDVFEIITKAGPGAK-LSVSEIVAQIPLKD 64
             +QE E      A  LA+A   P  ++A +EL V + IT  G G   LS SEI  ++P K 
Sbjct:    18 EQEVEEEARLLARRLANAAASPMVLKAALELGVIDTITTVGGGDLWLSPSEIALRLPTKP 77

Query:    65 NNPEAAAMMLDRVLRLLVSYNALHCSFV---DGQ-----RLYSLAPVSKYFVRNNQN-GA 115
              N EA A+ LDR+LR LVS++ L C  V   +GQ     R+Y+  PV KY +  + +   
Sbjct:    78 CNLEAPAL-LDRMLRFLVSHSVLKCRTVIEENGQTGKVERVYAAEPVCKYLLNKSDDVSG 136

Query:   116 SLRPYMALSLDKVLMDGWFRLKGQILEGGIAFNKAHGMHIYDYLGVDSSFNDVFSNGMLS 175
             S      L L  V +  W  L+  ILEG  AF+ AHGM +++Y+  D  F  VF+  ML 
Sbjct:   137 SFASLFMLDLSDVFIKTWTHLEDVILEGRDAFSSAHGMKLFEYIQADERFGKVFNRAMLE 196

Query:   176 HTSIVMEKVLESYKGFEHXXXXXXXXXXXXATLNMIISKYPHIKGINYDLLYVIKNAPSY 235
              +++V EKVL+ Y+GF+              TL +I SKYPH+ GIN+DL  V+ NA SY
Sbjct:   197 SSTMVTEKVLKFYEGFKDVKTLVDVGGGLGNTLGLITSKYPHLIGINFDLAPVLANAHSY 256

Query:   236 PGIDHVGGDLFESVPKADTIFMKVI 260
             PG++HV GD+F  +PK D IFMK I
Sbjct:   257 PGVNHVAGDMFIKIPKGDAIFMKWI 281

GO:0008168 "methyltransferase activity" evidence=IEA

GO:0008171 "O-methyltransferase activity" evidence=IEA

GO:0046983 "protein dimerization activity" evidence=IEA

GO:0005829 "cytosol" evidence=TAS

TAIR|locus:2030081 IGMT5 "indole glucosinolate O-methyltransferase 5" [Arabidopsis thaliana (taxid:3702)]

 Score = 465 (168.7 bits), Expect = 3.9e-44, P = 3.9e-44
 Identities = 98/262 (37%), Positives = 151/262 (57%)

Query:     8 EEEANNFSYAMELASAIVLPAAMQAVVELDVFEIITKA------GPGAKLSVSEIVAQIP 61
             +EE      A+ LA+    P   +A +EL V + +  A      G  + L+ SEI  ++P
Sbjct:    10 DEETELGLAAVRLANCAAFPMVFKAAIELGVIDTLYLAARDDVTGSSSFLTPSEIAIRLP 69

Query:    62 LKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSKYFVRNN--QNGASLRP 119
              K +NPEA A+ LDR+LRLL SY+ + C  +DG R+Y   P+ +YF+++N  +   +L  
Sbjct:    70 TKPSNPEAPAL-LDRILRLLASYSMVKCQIIDGNRVYKAEPICRYFLKDNVDEELGTLAS 128

Query:   120 YMALSLDKVLMDGWFRLKGQILEGGIAFNKAHG-MHIYDYLGVDSSFNDVFSNGMLSHTS 178
              + ++LD V ++ W  LK  +LEGG+AF +A+G + ++DY+  D   + +F+    S   
Sbjct:   129 QLIVTLDTVFLNTWGELKNVVLEGGVAFGRANGGLKLFDYISKDERLSKLFNRTGFSVA- 187

Query:   179 IVMEKVLESYKGFEHXXXXXXXXXXXXATLNMIISKYPHIKGINYDLLYVIKNAPSYPGI 238
              V++K+L+ Y GFE              TL  + SKYP+IKGIN+DL   +  APSYP +
Sbjct:   188 -VLKKILQVYSGFEGVNVLVDVGGGVGDTLGFVTSKYPNIKGINFDLTCALTQAPSYPNV 246

Query:   239 DHVGGDLFESVPKADTIFMKVI 260
             +HV GD+F  VPK D I +K I
Sbjct:   247 EHVAGDMFVDVPKGDAILLKRI 268

GO:0008168 "methyltransferase activity" evidence=IEA

GO:0008171 "O-methyltransferase activity" evidence=IEA

GO:0046983 "protein dimerization activity" evidence=IEA

GO:0005829 "cytosol" evidence=TAS

TAIR|locus:2199582 IGMT4 "indole glucosinolate O-methyltransferase 4" [Arabidopsis thaliana (taxid:3702)]

 Score = 464 (168.4 bits), Expect = 5.0e-44, P = 5.0e-44
 Identities = 99/251 (39%), Positives = 152/251 (60%)

Query:    17 AMELASAIVLPAAMQAVVELDVFEII-TKAGPGAK-LSVSEIVAQIPLKDNNPEAAAMML 74
             A+ LA+A   P  ++A +EL VF+ +  +A      LS SEI +++P    NPEA  ++L
Sbjct:    29 AVRLANAAAFPMVLKAALELGVFDTLYAEASRSDSFLSPSEIASKLPTTPRNPEAP-VLL 87

Query:    75 DRVLRLLVSYNALHCSFVD---GQRLYSLAPVSKYFVRNN-QNGASLRPYMALSLDKVLM 130
             DR+LRLL SY+ + C  V    G+R+Y   P+ ++F+++N Q+  SL   + ++ D V +
Sbjct:    88 DRMLRLLASYSVVKCGKVSEGKGERVYRAEPICRFFLKDNIQDIGSLASQVIVNFDSVFL 147

Query:   131 DGWFRLKGQILEGGIAFNKAHG-MHIYDYLGVDSSFNDVFSNGMLSHTSIVMEKVLESYK 189
             + W +LK  +LEGG AF +AHG M ++DY+G D  F+ +F+      T  V++K LE Y+
Sbjct:   148 NTWAQLKDVVLEGGDAFGRAHGGMKLFDYMGTDERFSKLFNQ--TGFTIAVVKKALEVYQ 205

Query:   190 GFEHXXXXXXXXXXXXATLNMIISKYPHIKGINYDLLYVIKNAPSYPGIDHVGGDLFESV 249
             GF+              TL ++ SKYP+IKGIN+DL   +  APSYPG++HV GD+F  V
Sbjct:   206 GFKGVNVLVDVGGGVGNTLGVVASKYPNIKGINFDLTCALAQAPSYPGVEHVAGDMFVDV 265

Query:   250 PKADTIFMKVI 260
             P  D + +K I
Sbjct:   266 PTGDAMILKRI 276

GO:0005634 "nucleus" evidence=ISM

GO:0008168 "methyltransferase activity" evidence=IEA

GO:0008171 "O-methyltransferase activity" evidence=IEA

GO:0046983 "protein dimerization activity" evidence=IEA

GO:0005829 "cytosol" evidence=TAS

TAIR|locus:2038026 AT1G33030 [Arabidopsis thaliana (taxid:3702)]

 Score = 464 (168.4 bits), Expect = 5.0e-44, P = 5.0e-44
 Identities = 97/255 (38%), Positives = 149/255 (58%)

Query:     9 EEANNFSYAMELASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPE 68
             EE N  SYAM L+S+ VLP  ++  ++L +F+I+ ++GP +   +  +++    K ++  
Sbjct:     2 EEQNLSSYAMILSSSSVLPMVLKTAIDLGLFDILAESGPSSASQIFSLLSNETKKHHD-- 59

Query:    69 AAAMMLDRVLRLLVSYNALHCSFVD--GQ--RLYSLAPVSKYFVRNNQNGASLRPYMALS 124
               + +++R+LR L SY+ L CS     G+   +Y LAPV+KYF +N   G SL P + L 
Sbjct:    60 --SSLVNRILRFLASYSILTCSVSTEHGEPFAIYGLAPVAKYFTKNQNGGGSLAPMVNLF 117

Query:   125 LDKVLMDGWFRLKGQILEGGIAFNKAHGMHIYDYLGVDSSFNDVFSNGMLSHTSIVMEKV 184
              DKV+ D W+ LK  +LEGG+ FN  HG    + +G DS F +VF + M     + +E+ 
Sbjct:   118 QDKVVTDMWYNLKDSVLEGGLPFNNTHGSSAVELVGSDSRFREVFQSSMKGFNEVFIEEF 177

Query:   185 LESYKGFEHXXXXXXXXXXXXATLNMIISKYPHI-KGINYDLLYVIKNAPSYPGIDHVGG 243
             L++Y GF+             + L+ IISK+ HI K IN+DL  VI  +   PGI+HV G
Sbjct:   178 LKNYNGFDGVKSLVDVGGGDGSLLSRIISKHTHIIKAINFDLPTVINTSLPSPGIEHVAG 237

Query:   244 DLFESVPKADTIFMK 258
             D+F + PK + IFMK
Sbjct:   238 DMFTNTPKGEAIFMK 252

GO:0008168 "methyltransferase activity" evidence=IEA

GO:0008171 "O-methyltransferase activity" evidence=IEA;ISS

GO:0046983 "protein dimerization activity" evidence=IEA

GO:0005829 "cytosol" evidence=IDA;TAS

GO:0009809 "lignin biosynthetic process" evidence=ISS

TAIR|locus:2199587 IGMT2 "indole glucosinolate O-methyltransferase 2" [Arabidopsis thaliana (taxid:3702)]

 Score = 462 (167.7 bits), Expect = 8.1e-44, P = 8.1e-44
 Identities = 101/264 (38%), Positives = 156/264 (59%)

Query:     4 IADQEEEANNFSYAMELASAIVLPAAMQAVVELDVFEII-TKAG-PGAKLSVSEIVAQIP 61
             + D + E      A+ LA+A   P  ++A +EL VF+ +  +A    + LS SEI +++P
Sbjct:    18 VVDDDNELGLM--AVRLANAAAFPMVLKASLELGVFDTLYAEASRTDSFLSPSEIASKLP 75

Query:    62 LKDNNPEAAAMMLDRVLRLLVSYNALHCSFVD---GQRLYSLAPVSKYFVRNN-QNGASL 117
                 NP  A ++LDR+LRLL SY+ + C  V    G+R+Y   P+ ++F++NN Q+  SL
Sbjct:    76 TTPRNP-GAPVLLDRMLRLLASYSMVKCEKVSVGKGERVYRAEPICRFFLKNNIQDIGSL 134

Query:   118 RPYMALSLDKVLMDGWFRLKGQILEGGIAFNKAHG-MHIYDYLGVDSSFNDVFSNGMLSH 176
                + ++ D V ++ W +LK  +LEGG AF +AHG M ++DY+G D  F+ +F+      
Sbjct:   135 ASQVIVNFDSVFLNTWAQLKDVVLEGGDAFGRAHGGMKLFDYMGTDERFSKLFNQ--TGF 192

Query:   177 TSIVMEKVLESYKGFEHXXXXXXXXXXXXATLNMIISKYPHIKGINYDLLYVIKNAPSYP 236
             T  V++K LE Y+GF+              TL ++ SKYP+IKGIN+DL   +  APSYP
Sbjct:   193 TIAVVKKALEVYQGFKGVNVLVDVGGGVGNTLGVVTSKYPNIKGINFDLTCALAQAPSYP 252

Query:   237 GIDHVGGDLFESVPKADTIFMKVI 260
             G++HV GD+F  VP  D + +K I
Sbjct:   253 GVEHVAGDMFVDVPTGDAMILKRI 276

GO:0005634 "nucleus" evidence=ISM

GO:0008168 "methyltransferase activity" evidence=IEA;IDA

GO:0008171 "O-methyltransferase activity" evidence=IEA

GO:0046983 "protein dimerization activity" evidence=IEA

GO:0042343 "indole glucosinolate metabolic process" evidence=IDA

GO:0005829 "cytosol" evidence=TAS

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q9FK25	OMT1_ARATH	2, ., 1, ., 1, ., 7, 6	0.5537	0.8921	0.6611	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

Prediction Level	EC number	Confidence of Prediction
3rd Layer	2.1.1	0.921

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	269
pfam00891	239	pfam00891, Methyltransf_2, O-methyltransferase	2e-66
pfam08100	50	pfam08100, Dimerisation, Dimerisation domain	2e-10

>gnl|CDD|216177 pfam00891, Methyltransf_2, O-methyltransferase

 Score =  206 bits (526), Expect = 2e-66
 Identities = 75/169 (44%), Positives = 102/169 (60%), Gaps = 1/169 (0%)

Query: 93  DGQRLYSLAPVSKYFVRNNQNGASLRPYMALSLDKVLMDGWFRLKGQILEGGIAFNKAHG 152
            G   Y L P SK  V+   +  SL P + +  D  L++ W  LK  + EGG  F +A G
Sbjct: 2   RGGEDYGLTPASKLLVKGE-DSPSLAPLLLMYADPTLLESWAHLKDAVREGGPPFERAFG 60

Query: 153 MHIYDYLGVDSSFNDVFSNGMLSHTSIVMEKVLESYKGFEHVKKLVDVGGGLGATLNMII 212
           M  ++YLG D  FN VF+  M +H+ +VM+K+LE+   F  +  LVDVGGG GA    I+
Sbjct: 61  MPFFEYLGADPEFNRVFNRAMAAHSRLVMKKILETAFDFSGLSSLVDVGGGTGALAAAIV 120

Query: 213 SKYPHIKGINYDLLYVIKNAPSYPGIDHVGGDLFESVPKADTIFMKVIC 261
             YPHIKGI +DL +VI +APS   ++ VGGD FESVP+AD I +K + 
Sbjct: 121 RAYPHIKGIVFDLPHVIADAPSADRVEFVGGDFFESVPEADAILLKWVL 169

This family includes a range of O-methyltransferases. These enzymes utilise S-adenosyl methionine. Length = 239

>gnl|CDD|219719 pfam08100, Dimerisation, Dimerisation domain

 Score = 54.9 bits (133), Expect = 2e-10
 Identities = 23/54 (42%), Positives = 34/54 (62%), Gaps = 5/54 (9%)

Query: 29 AMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLV 82
           ++  +EL + +II K   G  LS SE+ +++P    NPE A +MLDR+LRLL 
Sbjct: 2  VLKCAIELGIPDIIAKH--GKPLSPSELASKLPTV--NPE-APVMLDRLLRLLA 50

This domain is found at the N-terminus of a variety of plant O-methyltransferases. It has been shown to mediate dimerisation of these proteins. Length = 50

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	269
KOG3178	342	consensus Hydroxyindole-O-methyltransferase and re	100.0
PF00891	241	Methyltransf_2: O-methyltransferase; InterPro: IPR	100.0
TIGR02716	306	C20_methyl_CrtF C-20 methyltransferase BchU. Membe	100.0
PF08100	51	Dimerisation: Dimerisation domain; InterPro: IPR01	99.0
PRK06922	677	hypothetical protein; Provisional	98.92
PF12847	112	Methyltransf_18: Methyltransferase domain; PDB: 3G	98.86
PRK14103	255	trans-aconitate 2-methyltransferase; Provisional	98.83
TIGR03587	204	Pse_Me-ase pseudaminic acid biosynthesis-associate	98.8
COG4106	257	Tam Trans-aconitate methyltransferase [General fun	98.75
PRK01683	258	trans-aconitate 2-methyltransferase; Provisional	98.69
PF13847	152	Methyltransf_31: Methyltransferase domain; PDB: 3T	98.69
TIGR00740	239	methyltransferase, putative. A simple BLAST search	98.65
TIGR02752	231	MenG_heptapren 2-heptaprenyl-1,4-naphthoquinone me	98.62
PF08242	99	Methyltransf_12: Methyltransferase domain; InterPr	98.61
PRK08287	187	cobalt-precorrin-6Y C(15)-methyltransferase; Valid	98.59
PRK15451	247	tRNA cmo(5)U34 methyltransferase; Provisional	98.59
COG2226	238	UbiE Methylase involved in ubiquinone/menaquinone	98.58
smart00138	264	MeTrc Methyltransferase, chemotaxis proteins. Meth	98.54
PLN02233	261	ubiquinone biosynthesis methyltransferase	98.51
PRK06202	232	hypothetical protein; Provisional	98.51
PLN02244	340	tocopherol O-methyltransferase	98.5
PLN03075	296	nicotianamine synthase; Provisional	98.5
PRK11207	197	tellurite resistance protein TehB; Provisional	98.49
PTZ00098	263	phosphoethanolamine N-methyltransferase; Provision	98.46
PF01209	233	Ubie_methyltran: ubiE/COQ5 methyltransferase famil	98.46
TIGR02021	219	BchM-ChlM magnesium protoporphyrin O-methyltransfe	98.44
PF13649	101	Methyltransf_25: Methyltransferase domain; PDB: 3B	98.43
PRK08317	241	hypothetical protein; Provisional	98.43
PRK00216	239	ubiE ubiquinone/menaquinone biosynthesis methyltra	98.43
smart00828	224	PKS_MT Methyltransferase in polyketide synthase (P	98.42
PF08241	95	Methyltransf_11: Methyltransferase domain; InterPr	98.4
PRK11036	255	putative S-adenosyl-L-methionine-dependent methylt	98.39
PLN02490	340	MPBQ/MSBQ methyltransferase	98.39
PLN02336	475	phosphoethanolamine N-methyltransferase	98.36
TIGR02072	240	BioC biotin biosynthesis protein BioC. This enzyme	98.33
PRK05785	226	hypothetical protein; Provisional	98.33
TIGR01934	223	MenG_MenH_UbiE ubiquinone/menaquinone biosynthesis	98.3
PRK10258	251	biotin biosynthesis protein BioC; Provisional	98.28
PRK07580	230	Mg-protoporphyrin IX methyl transferase; Validated	98.26
PF05175	170	MTS: Methyltransferase small domain; InterPro: IPR	98.23
PRK04457	262	spermidine synthase; Provisional	98.2
TIGR00138	181	gidB 16S rRNA methyltransferase GidB. GidB (glucos	98.2
PRK15001	378	SAM-dependent 23S ribosomal RNA mG1835 methyltrans	98.19
TIGR03533	284	L3_gln_methyl protein-(glutamine-N5) methyltransfe	98.18
TIGR02469	124	CbiT precorrin-6Y C5,15-methyltransferase (decarbo	98.17
PRK15068	322	tRNA mo(5)U34 methyltransferase; Provisional	98.16
PF05401	201	NodS: Nodulation protein S (NodS); InterPro: IPR00	98.14
PRK11805	307	N5-glutamine S-adenosyl-L-methionine-dependent met	98.14
TIGR00477	195	tehB tellurite resistance protein TehB. Part of a	98.14
PRK11873	272	arsM arsenite S-adenosylmethyltransferase; Reviewe	98.11
TIGR00091	194	tRNA (guanine-N(7)-)-methyltransferase. In E. coli	98.11
KOG1540	296	consensus Ubiquinone biosynthesis methyltransferas	98.1
PLN02396	322	hexaprenyldihydroxybenzoate methyltransferase	98.09
COG2890	280	HemK Methylase of polypeptide chain release factor	98.06
TIGR02081	194	metW methionine biosynthesis protein MetW. This pr	98.05
PRK09489	342	rsmC 16S ribosomal RNA m2G1207 methyltransferase;	98.05
PRK00107	187	gidB 16S rRNA methyltransferase GidB; Reviewed	98.04
TIGR00536	284	hemK_fam HemK family putative methylases. The gene	98.01
PRK13944	205	protein-L-isoaspartate O-methyltransferase; Provis	98.0
TIGR03534	251	RF_mod_PrmC protein-(glutamine-N5) methyltransfera	97.99
COG2242	187	CobL Precorrin-6B methylase 2 [Coenzyme metabolism	97.99
PRK14121	390	tRNA (guanine-N(7)-)-methyltransferase; Provisiona	97.97
PRK13942	212	protein-L-isoaspartate O-methyltransferase; Provis	97.96
PRK12335	287	tellurite resistance protein TehB; Provisional	97.95
PRK14966	423	unknown domain/N5-glutamine S-adenosyl-L-methionin	97.95
PRK01544	506	bifunctional N5-glutamine S-adenosyl-L-methionine-	97.94
TIGR00080	215	pimt protein-L-isoaspartate(D-aspartate) O-methylt	97.94
PLN02336	475	phosphoethanolamine N-methyltransferase	97.94
TIGR00537	179	hemK_rel_arch HemK-related putative methylase. The	97.92
smart00650	169	rADc Ribosomal RNA adenine dimethylases.	97.92
TIGR00452	314	methyltransferase, putative. Known examples to dat	97.92
PLN02585	315	magnesium protoporphyrin IX methyltransferase	97.89
PRK00121	202	trmB tRNA (guanine-N(7)-)-methyltransferase; Revie	97.88
PRK09328	275	N5-glutamine S-adenosyl-L-methionine-dependent met	97.87
PRK11088	272	rrmA 23S rRNA methyltransferase A; Provisional	97.86
PF13659	117	Methyltransf_26: Methyltransferase domain; PDB: 3G	97.82
TIGR03438	301	probable methyltransferase. This model represents	97.82
PF13489	161	Methyltransf_23: Methyltransferase domain; PDB: 3J	97.81
TIGR03704	251	PrmC_rel_meth putative protein-(glutamine-N5) meth	97.81
PHA03411	279	putative methyltransferase; Provisional	97.79
COG2813	300	RsmC 16S RNA G1207 methylase RsmC [Translation, ri	97.77
PRK07402	196	precorrin-6B methylase; Provisional	97.77
COG4123	248	Predicted O-methyltransferase [General function pr	97.76
PF07021	193	MetW: Methionine biosynthesis protein MetW; InterP	97.74
PLN02366	308	spermidine synthase	97.72
PRK00274	272	ksgA 16S ribosomal RNA methyltransferase KsgA/Dim1	97.69
PRK14896	258	ksgA 16S ribosomal RNA methyltransferase KsgA/Dim1	97.68
TIGR00755	253	ksgA dimethyladenosine transferase. Alternate name	97.67
PRK11188	209	rrmJ 23S rRNA methyltransferase J; Provisional	97.64
TIGR03840	213	TMPT_Se_Te thiopurine S-methyltransferase, Se/Te d	97.62
PRK00811	283	spermidine synthase; Provisional	97.62
cd02440	107	AdoMet_MTases S-adenosylmethionine-dependent methy	97.6
PRK01581	374	speE spermidine synthase; Validated	97.56
PRK00312	212	pcm protein-L-isoaspartate O-methyltransferase; Re	97.53
PRK11705	383	cyclopropane fatty acyl phospholipid synthase; Pro	97.52
COG2227	243	UbiG 2-polyprenyl-3-methyl-5-hydroxy-6-metoxy-1,4-	97.51
COG2230	283	Cfa Cyclopropane fatty acid synthase and related m	97.48
PHA03412	241	putative methyltransferase; Provisional	97.47
PRK14968	188	putative methyltransferase; Provisional	97.46
PF02390	195	Methyltransf_4: Putative methyltransferase ; Inter	97.4
PRK14967	223	putative methyltransferase; Provisional	97.39
PRK13255	218	thiopurine S-methyltransferase; Reviewed	97.37
PRK13943	322	protein-L-isoaspartate O-methyltransferase; Provis	97.36
PRK04266	226	fibrillarin; Provisional	97.35
PRK05134	233	bifunctional 3-demethylubiquinone-9 3-methyltransf	97.33
PRK03612	521	spermidine synthase; Provisional	97.33
PF03848	192	TehB: Tellurite resistance protein TehB; InterPro:	97.32
PF02353	273	CMAS: Mycolic acid cyclopropane synthetase; InterP	97.31
PRK00377	198	cbiT cobalt-precorrin-6Y C(15)-methyltransferase;	97.3
PLN02672	1082	methionine S-methyltransferase	97.29
PTZ00338	294	dimethyladenosine transferase-like protein; Provis	97.24
TIGR00438	188	rrmJ cell division protein FtsJ.	97.24
PF09339	52	HTH_IclR: IclR helix-turn-helix domain; InterPro:	97.22
smart00346	91	HTH_ICLR helix_turn_helix isocitrate lyase regulat	97.19
COG0421	282	SpeE Spermidine synthase [Amino acid transport and	97.19
TIGR01983	224	UbiG ubiquinone biosynthesis O-methyltransferase.	97.18
PRK00050	296	16S rRNA m(4)C1402 methyltranserfase; Provisional	97.15
smart00550	68	Zalpha Z-DNA-binding domain in adenosine deaminase	97.15
PRK04148	134	hypothetical protein; Provisional	97.13
KOG1271	227	consensus Methyltransferases [General function pre	97.13
PLN02823	336	spermine synthase	97.1
TIGR00406	288	prmA ribosomal protein L11 methyltransferase. Ribo	97.08
KOG2904	328	consensus Predicted methyltransferase [General fun	97.07
KOG1270	282	consensus Methyltransferases [Coenzyme transport a	97.07
COG4262	508	Predicted spermidine synthase with an N-terminal m	97.06
PRK10909	199	rsmD 16S rRNA m(2)G966-methyltransferase; Provisio	97.03
PRK13168	443	rumA 23S rRNA m(5)U1939 methyltransferase; Reviewe	97.02
TIGR00417	270	speE spermidine synthase. the SpeE subunit of sper	97.01
PF08123	205	DOT1: Histone methylation protein DOT1 ; InterPro:	96.98
PRK03522	315	rumB 23S rRNA methyluridine methyltransferase; Rev	96.89
PF06325	295	PrmA: Ribosomal protein L11 methyltransferase (Prm	96.84
COG0220	227	Predicted S-adenosylmethionine-dependent methyltra	96.83
COG2263	198	Predicted RNA methylase [Translation, ribosomal st	96.8
PF01135	209	PCMT: Protein-L-isoaspartate(D-aspartate) O-methyl	96.8
PRK13256	226	thiopurine S-methyltransferase; Reviewed	96.8
COG1414	246	IclR Transcriptional regulator [Transcription]	96.76
PRK11727	321	23S rRNA mA1618 methyltransferase; Provisional	96.75
PF13601	80	HTH_34: Winged helix DNA-binding domain; PDB: 1UB9	96.74
KOG1541	270	consensus Predicted protein carboxyl methylase [Ge	96.74
PRK14902	444	16S rRNA methyltransferase B; Provisional	96.72
PLN02781	234	Probable caffeoyl-CoA O-methyltransferase	96.71
PF05185	448	PRMT5: PRMT5 arginine-N-methyltransferase; InterPr	96.7
PF12840	61	HTH_20: Helix-turn-helix domain; PDB: 1ULY_A 2CWE_	96.69
PRK10141	117	DNA-binding transcriptional repressor ArsR; Provis	96.67
TIGR01177	329	conserved hypothetical protein TIGR01177. This fam	96.67
COG2518	209	Pcm Protein-L-isoaspartate carboxylmethyltransfera	96.66
PRK00517	250	prmA ribosomal protein L11 methyltransferase; Revi	96.66
PF12147	311	Methyltransf_20: Putative methyltransferase; Inter	96.65
PF02082	83	Rrf2: Transcriptional regulator; InterPro: IPR0009	96.64
PRK00536	262	speE spermidine synthase; Provisional	96.63
PRK11569	274	transcriptional repressor IclR; Provisional	96.6
PF05724	218	TPMT: Thiopurine S-methyltransferase (TPMT); Inter	96.6
TIGR02431	248	pcaR_pcaU beta-ketoadipate pathway transcriptional	96.58
TIGR02085	374	meth_trns_rumB 23S rRNA (uracil-5-)-methyltransfer	96.55
PRK10163	271	DNA-binding transcriptional repressor AllR; Provis	96.52
PRK10901	427	16S rRNA methyltransferase B; Provisional	96.51
PF01978	68	TrmB: Sugar-specific transcriptional regulator Trm	96.5
TIGR00478	228	tly hemolysin TlyA family protein. Hemolysins are	96.5
PTZ00146	293	fibrillarin; Provisional	96.49
KOG3420	185	consensus Predicted RNA methylase [Translation, ri	96.47
PRK09834	263	DNA-binding transcriptional activator MhpR; Provis	96.46
KOG0820	315	consensus Ribosomal RNA adenine dimethylase [RNA p	96.46
PF13463	68	HTH_27: Winged helix DNA-binding domain; PDB: 3GFL	96.43
PF01022	47	HTH_5: Bacterial regulatory protein, arsR family;	96.42
TIGR00479	431	rumA 23S rRNA (uracil-5-)-methyltransferase RumA.	96.39
PRK15090	257	DNA-binding transcriptional regulator KdgR; Provis	96.37
PF00398	262	RrnaAD: Ribosomal RNA adenine dimethylase; InterPr	96.36
PF10294	173	Methyltransf_16: Putative methyltransferase; Inter	96.33
COG2264	300	PrmA Ribosomal protein L11 methylase [Translation,	96.32
TIGR01444	143	fkbM_fam methyltransferase, FkbM family. Members o	96.3
PF01564	246	Spermine_synth: Spermine/spermidine synthase; Inte	96.27
PRK11512	144	DNA-binding transcriptional repressor MarR; Provis	96.24
PF13412	48	HTH_24: Winged helix-turn-helix DNA-binding; PDB:	96.24
KOG3115	249	consensus Methyltransferase-like protein [General	96.22
PF08003	315	Methyltransf_9: Protein of unknown function (DUF16	96.19
PF09445	163	Methyltransf_15: RNA cap guanine-N2 methyltransfer	96.17
KOG2899	288	consensus Predicted methyltransferase [General fun	96.16
PF14947	77	HTH_45: Winged helix-turn-helix; PDB: 1XSX_B 1R7J_	96.13
PF01739	196	CheR: CheR methyltransferase, SAM binding domain;	96.12
PHA00738	108	putative HTH transcription regulator	96.11
PRK01544	506	bifunctional N5-glutamine S-adenosyl-L-methionine-	96.05
cd00092	67	HTH_CRP helix_turn_helix, cAMP Regulatory protein	96.04
KOG1500	517	consensus Protein arginine N-methyltransferase CAR	96.03
PF13679	141	Methyltransf_32: Methyltransferase domain	96.0
COG1352	268	CheR Methylase of chemotaxis methyl-accepting prot	96.0
PF01596	205	Methyltransf_3: O-methyltransferase; InterPro: IPR	95.99
PRK11760	357	putative 23S rRNA C2498 ribose 2'-O-ribose methylt	95.97
TIGR02337	118	HpaR homoprotocatechuate degradation operon regula	95.95
PRK14904	445	16S rRNA methyltransferase B; Provisional	95.89
PRK10611	287	chemotaxis methyltransferase CheR; Provisional	95.82
COG0030	259	KsgA Dimethyladenosine transferase (rRNA methylati	95.81
KOG1499	346	consensus Protein arginine N-methyltransferase PRM	95.75
TIGR00095	189	RNA methyltransferase, RsmD family. This model rep	95.73
PRK10857	164	DNA-binding transcriptional regulator IscR; Provis	95.72
KOG3010	261	consensus Methyltransferase [General function pred	95.7
smart00419	48	HTH_CRP helix_turn_helix, cAMP Regulatory protein.	95.68
COG1959	150	Predicted transcriptional regulator [Transcription	95.64
TIGR02010	135	IscR iron-sulfur cluster assembly transcription fa	95.58
PF01638	90	HxlR: HxlR-like helix-turn-helix; InterPro: IPR002	95.55
PF09243	274	Rsm22: Mitochondrial small ribosomal subunit Rsm22	95.53
PF12802	62	MarR_2: MarR family; PDB: 3ECO_B 2QWW_B 3KP6_B 3KP	95.46
PF06080	204	DUF938: Protein of unknown function (DUF938); Inte	95.45
PRK14901	434	16S rRNA methyltransferase B; Provisional	95.42
TIGR02143	353	trmA_only tRNA (uracil-5-)-methyltransferase. This	95.42
smart00347	101	HTH_MARR helix_turn_helix multiple antibiotic resi	95.42
TIGR02702	203	SufR_cyano iron-sulfur cluster biosynthesis transc	95.38
PLN02476	278	O-methyltransferase	95.35
TIGR00738	132	rrf2_super rrf2 family protein (putative transcrip	95.32
PRK11050	152	manganese transport regulator MntR; Provisional	95.31
cd00090	78	HTH_ARSR Arsenical Resistance Operon Repressor and	95.29
PF04816	205	DUF633: Family of unknown function (DUF633) ; Inte	95.26
PRK11783	702	rlmL 23S rRNA m(2)G2445 methyltransferase; Provisi	95.26
PF07381	90	DUF1495: Winged helix DNA-binding domain (DUF1495)	95.23
PF01795	310	Methyltransf_5: MraW methylase family; InterPro: I	95.2
PF01170	179	UPF0020: Putative RNA methylase family UPF0020; In	95.19
KOG2361	264	consensus Predicted methyltransferase [General fun	95.17
PF01728	181	FtsJ: FtsJ-like methyltransferase; InterPro: IPR00	95.13
PRK03902	142	manganese transport transcriptional regulator; Pro	95.12
PF05148	219	Methyltransf_8: Hypothetical methyltransferase; In	95.12
PRK15128	396	23S rRNA m(5)C1962 methyltransferase; Provisional	95.09
TIGR00563	426	rsmB ribosomal RNA small subunit methyltransferase	95.07
COG3355	126	Predicted transcriptional regulator [Transcription	95.05
smart00418	66	HTH_ARSR helix_turn_helix, Arsenical Resistance Op	95.04
PF09012	69	FeoC: FeoC like transcriptional regulator; InterPr	95.01
PF08461	66	HTH_12: Ribonuclease R winged-helix domain; InterP	94.94
PRK05031	362	tRNA (uracil-5-)-methyltransferase; Validated	94.94
PRK14903	431	16S rRNA methyltransferase B; Provisional	94.93
PF07757	112	AdoMet_MTase: Predicted AdoMet-dependent methyltra	94.92
TIGR00006	305	S-adenosyl-methyltransferase MraW. Genetics paper	94.92
PF01047	59	MarR: MarR family; InterPro: IPR000835 The MarR-ty	94.91
TIGR02944	130	suf_reg_Xantho FeS assembly SUF system regulator,	94.85
COG2345	218	Predicted transcriptional regulator [Transcription	94.84
TIGR01884	203	cas_HTH CRISPR locus-related DNA-binding protein.	94.71
PF08220	57	HTH_DeoR: DeoR-like helix-turn-helix domain; Inter	94.69
TIGR00446	264	nop2p NOL1/NOP2/sun family putative RNA methylase.	94.58
PF04703	62	FaeA: FaeA-like protein; PDB: 2JT1_A 2HTJ_A.	94.57
KOG3191	209	consensus Predicted N6-DNA-methyltransferase [Tran	94.43
PLN02589	247	caffeoyl-CoA O-methyltransferase	94.31
PF04967	53	HTH_10: HTH DNA binding domain; InterPro: IPR00705	94.28
PRK03573	144	transcriptional regulator SlyA; Provisional	94.23
PRK10870	176	transcriptional repressor MprA; Provisional	94.22
TIGR01889	109	Staph_reg_Sar staphylococcal accessory regulator f	94.13
COG4976	287	Predicted methyltransferase (contains TPR repeat)	94.01
PF04672	267	Methyltransf_19: S-adenosyl methyltransferase; Int	93.9
PF03141	506	Methyltransf_29: Putative S-adenosyl-L-methionine-	93.84
COG4122	219	Predicted O-methyltransferase [General function pr	93.82
COG4742	260	Predicted transcriptional regulator [Transcription	93.73
smart00420	53	HTH_DEOR helix_turn_helix, Deoxyribose operon repr	93.69
TIGR00122	69	birA_repr_reg BirA biotin operon repressor domain.	93.54
PRK11920	153	rirA iron-responsive transcriptional regulator; Re	93.53
smart00529	96	HTH_DTXR Helix-turn-helix diphteria tox regulatory	93.41
PRK11014	141	transcriptional repressor NsrR; Provisional	93.41
smart00344	108	HTH_ASNC helix_turn_helix ASNC type. AsnC: an auto	93.25
COG3432	95	Predicted transcriptional regulator [Transcription	93.23
COG0293	205	FtsJ 23S rRNA methylase [Translation, ribosomal st	93.04
PRK06266	178	transcription initiation factor E subunit alpha; V	93.04
PRK14165	217	winged helix-turn-helix domain-containing protein/	93.04
PRK04338	382	N(2),N(2)-dimethylguanosine tRNA methyltransferase	92.94
PF00325	32	Crp: Bacterial regulatory proteins, crp family; In	92.87
COG2519	256	GCD14 tRNA(1-methyladenosine) methyltransferase an	92.85
PF07091	251	FmrO: Ribosomal RNA methyltransferase (FmrO); PDB:	92.79
COG1321	154	TroR Mn-dependent transcriptional regulator [Trans	92.63
smart00345	60	HTH_GNTR helix_turn_helix gluconate operon transcr	92.63
PF10007	92	DUF2250: Uncharacterized protein conserved in arch	92.47
cd07153	116	Fur_like Ferric uptake regulator(Fur) and related	92.39
COG4189	308	Predicted transcriptional regulator [Transcription	92.39
PRK15431	78	ferrous iron transport protein FeoC; Provisional	92.26
KOG3045	325	consensus Predicted RNA methylase involved in rRNA	92.16
COG0275	314	Predicted S-adenosylmethionine-dependent methyltra	92.11
PRK11783	702	rlmL 23S rRNA m(2)G2445 methyltransferase; Provisi	91.96
PF03291	331	Pox_MCEL: mRNA capping enzyme; InterPro: IPR004971	91.91
PHA02943	165	hypothetical protein; Provisional	91.77
COG2384	226	Predicted SAM-dependent methyltransferase [General	91.73
PF08279	55	HTH_11: HTH domain; InterPro: IPR013196 Winged hel	91.56
PF02475	200	Met_10: Met-10+ like-protein; InterPro: IPR003402	91.55
cd07377	66	WHTH_GntR Winged helix-turn-helix (WHTH) DNA-bindi	91.54
PRK04172	489	pheS phenylalanyl-tRNA synthetase subunit alpha; P	91.47
TIGR01610	95	phage_O_Nterm phage replication protein O, N-termi	91.37
PF06163	127	DUF977: Bacterial protein of unknown function (DUF	91.31
TIGR00373	158	conserved hypothetical protein TIGR00373. This fam	90.97
PF14394	171	DUF4423: Domain of unknown function (DUF4423)	90.9
TIGR03439	319	methyl_EasF probable methyltransferase domain, Eas	90.67
COG4190	144	Predicted transcriptional regulator [Transcription	90.53
PRK06474	178	hypothetical protein; Provisional	90.48
PF00392	64	GntR: Bacterial regulatory proteins, gntR family;	90.37
COG5459	484	Predicted rRNA methylase [Translation, ribosomal s	90.34
PRK13777	185	transcriptional regulator Hpr; Provisional	90.27
PRK11179	153	DNA-binding transcriptional regulator AsnC; Provis	90.03
COG1733	120	Predicted transcriptional regulators [Transcriptio	90.0
COG2512	258	Predicted membrane-associated trancriptional regul	89.99
PF01325	60	Fe_dep_repress: Iron dependent repressor, N-termin	89.67
PRK05638	442	threonine synthase; Validated	89.65
COG1846	126	MarR Transcriptional regulators [Transcription]	89.62
PRK11169	164	leucine-responsive transcriptional regulator; Prov	89.61
PF01726	65	LexA_DNA_bind: LexA DNA binding domain; InterPro:	89.61
PLN02853	492	Probable phenylalanyl-tRNA synthetase alpha chain	89.28
COG1378	247	Predicted transcriptional regulators [Transcriptio	89.01
KOG4589	232	consensus Cell division protein FtsJ [Cell cycle c	88.74
PF02002	105	TFIIE_alpha: TFIIE alpha subunit; InterPro: IPR024	88.66
PF08704	247	GCD14: tRNA methyltransferase complex GCD14 subuni	88.51
TIGR02787	251	codY_Gpos GTP-sensing transcriptional pleiotropic	88.16
PF02527	184	GidB: rRNA small subunit methyltransferase G; Inte	88.0
COG0357	215	GidB Predicted S-adenosylmethionine-dependent meth	87.96
PF02319	71	E2F_TDP: E2F/DP family winged-helix DNA-binding do	87.8
PF09929	118	DUF2161: Uncharacterized conserved protein (DUF216	87.73
COG1522	154	Lrp Transcriptional regulators [Transcription]	87.71
COG4076	252	Predicted RNA methylase [General function predicti	87.7
PTZ00326	494	phenylalanyl-tRNA synthetase alpha chain; Provisio	87.51
KOG1661	237	consensus Protein-L-isoaspartate(D-aspartate) O-me	87.37
COG3963	194	Phospholipid N-methyltransferase [Lipid metabolism	87.33
KOG2730	263	consensus Methylase [General function prediction o	87.31
PRK04214	412	rbn ribonuclease BN/unknown domain fusion protein;	87.22
COG1497	260	Predicted transcriptional regulator [Transcription	86.96
PF03444	78	HrcA_DNA-bdg: Winged helix-turn-helix transcriptio	86.94
PF05732	165	RepL: Firmicute plasmid replication protein (RepL)	86.73
COG5631	199	Predicted transcription regulator, contains HTH do	86.57
PF05891	218	Methyltransf_PK: AdoMet dependent proline di-methy	86.37
PF03602	183	Cons_hypoth95: Conserved hypothetical protein 95;	85.9
PF08784	102	RPA_C: Replication protein A C terminal; InterPro:	85.88
PF13545	76	HTH_Crp_2: Crp-like helix-turn-helix domain; PDB:	85.88
TIGR02147	271	Fsuc_second hypothetical protein, TIGR02147. This	85.3
KOG2187	534	consensus tRNA uracil-5-methyltransferase and rela	85.27
PRK13509	251	transcriptional repressor UlaR; Provisional	85.12
COG4565	224	CitB Response regulator of citrate/malate metaboli	84.95
COG3897	218	Predicted methyltransferase [General function pred	84.88
PF13404	42	HTH_AsnC-type: AsnC-type helix-turn-helix domain;	84.65
PRK10742	250	putative methyltransferase; Provisional	84.46
PF12793	115	SgrR_N: Sugar transport-related sRNA regulator N-t	84.38
PRK09775	442	putative DNA-binding transcriptional regulator; Pr	84.26
PF04072	183	LCM: Leucine carboxyl methyltransferase; InterPro:	84.21
KOG1331	293	consensus Predicted methyltransferase [General fun	84.09
PF05219	265	DREV: DREV methyltransferase; InterPro: IPR007884	83.79
KOG1975	389	consensus mRNA cap methyltransferase [RNA processi	83.73
TIGR01321	94	TrpR trp operon repressor, proteobacterial. This m	83.51
PF13730	55	HTH_36: Helix-turn-helix domain	83.31
COG1510	177	Predicted transcriptional regulators [Transcriptio	83.02
COG3413	215	Predicted DNA binding protein [General function pr	82.59
PRK00215	205	LexA repressor; Validated	82.54
PRK10906	252	DNA-binding transcriptional repressor GlpR; Provis	81.9
PF12324	77	HTH_15: Helix-turn-helix domain of alkylmercury ly	81.77
PF04182	75	B-block_TFIIIC: B-block binding subunit of TFIIIC;	81.5
PLN02668	386	indole-3-acetate carboxyl methyltransferase	81.5
PF14338	92	Mrr_N: Mrr N-terminal domain	81.48
PRK10411	240	DNA-binding transcriptional activator FucR; Provis	81.48
TIGR00308	374	TRM1 tRNA(guanine-26,N2-N2) methyltransferase. Thi	81.25
PRK09802	269	DNA-binding transcriptional regulator AgaR; Provis	81.1
PF05958	352	tRNA_U5-meth_tr: tRNA (Uracil-5-)-methyltransferas	80.72
PF02796	45	HTH_7: Helix-turn-helix domain of resolvase; Inter	80.62
COG0116	381	Predicted N6-adenine-specific DNA methylase [DNA r	80.49
PF09821	120	AAA_assoc_C: C-terminal AAA-associated domain; Int	80.26
PRK10434	256	srlR DNA-bindng transcriptional repressor SrlR; Pr	80.23

>KOG3178 consensus Hydroxyindole-O-methyltransferase and related SAM-dependent methyltransferases [General function prediction only]

Probab=100.00  E-value=8.2e-40  Score=285.21  Aligned_cols=252  Identities=47%  Similarity=0.822  Sum_probs=224.6

Q ss_pred             HHhhhHHHHHHHHHhhHHHHHHHHHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCccc
Q 024350            9 EEANNFSYAMELASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALH   88 (269)
Q Consensus         9 ~~~~~~~~l~~~~~~~~~~~~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~   88 (269)
                      ++..+..+++++++++..++++.+|+||||||+|.+++   +  +.|||..+.. |.+|..+. .+.|+||.|+++++++
T Consensus         2 ~e~~~~l~~~~l~~~~~~~~~lk~A~eL~v~d~l~~~~---~--p~~ia~~l~~-~~~~~~p~-ll~r~lr~L~s~~i~k   74 (342)
T KOG3178|consen    2 EENEASLRAMRLANGFALPMVLKAACELGVFDILANAG---S--PSEIASLLPT-PKNPEAPV-LLDRILRLLVSYSILK   74 (342)
T ss_pred             chhHHHHHHHHHHhhhhhHHHHHHHHHcChHHHHHhCC---C--HHHHHHhccC-CCCCCChh-HHHHHHHHHHHhhhce
Confidence            56778899999999999999999999999999999964   2  8888888775 32333356 9999999999999999


Q ss_pred             ceeecCCCeEecChhchhhhcCCCCCCChHHHHHhhcChhhHhhhhhhHHHHhhCCchhhhhhCCCchhccccCcchHHH
Q 024350           89 CSFVDGQRLYSLAPVSKYFVRNNQNGASLRPYMALSLDKVLMDGWFRLKGQILEGGIAFNKAHGMHIYDYLGVDSSFNDV  168 (269)
Q Consensus        89 ~~~~~~~~~y~~t~~s~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~g~~~~~~~~~~p~~~~~  168 (269)
                      +...... .|+++|+++++..++ +..++..++...++...++.|..+.++++.+..+|..++|+..|+|...++.....
T Consensus        75 ~~~~~~~-~Y~~~~~~~~~l~~~-~~~S~a~~~~~~~~~v~~~~w~~l~dai~eg~~~~~~~~G~~l~~~~~~~~~~~~~  152 (342)
T KOG3178|consen   75 CRLVGGE-VYSATPVCKYFLKDS-GGGSLAPLVLLNTSKVIMNTWQFLKDAILEGGDAFATAHGMMLGGYGGADERFSKD  152 (342)
T ss_pred             eeeecce-eeeccchhhhheecC-CCCchhHHHHHhcccchhhhHHHHHHHHHhcccCCccccchhhhhhcccccccHHH
Confidence            7533223 899999999887665 24588888887777888999999999999999999999998899999998888899


Q ss_pred             HHHHHHhhchhhHHHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeehhHHHHhCCCC-CCceEEecccCC
Q 024350          169 FSNGMLSHTSIVMEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPSY-PGIDHVGGDLFE  247 (269)
Q Consensus       169 f~~~m~~~~~~~~~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp~vv~~a~~~-~ri~~~~gD~~~  247 (269)
                      |+++|...+....+.+++.|.+|++..+.||||||.|..+..++..||+++++.+|+|.+++.++.. +.|+.+.||+|+
T Consensus       153 ~~~sm~~l~~~~~~~il~~~~Gf~~v~~avDvGgGiG~v~k~ll~~fp~ik~infdlp~v~~~a~~~~~gV~~v~gdmfq  232 (342)
T KOG3178|consen  153 FNGSMSFLSTLVMKKILEVYTGFKGVNVAVDVGGGIGRVLKNLLSKYPHIKGINFDLPFVLAAAPYLAPGVEHVAGDMFQ  232 (342)
T ss_pred             HHHHHHHHHHHHHHhhhhhhcccccCceEEEcCCcHhHHHHHHHHhCCCCceeecCHHHHHhhhhhhcCCcceecccccc
Confidence            9999999999888888898888889999999999999999999999999999999999999999988 999999999999


Q ss_pred             cCCCCcEEEeccccccCCCCCC
Q 024350          248 SVPKADTIFMKVICVCYLNSLS  269 (269)
Q Consensus       248 ~~P~gD~~~l~~iLhd~~d~~~  269 (269)
                      +.|++|+||+++|||||+|++|
T Consensus       233 ~~P~~daI~mkWiLhdwtDedc  254 (342)
T KOG3178|consen  233 DTPKGDAIWMKWILHDWTDEDC  254 (342)
T ss_pred             cCCCcCeEEEEeecccCChHHH
Confidence            9999999999999999999987

>PF00891 Methyltransf_2: O-methyltransferase; InterPro: IPR001077 Methyl transfer from the ubiquitous S-adenosyl-L-methionine (AdoMet) to either nitrogen, oxygen or carbon atoms is frequently employed in diverse organisms ranging from bacteria to plants and mammals

Probab=100.00  E-value=3.1e-37  Score=265.06  Aligned_cols=174  Identities=27%  Similarity=0.529  Sum_probs=153.2

Q ss_pred             CCCeEecChhchhhhcCCCCCCChHHHHHhhcChhhHhhhhhhHHHHhhCCchhhhhhCCCchhccccCcchHHHHHHHH
Q 024350           94 GQRLYSLAPVSKYFVRNNQNGASLRPYMALSLDKVLMDGWFRLKGQILEGGIAFNKAHGMHIYDYLGVDSSFNDVFSNGM  173 (269)
Q Consensus        94 ~~~~y~~t~~s~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~g~~~~~~~~~~p~~~~~f~~~m  173 (269)
                      +++.|+||++|+.|+.++ ++.++..++.+...+..+.+|.+|++++++|+++|...+|.++|++++++|+..+.|+.+|
T Consensus         2 ~~~~y~~t~~s~~ll~~~-~~~~~~~~~~~~~~~~~~~~~~~L~~~v~~g~~~~~~~~g~~~~~~~~~~~~~~~~f~~~m   80 (241)
T PF00891_consen    2 EGDRYSLTPLSELLLSDH-SSPSMRGFVLFMISPELYPAWFRLTEAVRTGKPPFEKAFGTPFFEYLEEDPELAKRFNAAM   80 (241)
T ss_dssp             STEEEEE-HHHHGGSTTT-TTTHHHHHHHHHTCHHHHHGGGGHHHHHHHSS-HHHHHHSS-HHHHHHCSHHHHHHHHHHH
T ss_pred             CCCEEeChHHHHHHhCCC-CcCcHHHHHHHhcCHHHHHHHHHHHhhhccCCCHHHHhcCCcHHHhhhhChHHHHHHHHHH
Confidence            368999999999888777 2356777777756788899999999999999999999999889999999999999999999


Q ss_pred             HhhchhhH-HHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeehhHHHHhCCCCCCceEEecccCCcCCCC
Q 024350          174 LSHTSIVM-EKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPSYPGIDHVGGDLFESVPKA  252 (269)
Q Consensus       174 ~~~~~~~~-~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp~vv~~a~~~~ri~~~~gD~~~~~P~g  252 (269)
                      +..+.... +.+...++ |++.++|||||||+|.++.+++++||++++|++|+|+|++.+++.+||++++||||+++|.+
T Consensus        81 ~~~~~~~~~~~~~~~~d-~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~~v~Dlp~v~~~~~~~~rv~~~~gd~f~~~P~~  159 (241)
T PF00891_consen   81 AEYSRLNAFDILLEAFD-FSGFKTVVDVGGGSGHFAIALARAYPNLRATVFDLPEVIEQAKEADRVEFVPGDFFDPLPVA  159 (241)
T ss_dssp             HHHHHHHHHHHHHHHST-TTTSSEEEEET-TTSHHHHHHHHHSTTSEEEEEE-HHHHCCHHHTTTEEEEES-TTTCCSSE
T ss_pred             Hhhhhcchhhhhhcccc-ccCccEEEeccCcchHHHHHHHHHCCCCcceeeccHhhhhccccccccccccccHHhhhccc
Confidence            99998877 77888888 99999999999999999999999999999999999999998888999999999999999999


Q ss_pred             cEEEeccccccCCCCCC
Q 024350          253 DTIFMKVICVCYLNSLS  269 (269)
Q Consensus       253 D~~~l~~iLhd~~d~~~  269 (269)
                      |+|+|++|||+|+|++|
T Consensus       160 D~~~l~~vLh~~~d~~~  176 (241)
T PF00891_consen  160 DVYLLRHVLHDWSDEDC  176 (241)
T ss_dssp             SEEEEESSGGGS-HHHH
T ss_pred             cceeeehhhhhcchHHH
Confidence            99999999999999875

The reaction is catalysed by methyltransferases (Mtases) and modifies DNA, RNA, proteins and small molecules, such as catechol for regulatory purposes. The various aspects of the role of DNA methylation in prokaryotic restriction-modification systems and in a number of cellular processes in eukaryotes including gene regulation and differentiation is well documented. Three classes of DNA Mtases transfer the methyl group from AdoMet to the target base to form either N-6-methyladenine, or N-4-methylcytosine, or C-5- methylcytosine. In C-5-cytosine Mtases, ten conserved motifs are arranged in the same order []. Motif I (a glycine-rich or closely related consensus sequence; FAGxGG in M.HhaI []), shared by other AdoMet-Mtases [], is part of the cofactor binding site and motif IV (PCQ) is part of the catalytic site. In contrast, sequence comparison among N-6-adenine and N-4-cytosine Mtases indicated two of the conserved segments [], although more conserved segments may be present. One of them corresponds to motif I in C-5-cytosine Mtases, and the other is named (D/N/S)PP(Y/F). Crystal structures are known for a number of Mtases [, , , ]. The cofactor binding sites are almost identical and the essential catalytic amino acids coincide. The comparable protein folding and the existence of equivalent amino acids in similar secondary and tertiary positions indicate that many (if not all) AdoMet-Mtases have a common catalytic domain structure. This permits tertiary structure prediction of other DNA, RNA, protein, and small-molecule AdoMet-Mtases from their amino acid sequences []. This domain includes a range of O-methyltransferases some of which utilise S-adenosyl methionine as substrate []. In prokaryotes, the major role of DNA methylation is to protect host DNA against degradation by restriction enzymes. In eukaryotes, DNA methylation has been implicated in the control of several cellular processes, including differentiation, gene regulation, and embryonic development. O-methyltransferases have a common catalytic domain structure, which might be universal among S-adenosyl-L-methionine (AdoMet)-dependent methyltransferases []. Comparative analysis of the predicted amino acid sequences of a number of plant O-methyltransferase cDNA clones show that they share some 32-71% sequence identity, and can be grouped according to the different compounds they utilise as substrates [].; GO: 0008171 O-methyltransferase activity; PDB: 1FPQ_A 1FP1_D 3P9K_B 3P9I_D 3P9C_A 3I53_A 3I5U_A 3I64_A 3I58_A 1ZG3_A ....

>TIGR02716 C20_methyl_CrtF C-20 methyltransferase BchU

Probab=100.00  E-value=9.4e-34  Score=251.59  Aligned_cols=219  Identities=19%  Similarity=0.319  Sum_probs=167.3

Q ss_pred             HHHHHHHHHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhc
Q 024350           25 VLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVS  104 (269)
Q Consensus        25 ~~~~~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s  104 (269)
                      ..+++|++|++|||||.|.+    +|.|++|||+++|++      ++ .+.|+||+|+++|+|+   +. +++|++|+.+
T Consensus         2 ~~~~~l~aa~~Lglfd~L~~----gp~t~~eLA~~~~~~------~~-~~~~lL~~L~~lgll~---~~-~~~y~~t~~~   66 (306)
T TIGR02716         2 IEFSCMKAAIELDLFSHMAE----GPKDLATLAADTGSV------PP-RLEMLLETLRQMRVIN---LE-DGKWSLTEFA   66 (306)
T ss_pred             chHHHHHHHHHcCcHHHHhc----CCCCHHHHHHHcCCC------hH-HHHHHHHHHHhCCCeE---ec-CCcEecchhH
Confidence            35789999999999999987    699999999999997      67 9999999999999999   43 5899999999


Q ss_pred             hhhhcCCCCCC---ChHHHHHhhcChhhHhhhhhhHHHHhhCCchhhhhhCCCchhccccCcchHHHHHHHHHhhc-hhh
Q 024350          105 KYFVRNNQNGA---SLRPYMALSLDKVLMDGWFRLKGQILEGGIAFNKAHGMHIYDYLGVDSSFNDVFSNGMLSHT-SIV  180 (269)
Q Consensus       105 ~~l~~~~~~~~---~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~g~~~~~~~~~~p~~~~~f~~~m~~~~-~~~  180 (269)
                      +.++.+. ++.   ++.++..+. .......|.+|+++++ ++++|...+     .+....++. ..|...|.... ...
T Consensus        67 ~~~l~~~-~~~~~~~~~~~~~~~-~~~~~~~~~~l~~~~r-~~~~~~~~~-----~~~~~~~~~-~~~~~~~~~~~~~~~  137 (306)
T TIGR02716        67 DYMFSPT-PKEPNLHQTPVAKAM-AFLADDFYMGLSQAVR-GQKNFKGQV-----PYPPVTRED-NLYFEEIHRSNAKFA  137 (306)
T ss_pred             HhhccCC-ccchhhhcCchHHHH-HHHHHHHHHhHHHHhc-CCccccccc-----CCCCCCHHH-HHhHHHHHHhcchhH
Confidence            8666554 121   112333332 1123357899999997 444443222     222222222 34555555433 334


Q ss_pred             HHHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeehhHHHHhCCC-------CCCceEEecccCC-cCCCC
Q 024350          181 MEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPS-------YPGIDHVGGDLFE-SVPKA  252 (269)
Q Consensus       181 ~~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp~vv~~a~~-------~~ri~~~~gD~~~-~~P~g  252 (269)
                      .+.+++.++ +++..+|||||||+|.+++.+++++|+++++++|+|++++.+++       .+||+++++|+|+ ++|.+
T Consensus       138 ~~~l~~~~~-~~~~~~vlDiG~G~G~~~~~~~~~~p~~~~~~~D~~~~~~~a~~~~~~~gl~~rv~~~~~d~~~~~~~~~  216 (306)
T TIGR02716       138 IQLLLEEAK-LDGVKKMIDVGGGIGDISAAMLKHFPELDSTILNLPGAIDLVNENAAEKGVADRMRGIAVDIYKESYPEA  216 (306)
T ss_pred             HHHHHHHcC-CCCCCEEEEeCCchhHHHHHHHHHCCCCEEEEEecHHHHHHHHHHHHhCCccceEEEEecCccCCCCCCC
Confidence            455777777 88889999999999999999999999999999999999987754       2789999999997 67767


Q ss_pred             cEEEeccccccCCCCC
Q 024350          253 DTIFMKVICVCYLNSL  268 (269)
Q Consensus       253 D~~~l~~iLhd~~d~~  268 (269)
                      |+|+++++||+|++++
T Consensus       217 D~v~~~~~lh~~~~~~  232 (306)
T TIGR02716       217 DAVLFCRILYSANEQL  232 (306)
T ss_pred             CEEEeEhhhhcCChHH
Confidence            9999999999999864

Members of this protein family are the S-adenosylmethionine-depenedent C-20 methyltransferase BchU, part of the pathway of bacteriochlorophyll c production in photosynthetic green sulfur bacteria. The position modified by this enzyme represents the difference between bacteriochlorophylls c and d; strains lacking this protein can only produced bacteriochlorophyll d.

>PF08100 Dimerisation: Dimerisation domain; InterPro: IPR012967 This domain is found at the N terminus of a variety of plant O-methyltransferases

Probab=99.00  E-value=1.2e-09  Score=70.19  Aligned_cols=51  Identities=53%  Similarity=0.843  Sum_probs=42.4

Q ss_pred             HHHHHHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHH
Q 024350           28 AAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLV   82 (269)
Q Consensus        28 ~~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~   82 (269)
                      .+|++|++|||||+|.+.| ++++|+.||+.++...  ||.++. .+.|+||+|+
T Consensus         1 MaLk~aveLgI~dii~~~g-~~~ls~~eia~~l~~~--~p~~~~-~L~RimR~L~   51 (51)
T PF08100_consen    1 MALKCAVELGIPDIIHNAG-GGPLSLSEIAARLPTS--NPSAPP-MLDRIMRLLV   51 (51)
T ss_dssp             HHHHHHHHTTHHHHHHHHT-TS-BEHHHHHHTSTCT---TTHHH-HHHHHHHHHH
T ss_pred             CcHHHHHHcCcHHHHHHcC-CCCCCHHHHHHHcCCC--CcchHH-HHHHHHHHhC
Confidence            4799999999999999986 4799999999999932  455567 9999999985

It has been shown to mediate dimerisation of these proteins [].; GO: 0008168 methyltransferase activity, 0046983 protein dimerization activity; PDB: 1ZGJ_A 1ZG3_A 1ZHF_A 1ZGA_A 2QYO_A 1KYW_A 1KYZ_A 3REO_D 1FPX_A 1FP2_A ....

>PRK06922 hypothetical protein; Provisional

Probab=98.92  E-value=3.1e-09  Score=101.28  Aligned_cols=112  Identities=22%  Similarity=0.297  Sum_probs=84.9

Q ss_pred             CCchhccccCcchHHHHHHHHHhhchhh--HHHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHH
Q 024350          153 MHIYDYLGVDSSFNDVFSNGMLSHTSIV--MEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVI  229 (269)
Q Consensus       153 ~~~~~~~~~~p~~~~~f~~~m~~~~~~~--~~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv  229 (269)
                      ..+|+++..+++..++|...|.......  .......++ +.+..+|||||||+|.++..+++.+|+.+++++|+ +.++
T Consensus       377 ~~~fd~fg~r~D~~dRf~~~~~yle~m~~~~~~k~~i~d-~~~g~rVLDIGCGTG~ls~~LA~~~P~~kVtGIDIS~~ML  455 (677)
T PRK06922        377 VLLFDFFGLRKDAYDRFHNEEVYLEHMNSSADDKRIILD-YIKGDTIVDVGAGGGVMLDMIEEETEDKRIYGIDISENVI  455 (677)
T ss_pred             hHHHHHhccChhhHhHHHhHHHHHHhccccHHHHHHHhh-hcCCCEEEEeCCCCCHHHHHHHHhCCCCEEEEEECCHHHH
Confidence            4678898888888888887776643321  112223445 55678999999999999999999999999999998 4557


Q ss_pred             HhCCCC-----CCceEEecccCC-c--CCC-C-cEEEeccccccCC
Q 024350          230 KNAPSY-----PGIDHVGGDLFE-S--VPK-A-DTIFMKVICVCYL  265 (269)
Q Consensus       230 ~~a~~~-----~ri~~~~gD~~~-~--~P~-g-D~~~l~~iLhd~~  265 (269)
                      +.+++.     .+++++.+|..+ +  ++. . |+++++.++|+|.
T Consensus       456 e~Ararl~~~g~~ie~I~gDa~dLp~~fedeSFDvVVsn~vLH~L~  501 (677)
T PRK06922        456 DTLKKKKQNEGRSWNVIKGDAINLSSSFEKESVDTIVYSSILHELF  501 (677)
T ss_pred             HHHHHHhhhcCCCeEEEEcchHhCccccCCCCEEEEEEchHHHhhh
Confidence            666542     468888899876 3  443 3 9999999999873

>PF12847 Methyltransf_18: Methyltransferase domain; PDB: 3G2Q_A 3G2O_A 3G2M_B 3G2P_B 3D2L_B 1IM8_B 3NJR_A 3E05_H 3EVZ_A 3HM2_A

Probab=98.86  E-value=4.5e-09  Score=78.92  Aligned_cols=71  Identities=18%  Similarity=0.270  Sum_probs=59.2

Q ss_pred             ccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC-------CCCceEEeccc-CC-cCCCC-cEEEecc-cc
Q 024350          194 VKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS-------YPGIDHVGGDL-FE-SVPKA-DTIFMKV-IC  261 (269)
Q Consensus       194 ~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~-------~~ri~~~~gD~-~~-~~P~g-D~~~l~~-iL  261 (269)
                      ..+|+|||||+|.++..+++.+|+.+++.+|. |.+++.+++       .+||+++.+|+ +. +.+.. |++++.. .+
T Consensus         2 ~~~vLDlGcG~G~~~~~l~~~~~~~~v~gvD~s~~~~~~a~~~~~~~~~~~~i~~~~~d~~~~~~~~~~~D~v~~~~~~~   81 (112)
T PF12847_consen    2 GGRVLDLGCGTGRLSIALARLFPGARVVGVDISPEMLEIARERAAEEGLSDRITFVQGDAEFDPDFLEPFDLVICSGFTL   81 (112)
T ss_dssp             TCEEEEETTTTSHHHHHHHHHHTTSEEEEEESSHHHHHHHHHHHHHTTTTTTEEEEESCCHGGTTTSSCEEEEEECSGSG
T ss_pred             CCEEEEEcCcCCHHHHHHHhcCCCCEEEEEeCCHHHHHHHHHHHHhcCCCCCeEEEECccccCcccCCCCCEEEECCCcc
Confidence            36899999999999999999999999999997 888876654       38999999999 44 34444 9999999 56


Q ss_pred             ccC
Q 024350          262 VCY  264 (269)
Q Consensus       262 hd~  264 (269)
                      |.+
T Consensus        82 ~~~   84 (112)
T PF12847_consen   82 HFL   84 (112)
T ss_dssp             GGC
T ss_pred             ccc
Confidence            654

...

>PRK14103 trans-aconitate 2-methyltransferase; Provisional

Probab=98.83  E-value=1.4e-08  Score=87.99  Aligned_cols=83  Identities=20%  Similarity=0.278  Sum_probs=69.4

Q ss_pred             HHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCCCCceEEecccCCcCCC-C-cEEEec
Q 024350          182 EKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSYPGIDHVGGDLFESVPK-A-DTIFMK  258 (269)
Q Consensus       182 ~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~~ri~~~~gD~~~~~P~-g-D~~~l~  258 (269)
                      ..+++.++ .....+|||||||+|.++..+++++|+.+++++|+ |.+++.+++ .+++++.+|+.+..|. . |++++.
T Consensus        19 ~~ll~~l~-~~~~~~vLDlGcG~G~~~~~l~~~~p~~~v~gvD~s~~~~~~a~~-~~~~~~~~d~~~~~~~~~fD~v~~~   96 (255)
T PRK14103         19 YDLLARVG-AERARRVVDLGCGPGNLTRYLARRWPGAVIEALDSSPEMVAAARE-RGVDARTGDVRDWKPKPDTDVVVSN   96 (255)
T ss_pred             HHHHHhCC-CCCCCEEEEEcCCCCHHHHHHHHHCCCCEEEEEECCHHHHHHHHh-cCCcEEEcChhhCCCCCCceEEEEe
Confidence            45667666 55678999999999999999999999999999998 888887764 4699999998663343 3 999999


Q ss_pred             cccccCCC
Q 024350          259 VICVCYLN  266 (269)
Q Consensus       259 ~iLhd~~d  266 (269)
                      .+||..+|
T Consensus        97 ~~l~~~~d  104 (255)
T PRK14103         97 AALQWVPE  104 (255)
T ss_pred             hhhhhCCC
Confidence            99998876

>TIGR03587 Pse_Me-ase pseudaminic acid biosynthesis-associated methylase

Probab=98.80  E-value=1.2e-08  Score=85.38  Aligned_cols=76  Identities=17%  Similarity=0.391  Sum_probs=65.8

Q ss_pred             CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC-CCCceEEecccCCcCCC-C-cEEEeccccccCCCC
Q 024350          192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS-YPGIDHVGGDLFESVPK-A-DTIFMKVICVCYLNS  267 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~-~~ri~~~~gD~~~~~P~-g-D~~~l~~iLhd~~d~  267 (269)
                      +...+|+|||||+|..+..+.+..|+.+.+++|+ |..++.+++ .+++++..+|++++.+. . |+++...+||.++++
T Consensus        42 ~~~~~VLDiGCG~G~~~~~L~~~~~~~~v~giDiS~~~l~~A~~~~~~~~~~~~d~~~~~~~~sfD~V~~~~vL~hl~p~  121 (204)
T TIGR03587        42 PKIASILELGANIGMNLAALKRLLPFKHIYGVEINEYAVEKAKAYLPNINIIQGSLFDPFKDNFFDLVLTKGVLIHINPD  121 (204)
T ss_pred             CCCCcEEEEecCCCHHHHHHHHhCCCCeEEEEECCHHHHHHHHhhCCCCcEEEeeccCCCCCCCEEEEEECChhhhCCHH
Confidence            4567899999999999999999999999999997 789988876 47899999999987664 4 999999999888653

Members of this small clade are methyltransferases of the pfam08241 family and are observed within operons for the biosynthesis of pseudaminic acid, a component of exopolysaccharide and flagellin glycosyl modifications. Notable among these genomes is Pseudomonas fluorescens PfO-1. Possibly one of the two hydroxyl groups of pseudaminic acid, at positions 4 and 8 is converted to a methoxy group by this enzyme

>COG4106 Tam Trans-aconitate methyltransferase [General function prediction only]

Probab=98.75  E-value=1.9e-08  Score=83.03  Aligned_cols=85  Identities=19%  Similarity=0.332  Sum_probs=74.4

Q ss_pred             HHHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-CCceEEecccCCcCCC--CcEEE
Q 024350          181 MEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-PGIDHVGGDLFESVPK--ADTIF  256 (269)
Q Consensus       181 ~~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-~ri~~~~gD~~~~~P~--gD~~~  256 (269)
                      +..++..++ ......|+|+|||.|....-|.+++|+...+++|. |.+++.|+.. +.++|..+|+-+-.|+  .|++|
T Consensus        19 a~dLla~Vp-~~~~~~v~DLGCGpGnsTelL~~RwP~A~i~GiDsS~~Mla~Aa~rlp~~~f~~aDl~~w~p~~~~dllf   97 (257)
T COG4106          19 ARDLLARVP-LERPRRVVDLGCGPGNSTELLARRWPDAVITGIDSSPAMLAKAAQRLPDATFEEADLRTWKPEQPTDLLF   97 (257)
T ss_pred             HHHHHhhCC-ccccceeeecCCCCCHHHHHHHHhCCCCeEeeccCCHHHHHHHHHhCCCCceecccHhhcCCCCccchhh
Confidence            457778888 77889999999999999999999999999999995 8999887654 9999999999986674  49999


Q ss_pred             eccccccCCC
Q 024350          257 MKVICVCYLN  266 (269)
Q Consensus       257 l~~iLhd~~d  266 (269)
                      -+.+||-.||
T Consensus        98 aNAvlqWlpd  107 (257)
T COG4106          98 ANAVLQWLPD  107 (257)
T ss_pred             hhhhhhhccc
Confidence            9999987665

>PRK01683 trans-aconitate 2-methyltransferase; Provisional

Probab=98.69  E-value=1.1e-07  Score=82.42  Aligned_cols=86  Identities=22%  Similarity=0.361  Sum_probs=71.1

Q ss_pred             HHHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-CCceEEecccCCcCC-CC-cEEE
Q 024350          181 MEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-PGIDHVGGDLFESVP-KA-DTIF  256 (269)
Q Consensus       181 ~~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-~ri~~~~gD~~~~~P-~g-D~~~  256 (269)
                      ...++..++ ..+..+|+|||||+|.++..+++++|+.+++++|+ |..++.+++. ++++++.+|+.+..| .. |+++
T Consensus        20 ~~~ll~~~~-~~~~~~vLDiGcG~G~~~~~la~~~~~~~v~gvD~s~~~i~~a~~~~~~~~~~~~d~~~~~~~~~fD~v~   98 (258)
T PRK01683         20 ARDLLARVP-LENPRYVVDLGCGPGNSTELLVERWPAARITGIDSSPAMLAEARSRLPDCQFVEADIASWQPPQALDLIF   98 (258)
T ss_pred             HHHHHhhCC-CcCCCEEEEEcccCCHHHHHHHHHCCCCEEEEEECCHHHHHHHHHhCCCCeEEECchhccCCCCCccEEE
Confidence            345667666 66778999999999999999999999999999998 7888877664 789999999976434 34 9999


Q ss_pred             eccccccCCCC
Q 024350          257 MKVICVCYLNS  267 (269)
Q Consensus       257 l~~iLhd~~d~  267 (269)
                      ....||..+|.
T Consensus        99 ~~~~l~~~~d~  109 (258)
T PRK01683         99 ANASLQWLPDH  109 (258)
T ss_pred             EccChhhCCCH
Confidence            99999976653

>PF13847 Methyltransf_31: Methyltransferase domain; PDB: 3T0I_B 3SVZ_B 3SXJ_A 3F4K_A 3GU3_B 2GH1_A 1R8Y_E 1R8X_B 2B3T_A 1T43_A

Probab=98.69  E-value=3.1e-08  Score=78.85  Aligned_cols=75  Identities=24%  Similarity=0.348  Sum_probs=62.6

Q ss_pred             CccEEEEeCCCchHHHHHHH-HHCCCCeEEEeeh-hHHHHhCCC------CCCceEEecccCC-c--CCCC-cEEEeccc
Q 024350          193 HVKKLVDVGGGLGATLNMII-SKYPHIKGINYDL-LYVIKNAPS------YPGIDHVGGDLFE-S--VPKA-DTIFMKVI  260 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~-~~~P~l~~vv~Dl-p~vv~~a~~------~~ri~~~~gD~~~-~--~P~g-D~~~l~~i  260 (269)
                      +..+|+|||||+|.++..++ +.+|+.+.+++|+ |.+++.+++      .+++++..+|+++ +  ++.. |+++...+
T Consensus         3 ~~~~iLDlGcG~G~~~~~l~~~~~~~~~i~gvD~s~~~i~~a~~~~~~~~~~ni~~~~~d~~~l~~~~~~~~D~I~~~~~   82 (152)
T PF13847_consen    3 SNKKILDLGCGTGRLLIQLAKELNPGAKIIGVDISEEMIEYAKKRAKELGLDNIEFIQGDIEDLPQELEEKFDIIISNGV   82 (152)
T ss_dssp             TTSEEEEET-TTSHHHHHHHHHSTTTSEEEEEESSHHHHHHHHHHHHHTTSTTEEEEESBTTCGCGCSSTTEEEEEEEST
T ss_pred             CCCEEEEecCcCcHHHHHHHHhcCCCCEEEEEECcHHHHHHhhcccccccccccceEEeehhccccccCCCeeEEEEcCc
Confidence            45799999999999999999 5689999999997 888887765      2789999999999 4  3334 99999999


Q ss_pred             cccCCCC
Q 024350          261 CVCYLNS  267 (269)
Q Consensus       261 Lhd~~d~  267 (269)
                      +|..++.
T Consensus        83 l~~~~~~   89 (152)
T PF13847_consen   83 LHHFPDP   89 (152)
T ss_dssp             GGGTSHH
T ss_pred             hhhccCH
Confidence            9887753

...

>TIGR00740 methyltransferase, putative

Probab=98.65  E-value=3e-08  Score=84.98  Aligned_cols=75  Identities=13%  Similarity=0.145  Sum_probs=63.5

Q ss_pred             CccEEEEeCCCchHHHHHHHHH--CCCCeEEEeeh-hHHHHhCCCC-------CCceEEecccCC-cCCCCcEEEecccc
Q 024350          193 HVKKLVDVGGGLGATLNMIISK--YPHIKGINYDL-LYVIKNAPSY-------PGIDHVGGDLFE-SVPKADTIFMKVIC  261 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~--~P~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~-~~P~gD~~~l~~iL  261 (269)
                      ...+|||||||+|.++..++++  +|+.+++++|+ |.+++.+++.       .+++++.+|+.+ +.++.|++++..+|
T Consensus        53 ~~~~iLDlGcG~G~~~~~l~~~~~~p~~~v~gvD~s~~ml~~a~~~~~~~~~~~~v~~~~~d~~~~~~~~~d~v~~~~~l  132 (239)
T TIGR00740        53 PDSNVYDLGCSRGAATLSARRNINQPNVKIIGIDNSQPMVERCRQHIAAYHSEIPVEILCNDIRHVEIKNASMVILNFTL  132 (239)
T ss_pred             CCCEEEEecCCCCHHHHHHHHhcCCCCCeEEEEeCCHHHHHHHHHHHHhcCCCCCeEEEECChhhCCCCCCCEEeeecch
Confidence            4568999999999999999997  48999999998 8888877542       479999999987 55556999999999


Q ss_pred             ccCCCC
Q 024350          262 VCYLNS  267 (269)
Q Consensus       262 hd~~d~  267 (269)
                      |.++++
T Consensus       133 ~~~~~~  138 (239)
T TIGR00740       133 QFLPPE  138 (239)
T ss_pred             hhCCHH
Confidence            998754

A simple BLAST search finds all members of this family and weaker hits to a large number of known and predicted methyltransferases. A single iteration with PSI-BLAST, keeping only clear members of the family, leads to a large number of highly significant hits to a set of known and predicted methyltransferases with a large repertoire of different specifities. This model is restricted to a subfamily found so far only in the Proteobacteria, sharing consistent length, full-length homology, and on average better than 35 % identity. It is reasonable to predict equivalent function within this subfamily.

>TIGR02752 MenG_heptapren 2-heptaprenyl-1,4-naphthoquinone methyltransferase

Probab=98.62  E-value=1.3e-07  Score=80.46  Aligned_cols=83  Identities=12%  Similarity=0.105  Sum_probs=66.4

Q ss_pred             HHHhccCCCCccEEEEeCCCchHHHHHHHHHC-CCCeEEEeeh-hHHHHhCCC------CCCceEEecccCC-cCCC-C-
Q 024350          184 VLESYKGFEHVKKLVDVGGGLGATLNMIISKY-PHIKGINYDL-LYVIKNAPS------YPGIDHVGGDLFE-SVPK-A-  252 (269)
Q Consensus       184 ~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~-P~l~~vv~Dl-p~vv~~a~~------~~ri~~~~gD~~~-~~P~-g-  252 (269)
                      ++..++ .....+|||||||+|.++..+++.+ |+.+++++|+ |..++.+++      .++++++.+|..+ ++|. . 
T Consensus        37 ~l~~l~-~~~~~~vLDiGcG~G~~~~~la~~~~~~~~v~gvD~s~~~~~~a~~~~~~~~~~~v~~~~~d~~~~~~~~~~f  115 (231)
T TIGR02752        37 TMKRMN-VQAGTSALDVCCGTADWSIALAEAVGPEGHVIGLDFSENMLSVGRQKVKDAGLHNVELVHGNAMELPFDDNSF  115 (231)
T ss_pred             HHHhcC-CCCCCEEEEeCCCcCHHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHHHhcCCCceEEEEechhcCCCCCCCc
Confidence            444555 5556899999999999999999986 7789999998 777766543      2689999999987 5664 3 


Q ss_pred             cEEEeccccccCCCC
Q 024350          253 DTIFMKVICVCYLNS  267 (269)
Q Consensus       253 D~~~l~~iLhd~~d~  267 (269)
                      |++++...+|.+++.
T Consensus       116 D~V~~~~~l~~~~~~  130 (231)
T TIGR02752       116 DYVTIGFGLRNVPDY  130 (231)
T ss_pred             cEEEEecccccCCCH
Confidence            999999999987653

MenG is a generic term for a methyltransferase that catalyzes the last step in menaquinone biosynthesis; the exact enzymatic activity differs for different MenG because the menaquinone differ in their prenoid side chains in different species. Members of this MenG protein family are 2-heptaprenyl-1,4-naphthoquinone methyltransferase, and are found together in operons with the two subunits of the heptaprenyl diphosphate synthase in Bacillus subtilis and related species.

>PF08242 Methyltransf_12: Methyltransferase domain; InterPro: IPR013217 Methyl transfer from the ubiquitous donor S-adenosyl-L-methionine (SAM) to either nitrogen, oxygen or carbon atoms is frequently employed in diverse organisms ranging from bacteria to plants and mammals

Probab=98.61  E-value=1.1e-08  Score=75.25  Aligned_cols=69  Identities=19%  Similarity=0.310  Sum_probs=46.3

Q ss_pred             EEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC---------CCceEEecccCCcCC-CC-cEEEeccccccCC
Q 024350          198 VDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY---------PGIDHVGGDLFESVP-KA-DTIFMKVICVCYL  265 (269)
Q Consensus       198 vDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~---------~ri~~~~gD~~~~~P-~g-D~~~l~~iLhd~~  265 (269)
                      ||||||+|.++..+++++|..+.+++|. |++++.+++.         .++++...|.++..+ +. |++++.++||.++
T Consensus         1 LdiGcG~G~~~~~l~~~~~~~~~~~~D~s~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~fD~V~~~~vl~~l~   80 (99)
T PF08242_consen    1 LDIGCGTGRLLRALLEELPDARYTGVDISPSMLERARERLAELGNDNFERLRFDVLDLFDYDPPESFDLVVASNVLHHLE   80 (99)
T ss_dssp             -EESTTTS-TTTTHHHHC-EEEEEEEESSSSTTSTTCCCHHHCT---EEEEE--SSS---CCC----SEEEEE-TTS--S
T ss_pred             CEeCccChHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHhhhcCCcceeEEEeecCChhhcccccccceehhhhhHhhhh
Confidence            7999999999999999999999999997 8888777764         245555566665444 34 9999999999985


Q ss_pred             C
Q 024350          266 N  266 (269)
Q Consensus       266 d  266 (269)
                      |
T Consensus        81 ~   81 (99)
T PF08242_consen   81 D   81 (99)
T ss_dssp             -
T ss_pred             h
Confidence            4

The reaction is catalyzed by methyltransferases (Mtases) and modifies DNA, RNA, proteins and small molecules, such as catechol for regulatory purposes. The various aspects of the role of DNA methylation in prokaryotic restriction-modification systems and in a number of cellular processes in eukaryotes including gene regulation and differentiation is well documented. This entry represents a methyltransferase domain found in a large variety of SAM-dependent methyltransferases including, but not limited to: Hexaprenyldihydroxybenzoate methyltransferase (2.1.1.114 from EC), a mitochodrial enzyme involved in ubiquinone biosynthesis [] Fatty acid synthase (2.3.1.85 from EC), a biosynthetic enzyme catalysing the formation of long-chain fatty acids Glycine N-methyltransferase (2.1.1.20 from EC) which catalyses the SAM-dependent methylation of glycine to form sarcosine and may play a role in regulating the methylation potential of the cell [] Enniatin synthetase, involved in non-ribosomal biosynthesis of cyclohexadepsipeptidase, enniatin [] Histamine N-methyltransferase (2.1.1.8 from EC), a SAM-dependent histamine-inactivating enzyme [] A probable cobalt-precorrin-6Y C(15)-methyltransferase thought to be involved in adenosylcobalamin biosynthesis [] Structural studies show that this domain forms the Rossman-like alpha-beta fold typical of SAM-dependent methyltransferases [, , ].; PDB: 2VZ8_A 2VZ9_A.

>PRK08287 cobalt-precorrin-6Y C(15)-methyltransferase; Validated

Probab=98.59  E-value=9.5e-08  Score=78.78  Aligned_cols=76  Identities=20%  Similarity=0.290  Sum_probs=61.1

Q ss_pred             HhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC------CCceEEecccCCcCCCC-cEEEe
Q 024350          186 ESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFESVPKA-DTIFM  257 (269)
Q Consensus       186 ~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~~~P~g-D~~~l  257 (269)
                      ..++ .....+|||||||+|.++..+++++|+.+++.+|. |..++.++++      ++|+++.+|...+.+.. |++++
T Consensus        25 ~~l~-~~~~~~vLDiG~G~G~~~~~la~~~~~~~v~~vD~s~~~~~~a~~n~~~~~~~~i~~~~~d~~~~~~~~~D~v~~  103 (187)
T PRK08287         25 SKLE-LHRAKHLIDVGAGTGSVSIEAALQFPSLQVTAIERNPDALRLIKENRQRFGCGNIDIIPGEAPIELPGKADAIFI  103 (187)
T ss_pred             HhcC-CCCCCEEEEECCcCCHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHHHhCCCCeEEEecCchhhcCcCCCEEEE
Confidence            4455 55668999999999999999999999999999998 7777776542      57999999986555544 99998


Q ss_pred             ccccc
Q 024350          258 KVICV  262 (269)
Q Consensus       258 ~~iLh  262 (269)
                      ....+
T Consensus       104 ~~~~~  108 (187)
T PRK08287        104 GGSGG  108 (187)
T ss_pred             CCCcc
Confidence            76544

>PRK15451 tRNA cmo(5)U34 methyltransferase; Provisional

Probab=98.59  E-value=4.8e-08  Score=84.23  Aligned_cols=75  Identities=19%  Similarity=0.210  Sum_probs=63.2

Q ss_pred             CccEEEEeCCCchHHHHHHHH--HCCCCeEEEeeh-hHHHHhCCCC-------CCceEEecccCC-cCCCCcEEEecccc
Q 024350          193 HVKKLVDVGGGLGATLNMIIS--KYPHIKGINYDL-LYVIKNAPSY-------PGIDHVGGDLFE-SVPKADTIFMKVIC  261 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~--~~P~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~-~~P~gD~~~l~~iL  261 (269)
                      ...+|+|||||+|..+..+++  .+|+.+++++|. |.+++.+++.       .+|+++.+|+.+ +.+..|++++..+|
T Consensus        56 ~~~~vLDlGcGtG~~~~~l~~~~~~~~~~v~gvD~S~~ml~~A~~~~~~~~~~~~v~~~~~d~~~~~~~~~D~vv~~~~l  135 (247)
T PRK15451         56 PGTQVYDLGCSLGAATLSVRRNIHHDNCKIIAIDNSPAMIERCRRHIDAYKAPTPVDVIEGDIRDIAIENASMVVLNFTL  135 (247)
T ss_pred             CCCEEEEEcccCCHHHHHHHHhcCCCCCeEEEEeCCHHHHHHHHHHHHhcCCCCCeEEEeCChhhCCCCCCCEEehhhHH
Confidence            457899999999999999988  469999999997 8999887642       489999999987 45556999999999


Q ss_pred             ccCCCC
Q 024350          262 VCYLNS  267 (269)
Q Consensus       262 hd~~d~  267 (269)
                      |..+++
T Consensus       136 ~~l~~~  141 (247)
T PRK15451        136 QFLEPS  141 (247)
T ss_pred             HhCCHH
Confidence            988753

>COG2226 UbiE Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]

Probab=98.58  E-value=1.8e-07  Score=79.64  Aligned_cols=75  Identities=16%  Similarity=0.184  Sum_probs=66.5

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC------CCceEEecccCC-cCCC-C-cEEEeccccc
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFE-SVPK-A-DTIFMKVICV  262 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~-~~P~-g-D~~~l~~iLh  262 (269)
                      ...+|||||||+|.++..+++..++.+++++|. +.+++.+++.      ..|+++.+|..+ |+|. . |+|.++.-||
T Consensus        51 ~g~~vLDva~GTGd~a~~~~k~~g~g~v~~~D~s~~ML~~a~~k~~~~~~~~i~fv~~dAe~LPf~D~sFD~vt~~fglr  130 (238)
T COG2226          51 PGDKVLDVACGTGDMALLLAKSVGTGEVVGLDISESMLEVAREKLKKKGVQNVEFVVGDAENLPFPDNSFDAVTISFGLR  130 (238)
T ss_pred             CCCEEEEecCCccHHHHHHHHhcCCceEEEEECCHHHHHHHHHHhhccCccceEEEEechhhCCCCCCccCEEEeeehhh
Confidence            458999999999999999999999999999997 7888888753      239999999998 8885 4 9999999999


Q ss_pred             cCCCC
Q 024350          263 CYLNS  267 (269)
Q Consensus       263 d~~d~  267 (269)
                      +.+|-
T Consensus       131 nv~d~  135 (238)
T COG2226         131 NVTDI  135 (238)
T ss_pred             cCCCH
Confidence            99874

>smart00138 MeTrc Methyltransferase, chemotaxis proteins

Probab=98.54  E-value=1e-06  Score=76.74  Aligned_cols=76  Identities=16%  Similarity=0.286  Sum_probs=60.4

Q ss_pred             CCccEEEEeCCCchH----HHHHHHHHCC-----CCeEEEeeh-hHHHHhCCCC--------------------------
Q 024350          192 EHVKKLVDVGGGLGA----TLNMIISKYP-----HIKGINYDL-LYVIKNAPSY--------------------------  235 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~----~~~~l~~~~P-----~l~~vv~Dl-p~vv~~a~~~--------------------------  235 (269)
                      .+..+|+|+|||+|.    +++.+.+.+|     +.+.+..|+ |.+++.|++.                          
T Consensus        98 ~~~~ri~d~GCgtGee~YslA~~l~e~~~~~~~~~~~I~g~Dis~~~L~~Ar~~~y~~~~~~~~~~~~~~~yf~~~~~~~  177 (264)
T smart00138       98 GRRVRIWSAGCSTGEEPYSLAMLLAETLPKAREPDVKILATDIDLKALEKARAGIYPERELEDLPKALLARYFSRVEDKY  177 (264)
T ss_pred             CCCEEEEeccccCChHHHHHHHHHHHHhhhcCCCCeEEEEEECCHHHHHHHHcCCCCHHHHhcCCHHHHhhhEEeCCCeE
Confidence            345799999999996    5677777765     578899997 7788776641                          


Q ss_pred             -------CCceEEecccCCc-CCC-C-cEEEeccccccCCCC
Q 024350          236 -------PGIDHVGGDLFES-VPK-A-DTIFMKVICVCYLNS  267 (269)
Q Consensus       236 -------~ri~~~~gD~~~~-~P~-g-D~~~l~~iLhd~~d~  267 (269)
                             .+|+|..+|+.++ .|. . |+|+++++||.++++
T Consensus       178 ~v~~~ir~~V~F~~~dl~~~~~~~~~fD~I~crnvl~yf~~~  219 (264)
T smart00138      178 RVKPELKERVRFAKHNLLAESPPLGDFDLIFCRNVLIYFDEP  219 (264)
T ss_pred             EEChHHhCcCEEeeccCCCCCCccCCCCEEEechhHHhCCHH
Confidence                   3799999999994 444 3 999999999999764

Methylates methyl-accepting chemotaxis proteins to form gamma-glutamyl methyl ester residues.

>PLN02233 ubiquinone biosynthesis methyltransferase

Probab=98.51  E-value=6.1e-07  Score=77.99  Aligned_cols=77  Identities=19%  Similarity=0.201  Sum_probs=63.9

Q ss_pred             CCCccEEEEeCCCchHHHHHHHHHC-CCCeEEEeeh-hHHHHhCCC---------CCCceEEecccCC-cCCC-C-cEEE
Q 024350          191 FEHVKKLVDVGGGLGATLNMIISKY-PHIKGINYDL-LYVIKNAPS---------YPGIDHVGGDLFE-SVPK-A-DTIF  256 (269)
Q Consensus       191 ~~~~~~vvDvGGG~G~~~~~l~~~~-P~l~~vv~Dl-p~vv~~a~~---------~~ri~~~~gD~~~-~~P~-g-D~~~  256 (269)
                      .....+|+|||||+|.++..+++.+ |+.+++.+|+ |.+++.+++         .++|+++.+|+.+ |+|. . |+++
T Consensus        71 ~~~~~~VLDlGcGtG~~~~~la~~~~~~~~V~gvD~S~~ml~~A~~r~~~~~~~~~~~i~~~~~d~~~lp~~~~sfD~V~  150 (261)
T PLN02233         71 AKMGDRVLDLCCGSGDLAFLLSEKVGSDGKVMGLDFSSEQLAVAASRQELKAKSCYKNIEWIEGDATDLPFDDCYFDAIT  150 (261)
T ss_pred             CCCCCEEEEECCcCCHHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHhhhhhhccCCCeEEEEcccccCCCCCCCEeEEE
Confidence            4456799999999999999999875 6789999997 788876643         2589999999987 7775 3 9999


Q ss_pred             eccccccCCCC
Q 024350          257 MKVICVCYLNS  267 (269)
Q Consensus       257 l~~iLhd~~d~  267 (269)
                      +...||+++|.
T Consensus       151 ~~~~l~~~~d~  161 (261)
T PLN02233        151 MGYGLRNVVDR  161 (261)
T ss_pred             EecccccCCCH
Confidence            99999999864

>PRK06202 hypothetical protein; Provisional

Probab=98.51  E-value=4.6e-07  Score=77.28  Aligned_cols=76  Identities=14%  Similarity=0.069  Sum_probs=58.1

Q ss_pred             CCccEEEEeCCCchHHHHHHHHH----CCCCeEEEeeh-hHHHHhCCCC---CCceEEecccCC-cCC-CC-cEEEeccc
Q 024350          192 EHVKKLVDVGGGLGATLNMIISK----YPHIKGINYDL-LYVIKNAPSY---PGIDHVGGDLFE-SVP-KA-DTIFMKVI  260 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~----~P~l~~vv~Dl-p~vv~~a~~~---~ri~~~~gD~~~-~~P-~g-D~~~l~~i  260 (269)
                      .+..+|+|||||+|.++..|++.    .|+.+++++|+ |.+++.+++.   .++++..++.-. +.+ +. |++++..+
T Consensus        59 ~~~~~iLDlGcG~G~~~~~L~~~~~~~g~~~~v~gvD~s~~~l~~a~~~~~~~~~~~~~~~~~~l~~~~~~fD~V~~~~~  138 (232)
T PRK06202         59 DRPLTLLDIGCGGGDLAIDLARWARRDGLRLEVTAIDPDPRAVAFARANPRRPGVTFRQAVSDELVAEGERFDVVTSNHF  138 (232)
T ss_pred             CCCcEEEEeccCCCHHHHHHHHHHHhCCCCcEEEEEcCCHHHHHHHHhccccCCCeEEEEecccccccCCCccEEEECCe
Confidence            45679999999999998888764    56789999997 8888877653   456666554322 233 33 99999999


Q ss_pred             cccCCCC
Q 024350          261 CVCYLNS  267 (269)
Q Consensus       261 Lhd~~d~  267 (269)
                      ||+.+|+
T Consensus       139 lhh~~d~  145 (232)
T PRK06202        139 LHHLDDA  145 (232)
T ss_pred             eecCChH
Confidence            9999875

>PLN02244 tocopherol O-methyltransferase

Probab=98.50  E-value=3.9e-07  Score=82.22  Aligned_cols=75  Identities=17%  Similarity=0.217  Sum_probs=62.1

Q ss_pred             CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC-------CCCceEEecccCC-cCCCC--cEEEeccc
Q 024350          192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS-------YPGIDHVGGDLFE-SVPKA--DTIFMKVI  260 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~-------~~ri~~~~gD~~~-~~P~g--D~~~l~~i  260 (269)
                      +...+|||||||.|.++..+++++ +.+++++|+ |..++.+++       .++|+++.+|+.+ ++|.+  |+++....
T Consensus       117 ~~~~~VLDiGCG~G~~~~~La~~~-g~~v~gvD~s~~~i~~a~~~~~~~g~~~~v~~~~~D~~~~~~~~~~FD~V~s~~~  195 (340)
T PLN02244        117 KRPKRIVDVGCGIGGSSRYLARKY-GANVKGITLSPVQAARANALAAAQGLSDKVSFQVADALNQPFEDGQFDLVWSMES  195 (340)
T ss_pred             CCCCeEEEecCCCCHHHHHHHHhc-CCEEEEEECCHHHHHHHHHHHHhcCCCCceEEEEcCcccCCCCCCCccEEEECCc
Confidence            456799999999999999999988 778999997 666665543       2689999999988 67753  99999999


Q ss_pred             cccCCCC
Q 024350          261 CVCYLNS  267 (269)
Q Consensus       261 Lhd~~d~  267 (269)
                      +|.++|.
T Consensus       196 ~~h~~d~  202 (340)
T PLN02244        196 GEHMPDK  202 (340)
T ss_pred             hhccCCH
Confidence            9998874

>PLN03075 nicotianamine synthase; Provisional

Probab=98.50  E-value=3.7e-07  Score=80.03  Aligned_cols=75  Identities=17%  Similarity=0.157  Sum_probs=58.7

Q ss_pred             CCccEEEEeCCCchH--HHHHHHHHCCCCeEEEeeh-hHHHHhCCC--------CCCceEEecccCCcCC--CC-cEEEe
Q 024350          192 EHVKKLVDVGGGLGA--TLNMIISKYPHIKGINYDL-LYVIKNAPS--------YPGIDHVGGDLFESVP--KA-DTIFM  257 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~--~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~--------~~ri~~~~gD~~~~~P--~g-D~~~l  257 (269)
                      ..+++|+|||||.|-  ....+.+.+|+.+++.+|. |+.++.|++        .+||+|..+|..+..+  .. |++|+
T Consensus       122 ~~p~~VldIGcGpgpltaiilaa~~~p~~~~~giD~d~~ai~~Ar~~~~~~~gL~~rV~F~~~Da~~~~~~l~~FDlVF~  201 (296)
T PLN03075        122 GVPTKVAFVGSGPLPLTSIVLAKHHLPTTSFHNFDIDPSANDVARRLVSSDPDLSKRMFFHTADVMDVTESLKEYDVVFL  201 (296)
T ss_pred             CCCCEEEEECCCCcHHHHHHHHHhcCCCCEEEEEeCCHHHHHHHHHHhhhccCccCCcEEEECchhhcccccCCcCEEEE
Confidence            367899999999884  4444456789999999997 777766654        2689999999988433  34 99999


Q ss_pred             ccccccCCCC
Q 024350          258 KVICVCYLNS  267 (269)
Q Consensus       258 ~~iLhd~~d~  267 (269)
                      . +||+|+.+
T Consensus       202 ~-ALi~~dk~  210 (296)
T PLN03075        202 A-ALVGMDKE  210 (296)
T ss_pred             e-cccccccc
Confidence            9 99999643

>PRK11207 tellurite resistance protein TehB; Provisional

Probab=98.49  E-value=2.3e-07  Score=77.24  Aligned_cols=83  Identities=20%  Similarity=0.208  Sum_probs=64.5

Q ss_pred             HHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC------CCceEEecccCC-cCCCC-
Q 024350          182 EKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFE-SVPKA-  252 (269)
Q Consensus       182 ~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~-~~P~g-  252 (269)
                      +.+++.++ .....+|||||||.|..+..++++  ..+++++|+ |..++.+++.      ..|++...|+.+ +++.. 
T Consensus        20 ~~l~~~l~-~~~~~~vLDiGcG~G~~a~~La~~--g~~V~gvD~S~~~i~~a~~~~~~~~~~~v~~~~~d~~~~~~~~~f   96 (197)
T PRK11207         20 SEVLEAVK-VVKPGKTLDLGCGNGRNSLYLAAN--GFDVTAWDKNPMSIANLERIKAAENLDNLHTAVVDLNNLTFDGEY   96 (197)
T ss_pred             HHHHHhcc-cCCCCcEEEECCCCCHHHHHHHHC--CCEEEEEeCCHHHHHHHHHHHHHcCCCcceEEecChhhCCcCCCc
Confidence            45566665 445689999999999999999986  568899998 7777765532      558899999987 45544 


Q ss_pred             cEEEeccccccCCCC
Q 024350          253 DTIFMKVICVCYLNS  267 (269)
Q Consensus       253 D~~~l~~iLhd~~d~  267 (269)
                      |+++...++|.++++
T Consensus        97 D~I~~~~~~~~~~~~  111 (197)
T PRK11207         97 DFILSTVVLMFLEAK  111 (197)
T ss_pred             CEEEEecchhhCCHH
Confidence            999999999987653

>PTZ00098 phosphoethanolamine N-methyltransferase; Provisional

Probab=98.46  E-value=3.7e-07  Score=79.49  Aligned_cols=83  Identities=22%  Similarity=0.353  Sum_probs=65.8

Q ss_pred             HHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC----CCCceEEecccCC-cCCCC--c
Q 024350          182 EKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS----YPGIDHVGGDLFE-SVPKA--D  253 (269)
Q Consensus       182 ~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~----~~ri~~~~gD~~~-~~P~g--D  253 (269)
                      ..++..++ +....+|||||||+|..+..+++.+ ..+++.+|+ |..++.+++    .++|+++.+|+.+ ++|.+  |
T Consensus        42 ~~~l~~l~-l~~~~~VLDiGcG~G~~a~~la~~~-~~~v~giD~s~~~~~~a~~~~~~~~~i~~~~~D~~~~~~~~~~FD  119 (263)
T PTZ00098         42 TKILSDIE-LNENSKVLDIGSGLGGGCKYINEKY-GAHVHGVDICEKMVNIAKLRNSDKNKIEFEANDILKKDFPENTFD  119 (263)
T ss_pred             HHHHHhCC-CCCCCEEEEEcCCCChhhHHHHhhc-CCEEEEEECCHHHHHHHHHHcCcCCceEEEECCcccCCCCCCCeE
Confidence            45566666 6677899999999999999998876 678999997 667766554    3689999999987 67753  9


Q ss_pred             EEEeccccccCCC
Q 024350          254 TIFMKVICVCYLN  266 (269)
Q Consensus       254 ~~~l~~iLhd~~d  266 (269)
                      +++...++|.+++
T Consensus       120 ~V~s~~~l~h~~~  132 (263)
T PTZ00098        120 MIYSRDAILHLSY  132 (263)
T ss_pred             EEEEhhhHHhCCH
Confidence            9999888776763

>PF01209 Ubie_methyltran: ubiE/COQ5 methyltransferase family; InterPro: IPR004033 A number of methyltransferases have been shown to share regions of similarities []

Probab=98.46  E-value=2.6e-07  Score=78.90  Aligned_cols=77  Identities=18%  Similarity=0.281  Sum_probs=54.8

Q ss_pred             CCCccEEEEeCCCchHHHHHHHHHC-CCCeEEEeeh-hHHHHhCCC------CCCceEEecccCC-cCCC-C-cEEEecc
Q 024350          191 FEHVKKLVDVGGGLGATLNMIISKY-PHIKGINYDL-LYVIKNAPS------YPGIDHVGGDLFE-SVPK-A-DTIFMKV  259 (269)
Q Consensus       191 ~~~~~~vvDvGGG~G~~~~~l~~~~-P~l~~vv~Dl-p~vv~~a~~------~~ri~~~~gD~~~-~~P~-g-D~~~l~~  259 (269)
                      .....+|+|||||+|.++..++++. |+.+++++|. |.+++.+++      ..+|+++.+|..+ |+|. . |+++++.
T Consensus        45 ~~~g~~vLDv~~GtG~~~~~l~~~~~~~~~v~~vD~s~~ML~~a~~k~~~~~~~~i~~v~~da~~lp~~d~sfD~v~~~f  124 (233)
T PF01209_consen   45 LRPGDRVLDVACGTGDVTRELARRVGPNGKVVGVDISPGMLEVARKKLKREGLQNIEFVQGDAEDLPFPDNSFDAVTCSF  124 (233)
T ss_dssp             --S--EEEEET-TTSHHHHHHGGGSS---EEEEEES-HHHHHHHHHHHHHTT--SEEEEE-BTTB--S-TT-EEEEEEES
T ss_pred             CCCCCEEEEeCCChHHHHHHHHHHCCCccEEEEecCCHHHHHHHHHHHHhhCCCCeeEEEcCHHHhcCCCCceeEEEHHh
Confidence            3456799999999999999999885 6789999996 888888764      2589999999988 8885 3 9999999


Q ss_pred             ccccCCCC
Q 024350          260 ICVCYLNS  267 (269)
Q Consensus       260 iLhd~~d~  267 (269)
                      .||+.+|.
T Consensus       125 glrn~~d~  132 (233)
T PF01209_consen  125 GLRNFPDR  132 (233)
T ss_dssp             -GGG-SSH
T ss_pred             hHHhhCCH
Confidence            99999874

Apart from the ubiquinone/menaquinone biosynthesis methyltransferases (for example, the C-methyltransferase from the ubiE gene of Escherichia coli), the ubiquinone biosynthesis methyltransferases (for example, the C-methyltransferase from the COQ5 gene of Saccharomyces cerevisiae) and the menaquinone biosynthesis methyltransferases (for example, the C-methyltransferase from the MENH gene of Bacillus subtilis), this family also includes methyltransferases involved in biotin and sterol biosynthesis and in phosphatidylethanolamine methylation.; GO: 0008168 methyltransferase activity; PDB: 1VL5_C.

>TIGR02021 BchM-ChlM magnesium protoporphyrin O-methyltransferase

Probab=98.44  E-value=6.5e-07  Score=75.65  Aligned_cols=73  Identities=15%  Similarity=0.156  Sum_probs=58.1

Q ss_pred             CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-------CCceEEecccCCcCCCCcEEEecccccc
Q 024350          192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-------PGIDHVGGDLFESVPKADTIFMKVICVC  263 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~~~P~gD~~~l~~iLhd  263 (269)
                      .+..+++|||||+|.++..+++.  +.+++++|. |.+++.+++.       +++++..+|+.+...+-|+++...++|.
T Consensus        54 ~~~~~vLDiGcG~G~~~~~la~~--~~~v~gvD~s~~~i~~a~~~~~~~~~~~~i~~~~~d~~~~~~~fD~ii~~~~l~~  131 (219)
T TIGR02021        54 LKGKRVLDAGCGTGLLSIELAKR--GAIVKAVDISEQMVQMARNRAQGRDVAGNVEFEVNDLLSLCGEFDIVVCMDVLIH  131 (219)
T ss_pred             CCCCEEEEEeCCCCHHHHHHHHC--CCEEEEEECCHHHHHHHHHHHHhcCCCCceEEEECChhhCCCCcCEEEEhhHHHh
Confidence            34689999999999999999876  457899997 7788776542       4899999998763223499999999988


Q ss_pred             CCC
Q 024350          264 YLN  266 (269)
Q Consensus       264 ~~d  266 (269)
                      +++
T Consensus       132 ~~~  134 (219)
T TIGR02021       132 YPA  134 (219)
T ss_pred             CCH
Confidence            865

This model represents the S-adenosylmethionine-dependent O-methyltransferase responsible for methylation of magnesium protoporphyrin IX. This step is essentiasl for the biosynthesis of both chlorophyll and bacteriochlorophyll. This model encompasses two closely related clades, from cyanobacteria (and plants) where it is called ChlM and other photosynthetic bacteria where it is known as BchM.

>PF13649 Methyltransf_25: Methyltransferase domain; PDB: 3BXO_B 3GGD_A 3PX2_A 3PX3_A 3PFH_D 3PFG_A 1Y8C_A

Probab=98.43  E-value=1.2e-07  Score=70.02  Aligned_cols=71  Identities=17%  Similarity=0.294  Sum_probs=54.7

Q ss_pred             EEEeCCCchHHHHHHHHHC---CCCeEEEeeh-hHHHHhCCCC-----CCceEEecccCC-cCCCC--cEEEe-cccccc
Q 024350          197 LVDVGGGLGATLNMIISKY---PHIKGINYDL-LYVIKNAPSY-----PGIDHVGGDLFE-SVPKA--DTIFM-KVICVC  263 (269)
Q Consensus       197 vvDvGGG~G~~~~~l~~~~---P~l~~vv~Dl-p~vv~~a~~~-----~ri~~~~gD~~~-~~P~g--D~~~l-~~iLhd  263 (269)
                      |+|+|||+|..+..+++.+   |+.+.+++|+ |..++.+++.     .+++++.+|+.+ +++.+  |+|+. ..++|.
T Consensus         1 ILDlgcG~G~~~~~l~~~~~~~~~~~~~gvD~s~~~l~~~~~~~~~~~~~~~~~~~D~~~l~~~~~~~D~v~~~~~~~~~   80 (101)
T PF13649_consen    1 ILDLGCGTGRVTRALARRFDAGPSSRVIGVDISPEMLELAKKRFSEDGPKVRFVQADARDLPFSDGKFDLVVCSGLSLHH   80 (101)
T ss_dssp             -EEET-TTSHHHHHHHHHS-----SEEEEEES-HHHHHHHHHHSHHTTTTSEEEESCTTCHHHHSSSEEEEEE-TTGGGG
T ss_pred             CEEeecCCcHHHHHHHHHhhhcccceEEEEECCHHHHHHHHHhchhcCCceEEEECCHhHCcccCCCeeEEEEcCCccCC
Confidence            7999999999999999997   6789999996 7888766542     589999999987 54443  99999 455887


Q ss_pred             CCCC
Q 024350          264 YLNS  267 (269)
Q Consensus       264 ~~d~  267 (269)
                      ++++
T Consensus        81 ~~~~   84 (101)
T PF13649_consen   81 LSPE   84 (101)
T ss_dssp             SSHH
T ss_pred             CCHH
Confidence            7754

>PRK08317 hypothetical protein; Provisional

Probab=98.43  E-value=8.2e-07  Score=75.28  Aligned_cols=83  Identities=18%  Similarity=0.262  Sum_probs=66.5

Q ss_pred             HHHhccCCCCccEEEEeCCCchHHHHHHHHHC-CCCeEEEeeh-hHHHHhCCC-----CCCceEEecccCC-cCCC-C-c
Q 024350          184 VLESYKGFEHVKKLVDVGGGLGATLNMIISKY-PHIKGINYDL-LYVIKNAPS-----YPGIDHVGGDLFE-SVPK-A-D  253 (269)
Q Consensus       184 ~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~-P~l~~vv~Dl-p~vv~~a~~-----~~ri~~~~gD~~~-~~P~-g-D  253 (269)
                      +++.++ +....+|||||||.|.++..+++.+ |+.+++++|+ |..++.+++     ..++++..+|+.+ +++. . |
T Consensus        11 ~~~~~~-~~~~~~vLdiG~G~G~~~~~~a~~~~~~~~v~~~d~~~~~~~~a~~~~~~~~~~~~~~~~d~~~~~~~~~~~D   89 (241)
T PRK08317         11 TFELLA-VQPGDRVLDVGCGPGNDARELARRVGPEGRVVGIDRSEAMLALAKERAAGLGPNVEFVRGDADGLPFPDGSFD   89 (241)
T ss_pred             HHHHcC-CCCCCEEEEeCCCCCHHHHHHHHhcCCCcEEEEEeCCHHHHHHHHHHhhCCCCceEEEecccccCCCCCCCce
Confidence            345555 5667899999999999999999998 8889999997 565655543     2679999999877 5664 3 9


Q ss_pred             EEEeccccccCCCC
Q 024350          254 TIFMKVICVCYLNS  267 (269)
Q Consensus       254 ~~~l~~iLhd~~d~  267 (269)
                      ++++.+++|.++|.
T Consensus        90 ~v~~~~~~~~~~~~  103 (241)
T PRK08317         90 AVRSDRVLQHLEDP  103 (241)
T ss_pred             EEEEechhhccCCH
Confidence            99999999988764

>PRK00216 ubiE ubiquinone/menaquinone biosynthesis methyltransferase; Reviewed

Probab=98.43  E-value=1.1e-06  Score=74.79  Aligned_cols=83  Identities=12%  Similarity=0.105  Sum_probs=65.1

Q ss_pred             HHHhccCCCCccEEEEeCCCchHHHHHHHHHCC-CCeEEEeeh-hHHHHhCCCC-------CCceEEecccCC-cCCCC-
Q 024350          184 VLESYKGFEHVKKLVDVGGGLGATLNMIISKYP-HIKGINYDL-LYVIKNAPSY-------PGIDHVGGDLFE-SVPKA-  252 (269)
Q Consensus       184 ~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P-~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~-~~P~g-  252 (269)
                      ++..+. .....+|+|||||.|.++..+++.+| +.+++++|+ |..++.+++.       .+++++.+|+.+ +.+.+ 
T Consensus        43 ~~~~~~-~~~~~~vldiG~G~G~~~~~l~~~~~~~~~v~~~D~s~~~~~~a~~~~~~~~~~~~~~~~~~d~~~~~~~~~~  121 (239)
T PRK00216         43 TIKWLG-VRPGDKVLDLACGTGDLAIALAKAVGKTGEVVGLDFSEGMLAVGREKLRDLGLSGNVEFVQGDAEALPFPDNS  121 (239)
T ss_pred             HHHHhC-CCCCCeEEEeCCCCCHHHHHHHHHcCCCCeEEEEeCCHHHHHHHHHhhcccccccCeEEEecccccCCCCCCC
Confidence            344444 34457999999999999999999998 789999997 5666655432       579999999987 44433 


Q ss_pred             -cEEEeccccccCCCC
Q 024350          253 -DTIFMKVICVCYLNS  267 (269)
Q Consensus       253 -D~~~l~~iLhd~~d~  267 (269)
                       |++++..+||.+++.
T Consensus       122 ~D~I~~~~~l~~~~~~  137 (239)
T PRK00216        122 FDAVTIAFGLRNVPDI  137 (239)
T ss_pred             ccEEEEecccccCCCH
Confidence             999999999988763

>smart00828 PKS_MT Methyltransferase in polyketide synthase (PKS) enzymes

Probab=98.42  E-value=3.6e-07  Score=77.33  Aligned_cols=72  Identities=19%  Similarity=0.251  Sum_probs=59.7

Q ss_pred             cEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC-------CCCceEEecccCC-cCCCC-cEEEeccccccC
Q 024350          195 KKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS-------YPGIDHVGGDLFE-SVPKA-DTIFMKVICVCY  264 (269)
Q Consensus       195 ~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~-------~~ri~~~~gD~~~-~~P~g-D~~~l~~iLhd~  264 (269)
                      ++|||||||.|..+..+++.+|+.+++.+|+ |..++.+++       .++|+++.+|+.+ +.|.. |+++...++|.+
T Consensus         1 ~~vLDiGcG~G~~~~~la~~~~~~~v~gid~s~~~~~~a~~~~~~~gl~~~i~~~~~d~~~~~~~~~fD~I~~~~~l~~~   80 (224)
T smart00828        1 KRVLDFGCGYGSDLIDLAERHPHLQLHGYTISPEQAEVGRERIRALGLQGRIRIFYRDSAKDPFPDTYDLVFGFEVIHHI   80 (224)
T ss_pred             CeEEEECCCCCHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHHhcCCCcceEEEecccccCCCCCCCCEeehHHHHHhC
Confidence            3799999999999999999999999999997 566555543       2689999999977 45544 999999999987


Q ss_pred             CC
Q 024350          265 LN  266 (269)
Q Consensus       265 ~d  266 (269)
                      ++
T Consensus        81 ~~   82 (224)
T smart00828       81 KD   82 (224)
T ss_pred             CC
Confidence            65

>PF08241 Methyltransf_11: Methyltransferase domain; InterPro: IPR013216 Methyl transfer from the ubiquitous S-adenosyl-L-methionine (SAM) to either nitrogen, oxygen or carbon atoms is frequently employed in diverse organisms ranging from bacteria to plants and mammals

Probab=98.40  E-value=4.6e-07  Score=65.31  Aligned_cols=68  Identities=18%  Similarity=0.302  Sum_probs=55.7

Q ss_pred             EEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC---CCCceEEecccCC-cCCCC--cEEEeccccccCCC
Q 024350          198 VDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS---YPGIDHVGGDLFE-SVPKA--DTIFMKVICVCYLN  266 (269)
Q Consensus       198 vDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~---~~ri~~~~gD~~~-~~P~g--D~~~l~~iLhd~~d  266 (269)
                      ||||||.|..+..+.++ +..+.+.+|. +..++.+++   ..+++++.+|+.+ ++|.+  |+++..+++|.+++
T Consensus         1 LdiG~G~G~~~~~l~~~-~~~~v~~~D~~~~~~~~~~~~~~~~~~~~~~~d~~~l~~~~~sfD~v~~~~~~~~~~~   75 (95)
T PF08241_consen    1 LDIGCGTGRFAAALAKR-GGASVTGIDISEEMLEQARKRLKNEGVSFRQGDAEDLPFPDNSFDVVFSNSVLHHLED   75 (95)
T ss_dssp             EEET-TTSHHHHHHHHT-TTCEEEEEES-HHHHHHHHHHTTTSTEEEEESBTTSSSS-TT-EEEEEEESHGGGSSH
T ss_pred             CEecCcCCHHHHHHHhc-cCCEEEEEeCCHHHHHHHHhcccccCchheeehHHhCccccccccccccccceeeccC
Confidence            79999999999999999 9999999997 566766654   3667799999988 77753  99999999998843

The reaction is catalyzed by methyltransferases (Mtases) and modifies DNA, RNA, proteins and small molecules, such as catechol for regulatory purposes. The various aspects of the role of DNA methylation in prokaryotic restriction-modification systems and in a number of cellular processes in eukaryotes including gene regulation and differentiation is well documented. This entry represents a methyltransferase domain found in a large variety of SAM-dependent methyltransferases including, but not limited to: Arsenite methyltransferase (2.1.1.137 from EC) which converts arsenical compounds to their methylated forms [] Biotin synthesis protein bioC, which is involved in the early stages of biotin biosyntheis [] Arginine N-methyltransferase 1, an arginine-methylating enzyme which acts on residues present in a glycine and argine-rich domain and can methylate histones [] Hexaprenyldihydroxybenzoate methyltransferase (2.1.1.114 from EC), a mitochodrial enzyme involved in ubiquinone biosynthesis [] A probable cobalt-precorrin-6Y C(15)-methyltransferase thought to be involved in adenosylcobalamin biosynthesis [] Sterol 24-C-methyltransferase (2.1.1.41 from EC), shown to participate in ergosterol biosynthesis [] 3-demethylubiquinone-9 3-methyltransferase (2.1.1.64 from EC) involved in ubiquinone biosynthesis [] Structural studies show that this domain forms the Rossman-like alpha-beta fold typical of SAM-dependent methyltransferases [, , ]. ; GO: 0008168 methyltransferase activity, 0008152 metabolic process; PDB: 3CGG_B 3CCF_B 3BKW_B 2PXX_A 3I9F_A 2YQZ_B 2YR0_A 3BUS_A 3EGE_A 3G5L_B ....

>PRK11036 putative S-adenosyl-L-methionine-dependent methyltransferase; Provisional

Probab=98.39  E-value=6.5e-07  Score=77.51  Aligned_cols=80  Identities=18%  Similarity=0.209  Sum_probs=62.5

Q ss_pred             HHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-------CCceEEecccCC--cCCC-C
Q 024350          184 VLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-------PGIDHVGGDLFE--SVPK-A  252 (269)
Q Consensus       184 ~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~--~~P~-g  252 (269)
                      +++.++  +...+|+|||||+|.++..+++.  ..+++++|+ |.+++.+++.       ++++++.+|+.+  +.+. .
T Consensus        37 ~l~~l~--~~~~~vLDiGcG~G~~a~~la~~--g~~v~~vD~s~~~l~~a~~~~~~~g~~~~v~~~~~d~~~l~~~~~~~  112 (255)
T PRK11036         37 LLAELP--PRPLRVLDAGGGEGQTAIKLAEL--GHQVILCDLSAEMIQRAKQAAEAKGVSDNMQFIHCAAQDIAQHLETP  112 (255)
T ss_pred             HHHhcC--CCCCEEEEeCCCchHHHHHHHHc--CCEEEEEECCHHHHHHHHHHHHhcCCccceEEEEcCHHHHhhhcCCC
Confidence            444443  34579999999999999999987  467899998 7888877642       679999999876  3443 3


Q ss_pred             -cEEEeccccccCCCC
Q 024350          253 -DTIFMKVICVCYLNS  267 (269)
Q Consensus       253 -D~~~l~~iLhd~~d~  267 (269)
                       |++++..+||.++|.
T Consensus       113 fD~V~~~~vl~~~~~~  128 (255)
T PRK11036        113 VDLILFHAVLEWVADP  128 (255)
T ss_pred             CCEEEehhHHHhhCCH
Confidence             999999999988763

>PLN02490 MPBQ/MSBQ methyltransferase

Probab=98.39  E-value=5.8e-07  Score=80.68  Aligned_cols=74  Identities=22%  Similarity=0.173  Sum_probs=63.8

Q ss_pred             ccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC---CCceEEecccCC-cCCC-C-cEEEeccccccCCC
Q 024350          194 VKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY---PGIDHVGGDLFE-SVPK-A-DTIFMKVICVCYLN  266 (269)
Q Consensus       194 ~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~---~ri~~~~gD~~~-~~P~-g-D~~~l~~iLhd~~d  266 (269)
                      ..+|||||||+|.++..+++++|..+++++|. |.+++.+++.   .+++++.+|+.+ +++. . |+++...+||.|+|
T Consensus       114 ~~~VLDLGcGtG~~~l~La~~~~~~~VtgVD~S~~mL~~A~~k~~~~~i~~i~gD~e~lp~~~~sFDvVIs~~~L~~~~d  193 (340)
T PLN02490        114 NLKVVDVGGGTGFTTLGIVKHVDAKNVTILDQSPHQLAKAKQKEPLKECKIIEGDAEDLPFPTDYADRYVSAGSIEYWPD  193 (340)
T ss_pred             CCEEEEEecCCcHHHHHHHHHCCCCEEEEEECCHHHHHHHHHhhhccCCeEEeccHHhCCCCCCceeEEEEcChhhhCCC
Confidence            46999999999999999999999899999997 7777776653   689999999987 6664 3 99999999999987


Q ss_pred             C
Q 024350          267 S  267 (269)
Q Consensus       267 ~  267 (269)
                      .
T Consensus       194 ~  194 (340)
T PLN02490        194 P  194 (340)
T ss_pred             H
Confidence            5

>PLN02336 phosphoethanolamine N-methyltransferase

Probab=98.36  E-value=1.3e-06  Score=82.26  Aligned_cols=82  Identities=17%  Similarity=0.308  Sum_probs=65.7

Q ss_pred             HHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC-----CCCceEEecccCC-cCCC-C-cE
Q 024350          184 VLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS-----YPGIDHVGGDLFE-SVPK-A-DT  254 (269)
Q Consensus       184 ~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~-----~~ri~~~~gD~~~-~~P~-g-D~  254 (269)
                      +++.+. ++...+|||||||+|..+..+++++ +.+++++|+ |..++.+++     ..+|+++.+|+++ ++|. . |+
T Consensus       258 l~~~~~-~~~~~~vLDiGcG~G~~~~~la~~~-~~~v~gvDiS~~~l~~A~~~~~~~~~~v~~~~~d~~~~~~~~~~fD~  335 (475)
T PLN02336        258 FVDKLD-LKPGQKVLDVGCGIGGGDFYMAENF-DVHVVGIDLSVNMISFALERAIGRKCSVEFEVADCTKKTYPDNSFDV  335 (475)
T ss_pred             HHHhcC-CCCCCEEEEEeccCCHHHHHHHHhc-CCEEEEEECCHHHHHHHHHHhhcCCCceEEEEcCcccCCCCCCCEEE
Confidence            455555 5556799999999999999988876 789999998 677766643     2589999999998 6675 3 99


Q ss_pred             EEeccccccCCCC
Q 024350          255 IFMKVICVCYLNS  267 (269)
Q Consensus       255 ~~l~~iLhd~~d~  267 (269)
                      ++...+++.++|.
T Consensus       336 I~s~~~l~h~~d~  348 (475)
T PLN02336        336 IYSRDTILHIQDK  348 (475)
T ss_pred             EEECCcccccCCH
Confidence            9999999988764

>TIGR02072 BioC biotin biosynthesis protein BioC

Probab=98.33  E-value=1e-06  Score=74.73  Aligned_cols=74  Identities=16%  Similarity=0.294  Sum_probs=60.9

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC--CCceEEecccCC-cCCC-C-cEEEeccccccCCC
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY--PGIDHVGGDLFE-SVPK-A-DTIFMKVICVCYLN  266 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~--~ri~~~~gD~~~-~~P~-g-D~~~l~~iLhd~~d  266 (269)
                      ...+|||||||+|.++..+++.+|+.+++++|. |..+..++..  ++++++.+|+.+ +.|. . |+++..++||..+|
T Consensus        34 ~~~~vLDlG~G~G~~~~~l~~~~~~~~~~~~D~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~fD~vi~~~~l~~~~~  113 (240)
T TIGR02072        34 IPASVLDIGCGTGYLTRALLKRFPQAEFIALDISAGMLAQAKTKLSENVQFICGDAEKLPLEDSSFDLIVSNLALQWCDD  113 (240)
T ss_pred             CCCeEEEECCCccHHHHHHHHhCCCCcEEEEeChHHHHHHHHHhcCCCCeEEecchhhCCCCCCceeEEEEhhhhhhccC
Confidence            347899999999999999999999999999997 5666555432  589999999987 5554 3 99999999997654

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.

>PRK05785 hypothetical protein; Provisional

Probab=98.33  E-value=1.4e-06  Score=74.20  Aligned_cols=71  Identities=18%  Similarity=0.139  Sum_probs=59.6

Q ss_pred             ccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCCCCceEEecccCC-cCCCC--cEEEeccccccCCCC
Q 024350          194 VKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSYPGIDHVGGDLFE-SVPKA--DTIFMKVICVCYLNS  267 (269)
Q Consensus       194 ~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~~ri~~~~gD~~~-~~P~g--D~~~l~~iLhd~~d~  267 (269)
                      ..+|||||||+|.++..+++.+ +.+++++|. |++++.+++.  ..++.+|+.+ |+|.+  |+++....||+++|.
T Consensus        52 ~~~VLDlGcGtG~~~~~l~~~~-~~~v~gvD~S~~Ml~~a~~~--~~~~~~d~~~lp~~d~sfD~v~~~~~l~~~~d~  126 (226)
T PRK05785         52 PKKVLDVAAGKGELSYHFKKVF-KYYVVALDYAENMLKMNLVA--DDKVVGSFEALPFRDKSFDVVMSSFALHASDNI  126 (226)
T ss_pred             CCeEEEEcCCCCHHHHHHHHhc-CCEEEEECCCHHHHHHHHhc--cceEEechhhCCCCCCCEEEEEecChhhccCCH
Confidence            5799999999999999999988 678999997 8888887653  3467788877 67653  999999999998874

>TIGR01934 MenG_MenH_UbiE ubiquinone/menaquinone biosynthesis methyltransferases

Probab=98.30  E-value=2.3e-06  Score=71.88  Aligned_cols=82  Identities=15%  Similarity=0.104  Sum_probs=65.2

Q ss_pred             HHHhccCCCCccEEEEeCCCchHHHHHHHHHCCC-CeEEEeeh-hHHHHhCCC----CCCceEEecccCC-cCCC-C-cE
Q 024350          184 VLESYKGFEHVKKLVDVGGGLGATLNMIISKYPH-IKGINYDL-LYVIKNAPS----YPGIDHVGGDLFE-SVPK-A-DT  254 (269)
Q Consensus       184 ~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~-l~~vv~Dl-p~vv~~a~~----~~ri~~~~gD~~~-~~P~-g-D~  254 (269)
                      ++..+. .....+|+|||||.|.++..+++++|+ .+++++|. |..++.+++    ..+++++.+|+.+ +.++ . |+
T Consensus        31 ~~~~~~-~~~~~~vldiG~G~G~~~~~~~~~~~~~~~~~~iD~~~~~~~~~~~~~~~~~~i~~~~~d~~~~~~~~~~~D~  109 (223)
T TIGR01934        31 AVKLIG-VFKGQKVLDVACGTGDLAIELAKSAPDRGKVTGVDFSSEMLEVAKKKSELPLNIEFIQADAEALPFEDNSFDA  109 (223)
T ss_pred             HHHHhc-cCCCCeEEEeCCCCChhHHHHHHhcCCCceEEEEECCHHHHHHHHHHhccCCCceEEecchhcCCCCCCcEEE
Confidence            344443 345689999999999999999999998 78999998 666665543    2689999999988 5554 3 99


Q ss_pred             EEeccccccCCC
Q 024350          255 IFMKVICVCYLN  266 (269)
Q Consensus       255 ~~l~~iLhd~~d  266 (269)
                      +++...+|+.++
T Consensus       110 i~~~~~~~~~~~  121 (223)
T TIGR01934       110 VTIAFGLRNVTD  121 (223)
T ss_pred             EEEeeeeCCccc
Confidence            999999998765

Note that a number of non-orthologous genes which are members of pfam03737 have been erroneously annotated as MenG methyltransferases.

>PRK10258 biotin biosynthesis protein BioC; Provisional

Probab=98.28  E-value=5.8e-06  Score=71.28  Aligned_cols=81  Identities=15%  Similarity=0.145  Sum_probs=61.7

Q ss_pred             HHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-CCceEEecccCC-cCCC-C-cEEEe
Q 024350          183 KVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-PGIDHVGGDLFE-SVPK-A-DTIFM  257 (269)
Q Consensus       183 ~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-~ri~~~~gD~~~-~~P~-g-D~~~l  257 (269)
                      .+++.++ .....+|+|||||+|.++..+.+.  ..+++.+|+ |.+++.+++. ..++++.+|+.+ +++. . |+++.
T Consensus        33 ~l~~~l~-~~~~~~vLDiGcG~G~~~~~l~~~--~~~v~~~D~s~~~l~~a~~~~~~~~~~~~d~~~~~~~~~~fD~V~s  109 (251)
T PRK10258         33 ALLAMLP-QRKFTHVLDAGCGPGWMSRYWRER--GSQVTALDLSPPMLAQARQKDAADHYLAGDIESLPLATATFDLAWS  109 (251)
T ss_pred             HHHHhcC-ccCCCeEEEeeCCCCHHHHHHHHc--CCeEEEEECCHHHHHHHHhhCCCCCEEEcCcccCcCCCCcEEEEEE
Confidence            4455555 335679999999999999888764  568899998 8888877664 457889999877 6665 3 99999


Q ss_pred             ccccccCCC
Q 024350          258 KVICVCYLN  266 (269)
Q Consensus       258 ~~iLhd~~d  266 (269)
                      ...+|..+|
T Consensus       110 ~~~l~~~~d  118 (251)
T PRK10258        110 NLAVQWCGN  118 (251)
T ss_pred             CchhhhcCC
Confidence            888875544

>PRK07580 Mg-protoporphyrin IX methyl transferase; Validated

Probab=98.26  E-value=2.1e-06  Score=72.83  Aligned_cols=73  Identities=22%  Similarity=0.267  Sum_probs=57.6

Q ss_pred             CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-------CCceEEecccCCcCCCC-cEEEeccccc
Q 024350          192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-------PGIDHVGGDLFESVPKA-DTIFMKVICV  262 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~~~P~g-D~~~l~~iLh  262 (269)
                      ....+|||||||+|.++..+++..+  +++++|+ +.+++.+++.       ++|+++.+|+ +..+.. |+++...+||
T Consensus        62 ~~~~~vLDvGcG~G~~~~~l~~~~~--~v~~~D~s~~~i~~a~~~~~~~~~~~~i~~~~~d~-~~~~~~fD~v~~~~~l~  138 (230)
T PRK07580         62 LTGLRILDAGCGVGSLSIPLARRGA--KVVASDISPQMVEEARERAPEAGLAGNITFEVGDL-ESLLGRFDTVVCLDVLI  138 (230)
T ss_pred             CCCCEEEEEeCCCCHHHHHHHHcCC--EEEEEECCHHHHHHHHHHHHhcCCccCcEEEEcCc-hhccCCcCEEEEcchhh
Confidence            3457999999999999999998764  4899997 7777766542       5899999994 433333 9999999998


Q ss_pred             cCCCC
Q 024350          263 CYLNS  267 (269)
Q Consensus       263 d~~d~  267 (269)
                      .|+++
T Consensus       139 ~~~~~  143 (230)
T PRK07580        139 HYPQE  143 (230)
T ss_pred             cCCHH
Confidence            88865

>PF05175 MTS: Methyltransferase small domain; InterPro: IPR007848 This domain is found in ribosomal RNA small subunit methyltransferase C and in other methyltransferases

Probab=98.23  E-value=1.5e-06  Score=70.55  Aligned_cols=66  Identities=24%  Similarity=0.353  Sum_probs=55.2

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC------CCceEEecccCCcCC-CC-cEEEec
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFESVP-KA-DTIFMK  258 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~~~P-~g-D~~~l~  258 (269)
                      ...+++|+|||+|.++..+++++|+.+++..|+ |..++.++++      +.++++..|+++..+ +. |+++..
T Consensus        31 ~~~~vLDlG~G~G~i~~~la~~~~~~~v~~vDi~~~a~~~a~~n~~~n~~~~v~~~~~d~~~~~~~~~fD~Iv~N  105 (170)
T PF05175_consen   31 KGGRVLDLGCGSGVISLALAKRGPDAKVTAVDINPDALELAKRNAERNGLENVEVVQSDLFEALPDGKFDLIVSN  105 (170)
T ss_dssp             TTCEEEEETSTTSHHHHHHHHTSTCEEEEEEESBHHHHHHHHHHHHHTTCTTEEEEESSTTTTCCTTCEEEEEE-
T ss_pred             cCCeEEEecCChHHHHHHHHHhCCCCEEEEEcCCHHHHHHHHHHHHhcCccccccccccccccccccceeEEEEc
Confidence            457899999999999999999999999999997 7777766542      349999999999877 44 998875

; GO: 0008168 methyltransferase activity; PDB: 1WY7_A 1DUS_A 2OZV_A 2PJD_A 1VQ1_A 1NV9_A 1SG9_C 1NV8_A 3Q87_B 3DMF_A ....

>PRK04457 spermidine synthase; Provisional

Probab=98.20  E-value=2.1e-06  Score=74.65  Aligned_cols=67  Identities=18%  Similarity=0.254  Sum_probs=56.6

Q ss_pred             CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC-------CCCceEEecccCC---cCCCC-cEEEec
Q 024350          192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS-------YPGIDHVGGDLFE---SVPKA-DTIFMK  258 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~-------~~ri~~~~gD~~~---~~P~g-D~~~l~  258 (269)
                      +.+++|+|||||.|.++..+++.+|+.+++++|+ |.+++.+++       .+|++++.+|..+   ..++. |+|++-
T Consensus        65 ~~~~~vL~IG~G~G~l~~~l~~~~p~~~v~~VEidp~vi~~A~~~f~~~~~~~rv~v~~~Da~~~l~~~~~~yD~I~~D  143 (262)
T PRK04457         65 PRPQHILQIGLGGGSLAKFIYTYLPDTRQTAVEINPQVIAVARNHFELPENGERFEVIEADGAEYIAVHRHSTDVILVD  143 (262)
T ss_pred             CCCCEEEEECCCHhHHHHHHHHhCCCCeEEEEECCHHHHHHHHHHcCCCCCCCceEEEECCHHHHHHhCCCCCCEEEEe
Confidence            3567899999999999999999999999999999 999987764       2789999999865   34444 999874

>TIGR00138 gidB 16S rRNA methyltransferase GidB

Probab=98.20  E-value=1.3e-06  Score=71.69  Aligned_cols=71  Identities=17%  Similarity=0.141  Sum_probs=54.5

Q ss_pred             ccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC------CCCceEEecccCCcCC-CC-cEEEeccccccC
Q 024350          194 VKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS------YPGIDHVGGDLFESVP-KA-DTIFMKVICVCY  264 (269)
Q Consensus       194 ~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~------~~ri~~~~gD~~~~~P-~g-D~~~l~~iLhd~  264 (269)
                      ..+|+|||||+|..+..++..+|+.+++.+|. |..++.+++      .++|+++.+|+.+-.+ .. |+++... +|++
T Consensus        43 ~~~vLDiGcGtG~~s~~la~~~~~~~V~~iD~s~~~~~~a~~~~~~~~~~~i~~i~~d~~~~~~~~~fD~I~s~~-~~~~  121 (181)
T TIGR00138        43 GKKVIDIGSGAGFPGIPLAIARPELKLTLLESNHKKVAFLREVKAELGLNNVEIVNGRAEDFQHEEQFDVITSRA-LASL  121 (181)
T ss_pred             CCeEEEecCCCCccHHHHHHHCCCCeEEEEeCcHHHHHHHHHHHHHhCCCCeEEEecchhhccccCCccEEEehh-hhCH
Confidence            47999999999999999999999999999997 555554432      2579999999976222 23 9888765 6654


Q ss_pred             C
Q 024350          265 L  265 (269)
Q Consensus       265 ~  265 (269)
                      +
T Consensus       122 ~  122 (181)
T TIGR00138       122 N  122 (181)
T ss_pred             H
Confidence            3

GidB (glucose-inhibited division protein B) appears to be present and in a single copy in nearly all complete eubacterial genomes. It is missing only from some obligate intracellular species of various lineages (Chlamydiae, Ehrlichia, Wolbachia, Anaplasma, Buchnera, etc.). GidB shows a methytransferase fold in its the crystal structure, and acts as a 7-methylguanosine (m(7)G) methyltransferase, apparently specific to 16S rRNA.

>PRK15001 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional

Probab=98.19  E-value=3.6e-06  Score=76.66  Aligned_cols=78  Identities=13%  Similarity=0.146  Sum_probs=60.6

Q ss_pred             HHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC---------CCceEEecccCCcCCC-C
Q 024350          184 VLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY---------PGIDHVGGDLFESVPK-A  252 (269)
Q Consensus       184 ~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~---------~ri~~~~gD~~~~~P~-g  252 (269)
                      +++.++ .....+|+|||||+|.++..+++++|+.+++.+|. +.+++.++++         .+++++..|.++..+. .
T Consensus       220 lL~~lp-~~~~~~VLDLGCGtGvi~i~la~~~P~~~V~~vD~S~~Av~~A~~N~~~n~~~~~~~v~~~~~D~l~~~~~~~  298 (378)
T PRK15001        220 FMQHLP-ENLEGEIVDLGCGNGVIGLTLLDKNPQAKVVFVDESPMAVASSRLNVETNMPEALDRCEFMINNALSGVEPFR  298 (378)
T ss_pred             HHHhCC-cccCCeEEEEeccccHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHHHHcCcccCceEEEEEccccccCCCCC
Confidence            455655 33346999999999999999999999999999997 5677666531         3789999999986654 4


Q ss_pred             -cEEEeccccc
Q 024350          253 -DTIFMKVICV  262 (269)
Q Consensus       253 -D~~~l~~iLh  262 (269)
                       |+|++.=-+|
T Consensus       299 fDlIlsNPPfh  309 (378)
T PRK15001        299 FNAVLCNPPFH  309 (378)
T ss_pred             EEEEEECcCcc
Confidence             9999863333

>TIGR03533 L3_gln_methyl protein-(glutamine-N5) methyltransferase, ribosomal protein L3-specific

Probab=98.18  E-value=3.3e-06  Score=74.34  Aligned_cols=66  Identities=21%  Similarity=0.296  Sum_probs=56.3

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-------CCceEEecccCCcCCC-C-cEEEec
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-------PGIDHVGGDLFESVPK-A-DTIFMK  258 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~~~P~-g-D~~~l~  258 (269)
                      +..+|+|+|||+|.++..+++++|+.+++.+|+ |..++.++++       ++|+++.+|+++++|. . |+++..
T Consensus       121 ~~~~vLDlG~GsG~i~~~la~~~~~~~v~avDis~~al~~A~~n~~~~~~~~~i~~~~~D~~~~~~~~~fD~Iv~N  196 (284)
T TIGR03533       121 PVKRILDLCTGSGCIAIACAYAFPEAEVDAVDISPDALAVAEINIERHGLEDRVTLIQSDLFAALPGRKYDLIVSN  196 (284)
T ss_pred             CCCEEEEEeCchhHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHHHcCCCCcEEEEECchhhccCCCCccEEEEC
Confidence            346899999999999999999999999999998 7888776642       5899999999987774 3 988863

Members of this protein family methylate ribosomal protein L3 on a glutamine side chain. This family is related to HemK, a protein-glutamine methyltranferase for peptide chain release factors.

>TIGR02469 CbiT precorrin-6Y C5,15-methyltransferase (decarboxylating), CbiT subunit

Probab=98.17  E-value=8.6e-06  Score=61.79  Aligned_cols=78  Identities=18%  Similarity=0.144  Sum_probs=58.4

Q ss_pred             HHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC------CCCceEEecccCCc---CCCC-
Q 024350          184 VLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS------YPGIDHVGGDLFES---VPKA-  252 (269)
Q Consensus       184 ~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~------~~ri~~~~gD~~~~---~P~g-  252 (269)
                      ++..+. .....+++|||||.|.++..+++++|+.+++.+|. +..++.+++      .++++++.+|....   .++. 
T Consensus        11 ~~~~~~-~~~~~~vldlG~G~G~~~~~l~~~~~~~~v~~vD~s~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   89 (124)
T TIGR02469        11 TLSKLR-LRPGDVLWDIGAGSGSITIEAARLVPNGRVYAIERNPEALRLIERNARRFGVSNIVIVEGDAPEALEDSLPEP   89 (124)
T ss_pred             HHHHcC-CCCCCEEEEeCCCCCHHHHHHHHHCCCceEEEEcCCHHHHHHHHHHHHHhCCCceEEEeccccccChhhcCCC
Confidence            344555 44557999999999999999999999999999997 666665543      26799998987642   2333 


Q ss_pred             cEEEeccccc
Q 024350          253 DTIFMKVICV  262 (269)
Q Consensus       253 D~~~l~~iLh  262 (269)
                      |++++....+
T Consensus        90 D~v~~~~~~~   99 (124)
T TIGR02469        90 DRVFIGGSGG   99 (124)
T ss_pred             CEEEECCcch
Confidence            9998866443

This model recognizes the CbiT methylase which is responsible, in part (along with CbiE), for methylating precorrin-6y (or cobalt-precorrin-6y) at both the 5 and 15 positions as well as the concomitant decarbozylation at C-12. In many organisms, this protein is fused to the CbiE subunit. The fused protein, when found in organisms catalyzing the oxidative version of the cobalamin biosynthesis pathway, is called CobL.

>PRK15068 tRNA mo(5)U34 methyltransferase; Provisional

Probab=98.16  E-value=6.8e-06  Score=73.59  Aligned_cols=82  Identities=16%  Similarity=0.110  Sum_probs=59.6

Q ss_pred             HHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeehhH-HHHhC-------CCCCCceEEecccCC-cCCCC-c
Q 024350          184 VLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLY-VIKNA-------PSYPGIDHVGGDLFE-SVPKA-D  253 (269)
Q Consensus       184 ~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp~-vv~~a-------~~~~ri~~~~gD~~~-~~P~g-D  253 (269)
                      ++..++.+ ...+|+|||||+|.++..+++..|. +++++|... .+..+       ....+|+++.+|+.+ +.+.. |
T Consensus       114 l~~~l~~l-~g~~VLDIGCG~G~~~~~la~~g~~-~V~GiD~S~~~l~q~~a~~~~~~~~~~i~~~~~d~e~lp~~~~FD  191 (322)
T PRK15068        114 VLPHLSPL-KGRTVLDVGCGNGYHMWRMLGAGAK-LVVGIDPSQLFLCQFEAVRKLLGNDQRAHLLPLGIEQLPALKAFD  191 (322)
T ss_pred             HHHhhCCC-CCCEEEEeccCCcHHHHHHHHcCCC-EEEEEcCCHHHHHHHHHHHHhcCCCCCeEEEeCCHHHCCCcCCcC
Confidence            34444313 3479999999999999999999877 489999633 23211       113589999999876 44444 9


Q ss_pred             EEEeccccccCCCC
Q 024350          254 TIFMKVICVCYLNS  267 (269)
Q Consensus       254 ~~~l~~iLhd~~d~  267 (269)
                      +++...+||.+.|.
T Consensus       192 ~V~s~~vl~H~~dp  205 (322)
T PRK15068        192 TVFSMGVLYHRRSP  205 (322)
T ss_pred             EEEECChhhccCCH
Confidence            99999999987663

>PF05401 NodS: Nodulation protein S (NodS); InterPro: IPR008715 This entry consists of nodulation S (NodS) proteins

Probab=98.14  E-value=2.5e-06  Score=70.05  Aligned_cols=77  Identities=14%  Similarity=0.273  Sum_probs=59.1

Q ss_pred             hccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC----CCCceEEecccCCcCCCC--cEEEecc
Q 024350          187 SYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS----YPGIDHVGGDLFESVPKA--DTIFMKV  259 (269)
Q Consensus       187 ~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~----~~ri~~~~gD~~~~~P~g--D~~~l~~  259 (269)
                      .++ -....++++||||.|.+...|+.++-  +.++.|. |..++.+++    .++|+++..|+-+..|.+  |+++++-
T Consensus        38 aLp-~~ry~~alEvGCs~G~lT~~LA~rCd--~LlavDis~~Al~~Ar~Rl~~~~~V~~~~~dvp~~~P~~~FDLIV~SE  114 (201)
T PF05401_consen   38 ALP-RRRYRRALEVGCSIGVLTERLAPRCD--RLLAVDISPRALARARERLAGLPHVEWIQADVPEFWPEGRFDLIVLSE  114 (201)
T ss_dssp             HHT-TSSEEEEEEE--TTSHHHHHHGGGEE--EEEEEES-HHHHHHHHHHTTT-SSEEEEES-TTT---SS-EEEEEEES
T ss_pred             hcC-ccccceeEecCCCccHHHHHHHHhhC--ceEEEeCCHHHHHHHHHhcCCCCCeEEEECcCCCCCCCCCeeEEEEeh
Confidence            455 45678999999999999999999974  4699997 888887764    388999999998878864  9999999


Q ss_pred             ccccCCC
Q 024350          260 ICVCYLN  266 (269)
Q Consensus       260 iLhd~~d  266 (269)
                      |+|+++|
T Consensus       115 VlYYL~~  121 (201)
T PF05401_consen  115 VLYYLDD  121 (201)
T ss_dssp             -GGGSSS
T ss_pred             HhHcCCC
Confidence            9999986

The products of the rhizobial nodulation genes are involved in the biosynthesis of lipochitin oligosaccharides (LCOs), which are host-specific signal molecules required for nodule formation. NodS is an S-adenosyl-L-methionine (SAM)-dependent methyltransferase involved in N methylation of LCOs. NodS uses N-deacetylated chitooligosaccharides, the products of the NodBC proteins, as its methyl acceptors [].; GO: 0008757 S-adenosylmethionine-dependent methyltransferase activity, 0009312 oligosaccharide biosynthetic process, 0009877 nodulation; PDB: 3OFK_D 3OFJ_A.

>PRK11805 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional

Probab=98.14  E-value=3.3e-06  Score=75.11  Aligned_cols=64  Identities=19%  Similarity=0.277  Sum_probs=55.5

Q ss_pred             cEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-------CCceEEecccCCcCCC-C-cEEEec
Q 024350          195 KKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-------PGIDHVGGDLFESVPK-A-DTIFMK  258 (269)
Q Consensus       195 ~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~~~P~-g-D~~~l~  258 (269)
                      .+|+|+|||+|.++..+++.+|+.+++.+|+ |..++.++++       +||+++.+|+++.+|. . |+++..
T Consensus       135 ~~VLDlG~GsG~iai~la~~~p~~~V~avDis~~al~~A~~n~~~~~l~~~i~~~~~D~~~~l~~~~fDlIvsN  208 (307)
T PRK11805        135 TRILDLCTGSGCIAIACAYAFPDAEVDAVDISPDALAVAEINIERHGLEDRVTLIESDLFAALPGRRYDLIVSN  208 (307)
T ss_pred             CEEEEEechhhHHHHHHHHHCCCCEEEEEeCCHHHHHHHHHHHHHhCCCCcEEEEECchhhhCCCCCccEEEEC
Confidence            6899999999999999999999999999998 8888777642       5799999999987764 3 998864

>TIGR00477 tehB tellurite resistance protein TehB

Probab=98.14  E-value=4.5e-06  Score=69.35  Aligned_cols=81  Identities=19%  Similarity=0.126  Sum_probs=60.0

Q ss_pred             HHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-----CCceEEecccCC-cCCCC-cE
Q 024350          183 KVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-----PGIDHVGGDLFE-SVPKA-DT  254 (269)
Q Consensus       183 ~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-----~ri~~~~gD~~~-~~P~g-D~  254 (269)
                      .+++.++ .....+|+|||||+|..+..++++  +.+++++|. |.+++.+++.     -.+++...|+.. +.++. |+
T Consensus        21 ~l~~~~~-~~~~~~vLDiGcG~G~~a~~la~~--g~~V~~iD~s~~~l~~a~~~~~~~~~~v~~~~~d~~~~~~~~~fD~   97 (195)
T TIGR00477        21 AVREAVK-TVAPCKTLDLGCGQGRNSLYLSLA--GYDVRAWDHNPASIASVLDMKARENLPLRTDAYDINAAALNEDYDF   97 (195)
T ss_pred             HHHHHhc-cCCCCcEEEeCCCCCHHHHHHHHC--CCeEEEEECCHHHHHHHHHHHHHhCCCceeEeccchhccccCCCCE
Confidence            4555555 344679999999999999999985  568899998 6777655431     237777788765 34444 99


Q ss_pred             EEeccccccCCC
Q 024350          255 IFMKVICVCYLN  266 (269)
Q Consensus       255 ~~l~~iLhd~~d  266 (269)
                      ++...++|.+++
T Consensus        98 I~~~~~~~~~~~  109 (195)
T TIGR00477        98 IFSTVVFMFLQA  109 (195)
T ss_pred             EEEecccccCCH
Confidence            999999998764

Part of a tellurite-reducing operon tehA and tehB

>PRK11873 arsM arsenite S-adenosylmethyltransferase; Reviewed

Probab=98.11  E-value=7e-06  Score=71.66  Aligned_cols=77  Identities=17%  Similarity=0.242  Sum_probs=62.3

Q ss_pred             CCCccEEEEeCCCchHHHHHHHHHC-CCCeEEEeeh-hHHHHhCCCC------CCceEEecccCC-cCCC-C-cEEEecc
Q 024350          191 FEHVKKLVDVGGGLGATLNMIISKY-PHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFE-SVPK-A-DTIFMKV  259 (269)
Q Consensus       191 ~~~~~~vvDvGGG~G~~~~~l~~~~-P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~-~~P~-g-D~~~l~~  259 (269)
                      +....+|||||||+|..+..+++.. |+.+++++|+ |..++.+++.      ++++++.+|+.+ ++|. . |+++...
T Consensus        75 ~~~g~~VLDiG~G~G~~~~~~a~~~g~~~~v~gvD~s~~~l~~A~~~~~~~g~~~v~~~~~d~~~l~~~~~~fD~Vi~~~  154 (272)
T PRK11873         75 LKPGETVLDLGSGGGFDCFLAARRVGPTGKVIGVDMTPEMLAKARANARKAGYTNVEFRLGEIEALPVADNSVDVIISNC  154 (272)
T ss_pred             CCCCCEEEEeCCCCCHHHHHHHHHhCCCCEEEEECCCHHHHHHHHHHHHHcCCCCEEEEEcchhhCCCCCCceeEEEEcC
Confidence            4456799999999999888777764 6678999997 7888877642      689999999877 6664 4 9999999


Q ss_pred             ccccCCCC
Q 024350          260 ICVCYLNS  267 (269)
Q Consensus       260 iLhd~~d~  267 (269)
                      ++|.++|.
T Consensus       155 v~~~~~d~  162 (272)
T PRK11873        155 VINLSPDK  162 (272)
T ss_pred             cccCCCCH
Confidence            99988763

>TIGR00091 tRNA (guanine-N(7)-)-methyltransferase

Probab=98.11  E-value=1.8e-06  Score=71.71  Aligned_cols=55  Identities=16%  Similarity=0.240  Sum_probs=47.3

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC------CCCceEEecccCC
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS------YPGIDHVGGDLFE  247 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~------~~ri~~~~gD~~~  247 (269)
                      ...++||||||.|.++..+++++|+.+++++|+ +..++.+.+      .++|+++.+|+.+
T Consensus        16 ~~~~ilDiGcG~G~~~~~la~~~p~~~v~gvD~~~~~l~~a~~~~~~~~l~ni~~i~~d~~~   77 (194)
T TIGR00091        16 KAPLHLEIGCGKGRFLIDMAKQNPDKNFLGIEIHTPIVLAANNKANKLGLKNLHVLCGDANE   77 (194)
T ss_pred             CCceEEEeCCCccHHHHHHHHhCCCCCEEEEEeeHHHHHHHHHHHHHhCCCCEEEEccCHHH
Confidence            457999999999999999999999999999998 667766543      2689999999975

In E. coli, this protein flanks the DNA repair protein MutY, also called micA.

>KOG1540 consensus Ubiquinone biosynthesis methyltransferase COQ5 [Coenzyme transport and metabolism]

Probab=98.10  E-value=1.7e-05  Score=67.43  Aligned_cols=76  Identities=17%  Similarity=0.147  Sum_probs=65.0

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCC------CeEEEeeh-hHHHHhCCCC---------CCceEEecccCC-cCCCC--c
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPH------IKGINYDL-LYVIKNAPSY---------PGIDHVGGDLFE-SVPKA--D  253 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~------l~~vv~Dl-p~vv~~a~~~---------~ri~~~~gD~~~-~~P~g--D  253 (269)
                      ..-++|||+||+|..+-.+++.-++      -+++|.|+ |+++..+++.         .|+.++.+|.-+ |+|..  |
T Consensus       100 ~~m~~lDvaGGTGDiaFril~~v~s~~~~~~~~V~v~Dinp~mL~vgkqRa~~~~l~~~~~~~w~~~dAE~LpFdd~s~D  179 (296)
T KOG1540|consen  100 KGMKVLDVAGGTGDIAFRILRHVKSQFGDRESKVTVLDINPHMLAVGKQRAKKRPLKASSRVEWVEGDAEDLPFDDDSFD  179 (296)
T ss_pred             CCCeEEEecCCcchhHHHHHHhhccccCCCCceEEEEeCCHHHHHHHHHHHhhcCCCcCCceEEEeCCcccCCCCCCcce
Confidence            3479999999999999999999888      78999997 8888766532         569999999988 88853  9


Q ss_pred             EEEeccccccCCCCC
Q 024350          254 TIFMKVICVCYLNSL  268 (269)
Q Consensus       254 ~~~l~~iLhd~~d~~  268 (269)
                      .|.+.-=+.+|+|.+
T Consensus       180 ~yTiafGIRN~th~~  194 (296)
T KOG1540|consen  180 AYTIAFGIRNVTHIQ  194 (296)
T ss_pred             eEEEecceecCCCHH
Confidence            999999999998853

>PLN02396 hexaprenyldihydroxybenzoate methyltransferase

Probab=98.09  E-value=3.4e-06  Score=75.35  Aligned_cols=72  Identities=15%  Similarity=0.035  Sum_probs=58.1

Q ss_pred             ccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-------CCceEEecccCC-cCCC-C-cEEEeccccc
Q 024350          194 VKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-------PGIDHVGGDLFE-SVPK-A-DTIFMKVICV  262 (269)
Q Consensus       194 ~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~-~~P~-g-D~~~l~~iLh  262 (269)
                      ..+|||||||.|.++..+++  ++.+++++|. +..++.++..       .+|+++.+|+.+ +.+. . |++++..+||
T Consensus       132 g~~ILDIGCG~G~~s~~La~--~g~~V~GID~s~~~i~~Ar~~~~~~~~~~~i~~~~~dae~l~~~~~~FD~Vi~~~vLe  209 (322)
T PLN02396        132 GLKFIDIGCGGGLLSEPLAR--MGATVTGVDAVDKNVKIARLHADMDPVTSTIEYLCTTAEKLADEGRKFDAVLSLEVIE  209 (322)
T ss_pred             CCEEEEeeCCCCHHHHHHHH--cCCEEEEEeCCHHHHHHHHHHHHhcCcccceeEEecCHHHhhhccCCCCEEEEhhHHH
Confidence            35899999999999998876  4778999997 7777766532       479999999865 4443 3 9999999999


Q ss_pred             cCCCC
Q 024350          263 CYLNS  267 (269)
Q Consensus       263 d~~d~  267 (269)
                      .++|.
T Consensus       210 Hv~d~  214 (322)
T PLN02396        210 HVANP  214 (322)
T ss_pred             hcCCH
Confidence            99874

>COG2890 HemK Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]

Probab=98.06  E-value=5.9e-06  Score=72.50  Aligned_cols=63  Identities=25%  Similarity=0.318  Sum_probs=53.4

Q ss_pred             EEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC------CCceEEecccCCcCCCC-cEEEec
Q 024350          196 KLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFESVPKA-DTIFMK  258 (269)
Q Consensus       196 ~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~~~P~g-D~~~l~  258 (269)
                      +|+|||+|+|..++.++.++|+++++..|+ |..++.|+.+      .++.++.+|+|++++.. |+++.+
T Consensus       113 ~ilDlGTGSG~iai~la~~~~~~~V~a~Dis~~Al~~A~~Na~~~~l~~~~~~~~dlf~~~~~~fDlIVsN  183 (280)
T COG2890         113 RILDLGTGSGAIAIALAKEGPDAEVIAVDISPDALALARENAERNGLVRVLVVQSDLFEPLRGKFDLIVSN  183 (280)
T ss_pred             cEEEecCChHHHHHHHHhhCcCCeEEEEECCHHHHHHHHHHHHHcCCccEEEEeeecccccCCceeEEEeC
Confidence            899999999999999999999999999997 8888777653      56667777999987754 887653

>TIGR02081 metW methionine biosynthesis protein MetW

Probab=98.05  E-value=1.4e-05  Score=66.31  Aligned_cols=73  Identities=19%  Similarity=0.372  Sum_probs=56.2

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCCCCceEEecccCC---cCCC-C-cEEEeccccccCCC
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSYPGIDHVGGDLFE---SVPK-A-DTIFMKVICVCYLN  266 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~~ri~~~~gD~~~---~~P~-g-D~~~l~~iLhd~~d  266 (269)
                      ...+|+|||||+|.++..+++. ...+++.+|. ++.++.++. .+++++.+|+.+   +++. . |++++.++||..+|
T Consensus        13 ~~~~iLDiGcG~G~~~~~l~~~-~~~~~~giD~s~~~i~~a~~-~~~~~~~~d~~~~l~~~~~~sfD~Vi~~~~l~~~~d   90 (194)
T TIGR02081        13 PGSRVLDLGCGDGELLALLRDE-KQVRGYGIEIDQDGVLACVA-RGVNVIQGDLDEGLEAFPDKSFDYVILSQTLQATRN   90 (194)
T ss_pred             CCCEEEEeCCCCCHHHHHHHhc-cCCcEEEEeCCHHHHHHHHH-cCCeEEEEEhhhcccccCCCCcCEEEEhhHhHcCcC
Confidence            4468999999999999888765 4567788997 666665543 468899999865   2443 3 99999999998876


Q ss_pred             C
Q 024350          267 S  267 (269)
Q Consensus       267 ~  267 (269)
                      .
T Consensus        91 ~   91 (194)
T TIGR02081        91 P   91 (194)
T ss_pred             H
Confidence            3

This protein is found alongside MetX, of the enzyme that acylates homoserine as a first step toward methionine biosynthesis, in many species. It appears to act in methionine biosynthesis but is not fully characterized.

>PRK09489 rsmC 16S ribosomal RNA m2G1207 methyltransferase; Provisional

Probab=98.05  E-value=1.4e-05  Score=72.19  Aligned_cols=80  Identities=16%  Similarity=0.186  Sum_probs=61.5

Q ss_pred             HHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-----CCceEEecccCCcCCCC-cEEE
Q 024350          184 VLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-----PGIDHVGGDLFESVPKA-DTIF  256 (269)
Q Consensus       184 ~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-----~ri~~~~gD~~~~~P~g-D~~~  256 (269)
                      ++..++ .....+|+|+|||+|.++..+++++|+.+++.+|. +.+++.++.+     -..+++..|.++..+.. |+++
T Consensus       188 Ll~~l~-~~~~g~VLDlGCG~G~ls~~la~~~p~~~v~~vDis~~Al~~A~~nl~~n~l~~~~~~~D~~~~~~~~fDlIv  266 (342)
T PRK09489        188 LLSTLT-PHTKGKVLDVGCGAGVLSAVLARHSPKIRLTLSDVSAAALESSRATLAANGLEGEVFASNVFSDIKGRFDMII  266 (342)
T ss_pred             HHHhcc-ccCCCeEEEeccCcCHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHHHHcCCCCEEEEcccccccCCCccEEE
Confidence            344444 22345899999999999999999999999999997 5677666542     24577889998765555 9999


Q ss_pred             eccccccC
Q 024350          257 MKVICVCY  264 (269)
Q Consensus       257 l~~iLhd~  264 (269)
                      ..--+|+.
T Consensus       267 sNPPFH~g  274 (342)
T PRK09489        267 SNPPFHDG  274 (342)
T ss_pred             ECCCccCC
Confidence            98888864

>PRK00107 gidB 16S rRNA methyltransferase GidB; Reviewed

Probab=98.04  E-value=1.9e-05  Score=65.25  Aligned_cols=67  Identities=19%  Similarity=0.141  Sum_probs=54.3

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC------CCceEEecccCC-cCCCC-cEEEecc
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFE-SVPKA-DTIFMKV  259 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~-~~P~g-D~~~l~~  259 (269)
                      ...+|+|||||+|..+..+++++|+.+++.+|. +..++.+++.      ++|+++.+|..+ +..+. |++++..
T Consensus        45 ~g~~VLDiGcGtG~~al~la~~~~~~~V~giD~s~~~l~~A~~~~~~~~l~~i~~~~~d~~~~~~~~~fDlV~~~~  120 (187)
T PRK00107         45 GGERVLDVGSGAGFPGIPLAIARPELKVTLVDSLGKKIAFLREVAAELGLKNVTVVHGRAEEFGQEEKFDVVTSRA  120 (187)
T ss_pred             CCCeEEEEcCCCCHHHHHHHHHCCCCeEEEEeCcHHHHHHHHHHHHHcCCCCEEEEeccHhhCCCCCCccEEEEcc
Confidence            367999999999999999999999999999997 6777666542      459999999877 22223 9999864

>TIGR00536 hemK_fam HemK family putative methylases

Probab=98.01  E-value=9.6e-06  Score=71.37  Aligned_cols=64  Identities=20%  Similarity=0.371  Sum_probs=54.9

Q ss_pred             cEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-------CCceEEecccCCcCCC-C-cEEEec
Q 024350          195 KKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-------PGIDHVGGDLFESVPK-A-DTIFMK  258 (269)
Q Consensus       195 ~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~~~P~-g-D~~~l~  258 (269)
                      .+|+|||||+|.++..++..+|+.+++.+|+ |..++.++++       .||+++.+|++++++. . |+++..
T Consensus       116 ~~vLDlG~GsG~i~l~la~~~~~~~v~avDis~~al~~a~~n~~~~~~~~~v~~~~~d~~~~~~~~~fDlIvsN  189 (284)
T TIGR00536       116 LHILDLGTGSGCIALALAYEFPNAEVIAVDISPDALAVAEENAEKNQLEHRVEFIQSNLFEPLAGQKIDIIVSN  189 (284)
T ss_pred             CEEEEEeccHhHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHHHcCCCCcEEEEECchhccCcCCCccEEEEC
Confidence            6899999999999999999999999999997 7777766642       4699999999997764 4 888763

The gene hemK from E. coli was found to contribute to heme biosynthesis and originally suggested to be protoporphyrinogen oxidase (Medline 95189105). Functional analysis of the nearest homolog in Saccharomyces cerevisiae, YNL063w, finds it is not protoporphyrinogen oxidase and sequence analysis suggests that HemK homologs have S-adenosyl-methionine-dependent methyltransferase activity (Medline 99237242). Homologs are found, usually in a single copy, in nearly all completed genomes, but varying somewhat in apparent domain architecture. Both E. coli and H. influenzae have two members rather than one. The members from the Mycoplasmas have an additional C-terminal domain.

>PRK13944 protein-L-isoaspartate O-methyltransferase; Provisional

Probab=98.00  E-value=1.9e-05  Score=66.10  Aligned_cols=81  Identities=16%  Similarity=0.106  Sum_probs=61.2

Q ss_pred             HHHhccCCCCccEEEEeCCCchHHHHHHHHHCC-CCeEEEeeh-hHHHHhCCCC-------CCceEEecccCCcCCC--C
Q 024350          184 VLESYKGFEHVKKLVDVGGGLGATLNMIISKYP-HIKGINYDL-LYVIKNAPSY-------PGIDHVGGDLFESVPK--A  252 (269)
Q Consensus       184 ~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P-~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~~~P~--g  252 (269)
                      +++.++ .....+|+|||||+|..+..+++..+ .-+++.+|. |..++.++++       .+++++.+|+.+.+|.  .
T Consensus        64 ~~~~l~-~~~~~~VLDiG~GsG~~~~~la~~~~~~g~V~~iD~~~~~~~~a~~~l~~~~~~~~v~~~~~d~~~~~~~~~~  142 (205)
T PRK13944         64 MCELIE-PRPGMKILEVGTGSGYQAAVCAEAIERRGKVYTVEIVKELAIYAAQNIERLGYWGVVEVYHGDGKRGLEKHAP  142 (205)
T ss_pred             HHHhcC-CCCCCEEEEECcCccHHHHHHHHhcCCCCEEEEEeCCHHHHHHHHHHHHHcCCCCcEEEEECCcccCCccCCC
Confidence            344444 44557999999999999999998875 567899997 6777666542       4699999999885552  3


Q ss_pred             -cEEEeccccccCC
Q 024350          253 -DTIFMKVICVCYL  265 (269)
Q Consensus       253 -D~~~l~~iLhd~~  265 (269)
                       |++++...++..+
T Consensus       143 fD~Ii~~~~~~~~~  156 (205)
T PRK13944        143 FDAIIVTAAASTIP  156 (205)
T ss_pred             ccEEEEccCcchhh
Confidence             9999988876654

>TIGR03534 RF_mod_PrmC protein-(glutamine-N5) methyltransferase, release factor-specific

Probab=97.99  E-value=1.9e-05  Score=67.78  Aligned_cols=65  Identities=22%  Similarity=0.325  Sum_probs=54.7

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC------CCceEEecccCCcCCC-C-cEEEe
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFESVPK-A-DTIFM  257 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~~~P~-g-D~~~l  257 (269)
                      +..+|+|+|||+|.++..+++.+|+.+++++|. |..++.++..      ++++++.+|++++.+. . |+++.
T Consensus        87 ~~~~ilDig~G~G~~~~~l~~~~~~~~v~~iD~~~~~~~~a~~~~~~~~~~~~~~~~~d~~~~~~~~~fD~Vi~  160 (251)
T TIGR03534        87 GPLRVLDLGTGSGAIALALAKERPDARVTAVDISPEALAVARKNAARLGLDNVTFLQSDWFEPLPGGKFDLIVS  160 (251)
T ss_pred             CCCeEEEEeCcHhHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHHHcCCCeEEEEECchhccCcCCceeEEEE
Confidence            346899999999999999999999999999997 7777766542      5799999999987664 3 98876

Members of this protein family are HemK (PrmC), a protein once thought to be involved in heme biosynthesis but now recognized to be a protein-glutamine methyltransferase that modifies the peptide chain release factors. All members of the seed alignment are encoded next to the release factor 1 gene (prfA) and confirmed by phylogenetic analysis. SIMBAL analysis (manuscript in prep.) shows the motif [LIV]PRx[DE]TE (in Escherichia coli, IPRPDTE) confers specificity for the release factors rather than for ribosomal protein L3.

>COG2242 CobL Precorrin-6B methylase 2 [Coenzyme metabolism]

Probab=97.99  E-value=2e-05  Score=64.15  Aligned_cols=72  Identities=21%  Similarity=0.255  Sum_probs=57.9

Q ss_pred             HhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC------CCceEEecccCCcCC---CCcEE
Q 024350          186 ESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFESVP---KADTI  255 (269)
Q Consensus       186 ~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~~~P---~gD~~  255 (269)
                      ..+. .....+++|||||+|..+.+++...|..+++.+|. ++.++..+.+      ++++++.||.-+.++   +-|.+
T Consensus        28 s~L~-~~~g~~l~DIGaGtGsi~iE~a~~~p~~~v~AIe~~~~a~~~~~~N~~~fg~~n~~vv~g~Ap~~L~~~~~~dai  106 (187)
T COG2242          28 SKLR-PRPGDRLWDIGAGTGSITIEWALAGPSGRVIAIERDEEALELIERNAARFGVDNLEVVEGDAPEALPDLPSPDAI  106 (187)
T ss_pred             HhhC-CCCCCEEEEeCCCccHHHHHHHHhCCCceEEEEecCHHHHHHHHHHHHHhCCCcEEEEeccchHhhcCCCCCCEE
Confidence            4444 56678999999999999999999999999999996 6666655542      899999999877444   23999


Q ss_pred             Eec
Q 024350          256 FMK  258 (269)
Q Consensus       256 ~l~  258 (269)
                      |+.
T Consensus       107 FIG  109 (187)
T COG2242         107 FIG  109 (187)
T ss_pred             EEC
Confidence            875

>PRK14121 tRNA (guanine-N(7)-)-methyltransferase; Provisional

Probab=97.97  E-value=2.1e-05  Score=71.65  Aligned_cols=74  Identities=20%  Similarity=0.242  Sum_probs=55.6

Q ss_pred             HHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC------CCCceEEecccC---CcCCCC-
Q 024350          184 VLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS------YPGIDHVGGDLF---ESVPKA-  252 (269)
Q Consensus       184 ~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~------~~ri~~~~gD~~---~~~P~g-  252 (269)
                      +++.+. -.....+||||||+|.++..+++++|+..++++|+ +.+++.+.+      .+.|.++.+|..   +.+|.+ 
T Consensus       114 ~~~~~~-~~~~p~vLEIGcGsG~~ll~lA~~~P~~~~iGIEI~~~~i~~a~~ka~~~gL~NV~~i~~DA~~ll~~~~~~s  192 (390)
T PRK14121        114 FLDFIS-KNQEKILIEIGFGSGRHLLYQAKNNPNKLFIGIEIHTPSIEQVLKQIELLNLKNLLIINYDARLLLELLPSNS  192 (390)
T ss_pred             HHHHhc-CCCCCeEEEEcCcccHHHHHHHHhCCCCCEEEEECCHHHHHHHHHHHHHcCCCcEEEEECCHHHhhhhCCCCc
Confidence            444444 23457999999999999999999999999999997 556554432      267999999974   346654 


Q ss_pred             -cEEEec
Q 024350          253 -DTIFMK  258 (269)
Q Consensus       253 -D~~~l~  258 (269)
                       |.+++.
T Consensus       193 ~D~I~ln  199 (390)
T PRK14121        193 VEKIFVH  199 (390)
T ss_pred             eeEEEEe
Confidence             877753

>PRK13942 protein-L-isoaspartate O-methyltransferase; Provisional

Probab=97.96  E-value=4.1e-05  Score=64.44  Aligned_cols=82  Identities=15%  Similarity=0.135  Sum_probs=62.4

Q ss_pred             HHHHhccCCCCccEEEEeCCCchHHHHHHHHHC-CCCeEEEeeh-hHHHHhCCCC------CCceEEecccCCcCC-CC-
Q 024350          183 KVLESYKGFEHVKKLVDVGGGLGATLNMIISKY-PHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFESVP-KA-  252 (269)
Q Consensus       183 ~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~-P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~~~P-~g-  252 (269)
                      .++..++ .+...+|||||||+|..+..+++.. ++.+++.+|. |..++.+++.      ++|+++.+|.++..+ .+ 
T Consensus        67 ~~~~~l~-~~~g~~VLdIG~GsG~~t~~la~~~~~~~~V~~vE~~~~~~~~a~~~l~~~g~~~v~~~~gd~~~~~~~~~~  145 (212)
T PRK13942         67 IMCELLD-LKEGMKVLEIGTGSGYHAAVVAEIVGKSGKVVTIERIPELAEKAKKTLKKLGYDNVEVIVGDGTLGYEENAP  145 (212)
T ss_pred             HHHHHcC-CCCcCEEEEECCcccHHHHHHHHhcCCCCEEEEEeCCHHHHHHHHHHHHHcCCCCeEEEECCcccCCCcCCC
Confidence            3445555 6667899999999999998888875 4578899996 7777766542      689999999988544 33 


Q ss_pred             -cEEEeccccccCC
Q 024350          253 -DTIFMKVICVCYL  265 (269)
Q Consensus       253 -D~~~l~~iLhd~~  265 (269)
                       |++++....+..+
T Consensus       146 fD~I~~~~~~~~~~  159 (212)
T PRK13942        146 YDRIYVTAAGPDIP  159 (212)
T ss_pred             cCEEEECCCcccch
Confidence             9999877665543

>PRK12335 tellurite resistance protein TehB; Provisional

Probab=97.95  E-value=1.3e-05  Score=70.57  Aligned_cols=80  Identities=20%  Similarity=0.168  Sum_probs=59.7

Q ss_pred             HHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-----CCceEEecccCC-cCCCC-cEE
Q 024350          184 VLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-----PGIDHVGGDLFE-SVPKA-DTI  255 (269)
Q Consensus       184 ~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-----~ri~~~~gD~~~-~~P~g-D~~  255 (269)
                      ++..++ .....+|||||||+|..+..+++.  +.+++.+|. |.+++.+++.     -++++..+|+.+ .+++. |++
T Consensus       112 ~~~~~~-~~~~~~vLDlGcG~G~~~~~la~~--g~~V~avD~s~~ai~~~~~~~~~~~l~v~~~~~D~~~~~~~~~fD~I  188 (287)
T PRK12335        112 VLEAVQ-TVKPGKALDLGCGQGRNSLYLALL--GFDVTAVDINQQSLENLQEIAEKENLNIRTGLYDINSASIQEEYDFI  188 (287)
T ss_pred             HHHHhh-ccCCCCEEEeCCCCCHHHHHHHHC--CCEEEEEECCHHHHHHHHHHHHHcCCceEEEEechhcccccCCccEE
Confidence            444444 334469999999999999999885  578999998 6777655432     368888899876 34444 999


Q ss_pred             EeccccccCCC
Q 024350          256 FMKVICVCYLN  266 (269)
Q Consensus       256 ~l~~iLhd~~d  266 (269)
                      +...+||..++
T Consensus       189 ~~~~vl~~l~~  199 (287)
T PRK12335        189 LSTVVLMFLNR  199 (287)
T ss_pred             EEcchhhhCCH
Confidence            99999997664

>PRK14966 unknown domain/N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase fusion protein; Provisional

Probab=97.95  E-value=2.2e-05  Score=72.01  Aligned_cols=66  Identities=20%  Similarity=0.314  Sum_probs=55.1

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-----CCceEEecccCCc-CC-C-C-cEEEec
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-----PGIDHVGGDLFES-VP-K-A-DTIFMK  258 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-----~ri~~~~gD~~~~-~P-~-g-D~~~l~  258 (269)
                      ...+++|||||+|.++..+++++|+.+++.+|+ |.+++.++++     .+|+++.+|++++ .| . . |+++..
T Consensus       251 ~~~rVLDLGcGSG~IaiaLA~~~p~a~VtAVDiS~~ALe~AreNa~~~g~rV~fi~gDl~e~~l~~~~~FDLIVSN  326 (423)
T PRK14966        251 ENGRVWDLGTGSGAVAVTVALERPDAFVRASDISPPALETARKNAADLGARVEFAHGSWFDTDMPSEGKWDIIVSN  326 (423)
T ss_pred             CCCEEEEEeChhhHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHHHHcCCcEEEEEcchhccccccCCCccEEEEC
Confidence            346899999999999999999999999999998 8888877653     4799999999874 44 2 2 888773

>PRK01544 bifunctional N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase/tRNA (m7G46) methyltransferase; Reviewed

Probab=97.94  E-value=1.3e-05  Score=76.12  Aligned_cols=64  Identities=25%  Similarity=0.388  Sum_probs=55.0

Q ss_pred             ccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-------CCceEEecccCCcCCC-C-cEEEe
Q 024350          194 VKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-------PGIDHVGGDLFESVPK-A-DTIFM  257 (269)
Q Consensus       194 ~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~~~P~-g-D~~~l  257 (269)
                      ..+|+|||||+|.++..+++++|+.+++.+|+ |.+++.++++       ++|+++.+|+++..+. . |+++.
T Consensus       139 ~~~VLDlG~GsG~iai~la~~~p~~~v~avDis~~al~~A~~N~~~~~l~~~v~~~~~D~~~~~~~~~fDlIvs  212 (506)
T PRK01544        139 FLNILELGTGSGCIAISLLCELPNANVIATDISLDAIEVAKSNAIKYEVTDRIQIIHSNWFENIEKQKFDFIVS  212 (506)
T ss_pred             CCEEEEccCchhHHHHHHHHHCCCCeEEEEECCHHHHHHHHHHHHHcCCccceeeeecchhhhCcCCCccEEEE
Confidence            46899999999999999999999999999998 7788777642       5899999999987664 3 98886

>TIGR00080 pimt protein-L-isoaspartate(D-aspartate) O-methyltransferase

Probab=97.94  E-value=3.2e-05  Score=65.16  Aligned_cols=81  Identities=12%  Similarity=0.092  Sum_probs=61.0

Q ss_pred             HHHHhccCCCCccEEEEeCCCchHHHHHHHHHCC-CCeEEEeeh-hHHHHhCCCC------CCceEEecccCCcCC-C-C
Q 024350          183 KVLESYKGFEHVKKLVDVGGGLGATLNMIISKYP-HIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFESVP-K-A  252 (269)
Q Consensus       183 ~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P-~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~~~P-~-g  252 (269)
                      .+++.++ .....+|+|||||+|.++..+++..+ +.+++.+|+ |..++.+++.      ++++++.+|..+..+ . .
T Consensus        68 ~~~~~l~-~~~~~~VLDiG~GsG~~a~~la~~~~~~g~V~~vD~~~~~~~~A~~~~~~~g~~~v~~~~~d~~~~~~~~~~  146 (215)
T TIGR00080        68 MMTELLE-LKPGMKVLEIGTGSGYQAAVLAEIVGRDGLVVSIERIPELAEKAERRLRKLGLDNVIVIVGDGTQGWEPLAP  146 (215)
T ss_pred             HHHHHhC-CCCcCEEEEECCCccHHHHHHHHHhCCCCEEEEEeCCHHHHHHHHHHHHHCCCCCeEEEECCcccCCcccCC
Confidence            3445555 55668999999999999999999865 567899996 7888776542      679999999987444 2 3


Q ss_pred             -cEEEeccccccC
Q 024350          253 -DTIFMKVICVCY  264 (269)
Q Consensus       253 -D~~~l~~iLhd~  264 (269)
                       |++++....+..
T Consensus       147 fD~Ii~~~~~~~~  159 (215)
T TIGR00080       147 YDRIYVTAAGPKI  159 (215)
T ss_pred             CCEEEEcCCcccc
Confidence             999887655443

Among the prokaryotes, the gene name is pcm. Among eukaryotes, pimt.

>PLN02336 phosphoethanolamine N-methyltransferase

Probab=97.94  E-value=1.9e-05  Score=74.43  Aligned_cols=84  Identities=20%  Similarity=0.306  Sum_probs=64.1

Q ss_pred             HHHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC----CCCceEEecccCC---cCCC-
Q 024350          181 MEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS----YPGIDHVGGDLFE---SVPK-  251 (269)
Q Consensus       181 ~~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~----~~ri~~~~gD~~~---~~P~-  251 (269)
                      .+.+++.++ ..+..+++|||||+|.++..+++.+.  +++.+|. |..++.++.    .++++++.+|+.+   ++|. 
T Consensus        26 ~~~il~~l~-~~~~~~vLDlGcG~G~~~~~la~~~~--~v~giD~s~~~l~~a~~~~~~~~~i~~~~~d~~~~~~~~~~~  102 (475)
T PLN02336         26 RPEILSLLP-PYEGKSVLELGAGIGRFTGELAKKAG--QVIALDFIESVIKKNESINGHYKNVKFMCADVTSPDLNISDG  102 (475)
T ss_pred             hhHHHhhcC-ccCCCEEEEeCCCcCHHHHHHHhhCC--EEEEEeCCHHHHHHHHHHhccCCceEEEEecccccccCCCCC
Confidence            345556555 44557999999999999999998864  6789996 677765432    3689999999964   4554 


Q ss_pred             C-cEEEeccccccCCCC
Q 024350          252 A-DTIFMKVICVCYLNS  267 (269)
Q Consensus       252 g-D~~~l~~iLhd~~d~  267 (269)
                      . |+++...+||.++|+
T Consensus       103 ~fD~I~~~~~l~~l~~~  119 (475)
T PLN02336        103 SVDLIFSNWLLMYLSDK  119 (475)
T ss_pred             CEEEEehhhhHHhCCHH
Confidence            3 999999999998874

>TIGR00537 hemK_rel_arch HemK-related putative methylase

Probab=97.92  E-value=2.9e-05  Score=63.48  Aligned_cols=72  Identities=21%  Similarity=0.285  Sum_probs=57.2

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-----CCceEEecccCCcCCC-CcEEEeccccccCC
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-----PGIDHVGGDLFESVPK-ADTIFMKVICVCYL  265 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-----~ri~~~~gD~~~~~P~-gD~~~l~~iLhd~~  265 (269)
                      ...+|+|+|||+|.++..+.+..+  +++.+|+ |..++.++.+     -+++++.+|+++..+. -|+++..-.+|..+
T Consensus        19 ~~~~vLdlG~G~G~~~~~l~~~~~--~v~~vD~s~~~~~~a~~~~~~~~~~~~~~~~d~~~~~~~~fD~Vi~n~p~~~~~   96 (179)
T TIGR00537        19 KPDDVLEIGAGTGLVAIRLKGKGK--CILTTDINPFAVKELRENAKLNNVGLDVVMTDLFKGVRGKFDVILFNPPYLPLE   96 (179)
T ss_pred             CCCeEEEeCCChhHHHHHHHhcCC--EEEEEECCHHHHHHHHHHHHHcCCceEEEEcccccccCCcccEEEECCCCCCCc
Confidence            346899999999999999999887  7899997 7777766542     4688899999874443 49999988777655


Q ss_pred             C
Q 024350          266 N  266 (269)
Q Consensus       266 d  266 (269)
                      +
T Consensus        97 ~   97 (179)
T TIGR00537        97 D   97 (179)
T ss_pred             c
Confidence            4

The gene hemK from E. coli was found to contribute to heme biosynthesis and originally suggested to be protoporphyrinogen oxidase (Medline 95189105). Functional analysis of the nearest homolog in Saccharomyces cerevisiae, YNL063w, finds it is not protoporphyrinogen oxidase and sequence analysis suggests that HemK homologs have S-adenosyl-methionine-dependent methyltransferase activity (Medline 99237242). Homologs are found, usually in a single copy, in nearly all completed genomes, but varying somewhat in apparent domain architecture. This model represents an archaeal and eukaryotic protein family that lacks an N-terminal domain found in HemK and its eubacterial homologs. It is found in a single copy in the first six completed archaeal and eukaryotic genomes.

>smart00650 rADc Ribosomal RNA adenine dimethylases

Probab=97.92  E-value=3e-05  Score=62.79  Aligned_cols=76  Identities=12%  Similarity=0.258  Sum_probs=56.1

Q ss_pred             HHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC----CCCceEEecccCC-cCCCC--cE
Q 024350          183 KVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS----YPGIDHVGGDLFE-SVPKA--DT  254 (269)
Q Consensus       183 ~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~----~~ri~~~~gD~~~-~~P~g--D~  254 (269)
                      .+++.++ +.+..+++|||||.|.++..++++  ..+++.+|. +..++.+++    .++++++.+|+.+ +.+..  |.
T Consensus         4 ~i~~~~~-~~~~~~vLEiG~G~G~lt~~l~~~--~~~v~~vE~~~~~~~~~~~~~~~~~~v~ii~~D~~~~~~~~~~~d~   80 (169)
T smart00650        4 KIVRAAN-LRPGDTVLEIGPGKGALTEELLER--AARVTAIEIDPRLAPRLREKFAAADNLTVIHGDALKFDLPKLQPYK   80 (169)
T ss_pred             HHHHhcC-CCCcCEEEEECCCccHHHHHHHhc--CCeEEEEECCHHHHHHHHHHhccCCCEEEEECchhcCCccccCCCE
Confidence            4556666 666679999999999999999998  567899997 456655543    3689999999998 55543  65


Q ss_pred             EEeccccc
Q 024350          255 IFMKVICV  262 (269)
Q Consensus       255 ~~l~~iLh  262 (269)
                      + +++..+
T Consensus        81 v-i~n~Py   87 (169)
T smart00650       81 V-VGNLPY   87 (169)
T ss_pred             E-EECCCc
Confidence            5 444443

>TIGR00452 methyltransferase, putative

Probab=97.92  E-value=5.1e-05  Score=67.60  Aligned_cols=82  Identities=15%  Similarity=0.059  Sum_probs=58.5

Q ss_pred             HHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhC-------CCCCCceEEecccCC-cCCCC-c
Q 024350          184 VLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNA-------PSYPGIDHVGGDLFE-SVPKA-D  253 (269)
Q Consensus       184 ~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a-------~~~~ri~~~~gD~~~-~~P~g-D  253 (269)
                      ++..+. ..+..+|+|||||+|.++..++...+. +++++|. +..+..+       ....++.+...|+-+ +.+.. |
T Consensus       113 ~l~~l~-~~~g~~VLDvGCG~G~~~~~~~~~g~~-~v~GiDpS~~ml~q~~~~~~~~~~~~~v~~~~~~ie~lp~~~~FD  190 (314)
T TIGR00452       113 VLPHLS-PLKGRTILDVGCGSGYHMWRMLGHGAK-SLVGIDPTVLFLCQFEAVRKLLDNDKRAILEPLGIEQLHELYAFD  190 (314)
T ss_pred             HHHhcC-CCCCCEEEEeccCCcHHHHHHHHcCCC-EEEEEcCCHHHHHHHHHHHHHhccCCCeEEEECCHHHCCCCCCcC
Confidence            444443 234479999999999999999988775 6899996 4343321       123678888888754 22234 9


Q ss_pred             EEEeccccccCCCC
Q 024350          254 TIFMKVICVCYLNS  267 (269)
Q Consensus       254 ~~~l~~iLhd~~d~  267 (269)
                      +++...+||.+++.
T Consensus       191 ~V~s~gvL~H~~dp  204 (314)
T TIGR00452       191 TVFSMGVLYHRKSP  204 (314)
T ss_pred             EEEEcchhhccCCH
Confidence            99999999988764

Known examples to date are restricted to the proteobacteria.

>PLN02585 magnesium protoporphyrin IX methyltransferase

Probab=97.89  E-value=1.8e-05  Score=70.52  Aligned_cols=71  Identities=15%  Similarity=0.091  Sum_probs=56.1

Q ss_pred             ccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-----------CCceEEecccCCcCCCC-cEEEeccc
Q 024350          194 VKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-----------PGIDHVGGDLFESVPKA-DTIFMKVI  260 (269)
Q Consensus       194 ~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-----------~ri~~~~gD~~~~~P~g-D~~~l~~i  260 (269)
                      ..+|||||||+|.++..+++.  +.+++++|+ |.+++.+++.           .++++..+|+.+ ++.. |++++..+
T Consensus       145 ~~~VLDlGcGtG~~a~~la~~--g~~V~gvD~S~~ml~~A~~~~~~~~~~~~~~~~~~f~~~Dl~~-l~~~fD~Vv~~~v  221 (315)
T PLN02585        145 GVTVCDAGCGTGSLAIPLALE--GAIVSASDISAAMVAEAERRAKEALAALPPEVLPKFEANDLES-LSGKYDTVTCLDV  221 (315)
T ss_pred             CCEEEEecCCCCHHHHHHHHC--CCEEEEEECCHHHHHHHHHHHHhcccccccccceEEEEcchhh-cCCCcCEEEEcCE
Confidence            469999999999999999986  568999997 6677665432           357888888743 3433 99999999


Q ss_pred             cccCCCC
Q 024350          261 CVCYLNS  267 (269)
Q Consensus       261 Lhd~~d~  267 (269)
                      ||+++++
T Consensus       222 L~H~p~~  228 (315)
T PLN02585        222 LIHYPQD  228 (315)
T ss_pred             EEecCHH
Confidence            9888875

>PRK00121 trmB tRNA (guanine-N(7)-)-methyltransferase; Reviewed

Probab=97.88  E-value=2.2e-05  Score=65.60  Aligned_cols=67  Identities=21%  Similarity=0.312  Sum_probs=53.7

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC------CCCceEEecccCC--c--CCC-C-cEEEecc
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS------YPGIDHVGGDLFE--S--VPK-A-DTIFMKV  259 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~------~~ri~~~~gD~~~--~--~P~-g-D~~~l~~  259 (269)
                      +..+|+|||||+|.++..+++.+|+.+++.+|. |..++.+++      .++++++.+|+.+  +  ++. . |++++..
T Consensus        40 ~~~~VLDiGcGtG~~~~~la~~~p~~~v~gVD~s~~~i~~a~~~~~~~~~~~v~~~~~d~~~~l~~~~~~~~~D~V~~~~  119 (202)
T PRK00121         40 DAPIHLEIGFGKGEFLVEMAKANPDINFIGIEVHEPGVGKALKKIEEEGLTNLRLLCGDAVEVLLDMFPDGSLDRIYLNF  119 (202)
T ss_pred             CCCeEEEEccCCCHHHHHHHHHCCCccEEEEEechHHHHHHHHHHHHcCCCCEEEEecCHHHHHHHHcCccccceEEEEC
Confidence            457999999999999999999999999999997 777776653      2689999999832  3  443 3 8887643

>PRK09328 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional

Probab=97.87  E-value=5.2e-05  Score=66.08  Aligned_cols=66  Identities=23%  Similarity=0.354  Sum_probs=54.7

Q ss_pred             CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC------CCCceEEecccCCcCCC-C-cEEEe
Q 024350          192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS------YPGIDHVGGDLFESVPK-A-DTIFM  257 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~------~~ri~~~~gD~~~~~P~-g-D~~~l  257 (269)
                      .+..+|+|+|||+|..+..+++.+|+.+++..|+ |..++.+++      ..+++++.+|++++.+. . |+++.
T Consensus       107 ~~~~~vLDiG~GsG~~~~~la~~~~~~~v~~iDis~~~l~~a~~n~~~~~~~~i~~~~~d~~~~~~~~~fD~Iv~  181 (275)
T PRK09328        107 KEPLRVLDLGTGSGAIALALAKERPDAEVTAVDISPEALAVARRNAKHGLGARVEFLQGDWFEPLPGGRFDLIVS  181 (275)
T ss_pred             cCCCEEEEEcCcHHHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHHhCCCCcEEEEEccccCcCCCCceeEEEE
Confidence            3557899999999999999999999999999997 666665553      26899999999987663 3 98876

>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional

Probab=97.86  E-value=5e-05  Score=66.37  Aligned_cols=65  Identities=22%  Similarity=0.325  Sum_probs=53.1

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCC---eEEEeeh-hHHHHhCCCC-CCceEEecccCC-cCCCC--cEEEe
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHI---KGINYDL-LYVIKNAPSY-PGIDHVGGDLFE-SVPKA--DTIFM  257 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l---~~vv~Dl-p~vv~~a~~~-~ri~~~~gD~~~-~~P~g--D~~~l  257 (269)
                      ...+|+|||||+|.++..+++.+|..   +++++|+ |.+++.+++. ++++++.+|..+ +++.+  |+++.
T Consensus        85 ~~~~vLDiGcG~G~~~~~l~~~~~~~~~~~v~giD~s~~~l~~A~~~~~~~~~~~~d~~~lp~~~~sfD~I~~  157 (272)
T PRK11088         85 KATALLDIGCGEGYYTHALADALPEITTMQLFGLDISKVAIKYAAKRYPQVTFCVASSHRLPFADQSLDAIIR  157 (272)
T ss_pred             CCCeEEEECCcCCHHHHHHHHhcccccCCeEEEECCCHHHHHHHHHhCCCCeEEEeecccCCCcCCceeEEEE
Confidence            44689999999999999999998854   6799997 7788777654 789999999887 66643  88874

>PF13659 Methyltransf_26: Methyltransferase domain; PDB: 3GJY_A 3LPM_B 2NP6_D 1AQI_B 2ADM_B 2IH2_A 2JG3_A 2IBS_D 2NP7_A 2IBT_A

Probab=97.82  E-value=1.9e-05  Score=59.57  Aligned_cols=68  Identities=18%  Similarity=0.204  Sum_probs=53.7

Q ss_pred             cEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC-------CCCceEEecccCC-c--CCC-C-cEEEecccc
Q 024350          195 KKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS-------YPGIDHVGGDLFE-S--VPK-A-DTIFMKVIC  261 (269)
Q Consensus       195 ~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~-------~~ri~~~~gD~~~-~--~P~-g-D~~~l~~iL  261 (269)
                      .+|+|+|||+|.++..+++.. ..+++.+|+ |..++.++.       .+|++++.+|+++ .  .+. . |++++.--.
T Consensus         2 ~~vlD~~~G~G~~~~~~~~~~-~~~~~gvdi~~~~~~~a~~~~~~~~~~~~~~~~~~D~~~~~~~~~~~~~D~Iv~npP~   80 (117)
T PF13659_consen    2 DRVLDPGCGSGTFLLAALRRG-AARVTGVDIDPEAVELARRNLPRNGLDDRVEVIVGDARDLPEPLPDGKFDLIVTNPPY   80 (117)
T ss_dssp             EEEEEETSTTCHHHHHHHHHC-TCEEEEEESSHHHHHHHHHHCHHCTTTTTEEEEESHHHHHHHTCTTT-EEEEEE--ST
T ss_pred             CEEEEcCcchHHHHHHHHHHC-CCeEEEEEECHHHHHHHHHHHHHccCCceEEEEECchhhchhhccCceeEEEEECCCC
Confidence            489999999999999999999 889999998 677766653       2789999999988 3  443 3 999887655


Q ss_pred             cc
Q 024350          262 VC  263 (269)
Q Consensus       262 hd  263 (269)
                      +.
T Consensus        81 ~~   82 (117)
T PF13659_consen   81 GP   82 (117)
T ss_dssp             TS
T ss_pred             cc
Confidence            54

...

>TIGR03438 probable methyltransferase

Probab=97.82  E-value=2.6e-05  Score=69.22  Aligned_cols=76  Identities=14%  Similarity=0.267  Sum_probs=57.5

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCC-CCeEEEeeh-hHHHHhCCC-----CC--CceEEecccCCc--CCC-----C-cEE
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYP-HIKGINYDL-LYVIKNAPS-----YP--GIDHVGGDLFES--VPK-----A-DTI  255 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P-~l~~vv~Dl-p~vv~~a~~-----~~--ri~~~~gD~~~~--~P~-----g-D~~  255 (269)
                      ...+|||+|||+|..+..|+++.+ ..+.+.+|+ +++++.+.+     .+  +|.++.+||.+.  +|.     . .++
T Consensus        63 ~~~~iLELGcGtG~~t~~Ll~~l~~~~~~~~iDiS~~mL~~a~~~l~~~~p~~~v~~i~gD~~~~~~~~~~~~~~~~~~~  142 (301)
T TIGR03438        63 AGCELVELGSGSSRKTRLLLDALRQPARYVPIDISADALKESAAALAADYPQLEVHGICADFTQPLALPPEPAAGRRLGF  142 (301)
T ss_pred             CCCeEEecCCCcchhHHHHHHhhccCCeEEEEECCHHHHHHHHHHHHhhCCCceEEEEEEcccchhhhhcccccCCeEEE
Confidence            346899999999999999999998 688999998 566655543     23  466788999873  332     2 467


Q ss_pred             EeccccccCCCCC
Q 024350          256 FMKVICVCYLNSL  268 (269)
Q Consensus       256 ~l~~iLhd~~d~~  268 (269)
                      ++...+|++++++
T Consensus       143 ~~gs~~~~~~~~e  155 (301)
T TIGR03438       143 FPGSTIGNFTPEE  155 (301)
T ss_pred             EecccccCCCHHH
Confidence            7778899887654

This model represents a distinct set of uncharacterized proteins found in the bacteria. Analysis by PSI-BLAST shows remote sequence homology to methyltransferases

>PF13489 Methyltransf_23: Methyltransferase domain; PDB: 3JWJ_A 3JWH_B 2AOV_B 2AOT_A 1JQD_B 2AOX_A 1JQE_A 2AOU_B 2AOW_A 3DLI_C

Probab=97.81  E-value=8.9e-05  Score=58.76  Aligned_cols=69  Identities=17%  Similarity=0.227  Sum_probs=49.2

Q ss_pred             CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCCCCceEEecccCC-cCCC-C-cEEEeccccccCCC
Q 024350          192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSYPGIDHVGGDLFE-SVPK-A-DTIFMKVICVCYLN  266 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~~ri~~~~gD~~~-~~P~-g-D~~~l~~iLhd~~d  266 (269)
                      ....+|||||||.|.++..+.+...  +++++|. |..++.    ..+.....+.-. +.|. . |++++.++||..+|
T Consensus        21 ~~~~~vLDiGcG~G~~~~~l~~~~~--~~~g~D~~~~~~~~----~~~~~~~~~~~~~~~~~~~fD~i~~~~~l~~~~d   93 (161)
T PF13489_consen   21 KPGKRVLDIGCGTGSFLRALAKRGF--EVTGVDISPQMIEK----RNVVFDNFDAQDPPFPDGSFDLIICNDVLEHLPD   93 (161)
T ss_dssp             TTTSEEEEESSTTSHHHHHHHHTTS--EEEEEESSHHHHHH----TTSEEEEEECHTHHCHSSSEEEEEEESSGGGSSH
T ss_pred             CCCCEEEEEcCCCCHHHHHHHHhCC--EEEEEECCHHHHhh----hhhhhhhhhhhhhhccccchhhHhhHHHHhhccc
Confidence            4568999999999999999976644  8999997 666665    222222222223 2343 3 99999999999875

...

>TIGR03704 PrmC_rel_meth putative protein-(glutamine-N5) methyltransferase, unknown substrate-specific

Probab=97.81  E-value=7.1e-05  Score=64.71  Aligned_cols=65  Identities=22%  Similarity=0.258  Sum_probs=53.3

Q ss_pred             ccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC---CCceEEecccCCcCC----CC-cEEEec
Q 024350          194 VKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY---PGIDHVGGDLFESVP----KA-DTIFMK  258 (269)
Q Consensus       194 ~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~---~ri~~~~gD~~~~~P----~g-D~~~l~  258 (269)
                      ..+++|+|||+|.++..+++.+|..+++.+|. |..++.++++   .+++++.+|+++.++    .. |+++..
T Consensus        87 ~~~vLDlg~GsG~i~l~la~~~~~~~v~~vDis~~al~~A~~N~~~~~~~~~~~D~~~~l~~~~~~~fDlVv~N  160 (251)
T TIGR03704        87 TLVVVDLCCGSGAVGAALAAALDGIELHAADIDPAAVRCARRNLADAGGTVHEGDLYDALPTALRGRVDILAAN  160 (251)
T ss_pred             CCEEEEecCchHHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHHHHcCCEEEEeechhhcchhcCCCEeEEEEC
Confidence            45899999999999999999999999999998 8888877754   347899999987544    23 887653

This protein family is closely related to two different families of protein-(glutamine-N5) methyltransferase. The first is PrmB, which modifies ribosomal protein L3 in some bacteria. The second is PrmC (HemK), which modifies peptide chain release factors 1 and 2 in most bacteria and also in eukaryotes. The glutamine side chain-binding motif NPPY shared by PrmB and PrmC is N[VAT]PY in this family. The protein substrate is unknown.

>PHA03411 putative methyltransferase; Provisional

Probab=97.79  E-value=6.1e-05  Score=65.41  Aligned_cols=71  Identities=15%  Similarity=0.195  Sum_probs=57.7

Q ss_pred             ccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-CCceEEecccCCcCC-CC-cEEEeccccccC
Q 024350          194 VKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-PGIDHVGGDLFESVP-KA-DTIFMKVICVCY  264 (269)
Q Consensus       194 ~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-~ri~~~~gD~~~~~P-~g-D~~~l~~iLhd~  264 (269)
                      ..+|+|+|||+|.++..++++.+..+++.+|+ |..++.+++. ++++++.+|+++... .. |+++..-=++..
T Consensus        65 ~grVLDLGcGsGilsl~la~r~~~~~V~gVDisp~al~~Ar~n~~~v~~v~~D~~e~~~~~kFDlIIsNPPF~~l  139 (279)
T PHA03411         65 TGKVLDLCAGIGRLSFCMLHRCKPEKIVCVELNPEFARIGKRLLPEAEWITSDVFEFESNEKFDVVISNPPFGKI  139 (279)
T ss_pred             CCeEEEcCCCCCHHHHHHHHhCCCCEEEEEECCHHHHHHHHHhCcCCEEEECchhhhcccCCCcEEEEcCCcccc
Confidence            46899999999999999999988889999997 7888777654 789999999998433 33 999886555543

>COG2813 RsmC 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]

Probab=97.77  E-value=0.00011  Score=64.40  Aligned_cols=80  Identities=21%  Similarity=0.225  Sum_probs=61.7

Q ss_pred             HHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC------CCceEEecccCCcCCC-Cc
Q 024350          182 EKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFESVPK-AD  253 (269)
Q Consensus       182 ~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~~~P~-gD  253 (269)
                      +-+++.++ .....+|+|+|||.|.+++.+++.+|+.+.+.+|. ...++.++++      ++..+...|.+++... -|
T Consensus       148 ~lLl~~l~-~~~~~~vlDlGCG~Gvlg~~la~~~p~~~vtmvDvn~~Av~~ar~Nl~~N~~~~~~v~~s~~~~~v~~kfd  226 (300)
T COG2813         148 RLLLETLP-PDLGGKVLDLGCGYGVLGLVLAKKSPQAKLTLVDVNARAVESARKNLAANGVENTEVWASNLYEPVEGKFD  226 (300)
T ss_pred             HHHHHhCC-ccCCCcEEEeCCCccHHHHHHHHhCCCCeEEEEecCHHHHHHHHHhHHHcCCCccEEEEeccccccccccc
Confidence            34567777 44445999999999999999999999999999997 5667777663      4446788999987664 48


Q ss_pred             EEEeccccc
Q 024350          254 TIFMKVICV  262 (269)
Q Consensus       254 ~~~l~~iLh  262 (269)
                      .|+..==+|
T Consensus       227 ~IisNPPfh  235 (300)
T COG2813         227 LIISNPPFH  235 (300)
T ss_pred             EEEeCCCcc
Confidence            887765444

>PRK07402 precorrin-6B methylase; Provisional

Probab=97.77  E-value=4.2e-05  Score=63.47  Aligned_cols=63  Identities=17%  Similarity=0.177  Sum_probs=51.4

Q ss_pred             HHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC------CCceEEecccCC
Q 024350          184 VLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFE  247 (269)
Q Consensus       184 ~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~  247 (269)
                      ++..++ .....+|+|||||+|.++..+++..|+.+++.+|+ |..++.++++      ++|+++.+|..+
T Consensus        32 l~~~l~-~~~~~~VLDiG~G~G~~~~~la~~~~~~~V~~vD~s~~~~~~a~~n~~~~~~~~v~~~~~d~~~  101 (196)
T PRK07402         32 LISQLR-LEPDSVLWDIGAGTGTIPVEAGLLCPKGRVIAIERDEEVVNLIRRNCDRFGVKNVEVIEGSAPE  101 (196)
T ss_pred             HHHhcC-CCCCCEEEEeCCCCCHHHHHHHHHCCCCEEEEEeCCHHHHHHHHHHHHHhCCCCeEEEECchHH
Confidence            345555 55567999999999999999999999999999998 8888766542      579999998865

>COG4123 Predicted O-methyltransferase [General function prediction only]

Probab=97.76  E-value=3.7e-05  Score=65.71  Aligned_cols=68  Identities=19%  Similarity=0.217  Sum_probs=54.8

Q ss_pred             CCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-------CCceEEecccCCc---CCCC--cEEEe
Q 024350          191 FEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-------PGIDHVGGDLFES---VPKA--DTIFM  257 (269)
Q Consensus       191 ~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~~---~P~g--D~~~l  257 (269)
                      .+...+|+|+|+|.|..+..+++++++.+.+++|+ +..++.|+++       +||+++..|+-+-   .+..  |++++
T Consensus        42 ~~~~~~IlDlGaG~G~l~L~la~r~~~a~I~~VEiq~~~a~~A~~nv~ln~l~~ri~v~~~Di~~~~~~~~~~~fD~Ii~  121 (248)
T COG4123          42 VPKKGRILDLGAGNGALGLLLAQRTEKAKIVGVEIQEEAAEMAQRNVALNPLEERIQVIEADIKEFLKALVFASFDLIIC  121 (248)
T ss_pred             cccCCeEEEecCCcCHHHHHHhccCCCCcEEEEEeCHHHHHHHHHHHHhCcchhceeEehhhHHHhhhcccccccCEEEe
Confidence            34579999999999999999999999999999998 5666666542       8999999999872   2223  77776


Q ss_pred             c
Q 024350          258 K  258 (269)
Q Consensus       258 ~  258 (269)
                      .
T Consensus       122 N  122 (248)
T COG4123         122 N  122 (248)
T ss_pred             C
Confidence            4

>PF07021 MetW: Methionine biosynthesis protein MetW; InterPro: IPR010743 This family consists of several bacterial and one archaeal methionine biosynthesis MetW proteins

Probab=97.74  E-value=3.9e-05  Score=62.89  Aligned_cols=71  Identities=20%  Similarity=0.287  Sum_probs=53.2

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeehhHHHHhCCCCCCceEEecccCCc---CCC-C-cEEEeccccccC
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPSYPGIDHVGGDLFES---VPK-A-DTIFMKVICVCY  264 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp~vv~~a~~~~ri~~~~gD~~~~---~P~-g-D~~~l~~iLhd~  264 (269)
                      ...+|+|+|||.|.++..|.+. .++++.++|+.+.--.+.....++++.+|+-+.   +|. . |.++|++.|-..
T Consensus        13 pgsrVLDLGCGdG~LL~~L~~~-k~v~g~GvEid~~~v~~cv~rGv~Viq~Dld~gL~~f~d~sFD~VIlsqtLQ~~   88 (193)
T PF07021_consen   13 PGSRVLDLGCGDGELLAYLKDE-KQVDGYGVEIDPDNVAACVARGVSVIQGDLDEGLADFPDQSFDYVILSQTLQAV   88 (193)
T ss_pred             CCCEEEecCCCchHHHHHHHHh-cCCeEEEEecCHHHHHHHHHcCCCEEECCHHHhHhhCCCCCccEEehHhHHHhH
Confidence            4589999999999999887775 699999998733321112236788999999873   664 4 999999988644

Biosynthesis of methionine from homoserine in Pseudomonas putida takes place in three steps. The first step is the acylation of homoserine to yield an acyl-L-homoserine. This reaction is catalysed by the products of the metXW genes and is equivalent to the first step in enterobacteria, Gram-positive bacteria and fungi, except that in these microorganisms the reaction is catalysed by a single polypeptide (the product of the metA gene in Escherichia coli and the met5 gene product in Neurospora crassa). In P. putida, as in Gram-positive bacteria and certain fungi, the second and third steps are a direct sulphydrylation that converts the O-acyl-L-homoserine into homocysteine and further methylation to yield methionine. The latter reaction can be mediated by either of the two methionine synthetases present in the cells [].

>PLN02366 spermidine synthase

Probab=97.72  E-value=5.8e-05  Score=67.11  Aligned_cols=65  Identities=28%  Similarity=0.354  Sum_probs=50.9

Q ss_pred             CCccEEEEeCCCchHHHHHHHHHCCC-CeEEEeeh-hHHHHhCCC----------CCCceEEecccCC---cCCC-C-cE
Q 024350          192 EHVKKLVDVGGGLGATLNMIISKYPH-IKGINYDL-LYVIKNAPS----------YPGIDHVGGDLFE---SVPK-A-DT  254 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~~P~-l~~vv~Dl-p~vv~~a~~----------~~ri~~~~gD~~~---~~P~-g-D~  254 (269)
                      +++++||+||||.|..+.++++. |+ .+++++|+ |.|++.+++          .+|++++.+|.++   ..|+ . |+
T Consensus        90 ~~pkrVLiIGgG~G~~~rellk~-~~v~~V~~VEiD~~Vi~~ar~~f~~~~~~~~dpRv~vi~~Da~~~l~~~~~~~yDv  168 (308)
T PLN02366         90 PNPKKVLVVGGGDGGVLREIARH-SSVEQIDICEIDKMVIDVSKKFFPDLAVGFDDPRVNLHIGDGVEFLKNAPEGTYDA  168 (308)
T ss_pred             CCCCeEEEEcCCccHHHHHHHhC-CCCCeEEEEECCHHHHHHHHHhhhhhccccCCCceEEEEChHHHHHhhccCCCCCE
Confidence            46789999999999999999865 65 56899998 557776654          2699999999764   3443 3 99


Q ss_pred             EEe
Q 024350          255 IFM  257 (269)
Q Consensus       255 ~~l  257 (269)
                      |++
T Consensus       169 Ii~  171 (308)
T PLN02366        169 IIV  171 (308)
T ss_pred             EEE
Confidence            976

>PRK00274 ksgA 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed

Probab=97.69  E-value=8.2e-05  Score=65.07  Aligned_cols=65  Identities=14%  Similarity=0.268  Sum_probs=51.0

Q ss_pred             HHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC---CCceEEecccCC-cCC
Q 024350          183 KVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY---PGIDHVGGDLFE-SVP  250 (269)
Q Consensus       183 ~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~---~ri~~~~gD~~~-~~P  250 (269)
                      .+++.++ .....+|+|||||+|.++..++++.+  +++++|. |..++.+++.   ++++++.+|+.+ +.+
T Consensus        33 ~i~~~l~-~~~~~~VLEiG~G~G~lt~~L~~~~~--~v~avE~d~~~~~~~~~~~~~~~v~~i~~D~~~~~~~  102 (272)
T PRK00274         33 KIVDAAG-PQPGDNVLEIGPGLGALTEPLLERAA--KVTAVEIDRDLAPILAETFAEDNLTIIEGDALKVDLS  102 (272)
T ss_pred             HHHHhcC-CCCcCeEEEeCCCccHHHHHHHHhCC--cEEEEECCHHHHHHHHHhhccCceEEEEChhhcCCHH
Confidence            4455555 55667999999999999999999987  6788886 6777766542   689999999987 443

>PRK14896 ksgA 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Provisional

Probab=97.68  E-value=0.00014  Score=63.20  Aligned_cols=79  Identities=13%  Similarity=0.224  Sum_probs=56.5

Q ss_pred             HHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC----CCCceEEecccCC-cCCCCcEE
Q 024350          182 EKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS----YPGIDHVGGDLFE-SVPKADTI  255 (269)
Q Consensus       182 ~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~----~~ri~~~~gD~~~-~~P~gD~~  255 (269)
                      ..+++..+ ..+..+|+|||||.|.++..++++.  .+++++|+ +..++.++.    .++|+++.+|+++ ++|..|.+
T Consensus        19 ~~iv~~~~-~~~~~~VLEIG~G~G~lt~~L~~~~--~~v~~vEid~~~~~~l~~~~~~~~~v~ii~~D~~~~~~~~~d~V   95 (258)
T PRK14896         19 DRIVEYAE-DTDGDPVLEIGPGKGALTDELAKRA--KKVYAIELDPRLAEFLRDDEIAAGNVEIIEGDALKVDLPEFNKV   95 (258)
T ss_pred             HHHHHhcC-CCCcCeEEEEeCccCHHHHHHHHhC--CEEEEEECCHHHHHHHHHHhccCCCEEEEEeccccCCchhceEE
Confidence            34555555 5556899999999999999999984  46888997 456655443    3789999999988 56654644


Q ss_pred             EeccccccC
Q 024350          256 FMKVICVCY  264 (269)
Q Consensus       256 ~l~~iLhd~  264 (269)
                       ++|.-+++
T Consensus        96 -v~NlPy~i  103 (258)
T PRK14896         96 -VSNLPYQI  103 (258)
T ss_pred             -EEcCCccc
Confidence             34544443

>TIGR00755 ksgA dimethyladenosine transferase

Probab=97.67  E-value=0.00011  Score=63.60  Aligned_cols=80  Identities=14%  Similarity=0.257  Sum_probs=58.0

Q ss_pred             HHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC----CCCceEEecccCC-cCCCCc--
Q 024350          182 EKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS----YPGIDHVGGDLFE-SVPKAD--  253 (269)
Q Consensus       182 ~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~----~~ri~~~~gD~~~-~~P~gD--  253 (269)
                      ..+++..+ +.+..+|+|||||.|.++..++++.+.  ++++|. +..++.++.    .++++++.+|+.+ +.++.|  
T Consensus        19 ~~i~~~~~-~~~~~~VLEiG~G~G~lt~~L~~~~~~--v~~iE~d~~~~~~l~~~~~~~~~v~v~~~D~~~~~~~~~d~~   95 (253)
T TIGR00755        19 QKIVEAAN-VLEGDVVLEIGPGLGALTEPLLKRAKK--VTAIEIDPRLAEILRKLLSLYERLEVIEGDALKVDLPDFPKQ   95 (253)
T ss_pred             HHHHHhcC-CCCcCEEEEeCCCCCHHHHHHHHhCCc--EEEEECCHHHHHHHHHHhCcCCcEEEEECchhcCChhHcCCc
Confidence            34555555 666789999999999999999999975  677786 555554433    3789999999988 555323  


Q ss_pred             EEEeccccccC
Q 024350          254 TIFMKVICVCY  264 (269)
Q Consensus       254 ~~~l~~iLhd~  264 (269)
                      .++++|+-+++
T Consensus        96 ~~vvsNlPy~i  106 (253)
T TIGR00755        96 LKVVSNLPYNI  106 (253)
T ss_pred             ceEEEcCChhh
Confidence            56666665444

Alternate name: S-adenosylmethionine--6-N',N'-adenosyl (rRNA) dimethyltransferase

>PRK11188 rrmJ 23S rRNA methyltransferase J; Provisional

Probab=97.64  E-value=0.00033  Score=58.85  Aligned_cols=75  Identities=20%  Similarity=0.263  Sum_probs=54.6

Q ss_pred             HHhccCCCCccEEEEeCCCchHHHHHHHHHC-CCCeEEEeehhHHHHhCCCCCCceEEecccCCc---------CCC-C-
Q 024350          185 LESYKGFEHVKKLVDVGGGLGATLNMIISKY-PHIKGINYDLLYVIKNAPSYPGIDHVGGDLFES---------VPK-A-  252 (269)
Q Consensus       185 ~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~-P~l~~vv~Dlp~vv~~a~~~~ri~~~~gD~~~~---------~P~-g-  252 (269)
                      .+.|..++...+|||||||+|.++..++++. |..+++.+|+-++    ...++|+++.+|+.++         .+. . 
T Consensus        43 ~~~~~~~~~~~~VLDlG~GtG~~t~~l~~~~~~~~~V~aVDi~~~----~~~~~v~~i~~D~~~~~~~~~i~~~~~~~~~  118 (209)
T PRK11188         43 QQSDKLFKPGMTVVDLGAAPGGWSQYAVTQIGDKGRVIACDILPM----DPIVGVDFLQGDFRDELVLKALLERVGDSKV  118 (209)
T ss_pred             HHHhccCCCCCEEEEEcccCCHHHHHHHHHcCCCceEEEEecccc----cCCCCcEEEecCCCChHHHHHHHHHhCCCCC
Confidence            3344423456799999999999999999987 4578999998652    2346799999999883         343 3 


Q ss_pred             cEEEecccccc
Q 024350          253 DTIFMKVICVC  263 (269)
Q Consensus       253 D~~~l~~iLhd  263 (269)
                      |+++..-..|.
T Consensus       119 D~V~S~~~~~~  129 (209)
T PRK11188        119 QVVMSDMAPNM  129 (209)
T ss_pred             CEEecCCCCcc
Confidence            98887554443

>TIGR03840 TMPT_Se_Te thiopurine S-methyltransferase, Se/Te detoxification family

Probab=97.62  E-value=0.00017  Score=60.81  Aligned_cols=74  Identities=11%  Similarity=0.127  Sum_probs=56.9

Q ss_pred             CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCC------------------CCCCceEEecccCCcCC--
Q 024350          192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAP------------------SYPGIDHVGGDLFESVP--  250 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~------------------~~~ri~~~~gD~~~~~P--  250 (269)
                      ....+++|+|||.|..+..|+++  ..++|.+|+ |..++.+.                  +..+|+++.+|+|+..+  
T Consensus        33 ~~~~rvLd~GCG~G~da~~LA~~--G~~V~gvD~S~~Ai~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~D~~~~~~~~  110 (213)
T TIGR03840        33 PAGARVFVPLCGKSLDLAWLAEQ--GHRVLGVELSEIAVEQFFAENGLTPTVTQQGEFTRYRAGNIEIFCGDFFALTAAD  110 (213)
T ss_pred             CCCCeEEEeCCCchhHHHHHHhC--CCeEEEEeCCHHHHHHHHHHcCCCcceeccccceeeecCceEEEEccCCCCCccc
Confidence            34579999999999999999976  788999997 66666531                  12479999999998332  


Q ss_pred             C-C-cEEEeccccccCCCC
Q 024350          251 K-A-DTIFMKVICVCYLNS  267 (269)
Q Consensus       251 ~-g-D~~~l~~iLhd~~d~  267 (269)
                      . . |.++-+.++|..+.+
T Consensus       111 ~~~fD~i~D~~~~~~l~~~  129 (213)
T TIGR03840       111 LGPVDAVYDRAALIALPEE  129 (213)
T ss_pred             CCCcCEEEechhhccCCHH
Confidence            2 3 999888888876543

Members of this family are thiopurine S-methyltransferase from a branch in which at least some member proteins can perform selenium methylation as a means to detoxify selenium, or perform a related detoxification of tellurium. Note that the EC number definition does not specify a particular thiopurine, but rather represents a class of activity.

>PRK00811 spermidine synthase; Provisional

Probab=97.62  E-value=7.7e-05  Score=65.63  Aligned_cols=67  Identities=24%  Similarity=0.326  Sum_probs=53.0

Q ss_pred             CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC-----------CCCceEEecccCCcC--CC-C-cEE
Q 024350          192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS-----------YPGIDHVGGDLFESV--PK-A-DTI  255 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~-----------~~ri~~~~gD~~~~~--P~-g-D~~  255 (269)
                      +++++|++||||.|..+.++++..+.-+++++|+ |.+++.+++           .+|++++.+|..+-+  ++ . |+|
T Consensus        75 ~~p~~VL~iG~G~G~~~~~~l~~~~~~~V~~VEid~~vv~~a~~~~~~~~~~~~~d~rv~v~~~Da~~~l~~~~~~yDvI  154 (283)
T PRK00811         75 PNPKRVLIIGGGDGGTLREVLKHPSVEKITLVEIDERVVEVCRKYLPEIAGGAYDDPRVELVIGDGIKFVAETENSFDVI  154 (283)
T ss_pred             CCCCEEEEEecCchHHHHHHHcCCCCCEEEEEeCCHHHHHHHHHHhHHhccccccCCceEEEECchHHHHhhCCCcccEE
Confidence            3568999999999999999997655568999998 778877654           378999999987732  33 3 999


Q ss_pred             Eec
Q 024350          256 FMK  258 (269)
Q Consensus       256 ~l~  258 (269)
                      ++-
T Consensus       155 i~D  157 (283)
T PRK00811        155 IVD  157 (283)
T ss_pred             EEC
Confidence            874

>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)

Probab=97.60  E-value=0.00016  Score=51.85  Aligned_cols=68  Identities=21%  Similarity=0.217  Sum_probs=54.0

Q ss_pred             EEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCC------CCCCceEEecccCCcC--C-CC-cEEEeccccccC
Q 024350          196 KLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAP------SYPGIDHVGGDLFESV--P-KA-DTIFMKVICVCY  264 (269)
Q Consensus       196 ~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~------~~~ri~~~~gD~~~~~--P-~g-D~~~l~~iLhd~  264 (269)
                      +++|||||.|..+..+++ .+..+.+++|+ +..+..++      ...++++..+|+.+..  + .. |++++...++.+
T Consensus         1 ~ildig~G~G~~~~~~~~-~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~i~~~~~~~~~   79 (107)
T cd02440           1 RVLDLGCGTGALALALAS-GPGARVTGVDISPVALELARKAAAALLADNVEVLKGDAEELPPEADESFDVIISDPPLHHL   79 (107)
T ss_pred             CeEEEcCCccHHHHHHhc-CCCCEEEEEeCCHHHHHHHHHHHhcccccceEEEEcChhhhccccCCceEEEEEccceeeh
Confidence            589999999999999998 77889999997 45554443      1378999999999843  2 34 999999998863

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.).

>PRK01581 speE spermidine synthase; Validated

Probab=97.56  E-value=0.00013  Score=65.72  Aligned_cols=67  Identities=21%  Similarity=0.172  Sum_probs=53.7

Q ss_pred             CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC-------------CCCceEEecccCCcCC---CC-c
Q 024350          192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS-------------YPGIDHVGGDLFESVP---KA-D  253 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~-------------~~ri~~~~gD~~~~~P---~g-D  253 (269)
                      .++++|++||||.|..++++++..|..+.+++|+ |.|++.|+.             .+|++++.+|.++-++   .. |
T Consensus       149 ~~PkrVLIIGgGdG~tlrelLk~~~v~~It~VEIDpeVIelAr~~~~L~~~~~~~~~DpRV~vvi~Da~~fL~~~~~~YD  228 (374)
T PRK01581        149 IDPKRVLILGGGDGLALREVLKYETVLHVDLVDLDGSMINMARNVPELVSLNKSAFFDNRVNVHVCDAKEFLSSPSSLYD  228 (374)
T ss_pred             CCCCEEEEECCCHHHHHHHHHhcCCCCeEEEEeCCHHHHHHHHhccccchhccccCCCCceEEEECcHHHHHHhcCCCcc
Confidence            4678999999999999999997655678999998 788887763             2799999999987332   23 9


Q ss_pred             EEEec
Q 024350          254 TIFMK  258 (269)
Q Consensus       254 ~~~l~  258 (269)
                      +|++-
T Consensus       229 VIIvD  233 (374)
T PRK01581        229 VIIID  233 (374)
T ss_pred             EEEEc
Confidence            98875

>PRK00312 pcm protein-L-isoaspartate O-methyltransferase; Reviewed

Probab=97.53  E-value=0.00036  Score=58.60  Aligned_cols=78  Identities=14%  Similarity=0.171  Sum_probs=56.9

Q ss_pred             HHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC------CCceEEecccCCcCCC-C--cE
Q 024350          185 LESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFESVPK-A--DT  254 (269)
Q Consensus       185 ~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~~~P~-g--D~  254 (269)
                      +..++ .....+|+|||||+|..+..+++...  +++.+|. |..++.+++.      ..|+++.+|+++..|. +  |+
T Consensus        71 ~~~l~-~~~~~~VLeiG~GsG~~t~~la~~~~--~v~~vd~~~~~~~~a~~~~~~~~~~~v~~~~~d~~~~~~~~~~fD~  147 (212)
T PRK00312         71 TELLE-LKPGDRVLEIGTGSGYQAAVLAHLVR--RVFSVERIKTLQWEAKRRLKQLGLHNVSVRHGDGWKGWPAYAPFDR  147 (212)
T ss_pred             HHhcC-CCCCCEEEEECCCccHHHHHHHHHhC--EEEEEeCCHHHHHHHHHHHHHCCCCceEEEECCcccCCCcCCCcCE
Confidence            34444 55668999999999999887777654  6788885 6666665542      5699999999886553 3  99


Q ss_pred             EEeccccccCC
Q 024350          255 IFMKVICVCYL  265 (269)
Q Consensus       255 ~~l~~iLhd~~  265 (269)
                      +++...++..+
T Consensus       148 I~~~~~~~~~~  158 (212)
T PRK00312        148 ILVTAAAPEIP  158 (212)
T ss_pred             EEEccCchhhh
Confidence            99887666543

>PRK11705 cyclopropane fatty acyl phospholipid synthase; Provisional

Probab=97.52  E-value=0.00033  Score=64.24  Aligned_cols=81  Identities=12%  Similarity=0.096  Sum_probs=60.5

Q ss_pred             HHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC---CCceEEecccCCcCCCC-cEEEe
Q 024350          183 KVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY---PGIDHVGGDLFESVPKA-DTIFM  257 (269)
Q Consensus       183 ~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~---~ri~~~~gD~~~~~P~g-D~~~l  257 (269)
                      .+++.++ .+...+|||||||.|.++..+++++ +.+++++|+ |..++.+++.   ..+++...|+.+ .+.. |+++.
T Consensus       158 ~l~~~l~-l~~g~rVLDIGcG~G~~a~~la~~~-g~~V~giDlS~~~l~~A~~~~~~l~v~~~~~D~~~-l~~~fD~Ivs  234 (383)
T PRK11705        158 LICRKLQ-LKPGMRVLDIGCGWGGLARYAAEHY-GVSVVGVTISAEQQKLAQERCAGLPVEIRLQDYRD-LNGQFDRIVS  234 (383)
T ss_pred             HHHHHhC-CCCCCEEEEeCCCccHHHHHHHHHC-CCEEEEEeCCHHHHHHHHHHhccCeEEEEECchhh-cCCCCCEEEE
Confidence            4555565 5666899999999999999998876 678999997 7777766542   347888888754 3433 99988


Q ss_pred             ccccccCCC
Q 024350          258 KVICVCYLN  266 (269)
Q Consensus       258 ~~iLhd~~d  266 (269)
                      ..+++..++
T Consensus       235 ~~~~ehvg~  243 (383)
T PRK11705        235 VGMFEHVGP  243 (383)
T ss_pred             eCchhhCCh
Confidence            877776544

>COG2227 UbiG 2-polyprenyl-3-methyl-5-hydroxy-6-metoxy-1,4-benzoquinol methylase [Coenzyme metabolism]

Probab=97.51  E-value=5.9e-05  Score=63.75  Aligned_cols=73  Identities=16%  Similarity=0.046  Sum_probs=56.5

Q ss_pred             ccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC---CC--ceEEecccCC-cCC-C-CcEEEeccccccC
Q 024350          194 VKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY---PG--IDHVGGDLFE-SVP-K-ADTIFMKVICVCY  264 (269)
Q Consensus       194 ~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~---~r--i~~~~gD~~~-~~P-~-gD~~~l~~iLhd~  264 (269)
                      ..+|||||||-|.++..+++.-  .+++..|. ++.|+.|+.+   ..  |++.+....+ ... + -|+|+.-.||++.
T Consensus        60 g~~vLDvGCGgG~Lse~mAr~G--a~VtgiD~se~~I~~Ak~ha~e~gv~i~y~~~~~edl~~~~~~FDvV~cmEVlEHv  137 (243)
T COG2227          60 GLRVLDVGCGGGILSEPLARLG--ASVTGIDASEKPIEVAKLHALESGVNIDYRQATVEDLASAGGQFDVVTCMEVLEHV  137 (243)
T ss_pred             CCeEEEecCCccHhhHHHHHCC--CeeEEecCChHHHHHHHHhhhhccccccchhhhHHHHHhcCCCccEEEEhhHHHcc
Confidence            3799999999999999999986  88899996 7888888764   22  3355444444 222 2 3999999999999


Q ss_pred             CCCC
Q 024350          265 LNSL  268 (269)
Q Consensus       265 ~d~~  268 (269)
                      +|++
T Consensus       138 ~dp~  141 (243)
T COG2227         138 PDPE  141 (243)
T ss_pred             CCHH
Confidence            9976

>COG2230 Cfa Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]

Probab=97.48  E-value=0.0004  Score=60.53  Aligned_cols=65  Identities=17%  Similarity=0.233  Sum_probs=52.3

Q ss_pred             HHHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC------C-CCceEEecccCC
Q 024350          181 MEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS------Y-PGIDHVGGDLFE  247 (269)
Q Consensus       181 ~~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~------~-~ri~~~~gD~~~  247 (269)
                      ...+++.+. ++...+|||||||-|.+++-.+++| +.+++++++ ++..+.+++      . ++|++.-.|+-+
T Consensus        61 ~~~~~~kl~-L~~G~~lLDiGCGWG~l~~~aA~~y-~v~V~GvTlS~~Q~~~~~~r~~~~gl~~~v~v~l~d~rd  133 (283)
T COG2230          61 LDLILEKLG-LKPGMTLLDIGCGWGGLAIYAAEEY-GVTVVGVTLSEEQLAYAEKRIAARGLEDNVEVRLQDYRD  133 (283)
T ss_pred             HHHHHHhcC-CCCCCEEEEeCCChhHHHHHHHHHc-CCEEEEeeCCHHHHHHHHHHHHHcCCCcccEEEeccccc
Confidence            356778887 8888999999999999999999999 999999997 555555443      1 578887777654

>PHA03412 putative methyltransferase; Provisional

Probab=97.47  E-value=0.00032  Score=59.67  Aligned_cols=65  Identities=14%  Similarity=0.162  Sum_probs=52.0

Q ss_pred             ccEEEEeCCCchHHHHHHHHHC---CCCeEEEeeh-hHHHHhCCCC-CCceEEecccCC-cCCCC-cEEEec
Q 024350          194 VKKLVDVGGGLGATLNMIISKY---PHIKGINYDL-LYVIKNAPSY-PGIDHVGGDLFE-SVPKA-DTIFMK  258 (269)
Q Consensus       194 ~~~vvDvGGG~G~~~~~l~~~~---P~l~~vv~Dl-p~vv~~a~~~-~ri~~~~gD~~~-~~P~g-D~~~l~  258 (269)
                      ..+|||+|||+|.++..++++.   +..+++.+|+ |..++.++.. .+++++.+|++. +.+.- |+++..
T Consensus        50 ~grVLDlG~GSG~Lalala~~~~~~~~~~V~aVEID~~Al~~Ar~n~~~~~~~~~D~~~~~~~~~FDlIIsN  121 (241)
T PHA03412         50 SGSVVDLCAGIGGLSFAMVHMMMYAKPREIVCVELNHTYYKLGKRIVPEATWINADALTTEFDTLFDMAISN  121 (241)
T ss_pred             CCEEEEccChHHHHHHHHHHhcccCCCcEEEEEECCHHHHHHHHhhccCCEEEEcchhcccccCCccEEEEC
Confidence            4699999999999999999875   4678999998 6777777765 789999999987 33333 887753

>PRK14968 putative methyltransferase; Provisional

Probab=97.46  E-value=0.00035  Score=57.06  Aligned_cols=67  Identities=21%  Similarity=0.346  Sum_probs=52.7

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-------CC-ceEEecccCCcCCC-C-cEEEecccc
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-------PG-IDHVGGDLFESVPK-A-DTIFMKVIC  261 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-------~r-i~~~~gD~~~~~P~-g-D~~~l~~iL  261 (269)
                      +..+++|+|||+|.++..++++  ..+++.+|+ |.+++.+++.       .+ ++++.+|+++++++ . |+++...-+
T Consensus        23 ~~~~vLd~G~G~G~~~~~l~~~--~~~v~~~D~s~~~~~~a~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~d~vi~n~p~  100 (188)
T PRK14968         23 KGDRVLEVGTGSGIVAIVAAKN--GKKVVGVDINPYAVECAKCNAKLNNIRNNGVEVIRSDLFEPFRGDKFDVILFNPPY  100 (188)
T ss_pred             CCCEEEEEccccCHHHHHHHhh--cceEEEEECCHHHHHHHHHHHHHcCCCCcceEEEeccccccccccCceEEEECCCc
Confidence            4578999999999999999988  678899998 6777766431       23 99999999987664 3 988876543

>PF02390 Methyltransf_4: Putative methyltransferase ; InterPro: IPR003358 This entry represents tRNA (guanine-N-7) methyltransferase (2

Probab=97.40  E-value=0.00027  Score=58.73  Aligned_cols=54  Identities=20%  Similarity=0.310  Sum_probs=43.0

Q ss_pred             ccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCC------CCCCceEEecccCC
Q 024350          194 VKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAP------SYPGIDHVGGDLFE  247 (269)
Q Consensus       194 ~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~------~~~ri~~~~gD~~~  247 (269)
                      ...+||||||.|.++.++++++|+..++++|. ...+..+.      ..+++.++.+|...
T Consensus        18 ~~l~lEIG~G~G~~l~~~A~~~Pd~n~iGiE~~~~~v~~a~~~~~~~~l~Nv~~~~~da~~   78 (195)
T PF02390_consen   18 NPLILEIGCGKGEFLIELAKRNPDINFIGIEIRKKRVAKALRKAEKRGLKNVRFLRGDARE   78 (195)
T ss_dssp             CEEEEEET-TTSHHHHHHHHHSTTSEEEEEES-HHHHHHHHHHHHHHTTSSEEEEES-CTT
T ss_pred             CCeEEEecCCCCHHHHHHHHHCCCCCEEEEecchHHHHHHHHHHHhhcccceEEEEccHHH
Confidence            35999999999999999999999999999996 44444332      24899999999876

1.1.33 from EC), which catalyses the formation of N(7)-methylguanine at position 46 (m7G46) in tRNA. Capping of the pre-mRNA 5' end by addition a monomethylated guanosine cap (m(7)G) is an essential and the earliest modification in the biogenesis of mRNA []. The reaction is catalysed by three enzymes: triphosphatase, guanylyltransferase, and tRNA (guanine-N-7) methyltransferase [, ].; GO: 0008176 tRNA (guanine-N7-)-methyltransferase activity, 0006400 tRNA modification; PDB: 3DXZ_A 3DXY_A 3DXX_A 3CKK_A 3P2I_B 3P2K_D 3P2E_A 3MTE_B 3PB3_B 1YZH_B ....

>PRK14967 putative methyltransferase; Provisional

Probab=97.39  E-value=0.00047  Score=58.42  Aligned_cols=67  Identities=16%  Similarity=0.155  Sum_probs=50.9

Q ss_pred             CCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-----CCceEEecccCCcCCC-C-cEEEec
Q 024350          191 FEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-----PGIDHVGGDLFESVPK-A-DTIFMK  258 (269)
Q Consensus       191 ~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-----~ri~~~~gD~~~~~P~-g-D~~~l~  258 (269)
                      .....+|+|+|||+|.++..+++. +..+++++|+ |..++.++++     -+++++.+|+++..+. . |++++.
T Consensus        34 ~~~~~~vLDlGcG~G~~~~~la~~-~~~~v~~vD~s~~~l~~a~~n~~~~~~~~~~~~~d~~~~~~~~~fD~Vi~n  108 (223)
T PRK14967         34 LGPGRRVLDLCTGSGALAVAAAAA-GAGSVTAVDISRRAVRSARLNALLAGVDVDVRRGDWARAVEFRPFDVVVSN  108 (223)
T ss_pred             cCCCCeEEEecCCHHHHHHHHHHc-CCCeEEEEECCHHHHHHHHHHHHHhCCeeEEEECchhhhccCCCeeEEEEC
Confidence            444579999999999999998876 3347899997 6667655442     3588999999886664 4 998875

>PRK13255 thiopurine S-methyltransferase; Reviewed

Probab=97.37  E-value=0.00052  Score=58.04  Aligned_cols=73  Identities=11%  Similarity=0.113  Sum_probs=56.4

Q ss_pred             CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCC------------------CCCCceEEecccCCcCCC-
Q 024350          192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAP------------------SYPGIDHVGGDLFESVPK-  251 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~------------------~~~ri~~~~gD~~~~~P~-  251 (269)
                      ....+|+|+|||.|..+..|+++  +.++|.+|+ |..++.+.                  ...+|++..+|+|+..+. 
T Consensus        36 ~~~~rvL~~gCG~G~da~~LA~~--G~~V~avD~s~~Ai~~~~~~~~l~~~~~~~~~~~~~~~~~v~~~~~D~~~l~~~~  113 (218)
T PRK13255         36 PAGSRVLVPLCGKSLDMLWLAEQ--GHEVLGVELSELAVEQFFAENGLTPQTRQSGEFEHYQAGEITIYCGDFFALTAAD  113 (218)
T ss_pred             CCCCeEEEeCCCChHhHHHHHhC--CCeEEEEccCHHHHHHHHHHcCCCccccccccccccccCceEEEECcccCCCccc
Confidence            34579999999999999999975  788999997 56666431                  126799999999985332 


Q ss_pred             -C--cEEEeccccccCCC
Q 024350          252 -A--DTIFMKVICVCYLN  266 (269)
Q Consensus       252 -g--D~~~l~~iLhd~~d  266 (269)
                       +  |+++=+.++|..+.
T Consensus       114 ~~~fd~v~D~~~~~~l~~  131 (218)
T PRK13255        114 LADVDAVYDRAALIALPE  131 (218)
T ss_pred             CCCeeEEEehHhHhhCCH
Confidence             3  89998888887664

>PRK13943 protein-L-isoaspartate O-methyltransferase; Provisional

Probab=97.36  E-value=0.00044  Score=61.85  Aligned_cols=79  Identities=19%  Similarity=0.253  Sum_probs=58.0

Q ss_pred             HHHhccCCCCccEEEEeCCCchHHHHHHHHHCCC-CeEEEeeh-hHHHHhCCC------CCCceEEecccCCcCCC--C-
Q 024350          184 VLESYKGFEHVKKLVDVGGGLGATLNMIISKYPH-IKGINYDL-LYVIKNAPS------YPGIDHVGGDLFESVPK--A-  252 (269)
Q Consensus       184 ~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~-l~~vv~Dl-p~vv~~a~~------~~ri~~~~gD~~~~~P~--g-  252 (269)
                      +++..+ .++..+|+|||||+|.++..+++..+. -+++.+|. |+.++.+++      .++|+++.+|..+..+.  . 
T Consensus        72 ll~~L~-i~~g~~VLDIG~GtG~~a~~LA~~~~~~g~VvgVDis~~~l~~Ar~~l~~~g~~nV~~i~gD~~~~~~~~~~f  150 (322)
T PRK13943         72 FMEWVG-LDKGMRVLEIGGGTGYNAAVMSRVVGEKGLVVSVEYSRKICEIAKRNVRRLGIENVIFVCGDGYYGVPEFAPY  150 (322)
T ss_pred             HHHhcC-CCCCCEEEEEeCCccHHHHHHHHhcCCCCEEEEEECCHHHHHHHHHHHHHcCCCcEEEEeCChhhcccccCCc
Confidence            344444 555679999999999999999998874 46788896 677766553      26799999998775442  3 


Q ss_pred             cEEEecccccc
Q 024350          253 DTIFMKVICVC  263 (269)
Q Consensus       253 D~~~l~~iLhd  263 (269)
                      |++++..-+++
T Consensus       151 D~Ii~~~g~~~  161 (322)
T PRK13943        151 DVIFVTVGVDE  161 (322)
T ss_pred             cEEEECCchHH
Confidence            99888655443

>PRK04266 fibrillarin; Provisional

Probab=97.35  E-value=0.00093  Score=56.82  Aligned_cols=68  Identities=15%  Similarity=0.157  Sum_probs=51.7

Q ss_pred             ccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHH----hCCCCCCceEEecccCCc-----CCCC-cEEE
Q 024350          188 YKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIK----NAPSYPGIDHVGGDLFES-----VPKA-DTIF  256 (269)
Q Consensus       188 ~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~----~a~~~~ri~~~~gD~~~~-----~P~g-D~~~  256 (269)
                      ++ .+...+|+|+|||+|.++..+++..+.-+++.+|+ |..++    .+++.++|.++.+|...+     +++. |+++
T Consensus        68 l~-i~~g~~VlD~G~G~G~~~~~la~~v~~g~V~avD~~~~ml~~l~~~a~~~~nv~~i~~D~~~~~~~~~l~~~~D~i~  146 (226)
T PRK04266         68 FP-IKKGSKVLYLGAASGTTVSHVSDIVEEGVVYAVEFAPRPMRELLEVAEERKNIIPILADARKPERYAHVVEKVDVIY  146 (226)
T ss_pred             CC-CCCCCEEEEEccCCCHHHHHHHHhcCCCeEEEEECCHHHHHHHHHHhhhcCCcEEEECCCCCcchhhhccccCCEEE
Confidence            45 55667999999999999999999998667899997 65554    444457899999998653     2333 7776

>PRK05134 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional

Probab=97.33  E-value=0.00062  Score=57.86  Aligned_cols=72  Identities=18%  Similarity=0.016  Sum_probs=53.4

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC-----CCCceEEecccCC-c-CC-CC-cEEEeccccc
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS-----YPGIDHVGGDLFE-S-VP-KA-DTIFMKVICV  262 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~-----~~ri~~~~gD~~~-~-~P-~g-D~~~l~~iLh  262 (269)
                      ...+|+|||||.|.++..+++.  ..++++.|. +..++.+++     ..+++++..|+.+ + .+ .. |++++.++++
T Consensus        48 ~~~~vLdiG~G~G~~~~~l~~~--~~~v~~iD~s~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~fD~Ii~~~~l~  125 (233)
T PRK05134         48 FGKRVLDVGCGGGILSESMARL--GADVTGIDASEENIEVARLHALESGLKIDYRQTTAEELAAEHPGQFDVVTCMEMLE  125 (233)
T ss_pred             CCCeEEEeCCCCCHHHHHHHHc--CCeEEEEcCCHHHHHHHHHHHHHcCCceEEEecCHHHhhhhcCCCccEEEEhhHhh
Confidence            4578999999999999988876  467899997 455555543     2457788887765 2 23 33 9999999999


Q ss_pred             cCCC
Q 024350          263 CYLN  266 (269)
Q Consensus       263 d~~d  266 (269)
                      ..++
T Consensus       126 ~~~~  129 (233)
T PRK05134        126 HVPD  129 (233)
T ss_pred             ccCC
Confidence            8765

>PRK03612 spermidine synthase; Provisional

Probab=97.33  E-value=0.00039  Score=66.36  Aligned_cols=66  Identities=24%  Similarity=0.412  Sum_probs=53.7

Q ss_pred             CCccEEEEeCCCchHHHHHHHHHCCC-CeEEEeeh-hHHHHhCCC-------------CCCceEEecccCCc---CCCC-
Q 024350          192 EHVKKLVDVGGGLGATLNMIISKYPH-IKGINYDL-LYVIKNAPS-------------YPGIDHVGGDLFES---VPKA-  252 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~~P~-l~~vv~Dl-p~vv~~a~~-------------~~ri~~~~gD~~~~---~P~g-  252 (269)
                      +++++|+|||||.|..+.++++ +|. -+++++|+ |++++.+++             .+|++++.+|.++-   .++. 
T Consensus       296 ~~~~rVL~IG~G~G~~~~~ll~-~~~v~~v~~VEid~~vi~~ar~~~~l~~~~~~~~~dprv~vi~~Da~~~l~~~~~~f  374 (521)
T PRK03612        296 ARPRRVLVLGGGDGLALREVLK-YPDVEQVTLVDLDPAMTELARTSPALRALNGGALDDPRVTVVNDDAFNWLRKLAEKF  374 (521)
T ss_pred             CCCCeEEEEcCCccHHHHHHHh-CCCcCeEEEEECCHHHHHHHHhCCcchhhhccccCCCceEEEEChHHHHHHhCCCCC
Confidence            4578999999999999999996 566 68999998 889988765             16899999998872   3344 


Q ss_pred             cEEEec
Q 024350          253 DTIFMK  258 (269)
Q Consensus       253 D~~~l~  258 (269)
                      |+|++.
T Consensus       375 DvIi~D  380 (521)
T PRK03612        375 DVIIVD  380 (521)
T ss_pred             CEEEEe
Confidence            998764

>PF03848 TehB: Tellurite resistance protein TehB; InterPro: IPR015985 Tellurite resistance protein TehB is part of a tellurite-reducing operon tehA and tehB

Probab=97.32  E-value=0.00063  Score=56.24  Aligned_cols=82  Identities=21%  Similarity=0.238  Sum_probs=55.7

Q ss_pred             HHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC-----CCCceEEecccCC-cCCCC-cE
Q 024350          183 KVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS-----YPGIDHVGGDLFE-SVPKA-DT  254 (269)
Q Consensus       183 ~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~-----~~ri~~~~gD~~~-~~P~g-D~  254 (269)
                      .+++.++ .-+..++||||||.|..+.-|+++  +..++.+|. +..++.+..     .-.|+....|+.+ .+|+. |+
T Consensus        21 ~v~~a~~-~~~~g~~LDlgcG~GRNalyLA~~--G~~VtAvD~s~~al~~l~~~a~~~~l~i~~~~~Dl~~~~~~~~yD~   97 (192)
T PF03848_consen   21 EVLEAVP-LLKPGKALDLGCGEGRNALYLASQ--GFDVTAVDISPVALEKLQRLAEEEGLDIRTRVADLNDFDFPEEYDF   97 (192)
T ss_dssp             HHHHHCT-TS-SSEEEEES-TTSHHHHHHHHT--T-EEEEEESSHHHHHHHHHHHHHTT-TEEEEE-BGCCBS-TTTEEE
T ss_pred             HHHHHHh-hcCCCcEEEcCCCCcHHHHHHHHC--CCeEEEEECCHHHHHHHHHHHhhcCceeEEEEecchhccccCCcCE
Confidence            3556666 445789999999999999999998  778899997 444443322     2238899999988 56655 99


Q ss_pred             EEeccccccCCCC
Q 024350          255 IFMKVICVCYLNS  267 (269)
Q Consensus       255 ~~l~~iLhd~~d~  267 (269)
                      |+..-|++..+.+
T Consensus        98 I~st~v~~fL~~~  110 (192)
T PF03848_consen   98 IVSTVVFMFLQRE  110 (192)
T ss_dssp             EEEESSGGGS-GG
T ss_pred             EEEEEEeccCCHH
Confidence            8877777766543

When present in high copy number, TehB is responsible for potassium tellurite resistance, probably by increasing the reduction rate of tellurite to metallic tellurium within the bacterium. TehB is a cytoplasmic protein which possesses three conserved motifs (I, II, and III) found in S-adenosyl-L-methionine (SAM)-dependent non-nucleic acid methyltransferases []. Conformational changes in TehB are observed upon binding of both tellurite and SAM, suggesting that TehB utilises a methyltransferase activity in the detoxification of tellurite. This entry represents the methyltransferase domain found in all TehB proteins.; PDB: 2KW5_A 3MER_B 3M70_A 2I6G_A 4DQ0_D 2XVA_B 2XVM_A.

>PF02353 CMAS: Mycolic acid cyclopropane synthetase; InterPro: IPR003333 This entry represents mycolic acid cyclopropane synthases and related enzymes, including CmaA1, CmaA2 (cyclopropane mycolic acid synthase A1 and A2) and MmaA1-4 (methoxymycolic acid synthase A1-4)

Probab=97.31  E-value=0.00036  Score=61.08  Aligned_cols=77  Identities=16%  Similarity=0.170  Sum_probs=49.7

Q ss_pred             HHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC-------CCCceEEecccCCcCCCC-
Q 024350          182 EKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS-------YPGIDHVGGDLFESVPKA-  252 (269)
Q Consensus       182 ~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~-------~~ri~~~~gD~~~~~P~g-  252 (269)
                      ..+++..+ ++...+|||||||-|.++..++++| +++++++.+ ++..+.+++       .++|++.-.|+.+ ++.. 
T Consensus        52 ~~~~~~~~-l~~G~~vLDiGcGwG~~~~~~a~~~-g~~v~gitlS~~Q~~~a~~~~~~~gl~~~v~v~~~D~~~-~~~~f  128 (273)
T PF02353_consen   52 DLLCEKLG-LKPGDRVLDIGCGWGGLAIYAAERY-GCHVTGITLSEEQAEYARERIREAGLEDRVEVRLQDYRD-LPGKF  128 (273)
T ss_dssp             HHHHTTTT---TT-EEEEES-TTSHHHHHHHHHH---EEEEEES-HHHHHHHHHHHHCSTSSSTEEEEES-GGG----S-
T ss_pred             HHHHHHhC-CCCCCEEEEeCCCccHHHHHHHHHc-CcEEEEEECCHHHHHHHHHHHHhcCCCCceEEEEeeccc-cCCCC
Confidence            45667776 7778999999999999999999999 899999987 444444322       2789999999865 4433 


Q ss_pred             cEEEecccc
Q 024350          253 DTIFMKVIC  261 (269)
Q Consensus       253 D~~~l~~iL  261 (269)
                      |.++---.+
T Consensus       129 D~IvSi~~~  137 (273)
T PF02353_consen  129 DRIVSIEMF  137 (273)
T ss_dssp             SEEEEESEG
T ss_pred             CEEEEEech
Confidence            655443333

All are thought to be S-adenosyl-L-methionine (SAM) utilising methyltransferases []. Mycolic acid cyclopropane synthase or cyclopropane-fatty-acyl-phospholipid synthase (CFA synthase) 2.1.1.79 from EC catalyses the reaction: S-adenosyl-L-methionine + phospholipid olefinic fatty acid -> S-adenosyl-L-homocysteine + phospholipid cyclopropane fatty acid. The major mycolic acid produced by Mycobacterium tuberculosis contains two cis-cyclopropanes in the meromycolate chain. Cyclopropanation may contribute to the structural integrity of the cell wall complex [].; GO: 0008610 lipid biosynthetic process; PDB: 3HA5_A 2FK8_A 3HA7_A 3HA3_A 2FK7_A 1KPG_D 1KP9_B 1KPH_D 3VC2_E 3VC1_D ....

>PRK00377 cbiT cobalt-precorrin-6Y C(15)-methyltransferase; Provisional

Probab=97.30  E-value=0.00073  Score=56.14  Aligned_cols=72  Identities=18%  Similarity=0.144  Sum_probs=54.4

Q ss_pred             HhccCCCCccEEEEeCCCchHHHHHHHHHC-CCCeEEEeeh-hHHHHhCCC-------CCCceEEecccCCcCC---C-C
Q 024350          186 ESYKGFEHVKKLVDVGGGLGATLNMIISKY-PHIKGINYDL-LYVIKNAPS-------YPGIDHVGGDLFESVP---K-A  252 (269)
Q Consensus       186 ~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~-P~l~~vv~Dl-p~vv~~a~~-------~~ri~~~~gD~~~~~P---~-g  252 (269)
                      ..++ .....+++|+|||+|.++..+++.. |..+++.+|+ |..++.+++       .++++++.+|+.+..+   . .
T Consensus        34 ~~l~-~~~~~~vlDlG~GtG~~s~~~a~~~~~~~~v~avD~~~~~~~~a~~n~~~~g~~~~v~~~~~d~~~~l~~~~~~~  112 (198)
T PRK00377         34 SKLR-LRKGDMILDIGCGTGSVTVEASLLVGETGKVYAVDKDEKAINLTRRNAEKFGVLNNIVLIKGEAPEILFTINEKF  112 (198)
T ss_pred             HHcC-CCCcCEEEEeCCcCCHHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHHHHhCCCCCeEEEEechhhhHhhcCCCC
Confidence            3444 5566899999999999999998764 6789999998 777776543       2679999999876222   2 3


Q ss_pred             cEEEec
Q 024350          253 DTIFMK  258 (269)
Q Consensus       253 D~~~l~  258 (269)
                      |++++.
T Consensus       113 D~V~~~  118 (198)
T PRK00377        113 DRIFIG  118 (198)
T ss_pred             CEEEEC
Confidence            888873

>PLN02672 methionine S-methyltransferase

Probab=97.29  E-value=0.00052  Score=69.99  Aligned_cols=56  Identities=21%  Similarity=0.196  Sum_probs=47.9

Q ss_pred             cEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC----------------------CCCceEEecccCCcCC
Q 024350          195 KKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS----------------------YPGIDHVGGDLFESVP  250 (269)
Q Consensus       195 ~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~----------------------~~ri~~~~gD~~~~~P  250 (269)
                      .+|+|||||+|.+++.+++++|+.+++.+|+ |..++.++.                      .+||+++.+|+++..+
T Consensus       120 ~~VLDlG~GSG~Iai~La~~~~~~~v~avDis~~Al~~A~~Na~~n~l~~~~~~~~~~~~~~l~~rV~f~~sDl~~~~~  198 (1082)
T PLN02672        120 KTVAELGCGNGWISIAIAEKWLPSKVYGLDINPRAVKVAWINLYLNALDDDGLPVYDGEGKTLLDRVEFYESDLLGYCR  198 (1082)
T ss_pred             CEEEEEecchHHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHHHcCcccccccccccccccccccEEEEECchhhhcc
Confidence            5899999999999999999999999999997 777766532                      1489999999998654

>PTZ00338 dimethyladenosine transferase-like protein; Provisional

Probab=97.24  E-value=0.0011  Score=58.69  Aligned_cols=78  Identities=14%  Similarity=0.254  Sum_probs=54.9

Q ss_pred             HHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC-------CCCceEEecccCC-cCCCCc
Q 024350          183 KVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS-------YPGIDHVGGDLFE-SVPKAD  253 (269)
Q Consensus       183 ~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~-------~~ri~~~~gD~~~-~~P~gD  253 (269)
                      .+++..+ .....+|+|||||.|.+...++++..  +++.+|+ +..++.+++       .++++++.+|+.+ +.++-|
T Consensus        27 ~Iv~~~~-~~~~~~VLEIG~G~G~LT~~Ll~~~~--~V~avEiD~~li~~l~~~~~~~~~~~~v~ii~~Dal~~~~~~~d  103 (294)
T PTZ00338         27 KIVEKAA-IKPTDTVLEIGPGTGNLTEKLLQLAK--KVIAIEIDPRMVAELKKRFQNSPLASKLEVIEGDALKTEFPYFD  103 (294)
T ss_pred             HHHHhcC-CCCcCEEEEecCchHHHHHHHHHhCC--cEEEEECCHHHHHHHHHHHHhcCCCCcEEEEECCHhhhcccccC
Confidence            4555555 55567999999999999999999854  5788887 555554432       3689999999987 555446


Q ss_pred             EEEeccccccC
Q 024350          254 TIFMKVICVCY  264 (269)
Q Consensus       254 ~~~l~~iLhd~  264 (269)
                      +++ .+.-+++
T Consensus       104 ~Vv-aNlPY~I  113 (294)
T PTZ00338        104 VCV-ANVPYQI  113 (294)
T ss_pred             EEE-ecCCccc
Confidence            543 4444443

>TIGR00438 rrmJ cell division protein FtsJ

Probab=97.24  E-value=0.0012  Score=54.33  Aligned_cols=69  Identities=17%  Similarity=0.291  Sum_probs=51.9

Q ss_pred             HhccCCCCccEEEEeCCCchHHHHHHHHHC-CCCeEEEeehhHHHHhCCCCCCceEEecccCCc---------CCC-C-c
Q 024350          186 ESYKGFEHVKKLVDVGGGLGATLNMIISKY-PHIKGINYDLLYVIKNAPSYPGIDHVGGDLFES---------VPK-A-D  253 (269)
Q Consensus       186 ~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~-P~l~~vv~Dlp~vv~~a~~~~ri~~~~gD~~~~---------~P~-g-D  253 (269)
                      +.+.......+|+|||||+|.++..+++++ +..+++++|+.+..    ..++++++.+|+.++         .|. + |
T Consensus        25 ~~~~~i~~g~~VLDiG~GtG~~~~~l~~~~~~~~~v~~vDis~~~----~~~~i~~~~~d~~~~~~~~~l~~~~~~~~~D  100 (188)
T TIGR00438        25 QKFKLIKPGDTVLDLGAAPGGWSQVAVEQVGGKGRVIAVDLQPMK----PIENVDFIRGDFTDEEVLNKIRERVGDDKVD  100 (188)
T ss_pred             HHhcccCCCCEEEEecCCCCHHHHHHHHHhCCCceEEEEeccccc----cCCCceEEEeeCCChhHHHHHHHHhCCCCcc
Confidence            334334566899999999999999999887 66789999986532    346789999998762         343 4 9


Q ss_pred             EEEec
Q 024350          254 TIFMK  258 (269)
Q Consensus       254 ~~~l~  258 (269)
                      +++..
T Consensus       101 ~V~~~  105 (188)
T TIGR00438       101 VVMSD  105 (188)
T ss_pred             EEEcC
Confidence            98874

>PF09339 HTH_IclR: IclR helix-turn-helix domain; InterPro: IPR005471 The many bacterial transcription regulation proteins which bind DNA through a 'helix-turn-helix' motif can be classified into subfamilies on the basis of sequence similarities

Probab=97.22  E-value=0.00022  Score=45.96  Aligned_cols=44  Identities=27%  Similarity=0.479  Sum_probs=38.3

Q ss_pred             cChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCccc
Q 024350           36 LDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALH   88 (269)
Q Consensus        36 lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~   88 (269)
                      +.|++.|...+  +++|+.|||+++|++      .. .+.|+|..|+..|++.
T Consensus         6 l~iL~~l~~~~--~~~t~~eia~~~gl~------~s-tv~r~L~tL~~~g~v~   49 (52)
T PF09339_consen    6 LRILEALAESG--GPLTLSEIARALGLP------KS-TVHRLLQTLVEEGYVE   49 (52)
T ss_dssp             HHHHHCHHCTB--SCEEHHHHHHHHTS-------HH-HHHHHHHHHHHTTSEE
T ss_pred             HHHHHHHHcCC--CCCCHHHHHHHHCcC------HH-HHHHHHHHHHHCcCee
Confidence            45788888875  678999999999997      56 8999999999999999

One of these subfamilies, called 'iclR', groups several proteins including: gylR, a possible activator protein for the gylABX glycerol operon in Streptomyces. iclR, the repressor of the acetate operon (also known as glyoxylate bypass operon) in Escherichia coli and Salmonella typhimurium. These proteins have a Helix-Turn-Helix motif at the N terminus that is similar to that of other DNA-binding proteins [].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1MKM_A 3MQ0_A 3R4K_A 2G7U_C 2O0Y_C 2XRO_F 2XRN_B 2IA2_D.

>smart00346 HTH_ICLR helix_turn_helix isocitrate lyase regulation

Probab=97.19  E-value=0.00086  Score=48.24  Aligned_cols=59  Identities=19%  Similarity=0.316  Sum_probs=47.9

Q ss_pred             hcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhc
Q 024350           35 ELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVS  104 (269)
Q Consensus        35 ~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s  104 (269)
                      -+.|++.|...+  +++|..|||+.+|++      .. .+.|+|+.|...|++...  ...+.|++++..
T Consensus         7 ~~~Il~~l~~~~--~~~t~~~ia~~l~i~------~~-tv~r~l~~L~~~g~l~~~--~~~~~y~l~~~~   65 (91)
T smart00346        7 GLAVLRALAEEP--GGLTLAELAERLGLS------KS-TAHRLLNTLQELGYVEQD--GQNGRYRLGPKV   65 (91)
T ss_pred             HHHHHHHHHhCC--CCcCHHHHHHHhCCC------HH-HHHHHHHHHHHCCCeeec--CCCCceeecHHH
Confidence            356788888753  489999999999997      67 999999999999999942  235789987743

>COG0421 SpeE Spermidine synthase [Amino acid transport and metabolism]

Probab=97.19  E-value=0.00059  Score=59.81  Aligned_cols=67  Identities=24%  Similarity=0.331  Sum_probs=55.8

Q ss_pred             CCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC----------CCCceEEecccCCc---CCCC-cEE
Q 024350          191 FEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS----------YPGIDHVGGDLFES---VPKA-DTI  255 (269)
Q Consensus       191 ~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~----------~~ri~~~~gD~~~~---~P~g-D~~  255 (269)
                      .+++++||=||||.|..++++++..+--+.|++|+ |.|++.+++          .+|++.+.+|-++-   .+.. |+|
T Consensus        74 h~~pk~VLiiGgGdG~tlRevlkh~~ve~i~~VEID~~Vi~~ar~~l~~~~~~~~dpRv~i~i~Dg~~~v~~~~~~fDvI  153 (282)
T COG0421          74 HPNPKRVLIIGGGDGGTLREVLKHLPVERITMVEIDPAVIELARKYLPEPSGGADDPRVEIIIDDGVEFLRDCEEKFDVI  153 (282)
T ss_pred             CCCCCeEEEECCCccHHHHHHHhcCCcceEEEEEcCHHHHHHHHHhccCcccccCCCceEEEeccHHHHHHhCCCcCCEE
Confidence            34567999999999999999999999889999998 889988765          28999999998872   3434 887


Q ss_pred             Ee
Q 024350          256 FM  257 (269)
Q Consensus       256 ~l  257 (269)
                      ++
T Consensus       154 i~  155 (282)
T COG0421         154 IV  155 (282)
T ss_pred             EE
Confidence            65

>TIGR01983 UbiG ubiquinone biosynthesis O-methyltransferase

Probab=97.18  E-value=0.00055  Score=57.69  Aligned_cols=73  Identities=15%  Similarity=0.025  Sum_probs=54.6

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC------CCceEEecccCC-cC--CCC-cEEEecccc
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFE-SV--PKA-DTIFMKVIC  261 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~-~~--P~g-D~~~l~~iL  261 (269)
                      ...+|+|||||+|.++..+++..+  ++++.|+ |.+++.++..      .++++...|+.+ +.  +.. |++++.+++
T Consensus        45 ~~~~vLdlG~G~G~~~~~l~~~~~--~v~~iD~s~~~~~~a~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~D~i~~~~~l  122 (224)
T TIGR01983        45 FGLRVLDVGCGGGLLSEPLARLGA--NVTGIDASEENIEVAKLHAKKDPLLKIEYRCTSVEDLAEKGAKSFDVVTCMEVL  122 (224)
T ss_pred             CCCeEEEECCCCCHHHHHHHhcCC--eEEEEeCCHHHHHHHHHHHHHcCCCceEEEeCCHHHhhcCCCCCccEEEehhHH
Confidence            357899999999999999988754  4888997 5566655431      268888888765 22  233 999999999


Q ss_pred             ccCCCC
Q 024350          262 VCYLNS  267 (269)
Q Consensus       262 hd~~d~  267 (269)
                      |...+.
T Consensus       123 ~~~~~~  128 (224)
T TIGR01983       123 EHVPDP  128 (224)
T ss_pred             HhCCCH
Confidence            987653

This model represents an O-methyltransferase believed to act at two points in the ubiquinone biosynthetic pathway in bacteria (UbiG) and fungi (COQ3). A separate methylase (MenG/UbiE) catalyzes the single C-methylation step. The most commonly used names for genes in this family do not indicate whether this gene is an O-methyl, or C-methyl transferase.

>PRK00050 16S rRNA m(4)C1402 methyltranserfase; Provisional

Probab=97.15  E-value=0.0011  Score=58.51  Aligned_cols=65  Identities=18%  Similarity=0.139  Sum_probs=53.7

Q ss_pred             HHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCC-CCeEEEeeh-hHHHHhCCCC----CCceEEecccCC
Q 024350          182 EKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYP-HIKGINYDL-LYVIKNAPSY----PGIDHVGGDLFE  247 (269)
Q Consensus       182 ~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P-~l~~vv~Dl-p~vv~~a~~~----~ri~~~~gD~~~  247 (269)
                      ..+++.+. ......+||++||.|.++..++++.| +.+++.+|. |.+++.+++.    +||+++.+||-+
T Consensus         9 ~Evl~~L~-~~pg~~vlD~TlG~GGhS~~il~~~~~~g~VigiD~D~~al~~ak~~L~~~~ri~~i~~~f~~   79 (296)
T PRK00050          9 DEVVDALA-IKPDGIYVDGTFGGGGHSRAILERLGPKGRLIAIDRDPDAIAAAKDRLKPFGRFTLVHGNFSN   79 (296)
T ss_pred             HHHHHhhC-CCCCCEEEEeCcCChHHHHHHHHhCCCCCEEEEEcCCHHHHHHHHHhhccCCcEEEEeCCHHH
Confidence            45666665 44456999999999999999999996 789999997 7888777642    589999999986

>smart00550 Zalpha Z-DNA-binding domain in adenosine deaminases

Probab=97.15  E-value=0.0013  Score=45.04  Aligned_cols=60  Identities=17%  Similarity=0.235  Sum_probs=48.4

Q ss_pred             HHhcChhHHHHhcCCCC-CCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecCh
Q 024350           33 VVELDVFEIITKAGPGA-KLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAP  102 (269)
Q Consensus        33 a~~lglfd~L~~~g~~~-~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~  102 (269)
                      ..+-.|++.|...|  + ++|+.|||+.+|++      .. .+.|+|.-|...|+|++.. ..++.|.++.
T Consensus         6 ~~~~~IL~~L~~~g--~~~~ta~eLa~~lgl~------~~-~v~r~L~~L~~~G~V~~~~-~~~~~W~i~~   66 (68)
T smart00550        6 SLEEKILEFLENSG--DETSTALQLAKNLGLP------KK-EVNRVLYSLEKKGKVCKQG-GTPPLWKLTD   66 (68)
T ss_pred             HHHHHHHHHHHHCC--CCCcCHHHHHHHHCCC------HH-HHHHHHHHHHHCCCEEecC-CCCCceEeec
Confidence            45667889999875  3 39999999999997      56 9999999999999999532 1347888764

Helix-turn-helix-containing domain. Also known as Zab.

>PRK04148 hypothetical protein; Provisional

Probab=97.13  E-value=0.0016  Score=50.52  Aligned_cols=70  Identities=21%  Similarity=0.305  Sum_probs=49.5

Q ss_pred             HHHhccCCCCccEEEEeCCCchH-HHHHHHHHCCCCeEEEeeh-hHHHHhCCCCCCceEEecccCCcCCC---C-cEEEe
Q 024350          184 VLESYKGFEHVKKLVDVGGGLGA-TLNMIISKYPHIKGINYDL-LYVIKNAPSYPGIDHVGGDLFESVPK---A-DTIFM  257 (269)
Q Consensus       184 ~~~~~~~~~~~~~vvDvGGG~G~-~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~~ri~~~~gD~~~~~P~---g-D~~~l  257 (269)
                      +.+.++ -.+..+++|||+|.|. ++..|.+.  +..++..|. |..++.++. ..++++.+|+|++=++   + |+++-
T Consensus         8 l~~~~~-~~~~~kileIG~GfG~~vA~~L~~~--G~~ViaIDi~~~aV~~a~~-~~~~~v~dDlf~p~~~~y~~a~liys   83 (134)
T PRK04148          8 IAENYE-KGKNKKIVELGIGFYFKVAKKLKES--GFDVIVIDINEKAVEKAKK-LGLNAFVDDLFNPNLEIYKNAKLIYS   83 (134)
T ss_pred             HHHhcc-cccCCEEEEEEecCCHHHHHHHHHC--CCEEEEEECCHHHHHHHHH-hCCeEEECcCCCCCHHHHhcCCEEEE
Confidence            334444 2234789999999996 77777754  568899997 777766643 3578999999996443   4 76543

>KOG1271 consensus Methyltransferases [General function prediction only]

Probab=97.13  E-value=0.0011  Score=53.78  Aligned_cols=68  Identities=18%  Similarity=0.183  Sum_probs=46.1

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEee-hhHHHHhCCC------C-CCceEEecccCCc--CCCC-cEEEeccc
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYD-LLYVIKNAPS------Y-PGIDHVGGDLFES--VPKA-DTIFMKVI  260 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~D-lp~vv~~a~~------~-~ri~~~~gD~~~~--~P~g-D~~~l~~i  260 (269)
                      ...+|||+|||.|+++..|++.-=.-+.+++| .+..|+.|+.      . +.|+|+..|+++|  .+.- |+++=+-.
T Consensus        67 ~A~~VlDLGtGNG~~L~~L~~egf~~~L~GvDYs~~AV~LA~niAe~~~~~n~I~f~q~DI~~~~~~~~qfdlvlDKGT  145 (227)
T KOG1271|consen   67 QADRVLDLGTGNGHLLFQLAKEGFQSKLTGVDYSEKAVELAQNIAERDGFSNEIRFQQLDITDPDFLSGQFDLVLDKGT  145 (227)
T ss_pred             cccceeeccCCchHHHHHHHHhcCCCCccccccCHHHHHHHHHHHHhcCCCcceeEEEeeccCCcccccceeEEeecCc
Confidence            34599999999999999998864332346666 3556655432      2 4599999999985  2222 77664443

>PLN02823 spermine synthase

Probab=97.10  E-value=0.00081  Score=60.49  Aligned_cols=67  Identities=18%  Similarity=0.203  Sum_probs=54.3

Q ss_pred             CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC----------CCCceEEecccCCcCC---CC-cEEE
Q 024350          192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS----------YPGIDHVGGDLFESVP---KA-DTIF  256 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~----------~~ri~~~~gD~~~~~P---~g-D~~~  256 (269)
                      +++++||-||||.|..++++++..+.-+.+++|+ |.|++.+++          .+|++++.+|.++-+.   +. |+|+
T Consensus       102 ~~pk~VLiiGgG~G~~~re~l~~~~~~~v~~VEiD~~vv~lar~~~~~~~~~~~dprv~v~~~Da~~~L~~~~~~yDvIi  181 (336)
T PLN02823        102 PNPKTVFIMGGGEGSTAREVLRHKTVEKVVMCDIDQEVVDFCRKHLTVNREAFCDKRLELIINDARAELEKRDEKFDVII  181 (336)
T ss_pred             CCCCEEEEECCCchHHHHHHHhCCCCCeEEEEECCHHHHHHHHHhcccccccccCCceEEEEChhHHHHhhCCCCccEEE
Confidence            3568999999999999999998777778999998 788887764          2799999999887322   33 9988


Q ss_pred             ec
Q 024350          257 MK  258 (269)
Q Consensus       257 l~  258 (269)
                      +-
T Consensus       182 ~D  183 (336)
T PLN02823        182 GD  183 (336)
T ss_pred             ec
Confidence            75

>TIGR00406 prmA ribosomal protein L11 methyltransferase

Probab=97.08  E-value=0.0011  Score=58.58  Aligned_cols=87  Identities=21%  Similarity=0.245  Sum_probs=55.0

Q ss_pred             HHHHHHHhhchhhHHHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-------CCce
Q 024350          168 VFSNGMLSHTSIVMEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-------PGID  239 (269)
Q Consensus       168 ~f~~~m~~~~~~~~~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-------~ri~  239 (269)
                      .|..+.+.++.... .++..+. . ...+|+|||||+|.++..+++. +.-+++.+|+ |..++.++++       .++.
T Consensus       137 aFgtG~h~tt~l~l-~~l~~~~-~-~g~~VLDvGcGsG~lai~aa~~-g~~~V~avDid~~al~~a~~n~~~n~~~~~~~  212 (288)
T TIGR00406       137 AFGTGTHPTTSLCL-EWLEDLD-L-KDKNVIDVGCGSGILSIAALKL-GAAKVVGIDIDPLAVESARKNAELNQVSDRLQ  212 (288)
T ss_pred             cccCCCCHHHHHHH-HHHHhhc-C-CCCEEEEeCCChhHHHHHHHHc-CCCeEEEEECCHHHHHHHHHHHHHcCCCcceE
Confidence            35544444444332 2334443 3 3479999999999999888764 4558899997 6666666542       4677


Q ss_pred             EEecccCCcCCCC-cEEEec
Q 024350          240 HVGGDLFESVPKA-DTIFMK  258 (269)
Q Consensus       240 ~~~gD~~~~~P~g-D~~~l~  258 (269)
                      +..+|.....+.. |+++..
T Consensus       213 ~~~~~~~~~~~~~fDlVvan  232 (288)
T TIGR00406       213 VKLIYLEQPIEGKADVIVAN  232 (288)
T ss_pred             EEecccccccCCCceEEEEe
Confidence            7766643322334 988764

Ribosomal protein L11 methyltransferase is an S-adenosyl-L-methionine-dependent methyltransferase required for the modification of ribosomal protein L11. This protein is found in bacteria and (with a probable transit peptide) in Arabidopsis.

>KOG2904 consensus Predicted methyltransferase [General function prediction only]

Probab=97.07  E-value=0.0016  Score=56.14  Aligned_cols=60  Identities=22%  Similarity=0.281  Sum_probs=46.2

Q ss_pred             CCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC-------CCCceEE----ecccCCcCC
Q 024350          191 FEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS-------YPGIDHV----GGDLFESVP  250 (269)
Q Consensus       191 ~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~-------~~ri~~~----~gD~~~~~P  250 (269)
                      +.+...++|+|||+|..+..++..-|+.+++..|. +..+..|.+       .+||.++    ..|.+.+.|
T Consensus       146 ~~~~~~ildlgtGSGaIslsll~~L~~~~v~AiD~S~~Ai~La~eN~qr~~l~g~i~v~~~~me~d~~~~~~  217 (328)
T KOG2904|consen  146 HSKHTHILDLGTGSGAISLSLLHGLPQCTVTAIDVSKAAIKLAKENAQRLKLSGRIEVIHNIMESDASDEHP  217 (328)
T ss_pred             hcccceEEEecCCccHHHHHHHhcCCCceEEEEeccHHHHHHHHHHHHHHhhcCceEEEecccccccccccc
Confidence            44556899999999999999999999999999997 455554443       2888887    456565443

>KOG1270 consensus Methyltransferases [Coenzyme transport and metabolism]

Probab=97.07  E-value=0.00024  Score=60.75  Aligned_cols=71  Identities=15%  Similarity=0.069  Sum_probs=56.6

Q ss_pred             cEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC--------C----CceEEecccCCcCCCCcEEEecccc
Q 024350          195 KKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY--------P----GIDHVGGDLFESVPKADTIFMKVIC  261 (269)
Q Consensus       195 ~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~--------~----ri~~~~gD~~~~~P~gD~~~l~~iL  261 (269)
                      .+|+|||||.|.++..|++--  .+++++|. +..|+.|+++        .    |+++...|.-...++-|++....||
T Consensus        91 ~~ilDvGCGgGLLSepLArlg--a~V~GID~s~~~V~vA~~h~~~dP~~~~~~~y~l~~~~~~~E~~~~~fDaVvcsevl  168 (282)
T KOG1270|consen   91 MKILDVGCGGGLLSEPLARLG--AQVTGIDASDDMVEVANEHKKMDPVLEGAIAYRLEYEDTDVEGLTGKFDAVVCSEVL  168 (282)
T ss_pred             ceEEEeccCccccchhhHhhC--CeeEeecccHHHHHHHHHhhhcCchhccccceeeehhhcchhhcccccceeeeHHHH
Confidence            679999999999999999885  66789996 7888888753        2    5777777765545556999999999


Q ss_pred             ccCCCC
Q 024350          262 VCYLNS  267 (269)
Q Consensus       262 hd~~d~  267 (269)
                      |+..|.
T Consensus       169 eHV~dp  174 (282)
T KOG1270|consen  169 EHVKDP  174 (282)
T ss_pred             HHHhCH
Confidence            987654

>COG4262 Predicted spermidine synthase with an N-terminal membrane domain [General function prediction only]

Probab=97.06  E-value=0.00088  Score=59.88  Aligned_cols=74  Identities=27%  Similarity=0.423  Sum_probs=57.8

Q ss_pred             CCccEEEEeCCCchHHHHHHHHHCCCC-eEEEeeh-hHHHHhCCC-------------CCCceEEecccCCcCCCC-cEE
Q 024350          192 EHVKKLVDVGGGLGATLNMIISKYPHI-KGINYDL-LYVIKNAPS-------------YPGIDHVGGDLFESVPKA-DTI  255 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l-~~vv~Dl-p~vv~~a~~-------------~~ri~~~~gD~~~~~P~g-D~~  255 (269)
                      ++..+++-+|||.|..+++++ +||+. +.+.+|+ |.+++.++.             ++|++++.-|.|+-+-++ |  
T Consensus       288 ~~a~~vLvlGGGDGLAlRell-kyP~~~qI~lVdLDP~miela~~~~vlr~~N~~sf~dpRv~Vv~dDAf~wlr~a~~--  364 (508)
T COG4262         288 RGARSVLVLGGGDGLALRELL-KYPQVEQITLVDLDPRMIELASHATVLRALNQGSFSDPRVTVVNDDAFQWLRTAAD--  364 (508)
T ss_pred             cccceEEEEcCCchHHHHHHH-hCCCcceEEEEecCHHHHHHhhhhhHhhhhccCCccCCeeEEEeccHHHHHHhhcc--
Confidence            357899999999999999988 78966 5788898 999998873             289999999999854432 4  


Q ss_pred             EeccccccCCCCC
Q 024350          256 FMKVICVCYLNSL  268 (269)
Q Consensus       256 ~l~~iLhd~~d~~  268 (269)
                      .+-.|+-|.+|+.
T Consensus       365 ~fD~vIVDl~DP~  377 (508)
T COG4262         365 MFDVVIVDLPDPS  377 (508)
T ss_pred             cccEEEEeCCCCC
Confidence            4445566777764

>PRK10909 rsmD 16S rRNA m(2)G966-methyltransferase; Provisional

Probab=97.03  E-value=0.0013  Score=54.86  Aligned_cols=63  Identities=14%  Similarity=0.146  Sum_probs=47.7

Q ss_pred             ccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC------CCceEEecccCCcCC--C-C-cEEEe
Q 024350          194 VKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFESVP--K-A-DTIFM  257 (269)
Q Consensus       194 ~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~~~P--~-g-D~~~l  257 (269)
                      ..+++|+|||+|.++.+++.+.. .+++.+|. |..++.++++      .+++++.+|+++.++  . . |++++
T Consensus        54 ~~~vLDl~~GsG~l~l~~lsr~a-~~V~~vE~~~~a~~~a~~Nl~~~~~~~v~~~~~D~~~~l~~~~~~fDlV~~  127 (199)
T PRK10909         54 DARCLDCFAGSGALGLEALSRYA-AGATLLEMDRAVAQQLIKNLATLKAGNARVVNTNALSFLAQPGTPHNVVFV  127 (199)
T ss_pred             CCEEEEcCCCccHHHHHHHHcCC-CEEEEEECCHHHHHHHHHHHHHhCCCcEEEEEchHHHHHhhcCCCceEEEE
Confidence            46899999999999998776654 57888896 6777665542      579999999987432  2 2 88775

>PRK13168 rumA 23S rRNA m(5)U1939 methyltransferase; Reviewed

Probab=97.02  E-value=0.00083  Score=62.85  Aligned_cols=72  Identities=14%  Similarity=0.160  Sum_probs=53.0

Q ss_pred             HHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC------CCceEEecccCCcC-----C
Q 024350          183 KVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFESV-----P  250 (269)
Q Consensus       183 ~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~~~-----P  250 (269)
                      .+++.++ .....+|+|+|||+|.++..+++..  .+++.+|. ++.++.++++      ++++++.+|+.+.+     +
T Consensus       288 ~vl~~l~-~~~~~~VLDlgcGtG~~sl~la~~~--~~V~gvD~s~~al~~A~~n~~~~~~~~v~~~~~d~~~~l~~~~~~  364 (443)
T PRK13168        288 RALEWLD-PQPGDRVLDLFCGLGNFTLPLARQA--AEVVGVEGVEAMVERARENARRNGLDNVTFYHANLEEDFTDQPWA  364 (443)
T ss_pred             HHHHHhc-CCCCCEEEEEeccCCHHHHHHHHhC--CEEEEEeCCHHHHHHHHHHHHHcCCCceEEEEeChHHhhhhhhhh
Confidence            3444444 3445799999999999999999886  57899997 7788776642      57999999987532     2


Q ss_pred             C-C-cEEEe
Q 024350          251 K-A-DTIFM  257 (269)
Q Consensus       251 ~-g-D~~~l  257 (269)
                      . . |++++
T Consensus       365 ~~~fD~Vi~  373 (443)
T PRK13168        365 LGGFDKVLL  373 (443)
T ss_pred             cCCCCEEEE
Confidence            2 2 88875

>TIGR00417 speE spermidine synthase

Probab=97.01  E-value=0.001  Score=58.14  Aligned_cols=68  Identities=24%  Similarity=0.286  Sum_probs=52.2

Q ss_pred             CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC----------CCCceEEecccCCc--C-CCC-cEEE
Q 024350          192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS----------YPGIDHVGGDLFES--V-PKA-DTIF  256 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~----------~~ri~~~~gD~~~~--~-P~g-D~~~  256 (269)
                      +++.+|++||||.|..+.++++..+..+.+++|+ |.+++.+++          .+|++++.+|.++-  . ++. |+++
T Consensus        71 ~~p~~VL~iG~G~G~~~~~ll~~~~~~~v~~veid~~vi~~a~~~~~~~~~~~~~~~v~i~~~D~~~~l~~~~~~yDvIi  150 (270)
T TIGR00417        71 PNPKHVLVIGGGDGGVLREVLKHKSVEKATLVDIDEKVIELSKKFLPSLAGSYDDPRVDLQIDDGFKFLADTENTFDVII  150 (270)
T ss_pred             CCCCEEEEEcCCchHHHHHHHhCCCcceEEEEeCCHHHHHHHHHHhHhhcccccCCceEEEECchHHHHHhCCCCccEEE
Confidence            4567999999999999999998766678899997 677666553          26899999998762  2 334 9988


Q ss_pred             ecc
Q 024350          257 MKV  259 (269)
Q Consensus       257 l~~  259 (269)
                      +..
T Consensus       151 ~D~  153 (270)
T TIGR00417       151 VDS  153 (270)
T ss_pred             EeC
Confidence            754

the SpeE subunit of spermidine synthase catalysesthe reaction (putrescine + S-adenosylmethioninamine = spermidine + 5'-methylthioadenosine) and is involved in polyamine biosynthesis and in the biosynthesis of spermidine from arganine. The region between residues 77 and 120 of the seed alignment is thought to be involved in binding to decarboxylated SAM.

>PF08123 DOT1: Histone methylation protein DOT1 ; InterPro: IPR013110 The DOT1 domain regulates gene expression by methylating histone H3 []

Probab=96.98  E-value=0.00098  Score=55.79  Aligned_cols=79  Identities=18%  Similarity=0.337  Sum_probs=48.1

Q ss_pred             HHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC---------------CCCceEEecccC
Q 024350          183 KVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS---------------YPGIDHVGGDLF  246 (269)
Q Consensus       183 ~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~---------------~~ri~~~~gD~~  246 (269)
                      .+++.+. +.....++|||+|.|......+-.++=-+++++++ |...+.+..               ..+|++..+||.
T Consensus        33 ~il~~~~-l~~~dvF~DlGSG~G~~v~~aal~~~~~~~~GIEi~~~~~~~a~~~~~~~~~~~~~~g~~~~~v~l~~gdfl  111 (205)
T PF08123_consen   33 KILDELN-LTPDDVFYDLGSGVGNVVFQAALQTGCKKSVGIEILPELHDLAEELLEELKKRMKHYGKRPGKVELIHGDFL  111 (205)
T ss_dssp             HHHHHTT---TT-EEEEES-TTSHHHHHHHHHH--SEEEEEE-SHHHHHHHHHHHHHHHHHHHHCTB---EEEEECS-TT
T ss_pred             HHHHHhC-CCCCCEEEECCCCCCHHHHHHHHHcCCcEEEEEEechHHHHHHHHHHHHHHHHHHHhhcccccceeeccCcc
Confidence            4555565 66678999999999999888886665444899986 444443321               267899999999


Q ss_pred             C-c-----CCCCcEEEeccccc
Q 024350          247 E-S-----VPKADTIFMKVICV  262 (269)
Q Consensus       247 ~-~-----~P~gD~~~l~~iLh  262 (269)
                      + +     +-++|++|+.+.+-
T Consensus       112 ~~~~~~~~~s~AdvVf~Nn~~F  133 (205)
T PF08123_consen  112 DPDFVKDIWSDADVVFVNNTCF  133 (205)
T ss_dssp             THHHHHHHGHC-SEEEE--TTT
T ss_pred             ccHhHhhhhcCCCEEEEecccc
Confidence            8 3     23469999998753

H3 methylation by DOT1 has been shown to be required for the DNA damage checkpoint in yeast [].; GO: 0018024 histone-lysine N-methyltransferase activity; PDB: 4ER3_A 4ER6_A 4EQZ_A 1NW3_A 3UWP_A 4ER5_A 3QOX_A 3SX0_A 4ER7_A 3SR4_A ....

>PRK03522 rumB 23S rRNA methyluridine methyltransferase; Reviewed

Probab=96.89  E-value=0.0012  Score=59.00  Aligned_cols=63  Identities=11%  Similarity=0.084  Sum_probs=48.8

Q ss_pred             ccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC------CCceEEecccCCcC--C-CC-cEEEec
Q 024350          194 VKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFESV--P-KA-DTIFMK  258 (269)
Q Consensus       194 ~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~~~--P-~g-D~~~l~  258 (269)
                      ..+|+|+|||+|.++..+++.  ..+++.+|. |..++.++++      ++++++.+|+.+-.  + .. |++++.
T Consensus       174 ~~~VLDl~cG~G~~sl~la~~--~~~V~gvD~s~~av~~A~~n~~~~~l~~v~~~~~D~~~~~~~~~~~~D~Vv~d  247 (315)
T PRK03522        174 PRSMWDLFCGVGGFGLHCATP--GMQLTGIEISAEAIACAKQSAAELGLTNVQFQALDSTQFATAQGEVPDLVLVN  247 (315)
T ss_pred             CCEEEEccCCCCHHHHHHHhc--CCEEEEEeCCHHHHHHHHHHHHHcCCCceEEEEcCHHHHHHhcCCCCeEEEEC
Confidence            479999999999999999984  467899997 7788766542      67999999997621  2 23 877753

>PF06325 PrmA: Ribosomal protein L11 methyltransferase (PrmA); InterPro: IPR010456 This family consists of several Ribosomal protein L11 methyltransferase sequences

Probab=96.84  E-value=0.0015  Score=57.76  Aligned_cols=86  Identities=24%  Similarity=0.278  Sum_probs=54.4

Q ss_pred             HHHHHHHhhchhhHHHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-------CCce
Q 024350          168 VFSNGMLSHTSIVMEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-------PGID  239 (269)
Q Consensus       168 ~f~~~m~~~~~~~~~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-------~ri~  239 (269)
                      .|..+-+.+++..... ++.+. . +..+|+|||||+|.++++.++.-. -+++.+|+ |..++.++.+       +++.
T Consensus       139 AFGTG~H~TT~lcl~~-l~~~~-~-~g~~vLDvG~GSGILaiaA~klGA-~~v~a~DiDp~Av~~a~~N~~~N~~~~~~~  214 (295)
T PF06325_consen  139 AFGTGHHPTTRLCLEL-LEKYV-K-PGKRVLDVGCGSGILAIAAAKLGA-KKVVAIDIDPLAVEAARENAELNGVEDRIE  214 (295)
T ss_dssp             SS-SSHCHHHHHHHHH-HHHHS-S-TTSEEEEES-TTSHHHHHHHHTTB-SEEEEEESSCHHHHHHHHHHHHTT-TTCEE
T ss_pred             cccCCCCHHHHHHHHH-HHHhc-c-CCCEEEEeCCcHHHHHHHHHHcCC-CeEEEecCCHHHHHHHHHHHHHcCCCeeEE
Confidence            5777777777765543 34454 3 447999999999999999887633 36899998 6667666542       5665


Q ss_pred             EEecccCCcCCCC--cEEEecccc
Q 024350          240 HVGGDLFESVPKA--DTIFMKVIC  261 (269)
Q Consensus       240 ~~~gD~~~~~P~g--D~~~l~~iL  261 (269)
                      +.   ...+.+++  |+++ .||+
T Consensus       215 v~---~~~~~~~~~~dlvv-ANI~  234 (295)
T PF06325_consen  215 VS---LSEDLVEGKFDLVV-ANIL  234 (295)
T ss_dssp             ES---CTSCTCCS-EEEEE-EES-
T ss_pred             EE---EecccccccCCEEE-ECCC
Confidence            53   12244433  8776 4443

Its genetic determinant is prmA, which forms a bifunctional operon with the downstream panF gene []. The role of L11 methylation in ribosome function is, as yet, unknown. Deletion of the prmA gene in Escherichia coli showed no obvious effect [] except for the production of undermethylated forms of L11 []. Methylation is the most common post-transcriptional modification to ribosomal proteins in all organisms. PrmA is the only bacterial enzyme that catalyses the methylation of a ribosomal protein [].; GO: 0008276 protein methyltransferase activity, 0006479 protein methylation, 0005737 cytoplasm; PDB: 3GRZ_B 1F3L_A 2NXJ_B 3CJT_I 3CJQ_G 2NXE_A 2NXC_A 2ZBP_A 3EGV_A 3CJS_A ....

>COG0220 Predicted S-adenosylmethionine-dependent methyltransferase [General function prediction only]

Probab=96.83  E-value=0.002  Score=54.69  Aligned_cols=54  Identities=19%  Similarity=0.308  Sum_probs=42.8

Q ss_pred             ccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhC-CC-----CCCceEEecccCC
Q 024350          194 VKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNA-PS-----YPGIDHVGGDLFE  247 (269)
Q Consensus       194 ~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a-~~-----~~ri~~~~gD~~~  247 (269)
                      ...+|+||||.|.++..+++++|+..++++|+ .+++..+ ++     .+.|.++.+|.-+
T Consensus        49 ~pi~lEIGfG~G~~l~~~A~~nP~~nfiGiEi~~~~v~~~l~k~~~~~l~Nlri~~~DA~~  109 (227)
T COG0220          49 APIVLEIGFGMGEFLVEMAKKNPEKNFLGIEIRVPGVAKALKKIKELGLKNLRLLCGDAVE  109 (227)
T ss_pred             CcEEEEECCCCCHHHHHHHHHCCCCCEEEEEEehHHHHHHHHHHHHcCCCcEEEEcCCHHH
Confidence            36899999999999999999999999999996 4444333 21     2578888888665

>COG2263 Predicted RNA methylase [Translation, ribosomal structure and biogenesis]

Probab=96.80  E-value=0.003  Score=51.65  Aligned_cols=63  Identities=21%  Similarity=0.197  Sum_probs=47.0

Q ss_pred             ccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-----CCceEEecccCCcCCCCcEEEe
Q 024350          194 VKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-----PGIDHVGGDLFESVPKADTIFM  257 (269)
Q Consensus       194 ~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-----~ri~~~~gD~~~~~P~gD~~~l  257 (269)
                      .++|+|+|||+|.++++.+-.-|. +++.+|+ |+.++.++++     .+|+|+..|.-+--.+-|++++
T Consensus        46 g~~V~DlG~GTG~La~ga~~lGa~-~V~~vdiD~~a~ei~r~N~~~l~g~v~f~~~dv~~~~~~~dtvim  114 (198)
T COG2263          46 GKTVLDLGAGTGILAIGAALLGAS-RVLAVDIDPEALEIARANAEELLGDVEFVVADVSDFRGKFDTVIM  114 (198)
T ss_pred             CCEEEEcCCCcCHHHHHHHhcCCc-EEEEEecCHHHHHHHHHHHHhhCCceEEEEcchhhcCCccceEEE
Confidence            478999999999999988765544 5788887 7888877664     6899999998652222355554

>PF01135 PCMT: Protein-L-isoaspartate(D-aspartate) O-methyltransferase (PCMT); InterPro: IPR000682 Protein-L-isoaspartate(D-aspartate) O-methyltransferase (2

Probab=96.80  E-value=0.0026  Score=53.39  Aligned_cols=79  Identities=18%  Similarity=0.256  Sum_probs=56.2

Q ss_pred             HHHHhccCCCCccEEEEeCCCchHHHHHHHHHCC-CCeEEEeeh-hHHHHhCCCC------CCceEEecccCCcCCC-C-
Q 024350          183 KVLESYKGFEHVKKLVDVGGGLGATLNMIISKYP-HIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFESVPK-A-  252 (269)
Q Consensus       183 ~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P-~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~~~P~-g-  252 (269)
                      .+++.++ +....+|+|||+|+|..+.-+++-.- .-+++.+|. |..++.|++.      .+|+++.+|-...+|. + 
T Consensus        63 ~~l~~L~-l~pg~~VLeIGtGsGY~aAlla~lvg~~g~Vv~vE~~~~l~~~A~~~l~~~~~~nv~~~~gdg~~g~~~~ap  141 (209)
T PF01135_consen   63 RMLEALD-LKPGDRVLEIGTGSGYQAALLAHLVGPVGRVVSVERDPELAERARRNLARLGIDNVEVVVGDGSEGWPEEAP  141 (209)
T ss_dssp             HHHHHTT-C-TT-EEEEES-TTSHHHHHHHHHHSTTEEEEEEESBHHHHHHHHHHHHHHTTHSEEEEES-GGGTTGGG-S
T ss_pred             HHHHHHh-cCCCCEEEEecCCCcHHHHHHHHhcCccceEEEECccHHHHHHHHHHHHHhccCceeEEEcchhhccccCCC
Confidence            4566666 77778999999999999988887653 345778885 7777777653      6899999999887774 4 


Q ss_pred             -cEEEeccccc
Q 024350          253 -DTIFMKVICV  262 (269)
Q Consensus       253 -D~~~l~~iLh  262 (269)
                       |.+++.--..
T Consensus       142 fD~I~v~~a~~  152 (209)
T PF01135_consen  142 FDRIIVTAAVP  152 (209)
T ss_dssp             EEEEEESSBBS
T ss_pred             cCEEEEeeccc
Confidence             9988765443

1.1.77 from EC) (PCMT) [] (which is also known as L-isoaspartyl protein carboxyl methyltransferase) is an enzyme that catalyses the transfer of a methyl group from S-adenosylmethionine to the free carboxyl groups of D-aspartyl or L-isoaspartyl residues in a variety of peptides and proteins. The enzyme does not act on normal L-aspartyl residues L-isoaspartyl and D-aspartyl are the products of the spontaneous deamidation and/or isomerisation of normal L-aspartyl and L-asparaginyl residues in proteins. PCMT plays a role in the repair and/or degradation of these damaged proteins; the enzymatic methyl esterification of the abnormal residues can lead to their conversion to normal L-aspartyl residues. The SAM domain is present in most of these proteins.; GO: 0004719 protein-L-isoaspartate (D-aspartate) O-methyltransferase activity, 0006464 protein modification process; PDB: 3LBF_A 1DL5_B 1JG3_B 1JG2_A 1JG1_A 1JG4_A 2YXE_A 2PBF_B 1VBF_C 1R18_A ....

>PRK13256 thiopurine S-methyltransferase; Reviewed

Probab=96.80  E-value=0.0051  Score=52.23  Aligned_cols=74  Identities=16%  Similarity=0.107  Sum_probs=57.7

Q ss_pred             CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC------------------CCCceEEecccCCcCC-C
Q 024350          192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS------------------YPGIDHVGGDLFESVP-K  251 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~------------------~~ri~~~~gD~~~~~P-~  251 (269)
                      ....+|++.|||.|.-+.-|++.  +.+++++|+ |..|+.+.+                  ..+|++..+|||+.-| .
T Consensus        42 ~~~~rvLvPgCGkg~D~~~LA~~--G~~V~GvDlS~~Ai~~~~~e~~~~~~~~~~~~~~~~~~~~i~~~~gD~f~l~~~~  119 (226)
T PRK13256         42 NDSSVCLIPMCGCSIDMLFFLSK--GVKVIGIELSEKAVLSFFSQNTINYEVIHGNDYKLYKGDDIEIYVADIFNLPKIA  119 (226)
T ss_pred             CCCCeEEEeCCCChHHHHHHHhC--CCcEEEEecCHHHHHHHHHHcCCCcceecccccceeccCceEEEEccCcCCCccc
Confidence            34579999999999999999886  677999998 666665311                  2589999999999322 1


Q ss_pred             ---C--cEEEeccccccCCCC
Q 024350          252 ---A--DTIFMKVICVCYLNS  267 (269)
Q Consensus       252 ---g--D~~~l~~iLhd~~d~  267 (269)
                         +  |+|+=+.+|+-.|++
T Consensus       120 ~~~~~fD~VyDra~~~Alpp~  140 (226)
T PRK13256        120 NNLPVFDIWYDRGAYIALPND  140 (226)
T ss_pred             cccCCcCeeeeehhHhcCCHH
Confidence               3  999999998887654

>COG1414 IclR Transcriptional regulator [Transcription]

Probab=96.76  E-value=0.0025  Score=54.87  Aligned_cols=58  Identities=22%  Similarity=0.414  Sum_probs=47.7

Q ss_pred             cChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecC-CCeEecChhch
Q 024350           36 LDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDG-QRLYSLAPVSK  105 (269)
Q Consensus        36 lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~-~~~y~~t~~s~  105 (269)
                      +.|++.|...+  .++++.|||+++|++      .. .+.|+|..|+..|++.+   ++ .++|++++..-
T Consensus         7 l~iL~~l~~~~--~~l~l~ela~~~glp------ks-T~~RlL~tL~~~G~v~~---d~~~g~Y~Lg~~~~   65 (246)
T COG1414           7 LAILDLLAEGP--GGLSLAELAERLGLP------KS-TVHRLLQTLVELGYVEQ---DPEDGRYRLGPRLL   65 (246)
T ss_pred             HHHHHHHHhCC--CCCCHHHHHHHhCcC------HH-HHHHHHHHHHHCCCEEE---cCCCCcEeehHHHH
Confidence            56788888843  457899999999997      57 89999999999999994   43 57899988543

>PRK11727 23S rRNA mA1618 methyltransferase; Provisional

Probab=96.75  E-value=0.0025  Score=56.90  Aligned_cols=66  Identities=14%  Similarity=0.163  Sum_probs=49.2

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC----C----CCceEEe----cccCCcC--CC-C-cEE
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS----Y----PGIDHVG----GDLFESV--PK-A-DTI  255 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~----~----~ri~~~~----gD~~~~~--P~-g-D~~  255 (269)
                      ...++||||||+|.....++.+.++++++..|+ |..++.|+.    +    +||++..    .++|+.+  +. - |++
T Consensus       114 ~~~~vLDIGtGag~I~~lLa~~~~~~~~~atDId~~Al~~A~~Nv~~Np~l~~~I~~~~~~~~~~i~~~i~~~~~~fDli  193 (321)
T PRK11727        114 ANVRVLDIGVGANCIYPLIGVHEYGWRFVGSDIDPQALASAQAIISANPGLNGAIRLRLQKDSKAIFKGIIHKNERFDAT  193 (321)
T ss_pred             CCceEEEecCCccHHHHHHHhhCCCCEEEEEeCCHHHHHHHHHHHHhccCCcCcEEEEEccchhhhhhcccccCCceEEE
Confidence            357999999999999888999999999999997 667766653    2    5787753    4555532  33 2 877


Q ss_pred             Eec
Q 024350          256 FMK  258 (269)
Q Consensus       256 ~l~  258 (269)
                      +..
T Consensus       194 vcN  196 (321)
T PRK11727        194 LCN  196 (321)
T ss_pred             EeC
Confidence            764

>PF13601 HTH_34: Winged helix DNA-binding domain; PDB: 1UB9_A

Probab=96.74  E-value=0.0023  Score=45.22  Aligned_cols=64  Identities=19%  Similarity=0.223  Sum_probs=48.4

Q ss_pred             HhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCC----eEecChhchhh
Q 024350           34 VELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQR----LYSLAPVSKYF  107 (269)
Q Consensus        34 ~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~----~y~~t~~s~~l  107 (269)
                      ++++|...|...   +.++..+|.+.+|++      .. .+.+.|+.|...|+|+..-...++    .|++|+.|+..
T Consensus         1 vRl~Il~~L~~~---~~~~f~~L~~~l~lt------~g-~Ls~hL~~Le~~GyV~~~k~~~~~~p~t~~~lT~~Gr~~   68 (80)
T PF13601_consen    1 VRLAILALLYAN---EEATFSELKEELGLT------DG-NLSKHLKKLEEAGYVEVEKEFEGRRPRTWYSLTDKGREA   68 (80)
T ss_dssp             HHHHHHHHHHHH---SEEEHHHHHHHTT--------HH-HHHHHHHHHHHTTSEEEEEE-SSS--EEEEEE-HHHHHH
T ss_pred             CHHHHHHHHhhc---CCCCHHHHHHHhCcC------HH-HHHHHHHHHHHCCCEEEEEeccCCCCeEEEEECHHHHHH
Confidence            578888999886   589999999999997      56 999999999999999854222122    38999988743

>KOG1541 consensus Predicted protein carboxyl methylase [General function prediction only]

Probab=96.74  E-value=0.0012  Score=55.24  Aligned_cols=72  Identities=21%  Similarity=0.262  Sum_probs=49.9

Q ss_pred             HHhccCCCC--ccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCCCC--ceEEecccCCcCC--CC--cE-
Q 024350          185 LESYKGFEH--VKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSYPG--IDHVGGDLFESVP--KA--DT-  254 (269)
Q Consensus       185 ~~~~~~~~~--~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~~r--i~~~~gD~~~~~P--~g--D~-  254 (269)
                      ++.++ +++  ...|||||||+|..+..+...  ....+++|+ |++++.|.+ ..  =.++-+||=+.+|  .|  |- 
T Consensus        41 LELLa-lp~~~~~~iLDIGCGsGLSg~vL~~~--Gh~wiGvDiSpsML~~a~~-~e~egdlil~DMG~GlpfrpGtFDg~  116 (270)
T KOG1541|consen   41 LELLA-LPGPKSGLILDIGCGSGLSGSVLSDS--GHQWIGVDISPSMLEQAVE-RELEGDLILCDMGEGLPFRPGTFDGV  116 (270)
T ss_pred             HHHhh-CCCCCCcEEEEeccCCCcchheeccC--CceEEeecCCHHHHHHHHH-hhhhcCeeeeecCCCCCCCCCccceE
Confidence            34444 444  789999999999988777654  467899997 899988775 22  3467788888555  45  64 


Q ss_pred             EEeccc
Q 024350          255 IFMKVI  260 (269)
Q Consensus       255 ~~l~~i  260 (269)
                      +.++.|
T Consensus       117 ISISAv  122 (270)
T KOG1541|consen  117 ISISAV  122 (270)
T ss_pred             EEeeee
Confidence            444433

>PRK14902 16S rRNA methyltransferase B; Provisional

Probab=96.72  E-value=0.0032  Score=58.99  Aligned_cols=72  Identities=14%  Similarity=0.087  Sum_probs=54.7

Q ss_pred             HHhccCCCCccEEEEeCCCchHHHHHHHHHC-CCCeEEEeeh-hHHHHhCCCC------CCceEEecccCCc---CCCC-
Q 024350          185 LESYKGFEHVKKLVDVGGGLGATLNMIISKY-PHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFES---VPKA-  252 (269)
Q Consensus       185 ~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~-P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~~---~P~g-  252 (269)
                      ...++ .++..+|+|+|||+|..+..+++.. |+.+++.+|+ +..++.++++      +.|+++.+|+.+.   ++.. 
T Consensus       243 ~~~l~-~~~g~~VLDlgaG~G~~t~~la~~~~~~~~v~avDi~~~~l~~~~~n~~~~g~~~v~~~~~D~~~~~~~~~~~f  321 (444)
T PRK14902        243 APALD-PKGGDTVLDACAAPGGKTTHIAELLKNTGKVVALDIHEHKLKLIEENAKRLGLTNIETKALDARKVHEKFAEKF  321 (444)
T ss_pred             HHHhC-CCCCCEEEEeCCCCCHHHHHHHHHhCCCCEEEEEeCCHHHHHHHHHHHHHcCCCeEEEEeCCcccccchhcccC
Confidence            33444 4456799999999999999999986 6788999998 7777665432      4599999999762   3433 


Q ss_pred             cEEEe
Q 024350          253 DTIFM  257 (269)
Q Consensus       253 D~~~l  257 (269)
                      |++++
T Consensus       322 D~Vl~  326 (444)
T PRK14902        322 DKILV  326 (444)
T ss_pred             CEEEE
Confidence            88886

>PLN02781 Probable caffeoyl-CoA O-methyltransferase

Probab=96.71  E-value=0.0019  Score=55.16  Aligned_cols=68  Identities=16%  Similarity=0.234  Sum_probs=52.9

Q ss_pred             CCCccEEEEeCCCchHHHHHHHHHCC-CCeEEEeeh-hHHHHhCCCC-------CCceEEecccCCcC-------C-CC-
Q 024350          191 FEHVKKLVDVGGGLGATLNMIISKYP-HIKGINYDL-LYVIKNAPSY-------PGIDHVGGDLFESV-------P-KA-  252 (269)
Q Consensus       191 ~~~~~~vvDvGGG~G~~~~~l~~~~P-~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~~~-------P-~g-  252 (269)
                      ..+.++|+|||+|+|..+..+++..| +-+++.+|. |+.++.++++       ++|+++.||..+-+       + +. 
T Consensus        66 ~~~~~~vLEiGt~~G~s~l~la~~~~~~g~v~tiD~d~~~~~~A~~n~~~~gl~~~i~~~~gda~~~L~~l~~~~~~~~f  145 (234)
T PLN02781         66 IMNAKNTLEIGVFTGYSLLTTALALPEDGRITAIDIDKEAYEVGLEFIKKAGVDHKINFIQSDALSALDQLLNNDPKPEF  145 (234)
T ss_pred             HhCCCEEEEecCcccHHHHHHHHhCCCCCEEEEEECCHHHHHHHHHHHHHcCCCCcEEEEEccHHHHHHHHHhCCCCCCC
Confidence            34678999999999999999998875 678999997 6666666542       78999999998621       1 23 


Q ss_pred             cEEEec
Q 024350          253 DTIFMK  258 (269)
Q Consensus       253 D~~~l~  258 (269)
                      |++|+-
T Consensus       146 D~VfiD  151 (234)
T PLN02781        146 DFAFVD  151 (234)
T ss_pred             CEEEEC
Confidence            888774

>PF05185 PRMT5: PRMT5 arginine-N-methyltransferase; InterPro: IPR007857 The human homologue of Saccharomyces cerevisiae Skb1 (Shk1 kinase-binding protein 1) is a protein methyltransferase []

Probab=96.70  E-value=0.0033  Score=58.78  Aligned_cols=99  Identities=16%  Similarity=0.218  Sum_probs=60.9

Q ss_pred             CchhccccCcchHHHHHHHHHhhchhhHHHHHHhccCCCCccEEEEeCCCchHHHHHHHHHC----CCCeEEEeeh-hHH
Q 024350          154 HIYDYLGVDSSFNDVFSNGMLSHTSIVMEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKY----PHIKGINYDL-LYV  228 (269)
Q Consensus       154 ~~~~~~~~~p~~~~~f~~~m~~~~~~~~~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~----P~l~~vv~Dl-p~v  228 (269)
                      ..|+.+++|+.+-+.+.+|+...    .....+.-..-.+...|+|||+|+|-++...+++.    -..++..++- |..
T Consensus       151 ~tYe~fE~D~vKY~~Ye~AI~~a----l~D~~~~~~~~~~~~vVldVGAGrGpL~~~al~A~~~~~~a~~VyAVEkn~~A  226 (448)
T PF05185_consen  151 QTYEVFEKDPVKYDQYERAIEEA----LKDRVRKNSYSSKDKVVLDVGAGRGPLSMFALQAGARAGGAVKVYAVEKNPNA  226 (448)
T ss_dssp             HHHHHHCC-HHHHHHHHHHHHHH----HHHHHTTS-SEETT-EEEEES-TTSHHHHHHHHTTHHHCCESEEEEEESSTHH
T ss_pred             ccHhhHhcCHHHHHHHHHHHHHH----HHhhhhhccccccceEEEEeCCCccHHHHHHHHHHHHhCCCeEEEEEcCCHhH
Confidence            45888888988777777775331    11222221100125789999999999987776654    4577888875 433


Q ss_pred             HHhC----CC---CCCceEEecccCC-cCCC-CcEEE
Q 024350          229 IKNA----PS---YPGIDHVGGDLFE-SVPK-ADTIF  256 (269)
Q Consensus       229 v~~a----~~---~~ri~~~~gD~~~-~~P~-gD~~~  256 (269)
                      +...    +.   .++|+++.+|+-+ ..|+ .|+++
T Consensus       227 ~~~l~~~v~~n~w~~~V~vi~~d~r~v~lpekvDIIV  263 (448)
T PF05185_consen  227 VVTLQKRVNANGWGDKVTVIHGDMREVELPEKVDIIV  263 (448)
T ss_dssp             HHHHHHHHHHTTTTTTEEEEES-TTTSCHSS-EEEEE
T ss_pred             HHHHHHHHHhcCCCCeEEEEeCcccCCCCCCceeEEE
Confidence            3221    11   2899999999999 7784 58874

These proteins seem to play a role in Jak signalling.; GO: 0008168 methyltransferase activity, 0005737 cytoplasm; PDB: 2Y1W_C 2Y1X_D 2V7E_B 2V74_H 3R0Q_G 3B3F_B 3B3J_A 3B3G_A 3UA3_A 3UA4_B ....

>PF12840 HTH_20: Helix-turn-helix domain; PDB: 1ULY_A 2CWE_A 1Y0U_B 2QUF_B 2QLZ_C 2OQG_B 2ZKZ_C 3PQK_A 3PQJ_D 3F6O_B

Probab=96.69  E-value=0.0017  Score=43.26  Aligned_cols=53  Identities=13%  Similarity=0.270  Sum_probs=44.4

Q ss_pred             HHHHHHHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccc
Q 024350           27 PAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHC   89 (269)
Q Consensus        27 ~~~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~   89 (269)
                      +.+|..-.++.|+..|...   +++|+.+||+.+|++      .. .+.+.|+.|...|+|+.
T Consensus         4 ~~aL~~p~R~~Il~~L~~~---~~~t~~ela~~l~~~------~~-t~s~hL~~L~~aGli~~   56 (61)
T PF12840_consen    4 FKALSDPTRLRILRLLASN---GPMTVSELAEELGIS------QS-TVSYHLKKLEEAGLIEV   56 (61)
T ss_dssp             HHHHTSHHHHHHHHHHHHC---STBEHHHHHHHHTS-------HH-HHHHHHHHHHHTTSEEE
T ss_pred             HHHhCCHHHHHHHHHHhcC---CCCCHHHHHHHHCCC------HH-HHHHHHHHHHHCCCeEE
Confidence            4456666788899999443   699999999999997      67 99999999999999984

...

>PRK10141 DNA-binding transcriptional repressor ArsR; Provisional

Probab=96.67  E-value=0.0053  Score=46.59  Aligned_cols=68  Identities=18%  Similarity=0.222  Sum_probs=54.0

Q ss_pred             HHHHHHHHHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecCh
Q 024350           25 VLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAP  102 (269)
Q Consensus        25 ~~~~~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~  102 (269)
                      ..+.+|.--.++.|+..|...   ++.++.||++.++++      .. .+.+.|+.|...|+|+...+...-.|++++
T Consensus         8 ~~fkaLadptRl~IL~~L~~~---~~~~v~ela~~l~ls------qs-tvS~HL~~L~~AGLV~~~r~Gr~~~Y~l~~   75 (117)
T PRK10141          8 QLFKILSDETRLGIVLLLRES---GELCVCDLCTALDQS------QP-KISRHLALLRESGLLLDRKQGKWVHYRLSP   75 (117)
T ss_pred             HHHHHhCCHHHHHHHHHHHHc---CCcCHHHHHHHHCcC------HH-HHHHHHHHHHHCCceEEEEEcCEEEEEECc
Confidence            456777888899999999764   589999999999998      67 999999999999999864221123477754

>TIGR01177 conserved hypothetical protein TIGR01177

Probab=96.67  E-value=0.0051  Score=55.26  Aligned_cols=65  Identities=18%  Similarity=0.106  Sum_probs=49.9

Q ss_pred             CCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC------CCceEEecccCC-cCCC-C-cEEEe
Q 024350          191 FEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFE-SVPK-A-DTIFM  257 (269)
Q Consensus       191 ~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~-~~P~-g-D~~~l  257 (269)
                      ++...+|+|+|||+|.++.+.+..  ..+.+..|+ +.++..++.+      +.+++..+|+.+ +.+. . |++++
T Consensus       180 ~~~g~~vLDp~cGtG~~lieaa~~--~~~v~g~Di~~~~~~~a~~nl~~~g~~~i~~~~~D~~~l~~~~~~~D~Iv~  254 (329)
T TIGR01177       180 VTEGDRVLDPFCGTGGFLIEAGLM--GAKVIGCDIDWKMVAGARINLEHYGIEDFFVKRGDATKLPLSSESVDAIAT  254 (329)
T ss_pred             CCCcCEEEECCCCCCHHHHHHHHh--CCeEEEEcCCHHHHHHHHHHHHHhCCCCCeEEecchhcCCcccCCCCEEEE
Confidence            566679999999999999887653  677899998 6777655432      448899999988 5553 3 88877

This family is found exclusively in the Archaea.

>COG2518 Pcm Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]

Probab=96.66  E-value=0.0082  Score=50.08  Aligned_cols=74  Identities=15%  Similarity=0.253  Sum_probs=57.6

Q ss_pred             HHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC------CCceEEecccCCcCCC-C--
Q 024350          183 KVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFESVPK-A--  252 (269)
Q Consensus       183 ~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~~~P~-g--  252 (269)
                      .+++.+. .+...+||+||+|+|..+.-+++---  +++.+|+ ++.++.|+++      ++|.++.+|-..-+|+ +  
T Consensus        63 ~m~~~L~-~~~g~~VLEIGtGsGY~aAvla~l~~--~V~siEr~~~L~~~A~~~L~~lg~~nV~v~~gDG~~G~~~~aPy  139 (209)
T COG2518          63 RMLQLLE-LKPGDRVLEIGTGSGYQAAVLARLVG--RVVSIERIEELAEQARRNLETLGYENVTVRHGDGSKGWPEEAPY  139 (209)
T ss_pred             HHHHHhC-CCCCCeEEEECCCchHHHHHHHHHhC--eEEEEEEcHHHHHHHHHHHHHcCCCceEEEECCcccCCCCCCCc
Confidence            3456666 77779999999999998887777655  6777786 6767777652      6799999999998885 5  


Q ss_pred             cEEEecc
Q 024350          253 DTIFMKV  259 (269)
Q Consensus       253 D~~~l~~  259 (269)
                      |.|+..-
T Consensus       140 D~I~Vta  146 (209)
T COG2518         140 DRIIVTA  146 (209)
T ss_pred             CEEEEee
Confidence            9888654

>PRK00517 prmA ribosomal protein L11 methyltransferase; Reviewed

Probab=96.66  E-value=0.0027  Score=54.82  Aligned_cols=41  Identities=22%  Similarity=0.192  Sum_probs=32.5

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS  234 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~  234 (269)
                      ...+|+|||||+|.++..+++..+. +++.+|+ |..++.+++
T Consensus       119 ~~~~VLDiGcGsG~l~i~~~~~g~~-~v~giDis~~~l~~A~~  160 (250)
T PRK00517        119 PGKTVLDVGCGSGILAIAAAKLGAK-KVLAVDIDPQAVEAARE  160 (250)
T ss_pred             CCCEEEEeCCcHHHHHHHHHHcCCC-eEEEEECCHHHHHHHHH
Confidence            4579999999999999887765443 6899997 777776654

>PF12147 Methyltransf_20: Putative methyltransferase; InterPro: IPR022744 This C-terminal region is found in bacteria and eukaryotes and is approximately 110 amino acids in length

Probab=96.65  E-value=0.004  Score=54.32  Aligned_cols=76  Identities=13%  Similarity=0.186  Sum_probs=60.0

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCC--CeEEEeeh-hHHHHhCCC------CCC-ceEEecccCCc------CCCCcEEE
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPH--IKGINYDL-LYVIKNAPS------YPG-IDHVGGDLFES------VPKADTIF  256 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~--l~~vv~Dl-p~vv~~a~~------~~r-i~~~~gD~~~~------~P~gD~~~  256 (269)
                      .+.+||||.||+|.+....++.+|.  .+..+.|. |..|+..++      ... ++|..+|.|+.      .|+-++++
T Consensus       135 ~pvrIlDIAaG~GRYvlDal~~~~~~~~~i~LrDys~~Nv~~g~~li~~~gL~~i~~f~~~dAfd~~~l~~l~p~P~l~i  214 (311)
T PF12147_consen  135 RPVRILDIAAGHGRYVLDALEKHPERPDSILLRDYSPINVEKGRALIAERGLEDIARFEQGDAFDRDSLAALDPAPTLAI  214 (311)
T ss_pred             CceEEEEeccCCcHHHHHHHHhCCCCCceEEEEeCCHHHHHHHHHHHHHcCCccceEEEecCCCCHhHhhccCCCCCEEE
Confidence            5789999999999999999999998  67888885 777765544      244 59999999983      22238888


Q ss_pred             eccccccCCCCC
Q 024350          257 MKVICVCYLNSL  268 (269)
Q Consensus       257 l~~iLhd~~d~~  268 (269)
                      .+-+.-.++|.+
T Consensus       215 VsGL~ElF~Dn~  226 (311)
T PF12147_consen  215 VSGLYELFPDND  226 (311)
T ss_pred             EecchhhCCcHH
Confidence            888887787753

It is found in association with PF00561 from PFAM. Many members are annotated as being lysophospholipases, and others as alpha-beta hydrolase fold-containing proteins. This domain belongs to the S-adenosyl-L-methionine-dependent methyltransferases superfamily.

>PF02082 Rrf2: Transcriptional regulator; InterPro: IPR000944 The following uncharacterised bacterial proteins have been shown to be evolutionary related, Desulfovibrio vulgaris protein Rrf2; Escherichia coli hypothetical proteins yfhP and yjeB; Bacillus subtilis hypothetical proteins yhdE, yrzC and ywgB; Mycobacterium tuberculosis hypothetical protein Rv1287; and Synechocystis sp

Probab=96.64  E-value=0.0032  Score=44.69  Aligned_cols=53  Identities=21%  Similarity=0.302  Sum_probs=40.0

Q ss_pred             HHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecCh
Q 024350           42 ITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAP  102 (269)
Q Consensus        42 L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~  102 (269)
                      |+..+.+++.|.++||+.++++      +. .+++++..|...|+++.. +...|.|.++.
T Consensus        17 la~~~~~~~~s~~eiA~~~~i~------~~-~l~kil~~L~~~Gli~s~-~G~~GGy~L~~   69 (83)
T PF02082_consen   17 LARHPDGKPVSSKEIAERLGIS------PS-YLRKILQKLKKAGLIESS-RGRGGGYRLAR   69 (83)
T ss_dssp             HHCTTTSC-BEHHHHHHHHTS-------HH-HHHHHHHHHHHTTSEEEE-TSTTSEEEESS
T ss_pred             HHhCCCCCCCCHHHHHHHHCcC------HH-HHHHHHHHHhhCCeeEec-CCCCCceeecC
Confidence            3444333569999999999997      67 999999999999999854 22247888865

(strain PCC 6803) hypothetical protein slr0846. These are small proteins of 12 to 18kDa which seem to contain a signal sequence, and may represent a family of probable transcriptional regulators.; PDB: 3T8T_A 3T8R_A 3K69_A 3LWF_C 1XD7_A 2Y75_E 1YLF_C.

>PRK00536 speE spermidine synthase; Provisional

Probab=96.63  E-value=0.0036  Score=54.32  Aligned_cols=63  Identities=13%  Similarity=0.019  Sum_probs=49.1

Q ss_pred             CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC----------CCCceEEecccCCcCC-CC-cEEEec
Q 024350          192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS----------YPGIDHVGGDLFESVP-KA-DTIFMK  258 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~----------~~ri~~~~gD~~~~~P-~g-D~~~l~  258 (269)
                      +++++||=||||.|..++++++. |. +++.+|+ +.|++.+++          ++|++++.  ++.+.. +- |+|+.-
T Consensus        71 ~~pk~VLIiGGGDGg~~REvLkh-~~-~v~mVeID~~Vv~~~k~~lP~~~~~~~DpRv~l~~--~~~~~~~~~fDVIIvD  146 (262)
T PRK00536         71 KELKEVLIVDGFDLELAHQLFKY-DT-HVDFVQADEKILDSFISFFPHFHEVKNNKNFTHAK--QLLDLDIKKYDLIICL  146 (262)
T ss_pred             CCCCeEEEEcCCchHHHHHHHCc-CC-eeEEEECCHHHHHHHHHHCHHHHHhhcCCCEEEee--hhhhccCCcCCEEEEc
Confidence            46899999999999999999976 65 8999998 678877765          28999987  343333 33 888764

>PRK11569 transcriptional repressor IclR; Provisional

Probab=96.60  E-value=0.004  Score=54.52  Aligned_cols=59  Identities=14%  Similarity=0.221  Sum_probs=48.5

Q ss_pred             cChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhch
Q 024350           36 LDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSK  105 (269)
Q Consensus        36 lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s~  105 (269)
                      +.|++.|.+.+  +++|+.|||+.+|++      .. .+.|+|..|+..|+|.++  ...++|++.+...
T Consensus        31 l~IL~~l~~~~--~~~~lseia~~lglp------ks-Tv~RlL~tL~~~G~l~~~--~~~~~Y~lG~~l~   89 (274)
T PRK11569         31 LKLLEWIAESN--GSVALTELAQQAGLP------NS-TTHRLLTTMQQQGFVRQV--GELGHWAIGAHAF   89 (274)
T ss_pred             HHHHHHHHhCC--CCcCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCEEEc--CCCCeEecCHHHH
Confidence            56788888754  689999999999997      56 899999999999999842  2368999987543

>PF05724 TPMT: Thiopurine S-methyltransferase (TPMT); InterPro: IPR008854 This family consists of thiopurine S-methyltransferase proteins from both eukaryotes and prokaryotes

Probab=96.60  E-value=0.0072  Score=51.10  Aligned_cols=75  Identities=20%  Similarity=0.240  Sum_probs=56.6

Q ss_pred             CCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCC---C---------------CCCceEEecccCCcCCC
Q 024350          191 FEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAP---S---------------YPGIDHVGGDLFESVPK  251 (269)
Q Consensus       191 ~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~---~---------------~~ri~~~~gD~~~~~P~  251 (269)
                      .....+|++.|||.|..+..|+++  +.++|++|+ |..|+.+.   .               .++|++..+|||+--++
T Consensus        35 ~~~~~rvLvPgCG~g~D~~~La~~--G~~VvGvDls~~Ai~~~~~e~~~~~~~~~~~~~~~~~~~~i~~~~gDfF~l~~~  112 (218)
T PF05724_consen   35 LKPGGRVLVPGCGKGYDMLWLAEQ--GHDVVGVDLSPTAIEQAFEENNLEPTVTSVGGFKRYQAGRITIYCGDFFELPPE  112 (218)
T ss_dssp             TSTSEEEEETTTTTSCHHHHHHHT--TEEEEEEES-HHHHHHHHHHCTTEEECTTCTTEEEETTSSEEEEES-TTTGGGS
T ss_pred             CCCCCeEEEeCCCChHHHHHHHHC--CCeEEEEecCHHHHHHHHHHhccCCCcccccceeeecCCceEEEEcccccCChh
Confidence            445579999999999999999987  678999998 66776541   0               15799999999993232


Q ss_pred             --C--cEEEeccccccCCCC
Q 024350          252 --A--DTIFMKVICVCYLNS  267 (269)
Q Consensus       252 --g--D~~~l~~iLhd~~d~  267 (269)
                        |  |+++=+..|+-.+++
T Consensus       113 ~~g~fD~iyDr~~l~Alpp~  132 (218)
T PF05724_consen  113 DVGKFDLIYDRTFLCALPPE  132 (218)
T ss_dssp             CHHSEEEEEECSSTTTS-GG
T ss_pred             hcCCceEEEEecccccCCHH
Confidence              3  999988888877654

Thiopurine S-methyltransferase (TPMT) is a cytosolic enzyme that catalyses S-methylation of aromatic and heterocyclic sulphydryl compounds, including anticancer and immunosuppressive thiopurines [].; GO: 0008119 thiopurine S-methyltransferase activity, 0008152 metabolic process, 0005737 cytoplasm; PDB: 1PJZ_A 2H11_A 2BZG_A 3LCC_A 3BGD_A 2GB4_A 3BGI_B.

>TIGR02431 pcaR_pcaU beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family

Probab=96.58  E-value=0.0038  Score=53.76  Aligned_cols=57  Identities=26%  Similarity=0.360  Sum_probs=48.0

Q ss_pred             cChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhch
Q 024350           36 LDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSK  105 (269)
Q Consensus        36 lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s~  105 (269)
                      +.|++.|...+  .++|+.|||+.+|++      .. .+.|+|..|+..|+|.   ++ .++|++++.-.
T Consensus        12 l~IL~~l~~~~--~~~~l~eia~~lglp------ks-T~~RlL~tL~~~G~l~---~~-~~~Y~lG~~~~   68 (248)
T TIGR02431        12 LAVIEAFGAER--PRLTLTDVAEATGLT------RA-AARRFLLTLVELGYVT---SD-GRLFWLTPRVL   68 (248)
T ss_pred             HHHHHHHhcCC--CCCCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCEE---eC-CCEEEecHHHH
Confidence            56788887654  689999999999997      56 8999999999999999   43 58899987543

Member of this family are IclR-type transcriptional regulators with similar DNA binding sites, able to bind at least three different metabolites related to protocatechuate metabolism. Beta-ketoadipate is the inducer for PcaR, p-hydroxybenzoate for PobR, and protocatechuate for PcaU.

>TIGR02085 meth_trns_rumB 23S rRNA (uracil-5-)-methyltransferase RumB

Probab=96.55  E-value=0.0024  Score=58.41  Aligned_cols=62  Identities=13%  Similarity=0.081  Sum_probs=47.2

Q ss_pred             ccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC------CCceEEecccCCcCC---CC-cEEEe
Q 024350          194 VKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFESVP---KA-DTIFM  257 (269)
Q Consensus       194 ~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~~~P---~g-D~~~l  257 (269)
                      ..+|+|+|||+|.++..++..  ..+++.+|. |..++.++.+      ++++++.+|+.+..+   +. |++++
T Consensus       234 ~~~vLDL~cG~G~~~l~la~~--~~~v~~vE~~~~av~~a~~N~~~~~~~~~~~~~~d~~~~~~~~~~~~D~vi~  306 (374)
T TIGR02085       234 VTQMWDLFCGVGGFGLHCAGP--DTQLTGIEIESEAIACAQQSAQMLGLDNLSFAALDSAKFATAQMSAPELVLV  306 (374)
T ss_pred             CCEEEEccCCccHHHHHHhhc--CCeEEEEECCHHHHHHHHHHHHHcCCCcEEEEECCHHHHHHhcCCCCCEEEE
Confidence            368999999999999999854  467899996 7777766542      579999999865222   22 77765

This family consists of RNA methyltransferases designated RumB, formerly YbjF. Members act on 23S rRNA U747 and the equivalent position in other proteobacterial species. This family is homologous to the other 23S rRNA methyltransferase RumA and to the tRNA methyltransferase TrmA.

>PRK10163 DNA-binding transcriptional repressor AllR; Provisional

Probab=96.52  E-value=0.0048  Score=53.90  Aligned_cols=59  Identities=17%  Similarity=0.229  Sum_probs=48.5

Q ss_pred             cChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhch
Q 024350           36 LDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSK  105 (269)
Q Consensus        36 lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s~  105 (269)
                      +.|++.|...+  +++|+.|||+.+|++      .. .+.|+|..|+..|+|.++  ...++|++++...
T Consensus        28 l~IL~~~~~~~--~~~tl~eIa~~lglp------kS-tv~RlL~tL~~~G~l~~~--~~~~~Y~lG~~l~   86 (271)
T PRK10163         28 IAILQYLEKSG--GSSSVSDISLNLDLP------LS-TTFRLLKVLQAADFVYQD--SQLGWWHIGLGVF   86 (271)
T ss_pred             HHHHHHHHhCC--CCcCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCEEEc--CCCCeEEecHHHH
Confidence            56788888754  579999999999997      57 899999999999999843  2468899987543

>PRK10901 16S rRNA methyltransferase B; Provisional

Probab=96.51  E-value=0.006  Score=56.84  Aligned_cols=72  Identities=13%  Similarity=0.175  Sum_probs=54.3

Q ss_pred             HHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-----CCceEEecccCCc---CC-CC-c
Q 024350          185 LESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-----PGIDHVGGDLFES---VP-KA-D  253 (269)
Q Consensus       185 ~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-----~ri~~~~gD~~~~---~P-~g-D  253 (269)
                      +..++ .....+|+|+|||+|..+..+++..++.+++.+|+ |..++.++.+     -+++++.+|..+.   .+ .. |
T Consensus       237 ~~~l~-~~~g~~VLDlgaG~G~~t~~la~~~~~~~v~a~D~s~~~l~~~~~n~~~~g~~~~~~~~D~~~~~~~~~~~~fD  315 (427)
T PRK10901        237 ATLLA-PQNGERVLDACAAPGGKTAHILELAPQAQVVALDIDAQRLERVRENLQRLGLKATVIVGDARDPAQWWDGQPFD  315 (427)
T ss_pred             HHHcC-CCCCCEEEEeCCCCChHHHHHHHHcCCCEEEEEeCCHHHHHHHHHHHHHcCCCeEEEEcCcccchhhcccCCCC
Confidence            34444 44557999999999999999999998888999997 7777766542     2478999999862   22 23 8


Q ss_pred             EEEe
Q 024350          254 TIFM  257 (269)
Q Consensus       254 ~~~l  257 (269)
                      .+++
T Consensus       316 ~Vl~  319 (427)
T PRK10901        316 RILL  319 (427)
T ss_pred             EEEE
Confidence            8874

>PF01978 TrmB: Sugar-specific transcriptional regulator TrmB; InterPro: IPR002831 TrmB, is a protein of 38,800 apparent molecular weight, that is involved in the maltose-specific regulation of the trehalose/maltose ABC transport operon in Thermococcus litoralis

Probab=96.50  E-value=0.0027  Score=43.23  Aligned_cols=57  Identities=16%  Similarity=0.223  Sum_probs=43.9

Q ss_pred             HhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecC
Q 024350           34 VELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLA  101 (269)
Q Consensus        34 ~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t  101 (269)
                      .+..++..|-..   ++.|+++||+.+|++      .. .+.+.|+-|...|++.... ..+-.|...
T Consensus         9 ~E~~vy~~Ll~~---~~~t~~eIa~~l~i~------~~-~v~~~L~~L~~~GlV~~~~-~~~~~Y~a~   65 (68)
T PF01978_consen    9 NEAKVYLALLKN---GPATAEEIAEELGIS------RS-TVYRALKSLEEKGLVEREE-GRPKVYRAV   65 (68)
T ss_dssp             HHHHHHHHHHHH---CHEEHHHHHHHHTSS------HH-HHHHHHHHHHHTTSEEEEE-ECCEEEEEE
T ss_pred             HHHHHHHHHHHc---CCCCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCEEEEc-CceEEEEEe
Confidence            345566666554   699999999999997      67 9999999999999999643 234556543

TrmB has been shown to be a maltose-specific repressor, and this inhibition is counteracted by maltose and trehalose. TrmB binds maltose and trehalose half-maximally at 20 uM and 0.5 mM sugar concentration, respectively []. Other members of this family are annotated as either transcriptional regulators or hypothetical proteins. ; PDB: 2D1H_A 3QPH_A 1SFX_A.

>TIGR00478 tly hemolysin TlyA family protein

Probab=96.50  E-value=0.013  Score=49.95  Aligned_cols=77  Identities=17%  Similarity=0.272  Sum_probs=48.9

Q ss_pred             HHHHHhccCC-CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeehhH-HH-HhCCCCCCceEEe-cccCC----cC----
Q 024350          182 EKVLESYKGF-EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLY-VI-KNAPSYPGIDHVG-GDLFE----SV----  249 (269)
Q Consensus       182 ~~~~~~~~~~-~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp~-vv-~~a~~~~ri~~~~-gD~~~----~~----  249 (269)
                      ..+++.++ . -+..+++|||||+|.++..++++ +--+++.+|.-+ .+ ...+.++|+..+. .|+-.    ++    
T Consensus        64 ~~~l~~~~-~~~~~~~vlDiG~gtG~~t~~l~~~-ga~~v~avD~~~~~l~~~l~~~~~v~~~~~~ni~~~~~~~~~~d~  141 (228)
T TIGR00478        64 KEALEEFN-IDVKNKIVLDVGSSTGGFTDCALQK-GAKEVYGVDVGYNQLAEKLRQDERVKVLERTNIRYVTPADIFPDF  141 (228)
T ss_pred             HHHHHhcC-CCCCCCEEEEcccCCCHHHHHHHHc-CCCEEEEEeCCHHHHHHHHhcCCCeeEeecCCcccCCHhHcCCCc
Confidence            34555554 2 24579999999999999999986 455789999843 44 4455566654333 24331    12    


Q ss_pred             CCCcEEEeccc
Q 024350          250 PKADTIFMKVI  260 (269)
Q Consensus       250 P~gD~~~l~~i  260 (269)
                      +..|+.|++..
T Consensus       142 ~~~DvsfiS~~  152 (228)
T TIGR00478       142 ATFDVSFISLI  152 (228)
T ss_pred             eeeeEEEeehH
Confidence            22388887654

Hemolysins are exotoxins that attack blood cell membranes and cause cell rupture, often by forming a pore in the membrane. At least two members of this protein family have been characterized indirectly as pore-forming hemolysins, one from the spirochete Serpula (Treponema) hyodysenteriae and one from Mycobacterium tuberculosis. However, homology domains in this protein suggest methyltransferase activity (pfam01728) and RNA-binding activity (pfam01479).

>PTZ00146 fibrillarin; Provisional

Probab=96.49  E-value=0.012  Score=51.87  Aligned_cols=69  Identities=17%  Similarity=0.122  Sum_probs=51.7

Q ss_pred             CCCccEEEEeCCCchHHHHHHHHHCC-CCeEEEeehhH-----HHHhCCCCCCceEEecccCCcC----C-C-CcEEEec
Q 024350          191 FEHVKKLVDVGGGLGATLNMIISKYP-HIKGINYDLLY-----VIKNAPSYPGIDHVGGDLFESV----P-K-ADTIFMK  258 (269)
Q Consensus       191 ~~~~~~vvDvGGG~G~~~~~l~~~~P-~l~~vv~Dlp~-----vv~~a~~~~ri~~~~gD~~~~~----P-~-gD~~~l~  258 (269)
                      ++...+|||+|||+|.++..++.... .=+++.+|+.+     .++.++..++|.++.+|...+.    + + .|++|+.
T Consensus       130 IkpG~~VLDLGaG~G~~t~~lAdiVG~~G~VyAVD~s~r~~~dLl~~ak~r~NI~~I~~Da~~p~~y~~~~~~vDvV~~D  209 (293)
T PTZ00146        130 IKPGSKVLYLGAASGTTVSHVSDLVGPEGVVYAVEFSHRSGRDLTNMAKKRPNIVPIIEDARYPQKYRMLVPMVDVIFAD  209 (293)
T ss_pred             cCCCCEEEEeCCcCCHHHHHHHHHhCCCCEEEEEECcHHHHHHHHHHhhhcCCCEEEECCccChhhhhcccCCCCEEEEe
Confidence            44557999999999999999999874 44788889743     4555555688999999986542    2 2 3988775


Q ss_pred             c
Q 024350          259 V  259 (269)
Q Consensus       259 ~  259 (269)
                      .
T Consensus       210 v  210 (293)
T PTZ00146        210 V  210 (293)
T ss_pred             C
Confidence            5

>KOG3420 consensus Predicted RNA methylase [Translation, ribosomal structure and biogenesis]

Probab=96.47  E-value=0.006  Score=47.78  Aligned_cols=73  Identities=25%  Similarity=0.336  Sum_probs=52.6

Q ss_pred             HHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCe-EEEeeh-hHHHHhCCCC-----CCceEEecccCCcCCC-C--
Q 024350          183 KVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIK-GINYDL-LYVIKNAPSY-----PGIDHVGGDLFESVPK-A--  252 (269)
Q Consensus       183 ~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~-~vv~Dl-p~vv~~a~~~-----~ri~~~~gD~~~~~P~-g--  252 (269)
                      .+...|++++ .+++.|+|||.|.+.  +.-.+|..+ ++++|+ |..++....+     =.|.++..|+.++.+. +  
T Consensus        39 ~Ih~TygdiE-gkkl~DLgcgcGmLs--~a~sm~~~e~vlGfDIdpeALEIf~rNaeEfEvqidlLqcdildle~~~g~f  115 (185)
T KOG3420|consen   39 TIHNTYGDIE-GKKLKDLGCGCGMLS--IAFSMPKNESVLGFDIDPEALEIFTRNAEEFEVQIDLLQCDILDLELKGGIF  115 (185)
T ss_pred             HHHhhhcccc-CcchhhhcCchhhhH--HHhhcCCCceEEeeecCHHHHHHHhhchHHhhhhhheeeeeccchhccCCeE
Confidence            3445565453 488999999999988  555677765 799998 7888877654     3578888888887665 3  


Q ss_pred             cEEEec
Q 024350          253 DTIFMK  258 (269)
Q Consensus       253 D~~~l~  258 (269)
                      |..++.
T Consensus       116 DtaviN  121 (185)
T KOG3420|consen  116 DTAVIN  121 (185)
T ss_pred             eeEEec
Confidence            665543

>PRK09834 DNA-binding transcriptional activator MhpR; Provisional

Probab=96.46  E-value=0.0056  Score=53.23  Aligned_cols=63  Identities=14%  Similarity=0.164  Sum_probs=50.5

Q ss_pred             hcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhchhhh
Q 024350           35 ELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSKYFV  108 (269)
Q Consensus        35 ~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s~~l~  108 (269)
                      -+.|++.|...+  +++|..|||+.+|++      .. .+.|+|..|+..|+|.++  ..++.|++++....+.
T Consensus        13 al~iL~~l~~~~--~~ls~~eia~~lgl~------ks-tv~RlL~tL~~~g~v~~~--~~~~~Y~Lg~~~~~l~   75 (263)
T PRK09834         13 GLMVLRALNRLD--GGATVGLLAELTGLH------RT-TVRRLLETLQEEGYVRRS--ASDDSFRLTLKVRQLS   75 (263)
T ss_pred             HHHHHHHHHhcC--CCCCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCEEEe--cCCCcEEEcHHHHHHH
Confidence            356788887754  569999999999997      56 899999999999999953  2467899998765443

>KOG0820 consensus Ribosomal RNA adenine dimethylase [RNA processing and modification]

Probab=96.46  E-value=0.0083  Score=51.76  Aligned_cols=70  Identities=14%  Similarity=0.317  Sum_probs=51.9

Q ss_pred             HHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCC----CC---CCceEEecccCC-cCCCC
Q 024350          182 EKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAP----SY---PGIDHVGGDLFE-SVPKA  252 (269)
Q Consensus       182 ~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~----~~---~ri~~~~gD~~~-~~P~g  252 (269)
                      ..++..-+ ......|+.||.|+|.+...++++-  -+++.+++ |..++...    ..   .+.+++.|||++ ++|--
T Consensus        48 ~~I~~ka~-~k~tD~VLEvGPGTGnLT~~lLe~~--kkVvA~E~Dprmvael~krv~gtp~~~kLqV~~gD~lK~d~P~f  124 (315)
T KOG0820|consen   48 DQIVEKAD-LKPTDVVLEVGPGTGNLTVKLLEAG--KKVVAVEIDPRMVAELEKRVQGTPKSGKLQVLHGDFLKTDLPRF  124 (315)
T ss_pred             HHHHhccC-CCCCCEEEEeCCCCCHHHHHHHHhc--CeEEEEecCcHHHHHHHHHhcCCCccceeeEEecccccCCCccc
Confidence            44555555 6677899999999999999999984  45566665 55555433    22   689999999999 88854


Q ss_pred             cE
Q 024350          253 DT  254 (269)
Q Consensus       253 D~  254 (269)
                      |.
T Consensus       125 d~  126 (315)
T KOG0820|consen  125 DG  126 (315)
T ss_pred             ce
Confidence            43

>PF13463 HTH_27: Winged helix DNA-binding domain; PDB: 3GFL_A 2YR2_B 3GFM_A 3GFJ_A 3GF2_A 3GEZ_A 2GXG_A 3GFI_A 2EB7_A

Probab=96.43  E-value=0.0067  Score=40.94  Aligned_cols=49  Identities=12%  Similarity=0.289  Sum_probs=35.8

Q ss_pred             CCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCC---CeEecChhc
Q 024350           49 AKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQ---RLYSLAPVS  104 (269)
Q Consensus        49 ~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~---~~y~~t~~s  104 (269)
                      +++|..+|++.++++      .. .+.++++-|...|+|++.....+   ..|++|+.|
T Consensus        17 ~~~t~~~l~~~~~~~------~~-~vs~~i~~L~~~glv~~~~~~~d~R~~~~~LT~~G   68 (68)
T PF13463_consen   17 GPMTQSDLAERLGIS------KS-TVSRIIKKLEEKGLVEKERDPHDKRSKRYRLTPAG   68 (68)
T ss_dssp             S-BEHHHHHHHTT--------HH-HHHHHHHHHHHTTSEEEEEESSCTTSEEEEE-HHH
T ss_pred             CCcCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCEEecCCCCcCCeeEEEeCCCC
Confidence            699999999999997      56 89999999999999975321112   458888864

>PF01022 HTH_5: Bacterial regulatory protein, arsR family; InterPro: IPR001845 Bacterial transcription regulatory proteins that bind DNA via a helix-turn-helix (HTH) motif can be grouped into families on the basis of sequence similarities

Probab=96.42  E-value=0.0033  Score=39.53  Aligned_cols=43  Identities=19%  Similarity=0.392  Sum_probs=37.6

Q ss_pred             hcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCccc
Q 024350           35 ELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALH   88 (269)
Q Consensus        35 ~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~   88 (269)
                      ++.|...|.+    ++.++.||++.+|++      .. .+.+.|+.|...|++.
T Consensus         4 R~~Il~~L~~----~~~~~~el~~~l~~s------~~-~vs~hL~~L~~~glV~   46 (47)
T PF01022_consen    4 RLRILKLLSE----GPLTVSELAEELGLS------QS-TVSHHLKKLREAGLVE   46 (47)
T ss_dssp             HHHHHHHHTT----SSEEHHHHHHHHTS-------HH-HHHHHHHHHHHTTSEE
T ss_pred             HHHHHHHHHh----CCCchhhHHHhcccc------ch-HHHHHHHHHHHCcCee
Confidence            5567778887    699999999999998      67 9999999999999986

One such group, termed arsR, includes several proteins that appear to dissociate from DNA in the presence of metal ions: arsR, which functions as a transcriptional repressor of an arsenic resistance operon; smtB from Synechococcus sp. (strain PCC 7942), which acts as a transcriptional repressor of the smtA gene that codes for a metallothionein; cadC, a protein required for cadmium-resistance; and hypothetical protein yqcJ from Bacillus subtilis. The HTH motif is thought to be located in the central part of these proteins []. The motif is characterised by a number of well-conserved residues: at its N-terminal extremity is a cysteine residue; a second Cys is found in arsR and cadC, but not in smtA; and at the C terminus lie one or two histidines. These residues may be involved in metal-binding (Zn in smtB; metal-oxyanions such as arsenite, antimonite and arsenate for arsR; and cadmium for cadC) []. It is believed that binding of a metal ion could induce a conformational change that would prevent the protein from binding DNA []. The crystal structure of the cyanobacterial smtB shows a fold of five alpha-helices (H) and a pair of antiparallel beta-strands (B) in the topology H1-H2-H3-H4-B1-B2-H5. Helices 3 and 4 comprise the helix-turn-helix motif and the beta-sheet is called the wing as in other wHTH, such as the dtxR-type or the merR-type. Helix 4 is termed the recognition helix, like in other HTHs where it binds the DNA major groove. Most arsR/smtB-like metalloregulators form homodimers []. The dimer interface is formed by helix 5 and an N-terminal part []. Two distinct metal-binding sites have been identified. The first site comprises cysteine thiolates located in the HTH in helix 3 and for some cases in the N terminus, called the alpha3(N) site []. The second metal-binding site is located in helix 5 (and C terminus) and is called the alpha5(C) site. The alpha3N site binds large thiophilic, toxic metals including Cd, Pb, and Bi, as in S. aureus cadC. ArsR lacks the N-terminal arm and its alpha3 site coordinates smaller thiophilic ions like As and Sb. The alpha5 site contains carboxylate and imidazole ligands and interacts preferentially with biologically required metal ions including Zn, Co, and Ni. ArsR-type metalloregulators contain one of these sites, both, or other potential metal-binding sites [, ]. Binding of metal ions to these sites leads to allosteric changes that can derepress the operator/promotor DNA. The metal-inducible operons contain one or two imperfect 12-2-12 inverted repeats, which can be recognised by multimeric arsR-type metalloregulators. ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 3CUO_A 1U2W_C 3F72_C 3F6V_A 3JTH_B 2P4W_B 1KU9_B 2LKP_B 1SMT_A 1R22_B ....

>TIGR00479 rumA 23S rRNA (uracil-5-)-methyltransferase RumA

Probab=96.39  E-value=0.0033  Score=58.65  Aligned_cols=60  Identities=15%  Similarity=0.226  Sum_probs=47.3

Q ss_pred             HHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC------CCceEEecccCC
Q 024350          185 LESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFE  247 (269)
Q Consensus       185 ~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~  247 (269)
                      .+.+. ..+..+|+|+|||+|.++..+++...  +++.+|. |+.++.++++      ++|+++.+|+.+
T Consensus       285 ~~~l~-~~~~~~vLDl~cG~G~~sl~la~~~~--~V~~vE~~~~av~~a~~n~~~~~~~nv~~~~~d~~~  351 (431)
T TIGR00479       285 LEALE-LQGEELVVDAYCGVGTFTLPLAKQAK--SVVGIEVVPESVEKAQQNAELNGIANVEFLAGTLET  351 (431)
T ss_pred             HHHhc-cCCCCEEEEcCCCcCHHHHHHHHhCC--EEEEEEcCHHHHHHHHHHHHHhCCCceEEEeCCHHH
Confidence            33334 45557999999999999999998753  6899997 8888877652      689999999865

This protein family was first proposed to be RNA methyltransferases by homology to the TrmA family. The member from E. coli has now been shown to act as the 23S RNA methyltransferase for the conserved U1939. The gene is now designated rumA and was previously designated ygcA.

>PRK15090 DNA-binding transcriptional regulator KdgR; Provisional

Probab=96.37  E-value=0.006  Score=52.84  Aligned_cols=58  Identities=10%  Similarity=0.234  Sum_probs=47.4

Q ss_pred             cChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhch
Q 024350           36 LDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSK  105 (269)
Q Consensus        36 lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s~  105 (269)
                      +.|++.|...   +++|+.|||+.+|++      .. .+.|+|+.|+..|+|.++  .+.++|++++...
T Consensus        17 l~IL~~l~~~---~~l~l~eia~~lgl~------ks-tv~Rll~tL~~~G~l~~~--~~~~~Y~lG~~~~   74 (257)
T PRK15090         17 FGILQALGEE---REIGITELSQRVMMS------KS-TVYRFLQTMKTLGYVAQE--GESEKYSLTLKLF   74 (257)
T ss_pred             HHHHHHhhcC---CCCCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCEEEc--CCCCcEEecHHHH
Confidence            4577777764   589999999999997      56 899999999999999842  2468899987543

>PF00398 RrnaAD: Ribosomal RNA adenine dimethylase; InterPro: IPR001737 This family of proteins include rRNA adenine dimethylases (e

Probab=96.36  E-value=0.0068  Score=52.69  Aligned_cols=77  Identities=14%  Similarity=0.348  Sum_probs=55.8

Q ss_pred             HHHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCC----CCCCceEEecccCC-cCCC---
Q 024350          181 MEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAP----SYPGIDHVGGDLFE-SVPK---  251 (269)
Q Consensus       181 ~~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~----~~~ri~~~~gD~~~-~~P~---  251 (269)
                      ...+++..+ ..+...|+|||.|.|.+...|++..  -+.+++|. |..++..+    ..++++++.+|+++ ..+.   
T Consensus        19 ~~~Iv~~~~-~~~~~~VlEiGpG~G~lT~~L~~~~--~~v~~vE~d~~~~~~L~~~~~~~~~~~vi~~D~l~~~~~~~~~   95 (262)
T PF00398_consen   19 ADKIVDALD-LSEGDTVLEIGPGPGALTRELLKRG--KRVIAVEIDPDLAKHLKERFASNPNVEVINGDFLKWDLYDLLK   95 (262)
T ss_dssp             HHHHHHHHT-CGTTSEEEEESSTTSCCHHHHHHHS--SEEEEEESSHHHHHHHHHHCTTCSSEEEEES-TTTSCGGGHCS
T ss_pred             HHHHHHhcC-CCCCCEEEEeCCCCccchhhHhccc--CcceeecCcHhHHHHHHHHhhhcccceeeecchhccccHHhhc
Confidence            345667666 6677899999999999999999998  56678876 44444333    35899999999998 5554   


Q ss_pred             -CcEEEeccc
Q 024350          252 -ADTIFMKVI  260 (269)
Q Consensus       252 -gD~~~l~~i  260 (269)
                       ..+.++.++
T Consensus        96 ~~~~~vv~Nl  105 (262)
T PF00398_consen   96 NQPLLVVGNL  105 (262)
T ss_dssp             SSEEEEEEEE
T ss_pred             CCceEEEEEe
Confidence             245555554

g. KsgA) and the Erythromycin resistance methylases (Erm). The bacterial enzyme KsgA catalyses the transfer of a total of four methyl groups from S-adenosyl-l-methionine (S-AdoMet) to two adjacent adenosine bases in 16S rRNA. This enzyme and the resulting modified adenosine bases appear to be conserved in all species of eubacteria, eukaryotes, and archaea, and in eukaryotic organelles. Bacterial resistance to the aminoglycoside antibiotic kasugamycin involves inactivation of KsgA and resulting loss of the dimethylations, with modest consequences to the overall fitness of the organism. In contrast, the yeast ortholog, Dim1, is essential. In Saccharomyces cerevisiae (Baker's yeast), and presumably in other eukaryotes, the enzyme performs a vital role in pre-rRNA processing in addition to its methylating activity. The best conserved region in these enzymes is located in the N-terminal section and corresponds to a region that is probably involved in S-adenosyl methionine (SAM) binding domain. The crystal structure of KsgA from Escherichia coli has been solved to a resolution of 2.1A. It bears a strong similarity to the crystal structure of ErmC' from Bacillus stearothermophilus and a lesser similarity to the yeast mitochondrial transcription factor, sc-mtTFB []. The Erm family of RNA methyltransferases, which methylate a single adenosine base in 23S rRNA confer resistance to the MLS-B group of antibiotics. Despite their sequence similarity, the two enzyme families have strikingly different levels of regulation that remain to be elucidated. Other orthologs, of this family include the yeast and Homo sapiens (Human) mitochondrial transcription factors (MTF1 and h-mtTFB respectively), which are nuclear encoded []. Human-mtTFB is able to stimulate transcription in vitro independently of its S-adenosylmethionine binding and rRNA methyltransferase activity [].; GO: 0000179 rRNA (adenine-N6,N6-)-dimethyltransferase activity, 0008649 rRNA methyltransferase activity, 0000154 rRNA modification; PDB: 3FTF_A 3R9X_B 3FTE_A 3FTC_A 3FTD_A 3GRY_A 3FYC_A 3GRU_A 3FYD_A 3GRV_A ....

>PF10294 Methyltransf_16: Putative methyltransferase; InterPro: IPR019410 There are a number of unidentified genes that have a high probability of coding for methyltransferases

Probab=96.33  E-value=0.0046  Score=50.30  Aligned_cols=71  Identities=14%  Similarity=0.114  Sum_probs=45.1

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeehhHHHHhCCC---------CCCceEEecccCCcC------CCC-cEEE
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPS---------YPGIDHVGGDLFESV------PKA-DTIF  256 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp~vv~~a~~---------~~ri~~~~gD~~~~~------P~g-D~~~  256 (269)
                      ..++|+++|+|.|..++.+++.++..++++-|.+++++..+.         ..+|++...|.-++.      +.. |+++
T Consensus        45 ~~~~VLELGaG~Gl~gi~~a~~~~~~~Vv~TD~~~~l~~l~~Ni~~N~~~~~~~v~v~~L~Wg~~~~~~~~~~~~~D~Il  124 (173)
T PF10294_consen   45 RGKRVLELGAGTGLPGIAAAKLFGAARVVLTDYNEVLELLRRNIELNGSLLDGRVSVRPLDWGDELDSDLLEPHSFDVIL  124 (173)
T ss_dssp             TTSEEEETT-TTSHHHHHHHHT-T-SEEEEEE-S-HHHHHHHHHHTT--------EEEE--TTS-HHHHHHS-SSBSEEE
T ss_pred             CCceEEEECCccchhHHHHHhccCCceEEEeccchhhHHHHHHHHhccccccccccCcEEEecCcccccccccccCCEEE
Confidence            458999999999999999999888888999999887764432         267899998876632      223 9999


Q ss_pred             ecccccc
Q 024350          257 MKVICVC  263 (269)
Q Consensus       257 l~~iLhd  263 (269)
                      .+-|+++
T Consensus       125 asDv~Y~  131 (173)
T PF10294_consen  125 ASDVLYD  131 (173)
T ss_dssp             EES--S-
T ss_pred             Eecccch
Confidence            9999986

They make up approximately 0.6-1.6% of the genes in the yeast, human, mouse, Drosophila melanogaster, Caenorhabditis elegans, Arabidopsis thaliana, and Escherichia coli genomes []. This entry represents putative nicotinamide N-methyltransferases involved in rDNA silencing and in lifespan determination. ; PDB: 3BZB_A.

>COG2264 PrmA Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]

Probab=96.32  E-value=0.0055  Score=53.95  Aligned_cols=64  Identities=23%  Similarity=0.282  Sum_probs=45.8

Q ss_pred             HHHHHHHhhchhhHHHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC
Q 024350          168 VFSNGMLSHTSIVMEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY  235 (269)
Q Consensus       168 ~f~~~m~~~~~~~~~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~  235 (269)
                      .|..+-+.++.... .+++.+.  .+..+++|||||+|.++++.++- -.-+++.+|+ |..++.++.+
T Consensus       140 AFGTG~HpTT~lcL-~~Le~~~--~~g~~vlDvGcGSGILaIAa~kL-GA~~v~g~DiDp~AV~aa~eN  204 (300)
T COG2264         140 AFGTGTHPTTSLCL-EALEKLL--KKGKTVLDVGCGSGILAIAAAKL-GAKKVVGVDIDPQAVEAAREN  204 (300)
T ss_pred             ccCCCCChhHHHHH-HHHHHhh--cCCCEEEEecCChhHHHHHHHHc-CCceEEEecCCHHHHHHHHHH
Confidence            56666666666554 3455555  36799999999999999998865 3345899998 6677766653

>TIGR01444 fkbM_fam methyltransferase, FkbM family

Probab=96.30  E-value=0.0049  Score=47.98  Aligned_cols=52  Identities=15%  Similarity=0.174  Sum_probs=41.2

Q ss_pred             EEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC------CCceEEecccCC
Q 024350          196 KLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFE  247 (269)
Q Consensus       196 ~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~  247 (269)
                      +++|||||.|.++..+++.+|..+++.+|- |...+.+++.      ++++++...+.+
T Consensus         1 ~vlDiGa~~G~~~~~~~~~~~~~~v~~~E~~~~~~~~l~~~~~~n~~~~v~~~~~al~~   59 (143)
T TIGR01444         1 VVIDVGANIGDTSLYFARKGAEGRVIAFEPLPDAYEILEENVKLNNLPNVVLLNAAVGD   59 (143)
T ss_pred             CEEEccCCccHHHHHHHHhCCCCEEEEEecCHHHHHHHHHHHHHcCCCcEEEEEeeeeC
Confidence            489999999999999999999999999995 6666654431      457777766654

Members of this family are characterized by two well-conserved short regions separated by a variable in both sequence and length. The first of the two regions is found in a large number of proteins outside this subfamily, a number of which have been characterized as methyltransferases. One member of the present family, FkbM, was shown to be required for a specific methylation in the biosynthesis of the immunosuppressant FK506 in Streptomyces strain MA6548.

>PF01564 Spermine_synth: Spermine/spermidine synthase; InterPro: IPR001045 Synonym(s): Spermidine aminopropyltransferase A group of polyamine biosynthetic enzymes involved in the fifth (last) step in the biosynthesis of spermidine from arginine and methionine which includes; spermidine synthase (2

Probab=96.27  E-value=0.0034  Score=54.12  Aligned_cols=66  Identities=21%  Similarity=0.278  Sum_probs=51.1

Q ss_pred             CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC----------CCCceEEecccCC---cCCC-C-cEE
Q 024350          192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS----------YPGIDHVGGDLFE---SVPK-A-DTI  255 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~----------~~ri~~~~gD~~~---~~P~-g-D~~  255 (269)
                      +++++||=||||.|..+.++++..|-.+.+++|+ |.|++.+++          .+|++++.+|-+.   ..++ . |++
T Consensus        75 ~~p~~VLiiGgG~G~~~~ell~~~~~~~i~~VEiD~~Vv~~a~~~f~~~~~~~~d~r~~i~~~Dg~~~l~~~~~~~yDvI  154 (246)
T PF01564_consen   75 PNPKRVLIIGGGDGGTARELLKHPPVESITVVEIDPEVVELARKYFPEFSEGLDDPRVRIIIGDGRKFLKETQEEKYDVI  154 (246)
T ss_dssp             SST-EEEEEESTTSHHHHHHTTSTT-SEEEEEES-HHHHHHHHHHTHHHHTTGGSTTEEEEESTHHHHHHTSSST-EEEE
T ss_pred             CCcCceEEEcCCChhhhhhhhhcCCcceEEEEecChHHHHHHHHhchhhccccCCCceEEEEhhhHHHHHhccCCcccEE
Confidence            4679999999999999999997766778999998 788887764          2799999999876   3444 4 777


Q ss_pred             Ee
Q 024350          256 FM  257 (269)
Q Consensus       256 ~l  257 (269)
                      ++
T Consensus       155 i~  156 (246)
T PF01564_consen  155 IV  156 (246)
T ss_dssp             EE
T ss_pred             EE
Confidence            54

5.1.16 from EC), spermine synthase (2.5.1.22 from EC) and putrescine N-methyltransferase (2.1.1.53 from EC) []. The Thermotoga maritima spermidine synthase monomer consists of two domains: an N-terminal domain composed of six beta-strands, and a Rossmann-like C- terminal domain []. The larger C-terminal catalytic core domain consists of a seven-stranded beta-sheet flanked by nine alpha helices. This domain resembles a topology observed in a number of nucleotide and dinucleotide-binding enzymes, and in S-adenosyl-L-methionine (AdoMet)- dependent methyltransferase (MTases) [].; GO: 0003824 catalytic activity; PDB: 2E5W_C 2ZSU_E 2O0L_B 2O05_B 2O06_B 2O07_B 3RW9_B 2PWP_A 2HTE_B 3RIE_B ....

>PRK11512 DNA-binding transcriptional repressor MarR; Provisional

Probab=96.24  E-value=0.043  Score=43.05  Aligned_cols=63  Identities=19%  Similarity=0.156  Sum_probs=46.4

Q ss_pred             cChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCC---eEecChhchhhh
Q 024350           36 LDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQR---LYSLAPVSKYFV  108 (269)
Q Consensus        36 lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~---~y~~t~~s~~l~  108 (269)
                      ..|+-.|...   +++|..+||+.++++      .. .+.++++-|...|+|.+.+-.++.   ...+|+.|+.+.
T Consensus        43 ~~vL~~l~~~---~~~t~~eLa~~l~i~------~~-tvsr~l~~Le~~GlI~R~~~~~DrR~~~l~LT~~G~~~~  108 (144)
T PRK11512         43 FKVLCSIRCA---ACITPVELKKVLSVD------LG-ALTRMLDRLVCKGWVERLPNPNDKRGVLVKLTTSGAAIC  108 (144)
T ss_pred             HHHHHHHHHc---CCCCHHHHHHHHCCC------HH-HHHHHHHHHHHCCCEEeccCcccCCeeEeEEChhHHHHH
Confidence            3456666654   589999999999998      56 999999999999999954211222   256777776544

>PF13412 HTH_24: Winged helix-turn-helix DNA-binding; PDB: 1I1G_B 2IA0_B 3I4P_A 2GQQ_A 2L4A_A 2CFX_B 2DBB_B 2EFO_A 2EFQ_A 2PN6_A

Probab=96.24  E-value=0.0086  Score=37.65  Aligned_cols=45  Identities=9%  Similarity=0.309  Sum_probs=37.5

Q ss_pred             HhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCccc
Q 024350           34 VELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALH   88 (269)
Q Consensus        34 ~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~   88 (269)
                      .+..|+..|.+.   +++|..|||+.+|++      .. .+.+.|+-|...|+++
T Consensus         4 ~~~~Il~~l~~~---~~~t~~ela~~~~is------~~-tv~~~l~~L~~~g~I~   48 (48)
T PF13412_consen    4 TQRKILNYLREN---PRITQKELAEKLGIS------RS-TVNRYLKKLEEKGLIE   48 (48)
T ss_dssp             HHHHHHHHHHHC---TTS-HHHHHHHHTS-------HH-HHHHHHHHHHHTTSEE
T ss_pred             HHHHHHHHHHHc---CCCCHHHHHHHhCCC------HH-HHHHHHHHHHHCcCcC
Confidence            456788899886   479999999999998      67 9999999999999974

...

>KOG3115 consensus Methyltransferase-like protein [General function prediction only]

Probab=96.22  E-value=0.0046  Score=51.05  Aligned_cols=73  Identities=16%  Similarity=0.323  Sum_probs=47.8

Q ss_pred             ccEEEEeCCCchHHHHHHHHHCCCCeEEEeehh-HHH-------HhCCC------CCCceEEecccCCcCCCC-cEEEec
Q 024350          194 VKKLVDVGGGLGATLNMIISKYPHIKGINYDLL-YVI-------KNAPS------YPGIDHVGGDLFESVPKA-DTIFMK  258 (269)
Q Consensus       194 ~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp-~vv-------~~a~~------~~ri~~~~gD~~~~~P~g-D~~~l~  258 (269)
                      ..-++|||||.|.++++|...||+--.+++++- .|.       ...+.      ...|.++-.|-+.-+|.- .--.++
T Consensus        61 kvefaDIGCGyGGLlv~Lsp~fPdtLiLGmEIR~KVsdYVk~RI~ALR~~~a~~~~~ni~vlr~namk~lpn~f~kgqLs  140 (249)
T KOG3115|consen   61 KVEFADIGCGYGGLLMKLAPKFPDTLILGMEIRDKVSDYVKERIQALRRTSAEGQYPNISVLRTNAMKFLPNFFEKGQLS  140 (249)
T ss_pred             cceEEeeccCccchhhhccccCccceeeeehhhHHHHHHHHHHHHHHhccccccccccceeeeccchhhccchhhhcccc
Confidence            367999999999999999999999888888762 222       11221      256777777766655541 222333


Q ss_pred             cccccCCC
Q 024350          259 VICVCYLN  266 (269)
Q Consensus       259 ~iLhd~~d  266 (269)
                      ..++.+||
T Consensus       141 kmff~fpd  148 (249)
T KOG3115|consen  141 KMFFLFPD  148 (249)
T ss_pred             cceeecCC
Confidence            44444444

>PF08003 Methyltransf_9: Protein of unknown function (DUF1698); InterPro: IPR010017 Methyl transfer from the ubiquitous S-adenosyl-L-methionine (AdoMet) to either nitrogen, oxygen or carbon atoms is frequently employed in diverse organisms ranging from bacteria to plants and mammals

Probab=96.19  E-value=0.023  Score=50.07  Aligned_cols=82  Identities=20%  Similarity=0.208  Sum_probs=51.6

Q ss_pred             HHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hH------HHHhCCC-CCCceEEecccCCcCC--C
Q 024350          182 EKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LY------VIKNAPS-YPGIDHVGGDLFESVP--K  251 (269)
Q Consensus       182 ~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~------vv~~a~~-~~ri~~~~gD~~~~~P--~  251 (269)
                      ..+...++.+++ ++|+|||||.|.++-+++++.|.. ++++|- +.      .+..... ..++..++- ..+.+|  .
T Consensus       105 ~rl~p~l~~L~g-k~VLDIGC~nGY~~frM~~~GA~~-ViGiDP~~lf~~QF~~i~~~lg~~~~~~~lpl-gvE~Lp~~~  181 (315)
T PF08003_consen  105 DRLLPHLPDLKG-KRVLDIGCNNGYYSFRMLGRGAKS-VIGIDPSPLFYLQFEAIKHFLGQDPPVFELPL-GVEDLPNLG  181 (315)
T ss_pred             HHHHhhhCCcCC-CEEEEecCCCcHHHHHHhhcCCCE-EEEECCChHHHHHHHHHHHHhCCCccEEEcCc-chhhccccC
Confidence            344455532644 799999999999999999997764 688883 11      1111111 233444432 223455  3


Q ss_pred             C-cEEEeccccccCCC
Q 024350          252 A-DTIFMKVICVCYLN  266 (269)
Q Consensus       252 g-D~~~l~~iLhd~~d  266 (269)
                      . |++|+--||++-.+
T Consensus       182 ~FDtVF~MGVLYHrr~  197 (315)
T PF08003_consen  182 AFDTVFSMGVLYHRRS  197 (315)
T ss_pred             CcCEEEEeeehhccCC
Confidence            4 99999999987654

The reaction is catalysed by methyltransferases (Mtases) and modifies DNA, RNA, proteins and small molecules, such as catechol for regulatory purposes. The various aspects of the role of DNA methylation in prokaryotic restriction-modification systems and in a number of cellular processes in eukaryotes including gene regulation and differentiation is well documented. Three classes of DNA Mtases transfer the methyl group from AdoMet to the target base to form either N-6-methyladenine, or N-4-methylcytosine, or C-5- methylcytosine. In C-5-cytosine Mtases, ten conserved motifs are arranged in the same order []. Motif I (a glycine-rich or closely related consensus sequence; FAGxGG in M.HhaI []), shared by other AdoMet-Mtases [], is part of the cofactor binding site and motif IV (PCQ) is part of the catalytic site. In contrast, sequence comparison among N-6-adenine and N-4-cytosine Mtases indicated two of the conserved segments [], although more conserved segments may be present. One of them corresponds to motif I in C-5-cytosine Mtases, and the other is named (D/N/S)PP(Y/F). Crystal structures are known for a number of Mtases [, , , ]. The cofactor binding sites are almost identical and the essential catalytic amino acids coincide. The comparable protein folding and the existence of equivalent amino acids in similar secondary and tertiary positions indicate that many (if not all) AdoMet-Mtases have a common catalytic domain structure. This permits tertiary structure prediction of other DNA, RNA, protein, and small-molecule AdoMet-Mtases from their amino acid sequences []. This entry represents a set of bacterial AdoMet-dependent tRNA (mo5U34)-methyltransferases. These enzymes catalyse the conversion of 5-hydroxyuridine (ho5U) to 5-methoxyuridine (mo5U) at the wobble position (34) of tRNA []. The 5-methoxyuridine is subsequently converted to uridine-5-oxyacetic acid, a modified nucleoside that is apparently necessary for the efficient decoding of G-ending Pro, Ala, and Val codons in these organisms [].; GO: 0016300 tRNA (uracil) methyltransferase activity, 0002098 tRNA wobble uridine modification

>PF09445 Methyltransf_15: RNA cap guanine-N2 methyltransferase; InterPro: IPR019012 RNA cap guanine-N2 methyltransferases such as Schizosaccharomyces pombe (Fission yeast) trimethylguanosine synthase (Tgs1) and Giardia lamblia (Giardia intestinalis) Tgs2, catalyse the methylation step(s) for the conversion of the 7-monomethylguanosine (m(7)G) caps of snRNAs and snoRNAs to a 2,2,7-trimethylguanosine (m(2,2,7)G) cap structure [, , ]

Probab=96.17  E-value=0.0023  Score=51.51  Aligned_cols=62  Identities=24%  Similarity=0.379  Sum_probs=44.5

Q ss_pred             cEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC-------CCCceEEecccCCcCC-----C-CcEEEec
Q 024350          195 KKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS-------YPGIDHVGGDLFESVP-----K-ADTIFMK  258 (269)
Q Consensus       195 ~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~-------~~ri~~~~gD~~~~~P-----~-gD~~~l~  258 (269)
                      .+|+|+.||.|..++.+++.+..  ++.+|+ |.-++.++.       .+||+++.+|+++-.+     . .|++|++
T Consensus         1 ~~vlD~fcG~GGNtIqFA~~~~~--Viaidid~~~~~~a~hNa~vYGv~~~I~~i~gD~~~~~~~~~~~~~~D~vFlS   76 (163)
T PF09445_consen    1 TTVLDAFCGVGGNTIQFARTFDR--VIAIDIDPERLECAKHNAEVYGVADNIDFICGDFFELLKRLKSNKIFDVVFLS   76 (163)
T ss_dssp             SEEEETT-TTSHHHHHHHHTT-E--EEEEES-HHHHHHHHHHHHHTT-GGGEEEEES-HHHHGGGB------SEEEE-
T ss_pred             CEEEEeccCcCHHHHHHHHhCCe--EEEEECCHHHHHHHHHHHHHcCCCCcEEEEeCCHHHHHhhccccccccEEEEC
Confidence            37999999999999999999766  577786 566665543       2799999999998322     2 3888875

Trimethylguanosine synthase is specific for guanine, and N7 methylation must precede N2 methylation. This enzyme is required for pre-mRNA splicing, pre-rRNA processing and small ribosomal subunit synthesis. As such, this enzyme plays a role in transcriptional regulation. ; GO: 0008168 methyltransferase activity, 0001510 RNA methylation, 0009452 RNA capping; PDB: 3EGI_B 3GDH_A.

>KOG2899 consensus Predicted methyltransferase [General function prediction only]

Probab=96.16  E-value=0.0063  Score=51.65  Aligned_cols=52  Identities=17%  Similarity=0.206  Sum_probs=42.0

Q ss_pred             HHHHhcc-CCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC
Q 024350          183 KVLESYK-GFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS  234 (269)
Q Consensus       183 ~~~~~~~-~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~  234 (269)
                      .+++.++ .|-....+|||||++|.+...+++.+-....+++|+ |..|+.|++
T Consensus        47 ~rLk~L~~~~f~~~~~LDIGCNsG~lt~~iak~F~~r~iLGvDID~~LI~~Ark  100 (288)
T KOG2899|consen   47 PRLKVLEKDWFEPKQALDIGCNSGFLTLSIAKDFGPRRILGVDIDPVLIQRARK  100 (288)
T ss_pred             hhhhhccccccCcceeEeccCCcchhHHHHHHhhccceeeEeeccHHHHHHHHH
Confidence            4455543 255678999999999999999999999999999998 555677765

>PF14947 HTH_45: Winged helix-turn-helix; PDB: 1XSX_B 1R7J_A

Probab=96.13  E-value=0.015  Score=40.73  Aligned_cols=49  Identities=20%  Similarity=0.243  Sum_probs=39.2

Q ss_pred             CCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhchhhh
Q 024350           49 AKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSKYFV  108 (269)
Q Consensus        49 ~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s~~l~  108 (269)
                      ++.+..+|+..++++      .. .+.+.|+.|...|++.   . +++.|.+|+.|..+.
T Consensus        18 ~~~~~t~i~~~~~L~------~~-~~~~yL~~L~~~gLI~---~-~~~~Y~lTekG~~~l   66 (77)
T PF14947_consen   18 GGAKKTEIMYKANLN------YS-TLKKYLKELEEKGLIK---K-KDGKYRLTEKGKEFL   66 (77)
T ss_dssp             T-B-HHHHHTTST--------HH-HHHHHHHHHHHTTSEE---E-ETTEEEE-HHHHHHH
T ss_pred             CCCCHHHHHHHhCcC------HH-HHHHHHHHHHHCcCee---C-CCCEEEECccHHHHH
Confidence            689999999999997      67 9999999999999997   4 479999999998554

>PF01739 CheR: CheR methyltransferase, SAM binding domain; InterPro: IPR022642 Methyl transfer from the ubiquitous S-adenosyl-L-methionine (AdoMet) to either nitrogen, oxygen or carbon atoms is frequently employed in diverse organisms ranging from bacteria to plants and mammals

Probab=96.12  E-value=0.0085  Score=49.81  Aligned_cols=75  Identities=12%  Similarity=0.193  Sum_probs=46.4

Q ss_pred             CccEEEEeCCCchH----HHHHHHHHC---C--CCeEEEeeh-hHHHHhCCCC---------------------------
Q 024350          193 HVKKLVDVGGGLGA----TLNMIISKY---P--HIKGINYDL-LYVIKNAPSY---------------------------  235 (269)
Q Consensus       193 ~~~~vvDvGGG~G~----~~~~l~~~~---P--~l~~vv~Dl-p~vv~~a~~~---------------------------  235 (269)
                      +.-+|.-.||++|.    +++.+.+..   .  +++.+.-|+ +.+++.|++-                           
T Consensus        31 ~~lrIWSagCStGeE~YSlAmll~e~~~~~~~~~~~I~atDi~~~~L~~Ar~G~Y~~~~~~~~~~~~~~ryf~~~~~~~~  110 (196)
T PF01739_consen   31 RPLRIWSAGCSTGEEPYSLAMLLLELLPGALGWDFRILATDISPSALEKARAGIYPERSLRGLPPAYLRRYFTERDGGGY  110 (196)
T ss_dssp             S-EEEEETT-TTTHHHHHHHHHHHHHH-S-TT-SEEEEEEES-HHHHHHHHHTEEEGGGGTTS-HHHHHHHEEEE-CCCT
T ss_pred             CCeEEEECCCCCChhHHHHHHHHHHHhcccCCCceEEEEEECCHHHHHHHHhCCCCHHHHhhhHHHHHHHhccccCCCce
Confidence            56899999999995    444444422   2  356677887 6777776530                           


Q ss_pred             -------CCceEEecccCC-cCCC-C-cEEEeccccccCCCC
Q 024350          236 -------PGIDHVGGDLFE-SVPK-A-DTIFMKVICVCYLNS  267 (269)
Q Consensus       236 -------~ri~~~~gD~~~-~~P~-g-D~~~l~~iLhd~~d~  267 (269)
                             .+|+|..+|+.+ +.+. . |+|+++|||-+++++
T Consensus       111 ~v~~~lr~~V~F~~~NL~~~~~~~~~fD~I~CRNVlIYF~~~  152 (196)
T PF01739_consen  111 RVKPELRKMVRFRRHNLLDPDPPFGRFDLIFCRNVLIYFDPE  152 (196)
T ss_dssp             TE-HHHHTTEEEEE--TT-S------EEEEEE-SSGGGS-HH
T ss_pred             eEChHHcCceEEEecccCCCCcccCCccEEEecCEEEEeCHH
Confidence                   689999999999 3333 4 999999999988654

The reaction is catalysed by methyltransferases (Mtases) and modifies DNA, RNA, proteins and small molecules, such as catechol for regulatory purposes. The various aspects of the role of DNA methylation in prokaryotic restriction-modification systems and in a number of cellular processes in eukaryotes including gene regulation and differentiation is well documented. Three classes of DNA Mtases transfer the methyl group from AdoMet to the target base to form either N-6-methyladenine, or N-4-methylcytosine, or C-5- methylcytosine. In C-5-cytosine Mtases, ten conserved motifs are arranged in the same order []. Motif I (a glycine-rich or closely related consensus sequence; FAGxGG in M.HhaI []), shared by other AdoMet-Mtases [], is part of the cofactor binding site and motif IV (PCQ) is part of the catalytic site. In contrast, sequence comparison among N-6-adenine and N-4-cytosine Mtases indicated two of the conserved segments [], although more conserved segments may be present. One of them corresponds to motif I in C-5-cytosine Mtases, and the other is named (D/N/S)PP(Y/F). Crystal structures are known for a number of Mtases [, , , ]. The cofactor binding sites are almost identical and the essential catalytic amino acids coincide. The comparable protein folding and the existence of equivalent amino acids in similar secondary and tertiary positions indicate that many (if not all) AdoMet-Mtases have a common catalytic domain structure. This permits tertiary structure prediction of other DNA, RNA, protein, and small-molecule AdoMet-Mtases from their amino acid sequences []. Flagellated bacteria swim towards favourable chemicals and away from deleterious ones. Sensing of chemoeffector gradients involves chemotaxis receptors, transmembrane (TM) proteins that detect stimuli through their periplasmic domains and transduce the signals via their cytoplasmic domains []. Signalling outputs from these receptors are influenced both by the binding of the chemoeffector ligand to their periplasmic domains and by methylation of specific glutamate residues on their cytoplasmic domains. Methylation is catalysed by CheR, an S-adenosylmethionine-dependent methyltransferase [], which reversibly methylates specific glutamate residues within a coiled coil region, to form gamma-glutamyl methyl ester residues [, ]. The structure of the Salmonella typhimurium chemotaxis receptor methyltransferase CheR, bound to S-adenosylhomocysteine, has been determined to a resolution of 2.0 A []. The structure reveals CheR to be a two-domain protein, with a smaller N-terminal helical domain linked via a single polypeptide connection to a larger C-terminal alpha/beta domain. The C-terminal domain has the characteristics of a nucleotide-binding fold, with an insertion of a small anti-parallel beta-sheet subdomain. The S-adenosylhomocysteine-binding site is formed mainly by the large domain, with contributions from residues within the N-terminal domain and the linker region []. CheR proteins are part of the chemotaxis signaling mechanism which methylates the chemotaxis receptor at specific glutamate residues. This entry refers to the C-terminal SAM-binding domain of the CherR-type MCP methyltransferases, which are found in bacteria, archaea and green plants. This entry is found in association with PF03705 from PFAM. ; PDB: 1AF7_A 1BC5_A.

>PHA00738 putative HTH transcription regulator

Probab=96.11  E-value=0.014  Score=43.12  Aligned_cols=60  Identities=17%  Similarity=0.148  Sum_probs=46.8

Q ss_pred             HHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecCh
Q 024350           33 VVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAP  102 (269)
Q Consensus        33 a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~  102 (269)
                      -.++.|++.|...   +++++.+|++.++++      .. .+.+.|+.|...|+|....+...-.|++++
T Consensus        12 ptRr~IL~lL~~~---e~~~V~eLae~l~lS------Qp-tVS~HLKvLreAGLV~srK~Gr~vyY~Ln~   71 (108)
T PHA00738         12 ILRRKILELIAEN---YILSASLISHTLLLS------YT-TVLRHLKILNEQGYIELYKEGRTLYAKIRE   71 (108)
T ss_pred             HHHHHHHHHHHHc---CCccHHHHHHhhCCC------HH-HHHHHHHHHHHCCceEEEEECCEEEEEECC
Confidence            3577899999873   379999999999998      56 999999999999999964221223466655

>PRK01544 bifunctional N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase/tRNA (m7G46) methyltransferase; Reviewed

Probab=96.05  E-value=0.0087  Score=56.97  Aligned_cols=53  Identities=15%  Similarity=0.105  Sum_probs=41.6

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh--hHHHHhCCC-----CCCceEEeccc
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL--LYVIKNAPS-----YPGIDHVGGDL  245 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl--p~vv~~a~~-----~~ri~~~~gD~  245 (269)
                      +...+||||||.|.++.++++++|+..++++|.  +.+....++     ..++.++.+|+
T Consensus       347 ~~p~~lEIG~G~G~~~~~~A~~~p~~~~iGiE~~~~~~~~~~~~~~~~~l~N~~~~~~~~  406 (506)
T PRK01544        347 KRKVFLEIGFGMGEHFINQAKMNPDALFIGVEVYLNGVANVLKLAGEQNITNFLLFPNNL  406 (506)
T ss_pred             CCceEEEECCCchHHHHHHHHhCCCCCEEEEEeeHHHHHHHHHHHHHcCCCeEEEEcCCH
Confidence            458999999999999999999999999999996  444433322     25677777775

>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

Probab=96.04  E-value=0.017  Score=38.65  Aligned_cols=44  Identities=23%  Similarity=0.329  Sum_probs=37.7

Q ss_pred             CCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecCh
Q 024350           49 AKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAP  102 (269)
Q Consensus        49 ~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~  102 (269)
                      .++|..+||+.+|++      .. .+.++|+.|...|++..   ...+.|.+++
T Consensus        24 ~~~s~~ela~~~g~s------~~-tv~r~l~~L~~~g~i~~---~~~~~~~l~~   67 (67)
T cd00092          24 LPLTRQEIADYLGLT------RE-TVSRTLKELEEEGLISR---RGRGKYRVNP   67 (67)
T ss_pred             CCcCHHHHHHHHCCC------HH-HHHHHHHHHHHCCCEEe---cCCCeEEeCC
Confidence            589999999999998      67 99999999999999994   3347888764

>KOG1500 consensus Protein arginine N-methyltransferase CARM1 [Posttranslational modification, protein turnover, chaperones; Transcription]

Probab=96.03  E-value=0.014  Score=51.90  Aligned_cols=64  Identities=22%  Similarity=0.270  Sum_probs=47.9

Q ss_pred             CCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeehhHHHHhCCC-------CCCceEEecccCC-cCCC-CcEEE
Q 024350          191 FEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPS-------YPGIDHVGGDLFE-SVPK-ADTIF  256 (269)
Q Consensus       191 ~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp~vv~~a~~-------~~ri~~~~gD~~~-~~P~-gD~~~  256 (269)
                      |++ +.|||||||+|.++.-.+++- .-++-.++-.++.+-|++       .+||++++|-.-+ ++|+ .|+++
T Consensus       176 F~~-kiVlDVGaGSGILS~FAaqAG-A~~vYAvEAS~MAqyA~~Lv~~N~~~~rItVI~GKiEdieLPEk~DviI  248 (517)
T KOG1500|consen  176 FQD-KIVLDVGAGSGILSFFAAQAG-AKKVYAVEASEMAQYARKLVASNNLADRITVIPGKIEDIELPEKVDVII  248 (517)
T ss_pred             cCC-cEEEEecCCccHHHHHHHHhC-cceEEEEehhHHHHHHHHHHhcCCccceEEEccCccccccCchhccEEE
Confidence            644 799999999999876666552 234566676666666554       2999999999988 8996 58875

>PF13679 Methyltransf_32: Methyltransferase domain

Probab=96.00  E-value=0.011  Score=46.39  Aligned_cols=56  Identities=18%  Similarity=0.348  Sum_probs=41.7

Q ss_pred             CCccEEEEeCCCchHHHHHHHHH----CCCCeEEEeeh-hHHHHhCCC---------CCCceEEecccCC
Q 024350          192 EHVKKLVDVGGGLGATLNMIISK----YPHIKGINYDL-LYVIKNAPS---------YPGIDHVGGDLFE  247 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~----~P~l~~vv~Dl-p~vv~~a~~---------~~ri~~~~gD~~~  247 (269)
                      .+..+|||+|||.|.++..+...    .|+++++.+|. ++.++.+.+         ..++++..+++..
T Consensus        24 ~~~~~vvD~GsG~GyLs~~La~~l~~~~~~~~v~~iD~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~   93 (141)
T PF13679_consen   24 KRCITVVDLGSGKGYLSRALAHLLCNSSPNLRVLGIDCNESLVESAQKRAQKLGSDLEKRLSFIQGDIAD   93 (141)
T ss_pred             CCCCEEEEeCCChhHHHHHHHHHHHhcCCCCeEEEEECCcHHHHHHHHHHHHhcchhhccchhhccchhh
Confidence            46789999999999999999982    38899999996 455554432         1566777766654

>COG1352 CheR Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]

Probab=96.00  E-value=0.051  Score=47.33  Aligned_cols=74  Identities=14%  Similarity=0.212  Sum_probs=57.1

Q ss_pred             CccEEEEeCCCchH----HHHHHHHHCCC-----CeEEEeeh-hHHHHhCCCC---------------------------
Q 024350          193 HVKKLVDVGGGLGA----TLNMIISKYPH-----IKGINYDL-LYVIKNAPSY---------------------------  235 (269)
Q Consensus       193 ~~~~vvDvGGG~G~----~~~~l~~~~P~-----l~~vv~Dl-p~vv~~a~~~---------------------------  235 (269)
                      +.-+|.-.||++|.    +++.+.+..|.     ++.+.-|+ ..+++.|+.-                           
T Consensus        96 ~~irIWSaaCStGEEpYSiAm~l~e~~~~~~~~~~~I~AtDId~~~L~~A~~G~Y~~~~~~~~~~~~~~~ryF~~~~~~~  175 (268)
T COG1352          96 RPIRIWSAACSTGEEPYSLAMLLLEALGKLAGFRVKILATDIDLSVLEKARAGIYPSRELLRGLPPELLRRYFERGGDGS  175 (268)
T ss_pred             CceEEEecCcCCCccHHHHHHHHHHHhccccCCceEEEEEECCHHHHHHHhcCCCChhHhhccCCHHHHhhhEeecCCCc
Confidence            46899999999995    77778888874     56788887 5666666430                           


Q ss_pred             --------CCceEEecccCCcC--CCC-cEEEeccccccCCC
Q 024350          236 --------PGIDHVGGDLFESV--PKA-DTIFMKVICVCYLN  266 (269)
Q Consensus       236 --------~ri~~~~gD~~~~~--P~g-D~~~l~~iLhd~~d  266 (269)
                              ..|+|..+|++++.  ++. |+|+++|||=+++.
T Consensus       176 y~v~~~ir~~V~F~~~NLl~~~~~~~~fD~IfCRNVLIYFd~  217 (268)
T COG1352         176 YRVKEELRKMVRFRRHNLLDDSPFLGKFDLIFCRNVLIYFDE  217 (268)
T ss_pred             EEEChHHhcccEEeecCCCCCccccCCCCEEEEcceEEeeCH
Confidence                    46999999999954  345 99999999977654

>PF01596 Methyltransf_3: O-methyltransferase; InterPro: IPR002935 Members of this family are O-methyltransferases

Probab=95.99  E-value=0.0039  Score=52.23  Aligned_cols=68  Identities=19%  Similarity=0.289  Sum_probs=51.7

Q ss_pred             CCccEEEEeCCCchHHHHHHHHHCC-CCeEEEeeh-hHHHHhCCC-------CCCceEEecccCCcCC-------CC--c
Q 024350          192 EHVKKLVDVGGGLGATLNMIISKYP-HIKGINYDL-LYVIKNAPS-------YPGIDHVGGDLFESVP-------KA--D  253 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~~P-~l~~vv~Dl-p~vv~~a~~-------~~ri~~~~gD~~~~~P-------~g--D  253 (269)
                      .++++||+||++.|.-+..+++..| +.+.+-+|. |+..+.|++       .+||+++.||..+-+|       .+  |
T Consensus        44 ~~~k~vLEIGt~~GySal~la~~l~~~g~i~tiE~~~~~~~~A~~~~~~ag~~~~I~~~~gda~~~l~~l~~~~~~~~fD  123 (205)
T PF01596_consen   44 TRPKRVLEIGTFTGYSALWLAEALPEDGKITTIEIDPERAEIARENFRKAGLDDRIEVIEGDALEVLPELANDGEEGQFD  123 (205)
T ss_dssp             HT-SEEEEESTTTSHHHHHHHHTSTTTSEEEEEESSHHHHHHHHHHHHHTTGGGGEEEEES-HHHHHHHHHHTTTTTSEE
T ss_pred             cCCceEEEeccccccHHHHHHHhhcccceEEEecCcHHHHHHHHHHHHhcCCCCcEEEEEeccHhhHHHHHhccCCCcee
Confidence            3678999999999999999999987 588999997 666666654       2799999999876222       12  8


Q ss_pred             EEEecc
Q 024350          254 TIFMKV  259 (269)
Q Consensus       254 ~~~l~~  259 (269)
                      ++|+-.
T Consensus       124 ~VFiDa  129 (205)
T PF01596_consen  124 FVFIDA  129 (205)
T ss_dssp             EEEEES
T ss_pred             EEEEcc
Confidence            888743

The family includes also bacterial O-methyltransferases that may be involved in antibiotic production [].; GO: 0008171 O-methyltransferase activity; PDB: 1SUI_C 1SUS_D 3CBG_A 2GPY_B 3TR6_A 2AVD_A 3DUL_B 3DUW_B 2ZTH_A 1VID_A ....

>PRK11760 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional

Probab=95.97  E-value=0.025  Score=50.68  Aligned_cols=65  Identities=15%  Similarity=0.174  Sum_probs=53.0

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeehhHHHHhCCCCCCceEEecccCCcCC-C-C-cEEEecc
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPSYPGIDHVGGDLFESVP-K-A-DTIFMKV  259 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp~vv~~a~~~~ri~~~~gD~~~~~P-~-g-D~~~l~~  259 (269)
                      ...++||||+++|.++..++++  +.+++.+|.-++-+.....+||+++.+|-|...| . . |.++.-.
T Consensus       211 ~g~~vlDLGAsPGGWT~~L~~r--G~~V~AVD~g~l~~~L~~~~~V~h~~~d~fr~~p~~~~vDwvVcDm  278 (357)
T PRK11760        211 PGMRAVDLGAAPGGWTYQLVRR--GMFVTAVDNGPMAQSLMDTGQVEHLRADGFKFRPPRKNVDWLVCDM  278 (357)
T ss_pred             CCCEEEEeCCCCcHHHHHHHHc--CCEEEEEechhcCHhhhCCCCEEEEeccCcccCCCCCCCCEEEEec
Confidence            4579999999999999999998  5689999977666666778999999999998555 3 2 7766543

>TIGR02337 HpaR homoprotocatechuate degradation operon regulator, HpaR

Probab=95.95  E-value=0.03  Score=42.34  Aligned_cols=68  Identities=12%  Similarity=0.153  Sum_probs=51.9

Q ss_pred             HHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCC---CeEecChhchhhhc
Q 024350           33 VVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQ---RLYSLAPVSKYFVR  109 (269)
Q Consensus        33 a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~---~~y~~t~~s~~l~~  109 (269)
                      ..+..++..|...   +++|..+||+.++++      .. .+.++++-|...|+|...+...+   -.|.+|+.|+.+..
T Consensus        28 ~~q~~iL~~l~~~---~~~t~~ela~~~~~~------~~-tvs~~l~~Le~~GlI~r~~~~~D~R~~~v~LT~~G~~~~~   97 (118)
T TIGR02337        28 EQQWRILRILAEQ---GSMEFTQLANQACIL------RP-SLTGILARLERDGLVTRLKASNDQRRVYISLTPKGQALYA   97 (118)
T ss_pred             HHHHHHHHHHHHc---CCcCHHHHHHHhCCC------ch-hHHHHHHHHHHCCCEEeccCCCCCCeeEEEECHhHHHHHH
Confidence            3445577778775   589999999999997      56 89999999999999995321112   35889998886654


Q ss_pred             C
Q 024350          110 N  110 (269)
Q Consensus       110 ~  110 (269)
                      .
T Consensus        98 ~   98 (118)
T TIGR02337        98 S   98 (118)
T ss_pred             H
Confidence            4

This Helix-Turn-Helix transcriptional regulator is a member of the MarR family (pfam01047) and is found in association with operons for the degradation of 4-hydroxyphenylacetic acid via homoprotocatechuate.

>PRK14904 16S rRNA methyltransferase B; Provisional

Probab=95.89  E-value=0.017  Score=54.17  Aligned_cols=67  Identities=15%  Similarity=0.143  Sum_probs=50.5

Q ss_pred             CCCccEEEEeCCCchHHHHHHHHHCC-CCeEEEeeh-hHHHHhCCCC------CCceEEecccCCcCCC-C-cEEEe
Q 024350          191 FEHVKKLVDVGGGLGATLNMIISKYP-HIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFESVPK-A-DTIFM  257 (269)
Q Consensus       191 ~~~~~~vvDvGGG~G~~~~~l~~~~P-~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~~~P~-g-D~~~l  257 (269)
                      .....+|+|+|||+|..+..+++..+ .-+++.+|+ +..++.++++      ++|+++.+|..+..|. . |++++
T Consensus       248 ~~~g~~VLDlgaG~G~kt~~la~~~~~~~~V~avD~s~~~l~~~~~~~~~~g~~~v~~~~~Da~~~~~~~~fD~Vl~  324 (445)
T PRK14904        248 PQPGSTVLDLCAAPGGKSTFMAELMQNRGQITAVDRYPQKLEKIRSHASALGITIIETIEGDARSFSPEEQPDAILL  324 (445)
T ss_pred             CCCCCEEEEECCCCCHHHHHHHHHhCCCcEEEEEECCHHHHHHHHHHHHHhCCCeEEEEeCcccccccCCCCCEEEE
Confidence            33457999999999999988888764 457899997 6777665542      5689999998774343 3 98886

>PRK10611 chemotaxis methyltransferase CheR; Provisional

Probab=95.82  E-value=0.13  Score=45.27  Aligned_cols=74  Identities=15%  Similarity=0.174  Sum_probs=54.5

Q ss_pred             ccEEEEeCCCchH----HHHHHHHHCC----CCeEEEeeh-hHHHHhCCC------------------------------
Q 024350          194 VKKLVDVGGGLGA----TLNMIISKYP----HIKGINYDL-LYVIKNAPS------------------------------  234 (269)
Q Consensus       194 ~~~vvDvGGG~G~----~~~~l~~~~P----~l~~vv~Dl-p~vv~~a~~------------------------------  234 (269)
                      .-+|...||++|.    +++.+.+..+    +++.+.-|+ +.+++.|++                              
T Consensus       116 ~irIWSAgCStGEEpYSlAmll~e~~~~~~~~~~I~atDIs~~aL~~Ar~G~Y~~~~~r~~p~~~~~ryF~~~~~~~~~~  195 (287)
T PRK10611        116 EYRVWSAAASTGEEPYSIAMTLADTLGTAPGRWKVFASDIDTEVLEKARSGIYRQEELKTLSPQQLQRYFMRGTGPHEGL  195 (287)
T ss_pred             CEEEEEccccCCHHHHHHHHHHHHhhcccCCCcEEEEEECCHHHHHHHHhCCCCHHHHhcCCHHHHHHHcccccCCCCce
Confidence            4799999999995    4455555443    366788897 566655432                              


Q ss_pred             -------CCCceEEecccCC-cCC-C-C-cEEEeccccccCCCC
Q 024350          235 -------YPGIDHVGGDLFE-SVP-K-A-DTIFMKVICVCYLNS  267 (269)
Q Consensus       235 -------~~ri~~~~gD~~~-~~P-~-g-D~~~l~~iLhd~~d~  267 (269)
                             ..+|+|..+|+++ +.| . . |+|++++||.+++++
T Consensus       196 ~~v~~~lr~~V~F~~~NL~~~~~~~~~~fD~I~cRNvliyF~~~  239 (287)
T PRK10611        196 VRVRQELANYVDFQQLNLLAKQWAVPGPFDAIFCRNVMIYFDKT  239 (287)
T ss_pred             EEEChHHHccCEEEcccCCCCCCccCCCcceeeHhhHHhcCCHH
Confidence                   0568999999999 555 3 4 999999999998764

>COG0030 KsgA Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]

Probab=95.81  E-value=0.059  Score=46.62  Aligned_cols=70  Identities=21%  Similarity=0.487  Sum_probs=50.7

Q ss_pred             HHHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh--hHHHHhC-CCCCCceEEecccCC-cCCC
Q 024350          181 MEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL--LYVIKNA-PSYPGIDHVGGDLFE-SVPK  251 (269)
Q Consensus       181 ~~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl--p~vv~~a-~~~~ri~~~~gD~~~-~~P~  251 (269)
                      ...+++..+ .+....|++||+|.|.+...|+++...+.++=.|.  -+..... ...++++++.+|+.+ ++|+
T Consensus        19 ~~kIv~~a~-~~~~d~VlEIGpG~GaLT~~Ll~~~~~v~aiEiD~~l~~~L~~~~~~~~n~~vi~~DaLk~d~~~   92 (259)
T COG0030          19 IDKIVEAAN-ISPGDNVLEIGPGLGALTEPLLERAARVTAIEIDRRLAEVLKERFAPYDNLTVINGDALKFDFPS   92 (259)
T ss_pred             HHHHHHhcC-CCCCCeEEEECCCCCHHHHHHHhhcCeEEEEEeCHHHHHHHHHhcccccceEEEeCchhcCcchh
Confidence            345666665 45568999999999999999999988865544442  2222222 235899999999999 7775

>KOG1499 consensus Protein arginine N-methyltransferase PRMT1 and related enzymes [Posttranslational modification, protein turnover, chaperones; Transcription; Signal transduction mechanisms]

Probab=95.75  E-value=0.013  Score=52.29  Aligned_cols=63  Identities=21%  Similarity=0.190  Sum_probs=49.2

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeehhHHHHhCCC-------CCCceEEecccCC-cCC-CC-cEEE
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPS-------YPGIDHVGGDLFE-SVP-KA-DTIF  256 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp~vv~~a~~-------~~ri~~~~gD~~~-~~P-~g-D~~~  256 (269)
                      +.++|+|||||+|-+++-.+++. .-++..+|--++++.+.+       .+.|+++.|..-+ ++| +- |+++
T Consensus        60 ~dK~VlDVGcGtGILS~F~akAG-A~~V~aVe~S~ia~~a~~iv~~N~~~~ii~vi~gkvEdi~LP~eKVDiIv  132 (346)
T KOG1499|consen   60 KDKTVLDVGCGTGILSMFAAKAG-ARKVYAVEASSIADFARKIVKDNGLEDVITVIKGKVEDIELPVEKVDIIV  132 (346)
T ss_pred             CCCEEEEcCCCccHHHHHHHHhC-cceEEEEechHHHHHHHHHHHhcCccceEEEeecceEEEecCccceeEEe
Confidence            34899999999999999888887 566888887777765543       2679999998887 788 44 7764

>TIGR00095 RNA methyltransferase, RsmD family

Probab=95.73  E-value=0.0079  Score=49.67  Aligned_cols=53  Identities=13%  Similarity=0.007  Sum_probs=42.4

Q ss_pred             ccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-------CCceEEecccCC
Q 024350          194 VKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-------PGIDHVGGDLFE  247 (269)
Q Consensus       194 ~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~  247 (269)
                      ..+++|++||+|.++.+++.+... +++.+|. +..++.++++       ++++++.+|.++
T Consensus        50 g~~vLDLfaGsG~lglea~srga~-~v~~vE~~~~a~~~~~~N~~~~~~~~~~~~~~~D~~~  110 (189)
T TIGR00095        50 GAHLLDVFAGSGLLGEEALSRGAK-VAFLEEDDRKANQTLKENLALLKSGEQAEVVRNSALR  110 (189)
T ss_pred             CCEEEEecCCCcHHHHHHHhCCCC-EEEEEeCCHHHHHHHHHHHHHhCCcccEEEEehhHHH
Confidence            368999999999999999999764 6888887 5666555432       579999999966

This model represents a family of uncharacterized bacterial proteins. Members are present in nearly every complete bacterial genome, always in a single copy. PSI-BLAST analysis shows homology to several families of SAM-dependent methyltransferases, including ribosomal RNA adenine dimethylases.

>PRK10857 DNA-binding transcriptional regulator IscR; Provisional

Probab=95.72  E-value=0.025  Score=45.60  Aligned_cols=46  Identities=11%  Similarity=0.156  Sum_probs=38.4

Q ss_pred             CCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecCh
Q 024350           49 AKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAP  102 (269)
Q Consensus        49 ~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~  102 (269)
                      ++.|+++||+.++++      .. .+.++|..|...|+|... +...|.|.+..
T Consensus        24 ~~vs~~eIA~~~~ip------~~-~l~kIl~~L~~aGLv~s~-rG~~GGy~Lar   69 (164)
T PRK10857         24 GPVPLADISERQGIS------LS-YLEQLFSRLRKNGLVSSV-RGPGGGYLLGK   69 (164)
T ss_pred             CcCcHHHHHHHHCcC------HH-HHHHHHHHHHHCCCEEeC-CCCCCCeeccC
Confidence            589999999999997      67 999999999999999953 22356688754

>KOG3010 consensus Methyltransferase [General function prediction only]

Probab=95.70  E-value=0.012  Score=49.87  Aligned_cols=72  Identities=19%  Similarity=0.235  Sum_probs=51.8

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCCCCceEE-------ecccCCcC--CCC-cEEEecccc
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSYPGIDHV-------GGDLFESV--PKA-DTIFMKVIC  261 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~~ri~~~-------~gD~~~~~--P~g-D~~~l~~iL  261 (269)
                      ..+.++|||||+|..++.+++.|-++  |..|. +.+++.+++.++++..       .-++.+-.  ++- |++...+.+
T Consensus        33 ~h~~a~DvG~G~Gqa~~~iae~~k~V--IatD~s~~mL~~a~k~~~~~y~~t~~~ms~~~~v~L~g~e~SVDlI~~Aqa~  110 (261)
T KOG3010|consen   33 GHRLAWDVGTGNGQAARGIAEHYKEV--IATDVSEAMLKVAKKHPPVTYCHTPSTMSSDEMVDLLGGEESVDLITAAQAV  110 (261)
T ss_pred             CcceEEEeccCCCcchHHHHHhhhhh--eeecCCHHHHHHhhcCCCcccccCCccccccccccccCCCcceeeehhhhhH
Confidence            44599999999998888888887775  88896 7888988886443332       23333312  334 999999999


Q ss_pred             ccCCC
Q 024350          262 VCYLN  266 (269)
Q Consensus       262 hd~~d  266 (269)
                      |-++-
T Consensus       111 HWFdl  115 (261)
T KOG3010|consen  111 HWFDL  115 (261)
T ss_pred             Hhhch
Confidence            96653

>smart00419 HTH_CRP helix_turn_helix, cAMP Regulatory protein

Probab=95.68  E-value=0.028  Score=34.85  Aligned_cols=41  Identities=17%  Similarity=0.185  Sum_probs=35.1

Q ss_pred             CCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecC
Q 024350           50 KLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLA  101 (269)
Q Consensus        50 ~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t  101 (269)
                      ++|..+||+.+|++      .. .+.+.|+.|...|++.   .. .+.|..|
T Consensus         8 ~~s~~~la~~l~~s------~~-tv~~~l~~L~~~g~l~---~~-~~~~~i~   48 (48)
T smart00419        8 PLTRQEIAELLGLT------RE-TVSRTLKRLEKEGLIS---RE-GGRIVIL   48 (48)
T ss_pred             ccCHHHHHHHHCCC------HH-HHHHHHHHHHHCCCEE---Ee-CCEEEEC
Confidence            68999999999997      66 9999999999999998   33 4677654

>COG1959 Predicted transcriptional regulator [Transcription]

Probab=95.64  E-value=0.026  Score=44.83  Aligned_cols=55  Identities=18%  Similarity=0.198  Sum_probs=43.1

Q ss_pred             HHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecCh
Q 024350           40 EIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAP  102 (269)
Q Consensus        40 d~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~  102 (269)
                      -.|+..+.+++.|+++||+..|++      +. .|.++|..|...|+|+.. +...|-|+++.
T Consensus        15 ~~LA~~~~~~~~s~~~IA~~~~is------~~-~L~kil~~L~kaGlV~S~-rG~~GGy~Lar   69 (150)
T COG1959          15 LYLALLPGGGPVSSAEIAERQGIS------PS-YLEKILSKLRKAGLVKSV-RGKGGGYRLAR   69 (150)
T ss_pred             HHHHhCCCCCcccHHHHHHHhCcC------HH-HHHHHHHHHHHcCCEEee-cCCCCCccCCC
Confidence            345554433489999999999997      67 999999999999999964 22257798864

>TIGR02010 IscR iron-sulfur cluster assembly transcription factor IscR

Probab=95.58  E-value=0.031  Score=43.52  Aligned_cols=46  Identities=11%  Similarity=0.176  Sum_probs=38.1

Q ss_pred             CCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecCh
Q 024350           49 AKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAP  102 (269)
Q Consensus        49 ~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~  102 (269)
                      ++.|.++||+.++++      +. .+.++|+.|...|++... +...|.|.++.
T Consensus        24 ~~~s~~~ia~~~~ip------~~-~l~kil~~L~~~glv~s~-~G~~Ggy~l~~   69 (135)
T TIGR02010        24 GPVTLADISERQGIS------LS-YLEQLFAKLRKAGLVKSV-RGPGGGYQLGR   69 (135)
T ss_pred             CcCcHHHHHHHHCcC------HH-HHHHHHHHHHHCCceEEE-eCCCCCEeccC
Confidence            589999999999997      67 999999999999999853 22346688754

This model describes IscR, an iron-sulfur binding transcription factor of the ISC iron-sulfur cluster assembly system.

>PF01638 HxlR: HxlR-like helix-turn-helix; InterPro: IPR002577 The hxlR-type HTH domain is a domain of ~90-100 amino acids present in putative transcription regulators with a winged helix-turn-helix (wHTH) structure

Probab=95.55  E-value=0.034  Score=40.04  Aligned_cols=60  Identities=15%  Similarity=0.215  Sum_probs=44.8

Q ss_pred             hhHHHHhcCCCCCCCHHHHHHhC-CCCCCCchhHHHHHHHHHHHHHhcCcccceeecCC---CeEecChhchhhh
Q 024350           38 VFEIITKAGPGAKLSVSEIVAQI-PLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQ---RLYSLAPVSKYFV  108 (269)
Q Consensus        38 lfd~L~~~g~~~~~s~~eLA~~~-~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~---~~y~~t~~s~~l~  108 (269)
                      |+..|..    |+....||.+.+ |++      .. .|.+-|+.|...|+|++....+.   -.|++|+.|+.|.
T Consensus        10 IL~~l~~----g~~rf~el~~~l~~is------~~-~L~~~L~~L~~~GLv~r~~~~~~p~~v~Y~LT~~G~~l~   73 (90)
T PF01638_consen   10 ILRALFQ----GPMRFSELQRRLPGIS------PK-VLSQRLKELEEAGLVERRVYPEVPPRVEYSLTEKGKELL   73 (90)
T ss_dssp             HHHHHTT----SSEEHHHHHHHSTTS-------HH-HHHHHHHHHHHTTSEEEEEESSSSSEEEEEE-HHHHHHH
T ss_pred             HHHHHHh----CCCcHHHHHHhcchhH------HH-HHHHHHHHHHHcchhhcccccCCCCCCccCCCcCHHHHH
Confidence            3445555    699999999999 887      56 99999999999999986422211   2499999998766

The domain is named after Bacillus subtilis hxlR, a transcription activator of the hxlAB operon involved in the detoxification of formaldehyde []. The hxlR-type domain forms the core of putative transcription regulators and of hypothetical proteins occurring in eubacteria as well as in archaea. The sequence and structure of hxlR-type proteins show similarities with the marR-type wHTH []. The crystal structure of ytfH resembles the DNA-binding domains of winged helix proteins, containing a three helix (H) bundle and a three-stranded antiparallel beta-sheet (B) in the topology: H1-H2-B1-H3-H4-B2-B3-H5-H6. This topology corresponds with that of the marR-type DNA-binding domain, wherein helices 3 and 4 comprise the helix-turn-helix motif and the beta-sheet is called the wing. ; PDB: 2F2E_B 3DF8_A 1Z7U_B 1YYV_A 4A5M_D 4A5N_B 2FSW_A 2HZT_D.

>PF09243 Rsm22: Mitochondrial small ribosomal subunit Rsm22; InterPro: IPR015324 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=95.53  E-value=0.032  Score=48.88  Aligned_cols=74  Identities=18%  Similarity=0.218  Sum_probs=50.2

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCe-EEEeeh-hHHHHhCCC----CCCceE--EecccCC---cCCCCcEEEecccc
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIK-GINYDL-LYVIKNAPS----YPGIDH--VGGDLFE---SVPKADTIFMKVIC  261 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~-~vv~Dl-p~vv~~a~~----~~ri~~--~~gD~~~---~~P~gD~~~l~~iL  261 (269)
                      .+.+|||+|+|.|..+-++.+.+|.+. .+.+|. +.+.+.++.    ......  ...++..   ++++.|+++++++|
T Consensus        33 ~P~~vLD~GsGpGta~wAa~~~~~~~~~~~~vd~s~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~DLvi~s~~L  112 (274)
T PF09243_consen   33 RPRSVLDFGSGPGTALWAAREVWPSLKEYTCVDRSPEMLELAKRLLRAGPNNRNAEWRRVLYRDFLPFPPDDLVIASYVL  112 (274)
T ss_pred             CCceEEEecCChHHHHHHHHHHhcCceeeeeecCCHHHHHHHHHHHhcccccccchhhhhhhcccccCCCCcEEEEehhh
Confidence            468999999999999999999999764 688886 555554432    111111  1122222   33345999999999


Q ss_pred             ccCCC
Q 024350          262 VCYLN  266 (269)
Q Consensus       262 hd~~d  266 (269)
                      -..++
T Consensus       113 ~EL~~  117 (274)
T PF09243_consen  113 NELPS  117 (274)
T ss_pred             hcCCc
Confidence            88776

The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. Rsm22 has been identified as a mitochondrial small ribosomal subunit [] and is a methyltransferase. In Schizosaccharomyces pombe (Fission yeast), Rsm22 is tandemly fused to Cox11 (a factor required for copper insertion into cytochrome oxidase) and the two proteins are proteolytically cleaved after import into the mitochondria []. This entry consists of mitochondrial Rsm22 and homologous sequences from bacteria.; GO: 0008168 methyltransferase activity, 0006412 translation

>PF12802 MarR_2: MarR family; PDB: 3ECO_B 2QWW_B 3KP6_B 3KP4_B 3KP2_A 3KP5_A 3KP3_B 3KP7_A 3NQO_B 3K0L_B

Probab=95.46  E-value=0.022  Score=37.63  Aligned_cols=48  Identities=13%  Similarity=0.277  Sum_probs=38.2

Q ss_pred             hcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccce
Q 024350           35 ELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCS   90 (269)
Q Consensus        35 ~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~   90 (269)
                      ++.++-.|...+. +.+|..+||+.++++      .. .+.++++.|...|+|++.
T Consensus         7 q~~vL~~l~~~~~-~~~t~~~la~~l~~~------~~-~vs~~v~~L~~~Glv~r~   54 (62)
T PF12802_consen    7 QFRVLMALARHPG-EELTQSELAERLGIS------KS-TVSRIVKRLEKKGLVERE   54 (62)
T ss_dssp             HHHHHHHHHHSTT-SGEEHHHHHHHHTS-------HH-HHHHHHHHHHHTTSEEEE
T ss_pred             HHHHHHHHHHCCC-CCcCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCEEEe
Confidence            4556677777641 128999999999998      56 999999999999999954

...

>PF06080 DUF938: Protein of unknown function (DUF938); InterPro: IPR010342 This family consists of several hypothetical proteins from both prokaryotes and eukaryotes

Probab=95.45  E-value=0.029  Score=46.67  Aligned_cols=74  Identities=15%  Similarity=0.165  Sum_probs=47.5

Q ss_pred             CCcc-EEEEeCCCchHHHHHHHHHCCCCeEEEeehhHHH-----HhCCC--CCC-ceEEecccCCc-CC---------CC
Q 024350          192 EHVK-KLVDVGGGLGATLNMIISKYPHIKGINYDLLYVI-----KNAPS--YPG-IDHVGGDLFES-VP---------KA  252 (269)
Q Consensus       192 ~~~~-~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp~vv-----~~a~~--~~r-i~~~~gD~~~~-~P---------~g  252 (269)
                      +... +||+||+|+|..+..+++++|+++-.==|.....     +-+..  .++ ..-+.-|..++ +|         ..
T Consensus        23 ~~~~~~vLEiaSGtGqHa~~FA~~lP~l~WqPSD~~~~~~~sI~a~~~~~~~~Nv~~P~~lDv~~~~w~~~~~~~~~~~~  102 (204)
T PF06080_consen   23 PDSGTRVLEIASGTGQHAVYFAQALPHLTWQPSDPDDNLRPSIRAWIAEAGLPNVRPPLALDVSAPPWPWELPAPLSPES  102 (204)
T ss_pred             CccCceEEEEcCCccHHHHHHHHHCCCCEEcCCCCChHHHhhHHHHHHhcCCcccCCCeEeecCCCCCccccccccCCCC
Confidence            3444 5999999999999999999999977555543222     21111  121 11223444442 22         24


Q ss_pred             -cEEEeccccccCC
Q 024350          253 -DTIFMKVICVCYL  265 (269)
Q Consensus       253 -D~~~l~~iLhd~~  265 (269)
                       |+++..|++|--|
T Consensus       103 ~D~i~~~N~lHI~p  116 (204)
T PF06080_consen  103 FDAIFCINMLHISP  116 (204)
T ss_pred             cceeeehhHHHhcC
Confidence             9999999999755

The function of this family is unknown.

>PRK14901 16S rRNA methyltransferase B; Provisional

Probab=95.42  E-value=0.032  Score=52.10  Aligned_cols=71  Identities=13%  Similarity=0.020  Sum_probs=52.4

Q ss_pred             HhccCCCCccEEEEeCCCchHHHHHHHHHCC-CCeEEEeeh-hHHHHhCCCC------CCceEEecccCC-c----CCC-
Q 024350          186 ESYKGFEHVKKLVDVGGGLGATLNMIISKYP-HIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFE-S----VPK-  251 (269)
Q Consensus       186 ~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P-~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~-~----~P~-  251 (269)
                      ..++ .....+|+|+|||+|..+..+++..+ .-+.+.+|+ ++.++.++++      +.|+++.+|..+ +    .+. 
T Consensus       246 ~~l~-~~~g~~VLDl~ag~G~kt~~la~~~~~~g~v~a~D~~~~rl~~~~~n~~r~g~~~v~~~~~D~~~~~~~~~~~~~  324 (434)
T PRK14901        246 PLLD-PQPGEVILDACAAPGGKTTHIAELMGDQGEIWAVDRSASRLKKLQENAQRLGLKSIKILAADSRNLLELKPQWRG  324 (434)
T ss_pred             HHhC-CCCcCEEEEeCCCCchhHHHHHHHhCCCceEEEEcCCHHHHHHHHHHHHHcCCCeEEEEeCChhhcccccccccc
Confidence            3444 44557999999999999999998864 468899997 6677665442      568999999876 2    222 


Q ss_pred             C-cEEEe
Q 024350          252 A-DTIFM  257 (269)
Q Consensus       252 g-D~~~l  257 (269)
                      . |.+++
T Consensus       325 ~fD~Vl~  331 (434)
T PRK14901        325 YFDRILL  331 (434)
T ss_pred             cCCEEEE
Confidence            3 98887

>TIGR02143 trmA_only tRNA (uracil-5-)-methyltransferase

Probab=95.42  E-value=0.015  Score=52.86  Aligned_cols=51  Identities=10%  Similarity=0.092  Sum_probs=42.3

Q ss_pred             cEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC------CCceEEecccCC
Q 024350          195 KKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFE  247 (269)
Q Consensus       195 ~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~  247 (269)
                      .+++|++||+|.++..+.+...  +++.+|. ++.++.++++      ++++++.+|..+
T Consensus       199 ~~vlDl~~G~G~~sl~la~~~~--~v~~vE~~~~av~~a~~n~~~~~~~~v~~~~~d~~~  256 (353)
T TIGR02143       199 GDLLELYCGNGNFSLALAQNFR--RVLATEIAKPSVNAAQYNIAANNIDNVQIIRMSAEE  256 (353)
T ss_pred             CcEEEEeccccHHHHHHHHhCC--EEEEEECCHHHHHHHHHHHHHcCCCcEEEEEcCHHH
Confidence            4699999999999999998874  7899996 7777776653      579999999876

This family consists exclusively of proteins believed to act as tRNA (uracil-5-)-methyltransferase. All members of far are proteobacterial. The seed alignment was taken directly from pfam05958 in Pfam 12.0, but higher cutoffs are used to select only functionally equivalent proteins. Homologous proteins excluded by the higher cutoff scores of this model include other uracil methyltransferases, such as RumA, active on rRNA.

>smart00347 HTH_MARR helix_turn_helix multiple antibiotic resistance protein

Probab=95.42  E-value=0.038  Score=39.88  Aligned_cols=64  Identities=22%  Similarity=0.257  Sum_probs=47.8

Q ss_pred             hcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeec---CCCeEecChhchhhh
Q 024350           35 ELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVD---GQRLYSLAPVSKYFV  108 (269)
Q Consensus        35 ~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~---~~~~y~~t~~s~~l~  108 (269)
                      ++.++..|...   ++.|..+||+.++++      .. .+.+.++-|...|+|.+....   ....|.+|+.+..+.
T Consensus        12 ~~~il~~l~~~---~~~~~~~la~~~~~s------~~-~i~~~l~~L~~~g~v~~~~~~~~~r~~~~~lT~~g~~~~   78 (101)
T smart00347       12 QFLVLRILYEE---GPLSVSELAKRLGVS------PS-TVTRVLDRLEKKGLIRRLPSPEDRRSVLVSLTEEGRELI   78 (101)
T ss_pred             HHHHHHHHHHc---CCcCHHHHHHHHCCC------ch-hHHHHHHHHHHCCCeEecCCCCCCCeEEEEECHhHHHHH
Confidence            55677788775   479999999999997      56 899999999999999843110   012577777776544

>TIGR02702 SufR_cyano iron-sulfur cluster biosynthesis transcriptional regulator SufR

Probab=95.38  E-value=0.044  Score=45.69  Aligned_cols=65  Identities=14%  Similarity=0.234  Sum_probs=49.2

Q ss_pred             cChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceee-cCCCe----EecChhchhhhcC
Q 024350           36 LDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFV-DGQRL----YSLAPVSKYFVRN  110 (269)
Q Consensus        36 lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~-~~~~~----y~~t~~s~~l~~~  110 (269)
                      ..|+..|...   +++|..+||+.+|++      .. .+++.|+.|...|+|..... .+.|+    |.+|+.+..+...
T Consensus         4 ~~IL~~L~~~---~~~t~~eLA~~lgis------~~-tV~~~L~~Le~~GlV~r~~~~~~~gRp~~~y~LT~~G~~~~~~   73 (203)
T TIGR02702         4 EDILSYLLKQ---GQATAAALAEALAIS------PQ-AVRRHLKDLETEGLIEYEAVVQGMGRPQYHYQLSRQGREQFPQ   73 (203)
T ss_pred             HHHHHHHHHc---CCCCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCeEEeecccCCCCCceEEEECcchhhhccc
Confidence            4567777765   589999999999997      66 99999999999999985411 12233    7898888755433

All members of this cyanobacterial protein family are the transcriptional regulator SufR and regulate the SUF system, which makes possible iron-sulfur cluster biosynthesis despite exposure to oxygen. In all cases, the sufR gene is encoded near SUF system genes but in the opposite direction. This DNA-binding protein belongs to the the DeoR family of helix-loop-helix proteins. All members also have a probable metal-binding motif C-X(12)-C-X(13)-C-X(14)-C near the C-terminus.

>PLN02476 O-methyltransferase

Probab=95.35  E-value=0.019  Score=50.33  Aligned_cols=68  Identities=15%  Similarity=0.084  Sum_probs=52.0

Q ss_pred             CCCccEEEEeCCCchHHHHHHHHHCC-CCeEEEeeh-hHHHHhCCC-------CCCceEEecccCCcCC--------CC-
Q 024350          191 FEHVKKLVDVGGGLGATLNMIISKYP-HIKGINYDL-LYVIKNAPS-------YPGIDHVGGDLFESVP--------KA-  252 (269)
Q Consensus       191 ~~~~~~vvDvGGG~G~~~~~l~~~~P-~l~~vv~Dl-p~vv~~a~~-------~~ri~~~~gD~~~~~P--------~g-  252 (269)
                      ..+.++||+||.++|..+..+++..| +-+.+-+|. |+..+.|++       .++|+++.||..+-+|        .. 
T Consensus       116 ~~~ak~VLEIGT~tGySal~lA~al~~~G~V~TiE~d~e~~~~Ar~n~~~aGl~~~I~li~GdA~e~L~~l~~~~~~~~F  195 (278)
T PLN02476        116 ILGAERCIEVGVYTGYSSLAVALVLPESGCLVACERDSNSLEVAKRYYELAGVSHKVNVKHGLAAESLKSMIQNGEGSSY  195 (278)
T ss_pred             hcCCCeEEEecCCCCHHHHHHHHhCCCCCEEEEEECCHHHHHHHHHHHHHcCCCCcEEEEEcCHHHHHHHHHhcccCCCC
Confidence            45679999999999999999999876 567788897 556666654       2799999999877322        23 


Q ss_pred             cEEEec
Q 024350          253 DTIFMK  258 (269)
Q Consensus       253 D~~~l~  258 (269)
                      |++|+-
T Consensus       196 D~VFID  201 (278)
T PLN02476        196 DFAFVD  201 (278)
T ss_pred             CEEEEC
Confidence            777763

>TIGR00738 rrf2_super rrf2 family protein (putative transcriptional regulator)

Probab=95.32  E-value=0.034  Score=42.81  Aligned_cols=46  Identities=24%  Similarity=0.288  Sum_probs=37.2

Q ss_pred             CCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecCh
Q 024350           49 AKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAP  102 (269)
Q Consensus        49 ~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~  102 (269)
                      ++.|.++||+.++++      .. .++++|+.|...|++... +...|.|.++.
T Consensus        24 ~~~s~~eia~~~~i~------~~-~v~~il~~L~~~gli~~~-~g~~ggy~l~~   69 (132)
T TIGR00738        24 GPVSVKEIAERQGIS------RS-YLEKILRTLRRAGLVESV-RGPGGGYRLAR   69 (132)
T ss_pred             CcCcHHHHHHHHCcC------HH-HHHHHHHHHHHCCcEEec-cCCCCCccCCC
Confidence            489999999999997      67 999999999999999842 11245677744

This model represents a superfamily of probable transcriptional regulators. One member, RRF2 of Desulfovibrio vulgaris is an apparent regulatory protein experimentally (MEDLINE:97293189). The N-terminal region appears related to the DNA-binding biotin repressor region of the BirA bifunctional according to results after three rounds of PSI-BLAST with a fairly high stringency.

>PRK11050 manganese transport regulator MntR; Provisional

Probab=95.31  E-value=0.17  Score=40.16  Aligned_cols=85  Identities=15%  Similarity=0.216  Sum_probs=56.7

Q ss_pred             chHHHhhhHHHHHHHHHhhHHHHHHHHHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcC
Q 024350            6 DQEEEANNFSYAMELASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYN   85 (269)
Q Consensus         6 ~~~~~~~~~~~l~~~~~~~~~~~~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g   85 (269)
                      |-+++-+.++++...-.....-.++.     -|...+...   ++.+..+||+.++++      .. .+.+.++.|...|
T Consensus        15 ~~~~~~~~~~~~~~~~~~~~~e~~l~-----~I~~~l~~~---~~~t~~eLA~~l~is------~s-tVsr~l~~Le~~G   79 (152)
T PRK11050         15 DVEEHVEGFRQVREAHRRELIEDYVE-----LIADLIAEV---GEARQVDIAARLGVS------QP-TVAKMLKRLARDG   79 (152)
T ss_pred             CcchhHHHHHHHHHHHhHHHHHHHHH-----HHHHHHHhc---CCCCHHHHHHHHCCC------HH-HHHHHHHHHHHCC
Confidence            44444444555444443333333322     255566553   589999999999998      66 9999999999999


Q ss_pred             cccceeecCCCeEecChhchhhh
Q 024350           86 ALHCSFVDGQRLYSLAPVSKYFV  108 (269)
Q Consensus        86 ~l~~~~~~~~~~y~~t~~s~~l~  108 (269)
                      +|..   .....+.+|+.|..+.
T Consensus        80 lI~r---~~~~~v~LT~~G~~l~   99 (152)
T PRK11050         80 LVEM---RPYRGVFLTPEGEKLA   99 (152)
T ss_pred             CEEE---ecCCceEECchHHHHH
Confidence            9984   2235688888876554

>cd00090 HTH_ARSR Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors

Probab=95.29  E-value=0.049  Score=36.78  Aligned_cols=57  Identities=21%  Similarity=0.341  Sum_probs=42.9

Q ss_pred             hcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecCh
Q 024350           35 ELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAP  102 (269)
Q Consensus        35 ~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~  102 (269)
                      +..|+..+..    ++.+..+|++.++++      .. .+.+.|+.|...|++..........|++|+
T Consensus         9 ~~~il~~l~~----~~~~~~ei~~~~~i~------~~-~i~~~l~~L~~~g~i~~~~~~~~~~~~~~~   65 (78)
T cd00090           9 RLRILRLLLE----GPLTVSELAERLGLS------QS-TVSRHLKKLEEAGLVESRREGRRVYYSLTD   65 (78)
T ss_pred             HHHHHHHHHH----CCcCHHHHHHHHCcC------Hh-HHHHHHHHHHHCCCeEEEEeccEEEEEeCC
Confidence            3446666666    359999999999997      56 899999999999999953222235677775

ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to dissociate from DNA in the presence of metal ions.

>PF04816 DUF633: Family of unknown function (DUF633) ; InterPro: IPR006901 This is a family of uncharacterised bacterial proteins

Probab=95.26  E-value=0.019  Score=48.11  Aligned_cols=62  Identities=23%  Similarity=0.226  Sum_probs=46.4

Q ss_pred             EEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC-------CCCceEEecccCCcCCC---CcEEEec
Q 024350          197 LVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS-------YPGIDHVGGDLFESVPK---ADTIFMK  258 (269)
Q Consensus       197 vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~-------~~ri~~~~gD~~~~~P~---gD~~~l~  258 (269)
                      |+||||-||.+.+.|+++..--+++..|+ |.-.+.|++       .++|++.-+|=++.++.   .|+++++
T Consensus         1 vaDIGtDHgyLpi~L~~~~~~~~~ia~DI~~gpL~~A~~~i~~~~l~~~i~~rlgdGL~~l~~~e~~d~ivIA   73 (205)
T PF04816_consen    1 VADIGTDHGYLPIYLLKNGKAPKAIAVDINPGPLEKAKENIAKYGLEDRIEVRLGDGLEVLKPGEDVDTIVIA   73 (205)
T ss_dssp             EEEET-STTHHHHHHHHTTSEEEEEEEESSHHHHHHHHHHHHHTT-TTTEEEEE-SGGGG--GGG---EEEEE
T ss_pred             CceeccchhHHHHHHHhcCCCCEEEEEeCCHHHHHHHHHHHHHcCCcccEEEEECCcccccCCCCCCCEEEEe
Confidence            68999999999999999999989999996 666665543       38999999998886664   3677654

; GO: 0016429 tRNA (adenine-N1-)-methyltransferase activity; PDB: 3LEC_A 3KU1_G 3KR9_A 3GNL_B.

>PRK11783 rlmL 23S rRNA m(2)G2445 methyltransferase; Provisional

Probab=95.26  E-value=0.018  Score=57.06  Aligned_cols=64  Identities=13%  Similarity=0.048  Sum_probs=49.9

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC--------CCceEEecccCCcC---CCC-cEEEe
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY--------PGIDHVGGDLFESV---PKA-DTIFM  257 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~--------~ri~~~~gD~~~~~---P~g-D~~~l  257 (269)
                      +.++|||+|||+|.++..+++. ..-+++.+|+ +..++.++++        ++++++.+|.++.+   +.. |++++
T Consensus       538 ~g~rVLDlf~gtG~~sl~aa~~-Ga~~V~~vD~s~~al~~a~~N~~~ng~~~~~v~~i~~D~~~~l~~~~~~fDlIil  614 (702)
T PRK11783        538 KGKDFLNLFAYTGTASVHAALG-GAKSTTTVDMSNTYLEWAERNFALNGLSGRQHRLIQADCLAWLKEAREQFDLIFI  614 (702)
T ss_pred             CCCeEEEcCCCCCHHHHHHHHC-CCCEEEEEeCCHHHHHHHHHHHHHhCCCccceEEEEccHHHHHHHcCCCcCEEEE
Confidence            4579999999999999999986 3346899997 6777766542        48999999998732   333 98887

>PF07381 DUF1495: Winged helix DNA-binding domain (DUF1495); InterPro: IPR010863 This family consists of several hypothetical archaeal proteins of around 110 residues in length

Probab=95.23  E-value=0.054  Score=39.00  Aligned_cols=69  Identities=22%  Similarity=0.194  Sum_probs=49.8

Q ss_pred             HHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHH----------HHHhcCcc-cceeecCCCeEec
Q 024350           32 AVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLR----------LLVSYNAL-HCSFVDGQRLYSL  100 (269)
Q Consensus        32 ~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~----------~L~~~g~l-~~~~~~~~~~y~~  100 (269)
                      .=++..|+..|....+ .+.++.|||..++.+      +. .+..-|+          .|+.+|+| .+....+...|++
T Consensus         8 S~~R~~vl~~L~~~yp-~~~~~~eIar~v~~~------~s-nV~GaL~G~g~rY~~e~SLv~lGLV~~~~~~~g~k~Y~l   79 (90)
T PF07381_consen    8 SKVRKKVLEYLCSIYP-EPAYPSEIARSVGSD------YS-NVLGALRGDGKRYNKEDSLVGLGLVEEEEEKGGFKYYRL   79 (90)
T ss_pred             HHHHHHHHHHHHHcCC-CcCCHHHHHHHHCCC------HH-HHHHHHhcCCCCcCcchhHHHcCCeeEeeecCCeeEEEe
Confidence            5567789999988732 689999999999997      44 4444443          58999999 4321234467999


Q ss_pred             Chhchhhh
Q 024350          101 APVSKYFV  108 (269)
Q Consensus       101 t~~s~~l~  108 (269)
                      |+.+..++
T Consensus        80 T~~G~~~~   87 (90)
T PF07381_consen   80 TEKGKRIA   87 (90)
T ss_pred             ChhhhhHH
Confidence            99887544

The function of this family is unknown, although one sequence (Q8U3W1 from SWISSPROT) is described as a putative HTH transcription regulator.

>PF01795 Methyltransf_5: MraW methylase family; InterPro: IPR002903 This is a family of S-adenosyl-L-methionine-dependent methyltransferases, which are found primarily, though not exclusively, in bacteria

Probab=95.20  E-value=0.052  Score=48.21  Aligned_cols=66  Identities=21%  Similarity=0.210  Sum_probs=49.3

Q ss_pred             HHHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-----CCceEEecccCC
Q 024350          181 MEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-----PGIDHVGGDLFE  247 (269)
Q Consensus       181 ~~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-----~ri~~~~gD~~~  247 (269)
                      ...+++.+. ......+||.==|.|..+.++++++|+.+.+.+|. |.+++.+++.     +|+.++.++|-+
T Consensus         9 l~Evl~~L~-~~~~g~~vD~T~G~GGHS~aiL~~~~~~~li~~DrD~~a~~~a~~~l~~~~~r~~~~~~~F~~   80 (310)
T PF01795_consen    9 LKEVLEALN-PKPGGIYVDCTFGGGGHSKAILEKLPNGRLIGIDRDPEALERAKERLKKFDDRFIFIHGNFSN   80 (310)
T ss_dssp             HHHHHHHHT---TT-EEEETT-TTSHHHHHHHHT-TT-EEEEEES-HHHHHHHHCCTCCCCTTEEEEES-GGG
T ss_pred             HHHHHHhhC-cCCCceEEeecCCcHHHHHHHHHhCCCCeEEEecCCHHHHHHHHHHHhhccceEEEEeccHHH
Confidence            346667766 55668999999999999999999999999999998 7888666542     899999999865

The Escherichia coli protein is essential and has been linked to peptidoglycan biosynthesis [, ].; GO: 0008168 methyltransferase activity; PDB: 1N2X_A 1M6Y_A 1WG8_A 3TKA_A.

>PF01170 UPF0020: Putative RNA methylase family UPF0020; InterPro: IPR000241 This domain is probably a methylase

Probab=95.19  E-value=0.031  Score=45.69  Aligned_cols=74  Identities=22%  Similarity=0.175  Sum_probs=50.6

Q ss_pred             HHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCe---------EEEeeh-hHHHHhCCCC-------CCceEEeccc
Q 024350          183 KVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIK---------GINYDL-LYVIKNAPSY-------PGIDHVGGDL  245 (269)
Q Consensus       183 ~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~---------~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~  245 (269)
                      .++..-. |++...|+|-=||+|+++++.+...++..         .++.|. +..++.++.+       ..|.+..+|+
T Consensus        19 ~ll~la~-~~~~~~vlDP~CGsGtiliEaa~~~~~~~~~~~~~~~~~~g~Di~~~~v~~a~~N~~~ag~~~~i~~~~~D~   97 (179)
T PF01170_consen   19 ALLNLAG-WRPGDVVLDPFCGSGTILIEAALMGANIPPLNDINELKIIGSDIDPKAVRGARENLKAAGVEDYIDFIQWDA   97 (179)
T ss_dssp             HHHHHTT---TTS-EEETT-TTSHHHHHHHHHHTTTSTTTH-CH--EEEEESSHHHHHHHHHHHHHTT-CGGEEEEE--G
T ss_pred             HHHHHhC-CCCCCEEeecCCCCCHHHHHHHHHhhCcccccccccccEEecCCCHHHHHHHHHHHHhcccCCceEEEecch
Confidence            3444444 66678999999999999999888887777         889997 7777665542       5689999999


Q ss_pred             CC-cCCC-C-cEEEe
Q 024350          246 FE-SVPK-A-DTIFM  257 (269)
Q Consensus       246 ~~-~~P~-g-D~~~l  257 (269)
                      ++ +.+. . |+++.
T Consensus        98 ~~l~~~~~~~d~Ivt  112 (179)
T PF01170_consen   98 RELPLPDGSVDAIVT  112 (179)
T ss_dssp             GGGGGTTSBSCEEEE
T ss_pred             hhcccccCCCCEEEE
Confidence            98 6444 3 77653

It is associated with the THUMP domain that also occurs with RNA modification domains [].; PDB: 3LDU_A 3LDG_A 3K0B_A 3V8V_B 3V97_A 3TLJ_A 3TM5_B 3TM4_A 3TMA_A.

>KOG2361 consensus Predicted methyltransferase [General function prediction only]

Probab=95.17  E-value=0.015  Score=49.27  Aligned_cols=74  Identities=18%  Similarity=0.249  Sum_probs=58.7

Q ss_pred             ccEEEEeCCCchHHHHHHHHHCCC--CeEEEeeh-hHHHHhCCCC-----CCceEEecccCCc-----CCCC--cEEEec
Q 024350          194 VKKLVDVGGGLGATLNMIISKYPH--IKGINYDL-LYVIKNAPSY-----PGIDHVGGDLFES-----VPKA--DTIFMK  258 (269)
Q Consensus       194 ~~~vvDvGGG~G~~~~~l~~~~P~--l~~vv~Dl-p~vv~~a~~~-----~ri~~~~gD~~~~-----~P~g--D~~~l~  258 (269)
                      ..+|+.||||.|...--+++.+|+  ++....|. |..++..+++     .|+.....|+-.+     .++|  |++.+-
T Consensus        72 ~~~ilEvGCGvGNtvfPll~~~~n~~l~v~acDfsp~Ai~~vk~~~~~~e~~~~afv~Dlt~~~~~~~~~~~svD~it~I  151 (264)
T KOG2361|consen   72 AETILEVGCGVGNTVFPLLKTSPNNRLKVYACDFSPRAIELVKKSSGYDESRVEAFVWDLTSPSLKEPPEEGSVDIITLI  151 (264)
T ss_pred             hhhheeeccCCCcccchhhhcCCCCCeEEEEcCCChHHHHHHHhccccchhhhcccceeccchhccCCCCcCccceEEEE
Confidence            348999999999999999999999  88899995 8888888764     6777777888763     2234  988888


Q ss_pred             cccccCCCC
Q 024350          259 VICVCYLNS  267 (269)
Q Consensus       259 ~iLhd~~d~  267 (269)
                      -||.-.+++
T Consensus       152 FvLSAi~pe  160 (264)
T KOG2361|consen  152 FVLSAIHPE  160 (264)
T ss_pred             EEEeccChH
Confidence            887665543

>PF01728 FtsJ: FtsJ-like methyltransferase; InterPro: IPR002877 RrmJ (FtsJ) is a well conserved heat shock protein present in prokaryotes, archaea, and eukaryotes

Probab=95.13  E-value=0.017  Score=47.04  Aligned_cols=63  Identities=17%  Similarity=0.294  Sum_probs=43.1

Q ss_pred             HHHHHHhccCCC--CccEEEEeCCCchHHHHHHHHHC-CCCeEEEeehhHHHHhCCCCCCceEEecccCC
Q 024350          181 MEKVLESYKGFE--HVKKLVDVGGGLGATLNMIISKY-PHIKGINYDLLYVIKNAPSYPGIDHVGGDLFE  247 (269)
Q Consensus       181 ~~~~~~~~~~~~--~~~~vvDvGGG~G~~~~~l~~~~-P~l~~vv~Dlp~vv~~a~~~~ri~~~~gD~~~  247 (269)
                      ...+.+.|+.++  +..++||||+++|.++..++++. +..+++.+|+...-    ..+.+.++.+|+++
T Consensus         9 L~ei~~~~~~~~~~~~~~vlDlG~aPGGws~~~~~~~~~~~~v~avDl~~~~----~~~~~~~i~~d~~~   74 (181)
T PF01728_consen    9 LYEIDEKFKIFKPGKGFTVLDLGAAPGGWSQVLLQRGGPAGRVVAVDLGPMD----PLQNVSFIQGDITN   74 (181)
T ss_dssp             HHHHHHTTSSS-TTTTEEEEEET-TTSHHHHHHHTSTTTEEEEEEEESSSTG----S-TTEEBTTGGGEE
T ss_pred             HHHHHHHCCCCCcccccEEEEcCCcccceeeeeeecccccceEEEEeccccc----cccceeeeecccch
Confidence            345556665333  45899999999999999999998 78889999986552    12444555555543

RrmJ is responsible for methylating 23 S rRNA at position U2552 in the aminoacyl (A)1-site of the ribosome []. U2552 is one of the five universally conserved A-loop residues and has been shown to be methylated at the ribose 2'-OH group in the majority of organisms investigated so far. This suggests that this modification plays an important role in the A-loop function. RrmJ recognises its methylation target only when the 23 S rRNA is present in 50 S ribosomal subunits. This suggests that the RrmJ-mediated methylation must occur late in the maturation process of the ribosome. This is in contrast to other known 23 S rRNA modifications that occur in earlier maturation steps. The 1.5 A crystal structure of RrmJ in complex with its cofactor S-adenosylmethionine revealed that RrmJ has a methyltransferase fold. The active site of RrmJ appears to be formed by a catalytic triad consisting of two lysine residues and the negatively charged aspartate residue. Another highly conserved glutamate residue that is present in the active site of RrmJ appears to play only a minor role in the methyltransfer reaction in vivo []. ; GO: 0003676 nucleic acid binding, 0008168 methyltransferase activity, 0032259 methylation; PDB: 3GCZ_A 2PLW_A 2NYU_A 2OXT_C 3EMD_A 3ELY_A 3ELW_A 3ELU_A 3ELD_A 3EMB_A ....

>PRK03902 manganese transport transcriptional regulator; Provisional

Probab=95.12  E-value=0.064  Score=42.02  Aligned_cols=50  Identities=18%  Similarity=0.198  Sum_probs=42.4

Q ss_pred             CCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhchhhh
Q 024350           49 AKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSKYFV  108 (269)
Q Consensus        49 ~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s~~l~  108 (269)
                      ++.+..+||+.++++      .. .+.+.++.|...|+|.+   ...+.|.+|+.|+.+.
T Consensus        21 ~~~~~~ela~~l~vs------~~-svs~~l~~L~~~Gli~~---~~~~~i~LT~~G~~~a   70 (142)
T PRK03902         21 GYARVSDIAEALSVH------PS-SVTKMVQKLDKDEYLIY---EKYRGLVLTPKGKKIG   70 (142)
T ss_pred             CCcCHHHHHHHhCCC------hh-HHHHHHHHHHHCCCEEE---ecCceEEECHHHHHHH
Confidence            689999999999998      56 89999999999999984   2346799999987544

>PF05148 Methyltransf_8: Hypothetical methyltransferase; InterPro: IPR007823 This family consists of uncharacterised eukaryotic proteins which are related to S-adenosyl-L-methionine-dependent methyltransferases

Probab=95.12  E-value=0.13  Score=43.07  Aligned_cols=93  Identities=15%  Similarity=0.150  Sum_probs=48.2

Q ss_pred             ccccCcchHH----HHHHHHHhhchhhHHHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeehhHHHHhCC
Q 024350          158 YLGVDSSFND----VFSNGMLSHTSIVMEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAP  233 (269)
Q Consensus       158 ~~~~~p~~~~----~f~~~m~~~~~~~~~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp~vv~~a~  233 (269)
                      .+.++|+...    .|.+.+..+-..+...+++.+..-++...|.|.|||.+.++..+.+   ..++.-+||-..     
T Consensus        33 lf~~dP~~F~~YH~Gfr~Qv~~WP~nPvd~iI~~l~~~~~~~viaD~GCGdA~la~~~~~---~~~V~SfDLva~-----  104 (219)
T PF05148_consen   33 LFQEDPELFDIYHEGFRQQVKKWPVNPVDVIIEWLKKRPKSLVIADFGCGDAKLAKAVPN---KHKVHSFDLVAP-----  104 (219)
T ss_dssp             HHHH-HHHHHHHHHHHHHHHCTSSS-HHHHHHHHHCTS-TTS-EEEES-TT-HHHHH--S------EEEEESS-S-----
T ss_pred             HHHhCHHHHHHHHHHHHHHHhcCCCCcHHHHHHHHHhcCCCEEEEECCCchHHHHHhccc---CceEEEeeccCC-----
Confidence            4445565443    4444444444455666666654234557999999999999966542   356788887332     


Q ss_pred             CCCCceEEecccCC-cCCCC--cEEEecccc
Q 024350          234 SYPGIDHVGGDLFE-SVPKA--DTIFMKVIC  261 (269)
Q Consensus       234 ~~~ri~~~~gD~~~-~~P~g--D~~~l~~iL  261 (269)
                       +++  +.+.|+-. |++.+  |++++.--|
T Consensus       105 -n~~--Vtacdia~vPL~~~svDv~VfcLSL  132 (219)
T PF05148_consen  105 -NPR--VTACDIANVPLEDESVDVAVFCLSL  132 (219)
T ss_dssp             -STT--EEES-TTS-S--TT-EEEEEEES--
T ss_pred             -CCC--EEEecCccCcCCCCceeEEEEEhhh
Confidence             233  56799966 77753  988776544

; GO: 0008168 methyltransferase activity; PDB: 2ZFU_B.

>PRK15128 23S rRNA m(5)C1962 methyltransferase; Provisional

Probab=95.09  E-value=0.024  Score=52.25  Aligned_cols=65  Identities=15%  Similarity=0.130  Sum_probs=48.0

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC--------CCceEEecccCCcC-----CC-C-cEEE
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY--------PGIDHVGGDLFESV-----PK-A-DTIF  256 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~--------~ri~~~~gD~~~~~-----P~-g-D~~~  256 (269)
                      +..+|||+|||+|.++...+.. +..+++.+|+ +..++.++++        ++++++.+|.|+.+     .. . |+++
T Consensus       220 ~g~rVLDlfsgtG~~~l~aa~~-ga~~V~~VD~s~~al~~a~~N~~~Ngl~~~~v~~i~~D~~~~l~~~~~~~~~fDlVi  298 (396)
T PRK15128        220 ENKRVLNCFSYTGGFAVSALMG-GCSQVVSVDTSQEALDIARQNVELNKLDLSKAEFVRDDVFKLLRTYRDRGEKFDVIV  298 (396)
T ss_pred             CCCeEEEeccCCCHHHHHHHhC-CCCEEEEEECCHHHHHHHHHHHHHcCCCCCcEEEEEccHHHHHHHHHhcCCCCCEEE
Confidence            4579999999999998876643 4457899997 6777666542        37999999999732     12 2 8887


Q ss_pred             ec
Q 024350          257 MK  258 (269)
Q Consensus       257 l~  258 (269)
                      +-
T Consensus       299 lD  300 (396)
T PRK15128        299 MD  300 (396)
T ss_pred             EC
Confidence            64

>TIGR00563 rsmB ribosomal RNA small subunit methyltransferase RsmB

Probab=95.07  E-value=0.037  Score=51.56  Aligned_cols=73  Identities=15%  Similarity=0.171  Sum_probs=51.7

Q ss_pred             HHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC------C-CceEEecccCCc-C--C-C
Q 024350          184 VLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY------P-GIDHVGGDLFES-V--P-K  251 (269)
Q Consensus       184 ~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~------~-ri~~~~gD~~~~-~--P-~  251 (269)
                      ++..++ .....+|+|+|||+|..+..+++..|+.+.+.+|. +..++.++++      + +++++.+|.... .  + .
T Consensus       230 ~~~~L~-~~~g~~VLDlcag~G~kt~~la~~~~~~~v~a~D~~~~~l~~~~~n~~r~g~~~~v~~~~~d~~~~~~~~~~~  308 (426)
T TIGR00563       230 VATWLA-PQNEETILDACAAPGGKTTHILELAPQAQVVALDIHEHRLKRVYENLKRLGLTIKAETKDGDGRGPSQWAENE  308 (426)
T ss_pred             HHHHhC-CCCCCeEEEeCCCccHHHHHHHHHcCCCeEEEEeCCHHHHHHHHHHHHHcCCCeEEEEecccccccccccccc
Confidence            334444 44557999999999999999999998788999997 6677655432      2 344477787652 2  2 2


Q ss_pred             C-cEEEe
Q 024350          252 A-DTIFM  257 (269)
Q Consensus       252 g-D~~~l  257 (269)
                      . |.+++
T Consensus       309 ~fD~Vll  315 (426)
T TIGR00563       309 QFDRILL  315 (426)
T ss_pred             ccCEEEE
Confidence            3 98886

The seed alignment is built from bacterial sequences only. Eukaryotic homologs include Nop2, a protein required for processing pre-rRNA, that is likely also a rRNA methyltransferase, although the fine specificity may differ. Cutoff scores are set to avoid treating archaeal and eukaroytic homologs automatically as functionally equivalent, although they may have very similar roles.

>COG3355 Predicted transcriptional regulator [Transcription]

Probab=95.05  E-value=0.06  Score=41.19  Aligned_cols=45  Identities=16%  Similarity=0.282  Sum_probs=37.7

Q ss_pred             cChhHHHH-hcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccce
Q 024350           36 LDVFEIIT-KAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCS   90 (269)
Q Consensus        36 lglfd~L~-~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~   90 (269)
                      ..++-+|- .+   +|.|+++||+.++.+      .+ .+.|-|+-|...|++.+.
T Consensus        30 v~v~~~LL~~~---~~~tvdelae~lnr~------rS-tv~rsl~~L~~~GlV~Re   75 (126)
T COG3355          30 VEVYKALLEEN---GPLTVDELAEILNRS------RS-TVYRSLQNLLEAGLVERE   75 (126)
T ss_pred             HHHHHHHHhhc---CCcCHHHHHHHHCcc------HH-HHHHHHHHHHHcCCeeee
Confidence            34665555 44   699999999999998      67 999999999999999953

>smart00418 HTH_ARSR helix_turn_helix, Arsenical Resistance Operon Repressor

Probab=95.04  E-value=0.075  Score=34.70  Aligned_cols=54  Identities=17%  Similarity=0.293  Sum_probs=40.2

Q ss_pred             hhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecCh
Q 024350           38 VFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAP  102 (269)
Q Consensus        38 lfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~  102 (269)
                      |+..|..    ++.|..+|++.++++      .. .+.+.|+.|...|++..........|.+|.
T Consensus         2 il~~l~~----~~~~~~~i~~~l~is------~~-~v~~~l~~L~~~g~i~~~~~~~~~~~~~~~   55 (66)
T smart00418        2 ILKLLAE----GELCVCELAEILGLS------QS-TVSHHLKKLREAGLVESRREGKRVYYSLTD   55 (66)
T ss_pred             HHHHhhc----CCccHHHHHHHHCCC------HH-HHHHHHHHHHHCCCeeeeecCCEEEEEEch
Confidence            4555653    589999999999997      56 899999999999999853212234565554

>PF09012 FeoC: FeoC like transcriptional regulator; InterPro: IPR015102 This entry contains several transcriptional regulators, including FeoC, which contain a HTH motif

Probab=95.01  E-value=0.04  Score=37.55  Aligned_cols=42  Identities=10%  Similarity=0.292  Sum_probs=35.2

Q ss_pred             hhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccc
Q 024350           38 VFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHC   89 (269)
Q Consensus        38 lfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~   89 (269)
                      |-+.|...   +.+|..|||..++++      ++ .+..+|+.|+.+|.|.+
T Consensus         5 i~~~l~~~---~~~S~~eLa~~~~~s------~~-~ve~mL~~l~~kG~I~~   46 (69)
T PF09012_consen    5 IRDYLRER---GRVSLAELAREFGIS------PE-AVEAMLEQLIRKGYIRK   46 (69)
T ss_dssp             HHHHHHHS----SEEHHHHHHHTT--------HH-HHHHHHHHHHCCTSCEE
T ss_pred             HHHHHHHc---CCcCHHHHHHHHCcC------HH-HHHHHHHHHHHCCcEEE
Confidence            56778776   589999999999998      77 99999999999999994

FeoC acts as a [Fe-S] dependent transcriptional repressor []. ; PDB: 1XN7_A 2K02_A.

>PF08461 HTH_12: Ribonuclease R winged-helix domain; InterPro: IPR013668 This domain is found at the amino terminus of Ribonuclease R and a number of presumed transcriptional regulatory proteins from archaea

Probab=94.94  E-value=0.066  Score=36.25  Aligned_cols=61  Identities=11%  Similarity=0.202  Sum_probs=45.0

Q ss_pred             hhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhch
Q 024350           38 VFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSK  105 (269)
Q Consensus        38 lfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s~  105 (269)
                      |++.|.+++  +|++..+|++.+....-+- .+. .++|.|++|...|++.   +.+-+-+.+|+.|.
T Consensus         3 IL~~L~~~~--~P~g~~~l~~~L~~~g~~~-se~-avRrrLr~me~~Glt~---~~g~~G~~iT~~G~   63 (66)
T PF08461_consen    3 ILRILAESD--KPLGRKQLAEELKLRGEEL-SEE-AVRRRLRAMERDGLTR---KVGRQGRIITEKGL   63 (66)
T ss_pred             HHHHHHHcC--CCCCHHHHHHHHHhcChhh-hHH-HHHHHHHHHHHCCCcc---ccCCcccccCHHHH
Confidence            567888875  7999999999997641011 135 8999999999999777   33444467888765

>PRK05031 tRNA (uracil-5-)-methyltransferase; Validated

Probab=94.94  E-value=0.023  Score=51.83  Aligned_cols=51  Identities=10%  Similarity=0.087  Sum_probs=42.0

Q ss_pred             cEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC------CCceEEecccCC
Q 024350          195 KKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFE  247 (269)
Q Consensus       195 ~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~  247 (269)
                      .+++|++||+|.++..+.+...  +++.+|. +..++.++++      ++++++.+|.++
T Consensus       208 ~~vLDl~~G~G~~sl~la~~~~--~v~~vE~~~~ai~~a~~N~~~~~~~~v~~~~~d~~~  265 (362)
T PRK05031        208 GDLLELYCGNGNFTLALARNFR--RVLATEISKPSVAAAQYNIAANGIDNVQIIRMSAEE  265 (362)
T ss_pred             CeEEEEeccccHHHHHHHhhCC--EEEEEECCHHHHHHHHHHHHHhCCCcEEEEECCHHH
Confidence            4699999999999999998865  6899996 7777766542      589999999866

>PRK14903 16S rRNA methyltransferase B; Provisional

Probab=94.93  E-value=0.052  Score=50.67  Aligned_cols=67  Identities=16%  Similarity=0.120  Sum_probs=50.5

Q ss_pred             CCCccEEEEeCCCchHHHHHHHHHC-CCCeEEEeeh-hHHHHhCCCC------CCceEEecccCC-c-C-CCC-cEEEe
Q 024350          191 FEHVKKLVDVGGGLGATLNMIISKY-PHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFE-S-V-PKA-DTIFM  257 (269)
Q Consensus       191 ~~~~~~vvDvGGG~G~~~~~l~~~~-P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~-~-~-P~g-D~~~l  257 (269)
                      .....+|+|+|||+|..+..+++.. +.-+++.+|+ +..++.++++      ..|+++.+|..+ + . +.. |.+++
T Consensus       235 ~~~g~~VLD~cagpGgkt~~la~~~~~~g~V~a~Dis~~rl~~~~~n~~r~g~~~v~~~~~Da~~l~~~~~~~fD~Vl~  313 (431)
T PRK14903        235 LEPGLRVLDTCAAPGGKTTAIAELMKDQGKILAVDISREKIQLVEKHAKRLKLSSIEIKIADAERLTEYVQDTFDRILV  313 (431)
T ss_pred             CCCCCEEEEeCCCccHHHHHHHHHcCCCCEEEEEECCHHHHHHHHHHHHHcCCCeEEEEECchhhhhhhhhccCCEEEE
Confidence            4456799999999999999999886 5678999997 6777665542      468899999865 2 2 223 88876

>PF07757 AdoMet_MTase: Predicted AdoMet-dependent methyltransferase; InterPro: IPR011671 tRNA (uracil-O(2)-)-methyltransferase catalyses the formation of O(2)-methyl-uracil at position 44 (m2U44) in tRNA(Ser) []

Probab=94.92  E-value=0.036  Score=41.13  Aligned_cols=39  Identities=23%  Similarity=0.325  Sum_probs=27.9

Q ss_pred             HHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh
Q 024350          184 VLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL  225 (269)
Q Consensus       184 ~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl  225 (269)
                      |-..+. -.....+||||||.|.+.--|.+.  +.+|.++|.
T Consensus        50 W~~~~~-~~~~~~FVDlGCGNGLLV~IL~~E--Gy~G~GiD~   88 (112)
T PF07757_consen   50 WRDMYG-EQKFQGFVDLGCGNGLLVYILNSE--GYPGWGIDA   88 (112)
T ss_pred             HhcccC-CCCCCceEEccCCchHHHHHHHhC--CCCcccccc
Confidence            334444 245689999999999988777665  556678884

; GO: 0008168 methyltransferase activity

>TIGR00006 S-adenosyl-methyltransferase MraW

Probab=94.92  E-value=0.071  Score=47.30  Aligned_cols=65  Identities=15%  Similarity=0.147  Sum_probs=53.0

Q ss_pred             HHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-----CCceEEecccCC
Q 024350          182 EKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-----PGIDHVGGDLFE  247 (269)
Q Consensus       182 ~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-----~ri~~~~gD~~~  247 (269)
                      ..+++.+. ......+||.=+|.|..+..++++.|+.+.+.+|. |.+++.+++.     +|++++.++|-+
T Consensus        10 ~Evl~~L~-~~~ggiyVD~TlG~GGHS~~iL~~l~~g~vigiD~D~~Al~~ak~~L~~~~~R~~~i~~nF~~   80 (305)
T TIGR00006        10 DEVVEGLN-IKPDGIYIDCTLGFGGHSKAILEQLGTGRLIGIDRDPQAIAFAKERLSDFEGRVVLIHDNFAN   80 (305)
T ss_pred             HHHHHhcC-cCCCCEEEEeCCCChHHHHHHHHhCCCCEEEEEcCCHHHHHHHHHHHhhcCCcEEEEeCCHHH
Confidence            45666665 44557899999999999999999998889999997 7777776542     699999999875

Genetics paper in 1972 links mra cluster to peptidoglycan biosynthesis in E. coli. Seems to be common in proteobacteria.wn.

>PF01047 MarR: MarR family; InterPro: IPR000835 The MarR-type HTH domain is a DNA-binding, winged helix-turn-helix (wHTH) domain of about 135 amino acids present in transcription regulators of the MarR/SlyA family, involved in the development of antibiotic resistance

Probab=94.91  E-value=0.03  Score=36.61  Aligned_cols=46  Identities=11%  Similarity=0.324  Sum_probs=38.0

Q ss_pred             hcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccce
Q 024350           35 ELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCS   90 (269)
Q Consensus        35 ~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~   90 (269)
                      ++.++..|...   +++|..+||+.++++      .. .+.++++-|...|++++.
T Consensus         5 q~~iL~~l~~~---~~~~~~~la~~~~~~------~~-~~t~~i~~L~~~g~I~r~   50 (59)
T PF01047_consen    5 QFRILRILYEN---GGITQSELAEKLGIS------RS-TVTRIIKRLEKKGLIERE   50 (59)
T ss_dssp             HHHHHHHHHHH---SSEEHHHHHHHHTS-------HH-HHHHHHHHHHHTTSEEEE
T ss_pred             HHHHHHHHHHc---CCCCHHHHHHHHCCC------hh-HHHHHHHHHHHCCCEEec
Confidence            44556667776   489999999999997      67 999999999999999964

This family of transcription regulators is named after Escherichia coli MarR, a repressor of genes which activate the multiple antibiotic resistance and oxidative stress regulons, and after slyA from Salmonella typhimurium and E. coli, a transcription regulator that is required for virulence and survival in the macrophage environment. Regulators with the MarR-type HTH domain are present in bacteria and archaea and control a variety of biological functions, including resistance to multiple antibiotics, household disinfectants, organic solvents, oxidative stress agents and regulation of the virulence factor synthesis in pathogens of humans and plants. Many of the MarR-like regulators respond to aromatic compounds [, , ]. The crystal structures of MarR, MexR and SlyA have been determined and show a winged HTH DNA-binding core flanked by helices involved in dimerisation. The DNA-binding domains are ascribed to the superfamily of winged helix proteins, containing a three (four)-helix (H) bundle and a three-stranded antiparallel beta-sheet (B) in the topology: H1-(H1')-H2-B1-H3-H4-B2-B3-H5-H6. Helices 3 and 4 comprise the helix-turn-helix motif and the beta-sheet is called the wing. Helix 4 is termed the recognition helix, like in other HTHs where it binds the DNA major groove. The helices 1, 5 and 6 are involved in dimerisation, as most MarR-like transcription regulators form dimers [, ]. ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1JGS_A 2NYX_D 2PEX_B 2PFB_A 3BPX_A 3BPV_A 2BV6_A 3BJA_A 3E6M_B 2ETH_A ....

>TIGR02944 suf_reg_Xantho FeS assembly SUF system regulator, gammaproteobacterial

Probab=94.85  E-value=0.045  Score=42.19  Aligned_cols=46  Identities=24%  Similarity=0.268  Sum_probs=36.7

Q ss_pred             CCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecCh
Q 024350           49 AKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAP  102 (269)
Q Consensus        49 ~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~  102 (269)
                      ++.|+.+||+.++++      .. .+.++|+.|...|++... +...+.|.+..
T Consensus        24 ~~~s~~eia~~l~is------~~-~v~~~l~~L~~~Gli~~~-~g~~ggy~l~~   69 (130)
T TIGR02944        24 QPYSAAEIAEQTGLN------AP-TVSKILKQLSLAGIVTSK-RGVEGGYTLAR   69 (130)
T ss_pred             CCccHHHHHHHHCcC------HH-HHHHHHHHHHHCCcEEec-CCCCCChhhcC
Confidence            689999999999997      67 999999999999999842 11235566633

The SUF system is an oxygen-resistant iron-sulfur cluster assembly system found in both aerobes and facultative anaerobes. Its presence appears to be a marker of oxygen tolerance; strict anaerobes and microaerophiles tend to have different FeS cluster biosynthesis systems. Members of this protein family belong to the rrf2 family of transcriptional regulators and are found, typically, as the first gene of a SUF operon. It is found only in a subset of genomes that encode the SUF system, including the genus Xanthomonas. The conserved location suggests an autoregulatory role.

>COG2345 Predicted transcriptional regulator [Transcription]

Probab=94.84  E-value=0.066  Score=45.02  Aligned_cols=64  Identities=17%  Similarity=0.299  Sum_probs=48.7

Q ss_pred             ChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeec-C----CCeEecChhchhhhcC
Q 024350           37 DVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVD-G----QRLYSLAPVSKYFVRN  110 (269)
Q Consensus        37 glfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~-~----~~~y~~t~~s~~l~~~  110 (269)
                      .|...|.+.   +|+|+.|||+.+|++      .. .+++.|..|++.|+|+..... +    .-.|++|..++.....
T Consensus        15 ~il~lL~~~---g~~sa~elA~~Lgis------~~-avR~HL~~Le~~Glv~~~~~~~g~GRP~~~y~Lt~~g~~~f~~   83 (218)
T COG2345          15 RILELLKKS---GPVSADELAEELGIS------PM-AVRRHLDDLEAEGLVEVERQQGGRGRPAKLYRLTEKGREQFPK   83 (218)
T ss_pred             HHHHHHhcc---CCccHHHHHHHhCCC------HH-HHHHHHHHHHhCcceeeeeccCCCCCCceeeeecccchhhcch
Confidence            355667765   699999999999997      56 999999999999999854111 1    1349999988764433

>TIGR01884 cas_HTH CRISPR locus-related DNA-binding protein

Probab=94.71  E-value=0.067  Score=44.60  Aligned_cols=60  Identities=23%  Similarity=0.275  Sum_probs=47.6

Q ss_pred             HhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhc
Q 024350           34 VELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVS  104 (269)
Q Consensus        34 ~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s  104 (269)
                      .++.++..|...   +++|..+||+.++++      .. .+.+.|..|...|++.+... ....|.+|+.|
T Consensus       144 ~~~~IL~~l~~~---g~~s~~eia~~l~is------~s-tv~r~L~~Le~~GlI~r~~~-r~~~~~lT~~G  203 (203)
T TIGR01884       144 EELKVLEVLKAE---GEKSVKNIAKKLGKS------LS-TISRHLRELEKKGLVEQKGR-KGKRYSLTKLG  203 (203)
T ss_pred             HHHHHHHHHHHc---CCcCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCEEEEcC-CccEEEeCCCC
Confidence            345677777775   479999999999998      66 89999999999999995421 35678888764

Most but not all examples of this family are associated with CRISPR loci, a combination of DNA repeats and characteristic proteins encoded near the repeat cluster. The C-terminal region of this protein is homologous to DNA-binding helix-turn-helix domains with predicted transcriptional regulatory activity.

>PF08220 HTH_DeoR: DeoR-like helix-turn-helix domain; InterPro: IPR001034 The deoR-type HTH domain is a DNA-binding, helix-turn-helix (HTH) domain of about 50-60 amino acids present in transcription regulators of the deoR family, involved in sugar catabolism

Probab=94.69  E-value=0.096  Score=34.29  Aligned_cols=43  Identities=19%  Similarity=0.334  Sum_probs=37.9

Q ss_pred             ChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccc
Q 024350           37 DVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHC   89 (269)
Q Consensus        37 glfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~   89 (269)
                      .|.+.|...   +.+|+++||+.+|++      +. -++|=|..|...|++.+
T Consensus         4 ~Il~~l~~~---~~~s~~ela~~~~VS------~~-TiRRDl~~L~~~g~i~r   46 (57)
T PF08220_consen    4 QILELLKEK---GKVSVKELAEEFGVS------EM-TIRRDLNKLEKQGLIKR   46 (57)
T ss_pred             HHHHHHHHc---CCEEHHHHHHHHCcC------HH-HHHHHHHHHHHCCCEEE
Confidence            366778776   589999999999998      67 99999999999999983

This family of prokaryotic regulators is named after the Escherichia coli protein DeoR, a repressor of the deo operon, which encodes nucleotide and deoxyribonucleotide catabolic enzymes. DeoR also negatively regulates the expression of nupG and tsx, a nucleoside-specific transport protein and a channel-forming protein, respectively. DeoR-like transcription repressors occur in diverse bacteria as regulators of sugar and nucleoside metabolic systems. The effector molecules for deoR-like regulators are generally phosphorylated intermediates of the relevant metabolic pathway. The DNA-binding deoR-type HTH domain occurs usually in the N-terminal part. The C-terminal part can contain an effector-binding domain and/or an oligomerisation domain. DeoR occurs as an octamer, whilst glpR and agaR are tetramers. Several operators may be bound simultaneously, which could facilitate DNA looping [, ].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular

>TIGR00446 nop2p NOL1/NOP2/sun family putative RNA methylase

Probab=94.58  E-value=0.073  Score=46.29  Aligned_cols=66  Identities=12%  Similarity=0.062  Sum_probs=48.3

Q ss_pred             CCccEEEEeCCCchHHHHHHHHHCCC-CeEEEeeh-hHHHHhCCCC------CCceEEecccCC-cCC--CCcEEEe
Q 024350          192 EHVKKLVDVGGGLGATLNMIISKYPH-IKGINYDL-LYVIKNAPSY------PGIDHVGGDLFE-SVP--KADTIFM  257 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~~P~-l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~-~~P--~gD~~~l  257 (269)
                      +...+|+|+|||+|..+..+++..++ -+++.+|+ +..++.++++      ..|+++.+|... +.+  +.|++++
T Consensus        70 ~~g~~VLDl~ag~G~kt~~la~~~~~~g~v~a~D~~~~~l~~~~~n~~~~g~~~v~~~~~D~~~~~~~~~~fD~Vl~  146 (264)
T TIGR00446        70 DPPERVLDMAAAPGGKTTQISALMKNEGAIVANEFSKSRTKVLIANINRCGVLNVAVTNFDGRVFGAAVPKFDAILL  146 (264)
T ss_pred             CCcCEEEEECCCchHHHHHHHHHcCCCCEEEEEcCCHHHHHHHHHHHHHcCCCcEEEecCCHHHhhhhccCCCEEEE
Confidence            44578999999999999999988754 57899997 6666655432      568888888654 222  2388775

>PF04703 FaeA: FaeA-like protein; PDB: 2JT1_A 2HTJ_A

Probab=94.57  E-value=0.066  Score=35.76  Aligned_cols=45  Identities=20%  Similarity=0.194  Sum_probs=36.4

Q ss_pred             ChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccce
Q 024350           37 DVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCS   90 (269)
Q Consensus        37 glfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~   90 (269)
                      .|.+.|....  +|+|..|||+.+|++      .. .++++|..|...|.+...
T Consensus         4 ~Il~~i~~~~--~p~~T~eiA~~~gls------~~-~aR~yL~~Le~eG~V~~~   48 (62)
T PF04703_consen    4 KILEYIKEQN--GPLKTREIADALGLS------IY-QARYYLEKLEKEGKVERS   48 (62)
T ss_dssp             CHHHHHHHHT--S-EEHHHHHHHHTS-------HH-HHHHHHHHHHHCTSEEEE
T ss_pred             HHHHHHHHcC--CCCCHHHHHHHhCCC------HH-HHHHHHHHHHHCCCEEEe
Confidence            4667777632  699999999999998      67 899999999999999853

>KOG3191 consensus Predicted N6-DNA-methyltransferase [Translation, ribosomal structure and biogenesis]

Probab=94.43  E-value=0.074  Score=43.36  Aligned_cols=66  Identities=18%  Similarity=0.276  Sum_probs=49.6

Q ss_pred             ccEEEEeCCCchHHHHHHHHHC-CCCeEEEeeh-hHHHHhCCC----C-CCceEEecccCCcCC-CC-cEEEecc
Q 024350          194 VKKLVDVGGGLGATLNMIISKY-PHIKGINYDL-LYVIKNAPS----Y-PGIDHVGGDLFESVP-KA-DTIFMKV  259 (269)
Q Consensus       194 ~~~vvDvGGG~G~~~~~l~~~~-P~l~~vv~Dl-p~vv~~a~~----~-~ri~~~~gD~~~~~P-~g-D~~~l~~  259 (269)
                      ...+++||||+|..+..+.+.. |+.....-|+ |..++...+    + -++..+..|++..+- .. |+.+++-
T Consensus        44 ~~i~lEIG~GSGvvstfL~~~i~~~~~~latDiNp~A~~~Tl~TA~~n~~~~~~V~tdl~~~l~~~~VDvLvfNP  118 (209)
T KOG3191|consen   44 PEICLEIGCGSGVVSTFLASVIGPQALYLATDINPEALEATLETARCNRVHIDVVRTDLLSGLRNESVDVLVFNP  118 (209)
T ss_pred             ceeEEEecCCcchHHHHHHHhcCCCceEEEecCCHHHHHHHHHHHHhcCCccceeehhHHhhhccCCccEEEECC
Confidence            6789999999999888887765 6777788897 676665443    2 457888899998544 34 8887754

>PLN02589 caffeoyl-CoA O-methyltransferase

Probab=94.31  E-value=0.039  Score=47.52  Aligned_cols=56  Identities=18%  Similarity=0.107  Sum_probs=45.8

Q ss_pred             CCccEEEEeCCCchHHHHHHHHHCC-CCeEEEeeh-hHHHHhCCC-------CCCceEEecccCC
Q 024350          192 EHVKKLVDVGGGLGATLNMIISKYP-HIKGINYDL-LYVIKNAPS-------YPGIDHVGGDLFE  247 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~~P-~l~~vv~Dl-p~vv~~a~~-------~~ri~~~~gD~~~  247 (269)
                      .+++++|+||.+.|.-+..+++..| +-+.+-+|. |+..+.|++       .++|+++.||..+
T Consensus        78 ~~ak~iLEiGT~~GySal~la~al~~~g~v~tiE~~~~~~~~Ar~~~~~ag~~~~I~~~~G~a~e  142 (247)
T PLN02589         78 INAKNTMEIGVYTGYSLLATALALPEDGKILAMDINRENYELGLPVIQKAGVAHKIDFREGPALP  142 (247)
T ss_pred             hCCCEEEEEeChhhHHHHHHHhhCCCCCEEEEEeCCHHHHHHHHHHHHHCCCCCceEEEeccHHH
Confidence            4678999999999999999999875 678888887 555555543       2899999998876

>PF04967 HTH_10: HTH DNA binding domain; InterPro: IPR007050 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif

Probab=94.28  E-value=0.076  Score=34.29  Aligned_cols=43  Identities=16%  Similarity=0.355  Sum_probs=33.7

Q ss_pred             HHHHHHHHHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHH
Q 024350           25 VLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRL   80 (269)
Q Consensus        25 ~~~~~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~   80 (269)
                      .+-.+|.+|+++|-||.=.      ..|..|||+.+|++      .. .+...||-
T Consensus         4 ~Q~e~L~~A~~~GYfd~PR------~~tl~elA~~lgis------~s-t~~~~LRr   46 (53)
T PF04967_consen    4 RQREILKAAYELGYFDVPR------RITLEELAEELGIS------KS-TVSEHLRR   46 (53)
T ss_pred             HHHHHHHHHHHcCCCCCCC------cCCHHHHHHHhCCC------HH-HHHHHHHH
Confidence            3567899999999999753      59999999999998      44 55555553

This entry represents the HTH DNA binding domain found in Halobacterium salinarium (Halobacterium halobium) and described as a putative bacterio-opsin activator.

>PRK03573 transcriptional regulator SlyA; Provisional

Probab=94.23  E-value=0.14  Score=40.04  Aligned_cols=63  Identities=13%  Similarity=0.124  Sum_probs=46.2

Q ss_pred             hhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCC---CeEecChhchhhhc
Q 024350           38 VFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQ---RLYSLAPVSKYFVR  109 (269)
Q Consensus        38 lfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~---~~y~~t~~s~~l~~  109 (269)
                      ++..|...+  ++.|..+||+.++++      .. .+.++++-|...|+|++.+...+   -.+.+|+.|+.+..
T Consensus        36 vL~~l~~~~--~~~t~~eLa~~l~~~------~~-tvt~~v~~Le~~GlV~r~~~~~DrR~~~l~LT~~G~~~~~  101 (144)
T PRK03573         36 TLHNIHQLP--PEQSQIQLAKAIGIE------QP-SLVRTLDQLEEKGLISRQTCASDRRAKRIKLTEKAEPLIS  101 (144)
T ss_pred             HHHHHHHcC--CCCCHHHHHHHhCCC------hh-hHHHHHHHHHHCCCEeeecCCCCcCeeeeEEChHHHHHHH
Confidence            456665543  368999999999998      56 89999999999999996421112   24678888775543

>PRK10870 transcriptional repressor MprA; Provisional

Probab=94.22  E-value=0.59  Score=38.06  Aligned_cols=66  Identities=12%  Similarity=0.083  Sum_probs=47.6

Q ss_pred             ChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCC---CeEecChhchhhhcC
Q 024350           37 DVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQ---RLYSLAPVSKYFVRN  110 (269)
Q Consensus        37 glfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~---~~y~~t~~s~~l~~~  110 (269)
                      .++-.|...+ ++++|..+||+.++++      .. .+.+++.-|...|+|.+.+..++   -...+|+.|+.+...
T Consensus        59 ~iL~~L~~~~-~~~it~~eLa~~l~l~------~~-tvsr~v~rLe~kGlV~R~~~~~DrR~~~v~LT~~G~~~~~~  127 (176)
T PRK10870         59 MALITLESQE-NHSIQPSELSCALGSS------RT-NATRIADELEKRGWIERRESDNDRRCLHLQLTEKGHEFLRE  127 (176)
T ss_pred             HHHHHHhcCC-CCCcCHHHHHHHHCCC------HH-HHHHHHHHHHHCCCEEecCCCCCCCeeEEEECHHHHHHHHH
Confidence            3555554321 1579999999999998      56 89999999999999996422222   246788888766544

>TIGR01889 Staph_reg_Sar staphylococcal accessory regulator family

Probab=94.13  E-value=0.13  Score=38.35  Aligned_cols=67  Identities=18%  Similarity=0.262  Sum_probs=47.3

Q ss_pred             HhcChhHHHH--hcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCC---eEecChhchhhh
Q 024350           34 VELDVFEIIT--KAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQR---LYSLAPVSKYFV  108 (269)
Q Consensus        34 ~~lglfd~L~--~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~---~y~~t~~s~~l~  108 (269)
                      .++.++..|.  ... ++++|..+||+.++++      .. .+.++++.|...|+|.+.+-..+.   .+.+|+.|..+.
T Consensus        26 ~q~~vL~~l~~~~~~-~~~~t~~eL~~~l~~~------~s-tvs~~i~~Le~kg~I~r~~~~~D~R~~~i~lT~~G~~~~   97 (109)
T TIGR01889        26 EELLILYYLGKLENN-EGKLTLKEIIKEILIK------QS-ALVKIIKKLSKKGYLSKERSEDDERKVIISINKEQRSKI   97 (109)
T ss_pred             HHHHHHHHHHhhhcc-CCcCcHHHHHHHHCCC------HH-HHHHHHHHHHHCCCEeccCCcccCCeEEEEECHHHHHHH
Confidence            3445566665  211 1589999999999998      56 999999999999999954222222   266777776544

This model represents a family of transcriptional regulatory proteins in Staphylococcus aureus and Staphylococcus epidermidis. Some members contain two tandem copies of this region. This family is related to the MarR transcriptional regulator family described by pfam model pfam01047.

>COG4976 Predicted methyltransferase (contains TPR repeat) [General function prediction only]

Probab=94.01  E-value=0.054  Score=45.78  Aligned_cols=66  Identities=12%  Similarity=0.258  Sum_probs=44.9

Q ss_pred             HHHHHHHHHhhchhhHHHH----HHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC
Q 024350          166 NDVFSNGMLSHTSIVMEKV----LESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS  234 (269)
Q Consensus       166 ~~~f~~~m~~~~~~~~~~~----~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~  234 (269)
                      .++|.+.....-.+..|..    +...+ ...+++++|+|||+|..+.+|...--.+  +++|+ ..+++.+.+
T Consensus        95 Ae~Fd~~LVdkL~Y~vP~~l~emI~~~~-~g~F~~~lDLGCGTGL~G~~lR~~a~~l--tGvDiS~nMl~kA~e  165 (287)
T COG4976          95 AERFDHILVDKLGYSVPELLAEMIGKAD-LGPFRRMLDLGCGTGLTGEALRDMADRL--TGVDISENMLAKAHE  165 (287)
T ss_pred             HHHHHHHHHHHhcCccHHHHHHHHHhcc-CCccceeeecccCcCcccHhHHHHHhhc--cCCchhHHHHHHHHh
Confidence            4667777665444444433    33344 3348999999999999998888766555  77887 466666654

>PF04672 Methyltransf_19: S-adenosyl methyltransferase; InterPro: IPR006764 This is a family of uncharacterised proteins

Probab=93.90  E-value=0.19  Score=43.62  Aligned_cols=76  Identities=18%  Similarity=0.322  Sum_probs=44.1

Q ss_pred             CccEEEEeCCCchH--HHHHH-HHHCCCCeEEEeeh-hHHHHhCCC----CCC--ceEEecccCCc-----CCC--C--c
Q 024350          193 HVKKLVDVGGGLGA--TLNMI-ISKYPHIKGINYDL-LYVIKNAPS----YPG--IDHVGGDLFES-----VPK--A--D  253 (269)
Q Consensus       193 ~~~~vvDvGGG~G~--~~~~l-~~~~P~l~~vv~Dl-p~vv~~a~~----~~r--i~~~~gD~~~~-----~P~--g--D  253 (269)
                      +...+||||||.-+  ..-++ .+..|+.+++=+|. |-|++.++.    .++  ..++.+|+.++     -|+  +  |
T Consensus        68 GIrQFLDlGsGlPT~~nvHevAq~~~P~aRVVYVD~DPvv~ah~ralL~~~~~g~t~~v~aD~r~p~~iL~~p~~~~~lD  147 (267)
T PF04672_consen   68 GIRQFLDLGSGLPTAGNVHEVAQRVAPDARVVYVDNDPVVLAHARALLADNPRGRTAYVQADLRDPEAILAHPEVRGLLD  147 (267)
T ss_dssp             ---EEEEET--S--SS-HHHHHHHH-TT-EEEEEESSHHHHHCCHHHHTT-TTSEEEEEE--TT-HHHHHCSHHHHCC--
T ss_pred             CcceEEEcccCCCCCCCHhHHHHhhCCCceEEEECCCchHHHHHHhhhcCCCCccEEEEeCCCCCHHHHhcCHHHHhcCC
Confidence            78999999999764  33333 45689999999997 666666654    345  89999999984     232  2  3


Q ss_pred             -----EEEeccccccCCCCC
Q 024350          254 -----TIFMKVICVCYLNSL  268 (269)
Q Consensus       254 -----~~~l~~iLhd~~d~~  268 (269)
                           .++|..|||..+|++
T Consensus       148 ~~rPVavll~~vLh~v~D~~  167 (267)
T PF04672_consen  148 FDRPVAVLLVAVLHFVPDDD  167 (267)
T ss_dssp             TTS--EEEECT-GGGS-CGC
T ss_pred             CCCCeeeeeeeeeccCCCcc
Confidence                 799999999999954

; PDB: 3GIW_A 3GO4_A 2QE6_A.

>PF03141 Methyltransf_29: Putative S-adenosyl-L-methionine-dependent methyltransferase; InterPro: IPR004159 Members of this family of hypothetical plant proteins are putative methyltransferases

Probab=93.84  E-value=0.063  Score=50.27  Aligned_cols=75  Identities=16%  Similarity=0.164  Sum_probs=48.5

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEe-e-hhHHHHhCCCCCCceEEecccCC---cCCC-C-cEEEeccccccCC
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINY-D-LLYVIKNAPSYPGIDHVGGDLFE---SVPK-A-DTIFMKVICVCYL  265 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~-D-lp~vv~~a~~~~ri~~~~gD~~~---~~P~-g-D~~~l~~iLhd~~  265 (269)
                      ..+++||||||.|.++..+++++=..-.+.. | -+..++-|.+. .|-.+-+-+-+   |+|. . |++..++++..|.
T Consensus       117 ~iR~~LDvGcG~aSF~a~l~~r~V~t~s~a~~d~~~~qvqfaleR-Gvpa~~~~~~s~rLPfp~~~fDmvHcsrc~i~W~  195 (506)
T PF03141_consen  117 GIRTALDVGCGVASFGAYLLERNVTTMSFAPNDEHEAQVQFALER-GVPAMIGVLGSQRLPFPSNAFDMVHCSRCLIPWH  195 (506)
T ss_pred             ceEEEEeccceeehhHHHHhhCCceEEEcccccCCchhhhhhhhc-CcchhhhhhccccccCCccchhhhhcccccccch
Confidence            5789999999999999999998543222222 2 23344433322 13333333322   6775 4 9999999999998


Q ss_pred             CCC
Q 024350          266 NSL  268 (269)
Q Consensus       266 d~~  268 (269)
                      ..+
T Consensus       196 ~~~  198 (506)
T PF03141_consen  196 PND  198 (506)
T ss_pred             hcc
Confidence            764

; GO: 0008168 methyltransferase activity

>COG4122 Predicted O-methyltransferase [General function prediction only]

Probab=93.82  E-value=0.069  Score=45.07  Aligned_cols=68  Identities=15%  Similarity=0.228  Sum_probs=53.7

Q ss_pred             CCCccEEEEeCCCchHHHHHHHHHCC-CCeEEEeeh-hHHHHhCCCC-------CCceEEe-cccCCc---CC-CC-cEE
Q 024350          191 FEHVKKLVDVGGGLGATLNMIISKYP-HIKGINYDL-LYVIKNAPSY-------PGIDHVG-GDLFES---VP-KA-DTI  255 (269)
Q Consensus       191 ~~~~~~vvDvGGG~G~~~~~l~~~~P-~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~-gD~~~~---~P-~g-D~~  255 (269)
                      .++.+++++||.+.|..++.++..-| +-+.|-+|+ |+-++.|+++       +||+.+. ||-.+-   .. .. |++
T Consensus        57 ~~~~k~iLEiGT~~GySal~mA~~l~~~g~l~tiE~~~e~~~~A~~n~~~ag~~~~i~~~~~gdal~~l~~~~~~~fDli  136 (219)
T COG4122          57 LSGPKRILEIGTAIGYSALWMALALPDDGRLTTIERDEERAEIARENLAEAGVDDRIELLLGGDALDVLSRLLDGSFDLV  136 (219)
T ss_pred             hcCCceEEEeecccCHHHHHHHhhCCCCCeEEEEeCCHHHHHHHHHHHHHcCCcceEEEEecCcHHHHHHhccCCCccEE
Confidence            45789999999999999999999999 778899997 6777777653       7788888 576652   22 23 888


Q ss_pred             Eec
Q 024350          256 FMK  258 (269)
Q Consensus       256 ~l~  258 (269)
                      |+-
T Consensus       137 FID  139 (219)
T COG4122         137 FID  139 (219)
T ss_pred             EEe
Confidence            873

>COG4742 Predicted transcriptional regulator [Transcription]

Probab=93.73  E-value=0.15  Score=43.98  Aligned_cols=68  Identities=13%  Similarity=0.214  Sum_probs=57.7

Q ss_pred             HHHHHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhchhhh
Q 024350           29 AMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSKYFV  108 (269)
Q Consensus        29 ~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s~~l~  108 (269)
                      .+....+.+|+=.|.+    ||.|.+||-..++++      .. .+..-++-|...|++.   +. ++.|++|+.|+.++
T Consensus         9 if~SekRk~lLllL~e----gPkti~EI~~~l~vs------~~-ai~pqiKkL~~~~LV~---~~-~~~Y~LS~~G~iiv   73 (260)
T COG4742           9 LFLSEKRKDLLLLLKE----GPKTIEEIKNELNVS------SS-AILPQIKKLKDKGLVV---QE-GDRYSLSSLGKIIV   73 (260)
T ss_pred             HHccHHHHHHHHHHHh----CCCCHHHHHHHhCCC------cH-HHHHHHHHHhhCCCEE---ec-CCEEEecchHHHHH
Confidence            3445667788888988    799999999999997      56 8889999999999999   43 79999999999877


Q ss_pred             cCC
Q 024350          109 RNN  111 (269)
Q Consensus       109 ~~~  111 (269)
                      ..-
T Consensus        74 ~km   76 (260)
T COG4742          74 EKM   76 (260)
T ss_pred             HHH
Confidence            553

>smart00420 HTH_DEOR helix_turn_helix, Deoxyribose operon repressor

Probab=93.69  E-value=0.2  Score=31.36  Aligned_cols=42  Identities=21%  Similarity=0.335  Sum_probs=35.9

Q ss_pred             hhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccc
Q 024350           38 VFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHC   89 (269)
Q Consensus        38 lfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~   89 (269)
                      +++.|...   ++.|..+|++.++++      .. .+.+.|..|...|++..
T Consensus         5 il~~l~~~---~~~s~~~l~~~l~~s------~~-tv~~~l~~L~~~g~i~~   46 (53)
T smart00420        5 ILELLAQQ---GKVSVEELAELLGVS------EM-TIRRDLNKLEEQGLLTR   46 (53)
T ss_pred             HHHHHHHc---CCcCHHHHHHHHCCC------HH-HHHHHHHHHHHCCCEEE
Confidence            55666664   479999999999998      67 89999999999999984

>TIGR00122 birA_repr_reg BirA biotin operon repressor domain

Probab=93.54  E-value=0.2  Score=33.91  Aligned_cols=54  Identities=11%  Similarity=0.241  Sum_probs=41.7

Q ss_pred             hcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecCh
Q 024350           35 ELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAP  102 (269)
Q Consensus        35 ~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~  102 (269)
                      ++.++..|.+    ++.|..+||+.+|++      .. .+.+-++.|...|+...  .. ...|.+.+
T Consensus         2 ~~~il~~L~~----~~~~~~eLa~~l~vS------~~-tv~~~l~~L~~~g~~i~--~~-~~g~~l~~   55 (69)
T TIGR00122         2 PLRLLALLAD----NPFSGEKLGEALGMS------RT-AVNKHIQTLREWGVDVL--TV-GKGYRLPP   55 (69)
T ss_pred             hHHHHHHHHc----CCcCHHHHHHHHCCC------HH-HHHHHHHHHHHCCCeEE--ec-CCceEecC
Confidence            3457778886    589999999999998      67 99999999999999653  22 34566543

This model may recognize some other putative repressor proteins, such as DnrO of Streptomyces peucetius with scores below the noise cutoff but with significance shown by low E-value.

>PRK11920 rirA iron-responsive transcriptional regulator; Reviewed

Probab=93.53  E-value=0.14  Score=40.78  Aligned_cols=46  Identities=15%  Similarity=0.104  Sum_probs=38.5

Q ss_pred             CCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecCh
Q 024350           49 AKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAP  102 (269)
Q Consensus        49 ~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~  102 (269)
                      ++.|.++||+..+++      +. .|.++|..|...|+|... +...|-|.++.
T Consensus        23 ~~~s~~eIA~~~~is------~~-~L~kIl~~L~~aGlv~S~-rG~~GGy~La~   68 (153)
T PRK11920         23 KLSRIPEIARAYGVS------EL-FLFKILQPLVEAGLVETV-RGRNGGVRLGR   68 (153)
T ss_pred             CcCcHHHHHHHHCcC------HH-HHHHHHHHHHHCCCEEee-cCCCCCeeecC
Confidence            578999999999997      67 999999999999999864 22347788854

>smart00529 HTH_DTXR Helix-turn-helix diphteria tox regulatory element

Probab=93.41  E-value=0.16  Score=36.67  Aligned_cols=46  Identities=15%  Similarity=0.229  Sum_probs=38.1

Q ss_pred             HHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhchhhh
Q 024350           53 VSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSKYFV  108 (269)
Q Consensus        53 ~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s~~l~  108 (269)
                      +.+||+.++++      .. .+.+.++.|...|++..   .....|.+|+.+..+.
T Consensus         2 ~~ela~~l~is------~s-tvs~~l~~L~~~glI~r---~~~~~~~lT~~g~~~~   47 (96)
T smart00529        2 TSEIAERLNVS------PP-TVTQMLKKLEKDGLVEY---EPYRGITLTEKGRRLA   47 (96)
T ss_pred             HHHHHHHhCCC------hH-HHHHHHHHHHHCCCEEE---cCCCceEechhHHHHH
Confidence            56899999997      56 99999999999999994   3345799998887554

iron dependent repressor

>PRK11014 transcriptional repressor NsrR; Provisional

Probab=93.41  E-value=0.14  Score=40.06  Aligned_cols=46  Identities=11%  Similarity=0.035  Sum_probs=37.6

Q ss_pred             CCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecCh
Q 024350           49 AKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAP  102 (269)
Q Consensus        49 ~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~  102 (269)
                      .+.|.++||+.+|++      .. .++++|+.|...|++...+. ..|.|.++.
T Consensus        24 ~~~s~~~ia~~~~is------~~-~vrk~l~~L~~~Glv~s~~G-~~GG~~l~~   69 (141)
T PRK11014         24 RMTSISEVTEVYGVS------RN-HMVKIINQLSRAGYVTAVRG-KNGGIRLGK   69 (141)
T ss_pred             CccCHHHHHHHHCcC------HH-HHHHHHHHHHhCCEEEEecC-CCCCeeecC
Confidence            578999999999997      67 99999999999999986422 246677753

>smart00344 HTH_ASNC helix_turn_helix ASNC type

Probab=93.25  E-value=0.16  Score=37.52  Aligned_cols=45  Identities=16%  Similarity=0.365  Sum_probs=40.2

Q ss_pred             HhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCccc
Q 024350           34 VELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALH   88 (269)
Q Consensus        34 ~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~   88 (269)
                      .+..|+..|...   +++|..+||+.+|++      +. .+.+.++.|...|++.
T Consensus         4 ~D~~il~~L~~~---~~~~~~~la~~l~~s------~~-tv~~~l~~L~~~g~i~   48 (108)
T smart00344        4 IDRKILEELQKD---ARISLAELAKKVGLS------PS-TVHNRVKRLEEEGVIK   48 (108)
T ss_pred             HHHHHHHHHHHh---CCCCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCee
Confidence            466788889886   589999999999998      67 9999999999999998

AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli

>COG3432 Predicted transcriptional regulator [Transcription]

Probab=93.23  E-value=0.12  Score=37.51  Aligned_cols=61  Identities=16%  Similarity=0.344  Sum_probs=46.6

Q ss_pred             hhHHHH-hcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCC---eEecChhchhhhcC
Q 024350           38 VFEIIT-KAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQR---LYSLAPVSKYFVRN  110 (269)
Q Consensus        38 lfd~L~-~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~---~y~~t~~s~~l~~~  110 (269)
                      +||+|. ..+  +++..--|.-.++++      -. ....+++.|+..|++..   ...+   .|.+|+.|..|...
T Consensus        20 i~dIL~~~~~--~~~~~Tri~y~aNln------y~-~~~~yi~~L~~~Gli~~---~~~~~~~~y~lT~KG~~fle~   84 (95)
T COG3432          20 IFDILKAISE--GGIGITRIIYGANLN------YK-RAQKYIEMLVEKGLIIK---QDNGRRKVYELTEKGKRFLEK   84 (95)
T ss_pred             HHHHHHHhcC--CCCCceeeeeecCcC------HH-HHHHHHHHHHhCCCEEe---ccCCccceEEEChhHHHHHHH
Confidence            467776 222  688888999999996      66 99999999999996663   2233   69999999876543

>COG0293 FtsJ 23S rRNA methylase [Translation, ribosomal structure and biogenesis]

Probab=93.04  E-value=0.3  Score=40.73  Aligned_cols=67  Identities=22%  Similarity=0.298  Sum_probs=49.7

Q ss_pred             hhhHHHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCC-CeEEEeehhHHHHhCCCCCCceEEecccCCc
Q 024350          178 SIVMEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPH-IKGINYDLLYVIKNAPSYPGIDHVGGDLFES  248 (269)
Q Consensus       178 ~~~~~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~-l~~vv~Dlp~vv~~a~~~~ri~~~~gD~~~~  248 (269)
                      ......+.+.|..+++..+|+|+|...|.++.-+.+.-.. -+.+.+|+-++-    ..+.|.++-+||+.+
T Consensus        30 a~KL~el~~k~~i~~~~~~ViDLGAAPGgWsQva~~~~~~~~~ivavDi~p~~----~~~~V~~iq~d~~~~   97 (205)
T COG0293          30 AYKLLELNEKFKLFKPGMVVVDLGAAPGGWSQVAAKKLGAGGKIVAVDILPMK----PIPGVIFLQGDITDE   97 (205)
T ss_pred             HHHHHHHHHhcCeecCCCEEEEcCCCCCcHHHHHHHHhCCCCcEEEEECcccc----cCCCceEEeeeccCc
Confidence            3334456666665677899999999999999988776654 568999975553    245588999999873

>PRK06266 transcription initiation factor E subunit alpha; Validated

Probab=93.04  E-value=0.33  Score=39.66  Aligned_cols=45  Identities=18%  Similarity=0.271  Sum_probs=39.5

Q ss_pred             cChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccce
Q 024350           36 LDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCS   90 (269)
Q Consensus        36 lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~   90 (269)
                      ..|+++|...   |++|.++||+.+|++      .. .++++|..|...|++...
T Consensus        25 ~~Vl~~L~~~---g~~tdeeLA~~Lgi~------~~-~VRk~L~~L~e~gLv~~~   69 (178)
T PRK06266         25 FEVLKALIKK---GEVTDEEIAEQTGIK------LN-TVRKILYKLYDARLADYK   69 (178)
T ss_pred             hHHHHHHHHc---CCcCHHHHHHHHCCC------HH-HHHHHHHHHHHCCCeEEe
Confidence            3488999886   589999999999997      56 999999999999999953

>PRK14165 winged helix-turn-helix domain-containing protein/riboflavin kinase; Provisional

Probab=93.04  E-value=0.22  Score=42.02  Aligned_cols=55  Identities=18%  Similarity=0.194  Sum_probs=44.2

Q ss_pred             CCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhchhhhcC
Q 024350           49 AKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSKYFVRN  110 (269)
Q Consensus        49 ~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s~~l~~~  110 (269)
                      ..+|..+||+.++++      .. .+.|.|+.|...|++++........+.+|+.|+.+...
T Consensus        20 ~~IS~~eLA~~L~iS------~~-Tvsr~Lk~LEe~GlI~R~~~~r~~~v~LTekG~~ll~~   74 (217)
T PRK14165         20 VKISSSEFANHTGTS------SK-TAARILKQLEDEGYITRTIVPRGQLITITEKGLDVLYN   74 (217)
T ss_pred             CCcCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCEEEEEcCCceEEEECHHHHHHHHH
Confidence            469999999999998      56 99999999999999985422235678899988865533

>PRK04338 N(2),N(2)-dimethylguanosine tRNA methyltransferase; Provisional

Probab=92.94  E-value=0.11  Score=47.74  Aligned_cols=63  Identities=11%  Similarity=-0.066  Sum_probs=48.1

Q ss_pred             cEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC------CCceEEecccCCcCC---CCcEEEe
Q 024350          195 KKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFESVP---KADTIFM  257 (269)
Q Consensus       195 ~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~~~P---~gD~~~l  257 (269)
                      .+|+|++||+|.++..++.+.+..+++..|+ |..++.++++      +.+++..+|..+-++   +-|++.+
T Consensus        59 ~~vLDl~aGsG~~~l~~a~~~~~~~V~a~Din~~Av~~a~~N~~~N~~~~~~v~~~Da~~~l~~~~~fD~V~l  131 (382)
T PRK04338         59 ESVLDALSASGIRGIRYALETGVEKVTLNDINPDAVELIKKNLELNGLENEKVFNKDANALLHEERKFDVVDI  131 (382)
T ss_pred             CEEEECCCcccHHHHHHHHHCCCCEEEEEeCCHHHHHHHHHHHHHhCCCceEEEhhhHHHHHhhcCCCCEEEE
Confidence            5899999999999999999888667899997 7777766542      556788888755222   2377765

>PF00325 Crp: Bacterial regulatory proteins, crp family; InterPro: IPR001808 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif

Probab=92.87  E-value=0.15  Score=29.23  Aligned_cols=31  Identities=16%  Similarity=0.299  Sum_probs=25.3

Q ss_pred             CCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcc
Q 024350           50 KLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNAL   87 (269)
Q Consensus        50 ~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l   87 (269)
                      ++|-+|||+.+|+.      .+ .+.|+|.-|...|++
T Consensus         2 ~mtr~diA~~lG~t------~E-TVSR~l~~l~~~glI   32 (32)
T PF00325_consen    2 PMTRQDIADYLGLT------RE-TVSRILKKLERQGLI   32 (32)
T ss_dssp             E--HHHHHHHHTS-------HH-HHHHHHHHHHHTTSE
T ss_pred             CcCHHHHHHHhCCc------HH-HHHHHHHHHHHcCCC
Confidence            57899999999997      67 999999999998874

These proteins are very diverse, but for convenience may be grouped into subfamilies on the basis of sequence similarity. This family groups together a range of proteins, including anr, crp, clp, cysR, fixK, flp, fnr, fnrN, hlyX and ntcA [, ]. Within this family, the HTH motif is situated towards the C terminus.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 2OZ6_A 1CGP_B 2GZW_C 1O3T_B 3ROU_A 2CGP_A 3RDI_A 1I5Z_A 3IYD_H 3FWE_B ....

>COG2519 GCD14 tRNA(1-methyladenosine) methyltransferase and related methyltransferases [Translation, ribosomal structure and biogenesis]

Probab=92.85  E-value=0.46  Score=40.79  Aligned_cols=84  Identities=19%  Similarity=0.236  Sum_probs=61.1

Q ss_pred             HHhhchh----hHHHHHHhccCCCCccEEEEeCCCchHHHHHHHH-HCCCCeEEEeeh-hHHHHhCCCC-------CCce
Q 024350          173 MLSHTSI----VMEKVLESYKGFEHVKKLVDVGGGLGATLNMIIS-KYPHIKGINYDL-LYVIKNAPSY-------PGID  239 (269)
Q Consensus       173 m~~~~~~----~~~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~-~~P~l~~vv~Dl-p~vv~~a~~~-------~ri~  239 (269)
                      |...++.    .+..|+.... .....+|+|.|-|+|.++..|+. -.|.=+.+.+|. +.-.+.|+++       ++|+
T Consensus        71 ~~R~tQiIyPKD~~~I~~~~g-i~pg~rVlEAGtGSG~lt~~La~~vg~~G~v~tyE~r~d~~k~A~~Nl~~~~l~d~v~  149 (256)
T COG2519          71 MKRRTQIIYPKDAGYIVARLG-ISPGSRVLEAGTGSGALTAYLARAVGPEGHVTTYEIREDFAKTARENLSEFGLGDRVT  149 (256)
T ss_pred             CcCCCceecCCCHHHHHHHcC-CCCCCEEEEcccCchHHHHHHHHhhCCCceEEEEEecHHHHHHHHHHHHHhccccceE
Confidence            5555542    2334555555 66778999999999999999997 567788899985 6666666542       7799


Q ss_pred             EEecccCCc-CCCC-cEEEe
Q 024350          240 HVGGDLFES-VPKA-DTIFM  257 (269)
Q Consensus       240 ~~~gD~~~~-~P~g-D~~~l  257 (269)
                      +..+|..+. .++- |+++|
T Consensus       150 ~~~~Dv~~~~~~~~vDav~L  169 (256)
T COG2519         150 LKLGDVREGIDEEDVDAVFL  169 (256)
T ss_pred             EEeccccccccccccCEEEE
Confidence            999999883 4444 87776

>PF07091 FmrO: Ribosomal RNA methyltransferase (FmrO); PDB: 3LCU_A 3LCV_B 3FRH_A 3FRI_A 3B89_A 3FZG_A

Probab=92.79  E-value=0.097  Score=44.86  Aligned_cols=72  Identities=22%  Similarity=0.261  Sum_probs=52.2

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeehh-HHHHhCCC-----CCCceEEecccCCcCCC--CcEEEeccccccC
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDLL-YVIKNAPS-----YPGIDHVGGDLFESVPK--ADTIFMKVICVCY  264 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp-~vv~~a~~-----~~ri~~~~gD~~~~~P~--gD~~~l~~iLhd~  264 (269)
                      .+.+|+|||||--=++.-.....|+.+.+..|+. ..++....     ..+.+....|.....|+  .|+.++-.++|..
T Consensus       105 ~p~sVlDigCGlNPlalp~~~~~~~a~Y~a~DID~~~ve~l~~~l~~l~~~~~~~v~Dl~~~~~~~~~DlaLllK~lp~l  184 (251)
T PF07091_consen  105 PPDSVLDIGCGLNPLALPWMPEAPGATYIAYDIDSQLVEFLNAFLAVLGVPHDARVRDLLSDPPKEPADLALLLKTLPCL  184 (251)
T ss_dssp             --SEEEEET-TTCHHHHHTTTSSTT-EEEEEESBHHHHHHHHHHHHHTT-CEEEEEE-TTTSHTTSEESEEEEET-HHHH
T ss_pred             CCchhhhhhccCCceehhhcccCCCcEEEEEeCCHHHHHHHHHHHHhhCCCcceeEeeeeccCCCCCcchhhHHHHHHHH
Confidence            4789999999999999998999999999999984 44444332     26778888899998775  3999998888753

>COG1321 TroR Mn-dependent transcriptional regulator [Transcription]

Probab=92.63  E-value=0.33  Score=38.71  Aligned_cols=52  Identities=8%  Similarity=0.090  Sum_probs=44.2

Q ss_pred             CCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhchhhhcC
Q 024350           49 AKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSKYFVRN  110 (269)
Q Consensus        49 ~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s~~l~~~  110 (269)
                      +++...+||+.++++      +. .+...++-|...|++++.   .-+.+.+|+.|......
T Consensus        23 ~~~~~~diA~~L~Vs------p~-sVt~ml~rL~~~GlV~~~---~y~gi~LT~~G~~~a~~   74 (154)
T COG1321          23 GFARTKDIAERLKVS------PP-SVTEMLKRLERLGLVEYE---PYGGVTLTEKGREKAKE   74 (154)
T ss_pred             CcccHHHHHHHhCCC------cH-HHHHHHHHHHHCCCeEEe---cCCCeEEChhhHHHHHH
Confidence            699999999999998      56 889999999999999963   35779999988755544

>smart00345 HTH_GNTR helix_turn_helix gluconate operon transcriptional repressor

Probab=92.63  E-value=0.39  Score=30.92  Aligned_cols=34  Identities=24%  Similarity=0.249  Sum_probs=30.5

Q ss_pred             CCC-CHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccc
Q 024350           49 AKL-SVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHC   89 (269)
Q Consensus        49 ~~~-s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~   89 (269)
                      ..+ |..+||+.+|++      .. .+++.|+.|...|++..
T Consensus        18 ~~l~s~~~la~~~~vs------~~-tv~~~l~~L~~~g~i~~   52 (60)
T smart00345       18 DKLPSERELAAQLGVS------RT-TVREALSRLEAEGLVQR   52 (60)
T ss_pred             CcCcCHHHHHHHHCCC------HH-HHHHHHHHHHHCCCEEE
Confidence            356 899999999998      67 99999999999999984

>PF10007 DUF2250: Uncharacterized protein conserved in archaea (DUF2250); InterPro: IPR019254 Members of this family of hypothetical archaeal proteins have no known function

Probab=92.47  E-value=0.39  Score=34.72  Aligned_cols=46  Identities=15%  Similarity=0.223  Sum_probs=39.7

Q ss_pred             HhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccc
Q 024350           34 VELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHC   89 (269)
Q Consensus        34 ~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~   89 (269)
                      ..+.|...|...   +|-.+.-||..++++      .. -+...++-|..+|++++
T Consensus         8 l~~~IL~hl~~~---~~Dy~k~ia~~l~~~------~~-~v~~~l~~Le~~GLler   53 (92)
T PF10007_consen    8 LDLKILQHLKKA---GPDYAKSIARRLKIP------LE-EVREALEKLEEMGLLER   53 (92)
T ss_pred             hHHHHHHHHHHH---CCCcHHHHHHHHCCC------HH-HHHHHHHHHHHCCCeEE
Confidence            345678888887   488999999999997      67 89999999999999994

>cd07153 Fur_like Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators

Probab=92.39  E-value=0.37  Score=36.06  Aligned_cols=47  Identities=21%  Similarity=0.350  Sum_probs=38.3

Q ss_pred             hcChhHHHHhcCCCCCCCHHHHHHhCC-----CCCCCchhHHHHHHHHHHHHHhcCcccce
Q 024350           35 ELDVFEIITKAGPGAKLSVSEIVAQIP-----LKDNNPEAAAMMLDRVLRLLVSYNALHCS   90 (269)
Q Consensus        35 ~lglfd~L~~~g~~~~~s~~eLA~~~~-----~~~~~~~~~~~~l~rlL~~L~~~g~l~~~   90 (269)
                      +.-|++.|...+  ++.|++||.+.+.     ++      .. .+.|.|+.|+..|++.+.
T Consensus         3 R~~Il~~l~~~~--~~~sa~ei~~~l~~~~~~i~------~~-TVYR~L~~L~~~Gli~~~   54 (116)
T cd07153           3 RLAILEVLLESD--GHLTAEEIYERLRKKGPSIS------LA-TVYRTLELLEEAGLVREI   54 (116)
T ss_pred             HHHHHHHHHhCC--CCCCHHHHHHHHHhcCCCCC------HH-HHHHHHHHHHhCCCEEEE
Confidence            345788887754  6899999999984     43      45 899999999999999954

Ferric uptake regulator (Fur) and related metalloregulatory proteins are iron-dependent, DNA-binding repressors and activators mainly involved in iron metabolism. A general model for Fur repression under iron-rich conditions is that activated Fur (a dimer having one Fe2+ coordinated per monomer) binds to specific DNA sequences (Fur boxes) in the promoter region of iron-responsive genes, hindering access of RNA polymerase, and repressing transcription. Positive regulation by Fur can be direct or indirect, as in the Fur repression of an anti-sense regulatory small RNA. Some members sense metal ions other than Fe2+. For example, the zinc uptake regulator (Zur) responds to Zn2+, the manganese uptake regulator (Mur) responds to Mn2+, and the nickel uptake regulator (Nur) responds to Ni2+. Other members sense signals other than metal ions.

>COG4189 Predicted transcriptional regulator [Transcription]

Probab=92.39  E-value=0.27  Score=41.52  Aligned_cols=54  Identities=15%  Similarity=0.338  Sum_probs=48.3

Q ss_pred             HHHHHHHHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccc
Q 024350           26 LPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHC   89 (269)
Q Consensus        26 ~~~~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~   89 (269)
                      ...+|...++..|++.|...   +|+.+.|||+++|++      .. .+..-+..|...|++.-
T Consensus        16 v~kalaS~vRv~Il~lL~~k---~plNvneiAe~lgLp------qs-t~s~~ik~Le~aGlirT   69 (308)
T COG4189          16 VLKALASKVRVAILQLLHRK---GPLNVNEIAEALGLP------QS-TMSANIKVLEKAGLIRT   69 (308)
T ss_pred             HHHHHHHHHHHHHHHHHHHh---CCCCHHHHHHHhCCc------hh-hhhhhHHHHHhcCceee
Confidence            45788899999999999997   599999999999997      56 88999999999999973

>PRK15431 ferrous iron transport protein FeoC; Provisional

Probab=92.26  E-value=0.42  Score=33.32  Aligned_cols=43  Identities=14%  Similarity=0.230  Sum_probs=37.8

Q ss_pred             hhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccce
Q 024350           38 VFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCS   90 (269)
Q Consensus        38 lfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~   90 (269)
                      |=|+|...   |..++.+||..++.+      ++ .+..+|..|+.+|-+++.
T Consensus         7 lRd~l~~~---gr~s~~~Ls~~~~~p------~~-~VeaMLe~l~~kGkverv   49 (78)
T PRK15431          7 VRDLLALR---GRMEAAQISQTLNTP------QP-MINAMLQQLESMGKAVRI   49 (78)
T ss_pred             HHHHHHHc---CcccHHHHHHHHCcC------HH-HHHHHHHHHHHCCCeEee
Confidence            34778886   599999999999998      77 999999999999999953

>KOG3045 consensus Predicted RNA methylase involved in rRNA processing [RNA processing and modification]

Probab=92.16  E-value=0.49  Score=40.84  Aligned_cols=91  Identities=16%  Similarity=0.241  Sum_probs=52.9

Q ss_pred             hhccccCcchHHHHHHHHHh----hchhhHHHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeehhHHHHh
Q 024350          156 YDYLGVDSSFNDVFSNGMLS----HTSIVMEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKN  231 (269)
Q Consensus       156 ~~~~~~~p~~~~~f~~~m~~----~~~~~~~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp~vv~~  231 (269)
                      +..+.+||...+.++.+...    +-......+++.+..-++...|.|+|||.+.++.    . --.++.-+||-.+   
T Consensus       139 ~~lfkedp~afdlYH~gfr~QV~kWP~nPld~ii~~ik~r~~~~vIaD~GCGEakiA~----~-~~~kV~SfDL~a~---  210 (325)
T KOG3045|consen  139 FDLFKEDPTAFDLYHAGFRSQVKKWPENPLDVIIRKIKRRPKNIVIADFGCGEAKIAS----S-ERHKVHSFDLVAV---  210 (325)
T ss_pred             HHHHhcCcHHHHHHHHHHHHHHHhCCCChHHHHHHHHHhCcCceEEEecccchhhhhh----c-cccceeeeeeecC---
Confidence            44455677655544444333    3333445555554423467899999999999886    1 1223567776443   


Q ss_pred             CCCCCCceEEecccCC-cCCC-C-cEEEecc
Q 024350          232 APSYPGIDHVGGDLFE-SVPK-A-DTIFMKV  259 (269)
Q Consensus       232 a~~~~ri~~~~gD~~~-~~P~-g-D~~~l~~  259 (269)
                         ++|  +++.|+-. |++. . |+.++.-
T Consensus       211 ---~~~--V~~cDm~~vPl~d~svDvaV~CL  236 (325)
T KOG3045|consen  211 ---NER--VIACDMRNVPLEDESVDVAVFCL  236 (325)
T ss_pred             ---CCc--eeeccccCCcCccCcccEEEeeH
Confidence               233  46788887 6663 3 7766543

>COG0275 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]

Probab=92.11  E-value=0.35  Score=42.60  Aligned_cols=65  Identities=22%  Similarity=0.187  Sum_probs=54.1

Q ss_pred             HHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCe-EEEeeh-hHHHHhCCCC-----CCceEEecccCC
Q 024350          182 EKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIK-GINYDL-LYVIKNAPSY-----PGIDHVGGDLFE  247 (269)
Q Consensus       182 ~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~-~vv~Dl-p~vv~~a~~~-----~ri~~~~gD~~~  247 (269)
                      ..+++.+. .......||.-=|.|.++.++++++|... .+.+|. |.+++.+++.     +|++++.++|-+
T Consensus        13 ~E~i~~L~-~~~~giyiD~TlG~GGHS~~iL~~l~~~~~li~~DrD~~Ai~~a~~~l~~~~~r~~~v~~~F~~   84 (314)
T COG0275          13 NEVVELLA-PKPDGIYIDGTLGAGGHSRAILEKLPDLGRLIGIDRDPQAIAIAKERLKEFDGRVTLVHGNFAN   84 (314)
T ss_pred             HHHHHhcc-cCCCcEEEEecCCCcHhHHHHHHhCCCCCeEEEEcCCHHHHHHHHHHhhccCCcEEEEeCcHHH
Confidence            45566665 45568999999999999999999999886 899997 8888888762     799999998865

>PRK11783 rlmL 23S rRNA m(2)G2445 methyltransferase; Provisional

Probab=91.96  E-value=0.45  Score=47.33  Aligned_cols=76  Identities=20%  Similarity=0.121  Sum_probs=52.8

Q ss_pred             HHHHHHhccCC-CCccEEEEeCCCchHHHHHHHHH----CC--------------------------------------C
Q 024350          181 MEKVLESYKGF-EHVKKLVDVGGGLGATLNMIISK----YP--------------------------------------H  217 (269)
Q Consensus       181 ~~~~~~~~~~~-~~~~~vvDvGGG~G~~~~~l~~~----~P--------------------------------------~  217 (269)
                      +..++..-. | ++...++|-.||+|+++++.+..    .|                                      .
T Consensus       178 Aaa~l~~a~-w~~~~~~l~DP~CGSGTilIEAa~~~~~~~pg~~r~~f~f~~~~~~~~~~w~~~~~~a~~~~~~~~~~~~  256 (702)
T PRK11783        178 AAAILLRSG-WPQEGTPLLDPMCGSGTLLIEAAMMAADIAPGLHRERWGFSGWLGHDEALWQELLEEAQERARAGLAELP  256 (702)
T ss_pred             HHHHHHHcC-CCCCCCeEEccCCCccHHHHHHHHHHhcCCCCccccccccccCCCCCHHHHHHHHHHHHHHHhhcccccC
Confidence            344554444 7 44579999999999999987652    11                                      2


Q ss_pred             CeEEEeeh-hHHHHhCCCC-------CCceEEecccCC-cCC-C--C-cEEEe
Q 024350          218 IKGINYDL-LYVIKNAPSY-------PGIDHVGGDLFE-SVP-K--A-DTIFM  257 (269)
Q Consensus       218 l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~-~~P-~--g-D~~~l  257 (269)
                      .+.+++|+ |.+++.++.+       ++|++..+|+++ +.| .  . |+++.
T Consensus       257 ~~i~G~Did~~av~~A~~N~~~~g~~~~i~~~~~D~~~~~~~~~~~~~d~Ivt  309 (702)
T PRK11783        257 SKFYGSDIDPRVIQAARKNARRAGVAELITFEVKDVADLKNPLPKGPTGLVIS  309 (702)
T ss_pred             ceEEEEECCHHHHHHHHHHHHHcCCCcceEEEeCChhhcccccccCCCCEEEE
Confidence            35789997 7888777653       679999999987 433 1  2 66543

>PF03291 Pox_MCEL: mRNA capping enzyme; InterPro: IPR004971 This is a family of viral mRNA capping enzymes

Probab=91.91  E-value=0.37  Score=43.38  Aligned_cols=94  Identities=17%  Similarity=0.126  Sum_probs=56.6

Q ss_pred             HHHHHHHHHhhchhhHHHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC---------
Q 024350          166 NDVFSNGMLSHTSIVMEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY---------  235 (269)
Q Consensus       166 ~~~f~~~m~~~~~~~~~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~---------  235 (269)
                      .+.|+.++.+.--   ...+.....-....+|||+|||.|..+.-...+.+. +.+++|+ +..|+.|+..         
T Consensus        38 lR~fNNwvKs~LI---~~~~~~~~~~~~~~~VLDl~CGkGGDL~Kw~~~~i~-~~vg~Dis~~si~ea~~Ry~~~~~~~~  113 (331)
T PF03291_consen   38 LRNFNNWVKSVLI---QKYAKKVKQNRPGLTVLDLCCGKGGDLQKWQKAKIK-HYVGIDISEESIEEARERYKQLKKRNN  113 (331)
T ss_dssp             HHHHHHHHHHHHH---HHHCHCCCCTTTT-EEEEET-TTTTTHHHHHHTT-S-EEEEEES-HHHHHHHHHHHHHHHTSTT
T ss_pred             HHHHhHHHHHHHH---HHHHHhhhccCCCCeEEEecCCCchhHHHHHhcCCC-EEEEEeCCHHHHHHHHHHHHHhccccc
Confidence            5788888766332   112221110114689999999999988887776332 3688997 4556555431         


Q ss_pred             -------CCceEEecccCCc-----CC-C--C-cEEEecccccc
Q 024350          236 -------PGIDHVGGDLFES-----VP-K--A-DTIFMKVICVC  263 (269)
Q Consensus       236 -------~ri~~~~gD~~~~-----~P-~--g-D~~~l~~iLhd  263 (269)
                             -...++.+|.|..     ++ .  . |++-+--.||+
T Consensus       114 ~~~~~~~f~a~f~~~D~f~~~l~~~~~~~~~~FDvVScQFalHY  157 (331)
T PF03291_consen  114 SKQYRFDFIAEFIAADCFSESLREKLPPRSRKFDVVSCQFALHY  157 (331)
T ss_dssp             -HTSEECCEEEEEESTTCCSHHHCTSSSTTS-EEEEEEES-GGG
T ss_pred             cccccccchhheeccccccchhhhhccccCCCcceeehHHHHHH
Confidence                   1356688888852     23 3  3 99999999997

The enzyme catalyses the first two reactions in the mRNA cap formation pathway. It is a heterodimer consisting of a large and small subunit. This entry is the large subunit. ; GO: 0006370 mRNA capping; PDB: 3EPP_A 3BGV_C 2VDW_C 1RI5_A 1RI3_A 1RI1_A 1Z3C_A 1RI2_A 2HV9_A 1RI4_A.

>PHA02943 hypothetical protein; Provisional

Probab=91.77  E-value=0.5  Score=37.22  Aligned_cols=43  Identities=12%  Similarity=0.136  Sum_probs=36.4

Q ss_pred             ChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccce
Q 024350           37 DVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCS   90 (269)
Q Consensus        37 glfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~   90 (269)
                      .|.+.| +.   |+.|..|||+++|++      -. .++-+|..|...|.+.+.
T Consensus        15 eILE~L-k~---G~~TtseIAkaLGlS------~~-qa~~~LyvLErEG~VkrV   57 (165)
T PHA02943         15 KTLRLL-AD---GCKTTSRIANKLGVS------HS-MARNALYQLAKEGMVLKV   57 (165)
T ss_pred             HHHHHH-hc---CCccHHHHHHHHCCC------HH-HHHHHHHHHHHcCceEEE
Confidence            466777 32   689999999999998      66 889999999999999953

>COG2384 Predicted SAM-dependent methyltransferase [General function prediction only]

Probab=91.73  E-value=0.52  Score=39.66  Aligned_cols=64  Identities=16%  Similarity=0.227  Sum_probs=49.3

Q ss_pred             cEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHH----HhCCC---CCCceEEecccCCcCC-C-C-cEEEec
Q 024350          195 KKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVI----KNAPS---YPGIDHVGGDLFESVP-K-A-DTIFMK  258 (269)
Q Consensus       195 ~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv----~~a~~---~~ri~~~~gD~~~~~P-~-g-D~~~l~  258 (269)
                      ..+.||||-|+.+.+.+++.+|..++|.-|. |...    ...++   .+||++..+|-+.++- . . |++.+.
T Consensus        18 ~~iaDIGsDHAYLp~~Lv~~~~~~~~va~eV~~gpl~~a~~~v~~~~l~~~i~vr~~dgl~~l~~~d~~d~ivIA   92 (226)
T COG2384          18 ARIADIGSDHAYLPIYLVKNNPASTAVAGEVVPGPLESAIRNVKKNNLSERIDVRLGDGLAVLELEDEIDVIVIA   92 (226)
T ss_pred             CceeeccCchhHhHHHHHhcCCcceEEEeecccCHHHHHHHHHHhcCCcceEEEeccCCccccCccCCcCEEEEe
Confidence            4499999999999999999999999999996 3333    33333   2899999999988543 3 3 766553

>PF08279 HTH_11: HTH domain; InterPro: IPR013196 Winged helix DNA-binding proteins share a related winged helix-turn-helix DNA-binding motif, where the "wings", or loops, are small beta-sheets

Probab=91.56  E-value=0.49  Score=30.29  Aligned_cols=40  Identities=8%  Similarity=0.333  Sum_probs=32.7

Q ss_pred             ChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcC
Q 024350           37 DVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYN   85 (269)
Q Consensus        37 glfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g   85 (269)
                      .|+..|....  +++|.++||+.++++      .. .+.+-+..|...|
T Consensus         4 ~il~~L~~~~--~~it~~eLa~~l~vS------~r-Ti~~~i~~L~~~~   43 (55)
T PF08279_consen    4 QILKLLLESK--EPITAKELAEELGVS------RR-TIRRDIKELREWG   43 (55)
T ss_dssp             HHHHHHHHTT--TSBEHHHHHHHCTS-------HH-HHHHHHHHHHHTT
T ss_pred             HHHHHHHHcC--CCcCHHHHHHHhCCC------HH-HHHHHHHHHHHCC
Confidence            4566774443  579999999999998      67 9999999999999

The winged helix motif consists of two wings (W1, W2), three alpha helices (H1, H2, H3) and three beta-sheets (S1, S2, S3) arranged in the order H1-S1-H2-H3-S2-W1-S3-W2 []. The DNA-recognition helix makes sequence-specific DNA contacts with the major groove of DNA, while the wings make different DNA contacts, often with the minor groove or the backbone of DNA. Several winged-helix proteins display an exposed patch of hydrophobic residues thought to mediate protein-protein interactions. This entry represents a subset of the winged helix domain superfamily which is predominantly found in bacterial proteins, though there are also some archaeal and eukaryotic examples. This domain is commonly found in the biotin (vitamin H) repressor protein BirA which regulates transcription of the biotin operon []. It is also found in other proteins including regulators of amino acid biosynthsis such as LysM [], and regulators of carbohydrate metabolisms such as LicR and FrvR [, ].; PDB: 1HXD_B 2EWN_B 1BIA_A 1BIB_A 1J5Y_A 3V7S_A 3V7C_A 3RKW_A 3RIR_A 3RKX_A ....

>PF02475 Met_10: Met-10+ like-protein; InterPro: IPR003402 This entry represents the Trm5 family

Probab=91.55  E-value=0.24  Score=41.31  Aligned_cols=68  Identities=19%  Similarity=0.207  Sum_probs=47.1

Q ss_pred             CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC-------CCCceEEecccCCcCCC--CcEEEecc
Q 024350          192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS-------YPGIDHVGGDLFESVPK--ADTIFMKV  259 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~-------~~ri~~~~gD~~~~~P~--gD~~~l~~  259 (269)
                      .+..+|+|.-||.|.++..+++..+..+++..|+ |..++-.++       ..+|+.+.+|..+-.+.  .|-++|..
T Consensus       100 ~~~e~VlD~faGIG~f~l~~ak~~~~~~V~A~d~Np~a~~~L~~Ni~lNkv~~~i~~~~~D~~~~~~~~~~drvim~l  177 (200)
T PF02475_consen  100 KPGEVVLDMFAGIGPFSLPIAKHGKAKRVYAVDLNPDAVEYLKENIRLNKVENRIEVINGDAREFLPEGKFDRVIMNL  177 (200)
T ss_dssp             -TT-EEEETT-TTTTTHHHHHHHT-SSEEEEEES-HHHHHHHHHHHHHTT-TTTEEEEES-GGG---TT-EEEEEE--
T ss_pred             CcceEEEEccCCccHHHHHHhhhcCccEEEEecCCHHHHHHHHHHHHHcCCCCeEEEEcCCHHHhcCccccCEEEECC
Confidence            3568999999999999999999888888999998 677664433       37899999998874443  38666643

Trm5 specifically methylates the N1 position of guanosine-37 in various tRNAs [, , ]. Another members of this family, tRNA wybutosine-synthesizing protein 2 (Tyw2) and its homologues, are S-adenosyl-L-methionine-dependent transferases that act as a component of the wybutosine biosynthesis pathway [, ]. tRNA wybutosine-synthesizing protein 2 was originally thought to be a methyltransferase [].; GO: 0016740 transferase activity; PDB: 3A27_A 2ZZN_B 2YX1_A 2ZZM_A 3AY0_B 3K6R_A 3A26_A 3A25_A.

>cd07377 WHTH_GntR Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators

Probab=91.54  E-value=0.66  Score=30.45  Aligned_cols=32  Identities=16%  Similarity=0.170  Sum_probs=28.8

Q ss_pred             CCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccc
Q 024350           51 LSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHC   89 (269)
Q Consensus        51 ~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~   89 (269)
                      .|..+||+.++++      .. .+.+.|..|...|+++.
T Consensus        26 ~~~~~la~~~~is------~~-~v~~~l~~L~~~G~i~~   57 (66)
T cd07377          26 PSERELAEELGVS------RT-TVREALRELEAEGLVER   57 (66)
T ss_pred             CCHHHHHHHHCCC------HH-HHHHHHHHHHHCCCEEe
Confidence            4599999999998      56 99999999999999984

This CD represents the winged HTH DNA-binding domain of the GntR (named after the gluconate operon repressor in Bacillus subtilis) family of bacterial transcriptional regulators and their putative homologs found in eukaryota and archaea. The GntR family has over 6000 members distributed among almost all bacterial species, which is comprised of FadR, HutC, MocR, YtrA, AraR, PlmA, and other subfamilies for the regulation of the most varied biological process. The monomeric proteins of the GntR family are characterized by two function domains: a small highly conserved winged helix-turn-helix prokaryotic DNA binding domain in the N-terminus, and a very diverse regulatory ligand-binding domain in the C-terminus for effector-binding/oligomerization, which provides the basis for the subfamily classifications. Binding of the effector to GntR-like transcriptional regulators is

>PRK04172 pheS phenylalanyl-tRNA synthetase subunit alpha; Provisional

Probab=91.47  E-value=0.31  Score=46.30  Aligned_cols=67  Identities=13%  Similarity=0.201  Sum_probs=53.2

Q ss_pred             HhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhchhhhcCC
Q 024350           34 VELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSKYFVRNN  111 (269)
Q Consensus        34 ~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s~~l~~~~  111 (269)
                      .+..++..|...   +++|..+||+.++++      .. .+.++++-|.+.|+|+...+ ....|.+|+.|+.+....
T Consensus         7 ~e~~vL~~L~~~---~~~s~~eLA~~l~l~------~~-tVt~~i~~Le~kGlV~~~~~-~~~~i~LTeeG~~~~~~g   73 (489)
T PRK04172          7 NEKKVLKALKEL---KEATLEELAEKLGLP------PE-AVMRAAEWLEEKGLVKVEER-VEEVYVLTEEGKKYAEEG   73 (489)
T ss_pred             HHHHHHHHHHhC---CCCCHHHHHHHhCcC------HH-HHHHHHHHHHhCCCEEEEee-eEEEEEECHHHHHHHHhc
Confidence            455666777664   589999999999997      56 89999999999999995422 246799999999766554

>TIGR01610 phage_O_Nterm phage replication protein O, N-terminal domain

Probab=91.37  E-value=0.46  Score=34.54  Aligned_cols=44  Identities=7%  Similarity=0.112  Sum_probs=37.2

Q ss_pred             CCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecC
Q 024350           49 AKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLA  101 (269)
Q Consensus        49 ~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t  101 (269)
                      .++|..|||+.+|++      .. .+.|.|..|...|+|...  .+-+.|..|
T Consensus        46 ~~is~~eLa~~~g~s------r~-tVsr~L~~Le~~GlI~r~--~~~~~~~~n   89 (95)
T TIGR01610        46 DRVTATVIAELTGLS------RT-HVSDAIKSLARRRIIFRQ--GMMGIVGVN   89 (95)
T ss_pred             CccCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCeeee--cCCceeecC
Confidence            589999999999998      56 999999999999999942  234778776

This model represents the N-terminal region of the phage lambda replication protein O and homologous regions of other phage proteins.

>PF06163 DUF977: Bacterial protein of unknown function (DUF977); InterPro: IPR010382 This entry consists of several hypothetical bacterial proteins of unknown function

Probab=91.31  E-value=0.59  Score=35.61  Aligned_cols=48  Identities=19%  Similarity=0.363  Sum_probs=42.1

Q ss_pred             HHHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCccc
Q 024350           31 QAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALH   88 (269)
Q Consensus        31 ~~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~   88 (269)
                      +..+...|.+.+.++   |.+|..+++..+|++      -. .+.+.++.|++.|-|.
T Consensus        10 r~eLk~rIvElVRe~---GRiTi~ql~~~TGas------R~-Tvk~~lreLVa~G~l~   57 (127)
T PF06163_consen   10 REELKARIVELVREH---GRITIKQLVAKTGAS------RN-TVKRYLRELVARGDLY   57 (127)
T ss_pred             HHHHHHHHHHHHHHc---CCccHHHHHHHHCCC------HH-HHHHHHHHHHHcCCeE
Confidence            455667788888887   599999999999997      56 8999999999999998

>TIGR00373 conserved hypothetical protein TIGR00373

Probab=90.97  E-value=0.44  Score=38.17  Aligned_cols=45  Identities=13%  Similarity=0.064  Sum_probs=38.8

Q ss_pred             cChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccce
Q 024350           36 LDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCS   90 (269)
Q Consensus        36 lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~   90 (269)
                      ..|+++|...   +.+|-+|||+.+|++      .. -++++|..|...|++.+.
T Consensus        17 v~Vl~aL~~~---~~~tdEeLa~~Lgi~------~~-~VRk~L~~L~e~~Lv~~~   61 (158)
T TIGR00373        17 GLVLFSLGIK---GEFTDEEISLELGIK------LN-EVRKALYALYDAGLADYK   61 (158)
T ss_pred             HHHHHHHhcc---CCCCHHHHHHHHCCC------HH-HHHHHHHHHHHCCCceee
Confidence            3478888865   589999999999997      66 899999999999999743

This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.

>PF14394 DUF4423: Domain of unknown function (DUF4423)

Probab=90.90  E-value=0.65  Score=37.68  Aligned_cols=64  Identities=16%  Similarity=0.135  Sum_probs=49.1

Q ss_pred             hhHHHHHHHHHHhcChhHHHHhcCCCCCCCHHHHHHhC--CCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEec
Q 024350           23 AIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQI--PLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSL  100 (269)
Q Consensus        23 ~~~~~~~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~--~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~  100 (269)
                      ..|...+++..+.+.        +  +.-++.+||+.+  +++      ++ -++.-|+.|..+|+++   ++++|.|..
T Consensus        22 ~~W~~~~ir~l~~l~--------~--~~~d~~~iak~l~p~is------~~-ev~~sL~~L~~~gli~---k~~~g~y~~   81 (171)
T PF14394_consen   22 SSWYHPAIRELLPLM--------P--FAPDPEWIAKRLRPKIS------AE-EVRDSLEFLEKLGLIK---KDGDGKYVQ   81 (171)
T ss_pred             hhhHHHHHHHHhhcC--------C--CCCCHHHHHHHhcCCCC------HH-HHHHHHHHHHHCCCeE---ECCCCcEEE
Confidence            456666666555432        1  234899999999  997      67 8999999999999999   566789999


Q ss_pred             Chhchh
Q 024350          101 APVSKY  106 (269)
Q Consensus       101 t~~s~~  106 (269)
                      |..+-.
T Consensus        82 t~~~l~   87 (171)
T PF14394_consen   82 TDKSLT   87 (171)
T ss_pred             ecceee
Confidence            886643

>TIGR03439 methyl_EasF probable methyltransferase domain, EasF family

Probab=90.67  E-value=0.89  Score=40.73  Aligned_cols=84  Identities=10%  Similarity=0.184  Sum_probs=55.0

Q ss_pred             HHHHHhccCCCCccEEEEeCCCchHHHHHHHHHC----CCCeEEEeehh-HHHHh----CC--CCCCceE--EecccCCc
Q 024350          182 EKVLESYKGFEHVKKLVDVGGGLGATLNMIISKY----PHIKGINYDLL-YVIKN----AP--SYPGIDH--VGGDLFES  248 (269)
Q Consensus       182 ~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~----P~l~~vv~Dlp-~vv~~----a~--~~~ri~~--~~gD~~~~  248 (269)
                      +.+...++   ....+||+|||.|.=..-|+++.    ...+.+-+|+. +.++.    .+  ..+.|++  +.|||.+.
T Consensus        68 ~~Ia~~i~---~~~~lIELGsG~~~Kt~~LL~aL~~~~~~~~Y~plDIS~~~L~~a~~~L~~~~~p~l~v~~l~gdy~~~  144 (319)
T TIGR03439        68 SDIAASIP---SGSMLVELGSGNLRKVGILLEALERQKKSVDYYALDVSRSELQRTLAELPLGNFSHVRCAGLLGTYDDG  144 (319)
T ss_pred             HHHHHhcC---CCCEEEEECCCchHHHHHHHHHHHhcCCCceEEEEECCHHHHHHHHHhhhhccCCCeEEEEEEecHHHH
Confidence            34555544   34589999999998655555544    45678999973 34433    33  2366766  67999763


Q ss_pred             ---CC-----C-C-cEEEeccccccCCCCC
Q 024350          249 ---VP-----K-A-DTIFMKVICVCYLNSL  268 (269)
Q Consensus       249 ---~P-----~-g-D~~~l~~iLhd~~d~~  268 (269)
                         +|     . . -++|+...+.++++++
T Consensus       145 l~~l~~~~~~~~~r~~~flGSsiGNf~~~e  174 (319)
T TIGR03439       145 LAWLKRPENRSRPTTILWLGSSIGNFSRPE  174 (319)
T ss_pred             HhhcccccccCCccEEEEeCccccCCCHHH
Confidence               22     1 2 5678888999988765

This model represents an uncharacterized domain of about 300 amino acids with homology to S-adenosylmethionine-dependent methyltransferases. Proteins with this domain are exclusively fungal. A few, such as EasF from Neotyphodium lolii, are associated with the biosynthesis of ergot alkaloids, a class of fungal secondary metabolites. EasF may, in fact, be the AdoMet:dimethylallyltryptophan N-methyltransferase, the enzyme that follows tryptophan dimethylallyltransferase (DMATS) in ergot alkaloid biosynthesis. Several other members of this family, including mug158 (meiotically up-regulated gene 158 protein) from Schizosaccharomyces pombe, contain an additional uncharacterized domain DUF323 (pfam03781).

>COG4190 Predicted transcriptional regulator [Transcription]

Probab=90.53  E-value=0.67  Score=35.60  Aligned_cols=54  Identities=17%  Similarity=0.239  Sum_probs=45.3

Q ss_pred             HHHHHHHHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccc
Q 024350           26 LPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHC   89 (269)
Q Consensus        26 ~~~~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~   89 (269)
                      ....+.+--.+.|.+.|+..   +|.|..|||+..|-+      .. .+.|-|+.|.-.|++..
T Consensus        57 ~la~vLsp~nleLl~~Ia~~---~P~Si~ElAe~vgRd------v~-nvhr~Ls~l~~~GlI~f  110 (144)
T COG4190          57 DLARVLSPRNLELLELIAQE---EPASINELAELVGRD------VK-NVHRTLSTLADLGLIFF  110 (144)
T ss_pred             HHHHHhChhHHHHHHHHHhc---CcccHHHHHHHhCcc------hH-HHHHHHHHHHhcCeEEE
Confidence            33444455667888999886   699999999999997      67 99999999999999984

>PRK06474 hypothetical protein; Provisional

Probab=90.48  E-value=0.5  Score=38.59  Aligned_cols=71  Identities=17%  Similarity=0.267  Sum_probs=52.8

Q ss_pred             HHHHHHHHhcChhHHHHhcCCCCCCCHHHHHHhC-CCCCCCchhHHHHHHHHHHHHHhcCcccceeec--C---CCeEec
Q 024350           27 PAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQI-PLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVD--G---QRLYSL  100 (269)
Q Consensus        27 ~~~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~-~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~--~---~~~y~~  100 (269)
                      ..+|....++.|++.|...+  +++|+.+|++.+ +++      .. .+.|.|+.|...|+|......  +   ...|++
T Consensus         5 ~~~La~p~R~~Il~~L~~~~--~~~ta~el~~~l~~is------~a-TvYrhL~~L~e~GLI~~~~~~~~~~~~ek~y~~   75 (178)
T PRK06474          5 AEILMHPVRMKICQVLMRNK--EGLTPLELVKILKDVP------QA-TLYRHLQTMVDSGILHVVKEKKVRSVSEKYYAI   75 (178)
T ss_pred             HHhhCCHHHHHHHHHHHhCC--CCCCHHHHHHHhcCCC------HH-HHHHHHHHHHHCCCEEEeecccccCceeEEEEe
Confidence            34666778889999998854  359999999999 575      45 899999999999999954211  1   134778


Q ss_pred             Chhchh
Q 024350          101 APVSKY  106 (269)
Q Consensus       101 t~~s~~  106 (269)
                      ++.+..
T Consensus        76 ~~~~~~   81 (178)
T PRK06474         76 NEEDAK   81 (178)
T ss_pred             ccceee
Confidence            776543

>PF00392 GntR: Bacterial regulatory proteins, gntR family; InterPro: IPR000524 Many bacterial transcription regulation proteins bind DNA through a helix-turn-helix (HTH) motif, which can be classified into subfamilies on the basis of sequence similarities

Probab=90.37  E-value=0.5  Score=31.44  Aligned_cols=34  Identities=18%  Similarity=0.224  Sum_probs=29.4

Q ss_pred             CCC-CHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccc
Q 024350           49 AKL-SVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHC   89 (269)
Q Consensus        49 ~~~-s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~   89 (269)
                      ..+ |..+||+.+|++      .. .+++.|+.|...|+++.
T Consensus        22 ~~lps~~~la~~~~vs------r~-tvr~al~~L~~~g~i~~   56 (64)
T PF00392_consen   22 DRLPSERELAERYGVS------RT-TVREALRRLEAEGLIER   56 (64)
T ss_dssp             SBE--HHHHHHHHTS-------HH-HHHHHHHHHHHTTSEEE
T ss_pred             CEeCCHHHHHHHhccC------Cc-HHHHHHHHHHHCCcEEE
Confidence            567 999999999998      66 89999999999999995

The HTH GntR family has many members distributed among diverse bacterial groups that regulate various biological processes. It was named GntR after the Bacillus subtilis repressor of the gluconate operon []. Family members include GntR, HutC, KorA, NtaR, FadR, ExuR, FarR, DgoR and PhnF. The crystal structure of the FadR protein has been determined []. In general, these proteins contain a DNA-binding HTH domain at the N terminus, and an effector-binding or oligomerisation domain at the C terminus (IPR011711 from INTERPRO). The DNA-binding domain is well conserved in structure for the whole of the GntR family, consisting of a 3-helical bundle core with a small beta-sheet (wing); the GntR winged helix structure is similar to that found in several other transcriptional regulator families. The regions outside the DNA-binding domain are more variable and are consequently used to define GntR subfamilies []. This entry represents the N-terminal DNA-binding domain of the GntR family.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1HW1_B 1H9T_A 1HW2_A 1H9G_A 1E2X_A 3IHU_A 3C7J_A 2RA5_A 3BY6_C 3IC7_A ....

>COG5459 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]

Probab=90.34  E-value=0.33  Score=43.62  Aligned_cols=75  Identities=23%  Similarity=0.314  Sum_probs=47.7

Q ss_pred             ccCCCCccEEEEeCCCchHHHHHHHHHCCCCe-EEEeeh-h---HHHHhCCCC---CCceEEecccCC---cCCCCcEEE
Q 024350          188 YKGFEHVKKLVDVGGGLGATLNMIISKYPHIK-GINYDL-L---YVIKNAPSY---PGIDHVGGDLFE---SVPKADTIF  256 (269)
Q Consensus       188 ~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~-~vv~Dl-p---~vv~~a~~~---~ri~~~~gD~~~---~~P~gD~~~  256 (269)
                      .++| .+++|+|||-|.|.-+.++-.-+|+++ +++++. |   .|+.....+   .+-..-+.|+-.   ++|..|.|-
T Consensus       109 ~~df-apqsiLDvG~GPgtgl~A~n~i~Pdl~sa~ile~sp~lrkV~~tl~~nv~t~~td~r~s~vt~dRl~lp~ad~yt  187 (484)
T COG5459         109 VPDF-APQSILDVGAGPGTGLWALNDIWPDLKSAVILEASPALRKVGDTLAENVSTEKTDWRASDVTEDRLSLPAADLYT  187 (484)
T ss_pred             CCCc-CcchhhccCCCCchhhhhhcccCCCchhhhhhccCHHHHHHHHHHHhhcccccCCCCCCccchhccCCCccceee
Confidence            3434 357899999999999999999999997 566664 2   333322221   223333444443   567667776


Q ss_pred             ecccccc
Q 024350          257 MKVICVC  263 (269)
Q Consensus       257 l~~iLhd  263 (269)
                      +.-++|.
T Consensus       188 l~i~~~e  194 (484)
T COG5459         188 LAIVLDE  194 (484)
T ss_pred             hhhhhhh
Confidence            6666554

>PRK13777 transcriptional regulator Hpr; Provisional

Probab=90.27  E-value=1.1  Score=36.97  Aligned_cols=63  Identities=14%  Similarity=0.039  Sum_probs=47.1

Q ss_pred             ChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCC---CeEecChhchhhhc
Q 024350           37 DVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQ---RLYSLAPVSKYFVR  109 (269)
Q Consensus        37 glfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~---~~y~~t~~s~~l~~  109 (269)
                      .+.-.|...   +++|..+||+.++++      .. .+.++++-|...|+|.+.....+   -...+|+.|+.+..
T Consensus        49 ~iL~~L~~~---~~itq~eLa~~l~l~------~s-Tvtr~l~rLE~kGlI~R~~~~~DrR~~~I~LTekG~~l~~  114 (185)
T PRK13777         49 HILWIAYHL---KGASISEIAKFGVMH------VS-TAFNFSKKLEERGYLTFSKKEDDKRNTYIELTEKGEELLL  114 (185)
T ss_pred             HHHHHHHhC---CCcCHHHHHHHHCCC------Hh-hHHHHHHHHHHCCCEEecCCCCCCCeeEEEECHHHHHHHH
Confidence            456666665   489999999999997      56 89999999999999995422222   23668888876553

>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional

Probab=90.03  E-value=0.57  Score=37.15  Aligned_cols=46  Identities=9%  Similarity=0.192  Sum_probs=41.2

Q ss_pred             HHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCccc
Q 024350           33 VVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALH   88 (269)
Q Consensus        33 a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~   88 (269)
                      ..+..|.+.|..+   +..|..+||+++|++      +. .+.+=++-|...|++.
T Consensus         9 ~~D~~Il~~Lq~d---~R~s~~eiA~~lglS------~~-tV~~Ri~rL~~~GvI~   54 (153)
T PRK11179          9 NLDRGILEALMEN---ARTPYAELAKQFGVS------PG-TIHVRVEKMKQAGIIT   54 (153)
T ss_pred             HHHHHHHHHHHHc---CCCCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCee
Confidence            3577889999986   599999999999998      67 8999999999999998

>COG1733 Predicted transcriptional regulators [Transcription]

Probab=90.00  E-value=2  Score=32.64  Aligned_cols=76  Identities=14%  Similarity=0.152  Sum_probs=56.2

Q ss_pred             hHHHHHHHHHhhHHHHHHHHHHhcChhHHHHhcCCCCCCCHHHHHHhCC-CCCCCchhHHHHHHHHHHHHHhcCccccee
Q 024350           13 NFSYAMELASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIP-LKDNNPEAAAMMLDRVLRLLVSYNALHCSF   91 (269)
Q Consensus        13 ~~~~l~~~~~~~~~~~~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~~-~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~   91 (269)
                      ......+++.+-|..-+|+...+             |+.-..||-..++ ++      .. .|.+-|+.|...|++.+..
T Consensus        12 ~~~~~l~~ig~kW~~lIl~~L~~-------------g~~RF~eL~r~i~~Is------~k-~Ls~~Lk~Le~~Glv~R~~   71 (120)
T COG1733          12 PVEEALEVIGGKWTLLILRDLFD-------------GPKRFNELRRSIGGIS------PK-MLSRRLKELEEDGLVERVV   71 (120)
T ss_pred             CHHHHHHHHcCccHHHHHHHHhc-------------CCCcHHHHHHHccccC------HH-HHHHHHHHHHHCCCEEeee
Confidence            35666777777777777665443             4788999999988 87      56 9999999999999999531


Q ss_pred             ec---CCCeEecChhchhhh
Q 024350           92 VD---GQRLYSLAPVSKYFV  108 (269)
Q Consensus        92 ~~---~~~~y~~t~~s~~l~  108 (269)
                      -.   ..-.|++|+.|+.|.
T Consensus        72 ~~~~PprveY~LT~~G~~L~   91 (120)
T COG1733          72 YPEEPPRVEYRLTEKGRDLL   91 (120)
T ss_pred             cCCCCceeEEEEhhhHHHHH
Confidence            11   124599999887655

>COG2512 Predicted membrane-associated trancriptional regulator [Transcription]

Probab=89.99  E-value=0.52  Score=40.86  Aligned_cols=47  Identities=19%  Similarity=0.414  Sum_probs=41.5

Q ss_pred             hcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccce
Q 024350           35 ELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCS   90 (269)
Q Consensus        35 ~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~   90 (269)
                      +..+.++|...|  |.++-+||.+++|++      .. .+.|+|+-|..+|++++.
T Consensus       197 e~~il~~i~~~G--Gri~Q~eL~r~lgls------kt-TvsR~L~~LEk~GlIe~~  243 (258)
T COG2512         197 EKEILDLIRERG--GRITQAELRRALGLS------KT-TVSRILRRLEKRGLIEKE  243 (258)
T ss_pred             HHHHHHHHHHhC--CEEeHHHHHHhhCCC------hH-HHHHHHHHHHhCCceEEE
Confidence            345788888887  889999999999998      56 899999999999999964

>PF01325 Fe_dep_repress: Iron dependent repressor, N-terminal DNA binding domain; InterPro: IPR022687 The DtxR-type HTH domain is a DNA-binding, winged helix-turn-helix (wHTH) domain of about 65 residues present in metalloregulators of the DtxR/MntR family

Probab=89.67  E-value=0.69  Score=30.58  Aligned_cols=34  Identities=9%  Similarity=0.241  Sum_probs=31.0

Q ss_pred             CCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccc
Q 024350           49 AKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHC   89 (269)
Q Consensus        49 ~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~   89 (269)
                      ++++..+||+.+|++      +. .+...++-|...|+|++
T Consensus        21 ~~v~~~~iA~~L~vs------~~-tvt~ml~~L~~~GlV~~   54 (60)
T PF01325_consen   21 GPVRTKDIAERLGVS------PP-TVTEMLKRLAEKGLVEY   54 (60)
T ss_dssp             SSBBHHHHHHHHTS-------HH-HHHHHHHHHHHTTSEEE
T ss_pred             CCccHHHHHHHHCCC------hH-HHHHHHHHHHHCCCEEe
Confidence            799999999999998      66 89999999999999995

The family is named after Corynebacterium diphtheriae DtxR, an iron-specific diphtheria toxin repressor, and Bacillus subtilis MntR, a manganese transport regulator. Iron-responsive metalloregulators such as DtxR and IdeR occur in Gram-positive bacteria of the high GC branch, while manganese-responsive metalloregulators like MntR are described in diverse genera of Gram-positive and Gram-negative bacteria and also in Archaea [].The metalloregulators like DtxR/MntR contain the DNA-binding DtxR-type HTH domain usually in the N-terminal part. The C-terminal part contains a dimerisation domain with two metal-binding sites, although the primary metal-binding site is less conserved in the Mn(II)-regulators. Fe(II)-regulated proteins contain an SH3-like domain as a C-terminal extension, which is absent in Mn(II)-regulated MntR [, ]. Metal-ion dependent regulators orchestrate the virulence of several important human pathogens. The DtxR protein regulates the expression of diphtheria toxinin response to environmental iron concentrations. Furthermore, DtxR and IdeR control iron uptake []. Homeostasis of manganese, which is an essential nutrient, is regulated by MntR. A typical DtxR-type metalloregulator binds two divalent metal effectors per monomer, upon which allosteric changes occur that moderate binding to the cognate DNA operators. Iron-bound DtxR homodimers bind to an interrupted palindrome of 19 bp, protecting a sequence of ~30 bp. The crystal structures of iron-regulated and manganese-regulated repressors show that the DNA binding domain contains three alpha-helices and a pair of antiparallel beta-strands. Helices 2 and 3 comprise the helix-turn-helix motif and the beta-strands are called the wing []. This wHTH topology is similar to the lysR-type HTH (see PDOC00043 from PROSITEDOC). Most DtxR-type metalloregulators bind as dimers to the DNA major groove. Several proteins are known to contain a DtxR-type HTH domain. These include- Corynebacterium diphtheriae DtxR, a diphtheria toxin repressor [], which regulates the expression of the high-affinity iron uptake system, other iron-sensitive genes, and the bacteriophage tox gene. Metal-bound DtxR represses transcription by binding the tox operator; if iron is limiting, conformational changes of the wHTH disrupt DNA-binding and the diphtheria toxin is produced. Mycobacterium tuberculosis IdeR, an iron-dependent regulator that is essential for this pathogen. The regulator represses genes for iron acquisition and activates iron storage genes, and is a positive regulator of oxidative stress responses []. Bacillus subtilis MntR, a manganese transport regulator, binds Mn2+ as an effector and is a transcriptional repressor of transporters for the import of manganese. Treponema pallidum troR, a metal-dependent transcriptional repressor. Archaeoglobus fulgidus MDR1 (troR), a metal-dependent transcriptional repressor, which negatively regulates its own transcription. This entry covers the entire DtxR-type HTH domain.; GO: 0005506 iron ion binding; PDB: 3HRT_B 3HRS_A 3HRU_B 2X4H_D 1ON1_B 2HYF_C 2F5E_A 3R60_B 1ON2_B 2F5F_A ....

>PRK05638 threonine synthase; Validated

Probab=89.65  E-value=0.59  Score=43.80  Aligned_cols=60  Identities=15%  Similarity=0.284  Sum_probs=44.9

Q ss_pred             hhHHHHhcCCCCCCCHHHHHHhCC--CCCCCchhHHHHHHHHHHHHHhcCcccceeecC-CCeEecChhchhhh
Q 024350           38 VFEIITKAGPGAKLSVSEIVAQIP--LKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDG-QRLYSLAPVSKYFV  108 (269)
Q Consensus        38 lfd~L~~~g~~~~~s~~eLA~~~~--~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~-~~~y~~t~~s~~l~  108 (269)
                      |+..|.+    ++++..||++.++  ++      .. .+.+.|+.|...|+|+...+.+ .-.|++|+.++.+.
T Consensus       376 IL~~L~~----~~~~~~el~~~l~~~~s------~~-~v~~hL~~Le~~GLV~~~~~~g~~~~Y~Lt~~g~~~l  438 (442)
T PRK05638        376 ILKILSE----REMYGYEIWKALGKPLK------YQ-AVYQHIKELEELGLIEEAYRKGRRVYYKLTEKGRRLL  438 (442)
T ss_pred             HHHHHhh----CCccHHHHHHHHcccCC------cc-hHHHHHHHHHHCCCEEEeecCCCcEEEEECcHHHHHH
Confidence            5555655    5899999999998  65      45 9999999999999998421112 23499999887544

>COG1846 MarR Transcriptional regulators [Transcription]

Probab=89.62  E-value=0.85  Score=33.82  Aligned_cols=70  Identities=16%  Similarity=0.206  Sum_probs=50.4

Q ss_pred             HHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCC---CeEecChhchhhh
Q 024350           32 AVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQ---RLYSLAPVSKYFV  108 (269)
Q Consensus        32 ~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~---~~y~~t~~s~~l~  108 (269)
                      .-.+..++..|...+   +.+..+||+.++++      .. .+.++++-|...|+|.+..-..+   -.+.+|+.|+.+.
T Consensus        21 t~~q~~~L~~l~~~~---~~~~~~la~~l~i~------~~-~vt~~l~~Le~~glv~r~~~~~DrR~~~l~lT~~G~~~~   90 (126)
T COG1846          21 TPPQYQVLLALYEAG---GITVKELAERLGLD------RS-TVTRLLKRLEDKGLIERLRDPEDRRAVLVRLTEKGRELL   90 (126)
T ss_pred             CHHHHHHHHHHHHhC---CCcHHHHHHHHCCC------HH-HHHHHHHHHHHCCCeeecCCccccceeeEEECccHHHHH
Confidence            445566777777753   44449999999997      67 99999999999999995422122   2478888887655


Q ss_pred             cCC
Q 024350          109 RNN  111 (269)
Q Consensus       109 ~~~  111 (269)
                      ...
T Consensus        91 ~~~   93 (126)
T COG1846          91 EQL   93 (126)
T ss_pred             HHh
Confidence            443

>PRK11169 leucine-responsive transcriptional regulator; Provisional

Probab=89.61  E-value=0.51  Score=37.88  Aligned_cols=47  Identities=13%  Similarity=0.198  Sum_probs=42.2

Q ss_pred             HHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCccc
Q 024350           32 AVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALH   88 (269)
Q Consensus        32 ~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~   88 (269)
                      ..++..|+.+|.++   +.+|..+||+++|++      +. .+.+=++-|...|++.
T Consensus        13 D~~D~~IL~~Lq~d---~R~s~~eiA~~lglS------~~-tv~~Ri~rL~~~GvI~   59 (164)
T PRK11169         13 DRIDRNILNELQKD---GRISNVELSKRVGLS------PT-PCLERVRRLERQGFIQ   59 (164)
T ss_pred             HHHHHHHHHHhccC---CCCCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCeE
Confidence            45688899999986   599999999999998      67 8999999999999998

>PF01726 LexA_DNA_bind: LexA DNA binding domain; InterPro: IPR006199 This is the DNA binding domain of the LexA SOS regulon repressor which prevents expression of DNA repair proteins in bacteria

Probab=89.61  E-value=0.65  Score=31.28  Aligned_cols=39  Identities=23%  Similarity=0.301  Sum_probs=30.3

Q ss_pred             HhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccc
Q 024350           43 TKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHC   89 (269)
Q Consensus        43 ~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~   89 (269)
                      .+.|  -|-|+.|||+.+|+.  .   .. .+.+.|+.|...|++..
T Consensus        20 ~~~G--~~Pt~rEIa~~~g~~--S---~~-tv~~~L~~Le~kG~I~r   58 (65)
T PF01726_consen   20 EENG--YPPTVREIAEALGLK--S---TS-TVQRHLKALERKGYIRR   58 (65)
T ss_dssp             HHHS--S---HHHHHHHHTSS--S---HH-HHHHHHHHHHHTTSEEE
T ss_pred             HHcC--CCCCHHHHHHHhCCC--C---hH-HHHHHHHHHHHCcCccC
Confidence            4455  578999999999995  2   46 89999999999999994

The aligned region contains a variant form of the helix-turn-helix DNA binding motif []. This domain usually at the N terminus is found associated with IPR006198 from INTERPRO the auto-proteolytic domain of LexA 3.4.21.88 from EC.; GO: 0004252 serine-type endopeptidase activity, 0006508 proteolysis; PDB: 1LEA_A 1JHH_A 3JSP_A 1JHF_A 3JSO_B 1LEB_A 3K2Z_A.

>PLN02853 Probable phenylalanyl-tRNA synthetase alpha chain

Probab=89.28  E-value=0.76  Score=43.36  Aligned_cols=69  Identities=12%  Similarity=0.150  Sum_probs=55.3

Q ss_pred             HHHhcChhHHHHhcCCCCC-CCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhchhhhcC
Q 024350           32 AVVELDVFEIITKAGPGAK-LSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSKYFVRN  110 (269)
Q Consensus        32 ~a~~lglfd~L~~~g~~~~-~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s~~l~~~  110 (269)
                      ++++..|+..|...   ++ .+..+||+.+|++      .. .+.+.+..|.+.|+++... .....|.+|+.|+..+..
T Consensus         2 ~~~e~~iL~~l~~~---~~~~~~~~la~~~g~~------~~-~v~~~~~~L~~kg~v~~~~-~~~~~~~LT~eG~~~l~~   70 (492)
T PLN02853          2 AMAEEALLGALSNN---EEISDSGQFAASHGLD------HN-EVVGVIKSLHGFRYVDAQD-IKRETWVLTEEGKKYAAE   70 (492)
T ss_pred             chHHHHHHHHHHhc---CCCCCHHHHHHHcCCC------HH-HHHHHHHHHHhCCCEEEEE-EEEEEEEECHHHHHHHHc
Confidence            35567788888875   34 8999999999997      56 8999999999999998653 346889999999966655


Q ss_pred             C
Q 024350          111 N  111 (269)
Q Consensus       111 ~  111 (269)
                      .
T Consensus        71 G   71 (492)
T PLN02853         71 G   71 (492)
T ss_pred             C
Confidence            4

>COG1378 Predicted transcriptional regulators [Transcription]

Probab=89.01  E-value=0.85  Score=39.30  Aligned_cols=60  Identities=15%  Similarity=0.159  Sum_probs=46.7

Q ss_pred             ChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhchhh
Q 024350           37 DVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSKYF  107 (269)
Q Consensus        37 glfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s~~l  107 (269)
                      .+.-+|-..   |+.|+.|||+.+|++      .. .+..+|+-|...|++... ...+..|+.-+-...+
T Consensus        20 ~vY~aLl~~---g~~tA~eis~~sgvP------~~-kvY~vl~sLe~kG~v~~~-~g~P~~y~av~p~~~i   79 (247)
T COG1378          20 KVYLALLCL---GEATAKEISEASGVP------RP-KVYDVLRSLEKKGLVEVI-EGRPKKYRAVPPEELI   79 (247)
T ss_pred             HHHHHHHHh---CCccHHHHHHHcCCC------ch-hHHHHHHHHHHCCCEEee-CCCCceEEeCCHHHHH
Confidence            355556555   599999999999997      45 899999999999999954 2357889886655433

>KOG4589 consensus Cell division protein FtsJ [Cell cycle control, cell division, chromosome partitioning]

Probab=88.74  E-value=0.86  Score=37.50  Aligned_cols=44  Identities=18%  Similarity=0.326  Sum_probs=34.4

Q ss_pred             HhccCCCCccEEEEeCCCchHHHHHHHHHC-CCCeEEEeehhHHH
Q 024350          186 ESYKGFEHVKKLVDVGGGLGATLNMIISKY-PHIKGINYDLLYVI  229 (269)
Q Consensus       186 ~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~-P~l~~vv~Dlp~vv  229 (269)
                      +.|.-+....+|+|+|+..|.++.-..++. |+=.+.++|+-++.
T Consensus        62 dKy~~l~p~~~VlD~G~APGsWsQVavqr~~p~g~v~gVDllh~~  106 (232)
T KOG4589|consen   62 DKYRFLRPEDTVLDCGAAPGSWSQVAVQRVNPNGMVLGVDLLHIE  106 (232)
T ss_pred             hhccccCCCCEEEEccCCCChHHHHHHHhhCCCceEEEEeeeecc
Confidence            334424456899999999999999888876 99888999985543

>PF02002 TFIIE_alpha: TFIIE alpha subunit; InterPro: IPR024550 The general transcription factor TFIIE has an essential role in eukaryotic transcription initiation, together with RNA polymerase II and other general factors

Probab=88.66  E-value=0.69  Score=34.13  Aligned_cols=42  Identities=12%  Similarity=0.290  Sum_probs=32.5

Q ss_pred             hhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccc
Q 024350           38 VFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHC   89 (269)
Q Consensus        38 lfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~   89 (269)
                      |++.|...   +.++-++||+.+|++      .. -++++|..|...|++..
T Consensus        18 Il~~L~~~---~~l~de~la~~~~l~------~~-~vRkiL~~L~~~~lv~~   59 (105)
T PF02002_consen   18 ILDALLRK---GELTDEDLAKKLGLK------PK-EVRKILYKLYEDGLVSY   59 (105)
T ss_dssp             HHHHHHHH-----B-HHHHHHTT-S-------HH-HHHHHHHHHHHHSS-EE
T ss_pred             HHHHHHHc---CCcCHHHHHHHhCCC------HH-HHHHHHHHHHHCCCeEE
Confidence            68888866   589999999999997      56 89999999999999974

Human TFIIE consists of two subunits, TFIIE-alpha and TFIIE-beta, and joins the preinitiation complex after RNA polymerase II and TFIIF []. This entry represents a helix-turn-helix (HTH) domain found in eukaryotic TFIIE-alpha []. It is also found in proteins from archaebacteria that are presumed to be TFIIE-alpha subunits [], the transcriptional regulator SarR, and also DNA-directed RNA polymerase III subunit Rpc3.; PDB: 1VD4_A 1Q1H_A.

>PF08704 GCD14: tRNA methyltransferase complex GCD14 subunit; InterPro: IPR014816 GCD14 is a subunit of the tRNA methyltransferase complex and is required for 1-methyladenosine modification and maturation of initiator methionyl-tRNA []

Probab=88.51  E-value=1.5  Score=37.76  Aligned_cols=74  Identities=15%  Similarity=0.237  Sum_probs=49.1

Q ss_pred             HHHHhccCCCCccEEEEeCCCchHHHHHHHHH-CCCCeEEEeeh-hHHHHhCCCC-------CCceEEecccCC-cCC--
Q 024350          183 KVLESYKGFEHVKKLVDVGGGLGATLNMIISK-YPHIKGINYDL-LYVIKNAPSY-------PGIDHVGGDLFE-SVP--  250 (269)
Q Consensus       183 ~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~-~P~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~-~~P--  250 (269)
                      .|+-..+ .....+|++.|-|+|.++..|++. .|+=+..-+|. ++-++.|+++       +.|++..+|.-+ .++  
T Consensus        31 ~I~~~l~-i~pG~~VlEaGtGSG~lt~~l~r~v~p~G~v~t~E~~~~~~~~A~~n~~~~gl~~~v~~~~~Dv~~~g~~~~  109 (247)
T PF08704_consen   31 YILMRLD-IRPGSRVLEAGTGSGSLTHALARAVGPTGHVYTYEFREDRAEKARKNFERHGLDDNVTVHHRDVCEEGFDEE  109 (247)
T ss_dssp             HHHHHTT---TT-EEEEE--TTSHHHHHHHHHHTTTSEEEEEESSHHHHHHHHHHHHHTTCCTTEEEEES-GGCG--STT
T ss_pred             HHHHHcC-CCCCCEEEEecCCcHHHHHHHHHHhCCCeEEEccccCHHHHHHHHHHHHHcCCCCCceeEecceeccccccc
Confidence            3455556 666789999999999999999975 58888888986 5555555542       689999999965 333  


Q ss_pred             --CC-cEEEe
Q 024350          251 --KA-DTIFM  257 (269)
Q Consensus       251 --~g-D~~~l  257 (269)
                        .. |.+||
T Consensus       110 ~~~~~DavfL  119 (247)
T PF08704_consen  110 LESDFDAVFL  119 (247)
T ss_dssp             -TTSEEEEEE
T ss_pred             ccCcccEEEE
Confidence              23 88776

; GO: 0016429 tRNA (adenine-N1-)-methyltransferase activity, 0030488 tRNA methylation; PDB: 2YVL_C 1YB2_A 2B25_B 1O54_A 2PWY_B 1I9G_A 3LGA_B 3LHD_C 3MB5_A.

>TIGR02787 codY_Gpos GTP-sensing transcriptional pleiotropic repressor CodY

Probab=88.16  E-value=2.2  Score=36.38  Aligned_cols=72  Identities=21%  Similarity=0.264  Sum_probs=50.9

Q ss_pred             hHHHhhhHHHHHHHHHhhHHHHHHHHHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCc
Q 024350            7 QEEEANNFSYAMELASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNA   86 (269)
Q Consensus         7 ~~~~~~~~~~l~~~~~~~~~~~~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~   86 (269)
                      +-|++.--..+.+++.+...+.=|.+.-  .|++.|...  ++.++..+||+++|++      .. .+++=++.|.+.|+
T Consensus       159 ~iEee~Rkka~Vq~Ai~tLSySEleAv~--~IL~~L~~~--egrlse~eLAerlGVS------Rs-~ireAlrkLE~aGv  227 (251)
T TIGR02787       159 EIEEEARKKAAVQMAINTLSYSELEAVE--HIFEELDGN--EGLLVASKIADRVGIT------RS-VIVNALRKLESAGV  227 (251)
T ss_pred             HHHHHHHHHHHHHHHHHhccHhHHHHHH--HHHHHhccc--cccccHHHHHHHHCCC------HH-HHHHHHHHHHHCCC
Confidence            3344444444556655544443333332  478888772  1589999999999998      67 99999999999999


Q ss_pred             ccc
Q 024350           87 LHC   89 (269)
Q Consensus        87 l~~   89 (269)
                      +..
T Consensus       228 Ie~  230 (251)
T TIGR02787       228 IES  230 (251)
T ss_pred             EEe
Confidence            995

This model represents the full length of CodY, a pleiotropic repressor in Bacillus subtilis and other Firmicutes (low-GC Gram-positive bacteria) that responds to intracellular levels of GTP and branched chain amino acids. The C-terminal helix-turn-helix DNA-binding region is modeled by pfam08222 in Pfam.

>PF02527 GidB: rRNA small subunit methyltransferase G; InterPro: IPR003682 This entry represents a rRNA small subunit methyltransferase G

Probab=88.00  E-value=0.59  Score=38.42  Aligned_cols=65  Identities=15%  Similarity=0.248  Sum_probs=44.5

Q ss_pred             EEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hH---HHHhCC---CCCCceEEecccCC-cCCCC-cEEEeccc
Q 024350          196 KLVDVGGGLGATLNMIISKYPHIKGINYDL-LY---VIKNAP---SYPGIDHVGGDLFE-SVPKA-DTIFMKVI  260 (269)
Q Consensus       196 ~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~---vv~~a~---~~~ri~~~~gD~~~-~~P~g-D~~~l~~i  260 (269)
                      +++|||.|.|.=++-++=.+|+++++++|. ..   .++.+.   ..++++++.+..-+ ..+.. |+++.+-+
T Consensus        51 ~~lDiGSGaGfPGipLaI~~p~~~~~LvEs~~KK~~FL~~~~~~L~L~nv~v~~~R~E~~~~~~~fd~v~aRAv  124 (184)
T PF02527_consen   51 KVLDIGSGAGFPGIPLAIARPDLQVTLVESVGKKVAFLKEVVRELGLSNVEVINGRAEEPEYRESFDVVTARAV  124 (184)
T ss_dssp             EEEEETSTTTTTHHHHHHH-TTSEEEEEESSHHHHHHHHHHHHHHT-SSEEEEES-HHHTTTTT-EEEEEEESS
T ss_pred             eEEecCCCCCChhHHHHHhCCCCcEEEEeCCchHHHHHHHHHHHhCCCCEEEEEeeecccccCCCccEEEeehh
Confidence            799999999999999999999999999994 21   122111   13678888877755 23333 88877654

Previously identified as a glucose-inhibited division protein B that appears to be present and in a single copy in all complete eubacterial genomes so far sequenced. Specifically methylates the N7 position of a guanosine in 16S rRNA [, , ].; GO: 0008649 rRNA methyltransferase activity, 0006364 rRNA processing, 0005737 cytoplasm; PDB: 1XDZ_A 3G88_A 3G8A_B 3G89_B 3G8B_B 1JSX_A.

>COG0357 GidB Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]

Probab=87.96  E-value=0.5  Score=39.80  Aligned_cols=66  Identities=18%  Similarity=0.253  Sum_probs=43.9

Q ss_pred             ccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-h---HHHHhCCC---CCCceEEecccCCc--CCC-CcEEEecc
Q 024350          194 VKKLVDVGGGLGATLNMIISKYPHIKGINYDL-L---YVIKNAPS---YPGIDHVGGDLFES--VPK-ADTIFMKV  259 (269)
Q Consensus       194 ~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p---~vv~~a~~---~~ri~~~~gD~~~~--~P~-gD~~~l~~  259 (269)
                      ..+++|||.|.|.=++-++=.+|+++++++|. .   .-++.+..   .+.++++.+..-+-  .++ -|++..|-
T Consensus        68 ~~~~~DIGSGaGfPGipLAI~~p~~~vtLles~~Kk~~FL~~~~~eL~L~nv~i~~~RaE~~~~~~~~~D~vtsRA  143 (215)
T COG0357          68 AKRVLDIGSGAGFPGIPLAIAFPDLKVTLLESLGKKIAFLREVKKELGLENVEIVHGRAEEFGQEKKQYDVVTSRA  143 (215)
T ss_pred             CCEEEEeCCCCCCchhhHHHhccCCcEEEEccCchHHHHHHHHHHHhCCCCeEEehhhHhhcccccccCcEEEeeh
Confidence            58999999999999999999999999999994 1   11222211   25566666554431  123 46665543

>PF02319 E2F_TDP: E2F/DP family winged-helix DNA-binding domain; InterPro: IPR003316 The mammalian transcription factor E2F plays an important role in regulating the expression of genes that are required for passage through the cell cycle

Probab=87.80  E-value=0.48  Score=32.49  Aligned_cols=43  Identities=16%  Similarity=0.321  Sum_probs=34.6

Q ss_pred             CCCCHHHHHHhC---CCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEe
Q 024350           49 AKLSVSEIVAQI---PLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYS   99 (269)
Q Consensus        49 ~~~s~~eLA~~~---~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~   99 (269)
                      +.+++.++|+.+   +..  +.  .+ ++.-++..|.++|++++   .+...|.
T Consensus        23 ~~i~l~~ia~~l~~~~~k--~~--~R-RlYDI~NVLealgli~K---~~k~~~~   68 (71)
T PF02319_consen   23 KSISLNEIADKLISENVK--TQ--RR-RLYDIINVLEALGLIEK---QSKNSYK   68 (71)
T ss_dssp             TEEEHHHHHHHCHHHCCH--HH--CH-HHHHHHHHHHHCTSEEE---EETTEEE
T ss_pred             CcccHHHHHHHHcccccc--cc--cc-hhhHHHHHHHHhCceee---cCCCceE
Confidence            689999999999   882  11  56 99999999999999994   3456664

Multiple E2F family members have been identified that bind to DNA as heterodimers, interacting with proteins known as DP - the dimerisation partners [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005667 transcription factor complex; PDB: 1CF7_B.

>PF09929 DUF2161: Uncharacterized conserved protein (DUF2161); InterPro: IPR018679 This family of various hypothetical prokaryotic proteins has no known function

Probab=87.73  E-value=0.98  Score=34.05  Aligned_cols=50  Identities=12%  Similarity=0.217  Sum_probs=38.3

Q ss_pred             HHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhch
Q 024350           40 EIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSK  105 (269)
Q Consensus        40 d~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s~  105 (269)
                      .+|...   ||.+..+|++.++++         ...+||+. --.|.|+   +.+.|.|.+|+.|+
T Consensus        66 ~~L~~~---Gp~~~~~l~~~~~~~---------~A~~IL~~-N~YGWFe---Rv~rGvY~LT~~G~  115 (118)
T PF09929_consen   66 AALAEH---GPSRPADLRKATGVP---------KATSILRD-NHYGWFE---RVERGVYALTPAGR  115 (118)
T ss_pred             HHHHHc---CCCCHHHHHHhcCCC---------hHHHHHHh-Cccccee---eeccceEecCcchh
Confidence            467765   699999999999996         34445442 3468898   66789999999886

>COG1522 Lrp Transcriptional regulators [Transcription]

Probab=87.71  E-value=0.98  Score=35.45  Aligned_cols=46  Identities=13%  Similarity=0.314  Sum_probs=41.1

Q ss_pred             HHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCccc
Q 024350           33 VVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALH   88 (269)
Q Consensus        33 a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~   88 (269)
                      .++..|...|...   ++.|..+||+.+|++      +. .+.+-++-|...|++.
T Consensus         8 ~~D~~IL~~L~~d---~r~~~~eia~~lglS------~~-~v~~Ri~~L~~~GiI~   53 (154)
T COG1522           8 DIDRRILRLLQED---ARISNAELAERVGLS------PS-TVLRRIKRLEEEGVIK   53 (154)
T ss_pred             HHHHHHHHHHHHh---CCCCHHHHHHHHCCC------HH-HHHHHHHHHHHCCcee
Confidence            4567788999886   589999999999998      67 8999999999999998

>COG4076 Predicted RNA methylase [General function prediction only]

Probab=87.70  E-value=1  Score=37.07  Aligned_cols=61  Identities=18%  Similarity=0.174  Sum_probs=45.5

Q ss_pred             cEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC------CCceEEecccCC-cCCCCcEEEe
Q 024350          195 KKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFE-SVPKADTIFM  257 (269)
Q Consensus       195 ~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~-~~P~gD~~~l  257 (269)
                      .++.|+|.|+|-++.-.+++  .=+++.+++ |...+.+.++      ..++++.||..+ .+-++|++++
T Consensus        34 d~~~DLGaGsGiLs~~Aa~~--A~rViAiE~dPk~a~~a~eN~~v~g~~n~evv~gDA~~y~fe~ADvvic  102 (252)
T COG4076          34 DTFADLGAGSGILSVVAAHA--AERVIAIEKDPKRARLAEENLHVPGDVNWEVVVGDARDYDFENADVVIC  102 (252)
T ss_pred             hceeeccCCcchHHHHHHhh--hceEEEEecCcHHHHHhhhcCCCCCCcceEEEecccccccccccceeHH
Confidence            46889999999988766655  446778886 6665556553      789999999988 6755688764

>PTZ00326 phenylalanyl-tRNA synthetase alpha chain; Provisional

Probab=87.51  E-value=1.3  Score=41.89  Aligned_cols=69  Identities=9%  Similarity=0.186  Sum_probs=54.5

Q ss_pred             HHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhchhhhcCC
Q 024350           33 VVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSKYFVRNN  111 (269)
Q Consensus        33 a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s~~l~~~~  111 (269)
                      ..+..|+..|...+  +..+..+||+.+|++      .. .+.+.+..|.+.|+++... .....|.+|+.|+..+.+.
T Consensus         6 ~~e~~iL~~l~~~~--~~~~~~~la~~~~~~------~~-~v~~~~~~L~~kg~v~~~~-~~~~~~~LT~eG~~~~~~G   74 (494)
T PTZ00326          6 LEENTILSKLESEN--EIVNSLALAESLNID------HQ-KVVGAIKSLESANYITTEM-KKSNTWTLTEEGEDYLKNG   74 (494)
T ss_pred             HHHHHHHHHHHhcC--CCCCHHHHHHHcCCC------HH-HHHHHHHHHHhCCCEEEEE-EEEEEEEECHHHHHHHHcC
Confidence            34556777887632  479999999999997      56 8999999999999998653 3468899999999666554

>KOG1661 consensus Protein-L-isoaspartate(D-aspartate) O-methyltransferase [Posttranslational modification, protein turnover, chaperones]

Probab=87.37  E-value=1  Score=37.78  Aligned_cols=67  Identities=16%  Similarity=0.119  Sum_probs=44.6

Q ss_pred             CCccEEEEeCCCchHHHHHHHH--HCCCCeEEEeeh-hHHHHhCCCC----------------CCceEEecccCCcCC-C
Q 024350          192 EHVKKLVDVGGGLGATLNMIIS--KYPHIKGINYDL-LYVIKNAPSY----------------PGIDHVGGDLFESVP-K  251 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~--~~P~l~~vv~Dl-p~vv~~a~~~----------------~ri~~~~gD~~~~~P-~  251 (269)
                      ....++||||+|+|.+...+..  .-|....+++|+ |++|+..++.                .++.++.||-..-.+ .
T Consensus        81 ~pG~s~LdvGsGSGYLt~~~~~mvg~~g~~~~GIEh~~eLVe~Sk~nl~k~i~~~e~~~~~~~~~l~ivvGDgr~g~~e~  160 (237)
T KOG1661|consen   81 QPGASFLDVGSGSGYLTACFARMVGATGGNVHGIEHIPELVEYSKKNLDKDITTSESSSKLKRGELSIVVGDGRKGYAEQ  160 (237)
T ss_pred             ccCcceeecCCCccHHHHHHHHHhcCCCccccchhhhHHHHHHHHHHHHhhccCchhhhhhccCceEEEeCCccccCCcc
Confidence            3446899999999987766552  223333367775 8888765531                678899999887444 3


Q ss_pred             C--cEEEec
Q 024350          252 A--DTIFMK  258 (269)
Q Consensus       252 g--D~~~l~  258 (269)
                      +  |.|+..
T Consensus       161 a~YDaIhvG  169 (237)
T KOG1661|consen  161 APYDAIHVG  169 (237)
T ss_pred             CCcceEEEc
Confidence            3  776543

>COG3963 Phospholipid N-methyltransferase [Lipid metabolism]

Probab=87.33  E-value=1.5  Score=35.42  Aligned_cols=68  Identities=21%  Similarity=0.323  Sum_probs=49.5

Q ss_pred             hhHHHHHHhccCCCCccEEEEeCCCchHHHHHHHHHC-CCCeEEEeeh-hHHHHhCC-CCCCceEEecccCC
Q 024350          179 IVMEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKY-PHIKGINYDL-LYVIKNAP-SYPGIDHVGGDLFE  247 (269)
Q Consensus       179 ~~~~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~-P~l~~vv~Dl-p~vv~~a~-~~~ri~~~~gD~~~  247 (269)
                      ..++......+ |+...-|+.+|.|+|.+.++++++- ++-..+.++. |+-+.... ..+.++++.||.|.
T Consensus        35 ~lA~~M~s~I~-pesglpVlElGPGTGV~TkaIL~~gv~~~~L~~iE~~~dF~~~L~~~~p~~~ii~gda~~  105 (194)
T COG3963          35 ILARKMASVID-PESGLPVLELGPGTGVITKAILSRGVRPESLTAIEYSPDFVCHLNQLYPGVNIINGDAFD  105 (194)
T ss_pred             HHHHHHHhccC-cccCCeeEEEcCCccHhHHHHHhcCCCccceEEEEeCHHHHHHHHHhCCCccccccchhh
Confidence            33455566777 8777899999999999999998864 4444455553 55555444 45888899999986

>KOG2730 consensus Methylase [General function prediction only]

Probab=87.31  E-value=0.33  Score=40.87  Aligned_cols=53  Identities=23%  Similarity=0.303  Sum_probs=42.8

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-------CCceEEecccCC
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-------PGIDHVGGDLFE  247 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~  247 (269)
                      +...|+|.-||-|.-.+.++..+|.+  +.+|. |--+..|+.+       +||+|+.|||++
T Consensus        94 ~~~~iidaf~g~gGntiqfa~~~~~V--isIdiDPikIa~AkhNaeiYGI~~rItFI~GD~ld  154 (263)
T KOG2730|consen   94 NAEVIVDAFCGVGGNTIQFALQGPYV--IAIDIDPVKIACARHNAEVYGVPDRITFICGDFLD  154 (263)
T ss_pred             CcchhhhhhhcCCchHHHHHHhCCeE--EEEeccHHHHHHHhccceeecCCceeEEEechHHH
Confidence            56789999888888889999998875  66776 5556666643       899999999997

>PRK04214 rbn ribonuclease BN/unknown domain fusion protein; Reviewed

Probab=87.22  E-value=1.1  Score=41.70  Aligned_cols=43  Identities=26%  Similarity=0.243  Sum_probs=37.0

Q ss_pred             CCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecC
Q 024350           49 AKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLA  101 (269)
Q Consensus        49 ~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t  101 (269)
                      ++.|.++|++.++++      ++ .++++|+.|...|++.   +.+++.|.++
T Consensus       309 ~~~t~~~La~~l~~~------~~-~v~~iL~~L~~agLI~---~~~~g~~~l~  351 (412)
T PRK04214        309 KALDVDEIRRLEPMG------YD-ELGELLCELARIGLLR---RGERGQWVLA  351 (412)
T ss_pred             CCCCHHHHHHHhCCC------HH-HHHHHHHHHHhCCCeE---ecCCCceEec
Confidence            689999999999997      67 9999999999999998   4455667664

>COG1497 Predicted transcriptional regulator [Transcription]

Probab=86.96  E-value=1.6  Score=37.21  Aligned_cols=86  Identities=14%  Similarity=0.221  Sum_probs=58.9

Q ss_pred             CCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhchhhhcCCCCCCChHHHHHhhc-Ch
Q 024350           49 AKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSKYFVRNNQNGASLRPYMALSL-DK  127 (269)
Q Consensus        49 ~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s~~l~~~~~~~~~~~~~~~~~~-~~  127 (269)
                      ......|||+.+|+.      +- .+...++-|+..|+++   +.+.++|..|..|...+..+  -..++.++.... .-
T Consensus        24 p~v~q~eIA~~lgiT------~Q-aVsehiK~Lv~eG~i~---~~gR~~Y~iTkkG~e~l~~~--~~dlr~f~~ev~~~l   91 (260)
T COG1497          24 PRVKQKEIAKKLGIT------LQ-AVSEHIKELVKEGLIE---KEGRGEYEITKKGAEWLLEQ--LSDLRRFSEEVELVL   91 (260)
T ss_pred             CCCCHHHHHHHcCCC------HH-HHHHHHHHHHhcccee---ecCCeeEEEehhHHHHHHHH--HHHHHHHHHHHHHHH
Confidence            368999999999997      55 9999999999999999   44567999999988655443  234555544321 11


Q ss_pred             hhHhhhhhhH-HHHhhCCch
Q 024350          128 VLMDGWFRLK-GQILEGGIA  146 (269)
Q Consensus       128 ~~~~~~~~l~-~~l~~~~~~  146 (269)
                      .....|..++ +-++.|.+.
T Consensus        92 ~~~~vw~AIA~edI~~Gd~V  111 (260)
T COG1497          92 DYVMVWTAIAKEDIKEGDTV  111 (260)
T ss_pred             hhHHHHHHhhHhhhccCCEE
Confidence            1234565554 335556554

>PF03444 HrcA_DNA-bdg: Winged helix-turn-helix transcription repressor, HrcA DNA-binding; InterPro: IPR005104 Prokaryotic cells have a defence mechanism against a sudden heat-shock stress

Probab=86.94  E-value=2.5  Score=29.48  Aligned_cols=51  Identities=6%  Similarity=-0.087  Sum_probs=39.7

Q ss_pred             CCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhchhh
Q 024350           49 AKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSKYF  107 (269)
Q Consensus        49 ~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s~~l  107 (269)
                      .|+..++||+.++++      +. -++..|..|..+|+|+..+-. .+-|..|..+-.+
T Consensus        22 ~PVgSk~ia~~l~~s------~a-TIRN~M~~Le~lGlve~~p~~-s~GriPT~~aYr~   72 (78)
T PF03444_consen   22 EPVGSKTIAEELGRS------PA-TIRNEMADLEELGLVESQPHP-SGGRIPTDKAYRA   72 (78)
T ss_pred             CCcCHHHHHHHHCCC------hH-HHHHHHHHHHHCCCccCCCCC-CCCCCcCHHHHHH
Confidence            699999999999997      56 899999999999999842111 3557777766533

Commonly, they induce a set of proteins that protect cellular proteins from being denatured by heat. Among such proteins are the GroE and DnaK chaperones whose transcription is regulated by a heat-shock repressor protein HrcA. HrcA is a winged helix-turn-helix repressor that negatively regulates the transcription of dnaK and groE operons by binding the upstream CIRCE (controlling inverted repeat of chaperone expression) element. In Bacillus subtilis this element is a perfect 9 base pair inverted repeat separated by a 9 base pair spacer. The crystal structure of a heat-inducible transcriptional repressor, HrcA, from Thermotoga maritima has been reported at 2.2A resolution. HrcA is composed of three domains: an N-terminal winged helix-turn-helix domain (WHTH), a GAF-like domain, and an inserted dimerizing domain (IDD). The IDD shows a unique structural fold with an anti-parallel beta-sheet composed of three beta-strands sided by four alpha-helices. HrcA crystallises as a dimer, which is formed through hydrophobic contact between the IDDs and a limited contact that involves conserved residues between the GAF-like domains []. The structural studies suggest that the inactive form of HrcA is the dimer and this is converted to its DNA-binding form by interaction with GroEL, which binds to a conserved C-terminal sequence region [, ]. Comparison of the HrcA-CIRCE complexes from B. subtilis and Bacillus thermoglucosidasius (Geobacillus thermoglucosidasius), which grow at vastly different ranges of temperature shows that the thermostability profiles were consistent with the difference in the growth temperatures suggesting that HrcA can function as a thermosensor to detect temperature changes in cells []. Any increase in temperature causes the dissociation of the HrcA from the CIRCE complex with the concomitant activation of transcription of the groE and dnaK operons. This domain represents the winged helix-turn-helix DNA-binding domain which is located close to the N terminus of HrcA. This domain is also found at the N terminus of a set of uncharacterised proteins that have two C-terminal CBS domains. ; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent

>PF05732 RepL: Firmicute plasmid replication protein (RepL); InterPro: IPR008813 This entry consists of proteins thought to be involved in plasmid replication

Probab=86.73  E-value=1.1  Score=36.07  Aligned_cols=43  Identities=16%  Similarity=0.267  Sum_probs=38.1

Q ss_pred             CCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChh
Q 024350           51 LSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPV  103 (269)
Q Consensus        51 ~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~  103 (269)
                      +|.++||+.+|++      .. .+.|.+..|...+|+.   +...|.|.+||.
T Consensus        76 ~t~~~ia~~l~iS------~~-Tv~r~ik~L~e~~iI~---k~~~G~Y~iNP~  118 (165)
T PF05732_consen   76 ATQKEIAEKLGIS------KP-TVSRAIKELEEKNIIK---KIRNGAYMINPN  118 (165)
T ss_pred             eeHHHHHHHhCCC------HH-HHHHHHHHHHhCCcEE---EccCCeEEECcH
Confidence            6899999999998      56 8999999999999999   445689999884

; GO: 0006260 DNA replication, 0006276 plasmid maintenance

>COG5631 Predicted transcription regulator, contains HTH domain (MarR family) [Transcription]

Probab=86.57  E-value=2.2  Score=34.04  Aligned_cols=77  Identities=16%  Similarity=0.155  Sum_probs=55.8

Q ss_pred             HHhhHHHHHHHHHHhcC-------hhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeec
Q 024350           21 ASAIVLPAAMQAVVELD-------VFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVD   93 (269)
Q Consensus        21 ~~~~~~~~~L~~a~~lg-------lfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~   93 (269)
                      +++-|...|+.+|.+.+       |...+.-.+  .+.++.||+..++.+  |   -. .+..-||-|...|+++.....
T Consensus        64 Af~rW~vrCmAaag~~~ls~~e~l~lH~irhrd--R~K~laDic~~ln~e--D---th-~itYslrKL~k~gLit~t~~g  135 (199)
T COG5631          64 AFGRWQVRCMAAAGEFSLSGPENLLLHIIRHRD--RPKSLADICQMLNRE--D---TH-NITYSLRKLLKGGLITRTGSG  135 (199)
T ss_pred             HHHHHHHHHHHHhcCCCCcchHHHHHHHHhhcC--chhhHHHHHHHhccc--c---ch-hHHHHHHHHHhccceecCCCC
Confidence            45778888999888766       334444444  799999999999997  3   23 788889999999999932111


Q ss_pred             CCCeEecChhch
Q 024350           94 GQRLYSLAPVSK  105 (269)
Q Consensus        94 ~~~~y~~t~~s~  105 (269)
                      ..-.|..|+.|.
T Consensus       136 kevTy~vTa~G~  147 (199)
T COG5631         136 KEVTYEVTALGH  147 (199)
T ss_pred             ceEEEEEecchH
Confidence            124588888764

>PF05891 Methyltransf_PK: AdoMet dependent proline di-methyltransferase; InterPro: IPR008576 This family consists of several eukaryotic proteins of unknown function that are S-adenosyl-L-methionine-dependent methyltransferase-like

Probab=86.37  E-value=0.42  Score=40.19  Aligned_cols=75  Identities=13%  Similarity=0.143  Sum_probs=43.0

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEee-hhHHHHhCCC-----CCC-ceEEecccCCcCCC--C-cEEEeccccc
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYD-LLYVIKNAPS-----YPG-IDHVGGDLFESVPK--A-DTIFMKVICV  262 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~D-lp~vv~~a~~-----~~r-i~~~~gD~~~~~P~--g-D~~~l~~iLh  262 (269)
                      +..+.+|+|+|.|.+...++..+=+ ++-++| .+.-++.|++     .++ .++...-+-+-.|+  - |+|++-+++-
T Consensus        55 ~~~~alDcGAGIGRVTk~lLl~~f~-~VDlVEp~~~Fl~~a~~~l~~~~~~v~~~~~~gLQ~f~P~~~~YDlIW~QW~lg  133 (218)
T PF05891_consen   55 KFNRALDCGAGIGRVTKGLLLPVFD-EVDLVEPVEKFLEQAKEYLGKDNPRVGEFYCVGLQDFTPEEGKYDLIWIQWCLG  133 (218)
T ss_dssp             --SEEEEET-TTTHHHHHTCCCC-S-EEEEEES-HHHHHHHHHHTCCGGCCEEEEEES-GGG----TT-EEEEEEES-GG
T ss_pred             CcceEEecccccchhHHHHHHHhcC-EeEEeccCHHHHHHHHHHhcccCCCcceEEecCHhhccCCCCcEeEEEehHhhc
Confidence            4689999999999999988755422 244445 3666666652     233 33444433332453  4 9999999999


Q ss_pred             cCCCCC
Q 024350          263 CYLNSL  268 (269)
Q Consensus       263 d~~d~~  268 (269)
                      +.+|++
T Consensus       134 hLTD~d  139 (218)
T PF05891_consen  134 HLTDED  139 (218)
T ss_dssp             GS-HHH
T ss_pred             cCCHHH
Confidence            988865

; GO: 0008168 methyltransferase activity; PDB: 1XTP_A 2EX4_B.

>PF03602 Cons_hypoth95: Conserved hypothetical protein 95; InterPro: IPR004398 This entry contains Ribosomal RNA small subunit methyltransferase D as well as the putative rRNA methyltransferase YlbH

Probab=85.90  E-value=0.53  Score=38.61  Aligned_cols=63  Identities=22%  Similarity=0.219  Sum_probs=44.3

Q ss_pred             ccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-------CCceEEecccCCcC------CCC-cEEEe
Q 024350          194 VKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-------PGIDHVGGDLFESV------PKA-DTIFM  257 (269)
Q Consensus       194 ~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~~~------P~g-D~~~l  257 (269)
                      ..++||+=+|+|.++.+.+++--. +++.+|. +..+...+++       ++++.+.+|.+..+      .+. |++|+
T Consensus        43 g~~vLDLFaGSGalGlEALSRGA~-~v~fVE~~~~a~~~i~~N~~~l~~~~~~~v~~~d~~~~l~~~~~~~~~fDiIfl  120 (183)
T PF03602_consen   43 GARVLDLFAGSGALGLEALSRGAK-SVVFVEKNRKAIKIIKKNLEKLGLEDKIRVIKGDAFKFLLKLAKKGEKFDIIFL  120 (183)
T ss_dssp             T-EEEETT-TTSHHHHHHHHTT-S-EEEEEES-HHHHHHHHHHHHHHT-GGGEEEEESSHHHHHHHHHHCTS-EEEEEE
T ss_pred             CCeEEEcCCccCccHHHHHhcCCC-eEEEEECCHHHHHHHHHHHHHhCCCcceeeeccCHHHHHHhhcccCCCceEEEE
Confidence            479999999999999999988533 5777886 5666555542       57999999977622      233 88876

They methylate the guanosine in position 966 of 16S rRNA in the assembled 30S particle [].; GO: 0008168 methyltransferase activity, 0031167 rRNA methylation; PDB: 3P9N_A 2ESR_B 2IFT_A 1WS6_A 2FPO_B 2FHP_A.

>PF08784 RPA_C: Replication protein A C terminal; InterPro: IPR014892 This protein corresponds to the C-terminal of the single stranded DNA binding protein RPA (replication protein A)

Probab=85.88  E-value=1.4  Score=32.29  Aligned_cols=49  Identities=16%  Similarity=0.268  Sum_probs=37.5

Q ss_pred             HHhcChhHHHHh-cCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCccc
Q 024350           33 VVELDVFEIITK-AGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALH   88 (269)
Q Consensus        33 a~~lglfd~L~~-~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~   88 (269)
                      .++-.|++.|.. ...+..+++++|++.++++      +. -++..++.|...|++-
T Consensus        47 ~~~~~Vl~~i~~~~~~~~Gv~v~~I~~~l~~~------~~-~v~~al~~L~~eG~IY   96 (102)
T PF08784_consen   47 PLQDKVLNFIKQQPNSEEGVHVDEIAQQLGMS------EN-EVRKALDFLSNEGHIY   96 (102)
T ss_dssp             HHHHHHHHHHHC----TTTEEHHHHHHHSTS-------HH-HHHHHHHHHHHTTSEE
T ss_pred             HHHHHHHHHHHhcCCCCCcccHHHHHHHhCcC------HH-HHHHHHHHHHhCCeEe
Confidence            345567777766 2223579999999999997      67 8999999999999985

RPA is involved in many DNA metabolic pathways including DNA replication, DNA repair, recombination, cell cycle and DNA damage checkpoints. ; PDB: 1QUQ_C 2PQA_C 3KDF_B 2Z6K_B 2PI2_B 1L1O_E 1DPU_A 1Z1D_A.

>PF13545 HTH_Crp_2: Crp-like helix-turn-helix domain; PDB: 3LA2_A 3LA3_B 3LA7_A 3B02_A 3E97_A 2H6C_B 1OMI_A 2BGC_H 2BEO_A 2GAU_A

Probab=85.88  E-value=1.4  Score=30.12  Aligned_cols=42  Identities=14%  Similarity=0.214  Sum_probs=35.3

Q ss_pred             CCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecCh
Q 024350           50 KLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAP  102 (269)
Q Consensus        50 ~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~  102 (269)
                      ++|-++||..+|++      .. .+.|+|+.|...|++..   . .+.+....
T Consensus        28 ~lt~~~iA~~~g~s------r~-tv~r~l~~l~~~g~I~~---~-~~~i~I~d   69 (76)
T PF13545_consen   28 PLTQEEIADMLGVS------RE-TVSRILKRLKDEGIIEV---K-RGKIIILD   69 (76)
T ss_dssp             ESSHHHHHHHHTSC------HH-HHHHHHHHHHHTTSEEE---E-TTEEEESS
T ss_pred             cCCHHHHHHHHCCC------HH-HHHHHHHHHHHCCCEEE---c-CCEEEECC
Confidence            68999999999998      67 99999999999999993   2 45666544

...

>TIGR02147 Fsuc_second hypothetical protein, TIGR02147

Probab=85.30  E-value=2.1  Score=37.41  Aligned_cols=46  Identities=13%  Similarity=0.149  Sum_probs=38.7

Q ss_pred             CCCCHHHHHHhCC--CCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhc
Q 024350           49 AKLSVSEIVAQIP--LKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVS  104 (269)
Q Consensus        49 ~~~s~~eLA~~~~--~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s  104 (269)
                      +..++.+||+.++  ++      +. -++.-|+.|..+|+++   ++++|.|..|..+
T Consensus       136 ~~~~~~~ia~~l~p~is------~~-ev~~sL~~L~~~glik---k~~~g~y~~t~~~  183 (271)
T TIGR02147       136 FADDPEELAKRCFPKIS------AE-QVKESLDLLERLGLIK---KNEDGFYKQTDKA  183 (271)
T ss_pred             CCCCHHHHHHHhCCCCC------HH-HHHHHHHHHHHCCCee---ECCCCcEEeecce
Confidence            3447899999999  65      56 7899999999999999   5678999998765

This family consists of the 40 members of a paralogous protein family in the rumen anaerobe Fibrobacter succinogenes S85. Member proteins are about 270 residues long and appear to lack signal sequences and transmembrane helices. The only perfectly conserved residue is a glycine in an otherwise poorly conserved region, suggesting members are not enzymes. The family is not characterized.

>KOG2187 consensus tRNA uracil-5-methyltransferase and related tRNA-modifying enzymes [Translation, ribosomal structure and biogenesis]

Probab=85.27  E-value=0.85  Score=43.00  Aligned_cols=55  Identities=22%  Similarity=0.239  Sum_probs=42.7

Q ss_pred             CCCccEEEEeCCCchHHHHHHHHHCCCCeEEEee-hhHHHHhCCCC------CCceEEec---ccCC
Q 024350          191 FEHVKKLVDVGGGLGATLNMIISKYPHIKGINYD-LLYVIKNAPSY------PGIDHVGG---DLFE  247 (269)
Q Consensus       191 ~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~D-lp~vv~~a~~~------~ri~~~~g---D~~~  247 (269)
                      ++..+.++||-||+|.++.++++..  .++++++ .|+.++.|+.+      ...+|+.|   |.|.
T Consensus       381 l~~~k~llDv~CGTG~iglala~~~--~~ViGvEi~~~aV~dA~~nA~~NgisNa~Fi~gqaE~~~~  445 (534)
T KOG2187|consen  381 LPADKTLLDVCCGTGTIGLALARGV--KRVIGVEISPDAVEDAEKNAQINGISNATFIVGQAEDLFP  445 (534)
T ss_pred             CCCCcEEEEEeecCCceehhhhccc--cceeeeecChhhcchhhhcchhcCccceeeeecchhhccc
Confidence            4556899999999999998888764  4567776 48888888764      67888888   5554

>PRK13509 transcriptional repressor UlaR; Provisional

Probab=85.12  E-value=1.9  Score=37.18  Aligned_cols=45  Identities=13%  Similarity=0.228  Sum_probs=39.2

Q ss_pred             hcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccc
Q 024350           35 ELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHC   89 (269)
Q Consensus        35 ~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~   89 (269)
                      +..|.+.|.+.   +.++..|||+.+|++      +. .++|-|+.|...|++.+
T Consensus         7 ~~~Il~~l~~~---~~~~~~ela~~l~vS------~~-TirRdL~~Le~~g~i~r   51 (251)
T PRK13509          7 HQILLELLAQL---GFVTVEKVIERLGIS------PA-TARRDINKLDESGKLKK   51 (251)
T ss_pred             HHHHHHHHHHc---CCcCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCEEE
Confidence            34477888886   589999999999998      67 89999999999999983

>COG4565 CitB Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]

Probab=84.95  E-value=1.7  Score=36.48  Aligned_cols=43  Identities=23%  Similarity=0.332  Sum_probs=35.4

Q ss_pred             hhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccc
Q 024350           38 VFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHC   89 (269)
Q Consensus        38 lfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~   89 (269)
                      |.++|...  +.+.|.+|||+++|++      .- -.+|-|.+|++.|++..
T Consensus       163 i~~~~~~~--~~~~Taeela~~~giS------Rv-TaRRYLeyl~~~~~l~a  205 (224)
T COG4565         163 VREALKEP--DQELTAEELAQALGIS------RV-TARRYLEYLVSNGILEA  205 (224)
T ss_pred             HHHHHhCc--CCccCHHHHHHHhCcc------HH-HHHHHHHHHHhcCeeeE
Confidence            45566632  2689999999999998      45 78999999999999984

>COG3897 Predicted methyltransferase [General function prediction only]

Probab=84.88  E-value=3.3  Score=34.38  Aligned_cols=73  Identities=16%  Similarity=0.147  Sum_probs=49.6

Q ss_pred             CCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-----CCceEEecccCCcCCCC-cEEEecccccc
Q 024350          191 FEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-----PGIDHVGGDLFESVPKA-DTIFMKVICVC  263 (269)
Q Consensus       191 ~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-----~ri~~~~gD~~~~~P~g-D~~~l~~iLhd  263 (269)
                      +=..++|+|.|.|+|..+++.+++--. ..+.-|. |-.+..++-+     -.|.+...|..- .|.+ |++++..++.+
T Consensus        77 tVrgkrVLd~gagsgLvaIAaa~aGA~-~v~a~d~~P~~~~ai~lNa~angv~i~~~~~d~~g-~~~~~Dl~LagDlfy~  154 (218)
T COG3897          77 TVRGKRVLDLGAGSGLVAIAAARAGAA-EVVAADIDPWLEQAIRLNAAANGVSILFTHADLIG-SPPAFDLLLAGDLFYN  154 (218)
T ss_pred             ccccceeeecccccChHHHHHHHhhhH-HHHhcCCChHHHHHhhcchhhccceeEEeeccccC-CCcceeEEEeeceecC
Confidence            335689999999999998887766322 2233343 5444444332     458888888776 4544 99999999887


Q ss_pred             CC
Q 024350          264 YL  265 (269)
Q Consensus       264 ~~  265 (269)
                      .+
T Consensus       155 ~~  156 (218)
T COG3897         155 HT  156 (218)
T ss_pred             ch
Confidence            54

>PF13404 HTH_AsnC-type: AsnC-type helix-turn-helix domain; PDB: 2ZNY_E 2ZNZ_G 1RI7_A 2CYY_A 2E1C_A 2VC1_B 2QZ8_A 2W29_C 2IVM_B 2VBX_B

Probab=84.65  E-value=1.7  Score=26.41  Aligned_cols=27  Identities=11%  Similarity=0.390  Sum_probs=21.1

Q ss_pred             HhcChhHHHHhcCCCCCCCHHHHHHhCCCC
Q 024350           34 VELDVFEIITKAGPGAKLSVSEIVAQIPLK   63 (269)
Q Consensus        34 ~~lglfd~L~~~g~~~~~s~~eLA~~~~~~   63 (269)
                      ++..|...|...   +..|..+||+.+|++
T Consensus         4 ~D~~Il~~Lq~d---~r~s~~~la~~lglS   30 (42)
T PF13404_consen    4 LDRKILRLLQED---GRRSYAELAEELGLS   30 (42)
T ss_dssp             HHHHHHHHHHH----TTS-HHHHHHHHTS-
T ss_pred             HHHHHHHHHHHc---CCccHHHHHHHHCcC
Confidence            566788899886   599999999999998

...

>PRK10742 putative methyltransferase; Provisional

Probab=84.46  E-value=2.1  Score=36.91  Aligned_cols=73  Identities=12%  Similarity=0.160  Sum_probs=51.8

Q ss_pred             HHHHHhccCCCCc--cEEEEeCCCchHHHHHHHHHCCCCeEEEeehhHHHH-h-------CC------C-C-CCceEEec
Q 024350          182 EKVLESYKGFEHV--KKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIK-N-------AP------S-Y-PGIDHVGG  243 (269)
Q Consensus       182 ~~~~~~~~~~~~~--~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp~vv~-~-------a~------~-~-~ri~~~~g  243 (269)
                      +.+++... +++.  .+|+|+=+|.|..+..++.+  +++++.+|...++. .       +.      . . .|++++.+
T Consensus        76 ~~l~kAvg-lk~g~~p~VLD~TAGlG~Da~~las~--G~~V~~vEr~p~vaalL~dgL~ra~~~~~~~~~~~~ri~l~~~  152 (250)
T PRK10742         76 EAVAKAVG-IKGDYLPDVVDATAGLGRDAFVLASV--GCRVRMLERNPVVAALLDDGLARGYADAEIGGWLQERLQLIHA  152 (250)
T ss_pred             cHHHHHhC-CCCCCCCEEEECCCCccHHHHHHHHc--CCEEEEEECCHHHHHHHHHHHHHhhhccccchhhhceEEEEeC
Confidence            35566665 5543  49999999999999999988  77789999744442 2       11      1 1 57999999


Q ss_pred             ccCCc---CCCC-cEEEe
Q 024350          244 DLFES---VPKA-DTIFM  257 (269)
Q Consensus       244 D~~~~---~P~g-D~~~l  257 (269)
                      |..+-   .+.. |+|++
T Consensus       153 da~~~L~~~~~~fDVVYl  170 (250)
T PRK10742        153 SSLTALTDITPRPQVVYL  170 (250)
T ss_pred             cHHHHHhhCCCCCcEEEE
Confidence            98873   3334 88886

>PF12793 SgrR_N: Sugar transport-related sRNA regulator N-term

Probab=84.38  E-value=1.7  Score=32.79  Aligned_cols=35  Identities=6%  Similarity=0.078  Sum_probs=32.2

Q ss_pred             CCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccce
Q 024350           49 AKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCS   90 (269)
Q Consensus        49 ~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~   90 (269)
                      .++|++|||+.+..+      ++ .++.+|+-|...|.++..
T Consensus        18 ~~vtl~elA~~l~cS------~R-n~r~lLkkm~~~gWi~W~   52 (115)
T PF12793_consen   18 VEVTLDELAELLFCS------RR-NARTLLKKMQEEGWITWQ   52 (115)
T ss_pred             cceeHHHHHHHhCCC------HH-HHHHHHHHHHHCCCeeee
Confidence            468999999999998      77 999999999999999964

>PRK09775 putative DNA-binding transcriptional regulator; Provisional

Probab=84.26  E-value=1.6  Score=40.89  Aligned_cols=52  Identities=21%  Similarity=0.243  Sum_probs=38.2

Q ss_pred             hhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecCh
Q 024350           38 VFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAP  102 (269)
Q Consensus        38 lfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~  102 (269)
                      |-..|..    ||.|+.||++.+|++      .. .+.+.|+.|  .|+|...++...-+|+++.
T Consensus         5 ~~~~L~~----g~~~~~eL~~~l~~s------q~-~~s~~L~~L--~~~V~~~~~gr~~~Y~l~~   56 (442)
T PRK09775          5 LTTLLLQ----GPLSAAELAARLGVS------QA-TLSRLLAAL--GDQVVRFGKARATRYALLR   56 (442)
T ss_pred             HHHHHhc----CCCCHHHHHHHhCCC------HH-HHHHHHHHh--hcceeEeccCceEEEEecc
Confidence            4455665    799999999999998      56 899999999  8998854322234465544

>PF04072 LCM: Leucine carboxyl methyltransferase; InterPro: IPR007213 This entry represents a group of leucine carboxymethyltransferases which methylate the carboxyl group of leucine residues to form alpha-leucine ester residues

Probab=84.21  E-value=1.7  Score=35.42  Aligned_cols=75  Identities=16%  Similarity=0.191  Sum_probs=50.4

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeehhHHHHhCCC----C-----CCceEEecccCCc-----CC------CC
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPS----Y-----PGIDHVGGDLFES-----VP------KA  252 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp~vv~~a~~----~-----~ri~~~~gD~~~~-----~P------~g  252 (269)
                      +...||-+|||-=+..-++...+++++.+=+|+|+|++.-++    .     ..+++++.|+.++     ++      ..
T Consensus        78 ~~~qvV~LGaGlDTr~~Rl~~~~~~~~~~evD~p~v~~~K~~~l~~~~~~~~~~~~~v~~Dl~~~~~~~~L~~~g~~~~~  157 (183)
T PF04072_consen   78 GARQVVNLGAGLDTRAYRLDNPAGGVRWFEVDLPEVIALKRRLLPESGARPPANYRYVPADLRDDSWIDALPKAGFDPDR  157 (183)
T ss_dssp             TESEEEEET-TT--HHHHHHHTTTTEEEEEEE-HHHHHHHHHHHHHTHHHHHEESSEEES-TTSHHHHHHHHHCTT-TTS
T ss_pred             CCcEEEEcCCCCCchHHHhhccccceEEEEeCCHHHHHHHHHHHHhCcccCCcceeEEeccccchhhHHHHHHhCCCCCC
Confidence            456999999999999999999999999999999999975433    1     2367899999962     22      12


Q ss_pred             -cEEEeccccccCCCC
Q 024350          253 -DTIFMKVICVCYLNS  267 (269)
Q Consensus       253 -D~~~l~~iLhd~~d~  267 (269)
                       -++++--++.+.+.+
T Consensus       158 ptl~i~Egvl~Yl~~~  173 (183)
T PF04072_consen  158 PTLFIAEGVLMYLSPE  173 (183)
T ss_dssp             EEEEEEESSGGGS-HH
T ss_pred             CeEEEEcchhhcCCHH
Confidence             356666666665543

It includes LCTM1 which regulates the activity of serine/threonine phosphatase 2A (PP2A) through methylation of the C-terminal leucine residue of the catalytic subunit of PP2A [, , ]. This affects the heteromultimeric composition of PP2A which in turn affects protein recognition and substrate specificity. Like many other methyltransferases LCTM1 uses S-adenosylmethionine (SAM) as the methyl donor. LCTM1 contains the common SAM-dependent methyltransferase core fold, with various insertions and additions creating a specific PP2A binding site []. This entry also contains LCTM2, a homologue of LCTM1 which is not necessary for PP2A methylation and whose function is not clear.; GO: 0008168 methyltransferase activity; PDB: 2UYQ_A 2CKD_B 2UYO_A 2ZZK_B 2ZWA_B 2ZW9_B 1RJE_C 2OB2_B 1RJF_A 1RJD_A ....

>KOG1331 consensus Predicted methyltransferase [General function prediction only]

Probab=84.09  E-value=0.59  Score=40.79  Aligned_cols=70  Identities=20%  Similarity=0.143  Sum_probs=51.6

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeehhHHH-HhCCCCCCceEEecccCC-cCCC-C-cEEEeccccccCCC
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVI-KNAPSYPGIDHVGGDLFE-SVPK-A-DTIFMKVICVCYLN  266 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp~vv-~~a~~~~ri~~~~gD~~~-~~P~-g-D~~~l~~iLhd~~d  266 (269)
                      ....++|+|||.|.++.    -+|.+..+..|+-.-+ ..+++.+.....-.|..+ |.++ . |..+=..++|.|+-
T Consensus        45 ~gsv~~d~gCGngky~~----~~p~~~~ig~D~c~~l~~~ak~~~~~~~~~ad~l~~p~~~~s~d~~lsiavihhlsT  118 (293)
T KOG1331|consen   45 TGSVGLDVGCGNGKYLG----VNPLCLIIGCDLCTGLLGGAKRSGGDNVCRADALKLPFREESFDAALSIAVIHHLST  118 (293)
T ss_pred             CcceeeecccCCcccCc----CCCcceeeecchhhhhccccccCCCceeehhhhhcCCCCCCccccchhhhhhhhhhh
Confidence            35789999999998763    4588889999985444 444443333677788888 6664 4 99999999998864

>PF05219 DREV: DREV methyltransferase; InterPro: IPR007884 This family contains DREV protein homologues from several eukaryotes

Probab=83.79  E-value=1.9  Score=37.24  Aligned_cols=69  Identities=14%  Similarity=0.107  Sum_probs=46.7

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCCCCceEEecccCCcCCC-CcEEEeccccccC
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSYPGIDHVGGDLFESVPK-ADTIFMKVICVCY  264 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~~ri~~~~gD~~~~~P~-gD~~~l~~iLhd~  264 (269)
                      +..+++|||.|.|.....++..+.++.+|  +. +.+....+ ..+++++..|=+..-+. -|+|.+-|+|--.
T Consensus        94 ~~~~lLDlGAGdG~VT~~l~~~f~~v~aT--E~S~~Mr~rL~-~kg~~vl~~~~w~~~~~~fDvIscLNvLDRc  164 (265)
T PF05219_consen   94 KDKSLLDLGAGDGEVTERLAPLFKEVYAT--EASPPMRWRLS-KKGFTVLDIDDWQQTDFKFDVISCLNVLDRC  164 (265)
T ss_pred             cCCceEEecCCCcHHHHHHHhhcceEEee--cCCHHHHHHHH-hCCCeEEehhhhhccCCceEEEeehhhhhcc
Confidence            45789999999999999999988885443  33 33333222 25677776654443332 3999999988543

The function of this protein is unknown []. However, these proteins appear to be related to other methyltransferases.

>KOG1975 consensus mRNA cap methyltransferase [RNA processing and modification]

Probab=83.73  E-value=1.9  Score=38.47  Aligned_cols=90  Identities=21%  Similarity=0.274  Sum_probs=61.1

Q ss_pred             HHHHHHHHHhhchhhHHHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCC-eEEEeehhHH-HHhCCCC--------
Q 024350          166 NDVFSNGMLSHTSIVMEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHI-KGINYDLLYV-IKNAPSY--------  235 (269)
Q Consensus       166 ~~~f~~~m~~~~~~~~~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l-~~vv~Dlp~v-v~~a~~~--------  235 (269)
                      .++|+.+|.+       .++..|-  +....++|+|||-|..++..-++  .+ ..|..|+.+| |+.+++.        
T Consensus        99 lRnfNNwIKs-------~LI~~y~--~~~~~~~~LgCGKGGDLlKw~kA--gI~~~igiDIAevSI~qa~~RYrdm~~r~  167 (389)
T KOG1975|consen   99 LRNFNNWIKS-------VLINLYT--KRGDDVLDLGCGKGGDLLKWDKA--GIGEYIGIDIAEVSINQARKRYRDMKNRF  167 (389)
T ss_pred             hhhhhHHHHH-------HHHHHHh--ccccccceeccCCcccHhHhhhh--cccceEeeehhhccHHHHHHHHHHHHhhh
Confidence            4678877765       2344443  34567889999999988877755  33 3588998655 4555542        


Q ss_pred             C----CceEEecccCCc-----C----CCCcEEEecccccc-CCC
Q 024350          236 P----GIDHVGGDLFES-----V----PKADTIFMKVICVC-YLN  266 (269)
Q Consensus       236 ~----ri~~~~gD~~~~-----~----P~gD~~~l~~iLhd-~~d  266 (269)
                      +    .+.|+++|-|..     +    |+-|++.+--.||+ |..
T Consensus       168 ~~~~f~a~f~~~Dc~~~~l~d~~e~~dp~fDivScQF~~HYaFet  212 (389)
T KOG1975|consen  168 KKFIFTAVFIAADCFKERLMDLLEFKDPRFDIVSCQFAFHYAFET  212 (389)
T ss_pred             hcccceeEEEEeccchhHHHHhccCCCCCcceeeeeeeEeeeecc
Confidence            2    367899988852     2    23499999999996 443

>TIGR01321 TrpR trp operon repressor, proteobacterial

Probab=83.51  E-value=3.8  Score=29.71  Aligned_cols=40  Identities=15%  Similarity=0.168  Sum_probs=31.8

Q ss_pred             HHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHH
Q 024350           32 AVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLV   82 (269)
Q Consensus        32 ~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~   82 (269)
                      .+.+.||+..|-.    +++|-.|||+.+|++      .. .+.|.=+.|.
T Consensus        41 l~~R~~i~~~Ll~----~~~tQrEIa~~lGiS------~a-tIsR~sn~lk   80 (94)
T TIGR01321        41 LGDRIRIVNELLN----GNMSQREIASKLGVS------IA-TITRGSNNLK   80 (94)
T ss_pred             HHHHHHHHHHHHh----CCCCHHHHHHHhCCC------hh-hhhHHHhhcc
Confidence            4567899998877    589999999999998      55 6666666654

This model represents TrpR, the repressor of the trp operon. It is found so far only in the gamma subdivision of the proteobacteria and in Chlamydia trachomatis. All members belong to species capable of tryptophan biosynthesis.

>PF13730 HTH_36: Helix-turn-helix domain

Probab=83.31  E-value=1.9  Score=27.43  Aligned_cols=29  Identities=10%  Similarity=0.208  Sum_probs=26.9

Q ss_pred             CHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcc
Q 024350           52 SVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNAL   87 (269)
Q Consensus        52 s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l   87 (269)
                      |.+.||+.+|++      .+ .+.+.++.|...|++
T Consensus        27 S~~~la~~~g~s------~~-Tv~~~i~~L~~~G~I   55 (55)
T PF13730_consen   27 SQETLAKDLGVS------RR-TVQRAIKELEEKGLI   55 (55)
T ss_pred             CHHHHHHHHCcC------HH-HHHHHHHHHHHCcCC
Confidence            899999999998      67 999999999999985

>COG1510 Predicted transcriptional regulators [Transcription]

Probab=83.02  E-value=1.5  Score=35.40  Aligned_cols=35  Identities=17%  Similarity=0.260  Sum_probs=31.7

Q ss_pred             CCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccce
Q 024350           49 AKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCS   90 (269)
Q Consensus        49 ~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~   90 (269)
                      +|+|++||++++|++      -. .+..-|+-|...|++.+.
T Consensus        40 ~Pmtl~Ei~E~lg~S------ks-~vS~~lkkL~~~~lV~~~   74 (177)
T COG1510          40 KPLTLDEIAEALGMS------KS-NVSMGLKKLQDWNLVKKV   74 (177)
T ss_pred             CCccHHHHHHHHCCC------cc-hHHHHHHHHHhcchHHhh
Confidence            799999999999998      45 889999999999999843

>COG3413 Predicted DNA binding protein [General function prediction only]

Probab=82.59  E-value=2.1  Score=35.95  Aligned_cols=35  Identities=6%  Similarity=0.210  Sum_probs=30.6

Q ss_pred             hhHHHHHHHHHHhcChhHHHHhcCCCCCCCHHHHHHhCCCC
Q 024350           23 AIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLK   63 (269)
Q Consensus        23 ~~~~~~~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~   63 (269)
                      ...+-.+|+.|.++|-||.=.      .++..|||+.+|++
T Consensus       157 TdrQ~~vL~~A~~~GYFd~PR------~~~l~dLA~~lGIS  191 (215)
T COG3413         157 TDRQLEVLRLAYKMGYFDYPR------RVSLKDLAKELGIS  191 (215)
T ss_pred             CHHHHHHHHHHHHcCCCCCCc------cCCHHHHHHHhCCC
Confidence            345778999999999999754      59999999999998

>PRK00215 LexA repressor; Validated

Probab=82.54  E-value=3.3  Score=34.33  Aligned_cols=34  Identities=18%  Similarity=0.132  Sum_probs=31.1

Q ss_pred             CCCCHHHHHHhCCC-CCCCchhHHHHHHHHHHHHHhcCcccc
Q 024350           49 AKLSVSEIVAQIPL-KDNNPEAAAMMLDRVLRLLVSYNALHC   89 (269)
Q Consensus        49 ~~~s~~eLA~~~~~-~~~~~~~~~~~l~rlL~~L~~~g~l~~   89 (269)
                      .+.|..|||+.+|+ +      .. .+.|+|+.|...|++++
T Consensus        22 ~~~s~~ela~~~~~~~------~~-tv~~~l~~L~~~g~i~~   56 (205)
T PRK00215         22 YPPSRREIADALGLRS------PS-AVHEHLKALERKGFIRR   56 (205)
T ss_pred             CCCCHHHHHHHhCCCC------hH-HHHHHHHHHHHCCCEEe
Confidence            57899999999999 7      56 89999999999999985

>PRK10906 DNA-binding transcriptional repressor GlpR; Provisional

Probab=81.90  E-value=2.5  Score=36.45  Aligned_cols=45  Identities=18%  Similarity=0.274  Sum_probs=39.3

Q ss_pred             hcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccc
Q 024350           35 ELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHC   89 (269)
Q Consensus        35 ~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~   89 (269)
                      +..|.+.|.+.   +.+++.|||+.++++      +. -++|-|..|...|++.+
T Consensus         7 ~~~Il~~l~~~---~~~~~~ela~~l~vS------~~-TiRRdL~~Le~~g~l~r   51 (252)
T PRK10906          7 HDAIIELVKQQ---GYVSTEELVEHFSVS------PQ-TIRRDLNDLAEQNKILR   51 (252)
T ss_pred             HHHHHHHHHHc---CCEeHHHHHHHhCCC------HH-HHHHHHHHHHHCCCEEE
Confidence            44577888876   589999999999998      67 89999999999999983

>PF12324 HTH_15: Helix-turn-helix domain of alkylmercury lyase; InterPro: IPR024259 Alkylmercury lyase (EC:4

Probab=81.77  E-value=1.9  Score=29.99  Aligned_cols=35  Identities=14%  Similarity=0.338  Sum_probs=23.1

Q ss_pred             hhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHH
Q 024350           38 VFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLV   82 (269)
Q Consensus        38 lfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~   82 (269)
                      ++..|+. |  +|.|..+||.++|.+      .+ .+...|..+-
T Consensus        29 LLr~LA~-G--~PVt~~~LA~a~g~~------~e-~v~~~L~~~p   63 (77)
T PF12324_consen   29 LLRLLAK-G--QPVTVEQLAAALGWP------VE-EVRAALAAMP   63 (77)
T ss_dssp             HHHHHTT-T--S-B-HHHHHHHHT--------HH-HHHHHHHH-T
T ss_pred             HHHHHHc-C--CCcCHHHHHHHHCCC------HH-HHHHHHHhCC
Confidence            6777887 5  799999999999996      45 6666666554

99.1.2) cleaves the carbon-mercury bond of organomercurials such as phenylmercuric acetate. This entry represents the N-terminal helix-turn-helix domain.; PDB: 3FN8_B 3F2G_B 3F0P_A 3F2F_B 3F2H_A 3F0O_B 1S6L_A.

>PF04182 B-block_TFIIIC: B-block binding subunit of TFIIIC; InterPro: IPR007309 Yeast transcription factor IIIC (TFIIIC) is a multisubunit protein complex that interacts with two control elements of class III promoters called the A and B blocks

Probab=81.50  E-value=2.1  Score=29.55  Aligned_cols=48  Identities=10%  Similarity=0.115  Sum_probs=40.6

Q ss_pred             HhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccc
Q 024350           34 VELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHC   89 (269)
Q Consensus        34 ~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~   89 (269)
                      .+..+++.++.++. .+++-.+|+..+|.|      ++ .+...++.|...|++.+
T Consensus         3 ~~~~~Le~I~rsR~-~Gi~q~~L~~~~~~D------~r-~i~~~~k~L~~~gLI~k   50 (75)
T PF04182_consen    3 IQYCLLERIARSRY-NGITQSDLSKLLGID------PR-SIFYRLKKLEKKGLIVK   50 (75)
T ss_pred             hHHHHHHHHHhcCC-CCEehhHHHHHhCCC------ch-HHHHHHHHHHHCCCEEE
Confidence            45667888887654 468999999999997      56 99999999999999995

This family represents the subunit within TFIIIC involved in B-block binding []. Although defined as a yeast protein, it is also found in a number of other organisms.

>PLN02668 indole-3-acetate carboxyl methyltransferase

Probab=81.50  E-value=6.2  Score=36.29  Aligned_cols=72  Identities=17%  Similarity=0.169  Sum_probs=46.3

Q ss_pred             CccEEEEeCCCchHHHH--------HHHHH-------CCCCeEEEeehhH-----HHHhCCC---------------CCC
Q 024350          193 HVKKLVDVGGGLGATLN--------MIISK-------YPHIKGINYDLLY-----VIKNAPS---------------YPG  237 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~--------~l~~~-------~P~l~~vv~Dlp~-----vv~~a~~---------------~~r  237 (269)
                      +.-+|+|+|||+|..+.        ++.++       -|++++..=|+|.     +......               ..+
T Consensus        63 ~~~~iaDlGcs~G~ntl~~vs~iI~~i~~~~~~~~~~~pe~qv~~nDLP~NDFNtlF~~L~~~~~~~~~~~~~~~~~~~~  142 (386)
T PLN02668         63 VPFTAVDLGCSSGSNTIHIIDVIVKHMSKRYESAGLDPPEFSAFFSDLPSNDFNTLFQLLPPLANYGGSMEECLAASGHR  142 (386)
T ss_pred             cceeEEEecCCCCccHHHHHHHHHHHHHHHhhhcCCCCCcceEEecCCCCCCHHHHHhhchhhhhhhcchhhhccccCCC
Confidence            46689999999995432        33333       3567788778872     1121110               012


Q ss_pred             ---ceEEecccCC-cCCCC--cEEEeccccccC
Q 024350          238 ---IDHVGGDLFE-SVPKA--DTIFMKVICVCY  264 (269)
Q Consensus       238 ---i~~~~gD~~~-~~P~g--D~~~l~~iLhd~  264 (269)
                         +..++|.|+. -+|+.  ++++-+.-||=.
T Consensus       143 ~~f~~gvpGSFY~RLfP~~Slh~~~Ss~slHWL  175 (386)
T PLN02668        143 SYFAAGVPGSFYRRLFPARSIDVFHSAFSLHWL  175 (386)
T ss_pred             ceEEEecCccccccccCCCceEEEEeeccceec
Confidence               4567799999 68864  888888888743

>PF14338 Mrr_N: Mrr N-terminal domain

Probab=81.48  E-value=17  Score=25.99  Aligned_cols=66  Identities=9%  Similarity=0.124  Sum_probs=39.6

Q ss_pred             hhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhchhhhcC
Q 024350           38 VFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSKYFVRN  110 (269)
Q Consensus        38 lfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s~~l~~~  110 (269)
                      |.+.+.+.   -.+|.++....+.-.++.+.=.. .+.=-+-.|...|+++   .+..|.|++|+.|+.+...
T Consensus        25 i~~~v~~~---~~ls~e~~~~~~~sg~~~~~~~~-ri~Wa~~~L~~aGli~---~~~rG~~~iT~~G~~~l~~   90 (92)
T PF14338_consen   25 IYERVAER---FGLSDEERNERLPSGQGYSRFKN-RIRWARSYLKKAGLIE---RPKRGIWRITEKGRKALAE   90 (92)
T ss_pred             HHHHHHHH---hCCCHHHHHHHcccCCcchhHHH-hHHHHHHHHHHCCCcc---CCCCCceEECHhHHHHHhh
Confidence            45555553   24666665555421100111012 4455577899999999   5567999999999966544

>PRK10411 DNA-binding transcriptional activator FucR; Provisional

Probab=81.48  E-value=3.9  Score=34.99  Aligned_cols=45  Identities=11%  Similarity=0.236  Sum_probs=38.9

Q ss_pred             hcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccc
Q 024350           35 ELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHC   89 (269)
Q Consensus        35 ~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~   89 (269)
                      +..|.+.|.+.   +.++.+|||+.++++      +. .++|-|..|...|.+.+
T Consensus         6 ~~~Il~~l~~~---~~~~~~eLa~~l~VS------~~-TiRRdL~~L~~~~~l~r   50 (240)
T PRK10411          6 QQAIVDLLLNH---TSLTTEALAEQLNVS------KE-TIRRDLNELQTQGKILR   50 (240)
T ss_pred             HHHHHHHHHHc---CCCcHHHHHHHHCcC------HH-HHHHHHHHHHHCCCEEE
Confidence            34477888876   589999999999998      67 99999999999999983

>TIGR00308 TRM1 tRNA(guanine-26,N2-N2) methyltransferase

Probab=81.25  E-value=1.3  Score=40.57  Aligned_cols=63  Identities=10%  Similarity=0.064  Sum_probs=46.5

Q ss_pred             cEEEEeCCCchHHHHHHHHHCCCC-eEEEeeh-hHHHHhCCCC------CCceEEecccCCcCC---C-CcEEEe
Q 024350          195 KKLVDVGGGLGATLNMIISKYPHI-KGINYDL-LYVIKNAPSY------PGIDHVGGDLFESVP---K-ADTIFM  257 (269)
Q Consensus       195 ~~vvDvGGG~G~~~~~l~~~~P~l-~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~~~P---~-gD~~~l  257 (269)
                      .+++|.-+|+|..+++++++.++. +++..|+ |..++.++++      +.+++..+|.+.-+.   + -|++++
T Consensus        46 ~~vLD~faGsG~rgir~a~e~~ga~~Vv~nD~n~~Av~~i~~N~~~N~~~~~~v~~~Da~~~l~~~~~~fDvIdl  120 (374)
T TIGR00308        46 INIADALSASGIRAIRYAHEIEGVREVFANDINPKAVESIKNNVEYNSVENIEVPNEDAANVLRYRNRKFHVIDI  120 (374)
T ss_pred             CEEEECCCchhHHHHHHHhhCCCCCEEEEEeCCHHHHHHHHHHHHHhCCCcEEEEchhHHHHHHHhCCCCCEEEe
Confidence            589999999999999999997765 4678897 7777766542      457777788776222   2 277665

This enzyme is responsible for two methylations of a characteristic guanine of most tRNA molecules. The activity has been demonstrated for eukaryotic and archaeal proteins, which are active when expressed in E. coli, a species that lacks this enzyme. At least one Eubacterium, Aquifex aeolicus, has an ortholog, as do all completed archaeal genomes.

>PRK09802 DNA-binding transcriptional regulator AgaR; Provisional

Probab=81.10  E-value=3  Score=36.33  Aligned_cols=46  Identities=9%  Similarity=0.116  Sum_probs=40.4

Q ss_pred             HhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccc
Q 024350           34 VELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHC   89 (269)
Q Consensus        34 ~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~   89 (269)
                      ....|.+.|...   +.+|+.|||+.++++      +. -++|=|..|...|++.+
T Consensus        18 R~~~Il~~L~~~---~~vtv~eLa~~l~VS------~~-TIRRDL~~Le~~G~l~r   63 (269)
T PRK09802         18 RREQIIQRLRQQ---GSVQVNDLSALYGVS------TV-TIRNDLAFLEKQGIAVR   63 (269)
T ss_pred             HHHHHHHHHHHc---CCEeHHHHHHHHCCC------HH-HHHHHHHHHHhCCCeEE
Confidence            445678899886   489999999999998      67 99999999999999993

>PF05958 tRNA_U5-meth_tr: tRNA (Uracil-5-)-methyltransferase; InterPro: IPR010280 This family consists of (uracil-5-)-methyltransferases 2

Probab=80.72  E-value=1.1  Score=40.58  Aligned_cols=59  Identities=19%  Similarity=0.277  Sum_probs=39.2

Q ss_pred             HHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC------CCceEEecc
Q 024350          182 EKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY------PGIDHVGGD  244 (269)
Q Consensus       182 ~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD  244 (269)
                      ..+++.++ .++. .++|+=||.|.++..+++..-.  ++++|. ++.|+.|+.+      ++++|+.++
T Consensus       187 ~~~~~~l~-~~~~-~vlDlycG~G~fsl~la~~~~~--V~gvE~~~~av~~A~~Na~~N~i~n~~f~~~~  252 (352)
T PF05958_consen  187 EQALEWLD-LSKG-DVLDLYCGVGTFSLPLAKKAKK--VIGVEIVEEAVEDARENAKLNGIDNVEFIRGD  252 (352)
T ss_dssp             HHHHHHCT-T-TT-EEEEES-TTTCCHHHHHCCSSE--EEEEES-HHHHHHHHHHHHHTT--SEEEEE--
T ss_pred             HHHHHHhh-cCCC-cEEEEeecCCHHHHHHHhhCCe--EEEeeCCHHHHHHHHHHHHHcCCCcceEEEee
Confidence            33445444 3333 7999999999999999988754  566775 7777777642      778888654

1.1.35 from EC from bacteria, archaea and eukaryotes. A 5-methyluridine (m(5)U) residue at position 54 is a conserved feature of bacterial and eukaryotic tRNAs. The methylation of U54 is catalysed by the tRNA(m5U54)methyltransferase, which in Saccharomyces cerevisiae is encoded by the nonessential TRM2 gene. It is thought that tRNA modification enzymes might have a role in tRNA maturation not necessarily linked to their known catalytic activity []. This protein family also contains the 23SrRNA methyltransferases, first proposed to be RNA methyltransferases by homology to the TrmA family. The member from Escherichia coli has now been shown to act as the 23S RNA methyltransferase for the conserved U1939. The gene is now designated rumA and was previously designated ygcA [].; GO: 0008173 RNA methyltransferase activity, 0006396 RNA processing; PDB: 2VS1_A 2JJQ_A 2BH2_A 1UWV_A 3BT7_B.

>PF02796 HTH_7: Helix-turn-helix domain of resolvase; InterPro: IPR006120 Site-specific recombination plays an important role in DNA rearrangement in prokaryotic organisms

Probab=80.62  E-value=2.3  Score=26.10  Aligned_cols=23  Identities=26%  Similarity=0.381  Sum_probs=16.1

Q ss_pred             CCCHHHHHHhCCCCCCCchhHHHHHHHHHH
Q 024350           50 KLSVSEIVAQIPLKDNNPEAAAMMLDRVLR   79 (269)
Q Consensus        50 ~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~   79 (269)
                      +.|+.+||+.+|++      .. -+.|+|+
T Consensus        21 G~si~~IA~~~gvs------r~-TvyR~l~   43 (45)
T PF02796_consen   21 GMSIAEIAKQFGVS------RS-TVYRYLN   43 (45)
T ss_dssp             T--HHHHHHHTTS-------HH-HHHHHHC
T ss_pred             CCCHHHHHHHHCcC------HH-HHHHHHh
Confidence            49999999999997      55 7777663

Two types of site-specific recombination are known to occur: Recombination between inverted repeats resulting in the reversal of a DNA segment. Recombination between repeat sequences on two DNA molecules resulting in their cointegration, or between repeats on one DNA molecule resulting in the excision of a DNA fragment. Site-specific recombination is characterised by a strand exchange mechanism that requires no DNA synthesis or high energy cofactor; the phosphodiester bond energy is conserved in a phospho-protein linkage during strand cleavage and re-ligation. Two unrelated families of recombinases are currently known []. The first, called the 'phage integrase' family, groups a number of bacterial phage and yeast plasmid enzymes. The second [], called the 'resolvase' family, groups enzymes which share the following structural characteristics: an N-terminal catalytic and dimerization domain that contains a conserved serine residue involved in the transient covalent attachment to DNA IPR006119 from INTERPRO, and a C-terminal helix-turn-helix DNA-binding domain. ; GO: 0000150 recombinase activity, 0003677 DNA binding, 0006310 DNA recombination; PDB: 1ZR2_A 2GM4_B 1RES_A 1ZR4_A 1RET_A 1GDT_B 2R0Q_C 1JKP_C 1IJW_C 1JJ6_C ....

>COG0116 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]

Probab=80.49  E-value=4.4  Score=37.09  Aligned_cols=67  Identities=18%  Similarity=0.136  Sum_probs=51.3

Q ss_pred             CCCccEEEEeCCCchHHHHHHHHHCCCCe---------------------------------------EEEeeh-hHHHH
Q 024350          191 FEHVKKLVDVGGGLGATLNMIISKYPHIK---------------------------------------GINYDL-LYVIK  230 (269)
Q Consensus       191 ~~~~~~vvDvGGG~G~~~~~l~~~~P~l~---------------------------------------~vv~Dl-p~vv~  230 (269)
                      |.....++|==||+|+++++.+...+|+-                                       .+..|+ |.+++
T Consensus       189 w~~~~pl~DPmCGSGTi~IEAAl~~~niAPg~~R~~~f~~w~~~~~~lw~~~~~ea~~~a~~~~~~~~~~G~Did~r~i~  268 (381)
T COG0116         189 WKPDEPLLDPMCGSGTILIEAALIAANIAPGLNRRFGFEFWDWFDKDLWDKLREEAEERARRGKELPIIYGSDIDPRHIE  268 (381)
T ss_pred             CCCCCccccCCCCccHHHHHHHHhccccCCccccccchhhhhhccHHHHHHHHHHHHHHHhhcCccceEEEecCCHHHHH
Confidence            77668999999999999999888886521                                       568897 77887


Q ss_pred             hCCCC-------CCceEEecccCC-cCC-CC-cEEEe
Q 024350          231 NAPSY-------PGIDHVGGDLFE-SVP-KA-DTIFM  257 (269)
Q Consensus       231 ~a~~~-------~ri~~~~gD~~~-~~P-~g-D~~~l  257 (269)
                      .|+.+       +.|+|..+|+-. +-| +. |+++.
T Consensus       269 ~Ak~NA~~AGv~d~I~f~~~d~~~l~~~~~~~gvvI~  305 (381)
T COG0116         269 GAKANARAAGVGDLIEFKQADATDLKEPLEEYGVVIS  305 (381)
T ss_pred             HHHHHHHhcCCCceEEEEEcchhhCCCCCCcCCEEEe
Confidence            76643       789999999876 333 33 76654

>PF09821 AAA_assoc_C: C-terminal AAA-associated domain; InterPro: IPR018632 Members of this family are found in various prokaryotic ABC transporters, predominantly involved in nitrate, sulphonate and bicarbonate translocation

Probab=80.26  E-value=3  Score=31.78  Aligned_cols=46  Identities=13%  Similarity=0.199  Sum_probs=39.9

Q ss_pred             HHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhchhhhcCC
Q 024350           55 EIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSKYFVRNN  111 (269)
Q Consensus        55 eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s~~l~~~~  111 (269)
                      +||+.++++      .+ -|--+++++..+||++   . .+|...+|+.|+.++..+
T Consensus         2 ~La~~l~~e------iD-dL~p~~eAaelLgf~~---~-~~Gdi~LT~~G~~f~~a~   47 (120)
T PF09821_consen    2 QLADELHLE------ID-DLLPIVEAAELLGFAE---V-EEGDIRLTPLGRRFAEAD   47 (120)
T ss_pred             chHHHhCCc------HH-HHHHHHHHHHHcCCee---e-cCCcEEeccchHHHHHCC
Confidence            588999997      67 8999999999999999   3 468899999999888665

>PRK10434 srlR DNA-bindng transcriptional repressor SrlR; Provisional

Probab=80.23  E-value=2.8  Score=36.23  Aligned_cols=45  Identities=18%  Similarity=0.236  Sum_probs=39.7

Q ss_pred             hcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccc
Q 024350           35 ELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHC   89 (269)
Q Consensus        35 ~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~   89 (269)
                      +..|.+.|.+.   +.+++.|||+.++++      +. .++|=|+.|...|++.+
T Consensus         7 ~~~Il~~L~~~---~~v~v~eLa~~l~VS------~~-TIRRDL~~Le~~g~l~r   51 (256)
T PRK10434          7 QAAILEYLQKQ---GKTSVEELAQYFDTT------GT-TIRKDLVILEHAGTVIR   51 (256)
T ss_pred             HHHHHHHHHHc---CCEEHHHHHHHHCCC------HH-HHHHHHHHHHHCCCEEE
Confidence            45578889886   589999999999998      67 99999999999999983

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	269
1kyw_A	365	Crystal Structure Analysis Of Caffeic Acid5-Hydroxy		3e-70
3reo_A	368	Monolignol O-Methyltransferase (Momt) Length = 368		1e-65
3p9c_A	364	Crystal Structure Of Perennial Ryegrass Lpomt1 Boun		1e-55
1fp1_D	372	Crystal Structure Analysis Of Chalcone O-Methyltran		7e-42
1fpq_A	372	Crystal Structure Analysis Of Selenomethionine Subs		5e-33
1fp2_A	352	Crystal Structure Analysis Of Isoflavone O-Methyltr		8e-12
1fpx_A	352	Crystal Structure Analysis Of Selenomethionine Subs		3e-10
2qyo_A	357	Crystal Structure Of Isoflavone O-Methyltransferase		1e-09
1zg3_A	358	Crystal Structure Of The Isoflavanone 4'-O-Methyltr		2e-08
1zga_A	357	Crystal Structure Of Isoflavanone 4'-o-methyltransf		2e-08
1zgj_A	354	Crystal Structure Of Isoflavanone 4'-O-Methyltransf		3e-08

>pdb|1KYW|A Chain A, Crystal Structure Analysis Of Caffeic Acid5-Hydroxyferulic Acid 35-O-Methyltransferase In Complex With 5- Hydroxyconiferaldehyde Length = 365

Iteration: 1
 Score =  261 bits (667), Expect = 3e-70,   Method: Compositional matrix adjust.
 Identities = 136/259 (52%), Positives = 181/259 (69%), Gaps = 11/259 (4%)
Query: 8   EEEANNFSYAMELASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNP 67
           +EEAN F  AM+LASA VLP  +++ +ELD+ EII KAGPGA++S  EI +Q+P    NP
Sbjct: 16  DEEANLF--AMQLASASVLPMILKSALELDLLEIIAKAGPGAQISPIEIASQLPT--TNP 71
Query: 68  EAAAMMLDRVLRLLVSYNALHCSF---VDG--QRLYSLAPVSKYFVRNNQNGASLRPYMA 122
           +A  +MLDR+LRLL  Y  L CS     DG  QRLY LA V+KY V+N ++G S+     
Sbjct: 72  DAP-VMLDRMLRLLACYIILTCSVRTQQDGKVQRLYGLATVAKYLVKN-EDGVSISALNL 129
Query: 123 LSLDKVLMDGWFRLKGQILEGGIAFNKAHGMHIYDYLGVDSSFNDVFSNGMLSHTSIVME 182
           ++ DKVLM+ W+ LK  +L+GGI FNKA+GM  ++Y G D  FN VF+ GM  H++I M+
Sbjct: 130 MNQDKVLMESWYHLKDAVLDGGIPFNKAYGMTAFEYHGTDPRFNKVFNKGMSDHSTITMK 189
Query: 183 KVLESYKGFEHXXXXXXXXXXXXATLNMIISKYPHIKGINYDLLYVIKNAPSYPGIDHVG 242
           K+LE+Y GFE             A +N I+SKYP IKGIN+DL +VI++APSYPG++HVG
Sbjct: 190 KILETYTGFEGLKSLVDVGGGTGAVINTIVSKYPTIKGINFDLPHVIEDAPSYPGVEHVG 249
Query: 243 GDLFESVPKADTIFMKVIC 261
           GD+F S+PKAD +FMK IC
Sbjct: 250 GDMFVSIPKADAVFMKWIC 268

>pdb|3REO|A Chain A, Monolignol O-Methyltransferase (Momt) Length = 368

Iteration: 1
 Score =  245 bits (626), Expect = 1e-65,   Method: Compositional matrix adjust.
 Identities = 130/261 (49%), Positives = 178/261 (68%), Gaps = 12/261 (4%)
Query: 7   QEEEANNFSYAMELASAIVLPAAMQAVVELDVFEIITKA-GPGAKLSVSEIVAQIPLKDN 65
            +EEAN F  AM+LASA VLP A++A +ELDV EI+ K+  P   +S +EI AQ+P    
Sbjct: 17  SDEEANLF--AMQLASAAVLPMALKAAIELDVLEIMAKSVPPSGYISPAEIAAQLP--TT 72
Query: 66  NPEAAAMMLDRVLRLLVSYNALHCSFVD-----GQRLYSLAPVSKYFVRNNQNGASLRPY 120
           NPEA  +MLDRVLRLL SY+ +  +  +      +RLY LAPV K F+  N++G SL P+
Sbjct: 73  NPEAP-VMLDRVLRLLASYSVVTYTLRELPSGKVERLYGLAPVCK-FLTKNEDGVSLAPF 130
Query: 121 MALSLDKVLMDGWFRLKGQILEGGIAFNKAHGMHIYDYLGVDSSFNDVFSNGMLSHTSIV 180
           + L+ DKVL++ WF LK  ILEGGI FNKA+GM+I+DY G D   N VF+ GM S+++I 
Sbjct: 131 LLLATDKVLLEPWFYLKDAILEGGIPFNKAYGMNIFDYHGTDHRINKVFNKGMSSNSTIT 190
Query: 181 MEKVLESYKGFEHXXXXXXXXXXXXATLNMIISKYPHIKGINYDLLYVIKNAPSYPGIDH 240
           M+K+LE Y GFE             A  +MI++KYP I  IN+DL +VI++AP++ G++H
Sbjct: 191 MKKILEMYNGFEGLTTIVDVGGGTGAVASMIVAKYPSINAINFDLPHVIQDAPAFSGVEH 250
Query: 241 VGGDLFESVPKADTIFMKVIC 261
           +GGD+F+ VPK D IF+K IC
Sbjct: 251 LGGDMFDGVPKGDAIFIKWIC 271

>pdb|3P9C|A Chain A, Crystal Structure Of Perennial Ryegrass Lpomt1 Bound To Sah Length = 364

Iteration: 1
 Score =  212 bits (540), Expect = 1e-55,   Method: Compositional matrix adjust.
 Identities = 115/265 (43%), Positives = 165/265 (62%), Gaps = 13/265 (4%)
Query: 1   MASIADQEEEANNFSYAMELASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQI 60
           MA+ AD++       +A++LAS+ VLP  ++  +EL + EI+  AG G  L+ +E+ A++
Sbjct: 12  MAASADEDA----CMFALQLASSSVLPMTLKNAIELGLLEILVAAG-GKSLTPTEVAAKL 66
Query: 61  PLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQ-----RLYSLAPVSKYFVRNNQNGA 115
           P    NPEA  M +DR+LRLL SYN + C   +G+     R Y  APV K F+  N++G 
Sbjct: 67  P-SAANPEAPDM-VDRILRLLASYNVVTCLVEEGKDGRLSRSYGAAPVCK-FLTPNEDGV 123
Query: 116 SLRPYMALSLDKVLMDGWFRLKGQILEGGIAFNKAHGMHIYDYLGVDSSFNDVFSNGMLS 175
           S+     ++ DKVLM+ W+ LK  +L+GGI FNKA+GM  ++Y G D  FN VF+ GM +
Sbjct: 124 SMAALALMNQDKVLMESWYYLKDAVLDGGIPFNKAYGMSAFEYHGTDPRFNRVFNEGMKN 183
Query: 176 HTSIVMEKVLESYKGFEHXXXXXXXXXXXXATLNMIISKYPHIKGINYDLLYVIKNAPSY 235
           H+ I+ +K+LE Y GFE             AT+  I + YP IKG+N+DL +VI  AP +
Sbjct: 184 HSIIITKKLLELYHGFEGLGTLVDVGGGVGATVAAIAAHYPTIKGVNFDLPHVISEAPQF 243
Query: 236 PGIDHVGGDLFESVPKADTIFMKVI 260
           PG+ HVGGD+F+ VP  DTI MK I
Sbjct: 244 PGVTHVGGDMFKEVPSGDTILMKWI 268

>pdb|1FP1|D Chain D, Crystal Structure Analysis Of Chalcone O-Methyltransferase Length = 372

Iteration: 1
 Score =  167 bits (422), Expect = 7e-42,   Method: Compositional matrix adjust.
 Identities = 100/270 (37%), Positives = 153/270 (56%), Gaps = 14/270 (5%)
Query: 1   MASIADQEEEANNFSYAMELASAIVLPAAMQAVVELDVFEIITKAGP-GAKLSVSEIVAQ 59
           +++ ++Q E++   S AM L + +V PA + A ++L++FEII KA P GA +S SEI ++
Sbjct: 13  ISATSEQTEDSACLS-AMVLTTNLVYPAVLNAAIDLNLFEIIAKATPPGAFMSPSEIASK 71
Query: 60  IPLKDNNPEAAAMMLDRVLRLLVSYNALHCS---FVDG--QRLYSLAPVSKYFVRNNQNG 114
           +P    + +     LDR+LRLL SY+ L  +     DG  +R+Y L+ V KY V +   G
Sbjct: 72  LPASTQHSDLPNR-LDRMLRLLASYSVLTSTTRTIEDGGAERVYGLSMVGKYLVPDESRG 130
Query: 115 --ASLRPYMALSLDKVLMDGWFRLKGQILEGGI-AFNKAHGMHIYDYLGVDSSFNDVFSN 171
             AS   ++       L+  W   K  +++  I  F   HG+  Y+++G D   N +F+ 
Sbjct: 131 YLASFTTFLCYP---ALLQVWMNFKEAVVDEDIDLFKNVHGVTKYEFMGKDKKMNQIFNK 187
Query: 172 GMLSHTSIVMEKVLESYKGFEHXXXXXXXXXXXXATLNMIISKYPHIKGINYDLLYVIKN 231
            M+   +  M+++LE Y GFE               L +IISKYP IKGIN+DL  VI+N
Sbjct: 188 SMVDVCATEMKRMLEIYTGFEGISTLVDVGGGSGRNLELIISKYPLIKGINFDLPQVIEN 247
Query: 232 APSYPGIDHVGGDLFESVPKADTIFMKVIC 261
           AP   GI+HVGGD+F SVP+ D + +K +C
Sbjct: 248 APPLSGIEHVGGDMFASVPQGDAMILKAVC 277

>pdb|1FPQ|A Chain A, Crystal Structure Analysis Of Selenomethionine Substituted Chalcone O- Methyltransferase Length = 372

Iteration: 1
 Score =  137 bits (346), Expect = 5e-33,   Method: Compositional matrix adjust.
 Identities = 95/270 (35%), Positives = 143/270 (52%), Gaps = 14/270 (5%)
Query: 1   MASIADQEEEANNFSYAMELASAIVLPAAMQAVVELDVFEIITKAGP-GAKLSVSEIVAQ 59
           +++ ++Q E++   S A  L + +V PA + A ++L++FEII KA P GA  S SEI ++
Sbjct: 13  ISATSEQTEDSACLS-AXVLTTNLVYPAVLNAAIDLNLFEIIAKATPPGAFXSPSEIASK 71
Query: 60  IPLKDNNPEAAAMMLDRVLRLLVSYNALHCS---FVDG--QRLYSLAPVSKYFVRNNQNG 114
           +P    + +    +  R LRLL SY+ L  +     DG  +R+Y L+ V KY V +   G
Sbjct: 72  LPASTQHSDLPNRLD-RXLRLLASYSVLTSTTRTIEDGGAERVYGLSXVGKYLVPDESRG 130
Query: 115 --ASLRPYMALSLDKVLMDGWFRLKGQILEGGIA-FNKAHGMHIYDYLGVDSSFNDVFSN 171
             AS   ++       L+  W   K  +++  I  F   HG+  Y++ G D   N +F+ 
Sbjct: 131 YLASFTTFLCYP---ALLQVWXNFKEAVVDEDIDLFKNVHGVTKYEFXGKDKKXNQIFNK 187
Query: 172 GMLSHTSIVMEKVLESYKGFEHXXXXXXXXXXXXATLNMIISKYPHIKGINYDLLYVIKN 231
             +   +   ++ LE Y GFE               L +IISKYP IKGIN+DL  VI+N
Sbjct: 188 SXVDVCATEXKRXLEIYTGFEGISTLVDVGGGSGRNLELIISKYPLIKGINFDLPQVIEN 247
Query: 232 APSYPGIDHVGGDLFESVPKADTIFMKVIC 261
           AP   GI+HVGGD F SVP+ D   +K +C
Sbjct: 248 APPLSGIEHVGGDXFASVPQGDAXILKAVC 277

>pdb|1FP2|A Chain A, Crystal Structure Analysis Of Isoflavone O-Methyltransferase Length = 352

Iteration: 1
 Score = 67.4 bits (163), Expect = 8e-12,   Method: Compositional matrix adjust.
 Identities = 56/239 (23%), Positives = 106/239 (44%), Gaps = 10/239 (4%)
Query: 23  AIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLV 82
           A +   +++  VE+++  II   G    +S+S +V+ + +    P +    + R++R L 
Sbjct: 26  AFIDSMSLKWAVEMNIPNIIQNHG--KPISLSNLVSILQV----PSSKIGNVRRLMRYL- 78
Query: 83  SYNALHCSFVDGQRLYSLAPVSKYFVRNNQNGASLRPYMALSLDKVLMDGWFRLKGQILE 142
           ++N         +  Y+L   S+  VR +     L P +   LD  L   +  LK  I E
Sbjct: 79  AHNGFFEIITKEEESYALTVASELLVRGSD--LCLAPMVECVLDPTLSGSYHELKKWIYE 136
Query: 143 GGIA-FNKAHGMHIYDYLGVDSSFNDVFSNGMLSHTSIVMEKVLESYKGFEHXXXXXXXX 201
             +  F    G   +D+L  +  +N  F++ M S + ++   + +    F+         
Sbjct: 137 EDLTLFGVTLGSGFWDFLDKNPEYNTSFNDAMASDSKLINLALRDCDFVFDGLESIVDVG 196
Query: 202 XXXXATLNMIISKYPHIKGINYDLLYVIKNAPSYPGIDHVGGDLFESVPKADTIFMKVI 260
                T  +I   +P +K I +D   V++N      + +VGGD+F S+P AD + +K I
Sbjct: 197 GGTGTTAKIICETFPKLKCIVFDRPQVVENLSGSNNLTYVGGDMFTSIPNADAVLLKYI 255

>pdb|1FPX|A Chain A, Crystal Structure Analysis Of Selenomethionine Substituted Isoflavone O-Methyltransferase Length = 352

Iteration: 1
 Score = 62.4 bits (150), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 55/239 (23%), Positives = 102/239 (42%), Gaps = 10/239 (4%)
Query: 23  AIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLV 82
           A +   +++  VE ++  II   G    +S+S +V+ + +    P +    + R+ R L 
Sbjct: 26  AFIDSXSLKWAVEXNIPNIIQNHG--KPISLSNLVSILQV----PSSKIGNVRRLXRYL- 78
Query: 83  SYNALHCSFVDGQRLYSLAPVSKYFVRNNQNGASLRPYMALSLDKVLMDGWFRLKGQILE 142
           ++N         +  Y+L   S+  VR +     L P +   LD  L   +  LK  I E
Sbjct: 79  AHNGFFEIITKEEESYALTVASELLVRGSD--LCLAPXVECVLDPTLSGSYHELKKWIYE 136
Query: 143 GGIA-FNKAHGMHIYDYLGVDSSFNDVFSNGMLSHTSIVMEKVLESYKGFEHXXXXXXXX 201
             +  F    G   +D+L  +  +N  F++   S + ++   + +    F+         
Sbjct: 137 EDLTLFGVTLGSGFWDFLDKNPEYNTSFNDAXASDSKLINLALRDCDFVFDGLESIVDVG 196
Query: 202 XXXXATLNMIISKYPHIKGINYDLLYVIKNAPSYPGIDHVGGDLFESVPKADTIFMKVI 260
                T  +I   +P +K I +D   V++N      + +VGGD F S+P AD + +K I
Sbjct: 197 GGTGTTAKIICETFPKLKCIVFDRPQVVENLSGSNNLTYVGGDXFTSIPNADAVLLKYI 255

>pdb|2QYO|A Chain A, Crystal Structure Of Isoflavone O-Methyltransferase Homolog In Complex With Biochanin A And Sah Length = 357

Iteration: 1
 Score = 60.5 bits (145), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 55/247 (22%), Positives = 107/247 (43%), Gaps = 21/247 (8%)
Query: 23  AIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLL- 81
           A V   +++  +E+++  II   G    LS    + QIP         +  +D V RL+ 
Sbjct: 26  AFVDSMSLKWSIEMNIPNIIHNHGKPITLSNLVSILQIP---------STKVDNVQRLMR 76
Query: 82  -VSYNALHCSFVDGQRL------YSLAPVSKYFVRNNQNGASLRPYMALSLDKVLMDGWF 134
            +++N      +  Q L      Y+L   S+  V+  +    L P +   LD  L   + 
Sbjct: 77  YLAHNGFF-EIITNQELENEEEAYALTVASELLVKGTE--LCLAPMVECVLDPTLSTSFH 133
Query: 135 RLKGQILEGGIA-FNKAHGMHIYDYLGVDSSFNDVFSNGMLSHTSIVMEKVLESYKGFEH 193
            LK  + E  +  F    G  ++++L  +  +N ++++ + S + ++   + +    FE 
Sbjct: 134 NLKKWVYEEDLTLFAVNLGCDLWEFLNKNPEYNTLYNDALASDSKMINLAMKDCNLVFEG 193
Query: 194 XXXXXXXXXXXXATLNMIISKYPHIKGINYDLLYVIKNAPSYPGIDHVGGDLFESVPKAD 253
                        T  +I   +P +  + +D   V++N      + +VGGD+F SVPKAD
Sbjct: 194 LESIVDVGGGNGTTGKIICETFPKLTCVVFDRPKVVENLCGSNNLTYVGGDMFISVPKAD 253
Query: 254 TIFMKVI 260
            + +K +
Sbjct: 254 AVLLKAV 260

>pdb|1ZG3|A Chain A, Crystal Structure Of The Isoflavanone 4'-O-Methyltransferase Complexed With Sah And 2,7,4'-Trihydroxyisoflavanone Length = 358

Iteration: 1
 Score = 55.8 bits (133), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 60/243 (24%), Positives = 103/243 (42%), Gaps = 19/243 (7%)
Query: 29  AMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALH 88
           A+++ +EL + + I     G  +++SE+ + + L   +P +   +L R LRLL       
Sbjct: 26  ALKSAMELGIADAI--HNHGKPMTLSELASSLKL---HP-SKVNILHRFLRLLTHNGFFA 79
Query: 89  CSFVDGQRL-------YSLAPVSKYFVRNNQNGASLRPYMALSLDKVLMDGWFRLKGQIL 141
            + V G+         YSL P SK  +        L   +  +L    +D W   K    
Sbjct: 80  KTIVKGKEGDEEEEIAYSLTPPSKLLISGKP--TCLSSIVKGALHPSSLDMWSSSKKWFN 137
Query: 142 EGG--IAFNKAHGMHIYDYLGVDS--SFNDVFSNGMLSHTSIVMEKVLESYKGFEHXXXX 197
           E      F  A G   +D+L  DS  S   +F + M S + +    + E+ + FE     
Sbjct: 138 EDKEQTLFECATGESFWDFLNKDSESSTLSMFQDAMASDSRMFKLVLQENKRVFEGLESL 197
Query: 198 XXXXXXXXATLNMIISKYPHIKGINYDLLYVIKNAPSYPGIDHVGGDLFESVPKADTIFM 257
                       +I   +PH+K   +D   V+ N      ++ VGGD+F+S+P AD + +
Sbjct: 198 VDVGGGTGGVTKLIHEIFPHLKCTVFDQPQVVGNLTGNENLNFVGGDMFKSIPSADAVLL 257
Query: 258 KVI 260
           K +
Sbjct: 258 KWV 260

>pdb|1ZGA|A Chain A, Crystal Structure Of Isoflavanone 4'-o-methyltransferase Complexed With (+)-6a-hydroxymaackiain Length = 357

Iteration: 1
 Score = 55.8 bits (133), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 60/243 (24%), Positives = 103/243 (42%), Gaps = 19/243 (7%)
Query: 29  AMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALH 88
           A+++ +EL + + I     G  +++SE+ + + L   +P +   +L R LRLL       
Sbjct: 25  ALKSAMELGIADAI--HNHGKPMTLSELASSLKL---HP-SKVNILHRFLRLLTHNGFFA 78
Query: 89  CSFVDGQRL-------YSLAPVSKYFVRNNQNGASLRPYMALSLDKVLMDGWFRLKGQIL 141
            + V G+         YSL P SK  +        L   +  +L    +D W   K    
Sbjct: 79  KTIVKGKEGDEEEEIAYSLTPPSKLLISGKP--TCLSSIVKGALHPSSLDMWSSSKKWFN 136
Query: 142 EGG--IAFNKAHGMHIYDYLGVDS--SFNDVFSNGMLSHTSIVMEKVLESYKGFEHXXXX 197
           E      F  A G   +D+L  DS  S   +F + M S + +    + E+ + FE     
Sbjct: 137 EDKEQTLFECATGESFWDFLNKDSESSTLSMFQDAMASDSRMFKLVLQENKRVFEGLESL 196
Query: 198 XXXXXXXXATLNMIISKYPHIKGINYDLLYVIKNAPSYPGIDHVGGDLFESVPKADTIFM 257
                       +I   +PH+K   +D   V+ N      ++ VGGD+F+S+P AD + +
Sbjct: 197 VDVGGGTGGVTKLIHEIFPHLKCTVFDQPQVVGNLTGNENLNFVGGDMFKSIPSADAVLL 256
Query: 258 KVI 260
           K +
Sbjct: 257 KWV 259

>pdb|1ZGJ|A Chain A, Crystal Structure Of Isoflavanone 4'-O-Methyltransferase Complexed With (+)-Pisatin Length = 354

Iteration: 1
 Score = 55.8 bits (133), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 60/243 (24%), Positives = 103/243 (42%), Gaps = 19/243 (7%)
Query: 29  AMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALH 88
           A+++ +EL + + I     G  +++SE+ + + L   +P +   +L R LRLL       
Sbjct: 22  ALKSAMELGIADAI--HNHGKPMTLSELASSLKL---HP-SKVNILHRFLRLLTHNGFFA 75
Query: 89  CSFVDGQRL-------YSLAPVSKYFVRNNQNGASLRPYMALSLDKVLMDGWFRLKGQIL 141
            + V G+         YSL P SK  +        L   +  +L    +D W   K    
Sbjct: 76  KTIVKGKEGDEEEEIAYSLTPPSKLLISGKP--TCLSSIVKGALHPSSLDMWSSSKKWFN 133
Query: 142 EGG--IAFNKAHGMHIYDYLGVDS--SFNDVFSNGMLSHTSIVMEKVLESYKGFEHXXXX 197
           E      F  A G   +D+L  DS  S   +F + M S + +    + E+ + FE     
Sbjct: 134 EDKEQTLFECATGESFWDFLNKDSESSTLSMFQDAMASDSRMFKLVLQENKRVFEGLESL 193
Query: 198 XXXXXXXXATLNMIISKYPHIKGINYDLLYVIKNAPSYPGIDHVGGDLFESVPKADTIFM 257
                       +I   +PH+K   +D   V+ N      ++ VGGD+F+S+P AD + +
Sbjct: 194 VDVGGGTGGVTKLIHEIFPHLKCTVFDQPQVVGNLTGNENLNFVGGDMFKSIPSADAVLL 253
Query: 258 KVI 260
           K +
Sbjct: 254 KWV 256

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	269
3reo_A	368	(ISO)eugenol O-methyltransferase; directed evoluti	1e-90
3p9c_A	364	Caffeic acid O-methyltransferase; S-adenosylmethio	4e-88
1fp1_D	372	Isoliquiritigenin 2'-O-methyltransferase; protein-	5e-87
1fp2_A	352	Isoflavone O-methyltransferase; protein-product co	2e-83
1zg3_A	358	Isoflavanone 4'-O-methyltransferase; rossman fold,	6e-77
3lst_A	348	CALO1 methyltransferase; calicheamicin, enediyne,	3e-76
3gwz_A	369	MMCR; methyltransferase, mitomycin, S-adenosyl met	3e-74
3i53_A	332	O-methyltransferase; CO-complex, rossmann-like fol	1e-72
1qzz_A	374	RDMB, aclacinomycin-10-hydroxylase; anthracycline,	4e-72
1tw3_A	360	COMT, carminomycin 4-O-methyltransferase; anthracy	1e-70
2ip2_A	334	Probable phenazine-specific methyltransferase; pyo	1e-68
2r3s_A	335	Uncharacterized protein; methyltransferase domain,	2e-53
1x19_A	359	CRTF-related protein; methyltransferase, bacterioc	2e-52
3dp7_A	363	SAM-dependent methyltransferase; structural genomi	5e-49
3mcz_A	352	O-methyltransferase; adomet_mtases, S-adenosylmeth	1e-46

>3reo_A (ISO)eugenol O-methyltransferase; directed evolution, saturation mutagenesis, regioselectivity transferase; HET: SAH EUG; 1.90A {Clarkia breweri} PDB: 1kyz_A* 1kyw_A* Length = 368

 Score =  271 bits (695), Expect = 1e-90
 Identities = 129/267 (48%), Positives = 182/267 (68%), Gaps = 10/267 (3%)

Query: 1   MASIADQEEEANNFSYAMELASAIVLPAAMQAVVELDVFEIITKAG-PGAKLSVSEIVAQ 59
           +  I     +     +AM+LASA VLP A++A +ELDV EI+ K+  P   +S +EI AQ
Sbjct: 9   IQIIPTHSSDEEANLFAMQLASAAVLPMALKAAIELDVLEIMAKSVPPSGYISPAEIAAQ 68

Query: 60  IPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVD-----GQRLYSLAPVSKYFVRNNQNG 114
           +P        A +MLDRVLRLL SY+ +  +  +      +RLY LAPV K+  +N ++G
Sbjct: 69  LPT---TNPEAPVMLDRVLRLLASYSVVTYTLRELPSGKVERLYGLAPVCKFLTKN-EDG 124

Query: 115 ASLRPYMALSLDKVLMDGWFRLKGQILEGGIAFNKAHGMHIYDYLGVDSSFNDVFSNGML 174
            SL P++ L+ DKVL++ WF LK  ILEGGI FNKA+GM+I+DY G D   N VF+ GM 
Sbjct: 125 VSLAPFLLLATDKVLLEPWFYLKDAILEGGIPFNKAYGMNIFDYHGTDHRINKVFNKGMS 184

Query: 175 SHTSIVMEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPS 234
           S+++I M+K+LE Y GFE +  +VDVGGG GA  +MI++KYP I  IN+DL +VI++AP+
Sbjct: 185 SNSTITMKKILEMYNGFEGLTTIVDVGGGTGAVASMIVAKYPSINAINFDLPHVIQDAPA 244

Query: 235 YPGIDHVGGDLFESVPKADTIFMKVIC 261
           + G++H+GGD+F+ VPK D IF+K IC
Sbjct: 245 FSGVEHLGGDMFDGVPKGDAIFIKWIC 271

>3p9c_A Caffeic acid O-methyltransferase; S-adenosylmethionine dependent O-methyltransferase; HET: SAH; 1.80A {Lolium perenne} PDB: 3p9i_A* 3p9k_A* Length = 364

 Score =  265 bits (679), Expect = 4e-88
 Identities = 118/269 (43%), Positives = 169/269 (62%), Gaps = 12/269 (4%)

Query: 1   MASIADQ---EEEANNFSYAMELASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIV 57
           M S A       + +   +A++LAS+ VLP  ++  +EL + EI+  AG  + L+ +E+ 
Sbjct: 5   MGSTAADMAASADEDACMFALQLASSSVLPMTLKNAIELGLLEILVAAGGKS-LTPTEVA 63

Query: 58  AQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQ-----RLYSLAPVSKYFVRNNQ 112
           A++P   N    A  M+DR+LRLL SYN + C   +G+     R Y  APV K+   N  
Sbjct: 64  AKLPSAAN--PEAPDMVDRILRLLASYNVVTCLVEEGKDGRLSRSYGAAPVCKFLTPNE- 120

Query: 113 NGASLRPYMALSLDKVLMDGWFRLKGQILEGGIAFNKAHGMHIYDYLGVDSSFNDVFSNG 172
           +G S+     ++ DKVLM+ W+ LK  +L+GGI FNKA+GM  ++Y G D  FN VF+ G
Sbjct: 121 DGVSMAALALMNQDKVLMESWYYLKDAVLDGGIPFNKAYGMSAFEYHGTDPRFNRVFNEG 180

Query: 173 MLSHTSIVMEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNA 232
           M +H+ I+ +K+LE Y GFE +  LVDVGGG+GAT+  I + YP IKG+N+DL +VI  A
Sbjct: 181 MKNHSIIITKKLLELYHGFEGLGTLVDVGGGVGATVAAIAAHYPTIKGVNFDLPHVISEA 240

Query: 233 PSYPGIDHVGGDLFESVPKADTIFMKVIC 261
           P +PG+ HVGGD+F+ VP  DTI MK I 
Sbjct: 241 PQFPGVTHVGGDMFKEVPSGDTILMKWIL 269

>1fp1_D Isoliquiritigenin 2'-O-methyltransferase; protein-substrate, protein-product complex; HET: SAH HCC; 1.82A {Medicago sativa} SCOP: a.4.5.29 c.66.1.12 PDB: 1fpq_A* Length = 372

 Score =  262 bits (672), Expect = 5e-87
 Identities = 103/266 (38%), Positives = 153/266 (57%), Gaps = 9/266 (3%)

Query: 3   SIADQEEEANNFSYAMELASAIVLPAAMQAVVELDVFEIITKAG-PGAKLSVSEIVAQIP 61
           S   ++ E +    AM L + +V PA + A ++L++FEII KA  PGA +S SEI +++P
Sbjct: 14  SATSEQTEDSACLSAMVLTTNLVYPAVLNAAIDLNLFEIIAKATPPGAFMSPSEIASKLP 73

Query: 62  LKDNNPEAAAMMLDRVLRLLVSYNALHCSFV-----DGQRLYSLAPVSKYFVRNNQNGAS 116
               + +     LDR+LRLL SY+ L  +         +R+Y L+ V KY V +  +   
Sbjct: 74  ASTQHSDLPNR-LDRMLRLLASYSVLTSTTRTIEDGGAERVYGLSMVGKYLVPDE-SRGY 131

Query: 117 LRPYMALSLDKVLMDGWFRLKGQILEGGI-AFNKAHGMHIYDYLGVDSSFNDVFSNGMLS 175
           L  +        L+  W   K  +++  I  F   HG+  Y+++G D   N +F+  M+ 
Sbjct: 132 LASFTTFLCYPALLQVWMNFKEAVVDEDIDLFKNVHGVTKYEFMGKDKKMNQIFNKSMVD 191

Query: 176 HTSIVMEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPSY 235
             +  M+++LE Y GFE +  LVDVGGG G  L +IISKYP IKGIN+DL  VI+NAP  
Sbjct: 192 VCATEMKRMLEIYTGFEGISTLVDVGGGSGRNLELIISKYPLIKGINFDLPQVIENAPPL 251

Query: 236 PGIDHVGGDLFESVPKADTIFMKVIC 261
            GI+HVGGD+F SVP+ D + +K +C
Sbjct: 252 SGIEHVGGDMFASVPQGDAMILKAVC 277

>1fp2_A Isoflavone O-methyltransferase; protein-product complex; HET: SAH HMO; 1.40A {Medicago sativa} SCOP: a.4.5.29 c.66.1.12 PDB: 1fpx_A* 2qyo_A* Length = 352

 Score =  253 bits (647), Expect = 2e-83
 Identities = 66/265 (24%), Positives = 121/265 (45%), Gaps = 13/265 (4%)

Query: 1   MASIADQEEEANNF---SYAMELASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIV 57
           MAS  +  + +  F   +   +   A +   +++  VE+++  II   G     S+S +V
Sbjct: 1   MASSINGRKPSEIFKAQALLYKHIYAFIDSMSLKWAVEMNIPNIIQNHGKPI--SLSNLV 58

Query: 58  AQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSKYFVRNNQNGASL 117
           + + +    P +    + R++R L             +  Y+L   S+  VR +     L
Sbjct: 59  SILQV----PSSKIGNVRRLMRYLAHNGFFEII-TKEEESYALTVASELLVRGS--DLCL 111

Query: 118 RPYMALSLDKVLMDGWFRLKGQILEGGI-AFNKAHGMHIYDYLGVDSSFNDVFSNGMLSH 176
            P +   LD  L   +  LK  I E  +  F    G   +D+L  +  +N  F++ M S 
Sbjct: 112 APMVECVLDPTLSGSYHELKKWIYEEDLTLFGVTLGSGFWDFLDKNPEYNTSFNDAMASD 171

Query: 177 TSIVMEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPSYP 236
           + ++   + +    F+ ++ +VDVGGG G T  +I   +P +K I +D   V++N     
Sbjct: 172 SKLINLALRDCDFVFDGLESIVDVGGGTGTTAKIICETFPKLKCIVFDRPQVVENLSGSN 231

Query: 237 GIDHVGGDLFESVPKADTIFMKVIC 261
            + +VGGD+F S+P AD + +K I 
Sbjct: 232 NLTYVGGDMFTSIPNADAVLLKYIL 256

>1zg3_A Isoflavanone 4'-O-methyltransferase; rossman fold, plant Pro transferase; HET: 2HI SAH; 2.35A {Medicago truncatula} PDB: 1zga_A* 1zhf_A* 1zgj_A* Length = 358

 Score =  236 bits (604), Expect = 6e-77
 Identities = 69/268 (25%), Positives = 117/268 (43%), Gaps = 22/268 (8%)

Query: 8   EEEANNF---SYAMELASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKD 64
            EE+  +    +  +     V   A+++ +EL + + I   G     ++SE+ + + L  
Sbjct: 2   SEESELYHAQIHLYKHVYNFVSSMALKSAMELGIADAIHNHGKPM--TLSELASSLKL-- 57

Query: 65  NNPEAAAMMLDRVLRLLVSYNALHCSFVDG-------QRLYSLAPVSKYFVRNNQNGASL 117
               +   +L R LRLL        + V G       +  YSL P SK  +        L
Sbjct: 58  --HPSKVNILHRFLRLLTHNGFFAKTIVKGKEGDEEEEIAYSLTPPSKLLISGKPT--CL 113

Query: 118 RPYMALSLDKVLMDGWFRLKGQILEGG--IAFNKAHGMHIYDYLGVDSSFN--DVFSNGM 173
              +  +L    +D W   K    E      F  A G   +D+L  DS  +   +F + M
Sbjct: 114 SSIVKGALHPSSLDMWSSSKKWFNEDKEQTLFECATGESFWDFLNKDSESSTLSMFQDAM 173

Query: 174 LSHTSIVMEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAP 233
            S + +    + E+ + FE ++ LVDVGGG G    +I   +PH+K   +D   V+ N  
Sbjct: 174 ASDSRMFKLVLQENKRVFEGLESLVDVGGGTGGVTKLIHEIFPHLKCTVFDQPQVVGNLT 233

Query: 234 SYPGIDHVGGDLFESVPKADTIFMKVIC 261
               ++ VGGD+F+S+P AD + +K + 
Sbjct: 234 GNENLNFVGGDMFKSIPSADAVLLKWVL 261

>3lst_A CALO1 methyltransferase; calicheamicin, enediyne, SAH, STRU genomics, PSI-2, protein structure initiative; HET: SAH; 2.40A {Micromonospora echinospora} Length = 348

 Score =  234 bits (599), Expect = 3e-76
 Identities = 54/265 (20%), Positives = 95/265 (35%), Gaps = 23/265 (8%)

Query: 2   ASIADQEEEANNFSYAMELASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIP 61
           +      +   +     E A      AA++A   + V + +   GP    + +E+ A   
Sbjct: 11  SRAGGDMDRLQSALALYEEAMGYTYAAALRAAAAVGVADHL-VDGP---RTPAELAAATG 66

Query: 62  LKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSKYFVRNNQNGASLRPYM 121
                    A  L RVLRLL   + +  S       ++L         ++      R  +
Sbjct: 67  TD-------ADALRRVLRLLAVRDVVRES----DGRFALTDKGAALRSDS--PVPARAGI 113

Query: 122 ALSLDKVLMDGWFRLKGQILEGGIAFNKAHGMHIYDYLGVDSSFNDVFSNGMLSHTSIVM 181
            +  D +      R+   +     AF    G  +  Y   D+    ++  GM + ++   
Sbjct: 114 LMFTDTMFWTMSHRVASALGPERPAFADIFGSSLDAYFDGDAEVEALYYEGMETVSAAEH 173

Query: 182 EKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKN----APSYPG 237
             +  +   F     + DVGGG G  L  ++ ++P ++G+  D   V+      AP   G
Sbjct: 174 LILARAG-DFPATGTVADVGGGRGGFLLTVLREHPGLQGVLLDRAEVVARHRLDAPDVAG 232

Query: 238 -IDHVGGDLFESVPKADTIFMKVIC 261
               V GD    VP AD   +K I 
Sbjct: 233 RWKVVEGDFLREVPHADVHVLKRIL 257

>3gwz_A MMCR; methyltransferase, mitomycin, S-adenosyl methionine, transferase; HET: MSE SAH; 1.91A {Streptomyces lavendulae} PDB: 3gxo_A* Length = 369

 Score =  229 bits (587), Expect = 3e-74
 Identities = 47/253 (18%), Positives = 94/253 (37%), Gaps = 24/253 (9%)

Query: 17  AMELASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDR 76
             ++        A+   VEL V E++ + GP    + + +                 L R
Sbjct: 42  VNDILQGAWKARAIHVAVELGVPELL-QEGP---RTATALAEATGAH-------EQTLRR 90

Query: 77  VLRLLVSYNALHCSFVDGQRLYSLAPVSKYFVRNNQNGASLRPYMALSLDKVLMDGWFRL 136
           +LRLL +        +    L++   +S   + +    + +               W +L
Sbjct: 91  LLRLLATVGVFDD--LGHDDLFAQNALSAVLLPDP--ASPVATDARFQAAPWHWRAWEQL 146

Query: 137 KGQILEGGIAFNKAHGMHIYDYLGVDSSFNDVFSNGMLSHTSIVMEKVLESYKGFEHVKK 196
              +  G  +F+ A+G   +     D    ++F+  M S +     +V  +Y  F     
Sbjct: 147 THSVRTGEASFDVANGTSFWQLTHEDPKARELFNRAMGSVSLTEAGQVAAAYD-FSGAAT 205

Query: 197 LVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPSY-------PGIDHVGGDLFESV 249
            VD+GGG G+ +  ++  +P ++G   +   V + A             + + GD FE++
Sbjct: 206 AVDIGGGRGSLMAAVLDAFPGLRGTLLERPPVAEEARELLTGRGLADRCEILPGDFFETI 265

Query: 250 PK-ADTIFMKVIC 261
           P  AD   +K + 
Sbjct: 266 PDGADVYLIKHVL 278

>3i53_A O-methyltransferase; CO-complex, rossmann-like fold; HET: SAH; 2.08A {Streptomyces carzinostaticus subsp} PDB: 3i58_A* 3i5u_A* 3i64_A* Length = 332

 Score =  224 bits (574), Expect = 1e-72
 Identities = 53/255 (20%), Positives = 96/255 (37%), Gaps = 26/255 (10%)

Query: 16  YAMELASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLD 75
             +   + +  P A++    L V + I  AG     + +EI +       + ++    LD
Sbjct: 8   IGLRALADLATPMAVRVAATLRVADHI-AAGH---RTAAEIASAAGA---HADS----LD 56

Query: 76  RVLRLLVSYNALHCSFVDGQRLYSLAPVSKYFVRNNQNGASLRPYMALSLD-KVLMDGWF 134
           R+LR LV+         DGQ +Y L    +    ++   A  R ++ ++        G+ 
Sbjct: 57  RLLRHLVAVGLFTR---DGQGVYGLTEFGEQLRDDH--AAGKRKWLDMNSAVGRGDLGFV 111

Query: 135 RLKGQILEGGIAFNKAHGMHIYDYLGVDSSFNDVFSNGMLSHTSIVMEKVLESYKGFEHV 194
            L   I  G  A+   +G   ++ LG D   +  F   M  H  +    +   Y  +  +
Sbjct: 112 ELAHSIRTGQPAYPVRYGTSFWEDLGSDPVLSASFDTLMSHHLELDYTGIAAKYD-WAAL 170

Query: 195 KKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPSY-------PGIDHVGGDLFE 247
             +VDVGGG G  L+ +++ +  + G   DL      A               V G  F+
Sbjct: 171 GHVVDVGGGSGGLLSALLTAHEDLSGTVLDLQGPASAAHRRFLDTGLSGRAQVVVGSFFD 230

Query: 248 SVPK-ADTIFMKVIC 261
            +P  A    +  + 
Sbjct: 231 PLPAGAGGYVLSAVL 245

>1qzz_A RDMB, aclacinomycin-10-hydroxylase; anthracycline, methyltransferase, polyketide, tailoring enzymes, structural proteomics in E spine; HET: SAM; 2.10A {Streptomyces purpurascens} SCOP: a.4.5.29 c.66.1.12 PDB: 1r00_A* 1xds_A* 1xdu_A* Length = 374

 Score =  224 bits (573), Expect = 4e-72
 Identities = 49/273 (17%), Positives = 97/273 (35%), Gaps = 27/273 (9%)

Query: 1   MASIADQE---EEANNFSYAMELASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIV 57
           M+S +  E       +    ++    +V P A++    L + + +  AG     +++ + 
Sbjct: 1   MSSSSPGEPLEPTDQDLDVLLKNLGNLVTPMALRVAATLRLVDHL-LAGA---DTLAGLA 56

Query: 58  AQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSKYFVRNNQNGASL 117
            +              L R++R L     L        R      +       +   A  
Sbjct: 57  DRTDT-------HPQALSRLVRHLTVVGVLEGG-EKQGRPLRPTRLGMLLADGH--PAQQ 106

Query: 118 RPYMALSLD-KVLMDGWFRLKGQILEGGIAFNKAHGMHIYDYLGVDSSFNDVFSNGMLSH 176
           R ++ L+         +  L   +  G  A+   +G   ++ L  D +  D F   M   
Sbjct: 107 RAWLDLNGAVSHADLAFTGLLDVVRTGRPAYAGRYGRPFWEDLSADVALADSFDALMSCD 166

Query: 177 TSIVMEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPSY- 235
             +  E   ++Y  +  V+ ++DVGGG G  L  I  + PH++G   +L    + A    
Sbjct: 167 EDLAYEAPADAYD-WSAVRHVLDVGGGNGGMLAAIALRAPHLRGTLVELAGPAERARRRF 225

Query: 236 ------PGIDHVGGDLFESVPK-ADTIFMKVIC 261
                   +    GD F+ +P  AD + +  + 
Sbjct: 226 ADAGLADRVTVAEGDFFKPLPVTADVVLLSFVL 258

>1tw3_A COMT, carminomycin 4-O-methyltransferase; anthracycline, methylate, tailoring enzyme, polyketide, S-adenosyl-L-homocystein; HET: SAH ERT; 2.35A {Streptomyces peucetius} SCOP: a.4.5.29 c.66.1.12 PDB: 1tw2_A* Length = 360

 Score =  220 bits (563), Expect = 1e-70
 Identities = 51/269 (18%), Positives = 97/269 (36%), Gaps = 26/269 (9%)

Query: 2   ASIADQEEEANNFSYAMELASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIP 61
                   +  +    +    ++  P  ++    L + + I  AG     +V  + A+  
Sbjct: 8   EPTVAARPQQIDALRTLIRLGSLHTPMVVRTAATLRLVDHI-LAGA---RTVKALAARTD 63

Query: 62  LKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSKYFVRNNQNGASLRPYM 121
            +          L R++R LV+   L     D    +    V +    ++   A+ R + 
Sbjct: 64  TR-------PEALLRLIRHLVAIGLLEE---DAPGEFVPTEVGELLADDH--PAAQRAWH 111

Query: 122 ALSL-DKVLMDGWFRLKGQILEGGIAFNKAHGMHIYDYLGVDSSFNDVFSNGMLSHTSIV 180
            L+         + RL   I  G   +   +G   Y+ L         F + +     + 
Sbjct: 112 DLTQAVARADISFTRLPDAIRTGRPTYESIYGKPFYEDLAGRPDLRASFDSLLACDQDVA 171

Query: 181 MEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPSY----- 235
            +    +Y  + +V+ ++DVGGG G     I  + PH+     ++   +  A SY     
Sbjct: 172 FDAPAAAY-DWTNVRHVLDVGGGKGGFAAAIARRAPHVSATVLEMAGTVDTARSYLKDEG 230

Query: 236 --PGIDHVGGDLFESVP-KADTIFMKVIC 261
               +D V GD FE +P KAD I +  + 
Sbjct: 231 LSDRVDVVEGDFFEPLPRKADAIILSFVL 259

>2ip2_A Probable phenazine-specific methyltransferase; pyocyanin, phenazine-1-carboxy PHZM; 1.80A {Pseudomonas aeruginosa} Length = 334

 Score =  214 bits (547), Expect = 1e-68
 Identities = 51/262 (19%), Positives = 84/262 (32%), Gaps = 29/262 (11%)

Query: 8   EEEANNFSYAMELASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNP 67
                     +++ +       +     L + ++I   G     S   + A +       
Sbjct: 3   NSNLAAARNLIQVVTGEWKSRCVYVATRLGLADLIES-GI---DSDETLAAAVGSD---- 54

Query: 68  EAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSKYFVRNNQNGASLRPYMALSLDK 127
              A  + R++RLLV++        D +  Y+  P S           S R  M L   +
Sbjct: 55  ---AERIHRLMRLLVAFEIFQG---DTRDGYANTPTSHLLRDVEG---SFRD-MVLFYGE 104

Query: 128 VLMDGWFRLKGQILEGGIAFNKAHGMHIYDYLGVDSSFNDVFSNGMLSHTSIVMEKVLES 187
                W      +L G   F  A G   Y YL         F   M   +++   ++   
Sbjct: 105 EFHAAWTPACEALLSGTPGFELAFGEDFYSYLKRCPDAGRRFLLAM-KASNLAFHEIPRL 163

Query: 188 YKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPSY-------PGIDH 240
              F   +  VDVGGG G     I+   P  +G+  D    +  A            +  
Sbjct: 164 L-DFRG-RSFVDVGGGSGELTKAILQAEPSARGVMLDREGSLGVARDNLSSLLAGERVSL 221

Query: 241 VGGDLFESVP-KADTIFMKVIC 261
           VGGD+ + VP   D   +  I 
Sbjct: 222 VGGDMLQEVPSNGDIYLLSRII 243

>2r3s_A Uncharacterized protein; methyltransferase domain, structural genomics, joint center structural genomics, JCSG, protein structure initiative; HET: MSE; 2.15A {Nostoc punctiforme} Length = 335

 Score =  175 bits (445), Expect = 2e-53
 Identities = 42/253 (16%), Positives = 83/253 (32%), Gaps = 30/253 (11%)

Query: 18  MELASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRV 77
               +A    AA++A VEL+VF  I++ G     S   +  +      +       +  +
Sbjct: 11  FNTVNAYQRSAAIKAAVELNVFTAISQ-GI---ESSQSLAQKCQT---SERG----MRML 59

Query: 78  LRLLVSYNALHCSFVDGQRLYSLAPVSKYFVRNNQNGASLRPYMALSLDKVLMDGWFRLK 137
              LV    +       +  Y L   S  F+    +   +   +   L  ++ +G+  L 
Sbjct: 60  CDYLVIIGFMTK---QAEG-YRLTSDSAMFLDRQ-SKFYVGDAIEFLLSPMITNGFNDLT 114

Query: 138 GQILEGGIAFNKAHGMHIYDYLGVDSSFNDVFSNGMLSHTSIVMEKVLESYKGFEHVKKL 197
             +L+GG A +    +       V   F    S  M +   ++ + V E+        K+
Sbjct: 115 AAVLKGGTAISSEGTL--SPEHPVWVQFAKAMSPMMANPAQLIAQLVNEN---KIEPLKV 169

Query: 198 VDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPSYPG-------IDHVGGDLFESV- 249
           +D+    G     +    P+ +    D   V++ A               + G  FE   
Sbjct: 170 LDISASHGLFGIAVAQHNPNAEIFGVDWASVLEVAKENARIQGVASRYHTIAGSAFEVDY 229

Query: 250 -PKADTIFMKVIC 261
               D + +    
Sbjct: 230 GNDYDLVLLPNFL 242

>1x19_A CRTF-related protein; methyltransferase, bacteriochllochlorophyll, BCHU, SAM, SAH, adenosylmethyonine, S-adenosylhomocysteine, ADO-Met; 2.27A {Chlorobium tepidum} PDB: 1x1a_A* 1x1b_A* 1x1c_A* 1x1d_A* Length = 359

 Score =  173 bits (441), Expect = 2e-52
 Identities = 54/269 (20%), Positives = 99/269 (36%), Gaps = 30/269 (11%)

Query: 2   ASIADQEEEANNFSYAMELA-SAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQI 60
           + +    +  N +  A EL    ++  + M+A +ELD+F  + + GP     ++ + A  
Sbjct: 19  SHMMSNNDLLNYYHRANELVFKGLIEFSCMKAAIELDLFSHMAE-GP---KDLATLAADT 74

Query: 61  PLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSKYFVRNNQNGASLRPY 120
                        L+ +L  L     ++    DG+  +SL   + Y         +L   
Sbjct: 75  GS-------VPPRLEMLLETLRQMRVINLE--DGK--WSLTEFADYMFSPTPKEPNLHQT 123

Query: 121 MALSLDKVLMDGWFRLKGQILEGGIAFNKAHGMHIYDYLGVDSSFNDVFSNGMLSHTSIV 180
                   L D ++    Q + G   F          Y  V    N  F     S+    
Sbjct: 124 PVAKAMAFLADDFYMGLSQAVRGQKNFK-----GQVPYPPVTREDNLYFEEIHRSNAKFA 178

Query: 181 MEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPSYPG--- 237
           ++ +LE  K  + VKK++DVGGG+G     ++  +P +     +L   I           
Sbjct: 179 IQLLLEEAK-LDGVKKMIDVGGGIGDISAAMLKHFPELDSTILNLPGAIDLVNENAAEKG 237

Query: 238 ----IDHVGGDLF-ESVPKADTIFMKVIC 261
               +  +  D++ ES P+AD +    I 
Sbjct: 238 VADRMRGIAVDIYKESYPEADAVLFCRIL 266

>3dp7_A SAM-dependent methyltransferase; structural genomics, protein structure initiative, NEW YORK structural genomix research; 2.33A {Bacteroides vulgatus} Length = 363

 Score =  164 bits (418), Expect = 5e-49
 Identities = 45/262 (17%), Positives = 88/262 (33%), Gaps = 33/262 (12%)

Query: 17  AMELASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDR 76
           A E+A   V+    + +++  +F++++    G   ++ EI  +  L      A       
Sbjct: 19  AQEIAFGPVVFQVSRLMLKFGIFQLLSGKREG--YTLQEISGRTGL---TRYA----AQV 69

Query: 77  VLRLLVSYNALHCSFVDGQRLYSLAPVSKYFVRNNQNGASLRPYMALSLDKVLMDGWFRL 136
           +L   ++   +     +  R Y LA    + + +      +          V   G F L
Sbjct: 70  LLEASLTIGTILL---EEDR-YVLAKAGWFLLND-----KMARVNMEFNHDVNYQGLFHL 120

Query: 137 KGQILEGGIAFNKAHGMH--IYDYLG-VDSSFNDVFSNGMLSHTSIVMEKVLESYKGFEH 193
           +  +L G     K  G    IY+ L  +       +      ++     K LE      H
Sbjct: 121 EEALLNGRPEGLKVFGEWPTIYEGLSQLPEQVQKSWFGFDHFYSDQSFGKALEIV-FSHH 179

Query: 194 VKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPSYPG-------IDHVGGDLF 246
            K+L+D+GG  G      +     ++    DL   ++              I   G +L 
Sbjct: 180 PKRLLDIGGNTGKWATQCVQYNKEVEVTIVDLPQQLEMMRKQTAGLSGSERIHGHGANLL 239

Query: 247 E---SVPK-ADTIFMKVICVCY 264
           +     P   D ++M     C+
Sbjct: 240 DRDVPFPTGFDAVWMSQFLDCF 261

>3mcz_A O-methyltransferase; adomet_mtases, S-adenosylmethionine-dependent methyltransfer structural genomics, PSI-2; HET: MSE; 1.90A {Burkholderia thailandensis} Length = 352

 Score =  158 bits (401), Expect = 1e-46
 Identities = 36/272 (13%), Positives = 89/272 (32%), Gaps = 36/272 (13%)

Query: 1   MASIADQEEEANNFSYAMELASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQI 60
           +    + +    +    ++L+      A +   V   +F++          + +E+ A  
Sbjct: 12  IYESTEDKAALTSVVDLVKLSDQYRQSAILHYAVADKLFDLT--QTG---RTPAEVAASF 66

Query: 61  PLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSKYFVRNNQNGASLRPY 120
            +              +L  L +   L     +G   +    +++ ++        + P 
Sbjct: 67  GM---VEGK----AAILLHALAALGLLTK---EGDA-FRNTALTERYLTTTSAD-YIGPI 114

Query: 121 MALSLDKVLMDGWFRLKGQILEGGIAFNKAHGMHIYDYLGVDSSFNDVFSNGMLSHTSIV 180
             +    +  D W RL   +        K            D+   D F++ M+  +  +
Sbjct: 115 --VEHQYLQWDNWPRLGEILRSE-----KPLAFQQESRFAHDTRARDAFNDAMVRLSQPM 167

Query: 181 MEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPSYPG--- 237
           ++ V E    F   + ++D+ GG G  L  ++ ++P + G  +DL      A        
Sbjct: 168 VDVVSELG-VFARARTVIDLAGGHGTYLAQVLRRHPQLTGQIWDLPTTRDAARKTIHAHD 226

Query: 238 ----IDHVGGDLFESVP----KADTIFMKVIC 261
               ++    +L ++       AD + +    
Sbjct: 227 LGGRVEFFEKNLLDARNFEGGAADVVMLNDCL 258

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	269
4a6d_A	353	Hydroxyindole O-methyltransferase; melatonin, circ	100.0
3p9c_A	364	Caffeic acid O-methyltransferase; S-adenosylmethio	100.0
3reo_A	368	(ISO)eugenol O-methyltransferase; directed evoluti	100.0
3lst_A	348	CALO1 methyltransferase; calicheamicin, enediyne,	100.0
1zg3_A	358	Isoflavanone 4'-O-methyltransferase; rossman fold,	100.0
1fp2_A	352	Isoflavone O-methyltransferase; protein-product co	100.0
3gwz_A	369	MMCR; methyltransferase, mitomycin, S-adenosyl met	100.0
1fp1_D	372	Isoliquiritigenin 2'-O-methyltransferase; protein-	100.0
3i53_A	332	O-methyltransferase; CO-complex, rossmann-like fol	100.0
2ip2_A	334	Probable phenazine-specific methyltransferase; pyo	100.0
3dp7_A	363	SAM-dependent methyltransferase; structural genomi	100.0
1qzz_A	374	RDMB, aclacinomycin-10-hydroxylase; anthracycline,	100.0
1tw3_A	360	COMT, carminomycin 4-O-methyltransferase; anthracy	100.0
1x19_A	359	CRTF-related protein; methyltransferase, bacterioc	100.0
2r3s_A	335	Uncharacterized protein; methyltransferase domain,	100.0
3mcz_A	352	O-methyltransferase; adomet_mtases, S-adenosylmeth	100.0
2qm3_A	373	Predicted methyltransferase; putative methyltransf	99.26
3dtn_A	234	Putative methyltransferase MM_2633; structural gen	98.85
3ege_A	261	Putative methyltransferase from antibiotic biosyn	98.84
2qe6_A	274	Uncharacterized protein TFU_2867; putative methylt	98.83
4gek_A	261	TRNA (CMO5U34)-methyltransferase; structural genom	98.82
1vl5_A	260	Unknown conserved protein BH2331; putative methylt	98.79
3dlc_A	219	Putative S-adenosyl-L-methionine-dependent methylt	98.78
1ve3_A	227	Hypothetical protein PH0226; dimer, riken structur	98.78
3ou2_A	218	SAM-dependent methyltransferase; O-methyltransfera	98.73
3dh0_A	219	SAM dependent methyltransferase; cystal structure,	98.71
2o57_A	297	Putative sarcosine dimethylglycine methyltransfera	98.71
3mgg_A	276	Methyltransferase; NYSGXRC, PSI-II, protein struct	98.69
3bus_A	273	REBM, methyltransferase; rebeccamycin synthesis; H	98.69
2p35_A	259	Trans-aconitate 2-methyltransferase; SAM dependent	98.68
1nkv_A	256	Hypothetical protein YJHP; structural genomics, PS	98.66
1xxl_A	239	YCGJ protein; structural genomics, protein structu	98.66
3ujc_A	266	Phosphoethanolamine N-methyltransferase; parasite;	98.66
3vc1_A	312	Geranyl diphosphate 2-C-methyltransferase; rossman	98.65
3jwg_A	219	HEN1, methyltransferase type 12; 1.90A {Clostridiu	98.64
3gu3_A	284	Methyltransferase; alpha-beta protein, structural	98.63
3jwh_A	217	HEN1; methyltransferase; HET: SAH; 2.20A {Anabaena	98.63
3g5l_A	253	Putative S-adenosylmethionine dependent methyltran	98.61
3bkw_A	243	MLL3908 protein, S-adenosylmethionine dependent me	98.61
4hg2_A	257	Methyltransferase type 11; structural genomics, PS	98.6
3hem_A	302	Cyclopropane-fatty-acyl-phospholipid synthase 2; p	98.58
3dli_A	240	Methyltransferase; PSI-II, NYSGXRC, structural gen	98.57
1xtp_A	254	LMAJ004091AAA; SGPP, structural genomics, PSI, pro	98.56
3f4k_A	257	Putative methyltransferase; structural genomics, P	98.56
3ccf_A	279	Cyclopropane-fatty-acyl-phospholipid synthase; YP_	98.56
3hnr_A	220	Probable methyltransferase BT9727_4108; structural	98.55
3kkz_A	267	Uncharacterized protein Q5LES9; putative methyltra	98.55
3g5t_A	299	Trans-aconitate 3-methyltransferase; structural ge	98.55
2yqz_A	263	Hypothetical protein TTHA0223; RNA methyltransfera	98.52
3l8d_A	242	Methyltransferase; structural genomics, PSI, nysgr	98.52
3h2b_A	203	SAM-dependent methyltransferase; alpha-beta protei	98.52
2p7i_A	250	Hypothetical protein; putative methyltransferase,	98.51
3ocj_A	305	Putative exported protein; structural genomics, PS	98.5
1pjz_A	203	Thiopurine S-methyltransferase; polymorphism, S-ad	98.49
1kpg_A	287	CFA synthase;, cyclopropane-fatty-acyl-phospholipi	98.48
2xvm_A	199	Tellurite resistance protein TEHB; antibiotic resi	98.48
3bkx_A	275	SAM-dependent methyltransferase; YP_807781.1, cycl	98.48
4htf_A	285	S-adenosylmethionine-dependent methyltransferase;	98.46
4fsd_A	383	Arsenic methyltransferase; rossmann fold; 1.75A {C	98.46
3g07_A	292	7SK snRNA methylphosphate capping enzyme; structur	98.45
3e05_A	204	Precorrin-6Y C5,15-methyltransferase (decarboxyla;	98.44
3i9f_A	170	Putative type 11 methyltransferase; structural gen	98.44
3fzg_A	200	16S rRNA methylase; methyltransferase, plasmid, tr	98.43
1jg1_A	235	PIMT;, protein-L-isoaspartate O-methyltransferase;	98.43
3cgg_A	195	SAM-dependent methyltransferase; NP_600671.1, meth	98.42
3ofk_A	216	Nodulation protein S; NODS, N-methyltransferase, S	98.41
3hm2_A	178	Precorrin-6Y C5,15-methyltransferase; alpha-beta-s	98.41
3q87_B	170	N6 adenine specific DNA methylase; SAM-methyltrans	98.41
3pfg_A	263	N-methyltransferase; N,N-dimethyltransferase, SAM	98.41
2fk8_A	318	Methoxy mycolic acid synthase 4; S-adenosylmethion	98.4
3lcc_A	235	Putative methyl chloride transferase; halide methy	98.38
3b3j_A	480	Histone-arginine methyltransferase CARM1; protein	98.38
3sm3_A	235	SAM-dependent methyltransferases; NESG, structural	98.35
3uwp_A	438	Histone-lysine N-methyltransferase, H3 lysine-79;	98.35
1yb2_A	275	Hypothetical protein TA0852; structural genomics,	98.35
3ggd_A	245	SAM-dependent methyltransferase; YP_325210.1, stru	98.34
1yzh_A	214	TRNA (guanine-N(7)-)-methyltransferase; alpha-beta	98.34
3cc8_A	230	Putative methyltransferase; structural genomics, j	98.33
2b3t_A	276	Protein methyltransferase HEMK; translation termin	98.33
3e23_A	211	Uncharacterized protein RPA2492; alpha-beta protei	98.32
3mq2_A	218	16S rRNA methyltransferase; methyltranferase, ribo	98.31
2ex4_A	241	Adrenal gland protein AD-003; methyltransferase, s	98.29
3m70_A	286	Tellurite resistance protein TEHB homolog; structu	98.29
3thr_A	293	Glycine N-methyltransferase; GNMT, folate, methylt	98.28
3kr9_A	225	SAM-dependent methyltransferase; class I rossmann-	98.28
3lbf_A	210	Protein-L-isoaspartate O-methyltransferase; modifi	98.28
4dcm_A	375	Ribosomal RNA large subunit methyltransferase G; 2	98.26
1af7_A	274	Chemotaxis receptor methyltransferase CHER; chemot	98.26
2yxe_A	215	Protein-L-isoaspartate O-methyltransferase; rossma	98.26
3bxo_A	239	N,N-dimethyltransferase; desosamine, sugar, carboh	98.26
3mb5_A	255	SAM-dependent methyltransferase; RNA methyltransfe	98.24
3e8s_A	227	Putative SAM dependent methyltransferase; NP_74470	98.23
2fca_A	213	TRNA (guanine-N(7)-)-methyltransferase; 2.10A {Bac	98.23
3lec_A	230	NADB-rossmann superfamily protein; PSI, MCSG, stru	98.22
3d2l_A	243	SAM-dependent methyltransferase; ZP_00538691.1, st	98.22
2gb4_A	252	Thiopurine S-methyltransferase; 18204406, thiopuri	98.22
3g2m_A	299	PCZA361.24; SAM-dependent methyltransferase, glyco	98.21
4dzr_A	215	Protein-(glutamine-N5) methyltransferase, release	98.21
2yxd_A	183	Probable cobalt-precorrin-6Y C(15)-methyltransfer	98.2
2plw_A	201	Ribosomal RNA methyltransferase, putative; malaria	98.2
3htx_A	950	HEN1; HEN1, small RNA methyltransferase, protein-R	98.2
2pjd_A	343	Ribosomal RNA small subunit methyltransferase C; g	98.18
2p8j_A	209	S-adenosylmethionine-dependent methyltransferase;	98.18
3gnl_A	244	Uncharacterized protein, DUF633, LMOF2365_1472; st	98.18
3dxy_A	218	TRNA (guanine-N(7)-)-methyltransferase; rossmann f	98.17
2gs9_A	211	Hypothetical protein TT1324; methyl transferase, s	98.17
2vdv_E	246	TRNA (guanine-N(7)-)-methyltransferase; S-adenosyl	98.17
1dus_A	194	MJ0882; hypothetical protein, methanococcus jannas	98.17
1y8c_A	246	S-adenosylmethionine-dependent methyltransferase;	98.17
2y1w_A	348	Histone-arginine methyltransferase CARM1; histone	98.16
3iv6_A	261	Putative Zn-dependent alcohol dehydrogenase; alpha	98.16
1jsx_A	207	Glucose-inhibited division protein B; methyltransf	98.14
1wzn_A	252	SAM-dependent methyltransferase; structural genomi	98.14
1vbf_A	231	231AA long hypothetical protein-L-isoaspartate O-	98.13
3ckk_A	235	TRNA (guanine-N(7)-)-methyltransferase; mettl1, S-	98.13
3gjy_A	317	Spermidine synthase; APC62791, structural genomics	98.13
2pwy_A	258	TRNA (adenine-N(1)-)-methyltransferase; mtase, ado	98.12
2pxx_A	215	Uncharacterized protein MGC2408; structural genomi	98.11
2fyt_A	340	Protein arginine N-methyltransferase 3; structural	98.11
1nv8_A	284	HEMK protein; class I adoMet-dependent methyltrans	98.11
1vlm_A	219	SAM-dependent methyltransferase; possible histamin	98.11
1fbn_A	230	MJ fibrillarin homologue; MJ proteins, ribosomal R	98.1
1ne2_A	200	Hypothetical protein TA1320; structural genomics,	98.1
1ej0_A	180	FTSJ; methyltransferase, adoMet, adenosyl methioni	98.08
3grz_A	205	L11 mtase, ribosomal protein L11 methyltransferase	98.08
3ntv_A	232	MW1564 protein; rossmann fold, putative methyltran	98.07
1qam_A	244	ERMC' methyltransferase; rRNA methyltransferase ER	98.07
3q7e_A	349	Protein arginine N-methyltransferase 1; HET: SAH;	98.06
2zfu_A	215	Nucleomethylin, cerebral protein 1; nucleolar prot	98.04
2h00_A	254	Methyltransferase 10 domain containing protein; st	98.03
3adn_A	294	Spermidine synthase; aminopropyltransferase, polya	98.02
1dl5_A	317	Protein-L-isoaspartate O-methyltransferase; isoasp	98.02
1o54_A	277	SAM-dependent O-methyltransferase; TM0748, structu	98.01
3njr_A	204	Precorrin-6Y methylase; methyltransferase, decarbo	98.0
3fpf_A	298	Mtnas, putative uncharacterized protein; thermonic	98.0
3tfw_A	248	Putative O-methyltransferase; PSI-biology, nysgrc,	97.99
1l3i_A	192	Precorrin-6Y methyltransferase/putative decarboxyl	97.99
1ri5_A	298	MRNA capping enzyme; methyltransferase, M7G, messe	97.98
1g6q_1	328	HnRNP arginine N-methyltransferase; SAM-binding do	97.98
3p2e_A	225	16S rRNA methylase; methyltransferase, transferase	97.98
3bgv_A	313	MRNA CAP guanine-N7 methyltransferase; alternative	97.98
3u81_A	221	Catechol O-methyltransferase; neurotransmitter deg	97.98
2ozv_A	260	Hypothetical protein ATU0636; structural genomics,	97.98
2aot_A	292	HMT, histamine N-methyltransferase; classic methyl	97.98
2gpy_A	233	O-methyltransferase; structural genomics, PSI, pro	97.94
2esr_A	177	Methyltransferase; structural genomics, hypothetic	97.94
1xdz_A	240	Methyltransferase GIDB; MCSG, protein structure in	97.94
1o9g_A	250	RRNA methyltransferase; antibiotic resistance, Se-	97.93
1i9g_A	280	Hypothetical protein RV2118C; mtase, adoMet, cryst	97.93
3r0q_C	376	Probable protein arginine N-methyltransferase 4.2;	97.92
2avn_A	260	Ubiquinone/menaquinone biosynthesis methyltransfe	97.92
3gdh_A	241	Trimethylguanosine synthase homolog; M7G, CAP, dim	97.92
3frh_A	253	16S rRNA methylase; methyltransferase domain, heli	97.91
3m33_A	226	Uncharacterized protein; structural genomics, PSI-	97.91
2fhp_A	187	Methylase, putative; alpha-beta-alpha sandwich, st	97.91
3g89_A	249	Ribosomal RNA small subunit methyltransferase G; 1	97.91
1iy9_A	275	Spermidine synthase; rossmann fold, structural gen	97.9
1zq9_A	285	Probable dimethyladenosine transferase; SGC, struc	97.9
3tma_A	354	Methyltransferase; thump domain; 2.05A {Thermus th	97.89
3eey_A	197	Putative rRNA methylase; rRNA methylation, S-adeno	97.89
3mti_A	185	RRNA methylase; SAM-dependent, PSI, MCSG, structur	97.88
1p91_A	269	Ribosomal RNA large subunit methyltransferase A; R	97.87
3orh_A	236	Guanidinoacetate N-methyltransferase; structura ge	97.86
3duw_A	223	OMT, O-methyltransferase, putative; alternating of	97.86
3ftd_A	249	Dimethyladenosine transferase; KSGA, rossmann-like	97.85
3bwc_A	304	Spermidine synthase; SAM, SGPP, structura genomics	97.84
3lcv_B	281	Sisomicin-gentamicin resistance methylase SGM; ant	97.84
4e2x_A	416	TCAB9; kijanose, tetronitrose, tetradeoxy sugar, s	97.82
2ipx_A	233	RRNA 2'-O-methyltransferase fibrillarin; FBL, stru	97.82
3lpm_A	259	Putative methyltransferase; structural genomics, p	97.82
3tr6_A	225	O-methyltransferase; cellular processes; HET: SAH;	97.8
1r18_A	227	Protein-L-isoaspartate(D-aspartate)-O-methyltrans;	97.8
3evz_A	230	Methyltransferase; NYSGXRC, NEW YORK SGX research	97.8
1m6y_A	301	S-adenosyl-methyltransferase MRAW; SAM-dependent m	97.79
2avd_A	229	Catechol-O-methyltransferase; structural genomics,	97.79
1nt2_A	210	Fibrillarin-like PRE-rRNA processing protein; adeM	97.79
2bm8_A	236	Cephalosporin hydroxylase CMCI; cephamycin biosynt	97.77
3giw_A	277	Protein of unknown function DUF574; rossmann-fold	97.77
1g8a_A	227	Fibrillarin-like PRE-rRNA processing protein; rRNA	97.77
3gru_A	295	Dimethyladenosine transferase; rossman fold, ribos	97.77
2pbf_A	227	Protein-L-isoaspartate O-methyltransferase beta-A	97.76
1u2z_A	433	Histone-lysine N-methyltransferase, H3 lysine-79 s	97.75
2nxc_A	254	L11 mtase, ribosomal protein L11 methyltransferase	97.75
3c3p_A	210	Methyltransferase; NP_951602.1, structural genomic	97.75
1zx0_A	236	Guanidinoacetate N-methyltransferase; structural g	97.75
2b25_A	336	Hypothetical protein; structural genomics, methyl	97.74
1wy7_A	207	Hypothetical protein PH1948; seven-stranded beta s	97.74
2kw5_A	202	SLR1183 protein; structural genomics, northeast st	97.74
1ws6_A	171	Methyltransferase; structural genomics, riken stru	97.72
2nyu_A	196	Putative ribosomal RNA methyltransferase 2; SAM, s	97.72
3p9n_A	189	Possible methyltransferase (methylase); RV2966C, a	97.71
2o07_A	304	Spermidine synthase; structural genomics, structur	97.71
2frn_A	278	Hypothetical protein PH0793; structural genomics,	97.71
1xj5_A	334	Spermidine synthase 1; structural genomics, protei	97.7
3fut_A	271	Dimethyladenosine transferase; methyltransferase,	97.69
3dr5_A	221	Putative O-methyltransferase; Q8NRD3, CGL1119, PF0	97.69
2cmg_A	262	Spermidine synthase; transferase, putrescine amino	97.69
3tm4_A	373	TRNA (guanine N2-)-methyltransferase TRM14; rossma	97.68
3a27_A	272	TYW2, uncharacterized protein MJ1557; wybutosine m	97.68
1uir_A	314	Polyamine aminopropyltransferase; spermidien synth	97.68
2hnk_A	239	SAM-dependent O-methyltransferase; modified rossma	97.68
1inl_A	296	Spermidine synthase; beta-barrel, rossman fold, st	97.67
2fpo_A	202	Methylase YHHF; structural genomics, putative meth	97.66
2yvl_A	248	TRMI protein, hypothetical protein; tRNA, methyltr	97.66
2pt6_A	321	Spermidine synthase; transferase, structural genom	97.65
3uzu_A	279	Ribosomal RNA small subunit methyltransferase A; s	97.65
1sui_A	247	Caffeoyl-COA O-methyltransferase; rossmann fold, p	97.64
1yub_A	245	Ermam, rRNA methyltransferase; MLS antibiotics; NM	97.63
1i1n_A	226	Protein-L-isoaspartate O-methyltransferase; S-aden	97.62
3r3h_A	242	O-methyltransferase, SAM-dependent; structural gen	97.62
3bzb_A	281	Uncharacterized protein; RED ALGA, protein structu	97.62
2h1r_A	299	Dimethyladenosine transferase, putative; SGC toron	97.61
2ih2_A	421	Modification methylase TAQI; DNA, DNA methyltransf	97.61
2b2c_A	314	Spermidine synthase; beta-alpha, transferase; 2.50	97.6
2i7c_A	283	Spermidine synthase; transferase, structural genom	97.59
3c3y_A	237	Pfomt, O-methyltransferase; plant secondary metabo	97.59
2vdw_A	302	Vaccinia virus capping enzyme D1 subunit; nucleoti	97.58
1mjf_A	281	Spermidine synthase; spermidine synthetase, struct	97.58
2ift_A	201	Putative methylase HI0767; NESG, Y767_haein, struc	97.58
3k0b_A	393	Predicted N6-adenine-specific DNA methylase; methy	97.56
3tqs_A	255	Ribosomal RNA small subunit methyltransferase A; p	97.55
4azs_A	569	Methyltransferase WBDD; kinase; HET: AMP SAM; 2.15	97.53
3ldu_A	385	Putative methylase; structural genomics, PSI-2, pr	97.52
3dou_A	191	Ribosomal RNA large subunit methyltransferase J; c	97.51
3b73_A	111	PHIH1 repressor-like protein; winged-helix-turn-he	97.51
2i62_A	265	Nicotinamide N-methyltransferase; structural genom	97.49
3cbg_A	232	O-methyltransferase; cyanobacterium; HET: SAH FER	97.48
2heo_A	67	Z-DNA binding protein 1; protein DLM1-Z-DNA comple	97.48
3dmg_A	381	Probable ribosomal RNA small subunit methyltransf;	97.47
4hc4_A	376	Protein arginine N-methyltransferase 6; HRMT1L6, S	97.46
3ldg_A	384	Putative uncharacterized protein SMU.472; YPSC, me	97.46
1uwv_A	433	23S rRNA (uracil-5-)-methyltransferase RUMA; RNA m	97.38
1y0u_A	96	Arsenical resistance operon repressor, putative; s	97.38
2oxt_A	265	Nucleoside-2'-O-methyltransferase; flavivirus, vir	97.36
1qyr_A	252	KSGA, high level kasugamycin resistance protein, S	97.36
1ixk_A	315	Methyltransferase; open beta sheet; 1.90A {Pyrococ	97.34
3o4f_A	294	Spermidine synthase; aminopropyltransferase, polya	97.32
2wa2_A	276	Non-structural protein 5; transferase, S-adenosyl-	97.31
2f8l_A	344	Hypothetical protein LMO1582; structural genomics,	97.28
3sso_A	419	Methyltransferase; macrolide, natural product, ros	97.23
2g72_A	289	Phenylethanolamine N-methyltransferase; HET: SAM F	97.18
1qbj_A	81	Protein (double-stranded RNA specific adenosine D	97.17
3k6r_A	278	Putative transferase PH0793; structural genomics,	97.11
2yxl_A	450	PH0851 protein, 450AA long hypothetical FMU protei	97.09
2p41_A	305	Type II methyltransferase; vizier, viral enzymes i	97.08
2r6z_A	258	UPF0341 protein in RSP 3' region; alpha-beta prote	97.06
3ajd_A	274	Putative methyltransferase MJ0026; tRNA, M5C, ross	97.06
2a14_A	263	Indolethylamine N-methyltransferase; SGC,INMT, str	97.05
1qgp_A	77	Protein (double stranded RNA adenosine deaminase);	97.03
2qfm_A	364	Spermine synthase; spermidine aminopropyltransfera	97.0
4df3_A	233	Fibrillarin-like rRNA/TRNA 2'-O-methyltransferase;	96.99
3id6_C	232	Fibrillarin-like rRNA/TRNA 2'-O-methyltransferase;	96.99
1xmk_A	79	Double-stranded RNA-specific adenosine deaminase;	96.97
3pqk_A	102	Biofilm growth-associated repressor; helix-turn-he	96.93
2kko_A	108	Possible transcriptional regulatory protein (possi	96.9
4gqb_A	637	Protein arginine N-methyltransferase 5; TIM barrel	96.88
2jjq_A	425	Uncharacterized RNA methyltransferase pyrab10780;	96.88
3f6o_A	118	Probable transcriptional regulator, ARSR family pr	96.87
3mq0_A	275	Transcriptional repressor of the blcabc operon; he	96.85
3jth_A	98	Transcription activator HLYU; transcription factor	96.84
3cuo_A	99	Uncharacterized HTH-type transcriptional regulato;	96.82
3df8_A	111	Possible HXLR family transcriptional factor; APC89	96.81
1ub9_A	100	Hypothetical protein PH1061; helix-turn-helix moti	96.79
2igt_A	332	SAM dependent methyltransferase; alpha-beta sandwi	96.76
1wg8_A	285	Predicted S-adenosylmethionine-dependent methyltra	96.75
2yx1_A	336	Hypothetical protein MJ0883; methyl transferase, t	96.74
2hzt_A	107	Putative HTH-type transcriptional regulator YTCD;	96.74
1u2w_A	122	CADC repressor, cadmium efflux system accessory pr	96.72
2oqg_A	114	Possible transcriptional regulator, ARSR family P;	96.72
3hp7_A	291	Hemolysin, putative; structural genomics, APC64019	96.67
2oyr_A	258	UPF0341 protein YHIQ; alpha-beta protein, structur	96.66
3f6v_A	151	Possible transcriptional regulator, ARSR family pr	96.6
1mkm_A	249	ICLR transcriptional regulator; structural genomic	96.58
1tbx_A	99	ORF F-93, hypothetical 11.0 kDa protein; sulfolobu	96.56
1sqg_A	429	SUN protein, FMU protein; rossmann-fold, mixed bet	96.55
1r1u_A	106	CZRA, repressor protein; zinc, DNA binding, transc	96.54
3ech_A	142	MEXR, multidrug resistance operon repressor; winge	96.54
4a5n_A	131	Uncharacterized HTH-type transcriptional regulato;	96.52
2qww_A	154	Transcriptional regulator, MARR family; YP_013417.	96.51
3v97_A	703	Ribosomal RNA large subunit methyltransferase L; Y	96.5
3bdd_A	142	Regulatory protein MARR; putative multiple antibio	96.49
1z7u_A	112	Hypothetical protein EF0647; winged-helix-turn-hel	96.49
2y75_A	129	HTH-type transcriptional regulator CYMR; DNA bindi	96.49
2jsc_A	118	Transcriptional regulator RV1994C/MT2050; cadmium,	96.48
3ll7_A	410	Putative methyltransferase; methytransferase, stru	96.48
2xrn_A	241	HTH-type transcriptional regulator TTGV; DNA-bindi	96.43
2okc_A	445	Type I restriction enzyme stysji M protein; NP_813	96.39
2b78_A	385	Hypothetical protein SMU.776; structure genomics,	96.35
3r4k_A	260	Transcriptional regulator, ICLR family; DNA/RNA-bi	96.34
3ua3_A	745	Protein arginine N-methyltransferase 5; TIM-barrel	96.33
2as0_A	396	Hypothetical protein PH1915; RNA methyltransferase	96.3
2nyx_A	168	Probable transcriptional regulatory protein, RV14;	96.3
3m6w_A	464	RRNA methylase; rRNA methyltransferase, 5-methylcy	96.3
1yyv_A	131	Putative transcriptional regulator; reductive meth	96.28
1wxx_A	382	TT1595, hypothetical protein TTHA1280; thermus the	96.28
1on2_A	142	Transcriptional regulator MNTR; helix-turn-helix,	96.28
3opn_A	232	Putative hemolysin; structural genomics, PSI-2, pr	96.24
2fsw_A	107	PG_0823 protein; alpha-beta structure, helix-turn-	96.22
1r1t_A	122	Transcriptional repressor SMTB; zinc, transcriptio	96.22
3f3x_A	144	Transcriptional regulator, MARR family, putative;	96.18
2htj_A	81	P fimbrial regulatory protein KS71A; winged helix-	96.17
4auk_A	375	Ribosomal RNA large subunit methyltransferase M; Y	96.17
2wte_A	244	CSA3; antiviral protein, viral resistance, winged	96.17
1r7j_A	95	Conserved hypothetical protein SSO10A; winged heli	96.16
2jt1_A	77	PEFI protein; solution structure, winged helix-tur	96.1
3g3z_A	145	NMB1585, transcriptional regulator, MARR family; t	96.07
3k0l_A	162	Repressor protein; helix-turn-helix, structural ge	96.06
2o0y_A	260	Transcriptional regulator; ICLR-family, structural	96.06
1oyi_A	82	Double-stranded RNA-binding protein; (alpha+beta)	96.03
2nnn_A	140	Probable transcriptional regulator; structural gen	96.01
3tka_A	347	Ribosomal RNA small subunit methyltransferase H; H	95.99
2f2e_A	146	PA1607; transcription factor, helix-TRUN-helix, AP	95.97
2g7u_A	257	Transcriptional regulator; ICLR family, structural	95.96
3fm5_A	150	Transcriptional regulator; MCSG, PF04017, PSI, MAR	95.95
3e6m_A	161	MARR family transcriptional regulator; APC88769, s	95.95
3cdh_A	155	Transcriptional regulator, MARR family; helix-turn	95.95
1xn7_A	78	Hypothetical protein YHGG; alpha+beta, GFT structu	95.92
1jgs_A	138	Multiple antibiotic resistance protein MARR; trans	95.9
2hr3_A	147	Probable transcriptional regulator; MCSG, structur	95.9
2k4m_A	153	TR8_protein, UPF0146 protein MTH_1000; alpha+beta,	95.9
3c0k_A	396	UPF0064 protein YCCW; PUA domain, adoMet dependent	95.86
3t8r_A	143	Staphylococcus aureus CYMR; transcriptional regula	95.83
3lwf_A	159	LIN1550 protein, putative transcriptional regulato	95.82
3b5i_A	374	S-adenosyl-L-methionine:salicylic acid carboxyl me	95.8
3bpv_A	138	Transcriptional regulator; MARR, DNA binding, tran	95.79
2frx_A	479	Hypothetical protein YEBU; rossmann-type S-adenosy	95.78
2ia2_A	265	Putative transcriptional regulator; SAD, PSI-2, st	95.76
2rdp_A	150	Putative transcriptional regulator MARR; PFAM PF01	95.76
2b9e_A	309	NOL1/NOP2/SUN domain family, member 5 isoform 2; m	95.75
2k02_A	87	Ferrous iron transport protein C; FEOC, iron-sulfu	95.75
2fbi_A	142	Probable transcriptional regulator; MARR, APC5816,	95.71
2lnb_A	80	Z-DNA-binding protein 1; structural genomics, nort	95.7
3oop_A	143	LIN2960 protein; protein structure initiative, PSI	95.7
1s3j_A	155	YUSO protein; structural genomics, MARR transcript	95.69
2gxg_A	146	146AA long hypothetical transcriptional regulator;	95.69
3bja_A	139	Transcriptional regulator, MARR family, putative;	95.69
4hbl_A	149	Transcriptional regulator, MARR family; HTH, trans	95.66
3nrv_A	148	Putative transcriptional regulator (MARR/EMRR FAM;	95.65
3bt7_A	369	TRNA (uracil-5-)-methyltransferase; methyluridine,	95.65
3v97_A	703	Ribosomal RNA large subunit methyltransferase L; Y	95.61
2eth_A	154	Transcriptional regulator, putative, MAR family; M	95.58
3boq_A	160	Transcriptional regulator, MARR family; MARR famil	95.58
2x4h_A	139	Hypothetical protein SSO2273; transcription; 2.30A	95.55
2a61_A	145	Transcriptional regulator TM0710; APC4350, MCSG, m	95.54
2efj_A	384	3,7-dimethylxanthine methyltransferase; SAM-depend	95.53
1lj9_A	144	Transcriptional regulator SLYA; HTH DNA binding pr	95.5
2fbh_A	146	Transcriptional regulator PA3341; MARR, transcript	95.49
3m4x_A	456	NOL1/NOP2/SUN family protein; mtase domain, PUA do	95.47
2fu4_A	83	Ferric uptake regulation protein; DNA binding doma	95.44
4dmg_A	393	Putative uncharacterized protein TTHA1493; rRNA, m	95.43
3deu_A	166	Transcriptional regulator SLYA; MARR, WING-helix,	95.39
1bja_A	95	Transcription regulatory protein MOTA; activation	95.39
3bro_A	141	Transcriptional regulator; helix_TURN_helix, multi	95.38
2dul_A	378	N(2),N(2)-dimethylguanosine tRNA methyltransferas;	95.37
2zkz_A	99	Transcriptional repressor PAGR; protein-DNA, HTH m	95.34
3eco_A	139	MEPR; mutlidrug efflux pump regulator winged helix	95.33
3s2w_A	159	Transcriptional regulator, MARR family; structural	95.32
3cjn_A	162	Transcriptional regulator, MARR family; silicibact	95.31
4aik_A	151	Transcriptional regulator SLYA; transcription, tra	95.31
2xyq_A	290	Putative 2'-O-methyl transferase; transferase-vira	95.3
1z91_A	147	Organic hydroperoxide resistance transcriptional;	95.29
3bj6_A	152	Transcriptional regulator, MARR family; helix-turn	95.25
2frh_A	127	SARA, staphylococcal accessory regulator A; winged	95.24
3kp7_A	151	Transcriptional regulator TCAR; multiple drug resi	95.2
3tgn_A	146	ADC operon repressor ADCR; helix-turn-helix, trans	95.18
2pg4_A	95	Uncharacterized protein; structural genomics, join	95.13
3hsr_A	140	HTH-type transcriptional regulator SARZ; helix-tur	95.11
2qvo_A	95	Uncharacterized protein AF_1382; PSI, structural g	95.07
1ylf_A	149	RRF2 family protein; structural genomics, transcri	95.05
3jw4_A	148	Transcriptional regulator, MARR/EMRR family; DNA-b	94.99
3u2r_A	168	Regulatory protein MARR; structural genomics, PSI-	94.97
2ld4_A	176	Anamorsin; methyltransferase-like fold, alpha/beta	94.97
2lkp_A	119	Transcriptional regulator, ARSR family; symmetric	94.95
1sfx_A	109	Conserved hypothetical protein AF2008; structural	94.92
2bv6_A	142	MGRA, HTH-type transcriptional regulator MGRA; mul	94.89
2h09_A	155	Transcriptional regulator MNTR; transcription regu	94.88
1q1h_A	110	TFE, transcription factor E, TFE; TFIIE, transcrip	94.87
2pex_A	153	Transcriptional regulator OHRR; transcription regu	94.83
2fa5_A	162	Transcriptional regulator MARR/EMRR family; multip	94.82
3k69_A	162	Putative transcription regulator; putative transcr	94.77
3nqo_A	189	MARR-family transcriptional regulator; structural	94.71
3axs_A	392	Probable N(2),N(2)-dimethylguanosine tRNA methylt	94.62
3r0a_A	123	Putative transcriptional regulator; structural gen	94.58
2obp_A	96	Putative DNA-binding protein; structural genomics,	94.48
2p4w_A	202	Transcriptional regulatory protein ARSR family; ar	94.48
3p8z_A	267	Mtase, non-structural protein 5; methyltransferase	94.38
3c6k_A	381	Spermine synthase; spermidine aminopropyltransfera	94.34
3u1d_A	151	Uncharacterized protein; GNTR-superfamily, structu	94.19
1xd7_A	145	YWNA; structural genomics, protein structure initi	94.07
3hrs_A	214	Metalloregulator SCAR; DTXR/MNTR family member, tr	93.96
2fbk_A	181	Transcriptional regulator, MARR family; winged-hel	93.96
2fxa_A	207	Protease production regulatory protein HPR; protea	93.84
2qlz_A	232	Transcription factor PF0095; 2.50A {Pyrococcus fur	93.77
4b8x_A	147	SCO5413, possible MARR-transcriptional regulator;	93.7
1p6r_A	82	Penicillinase repressor; transcription regulation,	93.58
2px2_A	269	Genome polyprotein [contains: capsid protein C (co	93.49
1i4w_A	353	Mitochondrial replication protein MTF1; mitochondr	93.15
1rjd_A	334	PPM1P, carboxy methyl transferase for protein phos	93.06
1okr_A	123	MECI, methicillin resistance regulatory protein ME	93.04
1m6e_X	359	S-adenosyl-L-methionnine:salicylic acid carboxyl m	92.99
2pn6_A	150	ST1022, 150AA long hypothetical transcriptional re	92.91
2cfx_A	144	HTH-type transcriptional regulator LRPC; transcrip	92.77
1p4x_A	250	Staphylococcal accessory regulator A homologue; wi	92.77
2w25_A	150	Probable transcriptional regulatory protein; trans	92.74
2k4b_A	99	Transcriptional regulator; DNA binding protein, wi	92.67
3khk_A	544	Type I restriction-modification system methylation	92.56
3gcz_A	282	Polyprotein; flavivirus, RNA capping, methyltransf	92.5
2p5v_A	162	Transcriptional regulator, LRP/ASNC family; NMB057	92.48
2o03_A	131	Probable zinc uptake regulation protein FURB; DNA-	92.46
2cyy_A	151	Putative HTH-type transcriptional regulator PH151;	92.45
2dbb_A	151	Putative HTH-type transcriptional regulator PH006;	92.38
2cg4_A	152	Regulatory protein ASNC; DNA binding, FFRP, LRP fa	92.1
2esh_A	118	Conserved hypothetical protein TM0937; APC5794, st	92.1
2e1c_A	171	Putative HTH-type transcriptional regulator PH151;	92.08
3l7w_A	108	Putative uncharacterized protein SMU.1704; PADR, t	92.06
2ar0_A	541	M.ecoki, type I restriction enzyme ecoki M protein	92.03
3lkd_A	542	Type I restriction-modification system methyltrans	92.01
3i4p_A	162	Transcriptional regulator, ASNC family; PSI, struc	91.98
3s1s_A	878	Restriction endonuclease bpusi; PD--(D/E)XK cataly	91.97
1uly_A	192	Hypothetical protein PH1932; helix-turn-helix, str	91.96
4esf_A	117	PADR-like transcriptional regulator; PADR family,	91.9
4fx0_A	148	Probable transcriptional repressor protein; helix-	91.86
2ia0_A	171	Putative HTH-type transcriptional regulator PF086;	91.78
1i1g_A	141	Transcriptional regulator LRPA; helix-turn-helix,	91.75
2vn2_A	128	DNAD, chromosome replication initiation protein; D	91.69
2fe3_A	145	Peroxide operon regulator; oxidative stress regula	91.61
3cta_A	230	Riboflavin kinase; structural genomics, transferas	91.58
1ku9_A	152	Hypothetical protein MJ223; putative transcription	91.43
2d1h_A	109	ST1889, 109AA long hypothetical transcriptional re	91.33
1sfu_A	75	34L protein; protein/Z-DNA complex, DNA binding pr	91.24
4g6q_A	182	Putative uncharacterized protein; structural genom	90.99
3evf_A	277	RNA-directed RNA polymerase NS5; NS5 methyltransfe	90.99
1cf7_A	76	Protein (transcription factor E2F-4); E2F, winged-	90.91
2dk5_A	91	DNA-directed RNA polymerase III 39 kDa polypeptide	90.66
2v79_A	135	DNA replication protein DNAD; primosome, DNA-bindi	90.54
1hsj_A	487	Fusion protein consisting of staphylococcus access	90.5
1fx7_A	230	Iron-dependent repressor IDER; DTXR, iron-dependen	90.46
3lkz_A	321	Non-structural protein 5; flavivirus, methyltransf	90.14
3f8b_A	116	Transcriptional regulator, PADR-like family; winge	90.11
1zkd_A	387	DUF185; NESG, RPR58, structural genomics, PSI, pro	90.08
1j5y_A	187	Transcriptional regulator, biotin repressor famil;	89.98
3k2z_A	196	LEXA repressor; winged helix-turn-helix, SOS syste	89.88
3hhh_A	116	Transcriptional regulator, PADR family; PF03551, s	89.49
3mwm_A	139	ZUR, putative metal uptake regulation protein; FUR	89.49
2zig_A	297	TTHA0409, putative modification methylase; methylt	89.41
2xvc_A	59	ESCRT-III, SSO0910; cell cycle, cell division, cyt	89.4
1xma_A	145	Predicted transcriptional regulator; southea colla	89.32
2xig_A	150	Ferric uptake regulation protein; hpfur, transcrip	89.25
1v4r_A	102	Transcriptional repressor; helix-turn-helix, winge	89.2
1yg2_A	179	Gene activator APHA; virulence factor, winged heli	88.76
2qq9_A	226	Diphtheria toxin repressor; regulator, DTXR, helix	88.6
1jhg_A	101	Trp operon repressor; complex (regulatory protein-	88.4
2g9w_A	138	Conserved hypothetical protein; DNA-binding domain	88.24
3elk_A	117	Putative transcriptional regulator TA0346; structu	88.23
2qy6_A	257	UPF0209 protein YFCK; structural genomics, unknown	88.19
1z6r_A	406	MLC protein; transcriptional repressor, ROK family	87.34
4esb_A	115	Transcriptional regulator, PADR family; DNA bindin	86.63
2p8t_A	200	Hypothetical protein PH0730; pyrococcus horikoshii	86.42
2ek5_A	129	Predicted transcriptional regulators; helix-turn-h	86.38
1sd4_A	126	Penicillinase repressor; BLAI, MECI, methicillin,	86.38
3tqn_A	113	Transcriptional regulator, GNTR family; regulatory	86.01
3i71_A	68	Ethanolamine utilization protein EUTK; helix-turn-	85.92
1mzb_A	136	Ferric uptake regulation protein; ferric uptake re	85.91
3eld_A	300	Methyltransferase; flavivirus, RNA capping, guanyl	85.44
2pjp_A	121	Selenocysteine-specific elongation factor; SELB, p	84.96
1p4x_A	250	Staphylococcal accessory regulator A homologue; wi	84.92
3by6_A	126	Predicted transcriptional regulator; structural ge	84.53
3neu_A	125	LIN1836 protein; structural genomics, PSI-2, prote	83.97
2hoe_A	380	N-acetylglucosamine kinase; TM1224, structural gen	83.84
2b0l_A	102	GTP-sensing transcriptional pleiotropic repressor;	83.54
2vxz_A	165	Pyrsv_GP04; viral protein, SSPF, ORF165A; 1.7A {Py	83.54
4ham_A	134	LMO2241 protein; structural genomics, PSI-biology,	83.3
2o0m_A	345	Transcriptional regulator, SORC family; structural	82.75
3maj_A	382	DNA processing chain A; MCSG, PSI-2, structural ge	82.72
2qlz_A	232	Transcription factor PF0095; 2.50A {Pyrococcus fur	82.53
2uyo_A	310	Hypothetical protein ML2640; putative methyltransf	82.39
1bia_A	321	BIRA bifunctional protein; transcription regulatio	82.35
2yu3_A	95	DNA-directed RNA polymerase III 39 kDa polypeptide	81.97
2py6_A	409	Methyltransferase FKBM; YP_546752.1, structural ge	81.08
2wk1_A	282	NOVP; transferase, O-methyltransferase, novobiocin	81.07

>4a6d_A Hydroxyindole O-methyltransferase; melatonin, circadian clock; HET: SAM; 2.40A {Homo sapiens} PDB: 4a6e_A*

Probab=100.00  E-value=3.9e-48  Score=348.88  Aligned_cols=247  Identities=20%  Similarity=0.300  Sum_probs=220.1

Q ss_pred             HhhhHHHHHHHHHhhHHHHHHHHHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccc
Q 024350           10 EANNFSYAMELASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHC   89 (269)
Q Consensus        10 ~~~~~~~l~~~~~~~~~~~~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~   89 (269)
                      ++++++.|+++++||+.+++|++|++|||||.|.+.+  +|+|++|||+++|++      ++ .+.|+||+|+++|+|.+
T Consensus         5 e~~~~~~L~~l~~Gf~~s~~L~aa~eLglfd~L~~~~--~p~t~~eLA~~~g~~------~~-~l~rlLr~L~~~gll~~   75 (353)
T 4a6d_A            5 EDQAYRLLNDYANGFMVSQVLFAACELGVFDLLAEAP--GPLDVAAVAAGVRAS------AH-GTELLLDICVSLKLLKV   75 (353)
T ss_dssp             SCHHHHHHHHHHHHHHHHHHHHHHHHHTHHHHHHHSS--SCBCHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEEE
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHcCHHHHHhcCC--CCCCHHHHHHhhCcC------HH-HHHHHHHHHHHCCCEEE
Confidence            4588999999999999999999999999999999864  699999999999997      77 99999999999999985


Q ss_pred             eeecCCCeEecChhchh-hhcCCCCCCChHHHHHhhcChhhHhhhhhhHHHHhhCCchhhhhhC---CCchhccccCcch
Q 024350           90 SFVDGQRLYSLAPVSKY-FVRNNQNGASLRPYMALSLDKVLMDGWFRLKGQILEGGIAFNKAHG---MHIYDYLGVDSSF  165 (269)
Q Consensus        90 ~~~~~~~~y~~t~~s~~-l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~g---~~~~~~~~~~p~~  165 (269)
                      ..+.+.+.|++|+.++. +.++.  |.++++++.+. .+..++.|.+|++++++++++|...+|   .++|+++.++|+.
T Consensus        76 ~~~~~~~~y~~t~~s~~~l~~~~--~~~~~~~~~~~-~~~~~~~~~~L~~~vr~g~~~~~~~~g~~~~~~~~~~~~~~~~  152 (353)
T 4a6d_A           76 ETRGGKAFYRNTELSSDYLTTVS--PTSQCSMLKYM-GRTSYRCWGHLADAVREGRNQYLETFGVPAEELFTAIYRSEGE  152 (353)
T ss_dssp             EEETTEEEEEECHHHHHHHSTTS--TTCCHHHHHHH-HHTHHHHHTTHHHHHHHTSCCHHHHHSCCCSSHHHHHTSSHHH
T ss_pred             eccCccceeeCCHHHHHHhhcCC--chHHHHHHHHh-CHHHHHHHHHHHHHHhcCCChhHHhcCCChHHHHHHHhhCHHH
Confidence            43444568999999885 45554  67889888775 356789999999999999999998888   4689999999999


Q ss_pred             HHHHHHHHHhhchhhHHHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeehhHHHHhCCC------CCCce
Q 024350          166 NDVFSNGMLSHTSIVMEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPS------YPGID  239 (269)
Q Consensus       166 ~~~f~~~m~~~~~~~~~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp~vv~~a~~------~~ri~  239 (269)
                      ...|+++|...+....+.+++.++ |++..+|||||||+|.++.+++++||+++++++|+|+|++.+++      .+||+
T Consensus       153 ~~~f~~aM~~~~~~~~~~~~~~~~-~~~~~~v~DvGgG~G~~~~~l~~~~p~~~~~~~dlp~v~~~a~~~~~~~~~~rv~  231 (353)
T 4a6d_A          153 RLQFMQALQEVWSVNGRSVLTAFD-LSVFPLMCDLGGGAGALAKECMSLYPGCKITVFDIPEVVWTAKQHFSFQEEEQID  231 (353)
T ss_dssp             HHHHHHHHHTTHHHHHHHHHHSSC-GGGCSEEEEETCTTSHHHHHHHHHCSSCEEEEEECHHHHHHHHHHSCC--CCSEE
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhcC-cccCCeEEeeCCCCCHHHHHHHHhCCCceeEeccCHHHHHHHHHhhhhcccCcee
Confidence            999999999998888889999999 99999999999999999999999999999999999999987754      38999


Q ss_pred             EEecccCCc-CCCCcEEEeccccccCCCCCC
Q 024350          240 HVGGDLFES-VPKADTIFMKVICVCYLNSLS  269 (269)
Q Consensus       240 ~~~gD~~~~-~P~gD~~~l~~iLhd~~d~~~  269 (269)
                      +++||||++ .|.+|+|++++|||||+|++|
T Consensus       232 ~~~gD~~~~~~~~~D~~~~~~vlh~~~d~~~  262 (353)
T 4a6d_A          232 FQEGDFFKDPLPEADLYILARVLHDWADGKC  262 (353)
T ss_dssp             EEESCTTTSCCCCCSEEEEESSGGGSCHHHH
T ss_pred             eecCccccCCCCCceEEEeeeecccCCHHHH
Confidence            999999985 445699999999999999864

>3p9c_A Caffeic acid O-methyltransferase; S-adenosylmethionine dependent O-methyltransferase; HET: SAH; 1.80A {Lolium perenne} PDB: 3p9i_A* 3p9k_A*

Probab=100.00  E-value=1.1e-45  Score=334.13  Aligned_cols=258  Identities=46%  Similarity=0.845  Sum_probs=229.5

Q ss_pred             chHHHhhhHHHHHHHHHhhHHHHHHHHHHhcChhHHHHhcCCCCCCCHHHHHHhCCC-CCCCchhHHHHHHHHHHHHHhc
Q 024350            6 DQEEEANNFSYAMELASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPL-KDNNPEAAAMMLDRVLRLLVSY   84 (269)
Q Consensus         6 ~~~~~~~~~~~l~~~~~~~~~~~~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~-~~~~~~~~~~~l~rlL~~L~~~   84 (269)
                      ..+|+++++..+++++++++.+++|++|++|||||+|.+.| ++|+|++|||+++|+ .  +|+++. .++||||+|++.
T Consensus        13 ~~~~~~~~~~~~~~l~~~~~~~~~l~~a~~Lgifd~L~~~g-~~~~t~~eLA~~~g~~~--~~~~~~-~l~rlLr~L~~~   88 (364)
T 3p9c_A           13 AASADEDACMFALQLASSSVLPMTLKNAIELGLLEILVAAG-GKSLTPTEVAAKLPSAA--NPEAPD-MVDRILRLLASY   88 (364)
T ss_dssp             CHHHHHHHHHHHHHHTTTTHHHHHHHHHHHHTHHHHHHHTT-TCCBCHHHHHHTTTCTT--CTTHHH-HHHHHHHHHHHT
T ss_pred             cchHHHHHHHHHHHHHHhHHHHHHHHHHHHCChHHHHhhcC-CCCCCHHHHHHhcCCCC--Cccchh-hHHHHHHHHHhC
Confidence            45678999999999999999999999999999999999863 258999999999997 2  243345 899999999999


Q ss_pred             Ccccceeec---C--CCeEecChhchhhhcCCCCCCChHHHHHhhcChhhHhhhhhhHHHHhhCCchhhhhhCCCchhcc
Q 024350           85 NALHCSFVD---G--QRLYSLAPVSKYFVRNNQNGASLRPYMALSLDKVLMDGWFRLKGQILEGGIAFNKAHGMHIYDYL  159 (269)
Q Consensus        85 g~l~~~~~~---~--~~~y~~t~~s~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~g~~~~~~~  159 (269)
                      |+|++....   +  ++.|++|+.++.|+.+. .+.++++++.+...+.++..|.+|++++++|+++|+..+|.++|+|+
T Consensus        89 g~l~~~~~~~~~g~~~~~y~~t~~s~~l~~~~-~~~~~~~~~~~~~~~~~~~~~~~L~~~~r~g~~~~~~~~g~~~~~~~  167 (364)
T 3p9c_A           89 NVVTCLVEEGKDGRLSRSYGAAPVCKFLTPNE-DGVSMAALALMNQDKVLMESWYYLKDAVLDGGIPFNKAYGMSAFEYH  167 (364)
T ss_dssp             TSEEEEEEECSSSCEEEEEEECGGGGGSSCCT-TSCCTHHHHHHHTSHHHHGGGGGHHHHHHHCSCHHHHHHSSCHHHHH
T ss_pred             CCEEEeccccCCCCcCCEEecCHHHHHHcCCC-CCCCHHHHHHHhcCHHHHHHHhCHHHHHhhCCChHHHhcCCCHHHHH
Confidence            999953110   1  37899999999888765 36689998887666778999999999999999999999999999999


Q ss_pred             ccCcchHHHHHHHHHhhchhhHHHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeehhHHHHhCCCCCCce
Q 024350          160 GVDSSFNDVFSNGMLSHTSIVMEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPSYPGID  239 (269)
Q Consensus       160 ~~~p~~~~~f~~~m~~~~~~~~~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp~vv~~a~~~~ri~  239 (269)
                      ..+|+..+.|+++|...+....+.+++.++++++..+|||||||+|.++..+++++|+++++++|+|.+++.+++.+||+
T Consensus       168 ~~~~~~~~~f~~~m~~~~~~~~~~~~~~~~~~~~~~~vlDvG~G~G~~~~~l~~~~p~~~~~~~D~~~~~~~a~~~~~v~  247 (364)
T 3p9c_A          168 GTDPRFNRVFNEGMKNHSIIITKKLLELYHGFEGLGTLVDVGGGVGATVAAIAAHYPTIKGVNFDLPHVISEAPQFPGVT  247 (364)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHHHHHHHHHCCTTTTCSEEEEETCTTSHHHHHHHHHCTTCEEEEEECHHHHTTCCCCTTEE
T ss_pred             HhCHHHHHHHHHHHHHhhHHHHHHHHHhcccccCCCEEEEeCCCCCHHHHHHHHHCCCCeEEEecCHHHHHhhhhcCCeE
Confidence            99999999999999998887778888888767788999999999999999999999999999999999999999889999


Q ss_pred             EEecccCCcCCCCcEEEeccccccCCCCC
Q 024350          240 HVGGDLFESVPKADTIFMKVICVCYLNSL  268 (269)
Q Consensus       240 ~~~gD~~~~~P~gD~~~l~~iLhd~~d~~  268 (269)
                      ++.+||++++|++|+|++++|||+|+|++
T Consensus       248 ~~~~D~~~~~p~~D~v~~~~vlh~~~d~~  276 (364)
T 3p9c_A          248 HVGGDMFKEVPSGDTILMKWILHDWSDQH  276 (364)
T ss_dssp             EEECCTTTCCCCCSEEEEESCGGGSCHHH
T ss_pred             EEeCCcCCCCCCCCEEEehHHhccCCHHH
Confidence            99999999999779999999999999865

>3reo_A (ISO)eugenol O-methyltransferase; directed evolution, saturation mutagenesis, regioselectivity transferase; HET: SAH EUG; 1.90A {Clarkia breweri} PDB: 3tky_A* 1kyz_A* 1kyw_A*

Probab=100.00  E-value=5.6e-45  Score=330.04  Aligned_cols=257  Identities=51%  Similarity=0.910  Sum_probs=227.4

Q ss_pred             HHHhhhHHHHHHHHHhhHHHHHHHHHHhcChhHHHHhc-CCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCc
Q 024350            8 EEEANNFSYAMELASAIVLPAAMQAVVELDVFEIITKA-GPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNA   86 (269)
Q Consensus         8 ~~~~~~~~~l~~~~~~~~~~~~L~~a~~lglfd~L~~~-g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~   86 (269)
                      ++.++++..+++++++++.+++|++|++|||||+|.+. |+++|+|++|||+++|..  +|+++. .++|+||+|++.|+
T Consensus        16 ~~~~~~~~~~~~l~~~~~~~~~l~~a~~Lglfd~L~~~~gp~~~~t~~eLA~~~~~~--~~~~~~-~l~rlLr~L~~~gl   92 (368)
T 3reo_A           16 SSDEEANLFAMQLASAAVLPMALKAAIELDVLEIMAKSVPPSGYISPAEIAAQLPTT--NPEAPV-MLDRVLRLLASYSV   92 (368)
T ss_dssp             -CHHHHHHHHHHHHTTTHHHHHHHHHHHTTHHHHHHHHCCTTCCBCHHHHHTTSSCC--CTTHHH-HHHHHHHHHHHTTS
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHCCchhHHhhcCCCCCCcCHHHHHHhcCcC--CCcchh-hHHHHHHHHHhCCC
Confidence            46788999999999999999999999999999999986 544689999999999842  343346 89999999999999


Q ss_pred             ccceeec-C----CCeEecChhchhhhcCCCCCCChHHHHHhhcChhhHhhhhhhHHHHhhCCchhhhhhCCCchhcccc
Q 024350           87 LHCSFVD-G----QRLYSLAPVSKYFVRNNQNGASLRPYMALSLDKVLMDGWFRLKGQILEGGIAFNKAHGMHIYDYLGV  161 (269)
Q Consensus        87 l~~~~~~-~----~~~y~~t~~s~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~g~~~~~~~~~  161 (269)
                      |++.... +    +++|++|+.++.|+.+. .+.++++++.+..++.++..|.+|++++++|+++|+..+|.++|+|+..
T Consensus        93 l~~~~~~~~~g~~~~~y~~t~~s~~l~~~~-~~~~~~~~~~~~~~~~~~~~~~~l~~~~r~g~~~~~~~~g~~~~~~~~~  171 (368)
T 3reo_A           93 VTYTLRELPSGKVERLYGLAPVCKFLTKNE-DGVSLAPFLLLATDKVLLEPWFYLKDAILEGGIPFNKAYGMNIFDYHGT  171 (368)
T ss_dssp             EEEEEEECTTSCEEEEEEECTTHHHHSCCT-TSCCSHHHHHHHTCHHHHGGGGGHHHHHHHCSCHHHHHSSSCHHHHHTT
T ss_pred             eEEecccCCCCcccceeCcCHHHHHHhCCC-CCCCHHHHHHHhcCHHHHhhhhchHHHHhcCCCHHHHHhCCCHHHHHhh
Confidence            9953100 1    36899999999887665 3678999988766677889999999999999999999999999999999


Q ss_pred             CcchHHHHHHHHHhhchhhHHHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeehhHHHHhCCCCCCceEE
Q 024350          162 DSSFNDVFSNGMLSHTSIVMEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPSYPGIDHV  241 (269)
Q Consensus       162 ~p~~~~~f~~~m~~~~~~~~~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp~vv~~a~~~~ri~~~  241 (269)
                      +|+..+.|+++|...+....+.+++.+++|++..+|||||||+|.++..+++++|+++++++|+|.+++.+++.+||+++
T Consensus       172 ~~~~~~~f~~~m~~~~~~~~~~~~~~~~~~~~~~~vlDvG~G~G~~~~~l~~~~p~~~~~~~D~~~~~~~a~~~~~v~~~  251 (368)
T 3reo_A          172 DHRINKVFNKGMSSNSTITMKKILEMYNGFEGLTTIVDVGGGTGAVASMIVAKYPSINAINFDLPHVIQDAPAFSGVEHL  251 (368)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHTTCCTTTTCSEEEEETCTTSHHHHHHHHHCTTCEEEEEECHHHHTTCCCCTTEEEE
T ss_pred             CHHHHHHHHHHHHhhhhhHHHHHHHhcccccCCCEEEEeCCCcCHHHHHHHHhCCCCEEEEEehHHHHHhhhhcCCCEEE
Confidence            99999999999999888777888888876778899999999999999999999999999999999999999988999999


Q ss_pred             ecccCCcCCCCcEEEeccccccCCCCC
Q 024350          242 GGDLFESVPKADTIFMKVICVCYLNSL  268 (269)
Q Consensus       242 ~gD~~~~~P~gD~~~l~~iLhd~~d~~  268 (269)
                      .+|+++++|++|+|+++++||+|+|++
T Consensus       252 ~~d~~~~~p~~D~v~~~~vlh~~~~~~  278 (368)
T 3reo_A          252 GGDMFDGVPKGDAIFIKWICHDWSDEH  278 (368)
T ss_dssp             ECCTTTCCCCCSEEEEESCGGGBCHHH
T ss_pred             ecCCCCCCCCCCEEEEechhhcCCHHH
Confidence            999999999779999999999999865

>3lst_A CALO1 methyltransferase; calicheamicin, enediyne, SAH, STRU genomics, PSI-2, protein structure initiative; HET: SAH; 2.40A {Micromonospora echinospora}

Probab=100.00  E-value=3.7e-42  Score=309.21  Aligned_cols=246  Identities=20%  Similarity=0.241  Sum_probs=220.9

Q ss_pred             cchHHHhhhHHHHHHHHHhhHHHHHHHHHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhc
Q 024350            5 ADQEEEANNFSYAMELASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSY   84 (269)
Q Consensus         5 ~~~~~~~~~~~~l~~~~~~~~~~~~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~   84 (269)
                      +++-..+++..++++++++++.+++|++|+++|||+.|.+    +|+|++|||+++|++      ++ .++|+||+|++.
T Consensus        14 ~~~~~~~~~~~~l~~~~~~~~~~~~l~~a~~lglf~~l~~----g~~t~~elA~~~g~~------~~-~l~rlLr~l~~~   82 (348)
T 3lst_A           14 GGDMDRLQSALALYEEAMGYTYAAALRAAAAVGVADHLVD----GPRTPAELAAATGTD------AD-ALRRVLRLLAVR   82 (348)
T ss_dssp             --CCCHHHHHHHHHHHHTTHHHHHHHHHHHHHTGGGGGTT----SCBCHHHHHHHHTCC------HH-HHHHHHHHHHHT
T ss_pred             CCCCCCchHHHHHHHHHHHHHHHHHHHHHHHcCchhHhhC----CCCCHHHHHHHhCcC------HH-HHHHHHHHHHhC
Confidence            3445567888999999999999999999999999999986    699999999999997      77 999999999999


Q ss_pred             CcccceeecCCCeEecChhchhhhcCCCCCCChHHHHHhhcChhhHhhhhhhHHHHhhCCchhhhhhCCCchhccccCcc
Q 024350           85 NALHCSFVDGQRLYSLAPVSKYFVRNNQNGASLRPYMALSLDKVLMDGWFRLKGQILEGGIAFNKAHGMHIYDYLGVDSS  164 (269)
Q Consensus        85 g~l~~~~~~~~~~y~~t~~s~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~g~~~~~~~~~~p~  164 (269)
                      |+|+   + +++.|++|+.++.|.+++  +.++++++.++..+..++.|.+|++++++|+++|...+|.++|+|+.++|+
T Consensus        83 g~l~---~-~~~~y~~t~~s~~l~~~~--~~~~~~~~~~~~~~~~~~~~~~l~~~l~~g~~~~~~~~g~~~~~~~~~~~~  156 (348)
T 3lst_A           83 DVVR---E-SDGRFALTDKGAALRSDS--PVPARAGILMFTDTMFWTMSHRVASALGPERPAFADIFGSSLDAYFDGDAE  156 (348)
T ss_dssp             TSEE---E-ETTEEEECTTTGGGSTTS--SSCSHHHHHHHTSHHHHHHHHTHHHHTCTTCCCHHHHHSSCHHHHHTTCHH
T ss_pred             CCEE---e-cCCEEecCHHHHHHhcCC--CccHHHHHHHhcCHHHHHHHHHHHHHHhcCCChhhHHhCCCHHHHHHhCHH
Confidence            9999   5 578999999999887665  568888887765666789999999999999999999999899999999999


Q ss_pred             hHHHHHHHHHhhchhhHHHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeehhHHHHhCCC-----CCCce
Q 024350          165 FNDVFSNGMLSHTSIVMEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPS-----YPGID  239 (269)
Q Consensus       165 ~~~~f~~~m~~~~~~~~~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp~vv~~a~~-----~~ri~  239 (269)
                      ..+.|+++|...+....+.+++.++ |++..+|||||||+|.++..+++++|+++++++|+|+++...+.     .+||+
T Consensus       157 ~~~~f~~~m~~~~~~~~~~~~~~~~-~~~~~~vLDvG~G~G~~~~~l~~~~p~~~~~~~D~~~~~~~~~~~~~~~~~~v~  235 (348)
T 3lst_A          157 VEALYYEGMETVSAAEHLILARAGD-FPATGTVADVGGGRGGFLLTVLREHPGLQGVLLDRAEVVARHRLDAPDVAGRWK  235 (348)
T ss_dssp             HHHHHHHHHHHHHHTTHHHHHHHSC-CCSSEEEEEETCTTSHHHHHHHHHCTTEEEEEEECHHHHTTCCCCCGGGTTSEE
T ss_pred             HHHHHHHHHHHhhhhhHHHHHHhCC-ccCCceEEEECCccCHHHHHHHHHCCCCEEEEecCHHHhhcccccccCCCCCeE
Confidence            9999999999998888888999998 98899999999999999999999999999999999999873321     26899


Q ss_pred             EEecccCCcCCCCcEEEeccccccCCCCC
Q 024350          240 HVGGDLFESVPKADTIFMKVICVCYLNSL  268 (269)
Q Consensus       240 ~~~gD~~~~~P~gD~~~l~~iLhd~~d~~  268 (269)
                      ++.+|+++++|..|+|+++++||+|+|++
T Consensus       236 ~~~~d~~~~~p~~D~v~~~~vlh~~~d~~  264 (348)
T 3lst_A          236 VVEGDFLREVPHADVHVLKRILHNWGDED  264 (348)
T ss_dssp             EEECCTTTCCCCCSEEEEESCGGGSCHHH
T ss_pred             EEecCCCCCCCCCcEEEEehhccCCCHHH
Confidence            99999998889449999999999999874

>1zg3_A Isoflavanone 4'-O-methyltransferase; rossman fold, plant Pro transferase; HET: 2HI SAH; 2.35A {Medicago truncatula} PDB: 1zga_A* 1zhf_A* 1zgj_A*

Probab=100.00  E-value=4.1e-42  Score=309.92  Aligned_cols=253  Identities=27%  Similarity=0.443  Sum_probs=223.0

Q ss_pred             chHHHhhhHHHHHHHHHhhHHHHHHHHHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcC
Q 024350            6 DQEEEANNFSYAMELASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYN   85 (269)
Q Consensus         6 ~~~~~~~~~~~l~~~~~~~~~~~~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g   85 (269)
                      +.+|..++...+++++++++.+++|++|+++|||+.|+..|  +|+|++|||+++|++   |.+++ .++|+||+|++.|
T Consensus         3 ~~~~~~~~~~~l~~~~~~~~~~~~l~~a~~lgif~~L~~~~--~~~t~~eLA~~~g~~---~~~~~-~l~rlLr~L~~~g   76 (358)
T 1zg3_A            3 EESELYHAQIHLYKHVYNFVSSMALKSAMELGIADAIHNHG--KPMTLSELASSLKLH---PSKVN-ILHRFLRLLTHNG   76 (358)
T ss_dssp             TTSCCTTHHHHHHHHHTTHHHHHHHHHHHHHTHHHHHHHHT--SCEEHHHHHHHTTCC---TTTHH-HHHHHHHHHHHTT
T ss_pred             chHHhhhHHHHHHHHHHHHHHHHHHHHHHHCChHhHHhhcC--CCcCHHHHHHhcCCC---CcchH-HHHHHHHHHhhCC
Confidence            34678899999999999999999999999999999999853  599999999999994   22256 9999999999999


Q ss_pred             cccceee--cC-----CCeEecChhchhhhcCCCCCCChHHHHHhhcChhhHhhhhhhHHHHhhC--CchhhhhhCCCch
Q 024350           86 ALHCSFV--DG-----QRLYSLAPVSKYFVRNNQNGASLRPYMALSLDKVLMDGWFRLKGQILEG--GIAFNKAHGMHIY  156 (269)
Q Consensus        86 ~l~~~~~--~~-----~~~y~~t~~s~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~--~~~~~~~~g~~~~  156 (269)
                      +|++...  .+     ++.|++|+.++.|++++  +.++++++.+..++.+++.|.+|+++++++  .++|+..+|.++|
T Consensus        77 ll~~~~~~~~~~~g~~~~~y~~t~~s~~l~~~~--~~~~~~~~~~~~~~~~~~~~~~L~~~l~~g~~~~~~~~~~g~~~~  154 (358)
T 1zg3_A           77 FFAKTIVKGKEGDEEEEIAYSLTPPSKLLISGK--PTCLSSIVKGALHPSSLDMWSSSKKWFNEDKEQTLFECATGESFW  154 (358)
T ss_dssp             SEEEEEECCSSSSCCCEEEEEECHHHHTTCTTS--TTCCHHHHHHHTSHHHHGGGGGHHHHHHCSCCCCHHHHHHSSCHH
T ss_pred             cEEEecccccccCCCCCCEEeCCHHHHHHhCCC--CccHHHHHHHhcCcHHHHHHHHHHHHHhCCCCCChHHHHhCCCHH
Confidence            9994200  02     47999999999888776  568999988766677889999999999998  7889999999999


Q ss_pred             hccccCcchHH--HHHHHHHhhchhhHHHHHHhc--cCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeehhHHHHhC
Q 024350          157 DYLGVDSSFND--VFSNGMLSHTSIVMEKVLESY--KGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNA  232 (269)
Q Consensus       157 ~~~~~~p~~~~--~f~~~m~~~~~~~~~~~~~~~--~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp~vv~~a  232 (269)
                      +++.++|+..+  .|+.+|...+.... .+++.+  + |++..+|||||||+|.++..+++++|+++++++|+|.+++.+
T Consensus       155 ~~~~~~p~~~~~~~f~~~m~~~~~~~~-~~~~~~~~~-~~~~~~vlDvG~G~G~~~~~l~~~~p~~~~~~~D~~~~~~~a  232 (358)
T 1zg3_A          155 DFLNKDSESSTLSMFQDAMASDSRMFK-LVLQENKRV-FEGLESLVDVGGGTGGVTKLIHEIFPHLKCTVFDQPQVVGNL  232 (358)
T ss_dssp             HHHTSGGGHHHHHHHHHHHHHHHHTHH-HHHHHTHHH-HHTCSEEEEETCTTSHHHHHHHHHCTTSEEEEEECHHHHSSC
T ss_pred             HHHhcChhhhhHHHHHHHHhcccHHHH-HHHHhcchh-ccCCCEEEEECCCcCHHHHHHHHHCCCCeEEEeccHHHHhhc
Confidence            99999999999  99999999887665 788888  4 777789999999999999999999999999999999999988


Q ss_pred             CCCCCceEEecccCCcCCCCcEEEeccccccCCCCC
Q 024350          233 PSYPGIDHVGGDLFESVPKADTIFMKVICVCYLNSL  268 (269)
Q Consensus       233 ~~~~ri~~~~gD~~~~~P~gD~~~l~~iLhd~~d~~  268 (269)
                      ++.++|+++.+|+++++|+.|+|+++++||+|+|++
T Consensus       233 ~~~~~v~~~~~d~~~~~~~~D~v~~~~vlh~~~d~~  268 (358)
T 1zg3_A          233 TGNENLNFVGGDMFKSIPSADAVLLKWVLHDWNDEQ  268 (358)
T ss_dssp             CCCSSEEEEECCTTTCCCCCSEEEEESCGGGSCHHH
T ss_pred             ccCCCcEEEeCccCCCCCCceEEEEcccccCCCHHH
Confidence            887889999999999888779999999999999864

>1fp2_A Isoflavone O-methyltransferase; protein-product complex; HET: SAH HMO; 1.40A {Medicago sativa} SCOP: a.4.5.29 c.66.1.12 PDB: 1fpx_A* 2qyo_A*

Probab=100.00  E-value=1.6e-41  Score=305.43  Aligned_cols=252  Identities=25%  Similarity=0.427  Sum_probs=224.4

Q ss_pred             chHHHhhhHHHHHHHHHhhHHHHHHHHHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcC
Q 024350            6 DQEEEANNFSYAMELASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYN   85 (269)
Q Consensus         6 ~~~~~~~~~~~l~~~~~~~~~~~~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g   85 (269)
                      +.+|..++..++++++.+++.+++|++++++|||+.|+..|  +++|++|||+++|++   |.+++ .++|+||+|++.|
T Consensus         9 ~~~~~~~a~~~l~~~~~~~~~~~~l~~a~~lgif~~L~~~~--~~~t~~ela~~~~~~---~~~~~-~l~rlLr~L~~~g   82 (352)
T 1fp2_A            9 KPSEIFKAQALLYKHIYAFIDSMSLKWAVEMNIPNIIQNHG--KPISLSNLVSILQVP---SSKIG-NVRRLMRYLAHNG   82 (352)
T ss_dssp             CSTHHHHHHHHHHHHHTTHHHHHHHHHHHHTTHHHHHHHHT--SCEEHHHHHHHHTCC---GGGHH-HHHHHHHHHHHTT
T ss_pred             ChHHHhhHHHHHHHHHHHHHHHHHHHHHHHCChhhhhhhcC--CCccHHHHHHHhCcC---CCChH-HHHHHHHHHHhCC
Confidence            45788999999999999999999999999999999999853  599999999999994   33256 9999999999999


Q ss_pred             cccceeecCCCeEecChhchhhhcCCCCCCChHHHHHhhcChhhHhhhhhhHHHHh-hCCchhhhhhCCCchhccccCcc
Q 024350           86 ALHCSFVDGQRLYSLAPVSKYFVRNNQNGASLRPYMALSLDKVLMDGWFRLKGQIL-EGGIAFNKAHGMHIYDYLGVDSS  164 (269)
Q Consensus        86 ~l~~~~~~~~~~y~~t~~s~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~-~~~~~~~~~~g~~~~~~~~~~p~  164 (269)
                      +|++. +.+++.|++|+.++.|++++  +.++++++.+..++.++..|.+|++.++ +|+++|...+|.++|+++.++|+
T Consensus        83 ll~~~-~~~~~~y~~t~~s~~L~~~~--~~~~~~~~~~~~~~~~~~~~~~L~~~l~~~g~~~~~~~~g~~~~~~~~~~~~  159 (352)
T 1fp2_A           83 FFEII-TKEEESYALTVASELLVRGS--DLCLAPMVECVLDPTLSGSYHELKKWIYEEDLTLFGVTLGSGFWDFLDKNPE  159 (352)
T ss_dssp             SEEEE-ESSSEEEEECHHHHTTSTTS--SSCCHHHHHHHTCHHHHHGGGGHHHHHTCSSCCHHHHHHSSCHHHHHHHCHH
T ss_pred             eEEEe-cCCCCeEeCCHHHHHHhCCC--CccHHHHHHHhcCchHHHHHHHHHHHHHhcCCChHHHHcCCCHHHHHHhChH
Confidence            99942 01368999999999888776  5688999887666677899999999999 88899999999999999999999


Q ss_pred             hHHHHHHHHHhhchhhHHHHHHhc--cCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeehhHHHHhCCCCCCceEEe
Q 024350          165 FNDVFSNGMLSHTSIVMEKVLESY--KGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPSYPGIDHVG  242 (269)
Q Consensus       165 ~~~~f~~~m~~~~~~~~~~~~~~~--~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp~vv~~a~~~~ri~~~~  242 (269)
                      ..+.|+.+|...+....+. ++.|  + +++..+|||||||+|.++..+++++|+++++++|+|.+++.+++.++|+++.
T Consensus       160 ~~~~f~~~m~~~~~~~~~~-~~~~~~~-~~~~~~vlDvG~G~G~~~~~l~~~~p~~~~~~~D~~~~~~~a~~~~~v~~~~  237 (352)
T 1fp2_A          160 YNTSFNDAMASDSKLINLA-LRDCDFV-FDGLESIVDVGGGTGTTAKIICETFPKLKCIVFDRPQVVENLSGSNNLTYVG  237 (352)
T ss_dssp             HHHHHHHHHHHTHHHHHHH-HHTCHHH-HTTCSEEEEETCTTSHHHHHHHHHCTTCEEEEEECHHHHTTCCCBTTEEEEE
T ss_pred             HHHHHHHHHHhcchhhhhH-HHhcccc-cccCceEEEeCCCccHHHHHHHHHCCCCeEEEeeCHHHHhhcccCCCcEEEe
Confidence            9999999999988776666 7777  5 7778999999999999999999999999999999999999998888899999


Q ss_pred             cccCCcCCCCcEEEeccccccCCCCC
Q 024350          243 GDLFESVPKADTIFMKVICVCYLNSL  268 (269)
Q Consensus       243 gD~~~~~P~gD~~~l~~iLhd~~d~~  268 (269)
                      +|+++++|..|+|+++++||+|+|++
T Consensus       238 ~d~~~~~p~~D~v~~~~~lh~~~d~~  263 (352)
T 1fp2_A          238 GDMFTSIPNADAVLLKYILHNWTDKD  263 (352)
T ss_dssp             CCTTTCCCCCSEEEEESCGGGSCHHH
T ss_pred             ccccCCCCCccEEEeehhhccCCHHH
Confidence            99999888779999999999999864

>3gwz_A MMCR; methyltransferase, mitomycin, S-adenosyl methionine, transferase; HET: MSE SAH; 1.91A {Streptomyces lavendulae} PDB: 3gxo_A*

Probab=100.00  E-value=9.6e-42  Score=308.87  Aligned_cols=246  Identities=18%  Similarity=0.306  Sum_probs=223.2

Q ss_pred             chHHHhhhHHHHHHHHHhhHHHHHHHHHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcC
Q 024350            6 DQEEEANNFSYAMELASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYN   85 (269)
Q Consensus         6 ~~~~~~~~~~~l~~~~~~~~~~~~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g   85 (269)
                      ++....+...++++++.+++.+++|++|+++||||.|++    +|+|++|||+++|++      ++ .++|+||+|++.|
T Consensus        31 ~~~~~~~~~~~l~~l~~~~~~~~~l~~a~~lglf~~l~~----g~~t~~eLA~~~g~~------~~-~l~rlLr~L~~~g   99 (369)
T 3gwz_A           31 GTAARAAAEETVNDILQGAWKARAIHVAVELGVPELLQE----GPRTATALAEATGAH------EQ-TLRRLLRLLATVG   99 (369)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTGGGGTT----SCEEHHHHHHHHTCC------HH-HHHHHHHHHHHTT
T ss_pred             CCCCCChHHHHHHHHHHHHHHHHHHHHHHHCChhhhhcC----CCCCHHHHHHHHCcC------HH-HHHHHHHHHHhCC
Confidence            445556778899999999999999999999999999986    699999999999997      77 9999999999999


Q ss_pred             cccceeecCCCe-EecChhchhhhcCCCCCCChHHHHHhhcChhhHhhhhhhHHHHhhCCchhhhhhCCCchhccccCcc
Q 024350           86 ALHCSFVDGQRL-YSLAPVSKYFVRNNQNGASLRPYMALSLDKVLMDGWFRLKGQILEGGIAFNKAHGMHIYDYLGVDSS  164 (269)
Q Consensus        86 ~l~~~~~~~~~~-y~~t~~s~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~g~~~~~~~~~~p~  164 (269)
                      +|+   +++++. |++|+.++.|.++.  +.++++++.++..+..+..|.+|++.+++++++|...+|.++|+|+.++|+
T Consensus       100 ~l~---~~~~~~~y~~t~~s~~L~~~~--~~~~~~~~~~~~~~~~~~~~~~l~~~l~~g~~~~~~~~g~~~~~~~~~~~~  174 (369)
T 3gwz_A          100 VFD---DLGHDDLFAQNALSAVLLPDP--ASPVATDARFQAAPWHWRAWEQLTHSVRTGEASFDVANGTSFWQLTHEDPK  174 (369)
T ss_dssp             SSE---ECSSTTEEECCHHHHTTSCCT--TCHHHHHHHHHHSHHHHHHHHTHHHHHHHSSCSHHHHHSSCHHHHHHHCHH
T ss_pred             CEE---EeCCCceEecCHHHHHHhcCC--chhHHHHHHHcCCHHHHHHHHhHHHHHhCCCChhHhhcCCCHHHHHHhCHH
Confidence            999   555788 99999999887665  567888888765656789999999999999999999999899999999999


Q ss_pred             hHHHHHHHHHhhchhhHHHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeehhHHHHhCCC-------CCC
Q 024350          165 FNDVFSNGMLSHTSIVMEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPS-------YPG  237 (269)
Q Consensus       165 ~~~~f~~~m~~~~~~~~~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp~vv~~a~~-------~~r  237 (269)
                      ..+.|+++|...+....+.+++.++ +++..+|||||||+|.++..+++++|+++++++|+|.+++.+++       .+|
T Consensus       175 ~~~~f~~~m~~~~~~~~~~l~~~~~-~~~~~~vlDvG~G~G~~~~~l~~~~p~~~~~~~D~~~~~~~a~~~~~~~~l~~~  253 (369)
T 3gwz_A          175 ARELFNRAMGSVSLTEAGQVAAAYD-FSGAATAVDIGGGRGSLMAAVLDAFPGLRGTLLERPPVAEEARELLTGRGLADR  253 (369)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHSC-CTTCSEEEEETCTTSHHHHHHHHHCTTCEEEEEECHHHHHHHHHHHHHTTCTTT
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHhCC-CccCcEEEEeCCCccHHHHHHHHHCCCCeEEEEcCHHHHHHHHHhhhhcCcCCc
Confidence            9999999999988887888999998 88889999999999999999999999999999999999988764       378


Q ss_pred             ceEEecccCCcCCCC-cEEEeccccccCCCCC
Q 024350          238 IDHVGGDLFESVPKA-DTIFMKVICVCYLNSL  268 (269)
Q Consensus       238 i~~~~gD~~~~~P~g-D~~~l~~iLhd~~d~~  268 (269)
                      |+++.+|+++++|.+ |+|+++++||+|+|++
T Consensus       254 v~~~~~d~~~~~p~~~D~v~~~~vlh~~~d~~  285 (369)
T 3gwz_A          254 CEILPGDFFETIPDGADVYLIKHVLHDWDDDD  285 (369)
T ss_dssp             EEEEECCTTTCCCSSCSEEEEESCGGGSCHHH
T ss_pred             eEEeccCCCCCCCCCceEEEhhhhhccCCHHH
Confidence            999999999988865 9999999999999864

>1fp1_D Isoliquiritigenin 2'-O-methyltransferase; protein-substrate, protein-product complex; HET: SAH HCC; 1.82A {Medicago sativa} SCOP: a.4.5.29 c.66.1.12 PDB: 1fpq_A*

Probab=100.00  E-value=7.3e-41  Score=303.32  Aligned_cols=257  Identities=39%  Similarity=0.720  Sum_probs=208.7

Q ss_pred             ccchHHHhhhHHHHH--HHHHhhHHHHHHHHHHhcChhHHHHhcCCCCC---CCHHHHHHhCCC---CCCCchhHHHHHH
Q 024350            4 IADQEEEANNFSYAM--ELASAIVLPAAMQAVVELDVFEIITKAGPGAK---LSVSEIVAQIPL---KDNNPEAAAMMLD   75 (269)
Q Consensus         4 ~~~~~~~~~~~~~l~--~~~~~~~~~~~L~~a~~lglfd~L~~~g~~~~---~s~~eLA~~~~~---~~~~~~~~~~~l~   75 (269)
                      ++..++..++...++  +++++++.+++|++|+++|||+.|++.|  +|   +|++|||+++|+   +   |..++ .++
T Consensus        13 ~~~~~~~~~~~~~l~~~~l~~~~~~~~~l~~a~~lgif~~L~~~g--~pg~~~t~~eLA~~~~~~~~~---~~~~~-~l~   86 (372)
T 1fp1_D           13 ISATSEQTEDSACLSAMVLTTNLVYPAVLNAAIDLNLFEIIAKAT--PPGAFMSPSEIASKLPASTQH---SDLPN-RLD   86 (372)
T ss_dssp             ------CCHHHHHHHHHHHHHTTHHHHHHHHHHHTTHHHHHHTCS--STTCCBCHHHHHTTSCGGGCC---TTHHH-HHH
T ss_pred             cCchhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHCChHHHHHhcC--CCCCCcCHHHHHHhcCCCCCC---CcChH-HHH
Confidence            455667788888999  9999999999999999999999999853  25   999999999999   3   21167 999


Q ss_pred             HHHHHHHhcCccccee---ecC--CCeEecChhchhhhcCCCCC-CChHHHHHhhcChhhHhhhhhhHHHHhhC-Cchhh
Q 024350           76 RVLRLLVSYNALHCSF---VDG--QRLYSLAPVSKYFVRNNQNG-ASLRPYMALSLDKVLMDGWFRLKGQILEG-GIAFN  148 (269)
Q Consensus        76 rlL~~L~~~g~l~~~~---~~~--~~~y~~t~~s~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~l~~~l~~~-~~~~~  148 (269)
                      |+||+|++.|+|++..   +.+  ++.|++|+.++.|++++  + .++++++.+..++.+++.|.+|++.++++ +++|+
T Consensus        87 rlLr~L~~~gll~~~~~~~~~g~~~~~y~~t~~s~~L~~~~--~~~~~~~~~~~~~~~~~~~~~~~L~~~l~~g~~~~~~  164 (372)
T 1fp1_D           87 RMLRLLASYSVLTSTTRTIEDGGAERVYGLSMVGKYLVPDE--SRGYLASFTTFLCYPALLQVWMNFKEAVVDEDIDLFK  164 (372)
T ss_dssp             HHHHHHHHTTSEEEEEEECTTSCEEEEEEECTTGGGGSTTC--TTCCCTHHHHHHTCHHHHHHHTTHHHHHHSCC-----
T ss_pred             HHHHHHhhCCceEecccccCCCCcCCeEecCHHHHHHhCCC--CCCCHHHHHHHhcCchHHHHHHHHHHHHHcCCCChhH
Confidence            9999999999999421   001  36999999999888775  4 57889888766667789999999999999 88999


Q ss_pred             hhhCCCchhccccCcchHHHHHHHHHhhchhhHHHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeehhHH
Q 024350          149 KAHGMHIYDYLGVDSSFNDVFSNGMLSHTSIVMEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYV  228 (269)
Q Consensus       149 ~~~g~~~~~~~~~~p~~~~~f~~~m~~~~~~~~~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp~v  228 (269)
                      ..+|.++|+++.++|+..+.|+.+|...+....+.+++.++.+++..+|||||||+|.++..+++++|+++++++|+|.+
T Consensus       165 ~~~g~~~~~~~~~~~~~~~~f~~~m~~~~~~~~~~l~~~~~~~~~~~~vLDvG~G~G~~~~~l~~~~~~~~~~~~D~~~~  244 (372)
T 1fp1_D          165 NVHGVTKYEFMGKDKKMNQIFNKSMVDVCATEMKRMLEIYTGFEGISTLVDVGGGSGRNLELIISKYPLIKGINFDLPQV  244 (372)
T ss_dssp             ---------CCSSCHHHHHHHHHHHHHHHHHHHHHHHHHCCTTTTCSEEEEETCTTSHHHHHHHHHCTTCEEEEEECHHH
T ss_pred             HHhCCCHHHHHHhCHHHHHHHHHHHHhhhHHHHHHHHHHhhccCCCCEEEEeCCCCcHHHHHHHHHCCCCeEEEeChHHH
Confidence            99999999999999999999999999988877778888886577889999999999999999999999999999999999


Q ss_pred             HHhCCCCCCceEEecccCCcCCCCcEEEeccccccCCCCC
Q 024350          229 IKNAPSYPGIDHVGGDLFESVPKADTIFMKVICVCYLNSL  268 (269)
Q Consensus       229 v~~a~~~~ri~~~~gD~~~~~P~gD~~~l~~iLhd~~d~~  268 (269)
                      ++.+++.++|+++.+|+++++|..|+|+++++||+|+|++
T Consensus       245 ~~~a~~~~~v~~~~~d~~~~~~~~D~v~~~~~lh~~~d~~  284 (372)
T 1fp1_D          245 IENAPPLSGIEHVGGDMFASVPQGDAMILKAVCHNWSDEK  284 (372)
T ss_dssp             HTTCCCCTTEEEEECCTTTCCCCEEEEEEESSGGGSCHHH
T ss_pred             HHhhhhcCCCEEEeCCcccCCCCCCEEEEecccccCCHHH
Confidence            9999888899999999999888789999999999999864

>3i53_A O-methyltransferase; CO-complex, rossmann-like fold; HET: SAH; 2.08A {Streptomyces carzinostaticus subsp} PDB: 3i58_A* 3i5u_A* 3i64_A*

Probab=100.00  E-value=1.4e-41  Score=303.39  Aligned_cols=237  Identities=22%  Similarity=0.329  Sum_probs=213.1

Q ss_pred             HHHHHHHHhhHHHHHHHHHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecC
Q 024350           15 SYAMELASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDG   94 (269)
Q Consensus        15 ~~l~~~~~~~~~~~~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~   94 (269)
                      ..+++++.|++.+++|++|+++||||.|.+    +|+|++|||+++|++      ++ .++|+||+|++.|++.   +++
T Consensus         7 ~~l~~~~~g~~~~~~l~~a~~lglf~~l~~----g~~t~~elA~~~~~~------~~-~l~rlLr~l~~~gl~~---~~~   72 (332)
T 3i53_A            7 HIGLRALADLATPMAVRVAATLRVADHIAA----GHRTAAEIASAAGAH------AD-SLDRLLRHLVAVGLFT---RDG   72 (332)
T ss_dssp             SSCHHHHTCCHHHHHHHHHHHHTHHHHHHT----TCCBHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEE---ECT
T ss_pred             HHHHHHHHhhHHHHHHHHHHHcChHHHHhc----CCCCHHHHHHHHCcC------HH-HHHHHHHHHHhCCcEE---ecC
Confidence            457899999999999999999999999986    699999999999997      77 9999999999999999   556


Q ss_pred             CCeEecChhchhhhcCCCCCCChHHHHHhhcChhhH-hhhhhhHHHHhhCCchhhhhhCCCchhccccCcchHHHHHHHH
Q 024350           95 QRLYSLAPVSKYFVRNNQNGASLRPYMALSLDKVLM-DGWFRLKGQILEGGIAFNKAHGMHIYDYLGVDSSFNDVFSNGM  173 (269)
Q Consensus        95 ~~~y~~t~~s~~l~~~~~~~~~~~~~~~~~~~~~~~-~~~~~l~~~l~~~~~~~~~~~g~~~~~~~~~~p~~~~~f~~~m  173 (269)
                      ++.|.+|+.++.|.++.  +.++.+++.+...+..+ ..|.+|++++++++++|...+|.++|+++.++|+..+.|+.+|
T Consensus        73 ~~~y~~t~~s~~l~~~~--~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~m  150 (332)
T 3i53_A           73 QGVYGLTEFGEQLRDDH--AAGKRKWLDMNSAVGRGDLGFVELAHSIRTGQPAYPVRYGTSFWEDLGSDPVLSASFDTLM  150 (332)
T ss_dssp             TSBEEECTTGGGGSTTC--TTCCHHHHCTTSHHHHHGGGGGGHHHHHHHSSCSHHHHHSSCHHHHHHHCHHHHHHHHHHH
T ss_pred             CCeEEcCHhHHHHhcCC--chhHHHHHHHcCCHhHHHHHHHHhHHHHhcCCCHHHHhhCCCHHHHHHhCHHHHHHHHHHH
Confidence            79999999999887665  56788888765444456 8999999999999999999999889999999999999999999


Q ss_pred             HhhchhhHHHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeehhHHHHhCCC-------CCCceEEecccC
Q 024350          174 LSHTSIVMEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPS-------YPGIDHVGGDLF  246 (269)
Q Consensus       174 ~~~~~~~~~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp~vv~~a~~-------~~ri~~~~gD~~  246 (269)
                      ...+....+.+++.++ |++..+|||||||+|.++..+++++|+++++++|+|.+++.+++       .+||+++.+|++
T Consensus       151 ~~~~~~~~~~~~~~~~-~~~~~~vlDvG~G~G~~~~~l~~~~p~~~~~~~D~~~~~~~a~~~~~~~~~~~~v~~~~~d~~  229 (332)
T 3i53_A          151 SHHLELDYTGIAAKYD-WAALGHVVDVGGGSGGLLSALLTAHEDLSGTVLDLQGPASAAHRRFLDTGLSGRAQVVVGSFF  229 (332)
T ss_dssp             HHHHHHHHTTGGGSSC-CGGGSEEEEETCTTSHHHHHHHHHCTTCEEEEEECHHHHHHHHHHHHHTTCTTTEEEEECCTT
T ss_pred             HHhHHhhHHHHHHhCC-CCCCCEEEEeCCChhHHHHHHHHHCCCCeEEEecCHHHHHHHHHhhhhcCcCcCeEEecCCCC
Confidence            9988776677788888 88889999999999999999999999999999999999988764       278999999999


Q ss_pred             CcCCC-CcEEEeccccccCCCCC
Q 024350          247 ESVPK-ADTIFMKVICVCYLNSL  268 (269)
Q Consensus       247 ~~~P~-gD~~~l~~iLhd~~d~~  268 (269)
                      +++|. .|+|+++++||+|+|++
T Consensus       230 ~~~p~~~D~v~~~~vlh~~~~~~  252 (332)
T 3i53_A          230 DPLPAGAGGYVLSAVLHDWDDLS  252 (332)
T ss_dssp             SCCCCSCSEEEEESCGGGSCHHH
T ss_pred             CCCCCCCcEEEEehhhccCCHHH
Confidence            98885 49999999999999863

>2ip2_A Probable phenazine-specific methyltransferase; pyocyanin, phenazine-1-carboxy PHZM; 1.80A {Pseudomonas aeruginosa}

Probab=100.00  E-value=6.2e-40  Score=292.66  Aligned_cols=236  Identities=20%  Similarity=0.312  Sum_probs=213.1

Q ss_pred             hhHHHHHHHHHhhHHHHHHHHHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCccccee
Q 024350           12 NNFSYAMELASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSF   91 (269)
Q Consensus        12 ~~~~~l~~~~~~~~~~~~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~   91 (269)
                      .....+++++++++.+++|++++++|||+.|.+    +|+|++|||+++|++      ++ .++|+||+|++.|+|+   
T Consensus         7 ~~~~~l~~~~~~~~~~~~l~~~~~lgi~~~l~~----~~~t~~ela~~~~~~------~~-~l~r~Lr~L~~~g~l~---   72 (334)
T 2ip2_A            7 AAARNLIQVVTGEWKSRCVYVATRLGLADLIES----GIDSDETLAAAVGSD------AE-RIHRLMRLLVAFEIFQ---   72 (334)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHTTHHHHHHT----TCCSHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEE---
T ss_pred             ccHHHHHHHHHHHHHHHHHHHHHHcCcHHHHhC----CCCCHHHHHHHhCcC------HH-HHHHHHHHHHhCCceE---
Confidence            466889999999999999999999999999976    699999999999997      77 9999999999999999   


Q ss_pred             ecCCCeEecChhchhhhcCCCCCCChHHHHHhhcChhhHhhhhhhHHHHhhCCchhhhhhCCCchhccccCcchHHHHHH
Q 024350           92 VDGQRLYSLAPVSKYFVRNNQNGASLRPYMALSLDKVLMDGWFRLKGQILEGGIAFNKAHGMHIYDYLGVDSSFNDVFSN  171 (269)
Q Consensus        92 ~~~~~~y~~t~~s~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~g~~~~~~~~~~p~~~~~f~~  171 (269)
                      +.+++.|++|+.++.|. ++  |.++++++.+...+.. ..|.+|++.+++++++|+..+|.++|+++.++|+..+.|++
T Consensus        73 ~~~~~~y~~t~~s~~l~-~~--~~~~~~~~~~~~~~~~-~~~~~l~~~l~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~  148 (334)
T 2ip2_A           73 GDTRDGYANTPTSHLLR-DV--EGSFRDMVLFYGEEFH-AAWTPACEALLSGTPGFELAFGEDFYSYLKRCPDAGRRFLL  148 (334)
T ss_dssp             EETTTEEEECHHHHTTS-SS--TTCSHHHHHHHTTHHH-HHTTTHHHHHHHCCCHHHHHHSSCHHHHHHHCHHHHHHHHH
T ss_pred             ecCCCeEecCHHHHHHh-CC--CccHHHHHHHhcCchh-hHHHHHHHHHhcCCChhhhhcCCCHHHHHhhChHHHHHHHH
Confidence            55568999999999888 55  5688998877655444 89999999999999999998999999999999999999999


Q ss_pred             HHHhhchhhHHHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeehhHHHHhCCCC-------CCceEEecc
Q 024350          172 GMLSHTSIVMEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPSY-------PGIDHVGGD  244 (269)
Q Consensus       172 ~m~~~~~~~~~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp~vv~~a~~~-------~ri~~~~gD  244 (269)
                      +| ..+....+.+++.++ +++ .+|||||||+|.++..+++++|+++++++|+|.+++.+++.       +||+++.+|
T Consensus       149 ~m-~~~~~~~~~~~~~~~-~~~-~~vlDvG~G~G~~~~~l~~~~p~~~~~~~D~~~~~~~a~~~~~~~~~~~~v~~~~~d  225 (334)
T 2ip2_A          149 AM-KASNLAFHEIPRLLD-FRG-RSFVDVGGGSGELTKAILQAEPSARGVMLDREGSLGVARDNLSSLLAGERVSLVGGD  225 (334)
T ss_dssp             HH-GGGHHHHHHHHHHSC-CTT-CEEEEETCTTCHHHHHHHHHCTTCEEEEEECTTCTHHHHHHTHHHHHTTSEEEEESC
T ss_pred             HH-HHHHHHHHHHHHhCC-CCC-CEEEEeCCCchHHHHHHHHHCCCCEEEEeCcHHHHHHHHHHHhhcCCCCcEEEecCC
Confidence            99 877777788888888 888 99999999999999999999999999999999998877652       689999999


Q ss_pred             cCCcCCCC-cEEEeccccccCCCCC
Q 024350          245 LFESVPKA-DTIFMKVICVCYLNSL  268 (269)
Q Consensus       245 ~~~~~P~g-D~~~l~~iLhd~~d~~  268 (269)
                      +++++|++ |+|+++++||+|+|++
T Consensus       226 ~~~~~~~~~D~v~~~~vl~~~~~~~  250 (334)
T 2ip2_A          226 MLQEVPSNGDIYLLSRIIGDLDEAA  250 (334)
T ss_dssp             TTTCCCSSCSEEEEESCGGGCCHHH
T ss_pred             CCCCCCCCCCEEEEchhccCCCHHH
Confidence            99988875 9999999999998764

>3dp7_A SAM-dependent methyltransferase; structural genomics, protein structure initiative, NEW YORK structural genomix research; 2.33A {Bacteroides vulgatus}

Probab=100.00  E-value=2.2e-39  Score=292.80  Aligned_cols=242  Identities=19%  Similarity=0.268  Sum_probs=203.6

Q ss_pred             cchHHHhhhHHHHHHHHHhhHHHHHHHHHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhc
Q 024350            5 ADQEEEANNFSYAMELASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSY   84 (269)
Q Consensus         5 ~~~~~~~~~~~~l~~~~~~~~~~~~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~   84 (269)
                      .++.+..++..+++++++|++.+++|++++++||||.|+..+  +|+|++|||+++|++      ++ .++|+||+|++.
T Consensus         7 ~~~~~~~~a~~~l~~l~~g~~~~~~l~~a~~lgifd~L~~~~--~~~t~~eLA~~~g~~------~~-~l~rlLr~l~~~   77 (363)
T 3dp7_A            7 KEQCTAAEAQRLAQEIAFGPVVFQVSRLMLKFGIFQLLSGKR--EGYTLQEISGRTGLT------RY-AAQVLLEASLTI   77 (363)
T ss_dssp             CSCCCSTTHHHHHHHHHHHHHHHHHHHHHHHTTHHHHHHTCT--TCBCHHHHHHHHTCC------HH-HHHHHHHHHHHH
T ss_pred             cCchhHHHHHHHHHHHHhhHHHHHHHHHHHHhCHHHHHHhcC--CCCCHHHHHHHhCcC------HH-HHHHHHHHHhhC
Confidence            355678899999999999999999999999999999999854  699999999999997      77 999999999999


Q ss_pred             CcccceeecCCCeEecChhchhhhcCCCCCCChHHHHHhhcChhhHhhhhhhHHHHhhCCchhhhhhC--CCchhccccC
Q 024350           85 NALHCSFVDGQRLYSLAPVSKYFVRNNQNGASLRPYMALSLDKVLMDGWFRLKGQILEGGIAFNKAHG--MHIYDYLGVD  162 (269)
Q Consensus        85 g~l~~~~~~~~~~y~~t~~s~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~g--~~~~~~~~~~  162 (269)
                      |+|+   +. +++|++|+.++.|++++  +  ...++.+. .+..++.|.+|+++++++++++...+|  .++|+++.++
T Consensus        78 g~l~---~~-~~~y~~t~~s~~L~~~~--~--~~~~~~~~-~~~~~~~~~~L~~~lr~g~~~~~~~~g~~~~~~~~~~~~  148 (363)
T 3dp7_A           78 GTIL---LE-EDRYVLAKAGWFLLNDK--M--ARVNMEFN-HDVNYQGLFHLEEALLNGRPEGLKVFGEWPTIYEGLSQL  148 (363)
T ss_dssp             TSEE---EE-TTEEEECHHHHHHHHCH--H--HHHHHHHH-HHTTHHHHTTHHHHHHHSSCGGGGGTCCCSSHHHHGGGS
T ss_pred             CCeE---ec-CCEEecccchHHhhCCC--c--ccchheee-cHHhhhhHHHHHHHHhcCCCccccccCchHhHHHHHhhC
Confidence            9998   43 68999999999888765  2  22233332 356789999999999999998888888  7899999999


Q ss_pred             cchHH----HHHHHHHhhchhhHHHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeehhHHHHhCCCC---
Q 024350          163 SSFND----VFSNGMLSHTSIVMEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPSY---  235 (269)
Q Consensus       163 p~~~~----~f~~~m~~~~~~~~~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp~vv~~a~~~---  235 (269)
                      |+..+    .|+++|.....   ..++..+. .++..+|||||||+|.++..+++++|+++++++|+|.+++.+++.   
T Consensus       149 ~~~~~~~~~~f~~~~~~~~~---~~~l~~~~-~~~~~~vlDvG~G~G~~~~~l~~~~p~~~~~~~D~~~~~~~a~~~~~~  224 (363)
T 3dp7_A          149 PEQVQKSWFGFDHFYSDQSF---GKALEIVF-SHHPKRLLDIGGNTGKWATQCVQYNKEVEVTIVDLPQQLEMMRKQTAG  224 (363)
T ss_dssp             CHHHHHHHHHHHHHTTCCCC---HHHHHHHG-GGCCSEEEEESCTTCHHHHHHHHHSTTCEEEEEECHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHhhhhhH---HHHHHHhc-ccCCCEEEEeCCCcCHHHHHHHHhCCCCEEEEEeCHHHHHHHHHHHHh
Confidence            98766    36666655432   23444444 356789999999999999999999999999999999999877642   


Q ss_pred             ----CCceEEecccCCc---CCCC-cEEEeccccccCCCCC
Q 024350          236 ----PGIDHVGGDLFES---VPKA-DTIFMKVICVCYLNSL  268 (269)
Q Consensus       236 ----~ri~~~~gD~~~~---~P~g-D~~~l~~iLhd~~d~~  268 (269)
                          +||+++.+|++++   +|++ |+|+++++||+|+|++
T Consensus       225 ~~~~~~v~~~~~d~~~~~~~~p~~~D~v~~~~vlh~~~~~~  265 (363)
T 3dp7_A          225 LSGSERIHGHGANLLDRDVPFPTGFDAVWMSQFLDCFSEEE  265 (363)
T ss_dssp             CTTGGGEEEEECCCCSSSCCCCCCCSEEEEESCSTTSCHHH
T ss_pred             cCcccceEEEEccccccCCCCCCCcCEEEEechhhhCCHHH
Confidence                6899999999995   6754 9999999999999864

>1qzz_A RDMB, aclacinomycin-10-hydroxylase; anthracycline, methyltransferase, polyketide, tailoring enzymes, structural proteomics in E spine; HET: SAM; 2.10A {Streptomyces purpurascens} SCOP: a.4.5.29 c.66.1.12 PDB: 1r00_A* 1xds_A* 1xdu_A*

Probab=100.00  E-value=8.1e-38  Score=282.92  Aligned_cols=241  Identities=17%  Similarity=0.304  Sum_probs=214.5

Q ss_pred             hhhHHHHHHHHHhhHHHHHHHHHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccce
Q 024350           11 ANNFSYAMELASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCS   90 (269)
Q Consensus        11 ~~~~~~l~~~~~~~~~~~~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~   90 (269)
                      ++...++++++.+++.+++|++++++|||+.|..    +++|++|||+++|++      ++ .+.|+||+|++.|+|+  
T Consensus        14 ~~~~~~l~~~~~~~~~~~~l~~~~~l~i~~~l~~----~~~t~~eLA~~~g~~------~~-~l~r~Lr~L~~~Gll~--   80 (374)
T 1qzz_A           14 DQDLDVLLKNLGNLVTPMALRVAATLRLVDHLLA----GADTLAGLADRTDTH------PQ-ALSRLVRHLTVVGVLE--   80 (374)
T ss_dssp             HHHHHHHHHTTTCCHHHHHHHHHHHTTHHHHHHT----TCCSHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEE--
T ss_pred             chHHHHHHHHHHhhHHHHHHHHHHHcChHHHHhC----CCCCHHHHHHHhCcC------HH-HHHHHHHHHhhCCCEE--
Confidence            4567789999999999999999999999999965    699999999999997      77 9999999999999999  


Q ss_pred             eecCCC--eEecChhchhhhcCCCCCCChHHHHHhhcChhhH-hhhhhhHHHHhhCCchhhhhhCCCchhccccCcchHH
Q 024350           91 FVDGQR--LYSLAPVSKYFVRNNQNGASLRPYMALSLDKVLM-DGWFRLKGQILEGGIAFNKAHGMHIYDYLGVDSSFND  167 (269)
Q Consensus        91 ~~~~~~--~y~~t~~s~~l~~~~~~~~~~~~~~~~~~~~~~~-~~~~~l~~~l~~~~~~~~~~~g~~~~~~~~~~p~~~~  167 (269)
                       +.+++  .|++|+.++.|.++.  +.++++++.+...+..+ ..|.+|.+.+++++++|...+|.++|+++..+|+..+
T Consensus        81 -~~~~~~~~y~~t~~s~~l~~~~--~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~g~~~~~~~~~~~~~~~  157 (374)
T 1qzz_A           81 -GGEKQGRPLRPTRLGMLLADGH--PAQQRAWLDLNGAVSHADLAFTGLLDVVRTGRPAYAGRYGRPFWEDLSADVALAD  157 (374)
T ss_dssp             -CCCC-CCCCEECTTGGGGSTTC--TTCHHHHHCTTSHHHHHHGGGGGHHHHHHHSCCSHHHHHSSCHHHHHHHCHHHHH
T ss_pred             -EeCCCCeEEEEChHHHhhcCCC--cccHHHHHHHcCChhhHHHHHHHHHHHHhcCCChhhhhhCCCHHHHHhhChHHHH
Confidence             43466  999999999888776  66888888775444456 8999999999999999998899999999999999999


Q ss_pred             HHHHHHHhhchhhHHHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeehhHHHHhCCCC-------CCceE
Q 024350          168 VFSNGMLSHTSIVMEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPSY-------PGIDH  240 (269)
Q Consensus       168 ~f~~~m~~~~~~~~~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp~vv~~a~~~-------~ri~~  240 (269)
                      .|+++|........+.+++.++ +++..+|||||||+|.++..+++++|+++++++|+|.+++.+++.       +||++
T Consensus       158 ~f~~~~~~~~~~~~~~~~~~~~-~~~~~~vlDvG~G~G~~~~~l~~~~~~~~~~~~D~~~~~~~a~~~~~~~~~~~~v~~  236 (374)
T 1qzz_A          158 SFDALMSCDEDLAYEAPADAYD-WSAVRHVLDVGGGNGGMLAAIALRAPHLRGTLVELAGPAERARRRFADAGLADRVTV  236 (374)
T ss_dssp             HHHHTCGGGSTTTTHHHHHTSC-CTTCCEEEEETCTTSHHHHHHHHHCTTCEEEEEECHHHHHHHHHHHHHTTCTTTEEE
T ss_pred             HHHHHHHHhhHhHHHHHHHhCC-CCCCCEEEEECCCcCHHHHHHHHHCCCCEEEEEeCHHHHHHHHHHHHhcCCCCceEE
Confidence            9999999887776778888888 888899999999999999999999999999999999999877642       58999


Q ss_pred             EecccCCcCCCC-cEEEeccccccCCCCC
Q 024350          241 VGGDLFESVPKA-DTIFMKVICVCYLNSL  268 (269)
Q Consensus       241 ~~gD~~~~~P~g-D~~~l~~iLhd~~d~~  268 (269)
                      +.+|+++++|.+ |+|+++++||+|+|++
T Consensus       237 ~~~d~~~~~~~~~D~v~~~~vl~~~~~~~  265 (374)
T 1qzz_A          237 AEGDFFKPLPVTADVVLLSFVLLNWSDED  265 (374)
T ss_dssp             EECCTTSCCSCCEEEEEEESCGGGSCHHH
T ss_pred             EeCCCCCcCCCCCCEEEEeccccCCCHHH
Confidence            999999988875 9999999999999863

>1tw3_A COMT, carminomycin 4-O-methyltransferase; anthracycline, methylate, tailoring enzyme, polyketide, S-adenosyl-L-homocystein; HET: SAH ERT; 2.35A {Streptomyces peucetius} SCOP: a.4.5.29 c.66.1.12 PDB: 1tw2_A*

Probab=100.00  E-value=5e-37  Score=276.52  Aligned_cols=240  Identities=20%  Similarity=0.342  Sum_probs=213.9

Q ss_pred             hhHHHHHHHHHhhHHHHHHHHHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCccccee
Q 024350           12 NNFSYAMELASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSF   91 (269)
Q Consensus        12 ~~~~~l~~~~~~~~~~~~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~   91 (269)
                      ....++++++.+++.+++|.+++++|||+.|..    +++|++|||+++|++      ++ .+.|+|++|++.|+|+   
T Consensus        18 ~~~~~~~~~~~~~~~~~~l~~~~~l~i~~~l~~----~~~t~~ela~~~~~~------~~-~l~r~L~~L~~~g~~~---   83 (360)
T 1tw3_A           18 IDALRTLIRLGSLHTPMVVRTAATLRLVDHILA----GARTVKALAARTDTR------PE-ALLRLIRHLVAIGLLE---   83 (360)
T ss_dssp             HHHHHHHHHHHCSHHHHHHHHHHHTTHHHHHHT----TCCBHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEE---
T ss_pred             cchHHHHHHHHhHHHHHHHHHHHHhCHHHHHhC----CCCCHHHHHHHhCcC------HH-HHHHHHHHHHHCCCEE---
Confidence            346788999999999999999999999999965    699999999999997      77 9999999999999999   


Q ss_pred             ecCCCeEecChhchhhhcCCCCCCChHHHHHhhcChh-hHhhhhhhHHHHhhCCchhhhhhCCCchhccccCcchHHHHH
Q 024350           92 VDGQRLYSLAPVSKYFVRNNQNGASLRPYMALSLDKV-LMDGWFRLKGQILEGGIAFNKAHGMHIYDYLGVDSSFNDVFS  170 (269)
Q Consensus        92 ~~~~~~y~~t~~s~~l~~~~~~~~~~~~~~~~~~~~~-~~~~~~~l~~~l~~~~~~~~~~~g~~~~~~~~~~p~~~~~f~  170 (269)
                      +.+++.|++|+.++.|.++.  +.++++++.+...+. .+..|.+|.+.++++.++|+..+|.++|+++..+|+..+.|.
T Consensus        84 ~~~~g~y~~t~~s~~l~~~~--~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~g~~~~~~~~g~~~~~~~~~~p~~~~~f~  161 (360)
T 1tw3_A           84 EDAPGEFVPTEVGELLADDH--PAAQRAWHDLTQAVARADISFTRLPDAIRTGRPTYESIYGKPFYEDLAGRPDLRASFD  161 (360)
T ss_dssp             EEETTEEEECTTGGGGSTTS--TTCHHHHTCTTSHHHHHGGGGGGHHHHHHHCCCCHHHHHSSCHHHHHHTCHHHHHHHH
T ss_pred             ecCCCeEEeCHHHHHHhcCC--chhHHHHHHHhcCchhHHHHHHHHHHHHHcCCCHHHHhcCCCHHHHHHhChHHHHHHH
Confidence            44578999999999888776  678888877654333 578999999999999999988899999999999999999999


Q ss_pred             HHHHhhchhhHHHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeehhHHHHhCCCC-------CCceEEec
Q 024350          171 NGMLSHTSIVMEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPSY-------PGIDHVGG  243 (269)
Q Consensus       171 ~~m~~~~~~~~~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp~vv~~a~~~-------~ri~~~~g  243 (269)
                      .+|...+....+.+++.++ +++..+|||||||+|.++..+++++|+++++++|+|.+++.+++.       +||+++.+
T Consensus       162 ~~~~~~~~~~~~~l~~~~~-~~~~~~vLDvG~G~G~~~~~l~~~~~~~~~~~~D~~~~~~~a~~~~~~~~~~~~v~~~~~  240 (360)
T 1tw3_A          162 SLLACDQDVAFDAPAAAYD-WTNVRHVLDVGGGKGGFAAAIARRAPHVSATVLEMAGTVDTARSYLKDEGLSDRVDVVEG  240 (360)
T ss_dssp             HHHTTTTTTTTHHHHHHSC-CTTCSEEEEETCTTSHHHHHHHHHCTTCEEEEEECTTHHHHHHHHHHHTTCTTTEEEEEC
T ss_pred             HHHHHHHHHhHHHHHHhCC-CccCcEEEEeCCcCcHHHHHHHHhCCCCEEEEecCHHHHHHHHHHHHhcCCCCceEEEeC
Confidence            9999888777778888888 888899999999999999999999999999999999999877642       58999999


Q ss_pred             ccCCcCCCC-cEEEeccccccCCCCC
Q 024350          244 DLFESVPKA-DTIFMKVICVCYLNSL  268 (269)
Q Consensus       244 D~~~~~P~g-D~~~l~~iLhd~~d~~  268 (269)
                      |+++++|.+ |+|+++++||+|+|++
T Consensus       241 d~~~~~~~~~D~v~~~~vl~~~~~~~  266 (360)
T 1tw3_A          241 DFFEPLPRKADAIILSFVLLNWPDHD  266 (360)
T ss_dssp             CTTSCCSSCEEEEEEESCGGGSCHHH
T ss_pred             CCCCCCCCCccEEEEcccccCCCHHH
Confidence            999988875 9999999999999763

>1x19_A CRTF-related protein; methyltransferase, bacteriochllochlorophyll, BCHU, SAM, SAH, adenosylmethyonine, S-adenosylhomocysteine, ADO-Met; 2.27A {Chlorobium tepidum} PDB: 1x1a_A* 1x1b_A* 1x1c_A* 1x1d_A*

Probab=100.00  E-value=4.4e-36  Score=270.55  Aligned_cols=232  Identities=18%  Similarity=0.276  Sum_probs=203.5

Q ss_pred             hHHHhhhHHHHHHHHH-hhHHHHHHHHHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcC
Q 024350            7 QEEEANNFSYAMELAS-AIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYN   85 (269)
Q Consensus         7 ~~~~~~~~~~l~~~~~-~~~~~~~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g   85 (269)
                      .+|..++..+++++++ +++.+++|++++++|||+.|.+    +++|++|||+++|++      ++ .++|+||+|++.|
T Consensus        24 ~~~~~~~~~~~~~~~~~~~~~~~~l~~a~~lgif~~L~~----~~~t~~eLA~~~g~~------~~-~l~rlLr~L~~~g   92 (359)
T 1x19_A           24 NNDLLNYYHRANELVFKGLIEFSCMKAAIELDLFSHMAE----GPKDLATLAADTGSV------PP-RLEMLLETLRQMR   92 (359)
T ss_dssp             CCHHHHHHHHHHHHHTHHHHHHHHHHHHHHHTHHHHHTT----CCBCHHHHHHHHTCC------HH-HHHHHHHHHHHTT
T ss_pred             ccccCCcchHHHHHHHHHHHHHHHHHHHHHcCcHHHHcC----CCCCHHHHHHHhCcC------hH-HHHHHHHHHHhCC
Confidence            4567888899999996 8999999999999999999986    599999999999997      77 9999999999999


Q ss_pred             cccceeecCCCeEecChhch-hhhcCCCCC---CChHHHHHhhcChhhHhhhhhhHHHHhhCCchhhhhhCCCchhcccc
Q 024350           86 ALHCSFVDGQRLYSLAPVSK-YFVRNNQNG---ASLRPYMALSLDKVLMDGWFRLKGQILEGGIAFNKAHGMHIYDYLGV  161 (269)
Q Consensus        86 ~l~~~~~~~~~~y~~t~~s~-~l~~~~~~~---~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~g~~~~~~~~~  161 (269)
                      +|+   +. ++.|++|+.+. +|.++.  +   .++++++.+. ....++.|.+|+++++++.+          |+++..
T Consensus        93 ll~---~~-~~~y~~t~~~~~~l~~~~--~~~~~~~~~~~~~~-~~~~~~~~~~L~~~l~~g~~----------~~~~~~  155 (359)
T 1x19_A           93 VIN---LE-DGKWSLTEFADYMFSPTP--KEPNLHQTPVAKAM-AFLADDFYMGLSQAVRGQKN----------FKGQVP  155 (359)
T ss_dssp             SEE---EE-TTEEEECHHHHHHSSSSC--SBTTBCCHHHHHHH-HHHHHHTGGGHHHHHTTSCC----------CCCSSC
T ss_pred             CeE---ee-CCeEecCHHHHHHhcCCC--CCccccHHHHHHHH-HHHHHHHHHHHHHHHhcCCC----------Cccccc
Confidence            999   44 46999999744 666665  5   6788888775 35678999999999987754          677788


Q ss_pred             Ccc---hHHHHHHHHHhhch-hhHHHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeehhHHHHhCCC---
Q 024350          162 DSS---FNDVFSNGMLSHTS-IVMEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPS---  234 (269)
Q Consensus       162 ~p~---~~~~f~~~m~~~~~-~~~~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp~vv~~a~~---  234 (269)
                      +|+   ..+.|..+|...+. ...+.+++.++ +++..+|||||||+|.++..+++++|+++++++|+|.+++.+++   
T Consensus       156 ~p~~~~~~~~f~~~m~~~~~~~~~~~l~~~~~-~~~~~~vLDvG~G~G~~~~~l~~~~p~~~~~~~D~~~~~~~a~~~~~  234 (359)
T 1x19_A          156 YPPVTREDNLYFEEIHRSNAKFAIQLLLEEAK-LDGVKKMIDVGGGIGDISAAMLKHFPELDSTILNLPGAIDLVNENAA  234 (359)
T ss_dssp             SSCCSHHHHHHHHHHHHTTCHHHHHHHHHHCC-CTTCCEEEEESCTTCHHHHHHHHHCTTCEEEEEECGGGHHHHHHHHH
T ss_pred             CchhhHHHHHHHHHHHHhccchhHHHHHHhcC-CCCCCEEEEECCcccHHHHHHHHHCCCCeEEEEecHHHHHHHHHHHH
Confidence            899   89999999999988 77788899998 88889999999999999999999999999999999999987764   


Q ss_pred             ----CCCceEEecccCC-cCCCCcEEEeccccccCCCC
Q 024350          235 ----YPGIDHVGGDLFE-SVPKADTIFMKVICVCYLNS  267 (269)
Q Consensus       235 ----~~ri~~~~gD~~~-~~P~gD~~~l~~iLhd~~d~  267 (269)
                          .+||+++.+|+++ +.|++|+|+++++||+|+|+
T Consensus       235 ~~~~~~~v~~~~~d~~~~~~~~~D~v~~~~vlh~~~d~  272 (359)
T 1x19_A          235 EKGVADRMRGIAVDIYKESYPEADAVLFCRILYSANEQ  272 (359)
T ss_dssp             HTTCTTTEEEEECCTTTSCCCCCSEEEEESCGGGSCHH
T ss_pred             hcCCCCCEEEEeCccccCCCCCCCEEEEechhccCCHH
Confidence                2679999999998 56656999999999999974

>2r3s_A Uncharacterized protein; methyltransferase domain, structural genomics, joint center structural genomics, JCSG, protein structure initiative; HET: MSE; 2.15A {Nostoc punctiforme}

Probab=100.00  E-value=2.4e-35  Score=262.62  Aligned_cols=231  Identities=16%  Similarity=0.184  Sum_probs=204.0

Q ss_pred             HHHHHHHHHhhHHHHHHHHHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeec
Q 024350           14 FSYAMELASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVD   93 (269)
Q Consensus        14 ~~~l~~~~~~~~~~~~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~   93 (269)
                      ..++++++.+++.+++|++++++|||+.|++    +++|++|||+++|++      ++ .++|+||+|++.|+|+   + 
T Consensus         7 ~~~l~~~~~~~~~~~~l~~~~~l~i~~~l~~----~~~t~~ela~~~~~~------~~-~l~r~L~~L~~~g~l~---~-   71 (335)
T 2r3s_A            7 PALFFNTVNAYQRSAAIKAAVELNVFTAISQ----GIESSQSLAQKCQTS------ER-GMRMLCDYLVIIGFMT---K-   71 (335)
T ss_dssp             SHHHHHHHTTHHHHHHHHHHHHTTHHHHHTT----SEECHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEE---E-
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHcChHHHHhc----CCCCHHHHHHHhCCC------ch-HHHHHHHHHHhcCCeE---e-
Confidence            4679999999999999999999999999997    599999999999997      77 9999999999999998   4 


Q ss_pred             CCCeEecChhc-hhhhcCCCCCCChHHHHHhhcChhhHhhhhhhHHHHhhCCchhhhhhCCCchhccccCcchHHHHHHH
Q 024350           94 GQRLYSLAPVS-KYFVRNNQNGASLRPYMALSLDKVLMDGWFRLKGQILEGGIAFNKAHGMHIYDYLGVDSSFNDVFSNG  172 (269)
Q Consensus        94 ~~~~y~~t~~s-~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~g~~~~~~~~~~p~~~~~f~~~  172 (269)
                      .++.|++|+.+ +.|.+++  +.++++++.+...+..++.|.+|++.++++.++|.     + |+++.++|+..+.|..+
T Consensus        72 ~~~~y~~t~~~~~~l~~~~--~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~-----~-~~~~~~~~~~~~~~~~~  143 (335)
T 2r3s_A           72 QAEGYRLTSDSAMFLDRQS--KFYVGDAIEFLLSPMITNGFNDLTAAVLKGGTAIS-----S-EGTLSPEHPVWVQFAKA  143 (335)
T ss_dssp             ETTEEEECHHHHHHTCTTS--TTCCGGGHHHHTCHHHHGGGTTHHHHHHHTSCCST-----T-TGGGSTTCTHHHHHHHH
T ss_pred             cCCEEecCHHHHHHhccCC--cHHHHHHHHHhcchhhHHHHHhHHHHHhcCCCCCC-----C-cccccCCHHHHHHHHHH
Confidence            36899999999 5777665  56788888776555678999999999999988764     3 88888899999999999


Q ss_pred             HHhhchhhHHHHHHhccCC--CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeehhHHHHhCCCC-------CCceEEec
Q 024350          173 MLSHTSIVMEKVLESYKGF--EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPSY-------PGIDHVGG  243 (269)
Q Consensus       173 m~~~~~~~~~~~~~~~~~~--~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp~vv~~a~~~-------~ri~~~~g  243 (269)
                      |..........+++.++ +  ++..+|+|||||+|.++..+++++|+.+++++|++.+++.+++.       +||+++.+
T Consensus       144 ~~~~~~~~~~~~~~~~~-~~~~~~~~vlDvG~G~G~~~~~l~~~~p~~~~~~~D~~~~~~~a~~~~~~~~~~~~v~~~~~  222 (335)
T 2r3s_A          144 MSPMMANPAQLIAQLVN-ENKIEPLKVLDISASHGLFGIAVAQHNPNAEIFGVDWASVLEVAKENARIQGVASRYHTIAG  222 (335)
T ss_dssp             SGGGGHHHHHHHHHHHT-C--CCCSEEEEETCTTCHHHHHHHHHCTTCEEEEEECHHHHHHHHHHHHHHTCGGGEEEEES
T ss_pred             HHHHHhhhHHHHHHhcc-cccCCCCEEEEECCCcCHHHHHHHHHCCCCeEEEEecHHHHHHHHHHHHhcCCCcceEEEec
Confidence            99988877778888888 7  77899999999999999999999999999999999888877652       58999999


Q ss_pred             ccCC-cCCCC-cEEEeccccccCCCCC
Q 024350          244 DLFE-SVPKA-DTIFMKVICVCYLNSL  268 (269)
Q Consensus       244 D~~~-~~P~g-D~~~l~~iLhd~~d~~  268 (269)
                      |+++ ++|++ |+|+++++||+|++++
T Consensus       223 d~~~~~~~~~~D~v~~~~~l~~~~~~~  249 (335)
T 2r3s_A          223 SAFEVDYGNDYDLVLLPNFLHHFDVAT  249 (335)
T ss_dssp             CTTTSCCCSCEEEEEEESCGGGSCHHH
T ss_pred             ccccCCCCCCCcEEEEcchhccCCHHH
Confidence            9998 67766 9999999999998753

>3mcz_A O-methyltransferase; adomet_mtases, S-adenosylmethionine-dependent methyltransfer structural genomics, PSI-2; HET: MSE; 1.90A {Burkholderia thailandensis}

Probab=100.00  E-value=2.2e-35  Score=265.02  Aligned_cols=234  Identities=15%  Similarity=0.247  Sum_probs=194.6

Q ss_pred             hHHHhhhHHHHHHHHHhhHHHHHHHHHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCc
Q 024350            7 QEEEANNFSYAMELASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNA   86 (269)
Q Consensus         7 ~~~~~~~~~~l~~~~~~~~~~~~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~   86 (269)
                      +.+.++....+++++.+++.+++|++|+++|||+.|..     |+|++|||+++|++      ++ .++|+||+|++.|+
T Consensus        18 ~~~~l~~p~~l~~~~~~~~~~~~l~~a~~lgif~~l~~-----~~t~~elA~~~~~~------~~-~l~rlLr~L~~~gl   85 (352)
T 3mcz_A           18 DKAALTSVVDLVKLSDQYRQSAILHYAVADKLFDLTQT-----GRTPAEVAASFGMV------EG-KAAILLHALAALGL   85 (352)
T ss_dssp             SCCCCCSHHHHHHHHHTHHHHHHHHHHHHTTHHHHTTS-----CBCHHHHHHHHTCC------HH-HHHHHHHHHHHTTS
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHHHHHHHCChHHHhCC-----CCCHHHHHHHhCcC------hH-HHHHHHHHHHHCCC
Confidence            34445556669999999999999999999999999953     89999999999997      77 99999999999999


Q ss_pred             ccceeecCCCeEecChhchhh-hcCCCCCCChHHHHHhhcChhhHhhhhhhHHHHhhCCch-hhhhhCCCchhccccCcc
Q 024350           87 LHCSFVDGQRLYSLAPVSKYF-VRNNQNGASLRPYMALSLDKVLMDGWFRLKGQILEGGIA-FNKAHGMHIYDYLGVDSS  164 (269)
Q Consensus        87 l~~~~~~~~~~y~~t~~s~~l-~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~-~~~~~g~~~~~~~~~~p~  164 (269)
                      |+   +. ++.|.+|+.++.+ .++.  +.+++.++.+.  ...++.|.+|++.+++|.+. |...      .+...+|+
T Consensus        86 l~---~~-~~~y~~t~~s~~~l~~~~--~~~~~~~~~~~--~~~~~~~~~l~~~l~~g~~~~f~~~------~~~~~~~~  151 (352)
T 3mcz_A           86 LT---KE-GDAFRNTALTERYLTTTS--ADYIGPIVEHQ--YLQWDNWPRLGEILRSEKPLAFQQE------SRFAHDTR  151 (352)
T ss_dssp             EE---EE-TTEEEECHHHHHHHSTTC--TTCCHHHHHHH--HTTTTTGGGHHHHHTCSSCCTTSHH------HHTTTCHH
T ss_pred             eE---ec-CCeeecCHHHHhhccCCC--hhhHHHHHHHh--HHHHHHHHHHHHHHhCCCCCCcccc------cccccCHH
Confidence            99   54 4789999999854 4444  67888887654  34688999999999988764 2322      12356888


Q ss_pred             hHHHHHHHHHhhchhhHHHHHHhccCCCC-ccEEEEeCCCchHHHHHHHHHCCCCeEEEeehhHHHHhCCCC-------C
Q 024350          165 FNDVFSNGMLSHTSIVMEKVLESYKGFEH-VKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPSY-------P  236 (269)
Q Consensus       165 ~~~~f~~~m~~~~~~~~~~~~~~~~~~~~-~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp~vv~~a~~~-------~  236 (269)
                      ..+.|..+|...... +..+++.++ +++ ..+|||||||+|.++..+++++|+++++++|+|.+++.+++.       +
T Consensus       152 ~~~~f~~~m~~~~~~-~~~~l~~~~-~~~~~~~vlDvG~G~G~~~~~l~~~~p~~~~~~~D~~~~~~~a~~~~~~~~~~~  229 (352)
T 3mcz_A          152 ARDAFNDAMVRLSQP-MVDVVSELG-VFARARTVIDLAGGHGTYLAQVLRRHPQLTGQIWDLPTTRDAARKTIHAHDLGG  229 (352)
T ss_dssp             HHHHHHHHHHHHHHH-HHHHHHTCG-GGTTCCEEEEETCTTCHHHHHHHHHCTTCEEEEEECGGGHHHHHHHHHHTTCGG
T ss_pred             HHHHHHHHHHhhhhh-HHHHHHhCC-CcCCCCEEEEeCCCcCHHHHHHHHhCCCCeEEEEECHHHHHHHHHHHHhcCCCC
Confidence            899999999984332 347888888 777 899999999999999999999999999999999988876642       6


Q ss_pred             CceEEecccCCc---CCCC-cEEEeccccccCCCCC
Q 024350          237 GIDHVGGDLFES---VPKA-DTIFMKVICVCYLNSL  268 (269)
Q Consensus       237 ri~~~~gD~~~~---~P~g-D~~~l~~iLhd~~d~~  268 (269)
                      ||+++.+|++++   .|++ |+|+++++||+|+|++
T Consensus       230 ~v~~~~~d~~~~~~~~~~~~D~v~~~~vlh~~~~~~  265 (352)
T 3mcz_A          230 RVEFFEKNLLDARNFEGGAADVVMLNDCLHYFDARE  265 (352)
T ss_dssp             GEEEEECCTTCGGGGTTCCEEEEEEESCGGGSCHHH
T ss_pred             ceEEEeCCcccCcccCCCCccEEEEecccccCCHHH
Confidence            899999999995   5565 9999999999999863

>2qm3_A Predicted methyltransferase; putative methyltransferase, structural genomics, pyrococcus PSI-2, protein structure initiative; HET: MSE; 2.05A {Pyrococcus furiosus dsm 3638}

Probab=99.26  E-value=2.7e-11  Score=109.21  Aligned_cols=187  Identities=11%  Similarity=0.035  Sum_probs=118.3

Q ss_pred             ChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhch-hhhcCCCCCC
Q 024350           37 DVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSK-YFVRNNQNGA  115 (269)
Q Consensus        37 glfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s~-~l~~~~~~~~  115 (269)
                      ++|..| .    +|.|+.|||+.+|++      ++ .++++|+.|.+.|+++   .. ++ |++|+.+. ++....  +.
T Consensus        47 ~ll~~L-~----~~~t~~eLa~~~g~~------~~-~v~~~L~~l~~~gll~---~~-~~-~~lt~~~~~~l~~~~--~~  107 (373)
T 2qm3_A           47 NVLSAV-L----ASDDIWRIVDLSEEP------LP-LVVAILESLNELGYVT---FE-DG-VKLTEKGEELVAEYG--IG  107 (373)
T ss_dssp             HHHHHH-H----HCSCHHHHHHHHTSC------HH-HHHHHHHHHHHTTSEE---CS-SS-SEECHHHHHHHHHHT--CC
T ss_pred             HHHHHh-c----CCCCHHHHHHHhCCC------hH-HHHHHHHHHhhCCcEE---EC-CC-EEECHHHHHHHHhcC--cc
Confidence            789999 4    489999999999997      77 9999999999999998   33 25 99999876 444322  11


Q ss_pred             ChHHHH-Hhhc-----ChhhHhhhhhhHHHHhhCCchhhhhhCCCchhccccCcchHHHHHHHHHhhchhhHHHHHHhcc
Q 024350          116 SLRPYM-ALSL-----DKVLMDGWFRLKGQILEGGIAFNKAHGMHIYDYLGVDSSFNDVFSNGMLSHTSIVMEKVLESYK  189 (269)
Q Consensus       116 ~~~~~~-~~~~-----~~~~~~~~~~l~~~l~~~~~~~~~~~g~~~~~~~~~~p~~~~~f~~~m~~~~~~~~~~~~~~~~  189 (269)
                      .....+ ....     ...+...|..+.+.++....+. .     .|+-....++.  .....+         ......+
T Consensus       108 ~~~~~~~~~~~g~g~~~~~~~~~~~~l~~~~~~~~~~~-~-----~~~~~~~~~~~--~~~~~l---------~~~~~~~  170 (373)
T 2qm3_A          108 KRYDFTCPHCQGKTVDLQAFADLLEQFREIVKDRPEPL-H-----EFDQAYVTPET--TVARVI---------LMHTRGD  170 (373)
T ss_dssp             CCCC------------CGGGHHHHHHHHHHHTTCCCCC-G-----GGTCCCBCHHH--HHHHHH---------HHHHTTC
T ss_pred             ccccccchhhcCCCcchhhhHHHHHHHHHHHhcCCccc-h-----hcCCeecCHHH--HHHHHH---------HHhhcCC
Confidence            111111 0000     0111223445556555332211 1     11100001111  111110         0011112


Q ss_pred             CCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC------CCceEEecccCCcCCC----C-cEEEe
Q 024350          190 GFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFESVPK----A-DTIFM  257 (269)
Q Consensus       190 ~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~~~P~----g-D~~~l  257 (269)
                       . ...+|+||| |+|.++..+++..|+.+++++|+ |.+++.++++      ++|+++.+|+++++|.    . |++++
T Consensus       171 -~-~~~~VLDlG-G~G~~~~~la~~~~~~~v~~vDi~~~~l~~a~~~~~~~g~~~v~~~~~D~~~~l~~~~~~~fD~Vi~  247 (373)
T 2qm3_A          171 -L-ENKDIFVLG-DDDLTSIALMLSGLPKRIAVLDIDERLTKFIEKAANEIGYEDIEIFTFDLRKPLPDYALHKFDTFIT  247 (373)
T ss_dssp             -S-TTCEEEEES-CTTCHHHHHHHHTCCSEEEEECSCHHHHHHHHHHHHHHTCCCEEEECCCTTSCCCTTTSSCBSEEEE
T ss_pred             -C-CCCEEEEEC-CCCHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHHHHcCCCCEEEEEChhhhhchhhccCCccEEEE
Confidence             2 347999999 99999999999999999999998 8999877653      4899999999986552    4 99999


Q ss_pred             ccccc
Q 024350          258 KVICV  262 (269)
Q Consensus       258 ~~iLh  262 (269)
                      ...+|
T Consensus       248 ~~p~~  252 (373)
T 2qm3_A          248 DPPET  252 (373)
T ss_dssp             CCCSS
T ss_pred             CCCCc
Confidence            76654

>3dtn_A Putative methyltransferase MM_2633; structural genomics, unknown function, PSI-2, protein structure initiative; 2.09A {Methanosarcina mazei}

Probab=98.85  E-value=6.3e-09  Score=86.88  Aligned_cols=84  Identities=13%  Similarity=0.162  Sum_probs=68.1

Q ss_pred             HHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC----CCCceEEecccCC-cCCCC-cEEE
Q 024350          184 VLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS----YPGIDHVGGDLFE-SVPKA-DTIF  256 (269)
Q Consensus       184 ~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~----~~ri~~~~gD~~~-~~P~g-D~~~  256 (269)
                      ++..+.......+|||||||+|.++..+++.+|+.+++++|+ |.+++.+++    ..+++++.+|+.+ +.+.. |+++
T Consensus        35 ~~~~~~~~~~~~~vLDiG~G~G~~~~~l~~~~~~~~v~~vD~s~~~~~~a~~~~~~~~~~~~~~~d~~~~~~~~~fD~v~  114 (234)
T 3dtn_A           35 SVSIASVDTENPDILDLGAGTGLLSAFLMEKYPEATFTLVDMSEKMLEIAKNRFRGNLKVKYIEADYSKYDFEEKYDMVV  114 (234)
T ss_dssp             HHHTCCCSCSSCEEEEETCTTSHHHHHHHHHCTTCEEEEEESCHHHHHHHHHHTCSCTTEEEEESCTTTCCCCSCEEEEE
T ss_pred             HHHHhhcCCCCCeEEEecCCCCHHHHHHHHhCCCCeEEEEECCHHHHHHHHHhhccCCCEEEEeCchhccCCCCCceEEE
Confidence            344443223558999999999999999999999999999998 777776654    3589999999988 55544 9999


Q ss_pred             eccccccCCCC
Q 024350          257 MKVICVCYLNS  267 (269)
Q Consensus       257 l~~iLhd~~d~  267 (269)
                      +..+||.++++
T Consensus       115 ~~~~l~~~~~~  125 (234)
T 3dtn_A          115 SALSIHHLEDE  125 (234)
T ss_dssp             EESCGGGSCHH
T ss_pred             EeCccccCCHH
Confidence            99999999764

>3ege_A Putative methyltransferase from antibiotic biosyn pathway; YP_324569.1, putative methyltransferase from antibiotic BIOS pathway; 2.40A {Anabaena variabilis atcc 29413}

Probab=98.84  E-value=1.4e-08  Score=86.58  Aligned_cols=81  Identities=11%  Similarity=0.204  Sum_probs=68.8

Q ss_pred             HHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCCCCceEEecccCC-cCCC-C-cEEEec
Q 024350          183 KVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSYPGIDHVGGDLFE-SVPK-A-DTIFMK  258 (269)
Q Consensus       183 ~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~~ri~~~~gD~~~-~~P~-g-D~~~l~  258 (269)
                      .+++.++ .....+|||||||+|.++..+++  |+.+++++|+ |..++.++...+++++.+|+.+ ++|. . |++++.
T Consensus        25 ~l~~~~~-~~~~~~vLDiGcG~G~~~~~l~~--~~~~v~gvD~s~~~~~~a~~~~~~~~~~~d~~~~~~~~~~fD~v~~~  101 (261)
T 3ege_A           25 AIINLLN-LPKGSVIADIGAGTGGYSVALAN--QGLFVYAVEPSIVMRQQAVVHPQVEWFTGYAENLALPDKSVDGVISI  101 (261)
T ss_dssp             HHHHHHC-CCTTCEEEEETCTTSHHHHHHHT--TTCEEEEECSCHHHHHSSCCCTTEEEECCCTTSCCSCTTCBSEEEEE
T ss_pred             HHHHHhC-CCCCCEEEEEcCcccHHHHHHHh--CCCEEEEEeCCHHHHHHHHhccCCEEEECchhhCCCCCCCEeEEEEc
Confidence            4455555 55678999999999999999997  7889999997 7888888877799999999987 6664 4 999999


Q ss_pred             cccccCCC
Q 024350          259 VICVCYLN  266 (269)
Q Consensus       259 ~iLhd~~d  266 (269)
                      ++||.++|
T Consensus       102 ~~l~~~~~  109 (261)
T 3ege_A          102 LAIHHFSH  109 (261)
T ss_dssp             SCGGGCSS
T ss_pred             chHhhccC
Confidence            99999876

>2qe6_A Uncharacterized protein TFU_2867; putative methyltransferase, structural genomics, joint cente structural genomics, JCSG; HET: NEP SAM; 1.95A {Thermobifida fusca}

Probab=98.83  E-value=8e-09  Score=89.13  Aligned_cols=76  Identities=16%  Similarity=0.271  Sum_probs=64.9

Q ss_pred             CccEEEEeCCCc---hHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC----CCCceEEecccCCc------------CC-C
Q 024350          193 HVKKLVDVGGGL---GATLNMIISKYPHIKGINYDL-LYVIKNAPS----YPGIDHVGGDLFES------------VP-K  251 (269)
Q Consensus       193 ~~~~vvDvGGG~---G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~----~~ri~~~~gD~~~~------------~P-~  251 (269)
                      +..+|||||||+   |.++..+.+.+|+.+++.+|+ |.+++.+++    .++++++.+|++++            ++ .
T Consensus        77 ~~~~vLDlGcG~pt~G~~~~~~~~~~p~~~v~~vD~sp~~l~~Ar~~~~~~~~v~~~~~D~~~~~~~~~~~~~~~~~d~~  156 (274)
T 2qe6_A           77 GISQFLDLGSGLPTVQNTHEVAQSVNPDARVVYVDIDPMVLTHGRALLAKDPNTAVFTADVRDPEYILNHPDVRRMIDFS  156 (274)
T ss_dssp             CCCEEEEETCCSCCSSCHHHHHHHHCTTCEEEEEESSHHHHHHHHHHHTTCTTEEEEECCTTCHHHHHHSHHHHHHCCTT
T ss_pred             CCCEEEEECCCCCCCChHHHHHHHhCCCCEEEEEECChHHHHHHHHhcCCCCCeEEEEeeCCCchhhhccchhhccCCCC
Confidence            457999999999   999888888999999999998 899887764    37899999999862            33 2


Q ss_pred             C-cEEEeccccccCCCCC
Q 024350          252 A-DTIFMKVICVCYLNSL  268 (269)
Q Consensus       252 g-D~~~l~~iLhd~~d~~  268 (269)
                      . |++++..+||.++|++
T Consensus       157 ~~d~v~~~~vlh~~~d~~  174 (274)
T 2qe6_A          157 RPAAIMLVGMLHYLSPDV  174 (274)
T ss_dssp             SCCEEEETTTGGGSCTTT
T ss_pred             CCEEEEEechhhhCCcHH
Confidence            3 9999999999999863

>4gek_A TRNA (CMO5U34)-methyltransferase; structural genomics, PSI-biology, NEW YORK structural genomi research consortium, nysgrc, rossmann fold; HET: GEK; 1.50A {Escherichia coli} PDB: 1im8_A*

Probab=98.82  E-value=2.5e-09  Score=91.75  Aligned_cols=76  Identities=18%  Similarity=0.218  Sum_probs=64.1

Q ss_pred             CCccEEEEeCCCchHHHHHHHHHC--CCCeEEEeeh-hHHHHhCCC-------CCCceEEecccCC-cCCCCcEEEeccc
Q 024350          192 EHVKKLVDVGGGLGATLNMIISKY--PHIKGINYDL-LYVIKNAPS-------YPGIDHVGGDLFE-SVPKADTIFMKVI  260 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~~--P~l~~vv~Dl-p~vv~~a~~-------~~ri~~~~gD~~~-~~P~gD~~~l~~i  260 (269)
                      +...+|+|||||+|.++..+++++  |+++++++|+ |.+++.|++       ..+|+++.+|+.+ +.++.|++++..+
T Consensus        69 ~~~~~vLDlGcGtG~~~~~la~~~~~~~~~v~gvD~s~~ml~~A~~~~~~~~~~~~v~~~~~D~~~~~~~~~d~v~~~~~  148 (261)
T 4gek_A           69 QPGTQVYDLGCSLGAATLSVRRNIHHDNCKIIAIDNSPAMIERCRRHIDAYKAPTPVDVIEGDIRDIAIENASMVVLNFT  148 (261)
T ss_dssp             CTTCEEEEETCTTTHHHHHHHHTCCSSSCEEEEEESCHHHHHHHHHHHHTSCCSSCEEEEESCTTTCCCCSEEEEEEESC
T ss_pred             CCCCEEEEEeCCCCHHHHHHHHhcCCCCCEEEEEECCHHHHHHHHHHHHhhccCceEEEeecccccccccccccceeeee
Confidence            456799999999999999999985  6889999997 888887754       2689999999987 5555699999999


Q ss_pred             cccCCCC
Q 024350          261 CVCYLNS  267 (269)
Q Consensus       261 Lhd~~d~  267 (269)
                      ||..+++
T Consensus       149 l~~~~~~  155 (261)
T 4gek_A          149 LQFLEPS  155 (261)
T ss_dssp             GGGSCHH
T ss_pred             eeecCch
Confidence            9988754

>1vl5_A Unknown conserved protein BH2331; putative methyltransferase, structural genomics, joint cente structural genomics, JCSG; HET: MSE; 1.95A {Bacillus halodurans} SCOP: c.66.1.41

Probab=98.79  E-value=7.8e-09  Score=87.84  Aligned_cols=85  Identities=18%  Similarity=0.281  Sum_probs=68.9

Q ss_pred             hHHHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC------CCceEEecccCC-cCCC
Q 024350          180 VMEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFE-SVPK  251 (269)
Q Consensus       180 ~~~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~-~~P~  251 (269)
                      ....+++.++ .....+|||||||+|.++..++++.+  +++++|+ |.+++.+++.      ++++++.+|+.+ ++|.
T Consensus        25 ~~~~l~~~l~-~~~~~~vLDiGcG~G~~~~~l~~~~~--~v~gvD~s~~~l~~a~~~~~~~~~~~v~~~~~d~~~l~~~~  101 (260)
T 1vl5_A           25 DLAKLMQIAA-LKGNEEVLDVATGGGHVANAFAPFVK--KVVAFDLTEDILKVARAFIEGNGHQQVEYVQGDAEQMPFTD  101 (260)
T ss_dssp             CHHHHHHHHT-CCSCCEEEEETCTTCHHHHHHGGGSS--EEEEEESCHHHHHHHHHHHHHTTCCSEEEEECCC-CCCSCT
T ss_pred             HHHHHHHHhC-CCCCCEEEEEeCCCCHHHHHHHHhCC--EEEEEeCCHHHHHHHHHHHHhcCCCceEEEEecHHhCCCCC
Confidence            3455666666 56678999999999999999999986  7899997 7788766542      679999999988 6774


Q ss_pred             -C-cEEEeccccccCCCC
Q 024350          252 -A-DTIFMKVICVCYLNS  267 (269)
Q Consensus       252 -g-D~~~l~~iLhd~~d~  267 (269)
                       . |+++...+||.|+|.
T Consensus       102 ~~fD~V~~~~~l~~~~d~  119 (260)
T 1vl5_A          102 ERFHIVTCRIAAHHFPNP  119 (260)
T ss_dssp             TCEEEEEEESCGGGCSCH
T ss_pred             CCEEEEEEhhhhHhcCCH
Confidence             4 999999999999874

>3dlc_A Putative S-adenosyl-L-methionine-dependent methyltransferase; structural genomics, joint center for structural genomics; HET: MSE SAM; 1.15A {Methanococcus maripaludis}

Probab=98.78  E-value=7.8e-09  Score=84.89  Aligned_cols=81  Identities=16%  Similarity=0.220  Sum_probs=66.7

Q ss_pred             HHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-------CCceEEecccCC-cCCC-C
Q 024350          183 KVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-------PGIDHVGGDLFE-SVPK-A  252 (269)
Q Consensus       183 ~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~-~~P~-g  252 (269)
                      .+++.++ .+.. +|||||||+|.++..++++ |+.+++++|+ |..++.+++.       ++++++.+|+.+ ++|. .
T Consensus        35 ~~~~~~~-~~~~-~vLdiG~G~G~~~~~l~~~-~~~~v~~~D~s~~~~~~a~~~~~~~~~~~~~~~~~~d~~~~~~~~~~  111 (219)
T 3dlc_A           35 NIINRFG-ITAG-TCIDIGSGPGALSIALAKQ-SDFSIRALDFSKHMNEIALKNIADANLNDRIQIVQGDVHNIPIEDNY  111 (219)
T ss_dssp             HHHHHHC-CCEE-EEEEETCTTSHHHHHHHHH-SEEEEEEEESCHHHHHHHHHHHHHTTCTTTEEEEECBTTBCSSCTTC
T ss_pred             HHHHhcC-CCCC-EEEEECCCCCHHHHHHHHc-CCCeEEEEECCHHHHHHHHHHHHhccccCceEEEEcCHHHCCCCccc
Confidence            3445555 4443 9999999999999999999 8899999998 7888766542       589999999988 6774 3


Q ss_pred             -cEEEeccccccCCC
Q 024350          253 -DTIFMKVICVCYLN  266 (269)
Q Consensus       253 -D~~~l~~iLhd~~d  266 (269)
                       |++++..+||.+++
T Consensus       112 ~D~v~~~~~l~~~~~  126 (219)
T 3dlc_A          112 ADLIVSRGSVFFWED  126 (219)
T ss_dssp             EEEEEEESCGGGCSC
T ss_pred             ccEEEECchHhhccC
Confidence             99999999999865

>1ve3_A Hypothetical protein PH0226; dimer, riken structural genomics/proteomics initiative, RSGI, structural genomics, unknown function, NPPSFA; HET: SAM; 2.10A {Pyrococcus horikoshii} SCOP: c.66.1.43

Probab=98.78  E-value=7.1e-09  Score=85.90  Aligned_cols=71  Identities=18%  Similarity=0.255  Sum_probs=59.6

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-----CCceEEecccCC-cCCC-C-cEEEecccccc
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-----PGIDHVGGDLFE-SVPK-A-DTIFMKVICVC  263 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-----~ri~~~~gD~~~-~~P~-g-D~~~l~~iLhd  263 (269)
                      ...+|||||||+|.++..+++..|  +++++|+ |.+++.+++.     ++++++.+|+.+ +.|. . |++++..++|.
T Consensus        38 ~~~~vLDlG~G~G~~~~~l~~~~~--~v~~vD~s~~~~~~a~~~~~~~~~~~~~~~~d~~~~~~~~~~~D~v~~~~~~~~  115 (227)
T 1ve3_A           38 KRGKVLDLACGVGGFSFLLEDYGF--EVVGVDISEDMIRKAREYAKSRESNVEFIVGDARKLSFEDKTFDYVIFIDSIVH  115 (227)
T ss_dssp             SCCEEEEETCTTSHHHHHHHHTTC--EEEEEESCHHHHHHHHHHHHHTTCCCEEEECCTTSCCSCTTCEEEEEEESCGGG
T ss_pred             CCCeEEEEeccCCHHHHHHHHcCC--EEEEEECCHHHHHHHHHHHHhcCCCceEEECchhcCCCCCCcEEEEEEcCchHh
Confidence            467999999999999999999988  7899997 7888776642     789999999988 6664 4 99999999666


Q ss_pred             CC
Q 024350          264 YL  265 (269)
Q Consensus       264 ~~  265 (269)
                      +.
T Consensus       116 ~~  117 (227)
T 1ve3_A          116 FE  117 (227)
T ss_dssp             CC
T ss_pred             CC
Confidence            54

>3ou2_A SAM-dependent methyltransferase; O-methyltransferase, SAH; HET: SAH; 1.50A {Streptomyces luridus} PDB: 3ou6_A* 3ou7_A*

Probab=98.73  E-value=3.8e-08  Score=80.86  Aligned_cols=83  Identities=16%  Similarity=0.171  Sum_probs=66.8

Q ss_pred             HHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC--CCceEEecccCCcCCC-C-cEEEe
Q 024350          183 KVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY--PGIDHVGGDLFESVPK-A-DTIFM  257 (269)
Q Consensus       183 ~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~--~ri~~~~gD~~~~~P~-g-D~~~l  257 (269)
                      .+++.+.......+|||||||+|.++..++++  ..+++++|+ |..++.+++.  ++++++.+|+.+..+. . |++++
T Consensus        36 ~~~~~l~~~~~~~~vLdiG~G~G~~~~~l~~~--~~~v~~~D~s~~~~~~a~~~~~~~~~~~~~d~~~~~~~~~~D~v~~  113 (218)
T 3ou2_A           36 AALERLRAGNIRGDVLELASGTGYWTRHLSGL--ADRVTALDGSAEMIAEAGRHGLDNVEFRQQDLFDWTPDRQWDAVFF  113 (218)
T ss_dssp             HHHHHHTTTTSCSEEEEESCTTSHHHHHHHHH--SSEEEEEESCHHHHHHHGGGCCTTEEEEECCTTSCCCSSCEEEEEE
T ss_pred             HHHHHHhcCCCCCeEEEECCCCCHHHHHHHhc--CCeEEEEeCCHHHHHHHHhcCCCCeEEEecccccCCCCCceeEEEE
Confidence            34444432445579999999999999999999  668999997 7888777653  7899999999886554 4 99999


Q ss_pred             ccccccCCCC
Q 024350          258 KVICVCYLNS  267 (269)
Q Consensus       258 ~~iLhd~~d~  267 (269)
                      ..+||.++++
T Consensus       114 ~~~l~~~~~~  123 (218)
T 3ou2_A          114 AHWLAHVPDD  123 (218)
T ss_dssp             ESCGGGSCHH
T ss_pred             echhhcCCHH
Confidence            9999999874

>3dh0_A SAM dependent methyltransferase; cystal structure, PSI-2, NYSGXRC, structural genomics, protein structure initiative; HET: SAM; 2.72A {Aquifex aeolicus}

Probab=98.71  E-value=1.7e-08  Score=83.28  Aligned_cols=84  Identities=21%  Similarity=0.252  Sum_probs=70.1

Q ss_pred             HHHHHhccCCCCccEEEEeCCCchHHHHHHHHHC-CCCeEEEeeh-hHHHHhCCCC------CCceEEecccCC-cCCC-
Q 024350          182 EKVLESYKGFEHVKKLVDVGGGLGATLNMIISKY-PHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFE-SVPK-  251 (269)
Q Consensus       182 ~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~-P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~-~~P~-  251 (269)
                      ..++..++ .....+|||||||+|.++..+++.. |+.+++++|. |..++.+++.      ++++++.+|+.+ +++. 
T Consensus        27 ~~~~~~~~-~~~~~~vLDiG~G~G~~~~~l~~~~~~~~~v~~vD~s~~~~~~a~~~~~~~~~~~~~~~~~d~~~~~~~~~  105 (219)
T 3dh0_A           27 EKVLKEFG-LKEGMTVLDVGTGAGFYLPYLSKMVGEKGKVYAIDVQEEMVNYAWEKVNKLGLKNVEVLKSEENKIPLPDN  105 (219)
T ss_dssp             HHHHHHHT-CCTTCEEEESSCTTCTTHHHHHHHHTTTCEEEEEESCHHHHHHHHHHHHHHTCTTEEEEECBTTBCSSCSS
T ss_pred             HHHHHHhC-CCCCCEEEEEecCCCHHHHHHHHHhCCCcEEEEEECCHHHHHHHHHHHHHcCCCcEEEEecccccCCCCCC
Confidence            34556666 6667899999999999999999997 8899999997 7888776542      589999999987 5664 


Q ss_pred             C-cEEEeccccccCCC
Q 024350          252 A-DTIFMKVICVCYLN  266 (269)
Q Consensus       252 g-D~~~l~~iLhd~~d  266 (269)
                      . |++++..+||.+++
T Consensus       106 ~fD~v~~~~~l~~~~~  121 (219)
T 3dh0_A          106 TVDFIFMAFTFHELSE  121 (219)
T ss_dssp             CEEEEEEESCGGGCSS
T ss_pred             CeeEEEeehhhhhcCC
Confidence            3 99999999999875

>2o57_A Putative sarcosine dimethylglycine methyltransferase; structural genomics, protein structure initiative, PSI-2; 1.95A {Galdieria sulphuraria} SCOP: c.66.1.18

Probab=98.71  E-value=3e-08  Score=85.89  Aligned_cols=83  Identities=16%  Similarity=0.207  Sum_probs=67.7

Q ss_pred             HHHHHhc----cCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC-------CCCceEEecccCC-c
Q 024350          182 EKVLESY----KGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS-------YPGIDHVGGDLFE-S  248 (269)
Q Consensus       182 ~~~~~~~----~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~-------~~ri~~~~gD~~~-~  248 (269)
                      ..+++.+    + +....+|||||||+|.++..+++++ +.+++++|+ |..++.+++       .++|+++.+|+.+ +
T Consensus        68 ~~l~~~l~~~~~-~~~~~~vLDiGcG~G~~~~~l~~~~-~~~v~gvD~s~~~~~~a~~~~~~~~~~~~~~~~~~d~~~~~  145 (297)
T 2o57_A           68 EWLASELAMTGV-LQRQAKGLDLGAGYGGAARFLVRKF-GVSIDCLNIAPVQNKRNEEYNNQAGLADNITVKYGSFLEIP  145 (297)
T ss_dssp             HHHHHHHHHTTC-CCTTCEEEEETCTTSHHHHHHHHHH-CCEEEEEESCHHHHHHHHHHHHHHTCTTTEEEEECCTTSCS
T ss_pred             HHHHHHhhhccC-CCCCCEEEEeCCCCCHHHHHHHHHh-CCEEEEEeCCHHHHHHHHHHHHhcCCCcceEEEEcCcccCC
Confidence            3455555    4 5667899999999999999999987 468999998 777776654       2689999999988 6


Q ss_pred             CCC-C-cEEEeccccccCCC
Q 024350          249 VPK-A-DTIFMKVICVCYLN  266 (269)
Q Consensus       249 ~P~-g-D~~~l~~iLhd~~d  266 (269)
                      +|. . |++++..+||.++|
T Consensus       146 ~~~~~fD~v~~~~~l~~~~~  165 (297)
T 2o57_A          146 CEDNSYDFIWSQDAFLHSPD  165 (297)
T ss_dssp             SCTTCEEEEEEESCGGGCSC
T ss_pred             CCCCCEeEEEecchhhhcCC
Confidence            664 3 99999999999986

>3mgg_A Methyltransferase; NYSGXRC, PSI-II, protein structure initiative, structural genomics, NEW YORK SGX research center for structural genomics; 1.86A {Methanosarcina mazei}

Probab=98.69  E-value=2.8e-08  Score=85.05  Aligned_cols=77  Identities=16%  Similarity=0.321  Sum_probs=66.4

Q ss_pred             CCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC------CCceEEecccCC-cCCC-C-cEEEeccc
Q 024350          191 FEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFE-SVPK-A-DTIFMKVI  260 (269)
Q Consensus       191 ~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~-~~P~-g-D~~~l~~i  260 (269)
                      +....+|||||||+|.++..+++.+|+.+++++|+ |.+++.+++.      ++++++.+|+.+ +.+. . |++++..+
T Consensus        35 ~~~~~~vLDiG~G~G~~~~~l~~~~~~~~v~~vD~s~~~~~~a~~~~~~~~~~~~~~~~~d~~~~~~~~~~fD~v~~~~~  114 (276)
T 3mgg_A           35 YPPGAKVLEAGCGIGAQTVILAKNNPDAEITSIDISPESLEKARENTEKNGIKNVKFLQANIFSLPFEDSSFDHIFVCFV  114 (276)
T ss_dssp             CCTTCEEEETTCTTSHHHHHHHHHCTTSEEEEEESCHHHHHHHHHHHHHTTCCSEEEEECCGGGCCSCTTCEEEEEEESC
T ss_pred             CCCCCeEEEecCCCCHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHHHHcCCCCcEEEEcccccCCCCCCCeeEEEEech
Confidence            45678999999999999999999999999999998 7777766542      689999999998 5654 3 99999999


Q ss_pred             cccCCCC
Q 024350          261 CVCYLNS  267 (269)
Q Consensus       261 Lhd~~d~  267 (269)
                      ||.++|.
T Consensus       115 l~~~~~~  121 (276)
T 3mgg_A          115 LEHLQSP  121 (276)
T ss_dssp             GGGCSCH
T ss_pred             hhhcCCH
Confidence            9999874

>3bus_A REBM, methyltransferase; rebeccamycin synthesis; HET: SAH; 2.65A {Lechevalieria aerocolonigenes}

Probab=98.69  E-value=4.9e-08  Score=83.34  Aligned_cols=84  Identities=10%  Similarity=0.180  Sum_probs=68.7

Q ss_pred             HHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC-------CCCceEEecccCC-cCCC-
Q 024350          182 EKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS-------YPGIDHVGGDLFE-SVPK-  251 (269)
Q Consensus       182 ~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~-------~~ri~~~~gD~~~-~~P~-  251 (269)
                      ..+++.++ .....+|||||||+|.++..+++++ +.+++++|+ |..++.+++       .++++++.+|+.+ ++|. 
T Consensus        51 ~~l~~~~~-~~~~~~vLDiGcG~G~~~~~l~~~~-~~~v~gvD~s~~~~~~a~~~~~~~~~~~~~~~~~~d~~~~~~~~~  128 (273)
T 3bus_A           51 DEMIALLD-VRSGDRVLDVGCGIGKPAVRLATAR-DVRVTGISISRPQVNQANARATAAGLANRVTFSYADAMDLPFEDA  128 (273)
T ss_dssp             HHHHHHSC-CCTTCEEEEESCTTSHHHHHHHHHS-CCEEEEEESCHHHHHHHHHHHHHTTCTTTEEEEECCTTSCCSCTT
T ss_pred             HHHHHhcC-CCCCCEEEEeCCCCCHHHHHHHHhc-CCEEEEEeCCHHHHHHHHHHHHhcCCCcceEEEECccccCCCCCC
Confidence            44566666 6667899999999999999999987 689999998 777766653       2589999999988 6664 


Q ss_pred             C-cEEEeccccccCCCC
Q 024350          252 A-DTIFMKVICVCYLNS  267 (269)
Q Consensus       252 g-D~~~l~~iLhd~~d~  267 (269)
                      . |+++...+||.++|.
T Consensus       129 ~fD~v~~~~~l~~~~~~  145 (273)
T 3bus_A          129 SFDAVWALESLHHMPDR  145 (273)
T ss_dssp             CEEEEEEESCTTTSSCH
T ss_pred             CccEEEEechhhhCCCH
Confidence            4 999999999998763

>2p35_A Trans-aconitate 2-methyltransferase; SAM dependent methyltrans agrobacterium tumefaciens, structural genomics, PSI-2; HET: SAH; 1.95A {Agrobacterium tumefaciens str}

Probab=98.68  E-value=2.7e-08  Score=84.14  Aligned_cols=83  Identities=18%  Similarity=0.251  Sum_probs=68.9

Q ss_pred             HHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC-CCCceEEecccCCcCCC-C-cEEEec
Q 024350          183 KVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS-YPGIDHVGGDLFESVPK-A-DTIFMK  258 (269)
Q Consensus       183 ~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~-~~ri~~~~gD~~~~~P~-g-D~~~l~  258 (269)
                      .+++.++ .....+|||||||+|.++..+++++|..+++++|+ |..++.+++ .++++++.+|+.+..|. . |+++..
T Consensus        24 ~l~~~~~-~~~~~~vLdiG~G~G~~~~~l~~~~~~~~v~~~D~s~~~~~~a~~~~~~~~~~~~d~~~~~~~~~fD~v~~~  102 (259)
T 2p35_A           24 DLLAQVP-LERVLNGYDLGCGPGNSTELLTDRYGVNVITGIDSDDDMLEKAADRLPNTNFGKADLATWKPAQKADLLYAN  102 (259)
T ss_dssp             HHHTTCC-CSCCSSEEEETCTTTHHHHHHHHHHCTTSEEEEESCHHHHHHHHHHSTTSEEEECCTTTCCCSSCEEEEEEE
T ss_pred             HHHHhcC-CCCCCEEEEecCcCCHHHHHHHHhCCCCEEEEEECCHHHHHHHHHhCCCcEEEECChhhcCccCCcCEEEEe
Confidence            4555555 55668999999999999999999999999999997 778877765 47899999999872254 4 999999


Q ss_pred             cccccCCC
Q 024350          259 VICVCYLN  266 (269)
Q Consensus       259 ~iLhd~~d  266 (269)
                      .+||.++|
T Consensus       103 ~~l~~~~~  110 (259)
T 2p35_A          103 AVFQWVPD  110 (259)
T ss_dssp             SCGGGSTT
T ss_pred             CchhhCCC
Confidence            99998865

>1nkv_A Hypothetical protein YJHP; structural genomics, PSI, protein structure initiative, northeast structural genomics consortium, NESG; 2.90A {Escherichia coli} SCOP: c.66.1.21

Probab=98.66  E-value=5.8e-08  Score=81.98  Aligned_cols=84  Identities=13%  Similarity=0.101  Sum_probs=67.3

Q ss_pred             HHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-------CCceEEecccCC-cCCCC
Q 024350          182 EKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-------PGIDHVGGDLFE-SVPKA  252 (269)
Q Consensus       182 ~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~-~~P~g  252 (269)
                      ..++..++ .....+|||||||+|.++..+++.+ +.+++++|+ |..++.+++.       ++|+++.+|+.+ +.+..
T Consensus        26 ~~l~~~~~-~~~~~~VLDiGcG~G~~~~~la~~~-~~~v~gvD~s~~~l~~a~~~~~~~~~~~~v~~~~~d~~~~~~~~~  103 (256)
T 1nkv_A           26 ATLGRVLR-MKPGTRILDLGSGSGEMLCTWARDH-GITGTGIDMSSLFTAQAKRRAEELGVSERVHFIHNDAAGYVANEK  103 (256)
T ss_dssp             HHHHHHTC-CCTTCEEEEETCTTCHHHHHHHHHT-CCEEEEEESCHHHHHHHHHHHHHTTCTTTEEEEESCCTTCCCSSC
T ss_pred             HHHHHhcC-CCCCCEEEEECCCCCHHHHHHHHhc-CCeEEEEeCCHHHHHHHHHHHHhcCCCcceEEEECChHhCCcCCC
Confidence            34455555 5666899999999999999999998 678999997 7787766542       589999999987 33334


Q ss_pred             -cEEEeccccccCCCC
Q 024350          253 -DTIFMKVICVCYLNS  267 (269)
Q Consensus       253 -D~~~l~~iLhd~~d~  267 (269)
                       |++++..++|.++|.
T Consensus       104 fD~V~~~~~~~~~~~~  119 (256)
T 1nkv_A          104 CDVAACVGATWIAGGF  119 (256)
T ss_dssp             EEEEEEESCGGGTSSS
T ss_pred             CCEEEECCChHhcCCH
Confidence             999999999998763

>1xxl_A YCGJ protein; structural genomics, protein structure initiative, PSI, NEW YORK SGX research center for structural genomics, nysgxrc; 2.10A {Bacillus subtilis} SCOP: c.66.1.41 PDB: 2glu_A*

Probab=98.66  E-value=4.6e-08  Score=82.18  Aligned_cols=83  Identities=16%  Similarity=0.245  Sum_probs=67.8

Q ss_pred             HHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC------CCceEEecccCC-cCCC-C
Q 024350          182 EKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFE-SVPK-A  252 (269)
Q Consensus       182 ~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~-~~P~-g  252 (269)
                      ..+++.++ .....+|||||||+|.++..+++..+  +++++|+ |.+++.+++.      ++++++.+|+.+ +++. .
T Consensus        11 ~~~~~~~~-~~~~~~vLDiGcG~G~~~~~l~~~~~--~v~~vD~s~~~~~~a~~~~~~~~~~~v~~~~~d~~~~~~~~~~   87 (239)
T 1xxl_A           11 GLMIKTAE-CRAEHRVLDIGAGAGHTALAFSPYVQ--ECIGVDATKEMVEVASSFAQEKGVENVRFQQGTAESLPFPDDS   87 (239)
T ss_dssp             HHHHHHHT-CCTTCEEEEESCTTSHHHHHHGGGSS--EEEEEESCHHHHHHHHHHHHHHTCCSEEEEECBTTBCCSCTTC
T ss_pred             chHHHHhC-cCCCCEEEEEccCcCHHHHHHHHhCC--EEEEEECCHHHHHHHHHHHHHcCCCCeEEEecccccCCCCCCc
Confidence            45566666 66778999999999999999999986  7899997 7777766542      689999999977 5654 4


Q ss_pred             -cEEEeccccccCCCC
Q 024350          253 -DTIFMKVICVCYLNS  267 (269)
Q Consensus       253 -D~~~l~~iLhd~~d~  267 (269)
                       |++++..++|.|+|.
T Consensus        88 fD~v~~~~~l~~~~~~  103 (239)
T 1xxl_A           88 FDIITCRYAAHHFSDV  103 (239)
T ss_dssp             EEEEEEESCGGGCSCH
T ss_pred             EEEEEECCchhhccCH
Confidence             999999999999863

>3ujc_A Phosphoethanolamine N-methyltransferase; parasite; HET: PC; 1.19A {Plasmodium falciparum} PDB: 3uj9_A* 3uj6_A* 3uj7_A* 3uj8_A* 3uja_A 3ujb_A* 4fgz_A* 3ujd_A*

Probab=98.66  E-value=2.2e-08  Score=84.89  Aligned_cols=82  Identities=22%  Similarity=0.361  Sum_probs=67.5

Q ss_pred             HHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC----CCceEEecccCC-cCCC-C-c
Q 024350          182 EKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY----PGIDHVGGDLFE-SVPK-A-D  253 (269)
Q Consensus       182 ~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~----~ri~~~~gD~~~-~~P~-g-D  253 (269)
                      ..+++.++ .....+|||||||+|.++..+++++ +.+++++|+ |..++.+++.    ++|+++.+|+.+ ++|. . |
T Consensus        45 ~~~~~~~~-~~~~~~vLdiG~G~G~~~~~l~~~~-~~~v~~vD~s~~~~~~a~~~~~~~~~~~~~~~d~~~~~~~~~~fD  122 (266)
T 3ujc_A           45 KKILSDIE-LNENSKVLDIGSGLGGGCMYINEKY-GAHTHGIDICSNIVNMANERVSGNNKIIFEANDILTKEFPENNFD  122 (266)
T ss_dssp             HHHTTTCC-CCTTCEEEEETCTTSHHHHHHHHHH-CCEEEEEESCHHHHHHHHHTCCSCTTEEEEECCTTTCCCCTTCEE
T ss_pred             HHHHHhcC-CCCCCEEEEECCCCCHHHHHHHHHc-CCEEEEEeCCHHHHHHHHHHhhcCCCeEEEECccccCCCCCCcEE
Confidence            34455555 5667899999999999999999988 789999997 7777766543    789999999988 6664 4 9


Q ss_pred             EEEeccccccCC
Q 024350          254 TIFMKVICVCYL  265 (269)
Q Consensus       254 ~~~l~~iLhd~~  265 (269)
                      +++...+||.++
T Consensus       123 ~v~~~~~l~~~~  134 (266)
T 3ujc_A          123 LIYSRDAILALS  134 (266)
T ss_dssp             EEEEESCGGGSC
T ss_pred             EEeHHHHHHhcC
Confidence            999999999984

>3vc1_A Geranyl diphosphate 2-C-methyltransferase; rossmann fold, methyltransferase fold, SAM-dependent methyltransferase; HET: SAH GST GOL; 1.82A {Streptomyces coelicolor} PDB: 3vc2_A* 4f84_A* 4f85_A 4f86_A*

Probab=98.65  E-value=9.1e-08  Score=83.66  Aligned_cols=96  Identities=14%  Similarity=0.105  Sum_probs=72.0

Q ss_pred             HHHHHHHhhchhhHHHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-------CCce
Q 024350          168 VFSNGMLSHTSIVMEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-------PGID  239 (269)
Q Consensus       168 ~f~~~m~~~~~~~~~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-------~ri~  239 (269)
                      .|.. +..........+++.++.+....+|||||||+|.++..+++++ +.+++++|+ |..++.+++.       ++|+
T Consensus        93 ~f~~-~~~~~~~~~~~l~~~l~~~~~~~~vLDiGcG~G~~~~~la~~~-~~~v~gvD~s~~~~~~a~~~~~~~~~~~~v~  170 (312)
T 3vc1_A           93 VIAE-LHRLESAQAEFLMDHLGQAGPDDTLVDAGCGRGGSMVMAHRRF-GSRVEGVTLSAAQADFGNRRARELRIDDHVR  170 (312)
T ss_dssp             HHHH-HHHHHHHHHHHHHTTSCCCCTTCEEEEESCTTSHHHHHHHHHH-CCEEEEEESCHHHHHHHHHHHHHTTCTTTEE
T ss_pred             HHhh-hhhHHHHHHHHHHHHhccCCCCCEEEEecCCCCHHHHHHHHHc-CCEEEEEeCCHHHHHHHHHHHHHcCCCCceE
Confidence            4443 4443333334455555434556899999999999999999986 678999998 7888776542       5899


Q ss_pred             EEecccCC-cCCC-C-cEEEeccccccCC
Q 024350          240 HVGGDLFE-SVPK-A-DTIFMKVICVCYL  265 (269)
Q Consensus       240 ~~~gD~~~-~~P~-g-D~~~l~~iLhd~~  265 (269)
                      ++.+|+.+ +++. . |+++...+||.++
T Consensus       171 ~~~~d~~~~~~~~~~fD~V~~~~~l~~~~  199 (312)
T 3vc1_A          171 SRVCNMLDTPFDKGAVTASWNNESTMYVD  199 (312)
T ss_dssp             EEECCTTSCCCCTTCEEEEEEESCGGGSC
T ss_pred             EEECChhcCCCCCCCEeEEEECCchhhCC
Confidence            99999988 6664 4 9999999999873

>3jwg_A HEN1, methyltransferase type 12; 1.90A {Clostridium thermocellum} PDB: 3jwi_A

Probab=98.64  E-value=2.1e-08  Score=82.86  Aligned_cols=76  Identities=17%  Similarity=0.188  Sum_probs=63.5

Q ss_pred             CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-----------CCceEEecccCC-cCCC-C-cEEE
Q 024350          192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-----------PGIDHVGGDLFE-SVPK-A-DTIF  256 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-----------~ri~~~~gD~~~-~~P~-g-D~~~  256 (269)
                      .+..+|||||||+|.++..++++.|..+++++|+ |..++.+++.           ++|+++.+|+.. +.+. . |+++
T Consensus        28 ~~~~~vLDiGcG~G~~~~~l~~~~~~~~v~gvD~s~~~~~~a~~~~~~~~~~~~~~~~v~~~~~d~~~~~~~~~~fD~V~  107 (219)
T 3jwg_A           28 VNAKKVIDLGCGEGNLLSLLLKDKSFEQITGVDVSYSVLERAKDRLKIDRLPEMQRKRISLFQSSLVYRDKRFSGYDAAT  107 (219)
T ss_dssp             TTCCEEEEETCTTCHHHHHHHTSTTCCEEEEEESCHHHHHHHHHHHTGGGSCHHHHTTEEEEECCSSSCCGGGTTCSEEE
T ss_pred             cCCCEEEEecCCCCHHHHHHHhcCCCCEEEEEECCHHHHHHHHHHHHhhccccccCcceEEEeCcccccccccCCCCEEE
Confidence            3457999999999999999999999999999997 7888776542           289999999965 3332 3 9999


Q ss_pred             eccccccCCCC
Q 024350          257 MKVICVCYLNS  267 (269)
Q Consensus       257 l~~iLhd~~d~  267 (269)
                      +..+||.++++
T Consensus       108 ~~~~l~~~~~~  118 (219)
T 3jwg_A          108 VIEVIEHLDEN  118 (219)
T ss_dssp             EESCGGGCCHH
T ss_pred             EHHHHHhCCHH
Confidence            99999998754

>3gu3_A Methyltransferase; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative, northeast structural genomics consortium, NESG; HET: SAH; 2.30A {Bacillus cereus} SCOP: c.66.1.49 PDB: 2gh1_A

Probab=98.63  E-value=4.8e-08  Score=84.29  Aligned_cols=77  Identities=17%  Similarity=0.195  Sum_probs=64.9

Q ss_pred             CCCccEEEEeCCCchHHHHHHHHHCCC-CeEEEeeh-hHHHHhCCCC-----CCceEEecccCC-cCCCC-cEEEecccc
Q 024350          191 FEHVKKLVDVGGGLGATLNMIISKYPH-IKGINYDL-LYVIKNAPSY-----PGIDHVGGDLFE-SVPKA-DTIFMKVIC  261 (269)
Q Consensus       191 ~~~~~~vvDvGGG~G~~~~~l~~~~P~-l~~vv~Dl-p~vv~~a~~~-----~ri~~~~gD~~~-~~P~g-D~~~l~~iL  261 (269)
                      ..+..+|||||||+|.++..+++.+|+ .+++++|+ |..++.+++.     .+++++.+|+.+ +.+.. |++++..+|
T Consensus        20 ~~~~~~vLDiGcG~G~~~~~l~~~~~~~~~v~gvD~s~~~~~~a~~~~~~~~~~v~~~~~d~~~~~~~~~fD~v~~~~~l   99 (284)
T 3gu3_A           20 ITKPVHIVDYGCGYGYLGLVLMPLLPEGSKYTGIDSGETLLAEARELFRLLPYDSEFLEGDATEIELNDKYDIAICHAFL   99 (284)
T ss_dssp             CCSCCEEEEETCTTTHHHHHHTTTSCTTCEEEEEESCHHHHHHHHHHHHSSSSEEEEEESCTTTCCCSSCEEEEEEESCG
T ss_pred             cCCCCeEEEecCCCCHHHHHHHHhCCCCCEEEEEECCHHHHHHHHHHHHhcCCceEEEEcchhhcCcCCCeeEEEECChh
Confidence            556789999999999999999999995 89999997 7777666542     389999999998 45444 999999999


Q ss_pred             ccCCCC
Q 024350          262 VCYLNS  267 (269)
Q Consensus       262 hd~~d~  267 (269)
                      |.++|.
T Consensus       100 ~~~~~~  105 (284)
T 3gu3_A          100 LHMTTP  105 (284)
T ss_dssp             GGCSSH
T ss_pred             hcCCCH
Confidence            998763

>3jwh_A HEN1; methyltransferase; HET: SAH; 2.20A {Anabaena variabilis} PDB: 3jwj_A

Probab=98.63  E-value=2.5e-08  Score=82.34  Aligned_cols=76  Identities=14%  Similarity=0.177  Sum_probs=62.9

Q ss_pred             CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-----------CCceEEecccCC-cCC-CC-cEEE
Q 024350          192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-----------PGIDHVGGDLFE-SVP-KA-DTIF  256 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-----------~ri~~~~gD~~~-~~P-~g-D~~~  256 (269)
                      .+..+|||||||+|.++..+++++|..+++++|+ |.+++.+++.           ++++++.+|+.. +.+ .. |+++
T Consensus        28 ~~~~~vLDiGcG~G~~~~~l~~~~~~~~v~gvD~s~~~~~~a~~~~~~~~~~~~~~~~v~~~~~d~~~~~~~~~~fD~v~  107 (217)
T 3jwh_A           28 SNARRVIDLGCGQGNLLKILLKDSFFEQITGVDVSYRSLEIAQERLDRLRLPRNQWERLQLIQGALTYQDKRFHGYDAAT  107 (217)
T ss_dssp             TTCCEEEEETCTTCHHHHHHHHCTTCSEEEEEESCHHHHHHHHHHHTTCCCCHHHHTTEEEEECCTTSCCGGGCSCSEEE
T ss_pred             cCCCEEEEeCCCCCHHHHHHHhhCCCCEEEEEECCHHHHHHHHHHHHHhcCCcccCcceEEEeCCcccccccCCCcCEEe
Confidence            3457999999999999999999999999999997 7777766532           289999999865 344 24 9999


Q ss_pred             eccccccCCCC
Q 024350          257 MKVICVCYLNS  267 (269)
Q Consensus       257 l~~iLhd~~d~  267 (269)
                      +..+||.++++
T Consensus       108 ~~~~l~~~~~~  118 (217)
T 3jwh_A          108 VIEVIEHLDLS  118 (217)
T ss_dssp             EESCGGGCCHH
T ss_pred             eHHHHHcCCHH
Confidence            99999998754

>3g5l_A Putative S-adenosylmethionine dependent methyltransferase; structural genomics, PSI-2, protein structure initiative; 2.35A {Listeria monocytogenes str}

Probab=98.61  E-value=6.8e-08  Score=81.57  Aligned_cols=82  Identities=13%  Similarity=0.127  Sum_probs=66.5

Q ss_pred             HHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC---CCCceEEecccCC-cCCC-C-cEE
Q 024350          183 KVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS---YPGIDHVGGDLFE-SVPK-A-DTI  255 (269)
Q Consensus       183 ~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~---~~ri~~~~gD~~~-~~P~-g-D~~  255 (269)
                      .+.+.++ .....+|||||||+|.++..++++.+. +++++|+ |..++.+++   ..+++++.+|+.+ ++|. . |++
T Consensus        35 ~l~~~~~-~~~~~~vLD~GcG~G~~~~~l~~~~~~-~v~~vD~s~~~~~~a~~~~~~~~~~~~~~d~~~~~~~~~~fD~v  112 (253)
T 3g5l_A           35 ELKKMLP-DFNQKTVLDLGCGFGWHCIYAAEHGAK-KVLGIDLSERMLTEAKRKTTSPVVCYEQKAIEDIAIEPDAYNVV  112 (253)
T ss_dssp             HHHTTCC-CCTTCEEEEETCTTCHHHHHHHHTTCS-EEEEEESCHHHHHHHHHHCCCTTEEEEECCGGGCCCCTTCEEEE
T ss_pred             HHHHhhh-ccCCCEEEEECCCCCHHHHHHHHcCCC-EEEEEECCHHHHHHHHHhhccCCeEEEEcchhhCCCCCCCeEEE
Confidence            3445554 335689999999999999999999775 8899998 778877654   3789999999987 6664 4 999


Q ss_pred             EeccccccCCC
Q 024350          256 FMKVICVCYLN  266 (269)
Q Consensus       256 ~l~~iLhd~~d  266 (269)
                      ++..+||.++|
T Consensus       113 ~~~~~l~~~~~  123 (253)
T 3g5l_A          113 LSSLALHYIAS  123 (253)
T ss_dssp             EEESCGGGCSC
T ss_pred             EEchhhhhhhh
Confidence            99999999865

>3bkw_A MLL3908 protein, S-adenosylmethionine dependent methyltransferase; NP_104914.1; HET: MSE; 1.60A {Mesorhizobium loti}

Probab=98.61  E-value=9.8e-08  Score=79.77  Aligned_cols=82  Identities=17%  Similarity=0.146  Sum_probs=64.7

Q ss_pred             HHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC---CCceEEecccCC-cCCC-C-cEE
Q 024350          183 KVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY---PGIDHVGGDLFE-SVPK-A-DTI  255 (269)
Q Consensus       183 ~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~---~ri~~~~gD~~~-~~P~-g-D~~  255 (269)
                      .+...++ .....+|||||||+|.++..++++.+ .+++++|+ |..++.+++.   .+++++.+|+.+ +.|. . |++
T Consensus        34 ~l~~~~~-~~~~~~vLdiG~G~G~~~~~l~~~~~-~~v~~vD~s~~~~~~a~~~~~~~~~~~~~~d~~~~~~~~~~fD~v  111 (243)
T 3bkw_A           34 ALRAMLP-EVGGLRIVDLGCGFGWFCRWAHEHGA-SYVLGLDLSEKMLARARAAGPDTGITYERADLDKLHLPQDSFDLA  111 (243)
T ss_dssp             HHHHHSC-CCTTCEEEEETCTTCHHHHHHHHTTC-SEEEEEESCHHHHHHHHHTSCSSSEEEEECCGGGCCCCTTCEEEE
T ss_pred             HHHHhcc-ccCCCEEEEEcCcCCHHHHHHHHCCC-CeEEEEcCCHHHHHHHHHhcccCCceEEEcChhhccCCCCCceEE
Confidence            4455555 44567999999999999999998833 27899997 7777766543   579999999987 5554 4 999


Q ss_pred             EeccccccCCC
Q 024350          256 FMKVICVCYLN  266 (269)
Q Consensus       256 ~l~~iLhd~~d  266 (269)
                      ++..+||.+++
T Consensus       112 ~~~~~l~~~~~  122 (243)
T 3bkw_A          112 YSSLALHYVED  122 (243)
T ss_dssp             EEESCGGGCSC
T ss_pred             EEeccccccch
Confidence            99999999875

>4hg2_A Methyltransferase type 11; structural genomics, PSI-biology, midwest center for structu genomics, MCSG; HET: MES; 1.60A {Anaeromyxobacter dehalogenans}

Probab=98.60  E-value=9.9e-08  Score=81.53  Aligned_cols=71  Identities=15%  Similarity=0.104  Sum_probs=61.9

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCCCCceEEecccCC-cCCCC--cEEEeccccccCC
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSYPGIDHVGGDLFE-SVPKA--DTIFMKVICVCYL  265 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~~ri~~~~gD~~~-~~P~g--D~~~l~~iLhd~~  265 (269)
                      ...+|||||||+|.++..|++++.  +++.+|. |.+++.+++.++|+++.+|+.+ ++|.+  |+++...+||..+
T Consensus        39 ~~~~vLDvGcGtG~~~~~l~~~~~--~v~gvD~s~~ml~~a~~~~~v~~~~~~~e~~~~~~~sfD~v~~~~~~h~~~  113 (257)
T 4hg2_A           39 ARGDALDCGCGSGQASLGLAEFFE--RVHAVDPGEAQIRQALRHPRVTYAVAPAEDTGLPPASVDVAIAAQAMHWFD  113 (257)
T ss_dssp             CSSEEEEESCTTTTTHHHHHTTCS--EEEEEESCHHHHHTCCCCTTEEEEECCTTCCCCCSSCEEEEEECSCCTTCC
T ss_pred             CCCCEEEEcCCCCHHHHHHHHhCC--EEEEEeCcHHhhhhhhhcCCceeehhhhhhhcccCCcccEEEEeeehhHhh
Confidence            446899999999999999998874  6789997 8889999989999999999987 77754  9999999998654

>3hem_A Cyclopropane-fatty-acyl-phospholipid synthase 2; protein-ligand complex, cytoplasm, lipid synthesis, methyltransferase; HET: D22; 2.39A {Mycobacterium tuberculosis} SCOP: c.66.1.18 PDB: 1kpi_A*

Probab=98.58  E-value=1.1e-07  Score=82.66  Aligned_cols=83  Identities=17%  Similarity=0.193  Sum_probs=68.5

Q ss_pred             HHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-------CCceEEecccCCcCCCC-
Q 024350          182 EKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-------PGIDHVGGDLFESVPKA-  252 (269)
Q Consensus       182 ~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~~~P~g-  252 (269)
                      ..+++.++ .....+|||||||+|.++..++++++ .+++++|+ |..++.+++.       ++|+++.+|+.+- +.. 
T Consensus        62 ~~~~~~~~-~~~~~~vLDiGcG~G~~~~~la~~~~-~~v~gvD~s~~~~~~a~~~~~~~~~~~~v~~~~~d~~~~-~~~f  138 (302)
T 3hem_A           62 KLALDKLN-LEPGMTLLDIGCGWGSTMRHAVAEYD-VNVIGLTLSENQYAHDKAMFDEVDSPRRKEVRIQGWEEF-DEPV  138 (302)
T ss_dssp             HHHHHTTC-CCTTCEEEEETCTTSHHHHHHHHHHC-CEEEEEECCHHHHHHHHHHHHHSCCSSCEEEEECCGGGC-CCCC
T ss_pred             HHHHHHcC-CCCcCEEEEeeccCcHHHHHHHHhCC-CEEEEEECCHHHHHHHHHHHHhcCCCCceEEEECCHHHc-CCCc
Confidence            34566666 66678999999999999999999988 89999998 7888766542       4899999999754 544 


Q ss_pred             cEEEeccccccCCCC
Q 024350          253 DTIFMKVICVCYLNS  267 (269)
Q Consensus       253 D~~~l~~iLhd~~d~  267 (269)
                      |+++...++|.++|.
T Consensus       139 D~v~~~~~~~~~~d~  153 (302)
T 3hem_A          139 DRIVSLGAFEHFADG  153 (302)
T ss_dssp             SEEEEESCGGGTTCC
T ss_pred             cEEEEcchHHhcCcc
Confidence            999999999999775

>3dli_A Methyltransferase; PSI-II, NYSGXRC, structural genomics, protein structure initiative; 2.46A {Archaeoglobus fulgidus}

Probab=98.57  E-value=9.9e-08  Score=80.04  Aligned_cols=73  Identities=23%  Similarity=0.368  Sum_probs=60.6

Q ss_pred             CCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCCCCceEEecccCC---cCCC-C-cEEEeccccccC
Q 024350          191 FEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSYPGIDHVGGDLFE---SVPK-A-DTIFMKVICVCY  264 (269)
Q Consensus       191 ~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~~ri~~~~gD~~~---~~P~-g-D~~~l~~iLhd~  264 (269)
                      +++..+|||||||+|.++..+++.  +.+++++|+ |..++.+++.  ++++.+|+.+   ++|. . |+++...+||.+
T Consensus        39 ~~~~~~vLDiGcG~G~~~~~l~~~--~~~v~gvD~s~~~~~~a~~~--~~~~~~d~~~~~~~~~~~~fD~i~~~~~l~~~  114 (240)
T 3dli_A           39 FKGCRRVLDIGCGRGEFLELCKEE--GIESIGVDINEDMIKFCEGK--FNVVKSDAIEYLKSLPDKYLDGVMISHFVEHL  114 (240)
T ss_dssp             TTTCSCEEEETCTTTHHHHHHHHH--TCCEEEECSCHHHHHHHHTT--SEEECSCHHHHHHTSCTTCBSEEEEESCGGGS
T ss_pred             hcCCCeEEEEeCCCCHHHHHHHhC--CCcEEEEECCHHHHHHHHhh--cceeeccHHHHhhhcCCCCeeEEEECCchhhC
Confidence            345689999999999999999998  556899997 7777776655  9999999877   5564 3 999999999999


Q ss_pred             CCC
Q 024350          265 LNS  267 (269)
Q Consensus       265 ~d~  267 (269)
                      +++
T Consensus       115 ~~~  117 (240)
T 3dli_A          115 DPE  117 (240)
T ss_dssp             CGG
T ss_pred             CcH
Confidence            864

>1xtp_A LMAJ004091AAA; SGPP, structural genomics, PSI, protein structure initiative dependent methyltransferase; HET: SAI; 1.94A {Leishmania major} SCOP: c.66.1.42

Probab=98.56  E-value=3.3e-08  Score=83.34  Aligned_cols=83  Identities=13%  Similarity=0.201  Sum_probs=66.3

Q ss_pred             HHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC----CCceEEecccCC-cCCC-C-c
Q 024350          182 EKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY----PGIDHVGGDLFE-SVPK-A-D  253 (269)
Q Consensus       182 ~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~----~ri~~~~gD~~~-~~P~-g-D  253 (269)
                      ..+++.++ .....+|||||||+|.++..++++. ..+++++|. |.+++.+++.    ++++++.+|+.+ ++|. . |
T Consensus        83 ~~~l~~l~-~~~~~~vLDiG~G~G~~~~~l~~~~-~~~v~~vD~s~~~~~~a~~~~~~~~~~~~~~~d~~~~~~~~~~fD  160 (254)
T 1xtp_A           83 RNFIASLP-GHGTSRALDCGAGIGRITKNLLTKL-YATTDLLEPVKHMLEEAKRELAGMPVGKFILASMETATLPPNTYD  160 (254)
T ss_dssp             HHHHHTST-TCCCSEEEEETCTTTHHHHHTHHHH-CSEEEEEESCHHHHHHHHHHTTTSSEEEEEESCGGGCCCCSSCEE
T ss_pred             HHHHHhhc-ccCCCEEEEECCCcCHHHHHHHHhh-cCEEEEEeCCHHHHHHHHHHhccCCceEEEEccHHHCCCCCCCeE
Confidence            34555555 4566899999999999999999887 557899997 7777766542    689999999987 5564 3 9


Q ss_pred             EEEeccccccCCC
Q 024350          254 TIFMKVICVCYLN  266 (269)
Q Consensus       254 ~~~l~~iLhd~~d  266 (269)
                      ++++..+||.+++
T Consensus       161 ~v~~~~~l~~~~~  173 (254)
T 1xtp_A          161 LIVIQWTAIYLTD  173 (254)
T ss_dssp             EEEEESCGGGSCH
T ss_pred             EEEEcchhhhCCH
Confidence            9999999999865

>3f4k_A Putative methyltransferase; structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium, NESG; 2.30A {Bacteroides thetaiotaomicron} PDB: 3t0i_A* 3svz_A* 3sxj_A*

Probab=98.56  E-value=1.4e-07  Score=79.75  Aligned_cols=80  Identities=14%  Similarity=0.139  Sum_probs=64.3

Q ss_pred             HHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-------CCceEEecccCC-cCCC-C-
Q 024350          184 VLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-------PGIDHVGGDLFE-SVPK-A-  252 (269)
Q Consensus       184 ~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~-~~P~-g-  252 (269)
                      ++..+..++...+|||||||+|.++..+++.+|. +++++|+ |..++.+++.       +||+++.+|+.+ +++. . 
T Consensus        37 ~l~~l~~~~~~~~vLDiG~G~G~~~~~l~~~~~~-~v~~vD~s~~~~~~a~~~~~~~~~~~~~~~~~~d~~~~~~~~~~f  115 (257)
T 3f4k_A           37 AVSFINELTDDAKIADIGCGTGGQTLFLADYVKG-QITGIDLFPDFIEIFNENAVKANCADRVKGITGSMDNLPFQNEEL  115 (257)
T ss_dssp             HHTTSCCCCTTCEEEEETCTTSHHHHHHHHHCCS-EEEEEESCHHHHHHHHHHHHHTTCTTTEEEEECCTTSCSSCTTCE
T ss_pred             HHHHHhcCCCCCeEEEeCCCCCHHHHHHHHhCCC-eEEEEECCHHHHHHHHHHHHHcCCCCceEEEECChhhCCCCCCCE
Confidence            3444432455679999999999999999999986 8999998 7777766542       579999999977 5664 4 


Q ss_pred             cEEEeccccccC
Q 024350          253 DTIFMKVICVCY  264 (269)
Q Consensus       253 D~~~l~~iLhd~  264 (269)
                      |++++..+||.+
T Consensus       116 D~v~~~~~l~~~  127 (257)
T 3f4k_A          116 DLIWSEGAIYNI  127 (257)
T ss_dssp             EEEEEESCSCCC
T ss_pred             EEEEecChHhhc
Confidence            999999999987

>3ccf_A Cyclopropane-fatty-acyl-phospholipid synthase; YP_321342.1, putative methyltransferase; 1.90A {Anabaena variabilis atcc 29413}

Probab=98.56  E-value=7.6e-08  Score=82.67  Aligned_cols=82  Identities=18%  Similarity=0.211  Sum_probs=66.8

Q ss_pred             HHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-CCceEEecccCC-cCCCC-cEEEec
Q 024350          183 KVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-PGIDHVGGDLFE-SVPKA-DTIFMK  258 (269)
Q Consensus       183 ~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-~ri~~~~gD~~~-~~P~g-D~~~l~  258 (269)
                      .+++.++ .....+|||||||+|.++..+++  |..+++++|+ |..++.+++. ++++++.+|+.+ +.+.. |+++..
T Consensus        48 ~l~~~l~-~~~~~~vLDiGcG~G~~~~~l~~--~~~~v~gvD~s~~~~~~a~~~~~~~~~~~~d~~~~~~~~~fD~v~~~  124 (279)
T 3ccf_A           48 DLLQLLN-PQPGEFILDLGCGTGQLTEKIAQ--SGAEVLGTDNAATMIEKARQNYPHLHFDVADARNFRVDKPLDAVFSN  124 (279)
T ss_dssp             HHHHHHC-CCTTCEEEEETCTTSHHHHHHHH--TTCEEEEEESCHHHHHHHHHHCTTSCEEECCTTTCCCSSCEEEEEEE
T ss_pred             HHHHHhC-CCCCCEEEEecCCCCHHHHHHHh--CCCeEEEEECCHHHHHHHHhhCCCCEEEECChhhCCcCCCcCEEEEc
Confidence            3455555 55668999999999999999998  8889999997 7778776653 789999999987 44444 999999


Q ss_pred             cccccCCCC
Q 024350          259 VICVCYLNS  267 (269)
Q Consensus       259 ~iLhd~~d~  267 (269)
                      ++||.++|.
T Consensus       125 ~~l~~~~d~  133 (279)
T 3ccf_A          125 AMLHWVKEP  133 (279)
T ss_dssp             SCGGGCSCH
T ss_pred             chhhhCcCH
Confidence            999988763

>3hnr_A Probable methyltransferase BT9727_4108; structural genomics, PSI-2, protein structure initiative; 2.80A {Bacillus thuringiensis serovarkonkukian}

Probab=98.55  E-value=7.8e-08  Score=79.30  Aligned_cols=81  Identities=17%  Similarity=0.179  Sum_probs=65.0

Q ss_pred             HHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC--CCceEEecccCC-cCCCC-cEEEec
Q 024350          184 VLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY--PGIDHVGGDLFE-SVPKA-DTIFMK  258 (269)
Q Consensus       184 ~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~--~ri~~~~gD~~~-~~P~g-D~~~l~  258 (269)
                      +++.+. .....+|||||||+|.++..++++  +.+++++|. |..++.+++.  ++++++.+|+.+ +.+.. |++++.
T Consensus        37 ~l~~~~-~~~~~~vLDiGcG~G~~~~~l~~~--~~~v~~vD~s~~~~~~a~~~~~~~~~~~~~d~~~~~~~~~fD~v~~~  113 (220)
T 3hnr_A           37 ILEDVV-NKSFGNVLEFGVGTGNLTNKLLLA--GRTVYGIEPSREMRMIAKEKLPKEFSITEGDFLSFEVPTSIDTIVST  113 (220)
T ss_dssp             HHHHHH-HTCCSEEEEECCTTSHHHHHHHHT--TCEEEEECSCHHHHHHHHHHSCTTCCEESCCSSSCCCCSCCSEEEEE
T ss_pred             HHHHhh-ccCCCeEEEeCCCCCHHHHHHHhC--CCeEEEEeCCHHHHHHHHHhCCCceEEEeCChhhcCCCCCeEEEEEC
Confidence            444443 335579999999999999999998  678999997 7777766543  489999999998 55544 999999


Q ss_pred             cccccCCCC
Q 024350          259 VICVCYLNS  267 (269)
Q Consensus       259 ~iLhd~~d~  267 (269)
                      .+||.+++.
T Consensus       114 ~~l~~~~~~  122 (220)
T 3hnr_A          114 YAFHHLTDD  122 (220)
T ss_dssp             SCGGGSCHH
T ss_pred             cchhcCChH
Confidence            999998864

>3kkz_A Uncharacterized protein Q5LES9; putative methyltransferase, BFR250, NESG, structural genomics, PSI-2; HET: SAM; 1.68A {Bacteroides fragilis nctc 9343} PDB: 3e7p_A 3t7s_A* 3t7r_A* 3t7t_A*

Probab=98.55  E-value=1.3e-07  Score=80.66  Aligned_cols=73  Identities=12%  Similarity=0.123  Sum_probs=62.2

Q ss_pred             CCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-------CCceEEecccCC-cCCC-C-cEEEecc
Q 024350          191 FEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-------PGIDHVGGDLFE-SVPK-A-DTIFMKV  259 (269)
Q Consensus       191 ~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~-~~P~-g-D~~~l~~  259 (269)
                      +....+|||||||+|.++..+++. |..+++++|+ |..++.+++.       ++|+++.+|+.+ +++. . |++++..
T Consensus        44 ~~~~~~vLDiGcG~G~~~~~la~~-~~~~v~gvD~s~~~~~~a~~~~~~~~~~~~v~~~~~d~~~~~~~~~~fD~i~~~~  122 (267)
T 3kkz_A           44 LTEKSLIADIGCGTGGQTMVLAGH-VTGQVTGLDFLSGFIDIFNRNARQSGLQNRVTGIVGSMDDLPFRNEELDLIWSEG  122 (267)
T ss_dssp             CCTTCEEEEETCTTCHHHHHHHTT-CSSEEEEEESCHHHHHHHHHHHHHTTCTTTEEEEECCTTSCCCCTTCEEEEEESS
T ss_pred             CCCCCEEEEeCCCCCHHHHHHHhc-cCCEEEEEeCCHHHHHHHHHHHHHcCCCcCcEEEEcChhhCCCCCCCEEEEEEcC
Confidence            456689999999999999999998 8899999998 7777766542       679999999987 5554 3 9999999


Q ss_pred             ccccC
Q 024350          260 ICVCY  264 (269)
Q Consensus       260 iLhd~  264 (269)
                      ++|.+
T Consensus       123 ~~~~~  127 (267)
T 3kkz_A          123 AIYNI  127 (267)
T ss_dssp             CGGGT
T ss_pred             Cceec
Confidence            99987

>3g5t_A Trans-aconitate 3-methyltransferase; structural genomics, protein structure initiative, PSI, center for eukaryotic structural genomics; HET: MSE SAH T8N; 1.12A {Saccharomyces cerevisiae}

Probab=98.55  E-value=2e-07  Score=80.81  Aligned_cols=73  Identities=25%  Similarity=0.232  Sum_probs=63.0

Q ss_pred             CCccEEEEeCCCchHHHHHHHHHC-CCCeEEEeeh-hHHHHhCCC--------CCCceEEecccCC-cCCC------C--
Q 024350          192 EHVKKLVDVGGGLGATLNMIISKY-PHIKGINYDL-LYVIKNAPS--------YPGIDHVGGDLFE-SVPK------A--  252 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~~-P~l~~vv~Dl-p~vv~~a~~--------~~ri~~~~gD~~~-~~P~------g--  252 (269)
                      ....+|||||||+|.++..+++++ |..+++++|+ |..++.+++        .++|+++.+|+.+ +.+.      +  
T Consensus        35 ~~~~~vLDiGcG~G~~~~~la~~~~~~~~v~gvD~s~~~~~~a~~~~~~~~~~~~~v~~~~~d~~~~~~~~~~~~~~~~f  114 (299)
T 3g5t_A           35 GERKLLVDVGCGPGTATLQMAQELKPFEQIIGSDLSATMIKTAEVIKEGSPDTYKNVSFKISSSDDFKFLGADSVDKQKI  114 (299)
T ss_dssp             SCCSEEEEETCTTTHHHHHHHHHSSCCSEEEEEESCHHHHHHHHHHHHHCC-CCTTEEEEECCTTCCGGGCTTTTTSSCE
T ss_pred             CCCCEEEEECCCCCHHHHHHHHhCCCCCEEEEEeCCHHHHHHHHHHHHhccCCCCceEEEEcCHHhCCccccccccCCCe
Confidence            456899999999999999999997 8999999997 778877654        4799999999988 5444      3  


Q ss_pred             cEEEeccccccC
Q 024350          253 DTIFMKVICVCY  264 (269)
Q Consensus       253 D~~~l~~iLhd~  264 (269)
                      |++++..+||.+
T Consensus       115 D~V~~~~~l~~~  126 (299)
T 3g5t_A          115 DMITAVECAHWF  126 (299)
T ss_dssp             EEEEEESCGGGS
T ss_pred             eEEeHhhHHHHh
Confidence            999999999987

>2yqz_A Hypothetical protein TTHA0223; RNA methyltransferase, SAM, structural genomics, NPPSFA; HET: SAM; 1.80A {Thermus thermophilus} PDB: 2yr0_A

Probab=98.52  E-value=2.1e-07  Score=78.70  Aligned_cols=74  Identities=12%  Similarity=0.134  Sum_probs=61.2

Q ss_pred             CCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC-----CCCceEEecccCC-cCCC-C-cEEEecccc
Q 024350          191 FEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS-----YPGIDHVGGDLFE-SVPK-A-DTIFMKVIC  261 (269)
Q Consensus       191 ~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~-----~~ri~~~~gD~~~-~~P~-g-D~~~l~~iL  261 (269)
                      .....+|||||||+|.++..++++  ..+++++|. |..++.+++     .++++++.+|+.+ ++|. . |++++..+|
T Consensus        37 ~~~~~~vLDiG~G~G~~~~~l~~~--~~~v~~vD~s~~~~~~a~~~~~~~~~~~~~~~~d~~~~~~~~~~fD~v~~~~~l  114 (263)
T 2yqz_A           37 KGEEPVFLELGVGTGRIALPLIAR--GYRYIALDADAAMLEVFRQKIAGVDRKVQVVQADARAIPLPDESVHGVIVVHLW  114 (263)
T ss_dssp             SSSCCEEEEETCTTSTTHHHHHTT--TCEEEEEESCHHHHHHHHHHTTTSCTTEEEEESCTTSCCSCTTCEEEEEEESCG
T ss_pred             CCCCCEEEEeCCcCCHHHHHHHHC--CCEEEEEECCHHHHHHHHHHhhccCCceEEEEcccccCCCCCCCeeEEEECCch
Confidence            456689999999999999999987  568899997 677766543     3789999999977 5564 3 999999999


Q ss_pred             ccCCC
Q 024350          262 VCYLN  266 (269)
Q Consensus       262 hd~~d  266 (269)
                      |.++|
T Consensus       115 ~~~~~  119 (263)
T 2yqz_A          115 HLVPD  119 (263)
T ss_dssp             GGCTT
T ss_pred             hhcCC
Confidence            99875

>3l8d_A Methyltransferase; structural genomics, PSI, nysgrc, protein structure initiative, NEW YORK SGX research center for STRU genomics; 1.70A {Bacillus thuringiensis}

Probab=98.52  E-value=2.3e-07  Score=77.55  Aligned_cols=74  Identities=18%  Similarity=0.245  Sum_probs=62.6

Q ss_pred             CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC---CCceEEecccCC-cCCC-C-cEEEeccccccC
Q 024350          192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY---PGIDHVGGDLFE-SVPK-A-DTIFMKVICVCY  264 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~---~ri~~~~gD~~~-~~P~-g-D~~~l~~iLhd~  264 (269)
                      +...+|||||||+|.++..+++.  +.+++++|+ |..++.+++.   .+++++.+|+.+ +.|. . |++++.++||.+
T Consensus        52 ~~~~~vLDiG~G~G~~~~~l~~~--~~~v~~vD~s~~~~~~a~~~~~~~~~~~~~~d~~~~~~~~~~fD~v~~~~~l~~~  129 (242)
T 3l8d_A           52 KKEAEVLDVGCGDGYGTYKLSRT--GYKAVGVDISEVMIQKGKERGEGPDLSFIKGDLSSLPFENEQFEAIMAINSLEWT  129 (242)
T ss_dssp             CTTCEEEEETCTTSHHHHHHHHT--TCEEEEEESCHHHHHHHHTTTCBTTEEEEECBTTBCSSCTTCEEEEEEESCTTSS
T ss_pred             CCCCeEEEEcCCCCHHHHHHHHc--CCeEEEEECCHHHHHHHHhhcccCCceEEEcchhcCCCCCCCccEEEEcChHhhc
Confidence            35579999999999999999998  668899997 7788777653   789999999998 6664 4 999999999998


Q ss_pred             CCC
Q 024350          265 LNS  267 (269)
Q Consensus       265 ~d~  267 (269)
                      ++.
T Consensus       130 ~~~  132 (242)
T 3l8d_A          130 EEP  132 (242)
T ss_dssp             SCH
T ss_pred             cCH
Confidence            763

>3h2b_A SAM-dependent methyltransferase; alpha-beta protein, structural genomics, PSI-2, protein structure initiative; HET: SAH; 2.00A {Corynebacterium glutamicum atcc 13032}

Probab=98.52  E-value=7.4e-08  Score=78.52  Aligned_cols=72  Identities=14%  Similarity=0.096  Sum_probs=61.4

Q ss_pred             ccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC-CCCceEEecccCC-cCCC-C-cEEEeccccccCCCC
Q 024350          194 VKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS-YPGIDHVGGDLFE-SVPK-A-DTIFMKVICVCYLNS  267 (269)
Q Consensus       194 ~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~-~~ri~~~~gD~~~-~~P~-g-D~~~l~~iLhd~~d~  267 (269)
                      ..+|||||||+|.++..++++  +.+++++|+ |.+++.+++ .++++++.+|+.+ +.+. . |++++.++||.++++
T Consensus        42 ~~~vLDiGcG~G~~~~~l~~~--~~~v~gvD~s~~~~~~a~~~~~~~~~~~~d~~~~~~~~~~fD~v~~~~~l~~~~~~  118 (203)
T 3h2b_A           42 DGVILDVGSGTGRWTGHLASL--GHQIEGLEPATRLVELARQTHPSVTFHHGTITDLSDSPKRWAGLLAWYSLIHMGPG  118 (203)
T ss_dssp             CSCEEEETCTTCHHHHHHHHT--TCCEEEECCCHHHHHHHHHHCTTSEEECCCGGGGGGSCCCEEEEEEESSSTTCCTT
T ss_pred             CCeEEEecCCCCHHHHHHHhc--CCeEEEEeCCHHHHHHHHHhCCCCeEEeCcccccccCCCCeEEEEehhhHhcCCHH
Confidence            478999999999999999998  558899997 778877765 4799999999988 6664 3 999999999999854

>2p7i_A Hypothetical protein; putative methyltransferase, structural genomics, joint cente structural genomics, JCSG; 1.74A {Pectobacterium atrosepticum SCRI1043} SCOP: c.66.1.41 PDB: 2p7h_A

Probab=98.51  E-value=1.1e-07  Score=79.55  Aligned_cols=73  Identities=12%  Similarity=0.112  Sum_probs=60.0

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC--CCceEEecccCCcCCC-C-cEEEeccccccCCCC
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY--PGIDHVGGDLFESVPK-A-DTIFMKVICVCYLNS  267 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~--~ri~~~~gD~~~~~P~-g-D~~~l~~iLhd~~d~  267 (269)
                      ...+|||||||+|.++..++++.+  +++++|+ |..++.+++.  .+++++.+|+.+..+. . |++++.++||.++|.
T Consensus        42 ~~~~vLDiGcG~G~~~~~l~~~~~--~v~gvD~s~~~~~~a~~~~~~~v~~~~~d~~~~~~~~~fD~v~~~~~l~~~~~~  119 (250)
T 2p7i_A           42 RPGNLLELGSFKGDFTSRLQEHFN--DITCVEASEEAISHAQGRLKDGITYIHSRFEDAQLPRRYDNIVLTHVLEHIDDP  119 (250)
T ss_dssp             CSSCEEEESCTTSHHHHHHTTTCS--CEEEEESCHHHHHHHHHHSCSCEEEEESCGGGCCCSSCEEEEEEESCGGGCSSH
T ss_pred             CCCcEEEECCCCCHHHHHHHHhCC--cEEEEeCCHHHHHHHHHhhhCCeEEEEccHHHcCcCCcccEEEEhhHHHhhcCH
Confidence            446899999999999999999987  5788897 6777766543  2899999999875453 4 999999999998764

>3ocj_A Putative exported protein; structural genomics, PSI-2, protein structure initiative, MI center for structural genomics, MCSG; HET: PLM; 1.39A {Bordetella parapertussis}

Probab=98.50  E-value=4.5e-08  Score=85.36  Aligned_cols=77  Identities=13%  Similarity=0.094  Sum_probs=64.8

Q ss_pred             CCCccEEEEeCCCchHHHHHHH-HHCCCCeEEEeeh-hHHHHhCCCC-------CCceEEecccCC-cCCCC-cEEEecc
Q 024350          191 FEHVKKLVDVGGGLGATLNMII-SKYPHIKGINYDL-LYVIKNAPSY-------PGIDHVGGDLFE-SVPKA-DTIFMKV  259 (269)
Q Consensus       191 ~~~~~~vvDvGGG~G~~~~~l~-~~~P~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~-~~P~g-D~~~l~~  259 (269)
                      +....+|+|||||+|.++..++ ..+|+.+++++|+ |..++.+++.       +||+++.+|+.+ +.+.. |++++..
T Consensus       116 l~~~~~vLDiGcG~G~~~~~la~~~~~~~~v~gvD~s~~~~~~a~~~~~~~~~~~~v~~~~~d~~~~~~~~~fD~v~~~~  195 (305)
T 3ocj_A          116 LRPGCVVASVPCGWMSELLALDYSACPGVQLVGIDYDPEALDGATRLAAGHALAGQITLHRQDAWKLDTREGYDLLTSNG  195 (305)
T ss_dssp             CCTTCEEEETTCTTCHHHHTSCCTTCTTCEEEEEESCHHHHHHHHHHHTTSTTGGGEEEEECCGGGCCCCSCEEEEECCS
T ss_pred             CCCCCEEEEecCCCCHHHHHHHHhcCCCCeEEEEECCHHHHHHHHHHHHhcCCCCceEEEECchhcCCccCCeEEEEECC
Confidence            3456899999999999999996 7899999999998 8888766542       569999999998 55544 9999999


Q ss_pred             ccccCCCC
Q 024350          260 ICVCYLNS  267 (269)
Q Consensus       260 iLhd~~d~  267 (269)
                      ++|.++|.
T Consensus       196 ~~~~~~~~  203 (305)
T 3ocj_A          196 LNIYEPDD  203 (305)
T ss_dssp             SGGGCCCH
T ss_pred             hhhhcCCH
Confidence            99998764

>1pjz_A Thiopurine S-methyltransferase; polymorphism, S-adenosylmethionine, drug metabolism; NMR {Pseudomonas syringae PV} SCOP: c.66.1.36

Probab=98.49  E-value=7.3e-08  Score=79.16  Aligned_cols=80  Identities=11%  Similarity=0.155  Sum_probs=62.9

Q ss_pred             HHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC------------------CCCceEEecc
Q 024350          184 VLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS------------------YPGIDHVGGD  244 (269)
Q Consensus       184 ~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~------------------~~ri~~~~gD  244 (269)
                      ++..+. .+...+|+|||||+|..+..++++  ..+++.+|+ |.+++.+++                  ..+|+++.+|
T Consensus        14 ~~~~l~-~~~~~~vLD~GCG~G~~~~~la~~--g~~V~gvD~S~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~v~~~~~d   90 (203)
T 1pjz_A           14 YWSSLN-VVPGARVLVPLCGKSQDMSWLSGQ--GYHVVGAELSEAAVERYFTERGEQPHITSQGDFKVYAAPGIEIWCGD   90 (203)
T ss_dssp             HHHHHC-CCTTCEEEETTTCCSHHHHHHHHH--CCEEEEEEECHHHHHHHHHHHCSCSEEEEETTEEEEECSSSEEEEEC
T ss_pred             HHHhcc-cCCCCEEEEeCCCCcHhHHHHHHC--CCeEEEEeCCHHHHHHHHHHccCCcccccccccccccCCccEEEECc
Confidence            334444 556689999999999999999987  568999997 778876643                  2589999999


Q ss_pred             cCC-cCCC--C-cEEEeccccccCCC
Q 024350          245 LFE-SVPK--A-DTIFMKVICVCYLN  266 (269)
Q Consensus       245 ~~~-~~P~--g-D~~~l~~iLhd~~d  266 (269)
                      +++ +.+.  . |+++.+.+||..++
T Consensus        91 ~~~l~~~~~~~fD~v~~~~~l~~l~~  116 (203)
T 1pjz_A           91 FFALTARDIGHCAAFYDRAAMIALPA  116 (203)
T ss_dssp             CSSSTHHHHHSEEEEEEESCGGGSCH
T ss_pred             cccCCcccCCCEEEEEECcchhhCCH
Confidence            998 4432  3 99999999988764

>1kpg_A CFA synthase;, cyclopropane-fatty-acyl-phospholipid synthase 1; mixed alpha beta fold, structural genomics, PSI; HET: SAH 16A; 2.00A {Mycobacterium tuberculosis} SCOP: c.66.1.18 PDB: 1kp9_A* 1kph_A* 1tpy_A* 1l1e_A*

Probab=98.48  E-value=2.7e-07  Score=79.33  Aligned_cols=82  Identities=17%  Similarity=0.146  Sum_probs=65.4

Q ss_pred             HHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC-------CCCceEEecccCCcCCCC-c
Q 024350          183 KVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS-------YPGIDHVGGDLFESVPKA-D  253 (269)
Q Consensus       183 ~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~-------~~ri~~~~gD~~~~~P~g-D  253 (269)
                      .+++.++ .....+|||||||.|.++..++++++. +++++|+ |..++.+++       .++|+++.+|+.+ +|.. |
T Consensus        55 ~~~~~~~-~~~~~~vLDiGcG~G~~~~~l~~~~~~-~v~gvd~s~~~~~~a~~~~~~~~~~~~~~~~~~d~~~-~~~~fD  131 (287)
T 1kpg_A           55 LALGKLG-LQPGMTLLDVGCGWGATMMRAVEKYDV-NVVGLTLSKNQANHVQQLVANSENLRSKRVLLAGWEQ-FDEPVD  131 (287)
T ss_dssp             HHHTTTT-CCTTCEEEEETCTTSHHHHHHHHHHCC-EEEEEESCHHHHHHHHHHHHTCCCCSCEEEEESCGGG-CCCCCS
T ss_pred             HHHHHcC-CCCcCEEEEECCcccHHHHHHHHHcCC-EEEEEECCHHHHHHHHHHHHhcCCCCCeEEEECChhh-CCCCee
Confidence            4555555 556689999999999999999988754 9999997 777776654       2689999999954 5544 9


Q ss_pred             EEEeccccccCCCC
Q 024350          254 TIFMKVICVCYLNS  267 (269)
Q Consensus       254 ~~~l~~iLhd~~d~  267 (269)
                      +++...+||.++++
T Consensus       132 ~v~~~~~l~~~~~~  145 (287)
T 1kpg_A          132 RIVSIGAFEHFGHE  145 (287)
T ss_dssp             EEEEESCGGGTCTT
T ss_pred             EEEEeCchhhcChH
Confidence            99999999999653

>2xvm_A Tellurite resistance protein TEHB; antibiotic resistance, transferase; HET: SAH; 1.48A {Escherichia coli} PDB: 2xva_A* 4dq0_A* 2i6g_A*

Probab=98.48  E-value=2.1e-07  Score=75.18  Aligned_cols=82  Identities=21%  Similarity=0.206  Sum_probs=64.9

Q ss_pred             HHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC------CCceEEecccCC-cCCCC-c
Q 024350          183 KVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFE-SVPKA-D  253 (269)
Q Consensus       183 ~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~-~~P~g-D  253 (269)
                      .+++.++ .....+|+|||||+|.++..+++.  +.+++++|. |..++.+++.      ++++++.+|+.+ +.+.. |
T Consensus        23 ~l~~~~~-~~~~~~vLdiG~G~G~~~~~l~~~--~~~v~~vD~s~~~~~~a~~~~~~~~~~~~~~~~~d~~~~~~~~~~D   99 (199)
T 2xvm_A           23 EVLEAVK-VVKPGKTLDLGCGNGRNSLYLAAN--GYDVDAWDKNAMSIANVERIKSIENLDNLHTRVVDLNNLTFDRQYD   99 (199)
T ss_dssp             HHHHHTT-TSCSCEEEEETCTTSHHHHHHHHT--TCEEEEEESCHHHHHHHHHHHHHHTCTTEEEEECCGGGCCCCCCEE
T ss_pred             HHHHHhh-ccCCCeEEEEcCCCCHHHHHHHHC--CCeEEEEECCHHHHHHHHHHHHhCCCCCcEEEEcchhhCCCCCCce
Confidence            3445555 445579999999999999999988  678999998 7778776542      479999999987 44444 9


Q ss_pred             EEEeccccccCCCC
Q 024350          254 TIFMKVICVCYLNS  267 (269)
Q Consensus       254 ~~~l~~iLhd~~d~  267 (269)
                      +++...++|.++++
T Consensus       100 ~v~~~~~l~~~~~~  113 (199)
T 2xvm_A          100 FILSTVVLMFLEAK  113 (199)
T ss_dssp             EEEEESCGGGSCGG
T ss_pred             EEEEcchhhhCCHH
Confidence            99999999988743

>3bkx_A SAM-dependent methyltransferase; YP_807781.1, cyclopropane-fatty-acyl-phospholipid synthase-L protein, methyltransferase domain; 1.85A {Lactobacillus casei}

Probab=98.48  E-value=1.6e-07  Score=80.18  Aligned_cols=84  Identities=11%  Similarity=0.161  Sum_probs=65.8

Q ss_pred             HHHHhccCCCCccEEEEeCCCchHHHHHHHHHC-CCCeEEEeehhH-------HHHhCCCC-------CCceEEecc-cC
Q 024350          183 KVLESYKGFEHVKKLVDVGGGLGATLNMIISKY-PHIKGINYDLLY-------VIKNAPSY-------PGIDHVGGD-LF  246 (269)
Q Consensus       183 ~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~-P~l~~vv~Dlp~-------vv~~a~~~-------~ri~~~~gD-~~  246 (269)
                      .+++.++ .....+|||||||+|.++..+++++ |+.+++++|+.+       .++.+++.       ++|+++.+| +.
T Consensus        34 ~l~~~~~-~~~~~~vLDiGcG~G~~~~~l~~~~g~~~~v~gvD~s~~~~~~~~~~~~a~~~~~~~~~~~~v~~~~~d~~~  112 (275)
T 3bkx_A           34 AIAEAWQ-VKPGEKILEIGCGQGDLSAVLADQVGSSGHVTGIDIASPDYGAPLTLGQAWNHLLAGPLGDRLTVHFNTNLS  112 (275)
T ss_dssp             HHHHHHT-CCTTCEEEEESCTTSHHHHHHHHHHCTTCEEEEECSSCTTCCSSSCHHHHHHHHHTSTTGGGEEEECSCCTT
T ss_pred             HHHHHcC-CCCCCEEEEeCCCCCHHHHHHHHHhCCCCEEEEEECCccccccHHHHHHHHHHHHhcCCCCceEEEECChhh
Confidence            4556666 6667899999999999999999996 889999999843       56555431       689999998 65


Q ss_pred             C-c--CCC-C-cEEEeccccccCCCC
Q 024350          247 E-S--VPK-A-DTIFMKVICVCYLNS  267 (269)
Q Consensus       247 ~-~--~P~-g-D~~~l~~iLhd~~d~  267 (269)
                      . .  ++. . |++++..+||.+++.
T Consensus       113 ~~~~~~~~~~fD~v~~~~~l~~~~~~  138 (275)
T 3bkx_A          113 DDLGPIADQHFDRVVLAHSLWYFASA  138 (275)
T ss_dssp             TCCGGGTTCCCSEEEEESCGGGSSCH
T ss_pred             hccCCCCCCCEEEEEEccchhhCCCH
Confidence            4 2  343 3 999999999998864

>4htf_A S-adenosylmethionine-dependent methyltransferase; structural genomics, PSI-biology, midwest center for structu genomics, MCSG; HET: MSE SAM; 1.60A {Escherichia coli}

Probab=98.46  E-value=2e-07  Score=80.21  Aligned_cols=81  Identities=19%  Similarity=0.233  Sum_probs=64.8

Q ss_pred             HHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-------CCceEEecccCC-c-CCC-
Q 024350          183 KVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-------PGIDHVGGDLFE-S-VPK-  251 (269)
Q Consensus       183 ~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~-~-~P~-  251 (269)
                      .++..++ . +..+|||||||+|.++..+++.  ..+++++|+ |..++.+++.       ++++++.+|+.+ + .+. 
T Consensus        60 ~~l~~~~-~-~~~~vLDiGcG~G~~~~~l~~~--~~~v~gvD~s~~~~~~a~~~~~~~~~~~~v~~~~~d~~~~~~~~~~  135 (285)
T 4htf_A           60 RVLAEMG-P-QKLRVLDAGGGEGQTAIKMAER--GHQVILCDLSAQMIDRAKQAAEAKGVSDNMQFIHCAAQDVASHLET  135 (285)
T ss_dssp             HHHHHTC-S-SCCEEEEETCTTCHHHHHHHHT--TCEEEEEESCHHHHHHHHHHHHC-CCGGGEEEEESCGGGTGGGCSS
T ss_pred             HHHHhcC-C-CCCEEEEeCCcchHHHHHHHHC--CCEEEEEECCHHHHHHHHHHHHhcCCCcceEEEEcCHHHhhhhcCC
Confidence            3455554 2 3579999999999999999998  678999998 7788776542       689999999988 3 443 


Q ss_pred             C-cEEEeccccccCCCC
Q 024350          252 A-DTIFMKVICVCYLNS  267 (269)
Q Consensus       252 g-D~~~l~~iLhd~~d~  267 (269)
                      . |++++..+||.++|.
T Consensus       136 ~fD~v~~~~~l~~~~~~  152 (285)
T 4htf_A          136 PVDLILFHAVLEWVADP  152 (285)
T ss_dssp             CEEEEEEESCGGGCSCH
T ss_pred             CceEEEECchhhcccCH
Confidence            4 999999999998763

>4fsd_A Arsenic methyltransferase; rossmann fold; 1.75A {Cyanidioschyzon SP} PDB: 4fr0_A* 4fs8_A 3p7e_A 3qnh_A 3qhu_A

Probab=98.46  E-value=2.4e-07  Score=83.53  Aligned_cols=75  Identities=21%  Similarity=0.333  Sum_probs=64.1

Q ss_pred             CccEEEEeCCCchHHHHHHHHHC-CCCeEEEeeh-hHHHHhCCCC--------------CCceEEecccCC-------cC
Q 024350          193 HVKKLVDVGGGLGATLNMIISKY-PHIKGINYDL-LYVIKNAPSY--------------PGIDHVGGDLFE-------SV  249 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~-P~l~~vv~Dl-p~vv~~a~~~--------------~ri~~~~gD~~~-------~~  249 (269)
                      ...+|||||||+|.++..+++.+ |+.+++++|+ |..++.+++.              ++|+++.+|+.+       ++
T Consensus        83 ~~~~VLDlGcG~G~~~~~la~~~~~~~~v~gvD~s~~~l~~a~~~~~~~~~~~~g~~~~~~v~~~~~d~~~l~~~~~~~~  162 (383)
T 4fsd_A           83 EGATVLDLGCGTGRDVYLASKLVGEHGKVIGVDMLDNQLEVARKYVEYHAEKFFGSPSRSNVRFLKGFIENLATAEPEGV  162 (383)
T ss_dssp             TTCEEEEESCTTSHHHHHHHHHHTTTCEEEEEECCHHHHHHHHHTHHHHHHHHHSSTTCCCEEEEESCTTCGGGCBSCCC
T ss_pred             CCCEEEEecCccCHHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHHHHhhhhcccccCCCceEEEEccHHHhhhcccCCC
Confidence            45799999999999999999997 8999999998 7788776643              689999999987       45


Q ss_pred             CC-C-cEEEeccccccCCCC
Q 024350          250 PK-A-DTIFMKVICVCYLNS  267 (269)
Q Consensus       250 P~-g-D~~~l~~iLhd~~d~  267 (269)
                      |. . |+++...+||.++|.
T Consensus       163 ~~~~fD~V~~~~~l~~~~d~  182 (383)
T 4fsd_A          163 PDSSVDIVISNCVCNLSTNK  182 (383)
T ss_dssp             CTTCEEEEEEESCGGGCSCH
T ss_pred             CCCCEEEEEEccchhcCCCH
Confidence            54 3 999999999998763

>3g07_A 7SK snRNA methylphosphate capping enzyme; structural genomics consortium (SGC), methyltransferase, phosphoprotein, S-adenosyl-L-methionine; HET: SAM; 2.65A {Homo sapiens}

Probab=98.45  E-value=2.5e-07  Score=80.26  Aligned_cols=41  Identities=20%  Similarity=0.306  Sum_probs=36.5

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCC
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAP  233 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~  233 (269)
                      ...+|||||||+|.++..+++++|..+++++|+ |.+++.|+
T Consensus        46 ~~~~VLDiGCG~G~~~~~la~~~~~~~v~gvDis~~~i~~A~   87 (292)
T 3g07_A           46 RGRDVLDLGCNVGHLTLSIACKWGPSRMVGLDIDSRLIHSAR   87 (292)
T ss_dssp             TTSEEEEESCTTCHHHHHHHHHTCCSEEEEEESCHHHHHHHH
T ss_pred             CCCcEEEeCCCCCHHHHHHHHHcCCCEEEEECCCHHHHHHHH
Confidence            458999999999999999999999999999998 77776654

>3e05_A Precorrin-6Y C5,15-methyltransferase (decarboxyla; porphyrin metabolism, S-adenosyl-methionine; 1.80A {Geobacter metallireducens} SCOP: c.66.1.0

Probab=98.44  E-value=5.2e-07  Score=73.65  Aligned_cols=80  Identities=11%  Similarity=0.047  Sum_probs=65.2

Q ss_pred             HHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC------CCceEEecccCCcCC--CC-
Q 024350          183 KVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFESVP--KA-  252 (269)
Q Consensus       183 ~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~~~P--~g-  252 (269)
                      .++..++ .....+|+|||||+|.++..+++.+|+.+++.+|. |..++.+++.      ++++++.+|+.+..+  .. 
T Consensus        31 ~~l~~l~-~~~~~~vLDiG~G~G~~~~~la~~~~~~~v~~vD~s~~~~~~a~~~~~~~~~~~v~~~~~d~~~~~~~~~~~  109 (204)
T 3e05_A           31 VTLSKLR-LQDDLVMWDIGAGSASVSIEASNLMPNGRIFALERNPQYLGFIRDNLKKFVARNVTLVEAFAPEGLDDLPDP  109 (204)
T ss_dssp             HHHHHTT-CCTTCEEEEETCTTCHHHHHHHHHCTTSEEEEEECCHHHHHHHHHHHHHHTCTTEEEEECCTTTTCTTSCCC
T ss_pred             HHHHHcC-CCCCCEEEEECCCCCHHHHHHHHHCCCCEEEEEeCCHHHHHHHHHHHHHhCCCcEEEEeCChhhhhhcCCCC
Confidence            3455555 56678999999999999999999999999999998 8888777642      789999999987544  23 


Q ss_pred             cEEEecccccc
Q 024350          253 DTIFMKVICVC  263 (269)
Q Consensus       253 D~~~l~~iLhd  263 (269)
                      |++++...+++
T Consensus       110 D~i~~~~~~~~  120 (204)
T 3e05_A          110 DRVFIGGSGGM  120 (204)
T ss_dssp             SEEEESCCTTC
T ss_pred             CEEEECCCCcC
Confidence            99998877663

>3i9f_A Putative type 11 methyltransferase; structural genomics, PSI-2, protein structure initiative; 2.50A {Sulfolobus solfataricus}

Probab=98.44  E-value=8.4e-08  Score=75.92  Aligned_cols=77  Identities=16%  Similarity=0.172  Sum_probs=63.4

Q ss_pred             HHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC-CCCceEEecccCCcCCC-C-cEEEeccc
Q 024350          185 LESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS-YPGIDHVGGDLFESVPK-A-DTIFMKVI  260 (269)
Q Consensus       185 ~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~-~~ri~~~~gD~~~~~P~-g-D~~~l~~i  260 (269)
                      ++.++ .....+|||||||+|.++..++++..  +++++|+ |..++.+++ .++|+++.+|  .+++. . |++++..+
T Consensus        10 ~~~~~-~~~~~~vLDiG~G~G~~~~~l~~~~~--~v~~vD~s~~~~~~a~~~~~~v~~~~~d--~~~~~~~~D~v~~~~~   84 (170)
T 3i9f_A           10 LPNIF-EGKKGVIVDYGCGNGFYCKYLLEFAT--KLYCIDINVIALKEVKEKFDSVITLSDP--KEIPDNSVDFILFANS   84 (170)
T ss_dssp             HHHHH-SSCCEEEEEETCTTCTTHHHHHTTEE--EEEEECSCHHHHHHHHHHCTTSEEESSG--GGSCTTCEEEEEEESC
T ss_pred             HHhcC-cCCCCeEEEECCCCCHHHHHHHhhcC--eEEEEeCCHHHHHHHHHhCCCcEEEeCC--CCCCCCceEEEEEccc
Confidence            44445 55678999999999999999999984  8899997 777777665 5899999999  45564 3 99999999


Q ss_pred             cccCCC
Q 024350          261 CVCYLN  266 (269)
Q Consensus       261 Lhd~~d  266 (269)
                      +|.+++
T Consensus        85 l~~~~~   90 (170)
T 3i9f_A           85 FHDMDD   90 (170)
T ss_dssp             STTCSC
T ss_pred             hhcccC
Confidence            999865

>3fzg_A 16S rRNA methylase; methyltransferase, plasmid, transferase; HET: SAM; 2.00A {Escherichia coli}

Probab=98.43  E-value=3.7e-08  Score=80.04  Aligned_cols=73  Identities=19%  Similarity=0.159  Sum_probs=59.6

Q ss_pred             CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-------CCceEEecccCCcCCC-C-cEEEecccc
Q 024350          192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-------PGIDHVGGDLFESVPK-A-DTIFMKVIC  261 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~~~P~-g-D~~~l~~iL  261 (269)
                      ....+|+|||||.|.++..++...|+.+.+..|+ +..++.+++.       .++++  .|+.+..|. . |++++-++|
T Consensus        48 ~~~~~VLDlGCG~GplAl~l~~~~p~a~~~A~Di~~~~leiar~~~~~~g~~~~v~~--~d~~~~~~~~~~DvVLa~k~L  125 (200)
T 3fzg_A           48 KHVSSILDFGCGFNPLALYQWNENEKIIYHAYDIDRAEIAFLSSIIGKLKTTIKYRF--LNKESDVYKGTYDVVFLLKML  125 (200)
T ss_dssp             CCCSEEEEETCTTHHHHHHHHCSSCCCEEEEECSCHHHHHHHHHHHHHSCCSSEEEE--ECCHHHHTTSEEEEEEEETCH
T ss_pred             CCCCeEEEecCCCCHHHHHHHhcCCCCEEEEEeCCHHHHHHHHHHHHhcCCCccEEE--ecccccCCCCCcChhhHhhHH
Confidence            4578999999999999999999999999999997 7788777642       25665  777765454 3 999999999


Q ss_pred             ccCCC
Q 024350          262 VCYLN  266 (269)
Q Consensus       262 hd~~d  266 (269)
                      |..++
T Consensus       126 HlL~~  130 (200)
T 3fzg_A          126 PVLKQ  130 (200)
T ss_dssp             HHHHH
T ss_pred             Hhhhh
Confidence            98743

>1jg1_A PIMT;, protein-L-isoaspartate O-methyltransferase; rossmann methyltransferase, protein repair isomerization; HET: SAH; 1.20A {Pyrococcus furiosus} SCOP: c.66.1.7 PDB: 1jg2_A* 1jg3_A* 1jg4_A*

Probab=98.43  E-value=1.4e-07  Score=78.93  Aligned_cols=83  Identities=17%  Similarity=0.149  Sum_probs=66.4

Q ss_pred             HHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC------CCceEEecccCCcCCC-C-
Q 024350          182 EKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFESVPK-A-  252 (269)
Q Consensus       182 ~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~~~P~-g-  252 (269)
                      ..+++.++ .....+|||||||+|.++..+++..| .+++++|+ |..++.+++.      ++++++.+|+..++|. + 
T Consensus        81 ~~~~~~l~-~~~~~~vLdiG~G~G~~~~~la~~~~-~~v~~vD~~~~~~~~a~~~~~~~~~~~v~~~~~d~~~~~~~~~~  158 (235)
T 1jg1_A           81 AIMLEIAN-LKPGMNILEVGTGSGWNAALISEIVK-TDVYTIERIPELVEFAKRNLERAGVKNVHVILGDGSKGFPPKAP  158 (235)
T ss_dssp             HHHHHHHT-CCTTCCEEEECCTTSHHHHHHHHHHC-SCEEEEESCHHHHHHHHHHHHHTTCCSEEEEESCGGGCCGGGCC
T ss_pred             HHHHHhcC-CCCCCEEEEEeCCcCHHHHHHHHHhC-CEEEEEeCCHHHHHHHHHHHHHcCCCCcEEEECCcccCCCCCCC
Confidence            34555555 56667999999999999999999998 88999995 7777766542      5699999998666663 3 


Q ss_pred             -cEEEeccccccCCC
Q 024350          253 -DTIFMKVICVCYLN  266 (269)
Q Consensus       253 -D~~~l~~iLhd~~d  266 (269)
                       |++++...+|.+++
T Consensus       159 fD~Ii~~~~~~~~~~  173 (235)
T 1jg1_A          159 YDVIIVTAGAPKIPE  173 (235)
T ss_dssp             EEEEEECSBBSSCCH
T ss_pred             ccEEEECCcHHHHHH
Confidence             99999999987753

>3cgg_A SAM-dependent methyltransferase; NP_600671.1, methyltransferase domain, structural genomics; HET: NHE CIT; 2.00A {Corynebacterium glutamicum atcc 13032}

Probab=98.42  E-value=3e-07  Score=73.81  Aligned_cols=80  Identities=20%  Similarity=0.248  Sum_probs=63.3

Q ss_pred             HHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-CCceEEecccCC-cCCC-C-cEEEe
Q 024350          183 KVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-PGIDHVGGDLFE-SVPK-A-DTIFM  257 (269)
Q Consensus       183 ~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-~ri~~~~gD~~~-~~P~-g-D~~~l  257 (269)
                      .++..+.  +...+|+|||||.|.++..+++.  +.+++++|. |..++.+++. ++++++.+|+.+ +.|. . |++++
T Consensus        38 ~~l~~~~--~~~~~vLdiG~G~G~~~~~l~~~--~~~v~~~D~~~~~~~~a~~~~~~~~~~~~d~~~~~~~~~~~D~i~~  113 (195)
T 3cgg_A           38 RLIDAMA--PRGAKILDAGCGQGRIGGYLSKQ--GHDVLGTDLDPILIDYAKQDFPEARWVVGDLSVDQISETDFDLIVS  113 (195)
T ss_dssp             HHHHHHS--CTTCEEEEETCTTTHHHHHHHHT--TCEEEEEESCHHHHHHHHHHCTTSEEEECCTTTSCCCCCCEEEEEE
T ss_pred             HHHHHhc--cCCCeEEEECCCCCHHHHHHHHC--CCcEEEEcCCHHHHHHHHHhCCCCcEEEcccccCCCCCCceeEEEE
Confidence            3455442  45679999999999999999988  568899997 7777776653 689999999998 5664 4 99999


Q ss_pred             c-cccccCCC
Q 024350          258 K-VICVCYLN  266 (269)
Q Consensus       258 ~-~iLhd~~d  266 (269)
                      . .++|.+++
T Consensus       114 ~~~~~~~~~~  123 (195)
T 3cgg_A          114 AGNVMGFLAE  123 (195)
T ss_dssp             CCCCGGGSCH
T ss_pred             CCcHHhhcCh
Confidence            8 88887653

>3ofk_A Nodulation protein S; NODS, N-methyltransferase, SAH, SAM, NOD factor, fixation, symbiosis, alpha/beta structure; HET: SAH; 1.85A {Bradyrhizobium SP} PDB: 3ofj_A*

Probab=98.41  E-value=3.6e-07  Score=75.14  Aligned_cols=75  Identities=15%  Similarity=0.133  Sum_probs=61.5

Q ss_pred             CCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC----CCCceEEecccCCcCCC-C-cEEEecccccc
Q 024350          191 FEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS----YPGIDHVGGDLFESVPK-A-DTIFMKVICVC  263 (269)
Q Consensus       191 ~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~----~~ri~~~~gD~~~~~P~-g-D~~~l~~iLhd  263 (269)
                      .....+|||||||+|.++..+++..  .+++++|+ |..++.+++    .++++++.+|+.+..|. . |++++..+||.
T Consensus        49 ~~~~~~vLDiGcG~G~~~~~l~~~~--~~v~~vD~s~~~~~~a~~~~~~~~~~~~~~~d~~~~~~~~~fD~v~~~~~l~~  126 (216)
T 3ofk_A           49 SGAVSNGLEIGCAAGAFTEKLAPHC--KRLTVIDVMPRAIGRACQRTKRWSHISWAATDILQFSTAELFDLIVVAEVLYY  126 (216)
T ss_dssp             TSSEEEEEEECCTTSHHHHHHGGGE--EEEEEEESCHHHHHHHHHHTTTCSSEEEEECCTTTCCCSCCEEEEEEESCGGG
T ss_pred             cCCCCcEEEEcCCCCHHHHHHHHcC--CEEEEEECCHHHHHHHHHhcccCCCeEEEEcchhhCCCCCCccEEEEccHHHh
Confidence            4456899999999999999999986  47899997 777766543    36899999999884353 4 99999999999


Q ss_pred             CCCC
Q 024350          264 YLNS  267 (269)
Q Consensus       264 ~~d~  267 (269)
                      +++.
T Consensus       127 ~~~~  130 (216)
T 3ofk_A          127 LEDM  130 (216)
T ss_dssp             SSSH
T ss_pred             CCCH
Confidence            9863

>3hm2_A Precorrin-6Y C5,15-methyltransferase; alpha-beta-sandwich, structural genomics, PSI-2, protein structure initiative; 2.21A {Corynebacterium diphtheriae}

Probab=98.41  E-value=3.3e-07  Score=72.75  Aligned_cols=78  Identities=17%  Similarity=0.190  Sum_probs=61.5

Q ss_pred             HHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC------C-CCceEEecccCCcCCC---C
Q 024350          184 VLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS------Y-PGIDHVGGDLFESVPK---A  252 (269)
Q Consensus       184 ~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~------~-~ri~~~~gD~~~~~P~---g  252 (269)
                      ++..++ .....+|+|||||+|.++..+++.+|..+++++|+ |..++.+++      . +++ ++.+|..+.+|.   .
T Consensus        17 ~~~~~~-~~~~~~vldiG~G~G~~~~~l~~~~~~~~v~~vD~~~~~~~~a~~~~~~~~~~~~~-~~~~d~~~~~~~~~~~   94 (178)
T 3hm2_A           17 AISALA-PKPHETLWDIGGGSGSIAIEWLRSTPQTTAVCFEISEERRERILSNAINLGVSDRI-AVQQGAPRAFDDVPDN   94 (178)
T ss_dssp             HHHHHC-CCTTEEEEEESTTTTHHHHHHHTTSSSEEEEEECSCHHHHHHHHHHHHTTTCTTSE-EEECCTTGGGGGCCSC
T ss_pred             HHHHhc-ccCCCeEEEeCCCCCHHHHHHHHHCCCCeEEEEeCCHHHHHHHHHHHHHhCCCCCE-EEecchHhhhhccCCC
Confidence            444555 55668999999999999999999999999999998 677776653      1 378 888998775552   3


Q ss_pred             -cEEEecccccc
Q 024350          253 -DTIFMKVICVC  263 (269)
Q Consensus       253 -D~~~l~~iLhd  263 (269)
                       |++++...+|.
T Consensus        95 ~D~i~~~~~~~~  106 (178)
T 3hm2_A           95 PDVIFIGGGLTA  106 (178)
T ss_dssp             CSEEEECC-TTC
T ss_pred             CCEEEECCcccH
Confidence             99999998876

>3q87_B N6 adenine specific DNA methylase; SAM-methyltransferase, methyltransferase, methylation, trans activator-transferase complex; HET: SAM; 2.00A {Encephalitozoon cuniculi}

Probab=98.41  E-value=7.9e-07  Score=70.80  Aligned_cols=68  Identities=19%  Similarity=0.289  Sum_probs=58.1

Q ss_pred             ccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCCCCceEEecccCCcCCC-C-cEEEeccccccCCCC
Q 024350          194 VKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSYPGIDHVGGDLFESVPK-A-DTIFMKVICVCYLNS  267 (269)
Q Consensus       194 ~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~~ri~~~~gD~~~~~P~-g-D~~~l~~iLhd~~d~  267 (269)
                      ..+|+|||||+|.++..++++.   +++.+|+ |..++.   .++++++.+|++++.+. . |+++..-.+|..++.
T Consensus        24 ~~~vLD~GcG~G~~~~~l~~~~---~v~gvD~s~~~~~~---~~~~~~~~~d~~~~~~~~~fD~i~~n~~~~~~~~~   94 (170)
T 3q87_B           24 MKIVLDLGTSTGVITEQLRKRN---TVVSTDLNIRALES---HRGGNLVRADLLCSINQESVDVVVFNPPYVPDTDD   94 (170)
T ss_dssp             SCEEEEETCTTCHHHHHHTTTS---EEEEEESCHHHHHT---CSSSCEEECSTTTTBCGGGCSEEEECCCCBTTCCC
T ss_pred             CCeEEEeccCccHHHHHHHhcC---cEEEEECCHHHHhc---ccCCeEEECChhhhcccCCCCEEEECCCCccCCcc
Confidence            4699999999999999999988   8999998 677766   67899999999997774 3 999998888876654

>3pfg_A N-methyltransferase; N,N-dimethyltransferase, SAM binding, DTDP-linked sugar BIND transferase; HET: SAM TLO; 1.35A {Streptomyces fradiae} PDB: 3pfh_A* 3px3_A* 3px2_A*

Probab=98.41  E-value=6.3e-07  Score=76.06  Aligned_cols=73  Identities=16%  Similarity=0.180  Sum_probs=60.8

Q ss_pred             CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC-CCCceEEecccCC-cCCCC-cEEEecc-ccccCCC
Q 024350          192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS-YPGIDHVGGDLFE-SVPKA-DTIFMKV-ICVCYLN  266 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~-~~ri~~~~gD~~~-~~P~g-D~~~l~~-iLhd~~d  266 (269)
                      ++..+|||||||+|.++..++++.+  +++++|+ |.+++.+++ .++|+++.+|+.+ +.+.. |++++.. +||.+++
T Consensus        49 ~~~~~vLDiGcG~G~~~~~l~~~~~--~v~gvD~s~~~~~~a~~~~~~~~~~~~d~~~~~~~~~fD~v~~~~~~l~~~~~  126 (263)
T 3pfg_A           49 PKAASLLDVACGTGMHLRHLADSFG--TVEGLELSADMLAIARRRNPDAVLHHGDMRDFSLGRRFSAVTCMFSSIGHLAG  126 (263)
T ss_dssp             TTCCEEEEETCTTSHHHHHHTTTSS--EEEEEESCHHHHHHHHHHCTTSEEEECCTTTCCCSCCEEEEEECTTGGGGSCH
T ss_pred             CCCCcEEEeCCcCCHHHHHHHHcCC--eEEEEECCHHHHHHHHhhCCCCEEEECChHHCCccCCcCEEEEcCchhhhcCC
Confidence            3558999999999999999999865  6899998 888887765 3799999999988 45444 9999997 9998753

>2fk8_A Methoxy mycolic acid synthase 4; S-adenosylmethionine-dependent methyltransferase fold, trans; HET: SAM; 2.00A {Mycobacterium tuberculosis} SCOP: c.66.1.18 PDB: 2fk7_A* 3ha3_A* 3ha5_A* 3ha7_A*

Probab=98.40  E-value=4.3e-07  Score=79.37  Aligned_cols=82  Identities=13%  Similarity=0.176  Sum_probs=65.8

Q ss_pred             HHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-------CCceEEecccCCcCCCC-
Q 024350          182 EKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-------PGIDHVGGDLFESVPKA-  252 (269)
Q Consensus       182 ~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~~~P~g-  252 (269)
                      ..+++.++ .....+|||||||.|.++..+++++ +.+++++|+ |..++.+++.       ++|+++.+|+.+ +|.. 
T Consensus        80 ~~~~~~~~-~~~~~~vLDiGcG~G~~~~~la~~~-~~~v~gvD~s~~~~~~a~~~~~~~~~~~~v~~~~~d~~~-~~~~f  156 (318)
T 2fk8_A           80 DLNLDKLD-LKPGMTLLDIGCGWGTTMRRAVERF-DVNVIGLTLSKNQHARCEQVLASIDTNRSRQVLLQGWED-FAEPV  156 (318)
T ss_dssp             HHHHTTSC-CCTTCEEEEESCTTSHHHHHHHHHH-CCEEEEEESCHHHHHHHHHHHHTSCCSSCEEEEESCGGG-CCCCC
T ss_pred             HHHHHhcC-CCCcCEEEEEcccchHHHHHHHHHC-CCEEEEEECCHHHHHHHHHHHHhcCCCCceEEEECChHH-CCCCc
Confidence            34556555 5566899999999999999999987 569999998 7777766542       679999999865 4544 


Q ss_pred             cEEEeccccccCCC
Q 024350          253 DTIFMKVICVCYLN  266 (269)
Q Consensus       253 D~~~l~~iLhd~~d  266 (269)
                      |+++...+||.+++
T Consensus       157 D~v~~~~~l~~~~~  170 (318)
T 2fk8_A          157 DRIVSIEAFEHFGH  170 (318)
T ss_dssp             SEEEEESCGGGTCG
T ss_pred             CEEEEeChHHhcCH
Confidence            99999999999864

>3lcc_A Putative methyl chloride transferase; halide methyltransferase; HET: SAH; 1.80A {Arabidopsis thaliana}

Probab=98.38  E-value=2.1e-07  Score=77.74  Aligned_cols=71  Identities=21%  Similarity=0.206  Sum_probs=58.9

Q ss_pred             cEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-------CCceEEecccCCcCCC-C-cEEEeccccccC
Q 024350          195 KKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-------PGIDHVGGDLFESVPK-A-DTIFMKVICVCY  264 (269)
Q Consensus       195 ~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~~~P~-g-D~~~l~~iLhd~  264 (269)
                      .+|||||||+|.++..+++  +..+++++|+ |..++.+++.       .+|+++.+|+.+..|. . |+++...+||.+
T Consensus        68 ~~vLDiGcG~G~~~~~l~~--~~~~v~gvD~s~~~~~~a~~~~~~~~~~~~v~~~~~d~~~~~~~~~fD~v~~~~~l~~~  145 (235)
T 3lcc_A           68 GRALVPGCGGGHDVVAMAS--PERFVVGLDISESALAKANETYGSSPKAEYFSFVKEDVFTWRPTELFDLIFDYVFFCAI  145 (235)
T ss_dssp             EEEEEETCTTCHHHHHHCB--TTEEEEEECSCHHHHHHHHHHHTTSGGGGGEEEECCCTTTCCCSSCEEEEEEESSTTTS
T ss_pred             CCEEEeCCCCCHHHHHHHh--CCCeEEEEECCHHHHHHHHHHhhccCCCcceEEEECchhcCCCCCCeeEEEEChhhhcC
Confidence            5999999999999999976  6778999997 7777766542       5699999999984454 4 999999999998


Q ss_pred             CCC
Q 024350          265 LNS  267 (269)
Q Consensus       265 ~d~  267 (269)
                      +++
T Consensus       146 ~~~  148 (235)
T 3lcc_A          146 EPE  148 (235)
T ss_dssp             CGG
T ss_pred             CHH
Confidence            743

>3b3j_A Histone-arginine methyltransferase CARM1; protein arginine methyltransferase 4, APO catalytic domain, regulator, mRNA processing; 2.55A {Rattus norvegicus}

Probab=98.38  E-value=3.4e-07  Score=84.99  Aligned_cols=84  Identities=20%  Similarity=0.159  Sum_probs=65.4

Q ss_pred             HHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeehhHHHHhCCC-------CCCceEEecccCC-cCCCC-
Q 024350          182 EKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPS-------YPGIDHVGGDLFE-SVPKA-  252 (269)
Q Consensus       182 ~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp~vv~~a~~-------~~ri~~~~gD~~~-~~P~g-  252 (269)
                      ..+++.++ .....+|+|||||+|.++..+++ .|..+++++|+.++++.+++       .++|+++.+|+.+ +.|.. 
T Consensus       148 ~~il~~l~-~~~~~~VLDiGcGtG~la~~la~-~~~~~V~gvD~s~~l~~A~~~~~~~gl~~~v~~~~~d~~~~~~~~~f  225 (480)
T 3b3j_A          148 RAILQNHT-DFKDKIVLDVGCGSGILSFFAAQ-AGARKIYAVEASTMAQHAEVLVKSNNLTDRIVVIPGKVEEVSLPEQV  225 (480)
T ss_dssp             HHHHHTGG-GTTTCEEEEESCSTTHHHHHHHH-TTCSEEEEEECHHHHHHHHHHHHHTTCTTTEEEEESCTTTCCCSSCE
T ss_pred             HHHHHhhh-hcCCCEEEEecCcccHHHHHHHH-cCCCEEEEEEcHHHHHHHHHHHHHcCCCCcEEEEECchhhCccCCCe
Confidence            34555555 44567999999999999998887 68889999999777665543       1789999999998 66755 


Q ss_pred             cEEEeccccccCCCC
Q 024350          253 DTIFMKVICVCYLNS  267 (269)
Q Consensus       253 D~~~l~~iLhd~~d~  267 (269)
                      |+|+...++|.|.++
T Consensus       226 D~Ivs~~~~~~~~~e  240 (480)
T 3b3j_A          226 DIIISEPMGYMLFNE  240 (480)
T ss_dssp             EEEECCCCHHHHTCH
T ss_pred             EEEEEeCchHhcCcH
Confidence            999998777766543

>3sm3_A SAM-dependent methyltransferases; NESG, structural genomics, PSI-biology, protein structure in northeast structural genomics; 2.20A {Methanosarcina mazei}

Probab=98.35  E-value=7.1e-07  Score=73.89  Aligned_cols=74  Identities=16%  Similarity=0.141  Sum_probs=60.9

Q ss_pred             CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-----------CCceEEecccCC-cCCC-C-cEEE
Q 024350          192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-----------PGIDHVGGDLFE-SVPK-A-DTIF  256 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-----------~ri~~~~gD~~~-~~P~-g-D~~~  256 (269)
                      +...+|||||||+|.++..++++  +.+++++|+ |..++.+++.           ++++++.+|+.+ +++. . |+++
T Consensus        29 ~~~~~vLdiG~G~G~~~~~l~~~--~~~v~~vD~s~~~~~~a~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~D~v~  106 (235)
T 3sm3_A           29 QEDDEILDIGCGSGKISLELASK--GYSVTGIDINSEAIRLAETAARSPGLNQKTGGKAEFKVENASSLSFHDSSFDFAV  106 (235)
T ss_dssp             CTTCEEEEETCTTSHHHHHHHHT--TCEEEEEESCHHHHHHHHHHTTCCSCCSSSSCEEEEEECCTTSCCSCTTCEEEEE
T ss_pred             CCCCeEEEECCCCCHHHHHHHhC--CCeEEEEECCHHHHHHHHHHHHhcCCccccCcceEEEEecccccCCCCCceeEEE
Confidence            35679999999999999999998  678999997 7777665431           368999999988 6664 3 9999


Q ss_pred             eccccccCCCC
Q 024350          257 MKVICVCYLNS  267 (269)
Q Consensus       257 l~~iLhd~~d~  267 (269)
                      +..+||.+++.
T Consensus       107 ~~~~l~~~~~~  117 (235)
T 3sm3_A          107 MQAFLTSVPDP  117 (235)
T ss_dssp             EESCGGGCCCH
T ss_pred             EcchhhcCCCH
Confidence            99999999864

>3uwp_A Histone-lysine N-methyltransferase, H3 lysine-79; epigenetics, tubercidin, structu genomics, structural genomics consortium, SGC; HET: 5ID; 2.05A {Homo sapiens} PDB: 4eqz_A* 3sx0_A* 4er0_A* 4er7_A* 1nw3_A* 4er6_A* 4er5_A* 3qow_A* 3qox_A* 4ek9_A* 4ekg_A* 4eki_A* 4er3_A* 3sr4_A*

Probab=98.35  E-value=6e-07  Score=81.22  Aligned_cols=80  Identities=15%  Similarity=0.218  Sum_probs=62.8

Q ss_pred             HHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC---------------CCCceEEeccc
Q 024350          182 EKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS---------------YPGIDHVGGDL  245 (269)
Q Consensus       182 ~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~---------------~~ri~~~~gD~  245 (269)
                      ..+++.+. +....+|+|||||+|..+..++..++.-+++++|+ |..++.|++               .++|+++.||+
T Consensus       163 ~~il~~l~-l~~gd~VLDLGCGtG~l~l~lA~~~g~~kVvGIDiS~~~lelAr~n~e~frkr~~~~Gl~~~rVefi~GD~  241 (438)
T 3uwp_A          163 AQMIDEIK-MTDDDLFVDLGSGVGQVVLQVAAATNCKHHYGVEKADIPAKYAETMDREFRKWMKWYGKKHAEYTLERGDF  241 (438)
T ss_dssp             HHHHHHHC-CCTTCEEEEESCTTSHHHHHHHHHCCCSEEEEEECCHHHHHHHHHHHHHHHHHHHHHTBCCCEEEEEECCT
T ss_pred             HHHHHhcC-CCCCCEEEEeCCCCCHHHHHHHHHCCCCEEEEEeCCHHHHHHHHHHHHHHHHHHHHhCCCCCCeEEEECcc
Confidence            34556666 66678999999999999999999988777999998 555554432               26899999999


Q ss_pred             CC-cCC----CCcEEEeccccc
Q 024350          246 FE-SVP----KADTIFMKVICV  262 (269)
Q Consensus       246 ~~-~~P----~gD~~~l~~iLh  262 (269)
                      ++ +++    ..|++++.+++|
T Consensus       242 ~~lp~~d~~~~aDVVf~Nn~~F  263 (438)
T 3uwp_A          242 LSEEWRERIANTSVIFVNNFAF  263 (438)
T ss_dssp             TSHHHHHHHHTCSEEEECCTTC
T ss_pred             cCCccccccCCccEEEEccccc
Confidence            98 553    359999988775

>1yb2_A Hypothetical protein TA0852; structural genomics, methyltransferase, thermoplasma acidoph midwest center for structural genomics, MCSG; 2.01A {Thermoplasma acidophilum} SCOP: c.66.1.13

Probab=98.35  E-value=5.7e-07  Score=77.23  Aligned_cols=74  Identities=12%  Similarity=0.117  Sum_probs=57.8

Q ss_pred             HHHHhccCCCCccEEEEeCCCchHHHHHHHHH-CCCCeEEEeeh-hHHHHhCCC-------CCCceEEecccCCcCCC-C
Q 024350          183 KVLESYKGFEHVKKLVDVGGGLGATLNMIISK-YPHIKGINYDL-LYVIKNAPS-------YPGIDHVGGDLFESVPK-A  252 (269)
Q Consensus       183 ~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~-~P~l~~vv~Dl-p~vv~~a~~-------~~ri~~~~gD~~~~~P~-g  252 (269)
                      .++..++ +....+|+|||||+|.++..+++. +|..+++++|+ |..++.+++       .++++++.+|+.+++|. .
T Consensus       101 ~~~~~~~-~~~~~~VLD~G~G~G~~~~~la~~~~~~~~v~~vD~s~~~~~~a~~~~~~~~g~~~v~~~~~d~~~~~~~~~  179 (275)
T 1yb2_A          101 YIIMRCG-LRPGMDILEVGVGSGNMSSYILYALNGKGTLTVVERDEDNLKKAMDNLSEFYDIGNVRTSRSDIADFISDQM  179 (275)
T ss_dssp             -----CC-CCTTCEEEEECCTTSHHHHHHHHHHTTSSEEEEECSCHHHHHHHHHHHHTTSCCTTEEEECSCTTTCCCSCC
T ss_pred             HHHHHcC-CCCcCEEEEecCCCCHHHHHHHHHcCCCCEEEEEECCHHHHHHHHHHHHhcCCCCcEEEEECchhccCcCCC
Confidence            3445555 566789999999999999999998 89999999998 777776543       25899999999987774 3


Q ss_pred             -cEEEe
Q 024350          253 -DTIFM  257 (269)
Q Consensus       253 -D~~~l  257 (269)
                       |++++
T Consensus       180 fD~Vi~  185 (275)
T 1yb2_A          180 YDAVIA  185 (275)
T ss_dssp             EEEEEE
T ss_pred             ccEEEE
Confidence             99887

>3ggd_A SAM-dependent methyltransferase; YP_325210.1, structural GEN joint center for structural genomics, JCSG; HET: SAH; 2.11A {Anabaena variabilis atcc 29413}

Probab=98.34  E-value=4.1e-07  Score=76.35  Aligned_cols=74  Identities=16%  Similarity=0.137  Sum_probs=60.8

Q ss_pred             CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC---CCCceEEecccCC-cCCC-------CcEEEecc
Q 024350          192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS---YPGIDHVGGDLFE-SVPK-------ADTIFMKV  259 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~---~~ri~~~~gD~~~-~~P~-------gD~~~l~~  259 (269)
                      ....+|||||||+|.++..+++..+  +++.+|. |.+++.+++   ..+++++.+|+.+ +.+.       .|++++..
T Consensus        55 ~~~~~vLD~GcG~G~~~~~la~~~~--~v~gvD~s~~~~~~a~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~d~v~~~~  132 (245)
T 3ggd_A           55 NPELPLIDFACGNGTQTKFLSQFFP--RVIGLDVSKSALEIAAKENTAANISYRLLDGLVPEQAAQIHSEIGDANIYMRT  132 (245)
T ss_dssp             CTTSCEEEETCTTSHHHHHHHHHSS--CEEEEESCHHHHHHHHHHSCCTTEEEEECCTTCHHHHHHHHHHHCSCEEEEES
T ss_pred             CCCCeEEEEcCCCCHHHHHHHHhCC--CEEEEECCHHHHHHHHHhCcccCceEEECcccccccccccccccCccEEEEcc
Confidence            4557899999999999999999998  7889997 777776654   3589999999998 3322       38999999


Q ss_pred             ccccCCCC
Q 024350          260 ICVCYLNS  267 (269)
Q Consensus       260 iLhd~~d~  267 (269)
                      ++|..+++
T Consensus       133 ~~~~~~~~  140 (245)
T 3ggd_A          133 GFHHIPVE  140 (245)
T ss_dssp             SSTTSCGG
T ss_pred             hhhcCCHH
Confidence            99998754

>1yzh_A TRNA (guanine-N(7)-)-methyltransferase; alpha-beta-alpha sandwich, S-adenosylmeth dependent, structural genomics, PSI; 2.02A {Streptococcus pneumoniae} SCOP: c.66.1.53

Probab=98.34  E-value=9e-07  Score=72.89  Aligned_cols=67  Identities=24%  Similarity=0.329  Sum_probs=56.0

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC------CCCceEEecccCC-c--CCC-C-cEEEecc
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS------YPGIDHVGGDLFE-S--VPK-A-DTIFMKV  259 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~------~~ri~~~~gD~~~-~--~P~-g-D~~~l~~  259 (269)
                      ...+|||||||+|.++..+++.+|+.+++++|+ |..++.+++      .++|+++.+|+.+ +  +|. . |++++..
T Consensus        41 ~~~~vLDiGcG~G~~~~~la~~~p~~~v~gvD~s~~~l~~a~~~~~~~~~~~v~~~~~d~~~~~~~~~~~~~D~i~~~~  119 (214)
T 1yzh_A           41 DNPIHVEVGSGKGAFVSGMAKQNPDINYIGIDIQKSVLSYALDKVLEVGVPNIKLLWVDGSDLTDYFEDGEIDRLYLNF  119 (214)
T ss_dssp             CCCEEEEESCTTSHHHHHHHHHCTTSEEEEEESCHHHHHHHHHHHHHHCCSSEEEEECCSSCGGGTSCTTCCSEEEEES
T ss_pred             CCCeEEEEccCcCHHHHHHHHHCCCCCEEEEEcCHHHHHHHHHHHHHcCCCCEEEEeCCHHHHHhhcCCCCCCEEEEEC
Confidence            357899999999999999999999999999997 788877654      2689999999987 3  554 3 8888763

>3cc8_A Putative methyltransferase; structural genomics, joint center for structural genomics, JCSG, protein structure initiative, PS transferase; 1.64A {Bacillus cereus}

Probab=98.33  E-value=1.1e-06  Score=72.39  Aligned_cols=81  Identities=16%  Similarity=0.147  Sum_probs=62.2

Q ss_pred             HHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCCCCceEEecccCC---cCCC-C-cEE
Q 024350          182 EKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSYPGIDHVGGDLFE---SVPK-A-DTI  255 (269)
Q Consensus       182 ~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~~ri~~~~gD~~~---~~P~-g-D~~  255 (269)
                      ..+++.++  ....+|+|||||+|.++..+++. + .+++++|. |..++.+++.- .+++.+|+.+   +++. . |++
T Consensus        23 ~~l~~~~~--~~~~~vLdiG~G~G~~~~~l~~~-~-~~~~~~D~~~~~~~~~~~~~-~~~~~~d~~~~~~~~~~~~fD~v   97 (230)
T 3cc8_A           23 PNLLKHIK--KEWKEVLDIGCSSGALGAAIKEN-G-TRVSGIEAFPEAAEQAKEKL-DHVVLGDIETMDMPYEEEQFDCV   97 (230)
T ss_dssp             HHHHTTCC--TTCSEEEEETCTTSHHHHHHHTT-T-CEEEEEESSHHHHHHHHTTS-SEEEESCTTTCCCCSCTTCEEEE
T ss_pred             HHHHHHhc--cCCCcEEEeCCCCCHHHHHHHhc-C-CeEEEEeCCHHHHHHHHHhC-CcEEEcchhhcCCCCCCCccCEE
Confidence            34555544  35679999999999999999988 5 88999997 77777665432 3788899875   3443 3 999


Q ss_pred             EeccccccCCCC
Q 024350          256 FMKVICVCYLNS  267 (269)
Q Consensus       256 ~l~~iLhd~~d~  267 (269)
                      ++.++||.+++.
T Consensus        98 ~~~~~l~~~~~~  109 (230)
T 3cc8_A           98 IFGDVLEHLFDP  109 (230)
T ss_dssp             EEESCGGGSSCH
T ss_pred             EECChhhhcCCH
Confidence            999999998763

>2b3t_A Protein methyltransferase HEMK; translation termination, methylation, conformational changes; HET: SAH; 3.10A {Escherichia coli} SCOP: c.66.1.30 PDB: 1t43_A*

Probab=98.33  E-value=1.1e-06  Score=75.34  Aligned_cols=66  Identities=21%  Similarity=0.263  Sum_probs=56.7

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC------CCceEEecccCCcCCC-C-cEEEec
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFESVPK-A-DTIFMK  258 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~~~P~-g-D~~~l~  258 (269)
                      ...+|+|||||+|..+..+++.+|+.+++.+|. |..++.++++      ++++++.+|++++.+. . |+++..
T Consensus       109 ~~~~vLDlG~GsG~~~~~la~~~~~~~v~~vD~s~~~l~~a~~n~~~~~~~~v~~~~~d~~~~~~~~~fD~Iv~n  183 (276)
T 2b3t_A          109 QPCRILDLGTGTGAIALALASERPDCEIIAVDRMPDAVSLAQRNAQHLAIKNIHILQSDWFSALAGQQFAMIVSN  183 (276)
T ss_dssp             SCCEEEEETCTTSHHHHHHHHHCTTSEEEEECSSHHHHHHHHHHHHHHTCCSEEEECCSTTGGGTTCCEEEEEEC
T ss_pred             CCCEEEEecCCccHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHHHHcCCCceEEEEcchhhhcccCCccEEEEC
Confidence            456999999999999999999999999999997 7777776642      5899999999987653 4 999987

>3e23_A Uncharacterized protein RPA2492; alpha-beta protein, structural genomics, PSI-2, protein structure initiative; HET: SAM; 1.60A {Rhodopseudomonas palustris}

Probab=98.32  E-value=7.5e-07  Score=72.96  Aligned_cols=74  Identities=12%  Similarity=0.079  Sum_probs=60.7

Q ss_pred             CCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCCCCceEEecccCC-cCCCC-cEEEeccccccCCC
Q 024350          191 FEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSYPGIDHVGGDLFE-SVPKA-DTIFMKVICVCYLN  266 (269)
Q Consensus       191 ~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~~ri~~~~gD~~~-~~P~g-D~~~l~~iLhd~~d  266 (269)
                      ++...+|||||||+|.++..++++  ..+++++|+ |..++.+++.-+++++.+|+.+ +.+.. |++++..+||.+++
T Consensus        41 ~~~~~~vLDiGcG~G~~~~~l~~~--~~~v~~vD~s~~~~~~a~~~~~~~~~~~d~~~~~~~~~fD~v~~~~~l~~~~~  117 (211)
T 3e23_A           41 LPAGAKILELGCGAGYQAEAMLAA--GFDVDATDGSPELAAEASRRLGRPVRTMLFHQLDAIDAYDAVWAHACLLHVPR  117 (211)
T ss_dssp             SCTTCEEEESSCTTSHHHHHHHHT--TCEEEEEESCHHHHHHHHHHHTSCCEECCGGGCCCCSCEEEEEECSCGGGSCH
T ss_pred             cCCCCcEEEECCCCCHHHHHHHHc--CCeEEEECCCHHHHHHHHHhcCCceEEeeeccCCCCCcEEEEEecCchhhcCH
Confidence            345679999999999999999988  568899997 7788777665578899999887 42234 99999999999873

>3mq2_A 16S rRNA methyltransferase; methyltranferase, ribosomal, antibiotic resistance, aminoglycoside, S-adenosyl-L-methionine; HET: SAH; 1.69A {Streptomyces SP}

Probab=98.31  E-value=2e-06  Score=70.76  Aligned_cols=66  Identities=14%  Similarity=0.110  Sum_probs=52.3

Q ss_pred             CCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHh----CCC------CCCceEEecccCC-cCCCC-cEEE
Q 024350          191 FEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKN----APS------YPGIDHVGGDLFE-SVPKA-DTIF  256 (269)
Q Consensus       191 ~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~----a~~------~~ri~~~~gD~~~-~~P~g-D~~~  256 (269)
                      .....+|||||||+|.++..+++.+|+.+++.+|+ |.+++.    +++      .++|+++.+|+.+ +.+.+ |.++
T Consensus        25 ~~~~~~vLDiGcG~G~~~~~la~~~p~~~v~gvD~s~~~l~~~~~~a~~~~~~~~~~~v~~~~~d~~~l~~~~~~d~v~  103 (218)
T 3mq2_A           25 SQYDDVVLDVGTGDGKHPYKVARQNPSRLVVALDADKSRMEKISAKAAAKPAKGGLPNLLYLWATAERLPPLSGVGELH  103 (218)
T ss_dssp             TTSSEEEEEESCTTCHHHHHHHHHCTTEEEEEEESCGGGGHHHHHHHTSCGGGTCCTTEEEEECCSTTCCSCCCEEEEE
T ss_pred             ccCCCEEEEecCCCCHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHHHhhhhcCCCceEEEecchhhCCCCCCCCEEE
Confidence            45568999999999999999999999999999998 554442    332      2689999999988 55544 6665

>2ex4_A Adrenal gland protein AD-003; methyltransferase, structural genomics, SGC, structural genomics consortium; HET: SAH; 1.75A {Homo sapiens} SCOP: c.66.1.42

Probab=98.29  E-value=3.4e-07  Score=76.77  Aligned_cols=74  Identities=14%  Similarity=0.149  Sum_probs=60.9

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC------CCceEEecccCC-cCCC-C-cEEEeccccc
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFE-SVPK-A-DTIFMKVICV  262 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~-~~P~-g-D~~~l~~iLh  262 (269)
                      ...+|||||||+|.++..++++. ..+++++|+ |.+++.+++.      .+++++.+|+.+ +.+. . |++++..+||
T Consensus        79 ~~~~vLDiGcG~G~~~~~l~~~~-~~~v~~vD~s~~~~~~a~~~~~~~~~~~~~~~~~d~~~~~~~~~~fD~v~~~~~l~  157 (241)
T 2ex4_A           79 GTSCALDCGAGIGRITKRLLLPL-FREVDMVDITEDFLVQAKTYLGEEGKRVRNYFCCGLQDFTPEPDSYDVIWIQWVIG  157 (241)
T ss_dssp             CCSEEEEETCTTTHHHHHTTTTT-CSEEEEEESCHHHHHHHHHHTGGGGGGEEEEEECCGGGCCCCSSCEEEEEEESCGG
T ss_pred             CCCEEEEECCCCCHHHHHHHHhc-CCEEEEEeCCHHHHHHHHHHhhhcCCceEEEEEcChhhcCCCCCCEEEEEEcchhh
Confidence            46799999999999999999887 568899997 7777766542      368999999877 4554 3 9999999999


Q ss_pred             cCCCC
Q 024350          263 CYLNS  267 (269)
Q Consensus       263 d~~d~  267 (269)
                      .++++
T Consensus       158 ~~~~~  162 (241)
T 2ex4_A          158 HLTDQ  162 (241)
T ss_dssp             GSCHH
T ss_pred             hCCHH
Confidence            98763

>3m70_A Tellurite resistance protein TEHB homolog; structural genomics, PSI-2, protein ST initiative; 1.95A {Haemophilus influenzae}

Probab=98.29  E-value=7.7e-07  Score=76.53  Aligned_cols=82  Identities=17%  Similarity=0.129  Sum_probs=64.1

Q ss_pred             HHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-----CCceEEecccCC-cCCCC-cE
Q 024350          183 KVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-----PGIDHVGGDLFE-SVPKA-DT  254 (269)
Q Consensus       183 ~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-----~ri~~~~gD~~~-~~P~g-D~  254 (269)
                      .+++.++ .....+|||||||+|.++..+++.  +.+++++|. |..++.+++.     -+++++.+|+.+ +.+.. |+
T Consensus       111 ~~~~~~~-~~~~~~vLD~GcG~G~~~~~l~~~--g~~v~~vD~s~~~~~~a~~~~~~~~~~~~~~~~d~~~~~~~~~fD~  187 (286)
T 3m70_A          111 DVVDAAK-IISPCKVLDLGCGQGRNSLYLSLL--GYDVTSWDHNENSIAFLNETKEKENLNISTALYDINAANIQENYDF  187 (286)
T ss_dssp             HHHHHHH-HSCSCEEEEESCTTCHHHHHHHHT--TCEEEEEESCHHHHHHHHHHHHHTTCCEEEEECCGGGCCCCSCEEE
T ss_pred             HHHHHhh-ccCCCcEEEECCCCCHHHHHHHHC--CCeEEEEECCHHHHHHHHHHHHHcCCceEEEEeccccccccCCccE
Confidence            3444444 335689999999999999999998  568999997 7777766542     289999999988 34444 99


Q ss_pred             EEeccccccCCCC
Q 024350          255 IFMKVICVCYLNS  267 (269)
Q Consensus       255 ~~l~~iLhd~~d~  267 (269)
                      +++..+||.++++
T Consensus       188 i~~~~~~~~~~~~  200 (286)
T 3m70_A          188 IVSTVVFMFLNRE  200 (286)
T ss_dssp             EEECSSGGGSCGG
T ss_pred             EEEccchhhCCHH
Confidence            9999999988754

>3thr_A Glycine N-methyltransferase; GNMT, folate, methyltransferase binding, liver cytosol, transferase-transferase inhibitor C; HET: C2F TAM; 2.00A {Rattus norvegicus} SCOP: c.66.1.5 PDB: 3ths_A* 1xva_A* 1d2c_A 1kia_A* 1nbh_A* 1bhj_A* 2idj_A 2idk_A* 1d2g_A 1d2h_A* 1nbi_A* 1r8x_A 1r8y_A 1r74_A* 2azt_A*

Probab=98.28  E-value=5.5e-07  Score=77.58  Aligned_cols=73  Identities=12%  Similarity=0.091  Sum_probs=60.0

Q ss_pred             CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC----------CCCceEEecccCC-c---CCC-C-cE
Q 024350          192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS----------YPGIDHVGGDLFE-S---VPK-A-DT  254 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~----------~~ri~~~~gD~~~-~---~P~-g-D~  254 (269)
                      .+..+|||||||+|.++..++++.+  +++++|+ |..++.+++          ..++.+..+|+.+ +   .+. . |+
T Consensus        56 ~~~~~vLDiGcG~G~~~~~l~~~~~--~v~gvD~s~~~l~~a~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~fD~  133 (293)
T 3thr_A           56 HGCHRVLDVACGTGVDSIMLVEEGF--SVTSVDASDKMLKYALKERWNRRKEPAFDKWVIEEANWLTLDKDVPAGDGFDA  133 (293)
T ss_dssp             TTCCEEEETTCTTSHHHHHHHHTTC--EEEEEESCHHHHHHHHHHHHHTTTSHHHHTCEEEECCGGGHHHHSCCTTCEEE
T ss_pred             cCCCEEEEecCCCCHHHHHHHHCCC--eEEEEECCHHHHHHHHHhhhhcccccccceeeEeecChhhCccccccCCCeEE
Confidence            3457999999999999999999844  8899997 777776643          1678999999988 5   454 4 99


Q ss_pred             EEec-cccccCCC
Q 024350          255 IFMK-VICVCYLN  266 (269)
Q Consensus       255 ~~l~-~iLhd~~d  266 (269)
                      +++. ++||.+++
T Consensus       134 V~~~g~~l~~~~~  146 (293)
T 3thr_A          134 VICLGNSFAHLPD  146 (293)
T ss_dssp             EEECTTCGGGSCC
T ss_pred             EEEcChHHhhcCc
Confidence            9998 99999887

>3kr9_A SAM-dependent methyltransferase; class I rossmann-like methyltransferase fold; 2.00A {Streptococcus pneumoniae} PDB: 3ku1_A*

Probab=98.28  E-value=6.3e-07  Score=74.92  Aligned_cols=67  Identities=12%  Similarity=0.004  Sum_probs=56.7

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-------CCceEEecccCCcCCC---CcEEEecc
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-------PGIDHVGGDLFESVPK---ADTIFMKV  259 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~~~P~---gD~~~l~~  259 (269)
                      ...+|+|||||+|.+++.+++..|..+++..|+ |..++.|+++       ++|++..+|.++++|.   .|++++..
T Consensus        15 ~g~~VlDIGtGsG~l~i~la~~~~~~~V~avDi~~~al~~A~~N~~~~gl~~~i~~~~~d~l~~l~~~~~~D~IviaG   92 (225)
T 3kr9_A           15 QGAILLDVGSDHAYLPIELVERGQIKSAIAGEVVEGPYQSAVKNVEAHGLKEKIQVRLANGLAAFEETDQVSVITIAG   92 (225)
T ss_dssp             TTEEEEEETCSTTHHHHHHHHTTSEEEEEEEESSHHHHHHHHHHHHHTTCTTTEEEEECSGGGGCCGGGCCCEEEEEE
T ss_pred             CCCEEEEeCCCcHHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHHHHcCCCceEEEEECchhhhcccCcCCCEEEEcC
Confidence            457999999999999999999999999999997 6777776642       6899999999997773   39888654

>3lbf_A Protein-L-isoaspartate O-methyltransferase; modified rossman-type fold, S-adenosyl-L- methionine; HET: SAH; 1.80A {Escherichia coli}

Probab=98.28  E-value=1.6e-06  Score=70.92  Aligned_cols=80  Identities=11%  Similarity=0.116  Sum_probs=64.4

Q ss_pred             HHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC------CCCceEEecccCCcCC-C-C-c
Q 024350          184 VLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS------YPGIDHVGGDLFESVP-K-A-D  253 (269)
Q Consensus       184 ~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~------~~ri~~~~gD~~~~~P-~-g-D  253 (269)
                      +++.++ .....+|+|||||+|.++..+++.  ..+++.+|. |..++.+++      .++++++.+|..+..+ . . |
T Consensus        69 ~~~~l~-~~~~~~vLdiG~G~G~~~~~la~~--~~~v~~vD~~~~~~~~a~~~~~~~~~~~v~~~~~d~~~~~~~~~~~D  145 (210)
T 3lbf_A           69 MTELLE-LTPQSRVLEIGTGSGYQTAILAHL--VQHVCSVERIKGLQWQARRRLKNLDLHNVSTRHGDGWQGWQARAPFD  145 (210)
T ss_dssp             HHHHTT-CCTTCEEEEECCTTSHHHHHHHHH--SSEEEEEESCHHHHHHHHHHHHHTTCCSEEEEESCGGGCCGGGCCEE
T ss_pred             HHHhcC-CCCCCEEEEEcCCCCHHHHHHHHh--CCEEEEEecCHHHHHHHHHHHHHcCCCceEEEECCcccCCccCCCcc
Confidence            344555 566789999999999999999998  678899997 777776654      2679999999988544 3 3 9


Q ss_pred             EEEeccccccCCC
Q 024350          254 TIFMKVICVCYLN  266 (269)
Q Consensus       254 ~~~l~~iLhd~~d  266 (269)
                      ++++...+|..++
T Consensus       146 ~i~~~~~~~~~~~  158 (210)
T 3lbf_A          146 AIIVTAAPPEIPT  158 (210)
T ss_dssp             EEEESSBCSSCCT
T ss_pred             EEEEccchhhhhH
Confidence            9999999998775

>4dcm_A Ribosomal RNA large subunit methyltransferase G; 23S rRNA (guanine1835-N2)-methyltransferase; HET: SAM; 2.30A {Escherichia coli}

Probab=98.26  E-value=1.4e-06  Score=78.34  Aligned_cols=79  Identities=13%  Similarity=0.135  Sum_probs=63.5

Q ss_pred             HHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC---------CCceEEecccCCcCCC-C
Q 024350          184 VLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY---------PGIDHVGGDLFESVPK-A  252 (269)
Q Consensus       184 ~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~---------~ri~~~~gD~~~~~P~-g  252 (269)
                      +++.++ .....+|+|||||+|.++..+++++|..+++.+|. |..++.++++         .+++++.+|+++++|. .
T Consensus       214 ll~~l~-~~~~~~VLDlGcG~G~~s~~la~~~p~~~V~gvD~s~~al~~Ar~n~~~ngl~~~~~v~~~~~D~~~~~~~~~  292 (375)
T 4dcm_A          214 FMQHLP-ENLEGEIVDLGCGNGVIGLTLLDKNPQAKVVFVDESPMAVASSRLNVETNMPEALDRCEFMINNALSGVEPFR  292 (375)
T ss_dssp             HHHTCC-CSCCSEEEEETCTTCHHHHHHHHHCTTCEEEEEESCHHHHHHHHHHHHHHCGGGGGGEEEEECSTTTTCCTTC
T ss_pred             HHHhCc-ccCCCeEEEEeCcchHHHHHHHHHCCCCEEEEEECcHHHHHHHHHHHHHcCCCcCceEEEEechhhccCCCCC
Confidence            456555 33447999999999999999999999999999997 7788777652         2588899999998775 4


Q ss_pred             -cEEEecccccc
Q 024350          253 -DTIFMKVICVC  263 (269)
Q Consensus       253 -D~~~l~~iLhd  263 (269)
                       |++++.-.+|.
T Consensus       293 fD~Ii~nppfh~  304 (375)
T 4dcm_A          293 FNAVLCNPPFHQ  304 (375)
T ss_dssp             EEEEEECCCC--
T ss_pred             eeEEEECCCccc
Confidence             99999888774

>1af7_A Chemotaxis receptor methyltransferase CHER; chemotaxis receptor methylation; HET: SAH; 2.00A {Salmonella typhimurium} SCOP: a.58.1.1 c.66.1.8 PDB: 1bc5_A*

Probab=98.26  E-value=7.2e-07  Score=76.84  Aligned_cols=75  Identities=15%  Similarity=0.174  Sum_probs=59.3

Q ss_pred             CccEEEEeCCCchH----HHHHHHHHCC----CCeEEEeeh-hHHHHhCCCC----------------------------
Q 024350          193 HVKKLVDVGGGLGA----TLNMIISKYP----HIKGINYDL-LYVIKNAPSY----------------------------  235 (269)
Q Consensus       193 ~~~~vvDvGGG~G~----~~~~l~~~~P----~l~~vv~Dl-p~vv~~a~~~----------------------------  235 (269)
                      +..+|+|+|||+|.    +++.+++..|    +.+++..|+ +.+++.|++.                            
T Consensus       105 ~~~rIld~GCgTGee~ysiAi~L~e~~~~~~~~~~I~atDis~~~L~~Ar~~~y~~~~~~~~~~~~~~~~f~~~~~~~~~  184 (274)
T 1af7_A          105 GEYRVWSAAASTGEEPYSIAITLADALGMAPGRWKVFASDIDTEVLEKARSGIYRLSELKTLSPQQLQRYFMRGTGPHEG  184 (274)
T ss_dssp             SCEEEEESCCTTTHHHHHHHHHHHHHHCSCTTSEEEEEEESCHHHHHHHHHTEEEGGGGTTSCHHHHHHHEEECCTTSCS
T ss_pred             CCcEEEEeeccCChhHHHHHHHHHHhcccCCCCeEEEEEECCHHHHHHHHhcCCchhhhhcCCHHHHHHHhhccccCCCC
Confidence            34789999999998    6666777766    468899998 7777765431                            


Q ss_pred             ---------CCceEEecccCC-cCC-C-C-cEEEeccccccCCCC
Q 024350          236 ---------PGIDHVGGDLFE-SVP-K-A-DTIFMKVICVCYLNS  267 (269)
Q Consensus       236 ---------~ri~~~~gD~~~-~~P-~-g-D~~~l~~iLhd~~d~  267 (269)
                               ++|+|..+|+.+ ++| . . |+|+++++|++++++
T Consensus       185 ~~~v~~~lr~~V~F~~~dl~~~~~~~~~~fDlI~crnvliyf~~~  229 (274)
T 1af7_A          185 LVRVRQELANYVEFSSVNLLEKQYNVPGPFDAIFCRNVMIYFDKT  229 (274)
T ss_dssp             EEEECHHHHTTEEEEECCTTCSSCCCCCCEEEEEECSSGGGSCHH
T ss_pred             ceeechhhcccCeEEecccCCCCCCcCCCeeEEEECCchHhCCHH
Confidence                     369999999999 566 3 4 999999999998764

>2yxe_A Protein-L-isoaspartate O-methyltransferase; rossman-type fold, alpha/beta/alpha sandwich structure, STRU genomics, NPPSFA; 2.00A {Methanocaldococcus jannaschii}

Probab=98.26  E-value=1.5e-06  Score=71.31  Aligned_cols=81  Identities=12%  Similarity=0.054  Sum_probs=65.0

Q ss_pred             HHHhccCCCCccEEEEeCCCchHHHHHHHHHC-CCCeEEEeeh-hHHHHhCCCC------CCceEEecccCCcCC-C-C-
Q 024350          184 VLESYKGFEHVKKLVDVGGGLGATLNMIISKY-PHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFESVP-K-A-  252 (269)
Q Consensus       184 ~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~-P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~~~P-~-g-  252 (269)
                      +++.+. .....+|||||||+|.++..+++.. |+.+++.+|. |..++.+++.      ++++++.+|+..+.+ . . 
T Consensus        69 ~~~~~~-~~~~~~vLdiG~G~G~~~~~l~~~~~~~~~v~~vD~~~~~~~~a~~~~~~~~~~~v~~~~~d~~~~~~~~~~f  147 (215)
T 2yxe_A           69 MCELLD-LKPGMKVLEIGTGCGYHAAVTAEIVGEDGLVVSIERIPELAEKAERTLRKLGYDNVIVIVGDGTLGYEPLAPY  147 (215)
T ss_dssp             HHHHTT-CCTTCEEEEECCTTSHHHHHHHHHHCTTSEEEEEESCHHHHHHHHHHHHHHTCTTEEEEESCGGGCCGGGCCE
T ss_pred             HHHhhC-CCCCCEEEEECCCccHHHHHHHHHhCCCCEEEEEeCCHHHHHHHHHHHHHcCCCCeEEEECCcccCCCCCCCe
Confidence            344444 4556799999999999999999988 7789999997 7777766542      679999999977655 3 3 


Q ss_pred             cEEEeccccccCC
Q 024350          253 DTIFMKVICVCYL  265 (269)
Q Consensus       253 D~~~l~~iLhd~~  265 (269)
                      |++++..++|..+
T Consensus       148 D~v~~~~~~~~~~  160 (215)
T 2yxe_A          148 DRIYTTAAGPKIP  160 (215)
T ss_dssp             EEEEESSBBSSCC
T ss_pred             eEEEECCchHHHH
Confidence            9999999998765

>3bxo_A N,N-dimethyltransferase; desosamine, sugar, carbohydrate, antibiotic, SAM, adoMet; HET: SAM UPP; 2.00A {Streptomyces venezuelae}

Probab=98.26  E-value=1.1e-06  Score=73.07  Aligned_cols=73  Identities=16%  Similarity=0.249  Sum_probs=59.7

Q ss_pred             CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-CCceEEecccCC-cCCCC-cEEE-eccccccCCC
Q 024350          192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-PGIDHVGGDLFE-SVPKA-DTIF-MKVICVCYLN  266 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-~ri~~~~gD~~~-~~P~g-D~~~-l~~iLhd~~d  266 (269)
                      .+..+|||||||+|.++..++++++  +++++|+ |.+++.+++. ++++++.+|+.+ +.+.. |+++ ...++|..++
T Consensus        39 ~~~~~vLdiG~G~G~~~~~l~~~~~--~v~~~D~s~~~~~~a~~~~~~~~~~~~d~~~~~~~~~~D~v~~~~~~~~~~~~  116 (239)
T 3bxo_A           39 PEASSLLDVACGTGTHLEHFTKEFG--DTAGLELSEDMLTHARKRLPDATLHQGDMRDFRLGRKFSAVVSMFSSVGYLKT  116 (239)
T ss_dssp             TTCCEEEEETCTTSHHHHHHHHHHS--EEEEEESCHHHHHHHHHHCTTCEEEECCTTTCCCSSCEEEEEECTTGGGGCCS
T ss_pred             CCCCeEEEecccCCHHHHHHHHhCC--cEEEEeCCHHHHHHHHHhCCCCEEEECCHHHcccCCCCcEEEEcCchHhhcCC
Confidence            3457999999999999999999987  7899998 8888877653 789999999987 44444 9999 5558887754

>3mb5_A SAM-dependent methyltransferase; RNA methyltransferase, M1A, TRMI, intermolecular contacts, R specificity, tetramer, disulfide bond; HET: SAM; 1.60A {Pyrococcus abyssi} PDB: 3lga_A* 3lhd_C*

Probab=98.24  E-value=1.7e-06  Score=72.95  Aligned_cols=75  Identities=16%  Similarity=0.197  Sum_probs=61.9

Q ss_pred             HHHHHhccCCCCccEEEEeCCCchHHHHHHHHH-CCCCeEEEeeh-hHHHHhCCCC-------CCceEEecccCCcCCC-
Q 024350          182 EKVLESYKGFEHVKKLVDVGGGLGATLNMIISK-YPHIKGINYDL-LYVIKNAPSY-------PGIDHVGGDLFESVPK-  251 (269)
Q Consensus       182 ~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~-~P~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~~~P~-  251 (269)
                      ..++..++ .....+|+|||||+|.++..+++. .|..+++.+|+ |..++.+++.       +|++++.+|+.+.+|. 
T Consensus        83 ~~i~~~~~-~~~~~~vldiG~G~G~~~~~l~~~~~~~~~v~~~D~~~~~~~~a~~~~~~~~~~~~v~~~~~d~~~~~~~~  161 (255)
T 3mb5_A           83 ALIVAYAG-ISPGDFIVEAGVGSGALTLFLANIVGPEGRVVSYEIREDFAKLAWENIKWAGFDDRVTIKLKDIYEGIEEE  161 (255)
T ss_dssp             HHHHHHTT-CCTTCEEEEECCTTSHHHHHHHHHHCTTSEEEEECSCHHHHHHHHHHHHHHTCTTTEEEECSCGGGCCCCC
T ss_pred             HHHHHhhC-CCCCCEEEEecCCchHHHHHHHHHhCCCeEEEEEecCHHHHHHHHHHHHHcCCCCceEEEECchhhccCCC
Confidence            34555555 566789999999999999999999 89999999998 7888777642       5699999999987775 


Q ss_pred             C-cEEEe
Q 024350          252 A-DTIFM  257 (269)
Q Consensus       252 g-D~~~l  257 (269)
                      . |++++
T Consensus       162 ~~D~v~~  168 (255)
T 3mb5_A          162 NVDHVIL  168 (255)
T ss_dssp             SEEEEEE
T ss_pred             CcCEEEE
Confidence            3 98876

>3e8s_A Putative SAM dependent methyltransferase; NP_744700.1, structural genomics, joint center for structural genom JCSG; HET: SAH; 2.10A {Pseudomonas putida KT2440}

Probab=98.23  E-value=9.4e-07  Score=72.67  Aligned_cols=80  Identities=14%  Similarity=0.106  Sum_probs=62.6

Q ss_pred             HHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCCCCceEEecccCCc-----CCC-C-cE
Q 024350          183 KVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSYPGIDHVGGDLFES-----VPK-A-DT  254 (269)
Q Consensus       183 ~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~~ri~~~~gD~~~~-----~P~-g-D~  254 (269)
                      .++..+. .....+|||||||+|.++..+++.  +.+++++|+ |..++.+++..++++..+|+.+.     .+. . |+
T Consensus        43 ~~~~~~~-~~~~~~vLdiG~G~G~~~~~l~~~--~~~v~~vD~s~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~fD~  119 (227)
T 3e8s_A           43 AILLAIL-GRQPERVLDLGCGEGWLLRALADR--GIEAVGVDGDRTLVDAARAAGAGEVHLASYAQLAEAKVPVGKDYDL  119 (227)
T ss_dssp             HHHHHHH-HTCCSEEEEETCTTCHHHHHHHTT--TCEEEEEESCHHHHHHHHHTCSSCEEECCHHHHHTTCSCCCCCEEE
T ss_pred             HHHHHhh-cCCCCEEEEeCCCCCHHHHHHHHC--CCEEEEEcCCHHHHHHHHHhcccccchhhHHhhcccccccCCCccE
Confidence            3444444 334589999999999999999988  668999997 78888887778889999887652     222 3 99


Q ss_pred             EEeccccccCCC
Q 024350          255 IFMKVICVCYLN  266 (269)
Q Consensus       255 ~~l~~iLhd~~d  266 (269)
                      +++..+|| +++
T Consensus       120 v~~~~~l~-~~~  130 (227)
T 3e8s_A          120 ICANFALL-HQD  130 (227)
T ss_dssp             EEEESCCC-SSC
T ss_pred             EEECchhh-hhh
Confidence            99999999 655

>2fca_A TRNA (guanine-N(7)-)-methyltransferase; 2.10A {Bacillus subtilis} SCOP: c.66.1.53

Probab=98.23  E-value=1.4e-06  Score=72.02  Aligned_cols=65  Identities=18%  Similarity=0.258  Sum_probs=53.5

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC------CCCceEEecccCC-c--CCCC--cEEEe
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS------YPGIDHVGGDLFE-S--VPKA--DTIFM  257 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~------~~ri~~~~gD~~~-~--~P~g--D~~~l  257 (269)
                      +..+|||||||+|.++..+++.+|+.+++++|+ +..++.+++      .++|+++.+|+.+ +  +|.+  |.+++
T Consensus        38 ~~~~vLDiGcG~G~~~~~la~~~p~~~v~giD~s~~~l~~a~~~~~~~~~~nv~~~~~d~~~l~~~~~~~~~d~v~~  114 (213)
T 2fca_A           38 DNPIHIEVGTGKGQFISGMAKQNPDINYIGIELFKSVIVTAVQKVKDSEAQNVKLLNIDADTLTDVFEPGEVKRVYL  114 (213)
T ss_dssp             CCCEEEEECCTTSHHHHHHHHHCTTSEEEEECSCHHHHHHHHHHHHHSCCSSEEEECCCGGGHHHHCCTTSCCEEEE
T ss_pred             CCceEEEEecCCCHHHHHHHHHCCCCCEEEEEechHHHHHHHHHHHHcCCCCEEEEeCCHHHHHhhcCcCCcCEEEE
Confidence            357899999999999999999999999999997 777776653      2679999999987 3  5543  87765

>3lec_A NADB-rossmann superfamily protein; PSI, MCSG, structural genomics, midwest CENT structural genomics, protein structure initiative; 1.80A {Streptococcus agalactiae}

Probab=98.22  E-value=9.1e-07  Score=74.13  Aligned_cols=68  Identities=16%  Similarity=0.035  Sum_probs=56.9

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-------CCceEEecccCCcCCC---CcEEEeccc
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-------PGIDHVGGDLFESVPK---ADTIFMKVI  260 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~~~P~---gD~~~l~~i  260 (269)
                      ...+|+|||||+|.+++.+++..|..+++..|+ |..++.|+++       +||++..+|.++.++.   .|++++..+
T Consensus        21 ~g~~VlDIGtGsG~l~i~la~~~~~~~V~AvDi~~~al~~A~~N~~~~gl~~~I~~~~gD~l~~~~~~~~~D~IviaGm   99 (230)
T 3lec_A           21 KGARLLDVGSDHAYLPIFLLQMGYCDFAIAGEVVNGPYQSALKNVSEHGLTSKIDVRLANGLSAFEEADNIDTITICGM   99 (230)
T ss_dssp             TTEEEEEETCSTTHHHHHHHHTTCEEEEEEEESSHHHHHHHHHHHHHTTCTTTEEEEECSGGGGCCGGGCCCEEEEEEE
T ss_pred             CCCEEEEECCchHHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHHHHcCCCCcEEEEECchhhccccccccCEEEEeCC
Confidence            457999999999999999999999999999997 7777776642       6899999999996553   399886654

>3d2l_A SAM-dependent methyltransferase; ZP_00538691.1, structural G joint center for structural genomics, JCSG; HET: MSE; 1.90A {Exiguobacterium sibiricum 255-15}

Probab=98.22  E-value=2e-06  Score=71.67  Aligned_cols=70  Identities=20%  Similarity=0.245  Sum_probs=57.6

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-----CCceEEecccCC-cCCCC-cEEEecc-cccc
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-----PGIDHVGGDLFE-SVPKA-DTIFMKV-ICVC  263 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-----~ri~~~~gD~~~-~~P~g-D~~~l~~-iLhd  263 (269)
                      ...+|||||||+|.++..+++.   .+++++|+ |..++.+++.     .+++++.+|+.+ +.+.. |++++.. ++|.
T Consensus        33 ~~~~vLdiG~G~G~~~~~l~~~---~~v~~vD~s~~~~~~a~~~~~~~~~~~~~~~~d~~~~~~~~~fD~v~~~~~~~~~  109 (243)
T 3d2l_A           33 PGKRIADIGCGTGTATLLLADH---YEVTGVDLSEEMLEIAQEKAMETNRHVDFWVQDMRELELPEPVDAITILCDSLNY  109 (243)
T ss_dssp             TTCEEEEESCTTCHHHHHHTTT---SEEEEEESCHHHHHHHHHHHHHTTCCCEEEECCGGGCCCSSCEEEEEECTTGGGG
T ss_pred             CCCeEEEecCCCCHHHHHHhhC---CeEEEEECCHHHHHHHHHhhhhcCCceEEEEcChhhcCCCCCcCEEEEeCCchhh
Confidence            3479999999999999999887   78999998 7888776642     679999999987 55554 9999876 8887


Q ss_pred             CC
Q 024350          264 YL  265 (269)
Q Consensus       264 ~~  265 (269)
                      +.
T Consensus       110 ~~  111 (243)
T 3d2l_A          110 LQ  111 (243)
T ss_dssp             CC
T ss_pred             cC
Confidence            74

>2gb4_A Thiopurine S-methyltransferase; 18204406, thiopurine methyltransferase, structural genomics, PSI, protein structure initiative; HET: SAH; 1.25A {Mus musculus} PDB: 3bgi_A* 3bgd_A* 2bzg_A* 2h11_A*

Probab=98.22  E-value=8.1e-07  Score=75.55  Aligned_cols=73  Identities=10%  Similarity=0.020  Sum_probs=59.1

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC-----------------------CCCceEEecccCC-
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS-----------------------YPGIDHVGGDLFE-  247 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~-----------------------~~ri~~~~gD~~~-  247 (269)
                      ...+|||||||+|..+..|++.  +.+++++|+ |.+++.+++                       ..+|+++.+|+++ 
T Consensus        68 ~~~~vLD~GCG~G~~~~~La~~--G~~V~gvD~S~~~i~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~D~~~l  145 (252)
T 2gb4_A           68 SGLRVFFPLCGKAIEMKWFADR--GHTVVGVEISEIGIREFFAEQNLSYTEEPLAEIAGAKVFKSSSGSISLYCCSIFDL  145 (252)
T ss_dssp             CSCEEEETTCTTCTHHHHHHHT--TCEEEEECSCHHHHHHHHHHTTCCEEEEECTTSTTCEEEEETTSSEEEEESCTTTG
T ss_pred             CCCeEEEeCCCCcHHHHHHHHC--CCeEEEEECCHHHHHHHHHhcccccccccccccccccccccCCCceEEEECccccC
Confidence            4579999999999999999987  568999997 777776531                       2579999999998 


Q ss_pred             cCC--CC-cEEEeccccccCCCC
Q 024350          248 SVP--KA-DTIFMKVICVCYLNS  267 (269)
Q Consensus       248 ~~P--~g-D~~~l~~iLhd~~d~  267 (269)
                      +.+  .. |+++.+.+||..+++
T Consensus       146 ~~~~~~~FD~V~~~~~l~~l~~~  168 (252)
T 2gb4_A          146 PRANIGKFDRIWDRGALVAINPG  168 (252)
T ss_dssp             GGGCCCCEEEEEESSSTTTSCGG
T ss_pred             CcccCCCEEEEEEhhhhhhCCHH
Confidence            443  33 999999999887654

>3g2m_A PCZA361.24; SAM-dependent methyltransferase, glycopeptide antibiotics biosynthesis, structural genomics; 2.00A {Amycolatopsis orientalis} PDB: 3g2o_A* 3g2p_A* 3g2q_A*

Probab=98.21  E-value=1.2e-06  Score=75.95  Aligned_cols=81  Identities=11%  Similarity=0.049  Sum_probs=61.7

Q ss_pred             HHHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC---------CCceEEecccCC-cC
Q 024350          181 MEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY---------PGIDHVGGDLFE-SV  249 (269)
Q Consensus       181 ~~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~---------~ri~~~~gD~~~-~~  249 (269)
                      ...+++.++ . ...+|||||||+|.++..++++  +.+++.+|+ |.+++.+++.         .+|+++.+|+.+ +.
T Consensus        72 ~~~~~~~~~-~-~~~~vLDlGcG~G~~~~~l~~~--~~~v~gvD~s~~~~~~a~~~~~~~~~~~~~~v~~~~~d~~~~~~  147 (299)
T 3g2m_A           72 AREFATRTG-P-VSGPVLELAAGMGRLTFPFLDL--GWEVTALELSTSVLAAFRKRLAEAPADVRDRCTLVQGDMSAFAL  147 (299)
T ss_dssp             HHHHHHHHC-C-CCSCEEEETCTTTTTHHHHHTT--TCCEEEEESCHHHHHHHHHHHHTSCHHHHTTEEEEECBTTBCCC
T ss_pred             HHHHHHhhC-C-CCCcEEEEeccCCHHHHHHHHc--CCeEEEEECCHHHHHHHHHHHhhcccccccceEEEeCchhcCCc
Confidence            445566655 3 3349999999999999999988  568899997 7888777642         679999999998 55


Q ss_pred             CCC-cEEEec-cccccCC
Q 024350          250 PKA-DTIFMK-VICVCYL  265 (269)
Q Consensus       250 P~g-D~~~l~-~iLhd~~  265 (269)
                      +.. |++++. .++|.++
T Consensus       148 ~~~fD~v~~~~~~~~~~~  165 (299)
T 3g2m_A          148 DKRFGTVVISSGSINELD  165 (299)
T ss_dssp             SCCEEEEEECHHHHTTSC
T ss_pred             CCCcCEEEECCcccccCC
Confidence            544 988765 6676655

>4dzr_A Protein-(glutamine-N5) methyltransferase, release specific; structural genomics, PSI-biology; 2.55A {Alicyclobacillus acidocaldarius subsp}

Probab=98.21  E-value=5.1e-07  Score=73.66  Aligned_cols=75  Identities=20%  Similarity=0.244  Sum_probs=49.8

Q ss_pred             HHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-----CCceEEecccCCcCC------C
Q 024350          184 VLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-----PGIDHVGGDLFESVP------K  251 (269)
Q Consensus       184 ~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-----~ri~~~~gD~~~~~P------~  251 (269)
                      +++.++......+|+|||||+|.++..+++.+|+.+++++|+ |..++.+++.     .+++++.+|++++++      .
T Consensus        21 ~~~~l~~~~~~~~vLDiG~G~G~~~~~l~~~~~~~~v~~vD~~~~~~~~a~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~  100 (215)
T 4dzr_A           21 AIRFLKRMPSGTRVIDVGTGSGCIAVSIALACPGVSVTAVDLSMDALAVARRNAERFGAVVDWAAADGIEWLIERAERGR  100 (215)
T ss_dssp             HHHHHTTCCTTEEEEEEESSBCHHHHHHHHHCTTEEEEEEECC-------------------CCHHHHHHHHHHHHHTTC
T ss_pred             HHHHhhhcCCCCEEEEecCCHhHHHHHHHHhCCCCeEEEEECCHHHHHHHHHHHHHhCCceEEEEcchHhhhhhhhhccC
Confidence            444443124668999999999999999999999999999998 7888877764     179999999988544      3


Q ss_pred             C-cEEEec
Q 024350          252 A-DTIFMK  258 (269)
Q Consensus       252 g-D~~~l~  258 (269)
                      . |++++.
T Consensus       101 ~fD~i~~n  108 (215)
T 4dzr_A          101 PWHAIVSN  108 (215)
T ss_dssp             CBSEEEEC
T ss_pred             cccEEEEC
Confidence            3 999985

>2yxd_A Probable cobalt-precorrin-6Y C(15)-methyltransfer [decarboxylating]; alpha and beta protein (A/B) class; HET: MES; 2.30A {Methanocaldococcus jannaschii}

Probab=98.20  E-value=1.2e-06  Score=69.45  Aligned_cols=74  Identities=16%  Similarity=0.122  Sum_probs=59.6

Q ss_pred             HHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC------CCceEEecccCCcCCC-C-cE
Q 024350          184 VLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFESVPK-A-DT  254 (269)
Q Consensus       184 ~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~~~P~-g-D~  254 (269)
                      ++..++ .....+|+|||||+|.++..+++  +..+++++|. |..++.+++.      ++++++.+|+.+++|. . |+
T Consensus        27 ~~~~~~-~~~~~~vLdiG~G~G~~~~~l~~--~~~~v~~vD~~~~~~~~a~~~~~~~~~~~~~~~~~d~~~~~~~~~~D~  103 (183)
T 2yxd_A           27 SIGKLN-LNKDDVVVDVGCGSGGMTVEIAK--RCKFVYAIDYLDGAIEVTKQNLAKFNIKNCQIIKGRAEDVLDKLEFNK  103 (183)
T ss_dssp             HHHHHC-CCTTCEEEEESCCCSHHHHHHHT--TSSEEEEEECSHHHHHHHHHHHHHTTCCSEEEEESCHHHHGGGCCCSE
T ss_pred             HHHHcC-CCCCCEEEEeCCCCCHHHHHHHh--cCCeEEEEeCCHHHHHHHHHHHHHcCCCcEEEEECCccccccCCCCcE
Confidence            444455 55567999999999999999998  8889999997 7777766542      6899999999886664 3 99


Q ss_pred             EEeccc
Q 024350          255 IFMKVI  260 (269)
Q Consensus       255 ~~l~~i  260 (269)
                      +++..+
T Consensus       104 i~~~~~  109 (183)
T 2yxd_A          104 AFIGGT  109 (183)
T ss_dssp             EEECSC
T ss_pred             EEECCc
Confidence            998876

>2plw_A Ribosomal RNA methyltransferase, putative; malaria, SAM, structural genomics, structural genomics consortium, SGC; HET: SAM; 1.70A {Plasmodium falciparum}

Probab=98.20  E-value=5.3e-06  Score=67.22  Aligned_cols=62  Identities=18%  Similarity=0.247  Sum_probs=49.3

Q ss_pred             HHHHhccCCCCccEEEEeCCCchHHHHHHHHHCC--CCeEEEeehhHHHHhCCCCCCceEEecccCCc
Q 024350          183 KVLESYKGFEHVKKLVDVGGGLGATLNMIISKYP--HIKGINYDLLYVIKNAPSYPGIDHVGGDLFES  248 (269)
Q Consensus       183 ~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P--~l~~vv~Dlp~vv~~a~~~~ri~~~~gD~~~~  248 (269)
                      .+.+.+..+....+|+|||||+|.++..+++++|  +.+++.+|+.+.    ...++++++.+|+.+.
T Consensus        12 ~~~~~~~~~~~~~~vLDlGcG~G~~~~~l~~~~~~~~~~v~gvD~s~~----~~~~~v~~~~~d~~~~   75 (201)
T 2plw_A           12 ELDNKYLFLKKNKIILDIGCYPGSWCQVILERTKNYKNKIIGIDKKIM----DPIPNVYFIQGEIGKD   75 (201)
T ss_dssp             HHHHHHCCCCTTEEEEEESCTTCHHHHHHHHHTTTSCEEEEEEESSCC----CCCTTCEEEECCTTTT
T ss_pred             HHHHHcCCCCCCCEEEEeCCCCCHHHHHHHHHcCCCCceEEEEeCCcc----CCCCCceEEEccccch
Confidence            4455555245568999999999999999999998  689999998652    2347899999999873

>3htx_A HEN1; HEN1, small RNA methyltransferase, protein-RNA complex; HET: SAH; 3.10A {Arabidopsis thaliana}

Probab=98.20  E-value=1.3e-06  Score=84.88  Aligned_cols=75  Identities=17%  Similarity=0.139  Sum_probs=63.3

Q ss_pred             CccEEEEeCCCchHHHHHHHHHC-CCCeEEEeeh-hHHHHhCCC------------CCCceEEecccCC-cCCC-C-cEE
Q 024350          193 HVKKLVDVGGGLGATLNMIISKY-PHIKGINYDL-LYVIKNAPS------------YPGIDHVGGDLFE-SVPK-A-DTI  255 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~-P~l~~vv~Dl-p~vv~~a~~------------~~ri~~~~gD~~~-~~P~-g-D~~  255 (269)
                      ...+|||||||+|.++..+++.. |..+++++|+ |..++.|++            .++|+++.+|+.+ +.+. . |++
T Consensus       721 ~g~rVLDVGCGTG~lai~LAr~g~p~a~VtGVDIS~emLe~AReRLa~~lnAkr~gl~nVefiqGDa~dLp~~d~sFDlV  800 (950)
T 3htx_A          721 SASTLVDFGCGSGSLLDSLLDYPTSLQTIIGVDISPKGLARAAKMLHVKLNKEACNVKSATLYDGSILEFDSRLHDVDIG  800 (950)
T ss_dssp             CCSEEEEETCSSSHHHHHHTSSCCCCCEEEEEESCHHHHHHHHHHHHHHTTTTCSSCSEEEEEESCTTSCCTTSCSCCEE
T ss_pred             CCCEEEEECCCCCHHHHHHHHhCCCCCeEEEEECCHHHHHHHHHHhhhccchhhcCCCceEEEECchHhCCcccCCeeEE
Confidence            55799999999999999999998 5679999997 777776643            2679999999988 5553 4 999


Q ss_pred             EeccccccCCCC
Q 024350          256 FMKVICVCYLNS  267 (269)
Q Consensus       256 ~l~~iLhd~~d~  267 (269)
                      ++..+||.++++
T Consensus       801 V~~eVLeHL~dp  812 (950)
T 3htx_A          801 TCLEVIEHMEED  812 (950)
T ss_dssp             EEESCGGGSCHH
T ss_pred             EEeCchhhCChH
Confidence            999999998864

>2pjd_A Ribosomal RNA small subunit methyltransferase C; gene duplication, RNA modification, SAM binding; 2.10A {Escherichia coli}

Probab=98.18  E-value=1.5e-06  Score=77.02  Aligned_cols=81  Identities=17%  Similarity=0.175  Sum_probs=63.8

Q ss_pred             HHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-----CCceEEecccCCcCCCC-cE
Q 024350          182 EKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-----PGIDHVGGDLFESVPKA-DT  254 (269)
Q Consensus       182 ~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-----~ri~~~~gD~~~~~P~g-D~  254 (269)
                      ..+++.++ .....+|+|||||+|.++..+++.+|+.+++++|. |.+++.+++.     -.++++.+|+++..+.. |+
T Consensus       186 ~~ll~~l~-~~~~~~VLDlGcG~G~~~~~la~~~~~~~v~~vD~s~~~l~~a~~~~~~~~~~~~~~~~d~~~~~~~~fD~  264 (343)
T 2pjd_A          186 QLLLSTLT-PHTKGKVLDVGCGAGVLSVAFARHSPKIRLTLCDVSAPAVEASRATLAANGVEGEVFASNVFSEVKGRFDM  264 (343)
T ss_dssp             HHHHHHSC-TTCCSBCCBTTCTTSHHHHHHHHHCTTCBCEEEESBHHHHHHHHHHHHHTTCCCEEEECSTTTTCCSCEEE
T ss_pred             HHHHHhcC-cCCCCeEEEecCccCHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHHHhCCCCEEEEccccccccCCeeE
Confidence            34556654 33456899999999999999999999999999998 6677766542     34778999998754544 99


Q ss_pred             EEecccccc
Q 024350          255 IFMKVICVC  263 (269)
Q Consensus       255 ~~l~~iLhd  263 (269)
                      +++...+|.
T Consensus       265 Iv~~~~~~~  273 (343)
T 2pjd_A          265 IISNPPFHD  273 (343)
T ss_dssp             EEECCCCCS
T ss_pred             EEECCCccc
Confidence            999999885

>2p8j_A S-adenosylmethionine-dependent methyltransferase; NP_349143.1; HET: PGE GOL; 2.00A {Clostridium acetobutylicum}

Probab=98.18  E-value=1.7e-06  Score=70.48  Aligned_cols=73  Identities=14%  Similarity=0.145  Sum_probs=57.9

Q ss_pred             CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-----CCceEEecccCC-cCCC-C-cEEEeccccc
Q 024350          192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-----PGIDHVGGDLFE-SVPK-A-DTIFMKVICV  262 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-----~ri~~~~gD~~~-~~P~-g-D~~~l~~iLh  262 (269)
                      ....+|||||||+|.....++.. ++.+++++|. |..++.+++.     .+++++.+|+.+ +.|. . |++++..++|
T Consensus        22 ~~~~~vLDiGcG~G~~~~~~~~~-~~~~v~~vD~s~~~~~~a~~~~~~~~~~~~~~~~d~~~~~~~~~~fD~v~~~~~l~  100 (209)
T 2p8j_A           22 NLDKTVLDCGAGGDLPPLSIFVE-DGYKTYGIEISDLQLKKAENFSRENNFKLNISKGDIRKLPFKDESMSFVYSYGTIF  100 (209)
T ss_dssp             SSCSEEEEESCCSSSCTHHHHHH-TTCEEEEEECCHHHHHHHHHHHHHHTCCCCEEECCTTSCCSCTTCEEEEEECSCGG
T ss_pred             CCCCEEEEECCCCCHHHHHHHHh-CCCEEEEEECCHHHHHHHHHHHHhcCCceEEEECchhhCCCCCCceeEEEEcChHH
Confidence            34579999999999985555544 6779999997 7777766542     689999999988 6664 3 9999999999


Q ss_pred             cCC
Q 024350          263 CYL  265 (269)
Q Consensus       263 d~~  265 (269)
                      .++
T Consensus       101 ~~~  103 (209)
T 2p8j_A          101 HMR  103 (209)
T ss_dssp             GSC
T ss_pred             hCC
Confidence            885

>3gnl_A Uncharacterized protein, DUF633, LMOF2365_1472; structural genomics, PSI-2, protein structure initiative; 1.50A {Listeria monocytogenes str}

Probab=98.18  E-value=1.2e-06  Score=73.96  Aligned_cols=68  Identities=16%  Similarity=0.161  Sum_probs=56.5

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-------CCceEEecccCCcCC-C--CcEEEeccc
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-------PGIDHVGGDLFESVP-K--ADTIFMKVI  260 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~~~P-~--gD~~~l~~i  260 (269)
                      ...+|+|||||+|.+++.+++..|..+++..|+ |..++.|+++       +||++..+|.++.++ .  .|++++..+
T Consensus        21 ~g~~VlDIGtGsG~l~i~la~~~~~~~V~avDi~~~al~~A~~N~~~~gl~~~I~v~~gD~l~~~~~~~~~D~Iviagm   99 (244)
T 3gnl_A           21 KNERIADIGSDHAYLPCFAVKNQTASFAIAGEVVDGPFQSAQKQVRSSGLTEQIDVRKGNGLAVIEKKDAIDTIVIAGM   99 (244)
T ss_dssp             SSEEEEEETCSTTHHHHHHHHTTSEEEEEEEESSHHHHHHHHHHHHHTTCTTTEEEEECSGGGGCCGGGCCCEEEEEEE
T ss_pred             CCCEEEEECCccHHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHHHHcCCCceEEEEecchhhccCccccccEEEEeCC
Confidence            457999999999999999999999999999997 6777776642       689999999999655 2  398886543

>3dxy_A TRNA (guanine-N(7)-)-methyltransferase; rossmann fold methyltransferase, tRNA modification, S-adenosyl-L-methionine, TR processing; HET: SAM; 1.50A {Escherichia coli} PDB: 3dxx_A* 3dxz_A*

Probab=98.17  E-value=1.6e-06  Score=71.98  Aligned_cols=66  Identities=14%  Similarity=0.224  Sum_probs=53.5

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC------CCCceEEecccCCc----CCCC--cEEEec
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS------YPGIDHVGGDLFES----VPKA--DTIFMK  258 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~------~~ri~~~~gD~~~~----~P~g--D~~~l~  258 (269)
                      ...+|||||||+|.++..+++++|+.+++++|. +..++.+++      .++|+++.+|..+.    +|.+  |.+++.
T Consensus        34 ~~~~vLDiGcG~G~~~~~lA~~~p~~~v~giD~s~~~l~~a~~~~~~~~l~nv~~~~~Da~~~l~~~~~~~~~d~v~~~  112 (218)
T 3dxy_A           34 EAPVTLEIGFGMGASLVAMAKDRPEQDFLGIEVHSPGVGACLASAHEEGLSNLRVMCHDAVEVLHKMIPDNSLRMVQLF  112 (218)
T ss_dssp             CCCEEEEESCTTCHHHHHHHHHCTTSEEEEECSCHHHHHHHHHHHHHTTCSSEEEECSCHHHHHHHHSCTTCEEEEEEE
T ss_pred             CCCeEEEEeeeChHHHHHHHHHCCCCeEEEEEecHHHHHHHHHHHHHhCCCcEEEEECCHHHHHHHHcCCCChheEEEe
Confidence            457999999999999999999999999999997 777766543      26799999998662    5643  777654

>2gs9_A Hypothetical protein TT1324; methyl transferase, structural genomics, NPPSFA, national PR protein structural and functional analyses; HET: SAH; 2.60A {Thermus thermophilus}

Probab=98.17  E-value=1.7e-06  Score=70.74  Aligned_cols=69  Identities=14%  Similarity=0.141  Sum_probs=57.5

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCC-eEEEeeh-hHHHHhCCCC-CCceEEecccCC-cCCC-C-cEEEeccccccCCC
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHI-KGINYDL-LYVIKNAPSY-PGIDHVGGDLFE-SVPK-A-DTIFMKVICVCYLN  266 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l-~~vv~Dl-p~vv~~a~~~-~ri~~~~gD~~~-~~P~-g-D~~~l~~iLhd~~d  266 (269)
                      ...+|+|||||+|.++..+     .. +++++|. |..++.+++. ++++++.+|+.+ +.+. . |++++.++||.+++
T Consensus        36 ~~~~vLdiG~G~G~~~~~l-----~~~~v~~vD~s~~~~~~a~~~~~~~~~~~~d~~~~~~~~~~fD~v~~~~~l~~~~~  110 (211)
T 2gs9_A           36 PGESLLEVGAGTGYWLRRL-----PYPQKVGVEPSEAMLAVGRRRAPEATWVRAWGEALPFPGESFDVVLLFTTLEFVED  110 (211)
T ss_dssp             CCSEEEEETCTTCHHHHHC-----CCSEEEEECCCHHHHHHHHHHCTTSEEECCCTTSCCSCSSCEEEEEEESCTTTCSC
T ss_pred             CCCeEEEECCCCCHhHHhC-----CCCeEEEEeCCHHHHHHHHHhCCCcEEEEcccccCCCCCCcEEEEEEcChhhhcCC
Confidence            5579999999999999887     45 8899997 7777766654 789999999987 6664 3 99999999999875

>2vdv_E TRNA (guanine-N(7)-)-methyltransferase; S-adenosyl-L-methionine, phosphorylation, M7G, spout MT, tRNA processing; HET: SAM; 2.30A {Saccharomyces cerevisiae} PDB: 2vdu_E

Probab=98.17  E-value=2.1e-06  Score=72.42  Aligned_cols=57  Identities=14%  Similarity=0.331  Sum_probs=47.9

Q ss_pred             CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCC--------------CCCCceEEecccCCc
Q 024350          192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAP--------------SYPGIDHVGGDLFES  248 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~--------------~~~ri~~~~gD~~~~  248 (269)
                      ++..+|||||||+|.++..+++.+|+.+++++|+ +.+++.++              ..++|+++.+|.++.
T Consensus        48 ~~~~~vLDiGcG~G~~~~~la~~~~~~~v~gvD~s~~~l~~a~~~~~~~~~~~~~~~~~~nv~~~~~D~~~~  119 (246)
T 2vdv_E           48 TKKVTIADIGCGFGGLMIDLSPAFPEDLILGMEIRVQVTNYVEDRIIALRNNTASKHGFQNINVLRGNAMKF  119 (246)
T ss_dssp             SCCEEEEEETCTTSHHHHHHHHHSTTSEEEEEESCHHHHHHHHHHHHHHHHTC-CCSTTTTEEEEECCTTSC
T ss_pred             CCCCEEEEEcCCCCHHHHHHHHhCCCCCEEEEEcCHHHHHHHHHHHHHHhhccccccCCCcEEEEeccHHHH
Confidence            4568999999999999999999999999999996 66765542              236899999999873

>1dus_A MJ0882; hypothetical protein, methanococcus jannaschii, structural genomics, BSGC structure funded by NIH; 1.80A {Methanocaldococcus jannaschii} SCOP: c.66.1.4

Probab=98.17  E-value=3.6e-06  Score=67.27  Aligned_cols=78  Identities=21%  Similarity=0.226  Sum_probs=61.8

Q ss_pred             HHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC------C--CceEEecccCCcCCC-C
Q 024350          183 KVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY------P--GIDHVGGDLFESVPK-A  252 (269)
Q Consensus       183 ~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~------~--ri~~~~gD~~~~~P~-g  252 (269)
                      .+++.+. .....+|+|||||+|.++..+++.  ..+++++|+ |..++.+++.      +  |++++.+|+.+..+. .
T Consensus        43 ~l~~~~~-~~~~~~vLdiG~G~G~~~~~~~~~--~~~v~~~D~~~~~~~~a~~~~~~~~~~~~~~~~~~~d~~~~~~~~~  119 (194)
T 1dus_A           43 ILVENVV-VDKDDDILDLGCGYGVIGIALADE--VKSTTMADINRRAIKLAKENIKLNNLDNYDIRVVHSDLYENVKDRK  119 (194)
T ss_dssp             HHHHHCC-CCTTCEEEEETCTTSHHHHHHGGG--SSEEEEEESCHHHHHHHHHHHHHTTCTTSCEEEEECSTTTTCTTSC
T ss_pred             HHHHHcc-cCCCCeEEEeCCCCCHHHHHHHHc--CCeEEEEECCHHHHHHHHHHHHHcCCCccceEEEECchhcccccCC
Confidence            4455555 556689999999999999999988  778999997 7777766542      3  599999999986654 4


Q ss_pred             -cEEEecccccc
Q 024350          253 -DTIFMKVICVC  263 (269)
Q Consensus       253 -D~~~l~~iLhd  263 (269)
                       |++++...+|.
T Consensus       120 ~D~v~~~~~~~~  131 (194)
T 1dus_A          120 YNKIITNPPIRA  131 (194)
T ss_dssp             EEEEEECCCSTT
T ss_pred             ceEEEECCCccc
Confidence             99999887773

>1y8c_A S-adenosylmethionine-dependent methyltransferase; structural genomics, protein structure initiative, PSI; 2.50A {Clostridium acetobutylicum} SCOP: c.66.1.43

Probab=98.17  E-value=2.3e-06  Score=71.24  Aligned_cols=72  Identities=14%  Similarity=0.123  Sum_probs=59.4

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-----CCceEEecccCC-cCCCC-cEEEecc-cccc
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-----PGIDHVGGDLFE-SVPKA-DTIFMKV-ICVC  263 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-----~ri~~~~gD~~~-~~P~g-D~~~l~~-iLhd  263 (269)
                      ...+|||||||+|.++..+++.  ..+++++|. |.+++.+++.     .+++++.+|+.+ +.+.. |++++.. +||.
T Consensus        37 ~~~~vLdiG~G~G~~~~~l~~~--~~~~~~~D~s~~~~~~a~~~~~~~~~~~~~~~~d~~~~~~~~~fD~v~~~~~~l~~  114 (246)
T 1y8c_A           37 VFDDYLDLACGTGNLTENLCPK--FKNTWAVDLSQEMLSEAENKFRSQGLKPRLACQDISNLNINRKFDLITCCLDSTNY  114 (246)
T ss_dssp             CTTEEEEETCTTSTTHHHHGGG--SSEEEEECSCHHHHHHHHHHHHHTTCCCEEECCCGGGCCCSCCEEEEEECTTGGGG
T ss_pred             CCCeEEEeCCCCCHHHHHHHHC--CCcEEEEECCHHHHHHHHHHHhhcCCCeEEEecccccCCccCCceEEEEcCccccc
Confidence            4579999999999999999988  467899997 7888776643     289999999987 55544 9999998 9998


Q ss_pred             CCC
Q 024350          264 YLN  266 (269)
Q Consensus       264 ~~d  266 (269)
                      +++
T Consensus       115 ~~~  117 (246)
T 1y8c_A          115 IID  117 (246)
T ss_dssp             CCS
T ss_pred             cCC
Confidence            843

>2y1w_A Histone-arginine methyltransferase CARM1; histone modification; HET: SFG 849; 2.10A {Homo sapiens} PDB: 2y1x_A* 3b3f_A* 3b3g_A 2v74_B* 2v7e_A

Probab=98.16  E-value=3.3e-06  Score=75.12  Aligned_cols=83  Identities=20%  Similarity=0.167  Sum_probs=63.9

Q ss_pred             HHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeehhHHHHhCCC-------CCCceEEecccCC-cCCCC-c
Q 024350          183 KVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPS-------YPGIDHVGGDLFE-SVPKA-D  253 (269)
Q Consensus       183 ~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp~vv~~a~~-------~~ri~~~~gD~~~-~~P~g-D  253 (269)
                      .+++.+. ..+..+|||||||+|.++..++++ +..+++.+|..+.++.+++       .++|+++.+|+.+ +.|.. |
T Consensus        41 ~i~~~l~-~~~~~~VLDiGcGtG~ls~~la~~-g~~~V~~vD~s~~~~~a~~~~~~~~l~~~v~~~~~d~~~~~~~~~~D  118 (348)
T 2y1w_A           41 AILQNHT-DFKDKIVLDVGCGSGILSFFAAQA-GARKIYAVEASTMAQHAEVLVKSNNLTDRIVVIPGKVEEVSLPEQVD  118 (348)
T ss_dssp             HHHHTGG-GTTTCEEEEETCTTSHHHHHHHHT-TCSEEEEEECSTHHHHHHHHHHHTTCTTTEEEEESCTTTCCCSSCEE
T ss_pred             HHHhccc-cCCcCEEEEcCCCccHHHHHHHhC-CCCEEEEECCHHHHHHHHHHHHHcCCCCcEEEEEcchhhCCCCCcee
Confidence            3445544 345579999999999999998875 6678999998666655543       1789999999988 56654 9


Q ss_pred             EEEeccccccCCCC
Q 024350          254 TIFMKVICVCYLNS  267 (269)
Q Consensus       254 ~~~l~~iLhd~~d~  267 (269)
                      +++...++|.|..+
T Consensus       119 ~Ivs~~~~~~~~~~  132 (348)
T 2y1w_A          119 IIISEPMGYMLFNE  132 (348)
T ss_dssp             EEEECCCBTTBTTT
T ss_pred             EEEEeCchhcCChH
Confidence            99999888877654

>3iv6_A Putative Zn-dependent alcohol dehydrogenase; alpha/beta fold, rossmann-fold, structural genomics, PSI-2, structure initiative; HET: SAM; 2.70A {Rhodobacter sphaeroides}

Probab=98.16  E-value=1.4e-06  Score=74.54  Aligned_cols=83  Identities=8%  Similarity=0.052  Sum_probs=58.0

Q ss_pred             HHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCCCCceEEecccCC-cC------CCC-
Q 024350          182 EKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSYPGIDHVGGDLFE-SV------PKA-  252 (269)
Q Consensus       182 ~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~~ri~~~~gD~~~-~~------P~g-  252 (269)
                      ..++..++ .....+|||||||+|.++..++++  ..+++.+|+ |.+++.+++.-+-.++.+|+.+ +.      +.. 
T Consensus        35 ~~il~~l~-l~~g~~VLDlGcGtG~~a~~La~~--g~~V~gvD~S~~ml~~Ar~~~~~~~v~~~~~~~~~~~~~~~~~~f  111 (261)
T 3iv6_A           35 ENDIFLEN-IVPGSTVAVIGASTRFLIEKALER--GASVTVFDFSQRMCDDLAEALADRCVTIDLLDITAEIPKELAGHF  111 (261)
T ss_dssp             HHHHHTTT-CCTTCEEEEECTTCHHHHHHHHHT--TCEEEEEESCHHHHHHHHHHTSSSCCEEEECCTTSCCCGGGTTCC
T ss_pred             HHHHHhcC-CCCcCEEEEEeCcchHHHHHHHhc--CCEEEEEECCHHHHHHHHHHHHhccceeeeeecccccccccCCCc
Confidence            34555555 566689999999999999999987  457899997 7788777643111133444433 22      223 


Q ss_pred             cEEEeccccccCCCC
Q 024350          253 DTIFMKVICVCYLNS  267 (269)
Q Consensus       253 D~~~l~~iLhd~~d~  267 (269)
                      |+++...+||.|+++
T Consensus       112 D~Vv~~~~l~~~~~~  126 (261)
T 3iv6_A          112 DFVLNDRLINRFTTE  126 (261)
T ss_dssp             SEEEEESCGGGSCHH
T ss_pred             cEEEEhhhhHhCCHH
Confidence            999999999988653

>1jsx_A Glucose-inhibited division protein B; methyltransferase fold, structural genomics, PSI, protein structure initiative; 2.40A {Escherichia coli} SCOP: c.66.1.20

Probab=98.14  E-value=2.2e-06  Score=69.90  Aligned_cols=66  Identities=17%  Similarity=0.128  Sum_probs=54.5

Q ss_pred             ccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC------CCCceEEecccCCcCCC-C-cEEEecc
Q 024350          194 VKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS------YPGIDHVGGDLFESVPK-A-DTIFMKV  259 (269)
Q Consensus       194 ~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~------~~ri~~~~gD~~~~~P~-g-D~~~l~~  259 (269)
                      ..+|+|||||+|.++..+++.+|+.+++++|. |..++.++.      .++|+++.+|+.+..|. . |+++...
T Consensus        66 ~~~vLDiG~G~G~~~~~l~~~~~~~~v~~vD~s~~~~~~a~~~~~~~~~~~v~~~~~d~~~~~~~~~~D~i~~~~  140 (207)
T 1jsx_A           66 GERFIDVGTGPGLPGIPLSIVRPEAHFTLLDSLGKRVRFLRQVQHELKLENIEPVQSRVEEFPSEPPFDGVISRA  140 (207)
T ss_dssp             SSEEEEETCTTTTTHHHHHHHCTTSEEEEEESCHHHHHHHHHHHHHTTCSSEEEEECCTTTSCCCSCEEEEECSC
T ss_pred             CCeEEEECCCCCHHHHHHHHHCCCCEEEEEeCCHHHHHHHHHHHHHcCCCCeEEEecchhhCCccCCcCEEEEec
Confidence            46999999999999999999999999999997 777776654      24599999999885453 4 9988643

>1wzn_A SAM-dependent methyltransferase; structural genomics, riken structural genomics/proteomics initiative, RSGI; HET: SAH; 1.90A {Pyrococcus horikoshii} SCOP: c.66.1.43

Probab=98.14  E-value=5.2e-06  Score=69.70  Aligned_cols=80  Identities=16%  Similarity=0.279  Sum_probs=59.5

Q ss_pred             HHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-----CCceEEecccCC-cCCCC-cE
Q 024350          183 KVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-----PGIDHVGGDLFE-SVPKA-DT  254 (269)
Q Consensus       183 ~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-----~ri~~~~gD~~~-~~P~g-D~  254 (269)
                      .++.... .....+|||||||+|.++..+++.  +.+++++|+ |.+++.+++.     .+++++.+|+.+ +.+.. |+
T Consensus        32 ~~~~~~~-~~~~~~vLDlGcG~G~~~~~l~~~--~~~v~gvD~s~~~l~~a~~~~~~~~~~v~~~~~d~~~~~~~~~fD~  108 (252)
T 1wzn_A           32 EIFKEDA-KREVRRVLDLACGTGIPTLELAER--GYEVVGLDLHEEMLRVARRKAKERNLKIEFLQGDVLEIAFKNEFDA  108 (252)
T ss_dssp             HHHHHTC-SSCCCEEEEETCTTCHHHHHHHHT--TCEEEEEESCHHHHHHHHHHHHHTTCCCEEEESCGGGCCCCSCEEE
T ss_pred             HHHHHhc-ccCCCEEEEeCCCCCHHHHHHHHC--CCeEEEEECCHHHHHHHHHHHHhcCCceEEEECChhhcccCCCccE
Confidence            3444443 345579999999999999999987  568999998 7888776542     479999999988 45544 99


Q ss_pred             EEec-cccccCC
Q 024350          255 IFMK-VICVCYL  265 (269)
Q Consensus       255 ~~l~-~iLhd~~  265 (269)
                      +++. ..+|.++
T Consensus       109 v~~~~~~~~~~~  120 (252)
T 1wzn_A          109 VTMFFSTIMYFD  120 (252)
T ss_dssp             EEECSSGGGGSC
T ss_pred             EEEcCCchhcCC
Confidence            8875 4455443

>1vbf_A 231AA long hypothetical protein-L-isoaspartate O- methyltransferase; trimeric coiled coil assembly; 2.80A {Sulfolobus tokodaii} SCOP: c.66.1.7

Probab=98.13  E-value=3.7e-06  Score=69.76  Aligned_cols=81  Identities=16%  Similarity=0.207  Sum_probs=63.7

Q ss_pred             HHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC----CCceEEecccCCcCC-C-C-cE
Q 024350          183 KVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY----PGIDHVGGDLFESVP-K-A-DT  254 (269)
Q Consensus       183 ~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~----~ri~~~~gD~~~~~P-~-g-D~  254 (269)
                      .+++.+. .....+|+|||||+|.++..+++..  .+++++|. |..++.+++.    .+++++.+|+.+..| . . |+
T Consensus        61 ~~~~~~~-~~~~~~vLdiG~G~G~~~~~l~~~~--~~v~~vD~~~~~~~~a~~~~~~~~~v~~~~~d~~~~~~~~~~fD~  137 (231)
T 1vbf_A           61 FMLDELD-LHKGQKVLEIGTGIGYYTALIAEIV--DKVVSVEINEKMYNYASKLLSYYNNIKLILGDGTLGYEEEKPYDR  137 (231)
T ss_dssp             HHHHHTT-CCTTCEEEEECCTTSHHHHHHHHHS--SEEEEEESCHHHHHHHHHHHTTCSSEEEEESCGGGCCGGGCCEEE
T ss_pred             HHHHhcC-CCCCCEEEEEcCCCCHHHHHHHHHc--CEEEEEeCCHHHHHHHHHHHhhcCCeEEEECCcccccccCCCccE
Confidence            3445555 5566799999999999999999987  67899997 7777766542    389999999987544 2 3 99


Q ss_pred             EEeccccccCCC
Q 024350          255 IFMKVICVCYLN  266 (269)
Q Consensus       255 ~~l~~iLhd~~d  266 (269)
                      +++..++|.+++
T Consensus       138 v~~~~~~~~~~~  149 (231)
T 1vbf_A          138 VVVWATAPTLLC  149 (231)
T ss_dssp             EEESSBBSSCCH
T ss_pred             EEECCcHHHHHH
Confidence            999999997753

>3ckk_A TRNA (guanine-N(7)-)-methyltransferase; mettl1, S-adenosyl-L-methionine, tRNA Pro structural genomics, structural genomics consortium, SGC; HET: SAM; 1.55A {Homo sapiens}

Probab=98.13  E-value=4.8e-06  Score=69.94  Aligned_cols=65  Identities=15%  Similarity=0.327  Sum_probs=52.7

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCC------------CCCCceEEecccCC--c--CCCC--c
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAP------------SYPGIDHVGGDLFE--S--VPKA--D  253 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~------------~~~ri~~~~gD~~~--~--~P~g--D  253 (269)
                      +..+|||||||+|.++..+++.+|+.+++++|+ +.+++.|+            ..++|+++.+|+.+  +  ++.+  |
T Consensus        46 ~~~~vLDiGcG~G~~~~~la~~~p~~~v~GiDis~~~l~~A~~~~~~l~~~~~~~~~nv~~~~~d~~~~l~~~~~~~~~D  125 (235)
T 3ckk_A           46 AQVEFADIGCGYGGLLVELSPLFPDTLILGLEIRVKVSDYVQDRIRALRAAPAGGFQNIACLRSNAMKHLPNFFYKGQLT  125 (235)
T ss_dssp             CCEEEEEETCTTCHHHHHHGGGSTTSEEEEEESCHHHHHHHHHHHHHHHHSTTCCCTTEEEEECCTTTCHHHHCCTTCEE
T ss_pred             CCCeEEEEccCCcHHHHHHHHHCCCCeEEEEECCHHHHHHHHHHHHHHHHHHhcCCCeEEEEECcHHHhhhhhCCCcCee
Confidence            457899999999999999999999999999997 67765432            23789999999986  2  4544  8


Q ss_pred             EEEe
Q 024350          254 TIFM  257 (269)
Q Consensus       254 ~~~l  257 (269)
                      .+++
T Consensus       126 ~v~~  129 (235)
T 3ckk_A          126 KMFF  129 (235)
T ss_dssp             EEEE
T ss_pred             EEEE
Confidence            7765

>3gjy_A Spermidine synthase; APC62791, structural genomics, PSI-2, protein structure initiative; HET: MSE; 1.47A {Corynebacterium glutamicum atcc 13032}

Probab=98.13  E-value=2.4e-06  Score=74.90  Aligned_cols=68  Identities=18%  Similarity=0.246  Sum_probs=56.3

Q ss_pred             cEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC------CCCceEEecccCC---cCCC-C-cEEEeccccc
Q 024350          195 KKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS------YPGIDHVGGDLFE---SVPK-A-DTIFMKVICV  262 (269)
Q Consensus       195 ~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~------~~ri~~~~gD~~~---~~P~-g-D~~~l~~iLh  262 (269)
                      .+|||||||.|.+++.+++++|+.+.+++|+ |.+++.+++      .+|++++.+|.++   ..+. . |+|++.-..|
T Consensus        91 ~rVLdIG~G~G~la~~la~~~p~~~v~~VEidp~vi~~Ar~~~~~~~~~rv~v~~~Da~~~l~~~~~~~fDvIi~D~~~~  170 (317)
T 3gjy_A           91 LRITHLGGGACTMARYFADVYPQSRNTVVELDAELARLSREWFDIPRAPRVKIRVDDARMVAESFTPASRDVIIRDVFAG  170 (317)
T ss_dssp             CEEEEESCGGGHHHHHHHHHSTTCEEEEEESCHHHHHHHHHHSCCCCTTTEEEEESCHHHHHHTCCTTCEEEEEECCSTT
T ss_pred             CEEEEEECCcCHHHHHHHHHCCCcEEEEEECCHHHHHHHHHhccccCCCceEEEECcHHHHHhhccCCCCCEEEECCCCc
Confidence            4999999999999999999999999999998 888887764      2799999999876   2443 4 9998754433

>2pwy_A TRNA (adenine-N(1)-)-methyltransferase; mtase, adoMet, TRMI, tRNA-M1A58; HET: SAH; 1.70A {Thermus thermophilus}

Probab=98.12  E-value=6.1e-06  Score=69.48  Aligned_cols=74  Identities=14%  Similarity=0.147  Sum_probs=60.7

Q ss_pred             HHHHhccCCCCccEEEEeCCCchHHHHHHHHH-CCCCeEEEeeh-hHHHHhCCC-------CCCceEEecccCCc-CCC-
Q 024350          183 KVLESYKGFEHVKKLVDVGGGLGATLNMIISK-YPHIKGINYDL-LYVIKNAPS-------YPGIDHVGGDLFES-VPK-  251 (269)
Q Consensus       183 ~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~-~P~l~~vv~Dl-p~vv~~a~~-------~~ri~~~~gD~~~~-~P~-  251 (269)
                      .++..++ +....+|||+|||+|.++..+++. .|..+++.+|. |..++.+++       .++|+++.+|+.+. +|. 
T Consensus        87 ~~~~~~~-~~~~~~vLdiG~G~G~~~~~l~~~~~~~~~v~~~D~~~~~~~~a~~~~~~~~g~~~v~~~~~d~~~~~~~~~  165 (258)
T 2pwy_A           87 AMVTLLD-LAPGMRVLEAGTGSGGLTLFLARAVGEKGLVESYEARPHHLAQAERNVRAFWQVENVRFHLGKLEEAELEEA  165 (258)
T ss_dssp             HHHHHTT-CCTTCEEEEECCTTSHHHHHHHHHHCTTSEEEEEESCHHHHHHHHHHHHHHCCCCCEEEEESCGGGCCCCTT
T ss_pred             HHHHHcC-CCCCCEEEEECCCcCHHHHHHHHHhCCCCEEEEEeCCHHHHHHHHHHHHHhcCCCCEEEEECchhhcCCCCC
Confidence            4556666 666789999999999999999999 78999999997 777776653       36899999999884 774 


Q ss_pred             C-cEEEe
Q 024350          252 A-DTIFM  257 (269)
Q Consensus       252 g-D~~~l  257 (269)
                      . |++++
T Consensus       166 ~~D~v~~  172 (258)
T 2pwy_A          166 AYDGVAL  172 (258)
T ss_dssp             CEEEEEE
T ss_pred             CcCEEEE
Confidence            3 99887

>2pxx_A Uncharacterized protein MGC2408; structural genomics consortium, SGC, methyltransferase, LOC84291, transferase; HET: SAH; 1.30A {Homo sapiens}

Probab=98.11  E-value=2.1e-06  Score=70.02  Aligned_cols=72  Identities=14%  Similarity=0.104  Sum_probs=58.4

Q ss_pred             CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC----CCCceEEecccCC-cCCC-C-cEEEecccccc
Q 024350          192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS----YPGIDHVGGDLFE-SVPK-A-DTIFMKVICVC  263 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~----~~ri~~~~gD~~~-~~P~-g-D~~~l~~iLhd  263 (269)
                      ....+|||||||+|.++..+++..+. +++++|+ |.+++.+++    .++++++.+|+.+ +++. . |+++...++|.
T Consensus        41 ~~~~~vLdiGcG~G~~~~~l~~~~~~-~v~~~D~s~~~~~~a~~~~~~~~~i~~~~~d~~~~~~~~~~fD~v~~~~~~~~  119 (215)
T 2pxx_A           41 RPEDRILVLGCGNSALSYELFLGGFP-NVTSVDYSSVVVAAMQACYAHVPQLRWETMDVRKLDFPSASFDVVLEKGTLDA  119 (215)
T ss_dssp             CTTCCEEEETCTTCSHHHHHHHTTCC-CEEEEESCHHHHHHHHHHTTTCTTCEEEECCTTSCCSCSSCEEEEEEESHHHH
T ss_pred             CCCCeEEEECCCCcHHHHHHHHcCCC-cEEEEeCCHHHHHHHHHhcccCCCcEEEEcchhcCCCCCCcccEEEECcchhh
Confidence            34579999999999999999998775 8899997 777766553    3689999999988 6664 4 99998888764


Q ss_pred             C
Q 024350          264 Y  264 (269)
Q Consensus       264 ~  264 (269)
                      .
T Consensus       120 ~  120 (215)
T 2pxx_A          120 L  120 (215)
T ss_dssp             H
T ss_pred             h
Confidence            3

>2fyt_A Protein arginine N-methyltransferase 3; structural genomics, structural genomics consortium, SGC; HET: SAH; 2.00A {Homo sapiens} SCOP: c.66.1.6 PDB: 3smq_A* 1f3l_A*

Probab=98.11  E-value=6.8e-06  Score=72.83  Aligned_cols=75  Identities=20%  Similarity=0.235  Sum_probs=57.7

Q ss_pred             HHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeehhHHHHhCCCC-------CCceEEecccCC-cCC-CC-c
Q 024350          184 VLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPSY-------PGIDHVGGDLFE-SVP-KA-D  253 (269)
Q Consensus       184 ~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp~vv~~a~~~-------~ri~~~~gD~~~-~~P-~g-D  253 (269)
                      +.+... ..+..+|||||||+|.++..++++ +..+++++|..++++.+++.       ++|+++.+|+.+ ++| +. |
T Consensus        56 i~~~~~-~~~~~~VLDiGcGtG~ls~~la~~-g~~~v~gvD~s~~~~~a~~~~~~~~~~~~i~~~~~d~~~~~~~~~~~D  133 (340)
T 2fyt_A           56 IYQNPH-IFKDKVVLDVGCGTGILSMFAAKA-GAKKVLGVDQSEILYQAMDIIRLNKLEDTITLIKGKIEEVHLPVEKVD  133 (340)
T ss_dssp             HHHCGG-GTTTCEEEEETCTTSHHHHHHHHT-TCSEEEEEESSTHHHHHHHHHHHTTCTTTEEEEESCTTTSCCSCSCEE
T ss_pred             HHhhhh-hcCCCEEEEeeccCcHHHHHHHHc-CCCEEEEEChHHHHHHHHHHHHHcCCCCcEEEEEeeHHHhcCCCCcEE
Confidence            334444 445679999999999999999987 55689999986677666542       789999999988 677 34 9


Q ss_pred             EEEeccc
Q 024350          254 TIFMKVI  260 (269)
Q Consensus       254 ~~~l~~i  260 (269)
                      +++...+
T Consensus       134 ~Ivs~~~  140 (340)
T 2fyt_A          134 VIISEWM  140 (340)
T ss_dssp             EEEECCC
T ss_pred             EEEEcCc
Confidence            9997664

>1nv8_A HEMK protein; class I adoMet-dependent methyltransferase; HET: SAM MEQ; 2.20A {Thermotoga maritima} SCOP: c.66.1.30 PDB: 1nv9_A* 1vq1_A* 1sg9_A*

Probab=98.11  E-value=2.6e-06  Score=73.66  Aligned_cols=65  Identities=18%  Similarity=0.190  Sum_probs=55.0

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-------CCceEEecccCCcCC-CC---cEEEec
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-------PGIDHVGGDLFESVP-KA---DTIFMK  258 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~~~P-~g---D~~~l~  258 (269)
                      ...+|+|||||+|.++..+++. |+.+++.+|+ |..++.++++       .||+++.+|++++.+ +-   |+++..
T Consensus       123 ~~~~vLDlG~GsG~~~~~la~~-~~~~v~~vDis~~al~~A~~n~~~~~l~~~v~~~~~D~~~~~~~~f~~~D~Ivsn  199 (284)
T 1nv8_A          123 GIKTVADIGTGSGAIGVSVAKF-SDAIVFATDVSSKAVEIARKNAERHGVSDRFFVRKGEFLEPFKEKFASIEMILSN  199 (284)
T ss_dssp             TCCEEEEESCTTSHHHHHHHHH-SSCEEEEEESCHHHHHHHHHHHHHTTCTTSEEEEESSTTGGGGGGTTTCCEEEEC
T ss_pred             CCCEEEEEeCchhHHHHHHHHC-CCCEEEEEECCHHHHHHHHHHHHHcCCCCceEEEECcchhhcccccCCCCEEEEc
Confidence            3468999999999999999999 9999999998 8888777642       479999999998655 45   988875

>1vlm_A SAM-dependent methyltransferase; possible histamine methyltransferase, structural genomics, JCSG, protein struc initiative, PSI; 2.20A {Thermotoga maritima} SCOP: c.66.1.41

Probab=98.11  E-value=3.4e-06  Score=69.57  Aligned_cols=66  Identities=17%  Similarity=0.112  Sum_probs=55.4

Q ss_pred             ccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCCCCceEEecccCC-cCCC-C-cEEEeccccccCCC
Q 024350          194 VKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSYPGIDHVGGDLFE-SVPK-A-DTIFMKVICVCYLN  266 (269)
Q Consensus       194 ~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~~ri~~~~gD~~~-~~P~-g-D~~~l~~iLhd~~d  266 (269)
                      ..+|||||||+|.++..++++      +++|. |..++.+++. +++++.+|+.+ +.+. . |++++..+||.+++
T Consensus        48 ~~~vLDiG~G~G~~~~~l~~~------~~vD~s~~~~~~a~~~-~~~~~~~d~~~~~~~~~~fD~v~~~~~l~~~~~  117 (219)
T 1vlm_A           48 EGRGVEIGVGTGRFAVPLKIK------IGVEPSERMAEIARKR-GVFVLKGTAENLPLKDESFDFALMVTTICFVDD  117 (219)
T ss_dssp             SSCEEEETCTTSTTHHHHTCC------EEEESCHHHHHHHHHT-TCEEEECBTTBCCSCTTCEEEEEEESCGGGSSC
T ss_pred             CCcEEEeCCCCCHHHHHHHHH------hccCCCHHHHHHHHhc-CCEEEEcccccCCCCCCCeeEEEEcchHhhccC
Confidence            579999999999999998765      88897 7777776655 89999999877 5554 4 99999999998865

>1fbn_A MJ fibrillarin homologue; MJ proteins, ribosomal RNA processing, snoRNP, structural genomics, BSGC structure funded by NIH; 1.60A {Methanocaldococcus jannaschii} SCOP: c.66.1.3 PDB: 1g8s_A

Probab=98.10  E-value=1.2e-05  Score=66.97  Aligned_cols=72  Identities=13%  Similarity=0.130  Sum_probs=55.6

Q ss_pred             CCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHh----CCCCCCceEEecccCCc---CC--CC-cEEEecc
Q 024350          191 FEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKN----APSYPGIDHVGGDLFES---VP--KA-DTIFMKV  259 (269)
Q Consensus       191 ~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~----a~~~~ri~~~~gD~~~~---~P--~g-D~~~l~~  259 (269)
                      +....+|+|||||+|.++..+++.+|+.+++.+|. |..++.    ++..++++++.+|+.++   .|  .. |+++   
T Consensus        72 ~~~~~~VLDlGcG~G~~~~~la~~~~~~~v~gvD~s~~~~~~a~~~~~~~~~v~~~~~d~~~~~~~~~~~~~~D~v~---  148 (230)
T 1fbn_A           72 IKRDSKILYLGASAGTTPSHVADIADKGIVYAIEYAPRIMRELLDACAERENIIPILGDANKPQEYANIVEKVDVIY---  148 (230)
T ss_dssp             CCTTCEEEEESCCSSHHHHHHHHHTTTSEEEEEESCHHHHHHHHHHTTTCTTEEEEECCTTCGGGGTTTSCCEEEEE---
T ss_pred             CCCCCEEEEEcccCCHHHHHHHHHcCCcEEEEEECCHHHHHHHHHHhhcCCCeEEEECCCCCcccccccCccEEEEE---
Confidence            45567999999999999999999999889999997 666644    34458899999999762   22  33 8877   


Q ss_pred             ccccCCCC
Q 024350          260 ICVCYLNS  267 (269)
Q Consensus       260 iLhd~~d~  267 (269)
                        |+.++.
T Consensus       149 --~~~~~~  154 (230)
T 1fbn_A          149 --EDVAQP  154 (230)
T ss_dssp             --ECCCST
T ss_pred             --EecCCh
Confidence              555543

>1ne2_A Hypothetical protein TA1320; structural genomics, conserved hypothetical protein, PSI, protein structure initiative; 1.75A {Thermoplasma acidophilum} SCOP: c.66.1.32

Probab=98.10  E-value=3.1e-06  Score=68.73  Aligned_cols=73  Identities=18%  Similarity=0.151  Sum_probs=56.7

Q ss_pred             CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-CCceEEecccCCcCCCC-cEEEeccccccCCC
Q 024350          192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-PGIDHVGGDLFESVPKA-DTIFMKVICVCYLN  266 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-~ri~~~~gD~~~~~P~g-D~~~l~~iLhd~~d  266 (269)
                      ....+|+|||||+|.++..+++. +..+++.+|+ |..++.+++. .+++++.+|+.+ +|.. |++++...+|.+++
T Consensus        50 ~~~~~vlD~gcG~G~~~~~l~~~-~~~~v~~vD~~~~~~~~a~~~~~~~~~~~~d~~~-~~~~~D~v~~~~p~~~~~~  125 (200)
T 1ne2_A           50 IGGRSVIDAGTGNGILACGSYLL-GAESVTAFDIDPDAIETAKRNCGGVNFMVADVSE-ISGKYDTWIMNPPFGSVVK  125 (200)
T ss_dssp             SBTSEEEEETCTTCHHHHHHHHT-TBSEEEEEESCHHHHHHHHHHCTTSEEEECCGGG-CCCCEEEEEECCCC-----
T ss_pred             CCCCEEEEEeCCccHHHHHHHHc-CCCEEEEEECCHHHHHHHHHhcCCCEEEECcHHH-CCCCeeEEEECCCchhccC
Confidence            35579999999999999999987 5557999998 7888777653 489999999987 4544 99999999988765

>1ej0_A FTSJ; methyltransferase, adoMet, adenosyl methionine, heat shock proteins, 23S ribosomal RNA; HET: SAM; 1.50A {Escherichia coli} SCOP: c.66.1.2 PDB: 1eiz_A*

Probab=98.08  E-value=1e-05  Score=63.41  Aligned_cols=79  Identities=20%  Similarity=0.232  Sum_probs=60.9

Q ss_pred             HHHHhccCCCCccEEEEeCCCchHHHHHHHHHC-CCCeEEEeehhHHHHhCCCCCCceEEecccCC-c--------CCC-
Q 024350          183 KVLESYKGFEHVKKLVDVGGGLGATLNMIISKY-PHIKGINYDLLYVIKNAPSYPGIDHVGGDLFE-S--------VPK-  251 (269)
Q Consensus       183 ~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~-P~l~~vv~Dlp~vv~~a~~~~ri~~~~gD~~~-~--------~P~-  251 (269)
                      .+++.+.......+|+|||||+|.++..+++.+ |+.+++++|+.+++    ..++++++.+|+.+ +        ++. 
T Consensus        12 ~~~~~~~~~~~~~~vLd~G~G~G~~~~~l~~~~~~~~~v~~~D~~~~~----~~~~~~~~~~d~~~~~~~~~~~~~~~~~   87 (180)
T 1ej0_A           12 EIQQSDKLFKPGMTVVDLGAAPGGWSQYVVTQIGGKGRIIACDLLPMD----PIVGVDFLQGDFRDELVMKALLERVGDS   87 (180)
T ss_dssp             HHHHHHCCCCTTCEEEEESCTTCHHHHHHHHHHCTTCEEEEEESSCCC----CCTTEEEEESCTTSHHHHHHHHHHHTTC
T ss_pred             HHHHHhCCCCCCCeEEEeCCCCCHHHHHHHHHhCCCCeEEEEECcccc----ccCcEEEEEcccccchhhhhhhccCCCC
Confidence            344444423455799999999999999999995 78999999986622    23789999999988 4        664 


Q ss_pred             C-cEEEeccccccCC
Q 024350          252 A-DTIFMKVICVCYL  265 (269)
Q Consensus       252 g-D~~~l~~iLhd~~  265 (269)
                      . |+++....+|..+
T Consensus        88 ~~D~i~~~~~~~~~~  102 (180)
T 1ej0_A           88 KVQVVMSDMAPNMSG  102 (180)
T ss_dssp             CEEEEEECCCCCCCS
T ss_pred             ceeEEEECCCccccC
Confidence            4 9999988887554

>3grz_A L11 mtase, ribosomal protein L11 methyltransferase; methylase, SAM-binding domain, PSI-2, nysgxrc; 2.00A {Lactobacillus delbrueckii subsp}

Probab=98.08  E-value=5.9e-06  Score=67.26  Aligned_cols=71  Identities=17%  Similarity=0.105  Sum_probs=56.8

Q ss_pred             CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC------CCceEEecccCCcCCCC-cEEEecccccc
Q 024350          192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFESVPKA-DTIFMKVICVC  263 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~~~P~g-D~~~l~~iLhd  263 (269)
                      ....+|||||||+|.++..+++ +|..+++++|+ |..++.+++.      +.++++.+|+.+..++. |++++...+|.
T Consensus        59 ~~~~~vLDiG~G~G~~~~~l~~-~~~~~v~~vD~s~~~~~~a~~~~~~~~~~~v~~~~~d~~~~~~~~fD~i~~~~~~~~  137 (205)
T 3grz_A           59 VKPLTVADVGTGSGILAIAAHK-LGAKSVLATDISDESMTAAEENAALNGIYDIALQKTSLLADVDGKFDLIVANILAEI  137 (205)
T ss_dssp             SSCCEEEEETCTTSHHHHHHHH-TTCSEEEEEESCHHHHHHHHHHHHHTTCCCCEEEESSTTTTCCSCEEEEEEESCHHH
T ss_pred             cCCCEEEEECCCCCHHHHHHHH-CCCCEEEEEECCHHHHHHHHHHHHHcCCCceEEEeccccccCCCCceEEEECCcHHH
Confidence            3457999999999999999775 67789999998 7777766542      34999999998855555 99998777664

>3ntv_A MW1564 protein; rossmann fold, putative methyltransferase, transferase; HET: MSE; 1.55A {Staphylococcus aureus}

Probab=98.07  E-value=2.1e-06  Score=71.73  Aligned_cols=68  Identities=21%  Similarity=0.323  Sum_probs=56.3

Q ss_pred             CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-------CCceEEecccCCcCC----CC-cEEEec
Q 024350          192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-------PGIDHVGGDLFESVP----KA-DTIFMK  258 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~~~P----~g-D~~~l~  258 (269)
                      .+..+|||||||+|..+..+++.+|+.+++.+|+ |..++.+++.       ++|+++.+|+.+..|    .. |++++.
T Consensus        70 ~~~~~vLDiG~G~G~~~~~la~~~~~~~v~~vD~~~~~~~~a~~~~~~~~~~~~v~~~~~d~~~~~~~~~~~~fD~V~~~  149 (232)
T 3ntv_A           70 NNVKNILEIGTAIGYSSMQFASISDDIHVTTIERNETMIQYAKQNLATYHFENQVRIIEGNALEQFENVNDKVYDMIFID  149 (232)
T ss_dssp             HTCCEEEEECCSSSHHHHHHHTTCTTCEEEEEECCHHHHHHHHHHHHHTTCTTTEEEEESCGGGCHHHHTTSCEEEEEEE
T ss_pred             cCCCEEEEEeCchhHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHHHHcCCCCcEEEEECCHHHHHHhhccCCccEEEEc
Confidence            3567999999999999999999999999999998 7888776542       589999999988544    33 999865


Q ss_pred             c
Q 024350          259 V  259 (269)
Q Consensus       259 ~  259 (269)
                      .
T Consensus       150 ~  150 (232)
T 3ntv_A          150 A  150 (232)
T ss_dssp             T
T ss_pred             C
Confidence            3

>1qam_A ERMC' methyltransferase; rRNA methyltransferase ERMC', cofactor analogs; 2.20A {Bacillus subtilis} SCOP: c.66.1.24 PDB: 1qan_A* 1qao_A* 1qaq_A* 2erc_A

Probab=98.07  E-value=4.5e-06  Score=70.48  Aligned_cols=77  Identities=12%  Similarity=0.245  Sum_probs=57.6

Q ss_pred             HHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC----CCCceEEecccCC-cCCC-CcE
Q 024350          182 EKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS----YPGIDHVGGDLFE-SVPK-ADT  254 (269)
Q Consensus       182 ~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~----~~ri~~~~gD~~~-~~P~-gD~  254 (269)
                      ..+++..+ .....+|+|||||+|.++..++++.  .+++++|+ |..++.+++    .++++++.+|+.+ +++. .+.
T Consensus        20 ~~i~~~~~-~~~~~~VLDiG~G~G~lt~~l~~~~--~~v~~vD~~~~~~~~a~~~~~~~~~v~~~~~D~~~~~~~~~~~~   96 (244)
T 1qam_A           20 DKIMTNIR-LNEHDNIFEIGSGKGHFTLELVQRC--NFVTAIEIDHKLCKTTENKLVDHDNFQVLNKDILQFKFPKNQSY   96 (244)
T ss_dssp             HHHHTTCC-CCTTCEEEEECCTTSHHHHHHHHHS--SEEEEECSCHHHHHHHHHHTTTCCSEEEECCCGGGCCCCSSCCC
T ss_pred             HHHHHhCC-CCCCCEEEEEeCCchHHHHHHHHcC--CeEEEEECCHHHHHHHHHhhccCCCeEEEEChHHhCCcccCCCe
Confidence            34555555 5566799999999999999999996  67899997 667765543    3789999999988 6664 354


Q ss_pred             EEecccc
Q 024350          255 IFMKVIC  261 (269)
Q Consensus       255 ~~l~~iL  261 (269)
                      .++.+.-
T Consensus        97 ~vv~nlP  103 (244)
T 1qam_A           97 KIFGNIP  103 (244)
T ss_dssp             EEEEECC
T ss_pred             EEEEeCC
Confidence            5555433

>3q7e_A Protein arginine N-methyltransferase 1; HET: SAH; 2.20A {Rattus norvegicus} PDB: 1orh_A* 1ori_A* 1or8_A*

Probab=98.06  E-value=5e-06  Score=73.95  Aligned_cols=71  Identities=21%  Similarity=0.236  Sum_probs=57.1

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeehhHHHHhCCC-------CCCceEEecccCC-cCCC-C-cEEEeccccc
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPS-------YPGIDHVGGDLFE-SVPK-A-DTIFMKVICV  262 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp~vv~~a~~-------~~ri~~~~gD~~~-~~P~-g-D~~~l~~iLh  262 (269)
                      ...+|||||||+|.++..++++ +..+++++|..++++.+++       .++|+++.+|+.+ ++|. . |+++...+.|
T Consensus        66 ~~~~VLDvGcG~G~~~~~la~~-g~~~v~gvD~s~~l~~a~~~~~~~~~~~~v~~~~~d~~~~~~~~~~fD~Iis~~~~~  144 (349)
T 3q7e_A           66 KDKVVLDVGSGTGILCMFAAKA-GARKVIGIECSSISDYAVKIVKANKLDHVVTIIKGKVEEVELPVEKVDIIISEWMGY  144 (349)
T ss_dssp             TTCEEEEESCTTSHHHHHHHHT-TCSEEEEEECSTHHHHHHHHHHHTTCTTTEEEEESCTTTCCCSSSCEEEEEECCCBB
T ss_pred             CCCEEEEEeccchHHHHHHHHC-CCCEEEEECcHHHHHHHHHHHHHcCCCCcEEEEECcHHHccCCCCceEEEEEccccc
Confidence            4579999999999999999988 7779999998777766653       2679999999998 6774 4 9999876544


Q ss_pred             cC
Q 024350          263 CY  264 (269)
Q Consensus       263 d~  264 (269)
                      ..
T Consensus       145 ~l  146 (349)
T 3q7e_A          145 CL  146 (349)
T ss_dssp             TB
T ss_pred             cc
Confidence            43

>2zfu_A Nucleomethylin, cerebral protein 1; nucleolar protein, SAM-binding protein, protein structure, N phosphoprotein, nuclear protein; HET: SAH; 2.00A {Homo sapiens}

Probab=98.04  E-value=8.2e-06  Score=66.85  Aligned_cols=69  Identities=13%  Similarity=0.043  Sum_probs=52.0

Q ss_pred             HHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeehhHHHHhCCCCCCceEEecccCC-cCCC-C-cEEEeccc
Q 024350          184 VLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPSYPGIDHVGGDLFE-SVPK-A-DTIFMKVI  260 (269)
Q Consensus       184 ~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp~vv~~a~~~~ri~~~~gD~~~-~~P~-g-D~~~l~~i  260 (269)
                      +++.+.......+|||||||+|.++..+.     .+++++|..+.        +++++.+|+.+ +.|. . |++++..+
T Consensus        58 ~~~~l~~~~~~~~vLDiG~G~G~~~~~l~-----~~v~~~D~s~~--------~~~~~~~d~~~~~~~~~~fD~v~~~~~  124 (215)
T 2zfu_A           58 IARDLRQRPASLVVADFGCGDCRLASSIR-----NPVHCFDLASL--------DPRVTVCDMAQVPLEDESVDVAVFCLS  124 (215)
T ss_dssp             HHHHHHTSCTTSCEEEETCTTCHHHHHCC-----SCEEEEESSCS--------STTEEESCTTSCSCCTTCEEEEEEESC
T ss_pred             HHHHHhccCCCCeEEEECCcCCHHHHHhh-----ccEEEEeCCCC--------CceEEEeccccCCCCCCCEeEEEEehh
Confidence            44443323455799999999999998873     57888997543        68899999988 5664 3 99999999


Q ss_pred             cccCCC
Q 024350          261 CVCYLN  266 (269)
Q Consensus       261 Lhd~~d  266 (269)
                      || |++
T Consensus       125 l~-~~~  129 (215)
T 2zfu_A          125 LM-GTN  129 (215)
T ss_dssp             CC-SSC
T ss_pred             cc-ccC
Confidence            98 543

>2h00_A Methyltransferase 10 domain containing protein; structural genomics, structural genomics consortium, SGC; HET: SAH; 2.00A {Homo sapiens} SCOP: c.66.1.54

Probab=98.03  E-value=4.2e-06  Score=70.63  Aligned_cols=71  Identities=10%  Similarity=0.061  Sum_probs=56.2

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-------CCceEEeccc----CCcCC----CC-cEE
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-------PGIDHVGGDL----FESVP----KA-DTI  255 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~----~~~~P----~g-D~~  255 (269)
                      ...+|||||||+|.++..+++++|+.+++.+|+ |.+++.++++       +||+++.+|.    +++++    .. |++
T Consensus        65 ~~~~vLDlG~G~G~~~~~la~~~~~~~v~gvD~s~~~~~~a~~~~~~~~~~~~v~~~~~d~~~~~~~~~~~~~~~~fD~i  144 (254)
T 2h00_A           65 TLRRGIDIGTGASCIYPLLGATLNGWYFLATEVDDMCFNYAKKNVEQNNLSDLIKVVKVPQKTLLMDALKEESEIIYDFC  144 (254)
T ss_dssp             CCCEEEEESCTTTTHHHHHHHHHHCCEEEEEESCHHHHHHHHHHHHHTTCTTTEEEEECCTTCSSTTTSTTCCSCCBSEE
T ss_pred             CCCEEEEeCCChhHHHHHHHHhCCCCeEEEEECCHHHHHHHHHHHHHcCCCccEEEEEcchhhhhhhhhhcccCCcccEE
Confidence            356999999999999999999999999999997 7888776542       5799999984    44555    23 999


Q ss_pred             Eecccccc
Q 024350          256 FMKVICVC  263 (269)
Q Consensus       256 ~l~~iLhd  263 (269)
                      +..-.+|.
T Consensus       145 ~~npp~~~  152 (254)
T 2h00_A          145 MCNPPFFA  152 (254)
T ss_dssp             EECCCCC-
T ss_pred             EECCCCcc
Confidence            88755553

>1dl5_A Protein-L-isoaspartate O-methyltransferase; isoaspartyl residues, protein repair, deamidation, post-translational modification; HET: SAH; 1.80A {Thermotoga maritima} SCOP: c.66.1.7 d.197.1.1

Probab=98.02  E-value=8.3e-06  Score=71.43  Aligned_cols=82  Identities=18%  Similarity=0.201  Sum_probs=64.6

Q ss_pred             HHHHhccCCCCccEEEEeCCCchHHHHHHHHHCC-CCeEEEeeh-hHHHHhCCCC------CCceEEecccCCcCC-C-C
Q 024350          183 KVLESYKGFEHVKKLVDVGGGLGATLNMIISKYP-HIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFESVP-K-A  252 (269)
Q Consensus       183 ~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P-~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~~~P-~-g  252 (269)
                      .+++.++ .....+|||||||.|.++..+++..+ +.+++++|+ |..++.+++.      ++|+++.+|+.+..| . .
T Consensus        66 ~l~~~l~-~~~~~~VLDiGcG~G~~~~~la~~~~~~~~v~gvD~s~~~~~~a~~~~~~~g~~~v~~~~~d~~~~~~~~~~  144 (317)
T 1dl5_A           66 LFMEWVG-LDKGMRVLEIGGGTGYNAAVMSRVVGEKGLVVSVEYSRKICEIAKRNVERLGIENVIFVCGDGYYGVPEFSP  144 (317)
T ss_dssp             HHHHHTT-CCTTCEEEEECCTTSHHHHHHHHHHCTTCEEEEEESCHHHHHHHHHHHHHTTCCSEEEEESCGGGCCGGGCC
T ss_pred             HHHHhcC-CCCcCEEEEecCCchHHHHHHHHhcCCCCEEEEEECCHHHHHHHHHHHHHcCCCCeEEEECChhhccccCCC
Confidence            3445555 55668999999999999999999988 488999997 7777766542      569999999987443 3 3


Q ss_pred             -cEEEeccccccCC
Q 024350          253 -DTIFMKVICVCYL  265 (269)
Q Consensus       253 -D~~~l~~iLhd~~  265 (269)
                       |+++....+|..+
T Consensus       145 fD~Iv~~~~~~~~~  158 (317)
T 1dl5_A          145 YDVIFVTVGVDEVP  158 (317)
T ss_dssp             EEEEEECSBBSCCC
T ss_pred             eEEEEEcCCHHHHH
Confidence             9999999998764

>1o54_A SAM-dependent O-methyltransferase; TM0748, structural genomi PSI, protein structure initiative, joint center for structu genomics; 1.65A {Thermotoga maritima} SCOP: c.66.1.13

Probab=98.01  E-value=7.4e-06  Score=70.16  Aligned_cols=75  Identities=19%  Similarity=0.194  Sum_probs=61.1

Q ss_pred             HHHHHhccCCCCccEEEEeCCCchHHHHHHHHH-CCCCeEEEeeh-hHHHHhCCCC-------CCceEEecccCCcCCC-
Q 024350          182 EKVLESYKGFEHVKKLVDVGGGLGATLNMIISK-YPHIKGINYDL-LYVIKNAPSY-------PGIDHVGGDLFESVPK-  251 (269)
Q Consensus       182 ~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~-~P~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~~~P~-  251 (269)
                      ..++..++ +....+|||+|||+|.++..++++ .|..+++.+|+ |..++.+++.       ++++++.+|+.+.+|. 
T Consensus       102 ~~i~~~~~-~~~~~~VLDiG~G~G~~~~~la~~~~~~~~v~~vD~s~~~~~~a~~~~~~~~~~~~v~~~~~d~~~~~~~~  180 (277)
T 1o54_A          102 SFIAMMLD-VKEGDRIIDTGVGSGAMCAVLARAVGSSGKVFAYEKREEFAKLAESNLTKWGLIERVTIKVRDISEGFDEK  180 (277)
T ss_dssp             HHHHHHTT-CCTTCEEEEECCTTSHHHHHHHHHTTTTCEEEEECCCHHHHHHHHHHHHHTTCGGGEEEECCCGGGCCSCC
T ss_pred             HHHHHHhC-CCCCCEEEEECCcCCHHHHHHHHHhCCCcEEEEEECCHHHHHHHHHHHHHcCCCCCEEEEECCHHHcccCC
Confidence            34555566 666689999999999999999999 78999999997 7887766542       5899999999887664 


Q ss_pred             C-cEEEe
Q 024350          252 A-DTIFM  257 (269)
Q Consensus       252 g-D~~~l  257 (269)
                      . |++++
T Consensus       181 ~~D~V~~  187 (277)
T 1o54_A          181 DVDALFL  187 (277)
T ss_dssp             SEEEEEE
T ss_pred             ccCEEEE
Confidence            3 99887

>3njr_A Precorrin-6Y methylase; methyltransferase, decarboxylase, transferase; HET: SAH PG4; 2.70A {Rhodobacter capsulatus}

Probab=98.00  E-value=1.1e-05  Score=66.09  Aligned_cols=74  Identities=18%  Similarity=0.164  Sum_probs=57.8

Q ss_pred             HHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC------C-CceEEecccCCcCC---CC
Q 024350          184 VLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY------P-GIDHVGGDLFESVP---KA  252 (269)
Q Consensus       184 ~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~------~-ri~~~~gD~~~~~P---~g  252 (269)
                      ++..++ .....+|+|||||+|.++..+++.  ..+++.+|+ |..++.+++.      + +|+++.+|+.+.++   ..
T Consensus        47 ~l~~l~-~~~~~~vLDlGcG~G~~~~~la~~--~~~v~~vD~s~~~~~~a~~~~~~~g~~~~v~~~~~d~~~~~~~~~~~  123 (204)
T 3njr_A           47 TLAALA-PRRGELLWDIGGGSGSVSVEWCLA--GGRAITIEPRADRIENIQKNIDTYGLSPRMRAVQGTAPAALADLPLP  123 (204)
T ss_dssp             HHHHHC-CCTTCEEEEETCTTCHHHHHHHHT--TCEEEEEESCHHHHHHHHHHHHHTTCTTTEEEEESCTTGGGTTSCCC
T ss_pred             HHHhcC-CCCCCEEEEecCCCCHHHHHHHHc--CCEEEEEeCCHHHHHHHHHHHHHcCCCCCEEEEeCchhhhcccCCCC
Confidence            344455 556689999999999999999998  788999997 7888776542      4 89999999988433   23


Q ss_pred             cEEEeccc
Q 024350          253 DTIFMKVI  260 (269)
Q Consensus       253 D~~~l~~i  260 (269)
                      |++++...
T Consensus       124 D~v~~~~~  131 (204)
T 3njr_A          124 EAVFIGGG  131 (204)
T ss_dssp             SEEEECSC
T ss_pred             CEEEECCc
Confidence            99987653

>3fpf_A Mtnas, putative uncharacterized protein; thermonicotianamine, nicotianamine, biosynthetic protein; HET: TNA MTA; 1.66A {Methanothermobacter thermautotrophicusorganism_taxid} PDB: 3fpe_A* 3fph_A* 3fpg_A* 3fpj_A* 3o31_A*

Probab=98.00  E-value=5.5e-06  Score=71.89  Aligned_cols=69  Identities=14%  Similarity=0.248  Sum_probs=57.1

Q ss_pred             CCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC------CCceEEecccCCcCC-CC-cEEEeccc
Q 024350          191 FEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFESVP-KA-DTIFMKVI  260 (269)
Q Consensus       191 ~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~~~P-~g-D~~~l~~i  260 (269)
                      .+...+|+|||||+|.++..++.+.|+.+++.+|+ |.+++.|++.      ++|+++.+|..+ +| .. |++++...
T Consensus       120 l~~g~rVLDIGcG~G~~ta~~lA~~~ga~V~gIDis~~~l~~Ar~~~~~~gl~~v~~v~gDa~~-l~d~~FDvV~~~a~  197 (298)
T 3fpf_A          120 FRRGERAVFIGGGPLPLTGILLSHVYGMRVNVVEIEPDIAELSRKVIEGLGVDGVNVITGDETV-IDGLEFDVLMVAAL  197 (298)
T ss_dssp             CCTTCEEEEECCCSSCHHHHHHHHTTCCEEEEEESSHHHHHHHHHHHHHHTCCSEEEEESCGGG-GGGCCCSEEEECTT
T ss_pred             CCCcCEEEEECCCccHHHHHHHHHccCCEEEEEECCHHHHHHHHHHHHhcCCCCeEEEECchhh-CCCCCcCEEEECCC
Confidence            56778999999999988877777889999999997 8888887652      799999999987 34 34 99987654

>3tfw_A Putative O-methyltransferase; PSI-biology, nysgrc, structural genomics, NEW YORK structura genomics research consortium; 1.88A {Klebsiella pneumoniae subsp}

Probab=97.99  E-value=4.8e-06  Score=70.37  Aligned_cols=68  Identities=16%  Similarity=0.225  Sum_probs=55.2

Q ss_pred             CCccEEEEeCCCchHHHHHHHHHCC-CCeEEEeeh-hHHHHhCCCC-------CCceEEecccCCc---CCC--C-cEEE
Q 024350          192 EHVKKLVDVGGGLGATLNMIISKYP-HIKGINYDL-LYVIKNAPSY-------PGIDHVGGDLFES---VPK--A-DTIF  256 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~~P-~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~~---~P~--g-D~~~  256 (269)
                      .+..+|||||||+|..+..+++.+| +.+++.+|+ |..++.+++.       ++|+++.+|..+.   ++.  . |+++
T Consensus        62 ~~~~~VLdiG~G~G~~~~~la~~~~~~~~v~~vD~s~~~~~~a~~~~~~~g~~~~v~~~~~d~~~~l~~~~~~~~fD~V~  141 (248)
T 3tfw_A           62 TQAKRILEIGTLGGYSTIWMARELPADGQLLTLEADAHHAQVARENLQLAGVDQRVTLREGPALQSLESLGECPAFDLIF  141 (248)
T ss_dssp             HTCSEEEEECCTTSHHHHHHHTTSCTTCEEEEEECCHHHHHHHHHHHHHTTCTTTEEEEESCHHHHHHTCCSCCCCSEEE
T ss_pred             cCCCEEEEecCCchHHHHHHHHhCCCCCEEEEEECCHHHHHHHHHHHHHcCCCCcEEEEEcCHHHHHHhcCCCCCeEEEE
Confidence            3568999999999999999999998 899999998 7777766542       5899999998762   222  3 9998


Q ss_pred             ecc
Q 024350          257 MKV  259 (269)
Q Consensus       257 l~~  259 (269)
                      +..
T Consensus       142 ~d~  144 (248)
T 3tfw_A          142 IDA  144 (248)
T ss_dssp             ECS
T ss_pred             ECC
Confidence            754

>1l3i_A Precorrin-6Y methyltransferase/putative decarboxylase; structural genomics, beta barrel, rossmann fold, tetramer; HET: SAH; 1.95A {Methanothermobacterthermautotrophicus} SCOP: c.66.1.22 PDB: 1kxz_A 1l3b_A 1f38_A 1l3c_A*

Probab=97.99  E-value=4.6e-06  Score=66.51  Aligned_cols=78  Identities=17%  Similarity=0.075  Sum_probs=60.9

Q ss_pred             HHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-------CCceEEecccCCcCCC--C-
Q 024350          184 VLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-------PGIDHVGGDLFESVPK--A-  252 (269)
Q Consensus       184 ~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~~~P~--g-  252 (269)
                      ++..++ .....+|+|||||+|.++..+++..  .+++++|. |..++.+++.       ++++++.+|+.+++|.  . 
T Consensus        25 ~~~~~~-~~~~~~vldiG~G~G~~~~~l~~~~--~~v~~~D~~~~~~~~a~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~  101 (192)
T 1l3i_A           25 IMCLAE-PGKNDVAVDVGCGTGGVTLELAGRV--RRVYAIDRNPEAISTTEMNLQRHGLGDNVTLMEGDAPEALCKIPDI  101 (192)
T ss_dssp             HHHHHC-CCTTCEEEEESCTTSHHHHHHHTTS--SEEEEEESCHHHHHHHHHHHHHTTCCTTEEEEESCHHHHHTTSCCE
T ss_pred             HHHhcC-CCCCCEEEEECCCCCHHHHHHHHhc--CEEEEEECCHHHHHHHHHHHHHcCCCcceEEEecCHHHhcccCCCC
Confidence            344445 5566899999999999999999988  78999997 7777766541       6899999998775553  3 


Q ss_pred             cEEEeccccccC
Q 024350          253 DTIFMKVICVCY  264 (269)
Q Consensus       253 D~~~l~~iLhd~  264 (269)
                      |++++...+|++
T Consensus       102 D~v~~~~~~~~~  113 (192)
T 1l3i_A          102 DIAVVGGSGGEL  113 (192)
T ss_dssp             EEEEESCCTTCH
T ss_pred             CEEEECCchHHH
Confidence            999998877653

>1ri5_A MRNA capping enzyme; methyltransferase, M7G, messenger RNA CAP, structural genomics, PSI, protein structure initiative; 2.10A {Encephalitozoon cuniculi} SCOP: c.66.1.34 PDB: 1ri2_A* 1ri3_A* 1ri1_A* 1ri4_A 1z3c_A* 2hv9_A*

Probab=97.98  E-value=6e-06  Score=70.90  Aligned_cols=71  Identities=15%  Similarity=0.067  Sum_probs=57.6

Q ss_pred             CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-------CCceEEecccCC-cC-CC-C-cEEEecc
Q 024350          192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-------PGIDHVGGDLFE-SV-PK-A-DTIFMKV  259 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~-~~-P~-g-D~~~l~~  259 (269)
                      ....+|||||||+|.++..+++. +..+++++|+ |..++.+++.       .+|+++.+|+.+ +. +. . |++++..
T Consensus        63 ~~~~~vLDiGcG~G~~~~~l~~~-~~~~v~gvD~s~~~~~~a~~~~~~~~~~~~v~~~~~d~~~~~~~~~~~fD~v~~~~  141 (298)
T 1ri5_A           63 KRGDSVLDLGCGKGGDLLKYERA-GIGEYYGVDIAEVSINDARVRARNMKRRFKVFFRAQDSYGRHMDLGKEFDVISSQF  141 (298)
T ss_dssp             CTTCEEEEETCTTTTTHHHHHHH-TCSEEEEEESCHHHHHHHHHHHHTSCCSSEEEEEESCTTTSCCCCSSCEEEEEEES
T ss_pred             CCCCeEEEECCCCCHHHHHHHHC-CCCEEEEEECCHHHHHHHHHHHHhcCCCccEEEEECCccccccCCCCCcCEEEECc
Confidence            35579999999999999998776 5668999997 7777766542       479999999998 56 33 4 9999999


Q ss_pred             cccc
Q 024350          260 ICVC  263 (269)
Q Consensus       260 iLhd  263 (269)
                      +||.
T Consensus       142 ~l~~  145 (298)
T 1ri5_A          142 SFHY  145 (298)
T ss_dssp             CGGG
T ss_pred             hhhh
Confidence            9986

>1g6q_1 HnRNP arginine N-methyltransferase; SAM-binding domain, beta-barrel, mixed alpha-beta, hexamer; 2.90A {Saccharomyces cerevisiae} SCOP: c.66.1.6

Probab=97.98  E-value=8.2e-06  Score=71.92  Aligned_cols=71  Identities=23%  Similarity=0.242  Sum_probs=55.8

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeehhHHHHhCCC-------CCCceEEecccCC-cCC-CC-cEEEeccccc
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPS-------YPGIDHVGGDLFE-SVP-KA-DTIFMKVICV  262 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp~vv~~a~~-------~~ri~~~~gD~~~-~~P-~g-D~~~l~~iLh  262 (269)
                      +..+|+|||||+|.++..++++ +..+++.+|..++++.+++       .++|+++.+|+.+ +.| +. |+++...+.|
T Consensus        38 ~~~~VLDiGcGtG~ls~~la~~-g~~~v~~vD~s~~~~~a~~~~~~~~~~~~i~~~~~d~~~~~~~~~~~D~Ivs~~~~~  116 (328)
T 1g6q_1           38 KDKIVLDVGCGTGILSMFAAKH-GAKHVIGVDMSSIIEMAKELVELNGFSDKITLLRGKLEDVHLPFPKVDIIISEWMGY  116 (328)
T ss_dssp             TTCEEEEETCTTSHHHHHHHHT-CCSEEEEEESSTHHHHHHHHHHHTTCTTTEEEEESCTTTSCCSSSCEEEEEECCCBT
T ss_pred             CCCEEEEecCccHHHHHHHHHC-CCCEEEEEChHHHHHHHHHHHHHcCCCCCEEEEECchhhccCCCCcccEEEEeCchh
Confidence            3479999999999999998886 5568999998767766543       2689999999988 667 34 9999876555


Q ss_pred             cC
Q 024350          263 CY  264 (269)
Q Consensus       263 d~  264 (269)
                      ..
T Consensus       117 ~l  118 (328)
T 1g6q_1          117 FL  118 (328)
T ss_dssp             TB
T ss_pred             hc
Confidence            43

>3p2e_A 16S rRNA methylase; methyltransferase, transferase, NPMA; HET: SAH; 1.68A {Escherichia coli} PDB: 3p2i_A 3p2k_A* 3pb3_A* 3mte_A*

Probab=97.98  E-value=8.7e-06  Score=67.87  Aligned_cols=55  Identities=13%  Similarity=0.064  Sum_probs=45.1

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeehh--HHHHhC---CCC------CCceEEecccCC
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDLL--YVIKNA---PSY------PGIDHVGGDLFE  247 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp--~vv~~a---~~~------~ri~~~~gD~~~  247 (269)
                      ...+|||||||+|.++..+++++|+.+++++|+-  .+++.|   ++.      ++|+++.+|..+
T Consensus        24 ~~~~vLDiGCG~G~~~~~la~~~~~~~v~GvD~s~~~ml~~A~~A~~~~~~~~~~~v~~~~~d~~~   89 (225)
T 3p2e_A           24 FDRVHIDLGTGDGRNIYKLAINDQNTFYIGIDPVKENLFDISKKIIKKPSKGGLSNVVFVIAAAES   89 (225)
T ss_dssp             CSEEEEEETCTTSHHHHHHHHTCTTEEEEEECSCCGGGHHHHHHHTSCGGGTCCSSEEEECCBTTB
T ss_pred             CCCEEEEEeccCcHHHHHHHHhCCCCEEEEEeCCHHHHHHHHHHHHHHHHHcCCCCeEEEEcCHHH
Confidence            4579999999999999999999999999999973  444443   442      679999999865

>3bgv_A MRNA CAP guanine-N7 methyltransferase; alternative splicing, mRNA capping, mRNA processing, nucleus, phosphoprotein, RNA-binding; HET: SAH; 2.30A {Homo sapiens} PDB: 3epp_A*

Probab=97.98  E-value=1.9e-05  Score=68.79  Aligned_cols=95  Identities=18%  Similarity=0.119  Sum_probs=66.5

Q ss_pred             HHHHHHHHHhhchhhHHHHHHhcc-CCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC--------
Q 024350          166 NDVFSNGMLSHTSIVMEKVLESYK-GFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY--------  235 (269)
Q Consensus       166 ~~~f~~~m~~~~~~~~~~~~~~~~-~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~--------  235 (269)
                      .+.|+.++.....   ..+++.+. ......+|||||||+|.++..+++ .+..+++.+|+ |.+++.+++.        
T Consensus         9 lr~~~~~~k~~l~---~~~~~~l~~~~~~~~~VLDlGcG~G~~~~~l~~-~~~~~v~gvD~s~~~l~~a~~~~~~~~~~~   84 (313)
T 3bgv_A            9 LRNFNNWMKSVLI---GEFLEKVRQKKKRDITVLDLGCGKGGDLLKWKK-GRINKLVCTDIADVSVKQCQQRYEDMKNRR   84 (313)
T ss_dssp             HHHHHHHHHHHHH---HHHHHHHHHTC--CCEEEEETCTTTTTHHHHHH-TTCSEEEEEESCHHHHHHHHHHHHHHHSSS
T ss_pred             hhhccHHHHHHHH---HHHHHHhhhccCCCCEEEEECCCCcHHHHHHHh-cCCCEEEEEeCCHHHHHHHHHHHHHhhhcc
Confidence            4567766665332   22333222 023567999999999999999987 46778999997 6777665432        


Q ss_pred             -----CCceEEecccCC-c----CC--C-C-cEEEeccccccC
Q 024350          236 -----PGIDHVGGDLFE-S----VP--K-A-DTIFMKVICVCY  264 (269)
Q Consensus       236 -----~ri~~~~gD~~~-~----~P--~-g-D~~~l~~iLhd~  264 (269)
                           .+++++.+|+.+ +    ++  . . |+++...+||..
T Consensus        85 ~~~~~~~~~~~~~D~~~~~~~~~~~~~~~~fD~V~~~~~l~~~  127 (313)
T 3bgv_A           85 DSEYIFSAEFITADSSKELLIDKFRDPQMCFDICSCQFVCHYS  127 (313)
T ss_dssp             CC-CCCEEEEEECCTTTSCSTTTCSSTTCCEEEEEEETCGGGG
T ss_pred             cccccceEEEEEecccccchhhhcccCCCCEEEEEEecchhhc
Confidence                 379999999987 3    42  2 4 999999999875

>3u81_A Catechol O-methyltransferase; neurotransmitter degradation, transferase transferase inhibitor complex; HET: SAH; 1.13A {Rattus norvegicus} SCOP: c.66.1.1 PDB: 3nwe_A* 3oe5_A* 3ozr_A* 3oe4_A* 3ozt_A* 3ozs_A* 3r6t_A* 3hvi_A* 1jr4_A* 1vid_A* 1h1d_A* 2cl5_A* 3hvh_A* 3hvj_A* 3hvk_A* 3nw9_A* 3nwb_A* 3s68_A* 2zlb_A 2zth_A* ...

Probab=97.98  E-value=2.5e-06  Score=70.60  Aligned_cols=73  Identities=10%  Similarity=0.127  Sum_probs=58.4

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCC-CCeEEEeeh-hHHHHhCCCC-------CCceEEecccCC---cCC-----CC-cE
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYP-HIKGINYDL-LYVIKNAPSY-------PGIDHVGGDLFE---SVP-----KA-DT  254 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P-~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~---~~P-----~g-D~  254 (269)
                      +..+|||||||+|..+..++++.| +.+++.+|+ |..++.+++.       ++|+++.+|+.+   ..+     .. |+
T Consensus        58 ~~~~vLdiG~G~G~~~~~la~~~~~~~~v~~vD~~~~~~~~a~~~~~~~~~~~~v~~~~~d~~~~l~~~~~~~~~~~fD~  137 (221)
T 3u81_A           58 SPSLVLELGAYCGYSAVRMARLLQPGARLLTMEINPDCAAITQQMLNFAGLQDKVTILNGASQDLIPQLKKKYDVDTLDM  137 (221)
T ss_dssp             CCSEEEEECCTTSHHHHHHHTTSCTTCEEEEEESCHHHHHHHHHHHHHHTCGGGEEEEESCHHHHGGGTTTTSCCCCCSE
T ss_pred             CCCEEEEECCCCCHHHHHHHHhCCCCCEEEEEeCChHHHHHHHHHHHHcCCCCceEEEECCHHHHHHHHHHhcCCCceEE
Confidence            457999999999999999999875 889999997 7788777652       589999999854   233     23 99


Q ss_pred             EEeccccccCC
Q 024350          255 IFMKVICVCYL  265 (269)
Q Consensus       255 ~~l~~iLhd~~  265 (269)
                      +++....|.+.
T Consensus       138 V~~d~~~~~~~  148 (221)
T 3u81_A          138 VFLDHWKDRYL  148 (221)
T ss_dssp             EEECSCGGGHH
T ss_pred             EEEcCCcccch
Confidence            99987766553

>2ozv_A Hypothetical protein ATU0636; structural genomics, predicted transferase, predicted O-methyltransferase, PFAM PF05175; HET: MSE; 1.70A {Agrobacterium tumefaciens str}

Probab=97.98  E-value=9.2e-06  Score=69.15  Aligned_cols=68  Identities=16%  Similarity=0.246  Sum_probs=55.2

Q ss_pred             CCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC-------C---CCceEEecccCCc--------CCC
Q 024350          191 FEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS-------Y---PGIDHVGGDLFES--------VPK  251 (269)
Q Consensus       191 ~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~-------~---~ri~~~~gD~~~~--------~P~  251 (269)
                      .....+|||||||+|.++..+++++|+.+++.+|+ |..++.+++       .   +||+++.+|+.+.        ++.
T Consensus        34 ~~~~~~VLDlG~G~G~~~l~la~~~~~~~v~gvDi~~~~~~~a~~n~~~~~~~~l~~~v~~~~~D~~~~~~~~~~~~~~~  113 (260)
T 2ozv_A           34 DDRACRIADLGAGAGAAGMAVAARLEKAEVTLYERSQEMAEFARRSLELPDNAAFSARIEVLEADVTLRAKARVEAGLPD  113 (260)
T ss_dssp             CCSCEEEEECCSSSSHHHHHHHHHCTTEEEEEEESSHHHHHHHHHHTTSGGGTTTGGGEEEEECCTTCCHHHHHHTTCCT
T ss_pred             ccCCCEEEEeCChHhHHHHHHHHhCCCCeEEEEECCHHHHHHHHHHHHhhhhCCCcceEEEEeCCHHHHhhhhhhhccCC
Confidence            44567999999999999999999999999999998 677765532       2   3799999999874        343


Q ss_pred             -C-cEEEec
Q 024350          252 -A-DTIFMK  258 (269)
Q Consensus       252 -g-D~~~l~  258 (269)
                       . |++++.
T Consensus       114 ~~fD~Vv~n  122 (260)
T 2ozv_A          114 EHFHHVIMN  122 (260)
T ss_dssp             TCEEEEEEC
T ss_pred             CCcCEEEEC
Confidence             3 999886

>2aot_A HMT, histamine N-methyltransferase; classic methyltransferase fold, protein-drug complex; HET: CSO 2PM SAH; 1.90A {Homo sapiens} SCOP: c.66.1.19 PDB: 1jqd_A* 2aou_A* 2aov_A* 2aox_A* 1jqe_A* 2aow_A*

Probab=97.98  E-value=6.8e-06  Score=70.93  Aligned_cols=75  Identities=16%  Similarity=0.131  Sum_probs=52.0

Q ss_pred             CccEEEEeCCCchHHH----HHHHHHCCCCeE--EEeeh-hHHHHhCCCC-------CCceE--EecccCC-c------C
Q 024350          193 HVKKLVDVGGGLGATL----NMIISKYPHIKG--INYDL-LYVIKNAPSY-------PGIDH--VGGDLFE-S------V  249 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~----~~l~~~~P~l~~--vv~Dl-p~vv~~a~~~-------~ri~~--~~gD~~~-~------~  249 (269)
                      ...+|||||||+|.++    ..++.++|+.++  +++|. +.+++.+++.       +++++  ..++..+ +      +
T Consensus        52 ~~~~VLDiG~GtG~~~~~~l~~l~~~~~~~~v~~~~vD~S~~ml~~a~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~  131 (292)
T 2aot_A           52 SEIKILSIGGGAGEIDLQILSKVQAQYPGVCINNEVVEPSAEQIAKYKELVAKTSNLENVKFAWHKETSSEYQSRMLEKK  131 (292)
T ss_dssp             SEEEEEEETCTTSHHHHHHHHHHHHHSTTCEEEEEEECSCHHHHHHHHHHHHTCSSCTTEEEEEECSCHHHHHHHHHTTT
T ss_pred             CCCeEEEEcCCCCHHHHHHHHHHHhhCCCceeeEEEEeCCHHHHHHHHHHHHhccCCCcceEEEEecchhhhhhhhcccc
Confidence            3569999999999754    455677898854  99996 6777655431       34444  3444432 1      2


Q ss_pred             CC-C-cEEEeccccccCCCC
Q 024350          250 PK-A-DTIFMKVICVCYLNS  267 (269)
Q Consensus       250 P~-g-D~~~l~~iLhd~~d~  267 (269)
                      +. . |++++.++||.++|.
T Consensus       132 ~~~~fD~V~~~~~l~~~~d~  151 (292)
T 2aot_A          132 ELQKWDFIHMIQMLYYVKDI  151 (292)
T ss_dssp             CCCCEEEEEEESCGGGCSCH
T ss_pred             CCCceeEEEEeeeeeecCCH
Confidence            33 3 999999999999874

>2gpy_A O-methyltransferase; structural genomics, PSI, protein structure initiative, NEW research center for structural genomics, nysgxrc; HET: MSE; 1.90A {Bacillus halodurans}

Probab=97.94  E-value=5.1e-06  Score=69.18  Aligned_cols=71  Identities=13%  Similarity=0.161  Sum_probs=57.7

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-------CCceEEecccCCcC-----CCC-cEEEec
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-------PGIDHVGGDLFESV-----PKA-DTIFMK  258 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~~~-----P~g-D~~~l~  258 (269)
                      ...+|||||||+|..+..+++.+|+.+++.+|+ |..++.+++.       ++|+++.+|+.+..     +.. |++++.
T Consensus        54 ~~~~vLdiG~G~G~~~~~la~~~~~~~v~~vD~~~~~~~~a~~~~~~~~~~~~v~~~~~d~~~~~~~~~~~~~fD~I~~~  133 (233)
T 2gpy_A           54 APARILEIGTAIGYSAIRMAQALPEATIVSIERDERRYEEAHKHVKALGLESRIELLFGDALQLGEKLELYPLFDVLFID  133 (233)
T ss_dssp             CCSEEEEECCTTSHHHHHHHHHCTTCEEEEECCCHHHHHHHHHHHHHTTCTTTEEEECSCGGGSHHHHTTSCCEEEEEEE
T ss_pred             CCCEEEEecCCCcHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHHHcCCCCcEEEEECCHHHHHHhcccCCCccEEEEC
Confidence            457999999999999999999999999999998 7777766542       58999999998732     233 999987


Q ss_pred             ccccc
Q 024350          259 VICVC  263 (269)
Q Consensus       259 ~iLhd  263 (269)
                      ...++
T Consensus       134 ~~~~~  138 (233)
T 2gpy_A          134 AAKGQ  138 (233)
T ss_dssp             GGGSC
T ss_pred             CCHHH
Confidence            66543

>2esr_A Methyltransferase; structural genomics, hypothetical protein, streptococcus PYO PSI, protein structure initiative; HET: GLC; 1.80A {Streptococcus pyogenes} SCOP: c.66.1.46

Probab=97.94  E-value=4.1e-06  Score=66.51  Aligned_cols=69  Identities=9%  Similarity=0.012  Sum_probs=54.6

Q ss_pred             CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-------CCceEEecccCCc---CCCC-cEEEecc
Q 024350          192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-------PGIDHVGGDLFES---VPKA-DTIFMKV  259 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~~---~P~g-D~~~l~~  259 (269)
                      ....+|+|||||+|.++..++++ +..+++.+|+ |.+++.+++.       ++++++.+|+.+.   .+.. |++++..
T Consensus        30 ~~~~~vLDlGcG~G~~~~~l~~~-~~~~v~~vD~~~~~~~~a~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~fD~i~~~~  108 (177)
T 2esr_A           30 FNGGRVLDLFAGSGGLAIEAVSR-GMSAAVLVEKNRKAQAIIQDNIIMTKAENRFTLLKMEAERAIDCLTGRFDLVFLDP  108 (177)
T ss_dssp             CCSCEEEEETCTTCHHHHHHHHT-TCCEEEEECCCHHHHHHHHHHHHTTTCGGGEEEECSCHHHHHHHBCSCEEEEEECC
T ss_pred             cCCCeEEEeCCCCCHHHHHHHHc-CCCEEEEEECCHHHHHHHHHHHHHcCCCCceEEEECcHHHhHHhhcCCCCEEEECC
Confidence            34579999999999999999987 7778999998 7788766542       5799999999873   2234 9998865


Q ss_pred             cc
Q 024350          260 IC  261 (269)
Q Consensus       260 iL  261 (269)
                      .+
T Consensus       109 ~~  110 (177)
T 2esr_A          109 PY  110 (177)
T ss_dssp             SS
T ss_pred             CC
Confidence            54

>1xdz_A Methyltransferase GIDB; MCSG, protein structure initiative, structural genomics, methyltransferase fold, PSI; 1.60A {Bacillus subtilis} SCOP: c.66.1.20

Probab=97.94  E-value=4.2e-06  Score=70.19  Aligned_cols=70  Identities=19%  Similarity=0.207  Sum_probs=55.9

Q ss_pred             CCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC------CCCceEEecccCC-cC----CCC-cEEEe
Q 024350          191 FEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS------YPGIDHVGGDLFE-SV----PKA-DTIFM  257 (269)
Q Consensus       191 ~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~------~~ri~~~~gD~~~-~~----P~g-D~~~l  257 (269)
                      ++...+|+|||||+|..+..+++..|+.+++.+|. |..++.+++      .++|+++.+|+.+ +.    +.. |+++.
T Consensus        68 ~~~~~~vLDiG~G~G~~~~~la~~~~~~~v~~vD~s~~~~~~a~~~~~~~~~~~v~~~~~d~~~~~~~~~~~~~fD~V~~  147 (240)
T 1xdz_A           68 FNQVNTICDVGAGAGFPSLPIKICFPHLHVTIVDSLNKRITFLEKLSEALQLENTTFCHDRAETFGQRKDVRESYDIVTA  147 (240)
T ss_dssp             GGGCCEEEEECSSSCTTHHHHHHHCTTCEEEEEESCHHHHHHHHHHHHHHTCSSEEEEESCHHHHTTCTTTTTCEEEEEE
T ss_pred             cCCCCEEEEecCCCCHHHHHHHHhCCCCEEEEEeCCHHHHHHHHHHHHHcCCCCEEEEeccHHHhcccccccCCccEEEE
Confidence            34567999999999999999999999999999997 777776654      2579999999876 43    223 99987


Q ss_pred             ccc
Q 024350          258 KVI  260 (269)
Q Consensus       258 ~~i  260 (269)
                      ..+
T Consensus       148 ~~~  150 (240)
T 1xdz_A          148 RAV  150 (240)
T ss_dssp             ECC
T ss_pred             ecc
Confidence            653

>1o9g_A RRNA methyltransferase; antibiotic resistance, Se-MAD; 1.5A {Streptomyces viridochromogenes} SCOP: c.66.1.29 PDB: 1o9h_A

Probab=97.93  E-value=1.2e-05  Score=67.75  Aligned_cols=73  Identities=16%  Similarity=0.047  Sum_probs=58.4

Q ss_pred             CccEEEEeCCCchHHHHHHHHH--CCCCeEEEeeh-hHHHHhCCCC---C-------C----------------------
Q 024350          193 HVKKLVDVGGGLGATLNMIISK--YPHIKGINYDL-LYVIKNAPSY---P-------G----------------------  237 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~--~P~l~~vv~Dl-p~vv~~a~~~---~-------r----------------------  237 (269)
                      ...+|+|+|||+|.++..+++.  +|..+++.+|+ |.+++.+++.   .       +                      
T Consensus        51 ~~~~vLD~gcGsG~~~~~la~~~~~~~~~v~gvDis~~~l~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  130 (250)
T 1o9g_A           51 GPVTLWDPCCGSGYLLTVLGLLHRRSLRQVIASDVDPAPLELAAKNLALLSPAGLTARELERREQSERFGKPSYLEAAQA  130 (250)
T ss_dssp             SCEEEEETTCTTSHHHHHHHHHTGGGEEEEEEEESCHHHHHHHHHHHHTTSHHHHHHHHHHHHHHHHHHCCHHHHHHHHH
T ss_pred             CCCeEEECCCCCCHHHHHHHHHhccCCCeEEEEECCHHHHHHHHHHHHHhhhccccccchhhhhhhhhcccccchhhhhh
Confidence            4579999999999999999998  88889999998 7888777632   2       2                      


Q ss_pred             ---ce-------------EEecccCCcC------CC-C-cEEEeccccccCC
Q 024350          238 ---ID-------------HVGGDLFESV------PK-A-DTIFMKVICVCYL  265 (269)
Q Consensus       238 ---i~-------------~~~gD~~~~~------P~-g-D~~~l~~iLhd~~  265 (269)
                         |+             ++.+|+++..      +. . |+|+....++...
T Consensus       131 ~~~v~~~~~~~~~~~~~~~~~~D~~~~~~~~~~~~~~~fD~Iv~npp~~~~~  182 (250)
T 1o9g_A          131 ARRLRERLTAEGGALPCAIRTADVFDPRALSAVLAGSAPDVVLTDLPYGERT  182 (250)
T ss_dssp             HHHHHHHHHHTTSSCCEEEEECCTTCGGGHHHHHTTCCCSEEEEECCGGGSS
T ss_pred             hhhhhhhccccccccccceeecccccccccccccCCCCceEEEeCCCeeccc
Confidence               77             9999999865      43 4 9999876665443

>1i9g_A Hypothetical protein RV2118C; mtase, adoMet, crystal, structural genomics, protein structure initiative; HET: SAM; 1.98A {Mycobacterium tuberculosis} SCOP: c.66.1.13

Probab=97.93  E-value=1.4e-05  Score=68.18  Aligned_cols=74  Identities=18%  Similarity=0.230  Sum_probs=58.9

Q ss_pred             HHHHhccCCCCccEEEEeCCCchHHHHHHHHH-CCCCeEEEeeh-hHHHHhCCC---------CCCceEEecccCC-cCC
Q 024350          183 KVLESYKGFEHVKKLVDVGGGLGATLNMIISK-YPHIKGINYDL-LYVIKNAPS---------YPGIDHVGGDLFE-SVP  250 (269)
Q Consensus       183 ~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~-~P~l~~vv~Dl-p~vv~~a~~---------~~ri~~~~gD~~~-~~P  250 (269)
                      .++..++ .....+|||||||+|.++..+++. .|..+++.+|+ |..++.+++         .++++++.+|+.+ +++
T Consensus        90 ~i~~~~~-~~~~~~vLdiG~G~G~~~~~l~~~~~~~~~v~~vD~~~~~~~~a~~~~~~~~g~~~~~v~~~~~d~~~~~~~  168 (280)
T 1i9g_A           90 QIVHEGD-IFPGARVLEAGAGSGALTLSLLRAVGPAGQVISYEQRADHAEHARRNVSGCYGQPPDNWRLVVSDLADSELP  168 (280)
T ss_dssp             HHHHHTT-CCTTCEEEEECCTTSHHHHHHHHHHCTTSEEEEECSCHHHHHHHHHHHHHHHTSCCTTEEEECSCGGGCCCC
T ss_pred             HHHHHcC-CCCCCEEEEEcccccHHHHHHHHHhCCCCEEEEEeCCHHHHHHHHHHHHHhcCCCCCcEEEEECchHhcCCC
Confidence            4555566 666679999999999999999996 58899999998 777776543         2589999999988 455


Q ss_pred             C-C-cEEEe
Q 024350          251 K-A-DTIFM  257 (269)
Q Consensus       251 ~-g-D~~~l  257 (269)
                      . . |++++
T Consensus       169 ~~~~D~v~~  177 (280)
T 1i9g_A          169 DGSVDRAVL  177 (280)
T ss_dssp             TTCEEEEEE
T ss_pred             CCceeEEEE
Confidence            3 4 99887

>3r0q_C Probable protein arginine N-methyltransferase 4.2; arginine methyltransferase, methylation; HET: SAH; 2.61A {Arabidopsis thaliana}

Probab=97.92  E-value=1.3e-05  Score=72.00  Aligned_cols=74  Identities=19%  Similarity=0.174  Sum_probs=57.5

Q ss_pred             CCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeehhHHHHhCCC-------CCCceEEecccCC-cCCCC-cEEEecccc
Q 024350          191 FEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPS-------YPGIDHVGGDLFE-SVPKA-DTIFMKVIC  261 (269)
Q Consensus       191 ~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp~vv~~a~~-------~~ri~~~~gD~~~-~~P~g-D~~~l~~iL  261 (269)
                      .....+|||||||+|.++..++++ ...+++.+|...+++.+++       .++|+++.+|+.+ +.|.. |+++...+.
T Consensus        61 ~~~~~~VLDlGcGtG~ls~~la~~-g~~~V~gvD~s~~~~~a~~~~~~~~~~~~v~~~~~d~~~~~~~~~~D~Iv~~~~~  139 (376)
T 3r0q_C           61 HFEGKTVLDVGTGSGILAIWSAQA-GARKVYAVEATKMADHARALVKANNLDHIVEVIEGSVEDISLPEKVDVIISEWMG  139 (376)
T ss_dssp             TTTTCEEEEESCTTTHHHHHHHHT-TCSEEEEEESSTTHHHHHHHHHHTTCTTTEEEEESCGGGCCCSSCEEEEEECCCB
T ss_pred             cCCCCEEEEeccCcCHHHHHHHhc-CCCEEEEEccHHHHHHHHHHHHHcCCCCeEEEEECchhhcCcCCcceEEEEcChh
Confidence            345689999999999999999988 3348999998766665543       2679999999988 56644 999986666


Q ss_pred             ccCC
Q 024350          262 VCYL  265 (269)
Q Consensus       262 hd~~  265 (269)
                      |...
T Consensus       140 ~~l~  143 (376)
T 3r0q_C          140 YFLL  143 (376)
T ss_dssp             TTBT
T ss_pred             hccc
Confidence            6554

>2avn_A Ubiquinone/menaquinone biosynthesis methyltransfe related protein; ubiquinone/menaquinone biosynthesis methyltransferase-relate protein; HET: SAI; 2.35A {Thermotoga maritima} SCOP: c.66.1.41

Probab=97.92  E-value=8.7e-06  Score=68.97  Aligned_cols=71  Identities=14%  Similarity=0.195  Sum_probs=54.7

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCCCCceEEecccCC-cCCCC--cEEEeccccccCC
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSYPGIDHVGGDLFE-SVPKA--DTIFMKVICVCYL  265 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~~ri~~~~gD~~~-~~P~g--D~~~l~~iLhd~~  265 (269)
                      ...+|||||||+|.++..++++  ..+++++|. |.+++.+++...-.++.+|+.+ ++|.+  |++++..+++.|.
T Consensus        54 ~~~~vLDiGcG~G~~~~~l~~~--~~~v~gvD~s~~~l~~a~~~~~~~~~~~d~~~~~~~~~~fD~v~~~~~~~~~~  128 (260)
T 2avn_A           54 NPCRVLDLGGGTGKWSLFLQER--GFEVVLVDPSKEMLEVAREKGVKNVVEAKAEDLPFPSGAFEAVLALGDVLSYV  128 (260)
T ss_dssp             SCCEEEEETCTTCHHHHHHHTT--TCEEEEEESCHHHHHHHHHHTCSCEEECCTTSCCSCTTCEEEEEECSSHHHHC
T ss_pred             CCCeEEEeCCCcCHHHHHHHHc--CCeEEEEeCCHHHHHHHHhhcCCCEEECcHHHCCCCCCCEEEEEEcchhhhcc
Confidence            4579999999999999999987  568899997 7777766543212388899987 66643  9999988666553

>3gdh_A Trimethylguanosine synthase homolog; M7G, CAP, dimethyltransferase, usnRNA, snoRNA, telomerase, cytoplasm, methyltransferase, nucleus; HET: MGP SAH; 2.00A {Homo sapiens} PDB: 3egi_A*

Probab=97.92  E-value=3.1e-06  Score=70.74  Aligned_cols=72  Identities=18%  Similarity=0.131  Sum_probs=58.6

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-------CCceEEecccCCcCCC-C-cEEEeccccc
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-------PGIDHVGGDLFESVPK-A-DTIFMKVICV  262 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~~~P~-g-D~~~l~~iLh  262 (269)
                      ...+|||||||+|.++..+++..  .+++.+|+ |..++.+++.       ++++++.+|+.+..+. . |++++...+|
T Consensus        78 ~~~~vLD~gcG~G~~~~~la~~~--~~v~~vD~s~~~~~~a~~~~~~~~~~~~~~~~~~d~~~~~~~~~~D~v~~~~~~~  155 (241)
T 3gdh_A           78 KCDVVVDAFCGVGGNTIQFALTG--MRVIAIDIDPVKIALARNNAEVYGIADKIEFICGDFLLLASFLKADVVFLSPPWG  155 (241)
T ss_dssp             CCSEEEETTCTTSHHHHHHHHTT--CEEEEEESCHHHHHHHHHHHHHTTCGGGEEEEESCHHHHGGGCCCSEEEECCCCS
T ss_pred             CCCEEEECccccCHHHHHHHHcC--CEEEEEECCHHHHHHHHHHHHHcCCCcCeEEEECChHHhcccCCCCEEEECCCcC
Confidence            45799999999999999999974  78899997 7777766542       5899999999883343 4 9999998888


Q ss_pred             cCCC
Q 024350          263 CYLN  266 (269)
Q Consensus       263 d~~d  266 (269)
                      ..++
T Consensus       156 ~~~~  159 (241)
T 3gdh_A          156 GPDY  159 (241)
T ss_dssp             SGGG
T ss_pred             Ccch
Confidence            7654

>3frh_A 16S rRNA methylase; methyltransferase domain, helical N-terminal domain, methyltransferase, plasmid, transferase; HET: SAH; 1.20A {Escherichia coli} PDB: 3fri_A* 3b89_A*

Probab=97.91  E-value=8.5e-06  Score=68.49  Aligned_cols=73  Identities=10%  Similarity=-0.021  Sum_probs=59.5

Q ss_pred             CCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC-----CCCceEEecccCCc-CCC-CcEEEeccccc
Q 024350          191 FEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS-----YPGIDHVGGDLFES-VPK-ADTIFMKVICV  262 (269)
Q Consensus       191 ~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~-----~~ri~~~~gD~~~~-~P~-gD~~~l~~iLh  262 (269)
                      +..+.+|+|||||.|-++..+.   |..+.+.+|+ +..++.++.     ..+.++...|+... .|. +|++++.-++|
T Consensus       103 ~~~p~~VLDlGCG~gpLal~~~---~~~~y~a~DId~~~i~~ar~~~~~~g~~~~~~v~D~~~~~~~~~~DvvLllk~lh  179 (253)
T 3frh_A          103 AETPRRVLDIACGLNPLALYER---GIASVWGCDIHQGLGDVITPFAREKDWDFTFALQDVLCAPPAEAGDLALIFKLLP  179 (253)
T ss_dssp             SCCCSEEEEETCTTTHHHHHHT---TCSEEEEEESBHHHHHHHHHHHHHTTCEEEEEECCTTTSCCCCBCSEEEEESCHH
T ss_pred             CCCCCeEEEecCCccHHHHHhc---cCCeEEEEeCCHHHHHHHHHHHHhcCCCceEEEeecccCCCCCCcchHHHHHHHH
Confidence            4457899999999999999888   9999999998 777776664     26788999999984 444 49999998888


Q ss_pred             cCCC
Q 024350          263 CYLN  266 (269)
Q Consensus       263 d~~d  266 (269)
                      ...+
T Consensus       180 ~LE~  183 (253)
T 3frh_A          180 LLER  183 (253)
T ss_dssp             HHHH
T ss_pred             Hhhh
Confidence            6543

>3m33_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, MCSG, midwest center for structural genomics; 2.19A {Deinococcus radiodurans}

Probab=97.91  E-value=1.2e-05  Score=66.75  Aligned_cols=64  Identities=17%  Similarity=0.198  Sum_probs=53.0

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC-CCCceEEecccCCcCC---C-C-cEEEec
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS-YPGIDHVGGDLFESVP---K-A-DTIFMK  258 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~-~~ri~~~~gD~~~~~P---~-g-D~~~l~  258 (269)
                      ...+|||||||+|.++..+++.  ..+++.+|+ |..++.+++ .++++++.+|+.+.+|   . . |+++..
T Consensus        48 ~~~~vLDiGcG~G~~~~~l~~~--~~~v~~vD~s~~~~~~a~~~~~~~~~~~~d~~~~~~~~~~~~fD~v~~~  118 (226)
T 3m33_A           48 PQTRVLEAGCGHGPDAARFGPQ--AARWAAYDFSPELLKLARANAPHADVYEWNGKGELPAGLGAPFGLIVSR  118 (226)
T ss_dssp             TTCEEEEESCTTSHHHHHHGGG--SSEEEEEESCHHHHHHHHHHCTTSEEEECCSCSSCCTTCCCCEEEEEEE
T ss_pred             CCCeEEEeCCCCCHHHHHHHHc--CCEEEEEECCHHHHHHHHHhCCCceEEEcchhhccCCcCCCCEEEEEeC
Confidence            4579999999999999999998  568999997 788877765 4789999999977443   3 3 998875

>2fhp_A Methylase, putative; alpha-beta-alpha sandwich, structural genomics, PSI, protein structure initiative; HET: MSE; 1.60A {Enterococcus faecalis} SCOP: c.66.1.46

Probab=97.91  E-value=9.2e-06  Score=64.76  Aligned_cols=70  Identities=13%  Similarity=0.015  Sum_probs=55.6

Q ss_pred             CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-------CCceEEecccCCcC------CCC-cEEE
Q 024350          192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-------PGIDHVGGDLFESV------PKA-DTIF  256 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~~~------P~g-D~~~  256 (269)
                      ....+|+|+|||+|.++..+++ .+..+++.+|+ |..++.+++.       ++++++.+|+.+..      +.. |+++
T Consensus        43 ~~~~~vLD~GcG~G~~~~~~~~-~~~~~v~~vD~~~~~~~~a~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~fD~i~  121 (187)
T 2fhp_A           43 FDGGMALDLYSGSGGLAIEAVS-RGMDKSICIEKNFAALKVIKENIAITKEPEKFEVRKMDANRALEQFYEEKLQFDLVL  121 (187)
T ss_dssp             CSSCEEEETTCTTCHHHHHHHH-TTCSEEEEEESCHHHHHHHHHHHHHHTCGGGEEEEESCHHHHHHHHHHTTCCEEEEE
T ss_pred             cCCCCEEEeCCccCHHHHHHHH-cCCCEEEEEECCHHHHHHHHHHHHHhCCCcceEEEECcHHHHHHHHHhcCCCCCEEE
Confidence            3457999999999999999887 56778999998 7888777642       57999999998732      334 9999


Q ss_pred             eccccc
Q 024350          257 MKVICV  262 (269)
Q Consensus       257 l~~iLh  262 (269)
                      +...+|
T Consensus       122 ~~~~~~  127 (187)
T 2fhp_A          122 LDPPYA  127 (187)
T ss_dssp             ECCCGG
T ss_pred             ECCCCC
Confidence            877655

>3g89_A Ribosomal RNA small subunit methyltransferase G; 16S rRNA methyltransferase, translation, cytoplasm, rRNA processing; HET: HIC SAM AMP; 1.50A {Thermus thermophilus} PDB: 3g88_A* 3g8a_A* 3g8b_A*

Probab=97.91  E-value=6.6e-06  Score=69.70  Aligned_cols=69  Identities=13%  Similarity=0.102  Sum_probs=55.4

Q ss_pred             CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC------CCCceEEecccCC-cCC----CC-cEEEec
Q 024350          192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS------YPGIDHVGGDLFE-SVP----KA-DTIFMK  258 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~------~~ri~~~~gD~~~-~~P----~g-D~~~l~  258 (269)
                      ....+|+|||||+|..+..++..+|+.+++.+|. +..++.+++      ..+|+++.+|+.+ +..    .. |+++.+
T Consensus        79 ~~~~~vLDiG~G~G~~~i~la~~~~~~~v~~vD~s~~~~~~a~~~~~~~~l~~v~~~~~d~~~~~~~~~~~~~fD~I~s~  158 (249)
T 3g89_A           79 QGPLRVLDLGTGAGFPGLPLKIVRPELELVLVDATRKKVAFVERAIEVLGLKGARALWGRAEVLAREAGHREAYARAVAR  158 (249)
T ss_dssp             CSSCEEEEETCTTTTTHHHHHHHCTTCEEEEEESCHHHHHHHHHHHHHHTCSSEEEEECCHHHHTTSTTTTTCEEEEEEE
T ss_pred             CCCCEEEEEcCCCCHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHHHhCCCceEEEECcHHHhhcccccCCCceEEEEC
Confidence            4567999999999999999999999999999996 777766654      2569999999876 321    33 999876


Q ss_pred             cc
Q 024350          259 VI  260 (269)
Q Consensus       259 ~i  260 (269)
                      .+
T Consensus       159 a~  160 (249)
T 3g89_A          159 AV  160 (249)
T ss_dssp             SS
T ss_pred             Cc
Confidence            54

>1iy9_A Spermidine synthase; rossmann fold, structural genomics, PSI, protein structure initiative, northeast structural genomics consortium, NESG; 2.30A {Bacillus subtilis} SCOP: c.66.1.17

Probab=97.90  E-value=1.2e-05  Score=69.24  Aligned_cols=68  Identities=24%  Similarity=0.285  Sum_probs=55.3

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC----------CCCceEEecccCCc--CC-CC-cEEEe
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS----------YPGIDHVGGDLFES--VP-KA-DTIFM  257 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~----------~~ri~~~~gD~~~~--~P-~g-D~~~l  257 (269)
                      +..+|+|||||+|..++++++.+|..+++++|+ |.+++.+++          .+|++++.+|.++.  .+ +. |++++
T Consensus        75 ~~~~VLdiG~G~G~~~~~l~~~~~~~~v~~vEid~~~v~~ar~~~~~~~~~~~~~rv~v~~~D~~~~l~~~~~~fD~Ii~  154 (275)
T 1iy9_A           75 NPEHVLVVGGGDGGVIREILKHPSVKKATLVDIDGKVIEYSKKFLPSIAGKLDDPRVDVQVDDGFMHIAKSENQYDVIMV  154 (275)
T ss_dssp             SCCEEEEESCTTCHHHHHHTTCTTCSEEEEEESCHHHHHHHHHHCHHHHTTTTSTTEEEEESCSHHHHHTCCSCEEEEEE
T ss_pred             CCCEEEEECCchHHHHHHHHhCCCCceEEEEECCHHHHHHHHHHhHhhccccCCCceEEEECcHHHHHhhCCCCeeEEEE
Confidence            568999999999999999998878889999998 788876643          37999999998873  22 34 99988


Q ss_pred             ccc
Q 024350          258 KVI  260 (269)
Q Consensus       258 ~~i  260 (269)
                      .-.
T Consensus       155 d~~  157 (275)
T 1iy9_A          155 DST  157 (275)
T ss_dssp             SCS
T ss_pred             CCC
Confidence            543

>1zq9_A Probable dimethyladenosine transferase; SGC, structural genomics, structural genomics consortium; HET: SAM; 1.90A {Homo sapiens} SCOP: c.66.1.24

Probab=97.90  E-value=1.3e-05  Score=69.16  Aligned_cols=74  Identities=16%  Similarity=0.302  Sum_probs=57.0

Q ss_pred             HHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-------CCceEEecccCC-cCCCC
Q 024350          182 EKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-------PGIDHVGGDLFE-SVPKA  252 (269)
Q Consensus       182 ~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~-~~P~g  252 (269)
                      ..+++.++ .....+|+|||||+|.++..++++..  +++++|+ |..++.+++.       ++++++.+|+.+ ++|.-
T Consensus        18 ~~i~~~~~-~~~~~~VLDiG~G~G~lt~~L~~~~~--~v~~vD~~~~~~~~a~~~~~~~~~~~~v~~~~~D~~~~~~~~f   94 (285)
T 1zq9_A           18 NSIIDKAA-LRPTDVVLEVGPGTGNMTVKLLEKAK--KVVACELDPRLVAELHKRVQGTPVASKLQVLVGDVLKTDLPFF   94 (285)
T ss_dssp             HHHHHHTC-CCTTCEEEEECCTTSTTHHHHHHHSS--EEEEEESCHHHHHHHHHHHTTSTTGGGEEEEESCTTTSCCCCC
T ss_pred             HHHHHhcC-CCCCCEEEEEcCcccHHHHHHHhhCC--EEEEEECCHHHHHHHHHHHHhcCCCCceEEEEcceecccchhh
Confidence            34556665 55668999999999999999999854  7889997 6676655431       589999999988 66655


Q ss_pred             cEEEec
Q 024350          253 DTIFMK  258 (269)
Q Consensus       253 D~~~l~  258 (269)
                      |+++..
T Consensus        95 D~vv~n  100 (285)
T 1zq9_A           95 DTCVAN  100 (285)
T ss_dssp             SEEEEE
T ss_pred             cEEEEe
Confidence            887763

>3tma_A Methyltransferase; thump domain; 2.05A {Thermus thermophilus}

Probab=97.89  E-value=1.3e-05  Score=71.18  Aligned_cols=76  Identities=17%  Similarity=0.024  Sum_probs=61.1

Q ss_pred             HHHHHhccCCCCccEEEEeCCCchHHHHHHHHHC-CCCeEEEeeh-hHHHHhCCCC------CCceEEecccCC-cCCC-
Q 024350          182 EKVLESYKGFEHVKKLVDVGGGLGATLNMIISKY-PHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFE-SVPK-  251 (269)
Q Consensus       182 ~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~-P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~-~~P~-  251 (269)
                      ..++.... |....+|+|+|||+|.++++++... |+.+++++|+ |.+++.++++      ++|+++.+|+.+ +.|. 
T Consensus       193 ~~l~~~~~-~~~~~~vLD~gcGsG~~~ie~a~~~~~~~~v~g~Di~~~~i~~a~~n~~~~g~~~i~~~~~D~~~~~~~~~  271 (354)
T 3tma_A          193 QALLRLAD-ARPGMRVLDPFTGSGTIALEAASTLGPTSPVYAGDLDEKRLGLAREAALASGLSWIRFLRADARHLPRFFP  271 (354)
T ss_dssp             HHHHHHTT-CCTTCCEEESSCTTSHHHHHHHHHHCTTSCEEEEESCHHHHHHHHHHHHHTTCTTCEEEECCGGGGGGTCC
T ss_pred             HHHHHHhC-CCCCCEEEeCCCCcCHHHHHHHHhhCCCceEEEEECCHHHHHHHHHHHHHcCCCceEEEeCChhhCccccC
Confidence            34455555 7777899999999999999999998 9999999997 7888776642      489999999998 4443 


Q ss_pred             C-cEEEec
Q 024350          252 A-DTIFMK  258 (269)
Q Consensus       252 g-D~~~l~  258 (269)
                      . |+++..
T Consensus       272 ~~D~Ii~n  279 (354)
T 3tma_A          272 EVDRILAN  279 (354)
T ss_dssp             CCSEEEEC
T ss_pred             CCCEEEEC
Confidence            4 888873

>3eey_A Putative rRNA methylase; rRNA methylation, S-adenosyl-methionine, structural genomics structure initiative, PSI; HET: SAM; 2.20A {Clostridium thermocellum atcc 27405}

Probab=97.89  E-value=1.2e-05  Score=64.87  Aligned_cols=71  Identities=11%  Similarity=0.114  Sum_probs=56.3

Q ss_pred             CCCccEEEEeCCCchHHHHHHHHHC-CCCeEEEeeh-hHHHHhCCCC-------CCceEEecccCC-c-CC-CC-cEEEe
Q 024350          191 FEHVKKLVDVGGGLGATLNMIISKY-PHIKGINYDL-LYVIKNAPSY-------PGIDHVGGDLFE-S-VP-KA-DTIFM  257 (269)
Q Consensus       191 ~~~~~~vvDvGGG~G~~~~~l~~~~-P~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~-~-~P-~g-D~~~l  257 (269)
                      .....+|+|||||+|.++..+++++ |+.+++.+|+ |..++.+++.       ++++++.+|+.+ + .+ .. |++++
T Consensus        20 ~~~~~~vLDlGcG~G~~~~~l~~~~~~~~~v~~vD~s~~~~~~a~~~~~~~~~~~~v~~~~~d~~~~~~~~~~~fD~v~~   99 (197)
T 3eey_A           20 VKEGDTVVDATCGNGNDTAFLASLVGENGRVFGFDIQDKAIANTTKKLTDLNLIDRVTLIKDGHQNMDKYIDCPVKAVMF   99 (197)
T ss_dssp             CCTTCEEEESCCTTSHHHHHHHHHHCTTCEEEEECSCHHHHHHHHHHHHHTTCGGGEEEECSCGGGGGGTCCSCEEEEEE
T ss_pred             CCCCCEEEEcCCCCCHHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHHHHcCCCCCeEEEECCHHHHhhhccCCceEEEE
Confidence            3455799999999999999999986 7889999997 7777776542       689999999876 2 33 34 99987


Q ss_pred             cccc
Q 024350          258 KVIC  261 (269)
Q Consensus       258 ~~iL  261 (269)
                      ...+
T Consensus       100 ~~~~  103 (197)
T 3eey_A          100 NLGY  103 (197)
T ss_dssp             EESB
T ss_pred             cCCc
Confidence            7544

>3mti_A RRNA methylase; SAM-dependent, PSI, MCSG, structural genomics, midwest cente structural genomics, protein structure initiative; 1.95A {Streptococcus thermophilus} PDB: 3lby_A*

Probab=97.88  E-value=1.3e-05  Score=64.03  Aligned_cols=66  Identities=9%  Similarity=0.093  Sum_probs=52.0

Q ss_pred             CCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC------CCceEEecccCC--cCC-CC-cEEEec
Q 024350          191 FEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFE--SVP-KA-DTIFMK  258 (269)
Q Consensus       191 ~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~--~~P-~g-D~~~l~  258 (269)
                      ++...+|+|||||+|.++..++++  ..+++.+|+ |..++.+++.      ++|+++..|+..  +.+ .. |++++.
T Consensus        20 ~~~~~~vLDiGcG~G~~~~~la~~--~~~v~~vD~s~~~l~~a~~~~~~~~~~~v~~~~~~~~~l~~~~~~~fD~v~~~   96 (185)
T 3mti_A           20 LDDESIVVDATMGNGNDTAFLAGL--SKKVYAFDVQEQALGKTSQRLSDLGIENTELILDGHENLDHYVREPIRAAIFN   96 (185)
T ss_dssp             CCTTCEEEESCCTTSHHHHHHHTT--SSEEEEEESCHHHHHHHHHHHHHHTCCCEEEEESCGGGGGGTCCSCEEEEEEE
T ss_pred             CCCCCEEEEEcCCCCHHHHHHHHh--CCEEEEEECCHHHHHHHHHHHHHcCCCcEEEEeCcHHHHHhhccCCcCEEEEe
Confidence            345679999999999999999988  788999997 7888777642      789999977654  234 33 998776

>1p91_A Ribosomal RNA large subunit methyltransferase A; RLMA, RRMA, 23S rRNA, NESG, structural genomics, PSI, protein structure initiative; HET: SAM; 2.80A {Escherichia coli} SCOP: c.66.1.33

Probab=97.87  E-value=1.3e-05  Score=67.97  Aligned_cols=68  Identities=19%  Similarity=0.288  Sum_probs=56.3

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-CCceEEecccCC-cCCC-C-cEEEeccc
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-PGIDHVGGDLFE-SVPK-A-DTIFMKVI  260 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-~ri~~~~gD~~~-~~P~-g-D~~~l~~i  260 (269)
                      ...+|+|||||+|.++..+++.+|+.+++++|. |..++.+++. ++++++.+|+.+ +++. . |+++...+
T Consensus        85 ~~~~vLdiG~G~G~~~~~l~~~~~~~~v~~vD~s~~~~~~a~~~~~~~~~~~~d~~~~~~~~~~fD~v~~~~~  157 (269)
T 1p91_A           85 KATAVLDIGCGEGYYTHAFADALPEITTFGLDVSKVAIKAAAKRYPQVTFCVASSHRLPFSDTSMDAIIRIYA  157 (269)
T ss_dssp             TCCEEEEETCTTSTTHHHHHHTCTTSEEEEEESCHHHHHHHHHHCTTSEEEECCTTSCSBCTTCEEEEEEESC
T ss_pred             CCCEEEEECCCCCHHHHHHHHhCCCCeEEEEeCCHHHHHHHHHhCCCcEEEEcchhhCCCCCCceeEEEEeCC
Confidence            457999999999999999999999999999997 7777766553 789999999977 5554 3 99886544

>3orh_A Guanidinoacetate N-methyltransferase; structura genomics, structural genomics consortium, SGC; HET: SAH; 1.86A {Homo sapiens} PDB: 1xcj_A* 1xcl_A* 1p1c_A* 1p1b_A* 1khh_A*

Probab=97.86  E-value=5.4e-06  Score=69.52  Aligned_cols=64  Identities=13%  Similarity=0.145  Sum_probs=50.1

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-----CCceEEecccCC---cCCC-C-cEEEe
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-----PGIDHVGGDLFE---SVPK-A-DTIFM  257 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-----~ri~~~~gD~~~---~~P~-g-D~~~l  257 (269)
                      ...+|||||||.|..+..+++..|. +.+++|+ |.+++.+++.     .+++++.+|...   ++|. . |.+++
T Consensus        60 ~G~rVLdiG~G~G~~~~~~~~~~~~-~v~~id~~~~~~~~a~~~~~~~~~~~~~~~~~a~~~~~~~~~~~FD~i~~  134 (236)
T 3orh_A           60 KGGRVLEVGFGMAIAASKVQEAPID-EHWIIECNDGVFQRLRDWAPRQTHKVIPLKGLWEDVAPTLPDGHFDGILY  134 (236)
T ss_dssp             TCEEEEEECCTTSHHHHHHTTSCEE-EEEEEECCHHHHHHHHHHGGGCSSEEEEEESCHHHHGGGSCTTCEEEEEE
T ss_pred             CCCeEEEECCCccHHHHHHHHhCCc-EEEEEeCCHHHHHHHHHHHhhCCCceEEEeehHHhhcccccccCCceEEE
Confidence            4579999999999999999988885 6889997 8888877642     568888888654   4564 3 77765

>3duw_A OMT, O-methyltransferase, putative; alternating of alpha and beta with complex SAH; HET: SAH; 1.20A {Bacillus cereus} PDB: 3dul_A*

Probab=97.86  E-value=4.5e-06  Score=68.91  Aligned_cols=68  Identities=13%  Similarity=0.126  Sum_probs=54.9

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCC-CCeEEEeeh-hHHHHhCCC-------CCCceEEecccCCcCC-------CC-cEE
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYP-HIKGINYDL-LYVIKNAPS-------YPGIDHVGGDLFESVP-------KA-DTI  255 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P-~l~~vv~Dl-p~vv~~a~~-------~~ri~~~~gD~~~~~P-------~g-D~~  255 (269)
                      +..+|||||||+|..+..+++++| +.+++.+|+ |..++.+++       .++|+++.+|..+.+|       .. |++
T Consensus        58 ~~~~vLdiG~G~G~~~~~la~~~~~~~~v~~vD~~~~~~~~a~~~~~~~~~~~~v~~~~~d~~~~~~~~~~~~~~~fD~v  137 (223)
T 3duw_A           58 GARNILEIGTLGGYSTIWLARGLSSGGRVVTLEASEKHADIARSNIERANLNDRVEVRTGLALDSLQQIENEKYEPFDFI  137 (223)
T ss_dssp             TCSEEEEECCTTSHHHHHHHTTCCSSCEEEEEESCHHHHHHHHHHHHHTTCTTTEEEEESCHHHHHHHHHHTTCCCCSEE
T ss_pred             CCCEEEEecCCccHHHHHHHHhCCCCCEEEEEECCHHHHHHHHHHHHHcCCCCcEEEEEcCHHHHHHHHHhcCCCCcCEE
Confidence            457999999999999999999999 889999997 777776653       2579999999976322       23 999


Q ss_pred             Eeccc
Q 024350          256 FMKVI  260 (269)
Q Consensus       256 ~l~~i  260 (269)
                      ++...
T Consensus       138 ~~d~~  142 (223)
T 3duw_A          138 FIDAD  142 (223)
T ss_dssp             EECSC
T ss_pred             EEcCC
Confidence            87544

>3ftd_A Dimethyladenosine transferase; KSGA, rossmann-like fold, RNA methyltransferase, mtase, anti resistance, methyltransferase, RNA-binding; 1.44A {Aquifex aeolicus} PDB: 3ftc_A 3fte_A 3ftf_A* 3r9x_B*

Probab=97.85  E-value=2.8e-05  Score=65.86  Aligned_cols=78  Identities=19%  Similarity=0.287  Sum_probs=58.9

Q ss_pred             HHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC--CCceEEecccCC-cCCC--CcEE
Q 024350          182 EKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY--PGIDHVGGDLFE-SVPK--ADTI  255 (269)
Q Consensus       182 ~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~--~ri~~~~gD~~~-~~P~--gD~~  255 (269)
                      ..+++..+ .....+|+|||||+|.++..++++ +..+++++|+ +..++.+++.  .+++++.+|+.+ ++|.  ++..
T Consensus        21 ~~iv~~~~-~~~~~~VLDiG~G~G~lt~~L~~~-~~~~v~avEid~~~~~~~~~~~~~~v~~i~~D~~~~~~~~~~~~~~   98 (249)
T 3ftd_A           21 KKIAEELN-IEEGNTVVEVGGGTGNLTKVLLQH-PLKKLYVIELDREMVENLKSIGDERLEVINEDASKFPFCSLGKELK   98 (249)
T ss_dssp             HHHHHHTT-CCTTCEEEEEESCHHHHHHHHTTS-CCSEEEEECCCHHHHHHHTTSCCTTEEEECSCTTTCCGGGSCSSEE
T ss_pred             HHHHHhcC-CCCcCEEEEEcCchHHHHHHHHHc-CCCeEEEEECCHHHHHHHHhccCCCeEEEEcchhhCChhHccCCcE
Confidence            34556655 556679999999999999999987 5678999997 6777766654  679999999998 6664  2455


Q ss_pred             Eecccc
Q 024350          256 FMKVIC  261 (269)
Q Consensus       256 ~l~~iL  261 (269)
                      ++.|.-
T Consensus        99 vv~NlP  104 (249)
T 3ftd_A           99 VVGNLP  104 (249)
T ss_dssp             EEEECC
T ss_pred             EEEECc
Confidence            555543

>3bwc_A Spermidine synthase; SAM, SGPP, structura genomics, PSI, protein structure initiative, structural GEN pathogenic protozoa consortium; HET: MSE SAM; 2.30A {Trypanosoma cruzi} PDB: 3bwb_A*

Probab=97.84  E-value=6.5e-06  Score=71.81  Aligned_cols=75  Identities=16%  Similarity=0.173  Sum_probs=56.6

Q ss_pred             CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC----------CCCceEEecccCC-c-C-CC-C-cEE
Q 024350          192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS----------YPGIDHVGGDLFE-S-V-PK-A-DTI  255 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~----------~~ri~~~~gD~~~-~-~-P~-g-D~~  255 (269)
                      ++..+|||||||.|.++..+++..|..+++++|+ |.+++.+++          .+|++++.+|..+ . . +. . |+|
T Consensus        94 ~~~~~VLdiG~G~G~~~~~l~~~~~~~~v~~vDid~~~i~~a~~~~~~~~~~~~~~~v~~~~~D~~~~~~~~~~~~fDvI  173 (304)
T 3bwc_A           94 PKPERVLIIGGGDGGVLREVLRHGTVEHCDLVDIDGEVMEQSKQHFPQISRSLADPRATVRVGDGLAFVRQTPDNTYDVV  173 (304)
T ss_dssp             SSCCEEEEEECTTSHHHHHHHTCTTCCEEEEEESCHHHHHHHHHHCHHHHGGGGCTTEEEEESCHHHHHHSSCTTCEEEE
T ss_pred             CCCCeEEEEcCCCCHHHHHHHhCCCCCEEEEEECCHHHHHHHHHHhHHhhcccCCCcEEEEECcHHHHHHhccCCceeEE
Confidence            4568999999999999999999888889999998 777776543          3789999999987 2 1 43 4 999


Q ss_pred             EeccccccCCC
Q 024350          256 FMKVICVCYLN  266 (269)
Q Consensus       256 ~l~~iLhd~~d  266 (269)
                      ++....+.+++
T Consensus       174 i~d~~~~~~~~  184 (304)
T 3bwc_A          174 IIDTTDPAGPA  184 (304)
T ss_dssp             EEECC------
T ss_pred             EECCCCccccc
Confidence            98766665543

>3lcv_B Sisomicin-gentamicin resistance methylase SGM; antibiotic resistance, methyltransferase, transferase; HET: SAM; 2.00A {Micromonospora zionensis} PDB: 3lcu_A*

Probab=97.84  E-value=1.8e-06  Score=73.35  Aligned_cols=76  Identities=16%  Similarity=0.089  Sum_probs=63.6

Q ss_pred             CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-----CCceEEecccCCcCCC--CcEEEecccccc
Q 024350          192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-----PGIDHVGGDLFESVPK--ADTIFMKVICVC  263 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-----~ri~~~~gD~~~~~P~--gD~~~l~~iLhd  263 (269)
                      ..+.+|+|||||.|-++..+...+|+.+.+.+|+ +..++.++.+     .+.++...|+..+.|+  +|++++.-++|.
T Consensus       131 ~~p~~VLDLGCG~GpLAl~~~~~~p~a~y~a~DId~~~le~a~~~l~~~g~~~~~~v~D~~~~~p~~~~DvaL~lkti~~  210 (281)
T 3lcv_B          131 PRPNTLRDLACGLNPLAAPWMGLPAETVYIASDIDARLVGFVDEALTRLNVPHRTNVADLLEDRLDEPADVTLLLKTLPC  210 (281)
T ss_dssp             CCCSEEEETTCTTGGGCCTTTTCCTTCEEEEEESBHHHHHHHHHHHHHTTCCEEEEECCTTTSCCCSCCSEEEETTCHHH
T ss_pred             CCCceeeeeccCccHHHHHHHhhCCCCEEEEEeCCHHHHHHHHHHHHhcCCCceEEEeeecccCCCCCcchHHHHHHHHH
Confidence            3578999999999999999999999999999998 6777766542     5688999999996564  499999999997


Q ss_pred             CCCC
Q 024350          264 YLNS  267 (269)
Q Consensus       264 ~~d~  267 (269)
                      ..++
T Consensus       211 Le~q  214 (281)
T 3lcv_B          211 LETQ  214 (281)
T ss_dssp             HHHH
T ss_pred             hhhh
Confidence            6554

>4e2x_A TCAB9; kijanose, tetronitrose, tetradeoxy sugar, sugar methylation, transferase; HET: SAH TYD; 1.40A {Micromonospora chalcea} PDB: 3ndi_A* 3ndj_A* 4e32_A* 4e33_A* 4e2y_A* 4e31_A* 4e2w_A* 4e2z_A* 4e30_A*

Probab=97.82  E-value=5e-06  Score=75.43  Aligned_cols=83  Identities=13%  Similarity=0.089  Sum_probs=58.8

Q ss_pred             HHHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCCCCceEEeccc----CC--cCC-CC
Q 024350          181 MEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSYPGIDHVGGDL----FE--SVP-KA  252 (269)
Q Consensus       181 ~~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~~ri~~~~gD~----~~--~~P-~g  252 (269)
                      ...+++.++ .....+|||||||+|.++..++++  ..+++++|. +.+++.+++. .+......|    .+  +.+ ..
T Consensus        96 ~~~l~~~~~-~~~~~~VLDiGcG~G~~~~~l~~~--g~~v~gvD~s~~~~~~a~~~-~~~~~~~~~~~~~~~~l~~~~~~  171 (416)
T 4e2x_A           96 ARDFLATEL-TGPDPFIVEIGCNDGIMLRTIQEA--GVRHLGFEPSSGVAAKAREK-GIRVRTDFFEKATADDVRRTEGP  171 (416)
T ss_dssp             HHHHHHTTT-CSSSCEEEEETCTTTTTHHHHHHT--TCEEEEECCCHHHHHHHHTT-TCCEECSCCSHHHHHHHHHHHCC
T ss_pred             HHHHHHHhC-CCCCCEEEEecCCCCHHHHHHHHc--CCcEEEECCCHHHHHHHHHc-CCCcceeeechhhHhhcccCCCC
Confidence            345666666 566789999999999999999987  448899997 6777777654 233222111    11  223 33


Q ss_pred             -cEEEeccccccCCCC
Q 024350          253 -DTIFMKVICVCYLNS  267 (269)
Q Consensus       253 -D~~~l~~iLhd~~d~  267 (269)
                       |+++..++||.++|.
T Consensus       172 fD~I~~~~vl~h~~d~  187 (416)
T 4e2x_A          172 ANVIYAANTLCHIPYV  187 (416)
T ss_dssp             EEEEEEESCGGGCTTH
T ss_pred             EEEEEECChHHhcCCH
Confidence             999999999999763

>2ipx_A RRNA 2'-O-methyltransferase fibrillarin; FBL, structural genomics, structural genomics consortium, SGC; HET: MTA; 1.82A {Homo sapiens}

Probab=97.82  E-value=1.3e-05  Score=66.70  Aligned_cols=68  Identities=19%  Similarity=0.151  Sum_probs=53.5

Q ss_pred             CCCccEEEEeCCCchHHHHHHHHHC-CCCeEEEeeh-hH----HHHhCCCCCCceEEecccCCc--CC---CC-cEEEec
Q 024350          191 FEHVKKLVDVGGGLGATLNMIISKY-PHIKGINYDL-LY----VIKNAPSYPGIDHVGGDLFES--VP---KA-DTIFMK  258 (269)
Q Consensus       191 ~~~~~~vvDvGGG~G~~~~~l~~~~-P~l~~vv~Dl-p~----vv~~a~~~~ri~~~~gD~~~~--~P---~g-D~~~l~  258 (269)
                      +....+|+|||||+|.++..+++.+ |+.+++.+|+ |.    .++.++..++++++.+|+.++  +|   .. |++++.
T Consensus        75 ~~~~~~vLDlG~G~G~~~~~la~~~g~~~~v~gvD~s~~~i~~~~~~a~~~~~v~~~~~d~~~~~~~~~~~~~~D~V~~~  154 (233)
T 2ipx_A           75 IKPGAKVLYLGAASGTTVSHVSDIVGPDGLVYAVEFSHRSGRDLINLAKKRTNIIPVIEDARHPHKYRMLIAMVDVIFAD  154 (233)
T ss_dssp             CCTTCEEEEECCTTSHHHHHHHHHHCTTCEEEEECCCHHHHHHHHHHHHHCTTEEEECSCTTCGGGGGGGCCCEEEEEEC
T ss_pred             CCCCCEEEEEcccCCHHHHHHHHHhCCCcEEEEEECCHHHHHHHHHHhhccCCeEEEEcccCChhhhcccCCcEEEEEEc
Confidence            4556799999999999999999997 7889999998 43    344454458999999999873  33   23 998873

>3lpm_A Putative methyltransferase; structural genomics, protein structure initiative, NEW YORK structural genomix research consortium, nysgxrc; 2.40A {Listeria monocytogenes}

Probab=97.82  E-value=1.9e-05  Score=66.96  Aligned_cols=68  Identities=18%  Similarity=0.221  Sum_probs=55.2

Q ss_pred             CC-CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-------CCceEEecccCCc---CCC-C-cEEE
Q 024350          191 FE-HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-------PGIDHVGGDLFES---VPK-A-DTIF  256 (269)
Q Consensus       191 ~~-~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~~---~P~-g-D~~~  256 (269)
                      .+ ...+|||||||+|.++..++++.+. +++.+|+ |..++.++++       +||+++.+|+.+.   ++. . |+++
T Consensus        46 ~~~~~~~vLDlG~G~G~~~~~la~~~~~-~v~gvDi~~~~~~~a~~n~~~~~~~~~v~~~~~D~~~~~~~~~~~~fD~Ii  124 (259)
T 3lpm_A           46 LPIRKGKIIDLCSGNGIIPLLLSTRTKA-KIVGVEIQERLADMAKRSVAYNQLEDQIEIIEYDLKKITDLIPKERADIVT  124 (259)
T ss_dssp             CCSSCCEEEETTCTTTHHHHHHHTTCCC-EEEEECCSHHHHHHHHHHHHHTTCTTTEEEECSCGGGGGGTSCTTCEEEEE
T ss_pred             CCCCCCEEEEcCCchhHHHHHHHHhcCC-cEEEEECCHHHHHHHHHHHHHCCCcccEEEEECcHHHhhhhhccCCccEEE
Confidence            55 5689999999999999999999876 8999997 7777766542       5899999999883   333 3 9998


Q ss_pred             ecc
Q 024350          257 MKV  259 (269)
Q Consensus       257 l~~  259 (269)
                      ..-
T Consensus       125 ~np  127 (259)
T 3lpm_A          125 CNP  127 (259)
T ss_dssp             ECC
T ss_pred             ECC
Confidence            853

>3tr6_A O-methyltransferase; cellular processes; HET: SAH; 2.70A {Coxiella burnetii} SCOP: c.66.1.0

Probab=97.80  E-value=5.8e-06  Score=68.25  Aligned_cols=68  Identities=19%  Similarity=0.146  Sum_probs=54.2

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCC-CCeEEEeeh-hHHHHhCCCC-------CCceEEecccCCcCC--------CC-cE
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYP-HIKGINYDL-LYVIKNAPSY-------PGIDHVGGDLFESVP--------KA-DT  254 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P-~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~~~P--------~g-D~  254 (269)
                      ...+|||||||+|..+..+++++| +.+++.+|. |..++.+++.       ++|+++.+|..+..|        .. |+
T Consensus        64 ~~~~vLdiG~G~G~~~~~la~~~~~~~~v~~vD~~~~~~~~a~~~~~~~~~~~~v~~~~~d~~~~~~~~~~~~~~~~fD~  143 (225)
T 3tr6_A           64 QAKKVIDIGTFTGYSAIAMGLALPKDGTLITCDVDEKSTALAKEYWEKAGLSDKIGLRLSPAKDTLAELIHAGQAWQYDL  143 (225)
T ss_dssp             TCSEEEEECCTTSHHHHHHHTTCCTTCEEEEEESCHHHHHHHHHHHHHTTCTTTEEEEESCHHHHHHHHHTTTCTTCEEE
T ss_pred             CCCEEEEeCCcchHHHHHHHHhCCCCCEEEEEeCCHHHHHHHHHHHHHCCCCCceEEEeCCHHHHHHHhhhccCCCCccE
Confidence            457999999999999999999998 889999998 7777766542       679999999876322        33 99


Q ss_pred             EEeccc
Q 024350          255 IFMKVI  260 (269)
Q Consensus       255 ~~l~~i  260 (269)
                      +++...
T Consensus       144 v~~~~~  149 (225)
T 3tr6_A          144 IYIDAD  149 (225)
T ss_dssp             EEECSC
T ss_pred             EEECCC
Confidence            886543

>1r18_A Protein-L-isoaspartate(D-aspartate)-O-methyltrans; methyltransferase, isomerization, protein repair, S-adenosyl homocysteine; HET: SAH; 2.20A {Drosophila melanogaster} SCOP: c.66.1.7

Probab=97.80  E-value=2.2e-05  Score=65.08  Aligned_cols=75  Identities=15%  Similarity=0.162  Sum_probs=60.0

Q ss_pred             CCCccEEEEeCCCchHHHHHHHHHCC------CCeEEEeeh-hHHHHhCCC-----------CCCceEEecccCCcCCC-
Q 024350          191 FEHVKKLVDVGGGLGATLNMIISKYP------HIKGINYDL-LYVIKNAPS-----------YPGIDHVGGDLFESVPK-  251 (269)
Q Consensus       191 ~~~~~~vvDvGGG~G~~~~~l~~~~P------~l~~vv~Dl-p~vv~~a~~-----------~~ri~~~~gD~~~~~P~-  251 (269)
                      .....+|+|||||+|.++..+++..+      ..+++.+|+ |..++.+++           .++|+++.+|..+++|. 
T Consensus        82 ~~~~~~VLdiG~G~G~~~~~la~~~~~~~~~~~~~v~~vD~~~~~~~~a~~~~~~~~~~~~~~~~v~~~~~d~~~~~~~~  161 (227)
T 1r18_A           82 LKPGARILDVGSGSGYLTACFYRYIKAKGVDADTRIVGIEHQAELVRRSKANLNTDDRSMLDSGQLLIVEGDGRKGYPPN  161 (227)
T ss_dssp             CCTTCEEEEESCTTSHHHHHHHHHHHHSCCCTTCEEEEEESCHHHHHHHHHHHHHHHHHHHHHTSEEEEESCGGGCCGGG
T ss_pred             CCCCCEEEEECCCccHHHHHHHHhcccccCCccCEEEEEEcCHHHHHHHHHHHHhcCccccCCCceEEEECCcccCCCcC
Confidence            34457999999999999999998766      368999996 777776654           25899999999886664 


Q ss_pred             C--cEEEeccccccCC
Q 024350          252 A--DTIFMKVICVCYL  265 (269)
Q Consensus       252 g--D~~~l~~iLhd~~  265 (269)
                      +  |+++....+|..+
T Consensus       162 ~~fD~I~~~~~~~~~~  177 (227)
T 1r18_A          162 APYNAIHVGAAAPDTP  177 (227)
T ss_dssp             CSEEEEEECSCBSSCC
T ss_pred             CCccEEEECCchHHHH
Confidence            3  9999998887654

>3evz_A Methyltransferase; NYSGXRC, NEW YORK SGX research CE structural genomics, protein structure initiative, pyrococc furiosus, PSI-2; 2.20A {Pyrococcus furiosus}

Probab=97.80  E-value=3e-05  Score=64.12  Aligned_cols=74  Identities=14%  Similarity=0.082  Sum_probs=56.5

Q ss_pred             CCCccEEEEeCCC-chHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-----CCceEEeccc--CCcCCC-C-cEEEecc
Q 024350          191 FEHVKKLVDVGGG-LGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-----PGIDHVGGDL--FESVPK-A-DTIFMKV  259 (269)
Q Consensus       191 ~~~~~~vvDvGGG-~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-----~ri~~~~gD~--~~~~P~-g-D~~~l~~  259 (269)
                      .+...+|+||||| +|.++..+++.. ..+++.+|+ |..++.++++     -+++++.+|+  +.+++. . |++++.-
T Consensus        53 ~~~~~~vLDlG~G~~G~~~~~la~~~-~~~v~~vD~s~~~~~~a~~~~~~~~~~v~~~~~d~~~~~~~~~~~fD~I~~np  131 (230)
T 3evz_A           53 LRGGEVALEIGTGHTAMMALMAEKFF-NCKVTATEVDEEFFEYARRNIERNNSNVRLVKSNGGIIKGVVEGTFDVIFSAP  131 (230)
T ss_dssp             CCSSCEEEEECCTTTCHHHHHHHHHH-CCEEEEEECCHHHHHHHHHHHHHTTCCCEEEECSSCSSTTTCCSCEEEEEECC
T ss_pred             cCCCCEEEEcCCCHHHHHHHHHHHhc-CCEEEEEECCHHHHHHHHHHHHHhCCCcEEEeCCchhhhhcccCceeEEEECC
Confidence            3456899999999 999999999987 788999997 7778776542     3799999996  445664 3 9999876


Q ss_pred             ccccCC
Q 024350          260 ICVCYL  265 (269)
Q Consensus       260 iLhd~~  265 (269)
                      .+|..+
T Consensus       132 p~~~~~  137 (230)
T 3evz_A          132 PYYDKP  137 (230)
T ss_dssp             CCC---
T ss_pred             CCcCCc
Confidence            555443

>1m6y_A S-adenosyl-methyltransferase MRAW; SAM-dependent methyltransferase fold, protein-cofactor product complex, structural genomics, PSI; HET: SAH; 1.90A {Thermotoga maritima} SCOP: a.60.13.1 c.66.1.23 PDB: 1n2x_A*

Probab=97.79  E-value=2.2e-05  Score=68.36  Aligned_cols=65  Identities=23%  Similarity=0.221  Sum_probs=53.4

Q ss_pred             HHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-----CCceEEecccCC
Q 024350          182 EKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-----PGIDHVGGDLFE  247 (269)
Q Consensus       182 ~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-----~ri~~~~gD~~~  247 (269)
                      ..+++.+. .....++||+|||+|.++..+++++|+.+++.+|. |..++.+++.     +|++++.+||.+
T Consensus        16 ~e~l~~L~-~~~g~~vLD~g~G~G~~s~~la~~~~~~~VigvD~d~~al~~A~~~~~~~g~~v~~v~~d~~~   86 (301)
T 1m6y_A           16 REVIEFLK-PEDEKIILDCTVGEGGHSRAILEHCPGCRIIGIDVDSEVLRIAEEKLKEFSDRVSLFKVSYRE   86 (301)
T ss_dssp             HHHHHHHC-CCTTCEEEETTCTTSHHHHHHHHHCTTCEEEEEESCHHHHHHHHHHTGGGTTTEEEEECCGGG
T ss_pred             HHHHHhcC-CCCCCEEEEEeCCcCHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHHhcCCcEEEEECCHHH
Confidence            34555555 55567999999999999999999999999999997 7888766542     689999999865

>2avd_A Catechol-O-methyltransferase; structural genomics, structural genomics consortium, SGC; HET: SAM; 1.70A {Homo sapiens} SCOP: c.66.1.1

Probab=97.79  E-value=6.9e-06  Score=67.99  Aligned_cols=68  Identities=15%  Similarity=0.090  Sum_probs=54.1

Q ss_pred             CCccEEEEeCCCchHHHHHHHHHCC-CCeEEEeeh-hHHHHhCCC-------CCCceEEecccCCc---CC-----CC-c
Q 024350          192 EHVKKLVDVGGGLGATLNMIISKYP-HIKGINYDL-LYVIKNAPS-------YPGIDHVGGDLFES---VP-----KA-D  253 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~~P-~l~~vv~Dl-p~vv~~a~~-------~~ri~~~~gD~~~~---~P-----~g-D  253 (269)
                      .+..+|+|||||+|..+..+++..| +.+++.+|. |..++.+++       .++|+++.+|+++.   ++     .. |
T Consensus        68 ~~~~~vLdiG~G~G~~~~~la~~~~~~~~v~~vD~~~~~~~~a~~~~~~~g~~~~i~~~~~d~~~~~~~~~~~~~~~~~D  147 (229)
T 2avd_A           68 IQAKKALDLGTFTGYSALALALALPADGRVVTCEVDAQPPELGRPLWRQAEAEHKIDLRLKPALETLDELLAAGEAGTFD  147 (229)
T ss_dssp             TTCCEEEEECCTTSHHHHHHHTTSCTTCEEEEEESCSHHHHHHHHHHHHTTCTTTEEEEESCHHHHHHHHHHTTCTTCEE
T ss_pred             cCCCEEEEEcCCccHHHHHHHHhCCCCCEEEEEECCHHHHHHHHHHHHHCCCCCeEEEEEcCHHHHHHHHHhcCCCCCcc
Confidence            3557999999999999999999988 789999998 777776654       26899999998763   21     33 9


Q ss_pred             EEEecc
Q 024350          254 TIFMKV  259 (269)
Q Consensus       254 ~~~l~~  259 (269)
                      ++++..
T Consensus       148 ~v~~d~  153 (229)
T 2avd_A          148 VAVVDA  153 (229)
T ss_dssp             EEEECS
T ss_pred             EEEECC
Confidence            888743

>1nt2_A Fibrillarin-like PRE-rRNA processing protein; adeMet, binding motif, RNA binding protein; HET: SAM; 2.90A {Archaeoglobus fulgidus} SCOP: c.66.1.3

Probab=97.79  E-value=3.9e-05  Score=63.15  Aligned_cols=68  Identities=10%  Similarity=0.053  Sum_probs=52.2

Q ss_pred             CCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHH----HHhCCCCCCceEEecccCCc-----CCCC-cEEEec
Q 024350          191 FEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYV----IKNAPSYPGIDHVGGDLFES-----VPKA-DTIFMK  258 (269)
Q Consensus       191 ~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~v----v~~a~~~~ri~~~~gD~~~~-----~P~g-D~~~l~  258 (269)
                      .+...+|||||||+|.++..+++..|+.+++.+|+ |..    .+.++...+|+++.+|..++     .+.. |+++..
T Consensus        55 ~~~g~~VLDlGcGtG~~~~~la~~~~~~~V~gvD~s~~~l~~~~~~a~~~~~v~~~~~d~~~~~~~~~~~~~fD~V~~~  133 (210)
T 1nt2_A           55 LRGDERVLYLGAASGTTVSHLADIVDEGIIYAVEYSAKPFEKLLELVRERNNIIPLLFDASKPWKYSGIVEKVDLIYQD  133 (210)
T ss_dssp             CCSSCEEEEETCTTSHHHHHHHHHTTTSEEEEECCCHHHHHHHHHHHHHCSSEEEECSCTTCGGGTTTTCCCEEEEEEC
T ss_pred             CCCCCEEEEECCcCCHHHHHHHHHcCCCEEEEEECCHHHHHHHHHHHhcCCCeEEEEcCCCCchhhcccccceeEEEEe
Confidence            44567999999999999999999998778999997 443    34444456788898998763     2333 998875

>2bm8_A Cephalosporin hydroxylase CMCI; cephamycin biosynthesis; 2.5A {Streptomyces clavuligerus} SCOP: c.66.1.50 PDB: 2bm9_A* 2br5_A* 2br4_A* 2br3_A*

Probab=97.77  E-value=2.7e-05  Score=65.28  Aligned_cols=66  Identities=21%  Similarity=0.170  Sum_probs=53.5

Q ss_pred             ccEEEEeCCCchHHHHHHHHH----CCCCeEEEeeh-hHHHHhCCC-CCCceEEecccCCc--CC---C-C-cEEEecc
Q 024350          194 VKKLVDVGGGLGATLNMIISK----YPHIKGINYDL-LYVIKNAPS-YPGIDHVGGDLFES--VP---K-A-DTIFMKV  259 (269)
Q Consensus       194 ~~~vvDvGGG~G~~~~~l~~~----~P~l~~vv~Dl-p~vv~~a~~-~~ri~~~~gD~~~~--~P---~-g-D~~~l~~  259 (269)
                      ..+|||||||+|..+..+++.    +|+.+++.+|+ |..++.++. .++|+++.+|..+.  +|   . . |++++..
T Consensus        82 ~~~VLDiG~GtG~~t~~la~~~~~~~~~~~V~gvD~s~~~l~~a~~~~~~v~~~~gD~~~~~~l~~~~~~~fD~I~~d~  160 (236)
T 2bm8_A           82 PRTIVELGVYNGGSLAWFRDLTKIMGIDCQVIGIDRDLSRCQIPASDMENITLHQGDCSDLTTFEHLREMAHPLIFIDN  160 (236)
T ss_dssp             CSEEEEECCTTSHHHHHHHHHHHHTTCCCEEEEEESCCTTCCCCGGGCTTEEEEECCSSCSGGGGGGSSSCSSEEEEES
T ss_pred             CCEEEEEeCCCCHHHHHHHHhhhhcCCCCEEEEEeCChHHHHHHhccCCceEEEECcchhHHHHHhhccCCCCEEEECC
Confidence            469999999999999999998    79999999997 677776654 37899999999873  22   2 3 8888654

>3giw_A Protein of unknown function DUF574; rossmann-fold protein, structural genomics, joint center for structural genomics, JCSG; HET: MSE UNL; 1.45A {Streptomyces avermitilis} PDB: 3go4_A*

Probab=97.77  E-value=2.9e-05  Score=66.63  Aligned_cols=75  Identities=20%  Similarity=0.346  Sum_probs=57.5

Q ss_pred             CccEEEEeCCCc--hHHHHHH-HHHCCCCeEEEeeh-hHHHHhCCCC------CCceEEecccCCcC-----C---CC-c
Q 024350          193 HVKKLVDVGGGL--GATLNMI-ISKYPHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFESV-----P---KA-D  253 (269)
Q Consensus       193 ~~~~vvDvGGG~--G~~~~~l-~~~~P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~~~-----P---~g-D  253 (269)
                      +..+|||||||.  +..+.++ .+.+|+.++|.+|. |.+++.+++.      .+++++.+|+.++-     |   .. |
T Consensus        78 g~~q~LDLGcG~pT~~~~~~la~~~~P~arVv~VD~sp~mLa~Ar~~l~~~~~~~~~~v~aD~~~~~~~l~~~~~~~~~D  157 (277)
T 3giw_A           78 GIRQFLDIGTGIPTSPNLHEIAQSVAPESRVVYVDNDPIVLTLSQGLLASTPEGRTAYVEADMLDPASILDAPELRDTLD  157 (277)
T ss_dssp             CCCEEEEESCCSCCSSCHHHHHHHHCTTCEEEEEECCHHHHHTTHHHHCCCSSSEEEEEECCTTCHHHHHTCHHHHTTCC
T ss_pred             CCCEEEEeCCCCCcccHHHHHHHHHCCCCEEEEEeCChHHHHHHHHHhccCCCCcEEEEEecccChhhhhcccccccccC
Confidence            568999999997  3334444 45689999999997 9999888652      47999999998731     2   11 4


Q ss_pred             -----EEEeccccccCCCC
Q 024350          254 -----TIFMKVICVCYLNS  267 (269)
Q Consensus       254 -----~~~l~~iLhd~~d~  267 (269)
                           ++++..+||..+|+
T Consensus       158 ~~~p~av~~~avLH~l~d~  176 (277)
T 3giw_A          158 LTRPVALTVIAIVHFVLDE  176 (277)
T ss_dssp             TTSCCEEEEESCGGGSCGG
T ss_pred             cCCcchHHhhhhHhcCCch
Confidence                 68899999999885

>1g8a_A Fibrillarin-like PRE-rRNA processing protein; rRNA binding, RNA binding, structural genomics, BSGC structure funded by NIH; 1.40A {Pyrococcus horikoshii} SCOP: c.66.1.3 PDB: 2nnw_B 3nmu_F* 3nvk_I* 3nvm_B 1pry_A

Probab=97.77  E-value=5.1e-05  Score=62.71  Aligned_cols=68  Identities=18%  Similarity=0.133  Sum_probs=52.1

Q ss_pred             CCCccEEEEeCCCchHHHHHHHHHC-CCCeEEEeeh-hHHHH----hCCCCCCceEEecccCCc-----CCCC-cEEEec
Q 024350          191 FEHVKKLVDVGGGLGATLNMIISKY-PHIKGINYDL-LYVIK----NAPSYPGIDHVGGDLFES-----VPKA-DTIFMK  258 (269)
Q Consensus       191 ~~~~~~vvDvGGG~G~~~~~l~~~~-P~l~~vv~Dl-p~vv~----~a~~~~ri~~~~gD~~~~-----~P~g-D~~~l~  258 (269)
                      +....+|+|+|||+|.++..++++. |+.+++.+|. |..++    .++..++++++.+|+.+.     .+.. |++++.
T Consensus        71 ~~~~~~vLDlG~G~G~~~~~la~~~~~~~~v~~vD~s~~~~~~~~~~~~~~~~v~~~~~d~~~~~~~~~~~~~~D~v~~~  150 (227)
T 1g8a_A           71 IKPGKSVLYLGIASGTTASHVSDIVGWEGKIFGIEFSPRVLRELVPIVEERRNIVPILGDATKPEEYRALVPKVDVIFED  150 (227)
T ss_dssp             CCTTCEEEEETTTSTTHHHHHHHHHCTTSEEEEEESCHHHHHHHHHHHSSCTTEEEEECCTTCGGGGTTTCCCEEEEEEC
T ss_pred             CCCCCEEEEEeccCCHHHHHHHHHhCCCeEEEEEECCHHHHHHHHHHHhccCCCEEEEccCCCcchhhcccCCceEEEEC
Confidence            4456799999999999999999985 6788999997 54443    344458999999999872     2334 888854

>3gru_A Dimethyladenosine transferase; rossman fold, ribosomal assem adenosyl-L-methionine, rRNA, methyltransferase, RNA-binding processing; HET: AMP; 1.60A {Methanocaldococcus jannaschii} PDB: 3grr_A* 3grv_A* 3gry_A* 3fyd_A 3fyc_A*

Probab=97.77  E-value=3.5e-05  Score=66.96  Aligned_cols=74  Identities=18%  Similarity=0.261  Sum_probs=57.0

Q ss_pred             HHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC----CCCceEEecccCC-cCCC-C-c
Q 024350          182 EKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS----YPGIDHVGGDLFE-SVPK-A-D  253 (269)
Q Consensus       182 ~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~----~~ri~~~~gD~~~-~~P~-g-D  253 (269)
                      ..+++..+ .....+|+|||||+|.++..++++  ..+++.+|+ |..++.+++    .++++++.+|+.+ ++|. . |
T Consensus        40 ~~Iv~~l~-~~~~~~VLEIG~G~G~lT~~La~~--~~~V~aVEid~~li~~a~~~~~~~~~v~vi~gD~l~~~~~~~~fD  116 (295)
T 3gru_A           40 NKAVESAN-LTKDDVVLEIGLGKGILTEELAKN--AKKVYVIEIDKSLEPYANKLKELYNNIEIIWGDALKVDLNKLDFN  116 (295)
T ss_dssp             HHHHHHTT-CCTTCEEEEECCTTSHHHHHHHHH--SSEEEEEESCGGGHHHHHHHHHHCSSEEEEESCTTTSCGGGSCCS
T ss_pred             HHHHHhcC-CCCcCEEEEECCCchHHHHHHHhc--CCEEEEEECCHHHHHHHHHHhccCCCeEEEECchhhCCcccCCcc
Confidence            34555555 556679999999999999999998  467899997 666665554    3799999999998 7775 3 8


Q ss_pred             EEEec
Q 024350          254 TIFMK  258 (269)
Q Consensus       254 ~~~l~  258 (269)
                      +++..
T Consensus       117 ~Iv~N  121 (295)
T 3gru_A          117 KVVAN  121 (295)
T ss_dssp             EEEEE
T ss_pred             EEEEe
Confidence            77643

>2pbf_A Protein-L-isoaspartate O-methyltransferase beta-A methyltransferase; protein repair, isoaspartyl formation, P. falciparum; HET: SAH; 2.00A {Plasmodium falciparum}

Probab=97.76  E-value=4.5e-05  Score=62.94  Aligned_cols=74  Identities=12%  Similarity=0.132  Sum_probs=59.4

Q ss_pred             CCCccEEEEeCCCchHHHHHHHHHC-----CCCeEEEeeh-hHHHHhCCC-----------CCCceEEecccCCcC----
Q 024350          191 FEHVKKLVDVGGGLGATLNMIISKY-----PHIKGINYDL-LYVIKNAPS-----------YPGIDHVGGDLFESV----  249 (269)
Q Consensus       191 ~~~~~~vvDvGGG~G~~~~~l~~~~-----P~l~~vv~Dl-p~vv~~a~~-----------~~ri~~~~gD~~~~~----  249 (269)
                      .....+|+|||||+|.++..+++..     |+.+++.+|. |..++.+++           .++++++.+|+.+..    
T Consensus        78 ~~~~~~VLdiG~G~G~~~~~la~~~~~~~~~~~~v~~vD~~~~~~~~a~~~~~~~~~~~~~~~~v~~~~~d~~~~~~~~~  157 (227)
T 2pbf_A           78 LKPGSRAIDVGSGSGYLTVCMAIKMNVLENKNSYVIGLERVKDLVNFSLENIKRDKPELLKIDNFKIIHKNIYQVNEEEK  157 (227)
T ss_dssp             SCTTCEEEEESCTTSHHHHHHHHHTTTTTCTTCEEEEEESCHHHHHHHHHHHHHHCGGGGSSTTEEEEECCGGGCCHHHH
T ss_pred             CCCCCEEEEECCCCCHHHHHHHHHhcccCCCCCEEEEEeCCHHHHHHHHHHHHHcCccccccCCEEEEECChHhcccccC
Confidence            4455799999999999999999987     6789999997 777766653           258999999998754    


Q ss_pred             C--CC-cEEEeccccccC
Q 024350          250 P--KA-DTIFMKVICVCY  264 (269)
Q Consensus       250 P--~g-D~~~l~~iLhd~  264 (269)
                      +  .. |++++...+|..
T Consensus       158 ~~~~~fD~I~~~~~~~~~  175 (227)
T 2pbf_A          158 KELGLFDAIHVGASASEL  175 (227)
T ss_dssp             HHHCCEEEEEECSBBSSC
T ss_pred             ccCCCcCEEEECCchHHH
Confidence            3  23 999998888754

>1u2z_A Histone-lysine N-methyltransferase, H3 lysine-79 specific; histone methyltransferase, nucleosome; HET: SAH; 2.20A {Saccharomyces cerevisiae} SCOP: c.66.1.31

Probab=97.75  E-value=5.4e-05  Score=69.13  Aligned_cols=79  Identities=11%  Similarity=0.187  Sum_probs=58.2

Q ss_pred             HHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhC-------CC--------CCCceEEecccC
Q 024350          183 KVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNA-------PS--------YPGIDHVGGDLF  246 (269)
Q Consensus       183 ~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a-------~~--------~~ri~~~~gD~~  246 (269)
                      .+++.+. +....+|||||||+|.++..+++.+|..+++++|+ |..++.|       ++        .++|+++.+|-+
T Consensus       233 ~ml~~l~-l~~g~~VLDLGCGsG~la~~LA~~~g~~~V~GVDis~~~l~~A~~Ml~~ar~~~~~~Gl~~~nV~~i~gD~~  311 (433)
T 1u2z_A          233 DVYQQCQ-LKKGDTFMDLGSGVGNCVVQAALECGCALSFGCEIMDDASDLTILQYEELKKRCKLYGMRLNNVEFSLKKSF  311 (433)
T ss_dssp             HHHHHTT-CCTTCEEEEESCTTSHHHHHHHHHHCCSEEEEEECCHHHHHHHHHHHHHHHHHHHHTTBCCCCEEEEESSCS
T ss_pred             HHHHhcC-CCCCCEEEEeCCCcCHHHHHHHHHCCCCEEEEEeCCHHHHHHHHHhHHHHHHHHHHcCCCCCceEEEEcCcc
Confidence            3455555 56678999999999999999999999889999997 5555554       32        268999887544


Q ss_pred             -Cc--C---CC-CcEEEeccccc
Q 024350          247 -ES--V---PK-ADTIFMKVICV  262 (269)
Q Consensus       247 -~~--~---P~-gD~~~l~~iLh  262 (269)
                       .+  +   .. .|++++.+.++
T Consensus       312 ~~~~~~~~~~~~FDvIvvn~~l~  334 (433)
T 1u2z_A          312 VDNNRVAELIPQCDVILVNNFLF  334 (433)
T ss_dssp             TTCHHHHHHGGGCSEEEECCTTC
T ss_pred             ccccccccccCCCCEEEEeCccc
Confidence             32  2   22 39999877764

>2nxc_A L11 mtase, ribosomal protein L11 methyltransferase; transferase S-adenosly-L-methionine dependent methyltransfer posttranslational modification; 1.59A {Thermus thermophilus} SCOP: c.66.1.39 PDB: 1ufk_A 2nxe_A* 2nxj_A 2nxn_A 2zbp_A* 2zbq_A* 2zbr_A* 3cjq_A* 3cjr_A* 3cju_A* 3egv_A* 3cjt_A*

Probab=97.75  E-value=1.1e-05  Score=68.40  Aligned_cols=67  Identities=19%  Similarity=0.240  Sum_probs=52.5

Q ss_pred             CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC------CCceEEecccCCcCCC-C-cEEEecccc
Q 024350          192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFESVPK-A-DTIFMKVIC  261 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~~~P~-g-D~~~l~~iL  261 (269)
                      ....+|+|||||+|.++..+++..+  +++++|+ |..++.++++      . +++..+|+.+.+|. . |+++.....
T Consensus       119 ~~~~~VLDiGcG~G~l~~~la~~g~--~v~gvDi~~~~v~~a~~n~~~~~~~-v~~~~~d~~~~~~~~~fD~Vv~n~~~  194 (254)
T 2nxc_A          119 RPGDKVLDLGTGSGVLAIAAEKLGG--KALGVDIDPMVLPQAEANAKRNGVR-PRFLEGSLEAALPFGPFDLLVANLYA  194 (254)
T ss_dssp             CTTCEEEEETCTTSHHHHHHHHTTC--EEEEEESCGGGHHHHHHHHHHTTCC-CEEEESCHHHHGGGCCEEEEEEECCH
T ss_pred             CCCCEEEEecCCCcHHHHHHHHhCC--eEEEEECCHHHHHHHHHHHHHcCCc-EEEEECChhhcCcCCCCCEEEECCcH
Confidence            3457999999999999999998766  8999997 7777766542      3 89999999876653 3 999875433

>3c3p_A Methyltransferase; NP_951602.1, structural genomics, joint for structural genomics, JCSG, protein structure initiative transferase; 1.90A {Geobacter sulfurreducens pca}

Probab=97.75  E-value=1.6e-05  Score=65.09  Aligned_cols=66  Identities=18%  Similarity=0.222  Sum_probs=53.4

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCC-CCeEEEeeh-hHHHHhCCCC-------CCceEEecccCCcCC--CC-cEEEec
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYP-HIKGINYDL-LYVIKNAPSY-------PGIDHVGGDLFESVP--KA-DTIFMK  258 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P-~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~~~P--~g-D~~~l~  258 (269)
                      +..+|||||||+|..+..+++..| +.+++.+|+ |..++.+++.       ++|+++.+|..+..|  .+ |++++.
T Consensus        56 ~~~~vLdiG~G~G~~~~~la~~~~~~~~v~~vD~~~~~~~~a~~~~~~~~~~~~v~~~~~d~~~~~~~~~~fD~v~~~  133 (210)
T 3c3p_A           56 QPQLVVVPGDGLGCASWWFARAISISSRVVMIDPDRDNVEHARRMLHDNGLIDRVELQVGDPLGIAAGQRDIDILFMD  133 (210)
T ss_dssp             CCSEEEEESCGGGHHHHHHHTTSCTTCEEEEEESCHHHHHHHHHHHHHHSGGGGEEEEESCHHHHHTTCCSEEEEEEE
T ss_pred             CCCEEEEEcCCccHHHHHHHHhCCCCCEEEEEECCHHHHHHHHHHHHHCCCCceEEEEEecHHHHhccCCCCCEEEEc
Confidence            457999999999999999999998 889999998 7777776642       589999999876333  33 777764

>1zx0_A Guanidinoacetate N-methyltransferase; structural genomics, structural genomics consortium; HET: SAH; 1.86A {Homo sapiens} PDB: 3orh_A* 1xcj_A* 1xcl_A* 1p1c_A* 1p1b_A* 1khh_A*

Probab=97.75  E-value=1.2e-05  Score=67.03  Aligned_cols=67  Identities=12%  Similarity=0.121  Sum_probs=51.4

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-----CCceEEecccCC---cCCC-C-cEEEe-ccc
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-----PGIDHVGGDLFE---SVPK-A-DTIFM-KVI  260 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-----~ri~~~~gD~~~---~~P~-g-D~~~l-~~i  260 (269)
                      ...+|||||||+|.++..+++..+. +++.+|+ |.+++.+++.     .+++++.+|+.+   +++. . |++++ ...
T Consensus        60 ~~~~vLDiGcGtG~~~~~l~~~~~~-~v~gvD~s~~~l~~a~~~~~~~~~~v~~~~~d~~~~~~~~~~~~fD~V~~d~~~  138 (236)
T 1zx0_A           60 KGGRVLEVGFGMAIAASKVQEAPID-EHWIIECNDGVFQRLRDWAPRQTHKVIPLKGLWEDVAPTLPDGHFDGILYDTYP  138 (236)
T ss_dssp             TCEEEEEECCTTSHHHHHHHTSCEE-EEEEEECCHHHHHHHHHHGGGCSSEEEEEESCHHHHGGGSCTTCEEEEEECCCC
T ss_pred             CCCeEEEEeccCCHHHHHHHhcCCC-eEEEEcCCHHHHHHHHHHHHhcCCCeEEEecCHHHhhcccCCCceEEEEECCcc
Confidence            4579999999999999999665443 7899997 7777766542     679999999876   3554 3 99988 444

>2b25_A Hypothetical protein; structural genomics, methyl transferase, SAM, structural GEN consortium, SGC, transferase; HET: SAM; 2.50A {Homo sapiens} SCOP: c.66.1.13

Probab=97.74  E-value=5.3e-05  Score=66.72  Aligned_cols=75  Identities=12%  Similarity=0.199  Sum_probs=56.9

Q ss_pred             HHHHhccCCCCccEEEEeCCCchHHHHHHHHH-CCCCeEEEeeh-hHHHHhCCC-----------------CCCceEEec
Q 024350          183 KVLESYKGFEHVKKLVDVGGGLGATLNMIISK-YPHIKGINYDL-LYVIKNAPS-----------------YPGIDHVGG  243 (269)
Q Consensus       183 ~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~-~P~l~~vv~Dl-p~vv~~a~~-----------------~~ri~~~~g  243 (269)
                      .++..++ .....+|||||||+|.++..+++. .|+.+++.+|+ |..++.+++                 .++|+++.+
T Consensus        96 ~~l~~l~-~~~g~~VLDiG~G~G~~~~~la~~~g~~~~v~~vD~~~~~~~~a~~~~~~~~~~~~ln~~~~~~~~v~~~~~  174 (336)
T 2b25_A           96 MILSMMD-INPGDTVLEAGSGSGGMSLFLSKAVGSQGRVISFEVRKDHHDLAKKNYKHWRDSWKLSHVEEWPDNVDFIHK  174 (336)
T ss_dssp             HHHHHHT-CCTTCEEEEECCTTSHHHHHHHHHHCTTCEEEEEESSHHHHHHHHHHHHHHHHHHTTTCSSCCCCCEEEEES
T ss_pred             HHHHhcC-CCCCCEEEEeCCCcCHHHHHHHHHhCCCceEEEEeCCHHHHHHHHHHHHHhhcccccccccccCCceEEEEC
Confidence            3455555 556689999999999999999998 58899999997 777766543                 258999999


Q ss_pred             ccCCc---CCC-C-cEEEec
Q 024350          244 DLFES---VPK-A-DTIFMK  258 (269)
Q Consensus       244 D~~~~---~P~-g-D~~~l~  258 (269)
                      |+.+.   ++. . |++++.
T Consensus       175 d~~~~~~~~~~~~fD~V~~~  194 (336)
T 2b25_A          175 DISGATEDIKSLTFDAVALD  194 (336)
T ss_dssp             CTTCCC-------EEEEEEC
T ss_pred             ChHHcccccCCCCeeEEEEC
Confidence            99873   343 3 988873

>1wy7_A Hypothetical protein PH1948; seven-stranded beta sheet, methyltransferase fold, structura genomics, transferase; HET: SAH; 2.20A {Pyrococcus horikoshii} SCOP: c.66.1.32

Probab=97.74  E-value=4.6e-05  Score=61.92  Aligned_cols=72  Identities=15%  Similarity=0.062  Sum_probs=57.1

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC----C-CceEEecccCCcCCCC-cEEEeccccccCC
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY----P-GIDHVGGDLFESVPKA-DTIFMKVICVCYL  265 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~----~-ri~~~~gD~~~~~P~g-D~~~l~~iLhd~~  265 (269)
                      ...+|+|+|||+|.++..+++..+ -+++++|+ |..++.+++.    . +++++.+|+.+ +|.. |++++.-.+|.+.
T Consensus        49 ~~~~vlD~g~G~G~~~~~l~~~~~-~~v~~vD~~~~~~~~a~~~~~~~~~~~~~~~~d~~~-~~~~~D~v~~~~p~~~~~  126 (207)
T 1wy7_A           49 EGKVVADLGAGTGVLSYGALLLGA-KEVICVEVDKEAVDVLIENLGEFKGKFKVFIGDVSE-FNSRVDIVIMNPPFGSQR  126 (207)
T ss_dssp             TTCEEEEETCTTCHHHHHHHHTTC-SEEEEEESCHHHHHHHHHHTGGGTTSEEEEESCGGG-CCCCCSEEEECCCCSSSS
T ss_pred             CcCEEEEeeCCCCHHHHHHHHcCC-CEEEEEECCHHHHHHHHHHHHHcCCCEEEEECchHH-cCCCCCEEEEcCCCcccc
Confidence            457999999999999999998743 37899997 7777766542    2 79999999987 4544 9999988777765


Q ss_pred             C
Q 024350          266 N  266 (269)
Q Consensus       266 d  266 (269)
                      .
T Consensus       127 ~  127 (207)
T 1wy7_A          127 K  127 (207)
T ss_dssp             T
T ss_pred             C
Confidence            3

>2kw5_A SLR1183 protein; structural genomics, northeast structural genomics consortium (NESG), PSI-2, protein structure initiative, unknown function; NMR {Synechocystis} PDB: 3mer_A

Probab=97.74  E-value=3.2e-05  Score=62.56  Aligned_cols=61  Identities=18%  Similarity=0.160  Sum_probs=50.4

Q ss_pred             EEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-----CCceEEecccCC-cCCC-C-cEEEec
Q 024350          196 KLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-----PGIDHVGGDLFE-SVPK-A-DTIFMK  258 (269)
Q Consensus       196 ~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-----~ri~~~~gD~~~-~~P~-g-D~~~l~  258 (269)
                      +|||||||+|.++..+++.  +.+++++|. |..++.+++.     .+++++.+|+.+ ++|. . |++++.
T Consensus        32 ~vLdiGcG~G~~~~~l~~~--~~~v~~vD~s~~~~~~a~~~~~~~~~~~~~~~~d~~~~~~~~~~fD~v~~~  101 (202)
T 2kw5_A           32 KILCLAEGEGRNACFLASL--GYEVTAVDQSSVGLAKAKQLAQEKGVKITTVQSNLADFDIVADAWEGIVSI  101 (202)
T ss_dssp             EEEECCCSCTHHHHHHHTT--TCEEEEECSSHHHHHHHHHHHHHHTCCEEEECCBTTTBSCCTTTCSEEEEE
T ss_pred             CEEEECCCCCHhHHHHHhC--CCeEEEEECCHHHHHHHHHHHHhcCCceEEEEcChhhcCCCcCCccEEEEE
Confidence            9999999999999999987  568999997 7777766643     389999999988 5664 3 999874

>1ws6_A Methyltransferase; structural genomics, riken structural genomics/proteomics initiative, RSGI; 2.50A {Thermus thermophilus} SCOP: c.66.1.46

Probab=97.72  E-value=9.6e-06  Score=63.61  Aligned_cols=68  Identities=15%  Similarity=0.021  Sum_probs=54.9

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC----C-CceEEecccCCcCC------CC-cEEEecc
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY----P-GIDHVGGDLFESVP------KA-DTIFMKV  259 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~----~-ri~~~~gD~~~~~P------~g-D~~~l~~  259 (269)
                      ...+|+|+|||+|.++..++++.++  ++.+|+ |..++.+++.    . +++++.+|+.+..|      +. |++++..
T Consensus        41 ~~~~vLD~GcG~G~~~~~l~~~~~~--v~~vD~~~~~~~~a~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~D~i~~~~  118 (171)
T 1ws6_A           41 RRGRFLDPFAGSGAVGLEAASEGWE--AVLVEKDPEAVRLLKENVRRTGLGARVVALPVEVFLPEAKAQGERFTVAFMAP  118 (171)
T ss_dssp             TCCEEEEETCSSCHHHHHHHHTTCE--EEEECCCHHHHHHHHHHHHHHTCCCEEECSCHHHHHHHHHHTTCCEEEEEECC
T ss_pred             CCCeEEEeCCCcCHHHHHHHHCCCe--EEEEeCCHHHHHHHHHHHHHcCCceEEEeccHHHHHHhhhccCCceEEEEECC
Confidence            4578999999999999999999877  899998 7888776652    2 89999999987322      13 9999987


Q ss_pred             ccc
Q 024350          260 ICV  262 (269)
Q Consensus       260 iLh  262 (269)
                      .+|
T Consensus       119 ~~~  121 (171)
T 1ws6_A          119 PYA  121 (171)
T ss_dssp             CTT
T ss_pred             CCc
Confidence            776

>2nyu_A Putative ribosomal RNA methyltransferase 2; SAM, structural genomics, structural genomics consortium, SGC; HET: SAM; 1.76A {Homo sapiens}

Probab=97.72  E-value=0.00012  Score=58.78  Aligned_cols=74  Identities=20%  Similarity=0.223  Sum_probs=54.9

Q ss_pred             HHHhccCCCCccEEEEeCCCchHHHHHHHHHCCC---------CeEEEeehhHHHHhCCCCCCceEE-ecccCCc-----
Q 024350          184 VLESYKGFEHVKKLVDVGGGLGATLNMIISKYPH---------IKGINYDLLYVIKNAPSYPGIDHV-GGDLFES-----  248 (269)
Q Consensus       184 ~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~---------l~~vv~Dlp~vv~~a~~~~ri~~~-~gD~~~~-----  248 (269)
                      +.+.+..+....+|||||||+|.++..+++++|.         .+++++|+.+.    ...++++++ .+|+.+.     
T Consensus        13 l~~~~~~~~~~~~vLDlGcG~G~~~~~la~~~~~~~~~~~~~~~~v~~vD~s~~----~~~~~~~~~~~~d~~~~~~~~~   88 (196)
T 2nyu_A           13 VNERHQILRPGLRVLDCGAAPGAWSQVAVQKVNAAGTDPSSPVGFVLGVDLLHI----FPLEGATFLCPADVTDPRTSQR   88 (196)
T ss_dssp             HHHHHCCCCTTCEEEEETCCSCHHHHHHHHHTTTTCCCTTSCCCEEEEECSSCC----CCCTTCEEECSCCTTSHHHHHH
T ss_pred             HHHhcCCCCCCCEEEEeCCCCCHHHHHHHHHhccccccccCCCceEEEEechhc----ccCCCCeEEEeccCCCHHHHHH
Confidence            3444542455689999999999999999999875         78999998652    124679999 9998762     


Q ss_pred             ----CCC-C-cEEEecccc
Q 024350          249 ----VPK-A-DTIFMKVIC  261 (269)
Q Consensus       249 ----~P~-g-D~~~l~~iL  261 (269)
                          .+. . |+++....+
T Consensus        89 ~~~~~~~~~fD~V~~~~~~  107 (196)
T 2nyu_A           89 ILEVLPGRRADVILSDMAP  107 (196)
T ss_dssp             HHHHSGGGCEEEEEECCCC
T ss_pred             HHHhcCCCCCcEEEeCCCC
Confidence                232 4 999875433

>3p9n_A Possible methyltransferase (methylase); RV2966C, adoMet binding, RNA methylase, RSMD, SAM-fold, RNA methyltransferase; 1.90A {Mycobacterium tuberculosis}

Probab=97.71  E-value=2.3e-05  Score=62.99  Aligned_cols=70  Identities=11%  Similarity=-0.009  Sum_probs=55.3

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC------CCceEEecccCCc---CC-CC-cEEEeccc
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFES---VP-KA-DTIFMKVI  260 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~~---~P-~g-D~~~l~~i  260 (269)
                      ...+|+|+|||+|.++..++++ +..+++.+|+ |..++.++++      ++++++.+|+.+.   .+ .. |++++.-.
T Consensus        44 ~~~~vLDlgcG~G~~~~~~~~~-~~~~v~~vD~~~~~~~~a~~~~~~~~~~~v~~~~~d~~~~~~~~~~~~fD~i~~~~p  122 (189)
T 3p9n_A           44 TGLAVLDLYAGSGALGLEALSR-GAASVLFVESDQRSAAVIARNIEALGLSGATLRRGAVAAVVAAGTTSPVDLVLADPP  122 (189)
T ss_dssp             TTCEEEEETCTTCHHHHHHHHT-TCSEEEEEECCHHHHHHHHHHHHHHTCSCEEEEESCHHHHHHHCCSSCCSEEEECCC
T ss_pred             CCCEEEEeCCCcCHHHHHHHHC-CCCeEEEEECCHHHHHHHHHHHHHcCCCceEEEEccHHHHHhhccCCCccEEEECCC
Confidence            4478999999999999988774 6668999997 7888777652      6899999999872   33 33 99998766


Q ss_pred             ccc
Q 024350          261 CVC  263 (269)
Q Consensus       261 Lhd  263 (269)
                      +|.
T Consensus       123 ~~~  125 (189)
T 3p9n_A          123 YNV  125 (189)
T ss_dssp             TTS
T ss_pred             CCc
Confidence            654

>2o07_A Spermidine synthase; structural genomics, structural genomics consortium, SGC, transferase; HET: SPD MTA; 1.89A {Homo sapiens} SCOP: c.66.1.17 PDB: 2o06_A* 2o05_A* 2o0l_A* 3rw9_A*

Probab=97.71  E-value=1.9e-05  Score=68.85  Aligned_cols=68  Identities=22%  Similarity=0.279  Sum_probs=55.4

Q ss_pred             CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC----------CCCceEEecccCCc--CC-CC-cEEE
Q 024350          192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS----------YPGIDHVGGDLFES--VP-KA-DTIF  256 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~----------~~ri~~~~gD~~~~--~P-~g-D~~~  256 (269)
                      .+..+|||||||+|..+.+++++.|..+++.+|+ |.+++.+++          .+|++++.+|.++.  .+ .. |+|+
T Consensus        94 ~~~~~VLdiG~G~G~~~~~l~~~~~~~~v~~vDid~~~i~~ar~~~~~~~~~~~~~rv~v~~~Da~~~l~~~~~~fD~Ii  173 (304)
T 2o07_A           94 PNPRKVLIIGGGDGGVLREVVKHPSVESVVQCEIDEDVIQVSKKFLPGMAIGYSSSKLTLHVGDGFEFMKQNQDAFDVII  173 (304)
T ss_dssp             SSCCEEEEEECTTSHHHHHHTTCTTCCEEEEEESCHHHHHHHHHHCHHHHGGGGCTTEEEEESCHHHHHHTCSSCEEEEE
T ss_pred             CCCCEEEEECCCchHHHHHHHHcCCCCEEEEEECCHHHHHHHHHHhHHhhcccCCCcEEEEECcHHHHHhhCCCCceEEE
Confidence            4568999999999999999999988899999998 788776653          37899999998762  23 34 9998


Q ss_pred             ecc
Q 024350          257 MKV  259 (269)
Q Consensus       257 l~~  259 (269)
                      +..
T Consensus       174 ~d~  176 (304)
T 2o07_A          174 TDS  176 (304)
T ss_dssp             EEC
T ss_pred             ECC
Confidence            743

>2frn_A Hypothetical protein PH0793; structural genomics, PSI, protein structure initiative, midwest center for structural genomics, MCSG; 2.10A {Pyrococcus horikoshii OT3} PDB: 3k6r_A 3a25_A* 3a26_A*

Probab=97.71  E-value=2.9e-05  Score=66.71  Aligned_cols=66  Identities=20%  Similarity=0.081  Sum_probs=53.8

Q ss_pred             CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-------CCceEEecccCCcCCC-C-cEEEec
Q 024350          192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-------PGIDHVGGDLFESVPK-A-DTIFMK  258 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~~~P~-g-D~~~l~  258 (269)
                      +...+|+|+|||+|.++..+++..+. +++.+|+ |..++.++++       ++++++.+|+++..+. . |++++.
T Consensus       124 ~~~~~VLDlgcG~G~~~~~la~~~~~-~V~~vD~s~~~~~~a~~n~~~n~~~~~v~~~~~D~~~~~~~~~fD~Vi~~  199 (278)
T 2frn_A          124 KPDELVVDMFAGIGHLSLPIAVYGKA-KVIAIEKDPYTFKFLVENIHLNKVEDRMSAYNMDNRDFPGENIADRILMG  199 (278)
T ss_dssp             CTTCEEEETTCTTTTTHHHHHHHTCC-EEEEECCCHHHHHHHHHHHHHTTCTTTEEEECSCTTTCCCCSCEEEEEEC
T ss_pred             CCCCEEEEecccCCHHHHHHHHhCCC-EEEEEECCHHHHHHHHHHHHHcCCCceEEEEECCHHHhcccCCccEEEEC
Confidence            34579999999999999999999887 8999997 7778766542       5799999999984443 3 988874

>1xj5_A Spermidine synthase 1; structural genomics, protein structure initiative, CESG, AT1G23820, putrescine aminopropyl transferase, SPDS1; 2.70A {Arabidopsis thaliana} SCOP: c.66.1.17 PDB: 2q41_A

Probab=97.70  E-value=2.5e-05  Score=69.08  Aligned_cols=67  Identities=19%  Similarity=0.270  Sum_probs=55.1

Q ss_pred             CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC----------CCCceEEecccCCc---CCC-C-cEE
Q 024350          192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS----------YPGIDHVGGDLFES---VPK-A-DTI  255 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~----------~~ri~~~~gD~~~~---~P~-g-D~~  255 (269)
                      ++..+|||||||+|..++.+++..|..+++++|+ |.+++.+++          .+||+++.+|.++.   .+. . |+|
T Consensus       119 ~~~~~VLdIG~G~G~~a~~la~~~~~~~V~~VDis~~~l~~Ar~~~~~~~~gl~~~rv~~~~~D~~~~l~~~~~~~fDlI  198 (334)
T 1xj5_A          119 PNPKKVLVIGGGDGGVLREVARHASIEQIDMCEIDKMVVDVSKQFFPDVAIGYEDPRVNLVIGDGVAFLKNAAEGSYDAV  198 (334)
T ss_dssp             SCCCEEEEETCSSSHHHHHHTTCTTCCEEEEEESCHHHHHHHHHHCHHHHGGGGSTTEEEEESCHHHHHHTSCTTCEEEE
T ss_pred             CCCCEEEEECCCccHHHHHHHHcCCCCEEEEEECCHHHHHHHHHHHHhhccccCCCcEEEEECCHHHHHHhccCCCccEE
Confidence            4568999999999999999999888899999998 788876653          26899999998762   343 3 999


Q ss_pred             Eec
Q 024350          256 FMK  258 (269)
Q Consensus       256 ~l~  258 (269)
                      ++.
T Consensus       199 i~d  201 (334)
T 1xj5_A          199 IVD  201 (334)
T ss_dssp             EEC
T ss_pred             EEC
Confidence            874

>3fut_A Dimethyladenosine transferase; methyltransferase, dimethyltransferase, dual-specific methyltransferase, 16S rRNA methyltransferase; 1.52A {Thermus thermophilus} PDB: 3fuu_A* 3fuv_A 3fuw_A* 3fux_A*

Probab=97.69  E-value=4e-05  Score=65.73  Aligned_cols=77  Identities=13%  Similarity=0.085  Sum_probs=55.4

Q ss_pred             HHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC---CCCceEEecccCC-cCCC--CcEE
Q 024350          183 KVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS---YPGIDHVGGDLFE-SVPK--ADTI  255 (269)
Q Consensus       183 ~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~---~~ri~~~~gD~~~-~~P~--gD~~  255 (269)
                      .+++..+ .... +|+|||||+|.++..++++.  .+++.+|+ +..++.+++   .++++++.+|+++ ++++  ....
T Consensus        38 ~Iv~~~~-~~~~-~VLEIG~G~G~lt~~L~~~~--~~V~avEid~~~~~~l~~~~~~~~v~vi~~D~l~~~~~~~~~~~~  113 (271)
T 3fut_A           38 RIVEAAR-PFTG-PVFEVGPGLGALTRALLEAG--AEVTAIEKDLRLRPVLEETLSGLPVRLVFQDALLYPWEEVPQGSL  113 (271)
T ss_dssp             HHHHHHC-CCCS-CEEEECCTTSHHHHHHHHTT--CCEEEEESCGGGHHHHHHHTTTSSEEEEESCGGGSCGGGSCTTEE
T ss_pred             HHHHhcC-CCCC-eEEEEeCchHHHHHHHHHcC--CEEEEEECCHHHHHHHHHhcCCCCEEEEECChhhCChhhccCccE
Confidence            4555555 5555 99999999999999999986  56788887 566655543   3689999999998 6663  2334


Q ss_pred             Eecccccc
Q 024350          256 FMKVICVC  263 (269)
Q Consensus       256 ~l~~iLhd  263 (269)
                      +++|.-++
T Consensus       114 iv~NlPy~  121 (271)
T 3fut_A          114 LVANLPYH  121 (271)
T ss_dssp             EEEEECSS
T ss_pred             EEecCccc
Confidence            55555433

>3dr5_A Putative O-methyltransferase; Q8NRD3, CGL1119, PF01596, CGR117, NESG, structural genomics, PSI-2, protein structure initiative; 2.25A {Corynebacterium glutamicum}

Probab=97.69  E-value=3.9e-05  Score=63.69  Aligned_cols=66  Identities=9%  Similarity=0.056  Sum_probs=52.7

Q ss_pred             cEEEEeCCCchHHHHHHHHHCC-CCeEEEeeh-hHHHHhCCC-------C-CCceEEecccCCc---CCC-C-cEEEecc
Q 024350          195 KKLVDVGGGLGATLNMIISKYP-HIKGINYDL-LYVIKNAPS-------Y-PGIDHVGGDLFES---VPK-A-DTIFMKV  259 (269)
Q Consensus       195 ~~vvDvGGG~G~~~~~l~~~~P-~l~~vv~Dl-p~vv~~a~~-------~-~ri~~~~gD~~~~---~P~-g-D~~~l~~  259 (269)
                      .+|||||||+|..+..++++.| +.+++.+|+ |..++.+++       . +||+++.+|..+.   ++. . |++++..
T Consensus        58 ~~vLdiG~G~G~~~~~la~~~~~~~~v~~vD~~~~~~~~a~~~~~~~g~~~~~i~~~~gda~~~l~~~~~~~fD~V~~d~  137 (221)
T 3dr5_A           58 TGAIAITPAAGLVGLYILNGLADNTTLTCIDPESEHQRQAKALFREAGYSPSRVRFLLSRPLDVMSRLANDSYQLVFGQV  137 (221)
T ss_dssp             CEEEEESTTHHHHHHHHHHHSCTTSEEEEECSCHHHHHHHHHHHHHTTCCGGGEEEECSCHHHHGGGSCTTCEEEEEECC
T ss_pred             CCEEEEcCCchHHHHHHHHhCCCCCEEEEEECCHHHHHHHHHHHHHcCCCcCcEEEEEcCHHHHHHHhcCCCcCeEEEcC
Confidence            4999999999999999999986 889999997 677766653       2 5899999998762   323 3 9998754


Q ss_pred             c
Q 024350          260 I  260 (269)
Q Consensus       260 i  260 (269)
                      .
T Consensus       138 ~  138 (221)
T 3dr5_A          138 S  138 (221)
T ss_dssp             C
T ss_pred             c
Confidence            3

>2cmg_A Spermidine synthase; transferase, putrescine aminopropyltransferase, spermidine biosynthesis, polyamine biosynthesis, SPEE; 2.0A {Helicobacter pylori} PDB: 2cmh_A

Probab=97.69  E-value=6.7e-05  Score=64.02  Aligned_cols=64  Identities=16%  Similarity=0.055  Sum_probs=53.3

Q ss_pred             CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC----------CCceEEecccCCcCCCC-cEEEec
Q 024350          192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY----------PGIDHVGGDLFESVPKA-DTIFMK  258 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~----------~ri~~~~gD~~~~~P~g-D~~~l~  258 (269)
                      ++..+|+|||||+|..+.++++. + .+++++|+ |.+++.+++.          +|++++.+|.++-. .. |++++.
T Consensus        71 ~~~~~VL~iG~G~G~~~~~ll~~-~-~~v~~veid~~~i~~ar~~~~~~~~~~~~~rv~~~~~D~~~~~-~~fD~Ii~d  146 (262)
T 2cmg_A           71 KELKEVLIVDGFDLELAHQLFKY-D-THIDFVQADEKILDSFISFFPHFHEVKNNKNFTHAKQLLDLDI-KKYDLIFCL  146 (262)
T ss_dssp             SCCCEEEEESSCCHHHHHHHTTS-S-CEEEEECSCHHHHGGGTTTSTTHHHHHTCTTEEEESSGGGSCC-CCEEEEEES
T ss_pred             CCCCEEEEEeCCcCHHHHHHHhC-C-CEEEEEECCHHHHHHHHHHHHhhccccCCCeEEEEechHHHHH-hhCCEEEEC
Confidence            35689999999999999999988 8 89999998 8888888752          58999999988743 43 988864

>3tm4_A TRNA (guanine N2-)-methyltransferase TRM14; rossmann fold, thump domain, tRNA methyltransferase; HET: SAM; 1.95A {Pyrococcus furiosus} PDB: 3tlj_A* 3tm5_A*

Probab=97.68  E-value=2.5e-05  Score=70.03  Aligned_cols=68  Identities=16%  Similarity=0.012  Sum_probs=56.6

Q ss_pred             CCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-------CCceEEecccCC-cCCC-C-cEEEec
Q 024350          191 FEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-------PGIDHVGGDLFE-SVPK-A-DTIFMK  258 (269)
Q Consensus       191 ~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~-~~P~-g-D~~~l~  258 (269)
                      |....+|+|+|||+|.+++++++..+..+++++|+ |.+++.++++       ++|+++.+|+.+ +.|. . |+++..
T Consensus       215 ~~~~~~vLD~gCGsG~~~i~~a~~~~~~~v~g~Dis~~~l~~A~~n~~~~gl~~~i~~~~~D~~~~~~~~~~fD~Ii~n  293 (373)
T 3tm4_A          215 ELDGGSVLDPMCGSGTILIELALRRYSGEIIGIEKYRKHLIGAEMNALAAGVLDKIKFIQGDATQLSQYVDSVDFAISN  293 (373)
T ss_dssp             TCCSCCEEETTCTTCHHHHHHHHTTCCSCEEEEESCHHHHHHHHHHHHHTTCGGGCEEEECCGGGGGGTCSCEEEEEEE
T ss_pred             cCCCCEEEEccCcCcHHHHHHHHhCCCCeEEEEeCCHHHHHHHHHHHHHcCCCCceEEEECChhhCCcccCCcCEEEEC
Confidence            45567999999999999999999998778999997 7888777642       589999999998 5553 3 988874

>3a27_A TYW2, uncharacterized protein MJ1557; wybutosine modification, transferase; HET: SAM; 2.00A {Methanocaldococcus jannaschii}

Probab=97.68  E-value=3.3e-05  Score=66.19  Aligned_cols=69  Identities=10%  Similarity=-0.026  Sum_probs=56.3

Q ss_pred             CCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC------CCceEEecccCCc-CCCC-cEEEecc
Q 024350          191 FEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFES-VPKA-DTIFMKV  259 (269)
Q Consensus       191 ~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~~-~P~g-D~~~l~~  259 (269)
                      +.+..+|+|+|||+|.++..++++.+..+++.+|+ |..++.++++      ++++++.+|+++. .+.. |++++..
T Consensus       117 ~~~~~~VLDlgcG~G~~s~~la~~~~~~~V~~vD~s~~av~~a~~n~~~n~l~~~~~~~~d~~~~~~~~~~D~Vi~d~  194 (272)
T 3a27_A          117 SNENEVVVDMFAGIGYFTIPLAKYSKPKLVYAIEKNPTAYHYLCENIKLNKLNNVIPILADNRDVELKDVADRVIMGY  194 (272)
T ss_dssp             CCTTCEEEETTCTTTTTHHHHHHHTCCSEEEEEECCHHHHHHHHHHHHHTTCSSEEEEESCGGGCCCTTCEEEEEECC
T ss_pred             cCCCCEEEEecCcCCHHHHHHHHhCCCCEEEEEeCCHHHHHHHHHHHHHcCCCCEEEEECChHHcCccCCceEEEECC
Confidence            44567999999999999999999999889999998 8888777642      6789999999885 2223 9887754

>1uir_A Polyamine aminopropyltransferase; spermidien synthase, spermine synthase, riken STR genomics/proteomics initiative, RSGI; 2.00A {Thermus thermophilus} SCOP: c.66.1.17 PDB: 3anx_A*

Probab=97.68  E-value=2e-05  Score=69.04  Aligned_cols=71  Identities=23%  Similarity=0.232  Sum_probs=56.9

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC-----------CCCceEEecccCCc--CC-CC-cEEE
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS-----------YPGIDHVGGDLFES--VP-KA-DTIF  256 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~-----------~~ri~~~~gD~~~~--~P-~g-D~~~  256 (269)
                      +..+|||||||.|..+..+++..|..+++++|+ |.+++.+++           .+|++++.+|..+.  .+ .. |+++
T Consensus        77 ~~~~VLdiG~G~G~~~~~l~~~~~~~~v~~vDid~~~i~~ar~~~~~~~~~~~~~~~v~~~~~D~~~~l~~~~~~fD~Ii  156 (314)
T 1uir_A           77 EPKRVLIVGGGEGATLREVLKHPTVEKAVMVDIDGELVEVAKRHMPEWHQGAFDDPRAVLVIDDARAYLERTEERYDVVI  156 (314)
T ss_dssp             CCCEEEEEECTTSHHHHHHTTSTTCCEEEEEESCHHHHHHHHHHCHHHHTTGGGCTTEEEEESCHHHHHHHCCCCEEEEE
T ss_pred             CCCeEEEEcCCcCHHHHHHHhcCCCCEEEEEECCHHHHHHHHHHhHhhccccccCCceEEEEchHHHHHHhcCCCccEEE
Confidence            558999999999999999999888889999998 777776542           36899999999773  23 34 9999


Q ss_pred             ecccccc
Q 024350          257 MKVICVC  263 (269)
Q Consensus       257 l~~iLhd  263 (269)
                      +....|.
T Consensus       157 ~d~~~~~  163 (314)
T 1uir_A          157 IDLTDPV  163 (314)
T ss_dssp             EECCCCB
T ss_pred             ECCCCcc
Confidence            8755543

>2hnk_A SAM-dependent O-methyltransferase; modified rossman fold; HET: SAH; 2.30A {Leptospira interrogans}

Probab=97.68  E-value=1.2e-05  Score=67.23  Aligned_cols=55  Identities=22%  Similarity=0.164  Sum_probs=46.7

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCC-CCeEEEeeh-hHHHHhCCCC-------CCceEEecccCC
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYP-HIKGINYDL-LYVIKNAPSY-------PGIDHVGGDLFE  247 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P-~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~  247 (269)
                      +..+|||||||+|..+..+++.+| ..+++.+|. |..++.+++.       ++|+++.+|+.+
T Consensus        60 ~~~~VLdiG~G~G~~~~~la~~~~~~~~v~~vD~~~~~~~~a~~~~~~~g~~~~v~~~~~d~~~  123 (239)
T 2hnk_A           60 GAKRIIEIGTFTGYSSLCFASALPEDGKILCCDVSEEWTNVARKYWKENGLENKIFLKLGSALE  123 (239)
T ss_dssp             TCSEEEEECCTTCHHHHHHHHHSCTTCEEEEEESCHHHHHHHHHHHHHTTCGGGEEEEESCHHH
T ss_pred             CcCEEEEEeCCCCHHHHHHHHhCCCCCEEEEEECCHHHHHHHHHHHHHcCCCCCEEEEECCHHH
Confidence            457999999999999999999998 789999997 7777766542       569999999876

>1inl_A Spermidine synthase; beta-barrel, rossman fold, structural genomics, PSI, protein structure initiative; 1.50A {Thermotoga maritima} SCOP: c.66.1.17 PDB: 1jq3_A*

Probab=97.67  E-value=2.4e-05  Score=67.94  Aligned_cols=66  Identities=29%  Similarity=0.321  Sum_probs=53.6

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC----------CCCceEEecccCCcC--C-CC-cEEEe
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS----------YPGIDHVGGDLFESV--P-KA-DTIFM  257 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~----------~~ri~~~~gD~~~~~--P-~g-D~~~l  257 (269)
                      +..+|+|||||+|..+.++++..|..+++++|+ |.+++.+++          .+|++++.+|.++.+  + .. |+|++
T Consensus        90 ~~~~VLdiG~G~G~~~~~l~~~~~~~~v~~vDid~~~~~~a~~~~~~~~~~~~~~~v~~~~~D~~~~l~~~~~~fD~Ii~  169 (296)
T 1inl_A           90 NPKKVLIIGGGDGGTLREVLKHDSVEKAILCEVDGLVIEAARKYLKQTSCGFDDPRAEIVIANGAEYVRKFKNEFDVIII  169 (296)
T ss_dssp             SCCEEEEEECTTCHHHHHHTTSTTCSEEEEEESCHHHHHHHHHHCHHHHGGGGCTTEEEEESCHHHHGGGCSSCEEEEEE
T ss_pred             CCCEEEEEcCCcCHHHHHHHhcCCCCEEEEEECCHHHHHHHHHHhHhhccccCCCceEEEECcHHHHHhhCCCCceEEEE
Confidence            457999999999999999999888899999998 777776543          368999999987632  2 34 99886


Q ss_pred             c
Q 024350          258 K  258 (269)
Q Consensus       258 ~  258 (269)
                      .
T Consensus       170 d  170 (296)
T 1inl_A          170 D  170 (296)
T ss_dssp             E
T ss_pred             c
Confidence            3

>2fpo_A Methylase YHHF; structural genomics, putative methyltransferase, PSI, protei structure initiative; HET: MSE; 2.05A {Escherichia coli} SCOP: c.66.1.46

Probab=97.66  E-value=2.9e-05  Score=63.31  Aligned_cols=68  Identities=13%  Similarity=0.090  Sum_probs=53.0

Q ss_pred             ccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC------CCceEEecccCC--cCCC-C-cEEEeccccc
Q 024350          194 VKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFE--SVPK-A-DTIFMKVICV  262 (269)
Q Consensus       194 ~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~--~~P~-g-D~~~l~~iLh  262 (269)
                      ..+|||+|||+|.++..++++.. -+++.+|+ |..++.++++      ++|+++.+|+.+  +.+. . |++++...+|
T Consensus        55 ~~~vLDlgcG~G~~~~~l~~~~~-~~V~~vD~s~~~l~~a~~~~~~~~~~~v~~~~~D~~~~~~~~~~~fD~V~~~~p~~  133 (202)
T 2fpo_A           55 DAQCLDCFAGSGALGLEALSRYA-AGATLIEMDRAVSQQLIKNLATLKAGNARVVNSNAMSFLAQKGTPHNIVFVDPPFR  133 (202)
T ss_dssp             TCEEEETTCTTCHHHHHHHHTTC-SEEEEECSCHHHHHHHHHHHHHTTCCSEEEECSCHHHHHSSCCCCEEEEEECCSSS
T ss_pred             CCeEEEeCCCcCHHHHHHHhcCC-CEEEEEECCHHHHHHHHHHHHHcCCCcEEEEECCHHHHHhhcCCCCCEEEECCCCC
Confidence            36899999999999999888754 37899997 7888776642      589999999877  3333 3 9998876544

>2yvl_A TRMI protein, hypothetical protein; tRNA, methyltransferase, S-adenosylmethionine, structural GE NPPSFA; HET: SAM; 2.20A {Aquifex aeolicus}

Probab=97.66  E-value=9.6e-05  Score=61.63  Aligned_cols=72  Identities=15%  Similarity=0.248  Sum_probs=57.0

Q ss_pred             HHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-------CCceEEecccCCcC-CC-C
Q 024350          183 KVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-------PGIDHVGGDLFESV-PK-A  252 (269)
Q Consensus       183 ~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~~~-P~-g  252 (269)
                      .++...+ .....+|+|||||+|.++..++++  ..+++++|. |..++.+++.       ++++++.+|+.+.. +. .
T Consensus        82 ~~~~~~~-~~~~~~vldiG~G~G~~~~~l~~~--~~~v~~vD~~~~~~~~a~~~~~~~~~~~~~~~~~~d~~~~~~~~~~  158 (248)
T 2yvl_A           82 YIALKLN-LNKEKRVLEFGTGSGALLAVLSEV--AGEVWTFEAVEEFYKTAQKNLKKFNLGKNVKFFNVDFKDAEVPEGI  158 (248)
T ss_dssp             HHHHHTT-CCTTCEEEEECCTTSHHHHHHHHH--SSEEEEECSCHHHHHHHHHHHHHTTCCTTEEEECSCTTTSCCCTTC
T ss_pred             HHHHhcC-CCCCCEEEEeCCCccHHHHHHHHh--CCEEEEEecCHHHHHHHHHHHHHcCCCCcEEEEEcChhhcccCCCc
Confidence            3445555 556679999999999999999999  778999996 7777766541       68999999999865 53 4


Q ss_pred             -cEEEe
Q 024350          253 -DTIFM  257 (269)
Q Consensus       253 -D~~~l  257 (269)
                       |++++
T Consensus       159 ~D~v~~  164 (248)
T 2yvl_A          159 FHAAFV  164 (248)
T ss_dssp             BSEEEE
T ss_pred             ccEEEE
Confidence             99886

>2pt6_A Spermidine synthase; transferase, structural genomics consor SGC,dcadoMet complex; HET: S4M 1PG; 2.00A {Plasmodium falciparum} PDB: 2pss_A* 2pt9_A*

Probab=97.65  E-value=2e-05  Score=69.25  Aligned_cols=66  Identities=17%  Similarity=0.135  Sum_probs=54.0

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC----------CCCceEEecccCCcC---CCC-cEEEe
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS----------YPGIDHVGGDLFESV---PKA-DTIFM  257 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~----------~~ri~~~~gD~~~~~---P~g-D~~~l  257 (269)
                      +..+|+|||||+|..+.++++..|..+++++|+ |.+++.+++          .+|++++.+|.++.+   +.. |++++
T Consensus       116 ~~~~VLdiG~G~G~~~~~l~~~~~~~~v~~vDis~~~l~~ar~~~~~~~~~~~~~~v~~~~~D~~~~l~~~~~~fDvIi~  195 (321)
T 2pt6_A          116 EPKNVLVVGGGDGGIIRELCKYKSVENIDICEIDETVIEVSKIYFKNISCGYEDKRVNVFIEDASKFLENVTNTYDVIIV  195 (321)
T ss_dssp             SCCEEEEEECTTCHHHHHHTTCTTCCEEEEEESCHHHHHHHHHHCTTTSGGGGSTTEEEEESCHHHHHHHCCSCEEEEEE
T ss_pred             CCCEEEEEcCCccHHHHHHHHcCCCCEEEEEECCHHHHHHHHHHHHhhccccCCCcEEEEEccHHHHHhhcCCCceEEEE
Confidence            457999999999999999999888899999998 788876542          368999999987632   334 99987


Q ss_pred             c
Q 024350          258 K  258 (269)
Q Consensus       258 ~  258 (269)
                      .
T Consensus       196 d  196 (321)
T 2pt6_A          196 D  196 (321)
T ss_dssp             E
T ss_pred             C
Confidence            4

>3uzu_A Ribosomal RNA small subunit methyltransferase A; ssgcid, seattle structural genomics center for infectio disease; 1.75A {Burkholderia pseudomallei}

Probab=97.65  E-value=1.8e-05  Score=68.28  Aligned_cols=67  Identities=18%  Similarity=0.264  Sum_probs=53.1

Q ss_pred             HHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCC--CeEEEeeh-hHHHHhCCCC--CCceEEecccCC-cCC
Q 024350          183 KVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPH--IKGINYDL-LYVIKNAPSY--PGIDHVGGDLFE-SVP  250 (269)
Q Consensus       183 ~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~--l~~vv~Dl-p~vv~~a~~~--~ri~~~~gD~~~-~~P  250 (269)
                      .+++..+ .....+|+|||||+|.++..++++.+.  .+++++|+ |..++.+++.  ++++++.+|+++ +++
T Consensus        33 ~iv~~~~-~~~~~~VLEIG~G~G~lt~~La~~~~~~~~~V~avDid~~~l~~a~~~~~~~v~~i~~D~~~~~~~  105 (279)
T 3uzu_A           33 AIVAAIR-PERGERMVEIGPGLGALTGPVIARLATPGSPLHAVELDRDLIGRLEQRFGELLELHAGDALTFDFG  105 (279)
T ss_dssp             HHHHHHC-CCTTCEEEEECCTTSTTHHHHHHHHCBTTBCEEEEECCHHHHHHHHHHHGGGEEEEESCGGGCCGG
T ss_pred             HHHHhcC-CCCcCEEEEEccccHHHHHHHHHhCCCcCCeEEEEECCHHHHHHHHHhcCCCcEEEECChhcCChh
Confidence            3555555 556679999999999999999998765  56899997 6777766553  789999999988 554

>1sui_A Caffeoyl-COA O-methyltransferase; rossmann fold, protein-cofactor-substrate complex; HET: SAH FRE; 2.70A {Medicago sativa} SCOP: c.66.1.1 PDB: 1sus_A*

Probab=97.64  E-value=1.7e-05  Score=67.06  Aligned_cols=67  Identities=19%  Similarity=0.181  Sum_probs=54.0

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCC-CCeEEEeeh-hHHHHhCCCC-------CCceEEecccCCc---C------CCC-c
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYP-HIKGINYDL-LYVIKNAPSY-------PGIDHVGGDLFES---V------PKA-D  253 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P-~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~~---~------P~g-D  253 (269)
                      +..+|||||||+|..+..+++..| +.+++.+|+ |..++.+++.       ++|+++.+|..+.   +      +.. |
T Consensus        79 ~~~~VLeiG~G~G~~~~~la~~~~~~~~v~~iD~s~~~~~~a~~~~~~~g~~~~i~~~~gda~~~l~~l~~~~~~~~~fD  158 (247)
T 1sui_A           79 NAKNTMEIGVYTGYSLLATALAIPEDGKILAMDINKENYELGLPVIKKAGVDHKIDFREGPALPVLDEMIKDEKNHGSYD  158 (247)
T ss_dssp             TCCEEEEECCGGGHHHHHHHHHSCTTCEEEEEESCCHHHHHHHHHHHHTTCGGGEEEEESCHHHHHHHHHHSGGGTTCBS
T ss_pred             CcCEEEEeCCCcCHHHHHHHHhCCCCCEEEEEECCHHHHHHHHHHHHHcCCCCCeEEEECCHHHHHHHHHhccCCCCCEE
Confidence            457999999999999999999998 789999998 7777766542       6899999998762   2      233 9


Q ss_pred             EEEecc
Q 024350          254 TIFMKV  259 (269)
Q Consensus       254 ~~~l~~  259 (269)
                      ++++..
T Consensus       159 ~V~~d~  164 (247)
T 1sui_A          159 FIFVDA  164 (247)
T ss_dssp             EEEECS
T ss_pred             EEEEcC
Confidence            998754

>1yub_A Ermam, rRNA methyltransferase; MLS antibiotics; NMR {Streptococcus pneumoniae} SCOP: c.66.1.24

Probab=97.63  E-value=3.9e-05  Score=64.56  Aligned_cols=75  Identities=8%  Similarity=0.204  Sum_probs=57.1

Q ss_pred             HHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC----CCceEEecccCC-cCCC-CcE
Q 024350          182 EKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY----PGIDHVGGDLFE-SVPK-ADT  254 (269)
Q Consensus       182 ~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~----~ri~~~~gD~~~-~~P~-gD~  254 (269)
                      ..+++.++ .....+|+|||||+|.++..++++.  .+++++|+ |..++.+++.    ++++++.+|+.+ +++. +..
T Consensus        19 ~~i~~~~~-~~~~~~VLDiG~G~G~~~~~l~~~~--~~v~~id~~~~~~~~a~~~~~~~~~v~~~~~D~~~~~~~~~~~f   95 (245)
T 1yub_A           19 NQIIKQLN-LKETDTVYEIGTGKGHLTTKLAKIS--KQVTSIELDSHLFNLSSEKLKLNTRVTLIHQDILQFQFPNKQRY   95 (245)
T ss_dssp             HHHHHHCC-CCSSEEEEECSCCCSSCSHHHHHHS--SEEEESSSSCSSSSSSSCTTTTCSEEEECCSCCTTTTCCCSSEE
T ss_pred             HHHHHhcC-CCCCCEEEEEeCCCCHHHHHHHHhC--CeEEEEECCHHHHHHHHHHhccCCceEEEECChhhcCcccCCCc
Confidence            34556665 5566899999999999999999985  78899997 6777777653    689999999988 5663 344


Q ss_pred             EEecc
Q 024350          255 IFMKV  259 (269)
Q Consensus       255 ~~l~~  259 (269)
                      .++.+
T Consensus        96 ~vv~n  100 (245)
T 1yub_A           96 KIVGN  100 (245)
T ss_dssp             EEEEE
T ss_pred             EEEEe
Confidence            44444

>1i1n_A Protein-L-isoaspartate O-methyltransferase; S-adenosyl homocysteine, protein repair; HET: SAH; 1.50A {Homo sapiens} SCOP: c.66.1.7 PDB: 1kr5_A*

Probab=97.62  E-value=7.7e-05  Score=61.47  Aligned_cols=74  Identities=19%  Similarity=0.121  Sum_probs=58.3

Q ss_pred             CCccEEEEeCCCchHHHHHHHHHC-CCCeEEEeeh-hHHHHhCCC-----------CCCceEEecccCCcCC-C-C-cEE
Q 024350          192 EHVKKLVDVGGGLGATLNMIISKY-PHIKGINYDL-LYVIKNAPS-----------YPGIDHVGGDLFESVP-K-A-DTI  255 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~~-P~l~~vv~Dl-p~vv~~a~~-----------~~ri~~~~gD~~~~~P-~-g-D~~  255 (269)
                      ....+|+|||||+|..+..+++.. |+.+++.+|+ |..++.+++           .++|+++.+|.....+ . . |++
T Consensus        76 ~~~~~vLDiG~G~G~~~~~la~~~~~~~~v~~vD~s~~~~~~a~~~~~~~~~~~~~~~~v~~~~~d~~~~~~~~~~fD~i  155 (226)
T 1i1n_A           76 HEGAKALDVGSGSGILTACFARMVGCTGKVIGIDHIKELVDDSVNNVRKDDPTLLSSGRVQLVVGDGRMGYAEEAPYDAI  155 (226)
T ss_dssp             CTTCEEEEETCTTSHHHHHHHHHHCTTCEEEEEESCHHHHHHHHHHHHHHCTHHHHTSSEEEEESCGGGCCGGGCCEEEE
T ss_pred             CCCCEEEEEcCCcCHHHHHHHHHhCCCcEEEEEeCCHHHHHHHHHHHHhhcccccCCCcEEEEECCcccCcccCCCcCEE
Confidence            345799999999999999999985 7789999997 777776643           2489999999986433 3 3 999


Q ss_pred             EeccccccCC
Q 024350          256 FMKVICVCYL  265 (269)
Q Consensus       256 ~l~~iLhd~~  265 (269)
                      ++...++...
T Consensus       156 ~~~~~~~~~~  165 (226)
T 1i1n_A          156 HVGAAAPVVP  165 (226)
T ss_dssp             EECSBBSSCC
T ss_pred             EECCchHHHH
Confidence            9888776543

>3r3h_A O-methyltransferase, SAM-dependent; structural genomics, PSI-biology, NEW YORK structural genomi research consortium, nysgrc; 2.65A {Legionella pneumophila subsp}

Probab=97.62  E-value=1e-05  Score=68.23  Aligned_cols=68  Identities=21%  Similarity=0.195  Sum_probs=53.7

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCC-CCeEEEeeh-hHHHHhCCC-------CCCceEEecccCCcC--------CCC-cE
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYP-HIKGINYDL-LYVIKNAPS-------YPGIDHVGGDLFESV--------PKA-DT  254 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P-~l~~vv~Dl-p~vv~~a~~-------~~ri~~~~gD~~~~~--------P~g-D~  254 (269)
                      +..+|||||||+|..+..+++..| +.+++.+|+ |..++.+++       .++|+++.+|..+..        +.. |+
T Consensus        60 ~~~~VLDiG~G~G~~t~~la~~~~~~~~v~~iD~~~~~~~~a~~~~~~~g~~~~i~~~~gda~~~l~~~~~~~~~~~fD~  139 (242)
T 3r3h_A           60 RAKKVLELGTFTGYSALAMSLALPDDGQVITCDINEGWTKHAHPYWREAKQEHKIKLRLGPALDTLHSLLNEGGEHQFDF  139 (242)
T ss_dssp             TCSEEEEEESCCSHHHHHHHHTSCTTCEEEEEECCCSSCCCSHHHHHHTTCTTTEEEEESCHHHHHHHHHHHHCSSCEEE
T ss_pred             CcCEEEEeeCCcCHHHHHHHHhCCCCCEEEEEECCHHHHHHHHHHHHHcCCCCcEEEEEcCHHHHHHHHhhccCCCCEeE
Confidence            457999999999999999999997 889999997 666655543       268999999997632        233 99


Q ss_pred             EEeccc
Q 024350          255 IFMKVI  260 (269)
Q Consensus       255 ~~l~~i  260 (269)
                      +++...
T Consensus       140 V~~d~~  145 (242)
T 3r3h_A          140 IFIDAD  145 (242)
T ss_dssp             EEEESC
T ss_pred             EEEcCC
Confidence            987543

>3bzb_A Uncharacterized protein; RED ALGA, protein structure initiat center for eukaryotic structural genomics, CESG, structural genomics; 2.79A {Cyanidioschyzon merolae}

Probab=97.62  E-value=8.3e-05  Score=63.91  Aligned_cols=73  Identities=11%  Similarity=0.062  Sum_probs=53.1

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh--hHHHHhCCC---------C-------CCceEEecccCC---cC--
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL--LYVIKNAPS---------Y-------PGIDHVGGDLFE---SV--  249 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl--p~vv~~a~~---------~-------~ri~~~~gD~~~---~~--  249 (269)
                      ...+|+|||||+|.++..+++. ...+++.+|+  |.+++.+++         .       ++|+++..|.-+   .+  
T Consensus        79 ~~~~vLDlG~G~G~~~~~~a~~-~~~~v~~~D~s~~~~~~~a~~n~~~N~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~  157 (281)
T 3bzb_A           79 AGKTVCELGAGAGLVSIVAFLA-GADQVVATDYPDPEILNSLESNIREHTANSCSSETVKRASPKVVPYRWGDSPDSLQR  157 (281)
T ss_dssp             TTCEEEETTCTTSHHHHHHHHT-TCSEEEEEECSCHHHHHHHHHHHHTTCC----------CCCEEEECCTTSCTHHHHH
T ss_pred             CCCeEEEecccccHHHHHHHHc-CCCEEEEEeCCCHHHHHHHHHHHHHhhhhhcccccCCCCCeEEEEecCCCccHHHHh
Confidence            4579999999999999988876 3448999998  677765432         1       378888655443   22  


Q ss_pred             --C-CC-cEEEeccccccCCC
Q 024350          250 --P-KA-DTIFMKVICVCYLN  266 (269)
Q Consensus       250 --P-~g-D~~~l~~iLhd~~d  266 (269)
                        + .. |++++..++|+.++
T Consensus       158 ~~~~~~fD~Ii~~dvl~~~~~  178 (281)
T 3bzb_A          158 CTGLQRFQVVLLADLLSFHQA  178 (281)
T ss_dssp             HHSCSSBSEEEEESCCSCGGG
T ss_pred             hccCCCCCEEEEeCcccChHH
Confidence              2 33 99999999987643

>2h1r_A Dimethyladenosine transferase, putative; SGC toronto dimethyladenosine transferase, structural genomics, structural genomics consortium; 1.89A {Plasmodium falciparum}

Probab=97.61  E-value=4.4e-05  Score=66.35  Aligned_cols=72  Identities=21%  Similarity=0.332  Sum_probs=51.5

Q ss_pred             HHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC------CCCceEEecccCC-cCCCCcE
Q 024350          183 KVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS------YPGIDHVGGDLFE-SVPKADT  254 (269)
Q Consensus       183 ~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~------~~ri~~~~gD~~~-~~P~gD~  254 (269)
                      .+++..+ .....+|+|||||+|.++..++++  ..+++++|+ |..++.+++      .++++++.+|+.+ +.++-|+
T Consensus        33 ~i~~~~~-~~~~~~VLDiG~G~G~lt~~La~~--~~~v~~vDi~~~~~~~a~~~~~~~~~~~v~~~~~D~~~~~~~~~D~  109 (299)
T 2h1r_A           33 KIIYAAK-IKSSDIVLEIGCGTGNLTVKLLPL--AKKVITIDIDSRMISEVKKRCLYEGYNNLEVYEGDAIKTVFPKFDV  109 (299)
T ss_dssp             HHHHHHC-CCTTCEEEEECCTTSTTHHHHTTT--SSEEEEECSCHHHHHHHHHHHHHTTCCCEEC----CCSSCCCCCSE
T ss_pred             HHHHhcC-CCCcCEEEEEcCcCcHHHHHHHhc--CCEEEEEECCHHHHHHHHHHHHHcCCCceEEEECchhhCCcccCCE
Confidence            4455555 556679999999999999999987  457899997 677766543      2689999999987 4444488


Q ss_pred             EEe
Q 024350          255 IFM  257 (269)
Q Consensus       255 ~~l  257 (269)
                      ++.
T Consensus       110 Vv~  112 (299)
T 2h1r_A          110 CTA  112 (299)
T ss_dssp             EEE
T ss_pred             EEE
Confidence            876

>2ih2_A Modification methylase TAQI; DNA, DNA methyltransferase, target base partner, 5-methylpyr 2(1H)-ONE, base flipping; HET: 5PY 6MA NEA; 1.61A {Thermus aquaticus} SCOP: c.66.1.27 d.287.1.1 PDB: 2ibs_A* 2ibt_A* 2ih4_A* 2ih5_A* 2jg3_A* 2np6_A* 2np7_A* 1aqj_A* 1aqi_A* 2adm_A* 1g38_A*

Probab=97.61  E-value=9.8e-05  Score=66.75  Aligned_cols=71  Identities=11%  Similarity=0.108  Sum_probs=55.4

Q ss_pred             HHHhccCCCCccEEEEeCCCchHHHHHHHHHC-CCCeEEEeeh-hHHHHhCCCCCCceEEecccCCcCCC-C-cEEEec
Q 024350          184 VLESYKGFEHVKKLVDVGGGLGATLNMIISKY-PHIKGINYDL-LYVIKNAPSYPGIDHVGGDLFESVPK-A-DTIFMK  258 (269)
Q Consensus       184 ~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~-P~l~~vv~Dl-p~vv~~a~~~~ri~~~~gD~~~~~P~-g-D~~~l~  258 (269)
                      +++.++ .....+|+|+|||+|.++..+++++ +..+++++|+ |..++.+   ++++++.+|+++..+. . |+++..
T Consensus        31 ~~~~~~-~~~~~~vLD~gcGtG~~~~~~~~~~~~~~~i~gvDi~~~~~~~a---~~~~~~~~D~~~~~~~~~fD~Ii~N  105 (421)
T 2ih2_A           31 MVSLAE-APRGGRVLEPACAHGPFLRAFREAHGTAYRFVGVEIDPKALDLP---PWAEGILADFLLWEPGEAFDLILGN  105 (421)
T ss_dssp             HHHHCC-CCTTCEEEEETCTTCHHHHHHHHHHCSCSEEEEEESCTTTCCCC---TTEEEEESCGGGCCCSSCEEEEEEC
T ss_pred             HHHhhc-cCCCCEEEECCCCChHHHHHHHHHhCCCCeEEEEECCHHHHHhC---CCCcEEeCChhhcCccCCCCEEEEC
Confidence            344444 3344699999999999999999988 7789999998 5666555   7899999999985443 4 999873

>2b2c_A Spermidine synthase; beta-alpha, transferase; 2.50A {Caenorhabditis elegans} SCOP: c.66.1.17

Probab=97.60  E-value=2.8e-05  Score=68.20  Aligned_cols=67  Identities=27%  Similarity=0.355  Sum_probs=54.5

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC----------CCCceEEecccCCcC--C-CC-cEEEe
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS----------YPGIDHVGGDLFESV--P-KA-DTIFM  257 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~----------~~ri~~~~gD~~~~~--P-~g-D~~~l  257 (269)
                      +..+|||||||+|..+..+++..|..+++++|+ |.+++.+++          .+||+++.+|.++.+  + .. |+|++
T Consensus       108 ~~~~VLdIG~G~G~~~~~l~~~~~~~~v~~vDid~~~i~~Ar~~~~~~~~~~~~~rv~~~~~D~~~~l~~~~~~fD~Ii~  187 (314)
T 2b2c_A          108 DPKRVLIIGGGDGGILREVLKHESVEKVTMCEIDEMVIDVAKKFLPGMSCGFSHPKLDLFCGDGFEFLKNHKNEFDVIIT  187 (314)
T ss_dssp             SCCEEEEESCTTSHHHHHHTTCTTCCEEEEECSCHHHHHHHHHHCTTTSGGGGCTTEEEECSCHHHHHHHCTTCEEEEEE
T ss_pred             CCCEEEEEcCCcCHHHHHHHHcCCCCEEEEEECCHHHHHHHHHHHHHhccccCCCCEEEEEChHHHHHHhcCCCceEEEE
Confidence            558999999999999999999888899999998 778776542          368999999987732  3 34 99987


Q ss_pred             cc
Q 024350          258 KV  259 (269)
Q Consensus       258 ~~  259 (269)
                      ..
T Consensus       188 d~  189 (314)
T 2b2c_A          188 DS  189 (314)
T ss_dssp             CC
T ss_pred             cC
Confidence            44

>2i7c_A Spermidine synthase; transferase, structural genomics consor; HET: AAT 1PG; 1.71A {Plasmodium falciparum} PDB: 2hte_A* 3b7p_A* 3rie_A* 2pwp_A*

Probab=97.59  E-value=3.6e-05  Score=66.41  Aligned_cols=68  Identities=18%  Similarity=0.140  Sum_probs=55.2

Q ss_pred             CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC----------CCCceEEecccCCc---CCCC-cEEE
Q 024350          192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS----------YPGIDHVGGDLFES---VPKA-DTIF  256 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~----------~~ri~~~~gD~~~~---~P~g-D~~~  256 (269)
                      ++..+|+|||||.|..+.++++..|..+++++|+ |.+++.+++          .+|++++.+|..+.   .+.. |+++
T Consensus        77 ~~~~~VLdiG~G~G~~~~~l~~~~~~~~v~~vDid~~~i~~a~~~~~~~~~~~~~~~v~~~~~D~~~~l~~~~~~fD~Ii  156 (283)
T 2i7c_A           77 KEPKNVLVVGGGDGGIIRELCKYKSVENIDICEIDETVIEVSKIYFKNISCGYEDKRVNVFIEDASKFLENVTNTYDVII  156 (283)
T ss_dssp             SSCCEEEEEECTTSHHHHHHTTCTTCCEEEEEESCHHHHHHHHHHCTTTSGGGGSTTEEEEESCHHHHHHHCCSCEEEEE
T ss_pred             CCCCeEEEEeCCcCHHHHHHHHcCCCCEEEEEECCHHHHHHHHHHhHHhccccCCCcEEEEECChHHHHHhCCCCceEEE
Confidence            4568999999999999999999888899999998 778776543          36899999998763   2334 9998


Q ss_pred             ecc
Q 024350          257 MKV  259 (269)
Q Consensus       257 l~~  259 (269)
                      +..
T Consensus       157 ~d~  159 (283)
T 2i7c_A          157 VDS  159 (283)
T ss_dssp             EEC
T ss_pred             EcC
Confidence            743

>3c3y_A Pfomt, O-methyltransferase; plant secondary metabolism; HET: SAH; 1.37A {Mesembryanthemum crystallinum}

Probab=97.59  E-value=2.3e-05  Score=65.66  Aligned_cols=67  Identities=19%  Similarity=0.193  Sum_probs=54.1

Q ss_pred             CCccEEEEeCCCchHHHHHHHHHCC-CCeEEEeeh-hHHHHhCCCC-------CCceEEecccCCc---C------CCC-
Q 024350          192 EHVKKLVDVGGGLGATLNMIISKYP-HIKGINYDL-LYVIKNAPSY-------PGIDHVGGDLFES---V------PKA-  252 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~~P-~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~~---~------P~g-  252 (269)
                      .+..+|||||||+|..+..++++.| +.+++.+|+ |..++.+++.       +||+++.+|..+.   +      +.. 
T Consensus        69 ~~~~~VLeiG~G~G~~~~~la~~~~~~~~v~~iD~~~~~~~~a~~~~~~~g~~~~i~~~~gda~~~l~~l~~~~~~~~~f  148 (237)
T 3c3y_A           69 VNAKKTIEVGVFTGYSLLLTALSIPDDGKITAIDFDREAYEIGLPFIRKAGVEHKINFIESDAMLALDNLLQGQESEGSY  148 (237)
T ss_dssp             TTCCEEEEECCTTSHHHHHHHHHSCTTCEEEEEESCHHHHHHHHHHHHHTTCGGGEEEEESCHHHHHHHHHHSTTCTTCE
T ss_pred             hCCCEEEEeCCCCCHHHHHHHHhCCCCCEEEEEECCHHHHHHHHHHHHHcCCCCcEEEEEcCHHHHHHHHHhccCCCCCc
Confidence            3567999999999999999999998 789999998 7777766542       5899999998762   2      233 


Q ss_pred             cEEEec
Q 024350          253 DTIFMK  258 (269)
Q Consensus       253 D~~~l~  258 (269)
                      |++++.
T Consensus       149 D~I~~d  154 (237)
T 3c3y_A          149 DFGFVD  154 (237)
T ss_dssp             EEEEEC
T ss_pred             CEEEEC
Confidence            999875

>2vdw_A Vaccinia virus capping enzyme D1 subunit; nucleotidyltransferase, S-adenosyl-L-methionine, RNA metabolism, mRNA processing, methyltransferase, poxvirus; HET: SAH; 2.70A {Vaccinia virus}

Probab=97.58  E-value=6.1e-05  Score=65.56  Aligned_cols=73  Identities=12%  Similarity=0.029  Sum_probs=52.5

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC----C--------CceEEecccCC---------cCC
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY----P--------GIDHVGGDLFE---------SVP  250 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~----~--------ri~~~~gD~~~---------~~P  250 (269)
                      ...+|||||||+|..+..+++. ...+++++|+ +.+++.|++.    .        ++++...|+..         +.|
T Consensus        48 ~~~~VLDlGCG~G~~l~~~~~~-~~~~v~GiD~S~~~l~~A~~~~~~~~~~~~~~~~~~~f~~~d~~~d~~~~~l~~~~~  126 (302)
T 2vdw_A           48 NKRKVLAIDFGNGADLEKYFYG-EIALLVATDPDADAIARGNERYNKLNSGIKTKYYKFDYIQETIRSDTFVSSVREVFY  126 (302)
T ss_dssp             SCCEEEETTCTTTTTHHHHHHT-TCSEEEEEESCHHHHHHHHHHHHHHCC----CCCEEEEEECCTTSSSHHHHHHTTCC
T ss_pred             CCCeEEEEecCCcHhHHHHHhc-CCCeEEEEECCHHHHHHHHHHHHhccccccccccccchhhhhcccchhhhhhhcccc
Confidence            3579999999999877766654 3457999997 7888877652    1        25677777721         245


Q ss_pred             C-C-cEEEecccccc-CCC
Q 024350          251 K-A-DTIFMKVICVC-YLN  266 (269)
Q Consensus       251 ~-g-D~~~l~~iLhd-~~d  266 (269)
                      . . |++++..+||. |++
T Consensus       127 ~~~FD~V~~~~~lhy~~~~  145 (302)
T 2vdw_A          127 FGKFNIIDWQFAIHYSFHP  145 (302)
T ss_dssp             SSCEEEEEEESCGGGTCST
T ss_pred             CCCeeEEEECchHHHhCCH
Confidence            3 3 99999999997 443

>1mjf_A Spermidine synthase; spermidine synthetase, structural genomics, PSI, protein structure initiative; 1.80A {Pyrococcus furiosus} SCOP: c.66.1.17 PDB: 2e5w_A* 2zsu_A*

Probab=97.58  E-value=3.7e-05  Score=66.18  Aligned_cols=67  Identities=22%  Similarity=0.273  Sum_probs=53.6

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCC----------------CCCCceEEecccCCcC--CCC-
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAP----------------SYPGIDHVGGDLFESV--PKA-  252 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~----------------~~~ri~~~~gD~~~~~--P~g-  252 (269)
                      +..+|+|||||+|..+.++++. |..+++++|+ |.+++.++                ..+|++++.+|..+.+  +.. 
T Consensus        75 ~~~~VLdiG~G~G~~~~~l~~~-~~~~v~~vDid~~~i~~ar~~~~~~~~l~~~~~~~~~~~v~~~~~D~~~~l~~~~~f  153 (281)
T 1mjf_A           75 KPKRVLVIGGGDGGTVREVLQH-DVDEVIMVEIDEDVIMVSKDLIKIDNGLLEAMLNGKHEKAKLTIGDGFEFIKNNRGF  153 (281)
T ss_dssp             CCCEEEEEECTTSHHHHHHTTS-CCSEEEEEESCHHHHHHHHHHTCTTTTHHHHHHTTCCSSEEEEESCHHHHHHHCCCE
T ss_pred             CCCeEEEEcCCcCHHHHHHHhC-CCCEEEEEECCHHHHHHHHHHHhhccccccccccCCCCcEEEEECchHHHhcccCCe
Confidence            4579999999999999999998 8889999998 77776543                2478999999986522  434 


Q ss_pred             cEEEeccc
Q 024350          253 DTIFMKVI  260 (269)
Q Consensus       253 D~~~l~~i  260 (269)
                      |++++...
T Consensus       154 D~Ii~d~~  161 (281)
T 1mjf_A          154 DVIIADST  161 (281)
T ss_dssp             EEEEEECC
T ss_pred             eEEEECCC
Confidence            99987544

>2ift_A Putative methylase HI0767; NESG, Y767_haein, structural genomics, PSI-2, protein structure initiative; 2.30A {Haemophilus influenzae} SCOP: c.66.1.46

Probab=97.58  E-value=3.5e-05  Score=62.77  Aligned_cols=68  Identities=13%  Similarity=0.059  Sum_probs=52.3

Q ss_pred             ccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC--------CCceEEecccCCcC----C-C-CcEEEec
Q 024350          194 VKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY--------PGIDHVGGDLFESV----P-K-ADTIFMK  258 (269)
Q Consensus       194 ~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~--------~ri~~~~gD~~~~~----P-~-gD~~~l~  258 (269)
                      ..+|||+|||+|.++..++++.+ .+++.+|+ |.+++.++++        ++++++.+|+.+..    + + -|++++.
T Consensus        54 ~~~vLDlGcGtG~~~~~~~~~~~-~~v~gvD~s~~~l~~a~~~~~~~~~~~~~v~~~~~d~~~~~~~~~~~~~fD~I~~~  132 (201)
T 2ift_A           54 QSECLDGFAGSGSLGFEALSRQA-KKVTFLELDKTVANQLKKNLQTLKCSSEQAEVINQSSLDFLKQPQNQPHFDVVFLD  132 (201)
T ss_dssp             TCEEEETTCTTCHHHHHHHHTTC-SEEEEECSCHHHHHHHHHHHHHTTCCTTTEEEECSCHHHHTTSCCSSCCEEEEEEC
T ss_pred             CCeEEEcCCccCHHHHHHHHccC-CEEEEEECCHHHHHHHHHHHHHhCCCccceEEEECCHHHHHHhhccCCCCCEEEEC
Confidence            36899999999999999887754 57899997 7788776542        58999999987622    1 3 4888887


Q ss_pred             cccc
Q 024350          259 VICV  262 (269)
Q Consensus       259 ~iLh  262 (269)
                      ..+|
T Consensus       133 ~~~~  136 (201)
T 2ift_A          133 PPFH  136 (201)
T ss_dssp             CCSS
T ss_pred             CCCC
Confidence            6644

>3k0b_A Predicted N6-adenine-specific DNA methylase; methylase,PF01170, putative RNA methylase, PSI,MCSG, structu genomics; 1.50A {Listeria monocytogenes str}

Probab=97.56  E-value=9.1e-05  Score=66.89  Aligned_cols=76  Identities=11%  Similarity=-0.001  Sum_probs=58.2

Q ss_pred             HHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCC--------------------------------------CeEEEe
Q 024350          182 EKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPH--------------------------------------IKGINY  223 (269)
Q Consensus       182 ~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~--------------------------------------l~~vv~  223 (269)
                      ..++.... |.....|+|.+||+|+++++.+....+                                      .+++.+
T Consensus       191 a~ll~l~~-~~~~~~vlDp~CGSGt~~ieaa~~~~~~apg~~R~f~f~~w~~~~~~~w~~~~~~a~~~~~~~~~~~V~Gv  269 (393)
T 3k0b_A          191 AALVLLTS-WHPDRPFYDPVCGSGTIPIEAALIGQNIAPGFNREFVSETWDWMPKQVWADARQEAEDLANYDQPLNIIGG  269 (393)
T ss_dssp             HHHHHHSC-CCTTSCEEETTCTTSHHHHHHHHHHTTCCTTTTSCCGGGGCTTSCHHHHHHHHHHHHHHCCTTCCCCEEEE
T ss_pred             HHHHHHhC-CCCCCeEEEcCCCCCHHHHHHHHHhcCcCCCccccchhhccccCCHHHHHHHHHHHHHhhcccCCceEEEE
Confidence            34555555 777789999999999999998876544                                      568999


Q ss_pred             eh-hHHHHhCCCC-------CCceEEecccCC-cCCCC-cEEEec
Q 024350          224 DL-LYVIKNAPSY-------PGIDHVGGDLFE-SVPKA-DTIFMK  258 (269)
Q Consensus       224 Dl-p~vv~~a~~~-------~ri~~~~gD~~~-~~P~g-D~~~l~  258 (269)
                      |+ |.+++.|+.+       ++|+++.+|+++ +.+.. |++++.
T Consensus       270 Did~~al~~Ar~Na~~~gl~~~I~~~~~D~~~~~~~~~fD~Iv~N  314 (393)
T 3k0b_A          270 DIDARLIEIAKQNAVEAGLGDLITFRQLQVADFQTEDEYGVVVAN  314 (393)
T ss_dssp             ESCHHHHHHHHHHHHHTTCTTCSEEEECCGGGCCCCCCSCEEEEC
T ss_pred             ECCHHHHHHHHHHHHHcCCCCceEEEECChHhCCCCCCCCEEEEC
Confidence            97 7888776642       579999999998 44444 888764

>3tqs_A Ribosomal RNA small subunit methyltransferase A; protein synthesis; 1.98A {Coxiella burnetii} SCOP: c.66.1.0

Probab=97.55  E-value=4.6e-05  Score=64.81  Aligned_cols=65  Identities=14%  Similarity=0.217  Sum_probs=51.5

Q ss_pred             HHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC----CCCceEEecccCC-cCC
Q 024350          183 KVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS----YPGIDHVGGDLFE-SVP  250 (269)
Q Consensus       183 ~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~----~~ri~~~~gD~~~-~~P  250 (269)
                      .+++..+ .....+|+|||||+|.++..++++.  .+++.+|+ |..++.+++    .++++++.+|+.+ +++
T Consensus        20 ~iv~~~~-~~~~~~VLEIG~G~G~lt~~La~~~--~~V~avEid~~~~~~~~~~~~~~~~v~~i~~D~~~~~~~   90 (255)
T 3tqs_A           20 KIVSAIH-PQKTDTLVEIGPGRGALTDYLLTEC--DNLALVEIDRDLVAFLQKKYNQQKNITIYQNDALQFDFS   90 (255)
T ss_dssp             HHHHHHC-CCTTCEEEEECCTTTTTHHHHTTTS--SEEEEEECCHHHHHHHHHHHTTCTTEEEEESCTTTCCGG
T ss_pred             HHHHhcC-CCCcCEEEEEcccccHHHHHHHHhC--CEEEEEECCHHHHHHHHHHHhhCCCcEEEEcchHhCCHH
Confidence            4555555 5566799999999999999999985  57899997 667766543    3789999999998 554

>4azs_A Methyltransferase WBDD; kinase; HET: AMP SAM; 2.15A {Escherichia coli} PDB: 4azt_A* 4azv_A* 4azw_A*

Probab=97.53  E-value=1.6e-05  Score=75.35  Aligned_cols=73  Identities=14%  Similarity=0.074  Sum_probs=58.2

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC------CCceEEecccCC---cCCC-C-cEEEeccc
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFE---SVPK-A-DTIFMKVI  260 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~---~~P~-g-D~~~l~~i  260 (269)
                      ...+|||||||.|.++..+++.  +.+++++|. +..|+.|+.+      -.|++..++..+   +.+. . |+|+...+
T Consensus        66 ~~~~vLDvGCG~G~~~~~la~~--ga~V~giD~~~~~i~~a~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~fD~v~~~e~  143 (569)
T 4azs_A           66 RPLNVLDLGCAQGFFSLSLASK--GATIVGIDFQQENINVCRALAEENPDFAAEFRVGRIEEVIAALEEGEFDLAIGLSV  143 (569)
T ss_dssp             SCCEEEEETCTTSHHHHHHHHT--TCEEEEEESCHHHHHHHHHHHHTSTTSEEEEEECCHHHHHHHCCTTSCSEEEEESC
T ss_pred             CCCeEEEECCCCcHHHHHHHhC--CCEEEEECCCHHHHHHHHHHHHhcCCCceEEEECCHHHHhhhccCCCccEEEECcc
Confidence            4579999999999999999987  678999997 7888776542      258999988754   3343 3 99999999


Q ss_pred             cccCCCC
Q 024350          261 CVCYLNS  267 (269)
Q Consensus       261 Lhd~~d~  267 (269)
                      ||..+|+
T Consensus       144 ~ehv~~~  150 (569)
T 4azs_A          144 FHHIVHL  150 (569)
T ss_dssp             HHHHHHH
T ss_pred             hhcCCCH
Confidence            9987654

>3ldu_A Putative methylase; structural genomics, PSI-2, protein structure initiative, midwest center for structural genomics, MCSG; HET: MSE GTP; 1.70A {Clostridium difficile}

Probab=97.52  E-value=8e-05  Score=67.09  Aligned_cols=75  Identities=20%  Similarity=0.092  Sum_probs=57.7

Q ss_pred             HHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCC--------------------------------------CeEEEe
Q 024350          182 EKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPH--------------------------------------IKGINY  223 (269)
Q Consensus       182 ~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~--------------------------------------l~~vv~  223 (269)
                      ..++.... |....+|+|++||+|.++++.+....+                                      .+++++
T Consensus       185 a~ll~~~~-~~~~~~vlDp~CGSGt~lieaa~~~~~~apg~~R~f~f~~w~~~~~~~w~~~~~~a~~~~~~~~~~~V~Gv  263 (385)
T 3ldu_A          185 AGLIYLTP-WKAGRVLVDPMCGSGTILIEAAMIGINMAPGLNREFISEKWRTLDKKIWWDVRKDAFNKIDNESKFKIYGY  263 (385)
T ss_dssp             HHHHHTSC-CCTTSCEEETTCTTCHHHHHHHHHHTTCCTTTTSCCGGGGCTTSCHHHHHHHHHHHHHHSCCSCCCCEEEE
T ss_pred             HHHHHhhC-CCCCCeEEEcCCCCCHHHHHHHHHHhhhCCCcccccchhhcccCCHHHHHHHHHHHHHHhhccCCceEEEE
Confidence            34455555 777789999999999999998876432                                      578999


Q ss_pred             eh-hHHHHhCCCC-------CCceEEecccCC-cCCCC-cEEEe
Q 024350          224 DL-LYVIKNAPSY-------PGIDHVGGDLFE-SVPKA-DTIFM  257 (269)
Q Consensus       224 Dl-p~vv~~a~~~-------~ri~~~~gD~~~-~~P~g-D~~~l  257 (269)
                      |+ |.+++.|+.+       ++|++..+|+++ +.|.. |+++.
T Consensus       264 Did~~ai~~Ar~Na~~~gl~~~i~~~~~D~~~l~~~~~~D~Iv~  307 (385)
T 3ldu_A          264 DIDEESIDIARENAEIAGVDEYIEFNVGDATQFKSEDEFGFIIT  307 (385)
T ss_dssp             ESCHHHHHHHHHHHHHHTCGGGEEEEECCGGGCCCSCBSCEEEE
T ss_pred             ECCHHHHHHHHHHHHHcCCCCceEEEECChhhcCcCCCCcEEEE
Confidence            97 8888877653       479999999998 44444 88876

>3dou_A Ribosomal RNA large subunit methyltransferase J; cell division, structural genomics, protein structure initiative, PSI; HET: SAM; 1.45A {Thermoplasma volcanium} SCOP: c.66.1.0

Probab=97.51  E-value=0.00013  Score=59.03  Aligned_cols=62  Identities=21%  Similarity=0.363  Sum_probs=48.5

Q ss_pred             HHHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeehhHHHHhCCCCCCceEEecccCCc
Q 024350          181 MEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPSYPGIDHVGGDLFES  248 (269)
Q Consensus       181 ~~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp~vv~~a~~~~ri~~~~gD~~~~  248 (269)
                      ...+.+.|..++...+|||||||+|.++..++++  ..+++.+|+-+.    ...++|+++.+|+.+.
T Consensus        13 L~ei~~~~~~~~~g~~VLDlG~G~G~~s~~la~~--~~~V~gvD~~~~----~~~~~v~~~~~D~~~~   74 (191)
T 3dou_A           13 LEFLLDRYRVVRKGDAVIEIGSSPGGWTQVLNSL--ARKIISIDLQEM----EEIAGVRFIRCDIFKE   74 (191)
T ss_dssp             HHHHHHHHCCSCTTCEEEEESCTTCHHHHHHTTT--CSEEEEEESSCC----CCCTTCEEEECCTTSS
T ss_pred             HHHHHHHcCCCCCCCEEEEEeecCCHHHHHHHHc--CCcEEEEecccc----ccCCCeEEEEccccCH
Confidence            3455666663456689999999999999999988  778899998542    2347899999999873

>3b73_A PHIH1 repressor-like protein; winged-helix-turn-helix, structural genomics, PSI-2, protein structure initiative; 2.12A {Haloarcula marismortui atcc 43049}

Probab=97.51  E-value=0.00017  Score=53.29  Aligned_cols=65  Identities=15%  Similarity=0.221  Sum_probs=54.7

Q ss_pred             HhcChhHHHHhcCCCCCCCHHHHHHhC--CCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhchhhhcCC
Q 024350           34 VELDVFEIITKAGPGAKLSVSEIVAQI--PLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSKYFVRNN  111 (269)
Q Consensus        34 ~~lglfd~L~~~g~~~~~s~~eLA~~~--~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s~~l~~~~  111 (269)
                      .+..|++.|.+.   +++|+.+||+.+  +++      .. .+++-|+.|...|+|+.   .+.+.|++|+.++.+....
T Consensus        14 ~d~~IL~~L~~~---g~~s~~eLA~~l~~giS------~~-aVs~rL~~Le~~GLV~~---~~rg~Y~LT~~G~~~l~~~   80 (111)
T 3b73_A           14 WDDRILEIIHEE---GNGSPKELEDRDEIRIS------KS-SVSRRLKKLADHDLLQP---LANGVYVITEEGEAYLNGE   80 (111)
T ss_dssp             HHHHHHHHHHHH---SCBCHHHHHTSTTCCSC------HH-HHHHHHHHHHHTTSEEE---CSTTCEEECHHHHHHHTTC
T ss_pred             HHHHHHHHHHHc---CCCCHHHHHHHHhcCCC------HH-HHHHHHHHHHHCCCEEe---cCCceEEECchHHHHHHHH
Confidence            346688899876   599999999999  998      66 99999999999999994   3456999999999776554

>2i62_A Nicotinamide N-methyltransferase; structural genomics, structural genomics consortium, SGC; HET: SAH; 1.80A {Mus musculus} PDB: 2iip_A* 3rod_A*

Probab=97.49  E-value=2.4e-05  Score=65.93  Aligned_cols=71  Identities=15%  Similarity=0.107  Sum_probs=55.1

Q ss_pred             CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC----C------------------------------
Q 024350          192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY----P------------------------------  236 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~----~------------------------------  236 (269)
                      ....+|||||||+|.++..+++..+ .+++++|. |..++.+++.    .                              
T Consensus        55 ~~~~~vLDlGcG~G~~~~~l~~~~~-~~v~gvD~s~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~  133 (265)
T 2i62_A           55 VKGELLIDIGSGPTIYQLLSACESF-TEIIVSDYTDQNLWELQKWLKKEPGAFDWSPVVTYVCDLEGNRMKGPEKEEKLR  133 (265)
T ss_dssp             CCEEEEEEESCTTCCGGGTTGGGTE-EEEEEEESCHHHHHHHHHHHTTCTTCCCCHHHHHHHHHHTTTCSCHHHHHHHHH
T ss_pred             cCCCEEEEECCCccHHHHHHhhccc-CeEEEecCCHHHHHHHHHHHhcCCccccchhhhhhhhcccccccchHHHHHHhh
Confidence            3457999999999999999988876 57899997 6777665431    1                              


Q ss_pred             -Cc-eEEecccCCcC--CC---C--cEEEecccccc
Q 024350          237 -GI-DHVGGDLFESV--PK---A--DTIFMKVICVC  263 (269)
Q Consensus       237 -ri-~~~~gD~~~~~--P~---g--D~~~l~~iLhd  263 (269)
                       +| +++.+|+.+..  +.   +  |++++..+||.
T Consensus       134 ~~v~~~~~~d~~~~~~~~~~~~~~fD~v~~~~~l~~  169 (265)
T 2i62_A          134 RAIKQVLKCDVTQSQPLGGVSLPPADCLLSTLCLDA  169 (265)
T ss_dssp             HHEEEEEECCTTSSSTTTTCCCCCEEEEEEESCHHH
T ss_pred             hhheeEEEeeeccCCCCCccccCCccEEEEhhhhhh
Confidence             27 99999998732  33   3  99999999993

>3cbg_A O-methyltransferase; cyanobacterium; HET: SAH FER 4FE; 2.00A {Synechocystis SP}

Probab=97.48  E-value=3.2e-05  Score=64.51  Aligned_cols=68  Identities=19%  Similarity=0.187  Sum_probs=53.6

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCC-CCeEEEeeh-hHHHHhCCCC-------CCceEEecccCCc---CC-----CC-cE
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYP-HIKGINYDL-LYVIKNAPSY-------PGIDHVGGDLFES---VP-----KA-DT  254 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P-~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~~---~P-----~g-D~  254 (269)
                      +..+|||||||+|..+..+++..| +.+++.+|. |..++.+++.       ++|+++.+|..+.   +|     .. |+
T Consensus        72 ~~~~vLdiG~G~G~~~~~la~~~~~~~~v~~iD~~~~~~~~a~~~~~~~g~~~~i~~~~~d~~~~l~~l~~~~~~~~fD~  151 (232)
T 3cbg_A           72 GAKQVLEIGVFRGYSALAMALQLPPDGQIIACDQDPNATAIAKKYWQKAGVAEKISLRLGPALATLEQLTQGKPLPEFDL  151 (232)
T ss_dssp             TCCEEEEECCTTSHHHHHHHTTSCTTCEEEEEESCHHHHHHHHHHHHHHTCGGGEEEEESCHHHHHHHHHTSSSCCCEEE
T ss_pred             CCCEEEEecCCCCHHHHHHHHhCCCCCEEEEEECCHHHHHHHHHHHHHcCCCCcEEEEEcCHHHHHHHHHhcCCCCCcCE
Confidence            457999999999999999999998 789999997 7777766542       5899999997652   22     33 99


Q ss_pred             EEeccc
Q 024350          255 IFMKVI  260 (269)
Q Consensus       255 ~~l~~i  260 (269)
                      +++...
T Consensus       152 V~~d~~  157 (232)
T 3cbg_A          152 IFIDAD  157 (232)
T ss_dssp             EEECSC
T ss_pred             EEECCC
Confidence            887644

>2heo_A Z-DNA binding protein 1; protein DLM1-Z-DNA complex, immune system-DNA complex; 1.70A {Mus musculus} PDB: 1j75_A

Probab=97.48  E-value=0.0001  Score=49.25  Aligned_cols=55  Identities=15%  Similarity=0.365  Sum_probs=45.9

Q ss_pred             hcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecC
Q 024350           35 ELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLA  101 (269)
Q Consensus        35 ~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t  101 (269)
                      +..|++.|...+  .++|..|||+.+|++      .. .+.++|..|...|++..   ...+.|+++
T Consensus        12 ~~~IL~~L~~~~--~~~s~~eLA~~lgls------r~-tv~~~l~~L~~~G~I~~---~~~G~y~lg   66 (67)
T 2heo_A           12 EQKILQVLSDDG--GPVAIFQLVKKCQVP------KK-TLNQVLYRLKKEDRVSS---PSPKYWSIG   66 (67)
T ss_dssp             HHHHHHHHHHHC--SCEEHHHHHHHHCSC------HH-HHHHHHHHHHHTTSEEE---EETTEEEEC
T ss_pred             HHHHHHHHHHcC--CCcCHHHHHHHHCcC------HH-HHHHHHHHHHHCCcEec---CCCceEeeC
Confidence            556888998754  589999999999997      67 99999999999999873   345888864

>3dmg_A Probable ribosomal RNA small subunit methyltransf; monomethyltranserase, 16S rRNA methyltransferase, N2 G1207 methyltransferase; HET: SAH; 1.55A {Thermus thermophilus} PDB: 3dmf_A* 3dmh_A* 2zul_A* 2zwv_A*

Probab=97.47  E-value=0.0001  Score=66.26  Aligned_cols=69  Identities=14%  Similarity=0.118  Sum_probs=56.2

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-----CCceEEecccCCc-CC-CC-cEEEecccccc
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-----PGIDHVGGDLFES-VP-KA-DTIFMKVICVC  263 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-----~ri~~~~gD~~~~-~P-~g-D~~~l~~iLhd  263 (269)
                      ...+|+|||||+|.++..++++  +.+++.+|. |..++.++++     -+++++.+|+++. .+ .. |++++.-.+|.
T Consensus       233 ~~~~VLDlGcG~G~~~~~la~~--g~~V~gvDis~~al~~A~~n~~~~~~~v~~~~~D~~~~~~~~~~fD~Ii~npp~~~  310 (381)
T 3dmg_A          233 RGRQVLDLGAGYGALTLPLARM--GAEVVGVEDDLASVLSLQKGLEANALKAQALHSDVDEALTEEARFDIIVTNPPFHV  310 (381)
T ss_dssp             TTCEEEEETCTTSTTHHHHHHT--TCEEEEEESBHHHHHHHHHHHHHTTCCCEEEECSTTTTSCTTCCEEEEEECCCCCT
T ss_pred             CCCEEEEEeeeCCHHHHHHHHc--CCEEEEEECCHHHHHHHHHHHHHcCCCeEEEEcchhhccccCCCeEEEEECCchhh
Confidence            3469999999999999999998  568999997 7778776652     3599999999984 33 24 99999888875

>4hc4_A Protein arginine N-methyltransferase 6; HRMT1L6, S-adenosyl-L-homocysteine, struc genomics, structural genomics consortium, SGC; HET: SAH; 1.97A {Homo sapiens}

Probab=97.46  E-value=8.8e-05  Score=66.55  Aligned_cols=62  Identities=18%  Similarity=0.222  Sum_probs=48.0

Q ss_pred             cEEEEeCCCchHHHHHHHHHCCCCeEEEeehhHHHHhCCC-------CCCceEEecccCC-cCCCC-cEEEe
Q 024350          195 KKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPS-------YPGIDHVGGDLFE-SVPKA-DTIFM  257 (269)
Q Consensus       195 ~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp~vv~~a~~-------~~ri~~~~gD~~~-~~P~g-D~~~l  257 (269)
                      ++|||||||+|.+++..+++ -.-+++.+|..++++.|++       .++|+++.+|+.+ ++|+- |+++-
T Consensus        85 k~VLDvG~GtGiLs~~Aa~a-GA~~V~ave~s~~~~~a~~~~~~n~~~~~i~~i~~~~~~~~lpe~~Dvivs  155 (376)
T 4hc4_A           85 KTVLDVGAGTGILSIFCAQA-GARRVYAVEASAIWQQAREVVRFNGLEDRVHVLPGPVETVELPEQVDAIVS  155 (376)
T ss_dssp             CEEEEETCTTSHHHHHHHHT-TCSEEEEEECSTTHHHHHHHHHHTTCTTTEEEEESCTTTCCCSSCEEEEEC
T ss_pred             CEEEEeCCCccHHHHHHHHh-CCCEEEEEeChHHHHHHHHHHHHcCCCceEEEEeeeeeeecCCccccEEEe
Confidence            68999999999988766655 3347899997666655543       2899999999988 78854 98864

>3ldg_A Putative uncharacterized protein SMU.472; YPSC, methyltransferase, transferase; HET: SAH; 1.96A {Streptococcus mutans}

Probab=97.46  E-value=0.00015  Score=65.33  Aligned_cols=76  Identities=12%  Similarity=0.013  Sum_probs=58.0

Q ss_pred             HHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCC--------------------------------------CeEEEe
Q 024350          182 EKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPH--------------------------------------IKGINY  223 (269)
Q Consensus       182 ~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~--------------------------------------l~~vv~  223 (269)
                      ..++.... |.....++|.+||+|+++++.+....+                                      .+++++
T Consensus       184 aall~l~~-~~~~~~llDp~CGSGt~lIEAa~~a~~iapg~~R~f~f~~w~~~~~~~w~~~~~~a~~~~~~~~~~~v~Gv  262 (384)
T 3ldg_A          184 AAIILLSN-WFPDKPFVDPTCGSGTFCIEAAMIGMNIAPGFNRDFAFEEWPWVDEALVTRVRNEADEQADYDIQLDISGF  262 (384)
T ss_dssp             HHHHHHTT-CCTTSCEEETTCTTSHHHHHHHHHHTTCCTTTTCCCGGGGCTTSCHHHHHHHHHHHHHHCCTTCCCCEEEE
T ss_pred             HHHHHHhC-CCCCCeEEEeCCcCCHHHHHHHHHhcCcCCCccccchhhhhccCCHHHHHHHHHHHHHhhhccCCceEEEE
Confidence            34555555 777789999999999999998875544                                      568999


Q ss_pred             eh-hHHHHhCCCC-------CCceEEecccCC-cCCCC-cEEEec
Q 024350          224 DL-LYVIKNAPSY-------PGIDHVGGDLFE-SVPKA-DTIFMK  258 (269)
Q Consensus       224 Dl-p~vv~~a~~~-------~ri~~~~gD~~~-~~P~g-D~~~l~  258 (269)
                      |+ |.+++.++.+       ++|+++.+|+++ +.|.. |++++.
T Consensus       263 Did~~al~~Ar~Na~~~gl~~~I~~~~~D~~~l~~~~~fD~Iv~N  307 (384)
T 3ldg_A          263 DFDGRMVEIARKNAREVGLEDVVKLKQMRLQDFKTNKINGVLISN  307 (384)
T ss_dssp             ESCHHHHHHHHHHHHHTTCTTTEEEEECCGGGCCCCCCSCEEEEC
T ss_pred             ECCHHHHHHHHHHHHHcCCCCceEEEECChHHCCccCCcCEEEEC
Confidence            97 7888776642       579999999998 44444 888764

>1uwv_A 23S rRNA (uracil-5-)-methyltransferase RUMA; RNA modification, iron-sulfur cluster, RNA processing; 1.95A {Escherichia coli} SCOP: b.40.4.12 c.66.1.40 PDB: 2bh2_A*

Probab=97.38  E-value=0.00023  Score=65.02  Aligned_cols=71  Identities=14%  Similarity=0.214  Sum_probs=54.7

Q ss_pred             HHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC------CCceEEecccCCcCC-----C
Q 024350          184 VLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFESVP-----K  251 (269)
Q Consensus       184 ~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~~~P-----~  251 (269)
                      +++.++ ..+..+|+|+|||+|.++..+++.  ..+++.+|. |..++.|+.+      ++++++.+|+++.++     .
T Consensus       278 ~~~~l~-~~~~~~VLDlgcG~G~~~~~la~~--~~~V~gvD~s~~al~~A~~n~~~~~~~~v~f~~~d~~~~l~~~~~~~  354 (433)
T 1uwv_A          278 ALEWLD-VQPEDRVLDLFCGMGNFTLPLATQ--AASVVGVEGVPALVEKGQQNARLNGLQNVTFYHENLEEDVTKQPWAK  354 (433)
T ss_dssp             HHHHHT-CCTTCEEEEESCTTTTTHHHHHTT--SSEEEEEESCHHHHHHHHHHHHHTTCCSEEEEECCTTSCCSSSGGGT
T ss_pred             HHHhhc-CCCCCEEEECCCCCCHHHHHHHhh--CCEEEEEeCCHHHHHHHHHHHHHcCCCceEEEECCHHHHhhhhhhhc
Confidence            344444 445679999999999999999988  678899997 7888776542      589999999988432     2


Q ss_pred             -C-cEEEe
Q 024350          252 -A-DTIFM  257 (269)
Q Consensus       252 -g-D~~~l  257 (269)
                       . |++++
T Consensus       355 ~~fD~Vv~  362 (433)
T 1uwv_A          355 NGFDKVLL  362 (433)
T ss_dssp             TCCSEEEE
T ss_pred             CCCCEEEE
Confidence             3 88875

>1y0u_A Arsenical resistance operon repressor, putative; structural genomics, protein structure initiative, PSI; HET: MSE; 1.60A {Archaeoglobus fulgidus} SCOP: a.4.5.5

Probab=97.38  E-value=0.00021  Score=51.10  Aligned_cols=62  Identities=19%  Similarity=0.248  Sum_probs=51.2

Q ss_pred             HHHHHHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhch
Q 024350           28 AAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSK  105 (269)
Q Consensus        28 ~~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s~  105 (269)
                      .++..-.++.|+..| .    +++|+.|||+.+|++      .. .+.+.|+.|...|++..   .. +.|++|+.++
T Consensus        26 ~~l~~~~r~~Il~~L-~----~~~~~~eLa~~l~is------~~-tv~~~L~~L~~~Glv~~---~~-g~y~l~~~g~   87 (96)
T 1y0u_A           26 YAVTNPVRRKILRML-D----KGRSEEEIMQTLSLS------KK-QLDYHLKVLEAGFCIER---VG-ERWVVTDAGK   87 (96)
T ss_dssp             HHHSCHHHHHHHHHH-H----TTCCHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEEE---ET-TEEEECTTTC
T ss_pred             HHhCCHHHHHHHHHH-c----CCCCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCEEE---EC-CEEEECCCch
Confidence            344455667788888 5    589999999999998      67 99999999999999994   34 6999998765

>2oxt_A Nucleoside-2'-O-methyltransferase; flavivirus, viral enzyme, RNA capping, S-adenosyl-L-methionine, viral protein; HET: SAM; 2.90A {Meaban virus}

Probab=97.36  E-value=0.00033  Score=59.79  Aligned_cols=67  Identities=18%  Similarity=0.117  Sum_probs=48.8

Q ss_pred             CCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeehhHHHHhCCCC--C------CceEE--ecccCCcCCCC-cEEEecc
Q 024350          191 FEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPSY--P------GIDHV--GGDLFESVPKA-DTIFMKV  259 (269)
Q Consensus       191 ~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp~vv~~a~~~--~------ri~~~--~gD~~~~~P~g-D~~~l~~  259 (269)
                      +....+|||||||+|.++..++++   -+++.+|+-+++..+++.  .      +|+++  .+|+.+--+.. |+++...
T Consensus        72 ~~~g~~VLDlGcGtG~~s~~la~~---~~V~gvD~s~m~~~a~~~~~~~~~~~~~v~~~~~~~D~~~l~~~~fD~V~sd~  148 (265)
T 2oxt_A           72 VELTGRVVDLGCGRGGWSYYAASR---PHVMDVRAYTLGVGGHEVPRITESYGWNIVKFKSRVDIHTLPVERTDVIMCDV  148 (265)
T ss_dssp             CCCCEEEEEESCTTSHHHHHHHTS---TTEEEEEEECCCCSSCCCCCCCCBTTGGGEEEECSCCTTTSCCCCCSEEEECC
T ss_pred             CCCCCEEEEeCcCCCHHHHHHHHc---CcEEEEECchhhhhhhhhhhhhhccCCCeEEEecccCHhHCCCCCCcEEEEeC
Confidence            445689999999999999999887   578999985553333221  2      68999  89998721333 9998764


Q ss_pred             c
Q 024350          260 I  260 (269)
Q Consensus       260 i  260 (269)
                      .
T Consensus       149 ~  149 (265)
T 2oxt_A          149 G  149 (265)
T ss_dssp             C
T ss_pred             c
Confidence            4

>1qyr_A KSGA, high level kasugamycin resistance protein, S-adenosylMet; adenosine dimethyltransferase, rRNA modification, transferase, translation; 2.10A {Escherichia coli} SCOP: c.66.1.24 PDB: 4adv_V 3tpz_A

Probab=97.36  E-value=0.00014  Score=61.59  Aligned_cols=66  Identities=12%  Similarity=0.117  Sum_probs=49.8

Q ss_pred             HHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC----CCceEEecccCC-cCC
Q 024350          182 EKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY----PGIDHVGGDLFE-SVP  250 (269)
Q Consensus       182 ~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~----~ri~~~~gD~~~-~~P  250 (269)
                      ..+++..+ .....+|+|||||+|.++. + ++.+..+++.+|+ |..++.+++.    ++++++.+|+.+ +++
T Consensus        11 ~~iv~~~~-~~~~~~VLEIG~G~G~lt~-l-~~~~~~~v~avEid~~~~~~a~~~~~~~~~v~~i~~D~~~~~~~   82 (252)
T 1qyr_A           11 DSIVSAIN-PQKGQAMVEIGPGLAALTE-P-VGERLDQLTVIELDRDLAARLQTHPFLGPKLTIYQQDAMTFNFG   82 (252)
T ss_dssp             HHHHHHHC-CCTTCCEEEECCTTTTTHH-H-HHTTCSCEEEECCCHHHHHHHHTCTTTGGGEEEECSCGGGCCHH
T ss_pred             HHHHHhcC-CCCcCEEEEECCCCcHHHH-h-hhCCCCeEEEEECCHHHHHHHHHHhccCCceEEEECchhhCCHH
Confidence            34555555 5556789999999999999 5 4555555899997 7777776653    589999999988 544

>1ixk_A Methyltransferase; open beta sheet; 1.90A {Pyrococcus horikoshii} SCOP: c.66.1.38

Probab=97.34  E-value=0.00022  Score=62.29  Aligned_cols=71  Identities=7%  Similarity=0.032  Sum_probs=55.1

Q ss_pred             HhccCCCCccEEEEeCCCchHHHHHHHHHCC-CCeEEEeeh-hHHHHhCCCC------CCceEEecccCC-cC-CCC-cE
Q 024350          186 ESYKGFEHVKKLVDVGGGLGATLNMIISKYP-HIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFE-SV-PKA-DT  254 (269)
Q Consensus       186 ~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P-~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~-~~-P~g-D~  254 (269)
                      ..++ .....+|+|+|||+|..+..+++..+ ..+++.+|+ |..++.++++      ++|+++.+|+.+ +. +.. |+
T Consensus       112 ~~l~-~~~g~~VLDlg~G~G~~t~~la~~~~~~~~v~avD~s~~~l~~a~~~~~~~g~~~v~~~~~D~~~~~~~~~~fD~  190 (315)
T 1ixk_A          112 VALD-PKPGEIVADMAAAPGGKTSYLAQLMRNDGVIYAFDVDENRLRETRLNLSRLGVLNVILFHSSSLHIGELNVEFDK  190 (315)
T ss_dssp             HHHC-CCTTCEEEECCSSCSHHHHHHHHHTTTCSEEEEECSCHHHHHHHHHHHHHHTCCSEEEESSCGGGGGGGCCCEEE
T ss_pred             HHhC-CCCCCEEEEeCCCCCHHHHHHHHHhCCCCEEEEEcCCHHHHHHHHHHHHHhCCCeEEEEECChhhcccccccCCE
Confidence            4444 55567999999999999999999976 478999997 6767666542      579999999987 32 333 99


Q ss_pred             EEe
Q 024350          255 IFM  257 (269)
Q Consensus       255 ~~l  257 (269)
                      +++
T Consensus       191 Il~  193 (315)
T 1ixk_A          191 ILL  193 (315)
T ss_dssp             EEE
T ss_pred             EEE
Confidence            887

>3o4f_A Spermidine synthase; aminopropyltransferase, polyamine synthase, rossmann fold, P biosynthesis, spermidine biosynthesis, transferase; 2.90A {Escherichia coli}

Probab=97.32  E-value=0.00027  Score=61.16  Aligned_cols=66  Identities=23%  Similarity=0.223  Sum_probs=54.3

Q ss_pred             CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC-----------CCCceEEecccCCcC--C-CC-cEE
Q 024350          192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS-----------YPGIDHVGGDLFESV--P-KA-DTI  255 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~-----------~~ri~~~~gD~~~~~--P-~g-D~~  255 (269)
                      +++++|+=||||.|..++++++..|--+.+++|+ |.|++.+++           .+|++++.+|-++-+  . +. |+|
T Consensus        82 p~pk~VLIiGgGdG~~~revlk~~~v~~v~~VEID~~Vv~~a~~~lp~~~~~~~~dpRv~v~~~Dg~~~l~~~~~~yDvI  161 (294)
T 3o4f_A           82 GHAKHVLIIGGGDGAMLREVTRHKNVESITMVEIDAGVVSFCRQYLPNHNAGSYDDPRFKLVIDDGVNFVNQTSQTFDVI  161 (294)
T ss_dssp             SCCCEEEEESCTTSHHHHHHHTCTTCCEEEEEESCHHHHHHHHHHCHHHHTTGGGCTTEEEEESCTTTTTSCSSCCEEEE
T ss_pred             CCCCeEEEECCCchHHHHHHHHcCCcceEEEEcCCHHHHHHHHhcCccccccccCCCcEEEEechHHHHHhhccccCCEE
Confidence            4678999999999999999998877788999998 888876653           389999999999833  2 23 888


Q ss_pred             Ee
Q 024350          256 FM  257 (269)
Q Consensus       256 ~l  257 (269)
                      ++
T Consensus       162 i~  163 (294)
T 3o4f_A          162 IS  163 (294)
T ss_dssp             EE
T ss_pred             EE
Confidence            65

>2wa2_A Non-structural protein 5; transferase, S-adenosyl-L- methionine, virion, membrane, flavivirus, N7-methyltransferase, 2'-O-methyltransferase; HET: SAM; 1.80A {Modoc virus} PDB: 2wa1_A*

Probab=97.31  E-value=0.00033  Score=60.18  Aligned_cols=66  Identities=15%  Similarity=0.073  Sum_probs=48.9

Q ss_pred             CCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeehhHHHHhCCCC--C------CceEE--ecccCCcCC-CC-cEEEec
Q 024350          191 FEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPSY--P------GIDHV--GGDLFESVP-KA-DTIFMK  258 (269)
Q Consensus       191 ~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp~vv~~a~~~--~------ri~~~--~gD~~~~~P-~g-D~~~l~  258 (269)
                      +....+|||||||+|.++..++++   -+++.+|+-+++..+++.  .      +|+++  .+|+.+ +| .. |+++..
T Consensus        80 ~~~g~~VLDlGcGtG~~s~~la~~---~~V~gVD~s~m~~~a~~~~~~~~~~~~~v~~~~~~~D~~~-l~~~~fD~Vvsd  155 (276)
T 2wa2_A           80 VELKGTVVDLGCGRGSWSYYAASQ---PNVREVKAYTLGTSGHEKPRLVETFGWNLITFKSKVDVTK-MEPFQADTVLCD  155 (276)
T ss_dssp             CCCCEEEEEESCTTCHHHHHHHTS---TTEEEEEEECCCCTTSCCCCCCCCTTGGGEEEECSCCGGG-CCCCCCSEEEEC
T ss_pred             CCCCCEEEEeccCCCHHHHHHHHc---CCEEEEECchhhhhhhhchhhhhhcCCCeEEEeccCcHhh-CCCCCcCEEEEC
Confidence            445689999999999999999987   578999985553333221  2      68999  899876 34 33 999876


Q ss_pred             cc
Q 024350          259 VI  260 (269)
Q Consensus       259 ~i  260 (269)
                      ..
T Consensus       156 ~~  157 (276)
T 2wa2_A          156 IG  157 (276)
T ss_dssp             CC
T ss_pred             CC
Confidence            54

>2f8l_A Hypothetical protein LMO1582; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2; HET: MSE SAM; 2.20A {Listeria monocytogenes} SCOP: c.66.1.45

Probab=97.28  E-value=0.00019  Score=63.48  Aligned_cols=73  Identities=14%  Similarity=0.145  Sum_probs=57.9

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCC-----CeEEEeeh-hHHHHhCCCC-----CCceEEecccCCcCC-CC-cEEEecc
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPH-----IKGINYDL-LYVIKNAPSY-----PGIDHVGGDLFESVP-KA-DTIFMKV  259 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~-----l~~vv~Dl-p~vv~~a~~~-----~ri~~~~gD~~~~~P-~g-D~~~l~~  259 (269)
                      ...+|+|+|||+|.++..+++..|.     .+++++|+ |..++.++..     -+++++.+|.+++.+ .. |+++..-
T Consensus       130 ~~~~VlDp~cGsG~~l~~~~~~~~~~~~~~~~v~GiDi~~~~~~~a~~n~~~~g~~~~i~~~D~l~~~~~~~fD~Ii~NP  209 (344)
T 2f8l_A          130 KNVSILDPACGTANLLTTVINQLELKGDVDVHASGVDVDDLLISLALVGADLQRQKMTLLHQDGLANLLVDPVDVVISDL  209 (344)
T ss_dssp             SEEEEEETTCTTSHHHHHHHHHHHTTSSCEEEEEEEESCHHHHHHHHHHHHHHTCCCEEEESCTTSCCCCCCEEEEEEEC
T ss_pred             CCCEEEeCCCCccHHHHHHHHHHHHhcCCCceEEEEECCHHHHHHHHHHHHhCCCCceEEECCCCCccccCCccEEEECC
Confidence            4579999999999999999998875     67899997 7777766542     368999999998655 34 9988876


Q ss_pred             ccccCC
Q 024350          260 ICVCYL  265 (269)
Q Consensus       260 iLhd~~  265 (269)
                      -++.|+
T Consensus       210 Pfg~~~  215 (344)
T 2f8l_A          210 PVGYYP  215 (344)
T ss_dssp             CCSEES
T ss_pred             CCCCcC
Confidence            665554

>3sso_A Methyltransferase; macrolide, natural product, rossman fold; HET: SAH; 1.90A {Micromonospora griseorubida} PDB: 3ssn_A* 3ssm_A*

Probab=97.23  E-value=0.00012  Score=65.97  Aligned_cols=70  Identities=13%  Similarity=0.137  Sum_probs=50.8

Q ss_pred             CccEEEEeCCC------chHHHHHHHHH-CCCCeEEEeehhHHHHhCCCCCCceEEecccCC-cCC-------CC-cEEE
Q 024350          193 HVKKLVDVGGG------LGATLNMIISK-YPHIKGINYDLLYVIKNAPSYPGIDHVGGDLFE-SVP-------KA-DTIF  256 (269)
Q Consensus       193 ~~~~vvDvGGG------~G~~~~~l~~~-~P~l~~vv~Dlp~vv~~a~~~~ri~~~~gD~~~-~~P-------~g-D~~~  256 (269)
                      +..+|||||||      +|..+..++++ +|+.+++.+|+-+..  ....++|+++.+|+.+ +++       .. |+|+
T Consensus       216 ~~~rVLDIGCG~~~~~~TGG~Sl~la~~~fP~a~V~GVDiSp~m--~~~~~rI~fv~GDa~dlpf~~~l~~~d~sFDlVi  293 (419)
T 3sso_A          216 QQVRVLEIGVGGYKHPEWGGGSLRMWKSFFPRGQIYGLDIMDKS--HVDELRIRTIQGDQNDAEFLDRIARRYGPFDIVI  293 (419)
T ss_dssp             SCCEEEEECCSCTTCSSCCCHHHHHHHHHCTTCEEEEEESSCCG--GGCBTTEEEEECCTTCHHHHHHHHHHHCCEEEEE
T ss_pred             CCCEEEEEecCCCcCCCCCHHHHHHHHHhCCCCEEEEEECCHHH--hhcCCCcEEEEecccccchhhhhhcccCCccEEE
Confidence            45799999999      56666666665 699999999983332  1245899999999987 444       23 9997


Q ss_pred             eccccccCC
Q 024350          257 MKVICVCYL  265 (269)
Q Consensus       257 l~~iLhd~~  265 (269)
                      .. ..|.|+
T Consensus       294 sd-gsH~~~  301 (419)
T 3sso_A          294 DD-GSHINA  301 (419)
T ss_dssp             EC-SCCCHH
T ss_pred             EC-Ccccch
Confidence            64 456554

>2g72_A Phenylethanolamine N-methyltransferase; HET: SAM F21; 2.00A {Homo sapiens} SCOP: c.66.1.15 PDB: 1yz3_A* 2an4_A* 2an5_A* 2g70_A* 2g71_A* 2an3_A* 2g8n_A* 2ony_A* 3hcb_A* 3hcc_A* 3hcd_A* 3hcf_A* 3kpj_A* 3kpu_A* 3kpv_A* 3kpw_A* 3kpy_A* 3kqm_A* 3kqo_A* 3kqp_A* ...

Probab=97.18  E-value=6.9e-05  Score=64.33  Aligned_cols=72  Identities=10%  Similarity=0.041  Sum_probs=49.5

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC--------------C---------------------
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY--------------P---------------------  236 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~--------------~---------------------  236 (269)
                      ...+|||||||+|. ...++...+..+++++|+ |.+++.+++.              .                     
T Consensus        71 ~~~~vLDiGcG~G~-~~~l~~~~~~~~v~gvD~s~~~l~~a~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~  149 (289)
T 2g72_A           71 SGRTLIDIGSGPTV-YQLLSACSHFEDITMTDFLEVNRQELGRWLQEEPGAFNWSMYSQHACLIEGKGECWQDKERQLRA  149 (289)
T ss_dssp             CCSEEEEETCTTCC-GGGTTGGGGCSEEEEECSCHHHHHHHHHHHTTCTTCCCCHHHHHHHHHHHCSCCCHHHHHHHHHH
T ss_pred             CCCeEEEECCCcCh-HHHHhhccCCCeEEEeCCCHHHHHHHHHHHhhCcccccchhhhhHHHHhcCcccchhhhHHHHHh
Confidence            45799999999999 444454555668999997 7777655431              0                     


Q ss_pred             -CceEEecccCCc-------CCC-C-cEEEeccccccCC
Q 024350          237 -GIDHVGGDLFES-------VPK-A-DTIFMKVICVCYL  265 (269)
Q Consensus       237 -ri~~~~gD~~~~-------~P~-g-D~~~l~~iLhd~~  265 (269)
                       .++++.+|+.+.       +|. . |+++...+||..+
T Consensus       150 ~~~~~~~~D~~~~~~~~~~~~~~~~fD~V~~~~~l~~~~  188 (289)
T 2g72_A          150 RVKRVLPIDVHQPQPLGAGSPAPLPADALVSAFCLEAVS  188 (289)
T ss_dssp             HEEEEECCCTTSSSTTCSSCSSCSSEEEEEEESCHHHHC
T ss_pred             hhceEEecccCCCCCccccccCCCCCCEEEehhhhhhhc
Confidence             134556688762       233 2 9999999998743

>1qbj_A Protein (double-stranded RNA specific adenosine D (ADAR1)); protein-Z-DNA complex, hydrolase-DNA complex; HET: DNA; 2.10A {Homo sapiens} SCOP: a.4.5.19 PDB: 3f21_A* 3f22_A* 3f23_A* 3irr_A* 3irq_D* 2gxb_A 2acj_A 2l54_A

Probab=97.17  E-value=0.00078  Score=46.72  Aligned_cols=68  Identities=15%  Similarity=0.250  Sum_probs=50.3

Q ss_pred             HHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhchhh
Q 024350           32 AVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSKYF  107 (269)
Q Consensus        32 ~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s~~l  107 (269)
                      .-.+..|++.|...+++.++|+.+||+++|++      .. .+.+.|.-|...|+|...+ ..++.|...+....+
T Consensus         9 ~~~~~~IL~~L~~~~pg~~~t~~eLA~~Lgvs------r~-tV~~~L~~Le~~G~I~~~g-~~~~~W~i~~~~~~~   76 (81)
T 1qbj_A            9 QDQEQRILKFLEELGEGKATTAHDLSGKLGTP------KK-EINRVLYSLAKKGKLQKEA-GTPPLWKIAVSTQAW   76 (81)
T ss_dssp             HHHHHHHHHHHHHHCTTCCBCHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEEEES-SSSCEEEEC------
T ss_pred             hHHHHHHHHHHHHcCCCCCcCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCEEecC-CCCCeeEEeCcHHhc
Confidence            34466688889887544589999999999998      57 8999999999999998542 235889887765433

>3k6r_A Putative transferase PH0793; structural genomics, PSI structure initiative, midwest center for structural genomic unknown function; 2.10A {Pyrococcus horikoshii} PDB: 3a25_A* 3a26_A*

Probab=97.11  E-value=0.00037  Score=59.93  Aligned_cols=66  Identities=21%  Similarity=0.108  Sum_probs=52.3

Q ss_pred             CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC-------CCCceEEecccCCcCCC--CcEEEec
Q 024350          192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS-------YPGIDHVGGDLFESVPK--ADTIFMK  258 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~-------~~ri~~~~gD~~~~~P~--gD~~~l~  258 (269)
                      ....+|+|+|||+|.++..++++ +..+++.+|+ |..++.+++       .++|+++.+|.++-.++  .|.++|.
T Consensus       124 ~~g~~VlD~~aG~G~~~i~~a~~-g~~~V~avD~np~a~~~~~~N~~~N~v~~~v~~~~~D~~~~~~~~~~D~Vi~~  199 (278)
T 3k6r_A          124 KPDELVVDMFAGIGHLSLPIAVY-GKAKVIAIEKDPYTFKFLVENIHLNKVEDRMSAYNMDNRDFPGENIADRILMG  199 (278)
T ss_dssp             CTTCEEEETTCTTTTTTHHHHHH-TCCEEEEECCCHHHHHHHHHHHHHTTCTTTEEEECSCTTTCCCCSCEEEEEEC
T ss_pred             CCCCEEEEecCcCcHHHHHHHHh-cCCeEEEEECCHHHHHHHHHHHHHcCCCCcEEEEeCcHHHhccccCCCEEEEC
Confidence            35689999999999999999876 5578999998 777776654       27899999999874444  3887764

>2yxl_A PH0851 protein, 450AA long hypothetical FMU protein; FMU-homolog, methyltransferase, structural genomics, NPPSFA; HET: SFG; 2.55A {Pyrococcus horikoshii}

Probab=97.09  E-value=0.00087  Score=61.49  Aligned_cols=72  Identities=11%  Similarity=0.105  Sum_probs=55.4

Q ss_pred             HHhccCCCCccEEEEeCCCchHHHHHHHHHCCC-CeEEEeeh-hHHHHhCCC------CCCceEEecccCC-c--CC-CC
Q 024350          185 LESYKGFEHVKKLVDVGGGLGATLNMIISKYPH-IKGINYDL-LYVIKNAPS------YPGIDHVGGDLFE-S--VP-KA  252 (269)
Q Consensus       185 ~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~-l~~vv~Dl-p~vv~~a~~------~~ri~~~~gD~~~-~--~P-~g  252 (269)
                      ...++ .....+|+|+|||+|..+..+++..++ .+++.+|+ |..++.+++      .++|+++.+|+.+ +  ++ ..
T Consensus       252 ~~~l~-~~~g~~VLDlgaG~G~~t~~la~~~~~~~~v~a~D~s~~~l~~~~~~~~~~g~~~v~~~~~D~~~~~~~~~~~~  330 (450)
T 2yxl_A          252 SIVLD-PKPGETVVDLAAAPGGKTTHLAELMKNKGKIYAFDVDKMRMKRLKDFVKRMGIKIVKPLVKDARKAPEIIGEEV  330 (450)
T ss_dssp             HHHHC-CCTTCEEEESSCTTCHHHHHHHHHTTTCSEEEEECSCHHHHHHHHHHHHHTTCCSEEEECSCTTCCSSSSCSSC
T ss_pred             HHhcC-CCCcCEEEEeCCCccHHHHHHHHHcCCCCEEEEEcCCHHHHHHHHHHHHHcCCCcEEEEEcChhhcchhhccCC
Confidence            34444 455679999999999999999999987 78999997 566655543      2579999999987 3  44 33


Q ss_pred             -cEEEe
Q 024350          253 -DTIFM  257 (269)
Q Consensus       253 -D~~~l  257 (269)
                       |++++
T Consensus       331 fD~Vl~  336 (450)
T 2yxl_A          331 ADKVLL  336 (450)
T ss_dssp             EEEEEE
T ss_pred             CCEEEE
Confidence             99986

>2p41_A Type II methyltransferase; vizier, viral enzymes involved in replication, dengue virus methyltransferase, structural genomics; HET: G1G SAH CIT; 1.80A {Dengue virus 2} SCOP: c.66.1.25 PDB: 2p1d_A* 1l9k_A* 2p3o_A* 2p3q_A* 2p40_A* 2p3l_A* 1r6a_A*

Probab=97.08  E-value=0.00054  Score=59.67  Aligned_cols=68  Identities=21%  Similarity=0.136  Sum_probs=48.8

Q ss_pred             CCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-----hHHHHhCCC--C--CCceEEec-ccCCcCCC-CcEEEecc
Q 024350          191 FEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-----LYVIKNAPS--Y--PGIDHVGG-DLFESVPK-ADTIFMKV  259 (269)
Q Consensus       191 ~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-----p~vv~~a~~--~--~ri~~~~g-D~~~~~P~-gD~~~l~~  259 (269)
                      ++...+|||||||+|.++..++++   -+++.+|+     +..++..+.  .  ++|+++.+ |+++.-+. .|+++...
T Consensus        80 ~~~g~~VLDlGcG~G~~s~~la~~---~~V~gvD~~~~~~~~~~~~~~~~~~~~~~v~~~~~~D~~~l~~~~fD~V~sd~  156 (305)
T 2p41_A           80 VTPEGKVVDLGCGRGGWSYYCGGL---KNVREVKGLTKGGPGHEEPIPMSTYGWNLVRLQSGVDVFFIPPERCDTLLCDI  156 (305)
T ss_dssp             SCCCEEEEEETCTTSHHHHHHHTS---TTEEEEEEECCCSTTSCCCCCCCSTTGGGEEEECSCCTTTSCCCCCSEEEECC
T ss_pred             CCCCCEEEEEcCCCCHHHHHHHhc---CCEEEEeccccCchhHHHHHHhhhcCCCCeEEEeccccccCCcCCCCEEEECC
Confidence            445579999999999999999988   36788887     543332221  2  67999999 99873233 49998754


Q ss_pred             cc
Q 024350          260 IC  261 (269)
Q Consensus       260 iL  261 (269)
                      .+
T Consensus       157 ~~  158 (305)
T 2p41_A          157 GE  158 (305)
T ss_dssp             CC
T ss_pred             cc
Confidence            43

>2r6z_A UPF0341 protein in RSP 3' region; alpha-beta protein, structural genomics, PSI-2, protein structure initiative; 1.80A {Neisseria gonorrhoeae}

Probab=97.06  E-value=0.00029  Score=59.92  Aligned_cols=70  Identities=16%  Similarity=0.153  Sum_probs=52.3

Q ss_pred             CCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-h-------HHHHhCCCC-------CCceEEecccCCc---CC--
Q 024350          191 FEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-L-------YVIKNAPSY-------PGIDHVGGDLFES---VP--  250 (269)
Q Consensus       191 ~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p-------~vv~~a~~~-------~ri~~~~gD~~~~---~P--  250 (269)
                      .....+|||+|||+|.++..+++.  ..+++.+|+ |       ..++.++.+       .||+++.+|..+.   ++  
T Consensus        81 ~~~~~~VLDlgcG~G~~a~~lA~~--g~~V~~vD~s~~~~~ll~~~l~~a~~n~~~~~~~~ri~~~~~d~~~~l~~~~~~  158 (258)
T 2r6z_A           81 HTAHPTVWDATAGLGRDSFVLASL--GLTVTAFEQHPAVACLLSDGIRRALLNPETQDTAARINLHFGNAAEQMPALVKT  158 (258)
T ss_dssp             GGGCCCEEETTCTTCHHHHHHHHT--TCCEEEEECCHHHHHHHHHHHHHHHHSHHHHHHHTTEEEEESCHHHHHHHHHHH
T ss_pred             cCCcCeEEEeeCccCHHHHHHHHh--CCEEEEEECChhhhHHHHHHHHHHHhHHHhhCCccCeEEEECCHHHHHHhhhcc
Confidence            334478999999999999999986  568999997 5       556655442       5799999998762   33  


Q ss_pred             -CC-cEEEeccccc
Q 024350          251 -KA-DTIFMKVICV  262 (269)
Q Consensus       251 -~g-D~~~l~~iLh  262 (269)
                       .. |++++.-.++
T Consensus       159 ~~~fD~V~~dP~~~  172 (258)
T 2r6z_A          159 QGKPDIVYLDPMYP  172 (258)
T ss_dssp             HCCCSEEEECCCC-
T ss_pred             CCCccEEEECCCCC
Confidence             33 9998865443

>3ajd_A Putative methyltransferase MJ0026; tRNA, M5C, rossmann fold, structural genomics, riken structu genomics/proteomics initiative; 1.27A {Methanocaldococcus jannaschii} PDB: 3a4t_A

Probab=97.06  E-value=0.00041  Score=59.28  Aligned_cols=68  Identities=10%  Similarity=0.031  Sum_probs=53.4

Q ss_pred             CCCccEEEEeCCCchHHHHHHHHHCCC-CeEEEeeh-hHHHHhCCC------CCCceEEecccCC-cC-----CCC-cEE
Q 024350          191 FEHVKKLVDVGGGLGATLNMIISKYPH-IKGINYDL-LYVIKNAPS------YPGIDHVGGDLFE-SV-----PKA-DTI  255 (269)
Q Consensus       191 ~~~~~~vvDvGGG~G~~~~~l~~~~P~-l~~vv~Dl-p~vv~~a~~------~~ri~~~~gD~~~-~~-----P~g-D~~  255 (269)
                      .....+|+|+|||+|..+..+++..++ .+++.+|+ +..++.+++      .++|+++.+|+.+ +.     +.. |++
T Consensus        81 ~~~g~~VLDlgaG~G~~t~~la~~~~~~~~v~avD~~~~~l~~~~~~~~~~g~~~v~~~~~D~~~~~~~~~~~~~~fD~V  160 (274)
T 3ajd_A           81 PREDDFILDMCAAPGGKTTHLAQLMKNKGTIVAVEISKTRTKALKSNINRMGVLNTIIINADMRKYKDYLLKNEIFFDKI  160 (274)
T ss_dssp             CCTTCEEEETTCTTCHHHHHHHHHTTTCSEEEEEESCHHHHHHHHHHHHHTTCCSEEEEESCHHHHHHHHHHTTCCEEEE
T ss_pred             CCCcCEEEEeCCCccHHHHHHHHHcCCCCEEEEECCCHHHHHHHHHHHHHhCCCcEEEEeCChHhcchhhhhccccCCEE
Confidence            445579999999999999999999887 78999997 666665543      2589999999876 22     333 888


Q ss_pred             Eec
Q 024350          256 FMK  258 (269)
Q Consensus       256 ~l~  258 (269)
                      ++.
T Consensus       161 l~d  163 (274)
T 3ajd_A          161 LLD  163 (274)
T ss_dssp             EEE
T ss_pred             EEc
Confidence            875

>2a14_A Indolethylamine N-methyltransferase; SGC,INMT, structural genomics, structural genomics consortium; HET: SAH; 1.70A {Homo sapiens} SCOP: c.66.1.15

Probab=97.05  E-value=7.6e-05  Score=63.35  Aligned_cols=70  Identities=13%  Similarity=0.156  Sum_probs=49.2

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCC-eEEEeeh-hHHHHhCCCC-----------------------------------
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHI-KGINYDL-LYVIKNAPSY-----------------------------------  235 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l-~~vv~Dl-p~vv~~a~~~-----------------------------------  235 (269)
                      ...+|||||||+|.++..++..  .. +++.+|+ |..++.+++.                                   
T Consensus        55 ~g~~vLDiGCG~G~~~~~~~~~--~~~~v~g~D~s~~~l~~a~~~~~~~~~~~d~s~~~~~~~~~~~~~~~~~~~~~~~~  132 (263)
T 2a14_A           55 QGDTLIDIGSGPTIYQVLAACD--SFQDITLSDFTDRNREELEKWLKKEPGAYDWTPAVKFACELEGNSGRWEEKEEKLR  132 (263)
T ss_dssp             CEEEEEESSCTTCCGGGTTGGG--TEEEEEEEESCHHHHHHHHHHHHTCTTCCCCHHHHHHHHHHTTCGGGHHHHHHHHH
T ss_pred             CCceEEEeCCCccHHHHHHHHh--hhcceeeccccHHHHHHHHHHHhcCCCcccchHHHHHHHhcCCCCcchhhHHHHHH
Confidence            4579999999999876655443  33 5899997 7777755421                                   


Q ss_pred             CCce-EEecccCCcCC-----C-C-cEEEeccccccC
Q 024350          236 PGID-HVGGDLFESVP-----K-A-DTIFMKVICVCY  264 (269)
Q Consensus       236 ~ri~-~~~gD~~~~~P-----~-g-D~~~l~~iLhd~  264 (269)
                      .+|+ ++.+|+.+..|     . . |+++...+||..
T Consensus       133 ~~i~~~~~~D~~~~~~~~~~~~~~fD~V~~~~~l~~i  169 (263)
T 2a14_A          133 AAVKRVLKCDVHLGNPLAPAVLPLADCVLTLLAMECA  169 (263)
T ss_dssp             HHEEEEEECCTTSSSTTTTCCCCCEEEEEEESCHHHH
T ss_pred             hhhheEEeccccCCCCCCccccCCCCEeeehHHHHHh
Confidence            1233 88999988322     2 3 999999999863

>1qgp_A Protein (double stranded RNA adenosine deaminase); Z-alpha-Z-DNA binding domain, RNA-editing, Z-DNA recognition, ADAR1, helix- turn-helix; NMR {Homo sapiens} SCOP: a.4.5.19

Probab=97.03  E-value=0.00092  Score=45.88  Aligned_cols=62  Identities=16%  Similarity=0.257  Sum_probs=49.5

Q ss_pred             HHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecCh
Q 024350           33 VVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAP  102 (269)
Q Consensus        33 a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~  102 (269)
                      -.+..|++.|...+.++++|+.|||+.+|++      .. .+.+.|.-|...|++...+ ..++.|..++
T Consensus        14 ~~~~~IL~~L~~~~~~~~~t~~eLA~~Lgvs------~~-tV~~~L~~L~~~G~I~~~g-~~~~~W~i~~   75 (77)
T 1qgp_A           14 DQEQRILKFLEELGEGKATTAHDLSGKLGTP------KK-EINRVLYSLAKKGKLQKEA-GTPPLWKIAV   75 (77)
T ss_dssp             HHHHHHHHHHHHHCSSSCEEHHHHHHHHCCC------HH-HHHHHHHHHHHHTSEEEEC-SSSCEEEECC
T ss_pred             HHHHHHHHHHHHcCCCCCcCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCEEecC-CCCCceEecC
Confidence            3456788889887544589999999999998      57 9999999999999998542 3357888765

>4df3_A Fibrillarin-like rRNA/TRNA 2'-O-methyltransferase; NADP rossmann superfamily, S-adenosyl-L-M (SAM) binding, nucleolus; HET: SAM; 1.73A {Aeropyrum pernix}

Probab=96.99  E-value=0.0017  Score=54.25  Aligned_cols=75  Identities=13%  Similarity=0.146  Sum_probs=54.8

Q ss_pred             HHHHhccC--CCCccEEEEeCCCchHHHHHHHHHC-CCCeEEEeeh-hHHHHhC----CCCCCceEEecccCCc--CC--
Q 024350          183 KVLESYKG--FEHVKKLVDVGGGLGATLNMIISKY-PHIKGINYDL-LYVIKNA----PSYPGIDHVGGDLFES--VP--  250 (269)
Q Consensus       183 ~~~~~~~~--~~~~~~vvDvGGG~G~~~~~l~~~~-P~l~~vv~Dl-p~vv~~a----~~~~ri~~~~gD~~~~--~P--  250 (269)
                      .++..++.  ++...+|+|||||+|.++..+++.- |+=+++.+|. |..++.+    ++.++|+.+.+|.-.+  .|  
T Consensus        65 ~i~~gl~~l~ikpG~~VldlG~G~G~~~~~la~~VG~~G~V~avD~s~~~~~~l~~~a~~~~ni~~V~~d~~~p~~~~~~  144 (233)
T 4df3_A           65 ALLKGLIELPVKEGDRILYLGIASGTTASHMSDIIGPRGRIYGVEFAPRVMRDLLTVVRDRRNIFPILGDARFPEKYRHL  144 (233)
T ss_dssp             HHHTTCSCCCCCTTCEEEEETCTTSHHHHHHHHHHCTTCEEEEEECCHHHHHHHHHHSTTCTTEEEEESCTTCGGGGTTT
T ss_pred             HHHhchhhcCCCCCCEEEEecCcCCHHHHHHHHHhCCCceEEEEeCCHHHHHHHHHhhHhhcCeeEEEEeccCccccccc
Confidence            44444432  5566899999999999999999985 8888999997 6766544    4457899998888763  22  


Q ss_pred             C-C-cEEEe
Q 024350          251 K-A-DTIFM  257 (269)
Q Consensus       251 ~-g-D~~~l  257 (269)
                      . . |++++
T Consensus       145 ~~~vDvVf~  153 (233)
T 4df3_A          145 VEGVDGLYA  153 (233)
T ss_dssp             CCCEEEEEE
T ss_pred             cceEEEEEE
Confidence            2 2 77764

>3id6_C Fibrillarin-like rRNA/TRNA 2'-O-methyltransferase; C/D guide RNA, 2'-O-methylation, coiled-coil, methyltransfer binding, rRNA processing; HET: SAM; 2.60A {Sulfolobus solfataricus} SCOP: c.66.1.0 PDB: 3id5_B* 3pla_E*

Probab=96.99  E-value=0.0016  Score=54.43  Aligned_cols=68  Identities=16%  Similarity=0.169  Sum_probs=51.3

Q ss_pred             CCCccEEEEeCCCchHHHHHHHHHC-CCCeEEEeeh-hHH----HHhCCCCCCceEEecccCCcC-----CCC-cEEEec
Q 024350          191 FEHVKKLVDVGGGLGATLNMIISKY-PHIKGINYDL-LYV----IKNAPSYPGIDHVGGDLFESV-----PKA-DTIFMK  258 (269)
Q Consensus       191 ~~~~~~vvDvGGG~G~~~~~l~~~~-P~l~~vv~Dl-p~v----v~~a~~~~ri~~~~gD~~~~~-----P~g-D~~~l~  258 (269)
                      +....+|+|||||+|.++..+++.. |+-+++.+|+ |..    ++.+++..+|+++.+|...+.     ++. |+++..
T Consensus        74 l~~g~~VLDlG~GtG~~t~~la~~v~~~G~V~avD~s~~~l~~l~~~a~~r~nv~~i~~Da~~~~~~~~~~~~~D~I~~d  153 (232)
T 3id6_C           74 IRKGTKVLYLGAASGTTISHVSDIIELNGKAYGVEFSPRVVRELLLVAQRRPNIFPLLADARFPQSYKSVVENVDVLYVD  153 (232)
T ss_dssp             CCTTCEEEEETCTTSHHHHHHHHHHTTTSEEEEEECCHHHHHHHHHHHHHCTTEEEEECCTTCGGGTTTTCCCEEEEEEC
T ss_pred             CCCCCEEEEEeecCCHHHHHHHHHhCCCCEEEEEECcHHHHHHHHHHhhhcCCeEEEEcccccchhhhccccceEEEEec
Confidence            4556899999999999999999874 6788999997 544    344444578999999987631     223 888765

>1xmk_A Double-stranded RNA-specific adenosine deaminase; winged helix-turn-helix, RNA editing, interferon, ADAR1, hydrolase; 0.97A {Homo sapiens} SCOP: a.4.5.19

Probab=96.97  E-value=0.00092  Score=46.06  Aligned_cols=63  Identities=11%  Similarity=0.108  Sum_probs=50.1

Q ss_pred             HhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhchh
Q 024350           34 VELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSKY  106 (269)
Q Consensus        34 ~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s~~  106 (269)
                      .+-.|.+.|...   ++.|+.+||+.+|++   +  .. .+++.|..|...|+|.+... +...|.+|+.++.
T Consensus        12 ~~~~IL~~Lk~~---g~~ta~eiA~~Lgit---~--~~-aVr~hL~~Le~eGlV~~~~~-gRP~w~LT~~g~~   74 (79)
T 1xmk_A           12 IKEKICDYLFNV---SDSSALNLAKNIGLT---K--AR-DINAVLIDMERQGDVYRQGT-TPPIWHLTDKKRE   74 (79)
T ss_dssp             HHHHHHHHHHHT---CCEEHHHHHHHHCGG---G--HH-HHHHHHHHHHHTTSEEEECS-SSCEEEECHHHHT
T ss_pred             HHHHHHHHHHHc---CCcCHHHHHHHcCCC---c--HH-HHHHHHHHHHHCCCEEecCC-CCCCeEeCHhHHh
Confidence            455678888887   599999999999996   2  33 78999999999999985422 3348999998763

>3pqk_A Biofilm growth-associated repressor; helix-turn-helix motif, winged-helix fold, transcriptional R DNA binding, transcription; 2.09A {Xylella fastidiosa} PDB: 3pqj_A

Probab=96.93  E-value=0.001  Score=47.89  Aligned_cols=64  Identities=20%  Similarity=0.223  Sum_probs=47.8

Q ss_pred             HHHHHHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecCh
Q 024350           28 AAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAP  102 (269)
Q Consensus        28 ~~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~  102 (269)
                      .+|..-.++.|+..|..    ++.|+.|||+.+|++      .. .+.+.|+.|...|+|..........|++|+
T Consensus        18 ~~l~~~~r~~Il~~L~~----~~~~~~ela~~l~is------~~-tvs~~L~~L~~~Glv~~~~~g~~~~y~l~~   81 (102)
T 3pqk_A           18 KTLSHPVRLMLVCTLVE----GEFSVGELEQQIGIG------QP-TLSQQLGVLRESGIVETRRNIKQIFYRLTE   81 (102)
T ss_dssp             HHHCSHHHHHHHHHHHT----CCBCHHHHHHHHTCC------TT-HHHHHHHHHHHTTSEEEECSSSCCEEEECS
T ss_pred             HHcCCHHHHHHHHHHHh----CCCCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCeEEEEeCCEEEEEECc
Confidence            34444556677788865    589999999999998      56 899999999999999853211224577765

>2kko_A Possible transcriptional regulatory protein (possibly ARSR-family); NESG, DNA-binding, transcription regulation, WHTH, homodimer; NMR {Mycobacterium bovis} PDB: 3gw2_A

Probab=96.90  E-value=0.0014  Score=47.92  Aligned_cols=58  Identities=14%  Similarity=0.225  Sum_probs=42.8

Q ss_pred             HhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecCh
Q 024350           34 VELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAP  102 (269)
Q Consensus        34 ~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~  102 (269)
                      .++.|+..|..    ++.|+.|||+.+|++      .. .+.+.|+.|...|+|..........|++++
T Consensus        26 ~r~~IL~~L~~----~~~s~~eLa~~lgis------~s-tvs~~L~~L~~~GlV~~~~~gr~~~y~l~~   83 (108)
T 2kko_A           26 RRLQILDLLAQ----GERAVEAIATATGMN------LT-TASANLQALKSGGLVEARREGTRQYYRIAG   83 (108)
T ss_dssp             TTHHHHHHHTT----CCEEHHHHHHHHTCC------HH-HHHHHHHHHHHHTSEEEEEETTEEEEEESC
T ss_pred             HHHHHHHHHHc----CCcCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCeEEEEeCCEEEEEECh
Confidence            34556666765    589999999999998      67 999999999999999854211112466654

>4gqb_A Protein arginine N-methyltransferase 5; TIM barrel, beta-propeller, methyltransferase, methylation, transferase-protein binding complex; HET: 0XU; 2.06A {Homo sapiens} PDB: 4g56_A*

Probab=96.88  E-value=0.001  Score=63.32  Aligned_cols=98  Identities=19%  Similarity=0.184  Sum_probs=63.8

Q ss_pred             CchhccccCcchHHHHHHHHHhhchhhHHHHH-HhccCCCCccEEEEeCCCchHHHHHHHHH----CCCCeEEEeehhHH
Q 024350          154 HIYDYLGVDSSFNDVFSNGMLSHTSIVMEKVL-ESYKGFEHVKKLVDVGGGLGATLNMIISK----YPHIKGINYDLLYV  228 (269)
Q Consensus       154 ~~~~~~~~~p~~~~~f~~~m~~~~~~~~~~~~-~~~~~~~~~~~vvDvGGG~G~~~~~l~~~----~P~l~~vv~Dlp~v  228 (269)
                      ..||.+++||.+-..+.+|+...-.    .++ +.-. -.+...|+|||+|+|-++...+++    .-++++..++-.+.
T Consensus       322 ~tYevFEkD~vKy~~Ye~AI~~Al~----d~~~~~~~-~~~~~vVldVGaGrGpLv~~al~A~a~~~~~vkVyAVEknp~  396 (637)
T 4gqb_A          322 QTYEVFEKDPIKYSQYQQAIYKCLL----DRVPEEEK-DTNVQVLMVLGAGRGPLVNASLRAAKQADRRIKLYAVEKNPN  396 (637)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHH----HHSCGGGT-TTCEEEEEEESCTTSHHHHHHHHHHHHTTCEEEEEEEESCHH
T ss_pred             hhhhhhcCChhhHHHHHHHHHHHHH----Hhhhhccc-cCCCcEEEEECCCCcHHHHHHHHHHHhcCCCcEEEEEECCHH
Confidence            3488888888877777777654111    111 1111 124578999999999874444333    23346777886555


Q ss_pred             HHhCCC-------CCCceEEecccCC-cCCC-CcEEE
Q 024350          229 IKNAPS-------YPGIDHVGGDLFE-SVPK-ADTIF  256 (269)
Q Consensus       229 v~~a~~-------~~ri~~~~gD~~~-~~P~-gD~~~  256 (269)
                      +..+++       .++|+++.||+.+ ..|+ .|+++
T Consensus       397 A~~a~~~v~~N~~~dkVtVI~gd~eev~LPEKVDIIV  433 (637)
T 4gqb_A          397 AVVTLENWQFEEWGSQVTVVSSDMREWVAPEKADIIV  433 (637)
T ss_dssp             HHHHHHHHHHHTTGGGEEEEESCTTTCCCSSCEEEEE
T ss_pred             HHHHHHHHHhccCCCeEEEEeCcceeccCCcccCEEE
Confidence            555543       2899999999999 8895 58875

>2jjq_A Uncharacterized RNA methyltransferase pyrab10780; metal-binding, tRNA methyltransferase, S-adenosyl-L-methionine, iron, 4Fe-4S, iron-sulfur; HET: SAH; 1.8A {Pyrococcus abyssi} PDB: 2vs1_A*

Probab=96.88  E-value=0.0013  Score=59.89  Aligned_cols=62  Identities=18%  Similarity=0.170  Sum_probs=50.3

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC------CCceEEecccCCcCCC-CcEEEe
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFESVPK-ADTIFM  257 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~~~P~-gD~~~l  257 (269)
                      +..+|+|+|||+|.++..+++.  ..+++.+|. |..++.++++      + ++++.+|+++..+. -|++++
T Consensus       290 ~~~~VLDlgcG~G~~sl~la~~--~~~V~gvD~s~~ai~~A~~n~~~ngl~-v~~~~~d~~~~~~~~fD~Vv~  359 (425)
T 2jjq_A          290 EGEKILDMYSGVGTFGIYLAKR--GFNVKGFDSNEFAIEMARRNVEINNVD-AEFEVASDREVSVKGFDTVIV  359 (425)
T ss_dssp             CSSEEEEETCTTTHHHHHHHHT--TCEEEEEESCHHHHHHHHHHHHHHTCC-EEEEECCTTTCCCTTCSEEEE
T ss_pred             CCCEEEEeeccchHHHHHHHHc--CCEEEEEECCHHHHHHHHHHHHHcCCc-EEEEECChHHcCccCCCEEEE
Confidence            4579999999999999999987  457899997 7888777642      4 99999999885554 488876

>3f6o_A Probable transcriptional regulator, ARSR family protein; transcriptional regulator,RHA00566,MCSG, structural genomics, PSI-2; 1.90A {Rhodococcus SP}

Probab=96.87  E-value=0.00095  Score=49.55  Aligned_cols=67  Identities=10%  Similarity=0.106  Sum_probs=51.6

Q ss_pred             HHHHHHHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhc
Q 024350           27 PAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVS  104 (269)
Q Consensus        27 ~~~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s  104 (269)
                      +.+|..-.++.|+..|..    +++|+.+||+.+|++      .. .+.+.|+.|...|+|........-.|++|+.+
T Consensus        12 ~~al~~~~R~~Il~~L~~----~~~~~~eLa~~l~is------~~-tvs~hL~~L~~~GlV~~~~~gr~~~y~l~~~~   78 (118)
T 3f6o_A           12 FQALADPTRRAVLGRLSR----GPATVSELAKPFDMA------LP-SFMKHIHFLEDSGWIRTHKQGRVRTCAIEKEP   78 (118)
T ss_dssp             HHHHTSHHHHHHHHHHHT----CCEEHHHHHTTCCSC------HH-HHHHHHHHHHHTTSEEEEEETTEEEEEECSHH
T ss_pred             HHHhCCHHHHHHHHHHHh----CCCCHHHHHHHhCcC------HH-HHHHHHHHHHHCCCeEEEecCCEEEEEECHHH
Confidence            345556677888888885    689999999999998      67 99999999999999985422122457777644

>3mq0_A Transcriptional repressor of the blcabc operon; helix-turn-helix, GAF fold, transcription repressor; 1.79A {Agrobacterium tumefaciens}

Probab=96.85  E-value=0.00069  Score=58.06  Aligned_cols=58  Identities=12%  Similarity=0.275  Sum_probs=47.9

Q ss_pred             cChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhch
Q 024350           36 LDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSK  105 (269)
Q Consensus        36 lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s~  105 (269)
                      +.|++.|...+  +++|+.|||+.+|++      .. .+.|+|+.|+..|+|.   ++.+++|++++...
T Consensus        33 l~IL~~l~~~~--~~ltl~eia~~lgl~------ks-Tv~RlL~tL~~~G~v~---~~~~~~Y~LG~~~~   90 (275)
T 3mq0_A           33 VRILDLVAGSP--RDLTAAELTRFLDLP------KS-SAHGLLAVMTELDLLA---RSADGTLRIGPHSL   90 (275)
T ss_dssp             HHHHHHHHHCS--SCEEHHHHHHHHTCC---------CHHHHHHHHHHTTSEE---ECTTSEEEECTHHH
T ss_pred             HHHHHHHhhCC--CCCCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCEE---ECCCCcEEehHHHH
Confidence            56899998864  589999999999997      56 8999999999999999   44457899987543

>3jth_A Transcription activator HLYU; transcription factor, RTXA, DNA-binding, transcription regulation; 2.00A {Vibrio vulnificus}

Probab=96.84  E-value=0.00087  Score=47.84  Aligned_cols=64  Identities=22%  Similarity=0.274  Sum_probs=48.4

Q ss_pred             HHHHHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChh
Q 024350           29 AMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPV  103 (269)
Q Consensus        29 ~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~  103 (269)
                      +|..-.++.|+..|..    ++.|+.|||+.+|++      .. .+.+.|+.|...|+|........-.|++++.
T Consensus        19 ~l~~~~r~~Il~~L~~----~~~~~~ela~~l~is------~~-tvs~~L~~L~~~Glv~~~~~g~~~~y~l~~~   82 (98)
T 3jth_A           19 AMANERRLQILCMLHN----QELSVGELCAKLQLS------QS-ALSQHLAWLRRDGLVTTRKEAQTVYYTLKSE   82 (98)
T ss_dssp             HHCSHHHHHHHHHTTT----SCEEHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEEEECCTTCCEEEECCH
T ss_pred             HcCCHHHHHHHHHHhc----CCCCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCeEEEEeCCEEEEEECHH
Confidence            4444556778888876    589999999999998      67 9999999999999998532112244777653

>3cuo_A Uncharacterized HTH-type transcriptional regulato; DNA-binding transcriptional regulator, structural genomics, MCSG; 2.00A {Escherichia coli K12}

Probab=96.82  E-value=0.0015  Score=46.29  Aligned_cols=63  Identities=14%  Similarity=0.117  Sum_probs=47.2

Q ss_pred             HHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhc
Q 024350           32 AVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVS  104 (269)
Q Consensus        32 ~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s  104 (269)
                      .-.++.|+..|...   ++.|..|||+.+|++      .. .+.+.|+.|...|++..........|.+|+.+
T Consensus        23 ~~~~~~il~~l~~~---~~~s~~ela~~l~is------~~-tvs~~l~~L~~~glv~~~~~~r~~~y~l~~~~   85 (99)
T 3cuo_A           23 HPKRLLILCMLSGS---PGTSAGELTRITGLS------AS-ATSQHLARMRDEGLIDSQRDAQRILYSIKNEA   85 (99)
T ss_dssp             SHHHHHHHHHHTTC---CSEEHHHHHHHHCCC------HH-HHHHHHHHHHHTTSEEEEECSSCEEEEECCHH
T ss_pred             ChHHHHHHHHHHhC---CCcCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCEEEEecCCEEEEEEChHH
Confidence            34566777888663   589999999999998      67 99999999999999985321122347776643

>3df8_A Possible HXLR family transcriptional factor; APC89000, structural genomics, midwest center for structural genomics, MCSG; 1.65A {Thermoplasma volcanium} SCOP: a.4.5.0

Probab=96.81  E-value=0.0017  Score=47.68  Aligned_cols=74  Identities=11%  Similarity=0.121  Sum_probs=54.5

Q ss_pred             HHHHHHHHHhhHHHHHHHHHHhcChhHHHHhcCCCCCCC--HHHHHHhC-CCCCCCchhHHHHHHHHHHHHHhcCcccce
Q 024350           14 FSYAMELASAIVLPAAMQAVVELDVFEIITKAGPGAKLS--VSEIVAQI-PLKDNNPEAAAMMLDRVLRLLVSYNALHCS   90 (269)
Q Consensus        14 ~~~l~~~~~~~~~~~~L~~a~~lglfd~L~~~g~~~~~s--~~eLA~~~-~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~   90 (269)
                      ...+++++.+.|...+|         ..|..    ++.+  +.||++.+ |++      .. .+.+.|+.|...|+|++.
T Consensus        17 ~~~~l~~l~~~wrl~IL---------~~L~~----g~~~~~~~eL~~~l~gis------~~-~ls~~L~~Le~~GlV~r~   76 (111)
T 3df8_A           17 SESVLHLLGKKYTMLII---------SVLGN----GSTRQNFNDIRSSIPGIS------ST-ILSRRIKDLIDSGLVERR   76 (111)
T ss_dssp             TSSTHHHHHSTTHHHHH---------HHHTS----SSSCBCHHHHHHTSTTCC------HH-HHHHHHHHHHHTTSEEEE
T ss_pred             HHHHHHHHcCccHHHHH---------HHHhc----CCCCCCHHHHHHHccCCC------HH-HHHHHHHHHHHCCCEEEe
Confidence            34455556666654444         34443    5777  99999999 998      67 999999999999999954


Q ss_pred             eecCCCeEecChhchhhh
Q 024350           91 FVDGQRLYSLAPVSKYFV  108 (269)
Q Consensus        91 ~~~~~~~y~~t~~s~~l~  108 (269)
                      .. ....|++|+.|+.+.
T Consensus        77 ~~-r~~~y~LT~~G~~l~   93 (111)
T 3df8_A           77 SG-QITTYALTEKGMNVR   93 (111)
T ss_dssp             ES-SSEEEEECHHHHHHH
T ss_pred             ec-CcEEEEECccHHHHH
Confidence            22 346799999987665

>1ub9_A Hypothetical protein PH1061; helix-turn-helix motif, winged helix motif, structural genom transcription; 2.05A {Pyrococcus horikoshii} SCOP: a.4.5.28

Probab=96.79  E-value=0.0014  Score=46.52  Aligned_cols=68  Identities=18%  Similarity=0.214  Sum_probs=51.9

Q ss_pred             HHHHHHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceee--c-CCCeEecChhc
Q 024350           28 AAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFV--D-GQRLYSLAPVS  104 (269)
Q Consensus        28 ~~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~--~-~~~~y~~t~~s  104 (269)
                      .++..-.++.|+..|...   ++.|..+||+.+|++      .. .+.+.|+.|...|++.....  + ....|.+|+.+
T Consensus        11 ~~l~~~~~~~iL~~L~~~---~~~~~~ela~~l~is------~~-tvs~~l~~L~~~gli~~~~~~~~~r~~~~~lt~~g   80 (100)
T 1ub9_A           11 HILGNPVRLGIMIFLLPR---RKAPFSQIQKVLDLT------PG-NLDSHIRVLERNGLVKTYKVIADRPRTVVEITDFG   80 (100)
T ss_dssp             HHHHSHHHHHHHHHHHHH---SEEEHHHHHHHTTCC------HH-HHHHHHHHHHHTTSEEEEEECSSSCEEEEEECHHH
T ss_pred             cccCChHHHHHHHHHHhc---CCcCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCEEEEecCCCcceEEEEECHHH
Confidence            355556677888888754   589999999999998      67 99999999999999985321  1 12358888877


Q ss_pred             h
Q 024350          105 K  105 (269)
Q Consensus       105 ~  105 (269)
                      .
T Consensus        81 ~   81 (100)
T 1ub9_A           81 M   81 (100)
T ss_dssp             H
T ss_pred             H
Confidence            5

>2igt_A SAM dependent methyltransferase; alpha-beta sandwich, beta-barrel, structural genomics, PSI-2 structure initiative; HET: MSE SAM GOL; 1.89A {Agrobacterium tumefaciens str} SCOP: c.66.1.51

Probab=96.76  E-value=0.00067  Score=59.76  Aligned_cols=63  Identities=16%  Similarity=0.087  Sum_probs=49.9

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-------C-CceEEecccCCcC------CCC-cEEE
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-------P-GIDHVGGDLFESV------PKA-DTIF  256 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-------~-ri~~~~gD~~~~~------P~g-D~~~  256 (269)
                      ...+|||+|||+|.++..+++...  +++.+|+ |..++.++++       + +++++.+|+++..      ... |+++
T Consensus       153 ~~~~VLDlgcGtG~~sl~la~~ga--~V~~VD~s~~al~~a~~n~~~~gl~~~~v~~i~~D~~~~l~~~~~~~~~fD~Ii  230 (332)
T 2igt_A          153 RPLKVLNLFGYTGVASLVAAAAGA--EVTHVDASKKAIGWAKENQVLAGLEQAPIRWICEDAMKFIQREERRGSTYDIIL  230 (332)
T ss_dssp             SCCEEEEETCTTCHHHHHHHHTTC--EEEEECSCHHHHHHHHHHHHHHTCTTSCEEEECSCHHHHHHHHHHHTCCBSEEE
T ss_pred             CCCcEEEcccccCHHHHHHHHcCC--EEEEEECCHHHHHHHHHHHHHcCCCccceEEEECcHHHHHHHHHhcCCCceEEE
Confidence            346899999999999999998754  8999997 7788776542       2 5999999998732      223 9988


Q ss_pred             e
Q 024350          257 M  257 (269)
Q Consensus       257 l  257 (269)
                      +
T Consensus       231 ~  231 (332)
T 2igt_A          231 T  231 (332)
T ss_dssp             E
T ss_pred             E
Confidence            7

>1wg8_A Predicted S-adenosylmethionine-dependent methyltransferase; S-adenosyl-methyltransferase, MRAW; HET: SAM; 2.00A {Thermus thermophilus} SCOP: a.60.13.1 c.66.1.23

Probab=96.75  E-value=0.002  Score=55.12  Aligned_cols=64  Identities=19%  Similarity=0.199  Sum_probs=52.2

Q ss_pred             HHHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC--CCCceEEecccCC
Q 024350          181 MEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS--YPGIDHVGGDLFE  247 (269)
Q Consensus       181 ~~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~--~~ri~~~~gD~~~  247 (269)
                      ...+++.+. ......+||++||.|..+..|+++  +.+.+++|. |..++.+++  .+|++++.+||-+
T Consensus        11 l~e~le~L~-~~~gg~~VD~T~G~GGHS~~il~~--~g~VigiD~Dp~Ai~~A~~L~~~rv~lv~~~f~~   77 (285)
T 1wg8_A           11 YQEALDLLA-VRPGGVYVDATLGGAGHARGILER--GGRVIGLDQDPEAVARAKGLHLPGLTVVQGNFRH   77 (285)
T ss_dssp             HHHHHHHHT-CCTTCEEEETTCTTSHHHHHHHHT--TCEEEEEESCHHHHHHHHHTCCTTEEEEESCGGG
T ss_pred             HHHHHHhhC-CCCCCEEEEeCCCCcHHHHHHHHC--CCEEEEEeCCHHHHHHHHhhccCCEEEEECCcch
Confidence            456677776 666689999999999999999998  778999997 677765432  2799999999976

>2yx1_A Hypothetical protein MJ0883; methyl transferase, tRNA modification enzyme, transferase; HET: SFG; 2.20A {Methanocaldococcus jannaschii} PDB: 2zzn_A* 3ay0_A* 2zzm_A*

Probab=96.74  E-value=0.0011  Score=58.47  Aligned_cols=63  Identities=19%  Similarity=0.084  Sum_probs=50.3

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-------CCceEEecccCCcCCCCcEEEec
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-------PGIDHVGGDLFESVPKADTIFMK  258 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~~~P~gD~~~l~  258 (269)
                      ...+|+|+|||+|.++.. ++  ...+++.+|+ |..++.++++       ++++++.+|.++...+-|++++.
T Consensus       195 ~~~~VLDlg~G~G~~~l~-a~--~~~~V~~vD~s~~ai~~a~~n~~~n~l~~~v~~~~~D~~~~~~~fD~Vi~d  265 (336)
T 2yx1_A          195 LNDVVVDMFAGVGPFSIA-CK--NAKKIYAIDINPHAIELLKKNIKLNKLEHKIIPILSDVREVDVKGNRVIMN  265 (336)
T ss_dssp             TTCEEEETTCTTSHHHHH-TT--TSSEEEEEESCHHHHHHHHHHHHHTTCTTTEEEEESCGGGCCCCEEEEEEC
T ss_pred             CCCEEEEccCccCHHHHh-cc--CCCEEEEEECCHHHHHHHHHHHHHcCCCCcEEEEECChHHhcCCCcEEEEC
Confidence            457999999999999999 76  5778999998 7888776542       58999999998844223888874

>2hzt_A Putative HTH-type transcriptional regulator YTCD; DNA-binding protein, HTH-type transcription regulators, structural genomics, PSI-2; HET: CSU MSE; 2.00A {Bacillus subtilis} SCOP: a.4.5.69

Probab=96.74  E-value=0.003  Score=45.91  Aligned_cols=53  Identities=19%  Similarity=0.202  Sum_probs=42.1

Q ss_pred             CCCCHHHHHHhC-CCCCCCchhHHHHHHHHHHHHHhcCcccceeecCC---CeEecChhchhhh
Q 024350           49 AKLSVSEIVAQI-PLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQ---RLYSLAPVSKYFV  108 (269)
Q Consensus        49 ~~~s~~eLA~~~-~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~---~~y~~t~~s~~l~  108 (269)
                      ++.+..||++.+ |++      .. .+.+.|+.|...|+|++.....+   -.|++|+.|+.+.
T Consensus        26 ~~~~~~eLa~~l~~is------~~-tls~~L~~Le~~GlI~r~~~~~d~r~~~y~LT~~G~~l~   82 (107)
T 2hzt_A           26 GKKRTSELKRLMPNIT------QK-MLTQQLRELEADGVINRIVYNQVPPKVEYELSEYGRSLE   82 (107)
T ss_dssp             CCBCHHHHHHHCTTSC------HH-HHHHHHHHHHHTTSEEEEEECSSSCEEEEEECTTGGGGH
T ss_pred             CCCCHHHHHHHhcCCC------HH-HHHHHHHHHHHCCCEEEeecCCCCCeEEEEECccHHHHH
Confidence            589999999999 998      67 99999999999999996422111   3589998875443

>1u2w_A CADC repressor, cadmium efflux system accessory protein; LEAD, SOFT metal ION resistance, ARSR/SM family, DNA binding protein; 1.90A {Staphylococcus aureus} SCOP: a.4.5.5 PDB: 3f72_A

Probab=96.72  E-value=0.0019  Score=48.25  Aligned_cols=67  Identities=18%  Similarity=0.155  Sum_probs=49.6

Q ss_pred             HHHHHHHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChh
Q 024350           27 PAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPV  103 (269)
Q Consensus        27 ~~~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~  103 (269)
                      ..+|..-.++.|+..|...   ++.|+.+||+.+|++      .. .+.+.|+.|...|++..........|++++.
T Consensus        36 ~~al~~~~rl~IL~~L~~~---~~~s~~eLa~~l~is------~s-tvs~~L~~L~~~Glv~~~~~gr~~~y~l~~~  102 (122)
T 1u2w_A           36 LKAIADENRAKITYALCQD---EELCVCDIANILGVT------IA-NASHHLRTLYKQGVVNFRKEGKLALYSLGDE  102 (122)
T ss_dssp             HHHHHSHHHHHHHHHHHHS---SCEEHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEEEC----CCEEEESCH
T ss_pred             HHHhCCHHHHHHHHHHHHC---CCcCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCeEEEEECCEEEEEECHH
Confidence            3444555677889999854   589999999999998      67 9999999999999998431111235777653

>2oqg_A Possible transcriptional regulator, ARSR family P; winged-helix-turn-helix, structural genomics, PSI-2, protein structure initiative; 1.54A {Rhodococcus SP}

Probab=96.72  E-value=0.0021  Score=46.98  Aligned_cols=62  Identities=13%  Similarity=0.201  Sum_probs=46.9

Q ss_pred             HHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhch
Q 024350           33 VVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSK  105 (269)
Q Consensus        33 a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s~  105 (269)
                      -.++.|+..|..    ++.|..+||+.+|++      .. .+.+.|+.|...|++..........|.+|+.+.
T Consensus        21 ~~r~~IL~~L~~----~~~~~~ela~~l~is------~~-tv~~~l~~L~~~gli~~~~~gr~~~y~l~~~~~   82 (114)
T 2oqg_A           21 ETRWEILTELGR----ADQSASSLATRLPVS------RQ-AIAKHLNALQACGLVESVKVGREIRYRALGAEL   82 (114)
T ss_dssp             HHHHHHHHHHHH----SCBCHHHHHHHSSSC------HH-HHHHHHHHHHHTTSEEEEEETTEEEEEECSHHH
T ss_pred             hHHHHHHHHHHc----CCCCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCeeEEecCCEEEEEechHHH
Confidence            456677888844    589999999999998      67 999999999999999853211123377777553

>3hp7_A Hemolysin, putative; structural genomics, APC64019, PSI-2, protein STR initiative, midwest center for structural genomics, MCSG; HET: MSE; 1.53A {Streptococcus thermophilus}

Probab=96.67  E-value=0.0029  Score=54.65  Aligned_cols=80  Identities=9%  Similarity=0.089  Sum_probs=52.8

Q ss_pred             HHHHhccCCC-CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHh-CCCCCCceEEe-cccCC----cCCC--C
Q 024350          183 KVLESYKGFE-HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKN-APSYPGIDHVG-GDLFE----SVPK--A  252 (269)
Q Consensus       183 ~~~~~~~~~~-~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~-a~~~~ri~~~~-gD~~~----~~P~--g  252 (269)
                      .+++.+. .. ...+++|||||+|.++..++++ +.-+++.+|+ |.+++. .+..+|+..+. .|+..    .+|.  -
T Consensus        75 ~~l~~~~-~~~~g~~vLDiGcGTG~~t~~L~~~-ga~~V~aVDvs~~mL~~a~r~~~rv~~~~~~ni~~l~~~~l~~~~f  152 (291)
T 3hp7_A           75 KALAVFN-LSVEDMITIDIGASTGGFTDVMLQN-GAKLVYAVDVGTNQLVWKLRQDDRVRSMEQYNFRYAEPVDFTEGLP  152 (291)
T ss_dssp             HHHHHTT-CCCTTCEEEEETCTTSHHHHHHHHT-TCSEEEEECSSSSCSCHHHHTCTTEEEECSCCGGGCCGGGCTTCCC
T ss_pred             HHHHhcC-CCccccEEEecCCCccHHHHHHHhC-CCCEEEEEECCHHHHHHHHHhCcccceecccCceecchhhCCCCCC
Confidence            4455555 33 3469999999999999988886 5568999997 566654 33446665443 24322    2453  3


Q ss_pred             cEEEeccccccC
Q 024350          253 DTIFMKVICVCY  264 (269)
Q Consensus       253 D~~~l~~iLhd~  264 (269)
                      |++++...+|+.
T Consensus       153 D~v~~d~sf~sl  164 (291)
T 3hp7_A          153 SFASIDVSFISL  164 (291)
T ss_dssp             SEEEECCSSSCG
T ss_pred             CEEEEEeeHhhH
Confidence            888877776643

>2oyr_A UPF0341 protein YHIQ; alpha-beta protein, structural genomics, PSI-2, protein structure initiative; HET: SAH; 2.00A {Shigella flexneri 2A} SCOP: c.66.1.55 PDB: 2pgx_A 2pkw_A

Probab=96.66  E-value=0.001  Score=56.49  Aligned_cols=76  Identities=11%  Similarity=0.149  Sum_probs=53.3

Q ss_pred             HHHhccCCCCc--cEEEEeCCCchHHHHHHHHHCCCCeEEEeehhH-H-------HHhCCC-------C-CCceEEeccc
Q 024350          184 VLESYKGFEHV--KKLVDVGGGLGATLNMIISKYPHIKGINYDLLY-V-------IKNAPS-------Y-PGIDHVGGDL  245 (269)
Q Consensus       184 ~~~~~~~~~~~--~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp~-v-------v~~a~~-------~-~ri~~~~gD~  245 (269)
                      +.+... ..+.  .+|+|+|||.|..+..++++  ..+++.+|+-+ +       ++.++.       . +||+++.+|.
T Consensus        78 l~~al~-l~~g~~~~VLDl~~G~G~dal~lA~~--g~~V~~vE~~~~~~~l~~~~l~~a~~~~~~~~~l~~~i~~~~~D~  154 (258)
T 2oyr_A           78 VAKAVG-IKGDYLPDVVDATAGLGRDAFVLASV--GCRVRMLERNPVVAALLDDGLARGYADAEIGGWLQERLQLIHASS  154 (258)
T ss_dssp             HHHHTT-CBTTBCCCEEETTCTTCHHHHHHHHH--TCCEEEEECCHHHHHHHHHHHHHHHHCTTTHHHHHHHEEEEESCH
T ss_pred             HHHHhc-ccCCCCCEEEEcCCcCCHHHHHHHHc--CCEEEEEECCHHHHHHHHHHHHHHHhhHhhhhhhhcCEEEEECCH
Confidence            344444 4444  79999999999999999998  56899999844 3       332221       1 5799999998


Q ss_pred             CCc---CCCC-cEEEeccccc
Q 024350          246 FES---VPKA-DTIFMKVICV  262 (269)
Q Consensus       246 ~~~---~P~g-D~~~l~~iLh  262 (269)
                      .+-   ++.. |++++--..+
T Consensus       155 ~~~L~~~~~~fDvV~lDP~y~  175 (258)
T 2oyr_A          155 LTALTDITPRPQVVYLDPMFP  175 (258)
T ss_dssp             HHHSTTCSSCCSEEEECCCCC
T ss_pred             HHHHHhCcccCCEEEEcCCCC
Confidence            762   3334 9998865443

>3f6v_A Possible transcriptional regulator, ARSR family protein; probable transcriptional repressor ARSR family, structural genomics, PSI-2; 1.48A {Rhodococcus SP}

Probab=96.60  E-value=0.002  Score=50.07  Aligned_cols=69  Identities=16%  Similarity=0.230  Sum_probs=54.3

Q ss_pred             HHHHHHHHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhch
Q 024350           26 LPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSK  105 (269)
Q Consensus        26 ~~~~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s~  105 (269)
                      ...+|..-.++.|+..|..    +++|+.+||+.+|++      .. .+.+.|+.|...|+|........-.|++|+.+.
T Consensus        51 ~l~aL~~p~R~~IL~~L~~----~~~t~~eLa~~lgls------~s-tvs~hL~~L~~aGlV~~~~~Gr~~~y~lt~~~~  119 (151)
T 3f6v_A           51 QLEVAAEPTRRRLVQLLTS----GEQTVNNLAAHFPAS------RS-AISQHLRVLTEAGLVTPRKDGRFRYYRLDPQGL  119 (151)
T ss_dssp             HHHHHTSHHHHHHHHHGGG----CCEEHHHHHTTSSSC------HH-HHHHHHHHHHHTTSEEEEEETTEEEEEECHHHH
T ss_pred             HHHHhCCHHHHHHHHHHHh----CCCCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCEEEEecCCEEEEEEChHHH
Confidence            4566777788889999985    689999999999998      67 999999999999999854211123588877553

>1mkm_A ICLR transcriptional regulator; structural genomics, winged helix-turn-helix, PSI, protein structure initiative; 2.20A {Thermotoga maritima} SCOP: a.4.5.33 d.110.2.2

Probab=96.58  E-value=0.0032  Score=52.99  Aligned_cols=57  Identities=16%  Similarity=0.211  Sum_probs=47.5

Q ss_pred             cChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhc
Q 024350           36 LDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVS  104 (269)
Q Consensus        36 lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s  104 (269)
                      +.|++.|...+  +++|+.|||+.+|++      .. .+.|+|+.|...|++.+   ...+.|++++..
T Consensus        11 l~iL~~l~~~~--~~~~~~ela~~~gl~------~s-tv~r~l~~L~~~G~v~~---~~~~~Y~lg~~~   67 (249)
T 1mkm_A           11 FEILDFIVKNP--GDVSVSEIAEKFNMS------VS-NAYKYMVVLEEKGFVLR---KKDKRYVPGYKL   67 (249)
T ss_dssp             HHHHHHHHHCS--SCBCHHHHHHHTTCC------HH-HHHHHHHHHHHTTSEEE---CTTSCEEECTHH
T ss_pred             HHHHHHHHhCC--CCCCHHHHHHHHCcC------HH-HHHHHHHHHHHCCcEEE---CCCCcEEECHHH
Confidence            45778887753  479999999999997      57 99999999999999994   346889998754

>1tbx_A ORF F-93, hypothetical 11.0 kDa protein; sulfolobus spindle virus, winged helix, fusellovirus; 2.70A {Sulfolobus virus 1} SCOP: a.4.5.48

Probab=96.56  E-value=0.0028  Score=45.20  Aligned_cols=65  Identities=15%  Similarity=0.222  Sum_probs=49.5

Q ss_pred             hcChhHHHHhcCCCCCCCHHHH----HHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhchhhhc
Q 024350           35 ELDVFEIITKAGPGAKLSVSEI----VAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSKYFVR  109 (269)
Q Consensus        35 ~lglfd~L~~~g~~~~~s~~eL----A~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s~~l~~  109 (269)
                      ++.++..|...   +++|..+|    |+.++++      .. .+.++++.|...|++.+........|.+|+.|+.+..
T Consensus        10 q~~iL~~l~~~---~~~~~~el~~~la~~l~is------~~-tvs~~l~~Le~~gli~r~~~~r~~~~~LT~~G~~~~~   78 (99)
T 1tbx_A           10 EAIVLAYLYDN---EGIATYDLYKKVNAEFPMS------TA-TFYDAKKFLIQEGFVKERQERGEKRLYLTEKGKLFAI   78 (99)
T ss_dssp             HHHHHHHHTTC---TTCBHHHHHHHHHTTSCCC------HH-HHHHHHHHHHHTTSEEEEEETTEEEEEECHHHHHHHH
T ss_pred             HHHHHHHHHHc---CCcCHHHHHHHHHHHcCCC------HH-HHHHHHHHHHHCCCEEEEecCCceEEEECHHHHHHHH
Confidence            34466666664   58999999    9999998      67 9999999999999998542222356888888875553

>1sqg_A SUN protein, FMU protein; rossmann-fold, mixed beta sheet, methyltransferase-fold, RNA-binding domain; 1.65A {Escherichia coli} SCOP: a.79.1.3 c.66.1.38 PDB: 1sqf_A

Probab=96.55  E-value=0.0032  Score=57.25  Aligned_cols=71  Identities=13%  Similarity=0.107  Sum_probs=54.0

Q ss_pred             HhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-----CCceEEecccCCc---CCC-C-cE
Q 024350          186 ESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-----PGIDHVGGDLFES---VPK-A-DT  254 (269)
Q Consensus       186 ~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-----~ri~~~~gD~~~~---~P~-g-D~  254 (269)
                      ..++ .....+|+|+|||+|..+..+++..|+.+++.+|+ |..++.++++     -+++++.+|+.+.   ++. . |+
T Consensus       240 ~~l~-~~~g~~VLDlgaG~G~~t~~la~~~~~~~v~a~D~~~~~l~~~~~~~~~~g~~~~~~~~D~~~~~~~~~~~~fD~  318 (429)
T 1sqg_A          240 TWLA-PQNGEHILDLCAAPGGKTTHILEVAPEAQVVAVDIDEQRLSRVYDNLKRLGMKATVKQGDGRYPSQWCGEQQFDR  318 (429)
T ss_dssp             HHHC-CCTTCEEEEESCTTCHHHHHHHHHCTTCEEEEEESSTTTHHHHHHHHHHTTCCCEEEECCTTCTHHHHTTCCEEE
T ss_pred             HHcC-CCCcCeEEEECCCchHHHHHHHHHcCCCEEEEECCCHHHHHHHHHHHHHcCCCeEEEeCchhhchhhcccCCCCE
Confidence            3444 44557999999999999999999999988999997 5555544332     3589999999872   443 3 99


Q ss_pred             EEe
Q 024350          255 IFM  257 (269)
Q Consensus       255 ~~l  257 (269)
                      +++
T Consensus       319 Vl~  321 (429)
T 1sqg_A          319 ILL  321 (429)
T ss_dssp             EEE
T ss_pred             EEE
Confidence            886

>1r1u_A CZRA, repressor protein; zinc, DNA binding, transcriptional regulation, winged HTH protein, transcription repressor; 2.00A {Staphylococcus aureus} SCOP: a.4.5.5 PDB: 1r1v_A 2kjb_A 2kjc_A

Probab=96.54  E-value=0.0023  Score=46.41  Aligned_cols=61  Identities=21%  Similarity=0.309  Sum_probs=45.3

Q ss_pred             HHHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecCh
Q 024350           31 QAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAP  102 (269)
Q Consensus        31 ~~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~  102 (269)
                      ..-.++.|+..|..    ++.|+.|||+.+|++      .. .+.+.|+.|...|++..........|++++
T Consensus        24 ~~~~r~~IL~~L~~----~~~~~~ela~~l~is------~s-tvs~~L~~L~~~Glv~~~~~gr~~~y~l~~   84 (106)
T 1r1u_A           24 GDYNRIRIMELLSV----SEASVGHISHQLNLS------QS-NVSHQLKLLKSVHLVKAKRQGQSMIYSLDD   84 (106)
T ss_dssp             CSHHHHHHHHHHHH----CCBCHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEEEEEETTEEEEEESS
T ss_pred             CCHHHHHHHHHHHh----CCCCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCeEEEEeCCEEEEEECh
Confidence            34456677777875    589999999999998      67 999999999999999853211112466654

>3ech_A MEXR, multidrug resistance operon repressor; winged helix, helix-turn-helix, protein-peptide complex; 1.80A {Pseudomonas aeruginosa} SCOP: a.4.5.28 PDB: 1lnw_A 3mex_A

Probab=96.54  E-value=0.0052  Score=46.50  Aligned_cols=91  Identities=11%  Similarity=0.068  Sum_probs=56.3

Q ss_pred             HHHhhhHHHHHHHHHhhHHHHHHH-----HHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHH
Q 024350            8 EEEANNFSYAMELASAIVLPAAMQ-----AVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLV   82 (269)
Q Consensus         8 ~~~~~~~~~l~~~~~~~~~~~~L~-----~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~   82 (269)
                      ++....+.++.+.+........-.     ...++.++..|...   +++|..+||+.++++      .. .+.++++.|.
T Consensus         7 ~~l~~~l~~~~~~~~~~~~~~l~~~~~~lt~~~~~vL~~l~~~---~~~t~~eLa~~l~~~------~~-tvs~~l~~L~   76 (142)
T 3ech_A            7 PDLMPALMAVFQHVRTRIQSELDCQRLDLTPPDVHVLKLIDEQ---RGLNLQDLGRQMCRD------KA-LITRKIRELE   76 (142)
T ss_dssp             TTHHHHHHHHHHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHT---TTCCHHHHHHHHC---------C-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhccCCCCHHHHHHHHHHHhC---CCcCHHHHHHHhCCC------HH-HHHHHHHHHH
Confidence            344444555554444333222222     34566688888876   489999999999997      56 8999999999


Q ss_pred             hcCcccceeecCC---CeEecChhchhhh
Q 024350           83 SYNALHCSFVDGQ---RLYSLAPVSKYFV  108 (269)
Q Consensus        83 ~~g~l~~~~~~~~---~~y~~t~~s~~l~  108 (269)
                      ..|+|.+.....+   -.+.+|+.|+.+.
T Consensus        77 ~~Glv~r~~~~~DrR~~~~~LT~~G~~~~  105 (142)
T 3ech_A           77 GRNLVRRERNPSDQRSFQLFLTDEGLAIH  105 (142)
T ss_dssp             HTTSEEC----------CCEECHHHHHHH
T ss_pred             HCCCEeeccCCCCCCeeeeEECHHHHHHH
Confidence            9999995321112   2367887776544

>4a5n_A Uncharacterized HTH-type transcriptional regulato; activator, DNA binding, MARR-like; 1.81A {Bacillus subtilis} PDB: 4a5m_A

Probab=96.52  E-value=0.0062  Score=46.16  Aligned_cols=76  Identities=14%  Similarity=0.147  Sum_probs=54.9

Q ss_pred             HHHHHHHHHhhHHHHHHHHHHhcChhHHHHhcCCCCCCCHHHHHHhC-CCCCCCchhHHHHHHHHHHHHHhcCcccceee
Q 024350           14 FSYAMELASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQI-PLKDNNPEAAAMMLDRVLRLLVSYNALHCSFV   92 (269)
Q Consensus        14 ~~~l~~~~~~~~~~~~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~-~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~   92 (269)
                      ...+++++.+.|...+|.         .|..    |+.+..||++.+ |++      .. .|.+.|+.|...|+|++...
T Consensus        16 i~~~l~~lg~kW~l~IL~---------~L~~----g~~rf~eL~~~l~gIs------~~-~Ls~~L~~Le~~GLV~R~~~   75 (131)
T 4a5n_A           16 VEFTLDVIGGKWKGILFY---------HMID----GKKRFNEFRRICPSIT------QR-MLTLQLRELEADGIVHREVY   75 (131)
T ss_dssp             HHHHHHHHCSSSHHHHHH---------HHTT----SCBCHHHHHHHCTTSC------HH-HHHHHHHHHHHTTSEEEEEE
T ss_pred             HHHHHHHHcCcCHHHHHH---------HHhc----CCcCHHHHHHHhcccC------HH-HHHHHHHHHHHCCCEEEEec
Confidence            344555555566555544         3333    689999999999 998      67 99999999999999996422


Q ss_pred             cC---CCeEecChhchhhhc
Q 024350           93 DG---QRLYSLAPVSKYFVR  109 (269)
Q Consensus        93 ~~---~~~y~~t~~s~~l~~  109 (269)
                      .+   .-.|++|+.|+.|..
T Consensus        76 ~~d~r~v~y~LT~~G~~l~~   95 (131)
T 4a5n_A           76 HQVPPKVEYSLTEFGRTLEP   95 (131)
T ss_dssp             CSSSCEEEEEECTTGGGGHH
T ss_pred             CCCCCeEEEEECHhHHHHHH
Confidence            11   135999999986663

>2qww_A Transcriptional regulator, MARR family; YP_013417.1, multiple antibiotic-resistance repressor (MARR) structural genomics; HET: MSE; 2.07A {Listeria monocytogenes str}

Probab=96.51  E-value=0.016  Score=44.24  Aligned_cols=65  Identities=11%  Similarity=0.182  Sum_probs=49.5

Q ss_pred             hcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccc--eeecCC---CeEecChhchhhhc
Q 024350           35 ELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHC--SFVDGQ---RLYSLAPVSKYFVR  109 (269)
Q Consensus        35 ~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~--~~~~~~---~~y~~t~~s~~l~~  109 (269)
                      ++.++..|...   +++|..+||+.++++      .. .+.++++.|...|+|.+  .+...+   -.+.+|+.|+.+..
T Consensus        43 ~~~iL~~l~~~---~~~t~~eLa~~l~~~------~~-tvs~~l~~Le~~Glv~r~~~~~~~d~R~~~~~LT~~G~~~~~  112 (154)
T 2qww_A           43 QLAMINVIYST---PGISVADLTKRLIIT------GS-SAAANVDGLISLGLVVKLNKTIPNDSMDLTLKLSKKGEDLSK  112 (154)
T ss_dssp             HHHHHHHHHHS---TTEEHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEEESCC--CTTCTTCEEEECHHHHHHHH
T ss_pred             HHHHHHHHHHC---CCCCHHHHHHHHCCC------HH-HHHHHHHHHHHCCCEEecCcCCCCCCceeEeEECHHHHHHHH
Confidence            45577777775   489999999999998      67 99999999999999995  321222   24888888875543

>3v97_A Ribosomal RNA large subunit methyltransferase L; YCBY, RNA methyltransferase, ribosome RNA, SAH, RLML; HET: SAH OSU; 2.20A {Escherichia coli} PDB: 3v8v_A*

Probab=96.50  E-value=0.0025  Score=61.67  Aligned_cols=76  Identities=18%  Similarity=0.087  Sum_probs=56.5

Q ss_pred             HHHHHhccCCCCccEEEEeCCCchHHHHHHHHH------------------------------------------CCCCe
Q 024350          182 EKVLESYKGFEHVKKLVDVGGGLGATLNMIISK------------------------------------------YPHIK  219 (269)
Q Consensus       182 ~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~------------------------------------------~P~l~  219 (269)
                      ..++.... |.....|+|.+||+|.++++.+..                                          .|+.+
T Consensus       180 a~ll~~~~-~~~~~~llDP~CGSGt~lIeAa~~a~~~apG~~R~~f~fe~w~~~~~~~w~~~~~ea~~~~~~~~~~~~~~  258 (703)
T 3v97_A          180 AAIVMRSG-WQPGTPLLDPMCGSGTLLIEAAMLATDRAPGLHRGRWGFSGWAQHDEAIWQEVKAEAQTRARKGLAEYSSH  258 (703)
T ss_dssp             HHHHHHTT-CCTTSCEEETTCTTSHHHHHHHHHHTTCCTTTTCCCCTTTTBTTCCHHHHHHHHHHHHHHHHHHHHHCCCC
T ss_pred             HHHHHhhC-CCCCCeEEecCCCCcHHHHHHHHHHhhcCCCCCccccchhhcccCCHHHHHHHHHHHHHHhhhccccCCcc
Confidence            34455555 777789999999999999987764                                          34467


Q ss_pred             EEEeeh-hHHHHhCCCC-------CCceEEecccCC-cCC--C-C-cEEEec
Q 024350          220 GINYDL-LYVIKNAPSY-------PGIDHVGGDLFE-SVP--K-A-DTIFMK  258 (269)
Q Consensus       220 ~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~-~~P--~-g-D~~~l~  258 (269)
                      ++++|+ |.+++.|+.+       ++|++..+|+++ ..|  . . |+++..
T Consensus       259 i~G~Did~~av~~A~~N~~~agv~~~i~~~~~D~~~~~~~~~~~~~d~Iv~N  310 (703)
T 3v97_A          259 FYGSDSDARVIQRARTNARLAGIGELITFEVKDVAQLTNPLPKGPYGTVLSN  310 (703)
T ss_dssp             EEEEESCHHHHHHHHHHHHHTTCGGGEEEEECCGGGCCCSCTTCCCCEEEEC
T ss_pred             EEEEECCHHHHHHHHHHHHHcCCCCceEEEECChhhCccccccCCCCEEEeC
Confidence            899997 8888777653       569999999987 334  2 3 777653

>3bdd_A Regulatory protein MARR; putative multiple antibiotic-resistance repressor, structura genomics, joint center for structural genomics, JCSG; 2.20A {Streptococcus suis}

Probab=96.49  E-value=0.013  Score=43.88  Aligned_cols=65  Identities=14%  Similarity=0.134  Sum_probs=51.4

Q ss_pred             HhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecC---CCeEecChhchhhh
Q 024350           34 VELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDG---QRLYSLAPVSKYFV  108 (269)
Q Consensus        34 ~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~---~~~y~~t~~s~~l~  108 (269)
                      .++.++..|...   +++|..+||+.++++      .. .+.+.++.|...|++.......   .-.|.+|+.|+.+.
T Consensus        32 ~~~~iL~~l~~~---~~~~~~ela~~l~is------~~-~vs~~l~~L~~~gli~~~~~~~d~r~~~~~lT~~G~~~~   99 (142)
T 3bdd_A           32 TRYSILQTLLKD---APLHQLALQERLQID------RA-AVTRHLKLLEESGYIIRKRNPDNQREVLVWPTEQAREAL   99 (142)
T ss_dssp             HHHHHHHHHHHH---CSBCHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEEEEECSSSTTCEEEEECHHHHHHH
T ss_pred             HHHHHHHHHHhC---CCCCHHHHHHHHCCC------HH-HHHHHHHHHHHCCCEEecCCCCCCCeeEEEECHHHHHHH
Confidence            345578888775   489999999999998      67 9999999999999998542211   23488999998766

>1z7u_A Hypothetical protein EF0647; winged-helix-turn-helix, MARR, structural genomics, PSI, Pro structure initiative; 2.20A {Enterococcus faecalis} SCOP: a.4.5.69

Probab=96.49  E-value=0.005  Score=45.12  Aligned_cols=60  Identities=13%  Similarity=0.190  Sum_probs=45.9

Q ss_pred             hhHHHHhcCCCCCCCHHHHHHhC-CCCCCCchhHHHHHHHHHHHHHhcCcccceeecCC---CeEecChhchhhh
Q 024350           38 VFEIITKAGPGAKLSVSEIVAQI-PLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQ---RLYSLAPVSKYFV  108 (269)
Q Consensus        38 lfd~L~~~g~~~~~s~~eLA~~~-~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~---~~y~~t~~s~~l~  108 (269)
                      |+..|..    ++++..+||+.+ +++      .. .+.+.|+.|...|+|.......+   -.|.+|+.|+.+.
T Consensus        27 IL~~L~~----~~~~~~eLa~~l~~is------~~-tvs~~L~~Le~~GlI~r~~~~~d~r~~~~~LT~~G~~~~   90 (112)
T 1z7u_A           27 LMDELFQ----GTKRNGELMRALDGIT------QR-VLTDRLREMEKDGLVHRESFNELPPRVEYTLTPEGYALY   90 (112)
T ss_dssp             HHHHHHH----SCBCHHHHHHHSTTCC------HH-HHHHHHHHHHHHTSEEEEEECCSSCEEEEEECHHHHHHH
T ss_pred             HHHHHHh----CCCCHHHHHHHhccCC------HH-HHHHHHHHHHHCCCEEEeecCCCCCeEEEEECHhHHHHH
Confidence            3445554    489999999999 998      67 99999999999999996422111   2489999887554

>2y75_A HTH-type transcriptional regulator CYMR; DNA binding protein; 2.00A {Bacillus subtilis}

Probab=96.49  E-value=0.0042  Score=46.69  Aligned_cols=46  Identities=15%  Similarity=0.142  Sum_probs=37.0

Q ss_pred             CCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecCh
Q 024350           49 AKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAP  102 (269)
Q Consensus        49 ~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~  102 (269)
                      ++.|.++||+.+|++      .. .+.++|+.|...|+|... +...|.|.++.
T Consensus        25 ~~~s~~ela~~~~i~------~~-~v~~il~~L~~~Glv~~~-~g~~ggy~L~~   70 (129)
T 2y75_A           25 GPTSLKSIAQTNNLS------EH-YLEQLVSPLRNAGLVKSI-RGAYGGYVLGS   70 (129)
T ss_dssp             CCBCHHHHHHHTTSC------HH-HHHHHHHHHHHTTSEEEC-----CCEEESS
T ss_pred             CcCCHHHHHHHHCcC------HH-HHHHHHHHHHHCCceEec-CCCCCceEeCC
Confidence            689999999999997      67 999999999999999853 11236788754

>3ll7_A Putative methyltransferase; methytransferase, structural genomics, MCSG, PSI-2, protein initiative; HET: MSE; 1.80A {Porphyromonas gingivalis}

Probab=96.48  E-value=0.0011  Score=60.03  Aligned_cols=62  Identities=29%  Similarity=0.404  Sum_probs=48.9

Q ss_pred             ccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC--------CCceEEecccCCcCC----CC-cEEEe
Q 024350          194 VKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY--------PGIDHVGGDLFESVP----KA-DTIFM  257 (269)
Q Consensus       194 ~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~--------~ri~~~~gD~~~~~P----~g-D~~~l  257 (269)
                      ..+|+|+|||+|..+..+++.  ..+++.+|+ |..++.++.+        ++|+++.+|+++.++    .. |++++
T Consensus        94 g~~VLDLgcG~G~~al~LA~~--g~~V~~VD~s~~~l~~Ar~N~~~~~~gl~~i~~i~~Da~~~L~~~~~~~fDvV~l  169 (410)
T 3ll7_A           94 GTKVVDLTGGLGIDFIALMSK--ASQGIYIERNDETAVAARHNIPLLLNEGKDVNILTGDFKEYLPLIKTFHPDYIYV  169 (410)
T ss_dssp             TCEEEESSCSSSHHHHHHHTT--CSEEEEEESCHHHHHHHHHHHHHHSCTTCEEEEEESCGGGSHHHHHHHCCSEEEE
T ss_pred             CCEEEEeCCCchHHHHHHHhc--CCEEEEEECCHHHHHHHHHhHHHhccCCCcEEEEECcHHHhhhhccCCCceEEEE
Confidence            479999999999999998877  468999997 7777666432        579999999987322    23 99887

>2xrn_A HTH-type transcriptional regulator TTGV; DNA-binding protein, tetramer gene regulator, cooperative DN binding, multidrug binding protein; 2.90A {Pseudomonas putida} PDB: 2xro_A

Probab=96.43  E-value=0.0026  Score=53.27  Aligned_cols=61  Identities=13%  Similarity=0.181  Sum_probs=48.5

Q ss_pred             cChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhchhh
Q 024350           36 LDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSKYF  107 (269)
Q Consensus        36 lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s~~l  107 (269)
                      +.|++.|...+  +++|+.|||+.+|++      .. .+.|+|+.|...|+|.+.  ...++|++++....|
T Consensus         9 l~iL~~l~~~~--~~~s~~ela~~~gl~------~s-tv~r~l~~L~~~G~v~~~--~~~~~Y~lg~~~~~l   69 (241)
T 2xrn_A            9 ASIMRALGSHP--HGLSLAAIAQLVGLP------RS-TVQRIINALEEEFLVEAL--GPAGGFRLGPALGQL   69 (241)
T ss_dssp             HHHHHHHHTCT--TCEEHHHHHHHTTSC------HH-HHHHHHHHHHTTTSEEEC--GGGCEEEECSHHHHH
T ss_pred             HHHHHHHHhCC--CCCCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCEEEe--CCCCeEEECHHHHHH
Confidence            45778887753  479999999999997      57 899999999999999943  124789998765433

>2okc_A Type I restriction enzyme stysji M protein; NP_813429.1, N-6 DNA methylase, type I restriction enzyme ST protein; HET: SAM; 2.20A {Bacteroides thetaiotaomicron vpi-5482} SCOP: c.66.1.45

Probab=96.39  E-value=0.0027  Score=58.03  Aligned_cols=78  Identities=15%  Similarity=0.026  Sum_probs=55.8

Q ss_pred             HHHhccCCCCccEEEEeCCCchHHHHHHHHHC-------------CCCeEEEeeh-hHHHHhCCCC------C--CceEE
Q 024350          184 VLESYKGFEHVKKLVDVGGGLGATLNMIISKY-------------PHIKGINYDL-LYVIKNAPSY------P--GIDHV  241 (269)
Q Consensus       184 ~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~-------------P~l~~vv~Dl-p~vv~~a~~~------~--ri~~~  241 (269)
                      +++... .....+|+|.|||+|.++..+.+..             +..+++++|+ |.+++.++.+      .  +++++
T Consensus       163 mv~~l~-~~~~~~VlDpacGsG~fl~~~~~~l~~~~~~~~~~~~~~~~~i~G~Ei~~~~~~lA~~nl~l~g~~~~~~~i~  241 (445)
T 2okc_A          163 MVDCIN-PQMGETVCDPACGTGGFLLTAYDYMKGQSASKEKRDFLRDKALHGVDNTPLVVTLASMNLYLHGIGTDRSPIV  241 (445)
T ss_dssp             HHHHHC-CCTTCCEEETTCTTCHHHHHHHHHHHTCC-CCHHHHHHHHTTEEEEESCHHHHHHHHHHHHHTTCCSSCCSEE
T ss_pred             HHHHhC-CCCCCEEeccCCCcchHHHHHHHHHHHhcCCHHHHHhhcCeEEEEEeCCHHHHHHHHHHHHHhCCCcCCCCEe
Confidence            344443 3345689999999999999988764             5577899997 7777766531      2  78899


Q ss_pred             ecccCCc-CCCC-cEEEeccccc
Q 024350          242 GGDLFES-VPKA-DTIFMKVICV  262 (269)
Q Consensus       242 ~gD~~~~-~P~g-D~~~l~~iLh  262 (269)
                      .+|.+.. .... |+++..--++
T Consensus       242 ~gD~l~~~~~~~fD~Iv~NPPf~  264 (445)
T 2okc_A          242 CEDSLEKEPSTLVDVILANPPFG  264 (445)
T ss_dssp             ECCTTTSCCSSCEEEEEECCCSS
T ss_pred             eCCCCCCcccCCcCEEEECCCCC
Confidence            9999984 3334 9888764443

>2b78_A Hypothetical protein SMU.776; structure genomics, methyltransferase, caries, structural genomics, unknown function; 2.00A {Streptococcus mutans} SCOP: b.122.1.9 c.66.1.51 PDB: 3ldf_A*

Probab=96.35  E-value=0.001  Score=59.83  Aligned_cols=65  Identities=14%  Similarity=-0.016  Sum_probs=50.2

Q ss_pred             CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC------C--CceEEecccCCcCC------CC-cEE
Q 024350          192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY------P--GIDHVGGDLFESVP------KA-DTI  255 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~------~--ri~~~~gD~~~~~P------~g-D~~  255 (269)
                      ....+|+|+|||+|.++..+++.. .-+++.+|+ |..++.++++      +  +++++.+|.++.++      .. |++
T Consensus       211 ~~~~~VLDl~cGtG~~sl~la~~g-a~~V~~vD~s~~al~~A~~N~~~n~~~~~~v~~~~~D~~~~l~~~~~~~~~fD~I  289 (385)
T 2b78_A          211 AAGKTVLNLFSYTAAFSVAAAMGG-AMATTSVDLAKRSRALSLAHFEANHLDMANHQLVVMDVFDYFKYARRHHLTYDII  289 (385)
T ss_dssp             TBTCEEEEETCTTTHHHHHHHHTT-BSEEEEEESCTTHHHHHHHHHHHTTCCCTTEEEEESCHHHHHHHHHHTTCCEEEE
T ss_pred             cCCCeEEEEeeccCHHHHHHHHCC-CCEEEEEECCHHHHHHHHHHHHHcCCCccceEEEECCHHHHHHHHHHhCCCccEE
Confidence            345799999999999999999863 237899997 7788776542      3  89999999987322      23 888


Q ss_pred             Ee
Q 024350          256 FM  257 (269)
Q Consensus       256 ~l  257 (269)
                      ++
T Consensus       290 i~  291 (385)
T 2b78_A          290 II  291 (385)
T ss_dssp             EE
T ss_pred             EE
Confidence            87

>3r4k_A Transcriptional regulator, ICLR family; DNA/RNA-binding 3-helical bundle, profilin-like, structural joint center for structural genomics, JCSG; 2.46A {Ruegeria SP}

Probab=96.34  E-value=0.0014  Score=55.73  Aligned_cols=58  Identities=16%  Similarity=0.221  Sum_probs=46.8

Q ss_pred             cChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecC-CCeEecChhch
Q 024350           36 LDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDG-QRLYSLAPVSK  105 (269)
Q Consensus        36 lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~-~~~y~~t~~s~  105 (269)
                      +.|++.|...+  +++|+.|||+.+|++      .. .+.|+|+.|+..|+|.+   +. .++|++++...
T Consensus         9 l~IL~~l~~~~--~~lsl~eia~~lgl~------ks-T~~RlL~tL~~~G~v~~---~~~~~~Y~lG~~~~   67 (260)
T 3r4k_A            9 LTLLTYFNHGR--LEIGLSDLTRLSGMN------KA-TVYRLMSELQEAGFVEQ---VEGARSYRLGPQVL   67 (260)
T ss_dssp             HHHHTTCBTTB--SEEEHHHHHHHHCSC------HH-HHHHHHHHHHHTTSEEE---CSSSSEEEECTTHH
T ss_pred             HHHHHHHhhCC--CCCCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCEEE---cCCCCcEEcCHHHH
Confidence            34677776533  589999999999997      57 99999999999999994   33 38999987543

>3ua3_A Protein arginine N-methyltransferase 5; TIM-barrel, rossmann fold, beta-barrel, symmetric arginine dimethylase, SAM binding; HET: SAH; 3.00A {Caenorhabditis elegans} PDB: 3ua4_A

Probab=96.33  E-value=0.0034  Score=60.23  Aligned_cols=96  Identities=15%  Similarity=0.129  Sum_probs=60.3

Q ss_pred             CchhccccCcchHHHHHHHHHhhchhhHHHHHHhccCCCCccEEEEeCCCchHHHHHHHHH----C---------CCCeE
Q 024350          154 HIYDYLGVDSSFNDVFSNGMLSHTSIVMEKVLESYKGFEHVKKLVDVGGGLGATLNMIISK----Y---------PHIKG  220 (269)
Q Consensus       154 ~~~~~~~~~p~~~~~f~~~m~~~~~~~~~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~----~---------P~l~~  220 (269)
                      ..||.+.+|+.+...|.+|+...-       .+..++-.+...|+|||||+|-++...+++    .         ...++
T Consensus       377 ~tYe~fekD~vRy~~Y~~AI~~al-------~d~~~~~~~~~VVldVGaGtGpLs~~al~A~~~a~~~~~~~~~~~~~kV  449 (745)
T 3ua3_A          377 GVYNTFEQDQIKYDVYGEAVVGAL-------KDLGADGRKTVVIYLLGGGRGPIGTKILKSEREYNNTFRQGQESLKVKL  449 (745)
T ss_dssp             HHHHHHHHCHHHHHHHHHHHHHHH-------HHHHTTCCSEEEEEEESCTTCHHHHHHHHHHHHHHHHHSTTSCCCEEEE
T ss_pred             HHHHHHcCChhhHHHHHHHHHHHH-------HHhhcccCCCcEEEEECCCCCHHHHHHHHHHHHhCccccccccccccEE
Confidence            347777788777777777765521       111110124578999999999996543322    2         23477


Q ss_pred             EEeehh-HHHHhCC-----C-CCCceEEecccCC-cC------CC-CcEEE
Q 024350          221 INYDLL-YVIKNAP-----S-YPGIDHVGGDLFE-SV------PK-ADTIF  256 (269)
Q Consensus       221 vv~Dlp-~vv~~a~-----~-~~ri~~~~gD~~~-~~------P~-gD~~~  256 (269)
                      +.+|-. ..+...+     . .++|+++.+|+-+ ..      |+ .|+++
T Consensus       450 yAVEknp~A~~~l~~~~~Ng~~d~VtVI~gd~eev~lp~~~~~~ekVDIIV  500 (745)
T 3ua3_A          450 YIVEKNPNAIVTLKYMNVRTWKRRVTIIESDMRSLPGIAKDRGFEQPDIIV  500 (745)
T ss_dssp             EEEECCHHHHHHHHHHHHHTTTTCSEEEESCGGGHHHHHHHTTCCCCSEEE
T ss_pred             EEEeCChHHHHHHHHHHhcCCCCeEEEEeCchhhcccccccCCCCcccEEE
Confidence            888863 3332211     1 2789999999988 66      53 58875

>2as0_A Hypothetical protein PH1915; RNA methyltransferase, structural genomics, PSI, protein structure initiative; 1.80A {Pyrococcus horikoshii} SCOP: b.122.1.9 c.66.1.51

Probab=96.30  E-value=0.0013  Score=59.19  Aligned_cols=64  Identities=17%  Similarity=0.125  Sum_probs=50.7

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-------CCceEEecccCCcC------CCC-cEEEe
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-------PGIDHVGGDLFESV------PKA-DTIFM  257 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~~~------P~g-D~~~l  257 (269)
                      ...+|+|+|||+|.++..+++. +..+++.+|+ |..++.++++       ++++++.+|+++..      +.. |++++
T Consensus       217 ~~~~VLDl~~G~G~~~~~la~~-g~~~v~~vD~s~~~l~~a~~n~~~n~~~~~v~~~~~d~~~~~~~~~~~~~~fD~Vi~  295 (396)
T 2as0_A          217 PGDRVLDVFTYTGGFAIHAAIA-GADEVIGIDKSPRAIETAKENAKLNGVEDRMKFIVGSAFEEMEKLQKKGEKFDIVVL  295 (396)
T ss_dssp             TTCEEEETTCTTTHHHHHHHHT-TCSEEEEEESCHHHHHHHHHHHHHTTCGGGEEEEESCHHHHHHHHHHTTCCEEEEEE
T ss_pred             CCCeEEEecCCCCHHHHHHHHC-CCCEEEEEeCCHHHHHHHHHHHHHcCCCccceEEECCHHHHHHHHHhhCCCCCEEEE
Confidence            5579999999999999999987 4457899997 7777766542       38999999998732      223 98887

>2nyx_A Probable transcriptional regulatory protein, RV14; alpha/beta, structural genomics, PSI-2; 2.30A {Mycobacterium tuberculosis}

Probab=96.30  E-value=0.019  Score=44.82  Aligned_cols=66  Identities=12%  Similarity=0.183  Sum_probs=50.4

Q ss_pred             HhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCC---CeEecChhchhhhc
Q 024350           34 VELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQ---RLYSLAPVSKYFVR  109 (269)
Q Consensus        34 ~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~---~~y~~t~~s~~l~~  109 (269)
                      .++.|+..|...   +++|..+||+.++++      .. .+.++++.|...|+|.+.....+   -.+.+|+.|+.+..
T Consensus        46 ~~~~iL~~L~~~---~~~t~~eLa~~l~is------~~-tvs~~l~~Le~~GlV~r~~~~~DrR~~~~~LT~~G~~~~~  114 (168)
T 2nyx_A           46 PQFRTLVILSNH---GPINLATLATLLGVQ------PS-ATGRMVDRLVGAELIDRLPHPTSRRELLAALTKRGRDVVR  114 (168)
T ss_dssp             HHHHHHHHHHHH---CSEEHHHHHHHHTSC------HH-HHHHHHHHHHHTTSEEEEECSSCSSCEEEEECHHHHHHHH
T ss_pred             HHHHHHHHHHHc---CCCCHHHHHHHhCCC------HH-HHHHHHHHHHHCCCEEeccCCCCCCeeEEEECHHHHHHHH
Confidence            345577788775   489999999999998      67 99999999999999985321112   23788888875553

>3m6w_A RRNA methylase; rRNA methyltransferase, 5-methylcytidine, RSMF, adoMet, MULT specific, methyltransferase, transferase; HET: CXM SAM; 1.30A {Thermus thermophilus} PDB: 3m6v_A* 3m6u_A* 3m6x_A*

Probab=96.30  E-value=0.003  Score=58.13  Aligned_cols=66  Identities=5%  Similarity=0.045  Sum_probs=51.9

Q ss_pred             CCCccEEEEeCCCchHHHHHHHHHCCC-CeEEEeeh-hHHHHhCCCC------CCceEEecccCC-c--CCCC-cEEEe
Q 024350          191 FEHVKKLVDVGGGLGATLNMIISKYPH-IKGINYDL-LYVIKNAPSY------PGIDHVGGDLFE-S--VPKA-DTIFM  257 (269)
Q Consensus       191 ~~~~~~vvDvGGG~G~~~~~l~~~~P~-l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~-~--~P~g-D~~~l  257 (269)
                      .....+|+|+|||+|..+..+++..++ .+++.+|+ |..++.++++      . |+++.+|..+ +  .+.. |+|++
T Consensus        99 ~~~g~~VLDlgaGpG~kt~~LA~~~~~~g~V~AvDis~~~l~~a~~n~~r~G~~-v~~~~~Da~~l~~~~~~~FD~Il~  176 (464)
T 3m6w_A           99 PKPGERVLDLAAAPGGKTTHLAARMGGKGLLLANEVDGKRVRGLLENVERWGAP-LAVTQAPPRALAEAFGTYFHRVLL  176 (464)
T ss_dssp             CCTTCEEEESSCTTCHHHHHHHHHTTTCSEEEEECSCHHHHHHHHHHHHHHCCC-CEEECSCHHHHHHHHCSCEEEEEE
T ss_pred             cCCCCEEEEEcCCcCHHHHHHHHhCCCCCEEEEEECCHHHHHHHHHHHHHcCCe-EEEEECCHHHhhhhccccCCEEEE
Confidence            445679999999999999999999876 68899997 6777666542      5 9999999876 2  3333 99986

>1yyv_A Putative transcriptional regulator; reductive methylation, D lysine, structural genomics, PSI; HET: MLY; 2.35A {Salmonella typhimurium} SCOP: a.4.5.69

Probab=96.28  E-value=0.0073  Score=45.69  Aligned_cols=75  Identities=13%  Similarity=0.071  Sum_probs=53.1

Q ss_pred             HHHHHHHHHhhHHHHHHHHHHhcChhHHHHhcCCCCCCCHHHHHHhC-CCCCCCchhHHHHHHHHHHHHHhcCcccceee
Q 024350           14 FSYAMELASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQI-PLKDNNPEAAAMMLDRVLRLLVSYNALHCSFV   92 (269)
Q Consensus        14 ~~~l~~~~~~~~~~~~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~-~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~   92 (269)
                      ...+++++.+.|...+         +..|..    ++++..||++.+ |++      .. .+.+.|+.|...|+|++...
T Consensus        25 ~~~~l~~l~~~w~l~I---------L~~L~~----g~~~~~eLa~~l~gis------~~-tls~~L~~Le~~GlV~r~~~   84 (131)
T 1yyv_A           25 SREVLKHVTSRWGVLI---------LVALRD----GTHRFSDLRRXMGGVS------EX-MLAQSLQALEQDGFLNRVSY   84 (131)
T ss_dssp             HHHHHHHHHSHHHHHH---------HHHGGG----CCEEHHHHHHHSTTCC------HH-HHHHHHHHHHHHTCEEEEEE
T ss_pred             HHHHHHHHcCCcHHHH---------HHHHHc----CCCCHHHHHHHhccCC------HH-HHHHHHHHHHHCCcEEEEec
Confidence            3444555555554433         344543    589999999999 798      67 99999999999999996422


Q ss_pred             cCC---CeEecChhchhhh
Q 024350           93 DGQ---RLYSLAPVSKYFV  108 (269)
Q Consensus        93 ~~~---~~y~~t~~s~~l~  108 (269)
                      ..+   -.|++|+.|+.+.
T Consensus        85 ~~d~r~~~y~LT~~G~~l~  103 (131)
T 1yyv_A           85 PVVPPHVEYSLTPLGEQVS  103 (131)
T ss_dssp             CSSSCEEEEEECHHHHHHH
T ss_pred             CCCCCeEEEEECccHHHHH
Confidence            111   2599999887655

>1wxx_A TT1595, hypothetical protein TTHA1280; thermus thermophillus, methyltransferase, adoMet, structural genomics; 1.80A {Thermus thermophilus} SCOP: b.122.1.9 c.66.1.51 PDB: 1wxw_A 2cww_A*

Probab=96.28  E-value=0.0013  Score=59.04  Aligned_cols=63  Identities=11%  Similarity=0.110  Sum_probs=50.7

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC------CCceEEecccCCcC------CCC-cEEEe
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFESV------PKA-DTIFM  257 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~~~------P~g-D~~~l  257 (269)
                      +..+|+|+|||+|.++..+++.  ..+++.+|+ |..++.++++      +.++++.+|.++..      +.. |++++
T Consensus       209 ~~~~VLDlg~G~G~~~~~la~~--~~~v~~vD~s~~~~~~a~~n~~~n~~~~~~~~~~d~~~~~~~~~~~~~~fD~Ii~  285 (382)
T 1wxx_A          209 RGERALDVFSYAGGFALHLALG--FREVVAVDSSAEALRRAEENARLNGLGNVRVLEANAFDLLRRLEKEGERFDLVVL  285 (382)
T ss_dssp             CEEEEEEETCTTTHHHHHHHHH--EEEEEEEESCHHHHHHHHHHHHHTTCTTEEEEESCHHHHHHHHHHTTCCEEEEEE
T ss_pred             CCCeEEEeeeccCHHHHHHHHh--CCEEEEEECCHHHHHHHHHHHHHcCCCCceEEECCHHHHHHHHHhcCCCeeEEEE
Confidence            5679999999999999999998  567899997 7888776642      45999999998732      223 99887

>1on2_A Transcriptional regulator MNTR; helix-turn-helix, DNA-binding protein, metalloregulatory protein; 1.61A {Bacillus subtilis} SCOP: a.4.5.24 a.76.1.1 PDB: 2ev0_A 1on1_A 2ev5_A 2ev6_A* 2f5c_A 2f5d_A 2f5e_A 2f5f_A 2hyf_A* 2hyg_D 3r60_A* 3r61_A*

Probab=96.28  E-value=0.0072  Score=45.88  Aligned_cols=50  Identities=16%  Similarity=0.149  Sum_probs=43.2

Q ss_pred             CCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhchhhh
Q 024350           49 AKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSKYFV  108 (269)
Q Consensus        49 ~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s~~l~  108 (269)
                      +++|..+||+.++++      .. .+.++|+.|...|+|.+   .....|.+|+.|..+.
T Consensus        21 ~~~~~~ela~~l~vs------~~-tvs~~l~~Le~~Glv~r---~~~~~~~LT~~g~~~~   70 (142)
T 1on2_A           21 GYARVSDIAEALAVH------PS-SVTKMVQKLDKDEYLIY---EKYRGLVLTSKGKKIG   70 (142)
T ss_dssp             SSCCHHHHHHHHTSC------HH-HHHHHHHHHHHTTSEEE---ETTTEEEECHHHHHHH
T ss_pred             CCCCHHHHHHHhCCC------HH-HHHHHHHHHHHCCCEEE---eeCceEEEchhHHHHH
Confidence            589999999999998      67 99999999999999994   3357899999887554

>3opn_A Putative hemolysin; structural genomics, PSI-2, protein structure initiative, NE SGX research center for structural genomics, nysgxrc; 2.05A {Lactococcus lactis subsp}

Probab=96.24  E-value=0.0071  Score=50.31  Aligned_cols=48  Identities=17%  Similarity=0.272  Sum_probs=35.1

Q ss_pred             HHHHhccCCC-CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhC
Q 024350          183 KVLESYKGFE-HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNA  232 (269)
Q Consensus       183 ~~~~~~~~~~-~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a  232 (269)
                      .+++.++ .. ...+|||||||+|.++..++++ +..+++.+|+ |.+++.+
T Consensus        27 ~~L~~~~-~~~~g~~VLDiGcGtG~~t~~la~~-g~~~V~gvDis~~ml~~a   76 (232)
T 3opn_A           27 KALKEFH-LEINGKTCLDIGSSTGGFTDVMLQN-GAKLVYALDVGTNQLAWK   76 (232)
T ss_dssp             HHHHHTT-CCCTTCEEEEETCTTSHHHHHHHHT-TCSEEEEECSSCCCCCHH
T ss_pred             HHHHHcC-CCCCCCEEEEEccCCCHHHHHHHhc-CCCEEEEEcCCHHHHHHH
Confidence            3445554 32 3469999999999999999988 3348999997 5565543

>2fsw_A PG_0823 protein; alpha-beta structure, helix-turn-helix, winged-helix-turn-HE structural genomics, PSI, protein structure initiative; HET: MSE; 2.16A {Porphyromonas gingivalis} SCOP: a.4.5.69

Probab=96.22  E-value=0.0075  Score=43.71  Aligned_cols=75  Identities=16%  Similarity=0.161  Sum_probs=52.9

Q ss_pred             HHHHHHHHHhhHHHHHHHHHHhcChhHHHHhcCCCCCCCHHHHHHhC-CCCCCCchhHHHHHHHHHHHHHhcCcccceee
Q 024350           14 FSYAMELASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQI-PLKDNNPEAAAMMLDRVLRLLVSYNALHCSFV   92 (269)
Q Consensus        14 ~~~l~~~~~~~~~~~~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~-~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~   92 (269)
                      ...+++++.+.|...+|         ..|..    ++++..||++.+ |++      .. .+.+.|+.|...|+|++...
T Consensus        15 ~~~~l~~l~~~~~~~IL---------~~L~~----~~~~~~eL~~~l~gis------~~-~ls~~L~~Le~~GlV~r~~~   74 (107)
T 2fsw_A           15 VRKSMQIFAGKWTLLII---------FQINR----RIIRYGELKRAIPGIS------EK-MLIDELKFLCGKGLIKKKQY   74 (107)
T ss_dssp             HHHHHHHHTSSSHHHHH---------HHHTT----SCEEHHHHHHHSTTCC------HH-HHHHHHHHHHHTTSEEEEEE
T ss_pred             HHHHHHHHcCccHHHHH---------HHHHh----CCcCHHHHHHHcccCC------HH-HHHHHHHHHHHCCCEEEeec
Confidence            44455555555554443         34443    589999999999 497      67 99999999999999996422


Q ss_pred             cCC---CeEecChhchhhh
Q 024350           93 DGQ---RLYSLAPVSKYFV  108 (269)
Q Consensus        93 ~~~---~~y~~t~~s~~l~  108 (269)
                      ..+   -.|.+|+.|+.+.
T Consensus        75 ~~d~r~~~y~LT~~G~~l~   93 (107)
T 2fsw_A           75 PEVPPRVEYSLTPLGEKVL   93 (107)
T ss_dssp             CSSSCEEEEEECHHHHTTH
T ss_pred             CCCCCeeEEEECccHHHHH
Confidence            111   3599999986544

>1r1t_A Transcriptional repressor SMTB; zinc, transcriptional regulation, winged HTH protein, DNA binding, transcription repressor; 1.70A {Synechococcus elongatus pcc 7942} SCOP: a.4.5.5 PDB: 1r23_A 1smt_A 1r22_A

Probab=96.22  E-value=0.0045  Score=46.19  Aligned_cols=61  Identities=15%  Similarity=0.255  Sum_probs=45.9

Q ss_pred             HHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChh
Q 024350           32 AVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPV  103 (269)
Q Consensus        32 ~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~  103 (269)
                      .-.++.|+..|..    ++.++.+||+.+|++      .. .+.+.|+.|...|++........-.|++++.
T Consensus        45 ~~~rl~IL~~L~~----~~~s~~ela~~lgis------~s-tvs~~L~~Le~~Glv~~~~~gr~~~y~l~~~  105 (122)
T 1r1t_A           45 DPNRLRLLSLLAR----SELCVGDLAQAIGVS------ES-AVSHQLRSLRNLRLVSYRKQGRHVYYQLQDH  105 (122)
T ss_dssp             CHHHHHHHHHHTT----CCBCHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEEEEEETTEEEEEESSH
T ss_pred             CHHHHHHHHHHHc----CCCCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCeEEEEeCCEEEEEEChH
Confidence            3456678888875    589999999999998      67 9999999999999998532111124666543

>3f3x_A Transcriptional regulator, MARR family, putative; DNA binding protein, DNA-binding, transcription regulation; 1.90A {Sulfolobus solfataricus}

Probab=96.18  E-value=0.019  Score=43.35  Aligned_cols=65  Identities=6%  Similarity=0.151  Sum_probs=49.8

Q ss_pred             HhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCC---eEecChhchhhhc
Q 024350           34 VELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQR---LYSLAPVSKYFVR  109 (269)
Q Consensus        34 ~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~---~y~~t~~s~~l~~  109 (269)
                      .++.++..|...|   + |..+||+.++++      .. .+.++++.|...|+|.+.+...+.   .+.+|+.|+.+..
T Consensus        38 ~~~~iL~~l~~~~---~-~~~~la~~l~~~------~~-tvs~~l~~Le~~Glv~r~~~~~D~R~~~~~LT~~G~~~~~  105 (144)
T 3f3x_A           38 LDFSILKATSEEP---R-SMVYLANRYFVT------QS-AITAAVDKLEAKGLVRRIRDSKDRRIVIVEITPKGRQVLL  105 (144)
T ss_dssp             HHHHHHHHHHHSC---E-EHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEEEEEETTEEEEEEEEECHHHHHHHH
T ss_pred             HHHHHHHHHHHCC---C-CHHHHHHHHCCC------hh-HHHHHHHHHHHCCCEEeccCCCCCceEEEEECHHHHHHHH
Confidence            4556788888753   5 999999999998      67 999999999999999964211111   4889998875553

>2htj_A P fimbrial regulatory protein KS71A; winged helix-turn-helix, PAP PILI, transcription activator; NMR {Escherichia coli} SCOP: a.4.5.73

Probab=96.17  E-value=0.0092  Score=40.91  Aligned_cols=44  Identities=14%  Similarity=0.160  Sum_probs=38.1

Q ss_pred             cChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccc
Q 024350           36 LDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHC   89 (269)
Q Consensus        36 lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~   89 (269)
                      ..|++.|...   +++|..|||+.+|++      .. .+++.|+.|...|++..
T Consensus         3 ~~Il~~L~~~---~~~s~~eLa~~lgvs------~~-tv~r~L~~L~~~GlI~~   46 (81)
T 2htj_A            3 NEILEFLNRH---NGGKTAEIAEALAVT------DY-QARYYLLLLEKAGMVQR   46 (81)
T ss_dssp             HHHHHHHHHS---CCCCHHHHHHHHTSC------HH-HHHHHHHHHHHHTSEEE
T ss_pred             HHHHHHHHHc---CCCCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCEEE
Confidence            3467778775   589999999999998      67 99999999999999984

>4auk_A Ribosomal RNA large subunit methyltransferase M; YGDE; HET: TLA PGE; 1.90A {Escherichia coli} PDB: 4atn_A* 4b17_A*

Probab=96.17  E-value=0.0059  Score=54.30  Aligned_cols=67  Identities=12%  Similarity=0.103  Sum_probs=51.7

Q ss_pred             CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeehhHHHHhCCCCCCceEEecccCCcCC-CC--cEEEeccc
Q 024350          192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPSYPGIDHVGGDLFESVP-KA--DTIFMKVI  260 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp~vv~~a~~~~ri~~~~gD~~~~~P-~g--D~~~l~~i  260 (269)
                      ....++||+|++.|.++..++++  +.+++.+|.-+.-......++|+++.+|.|+..| .+  |+++.-.+
T Consensus       210 ~~G~~vlDLGAaPGGWT~~l~~r--g~~V~aVD~~~l~~~l~~~~~V~~~~~d~~~~~~~~~~~D~vvsDm~  279 (375)
T 4auk_A          210 ANGMWAVDLGACPGGWTYQLVKR--NMWVYSVDNGPMAQSLMDTGQVTWLREDGFKFRPTRSNISWMVCDMV  279 (375)
T ss_dssp             CTTCEEEEETCTTCHHHHHHHHT--TCEEEEECSSCCCHHHHTTTCEEEECSCTTTCCCCSSCEEEEEECCS
T ss_pred             CCCCEEEEeCcCCCHHHHHHHHC--CCEEEEEEhhhcChhhccCCCeEEEeCccccccCCCCCcCEEEEcCC
Confidence            45679999999999999999988  6789999964433333456899999999999545 33  77765443

>2wte_A CSA3; antiviral protein, viral resistance, winged helix-turn-helix prnai nucleotide-binding domain; HET: MSE; 1.80A {Sulfolobus solfataricus}

Probab=96.17  E-value=0.0063  Score=51.15  Aligned_cols=65  Identities=11%  Similarity=0.181  Sum_probs=52.4

Q ss_pred             HhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhchhhhcC
Q 024350           34 VELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSKYFVRN  110 (269)
Q Consensus        34 ~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s~~l~~~  110 (269)
                      .++.|+..|...   +++|..|||+.+|++      .. .+.|.|+.|...|++.+.  .....|.+|+.+..+...
T Consensus       153 ~~~~IL~~L~~~---~~~s~~eLA~~lgls------ks-Tv~r~L~~Le~~GlV~r~--~r~~~~~LT~~G~~l~~~  217 (244)
T 2wte_A          153 EEMKLLNVLYET---KGTGITELAKMLDKS------EK-TLINKIAELKKFGILTQK--GKDRKVELNELGLNVIKL  217 (244)
T ss_dssp             HHHHHHHHHHHH---TCBCHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEEEE--TTTTEEEECHHHHHHHHH
T ss_pred             HHHHHHHHHHHc---CCCCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCEEEe--CCccEEEECHHHHHHHHH
Confidence            345577777665   589999999999998      67 999999999999999953  235789999999866533

>1r7j_A Conserved hypothetical protein SSO10A; winged helix-turn-helix, two-stranded antiparallel coiled CO structural genomics, PSI; 1.47A {Sulfolobus solfataricus} SCOP: a.4.5.49 PDB: 1xsx_A

Probab=96.16  E-value=0.0086  Score=42.67  Aligned_cols=48  Identities=15%  Similarity=0.271  Sum_probs=42.6

Q ss_pred             CCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhchhhhc
Q 024350           51 LSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSKYFVR  109 (269)
Q Consensus        51 ~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s~~l~~  109 (269)
                      ++..+||..+|++      ++ .+++.++.|...|++..   . .+.|.+|+.|..+..
T Consensus        21 ~~~t~La~~~~ls------~~-~~~~~l~~L~~~GLI~~---~-~~~~~LT~kG~~~l~   68 (95)
T 1r7j_A           21 SPKTRIMYGANLS------YA-LTGRYIKMLMDLEIIRQ---E-GKQYMLTKKGEELLE   68 (95)
T ss_dssp             BCHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEEE---E-TTEEEECHHHHHHHH
T ss_pred             CCHHHHHHHhCcC------HH-HHHHHHHHHHHCCCeEE---E-CCeeEEChhHHHHHH
Confidence            9999999999998      78 99999999999999994   3 467999999986653

>2jt1_A PEFI protein; solution structure, winged helix-turn-helix, transcripti regulatory protein, structural genomics, PSI-2; NMR {Salmonella typhimurium LT2}

Probab=96.10  E-value=0.0067  Score=41.49  Aligned_cols=43  Identities=19%  Similarity=0.239  Sum_probs=37.4

Q ss_pred             hhHHHHhc-----CCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccc
Q 024350           38 VFEIITKA-----GPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHC   89 (269)
Q Consensus        38 lfd~L~~~-----g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~   89 (269)
                      |++.|...     |  +|.|+.|||+.+|++      +. .+++-|..|...|++..
T Consensus         9 IL~~I~~~i~~~~g--~~psv~EIa~~lgvS------~~-TVrr~L~~Le~kG~I~R   56 (77)
T 2jt1_A            9 IISIVQERQNMDDG--APVKTRDIADAAGLS------IY-QVRLYLEQLHDVGVLEK   56 (77)
T ss_dssp             HHHHHHHHHHHHTT--SCEEHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEEE
T ss_pred             HHHHHHHHHhhccC--CCcCHHHHHHHHCCC------HH-HHHHHHHHHHHCCcEEe
Confidence            56666664     5  699999999999998      67 99999999999999984

>3g3z_A NMB1585, transcriptional regulator, MARR family; transcription factor, structur genomics, oxford protein production facility; 2.10A {Neisseria meningitidis serogroup B}

Probab=96.07  E-value=0.0098  Score=45.07  Aligned_cols=65  Identities=15%  Similarity=0.157  Sum_probs=50.4

Q ss_pred             HhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCC---CeEecChhchhhh
Q 024350           34 VELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQ---RLYSLAPVSKYFV  108 (269)
Q Consensus        34 ~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~---~~y~~t~~s~~l~  108 (269)
                      .++.++..|...   +++|..+||+.++++      .. .+.++++.|...|+|.+.+...+   -.+.+|+.|+.+.
T Consensus        32 ~q~~iL~~l~~~---~~~t~~eLa~~l~~~------~~-tvs~~l~~Le~~Glv~r~~~~~D~R~~~~~LT~~G~~~~   99 (145)
T 3g3z_A           32 NLFAVLYTLATE---GSRTQKHIGEKWSLP------KQ-TVSGVCKTLAGQGLIEWQEGEQDRRKRLLSLTETGKAYA   99 (145)
T ss_dssp             HHHHHHHHHHHH---CSBCHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEEECCCSSCGGGSCEEECHHHHHHH
T ss_pred             HHHHHHHHHHHC---CCCCHHHHHHHHCCC------HH-HHHHHHHHHHHCCCEeeccCCCCCceeeeeEChhHHHHH
Confidence            455677888776   479999999999998      67 99999999999999995321112   2488888887655

>3k0l_A Repressor protein; helix-turn-helix, structural genomics, PSI-2, protein structure initiative, midwest center for structural genomics, MCSG; 2.35A {Acinetobacter SP}

Probab=96.06  E-value=0.029  Score=43.40  Aligned_cols=65  Identities=11%  Similarity=0.170  Sum_probs=50.1

Q ss_pred             hcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCC---CeEecChhchhhhc
Q 024350           35 ELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQ---RLYSLAPVSKYFVR  109 (269)
Q Consensus        35 ~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~---~~y~~t~~s~~l~~  109 (269)
                      ++.|+..|...   +++|..+||+.++++      .. .+.++++.|...|+|.+.....+   -.+.+|+.|+.+..
T Consensus        48 q~~iL~~l~~~---~~~t~~eLa~~l~~~------~~-tvs~~l~~Le~~Glv~r~~~~~DrR~~~l~LT~~G~~~~~  115 (162)
T 3k0l_A           48 QFTALSVLAAK---PNLSNAKLAERSFIK------PQ-SANKILQDLLANGWIEKAPDPTHGRRILVTVTPSGLDKLN  115 (162)
T ss_dssp             HHHHHHHHHHC---TTCCHHHHHHHHTSC------GG-GHHHHHHHHHHTTSEEEEECCSSSCCEEEEECHHHHHHHH
T ss_pred             HHHHHHHHHHC---CCCCHHHHHHHHCCC------HH-HHHHHHHHHHHCcCeEecCCCCcCCeeEeEECHhHHHHHH
Confidence            44577788776   589999999999998      56 89999999999999996421122   24788888875553

>2o0y_A Transcriptional regulator; ICLR-family, structural genomics, protein structure initiative, midwest center for structural genomics, MCSG; 2.00A {Rhodococcus SP}

Probab=96.06  E-value=0.0036  Score=53.03  Aligned_cols=58  Identities=22%  Similarity=0.341  Sum_probs=45.8

Q ss_pred             cChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhch
Q 024350           36 LDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSK  105 (269)
Q Consensus        36 lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s~  105 (269)
                      +.|++.|...+  +++|+.|||+.+|++      .. .+.|+|+.|...|++.+   +..+.|++++...
T Consensus        26 l~iL~~l~~~~--~~~~~~eia~~~gl~------ks-tv~r~l~tL~~~G~v~~---~~~~~Y~lg~~~~   83 (260)
T 2o0y_A           26 IDLLELFDAAH--PTRSLKELVEGTKLP------KT-TVVRLVATMCARSVLTS---RADGSYSLGPEML   83 (260)
T ss_dssp             HHHHTTCBTTB--SSBCHHHHHHHHCCC------HH-HHHHHHHHHHHTTSEEE---CTTSCEEECHHHH
T ss_pred             HHHHHHHhhCC--CCcCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCEEE---CCCCeEEecHHHH
Confidence            44666675432  589999999999997      57 89999999999999994   3334899987543

>1oyi_A Double-stranded RNA-binding protein; (alpha+beta) helix-turn-helix, viral protein; NMR {Vaccinia virus} SCOP: a.4.5.19

Probab=96.03  E-value=0.0079  Score=41.55  Aligned_cols=60  Identities=10%  Similarity=0.098  Sum_probs=46.4

Q ss_pred             HHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhc
Q 024350           33 VVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVS  104 (269)
Q Consensus        33 a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s  104 (269)
                      .....|.+.|...   + +|+.|||+++|++      .. .+++.|.-|...|++.+.. ..+-.|+++...
T Consensus        17 ~~~~~IL~lL~~~---g-~sa~eLAk~LgiS------k~-aVr~~L~~Le~eG~I~~~~-~~PP~W~~~~~~   76 (82)
T 1oyi_A           17 EIVCEAIKTIGIE---G-ATAAQLTRQLNME------KR-EVNKALYDLQRSAMVYSSD-DIPPRWFMTTEA   76 (82)
T ss_dssp             HHHHHHHHHHSSS---T-EEHHHHHHHSSSC------HH-HHHHHHHHHHHHTSSEECS-SSSCEEESCC--
T ss_pred             HHHHHHHHHHHHc---C-CCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCEEeCC-CCCCcceeccCc
Confidence            3445677888863   4 9999999999998      67 9999999999999998642 246778887643

>2nnn_A Probable transcriptional regulator; structural genomics, PSI-2, protein structure initiative, M center for structural genomics, MCSG; 2.40A {Pseudomonas aeruginosa}

Probab=96.01  E-value=0.0095  Score=44.63  Aligned_cols=65  Identities=14%  Similarity=0.127  Sum_probs=49.7

Q ss_pred             HhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCC---CeEecChhchhhh
Q 024350           34 VELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQ---RLYSLAPVSKYFV  108 (269)
Q Consensus        34 ~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~---~~y~~t~~s~~l~  108 (269)
                      .++.++..|...   +++|..+||+.++++      .. .+.++++.|...|+|.......+   -.|.+|+.|+.+.
T Consensus        39 ~~~~iL~~l~~~---~~~t~~ela~~l~~~------~~-tvs~~l~~L~~~glv~r~~~~~d~R~~~~~lT~~G~~~~  106 (140)
T 2nnn_A           39 TQWAALVRLGET---GPCPQNQLGRLTAMD------AA-TIKGVVERLDKRGLIQRSADPDDGRRLLVSLSPAGRAEL  106 (140)
T ss_dssp             HHHHHHHHHHHH---SSBCHHHHHHHTTCC------HH-HHHHHHHHHHHTTCEEEEEETTEEEEEEEEECHHHHHHH
T ss_pred             HHHHHHHHHHHc---CCCCHHHHHHHHCCC------HH-HHHHHHHHHHHCCCEEeeCCCCCCCeeeeEECHhHHHHH
Confidence            355678888765   489999999999998      67 99999999999999995321111   2378888876554

>3tka_A Ribosomal RNA small subunit methyltransferase H; HET: SAM CTN PG4; 2.25A {Escherichia coli}

Probab=95.99  E-value=0.017  Score=50.73  Aligned_cols=66  Identities=15%  Similarity=0.176  Sum_probs=54.6

Q ss_pred             HHHHHHhccCCCCccEEEEeCCCchHHHHHHHHHC-CCCeEEEeeh-hHHHHhCCC--CCCceEEecccCC
Q 024350          181 MEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKY-PHIKGINYDL-LYVIKNAPS--YPGIDHVGGDLFE  247 (269)
Q Consensus       181 ~~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~-P~l~~vv~Dl-p~vv~~a~~--~~ri~~~~gD~~~  247 (269)
                      ...+++.+. ......+||..+|.|..+.+|+++. |+.+.+.+|. |..++.++.  .+|++++.+||-+
T Consensus        46 l~Evl~~L~-i~pggiyVD~TlG~GGHS~~iL~~lg~~GrVig~D~Dp~Al~~A~rL~~~Rv~lv~~nF~~  115 (347)
T 3tka_A           46 LDEAVNGLN-IRPDGIYIDGTFGRGGHSRLILSQLGEEGRLLAIDRDPQAIAVAKTIDDPRFSIIHGPFSA  115 (347)
T ss_dssp             THHHHHHTC-CCTTCEEEESCCTTSHHHHHHHTTCCTTCEEEEEESCHHHHHHHTTCCCTTEEEEESCGGG
T ss_pred             HHHHHHhhC-CCCCCEEEEeCcCCCHHHHHHHHhCCCCCEEEEEECCHHHHHHHHhhcCCcEEEEeCCHHH
Confidence            356677766 5556899999999999999999985 8899999998 778877653  3799999999876

>2f2e_A PA1607; transcription factor, helix-TRUN-helix, APC5613, structural genomics, PSI, protein structure initiative; HET: GLC; 1.85A {Pseudomonas aeruginosa} SCOP: a.4.5.69

Probab=95.97  E-value=0.012  Score=45.28  Aligned_cols=53  Identities=17%  Similarity=0.203  Sum_probs=42.6

Q ss_pred             CCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecC--CCeEecChhchhhh
Q 024350           49 AKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDG--QRLYSLAPVSKYFV  108 (269)
Q Consensus        49 ~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~--~~~y~~t~~s~~l~  108 (269)
                      ++.+..||++.+|++      .. .+.+.|+.|...|+|++.....  .-.|++|+.|+.+.
T Consensus        36 g~~~~~eLa~~lgis------~~-tls~~L~~Le~~GlI~r~~~~~d~~~~y~LT~~G~~l~   90 (146)
T 2f2e_A           36 GLTRFGEFQKSLGLA------KN-ILAARLRNLVEHGVMVAVPAESGSHQEYRLTDKGRALF   90 (146)
T ss_dssp             TCCSHHHHHHHHCCC------HH-HHHHHHHHHHHTTSEEEEECSSSSCEEEEECHHHHTTH
T ss_pred             CCCCHHHHHHHhCCC------HH-HHHHHHHHHHHCCCEEEEecCCCCeEEEEECchHHHHH
Confidence            589999999999998      67 9999999999999999642111  13699999886544

>2g7u_A Transcriptional regulator; ICLR family, structural genomics, PSI, protein structure initiative, midwest center for struc genomics; 2.30A {Rhodococcus SP}

Probab=95.96  E-value=0.005  Score=52.05  Aligned_cols=62  Identities=15%  Similarity=0.175  Sum_probs=49.7

Q ss_pred             cChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhchhhhcC
Q 024350           36 LDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSKYFVRN  110 (269)
Q Consensus        36 lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s~~l~~~  110 (269)
                      +.|++.|...+  +++|+.|||+.+|++      .. .+.|+|+.|...|++.   ++ ++.|++++....|...
T Consensus        17 l~iL~~l~~~~--~~~~~~eia~~~gl~------~s-tv~r~l~~L~~~G~v~---~~-~~~Y~Lg~~~~~l~~~   78 (257)
T 2g7u_A           17 FAVLLAFDAQR--PNPTLAELATEAGLS------RP-AVRRILLTLQKLGYVA---GS-GGRWSLTPRVLSIGQH   78 (257)
T ss_dssp             HHHHHTCSSSC--SSCBHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEE---EE-TTEEEECGGGHHHHTT
T ss_pred             HHHHHHHHhCC--CCCCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCEE---eC-CCEEEEcHHHHHHHHH
Confidence            45667776533  589999999999997      57 8999999999999999   44 5899999876555533

>3fm5_A Transcriptional regulator; MCSG, PF04017, PSI, MARR, structu genomics, protein structure initiative, midwest center for structural genomics; HET: GOL; 2.00A {Rhodococcus jostii}

Probab=95.95  E-value=0.025  Score=43.00  Aligned_cols=67  Identities=9%  Similarity=0.105  Sum_probs=47.6

Q ss_pred             HhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCC---eEecChhchhhhc
Q 024350           34 VELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQR---LYSLAPVSKYFVR  109 (269)
Q Consensus        34 ~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~---~y~~t~~s~~l~~  109 (269)
                      .++.++..|...+  +++|..+||+.++++      .. .+.++++-|...|+|.+.+...+.   .+.+|+.|+.+..
T Consensus        40 ~q~~vL~~l~~~~--~~~t~~eLa~~l~i~------~~-tvs~~l~~Le~~Glv~r~~~~~D~R~~~~~LT~~G~~~~~  109 (150)
T 3fm5_A           40 RSYSVLVLACEQA--EGVNQRGVAATMGLD------PS-QIVGLVDELEERGLVVRTLDPSDRRNKLIAATEEGRRLRD  109 (150)
T ss_dssp             HHHHHHHHHHHST--TCCCSHHHHHHHTCC------HH-HHHHHHHHHHTTTSEEC-----------CEECHHHHHHHH
T ss_pred             HHHHHHHHHHhCC--CCcCHHHHHHHHCCC------Hh-HHHHHHHHHHHCCCEEeeCCccccchheeeECHHHHHHHH
Confidence            3455677776644  578999999999998      66 999999999999999953211111   2778888775553

>3e6m_A MARR family transcriptional regulator; APC88769, silicibacter pomeroyi DSS, structural genomics, PSI-2, protein structure initiative; 2.20A {Silicibacter pomeroyi}

Probab=95.95  E-value=0.041  Score=42.46  Aligned_cols=65  Identities=17%  Similarity=0.189  Sum_probs=49.2

Q ss_pred             hcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCC---CeEecChhchhhhc
Q 024350           35 ELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQ---RLYSLAPVSKYFVR  109 (269)
Q Consensus        35 ~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~---~~y~~t~~s~~l~~  109 (269)
                      ++.|+..|...   +++|..+||+.++++      .. .+.++++.|...|+|.+.....+   -.+.+|+.|+.+..
T Consensus        55 q~~vL~~l~~~---~~~t~~eLa~~l~~~------~~-~vs~~l~~Le~~Glv~r~~~~~DrR~~~~~LT~~G~~~~~  122 (161)
T 3e6m_A           55 KLRLLSSLSAY---GELTVGQLATLGVME------QS-TTSRTVDQLVDEGLAARSISDADQRKRTVVLTRKGKKKLA  122 (161)
T ss_dssp             HHHHHHHHHHH---SEEEHHHHHHHTTCC------HH-HHHHHHHHHHHTTSEEECC---CCCSCEEEECHHHHHHHH
T ss_pred             HHHHHHHHHhC---CCCCHHHHHHHHCCC------HH-HHHHHHHHHHHCCCEEeeCCcccCCeeEeeECHHHHHHHH
Confidence            44577778775   489999999999998      66 99999999999999995321112   34788888875553

>3cdh_A Transcriptional regulator, MARR family; helix-turn-hleix, structura genomics, PSI-2, protein structure initiative; 2.69A {Silicibacter pomeroyi dss-3}

Probab=95.95  E-value=0.043  Score=41.89  Aligned_cols=64  Identities=6%  Similarity=0.084  Sum_probs=47.5

Q ss_pred             hcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCC---CeEecChhchhhh
Q 024350           35 ELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQ---RLYSLAPVSKYFV  108 (269)
Q Consensus        35 ~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~---~~y~~t~~s~~l~  108 (269)
                      ++.++..|...   +++|..+||+.++++      .. .+.++++.|...|+|.+.....+   -.+.+|+.|+.+.
T Consensus        45 ~~~iL~~l~~~---~~~t~~ela~~l~i~------~~-tvs~~l~~Le~~Glv~r~~~~~d~R~~~~~lT~~G~~~~  111 (155)
T 3cdh_A           45 EWRVLACLVDN---DAMMITRLAKLSLME------QS-RMTRIVDQMDARGLVTRVADAKDKRRVRVRLTDDGRALA  111 (155)
T ss_dssp             HHHHHHHHSSC---SCBCHHHHHHHTTCC------HH-HHHHHHHHHHHTTSEEECC------CCCEEECHHHHHHH
T ss_pred             HHHHHHHHHHC---CCcCHHHHHHHHCCC------HH-HHHHHHHHHHHCCCEEeccCCCcCCeeEeEECHHHHHHH
Confidence            34466677664   589999999999998      66 99999999999999985311111   3478888887554

>1xn7_A Hypothetical protein YHGG; alpha+beta, GFT structural genomics, protein structure initiative, PSI, NESG; NMR {Escherichia coli} SCOP: a.4.5.62

Probab=95.92  E-value=0.016  Score=39.69  Aligned_cols=42  Identities=14%  Similarity=0.250  Sum_probs=37.9

Q ss_pred             hhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccc
Q 024350           38 VFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHC   89 (269)
Q Consensus        38 lfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~   89 (269)
                      |.+.|...   +.+|+.|||+.++++      +. .++|-|..|...|++.+
T Consensus         7 Il~~L~~~---g~vsv~eLa~~l~VS------~~-TIRrdL~~Le~~G~l~R   48 (78)
T 1xn7_A            7 VRDLLALR---GRMEAAQISQTLNTP------QP-MINAMLQQLESMGKAVR   48 (78)
T ss_dssp             HHHHHHHS---CSBCHHHHHHHTTCC------HH-HHHHHHHHHHHHTSEEE
T ss_pred             HHHHHHHc---CCCcHHHHHHHHCcC------HH-HHHHHHHHHHHCCCEEE
Confidence            66788876   599999999999998      77 99999999999999984

>1jgs_A Multiple antibiotic resistance protein MARR; transcription regulation, DNA-binding, repressor, transcription; HET: SAL; 2.30A {Escherichia coli} SCOP: a.4.5.28

Probab=95.90  E-value=0.011  Score=44.25  Aligned_cols=64  Identities=19%  Similarity=0.151  Sum_probs=48.8

Q ss_pred             hcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCC---eEecChhchhhh
Q 024350           35 ELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQR---LYSLAPVSKYFV  108 (269)
Q Consensus        35 ~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~---~y~~t~~s~~l~  108 (269)
                      ++.++..|...   +++|..+||+.++++      .. .+.++++.|...|+|.......+.   .+.+|+.|+.+.
T Consensus        36 ~~~iL~~l~~~---~~~~~~~la~~l~~~------~~-tvs~~l~~L~~~gli~r~~~~~d~R~~~~~lT~~G~~~~  102 (138)
T 1jgs_A           36 QFKVLCSIRCA---ACITPVELKKVLSVD------LG-ALTRMLDRLVCKGWVERLPNPNDKRGVLVKLTTGGAAIC  102 (138)
T ss_dssp             HHHHHHHHHHH---SSBCHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEEEEECTTCSSCEEEEECHHHHHHH
T ss_pred             HHHHHHHHHhc---CCCCHHHHHHHHCCC------hH-HHHHHHHHHHHCCCEEecCCcccCceeEeEEChhHHHHH
Confidence            44567777765   489999999999998      67 999999999999999954211222   378888887554

>2hr3_A Probable transcriptional regulator; MCSG, structural genomics, PSI-2, protein structure initiati midwest center for structural genomics; 2.40A {Pseudomonas aeruginosa} SCOP: a.4.5.28

Probab=95.90  E-value=0.015  Score=44.00  Aligned_cols=66  Identities=18%  Similarity=0.158  Sum_probs=49.9

Q ss_pred             HHhcChhHHHHh-cCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCC---CeEecChhchhhh
Q 024350           33 VVELDVFEIITK-AGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQ---RLYSLAPVSKYFV  108 (269)
Q Consensus        33 a~~lglfd~L~~-~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~---~~y~~t~~s~~l~  108 (269)
                      ..++.++..|.. .   +++|..+||+.++++      .. .+.++++.|...|+|.+.+...+   -.+.+|+.|+.+.
T Consensus        35 ~~~~~iL~~l~~~~---~~~~~~~la~~l~i~------~~-~vs~~l~~Le~~glv~r~~~~~d~R~~~~~lT~~G~~~~  104 (147)
T 2hr3_A           35 FSQLVVLGAIDRLG---GDVTPSELAAAERMR------SS-NLAALLRELERGGLIVRHADPQDGRRTRVSLSSEGRRNL  104 (147)
T ss_dssp             HHHHHHHHHHHHTT---SCBCHHHHHHHTTCC------HH-HHHHHHHHHHHTTSEEEEC------CCEEEECHHHHHHH
T ss_pred             HHHHHHHHHHHHcC---CCCCHHHHHHHhCCC------hh-hHHHHHHHHHHCCCEeeCCCCCCCCceeeEECHHHHHHH
Confidence            445677888876 4   589999999999998      67 99999999999999985321111   2378888887554

>2k4m_A TR8_protein, UPF0146 protein MTH_1000; alpha+beta, rossman fold, structural genomics, PSI-2; NMR {Methanothermobacterthermautotrophicus str}

Probab=95.90  E-value=0.0066  Score=46.81  Aligned_cols=54  Identities=17%  Similarity=0.132  Sum_probs=40.7

Q ss_pred             CccEEEEeCCCch-HHHHHHHHHCCCCeEEEeeh-hHHHHhCCCCCCceEEecccCCcCCC---C-cEEE
Q 024350          193 HVKKLVDVGGGLG-ATLNMIISKYPHIKGINYDL-LYVIKNAPSYPGIDHVGGDLFESVPK---A-DTIF  256 (269)
Q Consensus       193 ~~~~vvDvGGG~G-~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~~ri~~~~gD~~~~~P~---g-D~~~  256 (269)
                      ...++|+||||.| ..+..|+++ -++.++..|+ |..++         ++..|+|++.++   + |+++
T Consensus        35 ~~~rVlEVG~G~g~~vA~~La~~-~g~~V~atDInp~Av~---------~v~dDiF~P~~~~Y~~~DLIY   94 (153)
T 2k4m_A           35 PGTRVVEVGAGRFLYVSDYIRKH-SKVDLVLTDIKPSHGG---------IVRDDITSPRMEIYRGAALIY   94 (153)
T ss_dssp             SSSEEEEETCTTCCHHHHHHHHH-SCCEEEEECSSCSSTT---------EECCCSSSCCHHHHTTEEEEE
T ss_pred             CCCcEEEEccCCChHHHHHHHHh-CCCeEEEEECCccccc---------eEEccCCCCcccccCCcCEEE
Confidence            4579999999999 577777753 5678899996 55554         888999997662   4 7763

>3c0k_A UPF0064 protein YCCW; PUA domain, adoMet dependent methyltransferase fold; 2.00A {Escherichia coli K12}

Probab=95.86  E-value=0.0023  Score=57.62  Aligned_cols=65  Identities=15%  Similarity=0.116  Sum_probs=50.5

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-------C-CceEEecccCCcCC------CC-cEEE
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-------P-GIDHVGGDLFESVP------KA-DTIF  256 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-------~-ri~~~~gD~~~~~P------~g-D~~~  256 (269)
                      +..+|+|+|||+|.++..+++.. ..+++.+|+ |..++.++++       + +++++.+|.++..+      .. |+++
T Consensus       220 ~~~~VLDl~cG~G~~sl~la~~g-~~~V~~vD~s~~al~~a~~n~~~ngl~~~~v~~~~~D~~~~~~~~~~~~~~fD~Ii  298 (396)
T 3c0k_A          220 ENKRVLNCFSYTGGFAVSALMGG-CSQVVSVDTSQEALDIARQNVELNKLDLSKAEFVRDDVFKLLRTYRDRGEKFDVIV  298 (396)
T ss_dssp             TTCEEEEESCTTCSHHHHHHHTT-CSEEEEEESCHHHHHHHHHHHHHTTCCGGGEEEEESCHHHHHHHHHHTTCCEEEEE
T ss_pred             CCCeEEEeeccCCHHHHHHHHCC-CCEEEEEECCHHHHHHHHHHHHHcCCCccceEEEECCHHHHHHHHHhcCCCCCEEE
Confidence            45799999999999999999874 457899997 7777766542       3 79999999987322      23 9888


Q ss_pred             ec
Q 024350          257 MK  258 (269)
Q Consensus       257 l~  258 (269)
                      +.
T Consensus       299 ~d  300 (396)
T 3c0k_A          299 MD  300 (396)
T ss_dssp             EC
T ss_pred             EC
Confidence            74

>3t8r_A Staphylococcus aureus CYMR; transcriptional regulator protein, dimer, sulfenic acid, UNK function; 1.70A {Staphylococcus aureus} PDB: 3t8t_A

Probab=95.83  E-value=0.011  Score=45.31  Aligned_cols=46  Identities=15%  Similarity=0.179  Sum_probs=38.2

Q ss_pred             CCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecCh
Q 024350           49 AKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAP  102 (269)
Q Consensus        49 ~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~  102 (269)
                      ++.|.++||+.++++      +. .+.++|..|...|+|... +...|-|.++.
T Consensus        27 ~~~s~~~IA~~~~i~------~~-~l~kil~~L~~aGlv~s~-rG~~GGy~Lar   72 (143)
T 3t8r_A           27 GCISLKSIAEENNLS------DL-YLEQLVGPLRNAGLIRSV-RGAKGGYQLRV   72 (143)
T ss_dssp             CCEEHHHHHHHTTCC------HH-HHHHHHHHHHHTTSEEEC-SSSSSEEEESS
T ss_pred             CCcCHHHHHHHHCcC------HH-HHHHHHHHHHHCCEEEec-CCCCCCeeecC
Confidence            589999999999997      67 999999999999999853 22246788754

>3lwf_A LIN1550 protein, putative transcriptional regulator; structural genomics, JOI for structural genomics, JCSG; HET: SO4; 2.06A {Listeria innocua}

Probab=95.82  E-value=0.013  Score=45.85  Aligned_cols=46  Identities=15%  Similarity=0.186  Sum_probs=38.5

Q ss_pred             CCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecCh
Q 024350           49 AKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAP  102 (269)
Q Consensus        49 ~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~  102 (269)
                      ++.|.++||+.++++      +. .++++|..|...|+|... +...|-|.++.
T Consensus        43 ~~~s~~eIA~~~~i~------~~-~l~kil~~L~~aGlv~s~-rG~~GGy~Lar   88 (159)
T 3lwf_A           43 GPISLRSIAQDKNLS------EH-YLEQLIGPLRNAGIVKSI-RGAHGGYVLNG   88 (159)
T ss_dssp             CCBCHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEEEE-CSTTCEEEECS
T ss_pred             CCcCHHHHHHHHCcC------HH-HHHHHHHHHHHCCeEEEe-cCCCCceEecC
Confidence            589999999999997      67 999999999999999854 22246788754

>3b5i_A S-adenosyl-L-methionine:salicylic acid carboxyl methyltransferase-like protein; sabath family, indole-3-acetic acid, S-AD methionine; HET: SAH; 2.75A {Arabidopsis thaliana}

Probab=95.80  E-value=0.039  Score=49.26  Aligned_cols=73  Identities=19%  Similarity=0.230  Sum_probs=52.5

Q ss_pred             ccEEEEeCCCchHHHHHH--------HHHC-------CCCeEEEeehhHH-----HHhCCCC--------------CC--
Q 024350          194 VKKLVDVGGGLGATLNMI--------ISKY-------PHIKGINYDLLYV-----IKNAPSY--------------PG--  237 (269)
Q Consensus       194 ~~~vvDvGGG~G~~~~~l--------~~~~-------P~l~~vv~Dlp~v-----v~~a~~~--------------~r--  237 (269)
                      .-+|+|+|||+|..+..+        .+++       |++++..-|+|..     .......              .+  
T Consensus        53 ~~~IaDlGCssG~Nt~~~v~~ii~~i~~~~~~~~~~~pe~~v~~nDLp~NDFn~lF~~L~~~~~~~~~~~~~~~~~~~~~  132 (374)
T 3b5i_A           53 PFTAVDLGCSSGANTVHIIDFIVKHISKRFDAAGIDPPEFTAFFSDLPSNDFNTLFQLLPPLVSNTCMEECLAADGNRSY  132 (374)
T ss_dssp             CEEEEEETCCSSHHHHHHHHHHHHHHHHHHHHTTCCCCCEEEEEEECTTSCHHHHHHHSCCBCCCC--CCC---CCCBCS
T ss_pred             ceEEEecCCCCChhHHHHHHHHHHHHHHHHhhcCCCCCceeEEecCCCccchHHHHhhhhhhhhhcchhhhccccCCCce
Confidence            579999999999866655        3344       8889899898742     1211110              01  


Q ss_pred             -ceEEecccCC-cCCCC--cEEEeccccccCCC
Q 024350          238 -IDHVGGDLFE-SVPKA--DTIFMKVICVCYLN  266 (269)
Q Consensus       238 -i~~~~gD~~~-~~P~g--D~~~l~~iLhd~~d  266 (269)
                       +.-++|.|+. .+|..  |+++-+..||-.++
T Consensus       133 f~~gvpgSFy~rlfP~~S~d~v~Ss~aLHWls~  165 (374)
T 3b5i_A          133 FVAGVPGSFYRRLFPARTIDFFHSAFSLHWLSQ  165 (374)
T ss_dssp             EEEEEESCTTSCCSCTTCEEEEEEESCTTBCSS
T ss_pred             EEEecChhhhcccCCCcceEEEEecceeeeecc
Confidence             5667899999 68864  99999999997664

>3bpv_A Transcriptional regulator; MARR, DNA binding, transcription factor, winged helix motif, DNA-binding; 1.40A {Methanobacterium thermoautotrophicum} PDB: 3bpx_A*

Probab=95.79  E-value=0.011  Score=44.22  Aligned_cols=64  Identities=11%  Similarity=0.163  Sum_probs=48.3

Q ss_pred             hcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCC---eEecChhchhhh
Q 024350           35 ELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQR---LYSLAPVSKYFV  108 (269)
Q Consensus        35 ~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~---~y~~t~~s~~l~  108 (269)
                      ++.++..|...   +++|..+||+.++++      .. .+.++++.|...|+|...+...++   .|.+|+.|+.+.
T Consensus        31 ~~~iL~~l~~~---~~~~~~ela~~l~~s------~~-tvs~~l~~L~~~glv~~~~~~~d~R~~~~~lT~~G~~~~   97 (138)
T 3bpv_A           31 QVACLLRIHRE---PGIKQDELATFFHVD------KG-TIARTLRRLEESGFIEREQDPENRRRYILEVTRRGEEII   97 (138)
T ss_dssp             HHHHHHHHHHS---TTCBHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEEEEEETTEEEEEEEEECHHHHHTH
T ss_pred             HHHHHHHHHHc---CCCCHHHHHHHHCCC------HH-HHHHHHHHHHHCCCEEeecCCCCceeEEeeECHhHHHHH
Confidence            44567777775   589999999999998      67 999999999999999953211122   277888776544

>2frx_A Hypothetical protein YEBU; rossmann-type S-adenosylmethionine-dependent methyltransfera domain; 2.90A {Escherichia coli}

Probab=95.78  E-value=0.013  Score=54.02  Aligned_cols=65  Identities=15%  Similarity=0.173  Sum_probs=51.7

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCC-CCeEEEeeh-hHHHHhCCC------CCCceEEecccCC-c--CCCC-cEEEe
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYP-HIKGINYDL-LYVIKNAPS------YPGIDHVGGDLFE-S--VPKA-DTIFM  257 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P-~l~~vv~Dl-p~vv~~a~~------~~ri~~~~gD~~~-~--~P~g-D~~~l  257 (269)
                      ...+|+|+|||+|..+..+++..+ .-+++.+|+ +..++.+++      .++|+++.+|..+ +  .+.. |+|++
T Consensus       117 ~g~~VLDl~aGpG~kt~~lA~~~~~~g~V~avDis~~~l~~~~~n~~r~g~~nv~~~~~D~~~~~~~~~~~fD~Il~  193 (479)
T 2frx_A          117 APQRVMDVAAAPGSKTTQISARMNNEGAILANEFSASRVKVLHANISRCGISNVALTHFDGRVFGAAVPEMFDAILL  193 (479)
T ss_dssp             CCSEEEESSCTTSHHHHHHHHHTTTCSEEEEECSSHHHHHHHHHHHHHHTCCSEEEECCCSTTHHHHSTTCEEEEEE
T ss_pred             CCCEEEEeCCCCCHHHHHHHHhCCCCCEEEEEECCHHHHHHHHHHHHHcCCCcEEEEeCCHHHhhhhccccCCEEEE
Confidence            457999999999999999999976 478999997 666665544      2579999999987 3  3444 99987

>2ia2_A Putative transcriptional regulator; SAD, PSI-2, structural genomics, structure initiative, midwest center for structural genomic transcription; 2.10A {Rhodococcus SP}

Probab=95.76  E-value=0.0049  Score=52.35  Aligned_cols=57  Identities=21%  Similarity=0.268  Sum_probs=46.6

Q ss_pred             cChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhch
Q 024350           36 LDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSK  105 (269)
Q Consensus        36 lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s~  105 (269)
                      +.|++.|...+  +++|+.|||+.+|++      .. .+.|+|+.|...|+|.   ++ ++.|++++...
T Consensus        24 l~iL~~l~~~~--~~~~~~eia~~~gl~------~s-tv~r~l~tL~~~G~v~---~~-~~~Y~Lg~~~~   80 (265)
T 2ia2_A           24 LAVIRCFDHRN--QRRTLSDVARATDLT------RA-TARRFLLTLVELGYVA---TD-GSAFWLTPRVL   80 (265)
T ss_dssp             HHHHHTCCSSC--SSEEHHHHHHHHTCC------HH-HHHHHHHHHHHHTSEE---ES-SSEEEECGGGG
T ss_pred             HHHHHHHHhCC--CCCCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCEE---ec-CCEEEEcHHHH
Confidence            45677776533  589999999999997      57 8999999999999999   44 58999987543

>2rdp_A Putative transcriptional regulator MARR; PFAM PF01047, winged-helix binding motif, structural genomics, PSI-2; 2.30A {Geobacillus stearothermophilus}

Probab=95.76  E-value=0.012  Score=44.68  Aligned_cols=64  Identities=8%  Similarity=0.094  Sum_probs=48.6

Q ss_pred             hcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCC---CeEecChhchhhh
Q 024350           35 ELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQ---RLYSLAPVSKYFV  108 (269)
Q Consensus        35 ~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~---~~y~~t~~s~~l~  108 (269)
                      ++.++..|...   +++|..+||+.++++      .. .+.++++.|...|+|.......+   -.+.+|+.|+.+.
T Consensus        44 ~~~iL~~l~~~---~~~t~~ela~~l~~~------~~-tvs~~l~~Le~~Glv~r~~~~~d~R~~~~~lT~~G~~~~  110 (150)
T 2rdp_A           44 QFVALQWLLEE---GDLTVGELSNKMYLA------CS-TTTDLVDRMERNGLVARVRDEHDRRVVRIRLLEKGERII  110 (150)
T ss_dssp             HHHHHHHHHHH---CSBCHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEEEEECCC---CEEEEECHHHHHHH
T ss_pred             HHHHHHHHHHc---CCCCHHHHHHHHCCC------ch-hHHHHHHHHHHCCCeeecCCCCCcceeEeEECHhHHHHH
Confidence            44577777775   489999999999998      67 99999999999999985321112   2377888877554

>2b9e_A NOL1/NOP2/SUN domain family, member 5 isoform 2; methytransferase, structural genomics, structural genomics consortium, SGC; HET: SAM; 1.65A {Homo sapiens} SCOP: c.66.1.38

Probab=95.75  E-value=0.017  Score=50.17  Aligned_cols=67  Identities=12%  Similarity=0.151  Sum_probs=50.8

Q ss_pred             CCCccEEEEeCCCchHHHHHHHHHC-CCCeEEEeeh-hHHHHhCCC------CCCceEEecccCCcCC-----CC-cEEE
Q 024350          191 FEHVKKLVDVGGGLGATLNMIISKY-PHIKGINYDL-LYVIKNAPS------YPGIDHVGGDLFESVP-----KA-DTIF  256 (269)
Q Consensus       191 ~~~~~~vvDvGGG~G~~~~~l~~~~-P~l~~vv~Dl-p~vv~~a~~------~~ri~~~~gD~~~~~P-----~g-D~~~  256 (269)
                      .....+|+|+|||+|..+..+++.. +.-+++.+|+ +..++.+++      ..+|+++.+|+.+..+     .. |.|+
T Consensus       100 ~~~g~~VLDlcaG~G~kt~~la~~~~~~g~V~a~D~~~~~l~~~~~n~~r~g~~~v~~~~~D~~~~~~~~~~~~~fD~Vl  179 (309)
T 2b9e_A          100 PPPGSHVIDACAAPGNKTSHLAALLKNQGKIFAFDLDAKRLASMATLLARAGVSCCELAEEDFLAVSPSDPRYHEVHYIL  179 (309)
T ss_dssp             CCTTCEEEESSCTTCHHHHHHHHHHTTCSEEEEEESCHHHHHHHHHHHHHTTCCSEEEEECCGGGSCTTCGGGTTEEEEE
T ss_pred             CCCCCEEEEeCCChhHHHHHHHHHhCCCCEEEEEeCCHHHHHHHHHHHHHcCCCeEEEEeCChHhcCccccccCCCCEEE
Confidence            4455799999999999999999885 5678999997 666665543      2679999999876211     12 8887


Q ss_pred             e
Q 024350          257 M  257 (269)
Q Consensus       257 l  257 (269)
                      +
T Consensus       180 ~  180 (309)
T 2b9e_A          180 L  180 (309)
T ss_dssp             E
T ss_pred             E
Confidence            6

>2k02_A Ferrous iron transport protein C; FEOC, iron-sulfur, metal-binding, metal binding protein; NMR {Klebsiella pneumoniae subsp}

Probab=95.75  E-value=0.013  Score=41.03  Aligned_cols=43  Identities=9%  Similarity=0.251  Sum_probs=38.4

Q ss_pred             hhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccce
Q 024350           38 VFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCS   90 (269)
Q Consensus        38 lfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~   90 (269)
                      |.+.|...   |.+|+.|||+.++++      +. .++|.|+.|...|++.+.
T Consensus         7 Il~~L~~~---g~vsv~eLA~~l~VS------~~-TIRrDL~~Le~~G~l~R~   49 (87)
T 2k02_A            7 VRDMLALQ---GRMEAKQLSARLQTP------QP-LIDAMLERMEAMGKVVRI   49 (87)
T ss_dssp             HHHHHHHS---CSEEHHHHHHHTTCC------HH-HHHHHHHHHHTTCCSEEE
T ss_pred             HHHHHHHc---CCCcHHHHHHHHCcC------HH-HHHHHHHHHHHCCCEEEE
Confidence            66788876   599999999999998      77 999999999999999953

>2fbi_A Probable transcriptional regulator; MARR, APC5816, structural genomic protein structure initiative; 2.10A {Pseudomonas aeruginosa} SCOP: a.4.5.28

Probab=95.71  E-value=0.011  Score=44.38  Aligned_cols=65  Identities=11%  Similarity=0.071  Sum_probs=49.6

Q ss_pred             HhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCC---CeEecChhchhhh
Q 024350           34 VELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQ---RLYSLAPVSKYFV  108 (269)
Q Consensus        34 ~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~---~~y~~t~~s~~l~  108 (269)
                      .++.++..|...   +++|..+||+.++++      .. .+.++++.|...|+|...+...+   -.|.+|+.|+.+.
T Consensus        37 ~~~~iL~~l~~~---~~~t~~ela~~l~~s------~~-~vs~~l~~Le~~glv~r~~~~~d~R~~~~~lT~~G~~~~  104 (142)
T 2fbi_A           37 QQWRVIRILRQQ---GEMESYQLANQACIL------RP-SMTGVLARLERDGIVRRWKAPKDQRRVYVNLTEKGQQCF  104 (142)
T ss_dssp             HHHHHHHHHHHH---CSEEHHHHHHHTTCC------HH-HHHHHHHHHHHTTSEEEEEETTEEEEEEEEECHHHHHHH
T ss_pred             HHHHHHHHHHHc---CCCCHHHHHHHHCCC------Hh-HHHHHHHHHHHCCCEEeecCCCCCCeeEEEECHHHHHHH
Confidence            355677778775   489999999999998      67 99999999999999985421112   2377888877554

>2lnb_A Z-DNA-binding protein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, immune system; NMR {Homo sapiens}

Probab=95.70  E-value=0.015  Score=39.31  Aligned_cols=55  Identities=16%  Similarity=0.317  Sum_probs=47.1

Q ss_pred             hcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecC
Q 024350           35 ELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLA  101 (269)
Q Consensus        35 ~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t  101 (269)
                      +-.|+++|.++|  +|++..+||+.+|++      -. -+.+.|..|-..|.+.   .+....|.++
T Consensus        21 eekVLe~LkeaG--~PlkageIae~~Gvd------KK-eVdKaik~LKkEgkI~---SPkRCyw~~~   75 (80)
T 2lnb_A           21 EQRILQVLTEAG--SPVKLAQLVKECQAP------KR-ELNQVLYRMKKELKVS---LTSPATWCLG   75 (80)
T ss_dssp             HHHHHHHHHHHT--SCEEHHHHHHHHTSC------HH-HHHHHHHHHHHTTSEE---EEETTEEEES
T ss_pred             HHHHHHHHHHcC--CCCCHHHHHHHHCCC------HH-HHHHHHHHHHHcCCcc---CCCCceeeCC
Confidence            456889999988  799999999999997      34 8999999999999998   3456788876

>3oop_A LIN2960 protein; protein structure initiative, PSI-2, structural genomics, MI center for structural genomics, MCSG, unknown function; 1.78A {Listeria innocua}

Probab=95.70  E-value=0.0092  Score=45.12  Aligned_cols=66  Identities=17%  Similarity=0.165  Sum_probs=49.5

Q ss_pred             HHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCC---CeEecChhchhhh
Q 024350           33 VVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQ---RLYSLAPVSKYFV  108 (269)
Q Consensus        33 a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~---~~y~~t~~s~~l~  108 (269)
                      ..++.++..|...   +++|..+||+.++++      .. .+.++++.|...|+|++.....+   -.+.+|+.|+.+.
T Consensus        37 ~~~~~iL~~l~~~---~~~t~~eLa~~l~~~------~~-~vs~~l~~L~~~Glv~r~~~~~D~R~~~~~LT~~G~~~~  105 (143)
T 3oop_A           37 PEQWSVLEGIEAN---EPISQKEIALWTKKD------TP-TVNRIVDVLLRKELIVREISTEDRRISLLSLTDKGRKET  105 (143)
T ss_dssp             HHHHHHHHHHHHH---SSEEHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEEEEC----CCSCEEEECHHHHHHH
T ss_pred             HHHHHHHHHHHHc---CCcCHHHHHHHHCCC------Hh-hHHHHHHHHHHCCCeeccCCCccCceeeeeECHHHHHHH
Confidence            3445577777765   589999999999998      67 99999999999999995321112   3478888887555

>1s3j_A YUSO protein; structural genomics, MARR transcriptional regulator family, PSI, protein structure initiative; HET: MSE; 2.25A {Bacillus subtilis} SCOP: a.4.5.28

Probab=95.69  E-value=0.054  Score=41.23  Aligned_cols=64  Identities=20%  Similarity=0.164  Sum_probs=48.2

Q ss_pred             hcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCC---CeEecChhchhhh
Q 024350           35 ELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQ---RLYSLAPVSKYFV  108 (269)
Q Consensus        35 ~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~---~~y~~t~~s~~l~  108 (269)
                      ++.|+..|...   +++|..+||+.++++      .. .+.++++.|...|+|.+.....+   -.+.+|+.|+.+.
T Consensus        39 ~~~iL~~l~~~---~~~t~~ela~~l~~s------~~-tvs~~l~~Le~~glv~r~~~~~d~R~~~~~lT~~G~~~~  105 (155)
T 1s3j_A           39 QLFVLASLKKH---GSLKVSEIAERMEVK------PS-AVTLMADRLEQKNLIARTHNTKDRRVIDLSLTDEGDIKF  105 (155)
T ss_dssp             HHHHHHHHHHH---SEEEHHHHHHHHTSC------HH-HHHHHHHHHHHTTSEEEEECSSCTTSEEEEECHHHHHHH
T ss_pred             HHHHHHHHHHc---CCCCHHHHHHHHCCC------HH-HHHHHHHHHHHCCCEeecCCCCCCceEEEEECHHHHHHH
Confidence            34477777765   489999999999998      67 99999999999999985321111   2477888776554

>2gxg_A 146AA long hypothetical transcriptional regulator; winged helix; 1.45A {Sulfolobus tokodaii} PDB: 2eb7_A 2yr2_A 3gez_A 3gf2_A* 3gfi_A 3gfm_A 3gfj_A 3gfl_A

Probab=95.69  E-value=0.033  Score=41.94  Aligned_cols=63  Identities=5%  Similarity=-0.022  Sum_probs=47.5

Q ss_pred             hcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCC---CeEecChhchhhh
Q 024350           35 ELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQ---RLYSLAPVSKYFV  108 (269)
Q Consensus        35 ~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~---~~y~~t~~s~~l~  108 (269)
                      ++.++..|. .   +++|..+||+.++++      .. .+.++++.|...|+|.......+   -.+.+|+.|+.+.
T Consensus        39 ~~~iL~~l~-~---~~~~~~ela~~l~~s------~~-tvs~~l~~Le~~glv~r~~~~~d~r~~~~~lT~~G~~~~  104 (146)
T 2gxg_A           39 DFLVLRATS-D---GPKTMAYLANRYFVT------QS-AITASVDKLEEMGLVVRVRDREDRRKILIEITEKGLETF  104 (146)
T ss_dssp             HHHHHHHHT-T---SCBCHHHHHHHTTCC------HH-HHHHHHHHHHHTTSEEEEECSSCTTCEEEEECHHHHHHH
T ss_pred             HHHHHHHHh-c---CCcCHHHHHHHhCCC------ch-hHHHHHHHHHHCCCEEeecCCCCCceEEEEECHHHHHHH
Confidence            445666776 3   689999999999998      67 99999999999999985421111   2377888776554

>3bja_A Transcriptional regulator, MARR family, putative; NP_978771.1, putative MARR-like transcription regulator, MAR structural genomics; 2.38A {Bacillus cereus}

Probab=95.69  E-value=0.01  Score=44.40  Aligned_cols=65  Identities=12%  Similarity=0.188  Sum_probs=48.7

Q ss_pred             HhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCC---CeEecChhchhhh
Q 024350           34 VELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQ---RLYSLAPVSKYFV  108 (269)
Q Consensus        34 ~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~---~~y~~t~~s~~l~  108 (269)
                      .++.++..|...   +++|..+||+.++++      .. .+.++++.|...|++.......+   -.|.+|+.|+.+.
T Consensus        34 ~~~~iL~~l~~~---~~~~~~ela~~l~~~------~~-tvs~~l~~L~~~gli~r~~~~~d~r~~~~~lT~~G~~~~  101 (139)
T 3bja_A           34 VQFGVIQVLAKS---GKVSMSKLIENMGCV------PS-NMTTMIQRMKRDGYVMTEKNPNDQRETLVYLTKKGEETK  101 (139)
T ss_dssp             HHHHHHHHHHHS---CSEEHHHHHHHCSSC------CT-THHHHHHHHHHTTSEEEEECSSCTTCEEEEECHHHHHHH
T ss_pred             HHHHHHHHHHHc---CCcCHHHHHHHHCCC------hh-HHHHHHHHHHHCCCeeeccCCCCCceeEEEECHHHHHHH
Confidence            345577778775   589999999999998      45 89999999999999985321112   2377888776554

>4hbl_A Transcriptional regulator, MARR family; HTH, transcription factor, DNA binding; 2.50A {Staphylococcus epidermidis}

Probab=95.66  E-value=0.028  Score=42.78  Aligned_cols=65  Identities=11%  Similarity=0.063  Sum_probs=47.8

Q ss_pred             HhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCC---CeEecChhchhhh
Q 024350           34 VELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQ---RLYSLAPVSKYFV  108 (269)
Q Consensus        34 ~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~---~~y~~t~~s~~l~  108 (269)
                      .++.|+..|...   +++|..+||+.++++      .. .+.++++.|...|+|.+.+...+   -.+.+|+.|+.+.
T Consensus        42 ~q~~iL~~l~~~---~~~~~~eLa~~l~~~------~~-~vs~~l~~L~~~Glv~r~~~~~D~R~~~~~LT~~G~~~~  109 (149)
T 4hbl_A           42 SQYLVMLTLWEE---NPQTLNSIGRHLDLS------SN-TLTPMLKRLEQSGWVKRERQQSDKRQLIITLTDNGQQQQ  109 (149)
T ss_dssp             HHHHHHHHHHHS---SSEEHHHHHHHHTCC------HH-HHHHHHHHHHHHTSEEC---------CEEEECSHHHHHH
T ss_pred             HHHHHHHHHHHC---CCCCHHHHHHHHCCC------HH-HHHHHHHHHHHCCCEeeCCCCCCcceeeeeECHHHHHHH
Confidence            345577777765   589999999999998      67 99999999999999995321112   2477888776544

>3nrv_A Putative transcriptional regulator (MARR/EMRR FAM; PSI-2, protein structure initiati structural genomics; HET: MSE; 2.00A {Acinetobacter SP}

Probab=95.65  E-value=0.012  Score=44.73  Aligned_cols=66  Identities=15%  Similarity=0.209  Sum_probs=48.7

Q ss_pred             HHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecC---CCeEecChhchhhh
Q 024350           33 VVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDG---QRLYSLAPVSKYFV  108 (269)
Q Consensus        33 a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~---~~~y~~t~~s~~l~  108 (269)
                      ..++.++..|...   +++|..+||+.++++      .. .+.++++.|...|+|.+.....   .-.+.+|+.|+.+.
T Consensus        40 ~~~~~iL~~l~~~---~~~t~~ela~~l~~~------~~-tvs~~l~~Le~~Glv~r~~~~~D~R~~~~~lT~~G~~~~  108 (148)
T 3nrv_A           40 MTEWRIISVLSSA---SDCSVQKISDILGLD------KA-AVSRTVKKLEEKKYIEVNGHSEDKRTYAINLTEMGQELY  108 (148)
T ss_dssp             HHHHHHHHHHHHS---SSBCHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEEC---------CCBEECHHHHHHH
T ss_pred             HHHHHHHHHHHcC---CCCCHHHHHHHHCCC------HH-HHHHHHHHHHHCCCEEeecCCCCcceeEeEECHhHHHHH
Confidence            3455677888776   489999999999998      67 9999999999999999532111   23477887776544

>3bt7_A TRNA (uracil-5-)-methyltransferase; methyluridine, methyltransferase, TRMA, RUMT; HET: 5MU; 2.43A {Escherichia coli}

Probab=95.65  E-value=0.0085  Score=53.31  Aligned_cols=51  Identities=10%  Similarity=0.057  Sum_probs=42.0

Q ss_pred             cEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC------CCceEEecccCC
Q 024350          195 KKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFE  247 (269)
Q Consensus       195 ~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~  247 (269)
                      .+|+|+|||+|.++..+++..  -+++.+|. |..++.++++      ++++++.+|.++
T Consensus       215 ~~vLDl~cG~G~~~l~la~~~--~~V~gvd~~~~ai~~a~~n~~~ng~~~v~~~~~d~~~  272 (369)
T 3bt7_A          215 GDLLELYCGNGNFSLALARNF--DRVLATEIAKPSVAAAQYNIAANHIDNVQIIRMAAEE  272 (369)
T ss_dssp             SEEEEESCTTSHHHHHHGGGS--SEEEEECCCHHHHHHHHHHHHHTTCCSEEEECCCSHH
T ss_pred             CEEEEccCCCCHHHHHHHhcC--CEEEEEECCHHHHHHHHHHHHHcCCCceEEEECCHHH
Confidence            679999999999999988754  47899997 7788776542      689999999876

>3v97_A Ribosomal RNA large subunit methyltransferase L; YCBY, RNA methyltransferase, ribosome RNA, SAH, RLML; HET: SAH OSU; 2.20A {Escherichia coli} PDB: 3v8v_A*

Probab=95.61  E-value=0.0063  Score=58.94  Aligned_cols=63  Identities=13%  Similarity=0.036  Sum_probs=48.9

Q ss_pred             ccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC--------CCceEEecccCCcCC---CC-cEEEe
Q 024350          194 VKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY--------PGIDHVGGDLFESVP---KA-DTIFM  257 (269)
Q Consensus       194 ~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~--------~ri~~~~gD~~~~~P---~g-D~~~l  257 (269)
                      ..+|||+|||+|.++..+++... -+++.+|+ |..++.++++        ++++++.+|.++.++   .. |++++
T Consensus       540 g~~VLDlg~GtG~~sl~aa~~ga-~~V~aVD~s~~al~~a~~N~~~ngl~~~~v~~i~~D~~~~l~~~~~~fD~Ii~  615 (703)
T 3v97_A          540 GKDFLNLFSYTGSATVHAGLGGA-RSTTTVDMSRTYLEWAERNLRLNGLTGRAHRLIQADCLAWLREANEQFDLIFI  615 (703)
T ss_dssp             TCEEEEESCTTCHHHHHHHHTTC-SEEEEEESCHHHHHHHHHHHHHTTCCSTTEEEEESCHHHHHHHCCCCEEEEEE
T ss_pred             CCcEEEeeechhHHHHHHHHCCC-CEEEEEeCCHHHHHHHHHHHHHcCCCccceEEEecCHHHHHHhcCCCccEEEE
Confidence            46899999999999999988533 36899997 7777766542        489999999998322   23 98887

>2eth_A Transcriptional regulator, putative, MAR family; MARR family, structural genomics, joint center for structura genomics, JCSG; 2.30A {Thermotoga maritima} SCOP: a.4.5.28

Probab=95.58  E-value=0.021  Score=43.72  Aligned_cols=66  Identities=14%  Similarity=0.048  Sum_probs=50.1

Q ss_pred             HHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCC---CeEecChhchhhh
Q 024350           33 VVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQ---RLYSLAPVSKYFV  108 (269)
Q Consensus        33 a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~---~~y~~t~~s~~l~  108 (269)
                      ..++.|+..|...   +++|..+||+.++++      .. .+.++++.|...|+|.+.....+   -.|.+|+.|+.+.
T Consensus        44 ~~~~~iL~~l~~~---~~~t~~ela~~l~is------~~-tvs~~l~~Le~~Gli~r~~~~~d~R~~~~~lT~~G~~~~  112 (154)
T 2eth_A           44 TTELYAFLYVALF---GPKKMKEIAEFLSTT------KS-NVTNVVDSLEKRGLVVREMDPVDRRTYRVVLTEKGKEIF  112 (154)
T ss_dssp             HHHHHHHHHHHHH---CCBCHHHHHHHTTSC------HH-HHHHHHHHHHHTTSEEEEECTTTSSCEEEEECHHHHHHH
T ss_pred             HHHHHHHHHHHHc---CCCCHHHHHHHHCCC------HH-HHHHHHHHHHHCCCEEeeCCCCCcceeEEEECHHHHHHH
Confidence            3456678888775   489999999999998      67 99999999999999985321112   2377888776554

>3boq_A Transcriptional regulator, MARR family; MARR famil structural genomics, PSI-2, protein structure initiative; 2.39A {Silicibacter pomeroyi dss-3}

Probab=95.58  E-value=0.031  Score=42.91  Aligned_cols=65  Identities=8%  Similarity=0.112  Sum_probs=46.7

Q ss_pred             hcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCC---CeEecChhchhhh
Q 024350           35 ELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQ---RLYSLAPVSKYFV  108 (269)
Q Consensus        35 ~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~---~~y~~t~~s~~l~  108 (269)
                      ++.++..|...+  +++|..+||+.++++      .. .+.++++.|...|+|.+.....+   -.+.+|+.|+.+.
T Consensus        49 ~~~iL~~L~~~~--~~~~~~ela~~l~i~------~~-tvs~~l~~Le~~Gli~r~~~~~d~R~~~~~lT~~G~~~~  116 (160)
T 3boq_A           49 KFDAMAQLARNP--DGLSMGKLSGALKVT------NG-NVSGLVNRLIKDGMVVKAMSADDRRSFSAKLTDAGLTTF  116 (160)
T ss_dssp             HHHHHHHHHHCT--TCEEHHHHHHHCSSC------CS-CHHHHHHHHHHHTSEEEC--------CEEEECHHHHHHH
T ss_pred             HHHHHHHHHHcC--CCCCHHHHHHHHCCC------hh-hHHHHHHHHHHCCCEEeecCCCCCCeEEEEEChhHHHHH
Confidence            455778884322  589999999999998      45 89999999999999995311111   2377888776554

>2x4h_A Hypothetical protein SSO2273; transcription; 2.30A {Sulfolobus solfataricus}

Probab=95.55  E-value=0.019  Score=43.25  Aligned_cols=49  Identities=4%  Similarity=-0.026  Sum_probs=42.1

Q ss_pred             CCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhchhhh
Q 024350           49 AKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSKYFV  108 (269)
Q Consensus        49 ~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s~~l~  108 (269)
                      ++.|..+||+.++++      .. .+.+.++.|...|+|.+   .. ..|.+|+.+..+.
T Consensus        30 ~~~s~~ela~~l~is------~~-tv~~~l~~Le~~Gli~r---~~-~~~~Lt~~g~~~~   78 (139)
T 2x4h_A           30 EGAKINRIAKDLKIA------PS-SVFEEVSHLEEKGLVKK---KE-DGVWITNNGTRSI   78 (139)
T ss_dssp             SCBCHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEEE---ET-TEEEECHHHHHHH
T ss_pred             CCcCHHHHHHHhCCC------hH-HHHHHHHHHHHCCCEEe---cC-CeEEEChhHHHHH
Confidence            689999999999998      67 99999999999999994   33 6799999886544

>2a61_A Transcriptional regulator TM0710; APC4350, MCSG, midwest center for structural genomics, PSI, protein structure initiative, MARR; 1.80A {Thermotoga maritima} SCOP: a.4.5.28

Probab=95.54  E-value=0.015  Score=43.85  Aligned_cols=65  Identities=8%  Similarity=0.091  Sum_probs=49.8

Q ss_pred             HhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCC---CeEecChhchhhh
Q 024350           34 VELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQ---RLYSLAPVSKYFV  108 (269)
Q Consensus        34 ~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~---~~y~~t~~s~~l~  108 (269)
                      .++.++..|...   +++|..+||+.++++      .. .+.++++.|...|+|.......+   -.|.+|+.|+.+.
T Consensus        34 ~~~~iL~~l~~~---~~~~~~~la~~l~~s------~~-tvs~~l~~L~~~glv~r~~~~~d~r~~~~~lT~~G~~~~  101 (145)
T 2a61_A           34 AQFDILQKIYFE---GPKRPGELSVLLGVA------KS-TVTGLVKRLEADGYLTRTPDPADRRAYFLVITRKGEEVI  101 (145)
T ss_dssp             HHHHHHHHHHHH---CCBCHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEEEEEETTEEEEEEEEECHHHHHHH
T ss_pred             HHHHHHHHHHHc---CCCCHHHHHHHHCCC------ch-hHHHHHHHHHHCCCeeecCCCCCCceEEEEECHHHHHHH
Confidence            355677778765   589999999999998      67 99999999999999995421112   2477888887554

>2efj_A 3,7-dimethylxanthine methyltransferase; SAM-dependant methyltransferase, SAH, theobromine; HET: SAH 37T; 2.00A {Coffea canephora} PDB: 2eg5_A*

Probab=95.53  E-value=0.034  Score=49.73  Aligned_cols=73  Identities=16%  Similarity=0.186  Sum_probs=52.7

Q ss_pred             ccEEEEeCCCchHHHHHHHHH-----------------CCCCeEEEeehh-----------HHH-Hh-----CCCCCC--
Q 024350          194 VKKLVDVGGGLGATLNMIISK-----------------YPHIKGINYDLL-----------YVI-KN-----APSYPG--  237 (269)
Q Consensus       194 ~~~vvDvGGG~G~~~~~l~~~-----------------~P~l~~vv~Dlp-----------~vv-~~-----a~~~~r--  237 (269)
                      .-+|+|+||++|..+..++..                 .|+++++.-|+|           +.. +.     ....+.  
T Consensus        53 ~~~IaDlGCssG~NT~~~v~~ii~~i~~~~~~~~~~~~~pe~~v~~nDLp~NDFN~lF~~L~~~~~~~~~~~g~~~~~~f  132 (384)
T 2efj_A           53 CFKVGDLGCASGPNTFSTVRDIVQSIDKVGQEKKNELERPTIQIFLNDLFQNDFNSVFKLLPSFYRNLEKENGRKIGSCL  132 (384)
T ss_dssp             EEEEEEETCCSSHHHHHHHHHHHHHHTCC----------CEEEEEEECCTTSCHHHHHHHHHHHHHHHHHHTCCCTTSEE
T ss_pred             ceEEEecCCCCCchHHHHHHHHHHHHHHHhhhcccCCCCCceEEEecCCCccchHHHHhhhhhhHhhhhhhccCCCCceE
Confidence            689999999999888777666                 578888889998           211 11     111122  


Q ss_pred             ceEEecccCC-cCCCC--cEEEeccccccCCC
Q 024350          238 IDHVGGDLFE-SVPKA--DTIFMKVICVCYLN  266 (269)
Q Consensus       238 i~~~~gD~~~-~~P~g--D~~~l~~iLhd~~d  266 (269)
                      +.-++|.|+. .+|..  |+++-+..||=.++
T Consensus       133 ~~gvpgSFy~rlfp~~S~d~v~Ss~aLHWls~  164 (384)
T 2efj_A          133 IGAMPGSFYSRLFPEESMHFLHSCYCLHWLSQ  164 (384)
T ss_dssp             EEECCSCTTSCCSCTTCEEEEEEESCTTBCSS
T ss_pred             EEecchhhhhccCCCCceEEEEecceeeecCC
Confidence            5567899999 78864  99999999995444

>1lj9_A Transcriptional regulator SLYA; HTH DNA binding protein, structural genomics, PSI, protein structure initiative; 1.60A {Enterococcus faecalis} SCOP: a.4.5.28

Probab=95.50  E-value=0.015  Score=43.83  Aligned_cols=64  Identities=8%  Similarity=0.001  Sum_probs=48.4

Q ss_pred             hcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCC---CeEecChhchhhh
Q 024350           35 ELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQ---RLYSLAPVSKYFV  108 (269)
Q Consensus        35 ~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~---~~y~~t~~s~~l~  108 (269)
                      ++.++..|...   +++|..+||+.++++      .. .+.++++.|...|+|.......+   -.+.+|+.|+.+.
T Consensus        31 ~~~iL~~l~~~---~~~t~~~la~~l~~s------~~-~vs~~l~~Le~~gli~r~~~~~d~R~~~~~lT~~G~~~~   97 (144)
T 1lj9_A           31 QYLYLVRVCEN---PGIIQEKIAELIKVD------RT-TAARAIKRLEEQGFIYRQEDASNKKIKRIYATEKGKNVY   97 (144)
T ss_dssp             HHHHHHHHHHS---TTEEHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEEEEECSSCTTCEEEEECHHHHHHH
T ss_pred             HHHHHHHHHHC---cCcCHHHHHHHHCCC------Hh-HHHHHHHHHHHCCCEEeecCCCCCceeeeEEChhHHHHH
Confidence            34467777775   489999999999998      67 99999999999999995421112   2377888876554

>2fbh_A Transcriptional regulator PA3341; MARR, transcription regulator, APC5857, structural genomics, protein structure initiative; 1.80A {Pseudomonas aeruginosa} SCOP: a.4.5.28

Probab=95.49  E-value=0.017  Score=43.46  Aligned_cols=63  Identities=16%  Similarity=0.173  Sum_probs=46.3

Q ss_pred             cChhHHH-HhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCC---CeEecChhchhhh
Q 024350           36 LDVFEII-TKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQ---RLYSLAPVSKYFV  108 (269)
Q Consensus        36 lglfd~L-~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~---~~y~~t~~s~~l~  108 (269)
                      +.++..| ...   +++|..+||+.++++      .. .+.++++-|...|+|.......+   -.+.+|+.|+.+.
T Consensus        40 ~~iL~~l~~~~---~~~t~~~la~~l~~s------~~-~vs~~l~~L~~~glv~r~~~~~d~R~~~~~lT~~G~~~~  106 (146)
T 2fbh_A           40 WLVLLHLARHR---DSPTQRELAQSVGVE------GP-TLARLLDGLESQGLVRRLAVAEDRRAKHIVLTPKADVLI  106 (146)
T ss_dssp             HHHHHHHHHCS---SCCBHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEEEECCBTTBCSCEEEECTTHHHHH
T ss_pred             HHHHHHHHHcC---CCCCHHHHHHHhCCC------hh-hHHHHHHHHHHCCCeeecCCCcccCeeeeEECHhHHHHH
Confidence            4466777 443   689999999999998      67 99999999999999995321111   2367777766444

>3m4x_A NOL1/NOP2/SUN family protein; mtase domain, PUA domain, RRM motif, transferase; 2.28A {Enterococcus faecium}

Probab=95.47  E-value=0.0075  Score=55.34  Aligned_cols=71  Identities=10%  Similarity=-0.009  Sum_probs=53.3

Q ss_pred             HhccCCCCccEEEEeCCCchHHHHHHHHHCCC-CeEEEeeh-hHHHHhCCC------CCCceEEecccCC-c--CCCC-c
Q 024350          186 ESYKGFEHVKKLVDVGGGLGATLNMIISKYPH-IKGINYDL-LYVIKNAPS------YPGIDHVGGDLFE-S--VPKA-D  253 (269)
Q Consensus       186 ~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~-l~~vv~Dl-p~vv~~a~~------~~ri~~~~gD~~~-~--~P~g-D  253 (269)
                      ..++ .....+|+|+|||+|..+..+++..++ -+++.+|+ +..++.+++      ..+|+++.+|..+ +  .+.. |
T Consensus        99 ~~L~-~~~g~~VLDlcaGpGgkt~~lA~~~~~~g~V~AvDis~~rl~~~~~n~~r~g~~nv~v~~~Da~~l~~~~~~~FD  177 (456)
T 3m4x_A           99 TAAA-AKPGEKVLDLCAAPGGKSTQLAAQMKGKGLLVTNEIFPKRAKILSENIERWGVSNAIVTNHAPAELVPHFSGFFD  177 (456)
T ss_dssp             HHHC-CCTTCEEEESSCTTCHHHHHHHHHHTTCSEEEEECSSHHHHHHHHHHHHHHTCSSEEEECCCHHHHHHHHTTCEE
T ss_pred             HHcC-CCCCCEEEEECCCcCHHHHHHHHHcCCCCEEEEEeCCHHHHHHHHHHHHHcCCCceEEEeCCHHHhhhhccccCC
Confidence            3344 445679999999999999999998765 68899997 666665544      2579999999876 2  3433 9


Q ss_pred             EEEe
Q 024350          254 TIFM  257 (269)
Q Consensus       254 ~~~l  257 (269)
                      +|++
T Consensus       178 ~Il~  181 (456)
T 3m4x_A          178 RIVV  181 (456)
T ss_dssp             EEEE
T ss_pred             EEEE
Confidence            8886

>2fu4_A Ferric uptake regulation protein; DNA binding domain, helix-turn-helix, DNA binding protein; 1.80A {Escherichia coli}

Probab=95.44  E-value=0.016  Score=39.68  Aligned_cols=48  Identities=15%  Similarity=0.290  Sum_probs=39.2

Q ss_pred             hcChhHHHHhcCCCCCCCHHHHHHhC-----CCCCCCchhHHHHHHHHHHHHHhcCcccce
Q 024350           35 ELDVFEIITKAGPGAKLSVSEIVAQI-----PLKDNNPEAAAMMLDRVLRLLVSYNALHCS   90 (269)
Q Consensus        35 ~lglfd~L~~~g~~~~~s~~eLA~~~-----~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~   90 (269)
                      +..|++.|...+ +++.|++||++.+     +++      .. .+.|.|+.|+..|+|.+.
T Consensus        19 r~~IL~~l~~~~-~~~~s~~el~~~l~~~~~~is------~~-TVyR~L~~L~~~Glv~~~   71 (83)
T 2fu4_A           19 RLKILEVLQEPD-NHHVSAEDLYKRLIDMGEEIG------LA-TVYRVLNQFDDAGIVTRH   71 (83)
T ss_dssp             HHHHHHHHTSGG-GSSBCHHHHHHHHHHTTCCCC------HH-HHHHHHHHHHHHTSEEEE
T ss_pred             HHHHHHHHHhCC-CCCCCHHHHHHHHHHhCCCCC------Hh-hHHHHHHHHHHCCCeEEE
Confidence            455888887641 0389999999999     887      67 999999999999999854

>4dmg_A Putative uncharacterized protein TTHA1493; rRNA, methyltransferase, S-adenosyl-methionine, 23S ribosoma transferase; HET: SAM; 1.70A {Thermus thermophilus}

Probab=95.43  E-value=0.0074  Score=54.31  Aligned_cols=62  Identities=13%  Similarity=0.116  Sum_probs=46.6

Q ss_pred             ccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-----CCceEEecccCCcC---CCC-cEEEe
Q 024350          194 VKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-----PGIDHVGGDLFESV---PKA-DTIFM  257 (269)
Q Consensus       194 ~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-----~ri~~~~gD~~~~~---P~g-D~~~l  257 (269)
                      ..+|||+|||+|.++..+++...  +++.+|+ |..++.++++     -..++..+|.++.+   +.. |++++
T Consensus       215 g~~VLDlg~GtG~~sl~~a~~ga--~V~avDis~~al~~a~~n~~~ng~~~~~~~~D~~~~l~~~~~~fD~Ii~  286 (393)
T 4dmg_A          215 GERVLDVYSYVGGFALRAARKGA--YALAVDKDLEALGVLDQAALRLGLRVDIRHGEALPTLRGLEGPFHHVLL  286 (393)
T ss_dssp             TCEEEEESCTTTHHHHHHHHTTC--EEEEEESCHHHHHHHHHHHHHHTCCCEEEESCHHHHHHTCCCCEEEEEE
T ss_pred             CCeEEEcccchhHHHHHHHHcCC--eEEEEECCHHHHHHHHHHHHHhCCCCcEEEccHHHHHHHhcCCCCEEEE
Confidence            57999999999999999999744  4899997 7777776642     12356689998732   333 88876

>3deu_A Transcriptional regulator SLYA; MARR, WING-helix, transcription regulator, activator, DNA-binding, repressor; HET: SAL; 2.30A {Salmonella typhimurium} SCOP: a.4.5.28

Probab=95.39  E-value=0.016  Score=45.33  Aligned_cols=65  Identities=12%  Similarity=0.103  Sum_probs=48.2

Q ss_pred             hcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCC---CeEecChhchhhh
Q 024350           35 ELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQ---RLYSLAPVSKYFV  108 (269)
Q Consensus        35 ~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~---~~y~~t~~s~~l~  108 (269)
                      ++.|+..|...+  +++|..+||+.++++      .. .+.++++.|...|+|.+.....+   -.+.+|+.|+.+.
T Consensus        55 q~~vL~~L~~~~--~~~t~~eLa~~l~i~------~~-tvs~~l~~Le~~GlV~r~~~~~DrR~~~l~LT~~G~~~~  122 (166)
T 3deu_A           55 HWVTLHNIHQLP--PDQSQIQLAKAIGIE------QP-SLVRTLDQLEDKGLISRQTCASDRRAKRIKLTEKAEPLI  122 (166)
T ss_dssp             HHHHHHHHHHSC--SSEEHHHHHHHHTSC------HH-HHHHHHHHHHHTTSEEEC--------CEEEECGGGHHHH
T ss_pred             HHHHHHHHHHcC--CCCCHHHHHHHHCCC------Hh-hHHHHHHHHHHCCCEEeeCCCCCCCeeEEEECHHHHHHH
Confidence            455777777633  579999999999998      67 99999999999999995321112   3477888877555

>1bja_A Transcription regulatory protein MOTA; activation domain, middle mode transcription, alpha helical structure, transcription regulation; 2.19A {Enterobacteria phage T4} SCOP: a.4.5.9 PDB: 1i1s_A

Probab=95.39  E-value=0.029  Score=39.80  Aligned_cols=62  Identities=13%  Similarity=0.225  Sum_probs=49.6

Q ss_pred             hcChhHHHHhcCCCCCCCHHHHHH-hCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhchhhhcC
Q 024350           35 ELDVFEIITKAGPGAKLSVSEIVA-QIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSKYFVRN  110 (269)
Q Consensus        35 ~lglfd~L~~~g~~~~~s~~eLA~-~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s~~l~~~  110 (269)
                      ++.|+-.|...   ++.|+.+||+ ..+++      .. .+.|=++.|...|+|+   .++++ +.+|+.|+.+...
T Consensus        18 QfsiL~~L~~~---~~~t~~~Lae~~l~~d------rs-tvsrnl~~L~r~GlVe---~~~~D-l~LT~~G~~~l~~   80 (95)
T 1bja_A           18 TATILITIAKK---DFITAAEVREVHPDLG------NA-VVNSNIGVLIKKGLVE---KSGDG-LIITGEAQDIISN   80 (95)
T ss_dssp             HHHHHHHHHHS---TTBCHHHHHHTCTTSC------HH-HHHHHHHHHHTTTSEE---EETTE-EEECHHHHHHHHH
T ss_pred             HHHHHHHHHHC---CCCCHHHHHHHHhccc------HH-HHHHHHHHHHHCCCee---cCCCC-eeeCHhHHHHHHH
Confidence            34466667776   4899999999 99997      67 9999999999999998   33445 9999998765543

>3bro_A Transcriptional regulator; helix_TURN_helix, multiple antibiotic resistance protein (MA structural genomics, PSI-2, protein structure initiative; HET: MSE; 2.04A {Oenococcus oeni} SCOP: a.4.5.28

Probab=95.38  E-value=0.025  Score=42.38  Aligned_cols=66  Identities=6%  Similarity=0.161  Sum_probs=48.2

Q ss_pred             hcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCC---CeEecChhchhhh
Q 024350           35 ELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQ---RLYSLAPVSKYFV  108 (269)
Q Consensus        35 ~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~---~~y~~t~~s~~l~  108 (269)
                      ++.++..|...+ ++++|..+||+.++++      .. .+.++++.|...|+|...+...+   -.+.+|+.|+.+.
T Consensus        36 ~~~iL~~l~~~~-~~~~~~~ela~~l~~~------~~-tvs~~l~~Le~~Gli~r~~~~~d~R~~~i~lT~~G~~~~  104 (141)
T 3bro_A           36 QMTIIDYLSRNK-NKEVLQRDLESEFSIK------SS-TATVLLQRMEIKKLLYRKVSGKDSRQKCLKLTKKANKLE  104 (141)
T ss_dssp             HHHHHHHHHHTT-TSCCBHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEEEEECSSCTTSEEEEECHHHHTTH
T ss_pred             HHHHHHHHHHCC-CCCcCHHHHHHHHCCC------cc-hHHHHHHHHHHCCCEEeeCCCcCCCeeeeEECHHHHHHH
Confidence            445677777753 1279999999999998      66 99999999999999985421112   2477888776444

>2dul_A N(2),N(2)-dimethylguanosine tRNA methyltransferas; tRNA modification enzyme, guanine 26, N(2),N(2)-dimethyltran structural genomics; 1.90A {Pyrococcus horikoshii} SCOP: c.66.1.58 PDB: 2ejt_A* 2eju_A* 2ytz_A*

Probab=95.37  E-value=0.016  Score=51.88  Aligned_cols=64  Identities=13%  Similarity=-0.103  Sum_probs=49.4

Q ss_pred             ccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC---------------------CCceEEecccCCc---
Q 024350          194 VKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY---------------------PGIDHVGGDLFES---  248 (269)
Q Consensus       194 ~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~---------------------~ri~~~~gD~~~~---  248 (269)
                      ..+|+|+|||+|..+..++++.|..+++..|+ |..++.++++                     +.|+++.+|..+.   
T Consensus        48 ~~~VLDl~aGtG~~~l~~a~~~~~~~V~avDi~~~av~~a~~N~~~n~~~~~~~~~~~~~~~gl~~i~v~~~Da~~~~~~  127 (378)
T 2dul_A           48 PKIVLDALSATGIRGIRFALETPAEEVWLNDISEDAYELMKRNVMLNFDGELRESKGRAILKGEKTIVINHDDANRLMAE  127 (378)
T ss_dssp             CSEEEESSCTTSHHHHHHHHHSSCSEEEEEESCHHHHHHHHHHHHHHCCSCCEECSSEEEEESSSEEEEEESCHHHHHHH
T ss_pred             CCEEEECCCchhHHHHHHHHhCCCCeEEEEECCHHHHHHHHHHHHHhcccccccccccccccCCCceEEEcCcHHHHHHh
Confidence            46899999999999999999999889999997 6766655431                     2388999998762   


Q ss_pred             CCCC-cEEEe
Q 024350          249 VPKA-DTIFM  257 (269)
Q Consensus       249 ~P~g-D~~~l  257 (269)
                      .+.. |++++
T Consensus       128 ~~~~fD~I~l  137 (378)
T 2dul_A          128 RHRYFHFIDL  137 (378)
T ss_dssp             STTCEEEEEE
T ss_pred             ccCCCCEEEe
Confidence            2333 88774

>2zkz_A Transcriptional repressor PAGR; protein-DNA, HTH motif, dimer, DN binding, transcription regulation; 2.00A {Bacillus anthracis}

Probab=95.34  E-value=0.016  Score=41.40  Aligned_cols=63  Identities=17%  Similarity=0.205  Sum_probs=45.1

Q ss_pred             HHHHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChh
Q 024350           30 MQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPV  103 (269)
Q Consensus        30 L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~  103 (269)
                      |..-.++.|+..|...   ++.|+.|||+.+|++      .. .+.+.|+.|... ++........-.|++++.
T Consensus        24 L~~~~Rl~IL~~l~~~---~~~~~~ela~~l~is------~s-tvs~hL~~L~~~-lv~~~~~gr~~~y~l~~~   86 (99)
T 2zkz_A           24 MAHPMRLKIVNELYKH---KALNVTQIIQILKLP------QS-TVSQHLCKMRGK-VLKRNRQGLEIYYSINNP   86 (99)
T ss_dssp             HCSHHHHHHHHHHHHH---SCEEHHHHHHHHTCC------HH-HHHHHHHHHBTT-TBEEEEETTEEEEECCCH
T ss_pred             hCCHHHHHHHHHHHHC---CCcCHHHHHHHHCcC------HH-HHHHHHHHHHHH-hhhheEeCcEEEEEEChH
Confidence            3445566777555443   589999999999998      67 999999999999 987532211234777654

>3eco_A MEPR; mutlidrug efflux pump regulator winged helix-turn-helix motif, DNA-binding, transcription, transcription regulation; 2.40A {Staphylococcus aureus} SCOP: a.4.5.0

Probab=95.33  E-value=0.018  Score=43.19  Aligned_cols=68  Identities=10%  Similarity=0.063  Sum_probs=49.9

Q ss_pred             HhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCC---CeEecChhchhhhc
Q 024350           34 VELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQ---RLYSLAPVSKYFVR  109 (269)
Q Consensus        34 ~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~---~~y~~t~~s~~l~~  109 (269)
                      .++.++..|...| ++++|..+||+.++++      .. .+.++++-|...|+|.+.....+   -.+.+|+.|+.+..
T Consensus        32 ~~~~vL~~l~~~~-~~~~t~~ela~~l~~~------~~-tvs~~l~~Le~~Gli~r~~~~~D~R~~~~~LT~~G~~~~~  102 (139)
T 3eco_A           32 EQGHTLGYLYAHQ-QDGLTQNDIAKALQRT------GP-TVSNLLRNLERKKLIYRYVDAQDTRRKNIGLTTSGIKLVE  102 (139)
T ss_dssp             HHHHHHHHHHHST-TTCEEHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEEEEECCC--CCEEEEECHHHHHHHH
T ss_pred             HHHHHHHHHHhcC-CCCcCHHHHHHHhCCC------cc-cHHHHHHHHHHCCCEeecCCCCCCCeeeeEECHHHHHHHH
Confidence            3455777777652 1489999999999998      67 99999999999999995421112   24778888775553

>3s2w_A Transcriptional regulator, MARR family; structural genomics, PSI-biology, protein structure initiati midwest center for structural genomics; 2.45A {Methanosarcina mazei}

Probab=95.32  E-value=0.016  Score=44.72  Aligned_cols=64  Identities=8%  Similarity=0.048  Sum_probs=48.0

Q ss_pred             cChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCC---CeEecChhchhhhc
Q 024350           36 LDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQ---RLYSLAPVSKYFVR  109 (269)
Q Consensus        36 lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~---~~y~~t~~s~~l~~  109 (269)
                      +.++..|...   +++|..+||+.++++      .. .+.++++.|...|+|.+.....+   -.+.+|+.|+.+..
T Consensus        53 ~~vL~~l~~~---~~~t~~eLa~~l~~~------~~-tvs~~l~~Le~~Glv~r~~~~~DrR~~~l~LT~~G~~~~~  119 (159)
T 3s2w_A           53 FPFLMRLYRE---DGINQESLSDYLKID------KG-TTARAIQKLVDEGYVFRQRDEKDRRSYRVFLTEKGKKLEP  119 (159)
T ss_dssp             HHHHHHHHHS---CSEEHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEEEEECC---CCEEEEECHHHHHHHH
T ss_pred             HHHHHHHHHC---CCCCHHHHHHHHCCC------HH-HHHHHHHHHHHCCCEEEecCCCCCCeeEEEECHHHHHHHH
Confidence            3456677665   589999999999998      67 99999999999999996421112   24778888875553

>3cjn_A Transcriptional regulator, MARR family; silicibacter pomeroy structural genomics, PSI-2, protein structure initiative; 1.95A {Silicibacter pomeroyi dss-3}

Probab=95.31  E-value=0.018  Score=44.44  Aligned_cols=65  Identities=12%  Similarity=0.161  Sum_probs=49.0

Q ss_pred             HhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCC---CeEecChhchhhh
Q 024350           34 VELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQ---RLYSLAPVSKYFV  108 (269)
Q Consensus        34 ~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~---~~y~~t~~s~~l~  108 (269)
                      .++.|+..|...   +++|..+||+.++++      .. .+.++++.|...|+|.......+   -.|.+|+.|+.+.
T Consensus        53 ~~~~iL~~l~~~---~~~t~~ela~~l~is------~~-tvs~~l~~Le~~Gli~r~~~~~d~R~~~~~lT~~G~~~~  120 (162)
T 3cjn_A           53 AKMRALAILSAK---DGLPIGTLGIFAVVE------QS-TLSRALDGLQADGLVRREVDSDDQRSSRVYLTPAGRAVY  120 (162)
T ss_dssp             HHHHHHHHHHHS---CSEEHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEEEEEC--CCSSEEEEECHHHHHHH
T ss_pred             HHHHHHHHHHHC---CCCCHHHHHHHHCCC------hh-HHHHHHHHHHHCCCEEecCCCCCCCeeEEEECHHHHHHH
Confidence            345577888775   589999999999998      67 99999999999999985321111   2377888776544

>4aik_A Transcriptional regulator SLYA; transcription, transcription factor; 1.85A {Yersinia pseudotuberculosis} PDB: 4aih_A 4aij_A 3qpt_A* 3q5f_A*

Probab=95.31  E-value=0.032  Score=42.92  Aligned_cols=65  Identities=15%  Similarity=0.098  Sum_probs=48.2

Q ss_pred             hcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCC---eEecChhchhhh
Q 024350           35 ELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQR---LYSLAPVSKYFV  108 (269)
Q Consensus        35 ~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~---~y~~t~~s~~l~  108 (269)
                      ++.++-.|...+  ++.+..+||+.++++      .. .+.++++-|...|+|.+.+-..+.   ...+|+.|+.+.
T Consensus        33 q~~vL~~L~~~~--~~~~~~eLa~~l~~~------~~-tvs~~v~~Le~~GlV~R~~~~~DrR~~~l~LT~~G~~~~  100 (151)
T 4aik_A           33 HWVTLYNINRLP--PEQSQIQLAKAIGIE------QP-SLVRTLDQLEEKGLITRHTSANDRRAKRIKLTEQSSPII  100 (151)
T ss_dssp             HHHHHHHHHHSC--TTSCHHHHHHHHTSC------HH-HHHHHHHHHHHTTSEEEEECSSCTTCEEEEECGGGHHHH
T ss_pred             HHHHHHHHHHcC--CCCcHHHHHHHHCcC------HH-HHHHHHHHHHhCCCeEeecCCCCCcchhhhcCHHHHHHH
Confidence            334566666554  468889999999998      67 999999999999999864322222   377888887555

>2xyq_A Putative 2'-O-methyl transferase; transferase-viral protein complex, rossman fold; HET: SAH; 2.00A {Sars coronavirus} PDB: 2xyv_A* 2xyr_A*

Probab=95.30  E-value=0.025  Score=48.68  Aligned_cols=60  Identities=17%  Similarity=0.191  Sum_probs=44.8

Q ss_pred             CCCccEEEEeCC------CchHHHHHHHHHCC-CCeEEEeehhHHHHhCCCCCCceE-EecccCC-cCCCC-cEEEec
Q 024350          191 FEHVKKLVDVGG------GLGATLNMIISKYP-HIKGINYDLLYVIKNAPSYPGIDH-VGGDLFE-SVPKA-DTIFMK  258 (269)
Q Consensus       191 ~~~~~~vvDvGG------G~G~~~~~l~~~~P-~l~~vv~Dlp~vv~~a~~~~ri~~-~~gD~~~-~~P~g-D~~~l~  258 (269)
                      ++...+||||||      |+|.  ..+++..| +.+++.+|+-+.      .++|++ +.+|+.+ +.+.. |+++..
T Consensus        61 l~~g~~VLDLGcGsg~~~GpGs--~~~a~~~~~~~~V~gvDis~~------v~~v~~~i~gD~~~~~~~~~fD~Vvsn  130 (290)
T 2xyq_A           61 VPYNMRVIHFGAGSDKGVAPGT--AVLRQWLPTGTLLVDSDLNDF------VSDADSTLIGDCATVHTANKWDLIISD  130 (290)
T ss_dssp             CCTTCEEEEESCCCTTSBCHHH--HHHHHHSCTTCEEEEEESSCC------BCSSSEEEESCGGGCCCSSCEEEEEEC
T ss_pred             CCCCCEEEEeCCCCCCCCCcHH--HHHHHHcCCCCEEEEEECCCC------CCCCEEEEECccccCCccCcccEEEEc
Confidence            455679999999      5587  44566777 689999998443      257999 9999988 44444 998864

>1z91_A Organic hydroperoxide resistance transcriptional; OHRR, MARR family, bacterial transcription factor, DNA bindi protein; 2.50A {Bacillus subtilis} SCOP: a.4.5.28 PDB: 1z9c_A*

Probab=95.29  E-value=0.016  Score=43.89  Aligned_cols=67  Identities=13%  Similarity=0.142  Sum_probs=51.0

Q ss_pred             HhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCC---CeEecChhchhhhcC
Q 024350           34 VELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQ---RLYSLAPVSKYFVRN  110 (269)
Q Consensus        34 ~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~---~~y~~t~~s~~l~~~  110 (269)
                      .++.++..|...   +++|..+||+.++++      .. .+.++++.|...|+|...+...+   -.+.+|+.|+.+...
T Consensus        41 ~~~~iL~~l~~~---~~~~~~~la~~l~~~------~~-tvs~~l~~L~~~glv~r~~~~~d~R~~~~~LT~~G~~~~~~  110 (147)
T 1z91_A           41 PQYLALLLLWEH---ETLTVKKMGEQLYLD------SG-TLTPMLKRMEQQGLITRKRSEEDERSVLISLTEDGALLKEK  110 (147)
T ss_dssp             HHHHHHHHHHHH---SEEEHHHHHHTTTCC------HH-HHHHHHHHHHHHTSEECCBCSSCTTSBEEEECHHHHSGGGG
T ss_pred             HHHHHHHHHHHC---CCCCHHHHHHHHCCC------cC-cHHHHHHHHHHCCCEEeccCCCCCCeeEEEECHhHHHHHHH
Confidence            345577777765   489999999999998      67 99999999999999985321111   237899988866544

>3bj6_A Transcriptional regulator, MARR family; helix-turn-helix, trasnscription regulator, STR genomics, PSI-2, protein structure initiative; 2.01A {Silicibacter pomeroyi dss-3}

Probab=95.25  E-value=0.11  Score=39.19  Aligned_cols=64  Identities=13%  Similarity=0.214  Sum_probs=48.5

Q ss_pred             hcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCC---CeEecChhchhhh
Q 024350           35 ELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQ---RLYSLAPVSKYFV  108 (269)
Q Consensus        35 ~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~---~~y~~t~~s~~l~  108 (269)
                      ++.++..|...   +++|..+||+.++++      .. .+.++++-|...|+|.......+   -.+.+|+.|+.+.
T Consensus        42 ~~~iL~~l~~~---~~~t~~ela~~l~~~------~~-~vs~~l~~Le~~Glv~r~~~~~d~R~~~~~lT~~G~~~~  108 (152)
T 3bj6_A           42 QRAILEGLSLT---PGATAPQLGAALQMK------RQ-YISRILQEVQRAGLIERRTNPEHARSHRYWLTPRGEAII  108 (152)
T ss_dssp             HHHHHHHHHHS---TTEEHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEEEECCSSSTTSCEEEECHHHHHHH
T ss_pred             HHHHHHHHHhC---CCCCHHHHHHHHCCC------HH-HHHHHHHHHHHCCCeeecCCcccccceeeEEChhhHHHH
Confidence            44577777775   489999999999998      67 99999999999999995321111   2477888776544

>2frh_A SARA, staphylococcal accessory regulator A; winged-helix protein, divalent metal binding, transcription; 2.50A {Staphylococcus aureus} SCOP: a.4.5.28 PDB: 2fnp_A 1fzp_D

Probab=95.24  E-value=0.017  Score=43.09  Aligned_cols=66  Identities=11%  Similarity=0.185  Sum_probs=48.4

Q ss_pred             hcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCC---CeEecChhchhhh
Q 024350           35 ELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQ---RLYSLAPVSKYFV  108 (269)
Q Consensus        35 ~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~---~~y~~t~~s~~l~  108 (269)
                      ++.++..|...+ ++++|..+||+.++++      .. .+.++++-|...|+|.+.+...+   -.+.+|+.|+.+.
T Consensus        39 q~~vL~~l~~~~-~~~~t~~eLa~~l~~~------~~-tvs~~l~~Le~~Glv~r~~~~~D~R~~~i~LT~~G~~~~  107 (127)
T 2frh_A           39 EFAVLTYISENK-EKEYYLKDIINHLNYK------QP-QVVKAVKILSQEDYFDKKRNEHDERTVLILVNAQQRKKI  107 (127)
T ss_dssp             HHHHHHHHHHTC-CSEEEHHHHHHHSSSH------HH-HHHHHHHHHHHTTSSCCBCCSSSSCCCEEECCSHHHHHH
T ss_pred             HHHHHHHHHhcc-CCCcCHHHHHHHHCCC------HH-HHHHHHHHHHHCCCEEecCCCCCCCeeEEEECHHHHHHH
Confidence            344666776641 1479999999999997      56 99999999999999985321222   3377888887554

>3kp7_A Transcriptional regulator TCAR; multiple drug resistance, biofilm, transcription regulation, binding, transcription regulator; 2.30A {Staphylococcus epidermidis RP62A} PDB: 3kp3_A* 3kp4_A* 3kp5_A* 3kp2_A* 3kp6_A

Probab=95.20  E-value=0.083  Score=40.07  Aligned_cols=63  Identities=14%  Similarity=0.286  Sum_probs=45.7

Q ss_pred             hcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccce--eecCC---CeEecChhchhhh
Q 024350           35 ELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCS--FVDGQ---RLYSLAPVSKYFV  108 (269)
Q Consensus        35 ~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~--~~~~~---~~y~~t~~s~~l~  108 (269)
                      ++.++..| ..   +++|..+||+.++++      .. .+.++++.|...|+|...  +...+   -.+.+|+.|+.+.
T Consensus        40 q~~iL~~l-~~---~~~t~~eLa~~l~~~------~~-~vs~~l~~Le~~Glv~r~~~~~~~D~R~~~~~lT~~G~~~~  107 (151)
T 3kp7_A           40 QSHVLNML-SI---EALTVGQITEKQGVN------KA-AVSRRVKKLLNAELVKLEKPDSNTDQRLKIIKLSNKGKKYI  107 (151)
T ss_dssp             HHHHHHHH-HH---SCBCHHHHHHHHCSC------SS-HHHHHHHHHHHTTSEEC-----------CCBEECHHHHHHH
T ss_pred             HHHHHHHH-Hc---CCcCHHHHHHHHCCC------HH-HHHHHHHHHHHCCCEEeeCCCCCCCCCeeEEEECHhHHHHH
Confidence            34477888 54   589999999999998      45 899999999999999951  01112   2367777776554

>3tgn_A ADC operon repressor ADCR; helix-turn-helix, transcriptional regulator, transcription; 2.00A {Streptococcus pneumoniae}

Probab=95.18  E-value=0.021  Score=43.12  Aligned_cols=64  Identities=16%  Similarity=0.303  Sum_probs=45.6

Q ss_pred             HhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCC---CeEecChhchhhh
Q 024350           34 VELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQ---RLYSLAPVSKYFV  108 (269)
Q Consensus        34 ~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~---~~y~~t~~s~~l~  108 (269)
                      .++.|+..|...   + +|..+||+.++++      .. .+.++++.|...|+|.+.+...+   -.|.+|+.|..+.
T Consensus        39 ~~~~iL~~l~~~---~-~t~~eLa~~l~~s------~~-tvs~~l~~L~~~Glv~r~~~~~d~R~~~~~lT~~g~~~~  105 (146)
T 3tgn_A           39 TQEHILMLLSEE---S-LTNSELARRLNVS------QA-AVTKAIKSLVKEGMLETSKDSKDARVIFYQLTDLARPIA  105 (146)
T ss_dssp             HHHHHHHHHTTC---C-CCHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEEC----------CCEECGGGHHHH
T ss_pred             HHHHHHHHHHhC---C-CCHHHHHHHHCCC------HH-HHHHHHHHHHHCCCeEeccCCCCCceeEEEECHhHHHHH
Confidence            445567777663   4 9999999999998      67 99999999999999985321112   3477777766444

>2pg4_A Uncharacterized protein; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2, DNA binding protein; HET: MSE CIT; 2.21A {Aeropyrum pernix} SCOP: a.4.5.48

Probab=95.13  E-value=0.018  Score=40.54  Aligned_cols=62  Identities=13%  Similarity=0.094  Sum_probs=46.2

Q ss_pred             hhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHH-HHHHHHHHHhcCcccceeecC-CCeEecChhchhhh
Q 024350           38 VFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMM-LDRVLRLLVSYNALHCSFVDG-QRLYSLAPVSKYFV  108 (269)
Q Consensus        38 lfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~-l~rlL~~L~~~g~l~~~~~~~-~~~y~~t~~s~~l~  108 (269)
                      ++..|...|  .++|..+||+.++++      .. . +.++++.|...|+|...+.+. .-.+.+|+.|+.+.
T Consensus        20 ~L~~l~~~~--~~~t~~eLa~~l~is------~~-t~vs~~l~~Le~~Glv~~~~~drR~~~~~LT~~G~~~~   83 (95)
T 2pg4_A           20 TLLEFEKKG--YEPSLAEIVKASGVS------EK-TFFMGLKDRLIRAGLVKEETLSYRVKTLKLTEKGRRLA   83 (95)
T ss_dssp             HHHHHHHTT--CCCCHHHHHHHHCCC------HH-HHHTTHHHHHHHTTSEEEEEEETTEEEEEECHHHHHHH
T ss_pred             HHHHHHhcC--CCCCHHHHHHHHCCC------ch-HHHHHHHHHHHHCCCeecCCCCCCeEEEEECHhHHHHH
Confidence            455566643  379999999999998      56 8 999999999999998432221 23478888887554

>3hsr_A HTH-type transcriptional regulator SARZ; helix-turn-helix, cysteine disulfide, MARR-family transcript regulator, DNA-binding; 1.90A {Staphylococcus aureus subsp} PDB: 3hse_A 3hrm_A 4gxo_A

Probab=95.11  E-value=0.032  Score=41.98  Aligned_cols=63  Identities=17%  Similarity=0.153  Sum_probs=46.7

Q ss_pred             cChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCC---CeEecChhchhhh
Q 024350           36 LDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQ---RLYSLAPVSKYFV  108 (269)
Q Consensus        36 lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~---~~y~~t~~s~~l~  108 (269)
                      +.++..|...   +++|..+||+.++++      .. .+.++++.|...|+|++.+...+   -.+.+|+.|+.+.
T Consensus        39 ~~vL~~l~~~---~~~t~~eLa~~l~~~------~~-tvs~~l~~L~~~Glv~r~~~~~D~R~~~~~LT~~G~~~~  104 (140)
T 3hsr_A           39 YIVLMAIEND---EKLNIKKLGERVFLD------SG-TLTPLLKKLEKKDYVVRTREEKDERNLQISLTEQGKAIK  104 (140)
T ss_dssp             HHHHHHSCTT---CEEEHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEEEEC-------CEEEECHHHHHTH
T ss_pred             HHHHHHHHHc---CCcCHHHHHHHHCCC------hh-hHHHHHHHHHHCCCeEecCCCCCcceeeeeEChHHHHHH
Confidence            3455556554   589999999999998      67 99999999999999995421112   3578888887554

>2qvo_A Uncharacterized protein AF_1382; PSI, structural genomics, southeast collaboratory for structural genomics; 1.85A {Archaeoglobus fulgidus dsm 4304} PDB: 3o3k_A 3ov8_A

Probab=95.07  E-value=0.02  Score=40.37  Aligned_cols=51  Identities=6%  Similarity=0.156  Sum_probs=40.3

Q ss_pred             CCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecC-CCeEecChhchhhh
Q 024350           50 KLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDG-QRLYSLAPVSKYFV  108 (269)
Q Consensus        50 ~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~-~~~y~~t~~s~~l~  108 (269)
                      ++|..+||+.++++      .. .+.++++.|...|+|. .+.++ ...|.+|+.|+.+.
T Consensus        30 ~~t~~eLa~~l~i~------~~-tvs~~l~~Le~~Glv~-~~~d~R~~~v~LT~~G~~~~   81 (95)
T 2qvo_A           30 DVYIQYIASKVNSP------HS-YVWLIIKKFEEAKMVE-CELEGRTKIIRLTDKGQKIA   81 (95)
T ss_dssp             CEEHHHHHHHSSSC------HH-HHHHHHHHHHHTTSEE-EEEETTEEEEEECHHHHHHH
T ss_pred             CcCHHHHHHHHCcC------HH-HHHHHHHHHHHCcCcc-CCCCCCeEEEEEChhHHHHH
Confidence            49999999999998      56 9999999999999994 21221 13589999887654

>1ylf_A RRF2 family protein; structural genomics, transcription regulator, P protein structure initiative; 2.50A {Bacillus cereus atcc 14579} SCOP: a.4.5.55

Probab=95.05  E-value=0.024  Score=43.64  Aligned_cols=61  Identities=8%  Similarity=0.082  Sum_probs=44.7

Q ss_pred             HHHHHHHHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecCh
Q 024350           26 LPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAP  102 (269)
Q Consensus        26 ~~~~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~  102 (269)
                      ...+|++.+.+...    . +  ++.|.++||+.++++      +. .+.++|..|...|+|... + +.|.|.++.
T Consensus        13 ~~yAl~~L~~La~~----~-~--~~~~~~~iA~~~~i~------~~-~l~kil~~L~~~Glv~s~-r-G~GGy~L~~   73 (149)
T 1ylf_A           13 FSIAVHILSILKNN----P-S--SLCTSDYMAESVNTN------PV-VIRKIMSYLKQAGFVYVN-R-GPGGAGLLK   73 (149)
T ss_dssp             HHHHHHHHHHHHHS----C-G--GGCCHHHHHHHHTSC------HH-HHHHHHHHHHHTTSEEEC-----CCEEESS
T ss_pred             HHHHHHHHHHHHhC----C-C--CCcCHHHHHHHHCcC------HH-HHHHHHHHHHHCCcEEEc-c-CCCceEeCC
Confidence            34466666655431    1 1  589999999999997      67 999999999999999853 2 367788765

>3jw4_A Transcriptional regulator, MARR/EMRR family; DNA-binding protein, structural genomics, PSI-2, protein structure initiative; HET: MSE; 2.10A {Clostridium acetobutylicum} SCOP: a.4.5.0

Probab=94.99  E-value=0.058  Score=40.82  Aligned_cols=66  Identities=9%  Similarity=0.090  Sum_probs=41.7

Q ss_pred             hcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCC---CeEecChhchhhh
Q 024350           35 ELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQ---RLYSLAPVSKYFV  108 (269)
Q Consensus        35 ~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~---~~y~~t~~s~~l~  108 (269)
                      ++.++..|...+ ++++|..+||+.++++      .. .+.++++.|...|+|.+.....+   -.+.+|+.|+.+.
T Consensus        43 q~~vL~~l~~~~-~~~~t~~eLa~~l~~~------~~-~vs~~l~~L~~~Glv~r~~~~~DrR~~~~~LT~~G~~~~  111 (148)
T 3jw4_A           43 QGRMIGYIYENQ-ESGIIQKDLAQFFGRR------GA-SITSMLQGLEKKGYIERRIPENNARQKNIYVLPKGAALV  111 (148)
T ss_dssp             HHHHHHHHHHHT-TTCCCHHHHHHC-------------CHHHHHHHHHHTTSBCCC--------CCCCBCHHHHHHH
T ss_pred             HHHHHHHHHhCC-CCCCCHHHHHHHHCCC------hh-HHHHHHHHHHHCCCEEeeCCCCCchhheeeECHHHHHHH
Confidence            345677776642 1489999999999997      56 89999999999999985321112   2366777776544

>3u2r_A Regulatory protein MARR; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, helix-turn-helix; 2.20A {Planctomyces limnophilus}

Probab=94.97  E-value=0.049  Score=42.31  Aligned_cols=69  Identities=9%  Similarity=0.140  Sum_probs=48.0

Q ss_pred             HhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCC---eEecChhchhhhcC
Q 024350           34 VELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQR---LYSLAPVSKYFVRN  110 (269)
Q Consensus        34 ~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~---~y~~t~~s~~l~~~  110 (269)
                      .++.|+..|...| ++++|..+||+.++++      .. .+.++++.|...|+|.+.....+.   .+.+|+.|+.+...
T Consensus        47 ~q~~vL~~l~~~~-~~~~t~~eLa~~l~~~------~~-tvs~~l~~Le~~Glv~r~~~~~DrR~~~l~LT~~G~~~~~~  118 (168)
T 3u2r_A           47 QQYNTLRLLRSVH-PEGMATLQIADRLISR------AP-DITRLIDRLDDRGLVLRTRKPENRRVVEVALTDAGLKLLKD  118 (168)
T ss_dssp             HHHHHHHHHHHHT-TSCEEHHHHHHHC---------CT-HHHHHHHHHHHTTSEEEEEETTEEEEEEEEECHHHHHHHHH
T ss_pred             HHHHHHHHHHhcC-CCCcCHHHHHHHHCCC------hh-hHHHHHHHHHHCCCEeecCCCCCCCeeEeEECHHHHHHHHH
Confidence            3455677777642 1489999999999997      45 899999999999999964221222   47888888765533

>2ld4_A Anamorsin; methyltransferase-like fold, alpha/beta fold, iron-sulfur PR biogenesis, apoptosis; NMR {Homo sapiens} PDB: 2yui_A

Probab=94.97  E-value=0.0097  Score=46.63  Aligned_cols=60  Identities=7%  Similarity=-0.078  Sum_probs=45.3

Q ss_pred             CCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC--CCceEEecccCC-cC---CC-C-cEEEecccc
Q 024350          191 FEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY--PGIDHVGGDLFE-SV---PK-A-DTIFMKVIC  261 (269)
Q Consensus       191 ~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~--~ri~~~~gD~~~-~~---P~-g-D~~~l~~iL  261 (269)
                      .....+|+|||||.                +.+|. +.+++.+++.  .+++++.+|+.+ +.   +. . |+++...+|
T Consensus        10 ~~~g~~vL~~~~g~----------------v~vD~s~~ml~~a~~~~~~~~~~~~~d~~~~~~~~~~~~~fD~V~~~~~l   73 (176)
T 2ld4_A           10 ISAGQFVAVVWDKS----------------SPVEALKGLVDKLQALTGNEGRVSVENIKQLLQSAHKESSFDIILSGLVP   73 (176)
T ss_dssp             CCTTSEEEEEECTT----------------SCHHHHHHHHHHHHHHTTTTSEEEEEEGGGGGGGCCCSSCEEEEEECCST
T ss_pred             CCCCCEEEEecCCc----------------eeeeCCHHHHHHHHHhcccCcEEEEechhcCccccCCCCCEeEEEECChh
Confidence            44568999999996                23775 6777766543  469999999987 44   54 4 999999999


Q ss_pred             ccC-CC
Q 024350          262 VCY-LN  266 (269)
Q Consensus       262 hd~-~d  266 (269)
                      |.. +|
T Consensus        74 ~~~~~~   79 (176)
T 2ld4_A           74 GSTTLH   79 (176)
T ss_dssp             TCCCCC
T ss_pred             hhcccC
Confidence            998 54

>2lkp_A Transcriptional regulator, ARSR family; symmetric homodimer, NI(II) binding protein, DNA binding Pro transcription regulator; NMR {Mycobacterium tuberculosis}

Probab=94.95  E-value=0.028  Score=41.25  Aligned_cols=46  Identities=15%  Similarity=0.278  Sum_probs=39.9

Q ss_pred             HHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccc
Q 024350           33 VVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHC   89 (269)
Q Consensus        33 a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~   89 (269)
                      -.++.|+..|..    ++.|..+||+.+|++      .. .+.+.|+.|...|++..
T Consensus        32 ~~~~~il~~L~~----~~~s~~ela~~l~is------~s-tvsr~l~~Le~~Glv~~   77 (119)
T 2lkp_A           32 PSRLMILTQLRN----GPLPVTDLAEAIGME------QS-AVSHQLRVLRNLGLVVG   77 (119)
T ss_dssp             HHHHHHHHHHHH----CCCCHHHHHHHHSSC------HH-HHHHHHHHHHHHCSEEE
T ss_pred             HHHHHHHHHHHH----CCCCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCEEE
Confidence            456777788877    479999999999998      67 99999999999999984

>1sfx_A Conserved hypothetical protein AF2008; structural genomics, HTH MOT protein structure initiative, midwest center for structural genomics; 1.55A {Archaeoglobus fulgidus} SCOP: a.4.5.50

Probab=94.92  E-value=0.025  Score=40.24  Aligned_cols=47  Identities=17%  Similarity=0.376  Sum_probs=39.5

Q ss_pred             HhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccce
Q 024350           34 VELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCS   90 (269)
Q Consensus        34 ~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~   90 (269)
                      .++.|+..|...   +++|..+||+.+|++      .. .+.+.|+.|...|+|...
T Consensus        21 ~~~~il~~l~~~---~~~s~~ela~~l~is------~~-tv~~~l~~L~~~glv~~~   67 (109)
T 1sfx_A           21 SDVRIYSLLLER---GGMRVSEIARELDLS------AR-FVRDRLKVLLKRGFVRRE   67 (109)
T ss_dssp             HHHHHHHHHHHH---CCBCHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEEEE
T ss_pred             HHHHHHHHHHHc---CCCCHHHHHHHHCCC------HH-HHHHHHHHHHHCCCEEEE
Confidence            345567777664   589999999999998      67 999999999999999953

>2bv6_A MGRA, HTH-type transcriptional regulator MGRA; multidrug resistance regulator, virulence determinant, transcriptional factors; 2.8A {Staphylococcus aureus} SCOP: a.4.5.28

Probab=94.89  E-value=0.023  Score=42.68  Aligned_cols=66  Identities=12%  Similarity=0.198  Sum_probs=49.6

Q ss_pred             HhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCC---CeEecChhchhhhc
Q 024350           34 VELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQ---RLYSLAPVSKYFVR  109 (269)
Q Consensus        34 ~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~---~~y~~t~~s~~l~~  109 (269)
                      .++.++..|...   +++|..+||+.++++      .. .+.++++.|...|++.......+   -.+.+|+.|+.+..
T Consensus        38 ~~~~iL~~l~~~---~~~~~~ela~~l~~~------~~-tvs~~l~~L~~~gli~r~~~~~d~R~~~~~lT~~G~~~~~  106 (142)
T 2bv6_A           38 PQFLVLTILWDE---SPVNVKKVVTELALD------TG-TVSPLLKRMEQVDLIKRERSEVDQREVFIHLTDKSETIRP  106 (142)
T ss_dssp             HHHHHHHHHHHS---SEEEHHHHHHHTTCC------TT-THHHHHHHHHHTTSEEEEECSSSTTCEEEEECHHHHHHHH
T ss_pred             HHHHHHHHHHHc---CCcCHHHHHHHHCCC------hh-hHHHHHHHHHHCCCEEeecCCCCcceEEEEEChHHHHHHH
Confidence            345677778775   489999999999998      56 89999999999999985421111   24778888775543

>2h09_A Transcriptional regulator MNTR; transcription regulator, diphtheria toxin, manganese transport, structural genomics, NPPSFA; 2.10A {Escherichia coli}

Probab=94.88  E-value=0.046  Score=42.01  Aligned_cols=57  Identities=11%  Similarity=0.163  Sum_probs=45.2

Q ss_pred             hHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhchhhh
Q 024350           39 FEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSKYFV  108 (269)
Q Consensus        39 fd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s~~l~  108 (269)
                      ...|...   ++.|..+||+.+|++      .. .+.+.|+.|...|+|..   .....+.+|+.|..+.
T Consensus        46 ~~~l~~~---~~~~~~~la~~l~vs------~~-tvs~~l~~Le~~Glv~r---~~~~~~~lT~~g~~~~  102 (155)
T 2h09_A           46 SDLIREV---GEARQVDMAARLGVS------QP-TVAKMLKRLATMGLIEM---IPWRGVFLTAEGEKLA  102 (155)
T ss_dssp             HHHHHHH---SCCCHHHHHHHHTSC------HH-HHHHHHHHHHHTTCEEE---ETTTEEEECHHHHHHH
T ss_pred             HHHHHhC---CCcCHHHHHHHhCcC------HH-HHHHHHHHHHHCCCEEE---ecCCceEEChhHHHHH
Confidence            3355553   479999999999998      67 99999999999999984   3345688998886554

>1q1h_A TFE, transcription factor E, TFE; TFIIE, transcription initiation, preinitiation complex, RNA polymerase II, transcription bubble; 2.90A {Sulfolobus solfataricus} SCOP: a.4.5.41

Probab=94.87  E-value=0.046  Score=39.51  Aligned_cols=46  Identities=24%  Similarity=0.381  Sum_probs=38.3

Q ss_pred             hcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccc
Q 024350           35 ELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHC   89 (269)
Q Consensus        35 ~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~   89 (269)
                      ++.|+..+...|  .++|..+||+.+|++      .. .+++.|..|...|+|..
T Consensus        20 ~l~Il~~l~~~g--~~~s~~eLa~~lgvs------~~-tV~~~L~~L~~~GlV~~   65 (110)
T 1q1h_A           20 VIDVLRILLDKG--TEMTDEEIANQLNIK------VN-DVRKKLNLLEEQGFVSY   65 (110)
T ss_dssp             THHHHHHHHHHC--SCBCHHHHHHTTTSC------HH-HHHHHHHHHHHHTSCEE
T ss_pred             HHHHHHHHHHcC--CCCCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCEEE
Confidence            445677775443  479999999999998      67 99999999999999985

>2pex_A Transcriptional regulator OHRR; transcription regulator; 1.90A {Xanthomonas campestris} PDB: 2pfb_A

Probab=94.83  E-value=0.033  Score=42.43  Aligned_cols=67  Identities=18%  Similarity=0.194  Sum_probs=50.5

Q ss_pred             hcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCC---CeEecChhchhhhcCC
Q 024350           35 ELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQ---RLYSLAPVSKYFVRNN  111 (269)
Q Consensus        35 ~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~---~~y~~t~~s~~l~~~~  111 (269)
                      ++.|+..|...   +++|..+||+.++++      .. .+.++++.|...|+|.+.....+   -.+.+|+.|+.+...-
T Consensus        49 ~~~iL~~l~~~---~~~t~~ela~~l~~s------~~-tvs~~l~~Le~~glv~r~~~~~d~R~~~~~lT~~G~~~~~~~  118 (153)
T 2pex_A           49 QYLVMLVLWET---DERSVSEIGERLYLD------SA-TLTPLLKRLQAAGLVTRTRAASDERQVIIALTETGRALRSKA  118 (153)
T ss_dssp             HHHHHHHHHHS---CSEEHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEEEEC-------CEEEECHHHHHGGGGS
T ss_pred             HHHHHHHHHhC---CCcCHHHHHHHhCCC------cc-cHHHHHHHHHHCCCEeecCCcccCCeeEeeECHHHHHHHHHH
Confidence            45577777765   589999999999998      67 99999999999999995321111   2488999988666443

>2fa5_A Transcriptional regulator MARR/EMRR family; multiple antibiotics resistance repressor, XCC structural genomics, X-RAY diffraction; 1.80A {Xanthomonas campestris}

Probab=94.82  E-value=0.031  Score=43.01  Aligned_cols=64  Identities=16%  Similarity=0.231  Sum_probs=47.1

Q ss_pred             hcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCC---CeEecChhchhhh
Q 024350           35 ELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQ---RLYSLAPVSKYFV  108 (269)
Q Consensus        35 ~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~---~~y~~t~~s~~l~  108 (269)
                      ++.|+..|...   +++|..+||+.++++      .. .+.++++.|...|+|.+.....+   -.|.+|+.|+.+.
T Consensus        51 ~~~iL~~l~~~---~~~t~~ela~~l~is------~~-tvs~~l~~Le~~glv~r~~~~~d~R~~~~~lT~~G~~~~  117 (162)
T 2fa5_A           51 EWRVITILALY---PGSSASEVSDRTAMD------KV-AVSRAVARLLERGFIRRETHGDDRRRSMLALSPAGRQVY  117 (162)
T ss_dssp             HHHHHHHHHHS---TTCCHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEEC---------CCCEECHHHHHHH
T ss_pred             HHHHHHHHHhC---CCCCHHHHHHHHCCC------HH-HHHHHHHHHHHCCCEeeecCCCCCCeeEEEECHHHHHHH
Confidence            44577778765   589999999999998      67 99999999999999985311111   3477787776544

>3k69_A Putative transcription regulator; putative transcriptional regulator, structural genomics, JOI for structural genomics, JCSG; HET: MSE; 1.95A {Lactobacillus plantarum} SCOP: a.4.5.0

Probab=94.77  E-value=0.032  Score=43.73  Aligned_cols=46  Identities=22%  Similarity=0.317  Sum_probs=38.4

Q ss_pred             CCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecCh
Q 024350           49 AKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAP  102 (269)
Q Consensus        49 ~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~  102 (269)
                      +++|.++||+.++++      +. .+.++|..|...|+|+.. +...|-|.++.
T Consensus        27 ~~~s~~~IA~~~~is------~~-~l~kil~~L~~aGlv~s~-rG~~GGy~Lar   72 (162)
T 3k69_A           27 SKVASRELAQSLHLN------PV-MIRNILSVLHKHGYLTGT-VGKNGGYQLDL   72 (162)
T ss_dssp             SCBCHHHHHHHHTSC------GG-GTHHHHHHHHHTTSSEEE-CSTTCEEECCS
T ss_pred             CCcCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCEEee-cCCCCCeEecC
Confidence            589999999999997      66 999999999999999854 22246798865

>3nqo_A MARR-family transcriptional regulator; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2; HET: MSE PG4; 2.20A {Clostridium difficile}

Probab=94.71  E-value=0.099  Score=41.58  Aligned_cols=71  Identities=7%  Similarity=0.008  Sum_probs=53.0

Q ss_pred             HHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCC---CeEecChhchhhh
Q 024350           32 AVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQ---RLYSLAPVSKYFV  108 (269)
Q Consensus        32 ~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~---~~y~~t~~s~~l~  108 (269)
                      ...++.++..|...+ ++++|..+||+.++++      .. .+.++++.|...|+|.+.....+   -.+.+|+.|+.+.
T Consensus        40 t~~q~~vL~~L~~~~-~~~~t~~eLa~~l~is------~~-tvs~~l~~Le~~GlV~r~~~~~DrR~~~l~LT~~G~~~~  111 (189)
T 3nqo_A           40 TSRQYMTILSILHLP-EEETTLNNIARKMGTS------KQ-NINRLVANLEKNGYVDVIPSPHDKRAINVKVTDLGKKVM  111 (189)
T ss_dssp             CHHHHHHHHHHHHSC-GGGCCHHHHHHHHTSC------HH-HHHHHHHHHHHTTSEEEEECSSCSSCEEEEECHHHHHHH
T ss_pred             CHHHHHHHHHHHhcc-CCCcCHHHHHHHHCCC------HH-HHHHHHHHHHHCCCEEeccCCCCCCeeEEEECHHHHHHH
Confidence            344566777887521 1589999999999998      66 99999999999999996421112   3488999998665


Q ss_pred             cC
Q 024350          109 RN  110 (269)
Q Consensus       109 ~~  110 (269)
                      ..
T Consensus       112 ~~  113 (189)
T 3nqo_A          112 VT  113 (189)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>3axs_A Probable N(2),N(2)-dimethylguanosine tRNA methylt TRM1; structural genomics, riken structural genomics/proteomics in RSGI; HET: SFG; 2.16A {Aquifex aeolicus} PDB: 3axt_A*

Probab=94.62  E-value=0.019  Score=51.67  Aligned_cols=66  Identities=12%  Similarity=-0.019  Sum_probs=51.0

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCC-CeEEEeeh-hHHHHhCCCC-------CC-ceEEecccCCcC----CCC-cEEEe
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPH-IKGINYDL-LYVIKNAPSY-------PG-IDHVGGDLFESV----PKA-DTIFM  257 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~-l~~vv~Dl-p~vv~~a~~~-------~r-i~~~~gD~~~~~----P~g-D~~~l  257 (269)
                      ...+|||+++|+|.+++.++++.++ -+++..|+ |..++.++++       ++ ++++.+|.++-+    +.. |+|++
T Consensus        52 ~g~~VLDlfaGtG~~sl~aa~~~~ga~~V~avDi~~~av~~~~~N~~~Ngl~~~~v~v~~~Da~~~l~~~~~~~fD~V~l  131 (392)
T 3axs_A           52 RPVKVADPLSASGIRAIRFLLETSCVEKAYANDISSKAIEIMKENFKLNNIPEDRYEIHGMEANFFLRKEWGFGFDYVDL  131 (392)
T ss_dssp             SCEEEEESSCTTSHHHHHHHHHCSCEEEEEEECSCHHHHHHHHHHHHHTTCCGGGEEEECSCHHHHHHSCCSSCEEEEEE
T ss_pred             CCCEEEECCCcccHHHHHHHHhCCCCCEEEEEECCHHHHHHHHHHHHHhCCCCceEEEEeCCHHHHHHHhhCCCCcEEEE
Confidence            3478999999999999999998776 46889997 7777766542       45 999999987622    333 88876


Q ss_pred             c
Q 024350          258 K  258 (269)
Q Consensus       258 ~  258 (269)
                      -
T Consensus       132 D  132 (392)
T 3axs_A          132 D  132 (392)
T ss_dssp             C
T ss_pred             C
Confidence            3

>3r0a_A Putative transcriptional regulator; structural genomics, PSI-biology, midwest center for structu genomics, MCSG; 2.31A {Methanosarcina mazei}

Probab=94.58  E-value=0.025  Score=42.08  Aligned_cols=47  Identities=15%  Similarity=0.296  Sum_probs=39.8

Q ss_pred             hcChhHHHHhcCCCCC-CCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccce
Q 024350           35 ELDVFEIITKAGPGAK-LSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCS   90 (269)
Q Consensus        35 ~lglfd~L~~~g~~~~-~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~   90 (269)
                      +..|+..|...+  ++ +|+.|||+.++++      .. .+.|.|+.|...|+|.+.
T Consensus        28 e~~il~~L~~~~--~~~~t~~eLa~~l~~s------~s-TV~r~L~~L~~~GlV~r~   75 (123)
T 3r0a_A           28 DLNVMKSFLNEP--DRWIDTDALSKSLKLD------VS-TVQRSVKKLHEKEILQRS   75 (123)
T ss_dssp             HHHHHHHHHHST--TCCEEHHHHHHHHTSC------HH-HHHHHHHHHHHTTSEEEE
T ss_pred             HHHHHHHHHHCC--CCCcCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCEEee
Confidence            455777787754  46 9999999999998      67 999999999999999853

>2obp_A Putative DNA-binding protein; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2; HET: MSE; 1.70A {Ralstonia eutropha} SCOP: a.4.5.71

Probab=94.48  E-value=0.064  Score=38.18  Aligned_cols=53  Identities=25%  Similarity=0.260  Sum_probs=42.2

Q ss_pred             CCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceee-cCCCeEecChhchhhh
Q 024350           49 AKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFV-DGQRLYSLAPVSKYFV  108 (269)
Q Consensus        49 ~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~-~~~~~y~~t~~s~~l~  108 (269)
                      ++.+..+||+.++++      .. .|.|+|..|...|+|..... ++-+...+|+.|+.+.
T Consensus        35 ~~~s~~eLa~~l~l~------~s-tLsR~l~rLe~~GLV~r~~~~D~R~~v~LT~~G~~~l   88 (96)
T 2obp_A           35 TPWSLPKIAKRAQLP------MS-VLRRVLTQLQAAGLADVSVEADGRGHASLTQEGAALA   88 (96)
T ss_dssp             CCCBHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEEEEECTTSCEEEEECHHHHHHH
T ss_pred             CCcCHHHHHHHhCCc------hh-hHHHHHHHHHHCCCEEeecCCCCceeEEECHHHHHHH
Confidence            689999999999998      67 99999999999999985422 1224567888877543

>2p4w_A Transcriptional regulatory protein ARSR family; archaea, PHR, heat shock, transcriptional regulation, winged DNA binding; 2.60A {Pyrococcus furiosus} SCOP: a.4.5.64

Probab=94.48  E-value=0.047  Score=44.37  Aligned_cols=67  Identities=13%  Similarity=0.178  Sum_probs=49.5

Q ss_pred             HHHHHHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeec-----CCCeEecCh
Q 024350           28 AAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVD-----GQRLYSLAP  102 (269)
Q Consensus        28 ~~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~-----~~~~y~~t~  102 (269)
                      .+|..-.++.|+..|..    +++|..+||+.+|++      .. .+.+.|+.|...|+|......     ..-.|++|+
T Consensus        10 kaL~~~~rl~IL~~L~~----~~~s~~eLa~~l~is------~s-tvs~hLk~Le~~GLV~~~~~~~~~g~~~~~Y~Lt~   78 (202)
T 2p4w_A           10 DVLGNETRRRILFLLTK----RPYFVSELSRELGVG------QK-AVLEHLRILEEAGLIESRVEKIPRGRPRKYYMIKK   78 (202)
T ss_dssp             HHHHSHHHHHHHHHHHH----SCEEHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEEEEECCBTTBCCCEEEEECT
T ss_pred             HHhCCHHHHHHHHHHHh----CCCCHHHHHHHHCcC------HH-HHHHHHHHHHHCCceEEEeeccCCCCceEEEEECh
Confidence            44445566677777865    699999999999998      67 999999999999999864221     112477776


Q ss_pred             hch
Q 024350          103 VSK  105 (269)
Q Consensus       103 ~s~  105 (269)
                      .+.
T Consensus        79 ~~~   81 (202)
T 2p4w_A           79 GLR   81 (202)
T ss_dssp             TEE
T ss_pred             HHH
Confidence            544

>3p8z_A Mtase, non-structural protein 5; methyltransferase, RNA, ER, transferase-transferase inhibito; HET: 36A SAH; 1.70A {Dengue virus 3} SCOP: c.66.1.25 PDB: 3p97_A* 2xbm_A* 3evg_A*

Probab=94.38  E-value=0.078  Score=44.14  Aligned_cols=76  Identities=16%  Similarity=0.167  Sum_probs=51.9

Q ss_pred             HHHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeehhHHHHhC----CC--CCCceEEec-ccCCcCCC-C
Q 024350          181 MEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNA----PS--YPGIDHVGG-DLFESVPK-A  252 (269)
Q Consensus       181 ~~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp~vv~~a----~~--~~ri~~~~g-D~~~~~P~-g  252 (269)
                      ...+.+.+. +....+||||||++|.++.-++....--+++.+|+-..--.-    +.  ..-|+|..+ |+|.--|. .
T Consensus        67 L~ei~ek~~-l~~g~~VvDLGaapGGWSq~~a~~~g~~~V~avdvG~~ghe~P~~~~s~gwn~v~fk~gvDv~~~~~~~~  145 (267)
T 3p8z_A           67 LQWFVERNM-VIPEGRVIDLGCGRGGWSYYCAGLKKVTEVRGYTKGGPGHEEPVPMSTYGWNIVKLMSGKDVFYLPPEKC  145 (267)
T ss_dssp             HHHHHHTTS-SCCCEEEEEESCTTSHHHHHHHTSTTEEEEEEECCCSTTSCCCCCCCCTTTTSEEEECSCCGGGCCCCCC
T ss_pred             HHHHHHhcC-CCCCCEEEEcCCCCCcHHHHHHHhcCCCEEEEEecCCCCccCcchhhhcCcCceEEEeccceeecCCccc
Confidence            345556664 666679999999999999977777666678899973222111    11  167999999 98763333 4


Q ss_pred             cEEEe
Q 024350          253 DTIFM  257 (269)
Q Consensus       253 D~~~l  257 (269)
                      |+++.
T Consensus       146 Dtllc  150 (267)
T 3p8z_A          146 DTLLC  150 (267)
T ss_dssp             SEEEE
T ss_pred             cEEEE
Confidence            87764

>3c6k_A Spermine synthase; spermidine aminopropyltransferase, SPMSY, structural genomics, structural genomics consortium, SGC, phosphoprotein; HET: SPD MTA; 1.95A {Homo sapiens} PDB: 3c6m_A*

Probab=94.34  E-value=0.027  Score=50.24  Aligned_cols=54  Identities=19%  Similarity=0.142  Sum_probs=44.2

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC--------------CCCceEEecccCC
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS--------------YPGIDHVGGDLFE  247 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~--------------~~ri~~~~gD~~~  247 (269)
                      .+++||=||||.|..++++++ +|.-+.+++|+ |.|++.+++              .+|++++.+|-++
T Consensus       205 ~pkrVLIIGgGdG~~~revlk-h~~~~V~~VEIDp~VVe~ar~yfp~~~~~~~d~pr~~rv~vii~Da~~  273 (381)
T 3c6k_A          205 TGKDVLILGGGDGGILCEIVK-LKPKMVTMVEIDQMVIDGCKKYMRKTCGDVLDNLKGDCYQVLIEDCIP  273 (381)
T ss_dssp             TTCEEEEEECTTCHHHHHHHT-TCCSEEEEEESCHHHHHHHHHHCCC----CCSSSEETTEEEEESCHHH
T ss_pred             CCCeEEEECCCcHHHHHHHHh-cCCceeEEEccCHHHHHHHHhhchhhhhhhhccccccceeeehHHHHH
Confidence            468999999999999999997 45578999998 788877653              1578999998775

>3u1d_A Uncharacterized protein; GNTR-superfamily, structural genomics, PSI-biology, midwest for structural genomics, MCSG; 1.80A {Halomicrobium mukohataei}

Probab=94.19  E-value=0.092  Score=40.56  Aligned_cols=69  Identities=23%  Similarity=0.215  Sum_probs=51.0

Q ss_pred             HhcChhHHHHhcCCCCCCCHHHHHHhCC-CCCCCchhHHHHHHHHHHHHHhcCcccceeec----CCC----eEecChhc
Q 024350           34 VELDVFEIITKAGPGAKLSVSEIVAQIP-LKDNNPEAAAMMLDRVLRLLVSYNALHCSFVD----GQR----LYSLAPVS  104 (269)
Q Consensus        34 ~~lglfd~L~~~g~~~~~s~~eLA~~~~-~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~----~~~----~y~~t~~s  104 (269)
                      .++.|+..|-..+ .+..|+++|++.++ ++      .. .++|.|+.|+..|+|.+....    +.|    .|.+|+.|
T Consensus        30 tR~~IL~~Ll~~p-~~~~ta~eL~~~l~~lS------~a-TVyrhL~~L~eaGLV~~~~~~~~~~~rGrP~k~Y~LT~~G  101 (151)
T 3u1d_A           30 TRLDVLHQILAQP-DGVLSVEELLYRNPDET------EA-NLRYHVDELVDRGIVEKIPVPRAKSVDDPPTTFYAVTGEG  101 (151)
T ss_dssp             HHHHHHHHHHHST-TSCBCHHHHHHHCTTSC------HH-HHHHHHHHHHHTTSEEEEECCCCTTSSSCCCEEEEECHHH
T ss_pred             HHHHHHHHHHcCC-CCCCCHHHHHHhcCCCC------HH-HHHHHHHHHHHCCCeEEeecCcCcccCCCCceEEEECHHH
Confidence            5566777776642 14689999999999 87      66 999999999999999853111    112    69999999


Q ss_pred             hhhhcC
Q 024350          105 KYFVRN  110 (269)
Q Consensus       105 ~~l~~~  110 (269)
                      +.+...
T Consensus       102 r~~l~~  107 (151)
T 3u1d_A          102 IALLRA  107 (151)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            855433

>1xd7_A YWNA; structural genomics, protein structure initiative, winged HE binding, hypothetical protein, PSI; 2.30A {Bacillus subtilis subsp} SCOP: a.4.5.55

Probab=94.07  E-value=0.051  Score=41.59  Aligned_cols=60  Identities=18%  Similarity=0.202  Sum_probs=44.0

Q ss_pred             HHHHHHHHHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecCh
Q 024350           25 VLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAP  102 (269)
Q Consensus        25 ~~~~~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~  102 (269)
                      ....+|++.+.+      +..+  ++ |.++||+.++++      +. .+.++|..|...|+|... + +.|-|.++.
T Consensus         7 ~~~yAl~~L~~L------a~~~--~~-s~~~IA~~~~i~------~~-~l~kIl~~L~~aGlv~s~-r-G~GGy~Lar   66 (145)
T 1xd7_A            7 RLAVAIHILSLI------SMDE--KT-SSEIIADSVNTN------PV-VVRRMISLLKKADILTSR-A-GVPGASLKK   66 (145)
T ss_dssp             HHHHHHHHHHHH------HTCS--CC-CHHHHHHHHTSC------HH-HHHHHHHHHHHTTSEECC-S-SSSSCEESS
T ss_pred             HHHHHHHHHHHH------HhCC--CC-CHHHHHHHHCcC------HH-HHHHHHHHHHHCCceEee-c-CCCCceecC
Confidence            344555555544      3322  35 999999999997      67 999999999999999854 2 256687754

>3hrs_A Metalloregulator SCAR; DTXR/MNTR family member, transcription; 2.70A {Streptococcus gordonii} PDB: 3hrt_A 3hru_A

Probab=93.96  E-value=0.077  Score=43.40  Aligned_cols=51  Identities=18%  Similarity=0.251  Sum_probs=44.2

Q ss_pred             CCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhchhhhc
Q 024350           49 AKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSKYFVR  109 (269)
Q Consensus        49 ~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s~~l~~  109 (269)
                      ++++..+||+.++++      .. .+.+.++-|...|+|.+   .....+.+|+.|+.+..
T Consensus        19 ~~~~~~~lA~~l~vs------~~-tvs~~l~~Le~~GlV~r---~~~~~i~LT~~G~~~~~   69 (214)
T 3hrs_A           19 NKITNKEIAQLMQVS------PP-AVTEMMKKLLAEELLIK---DKKAGYLLTDLGLKLVS   69 (214)
T ss_dssp             SCCCHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEEE---ETTTEEEECHHHHHHHH
T ss_pred             CCcCHHHHHHHHCCC------hh-HHHHHHHHHHHCCCEEE---ecCCCeEECHHHHHHHH
Confidence            689999999999998      67 99999999999999994   33578999999986553

>2fbk_A Transcriptional regulator, MARR family; winged-helix-turn-helix; 2.30A {Deinococcus radiodurans} SCOP: a.4.5.28

Probab=93.96  E-value=0.025  Score=44.73  Aligned_cols=67  Identities=13%  Similarity=0.173  Sum_probs=47.1

Q ss_pred             hcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCC---CeEecChhchhhh
Q 024350           35 ELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQ---RLYSLAPVSKYFV  108 (269)
Q Consensus        35 ~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~---~~y~~t~~s~~l~  108 (269)
                      ++.|+..|...+..+++|..+||+.++++      .. .+.++++.|...|+|.+.....+   -.+.+|+.|+.+.
T Consensus        71 ~~~iL~~L~~~~~~~~~t~~eLa~~l~is------~~-tvs~~l~~Le~~GlV~r~~~~~DrR~~~~~LT~~G~~~~  140 (181)
T 2fbk_A           71 GWDLLLTLYRSAPPEGLRPTELSALAAIS------GP-STSNRIVRLLEKGLIERREDERDRRSASIRLTPQGRALV  140 (181)
T ss_dssp             HHHHHHHHHHHCCSSCBCHHHHHHHCSCC------SG-GGSSHHHHHHHHTSEECCC-------CCBEECHHHHHHH
T ss_pred             HHHHHHHHHHcCCCCCCCHHHHHHHHCCC------HH-HHHHHHHHHHHCcCEEecCCCCCCCeeEEEECHHHHHHH
Confidence            45577788775410139999999999997      45 89999999999999985311111   2377887776544

>2fxa_A Protease production regulatory protein HPR; protease porduction, regulation, STR genomics, PSI, protein structure initiative; HET: PGE P6G 1PE; 2.40A {Bacillus subtilis} SCOP: a.4.5.28

Probab=93.84  E-value=0.061  Score=43.66  Aligned_cols=64  Identities=16%  Similarity=0.007  Sum_probs=48.8

Q ss_pred             hcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCC---CeEecChhchhhh
Q 024350           35 ELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQ---RLYSLAPVSKYFV  108 (269)
Q Consensus        35 ~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~---~~y~~t~~s~~l~  108 (269)
                      ++.|+..|...   +++|..+||+.++++      .. .+.++++.|...|+|.+.....+   -.+.+|+.|+.+.
T Consensus        50 q~~iL~~L~~~---~~~t~~eLa~~l~i~------~s-tvs~~l~~Le~~GlV~r~~~~~DrR~~~l~LT~~G~~~~  116 (207)
T 2fxa_A           50 EHHILWIAYQL---NGASISEIAKFGVMH------VS-TAFNFSKKLEERGYLRFSKRLNDKRNTYVQLTEEGTEVF  116 (207)
T ss_dssp             HHHHHHHHHHH---TSEEHHHHHHHTTCC------HH-HHHHHHHHHHHHTSEEEECC------CEEEECHHHHHHH
T ss_pred             HHHHHHHHHHC---CCcCHHHHHHHHCCC------HH-HHHHHHHHHHHCCCEEEecCCCCCceEEEEECHHHHHHH
Confidence            34567777765   489999999999998      66 99999999999999995321111   2578999887655

>2qlz_A Transcription factor PF0095; 2.50A {Pyrococcus furiosus} PDB: 2quf_A

Probab=93.77  E-value=0.024  Score=47.18  Aligned_cols=68  Identities=10%  Similarity=0.172  Sum_probs=51.1

Q ss_pred             HHHHHHHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecC------CCeEec
Q 024350           27 PAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDG------QRLYSL  100 (269)
Q Consensus        27 ~~~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~------~~~y~~  100 (269)
                      ..+|..-.++.|+..|..    +++|+.+||+.+|++      .. .+.+.|+.|...|+|....+.+      .-.|++
T Consensus         6 lkaL~~~~R~~IL~~L~~----g~~s~~ELa~~lglS------~s-tVs~hL~~Le~aGLV~~~~~~gr~~GRp~~~Y~L   74 (232)
T 2qlz_A            6 FYILGNKVRRDLLSHLTC----MECYFSLLSSKVSVS------ST-AVAKHLKIMEREGVLQSYEKEERFIGPTKKYYKI   74 (232)
T ss_dssp             HHHHTSHHHHHHHHHHTT----TTTCSSSSCTTCCCC------HH-HHHHHHHHHHHTTSEEEEEECC-----CEEEEEE
T ss_pred             HHHhCCHHHHHHHHHHHh----CCCCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCEEEeeecCCCCCCccEEEEE
Confidence            345555567778888875    599999999999998      67 9999999999999999521211      124888


Q ss_pred             Chhch
Q 024350          101 APVSK  105 (269)
Q Consensus       101 t~~s~  105 (269)
                      |+.+.
T Consensus        75 t~~~~   79 (232)
T 2qlz_A           75 SIAKS   79 (232)
T ss_dssp             CCCEE
T ss_pred             ccchh
Confidence            77654

>4b8x_A SCO5413, possible MARR-transcriptional regulator; winged helix motif; HET: CME; 1.25A {Streptomyces coelicolor}

Probab=93.70  E-value=0.041  Score=42.02  Aligned_cols=53  Identities=13%  Similarity=0.136  Sum_probs=41.1

Q ss_pred             CCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCC---eEecChhchhhh
Q 024350           49 AKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQR---LYSLAPVSKYFV  108 (269)
Q Consensus        49 ~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~---~y~~t~~s~~l~  108 (269)
                      +++|..+||+.++++      .. .+.++++-|...|+|++.+-..+.   ...+|+.|+.+.
T Consensus        50 ~~~t~~eLa~~l~~~------~~-tvs~~v~~Le~~Glv~r~~~~~DrR~~~l~LT~~G~~~~  105 (147)
T 4b8x_A           50 GELPMSKIGERLMVH------PT-SVTNTVDRLVRSGLVAKRPNPNDGRGTLATITDKGREVV  105 (147)
T ss_dssp             GEEEHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEEEEECC----CEEEEECHHHHHHH
T ss_pred             CCcCHHHHHHHHCCC------HH-HHHHHHHHHHhCCCEEEeecCCcCceeEEEECHHHHHHH
Confidence            589999999999998      67 999999999999999964222222   377888886554

>1p6r_A Penicillinase repressor; transcription regulation, DNA-binding, winged helix protein, bacterial resistance to antibiotics; NMR {Bacillus licheniformis} SCOP: a.4.5.39 PDB: 2p7c_B

Probab=93.58  E-value=0.054  Score=36.93  Aligned_cols=47  Identities=21%  Similarity=0.410  Sum_probs=38.4

Q ss_pred             HhcChhHHHHhcCCCCCCCHHHHHHhCC----CCCCCchhHHHHHHHHHHHHHhcCcccce
Q 024350           34 VELDVFEIITKAGPGAKLSVSEIVAQIP----LKDNNPEAAAMMLDRVLRLLVSYNALHCS   90 (269)
Q Consensus        34 ~~lglfd~L~~~g~~~~~s~~eLA~~~~----~~~~~~~~~~~~l~rlL~~L~~~g~l~~~   90 (269)
                      .+..|+..|...   +++|..||++.++    ++      .. .+.++|+.|...|+|.+.
T Consensus        10 ~e~~vL~~L~~~---~~~t~~ei~~~l~~~~~~s------~~-Tv~~~l~rL~~kGlv~r~   60 (82)
T 1p6r_A           10 AELEVMKVIWKH---SSINTNEVIKELSKTSTWS------PK-TIQTMLLRLIKKGALNHH   60 (82)
T ss_dssp             HHHHHHHHHHTS---SSEEHHHHHHHHHHHSCCC------HH-HHHHHHHHHHHTTSEEEE
T ss_pred             HHHHHHHHHHcC---CCCCHHHHHHHHhhcCCcc------HH-HHHHHHHHHHHCCCeEEE
Confidence            345677777764   5899999999997    44      56 899999999999999964

>2px2_A Genome polyprotein [contains: capsid protein C (core protein); envelope protein M...; methyltransferase, SAH; HET: SAH; 2.00A {Murray valley encephalitis virus} PDB: 2px4_A* 2px5_A* 2pxa_A* 2pxc_A* 2px8_A* 2oy0_A*

Probab=93.49  E-value=0.035  Score=46.75  Aligned_cols=73  Identities=21%  Similarity=0.217  Sum_probs=43.8

Q ss_pred             HHHHHhccCCCCccEEEEeCCCchHHHHHHHHH--CCCCeE--EEeehhHHHHhCCCC-CCceEE---ec-ccCCcCCC-
Q 024350          182 EKVLESYKGFEHVKKLVDVGGGLGATLNMIISK--YPHIKG--INYDLLYVIKNAPSY-PGIDHV---GG-DLFESVPK-  251 (269)
Q Consensus       182 ~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~--~P~l~~--vv~Dlp~vv~~a~~~-~ri~~~---~g-D~~~~~P~-  251 (269)
                      ..+-+.+ -++...+|||+||+.|.++.-.++.  -..+++  +..|+|  +...... +.++++   .| ||++..|. 
T Consensus        63 ~EIdeK~-likpg~~VVDLGaAPGGWSQvAa~~~~vg~V~G~vig~D~~--~~P~~~~~~Gv~~i~~~~G~Df~~~~~~~  139 (269)
T 2px2_A           63 RWLVERR-FVQPIGKVVDLGCGRGGWSYYAATMKNVQEVRGYTKGGPGH--EEPMLMQSYGWNIVTMKSGVDVFYKPSEI  139 (269)
T ss_dssp             HHHHHTT-SCCCCEEEEEETCTTSHHHHHHTTSTTEEEEEEECCCSTTS--CCCCCCCSTTGGGEEEECSCCGGGSCCCC
T ss_pred             HHHHHcC-CCCCCCEEEEcCCCCCHHHHHHhhhcCCCCceeEEEccccc--cCCCcccCCCceEEEeeccCCccCCCCCC
Confidence            3444554 3667789999999999999988875  222234  334541  1111111 555444   36 99984443 


Q ss_pred             CcEEEe
Q 024350          252 ADTIFM  257 (269)
Q Consensus       252 gD~~~l  257 (269)
                      .|+++.
T Consensus       140 ~DvVLS  145 (269)
T 2px2_A          140 SDTLLC  145 (269)
T ss_dssp             CSEEEE
T ss_pred             CCEEEe
Confidence            488763

>1i4w_A Mitochondrial replication protein MTF1; mitochondrial transcription factor, transcription initiation; 2.60A {Saccharomyces cerevisiae} SCOP: c.66.1.24

Probab=93.15  E-value=0.23  Score=43.81  Aligned_cols=54  Identities=15%  Similarity=0.097  Sum_probs=40.2

Q ss_pred             ccEEEEeCCCchHHHHHHHHHCCCCeEEEeehh-HHHHhC---CCCCCceEEecccCC
Q 024350          194 VKKLVDVGGGLGATLNMIISKYPHIKGINYDLL-YVIKNA---PSYPGIDHVGGDLFE  247 (269)
Q Consensus       194 ~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp-~vv~~a---~~~~ri~~~~gD~~~  247 (269)
                      ...||+||.|.|.+...|+++...-+.+++++. .-++..   ...++++++.+|+++
T Consensus        59 ~~~VlEIGPG~G~LT~~Ll~~~~~~~vvavE~D~~l~~~L~~~~~~~~l~ii~~D~l~  116 (353)
T 1i4w_A           59 ELKVLDLYPGVGIQSAIFYNKYCPRQYSLLEKRSSLYKFLNAKFEGSPLQILKRDPYD  116 (353)
T ss_dssp             TCEEEEESCTTCHHHHHHHHHHCCSEEEEECCCHHHHHHHHHHTTTSSCEEECSCTTC
T ss_pred             CCEEEEECCCCCHHHHHHHhhCCCCEEEEEecCHHHHHHHHHhccCCCEEEEECCccc
Confidence            478999999999999999997544467777752 222211   135899999999976

>1rjd_A PPM1P, carboxy methyl transferase for protein phosphatase 2A catalytic subunit; SAM dependent methyltransferase; HET: SAM; 1.80A {Saccharomyces cerevisiae} SCOP: c.66.1.37 PDB: 1rje_A* 1rjf_A 1rjg_A* 2ob2_A* 2ob1_A

Probab=93.06  E-value=0.097  Score=45.90  Aligned_cols=75  Identities=13%  Similarity=0.205  Sum_probs=58.5

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeehhHHHHhCCC---------------------------CCCceEEeccc
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPS---------------------------YPGIDHVGGDL  245 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp~vv~~a~~---------------------------~~ri~~~~gD~  245 (269)
                      +...||.+|||..+..-++...+|+++.+=+|+|.|++.-++                           .+++++++.|+
T Consensus        97 ~~~qVV~LGaGlDTr~~RL~~~~~~~~~~EvD~P~vi~~K~~~l~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~v~~DL  176 (334)
T 1rjd_A           97 EKVQVVNLGCGSDLRMLPLLQMFPHLAYVDIDYNESVELKNSILRESEILRISLGLSKEDTAKSPFLIDQGRYKLAACDL  176 (334)
T ss_dssp             SSEEEEEETCTTCCTHHHHHHHCTTEEEEEEECHHHHHHHHHHHHHSHHHHHHHTCCSSCCCCTTEEEECSSEEEEECCT
T ss_pred             CCcEEEEeCCCCccHHHHhcCcCCCCEEEECCCHHHHHHHHHHhhhccchhhhcccccccccccccccCCCceEEEecCC
Confidence            458999999999999999999999999999999999864221                           16899999999


Q ss_pred             CC-cC---------C-CC-cEEEeccccccCCCC
Q 024350          246 FE-SV---------P-KA-DTIFMKVICVCYLNS  267 (269)
Q Consensus       246 ~~-~~---------P-~g-D~~~l~~iLhd~~d~  267 (269)
                      .+ ++         . .. .+++.--+|++.+.+
T Consensus       177 ~d~~w~~~ll~~~~d~~~Ptl~iaEgvL~YL~~~  210 (334)
T 1rjd_A          177 NDITETTRLLDVCTKREIPTIVISECLLCYMHNN  210 (334)
T ss_dssp             TCHHHHHHHHHTTCCTTSCEEEEEESCGGGSCHH
T ss_pred             CCcHHHHHHHHhcCCCCCCEEEEEcchhhCCCHH
Confidence            97 33         1 22 566676777776643

>1okr_A MECI, methicillin resistance regulatory protein MECI; bacterial antibiotic resistance, MECI protein, transcriptional regulatory element; 2.4A {Staphylococcus aureus} SCOP: a.4.5.39 PDB: 1sax_A 1sd7_A 2d45_A 1sd6_A

Probab=93.04  E-value=0.056  Score=39.65  Aligned_cols=62  Identities=21%  Similarity=0.257  Sum_probs=44.5

Q ss_pred             hcChhHHHHhcCCCCCCCHHHHHHhCC----CCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCe---EecChhchhh
Q 024350           35 ELDVFEIITKAGPGAKLSVSEIVAQIP----LKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRL---YSLAPVSKYF  107 (269)
Q Consensus        35 ~lglfd~L~~~g~~~~~s~~eLA~~~~----~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~---y~~t~~s~~l  107 (269)
                      ++.|+..|...   +++|..+||+.++    ++      .. .+.++|+-|...|+|.+.. + +.+   +.+|+.|+.+
T Consensus        12 ~~~vL~~l~~~---~~~t~~ela~~l~~~~~~s------~~-tv~~~l~~L~~~Glv~r~~-~-~rr~~~~~lT~~g~~~   79 (123)
T 1okr_A           12 EWEVMNIIWMK---KYASANNIIEEIQMQKDWS------PK-TIRTLITRLYKKGFIDRKK-D-NKIFQYYSLVEESDIK   79 (123)
T ss_dssp             HHHHHHHHHHH---SSEEHHHHHHHHHHHCCCC------HH-HHHHHHHHHHHHTSEEEEE-E-TTEEEEEESSCHHHHH
T ss_pred             HHHHHHHHHhC---CCcCHHHHHHHHhccCCCc------Hh-hHHHHHHHHHHCCCeEEEe-c-CCeEEEEEecCHHHHH
Confidence            34456666654   5899999999999    65      56 8999999999999999642 2 232   3466666544


Q ss_pred             h
Q 024350          108 V  108 (269)
Q Consensus       108 ~  108 (269)
                      .
T Consensus        80 ~   80 (123)
T 1okr_A           80 Y   80 (123)
T ss_dssp             H
T ss_pred             H
Confidence            3

>1m6e_X S-adenosyl-L-methionnine:salicylic acid carboxyl methyltransferase; rossmann fold, protein-small molecule complex; HET: SAH SAL; 3.00A {Clarkia breweri} SCOP: c.66.1.35

Probab=92.99  E-value=0.11  Score=45.94  Aligned_cols=75  Identities=17%  Similarity=0.229  Sum_probs=50.9

Q ss_pred             CCccEEEEeCCCchHHHHH--------HHHH--------CCCCeEEEeehhH-----HHHhCCCC---CC---ceEEecc
Q 024350          192 EHVKKLVDVGGGLGATLNM--------IISK--------YPHIKGINYDLLY-----VIKNAPSY---PG---IDHVGGD  244 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~--------l~~~--------~P~l~~vv~Dlp~-----vv~~a~~~---~r---i~~~~gD  244 (269)
                      ++.-+|+|+||++|..+..        +.++        .|.++++.-|+|.     +.......   .+   +.-++|.
T Consensus        50 ~~~~~IaDlGCs~G~Nt~~~v~~ii~~i~~~~~~~~~~~~pe~~v~~nDLp~NDFntlF~~L~~~~~~~~~~f~~gvpgS  129 (359)
T 1m6e_X           50 TTRLAIADLGCSSGPNALFAVTELIKTVEELRKKMGRENSPEYQIFLNDLPGNDFNAIFRSLPIENDVDGVCFINGVPGS  129 (359)
T ss_dssp             SSEECCEEESCCSSTTTTTGGGTTHHHHHHHHHSSSCSSCCEEEEEEEECTTSCHHHHHTTTTTSCSCTTCEEEEEEESC
T ss_pred             CCceEEEecCCCCCcchHHHHHHHHHHHHHHHHhcCCCCCCceEEEecCCCchHHHHHHHhcchhcccCCCEEEEecchh
Confidence            4567899999999954433        3322        5778888889873     22222210   12   5567899


Q ss_pred             cCC-cCCCC--cEEEeccccccCCC
Q 024350          245 LFE-SVPKA--DTIFMKVICVCYLN  266 (269)
Q Consensus       245 ~~~-~~P~g--D~~~l~~iLhd~~d  266 (269)
                      |+. .+|..  |+++-+..||=.++
T Consensus       130 Fy~rlfp~~S~d~v~Ss~aLHWls~  154 (359)
T 1m6e_X          130 FYGRLFPRNTLHFIHSSYSLMWLSQ  154 (359)
T ss_dssp             SSSCCSCTTCBSCEEEESCTTBCSS
T ss_pred             hhhccCCCCceEEEEehhhhhhccc
Confidence            999 78964  99999999995443

>2pn6_A ST1022, 150AA long hypothetical transcriptional regulator; LRP/ASNC family Gln binding, structural genomics, NPPSFA; HET: GLN; 1.44A {Sulfolobus tokodaii} PDB: 2efn_A* 2e7x_A* 2e7w_A* 2yx4_A* 2efq_A* 2pmh_A* 2yx7_A* 2efp_A* 2efo_A*

Probab=92.91  E-value=0.095  Score=40.00  Aligned_cols=45  Identities=24%  Similarity=0.395  Sum_probs=39.8

Q ss_pred             HhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCccc
Q 024350           34 VELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALH   88 (269)
Q Consensus        34 ~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~   88 (269)
                      .++.|+..|...   +++|..+||+.+|++      +. .+.+.++.|...|++.
T Consensus         4 ~~~~il~~L~~~---~~~~~~ela~~lg~s------~~-tv~~~l~~L~~~G~i~   48 (150)
T 2pn6_A            4 IDLRILKILQYN---AKYSLDEIAREIRIP------KA-TLSYRIKKLEKDGVIK   48 (150)
T ss_dssp             HHHHHHHHHTTC---TTSCHHHHHHHHTSC------HH-HHHHHHHHHHHTTSSC
T ss_pred             HHHHHHHHHHHc---CCCCHHHHHHHHCcC------HH-HHHHHHHHHHHCCcEE
Confidence            456678888775   589999999999998      67 9999999999999998

>2cfx_A HTH-type transcriptional regulator LRPC; transcriptional regulation, DNA binding, FFRP; 2.4A {Bacillus subtilis} SCOP: a.4.5.32 d.58.4.2

Probab=92.77  E-value=0.12  Score=39.33  Aligned_cols=45  Identities=24%  Similarity=0.463  Sum_probs=39.6

Q ss_pred             HhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCccc
Q 024350           34 VELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALH   88 (269)
Q Consensus        34 ~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~   88 (269)
                      .+..|++.|...   ++.|..|||+.+|++      +. .+.+.++.|...|++.
T Consensus         6 ~d~~il~~L~~~---~~~s~~ela~~lg~s------~~-tv~~~l~~L~~~G~i~   50 (144)
T 2cfx_A            6 IDLNIIEELKKD---SRLSMRELGRKIKLS------PP-SVTERVRQLESFGIIK   50 (144)
T ss_dssp             HHHHHHHHHHHC---SCCCHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEE
T ss_pred             HHHHHHHHHHHc---CCCCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCeE
Confidence            345678888875   589999999999998      67 9999999999999998

>1p4x_A Staphylococcal accessory regulator A homologue; winged-helix protein, transcription; 2.20A {Staphylococcus aureus} SCOP: a.4.5.28 a.4.5.28

Probab=92.77  E-value=0.13  Score=43.16  Aligned_cols=66  Identities=17%  Similarity=0.152  Sum_probs=48.8

Q ss_pred             hcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCC---eEecChhchhhh
Q 024350           35 ELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQR---LYSLAPVSKYFV  108 (269)
Q Consensus        35 ~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~---~y~~t~~s~~l~  108 (269)
                      ++.++..|...+ ++++|..+||+.++++      .. .+.++++-|...|+|.+.+-..+.   ...+|+.|+.+.
T Consensus       160 q~~vL~~L~~~~-~~~~t~~eLa~~l~i~------~~-tvt~~v~rLe~~GlV~R~~~~~DrR~~~i~LT~~G~~~~  228 (250)
T 1p4x_A          160 EFTILAIITSQN-KNIVLLKDLIETIHHK------YP-QTVRALNNLKKQGYLIKERSTEDERKILIHMDDAQQDHA  228 (250)
T ss_dssp             HHHHHHHHHTTT-TCCEEHHHHHHHSSSC------HH-HHHHHHHHHHHHTSSEEEECSSSTTCEEEECCHHHHHHH
T ss_pred             HHHHHHHHHhCC-CCCcCHHHHHHHHCCC------hh-hHHHHHHHHHHCCCEEeeCCCCCCCeEEEEECHHHHHHH
Confidence            345677777653 1259999999999998      67 999999999999999964222222   367888887554

>2w25_A Probable transcriptional regulatory protein; transcription regulation, mutant, RV3291C, Glu104Ala, DNA-binding; 2.15A {Mycobacterium tuberculosis} PDB: 2vbw_A* 2vbx_A* 2vby_A* 2vbz_A* 2vc0_A 2vc1_A 2w24_A 2ivm_A 2w29_A 2qz8_A

Probab=92.74  E-value=0.12  Score=39.57  Aligned_cols=45  Identities=13%  Similarity=0.233  Sum_probs=39.5

Q ss_pred             HhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCccc
Q 024350           34 VELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALH   88 (269)
Q Consensus        34 ~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~   88 (269)
                      .+..|+..|...   +++|..+||+.+|++      +. .+.+.++.|...|++.
T Consensus         8 ~~~~iL~~L~~~---~~~s~~ela~~lg~s------~~-tv~~~l~~L~~~G~i~   52 (150)
T 2w25_A            8 IDRILVRELAAD---GRATLSELATRAGLS------VS-AVQSRVRRLESRGVVQ   52 (150)
T ss_dssp             HHHHHHHHHHHC---TTCCHHHHHHHHTSC------HH-HHHHHHHHHHHTTSEE
T ss_pred             HHHHHHHHHHHc---CCCCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCEE
Confidence            355678888775   589999999999998      67 9999999999999997

>2k4b_A Transcriptional regulator; DNA binding protein, winged helix; NMR {Lactococcus lactis subsp}

Probab=92.67  E-value=0.099  Score=37.36  Aligned_cols=50  Identities=32%  Similarity=0.304  Sum_probs=38.5

Q ss_pred             hcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccce
Q 024350           35 ELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCS   90 (269)
Q Consensus        35 ~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~   90 (269)
                      ++.|+..|-+.   +++|..||++.++.++  +.... .+.++|+-|...|+|.+.
T Consensus        37 e~~VL~~L~~~---~~~t~~eL~~~l~~~~--~~s~s-TVt~~L~rLe~KGlV~R~   86 (99)
T 2k4b_A           37 ELIVMRVIWSL---GEARVDEIYAQIPQEL--EWSLA-TVKTLLGRLVKKEMLSTE   86 (99)
T ss_dssp             CSHHHHHHHHH---SCEEHHHHHHTCCGGG--CCCHH-HHHHHHHHHHHTTSCEEE
T ss_pred             HHHHHHHHHhC---CCCCHHHHHHHHhccc--CCCHh-hHHHHHHHHHHCCCEEEE
Confidence            45678888765   5899999999998520  00045 899999999999999953

>3khk_A Type I restriction-modification system methylation subunit; structural genomics, PSI-2, protein structure initiative; 2.55A {Methanosarcina mazei}

Probab=92.56  E-value=0.076  Score=49.77  Aligned_cols=64  Identities=16%  Similarity=0.067  Sum_probs=46.1

Q ss_pred             cEEEEeCCCchHHHHHHHHHCC---------------CCeEEEeeh-hHHHHhCCCC-------CCceEEecccCC-c-C
Q 024350          195 KKLVDVGGGLGATLNMIISKYP---------------HIKGINYDL-LYVIKNAPSY-------PGIDHVGGDLFE-S-V  249 (269)
Q Consensus       195 ~~vvDvGGG~G~~~~~l~~~~P---------------~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~-~-~  249 (269)
                      .+|+|.+||+|.++.++.+..+               +.+..++|+ |.++..++.+       .+|.+..+|.+. + .
T Consensus       246 ~~VlDPaCGSG~fLi~a~~~l~~~~~~~~~~~~~~~~~~~i~G~Eid~~~~~lA~~Nl~l~gi~~~i~i~~gDtL~~~~~  325 (544)
T 3khk_A          246 GRVYDPAMGSGGFFVSSDKFIEKHANVKHYNASEQKKQISVYGQESNPTTWKLAAMNMVIRGIDFNFGKKNADSFLDDQH  325 (544)
T ss_dssp             EEEEESSCTTCHHHHHHHHHHHHHHHHHTSCHHHHGGGEEEEECCCCHHHHHHHHHHHHHTTCCCBCCSSSCCTTTSCSC
T ss_pred             CeEeCcccCcCcHHHHHHHHHHHhccccccchHHHhhhceEEEEeCCHHHHHHHHHHHHHhCCCcccceeccchhcCccc
Confidence            4999999999999998865433               567899997 6777666531       346668899887 3 2


Q ss_pred             CC-C-cEEEec
Q 024350          250 PK-A-DTIFMK  258 (269)
Q Consensus       250 P~-g-D~~~l~  258 (269)
                      +. . |+++..
T Consensus       326 ~~~~fD~Iv~N  336 (544)
T 3khk_A          326 PDLRADFVMTN  336 (544)
T ss_dssp             TTCCEEEEEEC
T ss_pred             ccccccEEEEC
Confidence            32 3 888763

>3gcz_A Polyprotein; flavivirus, RNA capping, methyltransferase, viral enzyme STR ATP-binding, nucleotide-binding, RNA replication, structura genomics; HET: SAM; 1.70A {Yokose virus}

Probab=92.50  E-value=0.12  Score=44.07  Aligned_cols=44  Identities=20%  Similarity=0.123  Sum_probs=33.4

Q ss_pred             HHHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh
Q 024350          181 MEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL  225 (269)
Q Consensus       181 ~~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl  225 (269)
                      ...+.+.+- +....+|||||||.|.++.-+++..|-..++.+|+
T Consensus        79 L~ei~eK~~-Lk~~~~VLDLGaAPGGWsQvAa~~~gv~sV~Gvdv  122 (282)
T 3gcz_A           79 LRWMEERGY-VKPTGIVVDLGCGRGGWSYYAASLKNVKKVMAFTL  122 (282)
T ss_dssp             HHHHHHTTS-CCCCEEEEEETCTTCHHHHHHHTSTTEEEEEEECC
T ss_pred             HHHHHHhcC-CCCCCEEEEeCCCCCHHHHHHHHhcCCCeeeeEEe
Confidence            344555564 66667999999999999999888777656666665

>2p5v_A Transcriptional regulator, LRP/ASNC family; NMB0573, structu genomics; 1.99A {Neisseria meningitidis} PDB: 2p6s_A 2p6t_A

Probab=92.48  E-value=0.13  Score=39.89  Aligned_cols=45  Identities=13%  Similarity=0.321  Sum_probs=39.7

Q ss_pred             HhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCccc
Q 024350           34 VELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALH   88 (269)
Q Consensus        34 ~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~   88 (269)
                      .+..|+..|...   +++|..|||+.+|++      +. .+.+.++.|...|++.
T Consensus        11 ~~~~il~~L~~~---~~~s~~ela~~lg~s------~~-tv~~~l~~L~~~G~i~   55 (162)
T 2p5v_A           11 TDIKILQVLQEN---GRLTNVELSERVALS------PS-PCLRRLKQLEDAGIVR   55 (162)
T ss_dssp             HHHHHHHHHHHC---TTCCHHHHHHHHTSC------HH-HHHHHHHHHHHTTSEE
T ss_pred             HHHHHHHHHHHc---CCCCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCEe
Confidence            355678888875   589999999999998      67 9999999999999998

>2o03_A Probable zinc uptake regulation protein FURB; DNA-binding, helix-turn-helix, zinc binding, GE regulation; 2.70A {Mycobacterium tuberculosis}

Probab=92.46  E-value=0.21  Score=37.40  Aligned_cols=60  Identities=13%  Similarity=0.194  Sum_probs=45.2

Q ss_pred             HHHhcChhHHHHhcCCCCCCCHHHHHHhC-----CCCCCCchhHHHHHHHHHHHHHhcCcccceeec-CCCeEec
Q 024350           32 AVVELDVFEIITKAGPGAKLSVSEIVAQI-----PLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVD-GQRLYSL  100 (269)
Q Consensus        32 ~a~~lglfd~L~~~g~~~~~s~~eLA~~~-----~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~-~~~~y~~  100 (269)
                      +.-+.-|++.|...+  ++.|++||.+.+     +++      .. .+.|.|+.|+..|+|.+.... +..+|..
T Consensus        10 T~qR~~Il~~l~~~~--~~~sa~ei~~~l~~~~~~is------~~-TVYR~L~~L~e~Glv~~~~~~~~~~~y~~   75 (131)
T 2o03_A           10 TRQRAAISTLLETLD--DFRSAQELHDELRRRGENIG------LT-TVYRTLQSMASSGLVDTLHTDTGESVYRR   75 (131)
T ss_dssp             HHHHHHHHHHHHHCC--SCEEHHHHHHHHHHTTCCCC------HH-HHHHHHHHHHTTTSEEEEECTTSCEEEEE
T ss_pred             CHHHHHHHHHHHhCC--CCCCHHHHHHHHHHhCCCCC------Hh-hHHHHHHHHHHCCCEEEEEeCCCceEEEe
Confidence            445667888997654  689999999998     676      56 899999999999999854211 2245654

>2cyy_A Putative HTH-type transcriptional regulator PH151; structural genomics, pyrococcus horikosii OT3, NPPSFA; HET: MSE GLN; 1.80A {Pyrococcus horikoshii} SCOP: a.4.5.32 d.58.4.2

Probab=92.45  E-value=0.12  Score=39.52  Aligned_cols=45  Identities=16%  Similarity=0.288  Sum_probs=39.7

Q ss_pred             HhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCccc
Q 024350           34 VELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALH   88 (269)
Q Consensus        34 ~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~   88 (269)
                      .+..|+..|...   ++.|..+||+.+|++      +. .+.+.++.|...|++.
T Consensus         8 ~~~~il~~L~~~---~~~s~~ela~~lg~s------~~-tv~~~l~~L~~~G~i~   52 (151)
T 2cyy_A            8 IDKKIIKILQND---GKAPLREISKITGLA------ES-TIHERIRKLRESGVIK   52 (151)
T ss_dssp             HHHHHHHHHHHC---TTCCHHHHHHHHCSC------HH-HHHHHHHHHHHHTSSC
T ss_pred             HHHHHHHHHHHc---CCCCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCeE
Confidence            355678888875   589999999999998      67 9999999999999998

>2dbb_A Putative HTH-type transcriptional regulator PH006; ASNC family, helix-turn-helix (HTH) domain, structural genom NPPSFA; 2.00A {Pyrococcus horikoshii}

Probab=92.38  E-value=0.15  Score=38.88  Aligned_cols=45  Identities=13%  Similarity=0.324  Sum_probs=39.7

Q ss_pred             HhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCccc
Q 024350           34 VELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALH   88 (269)
Q Consensus        34 ~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~   88 (269)
                      .+..|+..|...   ++.|..+||+.+|++      +. .+.+.++.|...|++.
T Consensus        10 ~d~~il~~L~~~---~~~s~~ela~~lg~s------~~-tv~~~l~~L~~~G~i~   54 (151)
T 2dbb_A           10 VDMQLVKILSEN---SRLTYRELADILNTT------RQ-RIARRIDKLKKLGIIR   54 (151)
T ss_dssp             HHHHHHHHHHHC---TTCCHHHHHHHTTSC------HH-HHHHHHHHHHHHTSEE
T ss_pred             HHHHHHHHHHHc---CCCCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCEE
Confidence            455688888875   589999999999998      67 9999999999999998

>2cg4_A Regulatory protein ASNC; DNA binding, FFRP, LRP family, transcription, DNA- binding, transcription regulation; 2.4A {Escherichia coli} SCOP: a.4.5.32 d.58.4.2

Probab=92.10  E-value=0.14  Score=39.22  Aligned_cols=45  Identities=9%  Similarity=0.197  Sum_probs=39.6

Q ss_pred             HhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCccc
Q 024350           34 VELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALH   88 (269)
Q Consensus        34 ~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~   88 (269)
                      .+..|+..|...   ++.|..+||+.+|++      +. .+.+.++.|...|++.
T Consensus         9 ~d~~il~~L~~~---~~~s~~ela~~lg~s------~~-tv~~~l~~L~~~G~i~   53 (152)
T 2cg4_A            9 LDRGILEALMGN---ARTAYAELAKQFGVS------PE-TIHVRVEKMKQAGIIT   53 (152)
T ss_dssp             HHHHHHHHHHHC---TTSCHHHHHHHHTSC------HH-HHHHHHHHHHHHTSEE
T ss_pred             HHHHHHHHHHHc---CCCCHHHHHHHHCcC------HH-HHHHHHHHHHHcCCcc
Confidence            345678888875   589999999999998      67 9999999999999998

>2esh_A Conserved hypothetical protein TM0937; APC5794, structural genomics, PSI, protein structure initiative; 2.30A {Thermotoga maritima} SCOP: a.4.5.61

Probab=92.10  E-value=0.27  Score=35.98  Aligned_cols=68  Identities=13%  Similarity=0.214  Sum_probs=49.6

Q ss_pred             HHHHHhcChhHHHHhcCCCCCCCHHHHHHhCC--------CCCCCchhH-HHHHHHHHHHHHhcCcccceeecCC----C
Q 024350           30 MQAVVELDVFEIITKAGPGAKLSVSEIVAQIP--------LKDNNPEAA-AMMLDRVLRLLVSYNALHCSFVDGQ----R   96 (269)
Q Consensus        30 L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~~--------~~~~~~~~~-~~~l~rlL~~L~~~g~l~~~~~~~~----~   96 (269)
                      +.-..++-|+..|..    +|.+..+|++.+.        ++      + . .+.+.|+-|...|+|+.......    -
T Consensus        10 ~~~~~~~~IL~~L~~----~~~~gyel~~~l~~~g~~~~~is------~~~-tly~~L~~Le~~GlI~~~~~~~~~~~r~   78 (118)
T 2esh_A           10 RGWWLASTILLLVAE----KPSHGYELAERLAEFGIEIPGIG------HMG-NIYRVLADLEESGFLSTEWDTTVSPPRK   78 (118)
T ss_dssp             HHHHHHHHHHHHHHH----SCBCHHHHHHHHHTTCCSSTTCC------CCC-CHHHHHHHHHHTTSEEEEEECSSSSCEE
T ss_pred             ccchHHHHHHHHHHc----CCCCHHHHHHHHHHhCCcccCCC------Ccc-hHHHHHHHHHHCCCeEEEeecCCCCCce
Confidence            334456667777876    5899999999883        55      4 5 89999999999999986422111    2


Q ss_pred             eEecChhchhhh
Q 024350           97 LYSLAPVSKYFV  108 (269)
Q Consensus        97 ~y~~t~~s~~l~  108 (269)
                      .|++|+.|+.+.
T Consensus        79 ~Y~LT~~G~~~l   90 (118)
T 2esh_A           79 IYRITPQGKLYL   90 (118)
T ss_dssp             EEEECHHHHHHH
T ss_pred             EEEEChHHHHHH
Confidence            589999987554

>3l7w_A Putative uncharacterized protein SMU.1704; PADR, transcriptional factor, transcription; HET: MSE; 2.20A {Streptococcus mutans} SCOP: a.4.5.0

Probab=92.06  E-value=0.25  Score=35.60  Aligned_cols=65  Identities=18%  Similarity=0.218  Sum_probs=47.0

Q ss_pred             HHhcChhHHHHhcCCCCCCCHHHHHHh----CCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCC----eEecChhc
Q 024350           33 VVELDVFEIITKAGPGAKLSVSEIVAQ----IPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQR----LYSLAPVS  104 (269)
Q Consensus        33 a~~lglfd~L~~~g~~~~~s~~eLA~~----~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~----~y~~t~~s  104 (269)
                      ..++-|+..|..    +|.+--+|++.    ++++      +. .+.++|+-|...|+|+......++    .|++|+.|
T Consensus         9 ~l~~~IL~~L~~----~~~~gyel~~~l~~~~~i~------~~-tly~~L~~Le~~GlI~~~~~~~~~r~r~~y~LT~~G   77 (108)
T 3l7w_A            9 LIEYLILAIVSK----HDSYGYDISQTIKLIASIK------ES-TLYPILKKLEKAGYLSTYTQEHQGRRRKYYHLTDSG   77 (108)
T ss_dssp             HHHHHHHHHHHH----SCEEHHHHHHHHTTTCCCC------HH-HHHHHHHHHHHTTSEEEEEEEETTEEEEEEEECHHH
T ss_pred             HHHHHHHHHHHc----CCCcHHHHHHHHHHHhCCC------cC-hHHHHHHHHHHCCCeEEEeecCCCCcceEEEECHHH
Confidence            345556677776    58888887777    4776      67 999999999999999864221122    38999988


Q ss_pred             hhhh
Q 024350          105 KYFV  108 (269)
Q Consensus       105 ~~l~  108 (269)
                      +...
T Consensus        78 ~~~l   81 (108)
T 3l7w_A           78 EKHL   81 (108)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            7544

>2ar0_A M.ecoki, type I restriction enzyme ecoki M protein; structural genomics, protein structure initiative, nysgxrc; 2.80A {Escherichia coli} SCOP: c.66.1.45 PDB: 2y7c_B 2y7h_B*

Probab=92.03  E-value=0.11  Score=48.51  Aligned_cols=74  Identities=14%  Similarity=-0.008  Sum_probs=50.6

Q ss_pred             HHHhccCCCCccEEEEeCCCchHHHHHHHHHCC------------------CCeEEEeeh-hHHHHhCCC------CCC-
Q 024350          184 VLESYKGFEHVKKLVDVGGGLGATLNMIISKYP------------------HIKGINYDL-LYVIKNAPS------YPG-  237 (269)
Q Consensus       184 ~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P------------------~l~~vv~Dl-p~vv~~a~~------~~r-  237 (269)
                      +++... .....+|+|.+||+|.++..+.+...                  ..+++++|+ |.+++.++.      .+. 
T Consensus       161 mv~~l~-p~~~~~VlDPaCGSG~fLi~a~~~l~~~~~~~~~~~~~~~~~~~~~~i~GiEid~~~~~lA~~nl~l~gi~~~  239 (541)
T 2ar0_A          161 IIHLLK-PQPREVVQDPAAGTAGFLIEADRYVKSQTNDLDDLDGDTQDFQIHRAFIGLELVPGTRRLALMNCLLHDIEGN  239 (541)
T ss_dssp             HHHHHC-CCTTCCEEETTCTTTHHHHHHHHHHHTTTTTTTTSCHHHHHHHHHTSEEEEESCHHHHHHHHHHHHTTTCCCB
T ss_pred             HHHHhc-cCCCCeEecCCcccchHHHHHHHHHHHhhcccccCCHHHHhhhhcceEEEEcCCHHHHHHHHHHHHHhCCCcc
Confidence            344444 33456899999999999988876532                  246899997 666666543      132 


Q ss_pred             ----ceEEecccCC-c-CC-CC-cEEEec
Q 024350          238 ----IDHVGGDLFE-S-VP-KA-DTIFMK  258 (269)
Q Consensus       238 ----i~~~~gD~~~-~-~P-~g-D~~~l~  258 (269)
                          +.+..+|.+. + .+ .. |+++..
T Consensus       240 ~~~~~~I~~gDtL~~~~~~~~~fD~Vv~N  268 (541)
T 2ar0_A          240 LDHGGAIRLGNTLGSDGENLPKAHIVATN  268 (541)
T ss_dssp             GGGTBSEEESCTTSHHHHTSCCEEEEEEC
T ss_pred             ccccCCeEeCCCcccccccccCCeEEEEC
Confidence                7899999988 3 22 23 888764

>3lkd_A Type I restriction-modification system methyltransferase subunit; Q5M500_STRT2, STU0711, NESG, SUR80, structural genomics, PSI-2; 2.25A {Streptococcus thermophilus}

Probab=92.01  E-value=0.082  Score=49.49  Aligned_cols=66  Identities=17%  Similarity=0.069  Sum_probs=49.8

Q ss_pred             CccEEEEeCCCchHHHHHHHHHC---CCCeEEEeeh-hHHHHhCCCC--------CCceEEecccCC-cCC---C-C-cE
Q 024350          193 HVKKLVDVGGGLGATLNMIISKY---PHIKGINYDL-LYVIKNAPSY--------PGIDHVGGDLFE-SVP---K-A-DT  254 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~---P~l~~vv~Dl-p~vv~~a~~~--------~ri~~~~gD~~~-~~P---~-g-D~  254 (269)
                      ...+|+|.+||+|.++.++.+..   +..+..++|+ |.++..++.+        +++.+..+|.+. ++|   . . |+
T Consensus       221 ~~~~VlDPaCGSG~fLi~a~~~l~~~~~~~i~G~Eid~~~~~lA~~Nl~l~gi~~~~~~I~~gDtL~~d~p~~~~~~fD~  300 (542)
T 3lkd_A          221 QGFTLYDATMGSGSLLLNAKRYSRQPQTVVYFGQELNTSTYNLARMNMILHGVPIENQFLHNADTLDEDWPTQEPTNFDG  300 (542)
T ss_dssp             TTCEEEETTCTTSTTGGGHHHHCSCTTTCEEEEEESCHHHHHHHHHHHHHTTCCGGGEEEEESCTTTSCSCCSSCCCBSE
T ss_pred             CCCEEeecccchhHHHHHHHHHHHhccCceEEEEECcHHHHHHHHHHHHHcCCCcCccceEecceecccccccccccccE
Confidence            34699999999999999999885   4678899997 6666665431        467899999998 344   2 3 88


Q ss_pred             EEec
Q 024350          255 IFMK  258 (269)
Q Consensus       255 ~~l~  258 (269)
                      ++..
T Consensus       301 IvaN  304 (542)
T 3lkd_A          301 VLMN  304 (542)
T ss_dssp             EEEC
T ss_pred             EEec
Confidence            8753

>3i4p_A Transcriptional regulator, ASNC family; PSI, structural genom protein structure initiative, midwest center for structural genomics; 2.30A {Agrobacterium tumefaciens str}

Probab=91.98  E-value=0.14  Score=39.71  Aligned_cols=45  Identities=11%  Similarity=0.285  Sum_probs=40.1

Q ss_pred             HhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCccc
Q 024350           34 VELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALH   88 (269)
Q Consensus        34 ~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~   88 (269)
                      .+..|++.|.++   +++|..+||+.+|++      +. .+.+-++.|...|++.
T Consensus         4 ~d~~il~~L~~~---~~~s~~~la~~lg~s------~~-tv~~rl~~L~~~g~i~   48 (162)
T 3i4p_A            4 LDRKILRILQED---STLAVADLAKKVGLS------TT-PCWRRIQKMEEDGVIR   48 (162)
T ss_dssp             HHHHHHHHHTTC---SCSCHHHHHHHHTCC------HH-HHHHHHHHHHHTTSSC
T ss_pred             HHHHHHHHHHHC---CCCCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCee
Confidence            456688889876   599999999999998      77 9999999999999998

>3s1s_A Restriction endonuclease bpusi; PD--(D/E)XK catalytic motif, gamma-N6M-adenosine methyltrans S-adenosyl-methionine binding, hydrolase; HET: SAH; 2.35A {Bacillus pumilus}

Probab=91.97  E-value=0.15  Score=49.86  Aligned_cols=66  Identities=12%  Similarity=0.119  Sum_probs=45.9

Q ss_pred             CCccEEEEeCCCchHHHHHHHHHCCC---CeEEEeeh-hHHHHhC--C----C------CCCceEEecccCCc--CC-CC
Q 024350          192 EHVKKLVDVGGGLGATLNMIISKYPH---IKGINYDL-LYVIKNA--P----S------YPGIDHVGGDLFES--VP-KA  252 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~~P~---l~~vv~Dl-p~vv~~a--~----~------~~ri~~~~gD~~~~--~P-~g  252 (269)
                      ....+|+|.|||+|.++.+++++.++   .+.+++|+ |..++.+  +    .      .+.+.+...|++.+  .+ ..
T Consensus       320 ~~g~rVLDPaCGSG~FLIaaA~~l~ei~~~~IyGvEIDp~Al~LAK~RlNL~lN~LlhGi~~~~I~~dD~L~~~~~~~~k  399 (878)
T 3s1s_A          320 TEDEVISDPAAGSGNLLATVSAGFNNVMPRQIWANDIETLFLELLSIRLGLLFPQLVSSNNAPTITGEDVCSLNPEDFAN  399 (878)
T ss_dssp             CTTCEEEETTCTTSHHHHHHHHTSTTCCGGGEEEECSCGGGHHHHHHHHHTTSTTTCBTTBCCEEECCCGGGCCGGGGTT
T ss_pred             CCCCEEEECCCCccHHHHHHHHHhcccCCCeEEEEECCHHHHHHHHHHHHHHHhhhhcCCCcceEEecchhcccccccCC
Confidence            34579999999999999999998873   57899997 5566555  1    1      12345666777762  22 23


Q ss_pred             -cEEEe
Q 024350          253 -DTIFM  257 (269)
Q Consensus       253 -D~~~l  257 (269)
                       |+++.
T Consensus       400 FDVVIg  405 (878)
T 3s1s_A          400 VSVVVM  405 (878)
T ss_dssp             EEEEEE
T ss_pred             CCEEEE
Confidence             87765

>1uly_A Hypothetical protein PH1932; helix-turn-helix, structural genomics, DNA binding protein; 2.50A {Pyrococcus horikoshii} SCOP: a.4.5.58 PDB: 2cwe_A

Probab=91.96  E-value=0.17  Score=40.67  Aligned_cols=52  Identities=6%  Similarity=0.149  Sum_probs=43.6

Q ss_pred             HHHHHHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccce
Q 024350           28 AAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCS   90 (269)
Q Consensus        28 ~~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~   90 (269)
                      .++....+..|+..|..    +++|..+||+.+|++      +. .+.+.|+.|...|++...
T Consensus        15 k~l~d~~~~~IL~~L~~----~~~s~~eLA~~lglS------~s-tv~~~l~~Le~~GlI~~~   66 (192)
T 1uly_A           15 KVMLEDTRRKILKLLRN----KEMTISQLSEILGKT------PQ-TIYHHIEKLKEAGLVEVK   66 (192)
T ss_dssp             HHHHSHHHHHHHHHHTT----CCBCHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEEEE
T ss_pred             HHhCCHHHHHHHHHHHc----CCCCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCEEEE
Confidence            34445567778888874    589999999999998      67 999999999999999854

>4esf_A PADR-like transcriptional regulator; PADR family, DNA binding protein, HTH fold; 2.20A {Bacillus cereus}

Probab=91.90  E-value=0.46  Score=34.82  Aligned_cols=69  Identities=17%  Similarity=0.202  Sum_probs=50.1

Q ss_pred             HHHHHHhcChhHHHHhcCCCCCCCHHHHHHhC------CCCCCCchhHHHHHHHHHHHHHhcCcccceeec-C----CCe
Q 024350           29 AMQAVVELDVFEIITKAGPGAKLSVSEIVAQI------PLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVD-G----QRL   97 (269)
Q Consensus        29 ~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~------~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~-~----~~~   97 (269)
                      .++-.+++=|+..|..    +|.+--+|++.+      +++      +. .+...|+-|...|+|+..... +    .-.
T Consensus         7 l~~g~l~~~IL~lL~~----~p~~Gyei~~~l~~~g~~~is------~g-tlY~~L~rLe~~GlI~~~~~~~~~g~~rk~   75 (117)
T 4esf_A            7 MLKGSLEGCVLEIISR----RETYGYEITRHLNDLGFTEVV------EG-TVYTILVRLEKKKLVNIEKKPSDMGPPRKF   75 (117)
T ss_dssp             HHHHHHHHHHHHHHHH----SCBCHHHHHHHHHHHTCTTCC------HH-HHHHHHHHHHHTTCEEEEEEC-----CEEE
T ss_pred             HHHChHHHHHHHHHHc----CCCCHHHHHHHHHHcCCCCCC------cc-HHHHHHHHHHHCCCEEEEeecCCCCCCceE
Confidence            3444455556667776    699999999987      676      66 999999999999999864211 1    124


Q ss_pred             EecChhchhhh
Q 024350           98 YSLAPVSKYFV  108 (269)
Q Consensus        98 y~~t~~s~~l~  108 (269)
                      |++|+.|+...
T Consensus        76 Y~LT~~G~~~l   86 (117)
T 4esf_A           76 YSLNEAGRQEL   86 (117)
T ss_dssp             EEECHHHHHHH
T ss_pred             EEECHHHHHHH
Confidence            99999887544

>4fx0_A Probable transcriptional repressor protein; helix-turn-helix, DNA binding, transcription regulator; 2.70A {Mycobacterium tuberculosis} PDB: 4fx4_A*

Probab=91.86  E-value=0.13  Score=39.15  Aligned_cols=65  Identities=17%  Similarity=0.284  Sum_probs=39.6

Q ss_pred             cChhHHHHhcC--CCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCC---eEecChhchhhh
Q 024350           36 LDVFEIITKAG--PGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQR---LYSLAPVSKYFV  108 (269)
Q Consensus        36 lglfd~L~~~g--~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~---~y~~t~~s~~l~  108 (269)
                      +.++..|...+  .++++|..+||+.++++      .. .+.++++-|...|+|... .+.+.   ...+|+.|+.+.
T Consensus        36 ~~vL~~l~~~~~~~~~~~t~~eLa~~l~~~------~~-tvsr~v~~Le~~glVr~~-~~~DrR~~~v~LT~~G~~~~  105 (148)
T 4fx0_A           36 FSTLAVISLSEGSAGIDLTMSELAARIGVE------RT-TLTRNLEVMRRDGLVRVM-AGADARCKRIELTAKGRAAL  105 (148)
T ss_dssp             HHHHHHHHC---------CHHHHHHHHTCC------HH-HHHHHHHHHHHTTSBC------------CCBCHHHHHHH
T ss_pred             HHHHHHHHHhcCCCCCCcCHHHHHHHHCCC------hh-hHHHHHHHHHHCCCEEee-CCCCCCeeEEEECHHHHHHH
Confidence            34455565431  01469999999999998      66 999999999999999531 11122   356777666444

>2ia0_A Putative HTH-type transcriptional regulator PF086; ASNC, PSI, structural genomics, southeast collaboratory for structural genomics; 2.37A {Pyrococcus furiosus}

Probab=91.78  E-value=0.17  Score=39.74  Aligned_cols=45  Identities=16%  Similarity=0.361  Sum_probs=39.9

Q ss_pred             HhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCccc
Q 024350           34 VELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALH   88 (269)
Q Consensus        34 ~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~   88 (269)
                      .+..|+..|...   +++|..+||+.+|++      +. .+.+.++.|...|++.
T Consensus        18 ~d~~IL~~L~~~---~~~s~~eLA~~lglS------~~-tv~~~l~~L~~~G~I~   62 (171)
T 2ia0_A           18 LDRNILRLLKKD---ARLTISELSEQLKKP------ES-TIHFRIKKLQERGVIE   62 (171)
T ss_dssp             HHHHHHHHHHHC---TTCCHHHHHHHHTSC------HH-HHHHHHHHHHHTTSEE
T ss_pred             HHHHHHHHHHHc---CCCCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCEE
Confidence            455688888875   589999999999998      67 9999999999999997

>1i1g_A Transcriptional regulator LRPA; helix-turn-helix, LRP/ASNC family; 2.90A {Pyrococcus furiosus} SCOP: a.4.5.32 d.58.4.2

Probab=91.75  E-value=0.17  Score=38.06  Aligned_cols=44  Identities=16%  Similarity=0.321  Sum_probs=38.3

Q ss_pred             hcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCccc
Q 024350           35 ELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALH   88 (269)
Q Consensus        35 ~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~   88 (269)
                      +..|...|...   +++|..+||+.+|++      +. .+.+.|+.|...|++.
T Consensus         6 ~~~il~~L~~~---~~~~~~ela~~lg~s------~~-tv~~~l~~L~~~G~i~   49 (141)
T 1i1g_A            6 DKIILEILEKD---ARTPFTEIAKKLGIS------ET-AVRKRVKALEEKGIIE   49 (141)
T ss_dssp             HHHHHHHHHHC---TTCCHHHHHHHHTSC------HH-HHHHHHHHHHHHTSSC
T ss_pred             HHHHHHHHHHc---CCCCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCEe
Confidence            45577788764   589999999999998      67 9999999999999998

>2vn2_A DNAD, chromosome replication initiation protein; DNA replication, primosome; 2.3A {Geobacillus kaustophilus HTA426}

Probab=91.69  E-value=0.22  Score=37.20  Aligned_cols=33  Identities=15%  Similarity=0.172  Sum_probs=30.6

Q ss_pred             CCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccc
Q 024350           50 KLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHC   89 (269)
Q Consensus        50 ~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~   89 (269)
                      ..|..+||+.+|++      +. .+.+.++.|...|++..
T Consensus        51 ~ps~~~LA~~l~~s------~~-~V~~~l~~Le~kGlI~~   83 (128)
T 2vn2_A           51 FPTPAELAERMTVS------AA-ECMEMVRRLLQKGMIAI   83 (128)
T ss_dssp             SCCHHHHHHTSSSC------HH-HHHHHHHHHHHTTSSEE
T ss_pred             CCCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCEEE
Confidence            37999999999998      67 99999999999999994

>2fe3_A Peroxide operon regulator; oxidative stress regulator, DNA binding protein; 1.75A {Bacillus subtilis} PDB: 3f8n_A 2rgv_A*

Probab=91.61  E-value=0.31  Score=37.12  Aligned_cols=59  Identities=10%  Similarity=0.147  Sum_probs=44.2

Q ss_pred             HhcChhHHHHhcCCCCCCCHHHHHHhC-----CCCCCCchhHHHHHHHHHHHHHhcCcccceeec-CCCeEecC
Q 024350           34 VELDVFEIITKAGPGAKLSVSEIVAQI-----PLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVD-GQRLYSLA  101 (269)
Q Consensus        34 ~~lglfd~L~~~g~~~~~s~~eLA~~~-----~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~-~~~~y~~t  101 (269)
                      -+.-|++.|...+  ++.|++||.+.+     +++      .. .+.|.|+.|+..|+|.+.... +..+|.++
T Consensus        23 qR~~Il~~L~~~~--~~~sa~ei~~~l~~~~~~is------~a-TVYR~L~~L~e~Glv~~~~~~~~~~~Y~~~   87 (145)
T 2fe3_A           23 QRHAILEYLVNSM--AHPTADDIYKALEGKFPNMS------VA-TVYNNLRVFRESGLVKELTYGDASSRFDFV   87 (145)
T ss_dssp             HHHHHHHHHHHCS--SCCCHHHHHHHHGGGCTTCC------HH-HHHHHHHHHHHTTSEEEECCTTSCCEEEEC
T ss_pred             HHHHHHHHHHhCC--CCCCHHHHHHHHHHhCCCCC------hh-hHHHHHHHHHHCCCEEEEeeCCCceEEECC
Confidence            3455889997754  689999999998     565      56 899999999999999854211 12457654

>3cta_A Riboflavin kinase; structural genomics, transferase, PSI-2, protein structure initiative; 2.20A {Thermoplasma acidophilum dsm 1728} SCOP: a.4.5.28 b.43.5.2

Probab=91.58  E-value=0.2  Score=41.20  Aligned_cols=55  Identities=9%  Similarity=0.108  Sum_probs=43.6

Q ss_pred             CCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhchhhhcC
Q 024350           49 AKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSKYFVRN  110 (269)
Q Consensus        49 ~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s~~l~~~  110 (269)
                      +++|..++|+.++++      .. .+.+.++.|...|+|.+........+.+|+.|+.+...
T Consensus        26 ~~~s~s~aA~~L~is------q~-avSr~I~~LE~~~L~~R~~~~R~~~v~LT~~G~~l~~~   80 (230)
T 3cta_A           26 AYLTSSKLADMLGIS------QQ-SASRIIIDLEKNGYITRTVTKRGQILNITEKGLDVLYT   80 (230)
T ss_dssp             EECCHHHHHHHHTSC------HH-HHHHHHHHHHHTTSEEEEEETTEEEEEECHHHHHHHHH
T ss_pred             CCcCHHHHHHHHCCC------HH-HHHHHHHHHHHCCCEEEEEcCCeEEEEECHHHHHHHHH
Confidence            368999999999998      67 99999999999999995311124568899998866643

>1ku9_A Hypothetical protein MJ223; putative transcription factor, homodimeric winged-helix fold, structural genomics, PSI; 2.80A {Methanocaldococcus jannaschii} SCOP: a.4.5.36

Probab=91.43  E-value=0.18  Score=37.77  Aligned_cols=45  Identities=16%  Similarity=0.285  Sum_probs=36.6

Q ss_pred             ChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccce
Q 024350           37 DVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCS   90 (269)
Q Consensus        37 glfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~   90 (269)
                      .++..|....  +++|..+||+.+|++      .. .+.++|+.|...|+|...
T Consensus        30 ~il~~L~~~~--~~~t~~ela~~l~~~------~s-tvs~~l~~L~~~G~v~r~   74 (152)
T 1ku9_A           30 AVYAILYLSD--KPLTISDIMEELKIS------KG-NVSMSLKKLEELGFVRKV   74 (152)
T ss_dssp             HHHHHHHHCS--SCEEHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEEEE
T ss_pred             HHHHHHHHcC--CCCCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCEEEE
Confidence            3556664222  589999999999998      67 999999999999999953

>2d1h_A ST1889, 109AA long hypothetical transcriptional regulator; helix-turn-helix, intermolecular and intramolecular S-S bond structural genomics; 2.05A {Sulfolobus tokodaii} SCOP: a.4.5.50

Probab=91.33  E-value=0.14  Score=36.14  Aligned_cols=34  Identities=12%  Similarity=0.231  Sum_probs=31.7

Q ss_pred             CCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccc
Q 024350           49 AKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHC   89 (269)
Q Consensus        49 ~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~   89 (269)
                      +++|..|||+.+|++      .. .+.++|+.|...|++..
T Consensus        35 ~~~t~~ela~~l~is------~~-tv~~~l~~L~~~g~v~~   68 (109)
T 2d1h_A           35 KPITSEELADIFKLS------KT-TVENSLKKLIELGLVVR   68 (109)
T ss_dssp             SCEEHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEEE
T ss_pred             CCCCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCeEe
Confidence            589999999999998      67 99999999999999995

>1sfu_A 34L protein; protein/Z-DNA complex, DNA binding protein/DNA complex; 2.00A {Yaba-like disease virus} SCOP: a.4.5.19

Probab=91.24  E-value=0.66  Score=31.18  Aligned_cols=46  Identities=4%  Similarity=-0.002  Sum_probs=36.7

Q ss_pred             CCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecCh
Q 024350           49 AKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAP  102 (269)
Q Consensus        49 ~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~  102 (269)
                      +..|+.+||.++|++      -. -+.|+|.-|...|.|...+. .+-.|..+.
T Consensus        28 ~~~Ta~~IAkkLg~s------K~-~vNr~LY~L~kkG~V~~~~~-~PP~W~~~~   73 (75)
T 1sfu_A           28 DYTTAISLSNRLKIN------KK-KINQQLYKLQKEDTVKMVPS-NPPKWFKNY   73 (75)
T ss_dssp             CEECHHHHHHHTTCC------HH-HHHHHHHHHHHTTSEEEECC-SSCEEEECT
T ss_pred             cchHHHHHHHHHCCC------HH-HHHHHHHHHHHCCCEecCCC-CCCCccCCC
Confidence            459999999999997      35 89999999999999986432 356666553

>4g6q_A Putative uncharacterized protein; structural genomics, PSI-biology, protein structure initiati midwest center for structural genomics, MCSG; 2.08A {Kribbella flavida}

Probab=90.99  E-value=0.1  Score=41.48  Aligned_cols=70  Identities=16%  Similarity=0.253  Sum_probs=52.5

Q ss_pred             HHHHHHHHhcChhHHHHhcCCCCCCCHHHHHHhCC-CCCCCchhHHHHHHHHHHHHHhcCcccceeec--C---CCeEec
Q 024350           27 PAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIP-LKDNNPEAAAMMLDRVLRLLVSYNALHCSFVD--G---QRLYSL  100 (269)
Q Consensus        27 ~~~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~~-~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~--~---~~~y~~  100 (269)
                      ..+|..-+++.|+..|..    ++.|+.+||+.++ ++      .. .+.+.|+.|...|+|+...+.  .   .-.|++
T Consensus        17 ~~~La~P~Rl~il~~L~~----~~~~~~~l~~~l~~~~------~~-~~s~Hl~~L~~aglv~~~~e~~~~g~~er~y~~   85 (182)
T 4g6q_A           17 VDLLHHPLRWRITQLLIG----RSLTTRELAELLPDVA------TT-TLYRQVGILVKAGVLMVTAEHQVRGAVERTYTL   85 (182)
T ss_dssp             HHHTTSHHHHHHHHHTTT----SCEEHHHHHHHCTTBC------HH-HHHHHHHHHHHHTSEEEEEEEEETTEEEEEEEE
T ss_pred             HHHhCCHHHHHHHHHHHh----CCCCHHHHHHHhcCCC------HH-HHHHHHHHHHHCCCeEEEEeecccCcceeEEEe
Confidence            445556678889999976    6999999999996 76      56 899999999999999743221  1   134888


Q ss_pred             Chhchhh
Q 024350          101 APVSKYF  107 (269)
Q Consensus       101 t~~s~~l  107 (269)
                      ++.+..+
T Consensus        86 ~~~~~~~   92 (182)
T 4g6q_A           86 NTQAGDA   92 (182)
T ss_dssp             CTTTTTS
T ss_pred             ccccccC
Confidence            7765443

>3evf_A RNA-directed RNA polymerase NS5; NS5 methyltransferase, RNA CAP binding, binding, capsid protein; HET: GTA SAH; 1.45A {Yellow fever virus} SCOP: c.66.1.0 PDB: 3evb_A* 3evc_A* 3evd_A* 3eve_A* 3eva_A*

Probab=90.99  E-value=0.22  Score=42.31  Aligned_cols=42  Identities=14%  Similarity=0.079  Sum_probs=29.1

Q ss_pred             HHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh
Q 024350          183 KVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL  225 (269)
Q Consensus       183 ~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl  225 (269)
                      .+.+..- ++...+|||||||.|.++.-+++..+--+++.+|+
T Consensus        65 ei~ek~~-l~~~~~VLDLGaAPGGWSQvAa~~~~~~~v~g~dV  106 (277)
T 3evf_A           65 WFHERGY-VKLEGRVIDLGCGRGGWCYYAAAQKEVSGVKGFTL  106 (277)
T ss_dssp             HHHHTTS-SCCCEEEEEETCTTCHHHHHHHTSTTEEEEEEECC
T ss_pred             HHHHhCC-CCCCCEEEEecCCCCHHHHHHHHhcCCCcceeEEE
Confidence            3444433 55667999999999999998888766544444443

>1cf7_A Protein (transcription factor E2F-4); E2F, winged-helix, DNA-binding domain, cell cycle, transcription/DNA complex; HET: DNA; 2.60A {Homo sapiens} SCOP: a.4.5.17

Probab=90.91  E-value=0.22  Score=33.73  Aligned_cols=42  Identities=5%  Similarity=0.078  Sum_probs=36.0

Q ss_pred             CCCCHHHHHHhCCC-CCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEec
Q 024350           49 AKLSVSEIVAQIPL-KDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSL  100 (269)
Q Consensus        49 ~~~s~~eLA~~~~~-~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~  100 (269)
                      +.+++.++|+.+++ .      -+ ++..++.+|.++|++++   .+.+.|.-
T Consensus        29 ~~i~l~~aa~~L~v~~------kR-RiYDI~NVLe~igli~K---~~k~~~~W   71 (76)
T 1cf7_A           29 GVLDLKLAADTLAVRQ------KR-RIYDITNVLEGIGLIEK---KSKNSIQW   71 (76)
T ss_dssp             TEEEHHHHHHHTTTCC------TH-HHHHHHHHHHHHTSEEE---EETTEEEE
T ss_pred             CcCcHHHHHHHhCCcc------ce-ehhhHHHHHhHhcceee---cCCCcEEE
Confidence            68999999999999 6      57 99999999999999994   34566664

>2dk5_A DNA-directed RNA polymerase III 39 kDa polypeptide; structural genomics, winged helix domain, NPPSFA; NMR {Homo sapiens} SCOP: a.4.5.85

Probab=90.66  E-value=0.26  Score=34.52  Aligned_cols=47  Identities=21%  Similarity=0.302  Sum_probs=38.7

Q ss_pred             hcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccc
Q 024350           35 ELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHC   89 (269)
Q Consensus        35 ~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~   89 (269)
                      ++.|+..|..+|. ..++..+||+.++++      .. .+.++|+.|...|++.+
T Consensus        22 q~~Vl~~I~~~g~-~gi~qkeLa~~~~l~------~~-tvt~iLk~LE~kglIkr   68 (91)
T 2dk5_A           22 EKLVYQIIEDAGN-KGIWSRDVRYKSNLP------LT-EINKILKNLESKKLIKA   68 (91)
T ss_dssp             HHHHHHHHHHHCT-TCEEHHHHHHHTTCC------HH-HHHHHHHHHHHTTSEEE
T ss_pred             HHHHHHHHHHcCC-CCcCHHHHHHHHCCC------HH-HHHHHHHHHHHCCCEEE
Confidence            3456777876432 379999999999998      56 89999999999999983

>2v79_A DNA replication protein DNAD; primosome, DNA-binding protein; HET: DNA; 2.00A {Bacillus subtilis}

Probab=90.54  E-value=0.35  Score=36.53  Aligned_cols=34  Identities=9%  Similarity=0.111  Sum_probs=31.3

Q ss_pred             CCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccc
Q 024350           49 AKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHC   89 (269)
Q Consensus        49 ~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~   89 (269)
                      ...|.++||+.+|++      +. -+.++|..|...|++..
T Consensus        50 ~~ps~~~LA~~~~~s------~~-~v~~~L~~L~~KGlI~i   83 (135)
T 2v79_A           50 YFPTPNQLQEGMSIS------VE-ECTNRLRMFIQKGFLFI   83 (135)
T ss_dssp             CSCCHHHHHTTSSSC------HH-HHHHHHHHHHHHTSCEE
T ss_pred             CCCCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCEEE
Confidence            468999999999998      67 99999999999999995

>1hsj_A Fusion protein consisting of staphylococcus accessary regulator protein R and maltose...; novel fold for DNA binding; HET: GLC; 2.30A {Escherichia coli} SCOP: a.4.5.28 c.94.1.1

Probab=90.50  E-value=0.23  Score=45.25  Aligned_cols=65  Identities=15%  Similarity=0.139  Sum_probs=47.7

Q ss_pred             cChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCC---CeEecChhchhhh
Q 024350           36 LDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQ---RLYSLAPVSKYFV  108 (269)
Q Consensus        36 lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~---~~y~~t~~s~~l~  108 (269)
                      ..|+..|.+.+ ++++|..+||+.++++      .. .+.|+++-|...|+|.+.+-..+   -...+|+.|+.+.
T Consensus       407 ~~vl~~l~~~~-~~~~~~~~l~~~~~~~------~~-~~t~~~~~le~~g~v~r~~~~~D~R~~~i~lT~~g~~~~  474 (487)
T 1hsj_A          407 IYILNHILRSE-SNEISSKEIAKCSEFK------PY-YLTKALQKLKDLKLLSKKRSLQDERTVIVYVTDTQKANI  474 (487)
T ss_dssp             HHHHHHHHTCS-CSEEEHHHHHHSSCCC------HH-HHHHHHHHHHTTTTSCCEECCSSSSCCEEECCSSHHHHH
T ss_pred             HHHHHHHHhCC-CCCcCHHHHHHHHCCC------HH-HHHHHHHHHHHCCCEeecCCCCCCCeEEEEECHHHHHHH
Confidence            34666776641 1479999999999998      67 99999999999999996421222   2366777776544

>1fx7_A Iron-dependent repressor IDER; DTXR, iron-dependent regulator, signaling protein; 2.00A {Mycobacterium tuberculosis} SCOP: a.4.5.24 a.76.1.1 b.34.1.2 PDB: 1u8r_A

Probab=90.46  E-value=0.25  Score=40.70  Aligned_cols=48  Identities=10%  Similarity=0.154  Sum_probs=40.2

Q ss_pred             CHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhchhhhc
Q 024350           52 SVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSKYFVR  109 (269)
Q Consensus        52 s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s~~l~~  109 (269)
                      +..+||+.++++      .. .+.++|+-|...|++++   .....+.+|+.|+.+..
T Consensus        26 ~~~~La~~l~vs------~~-tvs~~l~~Le~~GlV~r---~~~~~v~LT~~G~~~~~   73 (230)
T 1fx7_A           26 LRARIAERLDQS------GP-TVSQTVSRMERDGLLRV---AGDRHLELTEKGRALAI   73 (230)
T ss_dssp             CHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEEE---CTTSCEEECHHHHHHHH
T ss_pred             cHHHHHHHHCcC------HH-HHHHHHHHHHHCCCEEE---eCCccEEECHHHHHHHH
Confidence            449999999998      66 89999999999999994   33467999999986653

>3lkz_A Non-structural protein 5; flavivirus, methyltransferase, inhibitor, P nucleotide-binding, RNA replication, viral protein; HET: SFG; 2.00A {West nile virus}

Probab=90.14  E-value=0.42  Score=41.04  Aligned_cols=75  Identities=21%  Similarity=0.222  Sum_probs=48.2

Q ss_pred             HHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeehhHHHHh----CCCC--CCceEEec-ccCCcCCC-Cc
Q 024350          182 EKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKN----APSY--PGIDHVGG-DLFESVPK-AD  253 (269)
Q Consensus       182 ~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp~vv~~----a~~~--~ri~~~~g-D~~~~~P~-gD  253 (269)
                      ..+.+.+. +.....||||||++|.++.-++....--++..+|+-..--.    .+..  .-|+++.+ |++.--|. .|
T Consensus        84 ~ei~~~~~-l~~~~~VlDLGaapGGwsq~~~~~~gv~~V~avdvG~~~he~P~~~~ql~w~lV~~~~~~Dv~~l~~~~~D  162 (321)
T 3lkz_A           84 RWLVERRF-LEPVGKVIDLGCGRGGWCYYMATQKRVQEVRGYTKGGPGHEEPQLVQSYGWNIVTMKSGVDVFYRPSECCD  162 (321)
T ss_dssp             HHHHHTTS-CCCCEEEEEETCTTCHHHHHHTTCTTEEEEEEECCCSTTSCCCCCCCBTTGGGEEEECSCCTTSSCCCCCS
T ss_pred             HHHHHhcC-CCCCCEEEEeCCCCCcHHHHHHhhcCCCEEEEEEcCCCCccCcchhhhcCCcceEEEeccCHhhCCCCCCC
Confidence            34455555 55567999999999999997776665557888997332111    1111  34888888 87663232 47


Q ss_pred             EEEe
Q 024350          254 TIFM  257 (269)
Q Consensus       254 ~~~l  257 (269)
                      ++++
T Consensus       163 ~ivc  166 (321)
T 3lkz_A          163 TLLC  166 (321)
T ss_dssp             EEEE
T ss_pred             EEEE
Confidence            6654

>3f8b_A Transcriptional regulator, PADR-like family; winged helix turn helix, transcription regulator; 2.00A {Lactococcus lactis subsp} SCOP: a.4.5.0 PDB: 3f8c_A* 3f8f_A*

Probab=90.11  E-value=0.9  Score=33.11  Aligned_cols=70  Identities=17%  Similarity=0.286  Sum_probs=50.2

Q ss_pred             HHHHHHHhcChhHHHHhcCCCCCCCHHHHHHhC--------CCCCCCchhHHHHHHHHHHHHHhcCcccceeec-CC---
Q 024350           28 AAMQAVVELDVFEIITKAGPGAKLSVSEIVAQI--------PLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVD-GQ---   95 (269)
Q Consensus        28 ~~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~--------~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~-~~---   95 (269)
                      +.++-..++=|...|..    +|.+--+|.+.+        +++      +. .+.++|+-|...|+|+..... ..   
T Consensus         7 ~~~~g~l~~~IL~~L~~----~~~~Gyei~~~l~~~~~~~~~i~------~g-tly~~L~rLe~~GlI~~~~~~~~~~~~   75 (116)
T 3f8b_A            7 EMLRAQTNVILLNVLKQ----GDNYVYGIIKQVKEASNGEMELN------EA-TLYTIFKRLEKDGIISSYWGDESQGGR   75 (116)
T ss_dssp             HHHHHHHHHHHHHHHHH----CCBCHHHHHHHHHHHTTTCCCCC------HH-HHHHHHHHHHHTTSEEEEEEC----CC
T ss_pred             HHHhchHHHHHHHHHHh----CCCCHHHHHHHHHHHhCCCCCCC------cc-hHHHHHHHHHHCCCEEEEeeccCCCCC
Confidence            34444556666777777    689999999887        565      56 999999999999999854211 11   


Q ss_pred             -CeEecChhchhhh
Q 024350           96 -RLYSLAPVSKYFV  108 (269)
Q Consensus        96 -~~y~~t~~s~~l~  108 (269)
                       -.|++|+.|+...
T Consensus        76 rk~Y~LT~~G~~~l   89 (116)
T 3f8b_A           76 RKYYRLTEIGHENM   89 (116)
T ss_dssp             EEEEEECHHHHHHH
T ss_pred             ceEEEECHHHHHHH
Confidence             2499999887544

>1zkd_A DUF185; NESG, RPR58, structural genomics, PSI, protein structure INI northeast structural genomics consortium, unknown function; 2.10A {Rhodopseudomonas palustris} SCOP: c.66.1.52

Probab=90.08  E-value=1.2  Score=39.67  Aligned_cols=62  Identities=10%  Similarity=0.148  Sum_probs=40.1

Q ss_pred             cchHHHHHHHHHhhchhhHHHHHHhccCCCCccEEEEeCCCchHHHHHHHHH---C----CCCeEEEeehhHHH
Q 024350          163 SSFNDVFSNGMLSHTSIVMEKVLESYKGFEHVKKLVDVGGGLGATLNMIISK---Y----PHIKGINYDLLYVI  229 (269)
Q Consensus       163 p~~~~~f~~~m~~~~~~~~~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~---~----P~l~~vv~Dlp~vv  229 (269)
                      |+....|-+.++.+...   .| .... .+..-.||++|+|+|.++.-+++.   .    ..++.+++|..+..
T Consensus        55 peis~~FGe~la~~~~~---~w-~~~g-~p~~~~ivElGaG~GtLa~diL~~l~~~p~~~~~~~y~iVE~Sp~L  123 (387)
T 1zkd_A           55 PEISQMFGELLGLWSAS---VW-KAAD-EPQTLRLIEIGPGRGTMMADALRALRVLPILYQSLSVHLVEINPVL  123 (387)
T ss_dssp             HHHCHHHHHHHHHHHHH---HH-HHTT-CCSSEEEEEECCTTSHHHHHHHHHHTTSHHHHTTEEEEEECCCHHH
T ss_pred             CchHHHHHHHHHHHHHH---HH-HHcC-CCCCcEEEEECCCcchHHHHHHHHHHhCCccccccEEEEEecCHHH
Confidence            56666776666554322   12 2222 345568999999999999888765   2    34578889874444

>1j5y_A Transcriptional regulator, biotin repressor famil; structural genomics, TM1602, BIOT repressor family, JCSG, conserved hypothetical protein; 2.30A {Thermotoga maritima} SCOP: a.4.5.1 d.94.2.1

Probab=89.98  E-value=0.41  Score=38.03  Aligned_cols=59  Identities=14%  Similarity=0.175  Sum_probs=46.3

Q ss_pred             HHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCc-ccceeecCCCeEecChhc
Q 024350           33 VVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNA-LHCSFVDGQRLYSLAPVS  104 (269)
Q Consensus        33 a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~-l~~~~~~~~~~y~~t~~s  104 (269)
                      -....|.+.|...+  +++|..+||+.+|++      .+ .++|-++.|...|+ +.   .. .+.|.+++..
T Consensus        21 ~R~~~Il~~L~~~~--~~~s~~eLa~~l~vS------~~-Ti~rdi~~L~~~G~~I~---~~-~~Gy~l~~~~   80 (187)
T 1j5y_A           21 ERLKSIVRILERSK--EPVSGAQLAEELSVS------RQ-VIVQDIAYLRSLGYNIV---AT-PRGYVLAGGK   80 (187)
T ss_dssp             HHHHHHHHHHHHCS--SCBCHHHHHHHHTSC------HH-HHHHHHHHHHHHTCCCE---EE-TTEEECCTTT
T ss_pred             HHHHHHHHHHHHcC--CCcCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCeEE---EE-CCEEEECCcc
Confidence            34566888888643  579999999999998      67 99999999999999 76   22 4568776543

>3k2z_A LEXA repressor; winged helix-turn-helix, SOS system, autoca cleavage, DNA damage, DNA repair, DNA replication, DNA-BIND hydrolase; 1.37A {Thermotoga maritima}

Probab=89.88  E-value=0.34  Score=38.77  Aligned_cols=41  Identities=24%  Similarity=0.135  Sum_probs=34.6

Q ss_pred             HHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccc
Q 024350           40 EIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHC   89 (269)
Q Consensus        40 d~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~   89 (269)
                      +.+.+.|  .|.|..|||+.+|++      .. .+.+.|+.|...|++..
T Consensus        16 ~~~~~~g--~~~s~~eia~~lgl~------~~-tv~~~l~~Le~~G~i~~   56 (196)
T 3k2z_A           16 EFIEKNG--YPPSVREIARRFRIT------PR-GALLHLIALEKKGYIER   56 (196)
T ss_dssp             HHHHHHS--SCCCHHHHHHHHTSC------HH-HHHHHHHHHHHTTSEEC
T ss_pred             HHHHHhC--CCCCHHHHHHHcCCC------cH-HHHHHHHHHHHCCCEEe
Confidence            3444554  589999999999997      56 89999999999999994

>3hhh_A Transcriptional regulator, PADR family; PF03551, structural PSI-2, protein structure initiative, midwest center for STR genomics, MCSG; 2.70A {Enterococcus faecalis} SCOP: a.4.5.0

Probab=89.49  E-value=0.79  Score=33.49  Aligned_cols=70  Identities=14%  Similarity=0.141  Sum_probs=50.4

Q ss_pred             HHHHHHHhcChhHHHHhcCCCCCCCHHHHHHhC------CCCCCCchhHHHHHHHHHHHHHhcCcccceeec-CC----C
Q 024350           28 AAMQAVVELDVFEIITKAGPGAKLSVSEIVAQI------PLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVD-GQ----R   96 (269)
Q Consensus        28 ~~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~------~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~-~~----~   96 (269)
                      +.++-.+++=|...|..    +|.+--+|++.+      +++      +. .+..+|+-|...|+|+..... +.    -
T Consensus         8 ~l~~g~l~~~IL~lL~~----~p~~Gyei~~~l~~~g~~~is------~g-tlY~~L~rLe~~GlI~~~~~~~~~g~~rk   76 (116)
T 3hhh_A            8 ELLKGILEGLVLAIIQR----KETYGYEITKILNDQGFTEIV------EG-TVYTILLRLEKNQWVIAEKKPSEKGPMRK   76 (116)
T ss_dssp             HHHTTHHHHHHHHHHHH----SCBCHHHHHHHHHTTSCSSCC------HH-HHHHHHHHHHHTTSEEEEEEECC--CEEE
T ss_pred             HHHhhhHHHHHHHHHhc----CCCCHHHHHHHHHHcCCCCCC------cc-HHHHHHHHHHHCCCEEEEeeecCCCCCce
Confidence            34444455556777776    699999999987      465      66 999999999999999854211 11    2


Q ss_pred             eEecChhchhhh
Q 024350           97 LYSLAPVSKYFV  108 (269)
Q Consensus        97 ~y~~t~~s~~l~  108 (269)
                      .|++|+.|+...
T Consensus        77 ~Y~lT~~G~~~l   88 (116)
T 3hhh_A           77 FYRLTSSGEAEL   88 (116)
T ss_dssp             EEEECHHHHHHH
T ss_pred             EEEECHHHHHHH
Confidence            499999887544

>3mwm_A ZUR, putative metal uptake regulation protein; FUR, regulatory metal, graded transcription regulation, transcription; 2.40A {Streptomyces coelicolor}

Probab=89.49  E-value=0.49  Score=35.76  Aligned_cols=61  Identities=13%  Similarity=0.150  Sum_probs=45.1

Q ss_pred             HHHhcChhHHHHhcCCCCCCCHHHHHHhC-----CCCCCCchhHHHHHHHHHHHHHhcCcccceee-cCCCeEecC
Q 024350           32 AVVELDVFEIITKAGPGAKLSVSEIVAQI-----PLKDNNPEAAAMMLDRVLRLLVSYNALHCSFV-DGQRLYSLA  101 (269)
Q Consensus        32 ~a~~lglfd~L~~~g~~~~~s~~eLA~~~-----~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~-~~~~~y~~t  101 (269)
                      +.-+.-|++.|...+  ++.|++||.+.+     +++      .. -+.|.|+.|+..|++.+... .+..+|..+
T Consensus        13 T~qR~~Il~~L~~~~--~h~sa~eI~~~l~~~~~~is------~a-TVYR~L~~L~e~Glv~~~~~~~g~~~Y~~~   79 (139)
T 3mwm_A           13 TRQRAAVSAALQEVE--EFRSAQELHDMLKHKGDAVG------LT-TVYRTLQSLADAGEVDVLRTAEGESVYRRC   79 (139)
T ss_dssp             HHHHHHHHHHHTTCS--SCEEHHHHHHHHHHTTCCCC------HH-HHHHHHHHHHHTTSSEEEECTTSCEEEECC
T ss_pred             CHHHHHHHHHHHhCC--CCCCHHHHHHHHHHhCCCCC------HH-HHHHHHHHHHHCCCEEEEEcCCCceEEEEC
Confidence            344566888887754  689999999988     454      56 89999999999999985421 123467664

>2zig_A TTHA0409, putative modification methylase; methyltransferase, S- adenosylmethionine, structural genomics, NPPSFA; 2.10A {Thermus thermophilus} PDB: 2zie_A* 2zif_A

Probab=89.41  E-value=0.54  Score=40.16  Aligned_cols=49  Identities=16%  Similarity=0.127  Sum_probs=35.8

Q ss_pred             HHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC
Q 024350          182 EKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS  234 (269)
Q Consensus       182 ~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~  234 (269)
                      ..++..+.  ....+|+|++||+|..+.++++.  +-+++++|+ |..++.+++
T Consensus       226 ~~~i~~~~--~~~~~vlD~f~GsGt~~~~a~~~--g~~~~g~e~~~~~~~~a~~  275 (297)
T 2zig_A          226 ERLVRMFS--FVGDVVLDPFAGTGTTLIAAARW--GRRALGVELVPRYAQLAKE  275 (297)
T ss_dssp             HHHHHHHC--CTTCEEEETTCTTTHHHHHHHHT--TCEEEEEESCHHHHHHHHH
T ss_pred             HHHHHHhC--CCCCEEEECCCCCCHHHHHHHHc--CCeEEEEeCCHHHHHHHHH
Confidence            34455443  23468999999999999998886  457899998 566665543

>2xvc_A ESCRT-III, SSO0910; cell cycle, cell division, cytokinesis, winged-helix; 2.15A {Sulfolobus solfataricus}

Probab=89.40  E-value=0.44  Score=30.08  Aligned_cols=45  Identities=13%  Similarity=0.235  Sum_probs=39.1

Q ss_pred             hcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCccc
Q 024350           35 ELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALH   88 (269)
Q Consensus        35 ~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~   88 (269)
                      +-.|.+.+..+|  |-+.++..|+..|++      .+ -+..+|+-|...|++.
T Consensus        12 e~~lL~yIr~sG--GildI~~~a~kygV~------kd-eV~~~LrrLe~KGLI~   56 (59)
T 2xvc_A           12 ERELLDYIVNNG--GFLDIEHFSKVYGVE------KQ-EVVKLLEALKNKGLIA   56 (59)
T ss_dssp             HHHHHHHHHHTT--SEEEHHHHHHHHCCC------HH-HHHHHHHHHHHTTSEE
T ss_pred             HHHHHHHHHHcC--CEEeHHHHHHHhCCC------HH-HHHHHHHHHHHCCCee
Confidence            345788888887  899999999999997      45 8899999999999986

>1xma_A Predicted transcriptional regulator; southea collaboratory for structural genomics, secsg, protein struc initiative, PSI; 2.30A {Clostridium thermocellum} SCOP: a.4.5.61

Probab=89.32  E-value=0.34  Score=37.02  Aligned_cols=66  Identities=15%  Similarity=0.249  Sum_probs=48.2

Q ss_pred             HHHhcChhHHHHhcCCCCCCCHHHHHHhC--------CCCCCCchhHHHHHHHHHHHHHhcCcccceeec---C--CCeE
Q 024350           32 AVVELDVFEIITKAGPGAKLSVSEIVAQI--------PLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVD---G--QRLY   98 (269)
Q Consensus        32 ~a~~lglfd~L~~~g~~~~~s~~eLA~~~--------~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~---~--~~~y   98 (269)
                      --.++-|+..|..    ++.+..+|++.+        +++      +. .+.++|+-|...|+|+.....   +  .-.|
T Consensus        40 g~~~~~IL~~L~~----~~~~gyeI~~~l~~~~~~~~~is------~g-tLy~~L~rLE~~GlI~~~~~~~~~~~~rk~Y  108 (145)
T 1xma_A           40 GYVDTIILSLLIE----GDSYGYEISKNIRIKTDELYVIK------ET-TLYSAFARLEKNGYIKSYYGEETQGKRRTYY  108 (145)
T ss_dssp             GTHHHHHHHHHHH----CCEEHHHHHHHHHHHHTTSCCCC------HH-HHHHHHHHHHHTTSEEEEEEEEC--CEEEEE
T ss_pred             CcHHHHHHHHHHh----CCCCHHHHHHHHHHhhCCccCcC------hh-HHHHHHHHHHHCCCEEEEEeccCCCCCeEEE
Confidence            3345566677766    589999988887        476      56 999999999999999854221   1  1359


Q ss_pred             ecChhchhhh
Q 024350           99 SLAPVSKYFV  108 (269)
Q Consensus        99 ~~t~~s~~l~  108 (269)
                      ++|+.|+.+.
T Consensus       109 ~LT~~G~~~l  118 (145)
T 1xma_A          109 RITPEGIKYY  118 (145)
T ss_dssp             EECHHHHHHH
T ss_pred             EECHHHHHHH
Confidence            9999887544

>2xig_A Ferric uptake regulation protein; hpfur, transcription, homeostasis; HET: CIT; 1.85A {Helicobacter pylori}

Probab=89.25  E-value=0.77  Score=35.12  Aligned_cols=61  Identities=23%  Similarity=0.309  Sum_probs=45.5

Q ss_pred             HHHhcChhHHHHhcCCCCCCCHHHHHHhC-----CCCCCCchhHHHHHHHHHHHHHhcCcccceeec-CCCeEecC
Q 024350           32 AVVELDVFEIITKAGPGAKLSVSEIVAQI-----PLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVD-GQRLYSLA  101 (269)
Q Consensus        32 ~a~~lglfd~L~~~g~~~~~s~~eLA~~~-----~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~-~~~~y~~t  101 (269)
                      +.-+.-|++.|...+  ++.|++||.+.+     +++      .. .+.|.|+.|+..|+|.+.... +..+|..+
T Consensus        26 T~qR~~IL~~l~~~~--~~~sa~ei~~~l~~~~~~is------~a-TVYR~L~~L~e~Glv~~~~~~~~~~~Y~~~   92 (150)
T 2xig_A           26 SKQREEVVSVLYRSG--THLSPEEITHSIRQKDKNTS------IS-SVYRILNFLEKENFISVLETSKSGRRYEIA   92 (150)
T ss_dssp             HHHHHHHHHHHHHCS--SCBCHHHHHHHHHHHSTTCC------HH-HHHHHHHHHHHTTSEEEEEETTTEEEEEES
T ss_pred             CHHHHHHHHHHHhCC--CCCCHHHHHHHHHHhCCCCC------Hh-hHHHHHHHHHHCCcEEEEEeCCCceEEEec
Confidence            445566899998754  689999999998     565      56 899999999999999854211 12347653

>1v4r_A Transcriptional repressor; helix-turn-helix, winged-helix, gene regulation; NMR {Streptomyces} SCOP: a.4.5.6

Probab=89.20  E-value=0.17  Score=36.02  Aligned_cols=51  Identities=24%  Similarity=0.257  Sum_probs=37.9

Q ss_pred             HHHHHHhcChhH-HHHhcCCCCCC-CHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccc
Q 024350           29 AMQAVVELDVFE-IITKAGPGAKL-SVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHC   89 (269)
Q Consensus        29 ~L~~a~~lglfd-~L~~~g~~~~~-s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~   89 (269)
                      .+...++..|.+ .+.. |  ..+ |..+||+.+|++      .. .+++.|+.|...|++..
T Consensus        15 ~l~~~i~~~I~~~~l~~-g--~~lps~~eLa~~~~vS------r~-tvr~al~~L~~~Gli~~   67 (102)
T 1v4r_A           15 DVATHFRTLIKSGELAP-G--DTLPSVADIRAQFGVA------AK-TVSRALAVLKSEGLVSS   67 (102)
T ss_dssp             HHHHHHHHHTTTTSCCT-T--SBCCCHHHHHHHSSSC------TT-HHHHHTTTTTTSSCCEE
T ss_pred             HHHHHHHHHHHhCCCCC-c--CCCcCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCEEE
Confidence            344444555554 2332 2  456 999999999998      56 89999999999999985

>1yg2_A Gene activator APHA; virulence factor, winged helix, transcripti factor, transcription; 2.20A {Vibrio cholerae} SCOP: a.4.5.61

Probab=88.76  E-value=0.59  Score=36.83  Aligned_cols=62  Identities=10%  Similarity=0.230  Sum_probs=46.4

Q ss_pred             HhcChhHHHHhcCCCCCCCHHHHHHhC--------CCCCCCchhHHHHHHHHHHHHHhcCcccceeec-----CCCeEec
Q 024350           34 VELDVFEIITKAGPGAKLSVSEIVAQI--------PLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVD-----GQRLYSL  100 (269)
Q Consensus        34 ~~lglfd~L~~~g~~~~~s~~eLA~~~--------~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~-----~~~~y~~  100 (269)
                      +++-|+..|..    +|.+.-||++.+        +++      .. .+.+.|+-|...|+|+.....     ..-.|++
T Consensus         3 l~~~iL~lL~~----~~~~gyel~~~l~~~~~~~~~~s------~~-~ly~~L~~Le~~GlI~~~~~~~~~~~~r~~Y~l   71 (179)
T 1yg2_A            3 LPHVILTVLST----RDATGYDITKEFSASIGYFWKAS------HQ-QVYRELNKMGEQGLVTCVLEPQEGKPDRKVYSI   71 (179)
T ss_dssp             HHHHHHHHHHH----CCBCHHHHHHHHTTGGGGTCCCC------HH-HHHHHHHHHHHTTSEEECCC---------CEEE
T ss_pred             hHHHHHHHHhc----CCCCHHHHHHHHHHHhCCccCCC------cC-cHHHHHHHHHHCCCeEEEeecCCCCCCceEEEe
Confidence            34556777876    699999999998        465      56 999999999999999853211     1235999


Q ss_pred             Chhchh
Q 024350          101 APVSKY  106 (269)
Q Consensus       101 t~~s~~  106 (269)
                      |+.|+.
T Consensus        72 T~~G~~   77 (179)
T 1yg2_A           72 TQAGRS   77 (179)
T ss_dssp             CHHHHH
T ss_pred             ChHHHH
Confidence            999984

>2qq9_A Diphtheria toxin repressor; regulator, DTXR, helix-turn-helix, metal ION, ACT DNA-binding, ferrous iron, transcription; 1.71A {Corynebacterium diphtheriae} PDB: 2tdx_A 1ddn_A 1g3t_A 1g3s_A 1g3w_A 2qqa_A 2qqb_A 2dtr_A 1bi0_A 1bi2_A 1bi3_A 1dpr_A 1bi1_A 1fwz_A 1g3y_A 1c0w_A* 3glx_A 1p92_A 1xcv_A 1f5t_A ...

Probab=88.60  E-value=0.59  Score=38.29  Aligned_cols=51  Identities=6%  Similarity=0.127  Sum_probs=41.8

Q ss_pred             CCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhchhhhcC
Q 024350           50 KLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSKYFVRN  110 (269)
Q Consensus        50 ~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s~~l~~~  110 (269)
                      +.+..+||+.++++      .. .+.++++-|...|++.+   .....+.+|+.|+.+...
T Consensus        24 ~~~~~~la~~l~vs------~~-tvs~~l~~Le~~GlV~r---~~~~~v~LT~~G~~~~~~   74 (226)
T 2qq9_A           24 TPLRARIAERLEQS------GP-TVSQTVARMERDGLVVV---ASDRSLQMTPTGRTLATA   74 (226)
T ss_dssp             CCBHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEEE---CTTSBEEECHHHHHHHHH
T ss_pred             CccHHHHHHHHCCC------HH-HHHHHHHHHHHCCCEEE---eCCCCeEECHHHHHHHHH
Confidence            34569999999998      66 89999999999999994   334679999999866533

>1jhg_A Trp operon repressor; complex (regulatory protein-peptide), DNA-binding regulatory complex (regulatory protein-peptide) complex; HET: TRP; 1.30A {Escherichia coli} SCOP: a.4.12.1 PDB: 1co0_A* 1mi7_R 1p6z_R 1wrp_R* 1zt9_A* 2oz9_R* 3ssw_R 3wrp_A 1rcs_A* 1wrs_R* 1wrt_R 2xdi_A 3ssx_R* 1trr_A* 1tro_A*

Probab=88.40  E-value=0.64  Score=33.22  Aligned_cols=42  Identities=14%  Similarity=0.154  Sum_probs=34.6

Q ss_pred             HHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhc
Q 024350           32 AVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSY   84 (269)
Q Consensus        32 ~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~   84 (269)
                      .+.++||+..|..    |+.|..|||+.+|++      .. .+.|+=|.|..+
T Consensus        44 l~~R~~l~~~L~~----ge~TQREIA~~lGiS------~s-tISRi~r~L~~l   85 (101)
T 1jhg_A           44 LGTRVRIIEELLR----GEMSQRELKNELGAG------IA-TITRGSNSLKAA   85 (101)
T ss_dssp             HHHHHHHHHHHHH----CCSCHHHHHHHHCCC------HH-HHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHc----CCcCHHHHHHHHCCC------hh-hhhHHHHHHHHc
Confidence            4556899999988    689999999999998      66 888887777543

>2g9w_A Conserved hypothetical protein; DNA-binding domain, bacterial transcription repressor, DNA B protein; 1.80A {Mycobacterium tuberculosis} SCOP: a.4.5.39

Probab=88.24  E-value=0.55  Score=35.19  Aligned_cols=48  Identities=17%  Similarity=0.149  Sum_probs=38.7

Q ss_pred             HhcChhHHHHhcCCCCCCCHHHHHHhCC----CCCCCchhHHHHHHHHHHHHHhcCcccce
Q 024350           34 VELDVFEIITKAGPGAKLSVSEIVAQIP----LKDNNPEAAAMMLDRVLRLLVSYNALHCS   90 (269)
Q Consensus        34 ~~lglfd~L~~~g~~~~~s~~eLA~~~~----~~~~~~~~~~~~l~rlL~~L~~~g~l~~~   90 (269)
                      .++.|+..|....  +++|..||++.++    ++      .. .+.++|+-|...|+|.+.
T Consensus        10 ~e~~vL~~L~~~~--~~~t~~el~~~l~~~~~~~------~~-Tvt~~l~rLe~kGlv~r~   61 (138)
T 2g9w_A           10 LERAVMDHLWSRT--EPQTVRQVHEALSARRDLA------YT-TVMAVLQRLAKKNLVLQI   61 (138)
T ss_dssp             HHHHHHHHHHTCS--SCEEHHHHHHHHTTTCCCC------HH-HHHHHHHHHHHTTSEEEE
T ss_pred             HHHHHHHHHHhcC--CCCCHHHHHHHHhccCCCC------HH-HHHHHHHHHHHCCCEEEE
Confidence            3556677777621  5899999999998    55      56 899999999999999953

>3elk_A Putative transcriptional regulator TA0346; structural genomics, PSI-2, prote structure initiative; 1.70A {Thermoplasma acidophilum}

Probab=88.23  E-value=0.39  Score=35.21  Aligned_cols=72  Identities=11%  Similarity=0.183  Sum_probs=52.0

Q ss_pred             HHHHHHHhcChhHHHHhcCCCCCCCHHHHHHhCC------CCCCCchhHHHHHHHHHHHHHhcCcccceeec-CC----C
Q 024350           28 AAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIP------LKDNNPEAAAMMLDRVLRLLVSYNALHCSFVD-GQ----R   96 (269)
Q Consensus        28 ~~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~~------~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~-~~----~   96 (269)
                      +.+.-..++-|+..|..    +|.+.-+|++.+.      ++      +. .+.+.|+-|...|+|+..... +.    -
T Consensus         9 ~l~~g~l~~~IL~lL~~----~p~~gyel~~~l~~~~~~~i~------~g-tly~~L~~Le~~GlI~~~~~~~~~~~~rk   77 (117)
T 3elk_A            9 RILHGLITLYILKELVK----RPMHGYELQKSMFETTGQALP------QG-SIYILLKTMKERGFVISESSVNEKGQQLT   77 (117)
T ss_dssp             HHHHHHHHHHHHHHHHH----SCEEHHHHHHHHHHHHSCCCC------TT-HHHHHHHHHHHHTSEEEEEEEC-CCCEEE
T ss_pred             HHHhhHHHHHHHHHHHc----CCCCHHHHHHHHHHHhCCCCC------cc-hHHHHHHHHHHCCCEEEEeeecCCCCCce
Confidence            34445556667777876    6899999998886      65      45 899999999999999854221 11    2


Q ss_pred             eEecChhchhhhcC
Q 024350           97 LYSLAPVSKYFVRN  110 (269)
Q Consensus        97 ~y~~t~~s~~l~~~  110 (269)
                      .|++|+.|+.....
T Consensus        78 ~Y~lT~~G~~~l~~   91 (117)
T 3elk_A           78 VYHITDAGKKFLCD   91 (117)
T ss_dssp             EEEECHHHHHHHHH
T ss_pred             EEEECHHHHHHHHH
Confidence            59999999854433

>2qy6_A UPF0209 protein YFCK; structural genomics, unknown function, PSI-2, protein struct initiative; 2.00A {Escherichia coli}

Probab=88.19  E-value=0.13  Score=43.30  Aligned_cols=33  Identities=15%  Similarity=0.269  Sum_probs=26.8

Q ss_pred             CccEEEEeCCCchHHHHHHHHH-------CCC-----CeEEEeeh
Q 024350          193 HVKKLVDVGGGLGATLNMIISK-------YPH-----IKGINYDL  225 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~-------~P~-----l~~vv~Dl  225 (269)
                      +..+|++||.|+|..+..+++.       +|+     ++++.+|.
T Consensus        60 ~~~~ILEiGfGtG~n~l~~~~~~~~~~~~~p~~~~~~l~~isiE~  104 (257)
T 2qy6_A           60 PLFVVAESGFGTGLNFLTLWQAFDQFREAHPQAQLQRLHFISFEK  104 (257)
T ss_dssp             SEEEEEESCCTTSHHHHHHHHHHHHHHHHCTTSSCCEEEEEEEES
T ss_pred             CCCEEEEECCChHHHHHHHHHHHHhhhhhCCCCCcceeEEEEEEC
Confidence            4579999999999988887665       784     67888885

>1z6r_A MLC protein; transcriptional repressor, ROK family protein, DNA binding P helix-turn-helix, phosphotransferase system; 2.70A {Escherichia coli} SCOP: a.4.5.63 c.55.1.10 c.55.1.10 PDB: 3bp8_A

Probab=87.34  E-value=0.71  Score=41.14  Aligned_cols=50  Identities=10%  Similarity=0.202  Sum_probs=41.9

Q ss_pred             HHHHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccc
Q 024350           30 MQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHC   89 (269)
Q Consensus        30 L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~   89 (269)
                      ++..-+..|++.|...   +++|..|||+.+|++      .. .+.++++.|...|++.+
T Consensus        13 ~r~~n~~~il~~l~~~---~~~sr~~la~~~~ls------~~-tv~~~v~~L~~~g~i~~   62 (406)
T 1z6r_A           13 IKQTNAGAVYRLIDQL---GPVSRIDLSRLAQLA------PA-SITKIVHEMLEAHLVQE   62 (406)
T ss_dssp             HHHHHHHHHHHHHHSS---CSCCHHHHHHHTTCC------HH-HHHHHHHHHHHHTSEEE
T ss_pred             HHHhHHHHHHHHHHHc---CCcCHHHHHHHHCCC------HH-HHHHHHHHHHHCCcEEe
Confidence            3444445588888886   599999999999998      66 89999999999999984

>4esb_A Transcriptional regulator, PADR family; DNA binding protein, HTH fold; 2.50A {Bacillus cereus}

Probab=86.63  E-value=0.73  Score=33.58  Aligned_cols=63  Identities=10%  Similarity=0.119  Sum_probs=46.0

Q ss_pred             hcChhHHHHhcCCCCCCCHHHHHHhCC------CCCCCchhHHHHHHHHHHHHHhcCcccceeec-CC----CeEecChh
Q 024350           35 ELDVFEIITKAGPGAKLSVSEIVAQIP------LKDNNPEAAAMMLDRVLRLLVSYNALHCSFVD-GQ----RLYSLAPV  103 (269)
Q Consensus        35 ~lglfd~L~~~g~~~~~s~~eLA~~~~------~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~-~~----~~y~~t~~  103 (269)
                      ++-|+..|..    +|.+--+|++.+.      ++      +. .+.++|+-|...|+|+..... +.    -.|++|+.
T Consensus        11 ~~~IL~~L~~----~~~~Gyei~~~l~~~~~~~is------~g-tlY~~L~rLe~~GlI~~~~~~~~~g~~rk~Y~LT~~   79 (115)
T 4esb_A           11 EGCILYIISQ----EEVYGYELSTKLNKHGFTFVS------EG-SIYPLLLRMQKEKLIEGTLKASSLGPKRKYYHITDK   79 (115)
T ss_dssp             HHHHHHHHHH----SCEEHHHHHHHHHHTTCTTCC------HH-HHHHHHHHHHHTTSEEEEEEECTTSCEEEEEEECHH
T ss_pred             HHHHHHHHHc----CCCCHHHHHHHHHHcCCCCCC------cC-hHHHHHHHHHHCCCeEEEeeecCCCCCcEEEEECHH
Confidence            3445666776    5899999998875      65      56 999999999999999854211 11    24999998


Q ss_pred             chhhh
Q 024350          104 SKYFV  108 (269)
Q Consensus       104 s~~l~  108 (269)
                      |+...
T Consensus        80 G~~~l   84 (115)
T 4esb_A           80 GLEQL   84 (115)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            87444

>2p8t_A Hypothetical protein PH0730; pyrococcus horikoshii OT3, STR genomics, PSI, protein structure initiative; 1.80A {Pyrococcus horikoshii} SCOP: a.4.5.72 d.74.4.2

Probab=86.42  E-value=0.88  Score=36.70  Aligned_cols=49  Identities=20%  Similarity=0.195  Sum_probs=41.2

Q ss_pred             CCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhchhhh
Q 024350           49 AKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSKYFV  108 (269)
Q Consensus        49 ~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s~~l~  108 (269)
                      ++++..+||+.+|++      +. .++..++-|...|+++..    .+...+|+.|+.+.
T Consensus        29 ~~V~~~~LA~~LgvS------~~-SV~~~lkkL~e~GLV~~~----~~Gv~LTe~G~~~A   77 (200)
T 2p8t_A           29 EPLGRKQISERLELG------EG-SVRTLLRKLSHLDIIRSK----QRGHFLTLKGKEIR   77 (200)
T ss_dssp             SCBCHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEEEC------CEEECHHHHHHH
T ss_pred             CCccHHHHHHHhCCC------HH-HHHHHHHHHHHCCCEEEe----CCCeEECHHHHHHH
Confidence            489999999999998      67 999999999999999952    26788999988443

>2ek5_A Predicted transcriptional regulators; helix-turn-helix, interwined alpha helices; 2.20A {Corynebacterium glutamicum atcc 13032} PDB: 2du9_A

Probab=86.38  E-value=1.1  Score=33.23  Aligned_cols=42  Identities=24%  Similarity=0.271  Sum_probs=34.3

Q ss_pred             CCC-CHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEe
Q 024350           49 AKL-SVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYS   99 (269)
Q Consensus        49 ~~~-s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~   99 (269)
                      ..+ |..+||+.+|++      .. .+++-|+.|...|++...  .+.|.|-
T Consensus        26 ~~LPse~~La~~~gvS------r~-tVr~Al~~L~~~Gli~~~--~g~G~~V   68 (129)
T 2ek5_A           26 QRVPSTNELAAFHRIN------PA-TARNGLTLLVEAGILYKK--RGIGMFV   68 (129)
T ss_dssp             SCBCCHHHHHHHTTCC------HH-HHHHHHHHHHTTTSEEEE--TTTEEEE
T ss_pred             CcCcCHHHHHHHHCcC------HH-HHHHHHHHHHHCCcEEEe--cCCEEEE
Confidence            456 899999999998      66 899999999999999853  3445554

>1sd4_A Penicillinase repressor; BLAI, MECI, methicillin, B-lactam, DNA binding PR; 2.00A {Staphylococcus aureus} SCOP: a.4.5.39 PDB: 1xsd_A

Probab=86.38  E-value=0.53  Score=34.35  Aligned_cols=47  Identities=23%  Similarity=0.292  Sum_probs=38.5

Q ss_pred             HhcChhHHHHhcCCCCCCCHHHHHHhCCC----CCCCchhHHHHHHHHHHHHHhcCcccce
Q 024350           34 VELDVFEIITKAGPGAKLSVSEIVAQIPL----KDNNPEAAAMMLDRVLRLLVSYNALHCS   90 (269)
Q Consensus        34 ~~lglfd~L~~~g~~~~~s~~eLA~~~~~----~~~~~~~~~~~l~rlL~~L~~~g~l~~~   90 (269)
                      .++.|+..|-..   +++|..|||+.++.    +      .. .+.++|+-|...|+|.+.
T Consensus        11 ~q~~vL~~L~~~---~~~t~~el~~~l~~~~~~~------~~-Tvt~~l~rLe~kGlv~R~   61 (126)
T 1sd4_A           11 AEWDVMNIIWDK---KSVSANEIVVEIQKYKEVS------DK-TIRTLITRLYKKEIIKRY   61 (126)
T ss_dssp             HHHHHHHHHHHS---SSEEHHHHHHHHHTTSCCC------HH-HHHHHHHHHHHTTSEEEE
T ss_pred             HHHHHHHHHHhc---CCCCHHHHHHHHhhcCCCC------hh-hHHHHHHHHHHCCceEEE
Confidence            355667777775   58999999999974    4      56 899999999999999954

>3tqn_A Transcriptional regulator, GNTR family; regulatory functions; 2.80A {Coxiella burnetii}

Probab=86.01  E-value=0.79  Score=33.18  Aligned_cols=43  Identities=12%  Similarity=0.232  Sum_probs=34.5

Q ss_pred             CCC-CHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEec
Q 024350           49 AKL-SVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSL  100 (269)
Q Consensus        49 ~~~-s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~  100 (269)
                      ..+ |..+||+.+|++      .. .+++.|+.|...|+++..  .+.|.|-.
T Consensus        31 ~~lPs~~~La~~~~vS------r~-tvr~al~~L~~~Gli~~~--~~~G~~V~   74 (113)
T 3tqn_A           31 EMIPSIRKISTEYQIN------PL-TVSKAYQSLLDDNVIEKR--RGLGMLVK   74 (113)
T ss_dssp             CEECCHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEEEE--TTTEEEEC
T ss_pred             CcCcCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCEEEe--cCCeEEEe
Confidence            456 899999999998      66 899999999999999853  34455543

>3i71_A Ethanolamine utilization protein EUTK; helix-turn-helix, unknown function; HET: FLC; 2.10A {Escherichia coli}

Probab=85.92  E-value=2.7  Score=26.48  Aligned_cols=50  Identities=20%  Similarity=0.274  Sum_probs=40.2

Q ss_pred             HHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecCh
Q 024350           40 EIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAP  102 (269)
Q Consensus        40 d~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~  102 (269)
                      ..|+.-.  ..+|+.|+|...|++      .+ ..+.-|+.|.+.|-+.+    ...+|++-|
T Consensus        10 all~s~~--QGMTaGEVAA~f~w~------Le-~ar~aLeqLf~~G~LRK----RsSRYrlkp   59 (68)
T 3i71_A           10 ALLTSVR--QGMTAGEVAAHFGWP------LE-KARNALEQLFSAGTLRK----RSSRYRLKP   59 (68)
T ss_dssp             HHHHHCT--TCBCHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEEE----ECCEEEECC
T ss_pred             HHHHHHh--ccccHHHHHHHhCCc------HH-HHHHHHHHHHhcchhhh----hccccccCc
Confidence            3444433  579999999999997      67 88999999999999994    257898865

>1mzb_A Ferric uptake regulation protein; ferric uptake regulator, iron, DTXR, gene regulation; 1.80A {Pseudomonas aeruginosa} SCOP: a.4.5.42

Probab=85.91  E-value=1.4  Score=33.00  Aligned_cols=60  Identities=15%  Similarity=0.275  Sum_probs=43.1

Q ss_pred             HhcChhHHHHhcCCCCCCCHHHHHHhC-----CCCCCCchhHHHHHHHHHHHHHhcCcccceee-cCCCeEecC
Q 024350           34 VELDVFEIITKAGPGAKLSVSEIVAQI-----PLKDNNPEAAAMMLDRVLRLLVSYNALHCSFV-DGQRLYSLA  101 (269)
Q Consensus        34 ~~lglfd~L~~~g~~~~~s~~eLA~~~-----~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~-~~~~~y~~t  101 (269)
                      -+.-|++.|...+ +++.|++||.+.+     +++      .. .+.|.|+.|+..|++.+... .+..+|..+
T Consensus        19 qR~~Il~~L~~~~-~~~~sa~ei~~~l~~~~~~is------~a-TVYR~L~~L~e~Glv~~~~~~~~~~~Y~~~   84 (136)
T 1mzb_A           19 PRVKILQMLDSAE-QRHMSAEDVYKALMEAGEDVG------LA-TVYRVLTQFEAAGLVVRHNFDGGHAVFELA   84 (136)
T ss_dssp             HHHHHHHHHHCC--CCSBCHHHHHHHHHHTTCCCC------HH-HHHHHHHHHHHHTSEEEECSSSSSCEEEES
T ss_pred             HHHHHHHHHHhCC-CCCCCHHHHHHHHHhhCCCCC------HH-HHHHHHHHHHHCCcEEEEEeCCCceEEEeC
Confidence            3455788887631 1489999999998     565      56 89999999999999985421 122457753

>3eld_A Methyltransferase; flavivirus, RNA capping, guanylyltransfer viral enzyme structure; HET: SFG; 1.90A {Wesselsbron virus} PDB: 3elu_A* 3elw_A* 3ely_A* 3emb_A* 3emd_A*

Probab=85.44  E-value=0.91  Score=38.90  Aligned_cols=35  Identities=17%  Similarity=0.255  Sum_probs=28.8

Q ss_pred             CCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh
Q 024350          191 FEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL  225 (269)
Q Consensus       191 ~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl  225 (269)
                      +....++|||||+.|.++.-++++.+-..++.+|+
T Consensus        79 ~~~g~~vlDLGaaPGgWsqva~~~~gv~sV~Gvdl  113 (300)
T 3eld_A           79 LRITGRVLDLGCGRGGWSYYAAAQKEVMSVKGYTL  113 (300)
T ss_dssp             CCCCEEEEEETCTTCHHHHHHHTSTTEEEEEEECC
T ss_pred             CCCCCEEEEcCCCCCHHHHHHHHhcCCceeeeEEe
Confidence            55678999999999999999998766555666776

>2pjp_A Selenocysteine-specific elongation factor; SELB, protein-RNA complex, elongation factor, winged- helix, bulge, translation/RNA complex; 2.30A {Escherichia coli}

Probab=84.96  E-value=0.66  Score=34.09  Aligned_cols=43  Identities=9%  Similarity=0.036  Sum_probs=35.6

Q ss_pred             CCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecC
Q 024350           49 AKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLA  101 (269)
Q Consensus        49 ~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t  101 (269)
                      .|.++.+||+.++++      +. .+..+|+.|+..|.+..   ...+.|-++
T Consensus        19 ~p~~~~~la~~~~~~------~~-~~~~~l~~l~~~G~l~~---i~~~~~~~~   61 (121)
T 2pjp_A           19 EPWWVRDLAKETGTD------EQ-AMRLTLRQAAQQGIITA---IVKDRYYRN   61 (121)
T ss_dssp             SCEEHHHHHHHTTCC------HH-HHHHHHHHHHHTTSEEE---EETTEEEEH
T ss_pred             CCCCHHHHHHHhCCC------HH-HHHHHHHHHHHCCCEEE---ecCCceECH
Confidence            377999999999997      66 88999999999999994   445666553

>1p4x_A Staphylococcal accessory regulator A homologue; winged-helix protein, transcription; 2.20A {Staphylococcus aureus} SCOP: a.4.5.28 a.4.5.28

Probab=84.92  E-value=0.83  Score=38.14  Aligned_cols=65  Identities=12%  Similarity=0.120  Sum_probs=47.4

Q ss_pred             cChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCC---eEecChhchhhh
Q 024350           36 LDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQR---LYSLAPVSKYFV  108 (269)
Q Consensus        36 lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~---~y~~t~~s~~l~  108 (269)
                      ..+...|-+.+ ++++|..|||+.++++      .. .+.++|+-|...|+|.+..-..+.   ...+|+.|+.+.
T Consensus        37 ~~vL~~L~~~~-~~~~~~~el~~~l~~~------~~-t~t~~l~rLe~~G~i~R~~~~~DrR~~~i~LT~~G~~~~  104 (250)
T 1p4x_A           37 FILLTYLFHQQ-ENTLPFKKIVSDLCYK------QS-DLVQHIKVLVKHSYISKVRSKIDERNTYISISEEQREKI  104 (250)
T ss_dssp             HHHHHHHHSCS-CSEEEHHHHHHHSSSC------GG-GTHHHHHHHHHTTSCEEEECSSSTTSEEEECCHHHHHHH
T ss_pred             HHHHHHHHhcC-CCCcCHHHHHHHHCCC------Hh-hHHHHHHHHHHCCCEEecCCCCCCCeEEEEECHHHHHHH
Confidence            34566666531 1479999999999998      56 899999999999999864222222   367888887654

>3by6_A Predicted transcriptional regulator; structural genomics, PSI-2, MCSG, structure initiative, midwest center for structural genomic binding; 2.20A {Oenococcus oeni}

Probab=84.53  E-value=0.99  Score=33.40  Aligned_cols=43  Identities=16%  Similarity=0.232  Sum_probs=35.0

Q ss_pred             CCC-CHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEec
Q 024350           49 AKL-SVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSL  100 (269)
Q Consensus        49 ~~~-s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~  100 (269)
                      ..+ |..+||+.+|++      .. .+++-|+.|...|++...  .+.|.|-.
T Consensus        33 ~~lPse~~La~~~~vS------r~-tvr~Al~~L~~~Gli~~~--~g~G~~V~   76 (126)
T 3by6_A           33 DQLPSVRETALQEKIN------PN-TVAKAYKELEAQKVIRTI--PGKGTFIT   76 (126)
T ss_dssp             CEECCHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEEEE--TTTEEEEC
T ss_pred             CcCcCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCEEEe--cCCeEEEc
Confidence            466 999999999998      56 899999999999999853  34555543

>3neu_A LIN1836 protein; structural genomics, PSI-2, protein structure initiative, MI center for structural genomics, MCSG, unknown function; 1.58A {Listeria innocua}

Probab=83.97  E-value=1.4  Score=32.42  Aligned_cols=43  Identities=19%  Similarity=0.247  Sum_probs=35.1

Q ss_pred             CCC-CHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEec
Q 024350           49 AKL-SVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSL  100 (269)
Q Consensus        49 ~~~-s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~  100 (269)
                      ..+ |..+||+.+|++      .. .+++-|..|...|+|...  .+.|.|-.
T Consensus        35 ~~Lps~~~La~~~~vS------r~-tvr~Al~~L~~~G~i~~~--~g~G~~V~   78 (125)
T 3neu_A           35 DKLPSVREMGVKLAVN------PN-TVSRAYQELERAGYIYAK--RGMGSFVT   78 (125)
T ss_dssp             CBCCCHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEEEE--TTTEEEEC
T ss_pred             CCCCCHHHHHHHHCcC------HH-HHHHHHHHHHHCCeEEEe--cCCEEEEe
Confidence            456 699999999998      66 999999999999999953  34566644

>2hoe_A N-acetylglucosamine kinase; TM1224, structural genomics, PSI-2, protein structure initiative, joint center structural genomics, JCSG; 2.46A {Thermotoga maritima} SCOP: a.4.5.63 c.55.1.10 c.55.1.10

Probab=83.84  E-value=0.87  Score=40.25  Aligned_cols=55  Identities=11%  Similarity=0.214  Sum_probs=41.0

Q ss_pred             HHHHHHHHHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccce
Q 024350           25 VLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCS   90 (269)
Q Consensus        25 ~~~~~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~   90 (269)
                      ..+.+++...+..|++.|. .   +++|..|||+.+|++      .. .+.++++-|...|++.+.
T Consensus        12 ~~~~~~~~~~~~~il~~l~-~---~~~sr~~la~~~gls------~~-tv~~~v~~L~~~gli~~~   66 (380)
T 2hoe_A           12 HMPKSVRAENISRILKRIM-K---SPVSRVELAEELGLT------KT-TVGEIAKIFLEKGIVVEE   66 (380)
T ss_dssp             ----------CCCSHHHHH-H---SCBCHHHHHHHHTCC------HH-HHHHHHHHHHHHTSEEEE
T ss_pred             cCchhHHHHHHHHHHHHHH-c---CCcCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCEEee
Confidence            3456777777888999999 6   599999999999998      67 899999999999999853

>2b0l_A GTP-sensing transcriptional pleiotropic repressor; CODY, DNA-binding, nucleotide-binding, transcript regulation, winged HTH motif.; 2.90A {Bacillus subtilis} SCOP: a.4.5.66

Probab=83.54  E-value=1.1  Score=31.92  Aligned_cols=34  Identities=21%  Similarity=0.296  Sum_probs=30.7

Q ss_pred             CCC-CHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccc
Q 024350           49 AKL-SVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHC   89 (269)
Q Consensus        49 ~~~-s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~   89 (269)
                      +.+ |..+||+.+|++      .. .+++-|+.|...|+|..
T Consensus        41 ~~lps~~eLa~~lgVS------r~-tVr~al~~L~~~GlI~~   75 (102)
T 2b0l_A           41 EGLLVASKIADRVGIT------RS-VIVNALRKLESAGVIES   75 (102)
T ss_dssp             EEEECHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEEE
T ss_pred             CcCCCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCEEE
Confidence            355 999999999998      67 99999999999999985

>2vxz_A Pyrsv_GP04; viral protein, SSPF, ORF165A; 1.7A {Pyrobaculum spherical virus}

Probab=83.54  E-value=1.3  Score=33.77  Aligned_cols=44  Identities=11%  Similarity=0.138  Sum_probs=38.1

Q ss_pred             cChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccce
Q 024350           36 LDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCS   90 (269)
Q Consensus        36 lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~   90 (269)
                      -.|.+.|. .   |+.|..+||+++|++      -. ...-+|..|.-.|++.+.
T Consensus        14 ~~ILE~Lk-~---G~~~t~~Iak~LGlS------hg-~aq~~Ly~LeREG~V~~V   57 (165)
T 2vxz_A           14 RDILALLA-D---GCKTTSLIQQRLGLS------HG-RAKALIYVLEKEGRVTRV   57 (165)
T ss_dssp             HHHHHHHT-T---CCEEHHHHHHHHTCC------HH-HHHHHHHHHHHTTSCEEE
T ss_pred             HHHHHHHH-h---CCccHHHHHHHhCCc------HH-HHHHHHHHHHhcCceEEE
Confidence            34678888 4   699999999999998      56 889999999999999854

>4ham_A LMO2241 protein; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, winged helix-turn-helix, four helix bundle; 1.91A {Listeria monocytogenes}

Probab=83.30  E-value=1.2  Score=33.26  Aligned_cols=43  Identities=14%  Similarity=0.275  Sum_probs=35.5

Q ss_pred             CCC-CHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEec
Q 024350           49 AKL-SVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSL  100 (269)
Q Consensus        49 ~~~-s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~  100 (269)
                      ..+ |..+||+.+|++      .. .+++-|+.|...|+|...  .+.|.|-.
T Consensus        36 ~~LPser~La~~~gVS------r~-tVReAl~~L~~eGlv~~~--~g~G~~V~   79 (134)
T 4ham_A           36 EKILSIREFASRIGVN------PN-TVSKAYQELERQEVIITV--KGKGTFIA   79 (134)
T ss_dssp             CEECCHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEEEE--TTTEEEEC
T ss_pred             CCCccHHHHHHHHCCC------HH-HHHHHHHHHHHCCcEEEE--cCcEEEEe
Confidence            456 889999999998      66 999999999999999863  45676643

>2o0m_A Transcriptional regulator, SORC family; structural genomics, protein structure initiative, midwest center for structural genomics, MCSG; 1.60A {Enterococcus faecalis} SCOP: c.124.1.8

Probab=82.75  E-value=0.25  Score=43.38  Aligned_cols=61  Identities=10%  Similarity=0.074  Sum_probs=0.0

Q ss_pred             HhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhchhhh
Q 024350           34 VELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSKYFV  108 (269)
Q Consensus        34 ~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s~~l~  108 (269)
                      -+..++..|...   +++|..|||+.++++      +. .++|.|+.|...|++...    .....+|+.|+.+.
T Consensus        21 r~~~iL~~l~~~---~~~t~~eLa~~l~vs------~~-Tv~r~l~~Le~~Glv~~~----~~gi~LT~~G~~~~   81 (345)
T 2o0m_A           21 ERFQILRNIYWM---QPIGRRSLSETMGIT------ER-VLRTETDVLKQLNLIEPS----KSGMTLTERGLEVY   81 (345)
T ss_dssp             ---------------------------------------------------------------------------
T ss_pred             HHHHHHHHHHHc---CCCCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCEEEE----ecceEEcHHHHHHH
Confidence            345677777775   589999999999998      66 999999999999999831    23366787777554

>3maj_A DNA processing chain A; MCSG, PSI-2, structural genomics, protein structure initiati midwest center for structural genomics; HET: DNA; 2.05A {Rhodopseudomonas palustris}

Probab=82.72  E-value=1  Score=40.12  Aligned_cols=52  Identities=15%  Similarity=0.279  Sum_probs=42.6

Q ss_pred             cChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecC
Q 024350           36 LDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLA  101 (269)
Q Consensus        36 lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t  101 (269)
                      ..|++.|..    +|.++++|++.+|++      .. .+...|-.|.-.|++.   +..++.|+++
T Consensus       331 ~~vl~~l~~----~~~~~D~l~~~~gl~------~~-~v~~~L~~LEl~G~v~---~~~Gg~~~~~  382 (382)
T 3maj_A          331 TRILALLGP----SPVGIDDLIRLSGIS------PA-VVRTILLELELAGRLE---RHGGSLVSLS  382 (382)
T ss_dssp             HHHHHHCCS----SCEEHHHHHHHHCCC------HH-HHHHHHHHHHHTTCCE---ECTTSEEEC-
T ss_pred             HHHHHhhCC----CCCCHHHHHHHHCcC------HH-HHHHHHHHHHhCCcEE---eCCCceEecC
Confidence            347788865    599999999999997      67 8899999999999999   4456788763

>2qlz_A Transcription factor PF0095; 2.50A {Pyrococcus furiosus} PDB: 2quf_A

Probab=82.53  E-value=3  Score=34.34  Aligned_cols=52  Identities=10%  Similarity=0.191  Sum_probs=42.6

Q ss_pred             ChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecCh
Q 024350           37 DVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAP  102 (269)
Q Consensus        37 glfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~  102 (269)
                      -|.-.|..    ++.|+++||+.+|++      ++ .+...|.-|...|+|+   +..+++....+
T Consensus       169 ~l~~~l~~----~~~t~~~la~~~~l~------~~-~V~~~l~~L~~~~~v~---~~~~~~~~~~~  220 (232)
T 2qlz_A          169 ILHYLLLN----GRATVEELSDRLNLK------ER-EVREKISEMARFVPVK---IINDNTVVLDE  220 (232)
T ss_dssp             HHHHHHHS----SEEEHHHHHHHHTCC------HH-HHHHHHHHHTTTSCEE---EETTTEEEECH
T ss_pred             HHHHHHhc----CCCCHHHHHHHhCcC------HH-HHHHHHHHHHhcCCeE---EecCCeEEecH
Confidence            34555665    699999999999998      77 9999999999999998   34578777654

>2uyo_A Hypothetical protein ML2640; putative methyltransferase, transferas; 1.7A {Mycobacterium leprae} SCOP: c.66.1.57 PDB: 2ckd_A 2uyq_A*

Probab=82.39  E-value=1.3  Score=38.16  Aligned_cols=73  Identities=14%  Similarity=0.146  Sum_probs=54.0

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCC-CCeEEEeehhHHHHhCC---------CCCCceEEecccCCcCC-----CC-----
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYP-HIKGINYDLLYVIKNAP---------SYPGIDHVGGDLFESVP-----KA-----  252 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P-~l~~vv~Dlp~vv~~a~---------~~~ri~~~~gD~~~~~P-----~g-----  252 (269)
                      +...||+||||-=+...++.  +| +++++-+|.|.|++..+         ..++..+++.|+.+.+.     .+     
T Consensus       102 g~~QvV~LGaGlDTra~Rl~--~~~~~~v~evD~P~vi~~k~~lL~~~~~~~~~~~~~v~~Dl~d~~~~~l~~~g~d~~~  179 (310)
T 2uyo_A          102 GIRQFVILASGLDSRAYRLD--WPTGTTVYEIDQPKVLAYKSTTLAEHGVTPTADRREVPIDLRQDWPPALRSAGFDPSA  179 (310)
T ss_dssp             TCCEEEEETCTTCCHHHHSC--CCTTCEEEEEECHHHHHHHHHHHHHTTCCCSSEEEEEECCTTSCHHHHHHHTTCCTTS
T ss_pred             CCCeEEEeCCCCCchhhhcc--CCCCcEEEEcCCHHHHHHHHHHHHhcCCCCCCCeEEEecchHhhHHHHHHhccCCCCC
Confidence            45789999999988876665  35 48889999999997533         23789999999986321     11     


Q ss_pred             -cEEEeccccccCCCC
Q 024350          253 -DTIFMKVICVCYLNS  267 (269)
Q Consensus       253 -D~~~l~~iLhd~~d~  267 (269)
                       =++++--+||+.+++
T Consensus       180 Pt~~i~Egvl~Yl~~~  195 (310)
T 2uyo_A          180 RTAWLAEGLLMYLPAT  195 (310)
T ss_dssp             CEEEEECSCGGGSCHH
T ss_pred             CEEEEEechHhhCCHH
Confidence             367777888888764

>1bia_A BIRA bifunctional protein; transcription regulation; 2.30A {Escherichia coli} SCOP: a.4.5.1 b.34.1.1 d.104.1.2 PDB: 1bib_A* 1hxd_A* 2ewn_A*

Probab=82.35  E-value=1.6  Score=37.68  Aligned_cols=56  Identities=14%  Similarity=0.233  Sum_probs=43.1

Q ss_pred             hcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecCh
Q 024350           35 ELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAP  102 (269)
Q Consensus        35 ~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~  102 (269)
                      +..|.+.|...   +.+|.++||+.++++      +. .++|-|+.|...|++... .. ...|++.+
T Consensus         7 ~~~Il~~L~~~---~~~s~~eLa~~l~vS------~~-ti~r~l~~L~~~G~~i~~-~~-g~GY~l~~   62 (321)
T 1bia_A            7 PLKLIALLANG---EFHSGEQLGETLGMS------RA-AINKHIQTLRDWGVDVFT-VP-GKGYSLPE   62 (321)
T ss_dssp             HHHHHHHHTTS---SCBCHHHHHHHHTSC------HH-HHHHHHHHHHHTTCCCEE-ET-TTEEECSS
T ss_pred             HHHHHHHHHcC---CCcCHHHHHHHHCCC------HH-HHHHHHHHHHhCCCcEEE-ec-CCCcEEee
Confidence            34567777653   589999999999998      77 999999999999998642 22 33577754

>2yu3_A DNA-directed RNA polymerase III 39 kDa polypeptide F variant; winged helix domain, RNA polymerase III C39 subunit, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=81.97  E-value=1.3  Score=31.19  Aligned_cols=48  Identities=21%  Similarity=0.286  Sum_probs=40.5

Q ss_pred             HhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccc
Q 024350           34 VELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHC   89 (269)
Q Consensus        34 ~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~   89 (269)
                      -+.-|+..+..+|. ..++..+|...++++      .. .+.++|+.|...+++..
T Consensus        38 ~E~lVy~~I~~aGn-~GIw~kdL~~~tnL~------~~-~vtkiLK~LE~k~lIK~   85 (95)
T 2yu3_A           38 QEKLVYQIIEDAGN-KGIWSRDVRYKSNLP------LT-EINKILKNLESKKLIKA   85 (95)
T ss_dssp             HHHHHHHHHHHHTT-SCEEHHHHHHHHTCC------HH-HHHHHHHHHHHHTSEEE
T ss_pred             HHHHHHHHHHHhCC-CCCCHHHHHHHhCCC------HH-HHHHHHHHHHhCCCEEE
Confidence            34557888888763 579999999999997      56 99999999999999984

>2py6_A Methyltransferase FKBM; YP_546752.1, structural genomics, JO center for structural genomics, JCSG, protein structure INI PSI-2; 2.15A {Methylobacillus flagellatus KT} SCOP: c.66.1.56

Probab=81.08  E-value=2.2  Score=38.15  Aligned_cols=41  Identities=17%  Similarity=0.209  Sum_probs=32.9

Q ss_pred             CCccEEEEeCCCchHHHHHHH-HHCCC-CeEEEee-hhHHHHhC
Q 024350          192 EHVKKLVDVGGGLGATLNMII-SKYPH-IKGINYD-LLYVIKNA  232 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~-~~~P~-l~~vv~D-lp~vv~~a  232 (269)
                      ++..+++|||++.|.++..++ +..|. .+++.++ .|...+..
T Consensus       225 ~~~~~viDvGAn~G~~s~~~a~~~~~~~~~V~afEP~p~~~~~L  268 (409)
T 2py6_A          225 SDSEKMVDCGASIGESLAGLIGVTKGKFERVWMIEPDRINLQTL  268 (409)
T ss_dssp             CSSCEEEEETCTTSHHHHHHHHHHTSCCSEEEEECCCHHHHHHH
T ss_pred             CCCCEEEECCCCcCHHHHHHHHHhcCCCCEEEEEcCCHHHHHHH
Confidence            456899999999999999988 67776 7899998 46665543

>2wk1_A NOVP; transferase, O-methyltransferase, novobiocin, TYLF superfamily; HET: SAH; 1.40A {Streptomyces caeruleus}

Probab=81.07  E-value=3  Score=35.39  Aligned_cols=33  Identities=15%  Similarity=-0.021  Sum_probs=26.3

Q ss_pred             CccEEEEeCCCchHHHHHHHHHC-----CCCeEEEeeh
Q 024350          193 HVKKLVDVGGGLGATLNMIISKY-----PHIKGINYDL  225 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~-----P~l~~vv~Dl  225 (269)
                      .+..||+||...|..++.+++..     |+-+++++|.
T Consensus       106 ~pg~IlEiGv~~G~Sai~ma~~l~~~g~~~~kI~~~Dt  143 (282)
T 2wk1_A          106 VPGDLVETGVWRGGACILMRGILRAHDVRDRTVWVADS  143 (282)
T ss_dssp             CCCEEEEECCTTSHHHHHHHHHHHHTTCCSCCEEEEEC
T ss_pred             CCCcEEEeecCchHHHHHHHHHhHhcCCCCCEEEEEEC
Confidence            46799999999999887776554     5778888883

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Length	Definition	E-value
Query	269
d1fp1d2	244	c.66.1.12 (D:129-372) Chalcone O-methyltransferase	2e-43
d1fp2a2	244	c.66.1.12 (A:109-352) Isoflavone O-methyltransfera	5e-43
d1kyza2	243	c.66.1.12 (A:120-362) Caffeic acid/5-hydroxyferuli	6e-43
d1fp1d1	110	a.4.5.29 (D:19-128) Chalcone O-methyltransferase {	4e-34
d1kyza1	107	a.4.5.29 (A:13-119) Caffeic acid/5-hydroxyferulic	7e-32
d1qzza2	256	c.66.1.12 (A:102-357) Aclacinomycin-10-hydroxylase	2e-21
d1tw3a2	253	c.66.1.12 (A:99-351) Carminomycin 4-O-methyltransf	2e-19
d1fp2a1	101	a.4.5.29 (A:8-108) Isoflavone O-methyltransferase	2e-14
d1tw3a1	85	a.4.5.29 (A:14-98) Carminomycin 4-O-methyltransfer	1e-08
d1qzza1	92	a.4.5.29 (A:10-101) Aclacinomycin-10-hydroxylase R	9e-07

>d1fp1d2 c.66.1.12 (D:129-372) Chalcone O-methyltransferase {Alfalfa (Medicago sativa) [TaxId: 3879]} Length = 244

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: Plant O-methyltransferase, C-terminal domain
domain: Chalcone O-methyltransferase
species: Alfalfa (Medicago sativa) [TaxId: 3879]

 Score =  146 bits (368), Expect = 2e-43
 Identities = 62/150 (41%), Positives = 89/150 (59%), Gaps = 1/150 (0%)

Query: 116 SLRPYMALSLDKVLMDGWFRLKGQILEGGI-AFNKAHGMHIYDYLGVDSSFNDVFSNGML 174
            L  +        L+  W   K  +++  I  F   HG+  Y+++G D   N +F+  M+
Sbjct: 3   YLASFTTFLCYPALLQVWMNFKEAVVDEDIDLFKNVHGVTKYEFMGKDKKMNQIFNKSMV 62

Query: 175 SHTSIVMEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPS 234
              +  M+++LE Y GFE +  LVDVGGG G  L +IISKYP IKGIN+DL  VI+NAP 
Sbjct: 63  DVCATEMKRMLEIYTGFEGISTLVDVGGGSGRNLELIISKYPLIKGINFDLPQVIENAPP 122

Query: 235 YPGIDHVGGDLFESVPKADTIFMKVICVCY 264
             GI+HVGGD+F SVP+ D + +K +C  +
Sbjct: 123 LSGIEHVGGDMFASVPQGDAMILKAVCHNW 152

>d1fp2a2 c.66.1.12 (A:109-352) Isoflavone O-methyltransferase {Alfalfa (Medicago sativa) [TaxId: 3879]} Length = 244

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: Plant O-methyltransferase, C-terminal domain
domain: Isoflavone O-methyltransferase
species: Alfalfa (Medicago sativa) [TaxId: 3879]

 Score =  144 bits (365), Expect = 5e-43
 Identities = 44/150 (29%), Positives = 75/150 (50%), Gaps = 1/150 (0%)

Query: 116 SLRPYMALSLDKVLMDGWFRLKGQILEGGI-AFNKAHGMHIYDYLGVDSSFNDVFSNGML 174
            L P +   LD  L   +  LK  I E  +  F    G   +D+L  +  +N  F++ M 
Sbjct: 2   CLAPMVECVLDPTLSGSYHELKKWIYEEDLTLFGVTLGSGFWDFLDKNPEYNTSFNDAMA 61

Query: 175 SHTSIVMEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPS 234
           S + ++   + +    F+ ++ +VDVGGG G T  +I   +P +K I +D   V++N   
Sbjct: 62  SDSKLINLALRDCDFVFDGLESIVDVGGGTGTTAKIICETFPKLKCIVFDRPQVVENLSG 121

Query: 235 YPGIDHVGGDLFESVPKADTIFMKVICVCY 264
              + +VGGD+F S+P AD + +K I   +
Sbjct: 122 SNNLTYVGGDMFTSIPNADAVLLKYILHNW 151

>d1kyza2 c.66.1.12 (A:120-362) Caffeic acid/5-hydroxyferulic acid 3/5-O-methyltransferase {Alfalfa (Medicago sativa) [TaxId: 3879]} Length = 243

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: Plant O-methyltransferase, C-terminal domain
domain: Caffeic acid/5-hydroxyferulic acid 3/5-O-methyltransferase
species: Alfalfa (Medicago sativa) [TaxId: 3879]

 Score =  144 bits (364), Expect = 6e-43
 Identities = 86/152 (56%), Positives = 116/152 (76%)

Query: 113 NGASLRPYMALSLDKVLMDGWFRLKGQILEGGIAFNKAHGMHIYDYLGVDSSFNDVFSNG 172
           +G S+     ++ DKVLM+ W+ LK  +L+GGI FNKA+GM  ++Y G D  FN VF+ G
Sbjct: 1   DGVSISALNLMNQDKVLMESWYHLKDAVLDGGIPFNKAYGMTAFEYHGTDPRFNKVFNKG 60

Query: 173 MLSHTSIVMEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNA 232
           M  H++I M+K+LE+Y GFE +K LVDVGGG GA +N I+SKYP IKGIN+DL +VI++A
Sbjct: 61  MSDHSTITMKKILETYTGFEGLKSLVDVGGGTGAVINTIVSKYPTIKGINFDLPHVIEDA 120

Query: 233 PSYPGIDHVGGDLFESVPKADTIFMKVICVCY 264
           PSYPG++HVGGD+F S+PKAD +FMK IC  +
Sbjct: 121 PSYPGVEHVGGDMFVSIPKADAVFMKWICHDW 152

>d1fp1d1 a.4.5.29 (D:19-128) Chalcone O-methyltransferase {Alfalfa (Medicago sativa) [TaxId: 3879]} Length = 110

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Plant O-methyltransferase, N-terminal domain
domain: Chalcone O-methyltransferase
species: Alfalfa (Medicago sativa) [TaxId: 3879]

 Score =  117 bits (295), Expect = 4e-34
 Identities = 40/110 (36%), Positives = 62/110 (56%), Gaps = 7/110 (6%)

Query: 8   EEEANNFSYAMELASAIVLPAAMQAVVELDVFEIITKAG-PGAKLSVSEIVAQIPLKDNN 66
           + E +    AM L + +V PA + A ++L++FEII KA  PGA +S SEI +++P    +
Sbjct: 1   QTEDSACLSAMVLTTNLVYPAVLNAAIDLNLFEIIAKATPPGAFMSPSEIASKLPASTQH 60

Query: 67  PEAAAMMLDRVLRLLVSYNALHCSFVDG-----QRLYSLAPVSKYFVRNN 111
            +     LDR+LRLL SY+ L  +         +R+Y L+ V KY V + 
Sbjct: 61  SDLPN-RLDRMLRLLASYSVLTSTTRTIEDGGAERVYGLSMVGKYLVPDE 109

>d1kyza1 a.4.5.29 (A:13-119) Caffeic acid/5-hydroxyferulic acid 3/5-O-methyltransferase {Alfalfa (Medicago sativa) [TaxId: 3879]} Length = 107

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Plant O-methyltransferase, N-terminal domain
domain: Caffeic acid/5-hydroxyferulic acid 3/5-O-methyltransferase
species: Alfalfa (Medicago sativa) [TaxId: 3879]

 Score =  111 bits (279), Expect = 7e-32
 Identities = 55/108 (50%), Positives = 71/108 (65%), Gaps = 10/108 (9%)

Query: 8   EEEANNFSYAMELASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNP 67
           +EEA    +AM+LASA VLP  +++ +ELD+ EII KAGPGA++S  EI +Q+P    NP
Sbjct: 4   DEEA--NLFAMQLASASVLPMILKSALELDLLEIIAKAGPGAQISPIEIASQLPTT--NP 59

Query: 68  EAAAMMLDRVLRLLVSYNALHCSFV-----DGQRLYSLAPVSKYFVRN 110
           +A   MLDR+LRLL  Y  L CS         QRLY LA V+KY V+N
Sbjct: 60  DAPV-MLDRMLRLLACYIILTCSVRTQQDGKVQRLYGLATVAKYLVKN 106

>d1qzza2 c.66.1.12 (A:102-357) Aclacinomycin-10-hydroxylase RdmB {Streptomyces purpurascens [TaxId: 1924]} Length = 256

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: Plant O-methyltransferase, C-terminal domain
domain: Aclacinomycin-10-hydroxylase RdmB
species: Streptomyces purpurascens [TaxId: 1924]

 Score = 88.5 bits (218), Expect = 2e-21
 Identities = 29/120 (24%), Positives = 51/120 (42%), Gaps = 2/120 (1%)

Query: 115 ASLRPYMALSLDKVLMD-GWFRLKGQILEGGIAFNKAHGMHIYDYLGVDSSFNDVFSNGM 173
           A  R ++ L+      D  +  L   +  G  A+   +G   ++ L  D +  D F   M
Sbjct: 3   AQQRAWLDLNGAVSHADLAFTGLLDVVRTGRPAYAGRYGRPFWEDLSADVALADSFDALM 62

Query: 174 LSHTSIVMEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAP 233
                +  E   ++Y  +  V+ ++DVGGG G  L  I  + PH++G   +L    + A 
Sbjct: 63  SCDEDLAYEAPADAYD-WSAVRHVLDVGGGNGGMLAAIALRAPHLRGTLVELAGPAERAR 121

>d1tw3a2 c.66.1.12 (A:99-351) Carminomycin 4-O-methyltransferase {Streptomyces peucetius [TaxId: 1950]} Length = 253

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: Plant O-methyltransferase, C-terminal domain
domain: Carminomycin 4-O-methyltransferase
species: Streptomyces peucetius [TaxId: 1950]

 Score = 82.8 bits (203), Expect = 2e-19
 Identities = 26/151 (17%), Positives = 52/151 (34%), Gaps = 2/151 (1%)

Query: 115 ASLRPYMALSLDKVLMD-GWFRLKGQILEGGIAFNKAHGMHIYDYLGVDSSFNDVFSNGM 173
           A+ R +  L+      D  + RL   I  G   +   +G   Y+ L         F + +
Sbjct: 2   AAQRAWHDLTQAVARADISFTRLPDAIRTGRPTYESIYGKPFYEDLAGRPDLRASFDSLL 61

Query: 174 LSHTSIVMEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAP 233
                +  +    +Y  + +V+ ++DVGGG G     I  + PH+     ++   +  A 
Sbjct: 62  ACDQDVAFDAPAAAYD-WTNVRHVLDVGGGKGGFAAAIARRAPHVSATVLEMAGTVDTAR 120

Query: 234 SYPGIDHVGGDLFESVPKADTIFMKVICVCY 264
           SY   + +   +            +      
Sbjct: 121 SYLKDEGLSDRVDVVEGDFFEPLPRKADAII 151

>d1fp2a1 a.4.5.29 (A:8-108) Isoflavone O-methyltransferase {Alfalfa (Medicago sativa) [TaxId: 3879]} Length = 101

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Plant O-methyltransferase, N-terminal domain
domain: Isoflavone O-methyltransferase
species: Alfalfa (Medicago sativa) [TaxId: 3879]

 Score = 65.3 bits (159), Expect = 2e-14
 Identities = 18/94 (19%), Positives = 40/94 (42%), Gaps = 7/94 (7%)

Query: 18  MELASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRV 77
            +   A +   +++  VE+++  II   G    +S+S +V+ + +    P +    + R+
Sbjct: 14  YKHIYAFIDSMSLKWAVEMNIPNIIQNHGKP--ISLSNLVSILQV----PSSKIGNVRRL 67

Query: 78  LRLLVSYNALHCSFVDGQRLYSLAPVSKYFVRNN 111
           +R L           +    Y+L   S+  VR +
Sbjct: 68  MRYLAHNGFFEIITKEE-ESYALTVASELLVRGS 100

>d1tw3a1 a.4.5.29 (A:14-98) Carminomycin 4-O-methyltransferase {Streptomyces peucetius [TaxId: 1950]} Length = 85

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Plant O-methyltransferase, N-terminal domain
domain: Carminomycin 4-O-methyltransferase
species: Streptomyces peucetius [TaxId: 1950]

 Score = 49.0 bits (117), Expect = 1e-08
 Identities = 15/93 (16%), Positives = 30/93 (32%), Gaps = 15/93 (16%)

Query: 18  MELASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRV 77
           + L S +  P  ++    L + + I         +V  + A+              L R+
Sbjct: 7   IRLGS-LHTPMVVRTAATLRLVDHILA----GARTVKALAARTD-------TRPEALLRL 54

Query: 78  LRLLVSYNALHCSFVDGQRLYSLAPVSKYFVRN 110
           +R LV+   L     D    +    V +    +
Sbjct: 55  IRHLVAIGLLEE---DAPGEFVPTEVGELLADD 84

>d1qzza1 a.4.5.29 (A:10-101) Aclacinomycin-10-hydroxylase RdmB {Streptomyces purpurascens [TaxId: 1924]} Length = 92

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Plant O-methyltransferase, N-terminal domain
domain: Aclacinomycin-10-hydroxylase RdmB
species: Streptomyces purpurascens [TaxId: 1924]

 Score = 44.0 bits (104), Expect = 9e-07
 Identities = 13/101 (12%), Positives = 30/101 (29%), Gaps = 12/101 (11%)

Query: 8   EEEANNFSYAMELASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNP 67
           E    +    ++    +V P A++    L + + +  AG     +++ +  +        
Sbjct: 2   EPTDQDLDVLLKNLGNLVTPMALRVAATLRLVDHL-LAGA---DTLAGLADRTDTH---- 53

Query: 68  EAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSKYFV 108
                 L R++R L     L        R      +     
Sbjct: 54  ---PQALSRLVRHLTVVGVLEGG-EKQGRPLRPTRLGMLLA 90

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	269
d1fp1d2	244	Chalcone O-methyltransferase {Alfalfa (Medicago sa	100.0
d1kyza2	243	Caffeic acid/5-hydroxyferulic acid 3/5-O-methyltra	100.0
d1fp2a2	244	Isoflavone O-methyltransferase {Alfalfa (Medicago	100.0
d1qzza2	256	Aclacinomycin-10-hydroxylase RdmB {Streptomyces pu	99.97
d1tw3a2	253	Carminomycin 4-O-methyltransferase {Streptomyces p	99.95
d1fp2a1	101	Isoflavone O-methyltransferase {Alfalfa (Medicago	99.8
d1tw3a1	85	Carminomycin 4-O-methyltransferase {Streptomyces p	99.7
d1kyza1	107	Caffeic acid/5-hydroxyferulic acid 3/5-O-methyltra	99.7
d1fp1d1	110	Chalcone O-methyltransferase {Alfalfa (Medicago sa	99.68
d1qzza1	92	Aclacinomycin-10-hydroxylase RdmB {Streptomyces pu	99.67
d2o57a1	282	Putative sarcosine dimethylglycine methyltransfera	99.06
d1nkva_	245	Hypothetical Protein YjhP {Escherichia coli [TaxId	98.94
d1vl5a_	231	Hypothetical protein BH2331 {Bacillus halodurans [	98.91
d1xxla_	234	Hypothetical protein YcgJ {Bacillus subtilis [TaxI	98.83
d1im8a_	225	Hypothetical protein HI0319 (YecO) {Haemophilus in	98.76
d2gh1a1	281	Methyltransferase BC2162 {Bacillus cereus [TaxId:	98.73
d1xtpa_	254	Hypothetical protein Lmaj004091aaa (LmjF30.0810) {	98.71
d2ex4a1	222	Adrenal gland protein AD-003 (C9orf32) {Human (Hom	98.69
d2i6ga1	198	Putative methyltransferase TehB {Salmonella typhim	98.62
d1ve3a1	226	Hypothetical protein PH0226 {Archaeon Pyrococcus h	98.58
d1p91a_	268	rRNA methyltransferase RlmA {Escherichia coli [Tax	98.56
d2p7ia1	225	Hypothetical protein ECA1738 {Erwinia carotovora [	98.55
d1dusa_	194	Hypothetical protein MJ0882 {Archaeon Methanococcu	98.44
d1vlma_	208	Possible histamine N-methyltransferase TM1293 {The	98.43
d2b3ta1	274	N5-glutamine methyltransferase, HemK {Escherichia	98.41
d2avna1	246	Hypothetical methyltransferase TM1389 {Thermotoga	98.41
d1wzna1	251	Hypothetical methyltransferase PH1305 {Archaeon Py	98.4
d1pjza_	201	Thiopurine S-methyltransferase {Pseudomonas syring	98.3
d1ri5a_	252	mRNA cap (Guanine N-7) methyltransferase {Fungus (	98.25
d1nw3a_	328	Catalytic, N-terminal domain of histone methyltran	98.22
d1l3ia_	186	Precorrin-6Y methyltransferase (CbiT) {Archaeon Me	98.21
d1y8ca_	246	Putative methyltransferase CAC2371 {Clostridium ac	98.2
d2fcaa1	204	tRNA (guanine-N(7)-)-methyltransferase TrmB {Bacil	98.2
d1dl5a1	213	Protein-L-isoaspartyl O-methyltransferase {Thermot	98.18
d2bzga1	229	Thiopurine S-methyltransferase {Human (Homo sapien	98.14
d1yzha1	204	tRNA (guanine-N(7)-)-methyltransferase TrmB {Strep	98.12
d1mkma1	75	Transcriptional regulator IclR, N-terminal domain	98.11
d1g8sa_	230	Fibrillarin homologue {Archaeon Methanococcus jann	98.0
d1i9ga_	264	Probable methyltransferase Rv2118c {Mycobacterium	98.0
d1jqea_	280	Histamine methyltransferase {Human (Homo sapiens)	97.99
d1m6ya2	192	TM0872, methyltransferase domain {Thermotoga marit	97.91
d1zx0a1	229	Guanidinoacetate methyltransferase {Human (Homo sa	97.9
d1yb2a1	250	Hypothetical protein Ta0852 {Thermoplasma acidophi	97.89
d1nt2a_	209	Fibrillarin homologue {Archaeon Archaeoglobus fulg	97.88
d2fk8a1	280	Methoxy mycolic acid synthase 4, Mma4 {Mycobacteri	97.86
d2nxca1	254	PrmA-like protein TTHA0656 (TT0836) {Thermus therm	97.86
d1i1na_	224	Protein-L-isoaspartyl O-methyltransferase {Human (	97.82
d1ne2a_	197	Hypothetical protein Ta1320 {Archaeon Thermoplasma	97.8
d1u2za_	406	Catalytic, N-terminal domain of histone methyltran	97.77
d1g6q1_	328	Arginine methyltransferase, HMT1 {Baker's yeast (S	97.75
d2fyta1	311	Protein arginine N-methyltransferase 3, PRMT3 {Hum	97.74
d1oria_	316	Protein arginine N-methyltransferase 1, PRMT1 {Rat	97.74
d1kpga_	285	CmaA1 {Mycobacterium tuberculosis [TaxId: 1773]}	97.68
d1vbfa_	224	Protein-L-isoaspartyl O-methyltransferase {Sulfolo	97.67
d1kpia_	291	CmaA2 {Mycobacterium tuberculosis [TaxId: 1773]}	97.64
d1xvaa_	292	Glycine N-methyltransferase {Rat (Rattus norvegicu	97.6
d1o54a_	266	Hypothetical protein TM0748 {Thermotoga maritima [	97.58
d2esra1	152	Putative methyltransferase SPy1538 {Streptococcus	97.53
d1nv8a_	271	N5-glutamine methyltransferase, HemK {Thermotoga m	97.45
d1wy7a1	201	Hypothetical protein PH1948 {Archaeon Pyrococcus h	97.45
d1jg1a_	215	Protein-L-isoaspartyl O-methyltransferase {Archaeo	97.39
d2h00a1	250	Methyltransferase 10 domain containing protein MET	97.37
d2b25a1	324	Hypothetical protein FLJ20628 {Human (Homo sapiens	97.35
d2frna1	260	Hypothetical protein PH0793 {Pyrococcus horikoshii	97.34
d1r18a_	223	Protein-L-isoaspartyl O-methyltransferase {Fruit f	97.32
d1qama_	235	rRNA adenine dimethylase {Bacillus subtilis, Ermc'	97.28
d1yuba_	245	rRNA adenine dimethylase {Streptococcus pneumoniae	97.22
d1uira_	312	Spermidine synthase {Thermus thermophilus [TaxId:	97.16
d1ub9a_	100	Hypothetical protein PH1061 {Archaeon Pyrococcus h	97.07
d2o07a1	285	Spermidine synthase {Human (Homo sapiens) [TaxId:	96.99
d1iy9a_	274	Spermidine synthase {Bacillus subtilis [TaxId: 142	96.96
d1inla_	295	Spermidine synthase {Thermotoga maritima [TaxId: 2	96.94
d1r1ta_	98	SmtB repressor {Cyanobacteria (Synechococcus), pcc	96.88
d1r1ua_	94	Metal-sensing transcriptional repressor CzrA {Stap	96.84
d1mjfa_	276	Putative spermidine synthetase PF0127 (SpeE) {Arch	96.8
d1xj5a_	290	Spermidine synthase {Thale cress (Arabidopsis thal	96.71
d1u2wa1	108	Cadmium efflux system accessory protein CadC {Stap	96.69
d2b2ca1	312	Spermidine synthase {Caenorhabditis elegans [TaxId	96.69
d2fpoa1	183	Methylase YhhF {Escherichia coli [TaxId: 562]}	96.63
d1af7a2	193	Chemotaxis receptor methyltransferase CheR, C-term	96.51
d2cl5a1	214	Catechol O-methyltransferase, COMT {Rat (Rattus no	96.41
d2a14a1	257	Indolethylamine N-methyltransferase, INMT {Human (	96.37
d1s3ja_	143	Putative transcriptional regulator YusO {Bacillus	96.29
d1ws6a1	171	Methyltransferase TTHA0928 {Thermus thermophilus [	96.22
d1sfxa_	109	Hypothetical protein AF2008 {Archaeoglobus fulgidu	96.12
d1lvaa3	64	C-terminal fragment of elongation factor SelB {Moo	96.09
d2p4wa1	194	Transcriptional regulatory protein PF1790 {Pyrococ	96.08
d2hr3a1	145	Probable transcriptional regulator PA3067 {Pseudom	96.05
d1biaa1	63	Biotin repressor, N-terminal domain {Escherichia c	96.04
d1wg8a2	182	TM0872, methyltransferase domain {Thermus thermoph	96.04
d1g8aa_	227	Fibrillarin homologue {Archaeon Pyrococcus horikos	96.03
d3ctaa1	85	Ta1064 (RFK), N-terminal domain {Thermoplasma acid	95.97
d1z05a1	71	Transcriptional regulator VC2007 N-terminal domain	95.95
d1j5ya1	65	Putative transcriptional regulator TM1602, N-termi	95.91
d1lnwa_	141	MexR repressor {Pseudomonas aeruginosa [TaxId: 287	95.89
d2etha1	140	Putative transcriptional regulator TM0816 {Thermot	95.81
d1z6ra1	70	Mlc protein N-terminal domain {Escherichia coli [T	95.71
d1xd7a_	127	Hypothetical protein ywnA {Bacillus subtilis [TaxI	95.63
d3broa1	135	Transcriptional regulator OEOE1854 {Oenococcus oen	95.61
d2hoea1	62	N-acetylglucosamine kinase {Thermotoga maritima [T	95.54
d2avda1	219	COMT domain-containing protein 1, COMTD1 {Human (H	95.52
d2as0a2	324	Hypothetical protein PH1915, middle and C-terminal	95.5
d2d1ha1	109	Hypothetical transcriptional regulator ST1889 {Sul	95.4
d1r7ja_	90	Sso10a (SSO10449) {Archaeon Sulfolobus solfataricu	95.37
d2a61a1	139	Transcriptional regulator TM0710 {Thermotoga marit	95.26
d2bv6a1	136	Transcriptional regulator MgrA {Staphylococcus aur	95.2
d1ylfa1	138	Hypothetical protein BC1842 {Bacillus cereus [TaxI	95.19
d1ulya_	190	Hypothetical protein PH1932 {Pyrococcus horikoshii	95.17
d1jgsa_	138	Multiple antibiotic resistance repressor, MarR {Es	95.09
d2fbha1	137	Transcriptional regulator PA3341 {Pseudomonas aeru	95.09
d2hzta1	95	Putative transcriptional regulator YtcD {Bacillus	95.08
d2f8la1	328	Hypothetical protein Lmo1582 {Listeria monocytogen	95.01
d2fhpa1	182	Putative methylase EF2452 {Enterococcus faecalis [	94.95
d1ej0a_	180	RNA methyltransferase FtsJ {Escherichia coli [TaxI	94.86
d1zq9a1	278	Probable dimethyladenosine transferase {Human (Hom	94.8
d1qyra_	252	High level kasugamycin resistance protein KsgA {Es	94.79
d2fbia1	136	Probable transcriptional regulator PA4135 {Pseudom	94.72
d3deua1	140	Transcriptional regulator SlyA {Salmonella typhimu	94.7
d1susa1	227	Caffeoyl-CoA O-methyltransferase {Alfalfa (Medicag	94.55
d2igta1	309	Putative methyltransferase Atu0340 {Agrobacterium	94.49
d2ih2a1	223	DNA methylase TaqI, N-terminal domain {Thermus aqu	94.48
d1hsja1	115	Staphylococcal accessory regulator A homolog, SarR	94.45
d1ku9a_	151	DNA-binding protein Mj223 {Archaeon Methanococcus	94.44
d1z91a1	137	Organic hydroperoxide resistance transcriptional r	94.4
d2cyya1	60	Putative transcriptional regulator PH1519 {Archaeo	94.39
d1lj9a_	144	Transcriptional regulator SlyA {Enterococcus faeca	94.26
d1i1ga1	60	LprA {Archaeon Pyrococcus furiosus [TaxId: 2261]}	94.26
d1yyva1	114	Putative transcriptional regulator YtfH {Salmonell	94.1
d1z7ua1	108	Hypothetical protein EF0647 {Enterococcus faecalis	94.08
d2cfxa1	63	Transcriptional regulator LrpC {Bacillus subtilis	94.03
d2fswa1	102	Hypothetical protein PG0823 {Porphyromonas gingiva	94.01
d2cg4a1	63	Regulatory protein AsnC {Escherichia coli [TaxId:	93.97
d2frha1	115	Pleiotropic regulator of virulence genes, SarA {St	93.97
d1wxxa2	318	Hypothetical protein TTHA1280, middle and C-termin	93.91
d2f2ea1	142	Hypothetical protein PA1607 {Pseudomonas aeruginos	93.82
d1p4xa2	125	Staphylococcal accessory regulator A homolog, SarS	93.79
d1j75a_	57	Dlm-1 {Mouse (Mus musculus) [TaxId: 10090]}	93.76
d1uwva2	358	rRNA (Uracil-5-)-methyltransferase RumA, catalytic	93.7
d2fbka1	172	Transcriptional regulator DR1159 {Deinococcus radi	93.7
d1jsxa_	207	Glucose-inhibited division protein B (GidB) {Esche	93.66
d1dpua_	69	C-terminal domain of RPA32 {Human (Homo sapiens) [	93.49
d2gxba1	59	Z-alpha domain of dsRNA-specific adenosine deamina	93.35
d2fxaa1	162	Protease production regulatory protein Hpr {Bacill	93.29
d1p4xa1	125	Staphylococcal accessory regulator A homolog, SarS	92.91
d2g72a1	263	Phenylethanolamine N-methyltransferase, PNMTase {H	92.81
d2obpa1	81	Putative DNA-binding protein ReutB4095 {Ralstonia	92.25
d1q1ha_	88	Transcription factor E/IIe-alpha, N-terminal domai	92.14
d1jhfa1	71	LexA repressor, N-terminal DNA-binding domain {Esc	91.51
d2b78a2	317	Hypothetical protein SMu776, middle and C-terminal	91.49
d1xmka1	73	Z-alpha domain of dsRNA-specific adenosine deamina	91.39
d2p41a1	257	An RNA cap (nucleoside-2'-O-)-methyltransferase do	91.33
d3bwga1	78	Transcriptional regulator YydK {Bacillus subtilis	91.0
d2hs5a1	69	Putative transcriptional regulator RHA1_ro03477 {R	90.82
d2ev0a1	61	Manganese transport regulator MntR {Bacillus subti	90.55
d1xdza_	239	Glucose-inhibited division protein B (GidB) {Bacil	90.52
d2p8ta1	69	Hypothetical protein PH0730 {Pyrococcus horikoshii	90.43
d1i4wa_	322	Transcription factor sc-mtTFB {Baker's yeast (Sacc	90.32
d2isya1	63	Iron-dependent regulator IdeR {Mycobacterium tuber	89.46
d2ifta1	183	Putative methylase HI0767 {Haemophilus influenzae	89.41
d1hw1a1	74	Fatty acid responsive transcription factor FadR, N	89.23
d1cf7a_	67	Cell cycle transcription factor E2F-4 {Human (Homo	87.99
d1zyba1	73	Probable transcription regulator BT4300, C-termina	87.72
d1ft9a1	80	CO-sensing protein CooA, C-terminal domain {Rhodos	86.88
d1bl0a1	54	MarA {Escherichia coli [TaxId: 562]}	84.55
d2gaua1	81	Transcriptional regulator PG0396, C-terminal domai	84.51
d1i5za1	69	Catabolite gene activator protein (CAP), C-termina	84.29
d1xn7a_	78	Hypothetical protein YhgG {Escherichia coli [TaxId	83.71
d2g9wa1	122	Hypothetical protein Rv1846c {Mycobacterium tuberc	83.02
d2zcwa1	82	Transcriptional regulator TTHA1359, C-terminal dom	82.88
d1okra_	120	Methicillin resistance regulatory protein MecI {St	82.52
d1sfua_	70	34L {Yaba-like disease virus, YLDV [TaxId: 132475]	82.35
d1zkda1	365	Hypothetical protein RPA4359 {Rhodopseudomonas pal	82.26
d1stza1	87	Heat-inducible transcription repressor HrcA, N-ter	81.28
d2okca1	425	Type I restriction enzyme StySJI M protein {Bacter	80.11

>d1fp1d2 c.66.1.12 (D:129-372) Chalcone O-methyltransferase {Alfalfa (Medicago sativa) [TaxId: 3879]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: Plant O-methyltransferase, C-terminal domain
domain: Chalcone O-methyltransferase
species: Alfalfa (Medicago sativa) [TaxId: 3879]

Probab=100.00  E-value=9.3e-37  Score=258.80  Aligned_cols=154  Identities=40%  Similarity=0.787  Sum_probs=134.0

Q ss_pred             ChHHHHHhhcChhhHhhhhhhHHHHhhCC-chhhhhhCCCchhccccCcchHHHHHHHHHhhchhhHHHHHHhccCCCCc
Q 024350          116 SLRPYMALSLDKVLMDGWFRLKGQILEGG-IAFNKAHGMHIYDYLGVDSSFNDVFSNGMLSHTSIVMEKVLESYKGFEHV  194 (269)
Q Consensus       116 ~~~~~~~~~~~~~~~~~~~~l~~~l~~~~-~~~~~~~g~~~~~~~~~~p~~~~~f~~~m~~~~~~~~~~~~~~~~~~~~~  194 (269)
                      |+++++.+++.|.++++|.+|++++++++ ++|+.++|.++|||+.+||+..+.|+++|...+....+.+++.|+.|++.
T Consensus         3 ~l~~~~~~~~~p~~~~~w~~l~~~v~~g~~~~f~~~~G~~~~e~l~~~p~~~~~F~~aM~~~s~~~~~~l~~~~~~f~~~   82 (244)
T d1fp1d2           3 YLASFTTFLCYPALLQVWMNFKEAVVDEDIDLFKNVHGVTKYEFMGKDKKMNQIFNKSMVDVCATEMKRMLEIYTGFEGI   82 (244)
T ss_dssp             CCTHHHHHHTCHHHHHHHTTHHHHHHSCC--------------CCSSCHHHHHHHHHHHHHHHHHHHHHHHHHCCTTTTC
T ss_pred             cHHHHHHHHhCHHHHHHHHHHHHHHhcCCCCHhHHhcCCCHHHHHhhCHHHHHHHHHHHHHHHHHHHHHHHHhcccccCC
Confidence            78899999888999999999999999876 57999999999999999999999999999999998888999999877899


Q ss_pred             cEEEEeCCCchHHHHHHHHHCCCCeEEEeehhHHHHhCCCCCCceEEecccCCcCCCCcEEEeccccccCCCCCC
Q 024350          195 KKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPSYPGIDHVGGDLFESVPKADTIFMKVICVCYLNSLS  269 (269)
Q Consensus       195 ~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp~vv~~a~~~~ri~~~~gD~~~~~P~gD~~~l~~iLhd~~d~~~  269 (269)
                      .+|||||||+|.++++++++||++++|++|+|+|++.+...+||++++||||+++|.+|+|++++|||+|+|++|
T Consensus        83 ~~vlDiGGG~G~~~~~l~~~~P~l~~~v~Dlp~vi~~~~~~~ri~~~~gd~~~~~p~~D~~~l~~vLh~~~de~~  157 (244)
T d1fp1d2          83 STLVDVGGGSGRNLELIISKYPLIKGINFDLPQVIENAPPLSGIEHVGGDMFASVPQGDAMILKAVCHNWSDEKC  157 (244)
T ss_dssp             SEEEEETCTTSHHHHHHHHHCTTCEEEEEECHHHHTTCCCCTTEEEEECCTTTCCCCEEEEEEESSGGGSCHHHH
T ss_pred             cEEEEecCCCcHHHHHHHHHCCCCeEEEecchhhhhccCCCCCeEEecCCcccccccceEEEEehhhhhCCHHHH
Confidence            999999999999999999999999999999999999988899999999999999998899999999999999875

>d1kyza2 c.66.1.12 (A:120-362) Caffeic acid/5-hydroxyferulic acid 3/5-O-methyltransferase {Alfalfa (Medicago sativa) [TaxId: 3879]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: Plant O-methyltransferase, C-terminal domain
domain: Caffeic acid/5-hydroxyferulic acid 3/5-O-methyltransferase
species: Alfalfa (Medicago sativa) [TaxId: 3879]

Probab=100.00  E-value=2.9e-36  Score=255.97  Aligned_cols=156  Identities=55%  Similarity=1.019  Sum_probs=146.8

Q ss_pred             CCChHHHHHhhcChhhHhhhhhhHHHHhhCCchhhhhhCCCchhccccCcchHHHHHHHHHhhchhhHHHHHHhccCCCC
Q 024350          114 GASLRPYMALSLDKVLMDGWFRLKGQILEGGIAFNKAHGMHIYDYLGVDSSFNDVFSNGMLSHTSIVMEKVLESYKGFEH  193 (269)
Q Consensus       114 ~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~g~~~~~~~~~~p~~~~~f~~~m~~~~~~~~~~~~~~~~~~~~  193 (269)
                      +.|+++++.+.+++.+++.|.+|++++|+|+++|+.++|+++|+|++++|+..+.|+++|...+....+.+++.++.+++
T Consensus         2 ~~s~~~~~~~~~~~~~~~~W~~L~~avrtG~~~f~~~~G~~~~~~~~~~p~~~~~F~~aM~~~~~~~~~~~~~~~~~~~~   81 (243)
T d1kyza2           2 GVSISALNLMNQDKVLMESWYHLKDAVLDGGIPFNKAYGMTAFEYHGTDPRFNKVFNKGMSDHSTITMKKILETYTGFEG   81 (243)
T ss_dssp             SCCTHHHHHHHTSHHHHGGGGGHHHHHHHCSCHHHHHHSSCHHHHGGGCHHHHHHHHHHHHHHHHHHHHHHHHHCCTTSS
T ss_pred             CCcHHHHHHHhcCHHHHHHHHHHHHHHhhCCCHHHhhcCCCHHHHHHhCHHHHHHHHHHHhHhhhhHHHHHHHhcccccC
Confidence            45899999888888899999999999999999999999999999999999999999999999988888899999983466


Q ss_pred             ccEEEEeCCCchHHHHHHHHHCCCCeEEEeehhHHHHhCCCCCCceEEecccCCcCCCCcEEEeccccccCCCCCC
Q 024350          194 VKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPSYPGIDHVGGDLFESVPKADTIFMKVICVCYLNSLS  269 (269)
Q Consensus       194 ~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp~vv~~a~~~~ri~~~~gD~~~~~P~gD~~~l~~iLhd~~d~~~  269 (269)
                      .++|||||||+|.++++++++||+++++++|+|+|++.+...+|++++++|||+++|.+|+|++++|||+|+|++|
T Consensus        82 ~~~vvDvGGG~G~~~~~l~~~~P~l~~~v~Dlp~vi~~~~~~~r~~~~~~d~~~~~P~ad~~~l~~vlh~~~d~~~  157 (243)
T d1kyza2          82 LKSLVDVGGGTGAVINTIVSKYPTIKGINFDLPHVIEDAPSYPGVEHVGGDMFVSIPKADAVFMKWICHDWSDEHC  157 (243)
T ss_dssp             CSEEEEETCTTSHHHHHHHHHCTTSEEEEEECTTTTTTCCCCTTEEEEECCTTTCCCCCSCEECSSSSTTSCHHHH
T ss_pred             CcEEEEecCCCcHHHHHHHHHCCCCeEEEcccHHhhhhcccCCceEEecccccccCCCcceEEEEEEeecCCHHHH
Confidence            8999999999999999999999999999999999999999999999999999999999999999999999999764

>d1fp2a2 c.66.1.12 (A:109-352) Isoflavone O-methyltransferase {Alfalfa (Medicago sativa) [TaxId: 3879]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: Plant O-methyltransferase, C-terminal domain
domain: Isoflavone O-methyltransferase
species: Alfalfa (Medicago sativa) [TaxId: 3879]

Probab=100.00  E-value=6.6e-35  Score=247.42  Aligned_cols=153  Identities=29%  Similarity=0.541  Sum_probs=140.0

Q ss_pred             ChHHHHHhhcChhhHhhhhhhHHHHhhCC-chhhhhhCCCchhccccCcchHHHHHHHHHhhchhhHHHHHHh-ccCCCC
Q 024350          116 SLRPYMALSLDKVLMDGWFRLKGQILEGG-IAFNKAHGMHIYDYLGVDSSFNDVFSNGMLSHTSIVMEKVLES-YKGFEH  193 (269)
Q Consensus       116 ~~~~~~~~~~~~~~~~~~~~l~~~l~~~~-~~~~~~~g~~~~~~~~~~p~~~~~f~~~m~~~~~~~~~~~~~~-~~~~~~  193 (269)
                      ++..++.++.+|.++..|..|++.++++. ++|+.++|+++|+|+.+||++.+.|+++|...+......+.+. ++ |++
T Consensus         2 s~ap~~~~~~~p~~~~~w~~l~~~~~~~~~~~f~~a~G~~~~e~l~~~pe~~~~F~~aM~~~s~~~~~~~~~~~~~-~~~   80 (244)
T d1fp2a2           2 CLAPMVECVLDPTLSGSYHELKKWIYEEDLTLFGVTLGSGFWDFLDKNPEYNTSFNDAMASDSKLINLALRDCDFV-FDG   80 (244)
T ss_dssp             CCHHHHHHHTCHHHHHGGGGHHHHHTCSSCCHHHHHHSSCHHHHHHHCHHHHHHHHHHHHHTHHHHHHHHHTCHHH-HTT
T ss_pred             ChHHHHHHHhCHHHHHHHHHHHHHHhcCCCCHHHHhhCCCHHHHHHhCHHHHHHHHHHhhhhhhhhhhhHhhhccc-ccC
Confidence            56788888888999999999999999885 6899999999999999999999999999999887766666543 45 788


Q ss_pred             ccEEEEeCCCchHHHHHHHHHCCCCeEEEeehhHHHHhCCCCCCceEEecccCCcCCCCcEEEeccccccCCCCCC
Q 024350          194 VKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPSYPGIDHVGGDLFESVPKADTIFMKVICVCYLNSLS  269 (269)
Q Consensus       194 ~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp~vv~~a~~~~ri~~~~gD~~~~~P~gD~~~l~~iLhd~~d~~~  269 (269)
                      ..+|||||||+|.++++++++||++++|++|+|+|++.+...+||++++||||+++|.+|+|++++|||||+|++|
T Consensus        81 ~~~vvDvGGG~G~~~~~l~~~~P~l~~~v~Dlp~vi~~~~~~~rv~~~~gD~f~~~p~aD~~~l~~vLHdw~d~~~  156 (244)
T d1fp2a2          81 LESIVDVGGGTGTTAKIICETFPKLKCIVFDRPQVVENLSGSNNLTYVGGDMFTSIPNADAVLLKYILHNWTDKDC  156 (244)
T ss_dssp             CSEEEEETCTTSHHHHHHHHHCTTCEEEEEECHHHHTTCCCBTTEEEEECCTTTCCCCCSEEEEESCGGGSCHHHH
T ss_pred             ceEEEEecCCccHHHHHHHHhCCCCeEEEecCHHHHHhCcccCceEEEecCcccCCCCCcEEEEEeecccCChHHH
Confidence            8999999999999999999999999999999999999998889999999999999987899999999999999875

>d1qzza2 c.66.1.12 (A:102-357) Aclacinomycin-10-hydroxylase RdmB {Streptomyces purpurascens [TaxId: 1924]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: Plant O-methyltransferase, C-terminal domain
domain: Aclacinomycin-10-hydroxylase RdmB
species: Streptomyces purpurascens [TaxId: 1924]

Probab=99.97  E-value=2.6e-31  Score=226.96  Aligned_cols=155  Identities=21%  Similarity=0.362  Sum_probs=139.5

Q ss_pred             CCChHHHHHhhcChh-hHhhhhhhHHHHhhCCchhhhhhCCCchhccccCcchHHHHHHHHHhhchhhHHHHHHhccCCC
Q 024350          114 GASLRPYMALSLDKV-LMDGWFRLKGQILEGGIAFNKAHGMHIYDYLGVDSSFNDVFSNGMLSHTSIVMEKVLESYKGFE  192 (269)
Q Consensus       114 ~~~~~~~~~~~~~~~-~~~~~~~l~~~l~~~~~~~~~~~g~~~~~~~~~~p~~~~~f~~~m~~~~~~~~~~~~~~~~~~~  192 (269)
                      |.++++|+.+..... ...+|.+|.+++|+|+++|+..+|.++|+|+.++|+..+.|+++|...+....+.+++.+| |+
T Consensus         2 p~~~~~~~~l~~~~~~~~~~~~~L~~~~rtG~~~~~~~~G~~~~e~~~~~p~~~~~f~~~m~~~~~~~~~~~~~~~d-~~   80 (256)
T d1qzza2           2 PAQQRAWLDLNGAVSHADLAFTGLLDVVRTGRPAYAGRYGRPFWEDLSADVALADSFDALMSCDEDLAYEAPADAYD-WS   80 (256)
T ss_dssp             TTCHHHHHCTTSHHHHHHGGGGGHHHHHHHSCCSHHHHHSSCHHHHHHHCHHHHHHHHHTCGGGSTTTTHHHHHTSC-CT
T ss_pred             cHHHHHHHhhcCchhhhHhhHHHHHHHHHhCCchhhhhhCCCHHHHHHhCHHHHHHHHHHHHhhHHHHHHHHHhcCC-Cc
Confidence            568899987653222 2347999999999999999999999999999999999999999999998888889999999 99


Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeehhHHHHhCCC-------CCCceEEecccCCcCCCC-cEEEeccccccC
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPS-------YPGIDHVGGDLFESVPKA-DTIFMKVICVCY  264 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp~vv~~a~~-------~~ri~~~~gD~~~~~P~g-D~~~l~~iLhd~  264 (269)
                      +.++|||||||+|.++.+++++||+++++++|+|++++.+++       .+||+++++|+|+++|.+ |+|++++|||+|
T Consensus        81 ~~~~vlDvG~G~G~~~~~l~~~~P~~~~~~~Dlp~~~~~a~~~~~~~~~~~ri~~~~~d~~~~~p~~~D~v~~~~vLh~~  160 (256)
T d1qzza2          81 AVRHVLDVGGGNGGMLAAIALRAPHLRGTLVELAGPAERARRRFADAGLADRVTVAEGDFFKPLPVTADVVLLSFVLLNW  160 (256)
T ss_dssp             TCCEEEEETCTTSHHHHHHHHHCTTCEEEEEECHHHHHHHHHHHHHTTCTTTEEEEECCTTSCCSCCEEEEEEESCGGGS
T ss_pred             cCCEEEEECCCCCHHHHHHHHhhcCcEEEEecChHHHHHHHHHHhhcCCcceeeeeeeeccccccccchhhhcccccccc
Confidence            999999999999999999999999999999999999987653       389999999999999976 999999999999


Q ss_pred             CCCCC
Q 024350          265 LNSLS  269 (269)
Q Consensus       265 ~d~~~  269 (269)
                      +|++|
T Consensus       161 ~d~~~  165 (256)
T d1qzza2         161 SDEDA  165 (256)
T ss_dssp             CHHHH
T ss_pred             CcHHH
Confidence            98753

>d1tw3a2 c.66.1.12 (A:99-351) Carminomycin 4-O-methyltransferase {Streptomyces peucetius [TaxId: 1950]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: Plant O-methyltransferase, C-terminal domain
domain: Carminomycin 4-O-methyltransferase
species: Streptomyces peucetius [TaxId: 1950]

Probab=99.95  E-value=3.7e-29  Score=213.08  Aligned_cols=152  Identities=21%  Similarity=0.388  Sum_probs=134.1

Q ss_pred             ChHHHHHhhc-ChhhHhhhhhhHHHHhhCCchhhhhhCCCchhccccCcchHHHHHHHHHhhchhhHHHHHHhccCCCCc
Q 024350          116 SLRPYMALSL-DKVLMDGWFRLKGQILEGGIAFNKAHGMHIYDYLGVDSSFNDVFSNGMLSHTSIVMEKVLESYKGFEHV  194 (269)
Q Consensus       116 ~~~~~~~~~~-~~~~~~~~~~l~~~l~~~~~~~~~~~g~~~~~~~~~~p~~~~~f~~~m~~~~~~~~~~~~~~~~~~~~~  194 (269)
                      .++.|..+.. ......+|.+|++++|+|+++|..++|+++|+|+.++|+..+.|+.+|+..+....+.+++.|| |++.
T Consensus         3 ~~r~~~~~~~~~~~~~~~~~~L~~~vr~G~~~~~~~~G~~~~~~~~~~~~~~~~f~~~m~~~~~~~~~~~~~~~d-~~~~   81 (253)
T d1tw3a2           3 AQRAWHDLTQAVARADISFTRLPDAIRTGRPTYESIYGKPFYEDLAGRPDLRASFDSLLACDQDVAFDAPAAAYD-WTNV   81 (253)
T ss_dssp             CHHHHTCTTSHHHHHGGGGGGHHHHHHHCCCCHHHHHSSCHHHHHHTCHHHHHHHHHHHTTTTTTTTHHHHHHSC-CTTC
T ss_pred             chhhhhCHHHHHhhccccHHHHHHHHHhCCchhhhccCCCHHHHHhhCHHHHHHHHHHHHHhHHHHHHHHHhhcC-CccC
Confidence            4555544321 1123458999999999999999999999999999999999999999999998888889999999 9999


Q ss_pred             cEEEEeCCCchHHHHHHHHHCCCCeEEEeehhHHHHhCCC-------CCCceEEecccCCcCCCC-cEEEeccccccCCC
Q 024350          195 KKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPS-------YPGIDHVGGDLFESVPKA-DTIFMKVICVCYLN  266 (269)
Q Consensus       195 ~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp~vv~~a~~-------~~ri~~~~gD~~~~~P~g-D~~~l~~iLhd~~d  266 (269)
                      ++|||||||+|.++..+++++|+++++++|+|++++.+++       .+||+++.+|+|+++|.+ |+|+++++||+|+|
T Consensus        82 ~~VLDvGcG~G~~~~~la~~~p~~~~~~~D~~~~~~~a~~~~~~~~~~~rv~~~~~D~~~~~~~~~D~v~~~~vlh~~~d  161 (253)
T d1tw3a2          82 RHVLDVGGGKGGFAAAIARRAPHVSATVLEMAGTVDTARSYLKDEGLSDRVDVVEGDFFEPLPRKADAIILSFVLLNWPD  161 (253)
T ss_dssp             SEEEEETCTTSHHHHHHHHHCTTCEEEEEECTTHHHHHHHHHHHTTCTTTEEEEECCTTSCCSSCEEEEEEESCGGGSCH
T ss_pred             CEEEEeCCCCCHHHHHHHHhcceeEEEEccCHHHHHHHHHHHHHhhcccchhhccccchhhcccchhheeeccccccCCc
Confidence            9999999999999999999999999999999999987754       289999999999988865 99999999999998


Q ss_pred             CC
Q 024350          267 SL  268 (269)
Q Consensus       267 ~~  268 (269)
                      ++
T Consensus       162 ~~  163 (253)
T d1tw3a2         162 HD  163 (253)
T ss_dssp             HH
T ss_pred             hh
Confidence            75

>d1fp2a1 a.4.5.29 (A:8-108) Isoflavone O-methyltransferase {Alfalfa (Medicago sativa) [TaxId: 3879]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Plant O-methyltransferase, N-terminal domain
domain: Isoflavone O-methyltransferase
species: Alfalfa (Medicago sativa) [TaxId: 3879]

Probab=99.80  E-value=5.3e-20  Score=133.50  Aligned_cols=98  Identities=18%  Similarity=0.278  Sum_probs=85.5

Q ss_pred             hHHHhhhHHHHHHHHHhhHHHHHHHHHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCc
Q 024350            7 QEEEANNFSYAMELASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNA   86 (269)
Q Consensus         7 ~~~~~~~~~~l~~~~~~~~~~~~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~   86 (269)
                      .+|..+++..+|++++||+.+++|++|+++||||+|.++|  +|+|++|||++++++   |.+++ .+.|+||+|++.|+
T Consensus         3 ~~e~~qaq~~l~~~~~gf~~s~aL~~aveLgi~d~l~~~~--~p~t~~eLa~~~~~~---~~~~~-~L~RlLR~L~~~gi   76 (101)
T d1fp2a1           3 PSEIFKAQALLYKHIYAFIDSMSLKWAVEMNIPNIIQNHG--KPISLSNLVSILQVP---SSKIG-NVRRLMRYLAHNGF   76 (101)
T ss_dssp             STHHHHHHHHHHHHHTTHHHHHHHHHHHHTTHHHHHHHHT--SCEEHHHHHHHHTCC---GGGHH-HHHHHHHHHHHTTS
T ss_pred             hHHHHHHHHHHHHHHHhHHHHHHHHHHHHcCcHHHHHHcC--CCCCHHHHHHHcCCC---Cccch-HHHHHHHHHHhCCc
Confidence            3578889999999999999999999999999999998876  799999999999995   33356 89999999999999


Q ss_pred             ccceeecCCCeEecChhchhhhcCC
Q 024350           87 LHCSFVDGQRLYSLAPVSKYFVRNN  111 (269)
Q Consensus        87 l~~~~~~~~~~y~~t~~s~~l~~~~  111 (269)
                      |.+. ..++++|++|+.|++|++++
T Consensus        77 ~~~~-~~~~~~Y~lt~~s~~Lv~~~  100 (101)
T d1fp2a1          77 FEII-TKEEESYALTVASELLVRGS  100 (101)
T ss_dssp             EEEE-ESSSEEEEECHHHHTTSTTS
T ss_pred             eeee-cCCCCeEecCHHHHHhhcCC
Confidence            9743 23467999999999988764

>d1tw3a1 a.4.5.29 (A:14-98) Carminomycin 4-O-methyltransferase {Streptomyces peucetius [TaxId: 1950]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Plant O-methyltransferase, N-terminal domain
domain: Carminomycin 4-O-methyltransferase
species: Streptomyces peucetius [TaxId: 1950]

Probab=99.70  E-value=2.2e-17  Score=116.09  Aligned_cols=84  Identities=17%  Similarity=0.279  Sum_probs=74.0

Q ss_pred             hHHHHHHHHHhhHHHHHHHHHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceee
Q 024350           13 NFSYAMELASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFV   92 (269)
Q Consensus        13 ~~~~l~~~~~~~~~~~~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~   92 (269)
                      +...+..+ .+++.+++|++|+++||||+|..    ||+|++|||+++|++      +. .+.|+||+|+++|+|+   +
T Consensus         2 a~~~l~~l-~~~~~~~aL~~av~L~ifd~l~~----gp~s~~eLA~~~g~~------~~-~l~rlLr~l~a~gl~~---e   66 (85)
T d1tw3a1           2 ALRTLIRL-GSLHTPMVVRTAATLRLVDHILA----GARTVKALAARTDTR------PE-ALLRLIRHLVAIGLLE---E   66 (85)
T ss_dssp             HHHHHHHH-HCSHHHHHHHHHHHTTHHHHHHT----TCCBHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEE---E
T ss_pred             HHHHHHHH-HchHHHHHHHHHHHcCcHHHhcc----CCCCHHHHHHHhCcC------hh-HHHHHHHHHHHCCCeE---e
Confidence            34454444 68899999999999999999976    799999999999997      67 9999999999999999   5


Q ss_pred             cCCCeEecChhchhhhcCC
Q 024350           93 DGQRLYSLAPVSKYFVRNN  111 (269)
Q Consensus        93 ~~~~~y~~t~~s~~l~~~~  111 (269)
                      ++++.|++|+.|+.|.+++
T Consensus        67 ~~~~~y~lt~~s~~L~~Dh   85 (85)
T d1tw3a1          67 DAPGEFVPTEVGELLADDH   85 (85)
T ss_dssp             EETTEEEECTTGGGGSTTS
T ss_pred             cCCCeEecCHHHHHhhcCC
Confidence            6689999999999988763

>d1kyza1 a.4.5.29 (A:13-119) Caffeic acid/5-hydroxyferulic acid 3/5-O-methyltransferase {Alfalfa (Medicago sativa) [TaxId: 3879]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Plant O-methyltransferase, N-terminal domain
domain: Caffeic acid/5-hydroxyferulic acid 3/5-O-methyltransferase
species: Alfalfa (Medicago sativa) [TaxId: 3879]

Probab=99.70  E-value=4.1e-17  Score=118.47  Aligned_cols=100  Identities=50%  Similarity=0.804  Sum_probs=84.3

Q ss_pred             HHhhhHHHHHHHHHhhHHHHHHHHHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCccc
Q 024350            9 EEANNFSYAMELASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALH   88 (269)
Q Consensus         9 ~~~~~~~~l~~~~~~~~~~~~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~   88 (269)
                      +++++....++++++++.+++|++|++|||||+|.+.|.++++|..|||.+++.+  ||+++. .|.|+||+|++.|+|.
T Consensus         3 ~dee~~l~a~~L~~~~v~pmaLk~AieLgI~DiI~~~G~~~~ls~~eia~~l~~~--~p~~~~-~L~RilR~Las~~vf~   79 (107)
T d1kyza1           3 SDEEANLFAMQLASASVLPMILKSALELDLLEIIAKAGPGAQISPIEIASQLPTT--NPDAPV-MLDRMLRLLACYIILT   79 (107)
T ss_dssp             CHHHHHHHHHHHHTTTHHHHHHHHHHHTTHHHHHHTTCTTCCBCHHHHHHTSSCC--CTTHHH-HHHHHHHHHHHTTSEE
T ss_pred             ccHHHHHHHHHHHHhhHHHHHHHHHHHcCCHHHHHHcCCCCCCCHHHHHHhcCCC--CCcchH-HHHHHHHHHHhcCceE
Confidence            4556667788999999999999999999999999998866789999999999987  665556 8999999999999997


Q ss_pred             ceeec-CCC----eEecChhchhhhcCC
Q 024350           89 CSFVD-GQR----LYSLAPVSKYFVRNN  111 (269)
Q Consensus        89 ~~~~~-~~~----~y~~t~~s~~l~~~~  111 (269)
                      +..+. ++|    .|.+||.|++|++++
T Consensus        80 ~~~~~~~dg~~~~~Y~LTpvsk~Lv~de  107 (107)
T d1kyza1          80 CSVRTQQDGKVQRLYGLATVAKYLVKNE  107 (107)
T ss_dssp             EEEEECTTSCEEEEEEECHHHHHHSCCT
T ss_pred             EeeecCCCCCeeeEEecchhHHhhcCCC
Confidence            54222 222    699999999998763

>d1fp1d1 a.4.5.29 (D:19-128) Chalcone O-methyltransferase {Alfalfa (Medicago sativa) [TaxId: 3879]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Plant O-methyltransferase, N-terminal domain
domain: Chalcone O-methyltransferase
species: Alfalfa (Medicago sativa) [TaxId: 3879]

Probab=99.68  E-value=8.7e-17  Score=117.06  Aligned_cols=102  Identities=38%  Similarity=0.614  Sum_probs=84.6

Q ss_pred             HHhhhHHHHHHHHHhhHHHHHHHHHHhcChhHHHHhcC-CCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcc
Q 024350            9 EEANNFSYAMELASAIVLPAAMQAVVELDVFEIITKAG-PGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNAL   87 (269)
Q Consensus         9 ~~~~~~~~l~~~~~~~~~~~~L~~a~~lglfd~L~~~g-~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l   87 (269)
                      +++++....++++++++.+++|++|++|||||+|.++| +++++|+.|||.++..++.||..+. .|.|+||+|++.|+|
T Consensus         2 ~~~~~~l~a~~L~~~~v~pMaLk~AieLgI~diI~~~G~~~~~ls~~ela~~lp~~~~~p~~~~-~L~RiLRlLas~~vf   80 (110)
T d1fp1d1           2 TEDSACLSAMVLTTNLVYPAVLNAAIDLNLFEIIAKATPPGAFMSPSEIASKLPASTQHSDLPN-RLDRMLRLLASYSVL   80 (110)
T ss_dssp             CHHHHHHHHHHHHHTTHHHHHHHHHHHTTHHHHHHTCSSTTCCBCHHHHHTTSCGGGCCTTHHH-HHHHHHHHHHHTTSE
T ss_pred             chHHHHHHHHHHHHhhHHHHHHHHHHHcCCHHHHHHcCCCCCCCCHHHHHHhCCCCCCCccHHH-HHHHHHHHHHHcCcc
Confidence            56778899999999999999999999999999999886 3356899999999886444565456 899999999999999


Q ss_pred             cceeec-CCC----eEecChhchhhhcCC
Q 024350           88 HCSFVD-GQR----LYSLAPVSKYFVRNN  111 (269)
Q Consensus        88 ~~~~~~-~~~----~y~~t~~s~~l~~~~  111 (269)
                      ++..+. ++|    .|.+||.|++|++++
T Consensus        81 ~~~~~~~~~g~~e~~Y~Ltpvsk~Lv~de  109 (110)
T d1fp1d1          81 TSTTRTIEDGGAERVYGLSMVGKYLVPDE  109 (110)
T ss_dssp             EEEEEECTTSCEEEEEEECTTGGGGSTTC
T ss_pred             ccccccCCCCCeeeEEecchhhHhhcCCC
Confidence            754222 122    599999999999875

>d1qzza1 a.4.5.29 (A:10-101) Aclacinomycin-10-hydroxylase RdmB {Streptomyces purpurascens [TaxId: 1924]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Plant O-methyltransferase, N-terminal domain
domain: Aclacinomycin-10-hydroxylase RdmB
species: Streptomyces purpurascens [TaxId: 1924]

Probab=99.67  E-value=3.7e-17  Score=116.36  Aligned_cols=88  Identities=11%  Similarity=0.189  Sum_probs=78.0

Q ss_pred             HhhhHHHHHHHHHhhHHHHHHHHHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccc
Q 024350           10 EANNFSYAMELASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHC   89 (269)
Q Consensus        10 ~~~~~~~l~~~~~~~~~~~~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~   89 (269)
                      ..+++..+++++.+++.+++|++|+++||||+|..    ||+|++|||+++|++      ++ .+.|+||+|+++|+|++
T Consensus         4 ~d~~~d~ll~~~~~~~~~~~L~~aveL~ifd~L~~----gp~t~~eLA~~~g~~------~~-~l~rLlr~L~a~gll~~   72 (92)
T d1qzza1           4 TDQDLDVLLKNLGNLVTPMALRVAATLRLVDHLLA----GADTLAGLADRTDTH------PQ-ALSRLVRHLTVVGVLEG   72 (92)
T ss_dssp             CHHHHHHHHHTTTCCHHHHHHHHHHHTTHHHHHHT----TCCSHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEEC
T ss_pred             cchhHHHHHHHHHchHHHHHHHHHHHcCchHHHhC----CCCCHHHHHHHHCcC------ch-HHHHHHHHHHHCCCeee
Confidence            35788899999999999999999999999999987    799999999999997      77 99999999999999995


Q ss_pred             eeecCCCeEecChhchhhhc
Q 024350           90 SFVDGQRLYSLAPVSKYFVR  109 (269)
Q Consensus        90 ~~~~~~~~y~~t~~s~~l~~  109 (269)
                      . +++.+.|++|+.|..|.+
T Consensus        73 ~-~d~~~~~~~t~~g~lL~d   91 (92)
T d1qzza1          73 G-EKQGRPLRPTRLGMLLAD   91 (92)
T ss_dssp             C-CC-CCCCEECTTGGGGST
T ss_pred             e-cCCCceecccHHHHhccC
Confidence            3 223457999999998875

>d2o57a1 c.66.1.18 (A:16-297) Putative sarcosine dimethylglycine methyltransferase {Red algae (Galdieria sulphuraria) [TaxId: 130081]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: Mycolic acid cyclopropane synthase
domain: Putative sarcosine dimethylglycine methyltransferase
species: Red algae (Galdieria sulphuraria) [TaxId: 130081]

Probab=99.06  E-value=1.3e-10  Score=98.43  Aligned_cols=97  Identities=13%  Similarity=0.174  Sum_probs=74.5

Q ss_pred             HHHHHHhhchhhHHHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC-------CCCceE
Q 024350          169 FSNGMLSHTSIVMEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS-------YPGIDH  240 (269)
Q Consensus       169 f~~~m~~~~~~~~~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~-------~~ri~~  240 (269)
                      +..++..........+....+ ++...+|||||||+|.++..+++++ +.+++++|+ |..++.+++       .++|++
T Consensus        44 ~~~a~~~~~~~~~~~l~~~~~-l~~~~~vLDiGcG~G~~~~~la~~~-~~~v~gvD~s~~~i~~a~~~~~~~gl~~~v~~  121 (282)
T d2o57a1          44 IREASLRTDEWLASELAMTGV-LQRQAKGLDLGAGYGGAARFLVRKF-GVSIDCLNIAPVQNKRNEEYNNQAGLADNITV  121 (282)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTC-CCTTCEEEEETCTTSHHHHHHHHHH-CCEEEEEESCHHHHHHHHHHHHHHTCTTTEEE
T ss_pred             HHHHHHHHHHHHHHHHHHhcC-CCCCCEEEEeCCCCcHHHhhhhccC-CcEEEEEeccchhhhhhhcccccccccccccc
Confidence            333443333333344555555 7778999999999999999999876 678999997 777776664       279999


Q ss_pred             EecccCC-cCCCC--cEEEeccccccCCCC
Q 024350          241 VGGDLFE-SVPKA--DTIFMKVICVCYLNS  267 (269)
Q Consensus       241 ~~gD~~~-~~P~g--D~~~l~~iLhd~~d~  267 (269)
                      +.+|+.+ ++|.+  |+|+...+||+++|.
T Consensus       122 ~~~d~~~l~~~~~sfD~V~~~~~l~h~~d~  151 (282)
T d2o57a1         122 KYGSFLEIPCEDNSYDFIWSQDAFLHSPDK  151 (282)
T ss_dssp             EECCTTSCSSCTTCEEEEEEESCGGGCSCH
T ss_pred             cccccccccccccccchhhccchhhhccCH
Confidence            9999988 77754  999999999999864

>d1nkva_ c.66.1.21 (A:) Hypothetical Protein YjhP {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: Hypothetical Protein YjhP
domain: Hypothetical Protein YjhP
species: Escherichia coli [TaxId: 562]

Probab=98.94  E-value=1e-09  Score=90.94  Aligned_cols=84  Identities=14%  Similarity=0.113  Sum_probs=69.4

Q ss_pred             HHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC-------CCCceEEecccCCcCCC-C
Q 024350          182 EKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS-------YPGIDHVGGDLFESVPK-A  252 (269)
Q Consensus       182 ~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~-------~~ri~~~~gD~~~~~P~-g  252 (269)
                      ..+.+.+. +....+|||||||+|.++..++++++ .+++++|+ |..++.+++       .+||+++.+|+.+..|. .
T Consensus        23 ~~l~~~~~-l~pg~~VLDiGCG~G~~~~~la~~~~-~~v~GvD~s~~~~~~ar~~~~~~gl~~~v~~~~~d~~~~~~~~~  100 (245)
T d1nkva_          23 ATLGRVLR-MKPGTRILDLGSGSGEMLCTWARDHG-ITGTGIDMSSLFTAQAKRRAEELGVSERVHFIHNDAAGYVANEK  100 (245)
T ss_dssp             HHHHHHTC-CCTTCEEEEETCTTCHHHHHHHHHTC-CEEEEEESCHHHHHHHHHHHHHTTCTTTEEEEESCCTTCCCSSC
T ss_pred             HHHHHHcC-CCCCCEEEEEcCCCCHHHHHHHHhcC-CEEEEEecccchhhHHHHHHHHhhccccchhhhhHHhhccccCc
Confidence            34566666 77778999999999999999998876 79999998 777776654       27899999999886564 3


Q ss_pred             -cEEEeccccccCCCC
Q 024350          253 -DTIFMKVICVCYLNS  267 (269)
Q Consensus       253 -D~~~l~~iLhd~~d~  267 (269)
                       |+++...++|.++|.
T Consensus       101 fD~v~~~~~~~~~~d~  116 (245)
T d1nkva_         101 CDVAACVGATWIAGGF  116 (245)
T ss_dssp             EEEEEEESCGGGTSSS
T ss_pred             eeEEEEEehhhccCCH
Confidence             999999999999874

>d1vl5a_ c.66.1.41 (A:) Hypothetical protein BH2331 {Bacillus halodurans [TaxId: 86665]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: UbiE/COQ5-like
domain: Hypothetical protein BH2331
species: Bacillus halodurans [TaxId: 86665]

Probab=98.91  E-value=9.6e-10  Score=89.78  Aligned_cols=83  Identities=18%  Similarity=0.261  Sum_probs=67.9

Q ss_pred             HHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC------CCCceEEecccCC-cCCCC-
Q 024350          182 EKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS------YPGIDHVGGDLFE-SVPKA-  252 (269)
Q Consensus       182 ~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~------~~ri~~~~gD~~~-~~P~g-  252 (269)
                      ..+++..+ +.+..+|||||||+|.++..++++.+  +++.+|+ |..++.|++      .++|+++.+|+.+ ++|.+ 
T Consensus         5 ~~ll~~~~-l~~~~rVLDiGcG~G~~~~~l~~~~~--~v~gvD~s~~~i~~A~~~~~~~~~~~i~~~~~d~~~l~~~~~~   81 (231)
T d1vl5a_           5 AKLMQIAA-LKGNEEVLDVATGGGHVANAFAPFVK--KVVAFDLTEDILKVARAFIEGNGHQQVEYVQGDAEQMPFTDER   81 (231)
T ss_dssp             HHHHHHHT-CCSCCEEEEETCTTCHHHHHHGGGSS--EEEEEESCHHHHHHHHHHHHHTTCCSEEEEECCC-CCCSCTTC
T ss_pred             HHHHHhcC-CCCcCEEEEecccCcHHHHHHHHhCC--EEEEEECCHHHHhhhhhcccccccccccccccccccccccccc
Confidence            35666666 77889999999999999999998875  5788997 777776643      3889999999988 77754 


Q ss_pred             -cEEEeccccccCCCC
Q 024350          253 -DTIFMKVICVCYLNS  267 (269)
Q Consensus       253 -D~~~l~~iLhd~~d~  267 (269)
                       |++++.++||.++|.
T Consensus        82 fD~v~~~~~l~~~~d~   97 (231)
T d1vl5a_          82 FHIVTCRIAAHHFPNP   97 (231)
T ss_dssp             EEEEEEESCGGGCSCH
T ss_pred             cccccccccccccCCH
Confidence             999999999999874

>d1xxla_ c.66.1.41 (A:) Hypothetical protein YcgJ {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: UbiE/COQ5-like
domain: Hypothetical protein YcgJ
species: Bacillus subtilis [TaxId: 1423]

Probab=98.83  E-value=2.3e-09  Score=87.98  Aligned_cols=81  Identities=16%  Similarity=0.232  Sum_probs=68.0

Q ss_pred             HHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC------CCCceEEecccCC-cCCCC--c
Q 024350          184 VLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS------YPGIDHVGGDLFE-SVPKA--D  253 (269)
Q Consensus       184 ~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~------~~ri~~~~gD~~~-~~P~g--D  253 (269)
                      +++..+ ++...+|||||||+|.++..++++.+  +++.+|+ +..++.|++      .++++++.+|..+ ++|.+  |
T Consensus         8 l~~~~~-~~~~~rILDiGcGtG~~~~~la~~~~--~v~gvD~S~~~l~~A~~~~~~~~~~~~~~~~~d~~~~~~~~~~fD   84 (234)
T d1xxla_           8 MIKTAE-CRAEHRVLDIGAGAGHTALAFSPYVQ--ECIGVDATKEMVEVASSFAQEKGVENVRFQQGTAESLPFPDDSFD   84 (234)
T ss_dssp             HHHHHT-CCTTCEEEEESCTTSHHHHHHGGGSS--EEEEEESCHHHHHHHHHHHHHHTCCSEEEEECBTTBCCSCTTCEE
T ss_pred             HHHHhC-CCCCCEEEEeCCcCcHHHHHHHHhCC--eEEEEeCChhhhhhhhhhhcccccccccccccccccccccccccc
Confidence            556777 88889999999999999999999875  5799997 677777654      2789999999987 67754  9


Q ss_pred             EEEeccccccCCCC
Q 024350          254 TIFMKVICVCYLNS  267 (269)
Q Consensus       254 ~~~l~~iLhd~~d~  267 (269)
                      +|+...+||..+|.
T Consensus        85 ~v~~~~~l~~~~d~   98 (234)
T d1xxla_          85 IITCRYAAHHFSDV   98 (234)
T ss_dssp             EEEEESCGGGCSCH
T ss_pred             eeeeeceeecccCH
Confidence            99999999998763

>d1im8a_ c.66.1.14 (A:) Hypothetical protein HI0319 (YecO) {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: Hypothetical protein HI0319 (YecO)
domain: Hypothetical protein HI0319 (YecO)
species: Haemophilus influenzae [TaxId: 727]

Probab=98.76  E-value=3.2e-09  Score=86.65  Aligned_cols=77  Identities=13%  Similarity=0.122  Sum_probs=63.4

Q ss_pred             CCccEEEEeCCCchHHHHHHHHH--CCCCeEEEeeh-hHHHHhCCC-------CCCceEEecccCC-cCCCCcEEEeccc
Q 024350          192 EHVKKLVDVGGGLGATLNMIISK--YPHIKGINYDL-LYVIKNAPS-------YPGIDHVGGDLFE-SVPKADTIFMKVI  260 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~--~P~l~~vv~Dl-p~vv~~a~~-------~~ri~~~~gD~~~-~~P~gD~~~l~~i  260 (269)
                      +...+|||||||+|..+..+++.  +|+.+++++|+ |.+++.|++       ..++++..+|+.+ +.++.|++++..+
T Consensus        38 ~~~~~vLDlGCGtG~~~~~l~~~~~~~~~~v~giD~S~~ml~~A~~~~~~~~~~~~~~~~~~d~~~~~~~~~d~i~~~~~  117 (225)
T d1im8a_          38 TADSNVYDLGCSRGAATLSARRNINQPNVKIIGIDNSQPMVERCRQHIAAYHSEIPVEILCNDIRHVEIKNASMVILNFT  117 (225)
T ss_dssp             CTTCEEEEESCTTCHHHHHHHHTCCCSSCEEEEECSCHHHHHHHHHHHHTSCCSSCEEEECSCTTTCCCCSEEEEEEESC
T ss_pred             CCCCEEEEeccchhhHHHHHHHhhcCCCCceEEeCCCHHHHHHHHHHhHhhcccchhhhccchhhccccccceeeEEeee
Confidence            45579999999999999999986  58999999998 899988764       2678888899876 3334599999999


Q ss_pred             cccCCCCC
Q 024350          261 CVCYLNSL  268 (269)
Q Consensus       261 Lhd~~d~~  268 (269)
                      ||.+++++
T Consensus       118 l~~~~~~d  125 (225)
T d1im8a_         118 LQFLPPED  125 (225)
T ss_dssp             GGGSCGGG
T ss_pred             ccccChhh
Confidence            99987543

>d2gh1a1 c.66.1.49 (A:13-293) Methyltransferase BC2162 {Bacillus cereus [TaxId: 1396]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: BC2162-like
domain: Methyltransferase BC2162
species: Bacillus cereus [TaxId: 1396]

Probab=98.73  E-value=7.4e-09  Score=87.55  Aligned_cols=77  Identities=17%  Similarity=0.195  Sum_probs=65.4

Q ss_pred             CCCccEEEEeCCCchHHHHHHHHHCCC-CeEEEeeh-hHHHHhCCCC-----CCceEEecccCC-cCCCC-cEEEecccc
Q 024350          191 FEHVKKLVDVGGGLGATLNMIISKYPH-IKGINYDL-LYVIKNAPSY-----PGIDHVGGDLFE-SVPKA-DTIFMKVIC  261 (269)
Q Consensus       191 ~~~~~~vvDvGGG~G~~~~~l~~~~P~-l~~vv~Dl-p~vv~~a~~~-----~ri~~~~gD~~~-~~P~g-D~~~l~~iL  261 (269)
                      ++++.+|||||||+|.++..+++.+|. .+++++|+ |..++.+++.     .+++++.+|+.+ +++.. |++++.++|
T Consensus        25 ~~~~~~ILDiGcG~G~~~~~la~~~~~~~~v~giD~s~~~l~~a~~~~~~~~~~~~f~~~d~~~~~~~~~fD~v~~~~~l  104 (281)
T d2gh1a1          25 ITKPVHIVDYGCGYGYLGLVLMPLLPEGSKYTGIDSGETLLAEARELFRLLPYDSEFLEGDATEIELNDKYDIAICHAFL  104 (281)
T ss_dssp             CCSCCEEEEETCTTTHHHHHHTTTSCTTCEEEEEECCHHHHHHHHHHHHSSSSEEEEEESCTTTCCCSSCEEEEEEESCG
T ss_pred             cCCcCEEEEecCcCCHHHHHHHHhCCCCCEEEEEecchhHhhhhhcccccccccccccccccccccccCCceEEEEehhh
Confidence            567889999999999999999999985 78999997 7888777642     368999999987 55555 999999999


Q ss_pred             ccCCCC
Q 024350          262 VCYLNS  267 (269)
Q Consensus       262 hd~~d~  267 (269)
                      |..+|.
T Consensus       105 ~~~~d~  110 (281)
T d2gh1a1         105 LHMTTP  110 (281)
T ss_dssp             GGCSSH
T ss_pred             hcCCCH
Confidence            998874

>d1xtpa_ c.66.1.42 (A:) Hypothetical protein Lmaj004091aaa (LmjF30.0810) {Leishmania major [TaxId: 5664]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: AD-003 protein-like
domain: Hypothetical protein Lmaj004091aaa (LmjF30.0810)
species: Leishmania major [TaxId: 5664]

Probab=98.71  E-value=3.1e-09  Score=88.66  Aligned_cols=84  Identities=13%  Similarity=0.192  Sum_probs=67.4

Q ss_pred             HHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC----CCCceEEecccCC-cCCC-C-cE
Q 024350          183 KVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS----YPGIDHVGGDLFE-SVPK-A-DT  254 (269)
Q Consensus       183 ~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~----~~ri~~~~gD~~~-~~P~-g-D~  254 (269)
                      .+++.++ ..+..++||||||+|.++..|++.+++ +++++|. +..++.|++    .++++++.+|+.+ +.+. . |+
T Consensus        84 ~fl~~l~-~~~~~~vLD~GcG~G~~t~~ll~~~~~-~v~~vD~s~~~l~~a~~~~~~~~~~~~~~~d~~~~~~~~~~fD~  161 (254)
T d1xtpa_          84 NFIASLP-GHGTSRALDCGAGIGRITKNLLTKLYA-TTDLLEPVKHMLEEAKRELAGMPVGKFILASMETATLPPNTYDL  161 (254)
T ss_dssp             HHHHTST-TCCCSEEEEETCTTTHHHHHTHHHHCS-EEEEEESCHHHHHHHHHHTTTSSEEEEEESCGGGCCCCSSCEEE
T ss_pred             HHHhhCC-CCCCCeEEEecccCChhhHHHHhhcCc-eEEEEcCCHHHHHhhhccccccccceeEEccccccccCCCccce
Confidence            4556665 456789999999999999999988776 6788896 788887764    3668999999987 4554 4 99


Q ss_pred             EEeccccccCCCCC
Q 024350          255 IFMKVICVCYLNSL  268 (269)
Q Consensus       255 ~~l~~iLhd~~d~~  268 (269)
                      |++..+||+++|++
T Consensus       162 I~~~~vl~hl~d~d  175 (254)
T d1xtpa_         162 IVIQWTAIYLTDAD  175 (254)
T ss_dssp             EEEESCGGGSCHHH
T ss_pred             EEeeccccccchhh
Confidence            99999999998753

>d2ex4a1 c.66.1.42 (A:2-224) Adrenal gland protein AD-003 (C9orf32) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: AD-003 protein-like
domain: Adrenal gland protein AD-003 (C9orf32)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.69  E-value=2.3e-09  Score=87.44  Aligned_cols=75  Identities=13%  Similarity=0.143  Sum_probs=62.4

Q ss_pred             CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC------CCceEEecccCC-cCCC-C-cEEEecccc
Q 024350          192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFE-SVPK-A-DTIFMKVIC  261 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~-~~P~-g-D~~~l~~iL  261 (269)
                      .+..+|||||||+|.++..++++.+. +++++|+ |.+++.|++.      ++++++.+|+.+ +.+. . |+|++..+|
T Consensus        59 ~~~~~vLDiGcG~G~~~~~l~~~~~~-~v~~vD~s~~~l~~ak~~~~~~~~~~~~f~~~d~~~~~~~~~~fD~I~~~~~l  137 (222)
T d2ex4a1          59 TGTSCALDCGAGIGRITKRLLLPLFR-EVDMVDITEDFLVQAKTYLGEEGKRVRNYFCCGLQDFTPEPDSYDVIWIQWVI  137 (222)
T ss_dssp             CCCSEEEEETCTTTHHHHHTTTTTCS-EEEEEESCHHHHHHHHHHTGGGGGGEEEEEECCGGGCCCCSSCEEEEEEESCG
T ss_pred             CCCCEEEEeccCCCHhhHHHHHhcCC-EEEEeecCHHHhhcccccccccccccccccccccccccccccccccccccccc
Confidence            45689999999999999999888774 7889997 8888877542      578999999988 5554 3 999999999


Q ss_pred             ccCCCC
Q 024350          262 VCYLNS  267 (269)
Q Consensus       262 hd~~d~  267 (269)
                      |.++++
T Consensus       138 ~h~~~~  143 (222)
T d2ex4a1         138 GHLTDQ  143 (222)
T ss_dssp             GGSCHH
T ss_pred             ccchhh
Confidence            999875

>d2i6ga1 c.66.1.44 (A:1-198) Putative methyltransferase TehB {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: TehB-like
domain: Putative methyltransferase TehB
species: Salmonella typhimurium [TaxId: 90371]

Probab=98.62  E-value=2.8e-08  Score=79.34  Aligned_cols=81  Identities=17%  Similarity=0.107  Sum_probs=63.4

Q ss_pred             HHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC------CCCceEEecccCCcCC-CC-cE
Q 024350          184 VLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS------YPGIDHVGGDLFESVP-KA-DT  254 (269)
Q Consensus       184 ~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~------~~ri~~~~gD~~~~~P-~g-D~  254 (269)
                      ++.... +-...+|||||||+|..+..++++.  .+++.+|+ +..++.+++      .+++++..+|+.+..| .. |+
T Consensus        22 ~~~~~~-~~~~grvLDiGcG~G~~~~~la~~g--~~v~gvD~s~~~l~~a~~~~~~~~~~~~~~~~~d~~~~~~~~~fD~   98 (198)
T d2i6ga1          22 VLAAAK-VVAPGRTLDLGCGNGRNSLYLAANG--YDVTAWDKNPASMANLERIKAAEGLDNLQTDLVDLNTLTFDGEYDF   98 (198)
T ss_dssp             HHHHHT-TSCSCEEEEETCTTSHHHHHHHHTT--CEEEEEESCHHHHHHHHHHHHHTTCTTEEEEECCTTTCCCCCCEEE
T ss_pred             HHHHcc-cCCCCcEEEECCCCCHHHHHHHHHh--hhhccccCcHHHHHHHHHHhhhccccchhhhheecccccccccccE
Confidence            344343 4455799999999999999999985  56789997 667776543      2779999999988444 44 99


Q ss_pred             EEeccccccCCCC
Q 024350          255 IFMKVICVCYLNS  267 (269)
Q Consensus       255 ~~l~~iLhd~~d~  267 (269)
                      ++...++|..+++
T Consensus        99 I~~~~~~~~~~~~  111 (198)
T d2i6ga1          99 ILSTVVMMFLEAQ  111 (198)
T ss_dssp             EEEESCGGGSCTT
T ss_pred             EEEeeeeecCCHH
Confidence            9999999998765

>d1ve3a1 c.66.1.43 (A:2-227) Hypothetical protein PH0226 {Archaeon Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: CAC2371-like
domain: Hypothetical protein PH0226
species: Archaeon Pyrococcus horikoshii [TaxId: 53953]

Probab=98.58  E-value=2.9e-08  Score=80.13  Aligned_cols=73  Identities=16%  Similarity=0.236  Sum_probs=60.5

Q ss_pred             CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC-----CCCceEEecccCC-cCCC-C-cEEEeccccc
Q 024350          192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS-----YPGIDHVGGDLFE-SVPK-A-DTIFMKVICV  262 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~-----~~ri~~~~gD~~~-~~P~-g-D~~~l~~iLh  262 (269)
                      +...+|||||||+|.++..+++.  +.+++++|+ +.+++.+++     ...+.++.+|+.+ +++. . |++++..+||
T Consensus        36 ~~~~~ILDiGcG~G~~~~~la~~--~~~v~giD~S~~~i~~ak~~~~~~~~~~~~~~~d~~~l~~~~~~fD~I~~~~~l~  113 (226)
T d1ve3a1          36 KKRGKVLDLACGVGGFSFLLEDY--GFEVVGVDISEDMIRKAREYAKSRESNVEFIVGDARKLSFEDKTFDYVIFIDSIV  113 (226)
T ss_dssp             CSCCEEEEETCTTSHHHHHHHHT--TCEEEEEESCHHHHHHHHHHHHHTTCCCEEEECCTTSCCSCTTCEEEEEEESCGG
T ss_pred             CCCCEEEEECCCcchhhhhHhhh--hcccccccccccchhhhhhhhccccccccccccccccccccCcCceEEEEecchh
Confidence            34578999999999999999975  567899997 788877764     2678999999988 6774 3 9999999999


Q ss_pred             cCCC
Q 024350          263 CYLN  266 (269)
Q Consensus       263 d~~d  266 (269)
                      .+++
T Consensus       114 ~~~~  117 (226)
T d1ve3a1         114 HFEP  117 (226)
T ss_dssp             GCCH
T ss_pred             hCCh
Confidence            9874

>d1p91a_ c.66.1.33 (A:) rRNA methyltransferase RlmA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: rRNA methyltransferase RlmA
domain: rRNA methyltransferase RlmA
species: Escherichia coli [TaxId: 562]

Probab=98.56  E-value=4.6e-08  Score=81.98  Aligned_cols=73  Identities=19%  Similarity=0.286  Sum_probs=62.3

Q ss_pred             CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC-CCCceEEecccCC-cCCCC--cEEEeccccccC
Q 024350          192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS-YPGIDHVGGDLFE-SVPKA--DTIFMKVICVCY  264 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~-~~ri~~~~gD~~~-~~P~g--D~~~l~~iLhd~  264 (269)
                      .+..+|||||||+|.++..+++.+|+.+++++|+ |..++.+++ .++++++.+|..+ +++.+  |+++....+|.+
T Consensus        83 ~~~~~iLDiGcG~G~~~~~l~~~~~~~~~~giD~s~~~~~~a~~~~~~~~~~~~d~~~l~~~~~sfD~v~~~~~~~~~  160 (268)
T d1p91a_          83 DKATAVLDIGCGEGYYTHAFADALPEITTFGLDVSKVAIKAAAKRYPQVTFCVASSHRLPFSDTSMDAIIRIYAPCKA  160 (268)
T ss_dssp             TTCCEEEEETCTTSTTHHHHHHTCTTSEEEEEESCHHHHHHHHHHCTTSEEEECCTTSCSBCTTCEEEEEEESCCCCH
T ss_pred             CCCCEEEEeCCCCcHHHHHHHHHCCCCEEEEecchHhhhhhhhcccccccceeeehhhccCCCCCEEEEeecCCHHHH
Confidence            3568999999999999999999999999999997 788887765 4899999999988 67753  999887777653

>d2p7ia1 c.66.1.41 (A:22-246) Hypothetical protein ECA1738 {Erwinia carotovora [TaxId: 554]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: UbiE/COQ5-like
domain: Hypothetical protein ECA1738
species: Erwinia carotovora [TaxId: 554]

Probab=98.55  E-value=3.1e-08  Score=80.72  Aligned_cols=75  Identities=15%  Similarity=0.190  Sum_probs=61.3

Q ss_pred             CCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC--CCCceEEecccCC-cCCCC-cEEEeccccccCC
Q 024350          191 FEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS--YPGIDHVGGDLFE-SVPKA-DTIFMKVICVCYL  265 (269)
Q Consensus       191 ~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~--~~ri~~~~gD~~~-~~P~g-D~~~l~~iLhd~~  265 (269)
                      +.+..+|||||||+|.++..++++..  +++++|+ |..++.+++  .++++++.+|+.+ +.++. |++++.++||..+
T Consensus        18 ~~~~~~VLDiGcG~G~~~~~l~~~g~--~v~giD~s~~~i~~a~~~~~~~~~~~~~~~~~~~~~~~fD~I~~~~vleh~~   95 (225)
T d2p7ia1          18 FFRPGNLLELGSFKGDFTSRLQEHFN--DITCVEASEEAISHAQGRLKDGITYIHSRFEDAQLPRRYDNIVLTHVLEHID   95 (225)
T ss_dssp             GCCSSCEEEESCTTSHHHHHHTTTCS--CEEEEESCHHHHHHHHHHSCSCEEEEESCGGGCCCSSCEEEEEEESCGGGCS
T ss_pred             hCCCCcEEEEeCCCcHHHHHHHHcCC--eEEEEeCcHHHhhhhhcccccccccccccccccccccccccccccceeEecC
Confidence            33557899999999999999998865  5899998 778887765  3679999999877 44444 9999999999987


Q ss_pred             CC
Q 024350          266 NS  267 (269)
Q Consensus       266 d~  267 (269)
                      |.
T Consensus        96 d~   97 (225)
T d2p7ia1          96 DP   97 (225)
T ss_dssp             SH
T ss_pred             CH
Confidence            74

>d1dusa_ c.66.1.4 (A:) Hypothetical protein MJ0882 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: Hypothetical protein MJ0882
domain: Hypothetical protein MJ0882
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=98.44  E-value=1.2e-07  Score=75.45  Aligned_cols=78  Identities=21%  Similarity=0.216  Sum_probs=61.4

Q ss_pred             HHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC--------CCCceEEecccCCcCCC-C-
Q 024350          184 VLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS--------YPGIDHVGGDLFESVPK-A-  252 (269)
Q Consensus       184 ~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~--------~~ri~~~~gD~~~~~P~-g-  252 (269)
                      +++.++ ..+..+|||||||+|.++..+++.+|+  ++++|+ |..++.+++        ..+++++.+|++++.+. - 
T Consensus        44 Li~~l~-~~~~~~VLDiGcG~G~~~~~la~~~~~--v~~iD~s~~~i~~a~~n~~~~~l~~~~i~~~~~d~~~~~~~~~f  120 (194)
T d1dusa_          44 LVENVV-VDKDDDILDLGCGYGVIGIALADEVKS--TTMADINRRAIKLAKENIKLNNLDNYDIRVVHSDLYENVKDRKY  120 (194)
T ss_dssp             HHHHCC-CCTTCEEEEETCTTSHHHHHHGGGSSE--EEEEESCHHHHHHHHHHHHHTTCTTSCEEEEECSTTTTCTTSCE
T ss_pred             HHHhCC-cCCCCeEEEEeecCChhHHHHHhhccc--cceeeeccccchhHHHHHHHhCCccceEEEEEcchhhhhccCCc
Confidence            455565 456789999999999999999999885  566786 777776653        26799999999987664 3 


Q ss_pred             cEEEeccccccC
Q 024350          253 DTIFMKVICVCY  264 (269)
Q Consensus       253 D~~~l~~iLhd~  264 (269)
                      |++++.-.+|..
T Consensus       121 D~Ii~~~p~~~~  132 (194)
T d1dusa_         121 NKIITNPPIRAG  132 (194)
T ss_dssp             EEEEECCCSTTC
T ss_pred             eEEEEcccEEec
Confidence            999998777754

>d1vlma_ c.66.1.41 (A:) Possible histamine N-methyltransferase TM1293 {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: UbiE/COQ5-like
domain: Possible histamine N-methyltransferase TM1293
species: Thermotoga maritima [TaxId: 2336]

Probab=98.43  E-value=1.6e-07  Score=75.02  Aligned_cols=66  Identities=15%  Similarity=0.106  Sum_probs=54.1

Q ss_pred             cEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCCCCceEEecccCC-cCCC-C-cEEEeccccccCCCC
Q 024350          195 KKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSYPGIDHVGGDLFE-SVPK-A-DTIFMKVICVCYLNS  267 (269)
Q Consensus       195 ~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~~ri~~~~gD~~~-~~P~-g-D~~~l~~iLhd~~d~  267 (269)
                      .+|||||||+|.++..+.+      .+++|. |..++.+++ ..++++.+|+.+ +.+. . |++++.++||..+|.
T Consensus        38 ~~vLDiGcG~G~~~~~~~~------~~giD~s~~~~~~a~~-~~~~~~~~d~~~l~~~~~~fD~I~~~~~l~h~~d~  107 (208)
T d1vlma_          38 GRGVEIGVGTGRFAVPLKI------KIGVEPSERMAEIARK-RGVFVLKGTAENLPLKDESFDFALMVTTICFVDDP  107 (208)
T ss_dssp             SCEEEETCTTSTTHHHHTC------CEEEESCHHHHHHHHH-TTCEEEECBTTBCCSCTTCEEEEEEESCGGGSSCH
T ss_pred             CeEEEECCCCcccccccce------EEEEeCChhhcccccc-ccccccccccccccccccccccccccccccccccc
Confidence            4799999999999888743      478897 788877664 369999999987 6664 3 999999999999863

>d2b3ta1 c.66.1.30 (A:2-275) N5-glutamine methyltransferase, HemK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: N5-glutamine methyltransferase, HemK
domain: N5-glutamine methyltransferase, HemK
species: Escherichia coli [TaxId: 562]

Probab=98.41  E-value=1.9e-07  Score=78.30  Aligned_cols=66  Identities=23%  Similarity=0.277  Sum_probs=57.5

Q ss_pred             CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC------CCceEEecccCCcCCC-C-cEEEe
Q 024350          192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFESVPK-A-DTIFM  257 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~~~P~-g-D~~~l  257 (269)
                      .+..+|+|+|||+|..++.++..+|+++++..|. |..++.|+++      ++|+++.+|+|++++. - |+++.
T Consensus       107 ~~~~~vlDlGtGSG~I~i~la~~~p~~~v~avDis~~Al~~A~~Na~~~~~~~v~~~~~d~~~~~~~~~fDlIvs  181 (274)
T d2b3ta1         107 EQPCRILDLGTGTGAIALALASERPDCEIIAVDRMPDAVSLAQRNAQHLAIKNIHILQSDWFSALAGQQFAMIVS  181 (274)
T ss_dssp             SSCCEEEEETCTTSHHHHHHHHHCTTSEEEEECSSHHHHHHHHHHHHHHTCCSEEEECCSTTGGGTTCCEEEEEE
T ss_pred             ccccceeeeehhhhHHHHHHHhhCCcceeeeccchhHHHhHHHHHHHHhCcccceeeecccccccCCCceeEEEe
Confidence            3557899999999999999999999999999997 8888877753      6899999999998885 3 88865

>d2avna1 c.66.1.41 (A:1-246) Hypothetical methyltransferase TM1389 {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: UbiE/COQ5-like
domain: Hypothetical methyltransferase TM1389
species: Thermotoga maritima [TaxId: 2336]

Probab=98.41  E-value=1.1e-07  Score=77.65  Aligned_cols=74  Identities=15%  Similarity=0.173  Sum_probs=58.7

Q ss_pred             CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCCCCceEEecccCC-cCCC-C-cEEEe-ccccccCCC
Q 024350          192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSYPGIDHVGGDLFE-SVPK-A-DTIFM-KVICVCYLN  266 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~~ri~~~~gD~~~-~~P~-g-D~~~l-~~iLhd~~d  266 (269)
                      ++..+|||||||+|.++..+++.  ..+++++|. +.+++.+++.....++.+|+.+ ++|. . |+++. .+++|..+|
T Consensus        41 ~~~~~vLDiGcG~G~~~~~l~~~--~~~v~giD~s~~~l~~a~~~~~~~~~~~~~~~l~~~~~~fD~ii~~~~~~~~~~d  118 (246)
T d2avna1          41 KNPCRVLDLGGGTGKWSLFLQER--GFEVVLVDPSKEMLEVAREKGVKNVVEAKAEDLPFPSGAFEAVLALGDVLSYVEN  118 (246)
T ss_dssp             CSCCEEEEETCTTCHHHHHHHTT--TCEEEEEESCHHHHHHHHHHTCSCEEECCTTSCCSCTTCEEEEEECSSHHHHCSC
T ss_pred             CCCCEEEEECCCCchhccccccc--ceEEEEeecccccccccccccccccccccccccccccccccceeeecchhhhhhh
Confidence            45678999999999999999876  568999997 8888888765444567788877 6764 3 98875 689998877


Q ss_pred             C
Q 024350          267 S  267 (269)
Q Consensus       267 ~  267 (269)
                      .
T Consensus       119 ~  119 (246)
T d2avna1         119 K  119 (246)
T ss_dssp             H
T ss_pred             H
Confidence            4

>d1wzna1 c.66.1.43 (A:1-251) Hypothetical methyltransferase PH1305 {Archaeon Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: CAC2371-like
domain: Hypothetical methyltransferase PH1305
species: Archaeon Pyrococcus horikoshii [TaxId: 53953]

Probab=98.40  E-value=2.8e-07  Score=75.58  Aligned_cols=80  Identities=16%  Similarity=0.268  Sum_probs=61.2

Q ss_pred             HHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-----CCceEEecccCC-cCCCC-cE
Q 024350          183 KVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-----PGIDHVGGDLFE-SVPKA-DT  254 (269)
Q Consensus       183 ~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-----~ri~~~~gD~~~-~~P~g-D~  254 (269)
                      .++..+. ..+..+|||||||+|.++..++++.  .+++++|+ |.+++.|++.     .+|+++.+|+.+ +.++. |+
T Consensus        32 ~~~~~~~-~~~~~~iLDiGcGtG~~~~~l~~~~--~~v~gvD~s~~mi~~a~~~~~~~~~~i~~~~~d~~~l~~~~~fD~  108 (251)
T d1wzna1          32 EIFKEDA-KREVRRVLDLACGTGIPTLELAERG--YEVVGLDLHEEMLRVARRKAKERNLKIEFLQGDVLEIAFKNEFDA  108 (251)
T ss_dssp             HHHHHTC-SSCCCEEEEETCTTCHHHHHHHHTT--CEEEEEESCHHHHHHHHHHHHHTTCCCEEEESCGGGCCCCSCEEE
T ss_pred             HHHHHhc-CCCCCEEEEeCCCCCccchhhcccc--eEEEEEeeccccccccccccccccccchheehhhhhcccccccch
Confidence            3444545 4567899999999999999999975  46899997 7888877653     589999999987 66654 88


Q ss_pred             EEec-cccccCC
Q 024350          255 IFMK-VICVCYL  265 (269)
Q Consensus       255 ~~l~-~iLhd~~  265 (269)
                      +++. +++|.++
T Consensus       109 I~~~~~~~~~~~  120 (251)
T d1wzna1         109 VTMFFSTIMYFD  120 (251)
T ss_dssp             EEECSSGGGGSC
T ss_pred             HhhhhhhhhcCC
Confidence            7765 5666553

>d1pjza_ c.66.1.36 (A:) Thiopurine S-methyltransferase {Pseudomonas syringae [TaxId: 317]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: Thiopurine S-methyltransferase
domain: Thiopurine S-methyltransferase
species: Pseudomonas syringae [TaxId: 317]

Probab=98.30  E-value=3.9e-07  Score=71.50  Aligned_cols=80  Identities=11%  Similarity=0.139  Sum_probs=62.8

Q ss_pred             HHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC------------------CCceEEeccc
Q 024350          185 LESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY------------------PGIDHVGGDL  245 (269)
Q Consensus       185 ~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~------------------~ri~~~~gD~  245 (269)
                      ...+. .+...+|||||||+|..+..|+++  +.+++++|+ +..++.+++.                  ..+++..+|+
T Consensus        13 ~~~l~-~~~~~rvLd~GCG~G~~a~~la~~--G~~V~gvD~S~~~i~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~   89 (201)
T d1pjza_          13 WSSLN-VVPGARVLVPLCGKSQDMSWLSGQ--GYHVVGAELSEAAVERYFTERGEQPHITSQGDFKVYAAPGIEIWCGDF   89 (201)
T ss_dssp             HHHHC-CCTTCEEEETTTCCSHHHHHHHHH--CCEEEEEEECHHHHHHHHHHHCSCSEEEEETTEEEEECSSSEEEEECC
T ss_pred             HHHcC-CCCCCEEEEecCcCCHHHHHHHHc--CCceEeecccHHHHHHHHHHhccccchhhhhhhhhccccccceecccc
Confidence            33444 567789999999999999999987  788999997 7788766531                  4578999999


Q ss_pred             CCcCC--C-C-cEEEeccccccCCCC
Q 024350          246 FESVP--K-A-DTIFMKVICVCYLNS  267 (269)
Q Consensus       246 ~~~~P--~-g-D~~~l~~iLhd~~d~  267 (269)
                      ++..|  . . |+++.+.++|..+++
T Consensus        90 ~~l~~~~~~~~D~i~~~~~l~~l~~~  115 (201)
T d1pjza_          90 FALTARDIGHCAAFYDRAAMIALPAD  115 (201)
T ss_dssp             SSSTHHHHHSEEEEEEESCGGGSCHH
T ss_pred             cccccccccceeEEEEEeeeEecchh
Confidence            88433  2 3 999999999987653

>d1ri5a_ c.66.1.34 (A:) mRNA cap (Guanine N-7) methyltransferase {Fungus (Encephalitozoon cuniculi) [TaxId: 6035]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: mRNA cap (Guanine N-7) methyltransferase
domain: mRNA cap (Guanine N-7) methyltransferase
species: Fungus (Encephalitozoon cuniculi) [TaxId: 6035]

Probab=98.25  E-value=9.3e-07  Score=72.88  Aligned_cols=91  Identities=14%  Similarity=0.056  Sum_probs=66.1

Q ss_pred             HHHHHHHHHhhchhhHHHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC-------CCC
Q 024350          166 NDVFSNGMLSHTSIVMEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS-------YPG  237 (269)
Q Consensus       166 ~~~f~~~m~~~~~~~~~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~-------~~r  237 (269)
                      .+.|+.+...       .++..|.  +...+|||||||+|..+..+++..+ .+++++|+ |..++.|++       ..+
T Consensus         6 ~r~~~N~vK~-------~lI~~~~--~~~~~VLDlGCG~G~~~~~~~~~~~-~~v~GiD~S~~~l~~A~~r~~~~~~~~~   75 (252)
T d1ri5a_           6 IRNANNFIKA-------CLIRLYT--KRGDSVLDLGCGKGGDLLKYERAGI-GEYYGVDIAEVSINDARVRARNMKRRFK   75 (252)
T ss_dssp             HHHHHHHHHH-------HHHHHHC--CTTCEEEEETCTTTTTHHHHHHHTC-SEEEEEESCHHHHHHHHHHHHTSCCSSE
T ss_pred             HHHHHHHHHH-------HHHHHhC--CCcCEEEEecccCcHHHHHHHHcCC-CeEEEecCCHHHHHHHHHHHHhcCCCcc
Confidence            3566655332       3445553  4558999999999999999988754 36799997 777777653       257


Q ss_pred             ceEEecccCC-cCC-C-C-cEEEeccccccCCC
Q 024350          238 IDHVGGDLFE-SVP-K-A-DTIFMKVICVCYLN  266 (269)
Q Consensus       238 i~~~~gD~~~-~~P-~-g-D~~~l~~iLhd~~d  266 (269)
                      +.+..+|.+. +.+ . . |++++..++|...+
T Consensus        76 v~f~~~D~~~~~~~~~~~fD~V~~~~~l~~~~~  108 (252)
T d1ri5a_          76 VFFRAQDSYGRHMDLGKEFDVISSQFSFHYAFS  108 (252)
T ss_dssp             EEEEESCTTTSCCCCSSCEEEEEEESCGGGGGS
T ss_pred             eEEEEcchhhhcccccccceEEEEcceeeecCC
Confidence            9999999987 443 3 3 99999999998643

>d1nw3a_ c.66.1.31 (A:) Catalytic, N-terminal domain of histone methyltransferase Dot1l {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: Catalytic, N-terminal domain of histone methyltransferase Dot1l
domain: Catalytic, N-terminal domain of histone methyltransferase Dot1l
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.22  E-value=1.1e-06  Score=75.56  Aligned_cols=80  Identities=15%  Similarity=0.220  Sum_probs=63.7

Q ss_pred             HHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC---------------CCCceEEeccc
Q 024350          182 EKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS---------------YPGIDHVGGDL  245 (269)
Q Consensus       182 ~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~---------------~~ri~~~~gD~  245 (269)
                      ..+++.+. +....+|+|||||.|.++..+++.+|..+++++|+ |..++.|+.               ..+|+++.+|+
T Consensus       141 ~~~~~~~~-l~~~~~vlD~GcG~G~~~~~~a~~~~~~~~~Gid~s~~~~~~a~~~~~~~~~~~~~~g~~~~~i~~~~gd~  219 (328)
T d1nw3a_         141 AQMIDEIK-MTDDDLFVDLGSGVGQVVLQVAAATNCKHHYGVEKADIPAKYAETMDREFRKWMKWYGKKHAEYTLERGDF  219 (328)
T ss_dssp             HHHHHHSC-CCTTCEEEEETCTTSHHHHHHHHHCCCSEEEEEECSHHHHHHHHHHHHHHHHHHHHHTCCCCCEEEEECCT
T ss_pred             HHHHHHcC-CCCCCEEEEcCCCCCHHHHHHHHHhCCCeEEEEeCCHHHHHHHHHHHHHHHHHhhhccccCCceEEEECcc
Confidence            35666676 77778999999999999999999999999999997 666655532               36799999999


Q ss_pred             CC-cCCC----CcEEEeccccc
Q 024350          246 FE-SVPK----ADTIFMKVICV  262 (269)
Q Consensus       246 ~~-~~P~----gD~~~l~~iLh  262 (269)
                      .+ +...    +|++++.+.+|
T Consensus       220 ~~~~~~~~~~~advi~~~~~~f  241 (328)
T d1nw3a_         220 LSEEWRERIANTSVIFVNNFAF  241 (328)
T ss_dssp             TSHHHHHHHHHCSEEEECCTTT
T ss_pred             cccccccccCcceEEEEcceec
Confidence            87 4332    58999877765

>d1l3ia_ c.66.1.22 (A:) Precorrin-6Y methyltransferase (CbiT) {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: Precorrin-6Y methyltransferase (CbiT)
domain: Precorrin-6Y methyltransferase (CbiT)
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

Probab=98.21  E-value=4.1e-07  Score=71.75  Aligned_cols=77  Identities=16%  Similarity=0.053  Sum_probs=59.1

Q ss_pred             HHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-------CCceEEecccCC-cCC-C-C
Q 024350          184 VLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-------PGIDHVGGDLFE-SVP-K-A  252 (269)
Q Consensus       184 ~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~-~~P-~-g  252 (269)
                      ++..+. .....+|||||||+|.++.++++..+  +++.+|+ |..++.++++       ++|+++.+|+.+ ..+ + .
T Consensus        25 il~~l~-~~~g~~VLDiGcGsG~~s~~lA~~~~--~V~avD~~~~~l~~a~~n~~~~gl~~~v~~~~gda~~~~~~~~~~  101 (186)
T d1l3ia_          25 IMCLAE-PGKNDVAVDVGCGTGGVTLELAGRVR--RVYAIDRNPEAISTTEMNLQRHGLGDNVTLMEGDAPEALCKIPDI  101 (186)
T ss_dssp             HHHHHC-CCTTCEEEEESCTTSHHHHHHHTTSS--EEEEEESCHHHHHHHHHHHHHTTCCTTEEEEESCHHHHHTTSCCE
T ss_pred             HHHhcC-CCCCCEEEEEECCeEcccccccccce--EEEEecCCHHHHHHHHHHHHHcCCCcceEEEECchhhcccccCCc
Confidence            445555 66678999999999999999988765  6789997 7888877652       799999999887 333 2 3


Q ss_pred             cEEEecccccc
Q 024350          253 DTIFMKVICVC  263 (269)
Q Consensus       253 D~~~l~~iLhd  263 (269)
                      |++++....++
T Consensus       102 D~v~~~~~~~~  112 (186)
T d1l3ia_         102 DIAVVGGSGGE  112 (186)
T ss_dssp             EEEEESCCTTC
T ss_pred             CEEEEeCcccc
Confidence            98887765443

>d1y8ca_ c.66.1.43 (A:) Putative methyltransferase CAC2371 {Clostridium acetobutylicum [TaxId: 1488]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: CAC2371-like
domain: Putative methyltransferase CAC2371
species: Clostridium acetobutylicum [TaxId: 1488]

Probab=98.20  E-value=4.6e-07  Score=74.35  Aligned_cols=71  Identities=14%  Similarity=0.127  Sum_probs=55.6

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-----CCceEEecccCC-cCCCC-cEEEe-cccccc
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-----PGIDHVGGDLFE-SVPKA-DTIFM-KVICVC  263 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-----~ri~~~~gD~~~-~~P~g-D~~~l-~~iLhd  263 (269)
                      ...+|||||||+|.++..++++..  +++++|+ |.+++.|++.     .+|+++.+|+.+ +.++- |++++ .+++|.
T Consensus        37 ~~~~vLDiGCG~G~~~~~l~~~g~--~v~GvD~S~~ml~~A~~~~~~~~~~v~~~~~d~~~~~~~~~fD~i~~~~~~~~~  114 (246)
T d1y8ca_          37 VFDDYLDLACGTGNLTENLCPKFK--NTWAVDLSQEMLSEAENKFRSQGLKPRLACQDISNLNINRKFDLITCCLDSTNY  114 (246)
T ss_dssp             CTTEEEEETCTTSTTHHHHGGGSS--EEEEECSCHHHHHHHHHHHHHTTCCCEEECCCGGGCCCSCCEEEEEECTTGGGG
T ss_pred             CCCeEEEEeCcCCHHHHHHHHhCC--ccEeeccchhhhhhccccccccCccceeeccchhhhcccccccccceeeeeeec
Confidence            357899999999999999999865  6789997 7888877642     579999999987 45554 97764 466665


Q ss_pred             CC
Q 024350          264 YL  265 (269)
Q Consensus       264 ~~  265 (269)
                      +.
T Consensus       115 ~~  116 (246)
T d1y8ca_         115 II  116 (246)
T ss_dssp             CC
T ss_pred             cC
Confidence            54

>d2fcaa1 c.66.1.53 (A:10-213) tRNA (guanine-N(7)-)-methyltransferase TrmB {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: TrmB-like
domain: tRNA (guanine-N(7)-)-methyltransferase TrmB
species: Bacillus subtilis [TaxId: 1423]

Probab=98.20  E-value=1e-06  Score=70.64  Aligned_cols=67  Identities=18%  Similarity=0.231  Sum_probs=52.9

Q ss_pred             ccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC------CCCceEEecccCC---cCCCC--cEEEeccc
Q 024350          194 VKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS------YPGIDHVGGDLFE---SVPKA--DTIFMKVI  260 (269)
Q Consensus       194 ~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~------~~ri~~~~gD~~~---~~P~g--D~~~l~~i  260 (269)
                      ...|||||||+|.++..+++.+|+..++++|+ +..+..+.+      .++|.++.+|...   -+|.+  |.+++...
T Consensus        30 ~PlvLeIGcG~G~~~~~lA~~~p~~~~iGiD~~~~~i~~a~~~~~~~~l~Nv~~~~~Da~~l~~~~~~~~~d~v~i~fp  108 (204)
T d2fcaa1          30 NPIHIEVGTGKGQFISGMAKQNPDINYIGIELFKSVIVTAVQKVKDSEAQNVKLLNIDADTLTDVFEPGEVKRVYLNFS  108 (204)
T ss_dssp             CCEEEEECCTTSHHHHHHHHHCTTSEEEEECSCHHHHHHHHHHHHHSCCSSEEEECCCGGGHHHHCCTTSCCEEEEESC
T ss_pred             CceEEEEEecCcHHHHHHHHhCCCCcEEEeecchHHHHHHHHHHHHHhccCchhcccchhhhhcccCchhhhccccccc
Confidence            46899999999999999999999999999996 666655432      3789999999865   26643  77665443

>d1dl5a1 c.66.1.7 (A:1-213) Protein-L-isoaspartyl O-methyltransferase {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: Protein-L-isoaspartyl O-methyltransferase
domain: Protein-L-isoaspartyl O-methyltransferase
species: Thermotoga maritima [TaxId: 2336]

Probab=98.18  E-value=1.1e-06  Score=70.92  Aligned_cols=83  Identities=18%  Similarity=0.213  Sum_probs=67.2

Q ss_pred             HHHHhccCCCCccEEEEeCCCchHHHHHHHHHC-CCCeEEEeeh-hHHHHhCCC------CCCceEEecccCCcCC-CC-
Q 024350          183 KVLESYKGFEHVKKLVDVGGGLGATLNMIISKY-PHIKGINYDL-LYVIKNAPS------YPGIDHVGGDLFESVP-KA-  252 (269)
Q Consensus       183 ~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~-P~l~~vv~Dl-p~vv~~a~~------~~ri~~~~gD~~~~~P-~g-  252 (269)
                      .+++.++ ++...+|+|||||+|..+..+++.. |+.+++.+|. |..++.+++      ..++.++.+|..+..| .+ 
T Consensus        66 ~~l~~l~-l~~g~~VLdiG~GtG~~s~~la~~~~~~g~V~~id~~~~~~~~a~~~~~~~~~~n~~~~~~d~~~~~~~~~~  144 (213)
T d1dl5a1          66 LFMEWVG-LDKGMRVLEIGGGTGYNAAVMSRVVGEKGLVVSVEYSRKICEIAKRNVERLGIENVIFVCGDGYYGVPEFSP  144 (213)
T ss_dssp             HHHHHTT-CCTTCEEEEECCTTSHHHHHHHHHHCTTCEEEEEESCHHHHHHHHHHHHHTTCCSEEEEESCGGGCCGGGCC
T ss_pred             HHHHhhh-ccccceEEEecCccchhHHHHHHHhCCCCcEEEeecchhhHHHhhhhHhhhcccccccccCchHHccccccc
Confidence            3456666 7778899999999999999999876 6788999996 777877765      2789999999988555 33 


Q ss_pred             -cEEEeccccccCCC
Q 024350          253 -DTIFMKVICVCYLN  266 (269)
Q Consensus       253 -D~~~l~~iLhd~~d  266 (269)
                       |++++...+++.++
T Consensus       145 fD~I~~~~~~~~~p~  159 (213)
T d1dl5a1         145 YDVIFVTVGVDEVPE  159 (213)
T ss_dssp             EEEEEECSBBSCCCH
T ss_pred             hhhhhhhccHHHhHH
Confidence             99999999887764

>d2bzga1 c.66.1.36 (A:17-245) Thiopurine S-methyltransferase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: Thiopurine S-methyltransferase
domain: Thiopurine S-methyltransferase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.14  E-value=2.2e-06  Score=69.57  Aligned_cols=75  Identities=9%  Similarity=-0.005  Sum_probs=60.1

Q ss_pred             CCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC-----------------------CCCceEEecccC
Q 024350          191 FEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS-----------------------YPGIDHVGGDLF  246 (269)
Q Consensus       191 ~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~-----------------------~~ri~~~~gD~~  246 (269)
                      .+...+|||+|||.|..+..|++.  +.++|++|+ |..|+.+++                       ..++++..+|++
T Consensus        43 ~~~~~rvLd~GCG~G~~a~~LA~~--G~~V~gvD~S~~ai~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~d~~  120 (229)
T d2bzga1          43 GKSGLRVFFPLCGKAVEMKWFADR--GHSVVGVEISELGIQEFFTEQNLSYSEEPITEIPGTKVFKSSSGNISLYCCSIF  120 (229)
T ss_dssp             TCCSCEEEETTCTTCTHHHHHHHT--TCEEEEECSCHHHHHHHHHHTTCCEEEEECTTSTTCEEEEETTSSEEEEESCGG
T ss_pred             CCCCCEEEEeCCCCcHHHHHHHhC--CCcEEEEeCCHHHHHHHHHHhhccccccchhcccccceeeecCCcEEEEEcchh
Confidence            456679999999999999999986  678999997 777765421                       158999999999


Q ss_pred             Cc--CCCC--cEEEeccccccCCCC
Q 024350          247 ES--VPKA--DTIFMKVICVCYLNS  267 (269)
Q Consensus       247 ~~--~P~g--D~~~l~~iLhd~~d~  267 (269)
                      +.  .+.+  |+++-+.+||..+++
T Consensus       121 ~l~~~~~~~fd~i~~~~~l~~~~~~  145 (229)
T d2bzga1         121 DLPRTNIGKFDMIWDRGALVAINPG  145 (229)
T ss_dssp             GGGGSCCCCEEEEEESSSTTTSCGG
T ss_pred             hccccccCceeEEEEEEEEEeccch
Confidence            83  3333  999999999988764

>d1yzha1 c.66.1.53 (A:8-211) tRNA (guanine-N(7)-)-methyltransferase TrmB {Streptococcus pneumoniae [TaxId: 1313]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: TrmB-like
domain: tRNA (guanine-N(7)-)-methyltransferase TrmB
species: Streptococcus pneumoniae [TaxId: 1313]

Probab=98.12  E-value=1.9e-06  Score=68.94  Aligned_cols=64  Identities=25%  Similarity=0.323  Sum_probs=50.7

Q ss_pred             ccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC------CCCceEEecccCC---cCCCC--cEEEe
Q 024350          194 VKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS------YPGIDHVGGDLFE---SVPKA--DTIFM  257 (269)
Q Consensus       194 ~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~------~~ri~~~~gD~~~---~~P~g--D~~~l  257 (269)
                      ...+||||||.|.++..+++.+|+..++++|+ +..+..+.+      .++|+++.+|..+   -+|.+  |.+++
T Consensus        32 ~plvLdIGcG~G~~~~~lA~~~p~~~~iGid~~~~~v~~a~~~~~~~~l~Ni~~~~~da~~l~~~~~~~~~~~i~i  107 (204)
T d1yzha1          32 NPIHVEVGSGKGAFVSGMAKQNPDINYIGIDIQKSVLSYALDKVLEVGVPNIKLLWVDGSDLTDYFEDGEIDRLYL  107 (204)
T ss_dssp             CCEEEEESCTTSHHHHHHHHHCTTSEEEEEESCHHHHHHHHHHHHHHCCSSEEEEECCSSCGGGTSCTTCCSEEEE
T ss_pred             CCeEEEEeccCCHHHHHHHHHCCCCceEEEeccHHHHHHHHHhhhhhccccceeeecCHHHHhhhccCCceehhcc
Confidence            46899999999999999999999999999996 666655432      3789999999765   25643  66543

>d1mkma1 a.4.5.33 (A:1-75) Transcriptional regulator IclR, N-terminal domain {Thermotoga maritima [TaxId: 2336]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Transcriptional regulator IclR, N-terminal domain
domain: Transcriptional regulator IclR, N-terminal domain
species: Thermotoga maritima [TaxId: 2336]

Probab=98.11  E-value=2.3e-06  Score=57.20  Aligned_cols=57  Identities=16%  Similarity=0.212  Sum_probs=48.8

Q ss_pred             cChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhc
Q 024350           36 LDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVS  104 (269)
Q Consensus        36 lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s  104 (269)
                      +.|++.++..+  +++|+.|||+.+|++      .. .+.|+|..|+..|++.   ++++++|.+++..
T Consensus         8 l~IL~~~a~~~--~~~s~~eia~~~~~~------~s-t~~rll~tL~~~g~l~---~~~~g~y~lG~~l   64 (75)
T d1mkma1           8 FEILDFIVKNP--GDVSVSEIAEKFNMS------VS-NAYKYMVVLEEKGFVL---RKKDKRYVPGYKL   64 (75)
T ss_dssp             HHHHHHHHHCS--SCBCHHHHHHHTTCC------HH-HHHHHHHHHHHTTSEE---ECTTSCEEECTHH
T ss_pred             HHHHHHHHhCC--CCCCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCEE---ECCCCCEeecHHH
Confidence            45788888865  689999999999997      57 8999999999999999   5557899998753

>d1g8sa_ c.66.1.3 (A:) Fibrillarin homologue {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: Fibrillarin homologue
domain: Fibrillarin homologue
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=98.00  E-value=2.6e-06  Score=69.40  Aligned_cols=76  Identities=9%  Similarity=-0.005  Sum_probs=59.9

Q ss_pred             CCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhC----CCCCCceEEecccCCcCC---C-CcEEEecccc
Q 024350          191 FEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNA----PSYPGIDHVGGDLFESVP---K-ADTIFMKVIC  261 (269)
Q Consensus       191 ~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a----~~~~ri~~~~gD~~~~~P---~-gD~~~l~~iL  261 (269)
                      ++...+|||||||+|..+..+++..|+-+++.+|+ |.+++.+    ...+.+..+-+|...+.+   . .|+.++.+.+
T Consensus        72 ikpG~~VLDlGcGsG~~~~~la~~~~~g~V~aVDiS~~~i~~a~~~a~~~~ni~~i~~d~~~~~~~~~~~~~v~~i~~~~  151 (230)
T d1g8sa_          72 IKRDSKILYLGASAGTTPSHVADIADKGIVYAIEYAPRIMRELLDACAERENIIPILGDANKPQEYANIVEKVDVIYEDV  151 (230)
T ss_dssp             CCTTCEEEEESCCSSHHHHHHHHHTTTSEEEEEESCHHHHHHHHHHTTTCTTEEEEECCTTCGGGGTTTCCCEEEEEECC
T ss_pred             CCCCCEEEEeCEEcCHHHHHHHHhCCCCEEEEEeCcHHHHHHHHHHHhhhcccceEEEeeccCcccccccceeEEeeccc
Confidence            55678999999999999999999999999999997 7777654    345788888888877422   2 2777777777


Q ss_pred             ccCCC
Q 024350          262 VCYLN  266 (269)
Q Consensus       262 hd~~d  266 (269)
                      |.+++
T Consensus       152 ~~~~~  156 (230)
T d1g8sa_         152 AQPNQ  156 (230)
T ss_dssp             CSTTH
T ss_pred             cchHH
Confidence            76653

>d1i9ga_ c.66.1.13 (A:) Probable methyltransferase Rv2118c {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: tRNA(1-methyladenosine) methyltransferase-like
domain: Probable methyltransferase Rv2118c
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=98.00  E-value=5.3e-06  Score=68.85  Aligned_cols=89  Identities=16%  Similarity=0.188  Sum_probs=68.6

Q ss_pred             HHHHHHHhhchh----hHHHHHHhccCCCCccEEEEeCCCchHHHHHHHHH-CCCCeEEEeeh-hHHHHhCCC-------
Q 024350          168 VFSNGMLSHTSI----VMEKVLESYKGFEHVKKLVDVGGGLGATLNMIISK-YPHIKGINYDL-LYVIKNAPS-------  234 (269)
Q Consensus       168 ~f~~~m~~~~~~----~~~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~-~P~l~~vv~Dl-p~vv~~a~~-------  234 (269)
                      .|...|...++.    .+..++...+ .+...+|||+|||+|.++..|++. .|+-+.+.+|. ++.++.|++       
T Consensus        68 ~~~~~~~r~tqiiypkD~s~Ii~~l~-i~PG~~VLE~G~GsG~lt~~La~~vgp~G~V~~~d~~~~~~~~Ar~n~~~~~~  146 (264)
T d1i9ga_          68 DYVMSMPRGPQVIYPKDAAQIVHEGD-IFPGARVLEAGAGSGALTLSLLRAVGPAGQVISYEQRADHAEHARRNVSGCYG  146 (264)
T ss_dssp             HHHTTSCSCSCCCCHHHHHHHHHHTT-CCTTCEEEEECCTTSHHHHHHHHHHCTTSEEEEECSCHHHHHHHHHHHHHHHT
T ss_pred             HHHhhccCCccccchHHHHHHHHHhC-CCCCCEEEecCcCCcHHHHHHHHhhCCCcEEEEecCCHHHHHHHHHhhhhhcc
Confidence            344455555543    2334566666 777789999999999999999998 79999999996 777777764       


Q ss_pred             --CCCceEEecccCC-cCCCC--cEEEe
Q 024350          235 --YPGIDHVGGDLFE-SVPKA--DTIFM  257 (269)
Q Consensus       235 --~~ri~~~~gD~~~-~~P~g--D~~~l  257 (269)
                        .++++++.+|+.+ ++|.+  |.+++
T Consensus       147 ~~~~nv~~~~~d~~~~~~~~~~fDaV~l  174 (264)
T d1i9ga_         147 QPPDNWRLVVSDLADSELPDGSVDRAVL  174 (264)
T ss_dssp             SCCTTEEEECSCGGGCCCCTTCEEEEEE
T ss_pred             CCCceEEEEecccccccccCCCcceEEE
Confidence              2789999999987 67754  98876

>d1jqea_ c.66.1.19 (A:) Histamine methyltransferase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: Histamine methyltransferase
domain: Histamine methyltransferase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.99  E-value=3.8e-06  Score=70.05  Aligned_cols=86  Identities=15%  Similarity=0.164  Sum_probs=52.8

Q ss_pred             HHHHHhccCCCCccEEEEeCCCchHHHHHH----HHHCCCCe--EEEeeh-hHHHHhCCC----C---CCceEE--eccc
Q 024350          182 EKVLESYKGFEHVKKLVDVGGGLGATLNMI----ISKYPHIK--GINYDL-LYVIKNAPS----Y---PGIDHV--GGDL  245 (269)
Q Consensus       182 ~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l----~~~~P~l~--~vv~Dl-p~vv~~a~~----~---~ri~~~--~gD~  245 (269)
                      +.++..+...+...+|||||||+|.++..+    .+++|+..  .+++|. +..++.+++    .   +.+.+.  ..++
T Consensus        29 ~~~l~~l~~~~~~~~VLDiGcG~G~~~~~ll~~l~~~~~~~~~~~~~vD~s~~~l~~a~~~~~~~~~~~~~~~~~~~~~~  108 (280)
T d1jqea_          29 PGIIGRIGDTKSEIKILSIGGGAGEIDLQILSKVQAQYPGVCINNEVVEPSAEQIAKYKELVAKISNLENVKFAWHKETS  108 (280)
T ss_dssp             HHHTTTTTTTCSEEEEEEETCTTSHHHHHHHHHHHHHSTTCEEEEEEECCCHHHHHHHHHHHTTCCSCTTEEEEEECSCH
T ss_pred             HHHHHHhccCCCCCeEEEEcCCCCHHHHHHHHHhhhhccCCceEEEEEeCcHHHHHHHHHHHhhccccccccccchhhhh
Confidence            444444321334458999999999986655    45677764  588896 566665543    2   333332  2221


Q ss_pred             -------CCcCC-CC-cEEEeccccccCCCC
Q 024350          246 -------FESVP-KA-DTIFMKVICVCYLNS  267 (269)
Q Consensus       246 -------~~~~P-~g-D~~~l~~iLhd~~d~  267 (269)
                             ..+.+ .. |++++.++||.++|.
T Consensus       109 ~~~~~~~~~~~~~~~fD~I~~~~~l~~~~d~  139 (280)
T d1jqea_         109 SEYQSRMLEKKELQKWDFIHMIQMLYYVKDI  139 (280)
T ss_dssp             HHHHHHHTTSSSCCCEEEEEEESCGGGCSCH
T ss_pred             hhhcchhcccCCCCceeEEEEccceecCCCH
Confidence                   12233 34 999999999999874

>d1m6ya2 c.66.1.23 (A:2-114,A:216-294) TM0872, methyltransferase domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: MraW-like putative methyltransferases
domain: TM0872, methyltransferase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=97.91  E-value=6.1e-06  Score=65.30  Aligned_cols=65  Identities=23%  Similarity=0.222  Sum_probs=55.0

Q ss_pred             HHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC-----CCCceEEecccCC
Q 024350          182 EKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS-----YPGIDHVGGDLFE  247 (269)
Q Consensus       182 ~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~-----~~ri~~~~gD~~~  247 (269)
                      ..+++.+. .....++||++||+|.++..+++++|+.+++.+|+ |.+++.+++     .+|++++.++|-+
T Consensus        13 ~evi~~l~-~~~~~~~lD~t~G~Gghs~~il~~~~~~~vi~~D~d~~~l~~a~~~l~~~~~r~~~~~~~f~~   83 (192)
T d1m6ya2          13 REVIEFLK-PEDEKIILDCTVGEGGHSRAILEHCPGCRIIGIDVDSEVLRIAEEKLKEFSDRVSLFKVSYRE   83 (192)
T ss_dssp             HHHHHHHC-CCTTCEEEETTCTTSHHHHHHHHHCTTCEEEEEESCHHHHHHHHHHTGGGTTTEEEEECCGGG
T ss_pred             HHHHHhhC-CCCCCEEEEecCCCcHHHHHHHhcCCCCeEEEeechHHHHHHHHHhhccccccccchhHHHhh
Confidence            45666665 45668999999999999999999999999999997 788887764     2799999999865

>d1zx0a1 c.66.1.16 (A:8-236) Guanidinoacetate methyltransferase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: Guanidinoacetate methyltransferase
domain: Guanidinoacetate methyltransferase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.90  E-value=1.7e-06  Score=70.31  Aligned_cols=64  Identities=13%  Similarity=0.152  Sum_probs=48.1

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-----CCceEEecccCC---cCCCC--cEEEe
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-----PGIDHVGGDLFE---SVPKA--DTIFM  257 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-----~ri~~~~gD~~~---~~P~g--D~~~l  257 (269)
                      ...+|||||||+|..+..++++.|. +.+++|+ |.+++.+++.     .++.++.+|...   ++|.+  |.+++
T Consensus        53 ~g~~VLdIGcG~G~~a~~~a~~~~~-~v~~id~s~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~fD~i~f  127 (229)
T d1zx0a1          53 KGGRVLEVGFGMAIAASKVQEAPID-EHWIIECNDGVFQRLRDWAPRQTHKVIPLKGLWEDVAPTLPDGHFDGILY  127 (229)
T ss_dssp             TCEEEEEECCTTSHHHHHHHTSCEE-EEEEEECCHHHHHHHHHHGGGCSSEEEEEESCHHHHGGGSCTTCEEEEEE
T ss_pred             CCCeEEEeeccchHHHHHHHHcCCC-eEEEeCCCHHHHHHHHHHhhhcccccccccccccccccccccccccceee
Confidence            4478999999999999999987663 7899997 7888877642     567777776543   56643  77764

>d1yb2a1 c.66.1.13 (A:6-255) Hypothetical protein Ta0852 {Thermoplasma acidophilum [TaxId: 2303]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: tRNA(1-methyladenosine) methyltransferase-like
domain: Hypothetical protein Ta0852
species: Thermoplasma acidophilum [TaxId: 2303]

Probab=97.89  E-value=8.1e-06  Score=67.20  Aligned_cols=89  Identities=13%  Similarity=0.149  Sum_probs=59.9

Q ss_pred             HHHHHHHhhchhh----HHHHHHhccCCCCccEEEEeCCCchHHHHHHHHH-CCCCeEEEeeh-hHHHHhCCC-------
Q 024350          168 VFSNGMLSHTSIV----MEKVLESYKGFEHVKKLVDVGGGLGATLNMIISK-YPHIKGINYDL-LYVIKNAPS-------  234 (269)
Q Consensus       168 ~f~~~m~~~~~~~----~~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~-~P~l~~vv~Dl-p~vv~~a~~-------  234 (269)
                      .|...|...+...    +..++...+ .....+|+|+|||+|.++..+++. .|+-+.+.+|. ++.++.|++       
T Consensus        57 ~~~~~~~r~~qiiypkD~~~Ii~~l~-i~pG~rVLEiG~GsG~lt~~la~~v~~~g~V~~vD~~e~~~~~A~~n~~~~~~  135 (250)
T d1yb2a1          57 YFGRVIRRNTQIISEIDASYIIMRCG-LRPGMDILEVGVGSGNMSSYILYALNGKGTLTVVERDEDNLKKAMDNLSEFYD  135 (250)
T ss_dssp             GHHHHC------------------CC-CCTTCEEEEECCTTSHHHHHHHHHHTTSSEEEEECSCHHHHHHHHHHHHTTSC
T ss_pred             HHHhhCCCCCcccCHHHHHHHHHHcC-CCCcCEEEEeeeeCcHHHHHHHHHhCCCcEEEEEECCHHHHHHHHHHHHHhcC
Confidence            3445555544432    223455555 666789999999999999999987 68889999997 666766654       


Q ss_pred             CCCceEEecccCCcCCC-C-cEEEe
Q 024350          235 YPGIDHVGGDLFESVPK-A-DTIFM  257 (269)
Q Consensus       235 ~~ri~~~~gD~~~~~P~-g-D~~~l  257 (269)
                      ..+|++..+|+.+..|+ . |.+++
T Consensus       136 ~~nv~~~~~Di~~~~~~~~fD~V~l  160 (250)
T d1yb2a1         136 IGNVRTSRSDIADFISDQMYDAVIA  160 (250)
T ss_dssp             CTTEEEECSCTTTCCCSCCEEEEEE
T ss_pred             CCceEEEEeeeecccccceeeeeee
Confidence            27899999999887775 3 98876

>d1nt2a_ c.66.1.3 (A:) Fibrillarin homologue {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: Fibrillarin homologue
domain: Fibrillarin homologue
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=97.88  E-value=7.8e-06  Score=65.50  Aligned_cols=59  Identities=10%  Similarity=-0.007  Sum_probs=51.1

Q ss_pred             ccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC----CCCceEEecccCC
Q 024350          188 YKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS----YPGIDHVGGDLFE  247 (269)
Q Consensus       188 ~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~----~~ri~~~~gD~~~  247 (269)
                      ++ ++...+|||||||+|..+..+++..|+-+++.+|+ |.+++.+++    .+++.++.+|...
T Consensus        52 l~-lkpg~~VLDlGcG~G~~~~~la~~v~~g~V~gvDis~~~i~~a~~~a~~~~ni~~i~~d~~~  115 (209)
T d1nt2a_          52 LK-LRGDERVLYLGAASGTTVSHLADIVDEGIIYAVEYSAKPFEKLLELVRERNNIIPLLFDASK  115 (209)
T ss_dssp             CC-CCSSCEEEEETCTTSHHHHHHHHHTTTSEEEEECCCHHHHHHHHHHHHHCSSEEEECSCTTC
T ss_pred             CC-CCCCCEEEEeCCcCCHHHHHHHHhccCCeEEEEeCCHHHHHHHHHHhhccCCceEEEeeccC
Confidence            45 66778999999999999999999999999999997 888876654    4789999999877

>d2fk8a1 c.66.1.18 (A:22-301) Methoxy mycolic acid synthase 4, Mma4 {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: Mycolic acid cyclopropane synthase
domain: Methoxy mycolic acid synthase 4, Mma4
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.86  E-value=1e-05  Score=67.78  Aligned_cols=83  Identities=13%  Similarity=0.169  Sum_probs=62.7

Q ss_pred             HHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC-------CCCceEEecccCCcCCCC-
Q 024350          182 EKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS-------YPGIDHVGGDLFESVPKA-  252 (269)
Q Consensus       182 ~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~-------~~ri~~~~gD~~~~~P~g-  252 (269)
                      ..+++.++ ++...+|||||||.|.++..++++++ .+++++|+ ++.++.+++       ..++.+...|+.+ .|.- 
T Consensus        42 ~~~~~~l~-l~~g~~VLDiGCG~G~~a~~~a~~~g-~~v~gi~ls~~q~~~a~~~~~~~~l~~~~~~~~~d~~~-~~~~f  118 (280)
T d2fk8a1          42 DLNLDKLD-LKPGMTLLDIGCGWGTTMRRAVERFD-VNVIGLTLSKNQHARCEQVLASIDTNRSRQVLLQGWED-FAEPV  118 (280)
T ss_dssp             HHHHTTSC-CCTTCEEEEESCTTSHHHHHHHHHHC-CEEEEEESCHHHHHHHHHHHHTSCCSSCEEEEESCGGG-CCCCC
T ss_pred             HHHHHHcC-CCCCCEEEEecCCchHHHHHHHHhCc-eeEEEecchHHHHHHHHHHHHhhccccchhhhhhhhhh-hccch
Confidence            45677777 77789999999999999999888875 69999997 566655432       2678888778643 4543 


Q ss_pred             cEEEeccccccCCCC
Q 024350          253 DTIFMKVICVCYLNS  267 (269)
Q Consensus       253 D~~~l~~iLhd~~d~  267 (269)
                      |.++...+++..+++
T Consensus       119 D~i~si~~~eh~~~~  133 (280)
T d2fk8a1         119 DRIVSIEAFEHFGHE  133 (280)
T ss_dssp             SEEEEESCGGGTCGG
T ss_pred             hhhhHhhHHHHhhhh
Confidence            888888888777653

>d2nxca1 c.66.1.39 (A:1-254) PrmA-like protein TTHA0656 (TT0836) {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: Ribosomal protein L11 methyltransferase PrmA
domain: PrmA-like protein TTHA0656 (TT0836)
species: Thermus thermophilus [TaxId: 274]

Probab=97.86  E-value=3.1e-06  Score=70.03  Aligned_cols=90  Identities=18%  Similarity=0.227  Sum_probs=61.3

Q ss_pred             CcchHHHHHHHHHhhchhhHHHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-----
Q 024350          162 DSSFNDVFSNGMLSHTSIVMEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-----  235 (269)
Q Consensus       162 ~p~~~~~f~~~m~~~~~~~~~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-----  235 (269)
                      +|.  ..|..+-+.++......+. .+.  ....+|+|||||+|.+++.+++.  +.+++.+|+ |..++.++++     
T Consensus        94 ~pg--~aFGTG~H~TT~l~l~~l~-~~~--~~g~~VLDiGcGsG~l~i~aa~~--g~~V~gvDis~~av~~A~~na~~n~  166 (254)
T d2nxca1          94 EPG--MAFGTGHHETTRLALKALA-RHL--RPGDKVLDLGTGSGVLAIAAEKL--GGKALGVDIDPMVLPQAEANAKRNG  166 (254)
T ss_dssp             CCC-------CCSHHHHHHHHHHH-HHC--CTTCEEEEETCTTSHHHHHHHHT--TCEEEEEESCGGGHHHHHHHHHHTT
T ss_pred             ccc--cccCccccchhhHHHHHHH-hhc--CccCEEEEcccchhHHHHHHHhc--CCEEEEEECChHHHHHHHHHHHHcC
Confidence            454  3577777777766554443 333  34579999999999999988775  468899997 7888777642     


Q ss_pred             CCceEEecccCCcCCC-C-cEEEec
Q 024350          236 PGIDHVGGDLFESVPK-A-DTIFMK  258 (269)
Q Consensus       236 ~ri~~~~gD~~~~~P~-g-D~~~l~  258 (269)
                      -+++++.+|+.+..|. - |+++..
T Consensus       167 ~~~~~~~~d~~~~~~~~~fD~V~an  191 (254)
T d2nxca1         167 VRPRFLEGSLEAALPFGPFDLLVAN  191 (254)
T ss_dssp             CCCEEEESCHHHHGGGCCEEEEEEE
T ss_pred             CceeEEeccccccccccccchhhhc
Confidence            3577889998776664 3 888764

>d1i1na_ c.66.1.7 (A:) Protein-L-isoaspartyl O-methyltransferase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: Protein-L-isoaspartyl O-methyltransferase
domain: Protein-L-isoaspartyl O-methyltransferase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.82  E-value=1.7e-05  Score=64.18  Aligned_cols=84  Identities=20%  Similarity=0.111  Sum_probs=63.8

Q ss_pred             HHHHhcc-CCCCccEEEEeCCCchHHHHHHHHH-CCCCeEEEeeh-hHHHHhCCC-----------CCCceEEecccCCc
Q 024350          183 KVLESYK-GFEHVKKLVDVGGGLGATLNMIISK-YPHIKGINYDL-LYVIKNAPS-----------YPGIDHVGGDLFES  248 (269)
Q Consensus       183 ~~~~~~~-~~~~~~~vvDvGGG~G~~~~~l~~~-~P~l~~vv~Dl-p~vv~~a~~-----------~~ri~~~~gD~~~~  248 (269)
                      .+++.+. ..+...+|||||||+|..+.-+++. .|.-+++.+|+ ++.++.+++           ..+++++.+|.+..
T Consensus        65 ~~le~L~~~l~~g~~VLdiG~GsGy~ta~la~l~~~~g~V~~ie~~~~l~~~a~~~l~~~~~~~~~~~~~~~~~gD~~~~  144 (224)
T d1i1na_          65 YALELLFDQLHEGAKALDVGSGSGILTACFARMVGCTGKVIGIDHIKELVDDSVNNVRKDDPTLLSSGRVQLVVGDGRMG  144 (224)
T ss_dssp             HHHHHTTTTSCTTCEEEEETCTTSHHHHHHHHHHCTTCEEEEEESCHHHHHHHHHHHHHHCTHHHHTSSEEEEESCGGGC
T ss_pred             HHHHHHhhccCCCCeEEEecCCCCHHHHHHHHHhCCCceEEEEcCCHHHHHHHHHhccccCcccccccceEEEEeecccc
Confidence            3445441 1556679999999999998888874 57889999996 777776653           16899999999885


Q ss_pred             CC-CC--cEEEeccccccCCC
Q 024350          249 VP-KA--DTIFMKVICVCYLN  266 (269)
Q Consensus       249 ~P-~g--D~~~l~~iLhd~~d  266 (269)
                      .| .+  |+|++...++..++
T Consensus       145 ~~~~~~fD~I~~~~~~~~ip~  165 (224)
T d1i1na_         145 YAEEAPYDAIHVGAAAPVVPQ  165 (224)
T ss_dssp             CGGGCCEEEEEECSBBSSCCH
T ss_pred             cchhhhhhhhhhhcchhhcCH
Confidence            55 34  99999988887653

>d1ne2a_ c.66.1.32 (A:) Hypothetical protein Ta1320 {Archaeon Thermoplasma acidophilum [TaxId: 2303]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: Ta1320-like
domain: Hypothetical protein Ta1320
species: Archaeon Thermoplasma acidophilum [TaxId: 2303]

Probab=97.80  E-value=9.3e-06  Score=64.40  Aligned_cols=65  Identities=20%  Similarity=0.227  Sum_probs=51.4

Q ss_pred             CCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-CCceEEecccCCcCCC-CcEEEec
Q 024350          191 FEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-PGIDHVGGDLFESVPK-ADTIFMK  258 (269)
Q Consensus       191 ~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-~ri~~~~gD~~~~~P~-gD~~~l~  258 (269)
                      ++ .++|+|+|||+|.++.+++...+. +++.+|. |..++.++++ ++++++.+|+.+ +|. -|++++.
T Consensus        47 l~-Gk~VLDlGcGtG~l~i~a~~~ga~-~V~~vDid~~a~~~ar~N~~~~~~~~~D~~~-l~~~fD~Vi~N  114 (197)
T d1ne2a_          47 IG-GRSVIDAGTGNGILACGSYLLGAE-SVTAFDIDPDAIETAKRNCGGVNFMVADVSE-ISGKYDTWIMN  114 (197)
T ss_dssp             SB-TSEEEEETCTTCHHHHHHHHTTBS-EEEEEESCHHHHHHHHHHCTTSEEEECCGGG-CCCCEEEEEEC
T ss_pred             CC-CCEEEEeCCCCcHHHHHHHHcCCC-cccccccCHHHHHHHHHccccccEEEEehhh-cCCcceEEEeC
Confidence            54 479999999999999888876654 6899997 7788877764 889999999865 454 3888764

>d1u2za_ c.66.1.31 (A:) Catalytic, N-terminal domain of histone methyltransferase Dot1l {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: Catalytic, N-terminal domain of histone methyltransferase Dot1l
domain: Catalytic, N-terminal domain of histone methyltransferase Dot1l
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.77  E-value=1.6e-05  Score=69.74  Aligned_cols=80  Identities=10%  Similarity=0.224  Sum_probs=58.8

Q ss_pred             HHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC---------------CCceE-Eecc
Q 024350          182 EKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY---------------PGIDH-VGGD  244 (269)
Q Consensus       182 ~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~---------------~ri~~-~~gD  244 (269)
                      ..+++.++ +....+|||||||.|..+..+++.+|..+++++|+ |..++.|++.               ..+.+ ..++
T Consensus       206 ~~Il~~l~-Lkpgd~fLDLGCG~G~~vl~aA~~~g~~~v~GIDiS~~~i~~Ak~~~~e~~~~~~~~g~~~~~~~~~~~~~  284 (406)
T d1u2za_         206 SDVYQQCQ-LKKGDTFMDLGSGVGNCVVQAALECGCALSFGCEIMDDASDLTILQYEELKKRCKLYGMRLNNVEFSLKKS  284 (406)
T ss_dssp             HHHHHHTT-CCTTCEEEEESCTTSHHHHHHHHHHCCSEEEEEECCHHHHHHHHHHHHHHHHHHHHTTBCCCCEEEEESSC
T ss_pred             HHHHHHhC-CCCCCEEEeCCCCCcHHHHHHHHHcCCCeEEEEeCCHHHHHHHHHHHHHHhhhhhhhccccccceeeeeec
Confidence            45666676 77778999999999999999999999888999997 6777666531               22333 4566


Q ss_pred             cCC-c-----CCCCcEEEeccccc
Q 024350          245 LFE-S-----VPKADTIFMKVICV  262 (269)
Q Consensus       245 ~~~-~-----~P~gD~~~l~~iLh  262 (269)
                      |++ +     ++.+|++++.+.+|
T Consensus       285 f~~~~~~d~~~~~adVV~inn~~f  308 (406)
T d1u2za_         285 FVDNNRVAELIPQCDVILVNNFLF  308 (406)
T ss_dssp             STTCHHHHHHGGGCSEEEECCTTC
T ss_pred             hhhccccccccccceEEEEecccC
Confidence            665 2     33358888877665

>d1g6q1_ c.66.1.6 (1:) Arginine methyltransferase, HMT1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: Arginine methyltransferase
domain: Arginine methyltransferase, HMT1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.75  E-value=1.7e-05  Score=67.68  Aligned_cols=71  Identities=24%  Similarity=0.239  Sum_probs=54.1

Q ss_pred             ccEEEEeCCCchHHHHHHHHHCCCCeEEEeehhHHHHhCCC-------CCCceEEecccCC-cCCC-C-cEEEecccccc
Q 024350          194 VKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPS-------YPGIDHVGGDLFE-SVPK-A-DTIFMKVICVC  263 (269)
Q Consensus       194 ~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp~vv~~a~~-------~~ri~~~~gD~~~-~~P~-g-D~~~l~~iLhd  263 (269)
                      .++|||||||+|.++..++++.. -+++++|..+.+..+++       .++|+++.+|+.+ ++|. - |+++...+.|.
T Consensus        39 ~~~VLDlGcGtG~ls~~aa~~Ga-~~V~avd~s~~~~~a~~~~~~~~~~~~i~~i~~~~~~l~~~~~~~D~i~se~~~~~  117 (328)
T d1g6q1_          39 DKIVLDVGCGTGILSMFAAKHGA-KHVIGVDMSSIIEMAKELVELNGFSDKITLLRGKLEDVHLPFPKVDIIISEWMGYF  117 (328)
T ss_dssp             TCEEEEETCTTSHHHHHHHHTCC-SEEEEEESSTHHHHHHHHHHHTTCTTTEEEEESCTTTSCCSSSCEEEEEECCCBTT
T ss_pred             cCEEEEeCCCCCHHHHHHHHhCC-CEEEEEeCCHHHHHHHHHHHHhCccccceEEEeehhhccCcccceeEEEEEeccee
Confidence            47899999999999987777643 37899998776655543       2789999999998 7774 3 98887666654


Q ss_pred             CC
Q 024350          264 YL  265 (269)
Q Consensus       264 ~~  265 (269)
                      ..
T Consensus       118 ~~  119 (328)
T d1g6q1_         118 LL  119 (328)
T ss_dssp             BS
T ss_pred             ec
Confidence            43

>d2fyta1 c.66.1.6 (A:238-548) Protein arginine N-methyltransferase 3, PRMT3 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: Arginine methyltransferase
domain: Protein arginine N-methyltransferase 3, PRMT3
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.74  E-value=4.6e-05  Score=64.39  Aligned_cols=74  Identities=22%  Similarity=0.184  Sum_probs=55.2

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeehhHHHHhCC-------CCCCceEEecccCC-cCCC-C-cEEEeccccc
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAP-------SYPGIDHVGGDLFE-SVPK-A-DTIFMKVICV  262 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp~vv~~a~-------~~~ri~~~~gD~~~-~~P~-g-D~~~l~~iLh  262 (269)
                      +.++|||||||+|.++..++++.+ -+++.+|..+....+.       ..++|+++.+|..+ +.|. - |+++...+.|
T Consensus        35 ~~~~VLDiGcG~G~lsl~aa~~Ga-~~V~aid~s~~~~~a~~~~~~~~~~~~i~~~~~~~~~l~~~~~~~D~Ivse~~~~  113 (311)
T d2fyta1          35 KDKVVLDVGCGTGILSMFAAKAGA-KKVLGVDQSEILYQAMDIIRLNKLEDTITLIKGKIEEVHLPVEKVDVIISEWMGY  113 (311)
T ss_dssp             TTCEEEEETCTTSHHHHHHHHTTC-SEEEEEESSTHHHHHHHHHHHTTCTTTEEEEESCTTTSCCSCSCEEEEEECCCBT
T ss_pred             CcCEEEEECCCCCHHHHHHHHcCC-CEEEEEeCHHHHHHHHHHHHHhCCCccceEEEeeHHHhcCccccceEEEEeeeee
Confidence            457899999999999999988755 4789999755443322       13889999999988 6663 3 9998776666


Q ss_pred             cCCCC
Q 024350          263 CYLNS  267 (269)
Q Consensus       263 d~~d~  267 (269)
                      ....+
T Consensus       114 ~~~~e  118 (311)
T d2fyta1         114 FLLFE  118 (311)
T ss_dssp             TBTTT
T ss_pred             ecccc
Confidence            54443

>d1oria_ c.66.1.6 (A:) Protein arginine N-methyltransferase 1, PRMT1 {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: Arginine methyltransferase
domain: Protein arginine N-methyltransferase 1, PRMT1
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=97.74  E-value=1.5e-05  Score=67.78  Aligned_cols=71  Identities=21%  Similarity=0.250  Sum_probs=52.5

Q ss_pred             ccEEEEeCCCchHHHHHHHHHCCCCeEEEeehhHHHHhCCC-------CCCceEEecccCC-cCCC-C-cEEEecccccc
Q 024350          194 VKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPS-------YPGIDHVGGDLFE-SVPK-A-DTIFMKVICVC  263 (269)
Q Consensus       194 ~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp~vv~~a~~-------~~ri~~~~gD~~~-~~P~-g-D~~~l~~iLhd  263 (269)
                      .++|||||||+|.++..++++.+. +++.+|..+.+..+++       .++|+++.+|..+ +.|. - |+++...+.|.
T Consensus        34 ~~~VLDiGcG~G~ls~~aa~~Ga~-~V~avd~s~~~~~a~~~~~~n~~~~~v~~~~~~~~~~~~~~~~~D~ivs~~~~~~  112 (316)
T d1oria_          34 DKVVLDVGSGTGILCMFAAKAGAR-KVIGIECSSISDYAVKIVKANKLDHVVTIIKGKVEEVELPVEKVDIIISEWMGYC  112 (316)
T ss_dssp             TCEEEEETCTTSHHHHHHHHTTCS-EEEEEECSTTHHHHHHHHHHTTCTTTEEEEESCTTTCCCSSSCEEEEEECCCBBT
T ss_pred             cCEEEEEecCCcHHHHHHHHhCCC-EEEEEcCcHHHhhhhhHHHHhCCccccceEeccHHHcccccceeEEEeeeeeeee
Confidence            478999999999999988886543 7889997554443322       3889999999998 6674 3 88877655554


Q ss_pred             CC
Q 024350          264 YL  265 (269)
Q Consensus       264 ~~  265 (269)
                      ..
T Consensus       113 l~  114 (316)
T d1oria_         113 LF  114 (316)
T ss_dssp             BT
T ss_pred             ec
Confidence            43

>d1kpga_ c.66.1.18 (A:) CmaA1 {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: Mycolic acid cyclopropane synthase
domain: CmaA1
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.68  E-value=3.7e-05  Score=64.35  Aligned_cols=76  Identities=18%  Similarity=0.198  Sum_probs=55.9

Q ss_pred             HHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC-------CCCceEEecccCCcCCC-C
Q 024350          182 EKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS-------YPGIDHVGGDLFESVPK-A  252 (269)
Q Consensus       182 ~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~-------~~ri~~~~gD~~~~~P~-g  252 (269)
                      ..+++... ++...+|||||||.|..+..++++++ ++++++++ +..++.+++       .+++++..+|+-+ .|. -
T Consensus        52 ~~~~~~l~-l~~G~~VLDiGCG~G~~a~~~a~~~g-~~v~git~s~~Q~~~a~~~~~~~g~~~~v~~~~~d~~~-~~~~f  128 (285)
T d1kpga_          52 DLALGKLG-LQPGMTLLDVGCGWGATMMRAVEKYD-VNVVGLTLSKNQANHVQQLVANSENLRSKRVLLAGWEQ-FDEPV  128 (285)
T ss_dssp             HHHHTTTT-CCTTCEEEEETCTTSHHHHHHHHHHC-CEEEEEESCHHHHHHHHHHHHTCCCCSCEEEEESCGGG-CCCCC
T ss_pred             HHHHHHcC-CCCCCEEEEecCcchHHHHHHHhcCC-cceEEEeccHHHHHHHHHHHHhhhhhhhhHHHHhhhhc-ccccc
Confidence            45667776 77789999999999999999999994 89999987 555544432       3899999999854 343 2


Q ss_pred             cEEEeccc
Q 024350          253 DTIFMKVI  260 (269)
Q Consensus       253 D~~~l~~i  260 (269)
                      |.++--..
T Consensus       129 D~i~si~~  136 (285)
T d1kpga_         129 DRIVSIGA  136 (285)
T ss_dssp             SEEEEESC
T ss_pred             cceeeehh
Confidence            54443333

>d1vbfa_ c.66.1.7 (A:) Protein-L-isoaspartyl O-methyltransferase {Sulfolobus tokodaii [TaxId: 111955]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: Protein-L-isoaspartyl O-methyltransferase
domain: Protein-L-isoaspartyl O-methyltransferase
species: Sulfolobus tokodaii [TaxId: 111955]

Probab=97.67  E-value=2.8e-05  Score=62.79  Aligned_cols=81  Identities=17%  Similarity=0.236  Sum_probs=61.7

Q ss_pred             HHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC----CCCceEEecccCCcCCC-C--cE
Q 024350          183 KVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS----YPGIDHVGGDLFESVPK-A--DT  254 (269)
Q Consensus       183 ~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~----~~ri~~~~gD~~~~~P~-g--D~  254 (269)
                      .+++.++ ++...+|||||||+|.++..+++..  -+++.+|. |..++.+++    ..+++++.+|.+...|+ +  |+
T Consensus        61 ~ml~~L~-l~~g~~VLdIG~GsGy~ta~La~l~--~~V~aiE~~~~~~~~A~~~~~~~~nv~~~~~d~~~g~~~~~pfD~  137 (224)
T d1vbfa_          61 FMLDELD-LHKGQKVLEIGTGIGYYTALIAEIV--DKVVSVEINEKMYNYASKLLSYYNNIKLILGDGTLGYEEEKPYDR  137 (224)
T ss_dssp             HHHHHTT-CCTTCEEEEECCTTSHHHHHHHHHS--SEEEEEESCHHHHHHHHHHHTTCSSEEEEESCGGGCCGGGCCEEE
T ss_pred             HHHHHhh-hcccceEEEecCCCCHHHHHHHHHh--cccccccccHHHHHHHHHHHhcccccccccCchhhcchhhhhHHH
Confidence            3556677 7788899999999999988887765  35677775 666665543    48999999999886664 5  99


Q ss_pred             EEeccccccCCC
Q 024350          255 IFMKVICVCYLN  266 (269)
Q Consensus       255 ~~l~~iLhd~~d  266 (269)
                      +++...++..++
T Consensus       138 Iiv~~a~~~ip~  149 (224)
T d1vbfa_         138 VVVWATAPTLLC  149 (224)
T ss_dssp             EEESSBBSSCCH
T ss_pred             HHhhcchhhhhH
Confidence            998877766553

>d1kpia_ c.66.1.18 (A:) CmaA2 {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: Mycolic acid cyclopropane synthase
domain: CmaA2
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.64  E-value=5.9e-05  Score=63.30  Aligned_cols=82  Identities=17%  Similarity=0.193  Sum_probs=58.2

Q ss_pred             HHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC-------CCCceEEecccCCcCCC-C
Q 024350          182 EKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS-------YPGIDHVGGDLFESVPK-A  252 (269)
Q Consensus       182 ~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~-------~~ri~~~~gD~~~~~P~-g  252 (269)
                      ..+++... ++...+|||||||.|.++..++++++ ++++++++ ++.++.+++       ..++++...|+-. .+. -
T Consensus        51 ~~~~~~l~-l~~G~~VLDiGCG~G~~~~~~a~~~g-~~v~git~s~~q~~~a~~~~~~~~l~~~v~~~~~d~~~-~~~~f  127 (291)
T d1kpia_          51 KLALDKLN-LEPGMTLLDIGCGWGSTMRHAVAEYD-VNVIGLTLSENQYAHDKAMFDEVDSPRRKEVRIQGWEE-FDEPV  127 (291)
T ss_dssp             HHHHHTTC-CCTTCEEEEETCTTSHHHHHHHHHHC-CEEEEEESCHHHHHHHHHHHHHSCCSSCEEEEECCGGG-CCCCC
T ss_pred             HHHHHhcC-CCCCCEEEEecCcchHHHHHHHHhcC-cceeeccchHHHHHHHHHHHHhhccchhhhhhhhcccc-ccccc
Confidence            45667777 77889999999999999999999996 68999987 444443332       3789998888732 222 3


Q ss_pred             cEEEeccccccCCC
Q 024350          253 DTIFMKVICVCYLN  266 (269)
Q Consensus       253 D~~~l~~iLhd~~d  266 (269)
                      |.|+.--.+...++
T Consensus       128 D~i~sie~~eH~~~  141 (291)
T d1kpia_         128 DRIVSLGAFEHFAD  141 (291)
T ss_dssp             SEEEEESCGGGTTC
T ss_pred             ceEeechhHHhcch
Confidence            76665555544443

>d1xvaa_ c.66.1.5 (A:) Glycine N-methyltransferase {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: Glycine N-methyltransferase
domain: Glycine N-methyltransferase
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=97.60  E-value=3.4e-05  Score=64.55  Aligned_cols=74  Identities=16%  Similarity=0.183  Sum_probs=53.3

Q ss_pred             CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC----------CCceEEecccCC---cCC--CC-cE
Q 024350          192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY----------PGIDHVGGDLFE---SVP--KA-DT  254 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~----------~ri~~~~gD~~~---~~P--~g-D~  254 (269)
                      .+..+|||||||+|.++..|+++  +.+++++|+ |.+++.|++.          .+..+...|+..   ..|  .. |+
T Consensus        55 ~~~~~vLD~GcG~G~~~~~la~~--g~~v~gvD~S~~ml~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~fd~  132 (292)
T d1xvaa_          55 HGCHRVLDVACGTGVDSIMLVEE--GFSVTSVDASDKMLKYALKERWNRRKEPAFDKWVIEEANWLTLDKDVPAGDGFDA  132 (292)
T ss_dssp             TTCCEEEESSCTTSHHHHHHHHT--TCEEEEEESCHHHHHHHHHHHHHTTTSHHHHTCEEEECCGGGHHHHSCCTTCEEE
T ss_pred             cCCCEEEEecCCCcHHHHHHHHc--CCeeeeccCchHHHHHHHHHHHhcccccccceeeeeeccccccccccCCCCCceE
Confidence            35579999999999999999987  578999997 7888776532          344555666654   244  34 66


Q ss_pred             EE-eccccccCCCC
Q 024350          255 IF-MKVICVCYLNS  267 (269)
Q Consensus       255 ~~-l~~iLhd~~d~  267 (269)
                      ++ +.++|+.++++
T Consensus       133 v~~~~~~~~~~~~~  146 (292)
T d1xvaa_         133 VICLGNSFAHLPDS  146 (292)
T ss_dssp             EEECSSCGGGSCCT
T ss_pred             EEEecCchhhcCCc
Confidence            55 56788877664

>d1o54a_ c.66.1.13 (A:) Hypothetical protein TM0748 {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: tRNA(1-methyladenosine) methyltransferase-like
domain: Hypothetical protein TM0748
species: Thermotoga maritima [TaxId: 2336]

Probab=97.58  E-value=4.6e-05  Score=63.14  Aligned_cols=94  Identities=18%  Similarity=0.129  Sum_probs=67.8

Q ss_pred             HHHHHHHhhchh----hHHHHHHhccCCCCccEEEEeCCCchHHHHHHHHHC-CCCeEEEeeh-hHHHHhCCCC------
Q 024350          168 VFSNGMLSHTSI----VMEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKY-PHIKGINYDL-LYVIKNAPSY------  235 (269)
Q Consensus       168 ~f~~~m~~~~~~----~~~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~-P~l~~vv~Dl-p~vv~~a~~~------  235 (269)
                      .|...|...+..    .+..++..++ .....+|+|+|||+|.++..+++.. |+.+++.+|. |+.++.|+++      
T Consensus        75 d~~~~~~r~~qiiypkd~~~Ii~~l~-i~pG~~VLDiG~GsG~lt~~lA~~~~~~G~V~~vD~~~~~~~~A~~~~~~~g~  153 (266)
T d1o54a_          75 DEIMNMKRRTQIVYPKDSSFIAMMLD-VKEGDRIIDTGVGSGAMCAVLARAVGSSGKVFAYEKREEFAKLAESNLTKWGL  153 (266)
T ss_dssp             HHHHTCCC-CCCCCHHHHHHHHHHTT-CCTTCEEEEECCTTSHHHHHHHHHTTTTCEEEEECCCHHHHHHHHHHHHHTTC
T ss_pred             HHHhhccCCccccchHHHHHHHHhhC-CCCCCEEEECCCCCCHHHHHHHHHhCCCcEEEEEeCCHHHHHHHHHHHHHhcc
Confidence            344555554442    2334666677 7778999999999999999999885 8999999996 7888877652      


Q ss_pred             -CCceEEecccCCcCCC-C-cEEEeccccccCCCC
Q 024350          236 -PGIDHVGGDLFESVPK-A-DTIFMKVICVCYLNS  267 (269)
Q Consensus       236 -~ri~~~~gD~~~~~P~-g-D~~~l~~iLhd~~d~  267 (269)
                       +++++..+|+....+. . |.++     +|.++.
T Consensus       154 ~~~v~~~~~d~~~~~~~~~~D~V~-----~d~p~p  183 (266)
T d1o54a_         154 IERVTIKVRDISEGFDEKDVDALF-----LDVPDP  183 (266)
T ss_dssp             GGGEEEECCCGGGCCSCCSEEEEE-----ECCSCG
T ss_pred             ccCcEEEeccccccccccceeeeE-----ecCCCH
Confidence             6788888998766664 2 6554     455553

>d2esra1 c.66.1.46 (A:28-179) Putative methyltransferase SPy1538 {Streptococcus pyogenes [TaxId: 1314]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: YhhF-like
domain: Putative methyltransferase SPy1538
species: Streptococcus pyogenes [TaxId: 1314]

Probab=97.53  E-value=1.4e-05  Score=60.60  Aligned_cols=64  Identities=9%  Similarity=0.011  Sum_probs=50.5

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC-------CCCceEEecccCC--cCCC--CcEEEe
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS-------YPGIDHVGGDLFE--SVPK--ADTIFM  257 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~-------~~ri~~~~gD~~~--~~P~--gD~~~l  257 (269)
                      +..+|||+|||+|.++.+.+.+... +++.+|. |..++.+++       .++++++.+|.++  +.+.  -|++++
T Consensus        14 ~g~~vlDl~~GtG~~~iea~~rga~-~v~~ve~~~~a~~~~~~n~~~~~~~~~~~ii~~D~~~~l~~~~~~fDiIf~   89 (152)
T d2esra1          14 NGGRVLDLFAGSGGLAIEAVSRGMS-AAVLVEKNRKAQAIIQDNIIMTKAENRFTLLKMEAERAIDCLTGRFDLVFL   89 (152)
T ss_dssp             CSCEEEEETCTTCHHHHHHHHTTCC-EEEEECCCHHHHHHHHHHHHTTTCGGGEEEECSCHHHHHHHBCSCEEEEEE
T ss_pred             CCCeEEEcCCccCHHHHHHHHhCcc-eeeeehhchhhhhhhhhhhhhcccccchhhhcccccccccccccccceeEe
Confidence            3479999999999999999988765 8899997 777765543       2789999999877  3433  398887

>d1nv8a_ c.66.1.30 (A:) N5-glutamine methyltransferase, HemK {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: N5-glutamine methyltransferase, HemK
domain: N5-glutamine methyltransferase, HemK
species: Thermotoga maritima [TaxId: 2336]

Probab=97.45  E-value=4.7e-05  Score=63.18  Aligned_cols=64  Identities=20%  Similarity=0.262  Sum_probs=52.4

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-------CCceEEecccCCcCCC--C--cEEEe
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-------PGIDHVGGDLFESVPK--A--DTIFM  257 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~~~P~--g--D~~~l  257 (269)
                      +..+++|+|||+|..+..++ ++|+.+++..|. |..++.|+++       .++.++.+|++++.+.  +  |+++.
T Consensus       110 ~~~~vld~g~GsG~i~~~la-~~~~~~v~a~Dis~~Al~~A~~Na~~~~~~~~~~i~~~~~~~~~~~~~~~fDlIVs  185 (271)
T d1nv8a_         110 GIKTVADIGTGSGAIGVSVA-KFSDAIVFATDVSSKAVEIARKNAERHGVSDRFFVRKGEFLEPFKEKFASIEMILS  185 (271)
T ss_dssp             TCCEEEEESCTTSHHHHHHH-HHSSCEEEEEESCHHHHHHHHHHHHHTTCTTSEEEEESSTTGGGGGGTTTCCEEEE
T ss_pred             cccEEEEeeeeeehhhhhhh-hcccceeeechhhhhHHHHHHHHHHHcCCCceeEEeecccccccccccCcccEEEE
Confidence            45689999999999999987 579999999997 7888777652       6899999999997652  3  87764

>d1wy7a1 c.66.1.32 (A:4-204) Hypothetical protein PH1948 {Archaeon Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: Ta1320-like
domain: Hypothetical protein PH1948
species: Archaeon Pyrococcus horikoshii [TaxId: 53953]

Probab=97.45  E-value=7.6e-05  Score=59.11  Aligned_cols=64  Identities=19%  Similarity=0.155  Sum_probs=48.5

Q ss_pred             CCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-----CCceEEecccCCcCCC-CcEEEe
Q 024350          191 FEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-----PGIDHVGGDLFESVPK-ADTIFM  257 (269)
Q Consensus       191 ~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-----~ri~~~~gD~~~~~P~-gD~~~l  257 (269)
                      +++ .+|||+|||+|.++++++.+.+ .+++.+|. |..++.++++     .+++++.+|..+ +++ -|++++
T Consensus        45 l~g-~~vLDlg~GtG~l~i~a~~~g~-~~v~~vdi~~~~~~~a~~N~~~~~~~~~~~~~d~~~-~~~~fD~Vi~  115 (201)
T d1wy7a1          45 IEG-KVVADLGAGTGVLSYGALLLGA-KEVICVEVDKEAVDVLIENLGEFKGKFKVFIGDVSE-FNSRVDIVIM  115 (201)
T ss_dssp             STT-CEEEEETCTTCHHHHHHHHTTC-SEEEEEESCHHHHHHHHHHTGGGTTSEEEEESCGGG-CCCCCSEEEE
T ss_pred             CCC-CEEEECcCcchHHHHHHHHcCC-CEEEEEcCcHHHHHHHHHHHHHcCCCceEEECchhh-hCCcCcEEEE
Confidence            544 7999999999999999887644 58899997 6777666542     678888888865 343 488875

>d1jg1a_ c.66.1.7 (A:) Protein-L-isoaspartyl O-methyltransferase {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: Protein-L-isoaspartyl O-methyltransferase
domain: Protein-L-isoaspartyl O-methyltransferase
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=97.39  E-value=9.3e-05  Score=59.27  Aligned_cols=81  Identities=19%  Similarity=0.171  Sum_probs=60.7

Q ss_pred             HHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC------CCCceEEecccCCcCC-CC--
Q 024350          183 KVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS------YPGIDHVGGDLFESVP-KA--  252 (269)
Q Consensus       183 ~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~------~~ri~~~~gD~~~~~P-~g--  252 (269)
                      .+++.++ .+...+|+|||+|+|..+.-+++-. +-+++.+|. |+.++.+++      .++++++.+|.++..| .+  
T Consensus        69 ~ml~~L~-l~~g~~VLeIGsGsGY~taila~l~-g~~V~~ie~~~~l~~~a~~~l~~~g~~nv~~~~gd~~~g~~~~~pf  146 (215)
T d1jg1a_          69 IMLEIAN-LKPGMNILEVGTGSGWNAALISEIV-KTDVYTIERIPELVEFAKRNLERAGVKNVHVILGDGSKGFPPKAPY  146 (215)
T ss_dssp             HHHHHHT-CCTTCCEEEECCTTSHHHHHHHHHH-CSCEEEEESCHHHHHHHHHHHHHTTCCSEEEEESCGGGCCGGGCCE
T ss_pred             HHHHhhc-cCccceEEEecCCCChhHHHHHHhh-CceeEEEeccHHHHHHHHHHHHHcCCceeEEEECccccCCcccCcc
Confidence            3456666 7777899999999999988777654 344666765 777776654      3899999999998666 34  


Q ss_pred             cEEEeccccccCC
Q 024350          253 DTIFMKVICVCYL  265 (269)
Q Consensus       253 D~~~l~~iLhd~~  265 (269)
                      |++++.-.++..|
T Consensus       147 D~Iiv~~a~~~ip  159 (215)
T d1jg1a_         147 DVIIVTAGAPKIP  159 (215)
T ss_dssp             EEEEECSBBSSCC
T ss_pred             eeEEeecccccCC
Confidence            9998877766544

>d2h00a1 c.66.1.54 (A:5-254) Methyltransferase 10 domain containing protein METT10D {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: Methyltransferase 10 domain
domain: Methyltransferase 10 domain containing protein METT10D
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.37  E-value=7.7e-05  Score=61.18  Aligned_cols=54  Identities=11%  Similarity=0.047  Sum_probs=45.6

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-------CCceEEecccC
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-------PGIDHVGGDLF  246 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~  246 (269)
                      ...+++|||+|+|..+..|++++|++++++.|+ |..++.|+++       +|+.++..+..
T Consensus        61 ~~~~~LDiGtGsg~I~~~l~~~~~~~~~~~~Di~~~al~~A~~N~~~n~l~~~~~~~~~~~~  122 (250)
T d2h00a1          61 TLRRGIDIGTGASCIYPLLGATLNGWYFLATEVDDMCFNYAKKNVEQNNLSDLIKVVKVPQK  122 (250)
T ss_dssp             CCCEEEEESCTTTTHHHHHHHHHHCCEEEEEESCHHHHHHHHHHHHHTTCTTTEEEEECCTT
T ss_pred             ccceEEEeCCCchHHHHHHHHhCCCccccceecCHHHHHHHHHHHHHhCCCcceeeeeeccH
Confidence            456999999999999999999999999999997 7888777652       78888865443

>d2b25a1 c.66.1.13 (A:6-329) Hypothetical protein FLJ20628 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: tRNA(1-methyladenosine) methyltransferase-like
domain: Hypothetical protein FLJ20628
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.35  E-value=0.00021  Score=60.69  Aligned_cols=90  Identities=13%  Similarity=0.186  Sum_probs=64.4

Q ss_pred             HHHHHHHHhhchh----hHHHHHHhccCCCCccEEEEeCCCchHHHHHHHHH-CCCCeEEEeeh-hHHHHhCCC------
Q 024350          167 DVFSNGMLSHTSI----VMEKVLESYKGFEHVKKLVDVGGGLGATLNMIISK-YPHIKGINYDL-LYVIKNAPS------  234 (269)
Q Consensus       167 ~~f~~~m~~~~~~----~~~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~-~P~l~~vv~Dl-p~vv~~a~~------  234 (269)
                      ..|...|...+..    .+..++..++ .....+|+|+|||+|.++..|++. .|+-+++.+|+ |+.++.|++      
T Consensus        69 ~d~~~~~~r~tqiiypkD~~~Il~~l~-i~pG~rVLE~GtGsG~lt~~LAr~vg~~G~V~t~E~~~~~~~~A~~n~~~~~  147 (324)
T d2b25a1          69 EDYVVLMKRGTAITFPKDINMILSMMD-INPGDTVLEAGSGSGGMSLFLSKAVGSQGRVISFEVRKDHHDLAKKNYKHWR  147 (324)
T ss_dssp             HHHHHHSCCSSCCCCHHHHHHHHHHHT-CCTTCEEEEECCTTSHHHHHHHHHHCTTCEEEEEESSHHHHHHHHHHHHHHH
T ss_pred             HHHhhccCCCCcccccccHHHHHHHhC-CCCCCEEEEecccccHHHHHHHHHhCCCcEEEEecCCHHHHHHHHHHHHHhh
Confidence            3455566655442    2445667777 777799999999999999999987 58989999997 666665543      


Q ss_pred             -----------CCCceEEecccCCc---CCC-C-cEEEe
Q 024350          235 -----------YPGIDHVGGDLFES---VPK-A-DTIFM  257 (269)
Q Consensus       235 -----------~~ri~~~~gD~~~~---~P~-g-D~~~l  257 (269)
                                 .++|++..+|+-+.   ++. . |.+++
T Consensus       148 ~~~~~~~~~~~~~nv~~~~~di~~~~~~~~~~~fD~V~L  186 (324)
T d2b25a1         148 DSWKLSHVEEWPDNVDFIHKDISGATEDIKSLTFDAVAL  186 (324)
T ss_dssp             HHHTTTCSSCCCCCEEEEESCTTCCC-------EEEEEE
T ss_pred             hhhhhhhhhccccceeEEecchhhcccccCCCCcceEee
Confidence                       16899999998652   343 3 88876

>d2frna1 c.66.1.47 (A:19-278) Hypothetical protein PH0793 {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: Met-10+ protein-like
domain: Hypothetical protein PH0793
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=97.34  E-value=8.4e-05  Score=61.30  Aligned_cols=66  Identities=21%  Similarity=0.108  Sum_probs=52.7

Q ss_pred             CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC-------CCCceEEecccCCcCCC--CcEEEec
Q 024350          192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS-------YPGIDHVGGDLFESVPK--ADTIFMK  258 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~-------~~ri~~~~gD~~~~~P~--gD~~~l~  258 (269)
                      ....+|||+|||+|.++..++++ +..+++.+|+ |..++.+++       .++|+++.+|.++-.++  .|.++|.
T Consensus       106 ~~g~~VlD~~aG~G~~~l~~a~~-~~~~V~avd~n~~a~~~~~~N~~~n~l~~~v~~~~~D~~~~~~~~~~D~Ii~~  181 (260)
T d2frna1         106 KPDELVVDMFAGIGHLSLPIAVY-GKAKVIAIEKDPYTFKFLVENIHLNKVEDRMSAYNMDNRDFPGENIADRILMG  181 (260)
T ss_dssp             CTTCEEEETTCTTTTTHHHHHHH-TCCEEEEECCCHHHHHHHHHHHHHTTCTTTEEEECSCTTTCCCCSCEEEEEEC
T ss_pred             CCccEEEECcceEcHHHHHHHHh-CCcEEEEecCCHHHHHHHHHHHHHhCCCceEEEEEcchHHhccCCCCCEEEEC
Confidence            45689999999999999999976 5678999997 777776654       27899999999884444  3877764

>d1r18a_ c.66.1.7 (A:) Protein-L-isoaspartyl O-methyltransferase {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: Protein-L-isoaspartyl O-methyltransferase
domain: Protein-L-isoaspartyl O-methyltransferase
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=97.32  E-value=0.0002  Score=57.52  Aligned_cols=81  Identities=16%  Similarity=0.179  Sum_probs=60.8

Q ss_pred             HHHhc--cCCCCccEEEEeCCCchHHHHHHHHH------CCCCeEEEeeh-hHHHHhCCCC-----------CCceEEec
Q 024350          184 VLESY--KGFEHVKKLVDVGGGLGATLNMIISK------YPHIKGINYDL-LYVIKNAPSY-----------PGIDHVGG  243 (269)
Q Consensus       184 ~~~~~--~~~~~~~~vvDvGGG~G~~~~~l~~~------~P~l~~vv~Dl-p~vv~~a~~~-----------~ri~~~~g  243 (269)
                      ++..+  + +.+..+|||||||+|.++.-+++-      ++..+++.+|. ++.++.++++           .+|+++.+
T Consensus        70 ~l~~L~~~-l~~g~~VLeIGtGsGY~ta~la~l~g~~g~~~~~~V~~iE~~~~l~~~a~~~l~~~~~~~~~~~nv~~~~~  148 (223)
T d1r18a_          70 ALEYLRDH-LKPGARILDVGSGSGYLTACFYRYIKAKGVDADTRIVGIEHQAELVRRSKANLNTDDRSMLDSGQLLIVEG  148 (223)
T ss_dssp             HHHHTTTT-CCTTCEEEEESCTTSHHHHHHHHHHHHSCCCTTCEEEEEESCHHHHHHHHHHHHHHHHHHHHHTSEEEEES
T ss_pred             HHHHHhhc-cCCCCeEEEecCCCCHHHHHHHHHhhhccCCcccEEEEEecCHHHHHHHHHhhhhcchhhcCccEEEEEec
Confidence            44544  3 666789999999999987776654      46678888886 6777666432           68999999


Q ss_pred             ccCCcCC-CC--cEEEeccccccCC
Q 024350          244 DLFESVP-KA--DTIFMKVICVCYL  265 (269)
Q Consensus       244 D~~~~~P-~g--D~~~l~~iLhd~~  265 (269)
                      |..+..| .+  |.|++.-.+...|
T Consensus       149 d~~~~~~~~~~fD~Iiv~~a~~~~p  173 (223)
T d1r18a_         149 DGRKGYPPNAPYNAIHVGAAAPDTP  173 (223)
T ss_dssp             CGGGCCGGGCSEEEEEECSCBSSCC
T ss_pred             ccccccccccceeeEEEEeechhch
Confidence            9998655 34  9999988776654

>d1qama_ c.66.1.24 (A:) rRNA adenine dimethylase {Bacillus subtilis, Ermc' [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: rRNA adenine dimethylase-like
domain: rRNA adenine dimethylase
species: Bacillus subtilis, Ermc' [TaxId: 1423]

Probab=97.28  E-value=0.00032  Score=56.76  Aligned_cols=79  Identities=11%  Similarity=0.245  Sum_probs=58.0

Q ss_pred             HHHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhC----CCCCCceEEecccCC-cCCCC-c
Q 024350          181 MEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNA----PSYPGIDHVGGDLFE-SVPKA-D  253 (269)
Q Consensus       181 ~~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a----~~~~ri~~~~gD~~~-~~P~g-D  253 (269)
                      +..+++..+ .+...+|++||+|.|.+...|+++..  +++++|+ +..++..    ...++++++.+|+.+ ++|+. .
T Consensus        10 ~~~iv~~~~-~~~~d~VlEIGpG~G~LT~~Ll~~~~--~v~avE~D~~l~~~l~~~~~~~~n~~i~~~D~l~~~~~~~~~   86 (235)
T d1qama_          10 IDKIMTNIR-LNEHDNIFEIGSGKGHFTLELVQRCN--FVTAIEIDHKLCKTTENKLVDHDNFQVLNKDILQFKFPKNQS   86 (235)
T ss_dssp             HHHHHTTCC-CCTTCEEEEECCTTSHHHHHHHHHSS--EEEEECSCHHHHHHHHHHTTTCCSEEEECCCGGGCCCCSSCC
T ss_pred             HHHHHHhcC-CCCCCeEEEECCCchHHHHHHHhCcC--ceEEEeeccchHHHHHHHhhcccchhhhhhhhhhcccccccc
Confidence            345666666 66778999999999999999999865  4666765 4444433    235899999999999 77764 5


Q ss_pred             EEEeccccc
Q 024350          254 TIFMKVICV  262 (269)
Q Consensus       254 ~~~l~~iLh  262 (269)
                      ..+++|+=+
T Consensus        87 ~~vv~NLPY   95 (235)
T d1qama_          87 YKIFGNIPY   95 (235)
T ss_dssp             CEEEEECCG
T ss_pred             ceeeeeehh
Confidence            556666543

>d1yuba_ c.66.1.24 (A:) rRNA adenine dimethylase {Streptococcus pneumoniae, Ermam [TaxId: 1313]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: rRNA adenine dimethylase-like
domain: rRNA adenine dimethylase
species: Streptococcus pneumoniae, Ermam [TaxId: 1313]

Probab=97.22  E-value=0.00012  Score=59.78  Aligned_cols=81  Identities=9%  Similarity=0.195  Sum_probs=60.8

Q ss_pred             HHHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeehh-HHHHhCCC----CCCceEEecccCC-cCCCC-c
Q 024350          181 MEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLL-YVIKNAPS----YPGIDHVGGDLFE-SVPKA-D  253 (269)
Q Consensus       181 ~~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp-~vv~~a~~----~~ri~~~~gD~~~-~~P~g-D  253 (269)
                      ...+++..+ .+...+|++||+|.|.+...|+++..  +.+.+|+. ..++.+++    .++++++.+|+.+ ++|.. .
T Consensus        18 i~kIv~~~~-~~~~d~VLEIGpG~G~LT~~L~~~~~--~v~aIE~D~~l~~~l~~~~~~~~n~~ii~~D~l~~~~~~~~~   94 (245)
T d1yuba_          18 LNQIIKQLN-LKETDTVYEIGTGKGHLTTKLAKISK--QVTSIELDSHLFNLSSEKLKLNTRVTLIHQDILQFQFPNKQR   94 (245)
T ss_dssp             HHHHHHHCC-CCSSEEEEECSCCCSSCSHHHHHHSS--EEEESSSSCSSSSSSSCTTTTCSEEEECCSCCTTTTCCCSSE
T ss_pred             HHHHHHhcC-CCCCCeEEEECCCccHHHHHHHhhcC--ceeEeeecccchhhhhhhhhhccchhhhhhhhhcccccccee
Confidence            345677776 67778999999999999999999854  56788873 44444443    2789999999999 78854 6


Q ss_pred             EEEeccccccC
Q 024350          254 TIFMKVICVCY  264 (269)
Q Consensus       254 ~~~l~~iLhd~  264 (269)
                      ..+++++=++.
T Consensus        95 ~~vv~NLPY~I  105 (245)
T d1yuba_          95 YKIVGNIPYHL  105 (245)
T ss_dssp             EEEEEECCSSS
T ss_pred             eeEeeeeehhh
Confidence            66777765443

>d1uira_ c.66.1.17 (A:) Spermidine synthase {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: Spermidine synthase
domain: Spermidine synthase
species: Thermus thermophilus [TaxId: 274]

Probab=97.16  E-value=8.5e-05  Score=62.88  Aligned_cols=66  Identities=24%  Similarity=0.271  Sum_probs=54.8

Q ss_pred             CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC-----------CCCceEEecccCCc---CCCC-cEE
Q 024350          192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS-----------YPGIDHVGGDLFES---VPKA-DTI  255 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~-----------~~ri~~~~gD~~~~---~P~g-D~~  255 (269)
                      +++++||.||||.|..+.++++..|..+.+++|+ |.|++.+++           .+|++++.+|.++-   .++. |+|
T Consensus        76 ~~pk~VLiiG~G~G~~~~~ll~~~~~~~v~~VEiD~~Vi~~a~~~f~~~~~~~~~d~rv~i~~~Da~~~l~~~~~~yDvI  155 (312)
T d1uira_          76 PEPKRVLIVGGGEGATLREVLKHPTVEKAVMVDIDGELVEVAKRHMPEWHQGAFDDPRAVLVIDDARAYLERTEERYDVV  155 (312)
T ss_dssp             SCCCEEEEEECTTSHHHHHHTTSTTCCEEEEEESCHHHHHHHHHHCHHHHTTGGGCTTEEEEESCHHHHHHHCCCCEEEE
T ss_pred             CCcceEEEeCCCchHHHHHHHhcCCcceEEEecCCHHHHHHHHhcCcccccCccCCCceEEEEchHHHHhhhcCCcccEE
Confidence            4678999999999999999999888889999998 788876653           37999999999872   3334 888


Q ss_pred             Ee
Q 024350          256 FM  257 (269)
Q Consensus       256 ~l  257 (269)
                      ++
T Consensus       156 i~  157 (312)
T d1uira_         156 II  157 (312)
T ss_dssp             EE
T ss_pred             EE
Confidence            74

>d1ub9a_ a.4.5.28 (A:) Hypothetical protein PH1061 {Archaeon Pyrococcus horikoshii [TaxId: 53953]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: MarR-like transcriptional regulators
domain: Hypothetical protein PH1061
species: Archaeon Pyrococcus horikoshii [TaxId: 53953]

Probab=97.07  E-value=0.00035  Score=48.59  Aligned_cols=68  Identities=18%  Similarity=0.166  Sum_probs=52.8

Q ss_pred             HHHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCC---eEecChhchhh
Q 024350           31 QAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQR---LYSLAPVSKYF  107 (269)
Q Consensus        31 ~~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~---~y~~t~~s~~l  107 (269)
                      ..-.++.|+..|...   +++|+.|||+.++++      .. .+.+.|+.|...|+|+.....++.   .|++|+.|+..
T Consensus        14 ~~p~r~~IL~~L~~~---~~~~~~eLa~~l~is------~~-~vs~~l~~L~~~glV~~~~~~~d~r~~~~~LT~~G~~~   83 (100)
T d1ub9a_          14 GNPVRLGIMIFLLPR---RKAPFSQIQKVLDLT------PG-NLDSHIRVLERNGLVKTYKVIADRPRTVVEITDFGMEE   83 (100)
T ss_dssp             HSHHHHHHHHHHHHH---SEEEHHHHHHHTTCC------HH-HHHHHHHHHHHTTSEEEEEECSSSCEEEEEECHHHHHH
T ss_pred             CCHHHHHHHHHhccC---CCeeHHHHHHHHhhc------cc-cccHHHHHHhhhceeEEEEcCcCCccccccCCHHHHHH
Confidence            345578888999776   589999999999998      67 999999999999999854221222   49999988643


Q ss_pred             h
Q 024350          108 V  108 (269)
Q Consensus       108 ~  108 (269)
                      .
T Consensus        84 ~   84 (100)
T d1ub9a_          84 A   84 (100)
T ss_dssp             H
T ss_pred             H
Confidence            3

>d2o07a1 c.66.1.17 (A:16-300) Spermidine synthase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: Spermidine synthase
domain: Spermidine synthase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.99  E-value=0.00018  Score=60.04  Aligned_cols=67  Identities=22%  Similarity=0.303  Sum_probs=55.1

Q ss_pred             CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC----------CCCceEEecccCC---cCCCC-cEEE
Q 024350          192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS----------YPGIDHVGGDLFE---SVPKA-DTIF  256 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~----------~~ri~~~~gD~~~---~~P~g-D~~~  256 (269)
                      +++++|+-||||.|..+.++++..|..+.+++|+ |.|++.+++          .+|++++.+|-++   ..++. |+|+
T Consensus        77 ~~pk~vLiiGgG~G~~~~~~l~~~~~~~v~~vEiD~~Vv~~a~~~~~~~~~~~~d~rv~i~~~Da~~~l~~~~~~yDvIi  156 (285)
T d2o07a1          77 PNPRKVLIIGGGDGGVLREVVKHPSVESVVQCEIDEDVIQVSKKFLPGMAIGYSSSKLTLHVGDGFEFMKQNQDAFDVII  156 (285)
T ss_dssp             SSCCEEEEEECTTSHHHHHHTTCTTCCEEEEEESCHHHHHHHHHHCHHHHGGGGCTTEEEEESCHHHHHHTCSSCEEEEE
T ss_pred             cCcCeEEEeCCCchHHHHHHHHcCCcceeeeccCCHHHHHHHHhhchhhccccCCCCceEEEccHHHHHhcCCCCCCEEE
Confidence            4678999999999999999998778889999998 888888764          3899999999876   23344 8887


Q ss_pred             ec
Q 024350          257 MK  258 (269)
Q Consensus       257 l~  258 (269)
                      .-
T Consensus       157 ~D  158 (285)
T d2o07a1         157 TD  158 (285)
T ss_dssp             EE
T ss_pred             Ec
Confidence            53

>d1iy9a_ c.66.1.17 (A:) Spermidine synthase {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: Spermidine synthase
domain: Spermidine synthase
species: Bacillus subtilis [TaxId: 1423]

Probab=96.96  E-value=0.00022  Score=59.16  Aligned_cols=67  Identities=24%  Similarity=0.302  Sum_probs=54.3

Q ss_pred             CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC----------CCCceEEecccCC--cCC-CC-cEEE
Q 024350          192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS----------YPGIDHVGGDLFE--SVP-KA-DTIF  256 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~----------~~ri~~~~gD~~~--~~P-~g-D~~~  256 (269)
                      +++++|+-||||.|..+.++++..|..+.+++|+ |.|++.+++          .+|++++.+|.++  ... +- |+|+
T Consensus        74 ~~p~~vLiiGgG~G~~~~~~l~~~~~~~i~~VEID~~Vi~~a~~~~~~~~~~~~d~r~~i~~~D~~~~l~~~~~~yDvIi  153 (274)
T d1iy9a_          74 PNPEHVLVVGGGDGGVIREILKHPSVKKATLVDIDGKVIEYSKKFLPSIAGKLDDPRVDVQVDDGFMHIAKSENQYDVIM  153 (274)
T ss_dssp             SSCCEEEEESCTTCHHHHHHTTCTTCSEEEEEESCHHHHHHHHHHCHHHHTTTTSTTEEEEESCSHHHHHTCCSCEEEEE
T ss_pred             CCcceEEecCCCCcHHHHHHHhcCCcceEEEecCCHHHHHHHHHhChhhcccccCCCeEEEechHHHHHhhcCCCCCEEE
Confidence            4678999999999999999998878888999998 788877653          3899999999887  333 34 8886


Q ss_pred             ec
Q 024350          257 MK  258 (269)
Q Consensus       257 l~  258 (269)
                      +-
T Consensus       154 ~D  155 (274)
T d1iy9a_         154 VD  155 (274)
T ss_dssp             ES
T ss_pred             Ec
Confidence            54

>d1inla_ c.66.1.17 (A:) Spermidine synthase {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: Spermidine synthase
domain: Spermidine synthase
species: Thermotoga maritima [TaxId: 2336]

Probab=96.94  E-value=0.0002  Score=59.98  Aligned_cols=66  Identities=27%  Similarity=0.316  Sum_probs=54.4

Q ss_pred             CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC----------CCCceEEecccCCc---CCCC-cEEE
Q 024350          192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS----------YPGIDHVGGDLFES---VPKA-DTIF  256 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~----------~~ri~~~~gD~~~~---~P~g-D~~~  256 (269)
                      +++++|+=||||.|..+.++++..|..+.+++|+ |.|++.+++          .+|++++.+|.++-   .++. |+|+
T Consensus        88 ~~pk~VLiiGgG~G~~~r~~l~~~~~~~i~~VEIDp~Vi~~a~~~~~~~~~~~~d~rv~v~~~Da~~~l~~~~~~yDvIi  167 (295)
T d1inla_          88 PNPKKVLIIGGGDGGTLREVLKHDSVEKAILCEVDGLVIEAARKYLKQTSCGFDDPRAEIVIANGAEYVRKFKNEFDVII  167 (295)
T ss_dssp             SSCCEEEEEECTTCHHHHHHTTSTTCSEEEEEESCHHHHHHHHHHCHHHHGGGGCTTEEEEESCHHHHGGGCSSCEEEEE
T ss_pred             CCCceEEEecCCchHHHHHHHhcCCCceEEEecCCHHHHHHHHHHHHhhcccccCCCcEEEhhhHHHHHhcCCCCCCEEE
Confidence            4678999999999999999998888888999998 888887764          38999999998872   2234 8887


Q ss_pred             e
Q 024350          257 M  257 (269)
Q Consensus       257 l  257 (269)
                      +
T Consensus       168 ~  168 (295)
T d1inla_         168 I  168 (295)
T ss_dssp             E
T ss_pred             E
Confidence            5

>d1r1ta_ a.4.5.5 (A:) SmtB repressor {Cyanobacteria (Synechococcus), pcc7942 [TaxId: 1129]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: ArsR-like transcriptional regulators
domain: SmtB repressor
species: Cyanobacteria (Synechococcus), pcc7942 [TaxId: 1129]

Probab=96.88  E-value=0.00047  Score=47.94  Aligned_cols=64  Identities=16%  Similarity=0.280  Sum_probs=49.5

Q ss_pred             HHHHHHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecCh
Q 024350           28 AAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAP  102 (269)
Q Consensus        28 ~~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~  102 (269)
                      .+|.--.++.|+..|..    ++.++.|||+.+|++      .. .+.+.|+.|...|+|....+...-.|++++
T Consensus        18 kaL~~p~Rl~Il~~L~~----~~~~v~ela~~l~is------~s-tvS~HL~~L~~aglV~~~r~G~~~~Y~l~~   81 (98)
T d1r1ta_          18 AVLADPNRLRLLSLLAR----SELCVGDLAQAIGVS------ES-AVSHQLRSLRNLRLVSYRKQGRHVYYQLQD   81 (98)
T ss_dssp             HHHCCHHHHHHHHHHTT----CCBCHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEEEEEETTEEEEEESS
T ss_pred             HHhCCHHHHHHHHHHHc----CCcCHHHHHHHHCcC------HH-HHHHHHHHHHHCCceEEEEECCEEEEEECh
Confidence            45566677888888876    689999999999998      67 999999999999999864221123366653

>d1r1ua_ a.4.5.5 (A:) Metal-sensing transcriptional repressor CzrA {Staphylococcus aureus [TaxId: 1280]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: ArsR-like transcriptional regulators
domain: Metal-sensing transcriptional repressor CzrA
species: Staphylococcus aureus [TaxId: 1280]

Probab=96.84  E-value=0.00048  Score=47.49  Aligned_cols=65  Identities=22%  Similarity=0.295  Sum_probs=50.6

Q ss_pred             HHHHHHHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecCh
Q 024350           27 PAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAP  102 (269)
Q Consensus        27 ~~~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~  102 (269)
                      +.+|.--.++.|+..|..    ++.++.||++.+|++      .. .+.+.|+.|...|+|....+...-.|+++.
T Consensus        12 fkaL~d~~Rl~Il~~L~~----~~~~v~el~~~l~~s------~~-~vS~HL~~L~~~glv~~~r~G~~~~Y~l~~   76 (94)
T d1r1ua_          12 FKALGDYNRIRIMELLSV----SEASVGHISHQLNLS------QS-NVSHQLKLLKSVHLVKAKRQGQSMIYSLDD   76 (94)
T ss_dssp             HHHTCSHHHHHHHHHHHH----CCBCHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEEEEEETTEEEEEESS
T ss_pred             HHHhCCHHHHHHHHHHHc----CCccHHHHHHHHCCC------HH-HHHHHHHHHHHCCceEEEEECCEEEEEECc
Confidence            345666678888999987    699999999999998      67 999999999999999864221112377753

>d1mjfa_ c.66.1.17 (A:) Putative spermidine synthetase PF0127 (SpeE) {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: Spermidine synthase
domain: Putative spermidine synthetase PF0127 (SpeE)
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=96.80  E-value=0.00041  Score=57.50  Aligned_cols=65  Identities=23%  Similarity=0.272  Sum_probs=51.8

Q ss_pred             CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC----------------CCCceEEecccCCcC--CCC
Q 024350          192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS----------------YPGIDHVGGDLFESV--PKA  252 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~----------------~~ri~~~~gD~~~~~--P~g  252 (269)
                      +++++|+-||||.|..+.++++ +|..+.+++|+ |.|++.+++                .+|++++.+|.++-+  .+.
T Consensus        71 ~~p~~vLiiG~G~G~~~~~~l~-~~~~~v~~VEiD~~Vi~~a~~~f~~~~~~~~~~~~~~d~rv~i~~~Da~~~l~~~~~  149 (276)
T d1mjfa_          71 PKPKRVLVIGGGDGGTVREVLQ-HDVDEVIMVEIDEDVIMVSKDLIKIDNGLLEAMLNGKHEKAKLTIGDGFEFIKNNRG  149 (276)
T ss_dssp             SCCCEEEEEECTTSHHHHHHTT-SCCSEEEEEESCHHHHHHHHHHTCTTTTHHHHHHTTCCSSEEEEESCHHHHHHHCCC
T ss_pred             CCCceEEEecCCchHHHHHHHH-hCCceEEEecCCHHHHHHHHHhhhhccchhhhhhccCCCCceEEEChHHHHHhccCC
Confidence            4678999999999999999986 66678999997 888887642                379999999987622  234


Q ss_pred             -cEEEe
Q 024350          253 -DTIFM  257 (269)
Q Consensus       253 -D~~~l  257 (269)
                       |+|++
T Consensus       150 yDvIi~  155 (276)
T d1mjfa_         150 FDVIIA  155 (276)
T ss_dssp             EEEEEE
T ss_pred             CCEEEE
Confidence             88864

>d1xj5a_ c.66.1.17 (A:) Spermidine synthase {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: Spermidine synthase
domain: Spermidine synthase
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=96.71  E-value=0.00046  Score=57.61  Aligned_cols=66  Identities=20%  Similarity=0.290  Sum_probs=54.2

Q ss_pred             CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC----------CCCceEEecccCC---cCCC-C-cEE
Q 024350          192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS----------YPGIDHVGGDLFE---SVPK-A-DTI  255 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~----------~~ri~~~~gD~~~---~~P~-g-D~~  255 (269)
                      +++++|+=||||.|..+.++++..|--+.+++|+ |.|++.+++          .+|++++.+|-++   ..++ . |+|
T Consensus        79 ~~pk~VLiiGgG~G~~~r~~l~~~~~~~i~~VEiD~~Vi~~~~~~f~~~~~~~~~~r~~i~~~Da~~~l~~~~~~~yDvI  158 (290)
T d1xj5a_          79 PNPKKVLVIGGGDGGVLREVARHASIEQIDMCEIDKMVVDVSKQFFPDVAIGYEDPRVNLVIGDGVAFLKNAAEGSYDAV  158 (290)
T ss_dssp             SCCCEEEEETCSSSHHHHHHTTCTTCCEEEEEESCHHHHHHHHHHCHHHHGGGGSTTEEEEESCHHHHHHTSCTTCEEEE
T ss_pred             CCCcceEEecCCchHHHHHHHhcccceeeEEecCCHHHHHHHHHhchhhhccccCCCcEEEEccHHHHHhhccccCccEE
Confidence            4678999999999999999998777778999998 788887764          3899999999776   3444 3 888


Q ss_pred             Ee
Q 024350          256 FM  257 (269)
Q Consensus       256 ~l  257 (269)
                      ++
T Consensus       159 i~  160 (290)
T d1xj5a_         159 IV  160 (290)
T ss_dssp             EE
T ss_pred             EE
Confidence            75

>d1u2wa1 a.4.5.5 (A:12-119) Cadmium efflux system accessory protein CadC {Staphylococcus aureus [TaxId: 1280]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: ArsR-like transcriptional regulators
domain: Cadmium efflux system accessory protein CadC
species: Staphylococcus aureus [TaxId: 1280]

Probab=96.69  E-value=0.00096  Score=47.15  Aligned_cols=67  Identities=18%  Similarity=0.178  Sum_probs=52.4

Q ss_pred             HHHHHHHHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecCh
Q 024350           26 LPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAP  102 (269)
Q Consensus        26 ~~~~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~  102 (269)
                      .+.+|..-.++.|+..|...   ++.++.|||+.+|++      .. .+.+.|+.|...|+|....+...-.|++++
T Consensus        24 ~~kaLadp~Rl~Il~~L~~~---~~~~v~ela~~l~~s------~s-~vS~HL~~L~~aGlv~~~r~G~~~~Y~l~~   90 (108)
T d1u2wa1          24 ILKAIADENRAKITYALCQD---EELCVCDIANILGVT------IA-NASHHLRTLYKQGVVNFRKEGKLALYSLGD   90 (108)
T ss_dssp             HHHHHHSHHHHHHHHHHHHS---SCEEHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEEEC----CCEEEESC
T ss_pred             HHHHhCCHHHHHHHHHHHhC---CCccHHHHHHHHccC------hh-HHHHHHHHHHHCCeeEEEEECCEEEEEECH
Confidence            45678888899999999764   589999999999998      67 999999999999999954211123466654

>d2b2ca1 c.66.1.17 (A:3-314) Spermidine synthase {Caenorhabditis elegans [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: Spermidine synthase
domain: Spermidine synthase
species: Caenorhabditis elegans [TaxId: 6239]

Probab=96.69  E-value=0.00037  Score=58.68  Aligned_cols=66  Identities=27%  Similarity=0.344  Sum_probs=53.2

Q ss_pred             CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC----------CCCceEEecccCCc---CCCC-cEEE
Q 024350          192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS----------YPGIDHVGGDLFES---VPKA-DTIF  256 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~----------~~ri~~~~gD~~~~---~P~g-D~~~  256 (269)
                      +++++|+-||||.|..+.++++..|--+.+++|+ |.|++.+++          .+|++++.+|.++-   -++- |+|+
T Consensus       105 ~~pk~VLIiGgG~G~~~rellk~~~v~~v~~VEID~~Vv~~a~~~~~~~~~~~~dprv~i~i~Da~~~l~~~~~~yDvII  184 (312)
T d2b2ca1         105 PDPKRVLIIGGGDGGILREVLKHESVEKVTMCEIDEMVIDVAKKFLPGMSCGFSHPKLDLFCGDGFEFLKNHKNEFDVII  184 (312)
T ss_dssp             SSCCEEEEESCTTSHHHHHHTTCTTCCEEEEECSCHHHHHHHHHHCTTTSGGGGCTTEEEECSCHHHHHHHCTTCEEEEE
T ss_pred             CCCCeEEEeCCCchHHHHHHHHcCCcceEEEEcccHHHHHHHHhhchhhccccCCCCeEEEEchHHHHHHhCCCCCCEEE
Confidence            4678999999999999999998777778999998 788887654          28999999998872   2334 8877


Q ss_pred             e
Q 024350          257 M  257 (269)
Q Consensus       257 l  257 (269)
                      +
T Consensus       185 ~  185 (312)
T d2b2ca1         185 T  185 (312)
T ss_dssp             E
T ss_pred             E
Confidence            5

>d2fpoa1 c.66.1.46 (A:10-192) Methylase YhhF {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: YhhF-like
domain: Methylase YhhF
species: Escherichia coli [TaxId: 562]

Probab=96.63  E-value=0.00062  Score=52.77  Aligned_cols=62  Identities=15%  Similarity=0.131  Sum_probs=48.4

Q ss_pred             cEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC------CCCceEEecccCCc--CC-CC-cEEEe
Q 024350          195 KKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS------YPGIDHVGGDLFES--VP-KA-DTIFM  257 (269)
Q Consensus       195 ~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~------~~ri~~~~gD~~~~--~P-~g-D~~~l  257 (269)
                      .+|||++||+|.++.+.+.+... +++.+|. +.+++.+++      ...++++.+|.++-  .. +- |++|+
T Consensus        45 ~~vLDlfaGsG~~giealsrGa~-~v~~VE~~~~a~~~~k~N~~~~~~~~~~ii~~d~~~~l~~~~~~fDlIf~  117 (183)
T d2fpoa1          45 AQCLDCFAGSGALGLEALSRYAA-GATLIEMDRAVSQQLIKNLATLKAGNARVVNSNAMSFLAQKGTPHNIVFV  117 (183)
T ss_dssp             CEEEETTCTTCHHHHHHHHTTCS-EEEEECSCHHHHHHHHHHHHHTTCCSEEEECSCHHHHHSSCCCCEEEEEE
T ss_pred             hhhhhhhccccceeeeEEecCcc-eeEEEEEeechhhHHHHHHhhccccceeeeeecccccccccccccCEEEE
Confidence            68999999999999999998775 7888887 666665554      26788999998872  22 23 88887

>d1af7a2 c.66.1.8 (A:92-284) Chemotaxis receptor methyltransferase CheR, C-terminal domain {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: Chemotaxis receptor methyltransferase CheR, C-terminal domain
domain: Chemotaxis receptor methyltransferase CheR, C-terminal domain
species: Salmonella typhimurium [TaxId: 90371]

Probab=96.51  E-value=0.002  Score=50.25  Aligned_cols=75  Identities=15%  Similarity=0.172  Sum_probs=51.8

Q ss_pred             CccEEEEeCCCchH----HHHHHHHHC----CCCeEEEeeh-hHHHHhCCCC----------------------------
Q 024350          193 HVKKLVDVGGGLGA----TLNMIISKY----PHIKGINYDL-LYVIKNAPSY----------------------------  235 (269)
Q Consensus       193 ~~~~vvDvGGG~G~----~~~~l~~~~----P~l~~vv~Dl-p~vv~~a~~~----------------------------  235 (269)
                      +..+|+++|||+|.    +++.+.+..    ++++.+..|+ +.+++.|+..                            
T Consensus        24 ~~lrIwsaGCstGeE~YSlA~~l~e~~~~~~~~~~I~atDi~~~~l~~A~~g~y~~~~~~~~~~~~~~~yf~~~~~~~~~  103 (193)
T d1af7a2          24 GEYRVWSAAASTGEEPYSIAITLADALGMAPGRWKVFASDIDTEVLEKARSGIYRLSELKTLSPQQLQRYFMRGTGPHEG  103 (193)
T ss_dssp             SCEEEEESCCTTTHHHHHHHHHHHHHHCSCTTSEEEEEEESCHHHHHHHHHTEEEGGGGTTSCHHHHHHHEEECCTTSCS
T ss_pred             CCeEEEEeCCCCchhHHHHHHHHHHhhhhcCCceEEEeecCChHHhhHhhcCcccHHHHhhhhHHHHhhceeecCCCccc
Confidence            45799999999997    444455542    2346778887 6666655310                            


Q ss_pred             ---------CCceEEecccCCcC-C-C-C-cEEEeccccccCCCC
Q 024350          236 ---------PGIDHVGGDLFESV-P-K-A-DTIFMKVICVCYLNS  267 (269)
Q Consensus       236 ---------~ri~~~~gD~~~~~-P-~-g-D~~~l~~iLhd~~d~  267 (269)
                               .++.+..+|...+. | . . |+|+++|||++++++
T Consensus       104 ~~~~~~~~~~~v~~~~~~~~~~~~~~~~~fDvI~CRNVLiYf~~~  148 (193)
T d1af7a2         104 LVRVRQELANYVEFSSVNLLEKQYNVPGPFDAIFCRNVMIYFDKT  148 (193)
T ss_dssp             EEEECHHHHTTEEEEECCTTCSSCCCCCCEEEEEECSSGGGSCHH
T ss_pred             eeehHHHHHHHHHHhhhhccccccCCCCCccEEEeehhHHhcCHH
Confidence                     34667778877732 2 3 4 999999999998864

>d2cl5a1 c.66.1.1 (A:3-216) Catechol O-methyltransferase, COMT {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: COMT-like
domain: Catechol O-methyltransferase, COMT
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=96.41  E-value=0.00065  Score=54.08  Aligned_cols=66  Identities=9%  Similarity=0.168  Sum_probs=52.1

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCC-CCeEEEeeh-hHHHHhCCC-------CCCceEEecccCCcCCC--------C-cE
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYP-HIKGINYDL-LYVIKNAPS-------YPGIDHVGGDLFESVPK--------A-DT  254 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P-~l~~vv~Dl-p~vv~~a~~-------~~ri~~~~gD~~~~~P~--------g-D~  254 (269)
                      ++++||+||+|.|..+..++++.| +-+++.+|. |...+.++.       .++|+++.||..+-+|+        . |+
T Consensus        56 kpk~ILEiGt~~G~Sti~la~al~~~g~v~sid~~~~~~~~a~~~~~~~gl~~~i~l~~Gd~~e~l~~l~~~~~~~~~D~  135 (214)
T d2cl5a1          56 SPSLVLELGAYCGYSAVRMARLLQPGARLLTMEMNPDYAAITQQMLNFAGLQDKVTILNGASQDLIPQLKKKYDVDTLDM  135 (214)
T ss_dssp             CCSEEEEECCTTSHHHHHHHTTCCTTCEEEEEESCHHHHHHHHHHHHHHTCGGGEEEEESCHHHHGGGHHHHSCCCCEEE
T ss_pred             CCCEEEEEccCchhHHHHHHHhCCCccEEEEEeccHHHHHHHHHHHHHcCCCccceeeeccccccccchhhcccccccce
Confidence            578999999999999999999976 588999997 566666653       27899999998763321        2 78


Q ss_pred             EEec
Q 024350          255 IFMK  258 (269)
Q Consensus       255 ~~l~  258 (269)
                      +|+-
T Consensus       136 ifiD  139 (214)
T d2cl5a1         136 VFLD  139 (214)
T ss_dssp             EEEC
T ss_pred             eeec
Confidence            8775

>d2a14a1 c.66.1.15 (A:5-261) Indolethylamine N-methyltransferase, INMT {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: Arylamine N-methyltransferase
domain: Indolethylamine N-methyltransferase, INMT
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.37  E-value=0.0002  Score=58.07  Aligned_cols=41  Identities=12%  Similarity=-0.032  Sum_probs=30.6

Q ss_pred             CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCC
Q 024350          192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAP  233 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~  233 (269)
                      .+..+|||||||+|.++..+++... -+++++|+ |..++.++
T Consensus        50 ~~g~~vLDlGcG~G~~~~~~~~~~~-~~v~giD~S~~~i~~a~   91 (257)
T d2a14a1          50 LQGDTLIDIGSGPTIYQVLAACDSF-QDITLSDFTDRNREELE   91 (257)
T ss_dssp             CCEEEEEESSCTTCCGGGTTGGGTE-EEEEEEESCHHHHHHHH
T ss_pred             CCCCEEEEECCCCCHhHHHHhcccc-CcEEEecCCHHHHHHHH
Confidence            3568999999999988766655432 26899997 77777664

>d1s3ja_ a.4.5.28 (A:) Putative transcriptional regulator YusO {Bacillus subtilis [TaxId: 1423]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: MarR-like transcriptional regulators
domain: Putative transcriptional regulator YusO
species: Bacillus subtilis [TaxId: 1423]

Probab=96.29  E-value=0.01  Score=43.39  Aligned_cols=66  Identities=21%  Similarity=0.202  Sum_probs=50.0

Q ss_pred             hcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCC---eEecChhchhhhcC
Q 024350           35 ELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQR---LYSLAPVSKYFVRN  110 (269)
Q Consensus        35 ~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~---~y~~t~~s~~l~~~  110 (269)
                      ++.++..|...   ++.|..+||+.++++      .. .+.++++-|...|+|.+.+-..+.   .+.+|+.|+.+...
T Consensus        37 q~~iL~~l~~~---~~~t~~~la~~~~i~------~~-~vs~~l~~L~~~glv~r~~~~~D~R~~~v~lT~~G~~~~~~  105 (143)
T d1s3ja_          37 QLFVLASLKKH---GSLKVSEIAERMEVK------PS-AVTLMADRLEQKNLIARTHNTKDRRVIDLSLTDEGDIKFEE  105 (143)
T ss_dssp             HHHHHHHHHHH---SEEEHHHHHHHHTSC------HH-HHHHHHHHHHHTTSEEEEECSSCTTSEEEEECHHHHHHHHH
T ss_pred             HHHHHHHHHHC---CCCCHHHHHHHHCcC------HH-HHHHHHHHHHHhhhheeeeecCCCCceEEEECHHHHHHHHH
Confidence            34467777775   489999999999998      66 999999999999999864222222   38888888755533

>d1ws6a1 c.66.1.46 (A:15-185) Methyltransferase TTHA0928 {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: YhhF-like
domain: Methyltransferase TTHA0928
species: Thermus thermophilus [TaxId: 274]

Probab=96.22  E-value=0.00058  Score=52.34  Aligned_cols=64  Identities=13%  Similarity=0.074  Sum_probs=46.6

Q ss_pred             CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-------CCceEEecccCCc---CC-CC-cEEEe
Q 024350          192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-------PGIDHVGGDLFES---VP-KA-DTIFM  257 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~~---~P-~g-D~~~l  257 (269)
                      +...+|+|+|||+|.++.+.+.+.  .++|.+|. |.+++.++++       .++....+|.|.+   .+ +- |++++
T Consensus        40 ~~g~~vLDl~~G~G~~~i~a~~~g--a~vv~vD~~~~a~~~~~~N~~~~~~~~~v~~~~~d~~~~~~~~~~~~fD~If~  116 (171)
T d1ws6a1          40 PRRGRFLDPFAGSGAVGLEAASEG--WEAVLVEKDPEAVRLLKENVRRTGLGARVVALPVEVFLPEAKAQGERFTVAFM  116 (171)
T ss_dssp             TTCCEEEEETCSSCHHHHHHHHTT--CEEEEECCCHHHHHHHHHHHHHHTCCCEEECSCHHHHHHHHHHTTCCEEEEEE
T ss_pred             cCCCeEEEeccccchhhhhhhhcc--chhhhcccCHHHHhhhhHHHHhhccccceeeeehhcccccccccCCccceeEE
Confidence            455799999999999999988874  57788997 7777766542       5677777776542   22 22 88876

>d1sfxa_ a.4.5.50 (A:) Hypothetical protein AF2008 {Archaeoglobus fulgidus [TaxId: 2234]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: TrmB-like
domain: Hypothetical protein AF2008
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=96.12  E-value=0.004  Score=43.72  Aligned_cols=44  Identities=18%  Similarity=0.375  Sum_probs=37.7

Q ss_pred             ChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccce
Q 024350           37 DVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCS   90 (269)
Q Consensus        37 glfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~   90 (269)
                      .++-.|...   +++|+.|||+.+|++      .. .+.++|+-|...|+|.+.
T Consensus        24 ~v~~~L~~~---g~~t~~eia~~~~i~------~~-~v~~~l~~L~~~GlV~r~   67 (109)
T d1sfxa_          24 RIYSLLLER---GGMRVSEIARELDLS------AR-FVRDRLKVLLKRGFVRRE   67 (109)
T ss_dssp             HHHHHHHHH---CCBCHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEEEE
T ss_pred             HHHHHHHhc---CCCCHHHHHHHhCCC------cc-hHHHHHHHHHhCCCEEEE
Confidence            366667665   599999999999997      67 999999999999999853

>d1lvaa3 a.4.5.35 (A:511-574) C-terminal fragment of elongation factor SelB {Moorella thermoacetica [TaxId: 1525]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: C-terminal fragment of elongation factor SelB
domain: C-terminal fragment of elongation factor SelB
species: Moorella thermoacetica [TaxId: 1525]

Probab=96.09  E-value=0.0081  Score=37.91  Aligned_cols=53  Identities=19%  Similarity=0.177  Sum_probs=42.0

Q ss_pred             ChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEec
Q 024350           37 DVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSL  100 (269)
Q Consensus        37 glfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~  100 (269)
                      .|.+++...|- .|-++.|||+.+|++      +. .++.+|+.|+..|.+.   +...+.|-+
T Consensus        11 ~I~~~~~~~g~-~PP~vrdl~~~l~~~------e~-~~~~lL~~l~~~G~lv---kI~~d~yfh   63 (64)
T d1lvaa3          11 DLEDKYRVSRW-QPPSFKEVAGSFNLD------PS-ELEELLHYLVREGVLV---KINDEFYWH   63 (64)
T ss_dssp             HHHHHHHHHTT-SCCBHHHHHHHTTCC------HH-HHHHHHHHHHHTTSEE---ESSSSBEEE
T ss_pred             HHHHHHHHcCC-CCCcHHHHHHHhCCC------HH-HHHHHHHHHHHCCCEE---Eeccccccc
Confidence            34455555443 699999999999997      67 9999999999999999   455677753

>d2p4wa1 a.4.5.64 (A:1-194) Transcriptional regulatory protein PF1790 {Pyrococcus furiosus [TaxId: 2261]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: PF1790-like
domain: Transcriptional regulatory protein PF1790
species: Pyrococcus furiosus [TaxId: 2261]

Probab=96.08  E-value=0.0035  Score=48.75  Aligned_cols=66  Identities=14%  Similarity=0.168  Sum_probs=50.6

Q ss_pred             HHHHHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecC-----CCeEecChh
Q 024350           29 AMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDG-----QRLYSLAPV  103 (269)
Q Consensus        29 ~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~-----~~~y~~t~~  103 (269)
                      +|..-.++.|+..|..    +|+|+.+||+.+|++      .. .+++.|+.|...|+|+...+..     ...|++|..
T Consensus        11 ~l~~~~R~~Il~~L~~----~~~~~~ela~~l~~s------~~-~v~~HL~~L~~~Glv~~~~~~~~~G~~~~~y~l~~~   79 (194)
T d2p4wa1          11 VLGNETRRRILFLLTK----RPYFVSELSRELGVG------QK-AVLEHLRILEEAGLIESRVEKIPRGRPRKYYMIKKG   79 (194)
T ss_dssp             HHHSHHHHHHHHHHHH----SCEEHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEEEEECCBTTBCCCEEEEECTT
T ss_pred             HhCCHHHHHHHHHHHh----CCCCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCeEEEEeecCCCCceEEEEeccc
Confidence            4444456777888876    699999999999998      67 9999999999999998532211     125888886


Q ss_pred             ch
Q 024350          104 SK  105 (269)
Q Consensus       104 s~  105 (269)
                      +.
T Consensus        80 ~~   81 (194)
T d2p4wa1          80 LR   81 (194)
T ss_dssp             EE
T ss_pred             ce
Confidence            54

>d2hr3a1 a.4.5.28 (A:2-146) Probable transcriptional regulator PA3067 {Pseudomonas aeruginosa [TaxId: 287]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: MarR-like transcriptional regulators
domain: Probable transcriptional regulator PA3067
species: Pseudomonas aeruginosa [TaxId: 287]

Probab=96.05  E-value=0.0058  Score=44.96  Aligned_cols=67  Identities=19%  Similarity=0.180  Sum_probs=50.4

Q ss_pred             HHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCC---CeEecChhchhhh
Q 024350           33 VVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQ---RLYSLAPVSKYFV  108 (269)
Q Consensus        33 a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~---~~y~~t~~s~~l~  108 (269)
                      ..++.++..|...+  |++|..+||+.++++      .. .+.++++-|...|+|.+.+-..+   -.+.+|+.|+.+.
T Consensus        34 ~~q~~vL~~L~~~~--g~~t~~~La~~~~~~------~~-~vs~~i~~L~~~glv~r~~~~~DrR~~~i~LT~~G~~~~  103 (145)
T d2hr3a1          34 FSQLVVLGAIDRLG--GDVTPSELAAAERMR------SS-NLAALLRELERGGLIVRHADPQDGRRTRVSLSSEGRRNL  103 (145)
T ss_dssp             HHHHHHHHHHHHTT--SCBCHHHHHHHTTCC------HH-HHHHHHHHHHHTTSEEEEC------CCEEEECHHHHHHH
T ss_pred             HHHHHHHHHHHHcC--CCCCHHHHHHHHCCC------HH-HHHHHHHHHHHcCCeEeeeCccchhHHHhccCHHHHHHH
Confidence            34566777776654  689999999999998      67 99999999999999985321111   3588999887554

>d1biaa1 a.4.5.1 (A:1-63) Biotin repressor, N-terminal domain {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Biotin repressor-like
domain: Biotin repressor, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=96.04  E-value=0.0054  Score=38.63  Aligned_cols=56  Identities=14%  Similarity=0.214  Sum_probs=43.0

Q ss_pred             HhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecC
Q 024350           34 VELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLA  101 (269)
Q Consensus        34 ~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t  101 (269)
                      .++.|+..|.+.   +.+|.+|||+.+|++      .. .+++-+..|...|+....  ....-|+++
T Consensus         6 ~~~~iL~~L~~~---~~~s~~eLa~~l~vS------~~-ti~r~i~~L~~~G~~I~~--~~g~GY~L~   61 (63)
T d1biaa1           6 VPLKLIALLANG---EFHSGEQLGETLGMS------RA-AINKHIQTLRDWGVDVFT--VPGKGYSLP   61 (63)
T ss_dssp             HHHHHHHHHTTS---SCBCHHHHHHHHTSC------HH-HHHHHHHHHHHTTCCCEE--ETTTEEECS
T ss_pred             HHHHHHHHHHHC---CcCCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCcEEE--eCCCeEEeC
Confidence            345678888763   689999999999998      67 999999999999985422  222348774

>d1wg8a2 c.66.1.23 (A:5-108,A:207-284) TM0872, methyltransferase domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: MraW-like putative methyltransferases
domain: TM0872, methyltransferase domain
species: Thermus thermophilus [TaxId: 274]

Probab=96.04  E-value=0.0046  Score=47.68  Aligned_cols=64  Identities=19%  Similarity=0.186  Sum_probs=50.9

Q ss_pred             HHHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC--CCCceEEecccCC
Q 024350          181 MEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS--YPGIDHVGGDLFE  247 (269)
Q Consensus       181 ~~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~--~~ri~~~~gD~~~  247 (269)
                      ...+++.+. .....++||+.+|.|.++.++++++  .+++.+|+ |.+++.++.  .+|++++.++|-+
T Consensus         7 l~Evl~~l~-~~~g~~~vD~T~G~GGhs~~iL~~~--~~viaiD~D~~ai~~a~~~~~~~~~~~~~~f~~   73 (182)
T d1wg8a2           7 YQEALDLLA-VRPGGVYVDATLGGAGHARGILERG--GRVIGLDQDPEAVARAKGLHLPGLTVVQGNFRH   73 (182)
T ss_dssp             HHHHHHHHT-CCTTCEEEETTCTTSHHHHHHHHTT--CEEEEEESCHHHHHHHHHTCCTTEEEEESCGGG
T ss_pred             HHHHHHhcC-CCCCCEEEEeCCCCcHHHHHHhccc--CcEEEEhhhhhHHHHHhhccccceeEeehHHHH
Confidence            345666665 4566899999999999999999974  57899997 777776654  4899999988765

>d1g8aa_ c.66.1.3 (A:) Fibrillarin homologue {Archaeon Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: Fibrillarin homologue
domain: Fibrillarin homologue
species: Archaeon Pyrococcus horikoshii [TaxId: 53953]

Probab=96.03  E-value=0.0016  Score=52.18  Aligned_cols=65  Identities=15%  Similarity=0.129  Sum_probs=48.6

Q ss_pred             HHHHhccC--CCCccEEEEeCCCchHHHHHHHHHC-CCCeEEEeeh-hHHHHhCC----CCCCceEEecccCC
Q 024350          183 KVLESYKG--FEHVKKLVDVGGGLGATLNMIISKY-PHIKGINYDL-LYVIKNAP----SYPGIDHVGGDLFE  247 (269)
Q Consensus       183 ~~~~~~~~--~~~~~~vvDvGGG~G~~~~~l~~~~-P~l~~vv~Dl-p~vv~~a~----~~~ri~~~~gD~~~  247 (269)
                      .++..++.  ++...+|+|+|||+|..+..+++.. |+=+++.+|+ |..++.++    ..+.+..+.+|.-.
T Consensus        61 ~i~~~l~~l~i~pG~~VLDlGaGsG~~t~~la~~VG~~G~V~aVD~s~~~l~~a~~~a~~~~~~~~i~~d~~~  133 (227)
T d1g8aa_          61 AIMNGLKNFPIKPGKSVLYLGIASGTTASHVSDIVGWEGKIFGIEFSPRVLRELVPIVEERRNIVPILGDATK  133 (227)
T ss_dssp             HHHTTCCCCCCCTTCEEEEETTTSTTHHHHHHHHHCTTSEEEEEESCHHHHHHHHHHHSSCTTEEEEECCTTC
T ss_pred             HHHccccccccCCCCEEEEeccCCCHHHHHHHHHhCCCCEEEEEeCcHHHHHHHHHHHHhcCCceEEEEECCC
Confidence            44444332  5566899999999999999999986 8889999997 77776553    34667777777655

>d3ctaa1 a.4.5.28 (A:5-89) Ta1064 (RFK), N-terminal domain {Thermoplasma acidophilum [TaxId: 2303]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: MarR-like transcriptional regulators
domain: Ta1064 (RFK), N-terminal domain
species: Thermoplasma acidophilum [TaxId: 2303]

Probab=95.97  E-value=0.0027  Score=42.68  Aligned_cols=52  Identities=12%  Similarity=0.140  Sum_probs=41.8

Q ss_pred             CCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecC-CCeEecChhchhhh
Q 024350           49 AKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDG-QRLYSLAPVSKYFV  108 (269)
Q Consensus        49 ~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~-~~~y~~t~~s~~l~  108 (269)
                      +++|..+||+.++++      .. .+.++|+-|...|++.+. .++ .-.|.+|+.|..+.
T Consensus        20 ~~lt~~eLa~~l~i~------~~-~vs~~l~~Le~~GlV~r~-~D~R~~~i~LT~~G~~~l   72 (85)
T d3ctaa1          20 AYLTSSKLADMLGIS------QQ-SASRIIIDLEKNGYITRT-VTKRGQILNITEKGLDVL   72 (85)
T ss_dssp             EECCHHHHHHHHTSC------HH-HHHHHHHHHHHTTSEEEE-EETTEEEEEECHHHHHHH
T ss_pred             CCCCHHHHHHHHCCC------HH-HHHHHHHHHHHCCCeeee-cccccccceECHHHHHHH
Confidence            589999999999998      67 999999999999999953 221 23377888887554

>d1z05a1 a.4.5.63 (A:10-80) Transcriptional regulator VC2007 N-terminal domain {Vibrio cholerae [TaxId: 666]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: ROK associated domain
domain: Transcriptional regulator VC2007 N-terminal domain
species: Vibrio cholerae [TaxId: 666]

Probab=95.95  E-value=0.0058  Score=39.36  Aligned_cols=43  Identities=19%  Similarity=0.356  Sum_probs=38.9

Q ss_pred             cChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCccc
Q 024350           36 LDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALH   88 (269)
Q Consensus        36 lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~   88 (269)
                      ..|+..|...   +++|..|||+.+|++      .. .+.++++.|...|+|.
T Consensus         9 ~~Il~~l~~~---g~~sr~eLa~~~glS------~~-Tv~~~l~~L~~~Glv~   51 (71)
T d1z05a1           9 GRVYKLIDQK---GPISRIDLSKESELA------PA-SITKITRELIDAHLIH   51 (71)
T ss_dssp             HHHHHHHHHH---CSBCHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEE
T ss_pred             HHHHHHHHHc---CCcCHHHHHHHHCCC------HH-HHHHHHHHHHHCCCEE
Confidence            4578888886   599999999999998      67 9999999999999998

>d1j5ya1 a.4.5.1 (A:3-67) Putative transcriptional regulator TM1602, N-terminal domain {Thermotoga maritima [TaxId: 2336]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Biotin repressor-like
domain: Putative transcriptional regulator TM1602, N-terminal domain
species: Thermotoga maritima [TaxId: 2336]

Probab=95.91  E-value=0.01  Score=37.47  Aligned_cols=59  Identities=14%  Similarity=0.194  Sum_probs=45.5

Q ss_pred             HHHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCc-ccceeecCCCeEecCh
Q 024350           31 QAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNA-LHCSFVDGQRLYSLAP  102 (269)
Q Consensus        31 ~~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~-l~~~~~~~~~~y~~t~  102 (269)
                      +.--...|++.|....  +++|.++||+.++++      .+ .++|=+..|...|+ +.   . ..+-|.+.+
T Consensus         5 k~eR~~~Il~~L~~~~--~~vs~~~La~~l~VS------~~-TI~rdi~~L~~~G~~I~---~-~~gGY~L~~   64 (65)
T d1j5ya1           5 RQERLKSIVRILERSK--EPVSGAQLAEELSVS------RQ-VIVQDIAYLRSLGYNIV---A-TPRGYVLAG   64 (65)
T ss_dssp             HHHHHHHHHHHHHHCS--SCBCHHHHHHHHTSC------HH-HHHHHHHHHHHHTCCCE---E-ETTEEECCT
T ss_pred             HHHHHHHHHHHHHHcC--CCCcHHHHHHHHCCC------HH-HHHHHHHHHHHCCCeEE---E-eCCCEEeCC
Confidence            3344556788887643  589999999999998      77 99999999999997 44   2 245788753

>d1lnwa_ a.4.5.28 (A:) MexR repressor {Pseudomonas aeruginosa [TaxId: 287]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: MarR-like transcriptional regulators
domain: MexR repressor
species: Pseudomonas aeruginosa [TaxId: 287]

Probab=95.89  E-value=0.019  Score=41.89  Aligned_cols=64  Identities=16%  Similarity=0.159  Sum_probs=47.9

Q ss_pred             hcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCC---CeEecChhchhhh
Q 024350           35 ELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQ---RLYSLAPVSKYFV  108 (269)
Q Consensus        35 ~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~---~~y~~t~~s~~l~  108 (269)
                      ++-++..|...   +++|..+||+.++++      .. .+.|+++.|+..|+|++.+..++   -.+.+|+.|+.+.
T Consensus        38 q~~vL~~l~~~---~~~t~~~la~~l~~~------~~-~vsr~l~~L~~~G~v~r~~~~~D~R~~~l~lT~~G~~~~  104 (141)
T d1lnwa_          38 DVHVLKLIDEQ---RGLNLQDLGRQMCRD------KA-LITRKIRELEGRNLVRRERNPSDQRSFQLFLTDEGLAIH  104 (141)
T ss_dssp             HHHHHHHHHSS---TTCBHHHHHHHTTCC------HH-HHHHHHHHHHHTTSEEEEECSSSSSSEEEEECHHHHHHH
T ss_pred             HHHHHHHHHHC---CCCCHHHHHHHHCcc------Hh-HHHHHHHHHHHhhceeeeccCCCCcchhhccCHHHHHHH
Confidence            44466667664   479999999999998      56 99999999999999986432222   2367888776444

>d2etha1 a.4.5.28 (A:1-140) Putative transcriptional regulator TM0816 {Thermotoga maritima [TaxId: 2336]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: MarR-like transcriptional regulators
domain: Putative transcriptional regulator TM0816
species: Thermotoga maritima [TaxId: 2336]

Probab=95.81  E-value=0.0074  Score=44.02  Aligned_cols=65  Identities=14%  Similarity=0.049  Sum_probs=51.0

Q ss_pred             HhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCC---CeEecChhchhhh
Q 024350           34 VELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQ---RLYSLAPVSKYFV  108 (269)
Q Consensus        34 ~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~---~~y~~t~~s~~l~  108 (269)
                      .++-++..|...   +++|..+||+.++++      .. .+.++++.|...|++.+.+-..+   -..++|+.|+.+.
T Consensus        33 ~q~~iL~~l~~~---~~~t~~~La~~l~i~------~~-~vs~~v~~L~~~gli~r~~~~~D~R~~~l~lT~~G~~~~  100 (140)
T d2etha1          33 TELYAFLYVALF---GPKKMKEIAEFLSTT------KS-NVTNVVDSLEKRGLVVREMDPVDRRTYRVVLTEKGKEIF  100 (140)
T ss_dssp             HHHHHHHHHHHH---CCBCHHHHHHHTTSC------HH-HHHHHHHHHHHTTSEEEEECTTTSSCEEEEECHHHHHHH
T ss_pred             HHHHHHHHHHHc---CCcCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCeeeeecccccchhhhhcCHHHHHHH
Confidence            445577788776   489999999999998      67 99999999999999996432222   2578888887554

>d1z6ra1 a.4.5.63 (A:12-81) Mlc protein N-terminal domain {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: ROK associated domain
domain: Mlc protein N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=95.71  E-value=0.0087  Score=38.41  Aligned_cols=43  Identities=12%  Similarity=0.245  Sum_probs=38.7

Q ss_pred             cChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCccc
Q 024350           36 LDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALH   88 (269)
Q Consensus        36 lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~   88 (269)
                      ..|+..|...   +++|..|||+.+|++      .. .+.++++.|...|+|.
T Consensus         8 ~~Il~~i~~~---g~~sr~eLa~~~gLS------~~-Tvs~iv~~L~~~glv~   50 (70)
T d1z6ra1           8 GAVYRLIDQL---GPVSRIDLSRLAQLA------PA-SITKIVHEMLEAHLVQ   50 (70)
T ss_dssp             HHHHHHHHSS---CSCCHHHHHHHTTCC------HH-HHHHHHHHHHHHTSEE
T ss_pred             HHHHHHHHHc---CCcCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCEE
Confidence            3478888886   699999999999998      66 9999999999999998

>d1xd7a_ a.4.5.55 (A:) Hypothetical protein ywnA {Bacillus subtilis [TaxId: 1423]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Transcriptional regulator Rrf2
domain: Hypothetical protein ywnA
species: Bacillus subtilis [TaxId: 1423]

Probab=95.63  E-value=0.0088  Score=43.05  Aligned_cols=52  Identities=17%  Similarity=0.194  Sum_probs=39.7

Q ss_pred             hHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecCh
Q 024350           39 FEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAP  102 (269)
Q Consensus        39 fd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~  102 (269)
                      +-.|+..   +++|.++||+.++++      +. .++++|+.|...|+|+... ...|.| ++.
T Consensus        10 L~~la~~---~~~ss~~IA~~~~~~------~~-~v~kIl~~L~~aglV~s~r-G~~GGy-Lar   61 (127)
T d1xd7a_          10 LSLISMD---EKTSSEIIADSVNTN------PV-VVRRMISLLKKADILTSRA-GVPGAS-LKK   61 (127)
T ss_dssp             HHHHHTC---SCCCHHHHHHHHTSC------HH-HHHHHHHHHHHTTSEECCS-SSSSCE-ESS
T ss_pred             HHHHhcC---CCCCHHHHHHHhCcC------HH-HHHHHHHHHHHhCcccccC-CCCCcc-ccC
Confidence            4455554   589999999999997      67 9999999999999998642 223435 643

>d3broa1 a.4.5.28 (A:3-137) Transcriptional regulator OEOE1854 {Oenococcus oeni [TaxId: 1247]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: MarR-like transcriptional regulators
domain: Transcriptional regulator OEOE1854
species: Oenococcus oeni [TaxId: 1247]

Probab=95.61  E-value=0.0091  Score=43.18  Aligned_cols=68  Identities=6%  Similarity=0.140  Sum_probs=50.4

Q ss_pred             HHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCC---CeEecChhchhhh
Q 024350           33 VVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQ---RLYSLAPVSKYFV  108 (269)
Q Consensus        33 a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~---~~y~~t~~s~~l~  108 (269)
                      ..++.++..|...+ ++++|..|||+.++++      .. .+.++++-|...|+|.+..-..+   -.+.+|+.|+.+.
T Consensus        29 ~~q~~vL~~l~~~~-~~~it~~ela~~~~~~------~~-~vs~~l~~L~~~g~v~r~~~~~D~R~~~i~lT~~G~~~~   99 (135)
T d3broa1          29 GTQMTIIDYLSRNK-NKEVLQRDLESEFSIK------SS-TATVLLQRMEIKKLLYRKVSGKDSRQKCLKLTKKANKLE   99 (135)
T ss_dssp             HHHHHHHHHHHHTT-TSCCBHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEEEEECSSCTTSEEEEECHHHHTTH
T ss_pred             HHHHHHHHHHHHcC-CCCCCHHHHHHHHCcC------Hh-HHHHHHHHHHHHHHHHHHhhhhhhhhhhhcccHHHHHHH
Confidence            34455667777642 2579999999999998      56 89999999999999985421122   2588999886554

>d2hoea1 a.4.5.63 (A:10-71) N-acetylglucosamine kinase {Thermotoga maritima [TaxId: 2336]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: ROK associated domain
domain: N-acetylglucosamine kinase
species: Thermotoga maritima [TaxId: 2336]

Probab=95.54  E-value=0.0083  Score=37.58  Aligned_cols=42  Identities=12%  Similarity=0.262  Sum_probs=37.5

Q ss_pred             ChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccc
Q 024350           37 DVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHC   89 (269)
Q Consensus        37 glfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~   89 (269)
                      .|+..|.+    +|+|..|||+.+|++      .. .+.++++-|...|++.+
T Consensus         3 ~Il~~i~~----~pisr~eLa~~~gls------~~-TVs~~v~~L~~~GlV~e   44 (62)
T d2hoea1           3 RILKRIMK----SPVSRVELAEELGLT------KT-TVGEIAKIFLEKGIVVE   44 (62)
T ss_dssp             CSHHHHHH----SCBCHHHHHHHHTCC------HH-HHHHHHHHHHHHTSEEE
T ss_pred             HHHHHHHH----CCcCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCEEE
Confidence            46788876    699999999999998      66 99999999999999983

>d2avda1 c.66.1.1 (A:44-262) COMT domain-containing protein 1, COMTD1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: COMT-like
domain: COMT domain-containing protein 1, COMTD1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.52  E-value=0.0026  Score=50.61  Aligned_cols=67  Identities=15%  Similarity=0.103  Sum_probs=52.0

Q ss_pred             CCccEEEEeCCCchHHHHHHHHHCC-CCeEEEeeh-hHHHHhCCC-------CCCceEEecccCCcC--------CCC-c
Q 024350          192 EHVKKLVDVGGGLGATLNMIISKYP-HIKGINYDL-LYVIKNAPS-------YPGIDHVGGDLFESV--------PKA-D  253 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~~P-~l~~vv~Dl-p~vv~~a~~-------~~ri~~~~gD~~~~~--------P~g-D  253 (269)
                      .++++||+||++.|..+..++++-| +-+.+.+|. |...+.|++       .++|+++.||..+..        +.- |
T Consensus        58 ~~~k~vLEiGt~~GyStl~~a~al~~~g~i~tie~~~~~~~~A~~~~~~ag~~~~i~~~~Gda~e~l~~~~~~~~~~~fD  137 (219)
T d2avda1          58 IQAKKALDLGTFTGYSALALALALPADGRVVTCEVDAQPPELGRPLWRQAEAEHKIDLRLKPALETLDELLAAGEAGTFD  137 (219)
T ss_dssp             TTCCEEEEECCTTSHHHHHHHTTSCTTCEEEEEESCSHHHHHHHHHHHHTTCTTTEEEEESCHHHHHHHHHHTTCTTCEE
T ss_pred             cCCCeEEEEechhhHHHHHHHHhCCCCceEEEEeechhHHHHHHHHHHhcCccceEEEEEeehhhcchhhhhhcccCCcc
Confidence            4679999999999999999999987 678899996 555555543       389999999976621        222 8


Q ss_pred             EEEec
Q 024350          254 TIFMK  258 (269)
Q Consensus       254 ~~~l~  258 (269)
                      ++|+-
T Consensus       138 ~ifiD  142 (219)
T d2avda1         138 VAVVD  142 (219)
T ss_dssp             EEEEC
T ss_pred             EEEEe
Confidence            88774

>d2as0a2 c.66.1.51 (A:73-396) Hypothetical protein PH1915, middle and C-terminal domains {Archaeon Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: hypothetical RNA methyltransferase
domain: Hypothetical protein PH1915, middle and C-terminal domains
species: Archaeon Pyrococcus horikoshii [TaxId: 53953]

Probab=95.50  E-value=0.0025  Score=53.77  Aligned_cols=65  Identities=18%  Similarity=0.144  Sum_probs=50.7

Q ss_pred             CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-------CCceEEecccCCc---CC-C--C-cEEE
Q 024350          192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-------PGIDHVGGDLFES---VP-K--A-DTIF  256 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~~---~P-~--g-D~~~  256 (269)
                      ++..+|||+|||+|.++..++.... .+++.+|+ |..++.++++       ++++++.+|.|+.   ++ .  - |+++
T Consensus       144 ~~g~~VLDl~~g~G~~si~~a~~ga-~~V~~vD~s~~al~~a~~N~~~ngl~~~~~~~~~d~~~~~~~~~~~~~~fD~Vi  222 (324)
T d2as0a2         144 QPGDRVLDVFTYTGGFAIHAAIAGA-DEVIGIDKSPRAIETAKENAKLNGVEDRMKFIVGSAFEEMEKLQKKGEKFDIVV  222 (324)
T ss_dssp             CTTCEEEETTCTTTHHHHHHHHTTC-SEEEEEESCHHHHHHHHHHHHHTTCGGGEEEEESCHHHHHHHHHHTTCCEEEEE
T ss_pred             CCCCeeecccCcccchhhhhhhcCC-cEEEeecCCHHHHHHHHHHHHHcCCCccceeeechhhhhhHHHHhccCCCCchh
Confidence            4468999999999999999988754 37899997 7777776542       6899999999872   22 1  2 8887


Q ss_pred             e
Q 024350          257 M  257 (269)
Q Consensus       257 l  257 (269)
                      +
T Consensus       223 ~  223 (324)
T d2as0a2         223 L  223 (324)
T ss_dssp             E
T ss_pred             c
Confidence            6

>d2d1ha1 a.4.5.50 (A:1-109) Hypothetical transcriptional regulator ST1889 {Sulfolobus tokodaii [TaxId: 111955]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: TrmB-like
domain: Hypothetical transcriptional regulator ST1889
species: Sulfolobus tokodaii [TaxId: 111955]

Probab=95.40  E-value=0.0057  Score=42.79  Aligned_cols=46  Identities=11%  Similarity=0.212  Sum_probs=37.1

Q ss_pred             cChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccce
Q 024350           36 LDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCS   90 (269)
Q Consensus        36 lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~   90 (269)
                      ..|+..|...+  +++|..+||+.++++      .. .+.++|+-|...|+|.+.
T Consensus        24 ~~iL~~L~~~~--~~~t~~eLa~~~~i~------~~-tvs~~l~~L~~~GlV~r~   69 (109)
T d2d1ha1          24 VAVLLKMVEIE--KPITSEELADIFKLS------KT-TVENSLKKLIELGLVVRT   69 (109)
T ss_dssp             HHHHHHHHHHC--SCEEHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEEEE
T ss_pred             HHHHHHHHHcC--CCCCHHHHHHHHCcc------Hh-HHHHHHHHHHHCCCEEEe
Confidence            33555554433  689999999999998      67 999999999999999853

>d1r7ja_ a.4.5.49 (A:) Sso10a (SSO10449) {Archaeon Sulfolobus solfataricus [TaxId: 2287]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Archaeal DNA-binding protein
domain: Sso10a (SSO10449)
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=95.37  E-value=0.017  Score=38.90  Aligned_cols=49  Identities=14%  Similarity=0.264  Sum_probs=42.7

Q ss_pred             CCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhchhhhc
Q 024350           50 KLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSKYFVR  109 (269)
Q Consensus        50 ~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s~~l~~  109 (269)
                      +.+.-.|...++++      .. .+...|..|...|++.   +. ++.|.+|+.|..|..
T Consensus        18 g~~kT~i~~~aNLs------~~-~~~kyl~~L~~~GLI~---~~-~~~Y~iT~kG~~~L~   66 (90)
T d1r7ja_          18 GSPKTRIMYGANLS------YA-LTGRYIKMLMDLEIIR---QE-GKQYMLTKKGEELLE   66 (90)
T ss_dssp             CBCHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEE---EE-TTEEEECHHHHHHHH
T ss_pred             CCCccHHHHHcCCC------HH-HHHHHHHHHHHCCCee---ec-CCEEEECccHHHHHH
Confidence            46789999999997      67 9999999999999998   43 689999999986653

>d2a61a1 a.4.5.28 (A:5-143) Transcriptional regulator TM0710 {Thermotoga maritima [TaxId: 2336]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: MarR-like transcriptional regulators
domain: Transcriptional regulator TM0710
species: Thermotoga maritima [TaxId: 2336]

Probab=95.26  E-value=0.013  Score=42.68  Aligned_cols=65  Identities=8%  Similarity=0.093  Sum_probs=49.2

Q ss_pred             hcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCC---CeEecChhchhhhc
Q 024350           35 ELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQ---RLYSLAPVSKYFVR  109 (269)
Q Consensus        35 ~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~---~~y~~t~~s~~l~~  109 (269)
                      +.-++..|...   +++|+.+||+.++++      .. .+.++++-|...|++++.....+   -.+.+|+.|+.+..
T Consensus        32 q~~iL~~i~~~---~~~t~~~la~~l~i~------~~-tvs~~l~~L~~~gli~r~~~~~D~R~~~i~LT~~G~~~~~   99 (139)
T d2a61a1          32 QFDILQKIYFE---GPKRPGELSVLLGVA------KS-TVTGLVKRLEADGYLTRTPDPADRRAYFLVITRKGEEVIE   99 (139)
T ss_dssp             HHHHHHHHHHH---CCBCHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEEEEEETTEEEEEEEEECHHHHHHHH
T ss_pred             HHHHHHHHHHc---CCCCHHHHHHHhCCC------cc-cchHHHHHHHhcCeeeeeeccCCCCeEEEEECHHHHHHHH
Confidence            34456666665   489999999999998      56 99999999999999985422122   34888888876553

>d2bv6a1 a.4.5.28 (A:5-140) Transcriptional regulator MgrA {Staphylococcus aureus [TaxId: 1280]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: MarR-like transcriptional regulators
domain: Transcriptional regulator MgrA
species: Staphylococcus aureus [TaxId: 1280]

Probab=95.20  E-value=0.017  Score=41.77  Aligned_cols=65  Identities=12%  Similarity=0.224  Sum_probs=49.6

Q ss_pred             HhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCC---eEecChhchhhh
Q 024350           34 VELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQR---LYSLAPVSKYFV  108 (269)
Q Consensus        34 ~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~---~y~~t~~s~~l~  108 (269)
                      .++.++..|...   +++|..+||+.++++      .. .+.++++-|+..|++++...+.++   .+.+|+.|+.+.
T Consensus        35 ~q~~vL~~i~~~---~~~t~~~la~~l~~~------~~-~~s~~l~~L~~~Gli~r~~~~~D~R~~~l~lT~~G~~~~  102 (136)
T d2bv6a1          35 PQFLVLTILWDE---SPVNVKKVVTELALD------TG-TVSPLLKRMEQVDLIKRERSEVDQREVFIHLTDKSETIR  102 (136)
T ss_dssp             HHHHHHHHHHHS---SEEEHHHHHHHTTCC------TT-THHHHHHHHHHTTSEEEEECSSSTTCEEEEECHHHHHHH
T ss_pred             HHHHHHHHHHcC---CCCCHHHHHHHHCCC------Hh-HHHHHHHHHHHCCCEEEeecCCcccchhhccCHHHHHHH
Confidence            344566777776   589999999999997      56 899999999999999864222222   468888887554

>d1ylfa1 a.4.5.55 (A:5-142) Hypothetical protein BC1842 {Bacillus cereus [TaxId: 1396]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Transcriptional regulator Rrf2
domain: Hypothetical protein BC1842
species: Bacillus cereus [TaxId: 1396]

Probab=95.19  E-value=0.0079  Score=43.97  Aligned_cols=45  Identities=7%  Similarity=0.100  Sum_probs=36.9

Q ss_pred             CCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecCh
Q 024350           49 AKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAP  102 (269)
Q Consensus        49 ~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~  102 (269)
                      .+.|.++||+.++++      +. .++++|..|...|+|...  .|.|-|.+..
T Consensus        22 ~~vss~~IA~~~~i~------~~-~l~kil~~L~~aGlv~S~--rG~GG~~L~~   66 (138)
T d1ylfa1          22 SLCTSDYMAESVNTN------PV-VIRKIMSYLKQAGFVYVN--RGPGGAGLLK   66 (138)
T ss_dssp             GGCCHHHHHHHHTSC------HH-HHHHHHHHHHHTTSEEEC-----CCEEESS
T ss_pred             CcCcHHHHHHHHCcC------HH-HHHHHHHHHHHCCCeEee--cCCCCceecC
Confidence            589999999999997      67 999999999999999864  2457787753

>d1ulya_ a.4.5.58 (A:) Hypothetical protein PH1932 {Pyrococcus horikoshii [TaxId: 53953]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Hypothetical protein PH1932
domain: Hypothetical protein PH1932
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=95.17  E-value=0.0093  Score=45.91  Aligned_cols=69  Identities=6%  Similarity=0.108  Sum_probs=53.2

Q ss_pred             HHHHHHHHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeec-CC----CeEec
Q 024350           26 LPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVD-GQ----RLYSL  100 (269)
Q Consensus        26 ~~~~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~-~~----~~y~~  100 (269)
                      ...+|..-.++.|+..|..    +|+|+.|||+.+|++      .. .+.+.|+.|...|+|...... ..    -.|.+
T Consensus        12 ~~~~l~~p~R~~Il~~L~~----~~~s~~ela~~lg~s------~~-~v~~hl~~L~~~glv~~~~~~~~~g~~~k~y~~   80 (190)
T d1ulya_          12 VIKVMLEDTRRKILKLLRN----KEMTISQLSEILGKT------PQ-TIYHHIEKLKEAGLVEVKRTEMKGNLVEKYYGR   80 (190)
T ss_dssp             HHHHHHSHHHHHHHHHHTT----CCBCHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEEEEEEEEETTEEEEEEEE
T ss_pred             HHHHhCCHHHHHHHHHHHh----CCCCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCeEEEEeeccCCcceEEEEE
Confidence            3556677778889999975    699999999999998      66 999999999999999743111 11    34888


Q ss_pred             Chhch
Q 024350          101 APVSK  105 (269)
Q Consensus       101 t~~s~  105 (269)
                      |..+.
T Consensus        81 ~~~~~   85 (190)
T d1ulya_          81 TADVF   85 (190)
T ss_dssp             SSSEE
T ss_pred             cccce
Confidence            76543

>d1jgsa_ a.4.5.28 (A:) Multiple antibiotic resistance repressor, MarR {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: MarR-like transcriptional regulators
domain: Multiple antibiotic resistance repressor, MarR
species: Escherichia coli [TaxId: 562]

Probab=95.09  E-value=0.016  Score=42.14  Aligned_cols=65  Identities=18%  Similarity=0.149  Sum_probs=49.9

Q ss_pred             HhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCC---eEecChhchhhh
Q 024350           34 VELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQR---LYSLAPVSKYFV  108 (269)
Q Consensus        34 ~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~---~y~~t~~s~~l~  108 (269)
                      .++.+...|...   ++.|..+||+.++++      .. .+.+++..|...|+|++.+...++   .+++|+.|+.+.
T Consensus        35 ~q~~vL~~l~~~---~~~t~~ela~~~~i~------~~-~vs~~v~~L~~~glv~r~~~~~D~R~~~i~lT~~G~~~~  102 (138)
T d1jgsa_          35 AQFKVLCSIRCA---ACITPVELKKVLSVD------LG-ALTRMLDRLVCKGWVERLPNPNDKRGVLVKLTTGGAAIC  102 (138)
T ss_dssp             HHHHHHHHHHHH---SSBCHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEEEEECTTCSSCEEEEECHHHHHHH
T ss_pred             HHHHHHHhHHhC---cCCCHHHHHHHHCCC------Hh-HHHHHHHHHhhCCCEEEeeccCCCCeeEEEECHHHHHHH
Confidence            344566667665   489999999999998      66 999999999999999864322233   588888887554

>d2fbha1 a.4.5.28 (A:8-144) Transcriptional regulator PA3341 {Pseudomonas aeruginosa [TaxId: 287]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: MarR-like transcriptional regulators
domain: Transcriptional regulator PA3341
species: Pseudomonas aeruginosa [TaxId: 287]

Probab=95.09  E-value=0.015  Score=42.06  Aligned_cols=62  Identities=18%  Similarity=0.221  Sum_probs=45.4

Q ss_pred             hhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCC---eEecChhchhhh
Q 024350           38 VFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQR---LYSLAPVSKYFV  108 (269)
Q Consensus        38 lfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~---~y~~t~~s~~l~  108 (269)
                      +.-.|...+  +++|..+||+.++++      .. .+.++++-|...|++++.+...++   ...+|+.|+.+.
T Consensus        33 iL~~l~~~~--~~~t~~~la~~~~~~------~~-~vs~~v~~L~~~gli~r~~~~~D~R~~~i~lT~~G~~~~   97 (137)
T d2fbha1          33 VLLHLARHR--DSPTQRELAQSVGVE------GP-TLARLLDGLESQGLVRRLAVAEDRRAKHIVLTPKADVLI   97 (137)
T ss_dssp             HHHHHHHCS--SCCBHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEEEECCBTTBCSCEEEECTTHHHHH
T ss_pred             HHHHHHHcC--CCCcHHHHHHHHCCC------HH-HHHHHHHHHHHcCCccccCCCCCCCchhhhcCHHHHHHH
Confidence            444555543  468999999999998      67 999999999999999964222222   467777776444

>d2hzta1 a.4.5.69 (A:4-98) Putative transcriptional regulator YtcD {Bacillus subtilis [TaxId: 1423]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: HxlR-like
domain: Putative transcriptional regulator YtcD
species: Bacillus subtilis [TaxId: 1423]

Probab=95.08  E-value=0.024  Score=38.58  Aligned_cols=53  Identities=19%  Similarity=0.202  Sum_probs=42.2

Q ss_pred             CCCCHHHHHHhC-CCCCCCchhHHHHHHHHHHHHHhcCcccceeecCC---CeEecChhchhhh
Q 024350           49 AKLSVSEIVAQI-PLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQ---RLYSLAPVSKYFV  108 (269)
Q Consensus        49 ~~~s~~eLA~~~-~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~---~~y~~t~~s~~l~  108 (269)
                      |+....||.+.+ |++      .. .|.+=|+.|...|+|.+....+.   -.|++|+.|+.|.
T Consensus        23 g~~rF~el~~~l~gis------~~-~Ls~rLk~Le~~glv~r~~~~~~p~~veY~LT~~G~~L~   79 (95)
T d2hzta1          23 GKKRTSELKRLMPNIT------QK-MLTQQLRELEADGVINRIVYNQVPPKVEYELSEYGRSLE   79 (95)
T ss_dssp             CCBCHHHHHHHCTTSC------HH-HHHHHHHHHHHTTSEEEEEECSSSCEEEEEECTTGGGGH
T ss_pred             CCCCHHHHHHHhhcCC------hh-HHHHHHHHHHHhHHHhheeccccccchhhhhhhhHHHHH
Confidence            689999999997 897      66 99999999999999985422111   2399999987665

>d2f8la1 c.66.1.45 (A:2-329) Hypothetical protein Lmo1582 {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: N-6 DNA Methylase-like
domain: Hypothetical protein Lmo1582
species: Listeria monocytogenes [TaxId: 1639]

Probab=95.01  E-value=0.022  Score=47.54  Aligned_cols=67  Identities=13%  Similarity=0.150  Sum_probs=49.7

Q ss_pred             CCccEEEEeCCCchHHHHHHHHH-----CCCCeEEEeeh-hHHHHhCCC-----CCCceEEecccCCcCCC-C-cEEEec
Q 024350          192 EHVKKLVDVGGGLGATLNMIISK-----YPHIKGINYDL-LYVIKNAPS-----YPGIDHVGGDLFESVPK-A-DTIFMK  258 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~-----~P~l~~vv~Dl-p~vv~~a~~-----~~ri~~~~gD~~~~~P~-g-D~~~l~  258 (269)
                      ....+|+|.|||+|.++.++.++     .++.+.+++|+ |..+..|+.     ...+.+..+|.+...+. . |+++..
T Consensus       116 ~~~~~vlDp~~GsG~~l~~~~~~l~~~~~~~~~~~g~di~~~~~~~a~~~~~~~~~~~~~~~~d~~~~~~~~~fD~vi~N  195 (328)
T d2f8la1         116 KKNVSILDPACGTANLLTTVINQLELKGDVDVHASGVDVDDLLISLALVGADLQRQKMTLLHQDGLANLLVDPVDVVISD  195 (328)
T ss_dssp             CSEEEEEETTCTTSHHHHHHHHHHHTTSSCEEEEEEEESCHHHHHHHHHHHHHHTCCCEEEESCTTSCCCCCCEEEEEEE
T ss_pred             CCCCEEEeCCCCcchhHHHHHHHHHhccCccceEEEecccHHHHHHHHHHHHHhhhhhhhhccccccccccccccccccC
Confidence            45679999999999999998764     35567899997 666665543     26778888898886553 3 887654

>d2fhpa1 c.66.1.46 (A:1-182) Putative methylase EF2452 {Enterococcus faecalis [TaxId: 1351]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: YhhF-like
domain: Putative methylase EF2452
species: Enterococcus faecalis [TaxId: 1351]

Probab=94.95  E-value=0.0087  Score=45.96  Aligned_cols=64  Identities=14%  Similarity=0.077  Sum_probs=48.6

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC-------CCCceEEecccCCcC-----C-CC-cEEEe
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS-------YPGIDHVGGDLFESV-----P-KA-DTIFM  257 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~-------~~ri~~~~gD~~~~~-----P-~g-D~~~l  257 (269)
                      +..+|||+.||+|.++.+.+.+-.. +++.+|. +.+++.+++       .++++++.+|.++-+     . .- |++|+
T Consensus        41 ~~~~vLDlfaGsG~~g~ea~srGa~-~v~~ve~~~~a~~~~~~N~~~~~~~~~~~i~~~D~~~~l~~~~~~~~~fDlIfl  119 (182)
T d2fhpa1          41 DGGMALDLYSGSGGLAIEAVSRGMD-KSICIEKNFAALKVIKENIAITKEPEKFEVRKMDANRALEQFYEEKLQFDLVLL  119 (182)
T ss_dssp             SSCEEEETTCTTCHHHHHHHHTTCS-EEEEEESCHHHHHHHHHHHHHHTCGGGEEEEESCHHHHHHHHHHTTCCEEEEEE
T ss_pred             CCCEEEEcccccccccceeeecchh-HHHHHHHHHHHHHHHHHHhhhhhcccccccccccchhhhhhhcccCCCcceEEe
Confidence            3579999999999999999998654 6788886 666666554       268999999987621     1 23 88876

>d1ej0a_ c.66.1.2 (A:) RNA methyltransferase FtsJ {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: RNA methyltransferase FtsJ
domain: RNA methyltransferase FtsJ
species: Escherichia coli [TaxId: 562]

Probab=94.86  E-value=0.038  Score=42.14  Aligned_cols=62  Identities=24%  Similarity=0.341  Sum_probs=47.4

Q ss_pred             HHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCC-CeEEEeehhHHHHhCCCCCCceEEecccCC
Q 024350          182 EKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPH-IKGINYDLLYVIKNAPSYPGIDHVGGDLFE  247 (269)
Q Consensus       182 ~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~-l~~vv~Dlp~vv~~a~~~~ri~~~~gD~~~  247 (269)
                      ..+.+.|+-+++..+||||||+.|.++.-+.+..++ -+.+.+|+.+    ....+.+.++.+|+.+
T Consensus        11 ~EI~~k~~l~k~~~~vlDLg~aPGgw~q~~~~~~~~~~~v~~vDl~~----~~~i~~~~~~~~d~~~   73 (180)
T d1ej0a_          11 DEIQQSDKLFKPGMTVVDLGAAPGGWSQYVVTQIGGKGRIIACDLLP----MDPIVGVDFLQGDFRD   73 (180)
T ss_dssp             HHHHHHHCCCCTTCEEEEESCTTCHHHHHHHHHHCTTCEEEEEESSC----CCCCTTEEEEESCTTS
T ss_pred             HHHHHHhCccCCCCeEEEEeccCCcceEEEEeeccccceEEEeeccc----ccccCCceEeeccccc
Confidence            455666775667789999999999999988876544 6788889744    2345788888999876

>d1zq9a1 c.66.1.24 (A:36-313) Probable dimethyladenosine transferase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: rRNA adenine dimethylase-like
domain: Probable dimethyladenosine transferase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.80  E-value=0.03  Score=45.83  Aligned_cols=68  Identities=13%  Similarity=0.296  Sum_probs=48.1

Q ss_pred             HHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHh----CCC---CCCceEEecccCC-cCCCC
Q 024350          182 EKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKN----APS---YPGIDHVGGDLFE-SVPKA  252 (269)
Q Consensus       182 ~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~----a~~---~~ri~~~~gD~~~-~~P~g  252 (269)
                      ..+++..+ .....+|++||+|.|.+...|+++...  .+.++. +..++.    ...   .++++++.+|+++ +.|..
T Consensus        11 ~kIv~~~~-~~~~d~VlEIGPG~G~LT~~Ll~~~~~--v~aiE~D~~l~~~L~~~~~~~~~~~~~~~i~~D~l~~~~~~~   87 (278)
T d1zq9a1          11 NSIIDKAA-LRPTDVVLEVGPGTGNMTVKLLEKAKK--VVACELDPRLVAELHKRVQGTPVASKLQVLVGDVLKTDLPFF   87 (278)
T ss_dssp             HHHHHHTC-CCTTCEEEEECCTTSTTHHHHHHHSSE--EEEEESCHHHHHHHHHHHTTSTTGGGEEEEESCTTTSCCCCC
T ss_pred             HHHHHHhC-CCCCCEEEEECCCchHHHHHHHhcCCc--EEEEEEccchhHHHHHHHhhhccccchhhhHHHHhhhhhhhh
Confidence            45566655 556679999999999999999999764  555654 222222    222   2789999999998 66653

>d1qyra_ c.66.1.24 (A:) High level kasugamycin resistance protein KsgA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: rRNA adenine dimethylase-like
domain: High level kasugamycin resistance protein KsgA
species: Escherichia coli [TaxId: 562]

Probab=94.79  E-value=0.0092  Score=48.33  Aligned_cols=64  Identities=13%  Similarity=0.190  Sum_probs=47.5

Q ss_pred             HHHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC----CCCceEEecccCC
Q 024350          181 MEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS----YPGIDHVGGDLFE  247 (269)
Q Consensus       181 ~~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~----~~ri~~~~gD~~~  247 (269)
                      +..+++... ..+...|+.||+|.|.+...|+++...  .+.+|+ +..++..+.    .++++++.+|+.+
T Consensus        10 ~~~Iv~~~~-~~~~d~vlEIGpG~G~LT~~Ll~~~~~--v~aiEiD~~l~~~L~~~~~~~~~~~ii~~D~l~   78 (252)
T d1qyra_          10 IDSIVSAIN-PQKGQAMVEIGPGLAALTEPVGERLDQ--LTVIELDRDLAARLQTHPFLGPKLTIYQQDAMT   78 (252)
T ss_dssp             HHHHHHHHC-CCTTCCEEEECCTTTTTHHHHHTTCSC--EEEECCCHHHHHHHHTCTTTGGGEEEECSCGGG
T ss_pred             HHHHHHhcC-CCCCCEEEEECCCchHHHHHHHccCCc--eEEEEeccchhHHHHHHhhhccchhHHhhhhhh
Confidence            345666666 566788999999999999999998654  566665 444443322    3789999999997

>d2fbia1 a.4.5.28 (A:5-140) Probable transcriptional regulator PA4135 {Pseudomonas aeruginosa [TaxId: 287]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: MarR-like transcriptional regulators
domain: Probable transcriptional regulator PA4135
species: Pseudomonas aeruginosa [TaxId: 287]

Probab=94.72  E-value=0.016  Score=41.90  Aligned_cols=66  Identities=11%  Similarity=0.072  Sum_probs=49.9

Q ss_pred             hcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCC---CeEecChhchhhhcC
Q 024350           35 ELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQ---RLYSLAPVSKYFVRN  110 (269)
Q Consensus        35 ~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~---~~y~~t~~s~~l~~~  110 (269)
                      ++.++..|...   +++|..+||+.++++      .. .+.++++-|...|++++.+...+   -.+.+|+.|..+...
T Consensus        32 q~~vL~~l~~~---~~~t~~~la~~~~i~------~~-~vs~~i~~L~~~gli~r~~~~~D~R~~~l~lT~~G~~~~~~  100 (136)
T d2fbia1          32 QWRVIRILRQQ---GEMESYQLANQACIL------RP-SMTGVLARLERDGIVRRWKAPKDQRRVYVNLTEKGQQCFVS  100 (136)
T ss_dssp             HHHHHHHHHHH---CSEEHHHHHHHTTCC------HH-HHHHHHHHHHHTTSEEEEEETTEEEEEEEEECHHHHHHHHH
T ss_pred             HHHHHHHHHHc---CCCCHHHHHHHHCCC------HH-HHHHHHHHHHHCCCEEEeecCccCchhhhccCHHHHHHHHH
Confidence            34466667775   589999999999998      56 99999999999999986432222   237788888755533

>d3deua1 a.4.5.28 (A:2-141) Transcriptional regulator SlyA {Salmonella typhimurium [TaxId: 90371]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: MarR-like transcriptional regulators
domain: Transcriptional regulator SlyA
species: Salmonella typhimurium [TaxId: 90371]

Probab=94.70  E-value=0.018  Score=41.79  Aligned_cols=66  Identities=12%  Similarity=0.098  Sum_probs=47.4

Q ss_pred             hcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCC---CeEecChhchhhhc
Q 024350           35 ELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQ---RLYSLAPVSKYFVR  109 (269)
Q Consensus        35 ~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~---~~y~~t~~s~~l~~  109 (269)
                      ++.+.-.|...+  +++|..+||+.++++      .. .+.++++.|...|+|+..+...+   -.+.+|+.|+.+..
T Consensus        33 ~~~~L~~l~~~~--~~~t~~~la~~l~i~------~~-~vs~~l~~L~~~glI~~~~~~~D~R~~~l~lT~~G~~~~~  101 (140)
T d3deua1          33 HWVTLHNIHQLP--PDQSQIQLAKAIGIE------QP-SLVRTLDQLEDKGLISRQTCASDRRAKRIKLTEKAEPLIA  101 (140)
T ss_dssp             HHHHHHHHHHSC--SSEEHHHHHHHHTSC------HH-HHHHHHHHHHHTTSEEEC--------CEEEECGGGHHHHH
T ss_pred             HHHHHHHHHHcC--CCccHHHHHHHHCCC------Hh-HHHHHHHHHHhCCCEEecccCCCCCceeeEECHHHHHHHH
Confidence            334555665533  479999999999998      56 89999999999999985322222   25889988875553

>d1susa1 c.66.1.1 (A:21-247) Caffeoyl-CoA O-methyltransferase {Alfalfa (Medicago sativa) [TaxId: 3879]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: COMT-like
domain: Caffeoyl-CoA O-methyltransferase
species: Alfalfa (Medicago sativa) [TaxId: 3879]

Probab=94.55  E-value=0.0058  Score=48.79  Aligned_cols=67  Identities=19%  Similarity=0.162  Sum_probs=52.2

Q ss_pred             CCccEEEEeCCCchHHHHHHHHHCC-CCeEEEeeh-hHHHHhCCC-------CCCceEEecccCCcCC---------CC-
Q 024350          192 EHVKKLVDVGGGLGATLNMIISKYP-HIKGINYDL-LYVIKNAPS-------YPGIDHVGGDLFESVP---------KA-  252 (269)
Q Consensus       192 ~~~~~vvDvGGG~G~~~~~l~~~~P-~l~~vv~Dl-p~vv~~a~~-------~~ri~~~~gD~~~~~P---------~g-  252 (269)
                      .++++||+||.+.|.-+..++++.| +-+.+.+|. |..++.|++       .++|+++.||..+-+|         .. 
T Consensus        58 ~~~k~iLEiGT~~GyStl~la~al~~~g~v~tie~~~~~~~~A~~~~~~~g~~~~i~~~~g~a~~~L~~l~~~~~~~~~f  137 (227)
T d1susa1          58 INAKNTMEIGVYTGYSLLATALAIPEDGKILAMDINKENYELGLPVIKKAGVDHKIDFREGPALPVLDEMIKDEKNHGSY  137 (227)
T ss_dssp             HTCCEEEEECCGGGHHHHHHHHHSCTTCEEEEEESCCHHHHHHHHHHHHTTCGGGEEEEESCHHHHHHHHHHCGGGTTCB
T ss_pred             cCCCcEEEecchhhhhHHHHHhhCCCCcEEEEEeccchhHHHHHHHHHHhccccceeeeehHHHHHHHHHHhccccCCce
Confidence            3679999999999999999999998 578888886 666655553       3899999999876322         13 


Q ss_pred             cEEEec
Q 024350          253 DTIFMK  258 (269)
Q Consensus       253 D~~~l~  258 (269)
                      |++|+-
T Consensus       138 D~iFiD  143 (227)
T d1susa1         138 DFIFVD  143 (227)
T ss_dssp             SEEEEC
T ss_pred             eEEEec
Confidence            888874

>d2igta1 c.66.1.51 (A:1-309) Putative methyltransferase Atu0340 {Agrobacterium tumefaciens [TaxId: 358]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: hypothetical RNA methyltransferase
domain: Putative methyltransferase Atu0340
species: Agrobacterium tumefaciens [TaxId: 358]

Probab=94.49  E-value=0.0086  Score=49.96  Aligned_cols=65  Identities=15%  Similarity=0.104  Sum_probs=50.3

Q ss_pred             CCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC--------CCceEEecccCCcCC------CC-cE
Q 024350          191 FEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY--------PGIDHVGGDLFESVP------KA-DT  254 (269)
Q Consensus       191 ~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~--------~ri~~~~gD~~~~~P------~g-D~  254 (269)
                      .++..+|||+.||+|.++..++..  ..++|.+|. +..++.++++        .+++++.+|.|+-+.      +- |+
T Consensus       130 ~~~~~rVLdlf~~tG~~sl~aa~~--GA~V~~VD~s~~al~~a~~N~~ln~~~~~~~~~i~~D~~~~l~~~~~~~~~fD~  207 (309)
T d2igta1         130 ADRPLKVLNLFGYTGVASLVAAAA--GAEVTHVDASKKAIGWAKENQVLAGLEQAPIRWICEDAMKFIQREERRGSTYDI  207 (309)
T ss_dssp             SSSCCEEEEETCTTCHHHHHHHHT--TCEEEEECSCHHHHHHHHHHHHHHTCTTSCEEEECSCHHHHHHHHHHHTCCBSE
T ss_pred             ccCCCeEEEecCCCcHHHHHHHhC--CCeEEEEeChHHHHHHHHHhhhhhcccCCcEEEEeCCHHHhHHHHhhcCCCCCE
Confidence            345689999999999999998876  458899997 6777777642        479999999987321      22 88


Q ss_pred             EEe
Q 024350          255 IFM  257 (269)
Q Consensus       255 ~~l  257 (269)
                      |++
T Consensus       208 Iil  210 (309)
T d2igta1         208 ILT  210 (309)
T ss_dssp             EEE
T ss_pred             EEE
Confidence            876

>d2ih2a1 c.66.1.27 (A:21-243) DNA methylase TaqI, N-terminal domain {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: DNA methylase TaqI, N-terminal domain
domain: DNA methylase TaqI, N-terminal domain
species: Thermus aquaticus [TaxId: 271]

Probab=94.48  E-value=0.063  Score=41.45  Aligned_cols=72  Identities=11%  Similarity=0.052  Sum_probs=49.3

Q ss_pred             HHHhccCCCCccEEEEeCCCchHHHHHHHHHCCC-CeEEEeehhHHHHhCCCCCCceEEecccCCcCC-CC-cEEEec
Q 024350          184 VLESYKGFEHVKKLVDVGGGLGATLNMIISKYPH-IKGINYDLLYVIKNAPSYPGIDHVGGDLFESVP-KA-DTIFMK  258 (269)
Q Consensus       184 ~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~-l~~vv~Dlp~vv~~a~~~~ri~~~~gD~~~~~P-~g-D~~~l~  258 (269)
                      +++... .++..+|+|.|||+|.++.++.++++. .+...+|+.+..  .....+.....+|++...+ .. |+++..
T Consensus        11 m~~l~~-~~~~~~IlDp~~G~G~fl~~~~~~~~~~~~i~g~ei~~~~--~~~~~~~~~~~~~~~~~~~~~~fd~ii~n   85 (223)
T d2ih2a1          11 MVSLAE-APRGGRVLEPACAHGPFLRAFREAHGTAYRFVGVEIDPKA--LDLPPWAEGILADFLLWEPGEAFDLILGN   85 (223)
T ss_dssp             HHHHCC-CCTTCEEEEETCTTCHHHHHHHHHHCSCSEEEEEESCTTT--CCCCTTEEEEESCGGGCCCSSCEEEEEEC
T ss_pred             HHHhcC-CCCcCEEEECCCchHHHHHHHHHhccccceEEeeecCHHH--Hhhcccceeeeeehhccccccccceeccc
Confidence            344444 455679999999999999999988876 457888874332  1112456778888887444 33 776654

>d1hsja1 a.4.5.28 (A:373-487) Staphylococcal accessory regulator A homolog, SarR {Staphylococcus aureus [TaxId: 1280]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: MarR-like transcriptional regulators
domain: Staphylococcal accessory regulator A homolog, SarR
species: Staphylococcus aureus [TaxId: 1280]

Probab=94.45  E-value=0.019  Score=40.43  Aligned_cols=99  Identities=15%  Similarity=0.092  Sum_probs=58.6

Q ss_pred             CccccchHHHhhhHHHHHHHHHhhHHHHHHHHHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHH
Q 024350            1 MASIADQEEEANNFSYAMELASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRL   80 (269)
Q Consensus         1 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~   80 (269)
                      |.-|-+=.++..+...+.++........- .+..++.++..|.... ++++|..+||+.++++      .. .+.++++-
T Consensus         1 m~~i~~i~~l~~a~~~~~~~~~~~~~~~~-Lt~~q~~vL~~l~~~~-~~~~t~~ela~~l~~~------~~-~vs~~i~~   71 (115)
T d1hsja1           1 MSKINDINDLVNATFQVKKFFRDTKKKFN-LNYEEIYILNHILRSE-SNEISSKEIAKCSEFK------PY-YLTKALQK   71 (115)
T ss_dssp             CCCCCSHHHHHHHHHHHHHHHHHHSSSCC-CCHHHHHHHHHHHTCS-CSEEEHHHHHHSSCCC------HH-HHHHHHHH
T ss_pred             CchHHHHHHHHHHHHHHHHHHHHHHhhcC-CCHHHHHHHHHHHccC-CCCcCHHHHHHHHCCC------hh-hHHHHHHH
Confidence            33444445555555555544322110000 0112233455555321 1589999999999998      67 99999999


Q ss_pred             HHhcCcccceeecCC---CeEecChhchhhh
Q 024350           81 LVSYNALHCSFVDGQ---RLYSLAPVSKYFV  108 (269)
Q Consensus        81 L~~~g~l~~~~~~~~---~~y~~t~~s~~l~  108 (269)
                      |...|++.+.+-..+   -...+|+.|+.+.
T Consensus        72 Le~~gli~r~~~~~D~R~~~i~LT~~G~~~~  102 (115)
T d1hsja1          72 LKDLKLLSKKRSLQDERTVIVYVTDTQKANI  102 (115)
T ss_dssp             HHTTTTSCCEECCSSSSCCEEECCSSHHHHH
T ss_pred             HHHcCCeEEEeecCCCceEEEEECHHHHHHH
Confidence            999999996432222   2367777776443

>d1ku9a_ a.4.5.36 (A:) DNA-binding protein Mj223 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: DNA-binding protein Mj223
domain: DNA-binding protein Mj223
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=94.44  E-value=0.02  Score=41.94  Aligned_cols=47  Identities=15%  Similarity=0.228  Sum_probs=38.8

Q ss_pred             hcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccce
Q 024350           35 ELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCS   90 (269)
Q Consensus        35 ~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~   90 (269)
                      +..|+-.|-.++  +|+|+.|||+.+|++      .. .+.+.|+-|...|+|.+.
T Consensus        28 ~~~i~~~L~~~~--~plt~~ela~~l~vs------k~-~vs~~l~~L~~~GlV~r~   74 (151)
T d1ku9a_          28 VGAVYAILYLSD--KPLTISDIMEELKIS------KG-NVSMSLKKLEELGFVRKV   74 (151)
T ss_dssp             HHHHHHHHHHCS--SCEEHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEEEE
T ss_pred             HHHHHHHHHhCC--CCcCHHHHHHHhCCC------cc-hHHHHHHHHHHCCCEEEE
Confidence            334666676554  689999999999998      57 999999999999999853

>d1z91a1 a.4.5.28 (A:8-144) Organic hydroperoxide resistance transcriptional regulator OhrR {Bacillus subtilis [TaxId: 1423]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: MarR-like transcriptional regulators
domain: Organic hydroperoxide resistance transcriptional regulator OhrR
species: Bacillus subtilis [TaxId: 1423]

Probab=94.40  E-value=0.018  Score=41.75  Aligned_cols=64  Identities=14%  Similarity=0.149  Sum_probs=48.9

Q ss_pred             ChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCC---CeEecChhchhhhcC
Q 024350           37 DVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQ---RLYSLAPVSKYFVRN  110 (269)
Q Consensus        37 glfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~---~~y~~t~~s~~l~~~  110 (269)
                      .++..|...   +++|..+||+.++++      .. .+.++++-|...|+|.+.+...+   -...+|+.|..+...
T Consensus        37 ~vL~~l~~~---~~~t~~~La~~~~i~------~~-~vsr~i~~L~~~glv~r~~~~~D~R~~~i~lT~~G~~~~~~  103 (137)
T d1z91a1          37 LALLLLWEH---ETLTVKKMGEQLYLD------SG-TLTPMLKRMEQQGLITRKRSEEDERSVLISLTEDGALLKEK  103 (137)
T ss_dssp             HHHHHHHHH---SEEEHHHHHHTTTCC------HH-HHHHHHHHHHHHTSEECCBCSSCTTSBEEEECHHHHSGGGG
T ss_pred             HHHHHHHcC---CCCCHHHHHHHHCcC------HH-HHHHHHHHHhhccceEEeecCCCCCeEEEEECHHHHHHHHH
Confidence            345666654   589999999999998      66 99999999999999985422223   237899998866544

>d2cyya1 a.4.5.32 (A:5-64) Putative transcriptional regulator PH1519 {Archaeon Pyrococcus horikoshii [TaxId: 53953]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Lrp/AsnC-like transcriptional regulator N-terminal domain
domain: Putative transcriptional regulator PH1519
species: Archaeon Pyrococcus horikoshii [TaxId: 53953]

Probab=94.39  E-value=0.026  Score=34.85  Aligned_cols=45  Identities=16%  Similarity=0.288  Sum_probs=40.2

Q ss_pred             HhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCccc
Q 024350           34 VELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALH   88 (269)
Q Consensus        34 ~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~   88 (269)
                      ++..|...|.++   +..|..+||+.+|++      +. .+.+=++.|...|++.
T Consensus         4 ~D~~Il~~L~~n---~r~s~~eiA~~l~ls------~~-~v~~Ri~~L~~~giI~   48 (60)
T d2cyya1           4 IDKKIIKILQND---GKAPLREISKITGLA------ES-TIHERIRKLRESGVIK   48 (60)
T ss_dssp             HHHHHHHHHHHC---TTCCHHHHHHHHCSC------HH-HHHHHHHHHHHHTSSC
T ss_pred             HHHHHHHHHHHc---CCCCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCeE
Confidence            566788999986   589999999999998      77 8999999999999998

>d1lj9a_ a.4.5.28 (A:) Transcriptional regulator SlyA {Enterococcus faecalis [TaxId: 1351]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: MarR-like transcriptional regulators
domain: Transcriptional regulator SlyA
species: Enterococcus faecalis [TaxId: 1351]

Probab=94.26  E-value=0.026  Score=41.20  Aligned_cols=61  Identities=8%  Similarity=0.013  Sum_probs=46.1

Q ss_pred             hhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCC---eEecChhchhhh
Q 024350           38 VFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQR---LYSLAPVSKYFV  108 (269)
Q Consensus        38 lfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~---~y~~t~~s~~l~  108 (269)
                      +.-.|...   +++|..+||+.++++      .. .+.++++-|...|++.+.+-..+.   ...+|+.|+.+.
T Consensus        34 iL~~i~~~---~~~t~~~la~~l~i~------~~-tvs~~l~~L~~~glI~r~~~~~D~R~~~l~LT~~G~~~~   97 (144)
T d1lj9a_          34 YLVRVCEN---PGIIQEKIAELIKVD------RT-TAARAIKRLEEQGFIYRQEDASNKKIKRIYATEKGKNVY   97 (144)
T ss_dssp             HHHHHHHS---TTEEHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEEEEECSSCTTCEEEEECHHHHHHH
T ss_pred             HHHHHHhC---CCCCHHHHHHHHCcc------Hh-hHHHHHHHHHhhhcccccCCCCCCCccccccCHHHHHHH
Confidence            44556665   479999999999998      67 999999999999999964322222   577888776544

>d1i1ga1 a.4.5.32 (A:2-61) LprA {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Lrp/AsnC-like transcriptional regulator N-terminal domain
domain: LprA
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=94.26  E-value=0.026  Score=34.86  Aligned_cols=45  Identities=16%  Similarity=0.299  Sum_probs=39.4

Q ss_pred             HhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCccc
Q 024350           34 VELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALH   88 (269)
Q Consensus        34 ~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~   88 (269)
                      ++..|...|..+   +.+|..+||+.+|++      +. .+.+=++.|...|++.
T Consensus         4 ~D~kIl~~L~~n---~r~s~~~lA~~~gls------~~-~v~~Ri~~L~~~giI~   48 (60)
T d1i1ga1           4 RDKIILEILEKD---ARTPFTEIAKKLGIS------ET-AVRKRVKALEEKGIIE   48 (60)
T ss_dssp             HHHHHHHHHHHC---TTCCHHHHHHHHTSC------HH-HHHHHHHHHHHHTSSC
T ss_pred             HHHHHHHHHHHc---CCCCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCeE
Confidence            355678888886   589999999999998      67 8999999999999997

>d1yyva1 a.4.5.69 (A:9-122) Putative transcriptional regulator YtfH {Salmonella typhimurium [TaxId: 90371]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: HxlR-like
domain: Putative transcriptional regulator YtfH
species: Salmonella typhimurium [TaxId: 90371]

Probab=94.10  E-value=0.031  Score=39.34  Aligned_cols=75  Identities=15%  Similarity=0.104  Sum_probs=56.5

Q ss_pred             HHHHHHHHHhhHHHHHHHHHHhcChhHHHHhcCCCCCCCHHHHHHhC-CCCCCCchhHHHHHHHHHHHHHhcCcccceee
Q 024350           14 FSYAMELASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQI-PLKDNNPEAAAMMLDRVLRLLVSYNALHCSFV   92 (269)
Q Consensus        14 ~~~l~~~~~~~~~~~~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~-~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~   92 (269)
                      ....++++.+-|...+|..         |..    |+....||.+.+ |++      .. .|.+=|+.|...|+|.+...
T Consensus        14 v~~~l~~ig~kW~l~Il~~---------L~~----g~~RF~el~~~l~gis------~~-~Ls~rL~~Le~~glv~R~~~   73 (114)
T d1yyva1          14 SREVLKHVTSRWGVLILVA---------LRD----GTHRFSDLRRKMGGVS------EK-MLAQSLQALEQDGFLNRVSY   73 (114)
T ss_dssp             HHHHHHHHHSHHHHHHHHH---------GGG----CCEEHHHHHHHSTTCC------HH-HHHHHHHHHHHHTCEEEEEE
T ss_pred             HHHHHHHHcCCCHHHHHHH---------Hhc----CCCCHHHHHHHccccc------hh-HHHHHHHHHHHHHHHhhccc
Confidence            4566777778887766654         333    589999999999 797      56 89999999999999996421


Q ss_pred             cC-C--CeEecChhchhhh
Q 024350           93 DG-Q--RLYSLAPVSKYFV  108 (269)
Q Consensus        93 ~~-~--~~y~~t~~s~~l~  108 (269)
                      .. +  -.|++|+.|+.|.
T Consensus        74 ~~~p~~veY~LT~~G~~L~   92 (114)
T d1yyva1          74 PVVPPHVEYSLTPLGEQVS   92 (114)
T ss_dssp             CSSSCEEEEEECHHHHHHH
T ss_pred             CCCCchhHhHhhHhHHHHH
Confidence            11 1  2399999998776

>d1z7ua1 a.4.5.69 (A:1-108) Hypothetical protein EF0647 {Enterococcus faecalis [TaxId: 1351]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: HxlR-like
domain: Hypothetical protein EF0647
species: Enterococcus faecalis [TaxId: 1351]

Probab=94.08  E-value=0.049  Score=37.88  Aligned_cols=76  Identities=13%  Similarity=0.140  Sum_probs=53.8

Q ss_pred             HHHHHHHHHhhHHHHHHHHHHhcChhHHHHhcCCCCCCCHHHHHHhC-CCCCCCchhHHHHHHHHHHHHHhcCcccceee
Q 024350           14 FSYAMELASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQI-PLKDNNPEAAAMMLDRVLRLLVSYNALHCSFV   92 (269)
Q Consensus        14 ~~~l~~~~~~~~~~~~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~-~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~   92 (269)
                      .....+++.+-|...+|.         .|..    |+....||.+.+ |++      .. .|.+=|+.|...|+|.+...
T Consensus         9 i~~al~iig~kW~~~Il~---------~L~~----g~~RF~el~~~l~gIS------~~-~Ls~rLk~L~~~glv~R~~~   68 (108)
T d1z7ua1           9 INLALSTINGKWKLSLMD---------ELFQ----GTKRNGELMRALDGIT------QR-VLTDRLREMEKDGLVHRESF   68 (108)
T ss_dssp             HHHHHHTTCSTTHHHHHH---------HHHH----SCBCHHHHHHHSTTCC------HH-HHHHHHHHHHHHTSEEEEEE
T ss_pred             HHHHHHHHcCCCHHHHHH---------HHHc----CCCCHHHHHHHCcCCC------hh-HHHHHHHHHHHCCcceeecc
Confidence            344455555556555444         3444    589999999998 797      66 99999999999999985321


Q ss_pred             cC-C--CeEecChhchhhhc
Q 024350           93 DG-Q--RLYSLAPVSKYFVR  109 (269)
Q Consensus        93 ~~-~--~~y~~t~~s~~l~~  109 (269)
                      .+ +  -.|++|+.|+.|.+
T Consensus        69 ~~~p~~veY~LT~~G~~L~p   88 (108)
T d1z7ua1          69 NELPPRVEYTLTPEGYALYD   88 (108)
T ss_dssp             CCSSCEEEEEECHHHHHHHH
T ss_pred             CCCcceehhhhchhHHHHHH
Confidence            11 1  23999999987763

>d2cfxa1 a.4.5.32 (A:1-63) Transcriptional regulator LrpC {Bacillus subtilis [TaxId: 1423]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Lrp/AsnC-like transcriptional regulator N-terminal domain
domain: Transcriptional regulator LrpC
species: Bacillus subtilis [TaxId: 1423]

Probab=94.03  E-value=0.035  Score=34.65  Aligned_cols=45  Identities=24%  Similarity=0.463  Sum_probs=40.0

Q ss_pred             HhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCccc
Q 024350           34 VELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALH   88 (269)
Q Consensus        34 ~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~   88 (269)
                      ++..|.+.|..+   +..|..+||+.+|++      +. .+.+=++-|...|++.
T Consensus         6 ~D~~IL~~L~~n---~r~s~~~iA~~lgis------~~-tv~~Ri~~L~~~giI~   50 (63)
T d2cfxa1           6 IDLNIIEELKKD---SRLSMRELGRKIKLS------PP-SVTERVRQLESFGIIK   50 (63)
T ss_dssp             HHHHHHHHHHHC---SCCCHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEE
T ss_pred             HHHHHHHHHHHc---CCCCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCee
Confidence            456788899886   599999999999998      67 8999999999999998

>d2fswa1 a.4.5.69 (A:3-104) Hypothetical protein PG0823 {Porphyromonas gingivalis [TaxId: 837]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: HxlR-like
domain: Hypothetical protein PG0823
species: Porphyromonas gingivalis [TaxId: 837]

Probab=94.01  E-value=0.035  Score=38.29  Aligned_cols=76  Identities=16%  Similarity=0.173  Sum_probs=56.8

Q ss_pred             hHHHHHHHHHhhHHHHHHHHHHhcChhHHHHhcCCCCCCCHHHHHHhC-CCCCCCchhHHHHHHHHHHHHHhcCccccee
Q 024350           13 NFSYAMELASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQI-PLKDNNPEAAAMMLDRVLRLLVSYNALHCSF   91 (269)
Q Consensus        13 ~~~~l~~~~~~~~~~~~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~-~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~   91 (269)
                      .....++++.+-|...+|..         |..    |+....||.+.+ |++      .. .|.+=|+.|...|+|.+..
T Consensus         9 pv~~~l~ilg~kW~l~Il~~---------L~~----g~~rF~el~~~l~gIs------~~-~Ls~rLkeL~~~glv~r~~   68 (102)
T d2fswa1           9 PVRKSMQIFAGKWTLLIIFQ---------INR----RIIRYGELKRAIPGIS------EK-MLIDELKFLCGKGLIKKKQ   68 (102)
T ss_dssp             HHHHHHHHHTSSSHHHHHHH---------HTT----SCEEHHHHHHHSTTCC------HH-HHHHHHHHHHHTTSEEEEE
T ss_pred             CHHHHHHHHcCCCHHHHHHH---------Hcc----CCCCHHHHHhhCcccc------hh-HHHHHHHHHHHCCceeecc
Confidence            46667788878887766554         233    589999999997 897      56 8999999999999998542


Q ss_pred             ecC-C--CeEecChhchhhh
Q 024350           92 VDG-Q--RLYSLAPVSKYFV  108 (269)
Q Consensus        92 ~~~-~--~~y~~t~~s~~l~  108 (269)
                      ..+ +  -.|++|+.|..|.
T Consensus        69 ~~~~p~~veY~LT~~G~~L~   88 (102)
T d2fswa1          69 YPEVPPRVEYSLTPLGEKVL   88 (102)
T ss_dssp             ECSSSCEEEEEECHHHHTTH
T ss_pred             cCCCCCeehhhhhHhHHHHH
Confidence            111 1  2499999997665

>d2cg4a1 a.4.5.32 (A:4-66) Regulatory protein AsnC {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Lrp/AsnC-like transcriptional regulator N-terminal domain
domain: Regulatory protein AsnC
species: Escherichia coli [TaxId: 562]

Probab=93.97  E-value=0.031  Score=34.86  Aligned_cols=45  Identities=9%  Similarity=0.197  Sum_probs=39.9

Q ss_pred             HhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCccc
Q 024350           34 VELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALH   88 (269)
Q Consensus        34 ~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~   88 (269)
                      ++..|...|..+   +..|..+||+.+|++      +. .+.+=++.|...|++.
T Consensus         6 ~D~~IL~~L~~~---~r~s~~eiA~~l~ls------~~-~v~~Ri~rL~~~GiI~   50 (63)
T d2cg4a1           6 LDRGILEALMGN---ARTAYAELAKQFGVS------PE-TIHVRVEKMKQAGIIT   50 (63)
T ss_dssp             HHHHHHHHHHHC---TTSCHHHHHHHHTSC------HH-HHHHHHHHHHHHTSEE
T ss_pred             HHHHHHHHHHHc---CCCCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCeE
Confidence            456688899886   589999999999998      67 8999999999999998

>d2frha1 a.4.5.28 (A:102-216) Pleiotropic regulator of virulence genes, SarA {Staphylococcus aureus [TaxId: 1280]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: MarR-like transcriptional regulators
domain: Pleiotropic regulator of virulence genes, SarA
species: Staphylococcus aureus [TaxId: 1280]

Probab=93.97  E-value=0.028  Score=39.47  Aligned_cols=63  Identities=10%  Similarity=0.165  Sum_probs=46.0

Q ss_pred             hhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCC---CeEecChhchhhh
Q 024350           38 VFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQ---RLYSLAPVSKYFV  108 (269)
Q Consensus        38 lfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~---~~y~~t~~s~~l~  108 (269)
                      ++..|...+ ++++|..+||+.++++      .. .+.++++.|...|++.+.+.+.+   -.+.+|+.|+.+.
T Consensus        38 vL~~l~~~~-~~~~t~~~la~~l~~~------~~-tvs~~i~~Le~~gli~r~~~~~D~R~~~i~LT~~G~~~~  103 (115)
T d2frha1          38 VLTYISENK-EKEYYLKDIINHLNYK------QP-QVVKAVKILSQEDYFDKKRNEHDERTVLILVNAQQRKKI  103 (115)
T ss_dssp             HHHHHHHTC-CSEEEHHHHHHHSSSH------HH-HHHHHHHHHHHTTSSCCBCCSSSSCCCEEECCSHHHHHH
T ss_pred             HHHHHHcCC-CCCCCHHHHHHHHCCC------Hh-HHHHHHHHHHhhhhheeeecccCCceEEEEECHHHHHHH
Confidence            444555432 2579999999999997      56 99999999999999996432222   3377888876543

>d1wxxa2 c.66.1.51 (A:65-382) Hypothetical protein TTHA1280, middle and C-terminal domains {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: hypothetical RNA methyltransferase
domain: Hypothetical protein TTHA1280, middle and C-terminal domains
species: Thermus thermophilus [TaxId: 274]

Probab=93.91  E-value=0.0099  Score=49.81  Aligned_cols=63  Identities=11%  Similarity=0.116  Sum_probs=48.4

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC------CCceEEecccCCc---CC---CC-cEEEe
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFES---VP---KA-DTIFM  257 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~~---~P---~g-D~~~l  257 (269)
                      ...+|+|++||+|.++.+++..  ..+++.+|. +..++.++++      ++++++.+|.++.   .+   +- |++++
T Consensus       145 ~g~rVLDl~~gtG~~s~~~a~g--~~~V~~vD~s~~al~~a~~n~~~ngl~~~~~i~~d~~~~~~~~~~~~~~fD~Vi~  221 (318)
T d1wxxa2         145 RGERALDVFSYAGGFALHLALG--FREVVAVDSSAEALRRAEENARLNGLGNVRVLEANAFDLLRRLEKEGERFDLVVL  221 (318)
T ss_dssp             CEEEEEEETCTTTHHHHHHHHH--EEEEEEEESCHHHHHHHHHHHHHTTCTTEEEEESCHHHHHHHHHHTTCCEEEEEE
T ss_pred             CCCeeeccCCCCcHHHHHHHhc--CCcEEeecchHHHHHHHHHHHHHcCCCCcceeeccHHHHhhhhHhhhcCCCEEEE
Confidence            3589999999999999998864  446889997 7777776642      7899999998862   22   12 88876

>d2f2ea1 a.4.5.69 (A:5-146) Hypothetical protein PA1607 {Pseudomonas aeruginosa [TaxId: 287]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: HxlR-like
domain: Hypothetical protein PA1607
species: Pseudomonas aeruginosa [TaxId: 287]

Probab=93.82  E-value=0.057  Score=39.50  Aligned_cols=73  Identities=12%  Similarity=0.108  Sum_probs=52.8

Q ss_pred             HHHHHHHhhHHHHHHHHHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCC
Q 024350           16 YAMELASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQ   95 (269)
Q Consensus        16 ~l~~~~~~~~~~~~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~   95 (269)
                      ..++++..-|...+|+.+         ..    |+..+.||.+.+|++      .. .|.+=|+.|...|+|.+.....+
T Consensus        12 ~~l~ilg~kW~l~Il~~l---------~~----G~~rf~el~~~lgis------~~-vLs~rL~~L~~~gLv~r~~~~~p   71 (142)
T d2f2ea1          12 RPLDVIGDGWSMLIVRDA---------FE----GLTRFGEFQKSLGLA------KN-ILAARLRNLVEHGVMVAVPAESG   71 (142)
T ss_dssp             TTHHHHCSSSHHHHHHHH---------HT----TCCSHHHHHHHHCCC------HH-HHHHHHHHHHHTTSEEEEECSSS
T ss_pred             HHHHHHcCCCHHHHHHHH---------Hc----CCCCHHHHHHHhhcc------HH-HHHHHHHHHHHhcceeeecCCCC
Confidence            345566666666666553         23    689999999999997      56 89999999999999985311112


Q ss_pred             --CeEecChhchhhh
Q 024350           96 --RLYSLAPVSKYFV  108 (269)
Q Consensus        96 --~~y~~t~~s~~l~  108 (269)
                        ..|++|+.|+.|.
T Consensus        72 ~r~~Y~LT~~G~~L~   86 (142)
T d2f2ea1          72 SHQEYRLTDKGRALF   86 (142)
T ss_dssp             SCEEEEECHHHHTTH
T ss_pred             CeeEEecCcCcchHH
Confidence              3499999986554

>d1p4xa2 a.4.5.28 (A:126-250) Staphylococcal accessory regulator A homolog, SarS {Staphylococcus aureus [TaxId: 1280]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: MarR-like transcriptional regulators
domain: Staphylococcal accessory regulator A homolog, SarS
species: Staphylococcus aureus [TaxId: 1280]

Probab=93.79  E-value=0.044  Score=39.10  Aligned_cols=64  Identities=16%  Similarity=0.113  Sum_probs=46.6

Q ss_pred             ChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCC---CeEecChhchhhh
Q 024350           37 DVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQ---RLYSLAPVSKYFV  108 (269)
Q Consensus        37 glfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~---~~y~~t~~s~~l~  108 (269)
                      -++..|...+ ++++|..+||+.++++      .. .+.++++-|...|+|.+..-..+   -...+|+.|+.+.
T Consensus        37 ~vL~~l~~~~-~~~~~~~~ia~~l~~~------~~-~vs~~v~~L~~~glV~r~~~~~D~R~v~i~LT~~G~~~~  103 (125)
T d1p4xa2          37 TILAIITSQN-KNIVLLKDLIETIHHK------YP-QTVRALNNLKKQGYLIKERSTEDERKILIHMDDAQQDHA  103 (125)
T ss_dssp             HHHHHHHTTT-TCCEEHHHHHHHSSSC------HH-HHHHHHHHHHHHTSSEEEECSSSTTCEEEECCHHHHHHH
T ss_pred             HHHHHHHHcc-CCCccHHHHHHHHCCC------cc-hHHHHHHHHHhccCEeeeecCCCCCeEEEEECHHHHHHH
Confidence            3566665432 2578999999999998      56 99999999999999985422222   2377888776544

>d1j75a_ a.4.5.19 (A:) Dlm-1 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Z-DNA binding domain
domain: Dlm-1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.76  E-value=0.042  Score=32.58  Aligned_cols=54  Identities=15%  Similarity=0.340  Sum_probs=45.8

Q ss_pred             hcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEec
Q 024350           35 ELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSL  100 (269)
Q Consensus        35 ~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~  100 (269)
                      |-.|++.|.++|  +|.-..+|+++++++      -. .+.++|..|-..+-|.   ..++..|++
T Consensus         3 EQkILQVL~dag--spvk~~ql~k~cqVp------kk-~lNqVL~rlkke~kVs---l~~patW~l   56 (57)
T d1j75a_           3 EQKILQVLSDDG--GPVKIGQLVKKCQVP------KK-TLNQVLYRLKKEDRVS---SPEPATWSI   56 (57)
T ss_dssp             HHHHHHHHHHHC--SCEEHHHHHHHHCSC------HH-HHHHHHHHHHHTTSEE---EEETTEEEE
T ss_pred             HHHHHHHHHhcC--CchHHHHHHHHHCCC------HH-HHHHHHHHHHhccccc---cCCCccccC
Confidence            456888999988  799999999999996      35 8999999999999888   456788875

>d1uwva2 c.66.1.40 (A:75-432) rRNA (Uracil-5-)-methyltransferase RumA, catalytic domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: (Uracil-5-)-methyltransferase
domain: rRNA (Uracil-5-)-methyltransferase RumA, catalytic domain
species: Escherichia coli [TaxId: 562]

Probab=93.70  E-value=0.021  Score=48.19  Aligned_cols=62  Identities=11%  Similarity=0.138  Sum_probs=47.3

Q ss_pred             HHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC------CCCceEEecccCCc
Q 024350          184 VLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS------YPGIDHVGGDLFES  248 (269)
Q Consensus       184 ~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~------~~ri~~~~gD~~~~  248 (269)
                      +.+..+ ..+..+|+|+-||.|.++..|+++.  -+++.+|. ++.++.|+.      ..+++++.+|..+.
T Consensus       204 v~~~~~-~~~~~~vlDLycG~G~fsl~La~~~--~~V~gvE~~~~ai~~A~~na~~n~i~n~~~~~~~~~~~  272 (358)
T d1uwva2         204 ALEWLD-VQPEDRVLDLFCGMGNFTLPLATQA--ASVVGVEGVPALVEKGQQNARLNGLQNVTFYHENLEED  272 (358)
T ss_dssp             HHHHHT-CCTTCEEEEESCTTTTTHHHHHTTS--SEEEEEESCHHHHHHHHHHHHHTTCCSEEEEECCTTSC
T ss_pred             HHHhhc-cCCCceEEEecccccccchhccccc--cEEEeccCcHHHHHHHHHhHHhcccccceeeecchhhh
Confidence            334444 4566899999999999999998765  35788885 777777664      27899999998774

>d2fbka1 a.4.5.28 (A:8-179) Transcriptional regulator DR1159 {Deinococcus radiodurans [TaxId: 1299]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: MarR-like transcriptional regulators
domain: Transcriptional regulator DR1159
species: Deinococcus radiodurans [TaxId: 1299]

Probab=93.70  E-value=0.015  Score=44.08  Aligned_cols=66  Identities=14%  Similarity=0.180  Sum_probs=45.8

Q ss_pred             cChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCC---CeEecChhchhhh
Q 024350           36 LDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQ---RLYSLAPVSKYFV  108 (269)
Q Consensus        36 lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~---~~y~~t~~s~~l~  108 (269)
                      +.|.-.|...|+++++|..+||+.++++      .. .+.++++-|...|+|++.....+   -..++|+.|+.+.
T Consensus        65 ~~vL~~L~~~~~~~~lt~~eLa~~l~i~------~~-tvsr~l~~Le~~GlV~r~~~~~DrR~~~i~LT~~G~~l~  133 (172)
T d2fbka1          65 WDLLLTLYRSAPPEGLRPTELSALAAIS------GP-STSNRIVRLLEKGLIERREDERDRRSASIRLTPQGRALV  133 (172)
T ss_dssp             HHHHHHHHHHCCSSCBCHHHHHHHCSCC------SG-GGSSHHHHHHHHTSEECCC-------CCBEECHHHHHHH
T ss_pred             HHHHHHHHhhCCCCCcCHHHHHHHHCcC------Hh-HHHHHHHHHHhCCCeeeeccccchhhHHhhcCHHHHHHH
Confidence            3345556555433469999999999998      45 89999999999999995421112   2367777776544

>d1jsxa_ c.66.1.20 (A:) Glucose-inhibited division protein B (GidB) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: Glucose-inhibited division protein B (GidB)
domain: Glucose-inhibited division protein B (GidB)
species: Escherichia coli [TaxId: 562]

Probab=93.66  E-value=0.1  Score=40.54  Aligned_cols=66  Identities=18%  Similarity=0.145  Sum_probs=47.7

Q ss_pred             ccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh--------hHHHHhCCCCCCceEEecccCCcCCC--CcEEEeccc
Q 024350          194 VKKLVDVGGGLGATLNMIISKYPHIKGINYDL--------LYVIKNAPSYPGIDHVGGDLFESVPK--ADTIFMKVI  260 (269)
Q Consensus       194 ~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl--------p~vv~~a~~~~ri~~~~gD~~~~~P~--gD~~~l~~i  260 (269)
                      ..+++|||.|.|.=+.-++-.+|+++++++|.        ..++.... .++|+++.....+..+.  .|++..+.+
T Consensus        66 ~~~ilDiGsGaG~PGi~laI~~p~~~~~Lves~~KK~~FL~~~~~~L~-L~nv~v~~~R~E~~~~~~~fD~V~sRA~  141 (207)
T d1jsxa_          66 GERFIDVGTGPGLPGIPLSIVRPEAHFTLLDSLGKRVRFLRQVQHELK-LENIEPVQSRVEEFPSEPPFDGVISRAF  141 (207)
T ss_dssp             SSEEEEETCTTTTTHHHHHHHCTTSEEEEEESCHHHHHHHHHHHHHTT-CSSEEEEECCTTTSCCCSCEEEEECSCS
T ss_pred             CCceeeeeccCCceeeehhhhcccceEEEEecchHHHHHHHHHHHHcC-Ccceeeeccchhhhccccccceehhhhh
Confidence            46899999999998888888999999999995        22222221 36788888777663332  387766544

>d1dpua_ a.4.5.16 (A:) C-terminal domain of RPA32 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: C-terminal domain of RPA32
domain: C-terminal domain of RPA32
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.49  E-value=0.11  Score=32.99  Aligned_cols=59  Identities=8%  Similarity=0.193  Sum_probs=45.3

Q ss_pred             hcChhHHHHhcCCCCCCCHHHHHHhC-CCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecCh
Q 024350           35 ELDVFEIITKAGPGAKLSVSEIVAQI-PLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAP  102 (269)
Q Consensus        35 ~lglfd~L~~~g~~~~~s~~eLA~~~-~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~  102 (269)
                      ...||..|.....+.++++++|++++ +++      .. -+...++.|...|++-..  ..+++|+.|.
T Consensus         8 q~~V~~~i~s~~~~eGi~~~el~~~l~~~~------~~-~i~~aid~L~~eG~IYsT--iDddHfkstd   67 (69)
T d1dpua_           8 QNQVLNLIKACPRPEGLNFQDLKNQLKHMS------VS-SIKQAVDFLSNEGHIYST--VDDDHFKSTD   67 (69)
T ss_dssp             HHHHHHHHHHCCCTTTEEHHHHHHHSTTSC------HH-HHHHHHHHHHHTTSEEEC--SSTTEEEESS
T ss_pred             HHHHHHHHHhCCCccCcCHHHHHHHccCCC------HH-HHHHHHHHHHhCCceecc--cccchhcccC
Confidence            34466666654444679999999998 787      67 899999999999999642  3578898764

>d2gxba1 a.4.5.19 (A:140-198) Z-alpha domain of dsRNA-specific adenosine deaminase, ADAR1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Z-DNA binding domain
domain: Z-alpha domain of dsRNA-specific adenosine deaminase, ADAR1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.35  E-value=0.14  Score=30.87  Aligned_cols=54  Identities=15%  Similarity=0.288  Sum_probs=39.3

Q ss_pred             hHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEec
Q 024350           39 FEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSL  100 (269)
Q Consensus        39 fd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~  100 (269)
                      ...|...|++...|+.+||.+++++      -. .+.|+|..|...|-+++.. ..+-.|++
T Consensus         5 l~~l~~lg~~~~~tA~~LA~kl~vp------Kk-~iNr~LYsL~~kgkl~k~~-gtPPlWr~   58 (59)
T d2gxba1           5 LKFLEELGEGKATTAHDLSGKLGTP------KK-EINRVLYSLAKKGKLQKEA-GTPPLWKI   58 (59)
T ss_dssp             HHHHHHHCTTCCBCHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEEEEC-SSSCEEEE
T ss_pred             HHHHHhcCCccchhHHHHHHHhCCc------HH-HHHHHHHHHHHccchhhcC-CCCCCccc
Confidence            3344443434789999999999997      45 8999999999999999532 12455554

>d2fxaa1 a.4.5.28 (A:6-167) Protease production regulatory protein Hpr {Bacillus subtilis [TaxId: 1423]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: MarR-like transcriptional regulators
domain: Protease production regulatory protein Hpr
species: Bacillus subtilis [TaxId: 1423]

Probab=93.29  E-value=0.04  Score=41.26  Aligned_cols=63  Identities=14%  Similarity=-0.012  Sum_probs=47.6

Q ss_pred             cChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCC---CeEecChhchhhh
Q 024350           36 LDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQ---RLYSLAPVSKYFV  108 (269)
Q Consensus        36 lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~---~~y~~t~~s~~l~  108 (269)
                      ..++..|...   +++|..+||+.++++      .. .+.++++-|...|++++.....+   -...+|+.|+.+.
T Consensus        44 ~~vL~~l~~~---~~~t~~~la~~~~l~------~~-tvs~~i~rL~~~gli~r~~~~~D~R~~~l~lT~~G~~~~  109 (162)
T d2fxaa1          44 HHILWIAYQL---NGASISEIAKFGVMH------VS-TAFNFSKKLEERGYLRFSKRLNDKRNTYVQLTEEGTEVF  109 (162)
T ss_dssp             HHHHHHHHHH---TSEEHHHHHHHTTCC------HH-HHHHHHHHHHHHTSEEEECC------CEEEECHHHHHHH
T ss_pred             HHHHhhhccC---CCcCHHHHHHHHcCC------ch-hhHHHHHHHHHCCCceeecccccCeeeeeccCHhHHHHH
Confidence            3366677665   489999999999998      56 99999999999999995421112   3478888887554

>d1p4xa1 a.4.5.28 (A:1-125) Staphylococcal accessory regulator A homolog, SarS {Staphylococcus aureus [TaxId: 1280]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: MarR-like transcriptional regulators
domain: Staphylococcal accessory regulator A homolog, SarS
species: Staphylococcus aureus [TaxId: 1280]

Probab=92.91  E-value=0.049  Score=38.79  Aligned_cols=66  Identities=14%  Similarity=0.133  Sum_probs=47.1

Q ss_pred             hcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCC---CeEecChhchhhh
Q 024350           35 ELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQ---RLYSLAPVSKYFV  108 (269)
Q Consensus        35 ~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~---~~y~~t~~s~~l~  108 (269)
                      ++-|+..|...+ ++++|..+||+.++++      .. .+.++++.|...|+|.+..-..+   -...+|+.|+-..
T Consensus        36 q~~iL~~l~~~~-~~~~t~~eia~~~~~~------~~-~vs~~l~~L~~~g~v~r~~~~~D~R~~~i~lT~~G~~~~  104 (125)
T d1p4xa1          36 EFILLTYLFHQQ-ENTLPFKKIVSDLCYK------QS-DLVQHIKVLVKHSYISKVRSKIDERNTYISISEEQREKI  104 (125)
T ss_dssp             HHHHHHHHHSCS-CSEEEHHHHHHHSSSC------GG-GTHHHHHHHHHTTSCEEEECSSSTTSEEEECCHHHHHHH
T ss_pred             HHHHHHHHHHhc-cCCcCHHHHHHHhCCC------cc-hHHHHHHHHHHCCCceeecccCCCCeEEEEECHHHHHHH
Confidence            334556665532 2589999999999998      56 89999999999999986421122   2367888776443

>d2g72a1 c.66.1.15 (A:18-280) Phenylethanolamine N-methyltransferase, PNMTase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: Arylamine N-methyltransferase
domain: Phenylethanolamine N-methyltransferase, PNMTase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.81  E-value=0.01  Score=48.16  Aligned_cols=40  Identities=13%  Similarity=0.018  Sum_probs=29.3

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCC
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAP  233 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~  233 (269)
                      +..+++|||||+|.+....+.++.. +++..|. |..++.++
T Consensus        54 ~g~~vLDiGcG~g~~~~~~~~~~~~-~v~~~D~S~~~i~~~~   94 (263)
T d2g72a1          54 SGRTLIDIGSGPTVYQLLSACSHFE-DITMTDFLEVNRQELG   94 (263)
T ss_dssp             CCSEEEEETCTTCCGGGTTGGGGCS-EEEEECSCHHHHHHHH
T ss_pred             CCcEEEEeccCCCHHHHHHhcccCC-eEEEEeCCHHHHHHHH
Confidence            5689999999999776544444433 6899996 77777664

>d2obpa1 a.4.5.71 (A:12-92) Putative DNA-binding protein ReutB4095 {Ralstonia eutropha [TaxId: 106590]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: ReutB4095-like
domain: Putative DNA-binding protein ReutB4095
species: Ralstonia eutropha [TaxId: 106590]

Probab=92.25  E-value=0.13  Score=32.87  Aligned_cols=62  Identities=23%  Similarity=0.212  Sum_probs=47.0

Q ss_pred             hhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCccccee-ecCCCeEecChhchhh
Q 024350           38 VFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSF-VDGQRLYSLAPVSKYF  107 (269)
Q Consensus        38 lfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~-~~~~~~y~~t~~s~~l  107 (269)
                      +.++-.+. .+++-|+..|+++.+++      -+ .|+|.|-.|.+.|+++... +++.|.=++|+.++.+
T Consensus        13 L~eA~~e~-~g~~WSLaklsKra~~P------MS-~LRR~LTqL~~aGl~~t~~~edG~G~A~Lt~~G~~l   75 (81)
T d2obpa1          13 LREAGIEN-GATPWSLPKIAKRAQLP------MS-VLRRVLTQLQAAGLADVSVEADGRGHASLTQEGAAL   75 (81)
T ss_dssp             HHHHTSST-TCCCCBHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEEEEECTTSCEEEEECHHHHHH
T ss_pred             HHHHhccC-CCCCccHHHHHhhcCCc------HH-HHHHHHHHHhhcCceeeeeccCCcceeeccHHHHHH
Confidence            34444332 23799999999999997      78 9999999999999997432 2355778899888754

>d1q1ha_ a.4.5.41 (A:) Transcription factor E/IIe-alpha, N-terminal domain {Archaeon Sulfolobus solfataricus [TaxId: 2287]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Transcription factor E/IIe-alpha, N-terminal domain
domain: Transcription factor E/IIe-alpha, N-terminal domain
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=92.14  E-value=0.14  Score=33.96  Aligned_cols=45  Identities=24%  Similarity=0.381  Sum_probs=38.4

Q ss_pred             ChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccce
Q 024350           37 DVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCS   90 (269)
Q Consensus        37 glfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~   90 (269)
                      .|++.|.+.+  +.+|=++||+.+|+.      .. .++++|..|...|+++..
T Consensus        22 ~v~~~L~~~~--~evtDe~iA~~tgi~------in-~VRk~Ly~L~~~~L~~y~   66 (88)
T d1q1ha_          22 DVLRILLDKG--TEMTDEEIANQLNIK------VN-DVRKKLNLLEEQGFVSYR   66 (88)
T ss_dssp             HHHHHHHHHC--SCBCHHHHHHTTTSC------HH-HHHHHHHHHHHHTSCEEE
T ss_pred             HHHHHHHhcc--CcCCHHHHHHHhCCc------HH-HHHHHHHHHHhCCceEEE
Confidence            4788876543  579999999999997      67 999999999999999864

>d1jhfa1 a.4.5.2 (A:2-72) LexA repressor, N-terminal DNA-binding domain {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: LexA repressor, N-terminal DNA-binding domain
domain: LexA repressor, N-terminal DNA-binding domain
species: Escherichia coli [TaxId: 562]

Probab=91.51  E-value=0.17  Score=32.07  Aligned_cols=40  Identities=15%  Similarity=0.298  Sum_probs=33.4

Q ss_pred             HHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccc
Q 024350           42 ITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHC   89 (269)
Q Consensus        42 L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~   89 (269)
                      +.+.|  -|-|+.|||+.+|+.   .  .. .+.+.|..|...|++.+
T Consensus        18 ~~~~G--~~Ps~rei~~~~g~~---S--~s-tv~~~l~~Le~kG~I~r   57 (71)
T d1jhfa1          18 ISQTG--MPPTRAEIAQRLGFR---S--PN-AAEEHLKALARKGVIEI   57 (71)
T ss_dssp             HHHHS--SCCCHHHHHHHTTCS---S--HH-HHHHHHHHHHHTTSEEE
T ss_pred             HHHhC--CCCCHHHHHHHcCCC---C--HH-HHHHHHHHHHHCcCeec
Confidence            34455  689999999999993   1  56 89999999999999994

>d2b78a2 c.66.1.51 (A:69-385) Hypothetical protein SMu776, middle and C-terminal domains {Streptococcus mutans [TaxId: 1309]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: hypothetical RNA methyltransferase
domain: Hypothetical protein SMu776, middle and C-terminal domains
species: Streptococcus mutans [TaxId: 1309]

Probab=91.49  E-value=0.045  Score=45.58  Aligned_cols=66  Identities=14%  Similarity=0.011  Sum_probs=47.9

Q ss_pred             CCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC--------CCCceEEecccCCcCC----C--C-cE
Q 024350          191 FEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS--------YPGIDHVGGDLFESVP----K--A-DT  254 (269)
Q Consensus       191 ~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~--------~~ri~~~~gD~~~~~P----~--g-D~  254 (269)
                      +....+|||+.||+|.++...+.. ..-+++.+|+ +..++.+++        ..+++++.+|.|+.++    +  - |+
T Consensus       142 ~~~g~~VLdlf~~~G~~sl~aa~~-ga~~V~~vD~s~~a~~~a~~N~~~n~l~~~~~~~i~~d~~~~l~~~~~~~~~fD~  220 (317)
T d2b78a2         142 SAAGKTVLNLFSYTAAFSVAAAMG-GAMATTSVDLAKRSRALSLAHFEANHLDMANHQLVVMDVFDYFKYARRHHLTYDI  220 (317)
T ss_dssp             TTBTCEEEEETCTTTHHHHHHHHT-TBSEEEEEESCTTHHHHHHHHHHHTTCCCTTEEEEESCHHHHHHHHHHTTCCEEE
T ss_pred             hhCCCceeecCCCCcHHHHHHHhC-CCceEEEecCCHHHHHHHHHHHHHhcccCcceEEEEccHHHHHHHHHhhcCCCCE
Confidence            345689999999999999887764 3345788897 666665543        1689999999987321    2  2 88


Q ss_pred             EEe
Q 024350          255 IFM  257 (269)
Q Consensus       255 ~~l  257 (269)
                      |++
T Consensus       221 Ii~  223 (317)
T d2b78a2         221 III  223 (317)
T ss_dssp             EEE
T ss_pred             EEE
Confidence            876

>d1xmka1 a.4.5.19 (A:294-366) Z-alpha domain of dsRNA-specific adenosine deaminase, ADAR1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Z-DNA binding domain
domain: Z-alpha domain of dsRNA-specific adenosine deaminase, ADAR1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.39  E-value=0.12  Score=33.02  Aligned_cols=62  Identities=11%  Similarity=0.125  Sum_probs=48.9

Q ss_pred             HhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhch
Q 024350           34 VELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSK  105 (269)
Q Consensus        34 ~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s~  105 (269)
                      .+..|.+.|...   ++.++-+||+.+|++     +.. -+.++|..|...|-|.+.. ..+..|.++...+
T Consensus         6 ~eekI~~~L~~~---g~~~Al~iak~lGl~-----kak-eVN~~LY~L~k~g~v~k~~-~tPP~W~L~~~~~   67 (73)
T d1xmka1           6 IKEKICDYLFNV---SDSSALNLAKNIGLT-----KAR-DINAVLIDMERQGDVYRQG-TTPPIWHLTDKKR   67 (73)
T ss_dssp             HHHHHHHHHHHT---CCEEHHHHHHHHCGG-----GHH-HHHHHHHHHHHTTSEEEEC-SSSCEEEECHHHH
T ss_pred             HHHHHHHHHHHc---CCchHHHHHHHhCCC-----cHH-HHhHHHHHHHHCCCeecCC-CCCCceeeecchh
Confidence            456788999887   589999999999996     223 5899999999999999532 2366899987653

>d2p41a1 c.66.1.25 (A:8-264) An RNA cap (nucleoside-2'-O-)-methyltransferase domain of RNA polymerase NS5 {Dengue virus 2 [TaxId: 11060]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: mRNA cap methylase
domain: An RNA cap (nucleoside-2'-O-)-methyltransferase domain of RNA polymerase NS5
species: Dengue virus 2 [TaxId: 11060]

Probab=91.33  E-value=0.17  Score=40.36  Aligned_cols=42  Identities=17%  Similarity=-0.018  Sum_probs=30.9

Q ss_pred             HHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh
Q 024350          183 KVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL  225 (269)
Q Consensus       183 ~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl  225 (269)
                      .+.+.+- +....+|||+|||.|.++.-+++..+...+..+++
T Consensus        57 ~~~~~~~-~~~~~~vvDlG~~pGgws~~~a~~~~v~~V~g~~i   98 (257)
T d2p41a1          57 WFVERNL-VTPEGKVVDLGCGRGGWSYYCGGLKNVREVKGLTK   98 (257)
T ss_dssp             HHHHTTS-SCCCEEEEEETCTTSHHHHHHHTSTTEEEEEEECC
T ss_pred             HHHHhcC-ccCCCeEEEecCCCChHHHHHHhhcCCCceeEEEe
Confidence            3444454 66667899999999999999998876666555544

>d3bwga1 a.4.5.6 (A:5-82) Transcriptional regulator YydK {Bacillus subtilis [TaxId: 1423]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: GntR-like transcriptional regulators
domain: Transcriptional regulator YydK
species: Bacillus subtilis [TaxId: 1423]

Probab=91.00  E-value=0.21  Score=32.16  Aligned_cols=43  Identities=21%  Similarity=0.352  Sum_probs=36.1

Q ss_pred             CCC-CHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEec
Q 024350           49 AKL-SVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSL  100 (269)
Q Consensus        49 ~~~-s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~  100 (269)
                      ..+ |..+||+.++++      .. .+++-|+.|...|++...  .+.|.|-.
T Consensus        20 ~~LPse~~La~~~~vS------r~-tvr~Al~~L~~~Gli~~~--~g~G~~V~   63 (78)
T d3bwga1          20 DKLPVLETLMAQFEVS------KS-TITKSLELLEQKGAIFQV--RGSGIFVR   63 (78)
T ss_dssp             CBCCCHHHHHHHTTCC------HH-HHHHHHHHHHHTTSEEEE--TTTEEEEC
T ss_pred             CCCcCHHHHHHHHCCC------HH-HHHHHHHHHHHCCcEEEE--cCcEEEEc
Confidence            567 899999999998      66 999999999999999963  45676654

>d2hs5a1 a.4.5.6 (A:25-93) Putative transcriptional regulator RHA1_ro03477 {Rhodococcus sp. RHA1 [TaxId: 101510]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: GntR-like transcriptional regulators
domain: Putative transcriptional regulator RHA1 ro03477
species: Rhodococcus sp. RHA1 [TaxId: 101510]

Probab=90.82  E-value=0.15  Score=32.09  Aligned_cols=43  Identities=14%  Similarity=0.262  Sum_probs=35.8

Q ss_pred             CCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEec
Q 024350           49 AKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSL  100 (269)
Q Consensus        49 ~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~  100 (269)
                      ..++..+||+.+|++      .. .+++-|+.|...|+++..  .+.|.|-.
T Consensus        24 ~~l~~~~La~~~~vS------r~-tvr~Al~~L~~~Gli~~~--~~~G~~V~   66 (69)
T d2hs5a1          24 ARLSEPDICAALDVS------RN-TVREAFQILIEDRLVAHE--LNRGVFVR   66 (69)
T ss_dssp             CEECHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEEEE--TTTEEEEC
T ss_pred             CccCHHHHHHHHCCC------HH-HHHHHHHHHHHCCcEEEE--cCCEEEec
Confidence            567899999999998      66 999999999999999963  34566644

>d2ev0a1 a.4.5.24 (A:2-62) Manganese transport regulator MntR {Bacillus subtilis [TaxId: 1423]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Iron-dependent repressor protein
domain: Manganese transport regulator MntR
species: Bacillus subtilis [TaxId: 1423]

Probab=90.55  E-value=0.2  Score=30.80  Aligned_cols=34  Identities=15%  Similarity=0.202  Sum_probs=31.4

Q ss_pred             CCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccc
Q 024350           49 AKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHC   89 (269)
Q Consensus        49 ~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~   89 (269)
                      ++.+..+||+.+|++      +. -+...++-|...|+|+.
T Consensus        20 ~~v~~~~iA~~L~vs------~~-SVs~mikrL~~~GlV~~   53 (61)
T d2ev0a1          20 GYARVSDIAEALAVH------PS-SVTKMVQKLDKDEYLIY   53 (61)
T ss_dssp             SSCCHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEEC
T ss_pred             CCccHHHHHHHhCCC------ch-hHHHHHHHHHHCCCEEE
Confidence            589999999999998      56 89999999999999995

>d1xdza_ c.66.1.20 (A:) Glucose-inhibited division protein B (GidB) {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: Glucose-inhibited division protein B (GidB)
domain: Glucose-inhibited division protein B (GidB)
species: Bacillus subtilis [TaxId: 1423]

Probab=90.52  E-value=0.076  Score=42.32  Aligned_cols=35  Identities=31%  Similarity=0.457  Sum_probs=31.0

Q ss_pred             CCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh
Q 024350          191 FEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL  225 (269)
Q Consensus       191 ~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl  225 (269)
                      ++...+++|||.|.|.=++-++=.+|+++++++|.
T Consensus        68 ~~~~~~ilDiGSGaGfPGi~laI~~p~~~v~Lves  102 (239)
T d1xdza_          68 FNQVNTICDVGAGAGFPSLPIKICFPHLHVTIVDS  102 (239)
T ss_dssp             GGGCCEEEEECSSSCTTHHHHHHHCTTCEEEEEES
T ss_pred             ccCCCeEEeecCCCchHHHHHHHhCCCccceeecc
Confidence            44567999999999998888888899999999995

>d2p8ta1 a.4.5.72 (A:14-82) Hypothetical protein PH0730 {Pyrococcus horikoshii [TaxId: 53953]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: PH0730 N-terminal domain-like
domain: Hypothetical protein PH0730
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=90.43  E-value=0.22  Score=31.37  Aligned_cols=49  Identities=16%  Similarity=0.174  Sum_probs=40.7

Q ss_pred             CCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhchhhh
Q 024350           49 AKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSKYFV  108 (269)
Q Consensus        49 ~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s~~l~  108 (269)
                      .|+.-..||+.+++.      ++ .++..++.|...|+++.   ...| -.+|+.|+.++
T Consensus        16 qPiGRr~La~~L~l~------Er-~vRte~~~Lk~~gLI~~---~~~G-m~lTe~G~~~l   64 (69)
T d2p8ta1          16 EPLGRKQISERLELG------EG-SVRTLLRKLSHLDIIRS---KQRG-HFLTLKGKEIR   64 (69)
T ss_dssp             SCBCHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEEE---C--C-EEECHHHHHHH
T ss_pred             CCccHHHHHHHcCCc------HH-HHHHHHHHHHHCCCeee---eCCC-CEECHhHHHHH
Confidence            599999999999998      88 99999999999999994   3345 45888887654

>d1i4wa_ c.66.1.24 (A:) Transcription factor sc-mtTFB {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: rRNA adenine dimethylase-like
domain: Transcription factor sc-mtTFB
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=90.32  E-value=0.32  Score=40.18  Aligned_cols=55  Identities=15%  Similarity=0.120  Sum_probs=40.0

Q ss_pred             CccEEEEeCCCchHHHHHHHHHCCCCeEEEeehh-HHHH---hCCCCCCceEEecccCC
Q 024350          193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDLL-YVIK---NAPSYPGIDHVGGDLFE  247 (269)
Q Consensus       193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp-~vv~---~a~~~~ri~~~~gD~~~  247 (269)
                      +..+||+||.|.|.+..+|+++.---+.+++|.. .-++   .....++++++.+|++.
T Consensus        43 ~~~~VlEIGPG~G~LT~~Ll~~~~~~~v~~iE~D~~~~~~L~~~~~~~~~~ii~~D~l~  101 (322)
T d1i4wa_          43 EELKVLDLYPGVGIQSAIFYNKYCPRQYSLLEKRSSLYKFLNAKFEGSPLQILKRDPYD  101 (322)
T ss_dssp             TTCEEEEESCTTCHHHHHHHHHHCCSEEEEECCCHHHHHHHHHHTTTSSCEEECSCTTC
T ss_pred             CCCeEEEECCCCCHHHHHHHhcCCCCEEEEEECCHHHHHHHHHhccCCCcEEEeCchhh
Confidence            4568999999999999999987422367788752 2222   22235889999999984

>d2isya1 a.4.5.24 (A:2-64) Iron-dependent regulator IdeR {Mycobacterium tuberculosis [TaxId: 1773]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Iron-dependent repressor protein
domain: Iron-dependent regulator IdeR
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=89.46  E-value=0.49  Score=29.13  Aligned_cols=34  Identities=6%  Similarity=0.067  Sum_probs=31.5

Q ss_pred             CCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccc
Q 024350           49 AKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHC   89 (269)
Q Consensus        49 ~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~   89 (269)
                      ++.+..+||+.+|++      +. -+.+.++-|...|+|..
T Consensus        22 ~~v~~~~iA~~L~vs------~~-SVt~mvkrL~~~Glv~~   55 (63)
T d2isya1          22 VTPLRARIAERLDQS------GP-TVSQTVSRMERDGLLRV   55 (63)
T ss_dssp             CCCCHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEEE
T ss_pred             CCCcHHHHHHHhCCC------ch-hHHHHHHHHHHCCCEEE
Confidence            689999999999998      66 89999999999999995

>d2ifta1 c.66.1.46 (A:11-193) Putative methylase HI0767 {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: YhhF-like
domain: Putative methylase HI0767
species: Haemophilus influenzae [TaxId: 727]

Probab=89.41  E-value=0.14  Score=38.81  Aligned_cols=62  Identities=16%  Similarity=0.175  Sum_probs=42.6

Q ss_pred             cEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC--------CCCceEEecccCC--cCC--C--CcEEEe
Q 024350          195 KKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS--------YPGIDHVGGDLFE--SVP--K--ADTIFM  257 (269)
Q Consensus       195 ~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~--------~~ri~~~~gD~~~--~~P--~--gD~~~l  257 (269)
                      .+|||+-+|+|.++.+.+.+-.. +++.+|. +.++...++        ...++++..|.++  .++  .  -|++|+
T Consensus        45 ~~vLDlFaGsG~~glEalSRGA~-~v~fVE~~~~a~~~ik~Ni~~l~~~~~~~~~~~~d~~~~l~~~~~~~~fDlIFl  121 (183)
T d2ifta1          45 SECLDGFAGSGSLGFEALSRQAK-KVTFLELDKTVANQLKKNLQTLKCSSEQAEVINQSSLDFLKQPQNQPHFDVVFL  121 (183)
T ss_dssp             CEEEETTCTTCHHHHHHHHTTCS-EEEEECSCHHHHHHHHHHHHHTTCCTTTEEEECSCHHHHTTSCCSSCCEEEEEE
T ss_pred             ceEeecccCccceeeeeeeecce-eeEEeecccchhhhHhhHHhhhcccccccccccccccccccccccCCcccEEEe
Confidence            58999999999999999988655 6788886 455443332        2356666666544  112  2  288876

>d1hw1a1 a.4.5.6 (A:5-78) Fatty acid responsive transcription factor FadR, N-terminal domain {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: GntR-like transcriptional regulators
domain: Fatty acid responsive transcription factor FadR, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=89.23  E-value=0.22  Score=31.78  Aligned_cols=42  Identities=21%  Similarity=0.190  Sum_probs=34.9

Q ss_pred             CCC-CHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEe
Q 024350           49 AKL-SVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYS   99 (269)
Q Consensus        49 ~~~-s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~   99 (269)
                      ..+ |..+||+.++++      .. .+++-++.|+..|+|...  .+.|.|-
T Consensus        25 ~~LPs~~eLa~~~~vS------r~-tvr~Al~~L~~~G~i~~~--~g~G~~V   67 (74)
T d1hw1a1          25 TILPAERELSELIGVT------RT-TLREVLQRLARDGWLTIQ--HGKPTKV   67 (74)
T ss_dssp             SBCCCHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEEEE--TTEEEEE
T ss_pred             CCCccHHHHHHHHCCC------HH-HHHHHHHHHHHCCcEEEE--eCceEEE
Confidence            567 899999999998      66 999999999999999963  3456554

>d1cf7a_ a.4.5.17 (A:) Cell cycle transcription factor E2F-4 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Cell cycle transcription factor e2f-dp
domain: Cell cycle transcription factor E2F-4
species: Human (Homo sapiens) [TaxId: 9606]

Probab=87.99  E-value=0.25  Score=30.95  Aligned_cols=50  Identities=6%  Similarity=0.133  Sum_probs=37.8

Q ss_pred             HHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEe
Q 024350           40 EIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYS   99 (269)
Q Consensus        40 d~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~   99 (269)
                      ..+...+ ++.+++.+.|+.+++.   +  .+ ++..+...|.++|++++   .....|+
T Consensus        16 ~l~~~~~-~~~~~L~~aa~~L~v~---~--kR-RiYDI~NVLe~igli~K---~~Kn~~~   65 (67)
T d1cf7a_          16 SLLQEAK-DGVLDLKLAADTLAVR---Q--KR-RIYDITNVLEGIGLIEK---KSKNSIQ   65 (67)
T ss_dssp             HHHHHSS-TTEEEHHHHHHHTTTC---C--TH-HHHHHHHHHHHHTSEEE---EETTEEE
T ss_pred             HHHhhCC-CCeeeHHHHHHHhcCc---c--hh-hHHHHHHHHhhhhhhhc---ccCCccc
Confidence            3344432 3688999999999993   1  47 99999999999999994   3456664

>d1zyba1 a.4.5.4 (A:148-220) Probable transcription regulator BT4300, C-terminal domain {Bacteroides thetaiotaomicron [TaxId: 818]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: CAP C-terminal domain-like
domain: Probable transcription regulator BT4300, C-terminal domain
species: Bacteroides thetaiotaomicron [TaxId: 818]

Probab=87.72  E-value=0.34  Score=30.75  Aligned_cols=43  Identities=7%  Similarity=0.108  Sum_probs=35.6

Q ss_pred             CCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChh
Q 024350           50 KLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPV  103 (269)
Q Consensus        50 ~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~  103 (269)
                      ++|-+|||+.+|++      .. .+.|.|..|...|++..    ..+.+.....
T Consensus        27 ~lt~~elA~~lg~s------r~-tvsr~l~~l~~~g~I~~----~~~~i~I~d~   69 (73)
T d1zyba1          27 KVKMDDLARCLDDT------RL-NISKTLNELQDNGLIEL----HRKEILIPDA   69 (73)
T ss_dssp             ECCHHHHHHHHTSC------HH-HHHHHHHHHHHTTSCEE----ETTEEEESCG
T ss_pred             ecCHHHHHHHHCCC------HH-HHHHHHHHHHHCCCEEe----cCCEEEEccH
Confidence            57999999999998      66 99999999999999983    2466665443

>d1ft9a1 a.4.5.4 (A:134-213) CO-sensing protein CooA, C-terminal domain {Rhodospirillum rubrum [TaxId: 1085]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: CAP C-terminal domain-like
domain: CO-sensing protein CooA, C-terminal domain
species: Rhodospirillum rubrum [TaxId: 1085]

Probab=86.88  E-value=0.54  Score=30.12  Aligned_cols=43  Identities=19%  Similarity=0.270  Sum_probs=35.6

Q ss_pred             CCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecCh
Q 024350           50 KLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAP  102 (269)
Q Consensus        50 ~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~  102 (269)
                      |+|-+|||..+|++      .+ .+.|.|+.|...|+++   ..+.+.+....
T Consensus        30 ~~t~~eiA~~lG~s------re-tvsr~l~~l~~~g~I~---~~~~~~i~I~d   72 (80)
T d1ft9a1          30 DFTVEEIANLIGSS------RQ-TTSTALNSLIKEGYIS---RQGRGHYTIPN   72 (80)
T ss_dssp             CCCHHHHHHHHCSC------HH-HHHHHHHHHHHTTSSE---ECSTTCEECSS
T ss_pred             CCCHHHHHHHHCCC------HH-HHHHHHHHHHHCCCEE---ECCCCeEEECC
Confidence            78999999999998      66 9999999999999998   33346565543

>d1bl0a1 a.4.1.8 (A:9-62) MarA {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: AraC type transcriptional activator
domain: MarA
species: Escherichia coli [TaxId: 562]

Probab=84.55  E-value=0.68  Score=27.12  Aligned_cols=42  Identities=12%  Similarity=0.116  Sum_probs=32.8

Q ss_pred             hhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcc
Q 024350           38 VFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNAL   87 (269)
Q Consensus        38 lfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l   87 (269)
                      +.+.|.++- ..++|+++||+.+|++      ++ .+.|+.+....+.+.
T Consensus         8 v~~yI~~~~-~~~~tl~~lA~~~~~s------~~-~l~r~Fk~~~g~tp~   49 (54)
T d1bl0a1           8 ILDWIEDNL-ESPLSLEKVSERSGYS------KW-HLQRMFKKETGHSLG   49 (54)
T ss_dssp             HHHHHHTTT-TSCCCCHHHHHHSSSC------HH-HHHHHHHHHHSSCHH
T ss_pred             HHHHHHhcc-CCCCCHHHHHHHHCcC------HH-HHHHHHHHHHCcCHH
Confidence            455666543 2689999999999998      77 999999988776554

>d2gaua1 a.4.5.4 (A:152-232) Transcriptional regulator PG0396, C-terminal domain {Porphyromonas gingivalis [TaxId: 837]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: CAP C-terminal domain-like
domain: Transcriptional regulator PG0396, C-terminal domain
species: Porphyromonas gingivalis [TaxId: 837]

Probab=84.51  E-value=0.95  Score=28.80  Aligned_cols=41  Identities=22%  Similarity=0.173  Sum_probs=34.2

Q ss_pred             CCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecC
Q 024350           50 KLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLA  101 (269)
Q Consensus        50 ~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t  101 (269)
                      ++|-+|||..+|++      .. .+.|+|..|...|++..   . .+.+...
T Consensus        29 ~lt~~eLA~~~G~s------re-tvsr~L~~l~~~glI~~---~-~~~i~I~   69 (81)
T d2gaua1          29 YLSREELATLSNMT------VS-NAIRTLSTFVSERMLAL---D-GKRIKII   69 (81)
T ss_dssp             CCCHHHHHHHTTSC------HH-HHHHHHHHHHHTTSEEE---E-TTEEEES
T ss_pred             cCCHHHHHHHHCCC------HH-HHHHHHHHHHHCCCEEe---c-CCEEEEc
Confidence            68999999999998      66 99999999999999993   3 3555543

>d1i5za1 a.4.5.4 (A:138-206) Catabolite gene activator protein (CAP), C-terminal domain {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: CAP C-terminal domain-like
domain: Catabolite gene activator protein (CAP), C-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=84.29  E-value=0.43  Score=29.69  Aligned_cols=33  Identities=21%  Similarity=0.331  Sum_probs=30.5

Q ss_pred             CCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccc
Q 024350           50 KLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHC   89 (269)
Q Consensus        50 ~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~   89 (269)
                      ++|-+|||..+|++      .. .+.|+|+-|...|+++.
T Consensus        29 ~lt~~~lA~~~G~s------Re-tvsr~L~~l~~~glI~~   61 (69)
T d1i5za1          29 KITRQEIGQIVGCS------RE-TVGRILKMLEDQNLISA   61 (69)
T ss_dssp             ECCHHHHHHHHTCC------HH-HHHHHHHHHHHTTSEEE
T ss_pred             CCCHHHHHHHHCCC------HH-HHHHHHHHHHHCCCEEE
Confidence            58999999999998      56 99999999999999983

>d1xn7a_ a.4.5.62 (A:) Hypothetical protein YhgG {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Hypothetical protein YhgG
domain: Hypothetical protein YhgG
species: Escherichia coli [TaxId: 562]

Probab=83.71  E-value=1.4  Score=27.64  Aligned_cols=43  Identities=14%  Similarity=0.230  Sum_probs=37.5

Q ss_pred             hhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccce
Q 024350           38 VFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCS   90 (269)
Q Consensus        38 lfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~   90 (269)
                      |=|+|+-.   |...+.+|++.+..+      .. .+...|+-|+++|-+++.
T Consensus         7 vRD~iAL~---G~~da~qlS~qL~~P------~P-lv~AMLerL~aMGK~eri   49 (78)
T d1xn7a_           7 VRDLLALR---GRMEAAQISQTLNTP------QP-MINAMLQQLESMGKAVRI   49 (78)
T ss_dssp             HHHHHHHS---CSBCHHHHHHHTTCC------HH-HHHHHHHHHHHHTSEEEE
T ss_pred             HHHHHHHc---CcccHHHHHHHHcCC------hH-HHHHHHHHHHHhhcceec
Confidence            44777776   589999999999997      67 999999999999999954

>d2g9wa1 a.4.5.39 (A:3-124) Hypothetical protein Rv1846c {Mycobacterium tuberculosis [TaxId: 1773]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Penicillinase repressor
domain: Hypothetical protein Rv1846c
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=83.02  E-value=0.78  Score=32.00  Aligned_cols=52  Identities=15%  Similarity=0.119  Sum_probs=39.9

Q ss_pred             HhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccce
Q 024350           34 VELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCS   90 (269)
Q Consensus        34 ~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~   90 (269)
                      .|+-|.++|=+.|  +|+|+.||.+.+.-+  .+.... .+..+|+-|...|+|+..
T Consensus         8 ~E~~IM~~lW~~g--~~~t~~eI~~~l~~~--~~~~~s-TV~T~L~rL~~Kg~l~~~   59 (122)
T d2g9wa1           8 LERAVMDHLWSRT--EPQTVRQVHEALSAR--RDLAYT-TVMAVLQRLAKKNLVLQI   59 (122)
T ss_dssp             HHHHHHHHHHTCS--SCEEHHHHHHHHTTT--CCCCHH-HHHHHHHHHHHTTSEEEE
T ss_pred             HHHHHHHHHHcCC--CCccHHHHHHHHhcc--CCCcHH-HHHHHHHHHHHCCCEEEe
Confidence            4566777776654  589999999998764  222256 899999999999999953

>d1okra_ a.4.5.39 (A:) Methicillin resistance regulatory protein MecI {Staphylococcus aureus [TaxId: 1280]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Penicillinase repressor
domain: Methicillin resistance regulatory protein MecI
species: Staphylococcus aureus [TaxId: 1280]

Probab=82.52  E-value=0.5  Score=32.79  Aligned_cols=47  Identities=17%  Similarity=0.215  Sum_probs=38.4

Q ss_pred             HhcChhHHHHhcCCCCCCCHHHHHHhC----CCCCCCchhHHHHHHHHHHHHHhcCcccce
Q 024350           34 VELDVFEIITKAGPGAKLSVSEIVAQI----PLKDNNPEAAAMMLDRVLRLLVSYNALHCS   90 (269)
Q Consensus        34 ~~lglfd~L~~~g~~~~~s~~eLA~~~----~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~   90 (269)
                      .++.|..+|=..   +++|+.||.+.+    +++      .. .+..+|+-|...|+|++.
T Consensus         8 ~E~~VM~~lW~~---~~~t~~ei~~~l~~~~~~~------~s-Tv~t~L~rL~~Kg~l~r~   58 (120)
T d1okra_           8 AEWEVMNIIWMK---KYASANNIIEEIQMQKDWS------PK-TIRTLITRLYKKGFIDRK   58 (120)
T ss_dssp             HHHHHHHHHHHH---SSEEHHHHHHHHHHHCCCC------HH-HHHHHHHHHHHHTSEEEE
T ss_pred             HHHHHHHHHHcC---CCCCHHHHHHHHhcccCcc------HH-hHHHHHHHHHHCCCeEEE
Confidence            466777788776   589999988887    565      56 899999999999999854

>d1sfua_ a.4.5.19 (A:) 34L {Yaba-like disease virus, YLDV [TaxId: 132475]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Z-DNA binding domain
domain: 34L
species: Yaba-like disease virus, YLDV [TaxId: 132475]

Probab=82.35  E-value=2  Score=26.71  Aligned_cols=36  Identities=6%  Similarity=0.110  Sum_probs=31.8

Q ss_pred             CCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccce
Q 024350           48 GAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCS   90 (269)
Q Consensus        48 ~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~   90 (269)
                      ++..|+.+||+.+|++      -. -+-|.|..|...|.|.+.
T Consensus        22 ~~~~tA~~LAk~Lg~~------Kk-~VNr~LY~L~~~G~v~~~   57 (70)
T d1sfua_          22 NDYTTAISLSNRLKIN------KK-KINQQLYKLQKEDTVKMV   57 (70)
T ss_dssp             TCEECHHHHHHHTTCC------HH-HHHHHHHHHHHTTSEEEE
T ss_pred             CCCchHHHHHHHhCCC------HH-HHHHHHHHHHHCCCeecC
Confidence            3689999999999997      45 889999999999999953

>d1zkda1 c.66.1.52 (A:2-366) Hypothetical protein RPA4359 {Rhodopseudomonas palustris [TaxId: 1076]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: RPA4359-like
domain: Hypothetical protein RPA4359
species: Rhodopseudomonas palustris [TaxId: 1076]

Probab=82.26  E-value=1  Score=37.51  Aligned_cols=62  Identities=11%  Similarity=0.186  Sum_probs=39.3

Q ss_pred             cchHHHHHHHHHhhchhhHHHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCC-------CCeEEEeehhHHH
Q 024350          163 SSFNDVFSNGMLSHTSIVMEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYP-------HIKGINYDLLYVI  229 (269)
Q Consensus       163 p~~~~~f~~~m~~~~~~~~~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P-------~l~~vv~Dlp~vv  229 (269)
                      |+....|...++.+.    ..+..... -++...||++|+|+|.++..+++...       .++.++++..+..
T Consensus        54 p~is~~Fg~~ia~~~----~~~~~~~~-~~~~~~ivE~GaG~G~La~dil~~l~~~~~~~~~~~~~~vE~s~~L  122 (365)
T d1zkda1          54 PEISQMFGELLGLWS----ASVWKAAD-EPQTLRLIEIGPGRGTMMADALRALRVLPILYQSLSVHLVEINPVL  122 (365)
T ss_dssp             HHHCHHHHHHHHHHH----HHHHHHTT-CCSSEEEEEECCTTSHHHHHHHHHHTTSHHHHTTEEEEEECCCHHH
T ss_pred             CchHHHHHHHHHHHH----HHHHHHhC-CCccceEEecCCcccHHHHhhhhhhcccccccccceEEEeccchhH
Confidence            566666776665422    12333333 34567899999999999988876532       3456777764444

>d1stza1 a.4.5.51 (A:14-100) Heat-inducible transcription repressor HrcA, N-terminal domain {Thermotoga maritima [TaxId: 2336]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Heat-inducible transcription repressor HrcA, N-terminal domain
domain: Heat-inducible transcription repressor HrcA, N-terminal domain
species: Thermotoga maritima [TaxId: 2336]

Probab=81.28  E-value=1.9  Score=28.08  Aligned_cols=34  Identities=9%  Similarity=0.090  Sum_probs=30.2

Q ss_pred             CCCCHHHHHHhCCC--CCCCchhHHHHHHHHHHHHHhcCcccc
Q 024350           49 AKLSVSEIVAQIPL--KDNNPEAAAMMLDRVLRLLVSYNALHC   89 (269)
Q Consensus        49 ~~~s~~eLA~~~~~--~~~~~~~~~~~l~rlL~~L~~~g~l~~   89 (269)
                      .|.+..+|++..++  +      +. .++..|..|...|+|.+
T Consensus        22 ~Pv~s~~i~~~~~l~~S------~a-TIRn~m~~LE~~G~l~~   57 (87)
T d1stza1          22 KPVSSQRVLEVSNIEFS------SA-TIRNDMKKLEYLGYIYQ   57 (87)
T ss_dssp             SCBCHHHHHHHSCCCSC------HH-HHHHHHHHHHHTTSEEC
T ss_pred             CccCHHHHHHHhCCCCC------HH-HHHHHHHHHHHCCcccC
Confidence            79999999999776  4      56 89999999999999993

>d2okca1 c.66.1.45 (A:9-433) Type I restriction enzyme StySJI M protein {Bacteroides thetaiotaomicron [TaxId: 818]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: N-6 DNA Methylase-like
domain: Type I restriction enzyme StySJI M protein
species: Bacteroides thetaiotaomicron [TaxId: 818]

Probab=80.11  E-value=0.85  Score=38.85  Aligned_cols=73  Identities=18%  Similarity=0.090  Sum_probs=48.0

Q ss_pred             HHHhccCCCCccEEEEeCCCchHHHHHHHHHCCC-------------CeEEEeeh-hHHHHhCCC--------CCCceEE
Q 024350          184 VLESYKGFEHVKKLVDVGGGLGATLNMIISKYPH-------------IKGINYDL-LYVIKNAPS--------YPGIDHV  241 (269)
Q Consensus       184 ~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~-------------l~~vv~Dl-p~vv~~a~~--------~~ri~~~  241 (269)
                      +++.++ -....+|+|-.||+|.++.++.++...             ....++|. |..+..++.        ...+...
T Consensus       154 mv~ll~-~~~~~~IlDPacGsG~fL~~a~~~~~~~~~~~~~~~~~~~~~l~g~E~~~~~~~la~~n~~l~g~~~~~~~i~  232 (425)
T d2okca1         154 MVDCIN-PQMGETVCDPACGTGGFLLTAYDYMKGQSASKEKRDFLRDKALHGVDNTPLVVTLASMNLYLHGIGTDRSPIV  232 (425)
T ss_dssp             HHHHHC-CCTTCCEEETTCTTCHHHHHHHHHHHTCC-CCHHHHHHHHTTEEEEESCHHHHHHHHHHHHHTTCCSSCCSEE
T ss_pred             hheecc-CcccceeeccccccCccHHHHHHHHHhhccchhhhhhhhhhhhhhhhccHHHHHHHHhhhhhcCCccccceee
Confidence            344444 334579999999999999988775432             23677886 445444432        2467788


Q ss_pred             ecccCCcCCC-C-cEEEe
Q 024350          242 GGDLFESVPK-A-DTIFM  257 (269)
Q Consensus       242 ~gD~~~~~P~-g-D~~~l  257 (269)
                      .+|+++..+. - |+++.
T Consensus       233 ~~d~l~~~~~~~fD~Ii~  250 (425)
T d2okca1         233 CEDSLEKEPSTLVDVILA  250 (425)
T ss_dssp             ECCTTTSCCSSCEEEEEE
T ss_pred             cCchhhhhcccccceEEe
Confidence            8999885553 3 87764