Citrus Sinensis ID: 042491

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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------
Protein Sequence
MESADVREDVLRGQAQVWQLMFAFADSMALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLLRDSEMSLAPMILFQNSQLLQAPCHHLSQCVEEGGHAFKKAHGCEMWDFASQNSQFNNSFNKAMACTAKIVMSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPVYEGVSHVGGDMLNAVPNADAVFMKVIVLIQDLY
Secondary Structure (PSIPRED)
ccccccHHHcHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHccccccHHHHHHHccccccccccccHHHHHHHHHHHccccEEEccccccccccEEcHHHHccccccccccHHHHHHHcccHHHHHHccccHHHHHccccHHHHHccccHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHcccccccccEEEEEccccHHHHHHHHHHccccEEEEcccHHHHHHccccccEEEEccccccccccHHHHHHHHHHHccccc
Secondary Structure Prediction (SSPRO)
ccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHccccccHHHHHHHcccccccccHHHHHHHHHHHHHHcccEEEEEccccccEEEEEcccHHHHHcccccccHHHHHHHHccHHHHHHHHHHHHHHHcccccHHHHccccHHHHccccHHHHHHHHHHHHccHHHHHHHHHHHHHccccccccEEEEccccccHHHHHHcccccccEEEEEcHHHHccccccccEEEEEcccccccccccEEEccccEcccccc
Coil and Loop (DISEMBL)
MESADVREDVLRGQAQVWQLMFAFADSMALKSAVELRLADIMhchgspitlpqlasginsscpdvhiipSLTRIMRMLVRKGVFAahrssdgseetMYGLTQISKWLLRdsemslapmilfqnsqllqapchhLSQCVEEGGhafkkahgcemwdfasqnsqfnNSFNKAMACTAKIVMSTLLSHYKDGFDGIRSLvdvgggtgEELAEIVEfyphikgvnfdlphvvatapvyegvshvggdmlnavpNADAVFMKVIVLIQDLY
Flexible Loop (DISEMBL)
mesadvreDVLRGQAQVWQLMFAFADSMALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAhrssdgseetmYGLTQISKWLLRDSEMSLAPMILFQNSQLLQAPCHHLSQCVEEGGHAFKKAHGCEMWDFASQNSQFNNSFNKAMACTAKIVMSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPVYEGVSHVGGDMLNAVPNADAVFMKVIVLIQDLY
Low Complexity Region (SEG)
MESADVREDVLRGQAQVWQLMFAFADSMALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLLRDSEMSLAPMILFQNSQLLQAPCHHLSQCVEEGGHAFKKAHGCEMWDFAsqnsqfnnsfnKAMACTAKIVMSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPVYEGVSHVGGDMLNAVPNADAVFMKVIVLIQDLY
Disordered region (IsUnstruct)
*********VLRGQAQVWQLMFAFADSMALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAH********TMYGLTQISKWLLRDSEMSLAPMILFQNSQLLQAPCHHLSQCVEEGGHAFKKAHGCEMWDFASQNSQFNNSFNKAMACTAKIVMSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPVYEGVSHVGGDMLNAVPNADAVFMKVIVLIQD**
Disordered Region (DISOPRED)
******R****RGQAQVWQLMFAFADSMALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLLRDSEMSLAPMILFQNSQLLQAPCHHLSQCVEEGGHAFKKAHGCEMWDFASQNSQFNNSFNKAMACTAKIVMSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPVYEGVSHVGGDMLNAVPNADAVFMKVIVLIQDLY
Disordered Region (DISEMBL)
MESADVREDVLRGQAQVWQLMFAFADSMALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLLRDSEMSLAPMILFQNSQLLQAPCHHLSQCVEEGGHAFKKAHGCEMWDFASQNSQFNNSFNKAMACTAKIVMSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPVYEGVSHVGGDMLNAVPNADAVFMKVIVLIQDLY
Disordered Region (DISPRO)
******REDVLRGQAQVWQLMFAFADSMALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLLRDSEMSLAPMILFQNSQLLQAPCHHLSQCVEEGGHAFKKAHGCEMWDFASQNSQFNNSFNKAMACTAKIVMSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPVYEGVSHVGGDMLNAVPNADAVFMKVIVLIQ***
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MESADVREDVLRGQAQVWQLMFAFADSMALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLLRDSEMSLAPMILFQNSQLLQAPCHHLSQCVEEGGHAFKKAHGCEMWDFASQNSQFNNSFNKAMACTAKIVMSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPVYEGVSHVGGDMLNAVPNADAVFMKVIVLIQDLY
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	266	2.2.26 [Sep-21-2011]
Q9XGW0	361	Caffeic acid 3-O-methyltr	N/A	no	0.883	0.650	0.409	4e-46
B6VJS4	357	Trans-resveratrol di-O-me	no	no	0.928	0.691	0.386	5e-46
Q41086	364	Caffeic acid 3-O-methyltr	N/A	no	0.894	0.653	0.414	8e-46
Q43609	365	Caffeic acid 3-O-methyltr	N/A	no	0.894	0.652	0.418	3e-45
Q6T1F5	365	Caffeic acid 3-O-methyltr	N/A	no	0.894	0.652	0.410	3e-45
Q43046	365	Caffeic acid 3-O-methyltr	N/A	no	0.894	0.652	0.414	5e-45
Q9FK25	363	Flavone 3'-O-methyltransf	yes	no	0.890	0.652	0.408	5e-45
Q9LEL5	350	3'-hydroxy-N-methyl-(S)-c	N/A	no	0.936	0.711	0.375	7e-45
A8J6X1	359	Bergaptol O-methyltransfe	N/A	no	0.894	0.662	0.410	1e-44
Q93WU3	356	Chavicol O-methyltransfer	N/A	no	0.932	0.696	0.376	1e-44

>sp|Q9XGW0|COMT1_OCIBA Caffeic acid 3-O-methyltransferase 1 OS=Ocimum basilicum GN=COMT1 PE=2 SV=1

 Score =  184 bits (468), Expect = 4e-46,   Method: Compositional matrix adjust.
 Identities = 102/249 (40%), Positives = 148/249 (59%), Gaps = 14/249 (5%)

Query: 19  QLMFAFADSMALKSAVELRLADIMHCHG-----SPITLPQLASGINSSCPDVHIIPSLTR 73
           QL  A    M LKSA+EL L +++   G     SP+    LA+ + ++ PD H++  L R
Sbjct: 23  QLASASVLPMVLKSAIELDLLELIKKSGAGAFVSPV---DLAAQLPTTNPDAHVM--LDR 77

Query: 74  IMRMLVRKGVFAAHRSS--DGSEETMYGLTQISKWLLRDSE-MSLAPMILFQNSQLLQAP 130
           I+R+L    +      +  DG  E +YGL  + K+L ++ + +S+AP+ L    ++L   
Sbjct: 78  ILRLLTSYAILECRLKTLPDGGVERLYGLAPVCKFLTKNEDGVSMAPLTLMNQDKVLMES 137

Query: 131 CHHLSQCVEEGGHAFKKAHGCEMWDFASQNSQFNNSFNKAMACTAKIVMSTLLSHYKDGF 190
            +HLS  V +GG  F KA+G   +++   + +FN  FN+ M+  + I M  +L  Y  GF
Sbjct: 138 WYHLSDAVVDGGIPFNKAYGMTAFEYHGTDPRFNKVFNQGMSNHSTITMKKILETYT-GF 196

Query: 191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPVYEGVSHVGGDMLNAVPN 250
           DG++++VDVGGGTG  L  IV  YP IKG+NFDLPHV+  AP Y GV HVGGDM  +VP 
Sbjct: 197 DGLKTVVDVGGGTGATLNMIVSKYPSIKGINFDLPHVIEDAPSYPGVEHVGGDMFVSVPK 256

Query: 251 ADAVFMKVI 259
            DA+FMK I
Sbjct: 257 GDAIFMKWI 265

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: 2EC: .EC: 1EC: .EC: 1EC: .EC: 6EC: 8

>sp|B6VJS4|ROMT_VITVI Trans-resveratrol di-O-methyltransferase OS=Vitis vinifera GN=ROMT PE=1 SV=2

 Score =  184 bits (468), Expect = 5e-46,   Method: Compositional matrix adjust.
 Identities = 101/261 (38%), Positives = 145/261 (55%), Gaps = 14/261 (5%)

Query: 6   VREDVLRGQAQVWQLMFAFADSMALKSAVELRLADIMHCHGSPITLPQLASGI-----NS 60
           +  ++L  QA VW  +F F  SM+LK A++L + DI+H HG P+TLP+L + +      S
Sbjct: 8   ISAELLHAQAHVWNHIFNFIKSMSLKCAIQLGIPDIIHNHGKPMTLPELVAKLPVHPKRS 67

Query: 61  SCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLLRDSEMSLAPMIL 120
            C        + R+MR+LV  G  AA R   G EE  Y LT  S+ LL D  +S+ P++L
Sbjct: 68  QC--------VYRLMRILVHSGFLAAQRVQQGKEEEGYVLTDASRLLLMDDSLSIRPLVL 119

Query: 121 FQNSQLLQAPCHHLSQCVE-EGGHAFKKAHGCEMWDFASQNSQFNNSFNKAMACTAKIVM 179
                +L  P H+LS   + +    F  A+    WD+A    Q NNSFN+AMA  A+++ 
Sbjct: 120 AMLDPILTKPWHYLSAWFQNDDPTPFHTAYERSFWDYAGHEPQLNNSFNEAMASDARLLT 179

Query: 180 STLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPVYEGVSH 239
           S LL   +  F G+ SLVDVGGGTG+    I   +PH+     DL HVVA     + +++
Sbjct: 180 SVLLKEGQGVFAGLNSLVDVGGGTGKVAKAIANAFPHLNCTVLDLSHVVAGLQGSKNLNY 239

Query: 240 VGGDMLNAVPNADAVFMKVIV 260
             GDM  A+P ADA+ +K I+
Sbjct: 240 FAGDMFEAIPPADAILLKWIL 260

Catalyzes the biosynthesis of pterostilbene from resveratrol. Pterostilbene has both antifungal and pharmacological properties. Also has activity toward resveratrol monomethyl ether (RME).

Vitis vinifera (taxid: 29760)

EC: 2

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 2

EC: 4

EC: 0

>sp|Q41086|COMT2_POPTM Caffeic acid 3-O-methyltransferase 2 OS=Populus tremuloides GN=OMT2 PE=3 SV=1

 Score =  184 bits (466), Expect = 8e-46,   Method: Compositional matrix adjust.
 Identities = 102/246 (41%), Positives = 149/246 (60%), Gaps = 8/246 (3%)

Query: 19  QLMFAFADSMALKSAVELRLADIMHCHGSPITLP--QLASGINSSCPDVHIIPSLTRIMR 76
           QL+ +    M LK+A+EL L +IM   G    LP   +AS + +  P+  ++  L RI+R
Sbjct: 24  QLISSSVLPMVLKTAIELDLLEIMAKAGPGALLPPSDIASHLPTKNPNAPVM--LDRILR 81

Query: 77  MLVRKGVF--AAHRSSDGSEETMYGLTQISKWLLRDSE-MSLAPMILFQNSQLLQAPCHH 133
           +L    +   +     DG  E +YGL  + K+L R+ + +S++P+ L    ++L    +H
Sbjct: 82  LLASYSILICSLRDLPDGKVERLYGLASVCKFLTRNEDGVSVSPLCLMNQDKVLMESWYH 141

Query: 134 LSQCVEEGGHAFKKAHGCEMWDFASQNSQFNNSFNKAMACTAKIVMSTLLSHYKDGFDGI 193
           L   + EGG  F KA+G   +++   + +FN  FNK M+  +K+ M  +L  YK GF+G+
Sbjct: 142 LKDAILEGGIPFNKAYGMTAFEYHGTDPRFNKVFNKGMSVHSKMAMKKILETYK-GFEGL 200

Query: 194 RSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPVYEGVSHVGGDMLNAVPNADA 253
            SLVDVGGGTG  ++ IV  YP IKG+NFDLPHV+A AP + GV +VGGDM  +VP ADA
Sbjct: 201 ASLVDVGGGTGAVVSTIVSKYPSIKGINFDLPHVIADAPAFPGVENVGGDMFVSVPKADA 260

Query: 254 VFMKVI 259
           VFMK I
Sbjct: 261 VFMKWI 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.

Populus tremuloides (taxid: 3693)

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 =  182 bits (461), Expect = 3e-45,   Method: Compositional matrix adjust.
 Identities = 103/246 (41%), Positives = 146/246 (59%), Gaps = 8/246 (3%)

Query: 19  QLMFAFADSMALKSAVELRLADIMHCHGSPITL--PQLASGINSSCPDVHIIPSLTRIMR 76
           QL  A    M LK+A+EL L +IM   G  + L    +AS + +  PD  ++  L R++R
Sbjct: 25  QLASASVLPMVLKAAIELDLLEIMAKAGPGVFLSPTDIASQLPTKNPDAPVM--LDRMLR 82

Query: 77  MLVRKGV--FAAHRSSDGSEETMYGLTQISKWLLRDSE-MSLAPMILFQNSQLLQAPCHH 133
           +L    +  ++    +DG  E +YGL  + K+L ++ E +S+AP+ L    ++L    +H
Sbjct: 83  LLASYSILTYSLRTLADGKVERLYGLGPVCKFLTKNEEGVSIAPLCLMNQDKVLLESWYH 142

Query: 134 LSQCVEEGGHAFKKAHGCEMWDFASQNSQFNNSFNKAMACTAKIVMSTLLSHYKDGFDGI 193
           L   V EGG  F KA+G   +++   + +FN  FN+ MA  + I M  +L  YK GF+G+
Sbjct: 143 LKDAVLEGGIPFNKAYGMTAFEYHGTDPRFNKVFNRGMADHSTITMKKILETYK-GFEGL 201

Query: 194 RSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPVYEGVSHVGGDMLNAVPNADA 253
            S+VDVGGGTG  L  IV  YP IKG+NFDLPHV+  AP Y GV HVGGDM  +VP  DA
Sbjct: 202 TSVVDVGGGTGAVLNMIVSKYPSIKGINFDLPHVIEDAPQYPGVEHVGGDMFVSVPKGDA 261

Query: 254 VFMKVI 259
           +FMK I
Sbjct: 262 IFMKWI 267

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|Q6T1F5|COMT1_AMMMJ Caffeic acid 3-O-methyltransferase OS=Ammi majus GN=COMT PE=1 SV=1

 Score =  182 bits (461), Expect = 3e-45,   Method: Compositional matrix adjust.
 Identities = 101/246 (41%), Positives = 148/246 (60%), Gaps = 8/246 (3%)

Query: 19  QLMFAFADSMALKSAVELRLADIMH--CHGSPITLPQLASGINSSCPDVHIIPSLTRIMR 76
           QL  A    M LKSA+EL L + +     G+ ++  QLA+ + SS PD  ++  L RI+R
Sbjct: 27  QLASASVLPMVLKSAIELNLLESIAKAGPGAYVSPSQLAAALPSSQPDTPVM--LDRILR 84

Query: 77  MLVRKGVFAAHRSS--DGSEETMYGLTQISKWLLRDSE-MSLAPMILFQNSQLLQAPCHH 133
           +L    V         D   E +YGL  + K+L ++S+ +S+AP++L    ++L    +H
Sbjct: 85  LLASYSVLNCKLRDLPDARVERLYGLAPVCKFLTKNSDGVSMAPLLLMNQDKILMESWYH 144

Query: 134 LSQCVEEGGHAFKKAHGCEMWDFASQNSQFNNSFNKAMACTAKIVMSTLLSHYKDGFDGI 193
           L   V +GG  F KA+G   +++  ++ +FN  FN+ M+  + I M  +L  Y DGF G+
Sbjct: 145 LKDAVLDGGIPFNKAYGMTAFEYHGKDPRFNKVFNQGMSNHSTITMKKILQTY-DGFGGL 203

Query: 194 RSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPVYEGVSHVGGDMLNAVPNADA 253
           +++VDVGGGTG  L  I+  YP++KG+NFDLPHVV  AP Y GV HVGGDM  +VP  DA
Sbjct: 204 KTVVDVGGGTGATLNMIISKYPNLKGINFDLPHVVEDAPSYAGVEHVGGDMFVSVPKGDA 263

Query: 254 VFMKVI 259
           +FMK I
Sbjct: 264 IFMKWI 269

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.

Ammi majus (taxid: 48026)

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 =  181 bits (459), Expect = 5e-45,   Method: Compositional matrix adjust.
 Identities = 102/246 (41%), Positives = 147/246 (59%), Gaps = 8/246 (3%)

Query: 19  QLMFAFADSMALKSAVELRLADIMH--CHGSPITLPQLASGINSSCPDVHIIPSLTRIMR 76
           QL  A    M LK+A+EL L +IM     G+ ++  ++AS + +  PD  ++  L RI+R
Sbjct: 25  QLASASVLPMILKTAIELDLLEIMAKAGPGAFLSTSEIASHLPTKNPDAPVM--LDRILR 82

Query: 77  MLVRKGVFAAHRSS--DGSEETMYGLTQISKWLLRDSE-MSLAPMILFQNSQLLQAPCHH 133
           +L    +         DG  E +YGL  + K+L ++ + +S++P+ L    ++L    ++
Sbjct: 83  LLASYSILTCSLKDLPDGKVERLYGLAPVCKFLTKNEDGVSVSPLCLMNQDKVLMESWYY 142

Query: 134 LSQCVEEGGHAFKKAHGCEMWDFASQNSQFNNSFNKAMACTAKIVMSTLLSHYKDGFDGI 193
           L   + EGG  F KA+G   +++   + +FN  FNK M+  + I M  +L  YK GF+G+
Sbjct: 143 LKDAILEGGIPFNKAYGMTAFEYHGTDPRFNKVFNKGMSDHSTITMKKILETYK-GFEGL 201

Query: 194 RSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPVYEGVSHVGGDMLNAVPNADA 253
            SLVDVGGGTG  +  IV  YP IKG+NFDLPHV+  AP Y GV HVGGDM  +VPNADA
Sbjct: 202 TSLVDVGGGTGAVVNTIVSKYPSIKGINFDLPHVIEDAPSYPGVEHVGGDMFVSVPNADA 261

Query: 254 VFMKVI 259
           VFMK I
Sbjct: 262 VFMKWI 267

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|Q9FK25|OMT1_ARATH Flavone 3'-O-methyltransferase 1 OS=Arabidopsis thaliana GN=OMT1 PE=1 SV=1

 Score =  181 bits (459), Expect = 5e-45,   Method: Compositional matrix adjust.
 Identities = 100/245 (40%), Positives = 147/245 (60%), Gaps = 8/245 (3%)

Query: 19  QLMFAFADSMALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRML 78
           QL  A    MALKSA+EL L +IM  +GSP++  ++AS + +  P+  ++  L RI+R+L
Sbjct: 25  QLASASVLPMALKSALELDLLEIMAKNGSPMSPTEIASKLPTKNPEAPVM--LDRILRLL 82

Query: 79  VRKGVFAAHR---SSDGSEETMYGLTQISKWLLRDSE-MSLAPMILFQNSQLLQAPCHHL 134
               V        S DG E  +YGL  + K+L ++ + +S+A + L    ++L    +HL
Sbjct: 83  TSYSVLTCSNRKLSGDGVER-IYGLGPVCKYLTKNEDGVSIAALCLMNQDKVLMESWYHL 141

Query: 135 SQCVEEGGHAFKKAHGCEMWDFASQNSQFNNSFNKAMACTAKIVMSTLLSHYKDGFDGIR 194
              + +GG  F KA+G   +++   + +FN  FN  M+  + I M  +L  YK GF+G+ 
Sbjct: 142 KDAILDGGIPFNKAYGMSAFEYHGTDPRFNKVFNNGMSNHSTITMKKILETYK-GFEGLT 200

Query: 195 SLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPVYEGVSHVGGDMLNAVPNADAV 254
           SLVDVGGG G  L  IV  YP++KG+NFDLPHV+  AP + G+ HVGGDM  +VP  DA+
Sbjct: 201 SLVDVGGGIGATLKMIVSKYPNLKGINFDLPHVIEDAPSHPGIEHVGGDMFVSVPKGDAI 260

Query: 255 FMKVI 259
           FMK I
Sbjct: 261 FMKWI 265

Methylates OH residues of flavonoid compounds. Substrate preference is quercetin > myricetin >> luteolin. Dihydroquercetin is not a substrate.

Arabidopsis thaliana (taxid: 3702)

EC: 2

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 7

EC: 6

>sp|Q9LEL5|4OMT_COPJA 3'-hydroxy-N-methyl-(S)-coclaurine 4'-O-methyltransferase OS=Coptis japonica PE=1 SV=1

 Score =  181 bits (458), Expect = 7e-45,   Method: Compositional matrix adjust.
 Identities = 96/256 (37%), Positives = 153/256 (59%), Gaps = 7/256 (2%)

Query: 7   REDVL--RGQAQVWQLMFAFADSMALKSAVELRLADIMHCHGSPITLPQLASGINSSCPD 64
           ++DVL  + QA VW++++ FADS+ L+ AVEL + DI+  +  P+ L  LAS +  S  D
Sbjct: 6   KDDVLDIKAQAHVWKIIYGFADSLVLRCAVELGIVDIIDNNNQPMALADLASKLPVS--D 63

Query: 65  VHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLLRDSEMSLAPMILFQNS 124
           V+   +L RI+R LV+  +    +S DG ++  Y L  I+  L R+++ S+ PMIL    
Sbjct: 64  VNC-DNLYRILRYLVKMEILRVEKSDDGQKK--YALEPIATLLSRNAKRSMVPMILGMTQ 120

Query: 125 QLLQAPCHHLSQCVEEGGHAFKKAHGCEMWDFASQNSQFNNSFNKAMACTAKIVMSTLLS 184
           +    P H +   + + G AF+KA G  +W++   +   +  FN+ MA   +++ S+L+S
Sbjct: 121 KDFMTPWHSMKDGLSDNGTAFEKAMGMTIWEYLEGHPDQSQLFNEGMAGETRLLTSSLIS 180

Query: 185 HYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPVYEGVSHVGGDM 244
             +D F GI SLVDVGGG G  +  I + +PHIK   FDLPHV+A +     +  +GGDM
Sbjct: 181 GSRDMFQGIDSLVDVGGGNGTTVKAISDAFPHIKCTLFDLPHVIANSYDLPNIERIGGDM 240

Query: 245 LNAVPNADAVFMKVIV 260
             +VP+A A+ +K+I+
Sbjct: 241 FKSVPSAQAIILKLIL 256

Catalyzes the transfer of the methyl group to the 4'-hydroxyl group of 3'-hydroxy-N-methylcoclaurine to form reticuline.

Coptis japonica (taxid: 3442)

EC: 2

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 1

EC: 1

EC: 6

>sp|A8J6X1|BMT_GLELI Bergaptol O-methyltransferase OS=Glehnia littoralis GN=BMT PE=1 SV=1

 Score =  179 bits (455), Expect = 1e-44,   Method: Compositional matrix adjust.
 Identities = 101/246 (41%), Positives = 151/246 (61%), Gaps = 8/246 (3%)

Query: 19  QLMFAFADSMALKSAVELRLADIMH--CHGSPITLPQLASGINSSCPDVHIIPSLTRIMR 76
           QL  +    M LKSA+EL + + +     G+ ++   LAS +  S P   I+  L RI+R
Sbjct: 20  QLATSTVLPMILKSAIELDILNTISKAGPGNYLSPSDLASKLLMSNPHAPIM--LERILR 77

Query: 77  MLVRKGVFAAHRS--SDGSEETMYGLTQISKWLLRDSE-MSLAPMILFQNSQLLQAPCHH 133
           +L    V    RS  S+G  E +Y  T + K+L  + +  S+AP++L    ++     +H
Sbjct: 78  VLATYKVLGCKRSELSNGEVEWLYCWTPVCKFLSNNEDGASIAPLLLVHQDKVPMKSWYH 137

Query: 134 LSQCVEEGGHAFKKAHGCEMWDFASQNSQFNNSFNKAMACTAKIVMSTLLSHYKDGFDGI 193
           L+  V +GG AF KA+G  ++D+ASQ+ QFN  FN++MA  + I M  ++  Y +GF+G+
Sbjct: 138 LTDAVLDGGTAFNKAYGMNIFDYASQDPQFNKVFNRSMAGHSTITMKKIVETY-NGFEGL 196

Query: 194 RSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPVYEGVSHVGGDMLNAVPNADA 253
           +S+VDVGGG+G  L  I+  YP IKG+NFDLPHVV  +P++ GV HVGGDM  +VP  DA
Sbjct: 197 KSIVDVGGGSGATLNMIISKYPTIKGINFDLPHVVGDSPIHPGVEHVGGDMFASVPKGDA 256

Query: 254 VFMKVI 259
           +F+K I
Sbjct: 257 IFLKWI 262

Glehnia littoralis (taxid: 48119)

EC: 2

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 6

EC: 9

>sp|Q93WU3|CVMT1_OCIBA Chavicol O-methyltransferase OS=Ocimum basilicum GN=CVOMT1 PE=1 SV=1

 Score =  179 bits (455), Expect = 1e-44,   Method: Compositional matrix adjust.
 Identities = 96/255 (37%), Positives = 145/255 (56%), Gaps = 7/255 (2%)

Query: 8   EDVLRGQAQVWQLMFAFADSMALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHI 67
           E +L+ QA VW  M+AFA+SM+LK A++L + DI+H H  P+TL QL   I  +      
Sbjct: 13  EQLLQAQAHVWNHMYAFANSMSLKCAIQLGIPDILHKHDHPMTLSQLLKAIPINKEKSQ- 71

Query: 68  IPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLLRDSEMSLAPMILFQNSQLL 127
             S  R+MR LV    F    S++  +E  Y LT  S+ LL+ + +++AP++        
Sbjct: 72  --SFQRLMRALVNSNFFIEENSNN--QEVCYWLTPASRLLLKGAPLTVAPLVQVVLDPTF 127

Query: 128 QAPCHHLSQCVEEGGHA--FKKAHGCEMWDFASQNSQFNNSFNKAMACTAKIVMSTLLSH 185
             P H++S+  +   HA  F+ A+GC  W+  +        F++AM+C +++V   L   
Sbjct: 128 TNPWHYMSEWFKHENHATQFEAANGCTFWEKLANKPSMGRFFDEAMSCDSRLVAHVLTKD 187

Query: 186 YKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPVYEGVSHVGGDML 245
           YK   DGIR+LVDVGGG G     IVE  P +K    DLPHVVA     + +S++GGDM 
Sbjct: 188 YKHVIDGIRTLVDVGGGNGTMAKAIVEAVPTMKCTVLDLPHVVAGLESTDKLSYIGGDMF 247

Query: 246 NAVPNADAVFMKVIV 260
            ++P+ADA+ +K I+
Sbjct: 248 QSIPSADAILLKFII 262

Phenylpropene O-methyltransferase that catalyzes the methylation of the para-4-hydroxyl of chavicol to methylchavicol. Can also convert eugenol to methyleugenol but with less affinity.

Ocimum basilicum (taxid: 39350)

EC: 2

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 1

EC: 4

EC: 6

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	266
183585187	351	caffeic acid 3-O-methyltransferase [Popu	0.939	0.712	0.661	2e-94
224127144	351	alkaloid o-methyltransferase related [Po	0.939	0.712	0.661	5e-94
429326472	351	caffeic acid O-methyltransferase [Populu	0.939	0.712	0.657	1e-93
255553835	351	o-methyltransferase, putative [Ricinus c	0.936	0.709	0.628	2e-91
255553833	352	o-methyltransferase, putative [Ricinus c	0.962	0.727	0.596	3e-84
300077147	369	O-methyltransferase [Vitis vinifera]	0.951	0.685	0.617	5e-83
147787483	375	hypothetical protein VITISV_028341 [Viti	0.951	0.674	0.617	1e-82
147809600	375	hypothetical protein VITISV_006040 [Viti	0.951	0.674	0.617	1e-82
225447213	375	PREDICTED: (RS)-norcoclaurine 6-O-methyl	0.951	0.674	0.617	1e-82
224103575	354	alkaloid o-methyltransferase related [Po	0.936	0.703	0.596	2e-81

>gi|183585187|gb|ACC63885.1| caffeic acid 3-O-methyltransferase [Populus trichocarpa]

 Score =  351 bits (901), Expect = 2e-94,   Method: Compositional matrix adjust.
 Identities = 168/254 (66%), Positives = 199/254 (78%), Gaps = 4/254 (1%)

Query: 7   REDVLRGQAQVWQLMFAFADSMALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVH 66
            E +LRGQ +VWQLMF FA+SMALK A+EL +ADI++  G P+TL Q+ASGI+S C D  
Sbjct: 6   EEALLRGQVEVWQLMFGFAESMALKCAIELGIADIINSLGGPVTLNQIASGIDSPCVD-- 63

Query: 67  IIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLLRDSEMSLAPMILFQNSQL 126
            IP L RIMR LVRK VF  H  SDG E T+YGLT  SKWLLRDSE+SLAPM+L QN   
Sbjct: 64  -IPYLARIMRFLVRKRVFTQHNPSDGGE-TLYGLTDSSKWLLRDSEVSLAPMVLMQNYPW 121

Query: 127 LQAPCHHLSQCVEEGGHAFKKAHGCEMWDFASQNSQFNNSFNKAMACTAKIVMSTLLSHY 186
             AP H+LSQCV+EGG AFKKAHGCE+WD ASQN +FN  FN A+ACTAKI+M  ++SHY
Sbjct: 122 QLAPWHYLSQCVKEGGIAFKKAHGCEIWDLASQNPEFNRIFNDALACTAKIIMRAVVSHY 181

Query: 187 KDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPVYEGVSHVGGDMLN 246
           K GFD + +LVDVGGGTG  LAEIV+ YPHIKG+NFDLPHVVA AP Y GVSHVGG+   
Sbjct: 182 KGGFDDVETLVDVGGGTGGNLAEIVKAYPHIKGINFDLPHVVAAAPAYNGVSHVGGNFFE 241

Query: 247 AVPNADAVFMKVIV 260
           A+PNAD++FMK ++
Sbjct: 242 AIPNADSIFMKWVL 255

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224127144|ref|XP_002329411.1| alkaloid o-methyltransferase related [Populus trichocarpa] gi|222870461|gb|EEF07592.1| alkaloid o-methyltransferase related [Populus trichocarpa]

 Score =  349 bits (896), Expect = 5e-94,   Method: Compositional matrix adjust.
 Identities = 168/254 (66%), Positives = 198/254 (77%), Gaps = 4/254 (1%)

Query: 7   REDVLRGQAQVWQLMFAFADSMALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVH 66
            E +LRGQ +VWQLMF FA+SMALK A+EL +ADI++  G P+TL Q+ASGI+S C D  
Sbjct: 6   EEALLRGQVEVWQLMFGFAESMALKCAIELGIADIINSLGGPVTLNQIASGIDSPCVD-- 63

Query: 67  IIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLLRDSEMSLAPMILFQNSQL 126
            IP L RIMR LVRK VF  H  SDG E T+YGLT  SKWLLRDSE+SLAPM+L QN   
Sbjct: 64  -IPYLARIMRFLVRKRVFTQHIPSDGGE-TLYGLTDSSKWLLRDSEVSLAPMVLMQNYPW 121

Query: 127 LQAPCHHLSQCVEEGGHAFKKAHGCEMWDFASQNSQFNNSFNKAMACTAKIVMSTLLSHY 186
             AP H+LSQCV+EGG AFKKAHGCE+WD ASQN +FN  FN A+ACTAKI+M  ++SHY
Sbjct: 122 QLAPWHYLSQCVKEGGIAFKKAHGCEIWDLASQNPEFNRIFNDALACTAKIIMRAVVSHY 181

Query: 187 KDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPVYEGVSHVGGDMLN 246
           K GFD + +LVDVGGGTG  LAEIV+ YPHIKG+NFDLPHVVA AP Y GVSHVGG    
Sbjct: 182 KGGFDDVETLVDVGGGTGGNLAEIVKAYPHIKGINFDLPHVVAAAPAYNGVSHVGGSFFE 241

Query: 247 AVPNADAVFMKVIV 260
           A+PNAD++FMK ++
Sbjct: 242 AIPNADSIFMKWVL 255

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|429326472|gb|AFZ78576.1| caffeic acid O-methyltransferase [Populus tomentosa]

 Score =  348 bits (893), Expect = 1e-93,   Method: Compositional matrix adjust.
 Identities = 167/254 (65%), Positives = 197/254 (77%), Gaps = 4/254 (1%)

Query: 7   REDVLRGQAQVWQLMFAFADSMALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVH 66
            E +LRGQ +VWQLMF FA+SMALK A+EL + DI++  G P+TL Q+ASGI+S C D  
Sbjct: 6   EEKLLRGQVEVWQLMFGFAESMALKCAIELGIPDIINSLGGPVTLNQIASGIDSPCVD-- 63

Query: 67  IIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLLRDSEMSLAPMILFQNSQL 126
            IP L RIMR LVRK VF  H  SDG E T+YGLT  SKWLLRDSE+SLAPM+L QN   
Sbjct: 64  -IPYLARIMRFLVRKRVFTQHIPSDGGE-TLYGLTDSSKWLLRDSEVSLAPMVLMQNYPW 121

Query: 127 LQAPCHHLSQCVEEGGHAFKKAHGCEMWDFASQNSQFNNSFNKAMACTAKIVMSTLLSHY 186
             AP H+LSQCV+EGG AFKKAHGCE+WD ASQN +FN  FN A+ACTAKI+M  ++SHY
Sbjct: 122 QLAPWHYLSQCVKEGGIAFKKAHGCEIWDLASQNPEFNRIFNDALACTAKIIMRAVVSHY 181

Query: 187 KDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPVYEGVSHVGGDMLN 246
           K GFD + +LVDVGGGTG  LAEIV+ YPHIKG+NFDLPHVVA AP Y GVSHVGG    
Sbjct: 182 KGGFDDVETLVDVGGGTGGNLAEIVKAYPHIKGINFDLPHVVAAAPAYNGVSHVGGSFFE 241

Query: 247 AVPNADAVFMKVIV 260
           A+PNAD++FMK ++
Sbjct: 242 AIPNADSIFMKWVL 255

Source: Populus tomentosa

Species: Populus tomentosa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255553835|ref|XP_002517958.1| o-methyltransferase, putative [Ricinus communis] gi|223542940|gb|EEF44476.1| o-methyltransferase, putative [Ricinus communis]

 Score =  340 bits (873), Expect = 2e-91,   Method: Compositional matrix adjust.
 Identities = 159/253 (62%), Positives = 200/253 (79%), Gaps = 4/253 (1%)

Query: 8   EDVLRGQAQVWQLMFAFADSMALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHI 67
           E ++ GQ ++W+LMF FADSM LK+AVELR+ DI++ H  PITL Q+ASGI+SS PD   
Sbjct: 7   EKLVSGQLEIWKLMFGFADSMVLKAAVELRIPDIINSHARPITLSQIASGIDSSSPD--- 63

Query: 68  IPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLLRDSEMSLAPMILFQNSQLL 127
           I  L RIMR LV KG+F AH+ SDG E + YGL + ++WLLRDS+++L PM++ +N    
Sbjct: 64  ISYLARIMRYLVCKGIFTAHQPSDGGE-SFYGLAENTRWLLRDSDLTLHPMVIMENHPWQ 122

Query: 128 QAPCHHLSQCVEEGGHAFKKAHGCEMWDFASQNSQFNNSFNKAMACTAKIVMSTLLSHYK 187
             P H+L QCV+EGG AFKKAHGCEMWDFASQN +FN  FN+A+ACTAKIVM  +LS YK
Sbjct: 123 VTPWHYLGQCVKEGGIAFKKAHGCEMWDFASQNPEFNRIFNQALACTAKIVMKAVLSGYK 182

Query: 188 DGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPVYEGVSHVGGDMLNA 247
           DGFD I +LVDVGGGTG  LAEIV+ YPHIK +NFDLPHVVATAP ++G++HVGG+M  +
Sbjct: 183 DGFDAITTLVDVGGGTGGNLAEIVKAYPHIKTLNFDLPHVVATAPAFDGIAHVGGNMFES 242

Query: 248 VPNADAVFMKVIV 260
           +PNADA+FMK I+
Sbjct: 243 IPNADAIFMKWIL 255

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255553833|ref|XP_002517957.1| o-methyltransferase, putative [Ricinus communis] gi|223542939|gb|EEF44475.1| o-methyltransferase, putative [Ricinus communis]

 Score =  317 bits (812), Expect = 3e-84,   Method: Compositional matrix adjust.
 Identities = 155/260 (59%), Positives = 194/260 (74%), Gaps = 4/260 (1%)

Query: 1   MESADVREDVLRGQAQVWQLMFAFADSMALKSAVELRLADIMHCHGSPITLPQLASGINS 60
           ME     E  L GQAQVWQLMFAFADSMALK AVEL + DI+H HG  ITL Q+AS I+S
Sbjct: 1   MEGVFEDEASLIGQAQVWQLMFAFADSMALKCAVELHIPDIIHSHGKSITLSQIASSIDS 60

Query: 61  SCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLLRDSEMSLAPMIL 120
           + PD   IP L RIMR+LVR+ +F A   SDG E T+YGLT +SKWL+ DS+ +LAPM+L
Sbjct: 61  TSPD---IPYLQRIMRLLVRRNIFTADHPSDGGE-TLYGLTHVSKWLVHDSDRTLAPMVL 116

Query: 121 FQNSQLLQAPCHHLSQCVEEGGHAFKKAHGCEMWDFASQNSQFNNSFNKAMACTAKIVMS 180
            +N      P H  SQCV++GG AF+KA+G E+WDFA++N +FN  FN  M+CTA++ + 
Sbjct: 117 MENHPWTINPWHCFSQCVKKGGIAFEKANGHEIWDFAARNPEFNKMFNGGMSCTARLTIR 176

Query: 181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPVYEGVSHV 240
            +L  YKDGF  ++SLVDVGGGTG+ + EIV+ +PHIKG+N+DL HVV+TAP YEGV HV
Sbjct: 177 AILEGYKDGFCSMKSLVDVGGGTGDLVTEIVKSHPHIKGINYDLAHVVSTAPAYEGVCHV 236

Query: 241 GGDMLNAVPNADAVFMKVIV 260
           GGDM  A+PNADAV MK I+
Sbjct: 237 GGDMFQAIPNADAVIMKWIM 256

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|300077147|gb|ADJ66850.1| O-methyltransferase [Vitis vinifera]

 Score =  313 bits (802), Expect = 5e-83,   Method: Compositional matrix adjust.
 Identities = 160/259 (61%), Positives = 196/259 (75%), Gaps = 6/259 (2%)

Query: 4   ADVREDVLRGQAQVWQLMFAFADSMALKSAVELRLADIMHCHGSPITLPQLASGINSSCP 63
           AD  E +L+GQA +W+ MFAFADSMALK AVELR+ADI+H    PITL Q+A+ I+S  P
Sbjct: 17  ADEAELMLQGQANIWRHMFAFADSMALKCAVELRIADIIHSQARPITLSQIATCIDSPSP 76

Query: 64  DVHIIPSLTRIMRMLVRKGVFAAHR--SSDGSEETMYGLTQISKWLLRDSEMSLAPMILF 121
           D   I  L RIMR LVR  +F A     SDG E T+YGLT  SKWLL D+++SLAPM+L 
Sbjct: 77  D---ITCLARIMRFLVRAKIFTAAPPPQSDGGE-TLYGLTPSSKWLLHDADLSLAPMVLM 132

Query: 122 QNSQLLQAPCHHLSQCVEEGGHAFKKAHGCEMWDFASQNSQFNNSFNKAMACTAKIVMST 181
           +N   L AP H    CV+EGG AF+KAHG ++WDFAS+N +FN  FN  MACTAK+VM  
Sbjct: 133 ENHPFLMAPWHCFGTCVKEGGIAFEKAHGRQIWDFASENPEFNKLFNDGMACTAKVVMGE 192

Query: 182 LLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPVYEGVSHVG 241
           +++ YKDGF  IR+LVDVGGGTG  +AE+V+ YPHIKG+NFDLPHVVA+AP YEGVSHVG
Sbjct: 193 VVAAYKDGFGSIRTLVDVGGGTGGAVAEVVKAYPHIKGINFDLPHVVASAPAYEGVSHVG 252

Query: 242 GDMLNAVPNADAVFMKVIV 260
           GDM  ++PNADA+FMK I+
Sbjct: 253 GDMFESIPNADAIFMKWIM 271

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147787483|emb|CAN77813.1| hypothetical protein VITISV_028341 [Vitis vinifera]

 Score =  312 bits (799), Expect = 1e-82,   Method: Compositional matrix adjust.
 Identities = 160/259 (61%), Positives = 196/259 (75%), Gaps = 6/259 (2%)

Query: 4   ADVREDVLRGQAQVWQLMFAFADSMALKSAVELRLADIMHCHGSPITLPQLASGINSSCP 63
           AD  E +L+GQA +W+ MFAFADSMALK AVELR+ADI+H H  PITL Q+A+ I+   P
Sbjct: 23  ADEAELMLQGQANIWRHMFAFADSMALKCAVELRIADIIHSHARPITLSQIATCIDFPSP 82

Query: 64  DVHIIPSLTRIMRMLVRKGVFAAHR--SSDGSEETMYGLTQISKWLLRDSEMSLAPMILF 121
           D   I  L RIMR LVR  +F A     SDG E T+YGLT  SKWLL D+++SLAPM+L 
Sbjct: 83  D---ITCLARIMRFLVRAKIFTAAPPPQSDGGE-TLYGLTPSSKWLLHDADLSLAPMVLM 138

Query: 122 QNSQLLQAPCHHLSQCVEEGGHAFKKAHGCEMWDFASQNSQFNNSFNKAMACTAKIVMST 181
           +N   L AP H    CV+EGG AF+KAHG ++WDFAS+N +FN  FN  MACTAK+VM  
Sbjct: 139 ENHPSLMAPWHCFGTCVKEGGIAFEKAHGRQIWDFASENPEFNKLFNDGMACTAKVVMGE 198

Query: 182 LLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPVYEGVSHVG 241
           +++ YKDGF  IR+LVDVGGGTG  +AE+V+ YPHIKG+NFDLPHVVA+AP YEGVSHVG
Sbjct: 199 VVAAYKDGFGSIRTLVDVGGGTGGAVAEVVKAYPHIKGINFDLPHVVASAPAYEGVSHVG 258

Query: 242 GDMLNAVPNADAVFMKVIV 260
           GDM  ++PNADA+FMK I+
Sbjct: 259 GDMFESIPNADAIFMKWIM 277

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147809600|emb|CAN64492.1| hypothetical protein VITISV_006040 [Vitis vinifera]

 Score =  312 bits (799), Expect = 1e-82,   Method: Compositional matrix adjust.
 Identities = 160/259 (61%), Positives = 196/259 (75%), Gaps = 6/259 (2%)

Query: 4   ADVREDVLRGQAQVWQLMFAFADSMALKSAVELRLADIMHCHGSPITLPQLASGINSSCP 63
           AD  E +L+GQA +W+ MFAFADSMALK AVELR+ADI+H    PITL Q+A+ I+S  P
Sbjct: 23  ADEAELMLQGQANIWRHMFAFADSMALKCAVELRIADIIHSXARPITLSQIATCIDSPSP 82

Query: 64  DVHIIPSLTRIMRMLVRKGVFAAHR--SSDGSEETMYGLTQISKWLLRDSEMSLAPMILF 121
           D   I  L RIMR LVR  +F A     SDG E T+YGLT  SKWLL D+++SLAPM+L 
Sbjct: 83  D---ITCLARIMRFLVRAKIFTAAPPPQSDGGE-TLYGLTPSSKWLLHDADLSLAPMVLM 138

Query: 122 QNSQLLQAPCHHLSQCVEEGGHAFKKAHGCEMWDFASQNSQFNNSFNKAMACTAKIVMST 181
           +N   L AP H    CV+EGG AF+KAHG ++WDFAS+N +FN  FN  MACTAK+VM  
Sbjct: 139 ENHPXLMAPWHCFGTCVKEGGIAFEKAHGRQIWDFASENPEFNKLFNDGMACTAKVVMGE 198

Query: 182 LLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPVYEGVSHVG 241
           +++ YKDGF  IR+LVDVGGGTG  +AE+V+ YPHIKG+NFDLPHVVA+AP YEGVSHVG
Sbjct: 199 VVAAYKDGFGSIRTLVDVGGGTGGAVAEVVKAYPHIKGINFDLPHVVASAPAYEGVSHVG 258

Query: 242 GDMLNAVPNADAVFMKVIV 260
           GDM  ++PNADA+FMK I+
Sbjct: 259 GDMFESIPNADAIFMKWIM 277

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225447213|ref|XP_002277602.1| PREDICTED: (RS)-norcoclaurine 6-O-methyltransferase [Vitis vinifera]

 Score =  311 bits (798), Expect = 1e-82,   Method: Compositional matrix adjust.
 Identities = 160/259 (61%), Positives = 196/259 (75%), Gaps = 6/259 (2%)

Query: 4   ADVREDVLRGQAQVWQLMFAFADSMALKSAVELRLADIMHCHGSPITLPQLASGINSSCP 63
           AD  E +L+GQA +W+ MFAFADSM LK A+ELR+ADI+H H  PITL Q+A+ I+S  P
Sbjct: 23  ADEAELMLQGQANIWRHMFAFADSMVLKCALELRIADIIHSHARPITLSQIATCIDSPSP 82

Query: 64  DVHIIPSLTRIMRMLVRKGVFAAHR--SSDGSEETMYGLTQISKWLLRDSEMSLAPMILF 121
           D   I  L RIMR LV   +F A     SDG E T+YGLT  SKWLL D+E+SLAPM+L 
Sbjct: 83  D---ITCLARIMRFLVCAKIFTAAPPPQSDGGE-TLYGLTPSSKWLLHDAELSLAPMVLM 138

Query: 122 QNSQLLQAPCHHLSQCVEEGGHAFKKAHGCEMWDFASQNSQFNNSFNKAMACTAKIVMST 181
           +N   L AP H L  CV+EGG AF+KAHG ++WDFAS+N +FN  FN  MACTAK+VM  
Sbjct: 139 ENHPFLMAPWHCLGTCVKEGGIAFEKAHGRQIWDFASENPEFNKLFNDGMACTAKVVMGE 198

Query: 182 LLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPVYEGVSHVG 241
           +++ YKDGF  IR+LVDVGGGTG  +AE+V+ YPHIKG+NFDLPHVVA+AP YEGVSHVG
Sbjct: 199 VVAAYKDGFGSIRTLVDVGGGTGGAVAEVVKAYPHIKGINFDLPHVVASAPAYEGVSHVG 258

Query: 242 GDMLNAVPNADAVFMKVIV 260
           GDM  ++PNADA+FMK I+
Sbjct: 259 GDMFESIPNADAIFMKWIM 277

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224103575|ref|XP_002334037.1| alkaloid o-methyltransferase related [Populus trichocarpa] gi|224124568|ref|XP_002319364.1| alkaloid o-methyltransferase related [Populus trichocarpa] gi|222839673|gb|EEE77996.1| alkaloid o-methyltransferase related [Populus trichocarpa] gi|222857740|gb|EEE95287.1| alkaloid o-methyltransferase related [Populus trichocarpa]

 Score =  308 bits (789), Expect = 2e-81,   Method: Compositional matrix adjust.
 Identities = 151/253 (59%), Positives = 185/253 (73%), Gaps = 4/253 (1%)

Query: 8   EDVLRGQAQVWQLMFAFADSMALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHI 67
           E   + Q +++QL   F DSMALK AVELRL +I++ HG PI+L Q+ASGINS   D   
Sbjct: 7   EAFFKSQFEIFQLSLGFVDSMALKCAVELRLPEIINSHGRPISLSQIASGINSPSSD--- 63

Query: 68  IPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLLRDSEMSLAPMILFQNSQLL 127
           I  L RIMR LVRK +F AH  SDG E T++GL Q S+ L+ DSE SL  +I  Q+S   
Sbjct: 64  ISYLARIMRYLVRKEIFTAHPPSDGGE-TLFGLNQKSRMLMHDSERSLVSIITMQHSSWF 122

Query: 128 QAPCHHLSQCVEEGGHAFKKAHGCEMWDFASQNSQFNNSFNKAMACTAKIVMSTLLSHYK 187
            A  H LSQC++EGG AF KAHGCE+WDFAS+N + N  FN+AMACT+ I M  +LSHYK
Sbjct: 123 LAAWHCLSQCIKEGGTAFSKAHGCELWDFASRNPEVNRIFNEAMACTSNITMRAILSHYK 182

Query: 188 DGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPVYEGVSHVGGDMLNA 247
           DGF+ IRSLVDV GG G  +AEIV  YPHI+G+NFDLPHVVATAP YEGVSHV G+M  A
Sbjct: 183 DGFNNIRSLVDVAGGIGGHVAEIVRAYPHIEGINFDLPHVVATAPKYEGVSHVAGNMFEA 242

Query: 248 VPNADAVFMKVIV 260
           +PNADA+F++ I+
Sbjct: 243 IPNADAIFIQRIL 255

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

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	266
TAIR|locus:2153423	363	OMT1 "AT5G54160" [Arabidopsis	0.890	0.652	0.395	1.1e-39
TAIR|locus:2132806	382	AT4G35160 [Arabidopsis thalian	0.928	0.646	0.373	7.8e-39
UNIPROTKB|Q6VMW0	366	OMT2 "8-hydroxyquercetin 8-O-m	0.943	0.685	0.358	1.9e-37
UNIPROTKB|B0EXJ8	355	16OMT "Tabersonine 16-O-methyl	0.947	0.709	0.358	3e-37
TAIR|locus:2132801	325	AT4G35150 [Arabidopsis thalian	0.428	0.350	0.429	4.4e-34
UNIPROTKB|Q84KK5	357	D7OMT "Isoflavone 7-O-methyltr	0.932	0.694	0.350	3.2e-33
UNIPROTKB|Q84KK4	365	HI4'OMT "Isoflavone 4'-O-methy	0.954	0.695	0.369	8.5e-33
TAIR|locus:2204695	381	AT1G77530 [Arabidopsis thalian	0.954	0.666	0.328	6e-32
TAIR|locus:2204680	381	AT1G77520 [Arabidopsis thalian	0.954	0.666	0.328	5.4e-31
TAIR|locus:2034016	363	AT1G51990 [Arabidopsis thalian	0.845	0.619	0.331	1.1e-30

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

 Score = 423 (154.0 bits), Expect = 1.1e-39, P = 1.1e-39
 Identities = 97/245 (39%), Positives = 144/245 (58%)

Query:    19 QLMFAFADSMALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRML 78
             QL  A    MALKSA+EL L +IM  +GSP++  ++AS + +  P+  ++  L RI+R+L
Sbjct:    25 QLASASVLPMALKSALELDLLEIMAKNGSPMSPTEIASKLPTKNPEAPVM--LDRILRLL 82

Query:    79 VRKGVFA-AHR--SSDGSEETMYGLTQISKWLLRDSE-MSLAPMILFQNSQLLQAPCHHL 134
                 V   ++R  S DG E  +YGL  + K+L ++ + +S+A + L    ++L    +HL
Sbjct:    83 TSYSVLTCSNRKLSGDGVER-IYGLGPVCKYLTKNEDGVSIAALCLMNQDKVLMESWYHL 141

Query:   135 SQCVEEGGHAFKKAHGCEMWDFAXXXXXXXXXXXKAMACTAKIVMSTLLSHYKDGFDGIR 194
                + +GG  F KA+G   +++              M+  + I M  +L  YK GF+G+ 
Sbjct:   142 KDAILDGGIPFNKAYGMSAFEYHGTDPRFNKVFNNGMSNHSTITMKKILETYK-GFEGLT 200

Query:   195 SLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPVYEGVSHVGGDMLNAVPNADAV 254
             SLVDVGGG G  L  IV  YP++KG+NFDLPHV+  AP + G+ HVGGDM  +VP  DA+
Sbjct:   201 SLVDVGGGIGATLKMIVSKYPNLKGINFDLPHVIEDAPSHPGIEHVGGDMFVSVPKGDAI 260

Query:   255 FMKVI 259
             FMK I
Sbjct:   261 FMKWI 265

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

TAIR|locus:2132806 AT4G35160 [Arabidopsis thaliana (taxid:3702)]

 Score = 415 (151.1 bits), Expect = 7.8e-39, P = 7.8e-39
 Identities = 99/265 (37%), Positives = 151/265 (56%)

Query:     6 VREDVLRGQAQVWQLMFAFADSMALKSAVELRLADIMHCHGS--PITLPQLASGINSSCP 63
             V ++  +    +W+ +F FAD  A K A++L++ + +  H S  P+TL +L+S +++S P
Sbjct:    22 VLDEEAKASLDIWKYVFGFADIAAAKCAIDLKIPEAIENHPSSQPVTLAELSSAVSAS-P 80

Query:    64 DVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL---RDSEMSLAPMIL 120
               H    L RIMR LV +G+F    + DG   T Y  T +S+ L+   RD + SLAP +L
Sbjct:    81 S-H----LRRIMRFLVHQGIFKEIPTKDGLA-TGYVNTPLSRRLMITRRDGK-SLAPFVL 133

Query:   121 FQNSQLLQAPCHHLSQCVEE--GGHA---FKKAHGCEMWDFAXXXXXXXXXXXKAMACTA 175
             F+ +  + AP   LS  V     G     F   HG ++W FA           +AMAC A
Sbjct:   134 FETTPEMLAPWLRLSSVVSSPVNGSTPPPFDAVHGKDVWSFAQDNPFLSDMINEAMACDA 193

Query:   176 KIVMSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPVYE 235
             + V+  +       FDG+ ++VDVGGGTGE +  +V+ +P IKG NFDLPHV+  A V +
Sbjct:   194 RRVVPRVAGACHGLFDGVTTMVDVGGGTGETMGMLVKEFPWIKGFNFDLPHVIEVAEVLD 253

Query:   236 GVSHVGGDMLNAVPNADAVFMKVIV 260
             GV +V GDM +++P  DA+F+K ++
Sbjct:   254 GVENVEGDMFDSIPACDAIFIKWVL 278

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

UNIPROTKB|Q6VMW0 OMT2 "8-hydroxyquercetin 8-O-methyltransferase" [Mentha x piperita (taxid:34256)]

 Score = 402 (146.6 bits), Expect = 1.9e-37, P = 1.9e-37
 Identities = 94/262 (35%), Positives = 139/262 (53%)

Query:     7 REDVLRGQAQVWQLMFAFADSMALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVH 66
             ++++L  QA VW  ++++ +SM+LK A++L + D +H HG+PITL QLA  +N +    H
Sbjct:    10 KQELLEAQAHVWNHIYSYINSMSLKCAIQLGIPDAIHKHGNPITLSQLADALNINKAKSH 69

Query:    67 IIPSLTRIMRMLVRKGVF-------AAHRSSDGSEETMYGLTQISKWLLRDSEMSLAPMI 119
                 L R+MR+LV  G F             +  EE  Y LT  S+ LLR   +S+AP  
Sbjct:    70 ---GLFRLMRILVHSGFFDKVKVKVKVEGEDEEEEEDAYSLTPASRLLLRSEPLSVAPFA 126

Query:   120 LFQNSQLLQAPCHHLSQCVEEGG-HAFKKAHGCEMWDFAXXXXXXXXXXXKAMACTAKIV 178
             L  +  +     HHLS+        AF   +G    ++A           +AMAC A  V
Sbjct:   127 LAMSDPVYTETWHHLSEWFRNDAVAAFDTKYGMTFPEYAVADDRLNVLFNEAMACDAGFV 186

Query:   179 MSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPVYEGVS 238
              S L +  ++ FDG+ S+VDVGGGTG     I   +P ++    DLP+VV      E +S
Sbjct:   187 NSILTTECREIFDGLESMVDVGGGTGATAKGIAAAFPGMECTVLDLPNVVGGLKGSENLS 246

Query:   239 HVGGDMLNAVPNADAVFMKVIV 260
              V GDM + +P+ADA+FMK I+
Sbjct:   247 FVSGDMFDFIPHADAIFMKFIL 268

GO:0009812 "flavonoid metabolic process" evidence=IDA

GO:0030761 "8-hydroxyquercitin 8-O-methyltransferase activity" evidence=IDA

GO:0032259 "methylation" evidence=IDA

UNIPROTKB|B0EXJ8 16OMT "Tabersonine 16-O-methyltransferase" [Catharanthus roseus (taxid:4058)]

 Score = 400 (145.9 bits), Expect = 3.0e-37, P = 3.0e-37
 Identities = 94/262 (35%), Positives = 140/262 (53%)

Query:     5 DVREDVLRG-QAQVWQLMFAFADSMALKSAVELRLADIMHCHGSPITLPQLASGINSSCP 63
             DV+ +  RG QAQ+W    +F  S +LK AV+L + D +  HG PITL +L    N+  P
Sbjct:     2 DVQSEEFRGAQAQIWSQSCSFITSASLKCAVKLGIPDTIDNHGKPITLSELT---NALVP 58

Query:    64 DVHI--IPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLLRDSEMSLAPMILF 121
              VH    P + R+MR+L + G F +    DG  E +Y LT  S+ LL+   ++L  ++L 
Sbjct:    59 PVHPSKAPFIYRLMRVLAKNG-FCSEEQLDGETEPLYSLTPSSRILLKKEPLNLRGIVLT 117

Query:   122 QNSQLLQAPCHHLS---QCVEEGGHAFKKAHGCEMWDFAXXXXXXXXXXXKAMACTAKIV 178
                 +       LS   Q  ++   AF+ AHG   W ++           +AMA  ++++
Sbjct:   118 MADPVQLKAWESLSDWYQNEDDSSTAFETAHGKNFWGYSSEHMEHAEFFNEAMASDSQLI 177

Query:   179 MSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPVYEGVS 238
                L+  YK  F+G+ SLVD+GGGTG     I + +P +K   FDLPHVVA     E V 
Sbjct:   178 SKLLIGEYKFLFEGLASLVDIGGGTGTIAKAIAKNFPQLKCTVFDLPHVVANLESKENVE 237

Query:   239 HVGGDMLNAVPNADAVFMKVIV 260
              V GDM   +P+A+A+F+K I+
Sbjct:   238 FVAGDMFEKIPSANAIFLKWIL 259

GO:0005737 "cytoplasm" evidence=IDA

GO:0009821 "alkaloid biosynthetic process" evidence=IDA

GO:0030766 "11-O-demethyl-17-O-deacetylvindoline O-methyltransferase activity" evidence=IDA

GO:0032259 "methylation" evidence=IDA

GO:0042803 "protein homodimerization activity" evidence=IDA

TAIR|locus:2132801 AT4G35150 [Arabidopsis thaliana (taxid:3702)]

 Score = 254 (94.5 bits), Expect = 4.4e-34, Sum P(2) = 4.4e-34
 Identities = 49/114 (42%), Positives = 73/114 (64%)

Query:   147 KAHGCEMWDFAXXXXXXXXXXXKAMACTAKIVMSTLLSHYKDGFDGIRSLVDVGGGTGEE 206
             K HG ++W FA           +AMAC A+ V+  +    +  FDG+ ++VDVGGGTGE 
Sbjct:   108 KLHGKDLWAFAQDNLCHSQLINEAMACDARRVVPRVAGACQGLFDGVATVVDVGGGTGET 167

Query:   207 LAEIVEFYPHIKGVNFDLPHVVATAPVYEGVSHVGGDMLNAVPNADAVFMKVIV 260
             +  +V+ +P IKG NFDLPHV+  A V +GV +V GDM +++P +DAV +K ++
Sbjct:   168 MGILVKEFPWIKGFNFDLPHVIEVAQVLDGVENVEGDMFDSIPASDAVIIKWVL 221

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

UNIPROTKB|Q84KK5 D7OMT "Isoflavone 7-O-methyltransferase" [Glycyrrhiza echinata (taxid:46348)]

 Score = 362 (132.5 bits), Expect = 3.2e-33, P = 3.2e-33
 Identities = 89/254 (35%), Positives = 134/254 (52%)

Query:     9 DVLRGQAQVWQLMFAFADSMALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHII 68
             ++ +GQA +++ ++AF DSM LK  VEL + +I+H HG PIT+ +L S +    P     
Sbjct:    12 EIFQGQALLYRHIYAFIDSMCLKWIVELDIPNIIHNHGKPITVSELVSILK--VPQTKA- 68

Query:    69 PSLTRIMRMLVRKGVFAAHRSSDGSEET-MYGLTQISKWLLRDSEMSLAPMILFQNSQLL 127
              ++ RIMR +   G F   R  +  EE   Y LT  S+ L++ SE+ LAPM+       L
Sbjct:    69 GNVQRIMRYMAHNGFFERVRIQEEQEENEAYALTAASELLVKGSELCLAPMVECVLDPTL 128

Query:   128 QAPCHHLSQCV-EEGGHAFKKAHGCEMWDFAXXXXXXXXXXXKAMACTAKIVMSTLLSHY 186
                 H L + + EE    F  + G   W+F             AMA  ++++ +  L   
Sbjct:   129 SGSYHQLKKWIYEEDLTLFGVSLGSHFWEFLNENPEYNKSFNDAMASDSQMI-NLALRDC 187

Query:   187 KDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPVYEGVSHVGGDMLN 246
               GF+G+ S+VDVGGG G     I + +P++K + FD P VV        +S+VGGDM  
Sbjct:   188 NSGFEGVESIVDVGGGIGTTAKIICDTFPNLKCIVFDRPKVVENLSGTNNLSYVGGDMFQ 247

Query:   247 AVPNADAVFMKVIV 260
             +VP ADAV +K I+
Sbjct:   248 SVPKADAVLLKWIL 261

GO:0009717 "isoflavonoid biosynthetic process" evidence=IDA

GO:0033800 "isoflavone 7-O-methyltransferase activity" evidence=IDA

UNIPROTKB|Q84KK4 HI4'OMT "Isoflavone 4'-O-methyltransferase" [Lotus japonicus (taxid:34305)]

 Score = 358 (131.1 bits), Expect = 8.5e-33, P = 8.5e-33
 Identities = 99/268 (36%), Positives = 139/268 (51%)

Query:     3 SADVREDVLRGQAQV--WQLMFAFADSMALKSAVELRLADIMHCHGSPITLPQLASGINS 60
             S++  ED    QAQ+  ++ ++ F  SMALKSA+EL +AD++H HG PITLP+LA+ +N 
Sbjct:     5 SSNGSEDTELSQAQIHLYKHVYNFVSSMALKSAMELGIADVIHSHGKPITLPELATALNL 64

Query:    61 SCPDVHIIPSLTRIMRMLVRKGVFA---AHRSSDGSEETMYGLTQISKWLLRDSEMSLAP 117
                 + +   L R +R+L   G FA     R     EET YGLT  SK L++ +   LAP
Sbjct:    65 RPSKIGV---LHRFLRLLTHNGFFAKTTVSRGEGAEEETAYGLTPPSKLLVKSNSTCLAP 121

Query:   118 MI---LFQNS-QLLQAPCHHLSQCVEEGGHAFKKAHGCEMWDFAXXXXXXXXXXXKAMAC 173
             ++   L  +S  + ++      +  EE    F+ A G   W+F               A 
Sbjct:   122 IVKGALHPSSLDMWRSSKKWFLEDNEELT-LFESATGESFWEFLNKETESDTLSMFQEAM 180

Query:   174 TAKIVMSTL-LSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAP 232
              A   M  L L   K  F+G+ SLVDV GG G     I E +PH+K   FD P VVA   
Sbjct:   181 AADSHMFKLALKECKHVFEGLGSLVDVAGGRGGVTKLIREAFPHVKCTVFDQPQVVANLT 240

Query:   233 VYEGVSHVGGDMLNAVPNADAVFMKVIV 260
               E ++ VGGDM  +VP ADAV +K ++
Sbjct:   241 GDENLNFVGGDMFKSVPPADAVLLKWVL 268

GO:0009701 "isoflavonoid phytoalexin biosynthetic process" evidence=IDA

GO:0030746 "isoflavone 4'-O-methyltransferase activity" evidence=IDA

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

 Score = 350 (128.3 bits), Expect = 6.0e-32, P = 6.0e-32
 Identities = 89/271 (32%), Positives = 146/271 (53%)

Query:     2 ESADVREDVLRGQAQVWQLMFAFADSMALKSAVELRLADIMHC--HGSPITLPQLASGIN 59
             E  ++ E ++  QA+   ++ A A  M LK+A+EL + D +    +G+ ++  ++A  + 
Sbjct:    20 EEQEIDEKMVSLQAE--SIVNAVAFPMVLKAALELGVIDTIAAASNGTWLSPSEIAVSLP 77

Query:    60 S--SCPDVHIIPSLTRIMRMLVRKGVF------AAHRSSDGSEETMYGLTQISKWLLRDS 111
             +  + P+  ++  L R++R+LV   +       +      G  E +Y    I K+ L+DS
Sbjct:    78 NKPTNPEAPVL--LDRMLRLLVSHSILKCCMVESRENGQTGKIERVYAAEPICKYFLKDS 135

Query:   112 EMS--LAPMILFQNSQLLQAPCHHLSQCVEEGGHAFKKAHGCEMWDFAXXXXXXXXXXXK 169
             + S  L+ ++L  +SQ++     +L   + EG  AF  AH   ++++            +
Sbjct:   136 DGSGSLSSLLLLLHSQVILKTWTNLKDVILEGKDAFSSAHDMRLFEYISSDDQFSKLFHR 195

Query:   170 AMACTAKIVMSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVA 229
             AM+ ++ +VM  +L  Y+ GF+ + +LVDVGGG G  L  I   YPHIKGVNFDL  V+ 
Sbjct:   196 AMSESSTMVMKKVLEEYR-GFEDVNTLVDVGGGIGTILGLITSKYPHIKGVNFDLAQVLT 254

Query:   230 TAPVYEGVSHVGGDMLNAVPNADAVFMKVIV 260
              AP Y GV HV GDM   VP  DA+FMK I+
Sbjct:   255 QAPFYPGVKHVSGDMFIEVPKGDAIFMKWIL 285

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 = 341 (125.1 bits), Expect = 5.4e-31, P = 5.4e-31
 Identities = 89/271 (32%), Positives = 140/271 (51%)

Query:     2 ESADVREDVLRGQAQVWQLMFAFADSMALKSAVELRLADIMHCHGSPITL-P-QLASGIN 59
             E  +V E ++  QA+   ++   A  M LK+A EL + D +   G+   L P ++A  + 
Sbjct:    20 EEQEVDEKMVSLQAE--SIVNTVAFPMVLKAAFELGVIDTIAAAGNDTWLSPCEIACSLP 77

Query:    60 S--SCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSE------ETMYGLTQISKWLLRDS 111
             +  + P+  ++  L R++ +LV   +        G        E +Y    + K+ LRDS
Sbjct:    78 TKPTNPEAPVL--LDRMLSLLVSHSILKCRMIETGENGRTGKIERVYAAEPVCKYFLRDS 135

Query:   112 EM--SLAPMILFQNSQLLQAPCHHLSQCVEEGGHAFKKAHGCEMWDFAXXXXXXXXXXXK 169
             +   SL P+ +  ++Q+      +L   + EG  AF  AHG +++++            +
Sbjct:   136 DGTGSLVPLFMLLHTQVFFKTWTNLKDVILEGRDAFNSAHGMKIFEYINSDQPFAELFNR 195

Query:   170 AMACTAKIVMSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVA 229
             AM+  + ++M  +L  Y+ GF+ + +LVDVGGG G  L  +   YPHIKGVNFDL  V+ 
Sbjct:   196 AMSEPSTMIMKKVLDVYR-GFEDVNTLVDVGGGNGTVLGLVTSKYPHIKGVNFDLAQVLT 254

Query:   230 TAPVYEGVSHVGGDMLNAVPNADAVFMKVIV 260
              AP Y GV HV GDM   VP  DAVFMK I+
Sbjct:   255 QAPFYPGVEHVSGDMFVEVPKGDAVFMKWIL 285

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:2034016 AT1G51990 [Arabidopsis thaliana (taxid:3702)]

 Score = 338 (124.0 bits), Expect = 1.1e-30, P = 1.1e-30
 Identities = 80/241 (33%), Positives = 131/241 (54%)

Query:    30 LKSAVELRLADIMH------CHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGV 83
             +K+A EL L +IM        + SP+ L  +A+  N   P +     + R++R LV   V
Sbjct:    32 VKTARELDLFEIMAKARPLGSYLSPVDLASMAAPKNPHAPMM-----IDRLLRFLVAYSV 86

Query:    84 FAAH--RSSDGSEETMYGLTQISKWLLRDSE-MSLAPMILFQNSQLLQAPCHHLSQCVEE 140
                   +  +G E   YGL ++ K L++D +  S+AP +L   ++       +L++ ++E
Sbjct:    87 CTCKLVKDEEGRESRAYGLGKVGKKLIKDEDGFSIAPYVLAGCTKAKGGVWSYLTEAIQE 146

Query:   141 GG-HAFKKAHGCEMWDFAXXXXXXXXXXXKAMACTAKIVMSTLLSHYKDGFDGIRSLVDV 199
             GG  A+++A+   ++++            ++M     IVM  +L +Y  GF+G+   VDV
Sbjct:   147 GGASAWERANEALIFEYMKKNENLKKIFNESMTNHTSIVMKKILENYI-GFEGVSDFVDV 205

Query:   200 GGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPVYEGVSHVGGDMLNAVPNADAVFMKVI 259
             GG  G  LA+I+  YPHIKG+NFDLPH+V  AP   GV H+GGDM + +P  + + MK I
Sbjct:   206 GGSLGSNLAQILSKYPHIKGINFDLPHIVKEAPQIHGVEHIGGDMFDEIPRGEVILMKWI 265

Query:   260 V 260
             +
Sbjct:   266 L 266

GO:0008168 "methyltransferase activity" evidence=IEA

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

GO:0009507 "chloroplast" evidence=ISM

GO:0046983 "protein dimerization activity" evidence=IEA

GO:0009809 "lignin biosynthetic process" evidence=ISS

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

No confident hit for EC number transfering in SWISSPROT detected by BLAST

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	LOW CONFIDENCE prediction!

---

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	266
pfam00891	239	pfam00891, Methyltransf_2, O-methyltransferase	1e-57
pfam08100	50	pfam08100, Dimerisation, Dimerisation domain	1e-10

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

 Score =  183 bits (467), Expect = 1e-57
 Identities = 74/167 (44%), Positives = 99/167 (59%), Gaps = 2/167 (1%)

Query: 94  EETMYGLTQISKWLLRDSEM-SLAPMILFQNSQLLQAPCHHLSQCVEEGGHAFKKAHGCE 152
               YGLT  SK L++  +  SLAP++L      L     HL   V EGG  F++A G  
Sbjct: 3   GGEDYGLTPASKLLVKGEDSPSLAPLLLMYADPTLLESWAHLKDAVREGGPPFERAFGMP 62

Query: 153 MWDFASQNSQFNNSFNKAMACTAKIVMSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVE 212
            +++   + +FN  FN+AMA  +++VM  +L    D F G+ SLVDVGGGTG   A IV 
Sbjct: 63  FFEYLGADPEFNRVFNRAMAAHSRLVMKKILETAFD-FSGLSSLVDVGGGTGALAAAIVR 121

Query: 213 FYPHIKGVNFDLPHVVATAPVYEGVSHVGGDMLNAVPNADAVFMKVI 259
            YPHIKG+ FDLPHV+A AP  + V  VGGD   +VP ADA+ +K +
Sbjct: 122 AYPHIKGIVFDLPHVIADAPSADRVEFVGGDFFESVPEADAILLKWV 168

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

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

 Score = 55.3 bits (134), Expect = 1e-10
 Identities = 19/52 (36%), Positives = 31/52 (59%), Gaps = 2/52 (3%)

Query: 28 MALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLV 79
          M LK A+EL + DI+  HG P++  +LAS + +  P+      L R++R+L 
Sbjct: 1  MVLKCAIELGIPDIIAKHGKPLSPSELASKLPTVNPEA--PVMLDRLLRLLA 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	266
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
PRK06922	677	hypothetical protein; Provisional	99.03
PF12847	112	Methyltransf_18: Methyltransferase domain; PDB: 3G	99.02
PF08100	51	Dimerisation: Dimerisation domain; InterPro: IPR01	98.96
PF13847	152	Methyltransf_31: Methyltransferase domain; PDB: 3T	98.89
PRK14103	255	trans-aconitate 2-methyltransferase; Provisional	98.89
TIGR03587	204	Pse_Me-ase pseudaminic acid biosynthesis-associate	98.88
PRK01683	258	trans-aconitate 2-methyltransferase; Provisional	98.84
smart00138	264	MeTrc Methyltransferase, chemotaxis proteins. Meth	98.8
PRK15451	247	tRNA cmo(5)U34 methyltransferase; Provisional	98.77
COG2226	238	UbiE Methylase involved in ubiquinone/menaquinone	98.77
TIGR02021	219	BchM-ChlM magnesium protoporphyrin O-methyltransfe	98.76
TIGR00740	239	methyltransferase, putative. A simple BLAST search	98.76
TIGR02752	231	MenG_heptapren 2-heptaprenyl-1,4-naphthoquinone me	98.73
PF08242	99	Methyltransf_12: Methyltransferase domain; InterPr	98.69
PLN02233	261	ubiquinone biosynthesis methyltransferase	98.67
smart00828	224	PKS_MT Methyltransferase in polyketide synthase (P	98.66
PLN02244	340	tocopherol O-methyltransferase	98.66
PRK08287	187	cobalt-precorrin-6Y C(15)-methyltransferase; Valid	98.64
PLN03075	296	nicotianamine synthase; Provisional	98.64
PRK11207	197	tellurite resistance protein TehB; Provisional	98.63
PRK06202	232	hypothetical protein; Provisional	98.61
COG4106	257	Tam Trans-aconitate methyltransferase [General fun	98.61
PRK08317	241	hypothetical protein; Provisional	98.6
PTZ00098	263	phosphoethanolamine N-methyltransferase; Provision	98.59
PF01209	233	Ubie_methyltran: ubiE/COQ5 methyltransferase famil	98.58
PF08241	95	Methyltransf_11: Methyltransferase domain; InterPr	98.57
PRK05785	226	hypothetical protein; Provisional	98.57
PLN02490	340	MPBQ/MSBQ methyltransferase	98.55
PRK00216	239	ubiE ubiquinone/menaquinone biosynthesis methyltra	98.55
TIGR02072	240	BioC biotin biosynthesis protein BioC. This enzyme	98.54
PF13649	101	Methyltransf_25: Methyltransferase domain; PDB: 3B	98.53
PLN02336	475	phosphoethanolamine N-methyltransferase	98.53
PRK07580	230	Mg-protoporphyrin IX methyl transferase; Validated	98.51
PRK10258	251	biotin biosynthesis protein BioC; Provisional	98.49
PRK15068	322	tRNA mo(5)U34 methyltransferase; Provisional	98.48
PRK11036	255	putative S-adenosyl-L-methionine-dependent methylt	98.47
TIGR00138	181	gidB 16S rRNA methyltransferase GidB. GidB (glucos	98.44
TIGR02469	124	CbiT precorrin-6Y C5,15-methyltransferase (decarbo	98.43
TIGR01934	223	MenG_MenH_UbiE ubiquinone/menaquinone biosynthesis	98.42
PF05175	170	MTS: Methyltransferase small domain; InterPro: IPR	98.41
PRK15001	378	SAM-dependent 23S ribosomal RNA mG1835 methyltrans	98.41
TIGR03533	284	L3_gln_methyl protein-(glutamine-N5) methyltransfe	98.39
PRK00107	187	gidB 16S rRNA methyltransferase GidB; Reviewed	98.38
KOG1540	296	consensus Ubiquinone biosynthesis methyltransferas	98.38
TIGR00477	195	tehB tellurite resistance protein TehB. Part of a	98.37
TIGR00536	284	hemK_fam HemK family putative methylases. The gene	98.35
PRK11805	307	N5-glutamine S-adenosyl-L-methionine-dependent met	98.35
PRK09489	342	rsmC 16S ribosomal RNA m2G1207 methyltransferase;	98.34
PRK04457	262	spermidine synthase; Provisional	98.33
PLN02396	322	hexaprenyldihydroxybenzoate methyltransferase	98.33
COG2890	280	HemK Methylase of polypeptide chain release factor	98.33
TIGR00452	314	methyltransferase, putative. Known examples to dat	98.32
PF07021	193	MetW: Methionine biosynthesis protein MetW; InterP	98.31
PRK11873	272	arsM arsenite S-adenosylmethyltransferase; Reviewe	98.25
PRK13944	205	protein-L-isoaspartate O-methyltransferase; Provis	98.25
PF05401	201	NodS: Nodulation protein S (NodS); InterPro: IPR00	98.25
TIGR02081	194	metW methionine biosynthesis protein MetW. This pr	98.25
COG2242	187	CobL Precorrin-6B methylase 2 [Coenzyme metabolism	98.23
PRK14966	423	unknown domain/N5-glutamine S-adenosyl-L-methionin	98.22
PRK13942	212	protein-L-isoaspartate O-methyltransferase; Provis	98.22
PRK12335	287	tellurite resistance protein TehB; Provisional	98.21
TIGR03534	251	RF_mod_PrmC protein-(glutamine-N5) methyltransfera	98.2
PRK01544	506	bifunctional N5-glutamine S-adenosyl-L-methionine-	98.17
TIGR00537	179	hemK_rel_arch HemK-related putative methylase. The	98.17
smart00650	169	rADc Ribosomal RNA adenine dimethylases.	98.17
TIGR00080	215	pimt protein-L-isoaspartate(D-aspartate) O-methylt	98.17
COG2813	300	RsmC 16S RNA G1207 methylase RsmC [Translation, ri	98.15
PRK09328	275	N5-glutamine S-adenosyl-L-methionine-dependent met	98.15
COG4123	248	Predicted O-methyltransferase [General function pr	98.14
PLN02585	315	magnesium protoporphyrin IX methyltransferase	98.13
TIGR00091	194	tRNA (guanine-N(7)-)-methyltransferase. In E. coli	98.1
KOG1271	227	consensus Methyltransferases [General function pre	98.08
PLN02336	475	phosphoethanolamine N-methyltransferase	98.08
PRK14896	258	ksgA 16S ribosomal RNA methyltransferase KsgA/Dim1	98.08
PRK11088	272	rrmA 23S rRNA methyltransferase A; Provisional	98.07
TIGR03704	251	PrmC_rel_meth putative protein-(glutamine-N5) meth	98.06
PF13659	117	Methyltransf_26: Methyltransferase domain; PDB: 3G	98.04
PF13489	161	Methyltransf_23: Methyltransferase domain; PDB: 3J	98.04
PRK00274	272	ksgA 16S ribosomal RNA methyltransferase KsgA/Dim1	98.03
PRK00121	202	trmB tRNA (guanine-N(7)-)-methyltransferase; Revie	98.02
PRK14121	390	tRNA (guanine-N(7)-)-methyltransferase; Provisiona	98.0
TIGR03438	301	probable methyltransferase. This model represents	98.0
PRK07402	196	precorrin-6B methylase; Provisional	97.98
COG2230	283	Cfa Cyclopropane fatty acid synthase and related m	97.96
TIGR00755	253	ksgA dimethyladenosine transferase. Alternate name	97.94
PHA03411	279	putative methyltransferase; Provisional	97.93
PRK11705	383	cyclopropane fatty acyl phospholipid synthase; Pro	97.9
PLN02366	308	spermidine synthase	97.89
COG2227	243	UbiG 2-polyprenyl-3-methyl-5-hydroxy-6-metoxy-1,4-	97.88
PRK00312	212	pcm protein-L-isoaspartate O-methyltransferase; Re	97.87
cd02440	107	AdoMet_MTases S-adenosylmethionine-dependent methy	97.85
PF02353	273	CMAS: Mycolic acid cyclopropane synthetase; InterP	97.84
KOG1270	282	consensus Methyltransferases [Coenzyme transport a	97.84
TIGR03840	213	TMPT_Se_Te thiopurine S-methyltransferase, Se/Te d	97.83
PF03848	192	TehB: Tellurite resistance protein TehB; InterPro:	97.81
PRK00811	283	spermidine synthase; Provisional	97.81
PHA03412	241	putative methyltransferase; Provisional	97.8
PRK14967	223	putative methyltransferase; Provisional	97.79
PTZ00338	294	dimethyladenosine transferase-like protein; Provis	97.77
PRK01581	374	speE spermidine synthase; Validated	97.77
PRK14968	188	putative methyltransferase; Provisional	97.75
PRK00377	198	cbiT cobalt-precorrin-6Y C(15)-methyltransferase;	97.75
PLN02672	1082	methionine S-methyltransferase	97.73
PRK11188	209	rrmJ 23S rRNA methyltransferase J; Provisional	97.73
PRK05134	233	bifunctional 3-demethylubiquinone-9 3-methyltransf	97.69
PRK13943	322	protein-L-isoaspartate O-methyltransferase; Provis	97.68
PRK04266	226	fibrillarin; Provisional	97.63
TIGR01983	224	UbiG ubiquinone biosynthesis O-methyltransferase.	97.62
PRK04148	134	hypothetical protein; Provisional	97.61
TIGR00406	288	prmA ribosomal protein L11 methyltransferase. Ribo	97.59
PRK03612	521	spermidine synthase; Provisional	97.58
COG2263	198	Predicted RNA methylase [Translation, ribosomal st	97.54
PRK00050	296	16S rRNA m(4)C1402 methyltranserfase; Provisional	97.51
COG0421	282	SpeE Spermidine synthase [Amino acid transport and	97.5
PF08123	205	DOT1: Histone methylation protein DOT1 ; InterPro:	97.49
PRK13255	218	thiopurine S-methyltransferase; Reviewed	97.49
PF01135	209	PCMT: Protein-L-isoaspartate(D-aspartate) O-methyl	97.48
PRK13168	443	rumA 23S rRNA m(5)U1939 methyltransferase; Reviewe	97.48
KOG2904	328	consensus Predicted methyltransferase [General fun	97.47
PRK00517	250	prmA ribosomal protein L11 methyltransferase; Revi	97.45
PF02390	195	Methyltransf_4: Putative methyltransferase ; Inter	97.45
TIGR00438	188	rrmJ cell division protein FtsJ.	97.43
PF09339	52	HTH_IclR: IclR helix-turn-helix domain; InterPro:	97.43
PLN02823	336	spermine synthase	97.41
TIGR00417	270	speE spermidine synthase. the SpeE subunit of sper	97.4
PRK10909	199	rsmD 16S rRNA m(2)G966-methyltransferase; Provisio	97.39
KOG2899	288	consensus Predicted methyltransferase [General fun	97.37
COG2518	209	Pcm Protein-L-isoaspartate carboxylmethyltransfera	97.36
PRK03522	315	rumB 23S rRNA methyluridine methyltransferase; Rev	97.34
PRK11727	321	23S rRNA mA1618 methyltransferase; Provisional	97.32
KOG1500	517	consensus Protein arginine N-methyltransferase CAR	97.3
KOG0820	315	consensus Ribosomal RNA adenine dimethylase [RNA p	97.29
PF05185	448	PRMT5: PRMT5 arginine-N-methyltransferase; InterPr	97.29
COG2264	300	PrmA Ribosomal protein L11 methylase [Translation,	97.28
PF06325	295	PrmA: Ribosomal protein L11 methyltransferase (Prm	97.24
PLN02781	234	Probable caffeoyl-CoA O-methyltransferase	97.24
PRK00536	262	speE spermidine synthase; Provisional	97.2
PF10294	173	Methyltransf_16: Putative methyltransferase; Inter	97.18
PF08003	315	Methyltransf_9: Protein of unknown function (DUF16	97.17
PF06080	204	DUF938: Protein of unknown function (DUF938); Inte	97.16
PRK14902	444	16S rRNA methyltransferase B; Provisional	97.15
KOG1541	270	consensus Predicted protein carboxyl methylase [Ge	97.12
TIGR01177	329	conserved hypothetical protein TIGR01177. This fam	97.08
PRK10901	427	16S rRNA methyltransferase B; Provisional	97.07
smart00346	91	HTH_ICLR helix_turn_helix isocitrate lyase regulat	97.07
PTZ00146	293	fibrillarin; Provisional	97.01
COG0220	227	Predicted S-adenosylmethionine-dependent methyltra	96.98
TIGR02085	374	meth_trns_rumB 23S rRNA (uracil-5-)-methyltransfer	96.97
smart00550	68	Zalpha Z-DNA-binding domain in adenosine deaminase	96.94
TIGR00479	431	rumA 23S rRNA (uracil-5-)-methyltransferase RumA.	96.93
PF01564	246	Spermine_synth: Spermine/spermidine synthase; Inte	96.92
COG1414	246	IclR Transcriptional regulator [Transcription]	96.79
TIGR02431	248	pcaR_pcaU beta-ketoadipate pathway transcriptional	96.77
PF00398	262	RrnaAD: Ribosomal RNA adenine dimethylase; InterPr	96.77
PRK11569	274	transcriptional repressor IclR; Provisional	96.75
KOG1499	346	consensus Protein arginine N-methyltransferase PRM	96.75
PF01596	205	Methyltransf_3: O-methyltransferase; InterPro: IPR	96.74
PF01739	196	CheR: CheR methyltransferase, SAM binding domain;	96.73
PRK13256	226	thiopurine S-methyltransferase; Reviewed	96.71
KOG3010	261	consensus Methyltransferase [General function pred	96.71
TIGR00095	189	RNA methyltransferase, RsmD family. This model rep	96.71
PF09445	163	Methyltransf_15: RNA cap guanine-N2 methyltransfer	96.7
PRK10163	271	DNA-binding transcriptional repressor AllR; Provis	96.67
TIGR00478	228	tly hemolysin TlyA family protein. Hemolysins are	96.67
COG0030	259	KsgA Dimethyladenosine transferase (rRNA methylati	96.66
PF13679	141	Methyltransf_32: Methyltransferase domain	96.62
PF13463	68	HTH_27: Winged helix DNA-binding domain; PDB: 3GFL	96.6
PRK10611	287	chemotaxis methyltransferase CheR; Provisional	96.57
PRK09834	263	DNA-binding transcriptional activator MhpR; Provis	96.53
PRK14904	445	16S rRNA methyltransferase B; Provisional	96.52
TIGR01444	143	fkbM_fam methyltransferase, FkbM family. Members o	96.5
PF12840	61	HTH_20: Helix-turn-helix domain; PDB: 1ULY_A 2CWE_	96.47
PF05724	218	TPMT: Thiopurine S-methyltransferase (TPMT); Inter	96.44
PRK15090	257	DNA-binding transcriptional regulator KdgR; Provis	96.43
COG1352	268	CheR Methylase of chemotaxis methyl-accepting prot	96.4
PRK11783	702	rlmL 23S rRNA m(2)G2445 methyltransferase; Provisi	96.39
PRK15128	396	23S rRNA m(5)C1962 methyltransferase; Provisional	96.38
PRK05031	362	tRNA (uracil-5-)-methyltransferase; Validated	96.34
TIGR02143	353	trmA_only tRNA (uracil-5-)-methyltransferase. This	96.33
PRK11760	357	putative 23S rRNA C2498 ribose 2'-O-ribose methylt	96.33
PF12147	311	Methyltransf_20: Putative methyltransferase; Inter	96.3
PLN02476	278	O-methyltransferase	96.27
TIGR02337	118	HpaR homoprotocatechuate degradation operon regula	96.21
PRK10141	117	DNA-binding transcriptional repressor ArsR; Provis	96.16
TIGR00563	426	rsmB ribosomal RNA small subunit methyltransferase	96.07
KOG3115	249	consensus Methyltransferase-like protein [General	96.03
smart00347	101	HTH_MARR helix_turn_helix multiple antibiotic resi	96.02
PRK01544	506	bifunctional N5-glutamine S-adenosyl-L-methionine-	95.99
PRK14903	431	16S rRNA methyltransferase B; Provisional	95.98
KOG3420	185	consensus Predicted RNA methylase [Translation, ri	95.96
smart00419	48	HTH_CRP helix_turn_helix, cAMP Regulatory protein.	95.95
PF02527	184	GidB: rRNA small subunit methyltransferase G; Inte	95.91
PF04816	205	DUF633: Family of unknown function (DUF633) ; Inte	95.9
PRK14901	434	16S rRNA methyltransferase B; Provisional	95.88
PF01978	68	TrmB: Sugar-specific transcriptional regulator Trm	95.86
cd00092	67	HTH_CRP helix_turn_helix, cAMP Regulatory protein	95.85
PF14947	77	HTH_45: Winged helix-turn-helix; PDB: 1XSX_B 1R7J_	95.84
PF01022	47	HTH_5: Bacterial regulatory protein, arsR family;	95.84
COG4262	508	Predicted spermidine synthase with an N-terminal m	95.81
PF01170	179	UPF0020: Putative RNA methylase family UPF0020; In	95.79
PF03141	506	Methyltransf_29: Putative S-adenosyl-L-methionine-	95.79
TIGR00446	264	nop2p NOL1/NOP2/sun family putative RNA methylase.	95.75
PF09243	274	Rsm22: Mitochondrial small ribosomal subunit Rsm22	95.75
PF07091	251	FmrO: Ribosomal RNA methyltransferase (FmrO); PDB:	95.7
PF13412	48	HTH_24: Winged helix-turn-helix DNA-binding; PDB:	95.64
PRK11512	144	DNA-binding transcriptional repressor MarR; Provis	95.63
PF07757	112	AdoMet_MTase: Predicted AdoMet-dependent methyltra	95.55
COG2519	256	GCD14 tRNA(1-methyladenosine) methyltransferase an	95.47
PF05148	219	Methyltransf_8: Hypothetical methyltransferase; In	95.46
KOG1661	237	consensus Protein-L-isoaspartate(D-aspartate) O-me	95.39
PF13601	80	HTH_34: Winged helix DNA-binding domain; PDB: 1UB9	95.31
COG4122	219	Predicted O-methyltransferase [General function pr	95.27
COG3963	194	Phospholipid N-methyltransferase [Lipid metabolism	95.21
COG0357	215	GidB Predicted S-adenosylmethionine-dependent meth	95.17
PRK04338	382	N(2),N(2)-dimethylguanosine tRNA methyltransferase	95.15
PRK11783	702	rlmL 23S rRNA m(2)G2445 methyltransferase; Provisi	95.14
PLN02589	247	caffeoyl-CoA O-methyltransferase	95.12
PHA00738	108	putative HTH transcription regulator	95.07
PF02082	83	Rrf2: Transcriptional regulator; InterPro: IPR0009	95.04
PF08461	66	HTH_12: Ribonuclease R winged-helix domain; InterP	95.02
PRK03902	142	manganese transport transcriptional regulator; Pro	95.01
PRK03573	144	transcriptional regulator SlyA; Provisional	94.98
KOG2361	264	consensus Predicted methyltransferase [General fun	94.88
TIGR00006	305	S-adenosyl-methyltransferase MraW. Genetics paper	94.81
PRK10857	164	DNA-binding transcriptional regulator IscR; Provis	94.7
PF02475	200	Met_10: Met-10+ like-protein; InterPro: IPR003402	94.67
PF01795	310	Methyltransf_5: MraW methylase family; InterPro: I	94.6
PF01638	90	HxlR: HxlR-like helix-turn-helix; InterPro: IPR002	94.55
COG4742	260	Predicted transcriptional regulator [Transcription	94.47
KOG3191	209	consensus Predicted N6-DNA-methyltransferase [Tran	94.43
PF09012	69	FeoC: FeoC like transcriptional regulator; InterPr	94.29
COG2384	226	Predicted SAM-dependent methyltransferase [General	94.28
PF04967	53	HTH_10: HTH DNA binding domain; InterPro: IPR00705	94.26
PF03291	331	Pox_MCEL: mRNA capping enzyme; InterPro: IPR004971	94.23
PRK11050	152	manganese transport regulator MntR; Provisional	94.18
COG0293	205	FtsJ 23S rRNA methylase [Translation, ribosomal st	94.16
COG4976	287	Predicted methyltransferase (contains TPR repeat)	94.13
TIGR01889	109	Staph_reg_Sar staphylococcal accessory regulator f	94.12
PF04703	62	FaeA: FaeA-like protein; PDB: 2JT1_A 2HTJ_A.	94.03
COG2345	218	Predicted transcriptional regulator [Transcription	93.98
PF08220	57	HTH_DeoR: DeoR-like helix-turn-helix domain; Inter	93.95
KOG4300	252	consensus Predicted methyltransferase [General fun	93.91
PF08704	247	GCD14: tRNA methyltransferase complex GCD14 subuni	93.78
PF12802	62	MarR_2: MarR family; PDB: 3ECO_B 2QWW_B 3KP6_B 3KP	93.71
COG1321	154	TroR Mn-dependent transcriptional regulator [Trans	93.68
COG4076	252	Predicted RNA methylase [General function predicti	93.61
COG3355	126	Predicted transcriptional regulator [Transcription	93.6
smart00420	53	HTH_DEOR helix_turn_helix, Deoxyribose operon repr	93.59
TIGR02702	203	SufR_cyano iron-sulfur cluster biosynthesis transc	93.59
TIGR01884	203	cas_HTH CRISPR locus-related DNA-binding protein.	93.53
TIGR02944	130	suf_reg_Xantho FeS assembly SUF system regulator,	93.49
TIGR02010	135	IscR iron-sulfur cluster assembly transcription fa	93.35
KOG1331	293	consensus Predicted methyltransferase [General fun	93.33
cd00090	78	HTH_ARSR Arsenical Resistance Operon Repressor and	93.24
cd07153	116	Fur_like Ferric uptake regulator(Fur) and related	93.2
TIGR00738	132	rrf2_super rrf2 family protein (putative transcrip	93.03
smart00418	66	HTH_ARSR helix_turn_helix, Arsenical Resistance Op	92.97
PF01726	65	LexA_DNA_bind: LexA DNA binding domain; InterPro:	92.79
TIGR00122	69	birA_repr_reg BirA biotin operon repressor domain.	92.66
TIGR01610	95	phage_O_Nterm phage replication protein O, N-termi	92.65
smart00529	96	HTH_DTXR Helix-turn-helix diphteria tox regulatory	92.56
smart00344	108	HTH_ASNC helix_turn_helix ASNC type. AsnC: an auto	92.53
PF01047	59	MarR: MarR family; InterPro: IPR000835 The MarR-ty	92.52
COG0275	314	Predicted S-adenosylmethionine-dependent methyltra	92.5
PF05219	265	DREV: DREV methyltransferase; InterPro: IPR007884	92.48
PF01728	181	FtsJ: FtsJ-like methyltransferase; InterPro: IPR00	92.35
PRK06266	178	transcription initiation factor E subunit alpha; V	92.08
PF02384	311	N6_Mtase: N-6 DNA Methylase; InterPro: IPR003356 T	92.06
PRK10870	176	transcriptional repressor MprA; Provisional	92.05
COG3897	218	Predicted methyltransferase [General function pred	92.01
COG4189	308	Predicted transcriptional regulator [Transcription	91.98
TIGR02987	524	met_A_Alw26 type II restriction m6 adenine DNA met	91.97
PF06163	127	DUF977: Bacterial protein of unknown function (DUF	91.95
KOG3045	325	consensus Predicted RNA methylase involved in rRNA	91.82
PRK06474	178	hypothetical protein; Provisional	91.74
PRK13777	185	transcriptional regulator Hpr; Provisional	91.74
PF07381	90	DUF1495: Winged helix DNA-binding domain (DUF1495)	91.67
KOG4589	232	consensus Cell division protein FtsJ [Cell cycle c	91.63
cd07377	66	WHTH_GntR Winged helix-turn-helix (WHTH) DNA-bindi	91.53
PRK11014	141	transcriptional repressor NsrR; Provisional	91.29
PF03602	183	Cons_hypoth95: Conserved hypothetical protein 95;	91.28
PF03444	78	HrcA_DNA-bdg: Winged helix-turn-helix transcriptio	91.22
COG1959	150	Predicted transcriptional regulator [Transcription	91.2
COG0116	381	Predicted N6-adenine-specific DNA methylase [DNA r	91.0
PF10007	92	DUF2250: Uncharacterized protein conserved in arch	90.99
PF04672	267	Methyltransf_19: S-adenosyl methyltransferase; Int	90.94
smart00345	60	HTH_GNTR helix_turn_helix gluconate operon transcr	90.89
PF08279	55	HTH_11: HTH domain; InterPro: IPR013196 Winged hel	90.77
PF01325	60	Fe_dep_repress: Iron dependent repressor, N-termin	90.76
COG1846	126	MarR Transcriptional regulators [Transcription]	90.76
PF14394	171	DUF4423: Domain of unknown function (DUF4423)	90.66
COG4190	144	Predicted transcriptional regulator [Transcription	90.41
KOG1975	389	consensus mRNA cap methyltransferase [RNA processi	90.35
PRK11920	153	rirA iron-responsive transcriptional regulator; Re	90.18
COG5459	484	Predicted rRNA methylase [Translation, ribosomal s	90.14
KOG4058	199	consensus Uncharacterized conserved protein [Funct	90.04
PF00325	32	Crp: Bacterial regulatory proteins, crp family; In	89.69
TIGR00373	158	conserved hypothetical protein TIGR00373. This fam	89.46
COG3432	95	Predicted transcriptional regulator [Transcription	89.27
KOG2940	325	consensus Predicted methyltransferase [General fun	89.15
PRK11179	153	DNA-binding transcriptional regulator AsnC; Provis	88.96
TIGR00308	374	TRM1 tRNA(guanine-26,N2-N2) methyltransferase. Thi	88.89
COG2512	258	Predicted membrane-associated trancriptional regul	88.58
PLN02853	492	Probable phenylalanyl-tRNA synthetase alpha chain	88.5
PF13545	76	HTH_Crp_2: Crp-like helix-turn-helix domain; PDB:	88.45
PRK04172	489	pheS phenylalanyl-tRNA synthetase subunit alpha; P	88.41
PRK11169	164	leucine-responsive transcriptional regulator; Prov	88.31
PRK14165	217	winged helix-turn-helix domain-containing protein/	88.27
PF05891	218	Methyltransf_PK: AdoMet dependent proline di-methy	88.2
PF04182	75	B-block_TFIIIC: B-block binding subunit of TFIIIC;	88.04
COG1378	247	Predicted transcriptional regulators [Transcriptio	87.95
PRK10742	250	putative methyltransferase; Provisional	87.89
PF04072	183	LCM: Leucine carboxyl methyltransferase; InterPro:	87.72
PF12324	77	HTH_15: Helix-turn-helix domain of alkylmercury ly	87.61
COG1522	154	Lrp Transcriptional regulators [Transcription]	87.23
TIGR00498	199	lexA SOS regulatory protein LexA. LexA acts as a h	87.01
KOG2730	263	consensus Methylase [General function prediction o	86.97
PF04989	206	CmcI: Cephalosporin hydroxylase; InterPro: IPR0070	86.96
KOG0822	649	consensus Protein kinase inhibitor [Cell cycle con	86.92
PTZ00326	494	phenylalanyl-tRNA synthetase alpha chain; Provisio	86.69
PRK15431	78	ferrous iron transport protein FeoC; Provisional	86.68
PF11968	219	DUF3321: Putative methyltransferase (DUF3321); Int	86.55
PRK11639	169	zinc uptake transcriptional repressor; Provisional	86.51
PHA02943	165	hypothetical protein; Provisional	86.46
PF02319	71	E2F_TDP: E2F/DP family winged-helix DNA-binding do	86.35
COG1733	120	Predicted transcriptional regulators [Transcriptio	86.2
PF05732	165	RepL: Firmicute plasmid replication protein (RepL)	86.14
KOG3924	419	consensus Putative protein methyltransferase invol	85.98
COG4565	224	CitB Response regulator of citrate/malate metaboli	85.15
TIGR02147	271	Fsuc_second hypothetical protein, TIGR02147. This	85.12
KOG2793	248	consensus Putative N2,N2-dimethylguanosine tRNA me	85.02
COG2265	432	TrmA SAM-dependent methyltransferases related to t	85.02
PRK04214	412	rbn ribonuclease BN/unknown domain fusion protein;	85.02
PF03059	276	NAS: Nicotianamine synthase protein; InterPro: IPR	84.76
PF02002	105	TFIIE_alpha: TFIIE alpha subunit; InterPro: IPR024	84.68
PF07789	155	DUF1627: Protein of unknown function (DUF1627); In	84.41
KOG2187	534	consensus tRNA uracil-5-methyltransferase and rela	84.17
COG3413	215	Predicted DNA binding protein [General function pr	84.09
PF08784	102	RPA_C: Replication protein A C terminal; InterPro:	83.81
COG1497	260	Predicted transcriptional regulator [Transcription	83.66
PRK00215	205	LexA repressor; Validated	83.59
PF05958	352	tRNA_U5-meth_tr: tRNA (Uracil-5-)-methyltransferas	83.5
PF12793	115	SgrR_N: Sugar transport-related sRNA regulator N-t	83.33
COG1565	370	Uncharacterized conserved protein [Function unknow	83.17
COG5631	199	Predicted transcription regulator, contains HTH do	82.91
PF14338	92	Mrr_N: Mrr N-terminal domain	82.54
PF00392	64	GntR: Bacterial regulatory proteins, gntR family;	82.23
PLN02668	386	indole-3-acetate carboxyl methyltransferase	81.4
TIGR03439	319	methyl_EasF probable methyltransferase domain, Eas	81.26
COG0500	257	SmtA SAM-dependent methyltransferases [Secondary m	80.27
PRK05638	442	threonine synthase; Validated	80.18

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

Probab=100.00  E-value=6.4e-37  Score=268.58  Aligned_cols=247  Identities=36%  Similarity=0.593  Sum_probs=221.3

Q ss_pred             hhHHHHHHHHHHHhHHHHHHHHHHHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCccccccc
Q 042491           10 VLRGQAQVWQLMFAFADSMALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRS   89 (266)
Q Consensus        10 ~~~~~~~l~~~~~g~~~~~~L~~a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~   89 (266)
                      ..+...+++++.+++..+++|.+|+||||||+|+.+ ++  +.|||..+-. |..++++.++.|+||.|++.++++..-.
T Consensus         3 e~~~~l~~~~l~~~~~~~~~lk~A~eL~v~d~l~~~-~~--p~~ia~~l~~-~~~~~~p~ll~r~lr~L~s~~i~k~~~~   78 (342)
T KOG3178|consen    3 ENEASLRAMRLANGFALPMVLKAACELGVFDILANA-GS--PSEIASLLPT-PKNPEAPVLLDRILRLLVSYSILKCRLV   78 (342)
T ss_pred             hhHHHHHHHHHHhhhhhHHHHHHHHHcChHHHHHhC-CC--HHHHHHhccC-CCCCCChhHHHHHHHHHHHhhhceeeee
Confidence            345667899999999999999999999999999974 22  8999999887 6667789999999999999999999873


Q ss_pred             CCCCCCceEeCchhchhhhcCC-CCChHHHHHHhcChhhhhhhhhhHHHHhcCCchhhhhhCCCcchhcccCchHHHHHH
Q 042491           90 SDGSEETMYGLTQISKWLLRDS-EMSLAPMILFQNSQLLQAPCHHLSQCVEEGGHAFKKAHGCEMWDFASQNSQFNNSFN  168 (266)
Q Consensus        90 ~~~~g~~~y~lt~~s~~l~~~~-~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~  168 (266)
                      .   +. .|+++|+++++.+++ ..+++.++...++...++.|..|.++++.++.+|..++|...|++...++.....|+
T Consensus        79 ~---~~-~Y~~~~~~~~~l~~~~~~S~a~~~~~~~~~v~~~~w~~l~dai~eg~~~~~~~~G~~l~~~~~~~~~~~~~~~  154 (342)
T KOG3178|consen   79 G---GE-VYSATPVCKYFLKDSGGGSLAPLVLLNTSKVIMNTWQFLKDAILEGGDAFATAHGMMLGGYGGADERFSKDFN  154 (342)
T ss_pred             c---ce-eeeccchhhhheecCCCCchhHHHHHhcccchhhhHHHHHHHHHhcccCCccccchhhhhhcccccccHHHHH
Confidence            1   12 799999998766443 357888888777778899999999999999999999999888999988888889999


Q ss_pred             HHHHhhhHHHHHHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeecHHHHhhCCCC-CCeEEEEccCCCC
Q 042491          169 KAMACTAKIVMSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPVY-EGVSHVGGDMLNA  247 (266)
Q Consensus       169 ~~m~~~~~~~~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~a~~~-~ri~~~~gd~~~~  247 (266)
                      ++|+..+....+.+++.|. +|++....||||||.|..+..++..||+++++.+|+|.+++.++.. +.|+.+.||||++
T Consensus       155 ~sm~~l~~~~~~~il~~~~-Gf~~v~~avDvGgGiG~v~k~ll~~fp~ik~infdlp~v~~~a~~~~~gV~~v~gdmfq~  233 (342)
T KOG3178|consen  155 GSMSFLSTLVMKKILEVYT-GFKGVNVAVDVGGGIGRVLKNLLSKYPHIKGINFDLPFVLAAAPYLAPGVEHVAGDMFQD  233 (342)
T ss_pred             HHHHHHHHHHHHhhhhhhc-ccccCceEEEcCCcHhHHHHHHHHhCCCCceeecCHHHHHhhhhhhcCCcceeccccccc
Confidence            9999999999989999887 5889999999999999999999999999999999999999998875 8899999999999


Q ss_pred             CCCccEEEeccccccCCC
Q 042491          248 VPNADAVFMKVIVLIQDL  265 (266)
Q Consensus       248 ~p~aD~~~l~~vLHd~~~  265 (266)
                      .|.+|+|+|++|||||+|
T Consensus       234 ~P~~daI~mkWiLhdwtD  251 (342)
T KOG3178|consen  234 TPKGDAIWMKWILHDWTD  251 (342)
T ss_pred             CCCcCeEEEEeecccCCh
Confidence            999999999999999997

>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=3.3e-35  Score=253.28  Aligned_cols=169  Identities=30%  Similarity=0.536  Sum_probs=149.9

Q ss_pred             CceEeCchhchhhhcCCC-CChHHHHHHhcChhhhhhhhhhHHHHhcCCchhhhhhCCCcchhcccCchHHHHHHHHHHh
Q 042491           95 ETMYGLTQISKWLLRDSE-MSLAPMILFQNSQLLQAPCHHLSQCVEEGGHAFKKAHGCEMWDFASQNSQFNNSFNKAMAC  173 (266)
Q Consensus        95 ~~~y~lt~~s~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~m~~  173 (266)
                      .++|++|++|+.|+.+++ .++..++.++..+..++.|.+|.+++++|.++|+..+|.++|+++.++|+..+.|+.+|..
T Consensus         3 ~~~y~~t~~s~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~v~~g~~~~~~~~g~~~~~~~~~~~~~~~~f~~~m~~   82 (241)
T PF00891_consen    3 GDRYSLTPLSELLLSDHSSPSMRGFVLFMISPELYPAWFRLTEAVRTGKPPFEKAFGTPFFEYLEEDPELAKRFNAAMAE   82 (241)
T ss_dssp             TEEEEE-HHHHGGSTTTTTTHHHHHHHHHTCHHHHHGGGGHHHHHHHSS-HHHHHHSS-HHHHHHCSHHHHHHHHHHHHH
T ss_pred             CCEEeChHHHHHHhCCCCcCcHHHHHHHhcCHHHHHHHHHHHhhhccCCCHHHHhcCCcHHHhhhhChHHHHHHHHHHHh
Confidence            389999999997776664 5788888886677889999999999999999999999999999999999999999999999


Q ss_pred             hhHHHH-HHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeecHHHHhhCCCCCCeEEEEccCCCCCCCcc
Q 042491          174 TAKIVM-STLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPVYEGVSHVGGDMLNAVPNAD  252 (266)
Q Consensus       174 ~~~~~~-~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~a~~~~ri~~~~gd~~~~~p~aD  252 (266)
                      .+.... +.++..++  |++.++|||||||+|.++.+++++||+++++++|+|+|++.+++.+||++++||||+++|.+|
T Consensus        83 ~~~~~~~~~~~~~~d--~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~~v~Dlp~v~~~~~~~~rv~~~~gd~f~~~P~~D  160 (241)
T PF00891_consen   83 YSRLNAFDILLEAFD--FSGFKTVVDVGGGSGHFAIALARAYPNLRATVFDLPEVIEQAKEADRVEFVPGDFFDPLPVAD  160 (241)
T ss_dssp             HHHHHHHHHHHHHST--TTTSSEEEEET-TTSHHHHHHHHHSTTSEEEEEE-HHHHCCHHHTTTEEEEES-TTTCCSSES
T ss_pred             hhhcchhhhhhcccc--ccCccEEEeccCcchHHHHHHHHHCCCCcceeeccHhhhhccccccccccccccHHhhhcccc
Confidence            988877 78888898  899999999999999999999999999999999999999988889999999999999999999


Q ss_pred             EEEeccccccCCC
Q 042491          253 AVFMKVIVLIQDL  265 (266)
Q Consensus       253 ~~~l~~vLHd~~~  265 (266)
                      +|+|++|||+|++
T Consensus       161 ~~~l~~vLh~~~d  173 (241)
T PF00891_consen  161 VYLLRHVLHDWSD  173 (241)
T ss_dssp             EEEEESSGGGS-H
T ss_pred             ceeeehhhhhcch
Confidence            9999999999986

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=9.3e-34  Score=252.49  Aligned_cols=216  Identities=24%  Similarity=0.366  Sum_probs=166.9

Q ss_pred             HHHHHHHHHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhch
Q 042491           26 DSMALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISK  105 (266)
Q Consensus        26 ~~~~L~~a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~  105 (266)
                      ..++|++|++|||||+|.+  +|.|++|||+++|++++.      +.|+||+|+++|+|++.+       ++|++|+.++
T Consensus         3 ~~~~l~aa~~Lglfd~L~~--gp~t~~eLA~~~~~~~~~------~~~lL~~L~~lgll~~~~-------~~y~~t~~~~   67 (306)
T TIGR02716         3 EFSCMKAAIELDLFSHMAE--GPKDLATLAADTGSVPPR------LEMLLETLRQMRVINLED-------GKWSLTEFAD   67 (306)
T ss_pred             hHHHHHHHHHcCcHHHHhc--CCCCHHHHHHHcCCChHH------HHHHHHHHHhCCCeEecC-------CcEecchhHH
Confidence            5689999999999999987  799999999999999887      999999999999999876       8999999997


Q ss_pred             hhh-cCCCC---ChHHHHHHhcChhhhhhhhhhHHHHhcCCchhhhhhCCCcchhcccCchHHHHHHHHHHhhhHHHHHH
Q 042491          106 WLL-RDSEM---SLAPMILFQNSQLLQAPCHHLSQCVEEGGHAFKKAHGCEMWDFASQNSQFNNSFNKAMACTAKIVMST  181 (266)
Q Consensus       106 ~l~-~~~~~---~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~m~~~~~~~~~~  181 (266)
                      .+. ++++.   ++.++..++. ......|.++.+++|+ +++|+...     ++....++....|...++.......+.
T Consensus        68 ~~l~~~~~~~~~~~~~~~~~~~-~~~~~~~~~l~~~~r~-~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~  140 (306)
T TIGR02716        68 YMFSPTPKEPNLHQTPVAKAMA-FLADDFYMGLSQAVRG-QKNFKGQV-----PYPPVTREDNLYFEEIHRSNAKFAIQL  140 (306)
T ss_pred             hhccCCccchhhhcCchHHHHH-HHHHHHHHhHHHHhcC-Cccccccc-----CCCCCCHHHHHhHHHHHHhcchhHHHH
Confidence            544 43322   1123333331 1234678999999984 43443322     222222333333433333444455666


Q ss_pred             HHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeecHHHHhhCCC-------CCCeEEEEccCCC-CCCCccE
Q 042491          182 LLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPV-------YEGVSHVGGDMLN-AVPNADA  253 (266)
Q Consensus       182 ~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~a~~-------~~ri~~~~gd~~~-~~p~aD~  253 (266)
                      +++.++  +++..+|||||||+|.+++.+++++|+++++++|+|++++.+++       .+||+++++|+++ ++|++|+
T Consensus       141 l~~~~~--~~~~~~vlDiG~G~G~~~~~~~~~~p~~~~~~~D~~~~~~~a~~~~~~~gl~~rv~~~~~d~~~~~~~~~D~  218 (306)
T TIGR02716       141 LLEEAK--LDGVKKMIDVGGGIGDISAAMLKHFPELDSTILNLPGAIDLVNENAAEKGVADRMRGIAVDIYKESYPEADA  218 (306)
T ss_pred             HHHHcC--CCCCCEEEEeCCchhHHHHHHHHHCCCCEEEEEecHHHHHHHHHHHHhCCccceEEEEecCccCCCCCCCCE
Confidence            777777  78889999999999999999999999999999999999987653       5799999999997 6888999


Q ss_pred             EEeccccccCCC
Q 042491          254 VFMKVIVLIQDL  265 (266)
Q Consensus       254 ~~l~~vLHd~~~  265 (266)
                      |+++++||+|++
T Consensus       219 v~~~~~lh~~~~  230 (306)
T TIGR02716       219 VLFCRILYSANE  230 (306)
T ss_pred             EEeEhhhhcCCh
Confidence            999999999975

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.

>PRK06922 hypothetical protein; Provisional

Probab=99.03  E-value=7.9e-10  Score=105.83  Aligned_cols=111  Identities=18%  Similarity=0.194  Sum_probs=83.8

Q ss_pred             CcchhcccCchHHHHHHHHHHhhhHHH--HHHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHH
Q 042491          152 EMWDFASQNSQFNNSFNKAMACTAKIV--MSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVV  228 (266)
Q Consensus       152 ~~~~~~~~~~~~~~~f~~~m~~~~~~~--~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~  228 (266)
                      .+|+++..+++..++|...|.......  .......++  +.+..+|||||||+|..+..+++.+|+.+++++|+ +.++
T Consensus       378 ~~fd~fg~r~D~~dRf~~~~~yle~m~~~~~~k~~i~d--~~~g~rVLDIGCGTG~ls~~LA~~~P~~kVtGIDIS~~ML  455 (677)
T PRK06922        378 LLFDFFGLRKDAYDRFHNEEVYLEHMNSSADDKRIILD--YIKGDTIVDVGAGGGVMLDMIEEETEDKRIYGIDISENVI  455 (677)
T ss_pred             HHHHHhccChhhHhHHHhHHHHHHhccccHHHHHHHhh--hcCCCEEEEeCCCCCHHHHHHHHhCCCCEEEEEECCHHHH
Confidence            578888888888888887776543321  112233445  55678999999999999999999999999999999 5557


Q ss_pred             hhCCC-----CCCeEEEEccCCC-C--CC-C-ccEEEeccccccCC
Q 042491          229 ATAPV-----YEGVSHVGGDMLN-A--VP-N-ADAVFMKVIVLIQD  264 (266)
Q Consensus       229 ~~a~~-----~~ri~~~~gd~~~-~--~p-~-aD~~~l~~vLHd~~  264 (266)
                      +.+++     ..+++++.+|..+ +  ++ + +|+|+++.++|+|.
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            66543     3568889999876 3  44 3 99999999999873

>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=99.02  E-value=8.3e-10  Score=83.26  Aligned_cols=71  Identities=21%  Similarity=0.352  Sum_probs=59.8

Q ss_pred             CceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccC-CC-CCC-CccEEEecc-cc
Q 042491          193 IRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDM-LN-AVP-NADAVFMKV-IV  260 (266)
Q Consensus       193 ~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~-~~-~~p-~aD~~~l~~-vL  260 (266)
                      ..+|||||||+|.++..+++.+|+.+++++|. |++++.+++       .+||+++.+|+ .. +.+ .||++++.. .+
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            36899999999999999999999999999998 777776653       68999999999 33 333 599999999 56


Q ss_pred             ccC
Q 042491          261 LIQ  263 (266)
Q Consensus       261 Hd~  263 (266)
                      |.+
T Consensus        82 ~~~   84 (112)
T PF12847_consen   82 HFL   84 (112)
T ss_dssp             GGC
T ss_pred             ccc
Confidence            643

...

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

Probab=98.96  E-value=7e-10  Score=71.70  Aligned_cols=49  Identities=49%  Similarity=0.761  Sum_probs=42.4

Q ss_pred             HHHHHHHhcChhhHhhhCC-CCCCHHHHHhhcC-CCCCCCCchhhHHHHHHHHh
Q 042491           28 MALKSAVELRLADIMHCHG-SPITLPQLASGIN-SSCPDVHIIPSLTRIMRMLV   79 (266)
Q Consensus        28 ~~L~~a~elglfd~L~~~g-~~~t~~eLA~~~g-~~~~~~~~~~~l~rlLr~L~   79 (266)
                      ++|++|+||||||.|..+| +++|..||+.++. .++.+   +..+.|+||+|+
T Consensus         1 MaLk~aveLgI~dii~~~g~~~ls~~eia~~l~~~~p~~---~~~L~RimR~L~   51 (51)
T PF08100_consen    1 MALKCAVELGIPDIIHNAGGGPLSLSEIAARLPTSNPSA---PPMLDRIMRLLV   51 (51)
T ss_dssp             HHHHHHHHTTHHHHHHHHTTS-BEHHHHHHTSTCT-TTH---HHHHHHHHHHHH
T ss_pred             CcHHHHHHcCcHHHHHHcCCCCCCHHHHHHHcCCCCcch---HHHHHHHHHHhC
Confidence            5899999999999999986 8999999999999 66554   889999999985

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 ....

>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=98.89  E-value=4e-09  Score=84.34  Aligned_cols=74  Identities=19%  Similarity=0.356  Sum_probs=62.5

Q ss_pred             CCceEEEecCCchHHHHHHH-HHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCC-C--CC-CccEEEeccc
Q 042491          192 GIRSLVDVGGGTGEELAEIV-EFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLN-A--VP-NADAVFMKVI  259 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~-~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~-~--~p-~aD~~~l~~v  259 (266)
                      +..+|||+|||+|.++..++ +.+|..+++++|+ |++++.++.      .+++++..+|+.+ +  ++ .+|+++...+
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            46799999999999999999 5689999999998 888877664      4689999999999 4  43 5999999999


Q ss_pred             cccCCC
Q 042491          260 VLIQDL  265 (266)
Q Consensus       260 LHd~~~  265 (266)
                      +|...+
T Consensus        83 l~~~~~   88 (152)
T PF13847_consen   83 LHHFPD   88 (152)
T ss_dssp             GGGTSH
T ss_pred             hhhccC
Confidence            988653

...

>PRK14103 trans-aconitate 2-methyltransferase; Provisional

Probab=98.89  E-value=1e-08  Score=89.10  Aligned_cols=83  Identities=25%  Similarity=0.317  Sum_probs=69.3

Q ss_pred             HHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCCCCCeEEEEccCCCCCC--CccEEEe
Q 042491          180 STLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPVYEGVSHVGGDMLNAVP--NADAVFM  256 (266)
Q Consensus       180 ~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~~ri~~~~gd~~~~~p--~aD~~~l  256 (266)
                      ..+++.++  .....+|||||||+|.++..+++.+|+.+++++|+ |.+++.+++ .+++++.+|+.+..+  .+|+|++
T Consensus        19 ~~ll~~l~--~~~~~~vLDlGcG~G~~~~~l~~~~p~~~v~gvD~s~~~~~~a~~-~~~~~~~~d~~~~~~~~~fD~v~~   95 (255)
T PRK14103         19 YDLLARVG--AERARRVVDLGCGPGNLTRYLARRWPGAVIEALDSSPEMVAAARE-RGVDARTGDVRDWKPKPDTDVVVS   95 (255)
T ss_pred             HHHHHhCC--CCCCCEEEEEcCCCCHHHHHHHHHCCCCEEEEEECCHHHHHHHHh-cCCcEEEcChhhCCCCCCceEEEE
Confidence            45667666  56678999999999999999999999999999998 888887764 468999999876323  4999999


Q ss_pred             ccccccCCC
Q 042491          257 KVIVLIQDL  265 (266)
Q Consensus       257 ~~vLHd~~~  265 (266)
                      ..+||..++
T Consensus        96 ~~~l~~~~d  104 (255)
T PRK14103         96 NAALQWVPE  104 (255)
T ss_pred             ehhhhhCCC
Confidence            999997654

>TIGR03587 Pse_Me-ase pseudaminic acid biosynthesis-associated methylase

Probab=98.88  E-value=8.1e-09  Score=86.85  Aligned_cols=74  Identities=18%  Similarity=0.320  Sum_probs=64.7

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-CCCeEEEEccCCCCCC--CccEEEeccccccCC
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-YEGVSHVGGDMLNAVP--NADAVFMKVIVLIQD  264 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-~~ri~~~~gd~~~~~p--~aD~~~l~~vLHd~~  264 (266)
                      .+..+|||||||+|..+..+++..|..+++++|+ |++++.+++ .+++++..+|+.++++  .+|++++..+||.++
T Consensus        42 ~~~~~VLDiGCG~G~~~~~L~~~~~~~~v~giDiS~~~l~~A~~~~~~~~~~~~d~~~~~~~~sfD~V~~~~vL~hl~  119 (204)
T TIGR03587        42 PKIASILELGANIGMNLAALKRLLPFKHIYGVEINEYAVEKAKAYLPNINIIQGSLFDPFKDNFFDLVLTKGVLIHIN  119 (204)
T ss_pred             CCCCcEEEEecCCCHHHHHHHHhCCCCeEEEEECCHHHHHHHHhhCCCCcEEEeeccCCCCCCCEEEEEECChhhhCC
Confidence            3567999999999999999999999999999997 788888876 5678999999988765  399999999998765

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

>PRK01683 trans-aconitate 2-methyltransferase; Provisional

Probab=98.84  E-value=2.5e-08  Score=86.60  Aligned_cols=85  Identities=24%  Similarity=0.337  Sum_probs=70.1

Q ss_pred             HHHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-CCCeEEEEccCCCCCC--CccEE
Q 042491          179 MSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-YEGVSHVGGDMLNAVP--NADAV  254 (266)
Q Consensus       179 ~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-~~ri~~~~gd~~~~~p--~aD~~  254 (266)
                      ...++..++  ..+..+|||||||+|.++..+++.+|+.+++++|+ +.+++.+++ .++++++.+|+.+..+  .+|++
T Consensus        20 ~~~ll~~~~--~~~~~~vLDiGcG~G~~~~~la~~~~~~~v~gvD~s~~~i~~a~~~~~~~~~~~~d~~~~~~~~~fD~v   97 (258)
T PRK01683         20 ARDLLARVP--LENPRYVVDLGCGPGNSTELLVERWPAARITGIDSSPAMLAEARSRLPDCQFVEADIASWQPPQALDLI   97 (258)
T ss_pred             HHHHHhhCC--CcCCCEEEEEcccCCHHHHHHHHHCCCCEEEEEECCHHHHHHHHHhCCCCeEEECchhccCCCCCccEE
Confidence            345666666  66778999999999999999999999999999998 778877765 5679999999876333  59999


Q ss_pred             EeccccccCCC
Q 042491          255 FMKVIVLIQDL  265 (266)
Q Consensus       255 ~l~~vLHd~~~  265 (266)
                      ++..++|...+
T Consensus        98 ~~~~~l~~~~d  108 (258)
T PRK01683         98 FANASLQWLPD  108 (258)
T ss_pred             EEccChhhCCC
Confidence            99999986544

>smart00138 MeTrc Methyltransferase, chemotaxis proteins

Probab=98.80  E-value=9.7e-08  Score=83.46  Aligned_cols=85  Identities=20%  Similarity=0.284  Sum_probs=64.0

Q ss_pred             HHHHHhhcccCCCCCceEEEecCCchH----HHHHHHHHCC-----CCeEEEeec-HHHHhhCCCC--------------
Q 042491          179 MSTLLSHYKDGFDGIRSLVDVGGGTGE----ELAEIVEFYP-----HIKGVNFDL-PHVVATAPVY--------------  234 (266)
Q Consensus       179 ~~~~~~~~~~~~~~~~~vvDvGgG~G~----~~~~l~~~~P-----~l~~~~~Dl-p~v~~~a~~~--------------  234 (266)
                      .|.++...+  .....+|+|+|||+|.    ++..+.+.+|     +.++++.|+ +.+++.|++.              
T Consensus        88 lp~l~~~~~--~~~~~ri~d~GCgtGee~YslA~~l~e~~~~~~~~~~~I~g~Dis~~~L~~Ar~~~y~~~~~~~~~~~~  165 (264)
T smart00138       88 LPLLIASRR--HGRRVRIWSAGCSTGEEPYSLAMLLAETLPKAREPDVKILATDIDLKALEKARAGIYPERELEDLPKAL  165 (264)
T ss_pred             hHHHHHhcC--CCCCEEEEeccccCChHHHHHHHHHHHHhhhcCCCCeEEEEEECCHHHHHHHHcCCCCHHHHhcCCHHH
Confidence            455544322  3355799999999996    5667777765     578999998 7778766641              


Q ss_pred             -------------------CCeEEEEccCCCC-CC--CccEEEeccccccCCC
Q 042491          235 -------------------EGVSHVGGDMLNA-VP--NADAVFMKVIVLIQDL  265 (266)
Q Consensus       235 -------------------~ri~~~~gd~~~~-~p--~aD~~~l~~vLHd~~~  265 (266)
                                         .+|+|..+|+.++ .|  .+|+|+++++||.+++
T Consensus       166 ~~~yf~~~~~~~~v~~~ir~~V~F~~~dl~~~~~~~~~fD~I~crnvl~yf~~  218 (264)
T smart00138      166 LARYFSRVEDKYRVKPELKERVRFAKHNLLAESPPLGDFDLIFCRNVLIYFDE  218 (264)
T ss_pred             HhhhEEeCCCeEEEChHHhCcCEEeeccCCCCCCccCCCCEEEechhHHhCCH
Confidence                               3799999999994 43  3999999999999863

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

>PRK15451 tRNA cmo(5)U34 methyltransferase; Provisional

Probab=98.77  E-value=2.2e-08  Score=86.61  Aligned_cols=74  Identities=18%  Similarity=0.249  Sum_probs=63.3

Q ss_pred             CCCceEEEecCCchHHHHHHHH--HCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCC-CCCCccEEEeccc
Q 042491          191 DGIRSLVDVGGGTGEELAEIVE--FYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLN-AVPNADAVFMKVI  259 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~--~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~-~~p~aD~~~l~~v  259 (266)
                      ....+|||||||+|..+..+++  .+|+.+++++|. |.+++.+++       ..+|+++.+|+.+ +.+.+|++++..+
T Consensus        55 ~~~~~vLDlGcGtG~~~~~l~~~~~~~~~~v~gvD~S~~ml~~A~~~~~~~~~~~~v~~~~~d~~~~~~~~~D~vv~~~~  134 (247)
T PRK15451         55 QPGTQVYDLGCSLGAATLSVRRNIHHDNCKIIAIDNSPAMIERCRRHIDAYKAPTPVDVIEGDIRDIAIENASMVVLNFT  134 (247)
T ss_pred             CCCCEEEEEcccCCHHHHHHHHhcCCCCCeEEEEeCCHHHHHHHHHHHHhcCCCCCeEEEeCChhhCCCCCCCEEehhhH
Confidence            3567999999999999999988  469999999998 888887754       3489999999988 5667999999999


Q ss_pred             cccCC
Q 042491          260 VLIQD  264 (266)
Q Consensus       260 LHd~~  264 (266)
                      +|..+
T Consensus       135 l~~l~  139 (247)
T PRK15451        135 LQFLE  139 (247)
T ss_pred             HHhCC
Confidence            98764

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

Probab=98.77  E-value=2.5e-08  Score=85.33  Aligned_cols=75  Identities=23%  Similarity=0.196  Sum_probs=66.7

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCC-CCCC--ccEEEeccccc
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLN-AVPN--ADAVFMKVIVL  261 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~-~~p~--aD~~~l~~vLH  261 (266)
                      ...+|||||||+|.++..+++..+..+++++|. +.+++.+++      ...|+++.||..+ |+|.  +|+|.++..||
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            568999999999999999999999999999998 888887775      1229999999999 8984  99999999999


Q ss_pred             cCCCC
Q 042491          262 IQDLY  266 (266)
Q Consensus       262 d~~~~  266 (266)
                      +.+|+
T Consensus       131 nv~d~  135 (238)
T COG2226         131 NVTDI  135 (238)
T ss_pred             cCCCH
Confidence            98874

>TIGR02021 BchM-ChlM magnesium protoporphyrin O-methyltransferase

Probab=98.76  E-value=5.6e-08  Score=82.42  Aligned_cols=110  Identities=15%  Similarity=0.102  Sum_probs=77.9

Q ss_pred             cchhcccCchHHHHHHHHHHhhhHHHHHHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhC
Q 042491          153 MWDFASQNSQFNNSFNKAMACTAKIVMSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATA  231 (266)
Q Consensus       153 ~~~~~~~~~~~~~~f~~~m~~~~~~~~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a  231 (266)
                      .|+.+...+.....+...|..........+++.+.....+..+|||||||+|.++..+++.  +.+++++|. |+++..+
T Consensus        16 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~vLDiGcG~G~~~~~la~~--~~~v~gvD~s~~~i~~a   93 (219)
T TIGR02021        16 RWARIYGSGDPVSRVRQTVREGRAAMRRKLLDWLPKDPLKGKRVLDAGCGTGLLSIELAKR--GAIVKAVDISEQMVQMA   93 (219)
T ss_pred             HHHHhhCCchhhHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEeCCCCHHHHHHHHC--CCEEEEEECCHHHHHHH
Confidence            4555555555555666666444444445555554411235689999999999999999886  458899997 7777766


Q ss_pred             CC-------CCCeEEEEccCCCCCCCccEEEeccccccCC
Q 042491          232 PV-------YEGVSHVGGDMLNAVPNADAVFMKVIVLIQD  264 (266)
Q Consensus       232 ~~-------~~ri~~~~gd~~~~~p~aD~~~l~~vLHd~~  264 (266)
                      ++       .+++++..+|+.+..+.+|++++..++|.++
T Consensus        94 ~~~~~~~~~~~~i~~~~~d~~~~~~~fD~ii~~~~l~~~~  133 (219)
T TIGR02021        94 RNRAQGRDVAGNVEFEVNDLLSLCGEFDIVVCMDVLIHYP  133 (219)
T ss_pred             HHHHHhcCCCCceEEEECChhhCCCCcCEEEEhhHHHhCC
Confidence            54       2589999999887334599999999988765

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.

>TIGR00740 methyltransferase, putative

Probab=98.76  E-value=1.7e-08  Score=86.79  Aligned_cols=74  Identities=16%  Similarity=0.180  Sum_probs=63.6

Q ss_pred             CCCceEEEecCCchHHHHHHHHHC--CCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCC-CCCCccEEEeccc
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFY--PHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLN-AVPNADAVFMKVI  259 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~--P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~-~~p~aD~~~l~~v  259 (266)
                      ....+|||||||+|..+..+++.+  |+.+++++|+ |++++.+++       ..+++++.+|+.+ +++.+|++++..+
T Consensus        52 ~~~~~iLDlGcG~G~~~~~l~~~~~~p~~~v~gvD~s~~ml~~a~~~~~~~~~~~~v~~~~~d~~~~~~~~~d~v~~~~~  131 (239)
T TIGR00740        52 TPDSNVYDLGCSRGAATLSARRNINQPNVKIIGIDNSQPMVERCRQHIAAYHSEIPVEILCNDIRHVEIKNASMVILNFT  131 (239)
T ss_pred             CCCCEEEEecCCCCHHHHHHHHhcCCCCCeEEEEeCCHHHHHHHHHHHHhcCCCCCeEEEECChhhCCCCCCCEEeeecc
Confidence            355799999999999999999974  8899999999 888877654       3579999999998 6778999999999


Q ss_pred             cccCC
Q 042491          260 VLIQD  264 (266)
Q Consensus       260 LHd~~  264 (266)
                      ||.++
T Consensus       132 l~~~~  136 (239)
T TIGR00740       132 LQFLP  136 (239)
T ss_pred             hhhCC
Confidence            99875

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=98.73  E-value=4.2e-08  Score=83.72  Aligned_cols=83  Identities=16%  Similarity=0.150  Sum_probs=66.4

Q ss_pred             HHHhhcccCCCCCceEEEecCCchHHHHHHHHHC-CCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCC-CCC--
Q 042491          181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFY-PHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLN-AVP--  249 (266)
Q Consensus       181 ~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~-P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~-~~p--  249 (266)
                      .++..++  .....+|||||||+|.++..+++.+ |+.+++++|+ |++++.+++      .++++++.+|..+ ++|  
T Consensus        36 ~~l~~l~--~~~~~~vLDiGcG~G~~~~~la~~~~~~~~v~gvD~s~~~~~~a~~~~~~~~~~~v~~~~~d~~~~~~~~~  113 (231)
T TIGR02752        36 DTMKRMN--VQAGTSALDVCCGTADWSIALAEAVGPEGHVIGLDFSENMLSVGRQKVKDAGLHNVELVHGNAMELPFDDN  113 (231)
T ss_pred             HHHHhcC--CCCCCEEEEeCCCcCHHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHHHhcCCCceEEEEechhcCCCCCC
Confidence            3444454  5566899999999999999999986 6789999998 677765543      4689999999987 565  


Q ss_pred             CccEEEeccccccCCC
Q 042491          250 NADAVFMKVIVLIQDL  265 (266)
Q Consensus       250 ~aD~~~l~~vLHd~~~  265 (266)
                      .+|++++...+|..++
T Consensus       114 ~fD~V~~~~~l~~~~~  129 (231)
T TIGR02752       114 SFDYVTIGFGLRNVPD  129 (231)
T ss_pred             CccEEEEecccccCCC
Confidence            3999999999988765

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=98.69  E-value=4e-09  Score=77.97  Aligned_cols=68  Identities=24%  Similarity=0.346  Sum_probs=44.9

Q ss_pred             EEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------C---CCeEEEEccCCCCC-C-CccEEEeccccccCC
Q 042491          197 VDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------Y---EGVSHVGGDMLNAV-P-NADAVFMKVIVLIQD  264 (266)
Q Consensus       197 vDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~---~ri~~~~gd~~~~~-p-~aD~~~l~~vLHd~~  264 (266)
                      ||||||+|.++..+++++|..+.+++|. |.+++.+++      .   .++++...|.++.. + .||+|++.++||.+.
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            7999999999999999999999999998 888877765      1   23555555665543 3 599999999999874

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.

>PLN02233 ubiquinone biosynthesis methyltransferase

Probab=98.67  E-value=2.1e-07  Score=81.22  Aligned_cols=76  Identities=18%  Similarity=0.162  Sum_probs=63.4

Q ss_pred             CCCCceEEEecCCchHHHHHHHHHC-CCCeEEEeec-HHHHhhCCC---------CCCeEEEEccCCC-CCCC--ccEEE
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEFY-PHIKGVNFDL-PHVVATAPV---------YEGVSHVGGDMLN-AVPN--ADAVF  255 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~~-P~l~~~~~Dl-p~v~~~a~~---------~~ri~~~~gd~~~-~~p~--aD~~~  255 (266)
                      .....+|||||||+|.++..+++.+ |+.+++++|. +++++.+++         .++|+++.+|+.+ |+|.  +|+++
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            4456799999999999999999885 6789999998 777776642         3589999999987 6763  99999


Q ss_pred             eccccccCCC
Q 042491          256 MKVIVLIQDL  265 (266)
Q Consensus       256 l~~vLHd~~~  265 (266)
                      +..+||.+++
T Consensus       151 ~~~~l~~~~d  160 (261)
T PLN02233        151 MGYGLRNVVD  160 (261)
T ss_pred             EecccccCCC
Confidence            9999998865

>smart00828 PKS_MT Methyltransferase in polyketide synthase (PKS) enzymes

Probab=98.66  E-value=4.8e-08  Score=82.97  Aligned_cols=72  Identities=19%  Similarity=0.307  Sum_probs=60.1

Q ss_pred             ceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCC-CCCC-ccEEEeccccccC
Q 042491          194 RSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLN-AVPN-ADAVFMKVIVLIQ  263 (266)
Q Consensus       194 ~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~-~~p~-aD~~~l~~vLHd~  263 (266)
                      ++|||||||.|..+..+++.+|+.+++++|+ |+.++.+++       .++++++.+|+.+ ++++ +|+++...++|..
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            4799999999999999999999999999998 555554442       5689999999977 4555 9999999999876


Q ss_pred             CC
Q 042491          264 DL  265 (266)
Q Consensus       264 ~~  265 (266)
                      .+
T Consensus        81 ~~   82 (224)
T smart00828       81 KD   82 (224)
T ss_pred             CC
Confidence            54

>PLN02244 tocopherol O-methyltransferase

Probab=98.66  E-value=1.4e-07  Score=85.34  Aligned_cols=74  Identities=24%  Similarity=0.185  Sum_probs=61.4

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCC-CCC--CccEEEeccc
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLN-AVP--NADAVFMKVI  259 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~-~~p--~aD~~~l~~v  259 (266)
                      ....+|||||||+|.++..+++++ +.+++++|+ |.+++.+++       .++|+++.+|+.+ ++|  .+|+|++...
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            456899999999999999999988 679999998 565654432       4689999999988 666  3999999999


Q ss_pred             cccCCC
Q 042491          260 VLIQDL  265 (266)
Q Consensus       260 LHd~~~  265 (266)
                      +|++.+
T Consensus       196 ~~h~~d  201 (340)
T PLN02244        196 GEHMPD  201 (340)
T ss_pred             hhccCC
Confidence            988765

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

Probab=98.64  E-value=1.7e-07  Score=77.59  Aligned_cols=77  Identities=23%  Similarity=0.369  Sum_probs=62.1

Q ss_pred             HhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCCCCCC-ccEE
Q 042491          183 LSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLNAVPN-ADAV  254 (266)
Q Consensus       183 ~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~~~p~-aD~~  254 (266)
                      +..++  .....+|||||||+|.++..+++.+|+.+++++|. |++++.+++      .++|+++.+|...++++ +|++
T Consensus        24 ~~~l~--~~~~~~vLDiG~G~G~~~~~la~~~~~~~v~~vD~s~~~~~~a~~n~~~~~~~~i~~~~~d~~~~~~~~~D~v  101 (187)
T PRK08287         24 LSKLE--LHRAKHLIDVGAGTGSVSIEAALQFPSLQVTAIERNPDALRLIKENRQRFGCGNIDIIPGEAPIELPGKADAI  101 (187)
T ss_pred             HHhcC--CCCCCEEEEECCcCCHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHHHhCCCCeEEEecCchhhcCcCCCEE
Confidence            34444  55678999999999999999999999999999999 777776653      35799999998666664 9999


Q ss_pred             Eeccccc
Q 042491          255 FMKVIVL  261 (266)
Q Consensus       255 ~l~~vLH  261 (266)
                      ++....+
T Consensus       102 ~~~~~~~  108 (187)
T PRK08287        102 FIGGSGG  108 (187)
T ss_pred             EECCCcc
Confidence            9876543

>PLN03075 nicotianamine synthase; Provisional

Probab=98.64  E-value=9.7e-08  Score=84.10  Aligned_cols=73  Identities=19%  Similarity=0.221  Sum_probs=59.0

Q ss_pred             CCCceEEEecCCch--HHHHHHHHHCCCCeEEEeec-HHHHhhCCC--------CCCeEEEEccCCCCC---CCccEEEe
Q 042491          191 DGIRSLVDVGGGTG--EELAEIVEFYPHIKGVNFDL-PHVVATAPV--------YEGVSHVGGDMLNAV---PNADAVFM  256 (266)
Q Consensus       191 ~~~~~vvDvGgG~G--~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~--------~~ri~~~~gd~~~~~---p~aD~~~l  256 (266)
                      .+.++|+|||||.|  +.+..+.+.+|+.+++++|. |+.++.+++        .+||+|..+|..+..   .++|+|++
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            37799999999988  44455556789999999998 677765553        478999999998742   35999999


Q ss_pred             ccccccCC
Q 042491          257 KVIVLIQD  264 (266)
Q Consensus       257 ~~vLHd~~  264 (266)
                      . +||+|+
T Consensus       202 ~-ALi~~d  208 (296)
T PLN03075        202 A-ALVGMD  208 (296)
T ss_pred             e-cccccc
Confidence            9 999995

>PRK11207 tellurite resistance protein TehB; Provisional

Probab=98.63  E-value=1e-07  Score=79.65  Aligned_cols=81  Identities=17%  Similarity=0.234  Sum_probs=63.5

Q ss_pred             HHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCC-CCCC-
Q 042491          180 STLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLN-AVPN-  250 (266)
Q Consensus       180 ~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~-~~p~-  250 (266)
                      +.+++.++  .....+|||+|||+|..+..++++  ..+++++|+ |.+++.+++      ..+|++..+|+.+ ++++ 
T Consensus        20 ~~l~~~l~--~~~~~~vLDiGcG~G~~a~~La~~--g~~V~gvD~S~~~i~~a~~~~~~~~~~~v~~~~~d~~~~~~~~~   95 (197)
T PRK11207         20 SEVLEAVK--VVKPGKTLDLGCGNGRNSLYLAAN--GFDVTAWDKNPMSIANLERIKAAENLDNLHTAVVDLNNLTFDGE   95 (197)
T ss_pred             HHHHHhcc--cCCCCcEEEECCCCCHHHHHHHHC--CCEEEEEeCCHHHHHHHHHHHHHcCCCcceEEecChhhCCcCCC
Confidence            45566665  445689999999999999999986  468999998 777766553      3458899999887 4554 


Q ss_pred             ccEEEeccccccCC
Q 042491          251 ADAVFMKVIVLIQD  264 (266)
Q Consensus       251 aD~~~l~~vLHd~~  264 (266)
                      +|+|++..++|.++
T Consensus        96 fD~I~~~~~~~~~~  109 (197)
T PRK11207         96 YDFILSTVVLMFLE  109 (197)
T ss_pred             cCEEEEecchhhCC
Confidence            99999999998754

>PRK06202 hypothetical protein; Provisional

Probab=98.61  E-value=3.2e-07  Score=78.54  Aligned_cols=75  Identities=21%  Similarity=0.215  Sum_probs=57.6

Q ss_pred             CCCceEEEecCCchHHHHHHHHH----CCCCeEEEeec-HHHHhhCCC---CCCeEEEEccCCC-CCC--CccEEEeccc
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEF----YPHIKGVNFDL-PHVVATAPV---YEGVSHVGGDMLN-AVP--NADAVFMKVI  259 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~----~P~l~~~~~Dl-p~v~~~a~~---~~ri~~~~gd~~~-~~p--~aD~~~l~~v  259 (266)
                      .+..+|||||||+|.++..|++.    .|+.+++++|+ |++++.+++   ..++++..++... +.+  .+|+|++..+
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            45689999999999999888764    46789999998 888887665   3456666654433 223  4999999999


Q ss_pred             cccCCC
Q 042491          260 VLIQDL  265 (266)
Q Consensus       260 LHd~~~  265 (266)
                      ||+.++
T Consensus       139 lhh~~d  144 (232)
T PRK06202        139 LHHLDD  144 (232)
T ss_pred             eecCCh
Confidence            998865

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

Probab=98.61  E-value=7.3e-08  Score=80.09  Aligned_cols=84  Identities=20%  Similarity=0.322  Sum_probs=72.5

Q ss_pred             HHHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-CCCeEEEEccCCCCCC--CccEE
Q 042491          179 MSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-YEGVSHVGGDMLNAVP--NADAV  254 (266)
Q Consensus       179 ~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-~~ri~~~~gd~~~~~p--~aD~~  254 (266)
                      +..++..++  .....+|+|+|||.|..-..|++++|....+++|. |++++.++. ...++|..+|+-+-.|  .+|++
T Consensus        19 a~dLla~Vp--~~~~~~v~DLGCGpGnsTelL~~RwP~A~i~GiDsS~~Mla~Aa~rlp~~~f~~aDl~~w~p~~~~dll   96 (257)
T COG4106          19 ARDLLARVP--LERPRRVVDLGCGPGNSTELLARRWPDAVITGIDSSPAMLAKAAQRLPDATFEEADLRTWKPEQPTDLL   96 (257)
T ss_pred             HHHHHhhCC--ccccceeeecCCCCCHHHHHHHHhCCCCeEeeccCCHHHHHHHHHhCCCCceecccHhhcCCCCccchh
Confidence            346777787  77889999999999999999999999999999997 899988765 7889999999998555  59999


Q ss_pred             EeccccccCC
Q 042491          255 FMKVIVLIQD  264 (266)
Q Consensus       255 ~l~~vLHd~~  264 (266)
                      +-+-+||=-.
T Consensus        97 faNAvlqWlp  106 (257)
T COG4106          97 FANAVLQWLP  106 (257)
T ss_pred             hhhhhhhhcc
Confidence            9888887443

>PRK08317 hypothetical protein; Provisional

Probab=98.60  E-value=2.7e-07  Score=78.46  Aligned_cols=82  Identities=23%  Similarity=0.239  Sum_probs=65.8

Q ss_pred             HHhhcccCCCCCceEEEecCCchHHHHHHHHHC-CCCeEEEeec-HHHHhhCCC-----CCCeEEEEccCCC-CCC--Cc
Q 042491          182 LLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFY-PHIKGVNFDL-PHVVATAPV-----YEGVSHVGGDMLN-AVP--NA  251 (266)
Q Consensus       182 ~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~-P~l~~~~~Dl-p~v~~~a~~-----~~ri~~~~gd~~~-~~p--~a  251 (266)
                      +++.++  .....+|||+|||+|.++..+++.+ |..+++++|+ |..++.+++     ..++++..+|+.. +++  .+
T Consensus        11 ~~~~~~--~~~~~~vLdiG~G~G~~~~~~a~~~~~~~~v~~~d~~~~~~~~a~~~~~~~~~~~~~~~~d~~~~~~~~~~~   88 (241)
T PRK08317         11 TFELLA--VQPGDRVLDVGCGPGNDARELARRVGPEGRVVGIDRSEAMLALAKERAAGLGPNVEFVRGDADGLPFPDGSF   88 (241)
T ss_pred             HHHHcC--CCCCCEEEEeCCCCCHHHHHHHHhcCCCcEEEEEeCCHHHHHHHHHHhhCCCCceEEEecccccCCCCCCCc
Confidence            445555  5677899999999999999999998 8889999998 555554432     4679999999887 554  39


Q ss_pred             cEEEeccccccCCC
Q 042491          252 DAVFMKVIVLIQDL  265 (266)
Q Consensus       252 D~~~l~~vLHd~~~  265 (266)
                      |++++.+++|.+.+
T Consensus        89 D~v~~~~~~~~~~~  102 (241)
T PRK08317         89 DAVRSDRVLQHLED  102 (241)
T ss_pred             eEEEEechhhccCC
Confidence            99999999998764

>PTZ00098 phosphoethanolamine N-methyltransferase; Provisional

Probab=98.59  E-value=1.8e-07  Score=81.69  Aligned_cols=82  Identities=21%  Similarity=0.353  Sum_probs=65.0

Q ss_pred             HHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC----CCCeEEEEccCCC-CCCC--c
Q 042491          180 STLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV----YEGVSHVGGDMLN-AVPN--A  251 (266)
Q Consensus       180 ~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~----~~ri~~~~gd~~~-~~p~--a  251 (266)
                      ..++..++  ..+..+|||||||+|..+..+++.+ ..+++++|+ |.+++.+++    .++|+++.+|+.+ ++|.  +
T Consensus        42 ~~~l~~l~--l~~~~~VLDiGcG~G~~a~~la~~~-~~~v~giD~s~~~~~~a~~~~~~~~~i~~~~~D~~~~~~~~~~F  118 (263)
T PTZ00098         42 TKILSDIE--LNENSKVLDIGSGLGGGCKYINEKY-GAHVHGVDICEKMVNIAKLRNSDKNKIEFEANDILKKDFPENTF  118 (263)
T ss_pred             HHHHHhCC--CCCCCEEEEEcCCCChhhHHHHhhc-CCEEEEEECCHHHHHHHHHHcCcCCceEEEECCcccCCCCCCCe
Confidence            34566665  6677899999999999999998876 579999998 666665543    4689999999987 6763  9


Q ss_pred             cEEEeccccccCC
Q 042491          252 DAVFMKVIVLIQD  264 (266)
Q Consensus       252 D~~~l~~vLHd~~  264 (266)
                      |+|+...++|.++
T Consensus       119 D~V~s~~~l~h~~  131 (263)
T PTZ00098        119 DMIYSRDAILHLS  131 (263)
T ss_pred             EEEEEhhhHHhCC
Confidence            9999988776654

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

Probab=98.58  E-value=1e-07  Score=81.71  Aligned_cols=76  Identities=25%  Similarity=0.290  Sum_probs=55.0

Q ss_pred             CCCCceEEEecCCchHHHHHHHHHC-CCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCC-CCCC--ccEEEecc
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEFY-PHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLN-AVPN--ADAVFMKV  258 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~~-P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~-~~p~--aD~~~l~~  258 (266)
                      .....+|||||||+|..+..+++.. |+.+++++|. +.+++.+++      ..+|+++.+|..+ |+|.  +|+++++.
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            3456799999999999999999985 6789999998 888887764      3589999999998 7884  99999999


Q ss_pred             ccccCCC
Q 042491          259 IVLIQDL  265 (266)
Q Consensus       259 vLHd~~~  265 (266)
                      .||+.+|
T Consensus       125 glrn~~d  131 (233)
T PF01209_consen  125 GLRNFPD  131 (233)
T ss_dssp             -GGG-SS
T ss_pred             hHHhhCC
Confidence            9999876

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.

>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=98.57  E-value=1.6e-07  Score=67.93  Aligned_cols=67  Identities=27%  Similarity=0.390  Sum_probs=55.7

Q ss_pred             EEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC---CCCeEEEEccCCC-CCCC--ccEEEeccccccCC
Q 042491          197 VDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV---YEGVSHVGGDMLN-AVPN--ADAVFMKVIVLIQD  264 (266)
Q Consensus       197 vDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~---~~ri~~~~gd~~~-~~p~--aD~~~l~~vLHd~~  264 (266)
                      ||||||+|..+..++++ |..+++++|. ++.++.+++   ..+++++.+|+.+ ++|.  +|++++.+++|.+.
T Consensus         1 LdiG~G~G~~~~~l~~~-~~~~v~~~D~~~~~~~~~~~~~~~~~~~~~~~d~~~l~~~~~sfD~v~~~~~~~~~~   74 (95)
T PF08241_consen    1 LDIGCGTGRFAAALAKR-GGASVTGIDISEEMLEQARKRLKNEGVSFRQGDAEDLPFPDNSFDVVFSNSVLHHLE   74 (95)
T ss_dssp             EEET-TTSHHHHHHHHT-TTCEEEEEES-HHHHHHHHHHTTTSTEEEEESBTTSSSS-TT-EEEEEEESHGGGSS
T ss_pred             CEecCcCCHHHHHHHhc-cCCEEEEEeCCHHHHHHHHhcccccCchheeehHHhCccccccccccccccceeecc
Confidence            79999999999999999 9999999998 555665554   5678899999988 7773  99999999999874

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 ....

>PRK05785 hypothetical protein; Provisional

Probab=98.57  E-value=3.8e-07  Score=77.94  Aligned_cols=71  Identities=18%  Similarity=0.217  Sum_probs=59.6

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCCCCCeEEEEccCCC-CCCC--ccEEEeccccccCCC
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPVYEGVSHVGGDMLN-AVPN--ADAVFMKVIVLIQDL  265 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~~ri~~~~gd~~~-~~p~--aD~~~l~~vLHd~~~  265 (266)
                      ...+|||||||+|.++..+++.+ +.+++++|. +++++.+++.  ..++.+|+.+ |+|.  +|++++...||.++|
T Consensus        51 ~~~~VLDlGcGtG~~~~~l~~~~-~~~v~gvD~S~~Ml~~a~~~--~~~~~~d~~~lp~~d~sfD~v~~~~~l~~~~d  125 (226)
T PRK05785         51 RPKKVLDVAAGKGELSYHFKKVF-KYYVVALDYAENMLKMNLVA--DDKVVGSFEALPFRDKSFDVVMSSFALHASDN  125 (226)
T ss_pred             CCCeEEEEcCCCCHHHHHHHHhc-CCEEEEECCCHHHHHHHHhc--cceEEechhhCCCCCCCEEEEEecChhhccCC
Confidence            35799999999999999999998 578999998 8888877652  3467788887 6663  999999999998875

>PLN02490 MPBQ/MSBQ methyltransferase

Probab=98.55  E-value=2.7e-07  Score=83.13  Aligned_cols=74  Identities=27%  Similarity=0.268  Sum_probs=63.4

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC---CCCeEEEEccCCC-CCCC--ccEEEeccccccCC
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV---YEGVSHVGGDMLN-AVPN--ADAVFMKVIVLIQD  264 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~---~~ri~~~~gd~~~-~~p~--aD~~~l~~vLHd~~  264 (266)
                      ...+|||||||+|.++..+++.+|..+++++|. +++++.+++   ..+++++.+|+.+ +++.  +|+|++..++|.|.
T Consensus       113 ~~~~VLDLGcGtG~~~l~La~~~~~~~VtgVD~S~~mL~~A~~k~~~~~i~~i~gD~e~lp~~~~sFDvVIs~~~L~~~~  192 (340)
T PLN02490        113 RNLKVVDVGGGTGFTTLGIVKHVDAKNVTILDQSPHQLAKAKQKEPLKECKIIEGDAEDLPFPTDYADRYVSAGSIEYWP  192 (340)
T ss_pred             CCCEEEEEecCCcHHHHHHHHHCCCCEEEEEECCHHHHHHHHHhhhccCCeEEeccHHhCCCCCCceeEEEEcChhhhCC
Confidence            457999999999999999999999899999998 777776654   4679999999987 5653  99999999999987


Q ss_pred             C
Q 042491          265 L  265 (266)
Q Consensus       265 ~  265 (266)
                      +
T Consensus       193 d  193 (340)
T PLN02490        193 D  193 (340)
T ss_pred             C
Confidence            5

>PRK00216 ubiE ubiquinone/menaquinone biosynthesis methyltransferase; Reviewed

Probab=98.55  E-value=8.2e-07  Score=75.64  Aligned_cols=83  Identities=18%  Similarity=0.147  Sum_probs=65.2

Q ss_pred             HHHhhcccCCCCCceEEEecCCchHHHHHHHHHCC-CCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCC-CCC-
Q 042491          181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYP-HIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLN-AVP-  249 (266)
Q Consensus       181 ~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P-~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~-~~p-  249 (266)
                      .++..+.  ..+..+|+|||||.|.++..+++.+| +.+++++|+ +.+++.+++       ..+++++.+|+.+ +.+ 
T Consensus        42 ~~~~~~~--~~~~~~vldiG~G~G~~~~~l~~~~~~~~~v~~~D~s~~~~~~a~~~~~~~~~~~~~~~~~~d~~~~~~~~  119 (239)
T PRK00216         42 KTIKWLG--VRPGDKVLDLACGTGDLAIALAKAVGKTGEVVGLDFSEGMLAVGREKLRDLGLSGNVEFVQGDAEALPFPD  119 (239)
T ss_pred             HHHHHhC--CCCCCeEEEeCCCCCHHHHHHHHHcCCCCeEEEEeCCHHHHHHHHHhhcccccccCeEEEecccccCCCCC
Confidence            3444444  33557999999999999999999998 789999998 556555443       3579999999988 443 


Q ss_pred             -CccEEEeccccccCCC
Q 042491          250 -NADAVFMKVIVLIQDL  265 (266)
Q Consensus       250 -~aD~~~l~~vLHd~~~  265 (266)
                       .+|+|++..++|.+++
T Consensus       120 ~~~D~I~~~~~l~~~~~  136 (239)
T PRK00216        120 NSFDAVTIAFGLRNVPD  136 (239)
T ss_pred             CCccEEEEecccccCCC
Confidence             3999999999998765

>TIGR02072 BioC biotin biosynthesis protein BioC

Probab=98.54  E-value=3.3e-07  Score=77.99  Aligned_cols=73  Identities=22%  Similarity=0.333  Sum_probs=60.5

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC--CCCeEEEEccCCC-CCC--CccEEEeccccccCC
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV--YEGVSHVGGDMLN-AVP--NADAVFMKVIVLIQD  264 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~--~~ri~~~~gd~~~-~~p--~aD~~~l~~vLHd~~  264 (266)
                      ...+|||||||+|.++..+++.+|+.+++++|. +.++..++.  .++++++.+|+.+ ++|  .+|+++...++|...
T Consensus        34 ~~~~vLDlG~G~G~~~~~l~~~~~~~~~~~~D~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~fD~vi~~~~l~~~~  112 (240)
T TIGR02072        34 IPASVLDIGCGTGYLTRALLKRFPQAEFIALDISAGMLAQAKTKLSENVQFICGDAEKLPLEDSSFDLIVSNLALQWCD  112 (240)
T ss_pred             CCCeEEEECCCccHHHHHHHHhCCCCcEEEEeChHHHHHHHHHhcCCCCeEEecchhhCCCCCCceeEEEEhhhhhhcc
Confidence            347999999999999999999999999999998 555555443  3589999999988 544  399999999998653

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.

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

Probab=98.53  E-value=9.2e-08  Score=71.00  Aligned_cols=69  Identities=20%  Similarity=0.320  Sum_probs=53.0

Q ss_pred             EEEecCCchHHHHHHHHHC---CCCeEEEeec-HHHHhhCCC-----CCCeEEEEccCCC-CCC--CccEEEec-ccccc
Q 042491          196 LVDVGGGTGEELAEIVEFY---PHIKGVNFDL-PHVVATAPV-----YEGVSHVGGDMLN-AVP--NADAVFMK-VIVLI  262 (266)
Q Consensus       196 vvDvGgG~G~~~~~l~~~~---P~l~~~~~Dl-p~v~~~a~~-----~~ri~~~~gd~~~-~~p--~aD~~~l~-~vLHd  262 (266)
                      |||+|||+|..++.+.+.+   |+.+.+++|+ +++++.+++     ..+++++.+|+.+ +++  .+|+|++. .++|.
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   6689999997 777776654     3589999999988 433  49999994 54777


Q ss_pred             CC
Q 042491          263 QD  264 (266)
Q Consensus       263 ~~  264 (266)
                      ++
T Consensus        81 ~~   82 (101)
T PF13649_consen   81 LS   82 (101)
T ss_dssp             SS
T ss_pred             CC
Confidence            65

>PLN02336 phosphoethanolamine N-methyltransferase

Probab=98.53  E-value=3.4e-07  Score=86.48  Aligned_cols=82  Identities=20%  Similarity=0.254  Sum_probs=65.4

Q ss_pred             HHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-----CCCeEEEEccCCC-CCC-C-c
Q 042491          181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-----YEGVSHVGGDMLN-AVP-N-A  251 (266)
Q Consensus       181 ~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-----~~ri~~~~gd~~~-~~p-~-a  251 (266)
                      .+++.+.  .....+|||||||+|..+..+++.+ +.+++++|+ +.+++.+++     ..+|+++.+|+++ ++| + +
T Consensus       257 ~l~~~~~--~~~~~~vLDiGcG~G~~~~~la~~~-~~~v~gvDiS~~~l~~A~~~~~~~~~~v~~~~~d~~~~~~~~~~f  333 (475)
T PLN02336        257 EFVDKLD--LKPGQKVLDVGCGIGGGDFYMAENF-DVHVVGIDLSVNMISFALERAIGRKCSVEFEVADCTKKTYPDNSF  333 (475)
T ss_pred             HHHHhcC--CCCCCEEEEEeccCCHHHHHHHHhc-CCEEEEEECCHHHHHHHHHHhhcCCCceEEEEcCcccCCCCCCCE
Confidence            3555554  5566899999999999999998876 779999998 666665542     4689999999998 566 3 9


Q ss_pred             cEEEeccccccCCC
Q 042491          252 DAVFMKVIVLIQDL  265 (266)
Q Consensus       252 D~~~l~~vLHd~~~  265 (266)
                      |+|++..++|.+.+
T Consensus       334 D~I~s~~~l~h~~d  347 (475)
T PLN02336        334 DVIYSRDTILHIQD  347 (475)
T ss_pred             EEEEECCcccccCC
Confidence            99999999987764

>PRK07580 Mg-protoporphyrin IX methyl transferase; Validated

Probab=98.51  E-value=4.2e-07  Score=77.31  Aligned_cols=73  Identities=19%  Similarity=0.170  Sum_probs=57.6

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCCCCCccEEEecccccc
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNAVPNADAVFMKVIVLI  262 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~~p~aD~~~l~~vLHd  262 (266)
                      .+..+|||||||+|.++..+++..+  +++++|. +.+++.+++       .++|++..+|+-..-..+|++++..++|.
T Consensus        62 ~~~~~vLDvGcG~G~~~~~l~~~~~--~v~~~D~s~~~i~~a~~~~~~~~~~~~i~~~~~d~~~~~~~fD~v~~~~~l~~  139 (230)
T PRK07580         62 LTGLRILDAGCGVGSLSIPLARRGA--KVVASDISPQMVEEARERAPEAGLAGNITFEVGDLESLLGRFDTVVCLDVLIH  139 (230)
T ss_pred             CCCCEEEEEeCCCCHHHHHHHHcCC--EEEEEECCHHHHHHHHHHHHhcCCccCcEEEEcCchhccCCcCEEEEcchhhc
Confidence            4567999999999999999998865  5899998 677766653       25899999994333335999999999987


Q ss_pred             CCC
Q 042491          263 QDL  265 (266)
Q Consensus       263 ~~~  265 (266)
                      |++
T Consensus       140 ~~~  142 (230)
T PRK07580        140 YPQ  142 (230)
T ss_pred             CCH
Confidence            763

>PRK10258 biotin biosynthesis protein BioC; Provisional

Probab=98.49  E-value=1.2e-06  Score=75.70  Aligned_cols=82  Identities=20%  Similarity=0.187  Sum_probs=62.5

Q ss_pred             HHHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-CCCeEEEEccCCC-CCCC--ccE
Q 042491          179 MSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-YEGVSHVGGDMLN-AVPN--ADA  253 (266)
Q Consensus       179 ~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-~~ri~~~~gd~~~-~~p~--aD~  253 (266)
                      ...+++.++  .....+|||||||+|.++..+.+.  ..+++++|+ |.+++.++. ...+.++.+|+.+ +++.  +|+
T Consensus        31 a~~l~~~l~--~~~~~~vLDiGcG~G~~~~~l~~~--~~~v~~~D~s~~~l~~a~~~~~~~~~~~~d~~~~~~~~~~fD~  106 (251)
T PRK10258         31 ADALLAMLP--QRKFTHVLDAGCGPGWMSRYWRER--GSQVTALDLSPPMLAQARQKDAADHYLAGDIESLPLATATFDL  106 (251)
T ss_pred             HHHHHHhcC--ccCCCeEEEeeCCCCHHHHHHHHc--CCeEEEEECCHHHHHHHHhhCCCCCEEEcCcccCcCCCCcEEE
Confidence            445566555  345689999999999999888764  468999998 888887765 3446788999977 5653  999


Q ss_pred             EEeccccccCC
Q 042491          254 VFMKVIVLIQD  264 (266)
Q Consensus       254 ~~l~~vLHd~~  264 (266)
                      ++....+|..+
T Consensus       107 V~s~~~l~~~~  117 (251)
T PRK10258        107 AWSNLAVQWCG  117 (251)
T ss_pred             EEECchhhhcC
Confidence            99998887543

>PRK15068 tRNA mo(5)U34 methyltransferase; Provisional

Probab=98.48  E-value=5.6e-07  Score=80.87  Aligned_cols=73  Identities=15%  Similarity=0.120  Sum_probs=57.0

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeecHH-HHhhC-------CCCCCeEEEEccCCC-CCCC-ccEEEeccccc
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPH-VVATA-------PVYEGVSHVGGDMLN-AVPN-ADAVFMKVIVL  261 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp~-v~~~a-------~~~~ri~~~~gd~~~-~~p~-aD~~~l~~vLH  261 (266)
                      ..++|||||||+|.++..+++..|. +++++|... .+...       ....+|.++.+|+.+ +.++ +|+|++..+||
T Consensus       122 ~g~~VLDIGCG~G~~~~~la~~g~~-~V~GiD~S~~~l~q~~a~~~~~~~~~~i~~~~~d~e~lp~~~~FD~V~s~~vl~  200 (322)
T PRK15068        122 KGRTVLDVGCGNGYHMWRMLGAGAK-LVVGIDPSQLFLCQFEAVRKLLGNDQRAHLLPLGIEQLPALKAFDTVFSMGVLY  200 (322)
T ss_pred             CCCEEEEeccCCcHHHHHHHHcCCC-EEEEEcCCHHHHHHHHHHHHhcCCCCCeEEEeCCHHHCCCcCCcCEEEECChhh
Confidence            3479999999999999999999877 599999733 33221       114589999999877 5554 99999999998


Q ss_pred             cCCC
Q 042491          262 IQDL  265 (266)
Q Consensus       262 d~~~  265 (266)
                      +..+
T Consensus       201 H~~d  204 (322)
T PRK15068        201 HRRS  204 (322)
T ss_pred             ccCC
Confidence            7654

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

Probab=98.47  E-value=3.8e-07  Score=79.23  Aligned_cols=72  Identities=14%  Similarity=0.225  Sum_probs=59.3

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCC--CCC--CccEEEeccc
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLN--AVP--NADAVFMKVI  259 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~--~~p--~aD~~~l~~v  259 (266)
                      ...+|||||||+|.++..+++.  ..+++++|+ |++++.+++       .++++++.+|+.+  +.+  .+|++++..+
T Consensus        44 ~~~~vLDiGcG~G~~a~~la~~--g~~v~~vD~s~~~l~~a~~~~~~~g~~~~v~~~~~d~~~l~~~~~~~fD~V~~~~v  121 (255)
T PRK11036         44 RPLRVLDAGGGEGQTAIKLAEL--GHQVILCDLSAEMIQRAKQAAEAKGVSDNMQFIHCAAQDIAQHLETPVDLILFHAV  121 (255)
T ss_pred             CCCEEEEeCCCchHHHHHHHHc--CCEEEEEECCHHHHHHHHHHHHhcCCccceEEEEcCHHHHhhhcCCCCCEEEehhH
Confidence            4579999999999999999987  468999998 788877654       3689999999876  333  3999999999


Q ss_pred             cccCCC
Q 042491          260 VLIQDL  265 (266)
Q Consensus       260 LHd~~~  265 (266)
                      ||...+
T Consensus       122 l~~~~~  127 (255)
T PRK11036        122 LEWVAD  127 (255)
T ss_pred             HHhhCC
Confidence            997654

>TIGR00138 gidB 16S rRNA methyltransferase GidB

Probab=98.44  E-value=2.5e-07  Score=76.37  Aligned_cols=70  Identities=17%  Similarity=0.173  Sum_probs=55.4

Q ss_pred             CceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCC-CC-CCccEEEeccccccC
Q 042491          193 IRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLN-AV-PNADAVFMKVIVLIQ  263 (266)
Q Consensus       193 ~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~-~~-p~aD~~~l~~vLHd~  263 (266)
                      ..+|+|||||+|..+..++..+|+.+++++|. +.+++.+++      .++|+++.+|+.+ +. +.+|+|++.. +|+.
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            57999999999999999999999999999998 555554432      3579999999977 22 2599988765 5553

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.

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

Probab=98.43  E-value=1.5e-06  Score=66.28  Aligned_cols=78  Identities=21%  Similarity=0.230  Sum_probs=59.4

Q ss_pred             HHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCC---CCC-C
Q 042491          182 LLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLN---AVP-N  250 (266)
Q Consensus       182 ~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~---~~p-~  250 (266)
                      +++.+.  .....+|+|+|||+|.++..+++++|+.+++.+|. +..++.++.      .++++++.+|...   ..+ .
T Consensus        11 ~~~~~~--~~~~~~vldlG~G~G~~~~~l~~~~~~~~v~~vD~s~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   88 (124)
T TIGR02469        11 TLSKLR--LRPGDVLWDIGAGSGSITIEAARLVPNGRVYAIERNPEALRLIERNARRFGVSNIVIVEGDAPEALEDSLPE   88 (124)
T ss_pred             HHHHcC--CCCCCEEEEeCCCCCHHHHHHHHHCCCceEEEEcCCHHHHHHHHHHHHHhCCCceEEEeccccccChhhcCC
Confidence            344444  44557999999999999999999999999999998 666655442      4679999998764   233 4


Q ss_pred             ccEEEeccccc
Q 042491          251 ADAVFMKVIVL  261 (266)
Q Consensus       251 aD~~~l~~vLH  261 (266)
                      +|++++....+
T Consensus        89 ~D~v~~~~~~~   99 (124)
T TIGR02469        89 PDRVFIGGSGG   99 (124)
T ss_pred             CCEEEECCcch
Confidence            99999876544

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.

>TIGR01934 MenG_MenH_UbiE ubiquinone/menaquinone biosynthesis methyltransferases

Probab=98.42  E-value=1.3e-06  Score=73.60  Aligned_cols=83  Identities=17%  Similarity=0.110  Sum_probs=65.9

Q ss_pred             HHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCC-CeEEEeec-HHHHhhCCC----CCCeEEEEccCCC-CCC--Cc
Q 042491          181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPH-IKGVNFDL-PHVVATAPV----YEGVSHVGGDMLN-AVP--NA  251 (266)
Q Consensus       181 ~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~-l~~~~~Dl-p~v~~~a~~----~~ri~~~~gd~~~-~~p--~a  251 (266)
                      .++..+.  ..+..+|+|+|||.|..+..+++.+|. .+++++|. |.+++.+++    ..+++++.+|+.+ +.+  .+
T Consensus        30 ~~~~~~~--~~~~~~vldiG~G~G~~~~~~~~~~~~~~~~~~iD~~~~~~~~~~~~~~~~~~i~~~~~d~~~~~~~~~~~  107 (223)
T TIGR01934        30 RAVKLIG--VFKGQKVLDVACGTGDLAIELAKSAPDRGKVTGVDFSSEMLEVAKKKSELPLNIEFIQADAEALPFEDNSF  107 (223)
T ss_pred             HHHHHhc--cCCCCeEEEeCCCCChhHHHHHHhcCCCceEEEEECCHHHHHHHHHHhccCCCceEEecchhcCCCCCCcE
Confidence            3444444  346689999999999999999999998 79999998 666665543    3679999999988 444  39


Q ss_pred             cEEEeccccccCCC
Q 042491          252 DAVFMKVIVLIQDL  265 (266)
Q Consensus       252 D~~~l~~vLHd~~~  265 (266)
                      |++++...+|..++
T Consensus       108 D~i~~~~~~~~~~~  121 (223)
T TIGR01934       108 DAVTIAFGLRNVTD  121 (223)
T ss_pred             EEEEEeeeeCCccc
Confidence            99999999987654

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

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

Probab=98.41  E-value=7.3e-07  Score=72.75  Aligned_cols=66  Identities=24%  Similarity=0.353  Sum_probs=55.2

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCCCCC--CccEEEec
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLNAVP--NADAVFMK  257 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~~~p--~aD~~~l~  257 (266)
                      ...+|||+|||+|.++..+++.+|+.+++.+|. |.+++.+++      .+.++++..|.+++++  .+|++++.
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            557999999999999999999999999999998 666665543      2339999999999876  39999985

; 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 ....

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

Probab=98.41  E-value=9.2e-07  Score=80.86  Aligned_cols=78  Identities=22%  Similarity=0.261  Sum_probs=60.5

Q ss_pred             HHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC---------CCCeEEEEccCCCCCC--
Q 042491          182 LLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV---------YEGVSHVGGDMLNAVP--  249 (266)
Q Consensus       182 ~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~---------~~ri~~~~gd~~~~~p--  249 (266)
                      +++.++  .....+|||+|||+|.++..+++++|+.+++.+|. +.+++.++.         ..+++++.+|.++.++  
T Consensus       220 lL~~lp--~~~~~~VLDLGCGtGvi~i~la~~~P~~~V~~vD~S~~Av~~A~~N~~~n~~~~~~~v~~~~~D~l~~~~~~  297 (378)
T PRK15001        220 FMQHLP--ENLEGEIVDLGCGNGVIGLTLLDKNPQAKVVFVDESPMAVASSRLNVETNMPEALDRCEFMINNALSGVEPF  297 (378)
T ss_pred             HHHhCC--cccCCeEEEEeccccHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHHHHcCcccCceEEEEEccccccCCCC
Confidence            455555  22346999999999999999999999999999998 466655542         2478999999998654  


Q ss_pred             CccEEEeccccc
Q 042491          250 NADAVFMKVIVL  261 (266)
Q Consensus       250 ~aD~~~l~~vLH  261 (266)
                      .+|+|++.=-+|
T Consensus       298 ~fDlIlsNPPfh  309 (378)
T PRK15001        298 RFNAVLCNPPFH  309 (378)
T ss_pred             CEEEEEECcCcc
Confidence            499999964433

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

Probab=98.39  E-value=7.7e-07  Score=78.62  Aligned_cols=66  Identities=20%  Similarity=0.381  Sum_probs=56.7

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCCCC--CccEEEec
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNAVP--NADAVFMK  257 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~~p--~aD~~~l~  257 (266)
                      +..+|+|+|||+|.++..+++.+|+.+++.+|. +.+++.+++       .+||+++.+|+++++|  .+|++++.
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            457899999999999999999999999999998 777776653       3689999999998776  39999974

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.

>PRK00107 gidB 16S rRNA methyltransferase GidB; Reviewed

Probab=98.38  E-value=1.9e-06  Score=71.51  Aligned_cols=67  Identities=22%  Similarity=0.213  Sum_probs=55.3

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCC-CCC-CccEEEecc
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLN-AVP-NADAVFMKV  258 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~-~~p-~aD~~~l~~  258 (266)
                      ...+|||||||+|..+..++++.|+.+++.+|. +++++.+++      .++|+++.+|+.+ +.+ .+|++++..
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            468999999999999999999999999999998 666665553      3459999999877 233 499999864

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

Probab=98.38  E-value=2.7e-06  Score=72.52  Aligned_cols=74  Identities=24%  Similarity=0.272  Sum_probs=64.0

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCC------CeEEEeec-HHHHhhCCC---------CCCeEEEEccCCC-CCCC--cc
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPH------IKGVNFDL-PHVVATAPV---------YEGVSHVGGDMLN-AVPN--AD  252 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~------l~~~~~Dl-p~v~~~a~~---------~~ri~~~~gd~~~-~~p~--aD  252 (266)
                      ..-++|||+||+|..+..+++..++      .+++++|. |+++..+++         ..|+.++.||-.+ |+|.  +|
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            3489999999999999999999999      79999998 888776543         5679999999999 8884  99


Q ss_pred             EEEeccccccCCC
Q 042491          253 AVFMKVIVLIQDL  265 (266)
Q Consensus       253 ~~~l~~vLHd~~~  265 (266)
                      .|.+.--+.+|++
T Consensus       180 ~yTiafGIRN~th  192 (296)
T KOG1540|consen  180 AYTIAFGIRNVTH  192 (296)
T ss_pred             eEEEecceecCCC
Confidence            9999988888765

>TIGR00477 tehB tellurite resistance protein TehB

Probab=98.37  E-value=1.2e-06  Score=73.12  Aligned_cols=80  Identities=16%  Similarity=0.141  Sum_probs=59.7

Q ss_pred             HHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-----CCCeEEEEccCCC-CCC-Ccc
Q 042491          181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-----YEGVSHVGGDMLN-AVP-NAD  252 (266)
Q Consensus       181 ~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-----~~ri~~~~gd~~~-~~p-~aD  252 (266)
                      .+++.++  .....+|||||||+|..+..++++  ..+++++|. |.+++.+++     .-++++..+|+.. +++ .+|
T Consensus        21 ~l~~~~~--~~~~~~vLDiGcG~G~~a~~la~~--g~~V~~iD~s~~~l~~a~~~~~~~~~~v~~~~~d~~~~~~~~~fD   96 (195)
T TIGR00477        21 AVREAVK--TVAPCKTLDLGCGQGRNSLYLSLA--GYDVRAWDHNPASIASVLDMKARENLPLRTDAYDINAAALNEDYD   96 (195)
T ss_pred             HHHHHhc--cCCCCcEEEeCCCCCHHHHHHHHC--CCeEEEEECCHHHHHHHHHHHHHhCCCceeEeccchhccccCCCC
Confidence            3445554  334579999999999999999986  468999998 667765543     2247788888765 344 499


Q ss_pred             EEEeccccccCC
Q 042491          253 AVFMKVIVLIQD  264 (266)
Q Consensus       253 ~~~l~~vLHd~~  264 (266)
                      ++++..++|..+
T Consensus        97 ~I~~~~~~~~~~  108 (195)
T TIGR00477        97 FIFSTVVFMFLQ  108 (195)
T ss_pred             EEEEecccccCC
Confidence            999999998764

Part of a tellurite-reducing operon tehA and tehB

>TIGR00536 hemK_fam HemK family putative methylases

Probab=98.35  E-value=1.8e-06  Score=76.19  Aligned_cols=64  Identities=17%  Similarity=0.367  Sum_probs=55.3

Q ss_pred             ceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCCCC--CccEEEec
Q 042491          194 RSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNAVP--NADAVFMK  257 (266)
Q Consensus       194 ~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~~p--~aD~~~l~  257 (266)
                      .+|+|+|||+|.++..+++.+|+.+++.+|. +.+++.+++       .+|++++.+|++++++  .+|++++.
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            6899999999999999999999999999998 667766553       3579999999999776  49998874

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.

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

Probab=98.35  E-value=8.8e-07  Score=79.09  Aligned_cols=64  Identities=20%  Similarity=0.368  Sum_probs=55.9

Q ss_pred             ceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCCCC--CccEEEec
Q 042491          194 RSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNAVP--NADAVFMK  257 (266)
Q Consensus       194 ~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~~p--~aD~~~l~  257 (266)
                      .+|+|+|||+|.++..+++.+|+.+++.+|+ |.+++.+++       .+||+++.+|+++.+|  .+|++++.
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 777776654       3689999999988766  39999974

>PRK09489 rsmC 16S ribosomal RNA m2G1207 methyltransferase; Provisional

Probab=98.34  E-value=1.9e-06  Score=78.08  Aligned_cols=71  Identities=14%  Similarity=0.135  Sum_probs=58.1

Q ss_pred             CceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-----CCCeEEEEccCCCCCCC-ccEEEeccccccC
Q 042491          193 IRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-----YEGVSHVGGDMLNAVPN-ADAVFMKVIVLIQ  263 (266)
Q Consensus       193 ~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-----~~ri~~~~gd~~~~~p~-aD~~~l~~vLHd~  263 (266)
                      ..+|+|+|||+|.++..+++++|+.+++++|. +.+++.++.     .-..+++.+|.+...++ +|+|++.--+|+.
T Consensus       197 ~g~VLDlGCG~G~ls~~la~~~p~~~v~~vDis~~Al~~A~~nl~~n~l~~~~~~~D~~~~~~~~fDlIvsNPPFH~g  274 (342)
T PRK09489        197 KGKVLDVGCGAGVLSAVLARHSPKIRLTLSDVSAAALESSRATLAANGLEGEVFASNVFSDIKGRFDMIISNPPFHDG  274 (342)
T ss_pred             CCeEEEeccCcCHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHHHHcCCCCEEEEcccccccCCCccEEEECCCccCC
Confidence            35899999999999999999999999999998 566665543     22457788998886664 9999998888863

>PRK04457 spermidine synthase; Provisional

Probab=98.33  E-value=9.1e-07  Score=77.26  Aligned_cols=67  Identities=18%  Similarity=0.312  Sum_probs=57.4

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCC---CCC-CccEEEec
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLN---AVP-NADAVFMK  257 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~---~~p-~aD~~~l~  257 (266)
                      ++.++|||||||.|.++..+++.+|+.+++++|+ |++++.+++       .+|++++.+|..+   ..+ .+|+|++-
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            3568999999999999999999999999999999 999887664       4789999999865   345 49999874

>PLN02396 hexaprenyldihydroxybenzoate methyltransferase

Probab=98.33  E-value=7.6e-07  Score=79.88  Aligned_cols=72  Identities=15%  Similarity=0.059  Sum_probs=58.2

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCC-CCC--CccEEEecccc
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLN-AVP--NADAVFMKVIV  260 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~-~~p--~aD~~~l~~vL  260 (266)
                      ...+|||||||+|.++..+++  ++.+++++|. +++++.++.       ..+|+++.+|+.+ +.+  .||++++..+|
T Consensus       131 ~g~~ILDIGCG~G~~s~~La~--~g~~V~GID~s~~~i~~Ar~~~~~~~~~~~i~~~~~dae~l~~~~~~FD~Vi~~~vL  208 (322)
T PLN02396        131 EGLKFIDIGCGGGLLSEPLAR--MGATVTGVDAVDKNVKIARLHADMDPVTSTIEYLCTTAEKLADEGRKFDAVLSLEVI  208 (322)
T ss_pred             CCCEEEEeeCCCCHHHHHHHH--cCCEEEEEeCCHHHHHHHHHHHHhcCcccceeEEecCHHHhhhccCCCCEEEEhhHH
Confidence            346999999999999998876  4678999998 777776653       2489999999866 433  39999999999


Q ss_pred             ccCCC
Q 042491          261 LIQDL  265 (266)
Q Consensus       261 Hd~~~  265 (266)
                      |+..+
T Consensus       209 eHv~d  213 (322)
T PLN02396        209 EHVAN  213 (322)
T ss_pred             HhcCC
Confidence            98765

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

Probab=98.33  E-value=1.8e-06  Score=76.14  Aligned_cols=63  Identities=21%  Similarity=0.338  Sum_probs=54.6

Q ss_pred             eEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCCCCCC-ccEEEec
Q 042491          195 SLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLNAVPN-ADAVFMK  257 (266)
Q Consensus       195 ~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~~~p~-aD~~~l~  257 (266)
                      +|+|||||+|..+..++++.|+.+++..|+ |..++.|+.      ..|+.++.+|+|+++++ +|+++.+
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            899999999999999999999999999998 777776654      26777888899999875 9998764

>TIGR00452 methyltransferase, putative

Probab=98.32  E-value=2.1e-06  Score=76.70  Aligned_cols=81  Identities=16%  Similarity=0.090  Sum_probs=59.4

Q ss_pred             HHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhC-------CCCCCeEEEEccCCC-CC-CCc
Q 042491          182 LLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATA-------PVYEGVSHVGGDMLN-AV-PNA  251 (266)
Q Consensus       182 ~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a-------~~~~ri~~~~gd~~~-~~-p~a  251 (266)
                      ++..+.  .....+|+|||||+|.++..+++..++ +++++|. +.++..+       ....++.+..+++.+ +. +.|
T Consensus       113 ~l~~l~--~~~g~~VLDvGCG~G~~~~~~~~~g~~-~v~GiDpS~~ml~q~~~~~~~~~~~~~v~~~~~~ie~lp~~~~F  189 (314)
T TIGR00452       113 VLPHLS--PLKGRTILDVGCGSGYHMWRMLGHGAK-SLVGIDPTVLFLCQFEAVRKLLDNDKRAILEPLGIEQLHELYAF  189 (314)
T ss_pred             HHHhcC--CCCCCEEEEeccCCcHHHHHHHHcCCC-EEEEEcCCHHHHHHHHHHHHHhccCCCeEEEECCHHHCCCCCCc
Confidence            444443  234579999999999999999998875 7899997 4343321       124688888888766 32 259


Q ss_pred             cEEEeccccccCCC
Q 042491          252 DAVFMKVIVLIQDL  265 (266)
Q Consensus       252 D~~~l~~vLHd~~~  265 (266)
                      |+|++..+||.+.+
T Consensus       190 D~V~s~gvL~H~~d  203 (314)
T TIGR00452       190 DTVFSMGVLYHRKS  203 (314)
T ss_pred             CEEEEcchhhccCC
Confidence            99999999998754

Known examples to date are restricted to the proteobacteria.

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

Probab=98.31  E-value=1.1e-06  Score=72.32  Aligned_cols=70  Identities=27%  Similarity=0.396  Sum_probs=54.6

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeecHHH-HhhCCCCCCeEEEEccCCCC---CCC--ccEEEecccccc
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHV-VATAPVYEGVSHVGGDMLNA---VPN--ADAVFMKVIVLI  262 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp~v-~~~a~~~~ri~~~~gd~~~~---~p~--aD~~~l~~vLHd  262 (266)
                      +...+|||+|||.|.++..|.+. .++++.++|+.+. +.. .-...++++.+|+-+.   +|.  ||.++|++.|-.
T Consensus        12 ~pgsrVLDLGCGdG~LL~~L~~~-k~v~g~GvEid~~~v~~-cv~rGv~Viq~Dld~gL~~f~d~sFD~VIlsqtLQ~   87 (193)
T PF07021_consen   12 EPGSRVLDLGCGDGELLAYLKDE-KQVDGYGVEIDPDNVAA-CVARGVSVIQGDLDEGLADFPDQSFDYVILSQTLQA   87 (193)
T ss_pred             CCCCEEEecCCCchHHHHHHHHh-cCCeEEEEecCHHHHHH-HHHcCCCEEECCHHHhHhhCCCCCccEEehHhHHHh
Confidence            35689999999999999888776 6899999998332 222 1246789999999884   663  999999998743

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 [].

>PRK11873 arsM arsenite S-adenosylmethyltransferase; Reviewed

Probab=98.25  E-value=3.1e-06  Score=74.10  Aligned_cols=76  Identities=20%  Similarity=0.322  Sum_probs=61.7

Q ss_pred             CCCCceEEEecCCchHHHHHHHHHC-CCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCC-CCC--CccEEEecc
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEFY-PHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLN-AVP--NADAVFMKV  258 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~~-P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~-~~p--~aD~~~l~~  258 (266)
                      .....+|||||||+|..+..+++.. |+.+++++|+ |.+++.+++      .++++++.+|+.+ ++|  .+|+++...
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            4566899999999999988877764 6678999998 777777654      3689999999887 565  399999999


Q ss_pred             ccccCCC
Q 042491          259 IVLIQDL  265 (266)
Q Consensus       259 vLHd~~~  265 (266)
                      ++|.+.+
T Consensus       155 v~~~~~d  161 (272)
T PRK11873        155 VINLSPD  161 (272)
T ss_pred             cccCCCC
Confidence            9987654

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

Probab=98.25  E-value=6.3e-06  Score=69.32  Aligned_cols=80  Identities=16%  Similarity=0.124  Sum_probs=60.5

Q ss_pred             HHhhcccCCCCCceEEEecCCchHHHHHHHHHCC-CCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCCCC---
Q 042491          182 LLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYP-HIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNAVP---  249 (266)
Q Consensus       182 ~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P-~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~~p---  249 (266)
                      +++.++  .....+|||||||+|..+..+++..+ .-+++.+|. |++++.+++       .++++++.+|+.+.+|   
T Consensus        64 ~~~~l~--~~~~~~VLDiG~GsG~~~~~la~~~~~~g~V~~iD~~~~~~~~a~~~l~~~~~~~~v~~~~~d~~~~~~~~~  141 (205)
T PRK13944         64 MCELIE--PRPGMKILEVGTGSGYQAAVCAEAIERRGKVYTVEIVKELAIYAAQNIERLGYWGVVEVYHGDGKRGLEKHA  141 (205)
T ss_pred             HHHhcC--CCCCCEEEEECcCccHHHHHHHHhcCCCCEEEEEeCCHHHHHHHHHHHHHcCCCCcEEEEECCcccCCccCC
Confidence            344444  44567999999999999999998875 558999998 666665543       3569999999988544   


Q ss_pred             CccEEEeccccccC
Q 042491          250 NADAVFMKVIVLIQ  263 (266)
Q Consensus       250 ~aD~~~l~~vLHd~  263 (266)
                      .+|++++...++..
T Consensus       142 ~fD~Ii~~~~~~~~  155 (205)
T PRK13944        142 PFDAIIVTAAASTI  155 (205)
T ss_pred             CccEEEEccCcchh
Confidence            49999998776543

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

Probab=98.25  E-value=1.6e-06  Score=71.53  Aligned_cols=77  Identities=17%  Similarity=0.210  Sum_probs=58.4

Q ss_pred             hcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC----CCCeEEEEccCCCCCCC--ccEEEec
Q 042491          185 HYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV----YEGVSHVGGDMLNAVPN--ADAVFMK  257 (266)
Q Consensus       185 ~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~----~~ri~~~~gd~~~~~p~--aD~~~l~  257 (266)
                      .++  -....+++|||||.|.+...|+.+.-  +.++.|. |..++.+++    .++|+++.+|+-+..|+  ||+++++
T Consensus        38 aLp--~~ry~~alEvGCs~G~lT~~LA~rCd--~LlavDis~~Al~~Ar~Rl~~~~~V~~~~~dvp~~~P~~~FDLIV~S  113 (201)
T PF05401_consen   38 ALP--RRRYRRALEVGCSIGVLTERLAPRCD--RLLAVDISPRALARARERLAGLPHVEWIQADVPEFWPEGRFDLIVLS  113 (201)
T ss_dssp             HHT--TSSEEEEEEE--TTSHHHHHHGGGEE--EEEEEES-HHHHHHHHHHTTT-SSEEEEES-TTT---SS-EEEEEEE
T ss_pred             hcC--ccccceeEecCCCccHHHHHHHHhhC--ceEEEeCCHHHHHHHHHhcCCCCCeEEEECcCCCCCCCCCeeEEEEe
Confidence            355  45678999999999999999999963  6788898 777777664    67899999999887773  9999999


Q ss_pred             cccccCCC
Q 042491          258 VIVLIQDL  265 (266)
Q Consensus       258 ~vLHd~~~  265 (266)
                      -|+|++++
T Consensus       114 EVlYYL~~  121 (201)
T PF05401_consen  114 EVLYYLDD  121 (201)
T ss_dssp             S-GGGSSS
T ss_pred             hHhHcCCC
Confidence            99999975

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.

>TIGR02081 metW methionine biosynthesis protein MetW

Probab=98.25  E-value=3.2e-06  Score=70.38  Aligned_cols=72  Identities=24%  Similarity=0.361  Sum_probs=56.2

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCCCCCeEEEEccCCC---CCC--CccEEEeccccccCCC
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPVYEGVSHVGGDMLN---AVP--NADAVFMKVIVLIQDL  265 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~~ri~~~~gd~~~---~~p--~aD~~~l~~vLHd~~~  265 (266)
                      ...+|||||||+|.++..+++. ...+++++|. ++.++.++. .+++++.+|+.+   +++  .+|++++..+||+..+
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            4569999999999999888776 4567889998 666665543 468899999865   244  3999999999997654

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.

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

Probab=98.23  E-value=5e-06  Score=68.07  Aligned_cols=73  Identities=25%  Similarity=0.313  Sum_probs=59.5

Q ss_pred             HhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCCC---CCCcc
Q 042491          183 LSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLNA---VPNAD  252 (266)
Q Consensus       183 ~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~~---~p~aD  252 (266)
                      +..+.  ..+..+++|||||+|..+++++...|+.|++.+|. ++.++..+.      .++++++.||--+.   .|.+|
T Consensus        27 ls~L~--~~~g~~l~DIGaGtGsi~iE~a~~~p~~~v~AIe~~~~a~~~~~~N~~~fg~~n~~vv~g~Ap~~L~~~~~~d  104 (187)
T COG2242          27 LSKLR--PRPGDRLWDIGAGTGSITIEWALAGPSGRVIAIERDEEALELIERNAARFGVDNLEVVEGDAPEALPDLPSPD  104 (187)
T ss_pred             HHhhC--CCCCCEEEEeCCCccHHHHHHHHhCCCceEEEEecCHHHHHHHHHHHHHhCCCcEEEEeccchHhhcCCCCCC
Confidence            44454  56778999999999999999999999999999997 555555443      68999999998774   44699


Q ss_pred             EEEec
Q 042491          253 AVFMK  257 (266)
Q Consensus       253 ~~~l~  257 (266)
                      .+++.
T Consensus       105 aiFIG  109 (187)
T COG2242         105 AIFIG  109 (187)
T ss_pred             EEEEC
Confidence            99874

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

Probab=98.22  E-value=4.1e-06  Score=77.09  Aligned_cols=66  Identities=20%  Similarity=0.241  Sum_probs=55.9

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-----CCCeEEEEccCCCC-CC---CccEEEec
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-----YEGVSHVGGDMLNA-VP---NADAVFMK  257 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-----~~ri~~~~gd~~~~-~p---~aD~~~l~  257 (266)
                      ...+|+|||||+|.++..+++++|+.+++.+|. |.+++.+++     ..||+++.+|++++ .|   .+|++++.
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            446999999999999999999999999999999 888876654     45899999999874 43   38999874

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

Probab=98.22  E-value=8.3e-06  Score=68.97  Aligned_cols=81  Identities=17%  Similarity=0.229  Sum_probs=62.3

Q ss_pred             HHHHhhcccCCCCCceEEEecCCchHHHHHHHHHC-CCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCCCCC--
Q 042491          180 STLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFY-PHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLNAVP--  249 (266)
Q Consensus       180 ~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~-P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~~~p--  249 (266)
                      ..++..++  .....+|||||||+|..+..+++.. ++.+++.+|. |++++.+++      .++|+++.+|..+.++  
T Consensus        66 ~~~~~~l~--~~~g~~VLdIG~GsG~~t~~la~~~~~~~~V~~vE~~~~~~~~a~~~l~~~g~~~v~~~~gd~~~~~~~~  143 (212)
T PRK13942         66 AIMCELLD--LKEGMKVLEIGTGSGYHAAVVAEIVGKSGKVVTIERIPELAEKAKKTLKKLGYDNVEVIVGDGTLGYEEN  143 (212)
T ss_pred             HHHHHHcC--CCCcCEEEEECCcccHHHHHHHHhcCCCCEEEEEeCCHHHHHHHHHHHHHcCCCCeEEEECCcccCCCcC
Confidence            34555565  6677899999999999999988886 4578999997 777766654      3579999999987433  


Q ss_pred             -CccEEEecccccc
Q 042491          250 -NADAVFMKVIVLI  262 (266)
Q Consensus       250 -~aD~~~l~~vLHd  262 (266)
                       .||+|++...++.
T Consensus       144 ~~fD~I~~~~~~~~  157 (212)
T PRK13942        144 APYDRIYVTAAGPD  157 (212)
T ss_pred             CCcCEEEECCCccc
Confidence             4999998766554

>PRK12335 tellurite resistance protein TehB; Provisional

Probab=98.21  E-value=3.6e-06  Score=74.45  Aligned_cols=79  Identities=13%  Similarity=0.156  Sum_probs=59.8

Q ss_pred             HHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-----CCCeEEEEccCCCC-CCC-ccE
Q 042491          182 LLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-----YEGVSHVGGDMLNA-VPN-ADA  253 (266)
Q Consensus       182 ~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-----~~ri~~~~gd~~~~-~p~-aD~  253 (266)
                      ++..++  .....+|||||||+|..+..+++.  ..+++++|. +.+++.+++     .-++++..+|+... +++ +|+
T Consensus       112 ~~~~~~--~~~~~~vLDlGcG~G~~~~~la~~--g~~V~avD~s~~ai~~~~~~~~~~~l~v~~~~~D~~~~~~~~~fD~  187 (287)
T PRK12335        112 VLEAVQ--TVKPGKALDLGCGQGRNSLYLALL--GFDVTAVDINQQSLENLQEIAEKENLNIRTGLYDINSASIQEEYDF  187 (287)
T ss_pred             HHHHhh--ccCCCCEEEeCCCCCHHHHHHHHC--CCEEEEEECCHHHHHHHHHHHHHcCCceEEEEechhcccccCCccE
Confidence            444444  334569999999999999999885  578999998 666665543     23688888998873 554 999


Q ss_pred             EEeccccccCC
Q 042491          254 VFMKVIVLIQD  264 (266)
Q Consensus       254 ~~l~~vLHd~~  264 (266)
                      +++..+||..+
T Consensus       188 I~~~~vl~~l~  198 (287)
T PRK12335        188 ILSTVVLMFLN  198 (287)
T ss_pred             EEEcchhhhCC
Confidence            99999998653

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

Probab=98.20  E-value=6.2e-06  Score=70.98  Aligned_cols=65  Identities=22%  Similarity=0.413  Sum_probs=55.1

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCCCCC--CccEEEe
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLNAVP--NADAVFM  256 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~~~p--~aD~~~l  256 (266)
                      ...+|+|+|||+|.++..+++.+|+.+++++|. +.+++.++.      .++++++.+|++++++  .+|++++
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 777765553      3479999999998765  3999987

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.

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

Probab=98.17  E-value=3e-06  Score=80.64  Aligned_cols=64  Identities=11%  Similarity=0.246  Sum_probs=55.5

Q ss_pred             CceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCCCC--CccEEEe
Q 042491          193 IRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNAVP--NADAVFM  256 (266)
Q Consensus       193 ~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~~p--~aD~~~l  256 (266)
                      ..+|||||||+|.++..+++++|+.+++.+|+ |.+++.+++       .+||+++.+|+++.++  .+|++++
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 677776654       4689999999998665  3999987

>TIGR00537 hemK_rel_arch HemK-related putative methylase

Probab=98.17  E-value=6.6e-06  Score=67.51  Aligned_cols=70  Identities=19%  Similarity=0.204  Sum_probs=56.1

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-----CCCeEEEEccCCCCCC-CccEEEeccccccC
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-----YEGVSHVGGDMLNAVP-NADAVFMKVIVLIQ  263 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-----~~ri~~~~gd~~~~~p-~aD~~~l~~vLHd~  263 (266)
                      ...+|+|+|||+|.++..+.+..+  +++.+|+ |.+++.++.     .-+++++.+|+++..+ .+|++++.-.+|..
T Consensus        19 ~~~~vLdlG~G~G~~~~~l~~~~~--~v~~vD~s~~~~~~a~~~~~~~~~~~~~~~~d~~~~~~~~fD~Vi~n~p~~~~   95 (179)
T TIGR00537        19 KPDDVLEIGAGTGLVAIRLKGKGK--CILTTDINPFAVKELRENAKLNNVGLDVVMTDLFKGVRGKFDVILFNPPYLPL   95 (179)
T ss_pred             CCCeEEEeCCChhHHHHHHHhcCC--EEEEEECCHHHHHHHHHHHHHcCCceEEEEcccccccCCcccEEEECCCCCCC
Confidence            346899999999999999999987  8999998 777776554     3468889999988544 59999988766543

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=98.17  E-value=6.9e-06  Score=66.84  Aligned_cols=74  Identities=15%  Similarity=0.313  Sum_probs=56.5

Q ss_pred             HHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC----CCCeEEEEccCCC-CCCC--c
Q 042491          180 STLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV----YEGVSHVGGDMLN-AVPN--A  251 (266)
Q Consensus       180 ~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~----~~ri~~~~gd~~~-~~p~--a  251 (266)
                      ..+++.++  +....+++|||||.|.++..++++  ..+++.+|. +.+++.+++    .++++++.+|+.+ +.++  +
T Consensus         3 ~~i~~~~~--~~~~~~vLEiG~G~G~lt~~l~~~--~~~v~~vE~~~~~~~~~~~~~~~~~~v~ii~~D~~~~~~~~~~~   78 (169)
T smart00650        3 DKIVRAAN--LRPGDTVLEIGPGKGALTEELLER--AARVTAIEIDPRLAPRLREKFAAADNLTVIHGDALKFDLPKLQP   78 (169)
T ss_pred             HHHHHhcC--CCCcCEEEEECCCccHHHHHHHhc--CCeEEEEECCHHHHHHHHHHhccCCCEEEEECchhcCCccccCC
Confidence            34556665  556679999999999999999998  468899998 556655443    4689999999998 5554  7


Q ss_pred             cEEEec
Q 042491          252 DAVFMK  257 (266)
Q Consensus       252 D~~~l~  257 (266)
                      |.++..
T Consensus        79 d~vi~n   84 (169)
T smart00650       79 YKVVGN   84 (169)
T ss_pred             CEEEEC
Confidence            877653

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

Probab=98.17  E-value=1.2e-05  Score=68.05  Aligned_cols=79  Identities=15%  Similarity=0.195  Sum_probs=60.5

Q ss_pred             HHHhhcccCCCCCceEEEecCCchHHHHHHHHHCC-CCeEEEeec-HHHHhhCCC------CCCeEEEEccCCCCCC---
Q 042491          181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYP-HIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLNAVP---  249 (266)
Q Consensus       181 ~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P-~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~~~p---  249 (266)
                      .+++.++  .....+|||||||+|.++..+++..+ +.+++.+|. |++++.+++      .++++++.+|..+..+   
T Consensus        68 ~~~~~l~--~~~~~~VLDiG~GsG~~a~~la~~~~~~g~V~~vD~~~~~~~~A~~~~~~~g~~~v~~~~~d~~~~~~~~~  145 (215)
T TIGR00080        68 MMTELLE--LKPGMKVLEIGTGSGYQAAVLAEIVGRDGLVVSIERIPELAEKAERRLRKLGLDNVIVIVGDGTQGWEPLA  145 (215)
T ss_pred             HHHHHhC--CCCcCEEEEECCCccHHHHHHHHHhCCCCEEEEEeCCHHHHHHHHHHHHHCCCCCeEEEECCcccCCcccC
Confidence            3445555  55678999999999999999999875 467899996 777776653      3679999999987433   


Q ss_pred             CccEEEeccccc
Q 042491          250 NADAVFMKVIVL  261 (266)
Q Consensus       250 ~aD~~~l~~vLH  261 (266)
                      .+|++++....+
T Consensus       146 ~fD~Ii~~~~~~  157 (215)
T TIGR00080       146 PYDRIYVTAAGP  157 (215)
T ss_pred             CCCEEEEcCCcc
Confidence            499999875443

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

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

Probab=98.15  E-value=1e-05  Score=71.09  Aligned_cols=80  Identities=19%  Similarity=0.138  Sum_probs=62.4

Q ss_pred             HHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCCCCCC-cc
Q 042491          181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLNAVPN-AD  252 (266)
Q Consensus       181 ~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~~~p~-aD  252 (266)
                      -+++.++  .....+|+|+|||.|.+++.+++.+|+.+.+..|. ...++.+++      .++..+...|.++++++ +|
T Consensus       149 lLl~~l~--~~~~~~vlDlGCG~Gvlg~~la~~~p~~~vtmvDvn~~Av~~ar~Nl~~N~~~~~~v~~s~~~~~v~~kfd  226 (300)
T COG2813         149 LLLETLP--PDLGGKVLDLGCGYGVLGLVLAKKSPQAKLTLVDVNARAVESARKNLAANGVENTEVWASNLYEPVEGKFD  226 (300)
T ss_pred             HHHHhCC--ccCCCcEEEeCCCccHHHHHHHHhCCCCeEEEEecCHHHHHHHHHhHHHcCCCccEEEEeccccccccccc
Confidence            4566676  43344999999999999999999999999999998 455555554      23336788999998775 99


Q ss_pred             EEEecccccc
Q 042491          253 AVFMKVIVLI  262 (266)
Q Consensus       253 ~~~l~~vLHd  262 (266)
                      .|++.==+|.
T Consensus       227 ~IisNPPfh~  236 (300)
T COG2813         227 LIISNPPFHA  236 (300)
T ss_pred             EEEeCCCccC
Confidence            9998765553

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

Probab=98.15  E-value=1e-05  Score=70.71  Aligned_cols=67  Identities=21%  Similarity=0.344  Sum_probs=55.9

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCCCCC--CccEEEec
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLNAVP--NADAVFMK  257 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~~~p--~aD~~~l~  257 (266)
                      .+..+|+|+|||+|..+..+++.+|..+++++|. +.+++.+++      ..+++++.+|++++.+  .+|+++..
T Consensus       107 ~~~~~vLDiG~GsG~~~~~la~~~~~~~v~~iDis~~~l~~a~~n~~~~~~~~i~~~~~d~~~~~~~~~fD~Iv~n  182 (275)
T PRK09328        107 KEPLRVLDLGTGSGAIALALAKERPDAEVTAVDISPEALAVARRNAKHGLGARVEFLQGDWFEPLPGGRFDLIVSN  182 (275)
T ss_pred             cCCCEEEEEcCcHHHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHHhCCCCcEEEEEccccCcCCCCceeEEEEC
Confidence            4567999999999999999999999999999998 566655443      4689999999998765  49999873

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

Probab=98.14  E-value=3.3e-06  Score=72.52  Aligned_cols=75  Identities=16%  Similarity=0.217  Sum_probs=59.8

Q ss_pred             HHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCC---CC-
Q 042491          182 LLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNA---VP-  249 (266)
Q Consensus       182 ~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~---~p-  249 (266)
                      ++..+.. ....++|+|+|||.|..+..+++++++.+++++|+ ++.++.|++       .+||+++..|+.+-   .+ 
T Consensus        35 LL~~~~~-~~~~~~IlDlGaG~G~l~L~la~r~~~a~I~~VEiq~~~a~~A~~nv~ln~l~~ri~v~~~Di~~~~~~~~~  113 (248)
T COG4123          35 LLAAFAP-VPKKGRILDLGAGNGALGLLLAQRTEKAKIVGVEIQEEAAEMAQRNVALNPLEERIQVIEADIKEFLKALVF  113 (248)
T ss_pred             HHHhhcc-cccCCeEEEecCCcCHHHHHHhccCCCCcEEEEEeCHHHHHHHHHHHHhCcchhceeEehhhHHHhhhcccc
Confidence            4444431 34589999999999999999999999999999998 556666554       79999999999882   22 


Q ss_pred             -CccEEEec
Q 042491          250 -NADAVFMK  257 (266)
Q Consensus       250 -~aD~~~l~  257 (266)
                       .+|+|++.
T Consensus       114 ~~fD~Ii~N  122 (248)
T COG4123         114 ASFDLIICN  122 (248)
T ss_pred             cccCEEEeC
Confidence             38999875

>PLN02585 magnesium protoporphyrin IX methyltransferase

Probab=98.13  E-value=5.3e-06  Score=74.25  Aligned_cols=71  Identities=17%  Similarity=0.032  Sum_probs=55.7

Q ss_pred             CceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-----------CCCeEEEEccCCCCCCCccEEEecccc
Q 042491          193 IRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-----------YEGVSHVGGDMLNAVPNADAVFMKVIV  260 (266)
Q Consensus       193 ~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-----------~~ri~~~~gd~~~~~p~aD~~~l~~vL  260 (266)
                      ..+|||||||+|.++..+++.  +.+++++|+ +.+++.+++           ..++++..+|+.+.-..+|+|++..+|
T Consensus       145 ~~~VLDlGcGtG~~a~~la~~--g~~V~gvD~S~~ml~~A~~~~~~~~~~~~~~~~~~f~~~Dl~~l~~~fD~Vv~~~vL  222 (315)
T PLN02585        145 GVTVCDAGCGTGSLAIPLALE--GAIVSASDISAAMVAEAERRAKEALAALPPEVLPKFEANDLESLSGKYDTVTCLDVL  222 (315)
T ss_pred             CCEEEEecCCCCHHHHHHHHC--CCEEEEEECCHHHHHHHHHHHHhcccccccccceEEEEcchhhcCCCcCEEEEcCEE
Confidence            479999999999999999986  568999998 667665543           136788889975422249999999999


Q ss_pred             ccCCC
Q 042491          261 LIQDL  265 (266)
Q Consensus       261 Hd~~~  265 (266)
                      |++.+
T Consensus       223 ~H~p~  227 (315)
T PLN02585        223 IHYPQ  227 (315)
T ss_pred             EecCH
Confidence            87754

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

Probab=98.10  E-value=2.5e-06  Score=71.08  Aligned_cols=66  Identities=18%  Similarity=0.330  Sum_probs=53.2

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCC-C---CC--CccEEEec
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLN-A---VP--NADAVFMK  257 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~-~---~p--~aD~~~l~  257 (266)
                      ...++||||||+|.++..+++++|+.+++++|+ +.+++.+.+      .++|+++.+|+.+ +   +|  .+|.+++.
T Consensus        16 ~~~~ilDiGcG~G~~~~~la~~~p~~~v~gvD~~~~~l~~a~~~~~~~~l~ni~~i~~d~~~~~~~~~~~~~~d~v~~~   94 (194)
T TIGR00091        16 KAPLHLEIGCGKGRFLIDMAKQNPDKNFLGIEIHTPIVLAANNKANKLGLKNLHVLCGDANELLDKFFPDGSLSKVFLN   94 (194)
T ss_pred             CCceEEEeCCCccHHHHHHHHhCCCCCEEEEEeeHHHHHHHHHHHHHhCCCCEEEEccCHHHHHHhhCCCCceeEEEEE
Confidence            457999999999999999999999999999998 666665542      3589999999875 1   44  27777764

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

>KOG1271 consensus Methyltransferases [General function prediction only]

Probab=98.08  E-value=1e-05  Score=65.84  Aligned_cols=69  Identities=19%  Similarity=0.175  Sum_probs=51.4

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCC--CCC-ccEEEecccc
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNA--VPN-ADAVFMKVIV  260 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~--~p~-aD~~~l~~vL  260 (266)
                      +..+|||+|||.|+++..|+++-=.-+.++.|. +..++.|+.       .+.|+|+..|+++|  .++ +|+|+=+-.+
T Consensus        67 ~A~~VlDLGtGNG~~L~~L~~egf~~~L~GvDYs~~AV~LA~niAe~~~~~n~I~f~q~DI~~~~~~~~qfdlvlDKGT~  146 (227)
T KOG1271|consen   67 QADRVLDLGTGNGHLLFQLAKEGFQSKLTGVDYSEKAVELAQNIAERDGFSNEIRFQQLDITDPDFLSGQFDLVLDKGTL  146 (227)
T ss_pred             cccceeeccCCchHHHHHHHHhcCCCCccccccCHHHHHHHHHHHHhcCCCcceeEEEeeccCCcccccceeEEeecCce
Confidence            344999999999999999998864445677787 555554442       45599999999996  444 8988765544

>PLN02336 phosphoethanolamine N-methyltransferase

Probab=98.08  E-value=9.1e-06  Score=76.85  Aligned_cols=82  Identities=17%  Similarity=0.295  Sum_probs=62.8

Q ss_pred             HHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC----CCCeEEEEccCCC---CCC--
Q 042491          180 STLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV----YEGVSHVGGDMLN---AVP--  249 (266)
Q Consensus       180 ~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~----~~ri~~~~gd~~~---~~p--  249 (266)
                      +.++..++  .....+|||||||+|.++..+++.+.  +++++|. +.+++.+..    .++++++.+|+.+   ++|  
T Consensus        27 ~~il~~l~--~~~~~~vLDlGcG~G~~~~~la~~~~--~v~giD~s~~~l~~a~~~~~~~~~i~~~~~d~~~~~~~~~~~  102 (475)
T PLN02336         27 PEILSLLP--PYEGKSVLELGAGIGRFTGELAKKAG--QVIALDFIESVIKKNESINGHYKNVKFMCADVTSPDLNISDG  102 (475)
T ss_pred             hHHHhhcC--ccCCCEEEEeCCCcCHHHHHHHhhCC--EEEEEeCCHHHHHHHHHHhccCCceEEEEecccccccCCCCC
Confidence            44555555  34557999999999999999999864  6889997 666665432    4679999999964   355  


Q ss_pred             CccEEEeccccccCCC
Q 042491          250 NADAVFMKVIVLIQDL  265 (266)
Q Consensus       250 ~aD~~~l~~vLHd~~~  265 (266)
                      .+|+|++..++|.+++
T Consensus       103 ~fD~I~~~~~l~~l~~  118 (475)
T PLN02336        103 SVDLIFSNWLLMYLSD  118 (475)
T ss_pred             CEEEEehhhhHHhCCH
Confidence            3999999999998754

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

Probab=98.08  E-value=1.5e-05  Score=69.44  Aligned_cols=75  Identities=17%  Similarity=0.251  Sum_probs=56.9

Q ss_pred             HHHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC----CCCeEEEEccCCC-CCCCcc
Q 042491          179 MSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV----YEGVSHVGGDMLN-AVPNAD  252 (266)
Q Consensus       179 ~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~----~~ri~~~~gd~~~-~~p~aD  252 (266)
                      ...+++..+  .....+|+|||||.|.+...++++.  .+++++|+ +.+++.+++    .++|+++.+|+.+ ++|.+|
T Consensus        18 ~~~iv~~~~--~~~~~~VLEIG~G~G~lt~~L~~~~--~~v~~vEid~~~~~~l~~~~~~~~~v~ii~~D~~~~~~~~~d   93 (258)
T PRK14896         18 VDRIVEYAE--DTDGDPVLEIGPGKGALTDELAKRA--KKVYAIELDPRLAEFLRDDEIAAGNVEIIEGDALKVDLPEFN   93 (258)
T ss_pred             HHHHHHhcC--CCCcCeEEEEeCccCHHHHHHHHhC--CEEEEEECCHHHHHHHHHHhccCCCEEEEEeccccCCchhce
Confidence            344555555  5566899999999999999999984  47888998 555555443    4789999999998 677788


Q ss_pred             EEEec
Q 042491          253 AVFMK  257 (266)
Q Consensus       253 ~~~l~  257 (266)
                      .++..
T Consensus        94 ~Vv~N   98 (258)
T PRK14896         94 KVVSN   98 (258)
T ss_pred             EEEEc
Confidence            76553

>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional

Probab=98.07  E-value=2.5e-05  Score=68.50  Aligned_cols=66  Identities=20%  Similarity=0.295  Sum_probs=54.3

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCC---eEEEeec-HHHHhhCCC-CCCeEEEEccCCC-CCC--CccEEEec
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHI---KGVNFDL-PHVVATAPV-YEGVSHVGGDMLN-AVP--NADAVFMK  257 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l---~~~~~Dl-p~v~~~a~~-~~ri~~~~gd~~~-~~p--~aD~~~l~  257 (266)
                      ...+|||||||+|.++..+++.+|..   +++++|+ +.+++.+++ .+++++..+|..+ |++  .+|+|+..
T Consensus        85 ~~~~vLDiGcG~G~~~~~l~~~~~~~~~~~v~giD~s~~~l~~A~~~~~~~~~~~~d~~~lp~~~~sfD~I~~~  158 (272)
T PRK11088         85 KATALLDIGCGEGYYTHALADALPEITTMQLFGLDISKVAIKYAAKRYPQVTFCVASSHRLPFADQSLDAIIRI  158 (272)
T ss_pred             CCCeEEEECCcCCHHHHHHHHhcccccCCeEEEECCCHHHHHHHHHhCCCCeEEEeecccCCCcCCceeEEEEe
Confidence            44789999999999999999998864   6799998 777777654 5779999999887 665  39999864

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

Probab=98.06  E-value=1.7e-05  Score=68.86  Aligned_cols=66  Identities=26%  Similarity=0.312  Sum_probs=54.2

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC---CCCeEEEEccCCCCCC-----CccEEEec
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV---YEGVSHVGGDMLNAVP-----NADAVFMK  257 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~---~~ri~~~~gd~~~~~p-----~aD~~~l~  257 (266)
                      +..+|+|+|||+|.++..+++..|..+++++|. |.+++.+++   ..+++++.+|+++.++     .+|++++.
T Consensus        86 ~~~~vLDlg~GsG~i~l~la~~~~~~~v~~vDis~~al~~A~~N~~~~~~~~~~~D~~~~l~~~~~~~fDlVv~N  160 (251)
T TIGR03704        86 GTLVVVDLCCGSGAVGAALAAALDGIELHAADIDPAAVRCARRNLADAGGTVHEGDLYDALPTALRGRVDILAAN  160 (251)
T ss_pred             CCCEEEEecCchHHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHHHHcCCEEEEeechhhcchhcCCCEeEEEEC
Confidence            345899999999999999999999999999998 888877664   2346899999987543     38998864

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.

>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=98.04  E-value=7.2e-06  Score=62.07  Aligned_cols=67  Identities=21%  Similarity=0.250  Sum_probs=53.5

Q ss_pred             ceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCC-C--CC--CccEEEecccc
Q 042491          194 RSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLN-A--VP--NADAVFMKVIV  260 (266)
Q Consensus       194 ~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~-~--~p--~aD~~~l~~vL  260 (266)
                      .+|+|+|||+|.++..+++.. ..+++++|+ |..++.++.       .+|++++.+|+++ .  ++  .+|++++.--.
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            589999999999999999999 889999998 666665553       5789999999988 2  44  49999986544


Q ss_pred             c
Q 042491          261 L  261 (266)
Q Consensus       261 H  261 (266)
                      +
T Consensus        81 ~   81 (117)
T PF13659_consen   81 G   81 (117)
T ss_dssp             T
T ss_pred             c
Confidence            4

...

>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=98.04  E-value=1.8e-05  Score=63.00  Aligned_cols=69  Identities=17%  Similarity=0.223  Sum_probs=49.4

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCCCCCeEEEEccCCC-CCC--CccEEEeccccccCCC
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPVYEGVSHVGGDMLN-AVP--NADAVFMKVIVLIQDL  265 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~~ri~~~~gd~~~-~~p--~aD~~~l~~vLHd~~~  265 (266)
                      ....+|||||||.|.++..+.+..+  +++++|. +.+++.    ..+....-+... +.|  .+|+|++..+||..++
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            4678999999999999999966644  9999998 666665    222222222223 222  4999999999998653

...

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

Probab=98.03  E-value=1.6e-05  Score=69.83  Aligned_cols=67  Identities=12%  Similarity=0.218  Sum_probs=52.2

Q ss_pred             HHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC---CCCeEEEEccCCC-CCCC
Q 042491          180 STLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV---YEGVSHVGGDMLN-AVPN  250 (266)
Q Consensus       180 ~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~---~~ri~~~~gd~~~-~~p~  250 (266)
                      ..+++.++  .....+|||||||+|.++..++++.+  +++++|. +.+++.+++   .++++++.+|+.+ +++.
T Consensus        32 ~~i~~~l~--~~~~~~VLEiG~G~G~lt~~L~~~~~--~v~avE~d~~~~~~~~~~~~~~~v~~i~~D~~~~~~~~  103 (272)
T PRK00274         32 DKIVDAAG--PQPGDNVLEIGPGLGALTEPLLERAA--KVTAVEIDRDLAPILAETFAEDNLTIIEGDALKVDLSE  103 (272)
T ss_pred             HHHHHhcC--CCCcCeEEEeCCCccHHHHHHHHhCC--cEEEEECCHHHHHHHHHhhccCceEEEEChhhcCCHHH
Confidence            34455555  55667999999999999999999987  7888887 666766554   3789999999988 4544

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

Probab=98.02  E-value=8.3e-06  Score=68.42  Aligned_cols=67  Identities=21%  Similarity=0.328  Sum_probs=54.5

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccC-CC-C--CC-C-ccEEEecc
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDM-LN-A--VP-N-ADAVFMKV  258 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~-~~-~--~p-~-aD~~~l~~  258 (266)
                      ...+|||||||+|..+..+++.+|+.+++++|. +++++.+++      .++++++.+|+ .. +  ++ + +|++++..
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            457999999999999999999999999999998 667766543      36899999998 33 3  43 3 89998754

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

Probab=98.00  E-value=1.9e-05  Score=72.24  Aligned_cols=66  Identities=14%  Similarity=0.253  Sum_probs=52.8

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCC---CCCC--ccEEEec
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLN---AVPN--ADAVFMK  257 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~---~~p~--aD~~~l~  257 (266)
                      ....+||||||+|.++..+++++|+..++++|+ +.+++.+..      .++|.++.+|...   .+|.  .|.+++.
T Consensus       122 ~~p~vLEIGcGsG~~ll~lA~~~P~~~~iGIEI~~~~i~~a~~ka~~~gL~NV~~i~~DA~~ll~~~~~~s~D~I~ln  199 (390)
T PRK14121        122 QEKILIEIGFGSGRHLLYQAKNNPNKLFIGIEIHTPSIEQVLKQIELLNLKNLLIINYDARLLLELLPSNSVEKIFVH  199 (390)
T ss_pred             CCCeEEEEcCcccHHHHHHHHhCCCCCEEEEECCHHHHHHHHHHHHHcCCCcEEEEECCHHHhhhhCCCCceeEEEEe
Confidence            456999999999999999999999999999998 555554432      4679999999743   4663  8888864

>TIGR03438 probable methyltransferase

Probab=98.00  E-value=1.1e-05  Score=71.95  Aligned_cols=73  Identities=14%  Similarity=0.178  Sum_probs=55.0

Q ss_pred             CCceEEEecCCchHHHHHHHHHCC-CCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCC--CCC-c-----cEE
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYP-HIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNA--VPN-A-----DAV  254 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P-~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~--~p~-a-----D~~  254 (266)
                      ...+|||+|||+|...+.|+++.+ ..+++.+|+ +++++.+.+       .-+|.++.|||.+.  ++. .     .++
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            457899999999999999999998 589999998 556555432       23467789999873  432 2     366


Q ss_pred             EeccccccCC
Q 042491          255 FMKVIVLIQD  264 (266)
Q Consensus       255 ~l~~vLHd~~  264 (266)
                      ++...+|+++
T Consensus       143 ~~gs~~~~~~  152 (301)
T TIGR03438       143 FPGSTIGNFT  152 (301)
T ss_pred             EecccccCCC
Confidence            6667888765

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

>PRK07402 precorrin-6B methylase; Provisional

Probab=97.98  E-value=3.8e-05  Score=63.96  Aligned_cols=73  Identities=23%  Similarity=0.334  Sum_probs=55.8

Q ss_pred             HHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCC---CC-CC
Q 042491          182 LLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLN---AV-PN  250 (266)
Q Consensus       182 ~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~---~~-p~  250 (266)
                      ++..++  .....+|+|+|||+|.++..+++..|..+++.+|. |++++.+++      .++|+++.+|..+   .+ +.
T Consensus        32 l~~~l~--~~~~~~VLDiG~G~G~~~~~la~~~~~~~V~~vD~s~~~~~~a~~n~~~~~~~~v~~~~~d~~~~~~~~~~~  109 (196)
T PRK07402         32 LISQLR--LEPDSVLWDIGAGTGTIPVEAGLLCPKGRVIAIERDEEVVNLIRRNCDRFGVKNVEVIEGSAPECLAQLAPA  109 (196)
T ss_pred             HHHhcC--CCCCCEEEEeCCCCCHHHHHHHHHCCCCEEEEEeCCHHHHHHHHHHHHHhCCCCeEEEECchHHHHhhCCCC
Confidence            344444  45667999999999999999999999999999998 878776653      3579999999865   23 23


Q ss_pred             ccEEEe
Q 042491          251 ADAVFM  256 (266)
Q Consensus       251 aD~~~l  256 (266)
                      +|.+++
T Consensus       110 ~d~v~~  115 (196)
T PRK07402        110 PDRVCI  115 (196)
T ss_pred             CCEEEE
Confidence            566554

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

Probab=97.96  E-value=4.2e-05  Score=66.95  Aligned_cols=82  Identities=18%  Similarity=0.110  Sum_probs=64.1

Q ss_pred             HHHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCCCCC
Q 042491          179 MSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNAVPN  250 (266)
Q Consensus       179 ~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~~p~  250 (266)
                      ...+++.+.  +++..+|||||||-|.+++.++++| +.+++++++ ++..+.+++       .++|++.-.|+.+..+.
T Consensus        61 ~~~~~~kl~--L~~G~~lLDiGCGWG~l~~~aA~~y-~v~V~GvTlS~~Q~~~~~~r~~~~gl~~~v~v~l~d~rd~~e~  137 (283)
T COG2230          61 LDLILEKLG--LKPGMTLLDIGCGWGGLAIYAAEEY-GVTVVGVTLSEEQLAYAEKRIAARGLEDNVEVRLQDYRDFEEP  137 (283)
T ss_pred             HHHHHHhcC--CCCCCEEEEeCCChhHHHHHHHHHc-CCEEEEeeCCHHHHHHHHHHHHHcCCCcccEEEeccccccccc
Confidence            456777787  8899999999999999999999999 999999998 333333332       56899999998884434


Q ss_pred             ccEEEeccccccC
Q 042491          251 ADAVFMKVIVLIQ  263 (266)
Q Consensus       251 aD~~~l~~vLHd~  263 (266)
                      +|-|.-.-+++..
T Consensus       138 fDrIvSvgmfEhv  150 (283)
T COG2230         138 FDRIVSVGMFEHV  150 (283)
T ss_pred             cceeeehhhHHHh
Confidence            8988876666554

>TIGR00755 ksgA dimethyladenosine transferase

Probab=97.94  E-value=2.8e-05  Score=67.54  Aligned_cols=77  Identities=13%  Similarity=0.249  Sum_probs=56.7

Q ss_pred             HHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC----CCCeEEEEccCCC-CCCCcc-
Q 042491          180 STLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV----YEGVSHVGGDMLN-AVPNAD-  252 (266)
Q Consensus       180 ~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~----~~ri~~~~gd~~~-~~p~aD-  252 (266)
                      ..+++..+  ..+..+|+|||||+|.+...++++.+.  ++++|. +.+++.++.    .++++++.+|+.+ +++.+| 
T Consensus        19 ~~i~~~~~--~~~~~~VLEiG~G~G~lt~~L~~~~~~--v~~iE~d~~~~~~l~~~~~~~~~v~v~~~D~~~~~~~~~d~   94 (253)
T TIGR00755        19 QKIVEAAN--VLEGDVVLEIGPGLGALTEPLLKRAKK--VTAIEIDPRLAEILRKLLSLYERLEVIEGDALKVDLPDFPK   94 (253)
T ss_pred             HHHHHhcC--CCCcCEEEEeCCCCCHHHHHHHHhCCc--EEEEECCHHHHHHHHHHhCcCCcEEEEECchhcCChhHcCC
Confidence            34555555  566789999999999999999999975  777787 555554432    4789999999998 555555 


Q ss_pred             -EEEecccc
Q 042491          253 -AVFMKVIV  260 (266)
Q Consensus       253 -~~~l~~vL  260 (266)
                       .++++|.=
T Consensus        95 ~~~vvsNlP  103 (253)
T TIGR00755        95 QLKVVSNLP  103 (253)
T ss_pred             cceEEEcCC
Confidence             45555543

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

>PHA03411 putative methyltransferase; Provisional

Probab=97.93  E-value=2.2e-05  Score=68.43  Aligned_cols=69  Identities=14%  Similarity=0.107  Sum_probs=56.8

Q ss_pred             CceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-CCCeEEEEccCCCCC-C-CccEEEeccccc
Q 042491          193 IRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-YEGVSHVGGDMLNAV-P-NADAVFMKVIVL  261 (266)
Q Consensus       193 ~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-~~ri~~~~gd~~~~~-p-~aD~~~l~~vLH  261 (266)
                      ..+|||+|||+|.++..++++.+..+++++|+ |.+++.+++ .++++++.+|+++.. + .+|+|+..-=.+
T Consensus        65 ~grVLDLGcGsGilsl~la~r~~~~~V~gVDisp~al~~Ar~n~~~v~~v~~D~~e~~~~~kFDlIIsNPPF~  137 (279)
T PHA03411         65 TGKVLDLCAGIGRLSFCMLHRCKPEKIVCVELNPEFARIGKRLLPEAEWITSDVFEFESNEKFDVVISNPPFG  137 (279)
T ss_pred             CCeEEEcCCCCCHHHHHHHHhCCCCEEEEEECCHHHHHHHHHhCcCCEEEECchhhhcccCCCcEEEEcCCcc
Confidence            46899999999999999999988889999998 777777665 568999999999843 3 499999854433

>PRK11705 cyclopropane fatty acyl phospholipid synthase; Provisional

Probab=97.90  E-value=6.7e-05  Score=69.07  Aligned_cols=80  Identities=14%  Similarity=0.030  Sum_probs=60.3

Q ss_pred             HHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC---CCCeEEEEccCCCCCCCccEEEe
Q 042491          181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV---YEGVSHVGGDMLNAVPNADAVFM  256 (266)
Q Consensus       181 ~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~---~~ri~~~~gd~~~~~p~aD~~~l  256 (266)
                      .+++.++  .....+|||||||.|.++..+++.+ +.+++++|+ ++.++.+++   ...+++..+|+.+.-..+|+++.
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-GVSVVGVTISAEQQKLAQERCAGLPVEIRLQDYRDLNGQFDRIVS  234 (383)
T ss_pred             HHHHHhC--CCCCCEEEEeCCCccHHHHHHHHHC-CCEEEEEeCCHHHHHHHHHHhccCeEEEEECchhhcCCCCCEEEE
Confidence            4455555  5667899999999999999998876 579999998 677766554   23578888887653124999998


Q ss_pred             ccccccC
Q 042491          257 KVIVLIQ  263 (266)
Q Consensus       257 ~~vLHd~  263 (266)
                      ..++|..
T Consensus       235 ~~~~ehv  241 (383)
T PRK11705        235 VGMFEHV  241 (383)
T ss_pred             eCchhhC
Confidence            8877754

>PLN02366 spermidine synthase

Probab=97.89  E-value=2.5e-05  Score=69.70  Aligned_cols=65  Identities=23%  Similarity=0.290  Sum_probs=51.7

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCC-CeEEEeec-HHHHhhCCC----------CCCeEEEEccCCC---CCC--CccE
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPH-IKGVNFDL-PHVVATAPV----------YEGVSHVGGDMLN---AVP--NADA  253 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~-l~~~~~Dl-p~v~~~a~~----------~~ri~~~~gd~~~---~~p--~aD~  253 (266)
                      ++.++||+||||.|..++++++. |. .+++++|+ |.+++.+++          .+|++++.+|.++   ..|  .+|+
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            46789999999999999999866 65 57899998 556766543          4799999999754   343  4999


Q ss_pred             EEe
Q 042491          254 VFM  256 (266)
Q Consensus       254 ~~l  256 (266)
                      |++
T Consensus       169 Ii~  171 (308)
T PLN02366        169 IIV  171 (308)
T ss_pred             EEE
Confidence            987

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

Probab=97.88  E-value=1e-05  Score=68.70  Aligned_cols=72  Identities=15%  Similarity=0.080  Sum_probs=55.4

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC---CCC--eEEEEccCCC-CC--CCccEEEecccccc
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV---YEG--VSHVGGDMLN-AV--PNADAVFMKVIVLI  262 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~---~~r--i~~~~gd~~~-~~--p~aD~~~l~~vLHd  262 (266)
                      ...+|||||||.|.++..+++..  .++++.|+ ++.|+.++.   ...  |.+......+ ..  ..||+|++..||++
T Consensus        59 ~g~~vLDvGCGgG~Lse~mAr~G--a~VtgiD~se~~I~~Ak~ha~e~gv~i~y~~~~~edl~~~~~~FDvV~cmEVlEH  136 (243)
T COG2227          59 PGLRVLDVGCGGGILSEPLARLG--ASVTGIDASEKPIEVAKLHALESGVNIDYRQATVEDLASAGGQFDVVTCMEVLEH  136 (243)
T ss_pred             CCCeEEEecCCccHhhHHHHHCC--CeeEEecCChHHHHHHHHhhhhccccccchhhhHHHHHhcCCCccEEEEhhHHHc
Confidence            34799999999999999999997  78999998 777887764   222  3455555544 22  34999999999998


Q ss_pred             CCC
Q 042491          263 QDL  265 (266)
Q Consensus       263 ~~~  265 (266)
                      .+|
T Consensus       137 v~d  139 (243)
T COG2227         137 VPD  139 (243)
T ss_pred             cCC
Confidence            765

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

Probab=97.87  E-value=8.2e-05  Score=62.70  Aligned_cols=77  Identities=14%  Similarity=0.180  Sum_probs=57.1

Q ss_pred             HHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCCCCC---Cc
Q 042491          182 LLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLNAVP---NA  251 (266)
Q Consensus       182 ~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~~~p---~a  251 (266)
                      ++..++  ..+..+|||||||+|..+..+++...  +++.+|. ++.++.+++      ..+++++.+|+.+.++   .+
T Consensus        70 l~~~l~--~~~~~~VLeiG~GsG~~t~~la~~~~--~v~~vd~~~~~~~~a~~~~~~~~~~~v~~~~~d~~~~~~~~~~f  145 (212)
T PRK00312         70 MTELLE--LKPGDRVLEIGTGSGYQAAVLAHLVR--RVFSVERIKTLQWEAKRRLKQLGLHNVSVRHGDGWKGWPAYAPF  145 (212)
T ss_pred             HHHhcC--CCCCCEEEEECCCccHHHHHHHHHhC--EEEEEeCCHHHHHHHHHHHHHCCCCceEEEECCcccCCCcCCCc
Confidence            344444  55678999999999999987777754  6888886 666665543      3469999999987544   39


Q ss_pred             cEEEecccccc
Q 042491          252 DAVFMKVIVLI  262 (266)
Q Consensus       252 D~~~l~~vLHd  262 (266)
                      |++++...++.
T Consensus       146 D~I~~~~~~~~  156 (212)
T PRK00312        146 DRILVTAAAPE  156 (212)
T ss_pred             CEEEEccCchh
Confidence            99998876654

>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=97.85  E-value=3.5e-05  Score=55.49  Aligned_cols=67  Identities=19%  Similarity=0.273  Sum_probs=54.0

Q ss_pred             eEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCC------CCCCeEEEEccCCCCC---C-CccEEEecccccc
Q 042491          195 SLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAP------VYEGVSHVGGDMLNAV---P-NADAVFMKVIVLI  262 (266)
Q Consensus       195 ~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~------~~~ri~~~~gd~~~~~---p-~aD~~~l~~vLHd  262 (266)
                      +++|+|||.|..+..+++ .+..+.+++|+ +..+..++      ...+++++.+|+.+..   + ++|++++...+|.
T Consensus         1 ~ildig~G~G~~~~~~~~-~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~i~~~~~~~~   78 (107)
T cd02440           1 RVLDLGCGTGALALALAS-GPGARVTGVDISPVALELARKAAAALLADNVEVLKGDAEELPPEADESFDVIISDPPLHH   78 (107)
T ss_pred             CeEEEcCCccHHHHHHhc-CCCCEEEEEeCCHHHHHHHHHHHhcccccceEEEEcChhhhccccCCceEEEEEccceee
Confidence            589999999999999998 77889999998 44444333      1578999999999842   2 4999999998886

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.).

>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=97.84  E-value=6.9e-05  Score=65.80  Aligned_cols=80  Identities=16%  Similarity=0.113  Sum_probs=54.0

Q ss_pred             HHHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCC----C---CCCeEEEEccCCCCCC-
Q 042491          179 MSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAP----V---YEGVSHVGGDMLNAVP-  249 (266)
Q Consensus       179 ~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~----~---~~ri~~~~gd~~~~~p-  249 (266)
                      ...+++..+  ..+..+|||||||-|.++..++++| +++++++.+ ++-.+.++    +   .++|++...|+.+ ++ 
T Consensus        51 ~~~~~~~~~--l~~G~~vLDiGcGwG~~~~~~a~~~-g~~v~gitlS~~Q~~~a~~~~~~~gl~~~v~v~~~D~~~-~~~  126 (273)
T PF02353_consen   51 LDLLCEKLG--LKPGDRVLDIGCGWGGLAIYAAERY-GCHVTGITLSEEQAEYARERIREAGLEDRVEVRLQDYRD-LPG  126 (273)
T ss_dssp             HHHHHTTTT----TT-EEEEES-TTSHHHHHHHHHH---EEEEEES-HHHHHHHHHHHHCSTSSSTEEEEES-GGG----
T ss_pred             HHHHHHHhC--CCCCCEEEEeCCCccHHHHHHHHHc-CcEEEEEECCHHHHHHHHHHHHhcCCCCceEEEEeeccc-cCC
Confidence            456677777  7788999999999999999999999 789999988 22233222    1   6799999999876 44 


Q ss_pred             CccEEEecccccc
Q 042491          250 NADAVFMKVIVLI  262 (266)
Q Consensus       250 ~aD~~~l~~vLHd  262 (266)
                      .+|.|+..-++..
T Consensus       127 ~fD~IvSi~~~Eh  139 (273)
T PF02353_consen  127 KFDRIVSIEMFEH  139 (273)
T ss_dssp             S-SEEEEESEGGG
T ss_pred             CCCEEEEEechhh
Confidence            6998887666544

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 ....

>KOG1270 consensus Methyltransferases [Coenzyme transport and metabolism]

Probab=97.84  E-value=1.9e-05  Score=67.76  Aligned_cols=70  Identities=17%  Similarity=0.108  Sum_probs=56.6

Q ss_pred             ceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC--------CC----CeEEEEccCCCCCCCccEEEecccc
Q 042491          194 RSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV--------YE----GVSHVGGDMLNAVPNADAVFMKVIV  260 (266)
Q Consensus       194 ~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~--------~~----ri~~~~gd~~~~~p~aD~~~l~~vL  260 (266)
                      .+|||||||.|-+..-|++.-  ..++++|. +.+++.|++        ..    |+++...|....-+.||+|++..||
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            679999999999999999996  57888897 777777764        23    5777777777755569999999999


Q ss_pred             ccCCC
Q 042491          261 LIQDL  265 (266)
Q Consensus       261 Hd~~~  265 (266)
                      |+..|
T Consensus       169 eHV~d  173 (282)
T KOG1270|consen  169 EHVKD  173 (282)
T ss_pred             HHHhC
Confidence            87643

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

Probab=97.83  E-value=0.00013  Score=61.74  Aligned_cols=71  Identities=15%  Similarity=0.114  Sum_probs=55.4

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCC------------------CCCCeEEEEccCCC-C---
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAP------------------VYEGVSHVGGDMLN-A---  247 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~------------------~~~ri~~~~gd~~~-~---  247 (266)
                      ....++||+|||.|..+..|+++  ..+++++|+ |..++.+.                  +..+|+++.+|+++ +   
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            35579999999999999999976  678999998 66566421                  13579999999998 3   


Q ss_pred             CCCccEEEeccccccC
Q 042491          248 VPNADAVFMKVIVLIQ  263 (266)
Q Consensus       248 ~p~aD~~~l~~vLHd~  263 (266)
                      .+.+|.++-+.++|..
T Consensus       111 ~~~fD~i~D~~~~~~l  126 (213)
T TIGR03840       111 LGPVDAVYDRAALIAL  126 (213)
T ss_pred             CCCcCEEEechhhccC
Confidence            2348999988877754

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.

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

Probab=97.81  E-value=8.3e-05  Score=61.73  Aligned_cols=80  Identities=15%  Similarity=0.193  Sum_probs=55.9

Q ss_pred             HHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-----CCCeEEEEccCCC-CCCC-c
Q 042491          180 STLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-----YEGVSHVGGDMLN-AVPN-A  251 (266)
Q Consensus       180 ~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-----~~ri~~~~gd~~~-~~p~-a  251 (266)
                      +.+++.++  .-...++||+|||.|..+.-|++.  +..++.+|. +..++.++.     .-.|+....|+.+ .+|+ +
T Consensus        20 s~v~~a~~--~~~~g~~LDlgcG~GRNalyLA~~--G~~VtAvD~s~~al~~l~~~a~~~~l~i~~~~~Dl~~~~~~~~y   95 (192)
T PF03848_consen   20 SEVLEAVP--LLKPGKALDLGCGEGRNALYLASQ--GFDVTAVDISPVALEKLQRLAEEEGLDIRTRVADLNDFDFPEEY   95 (192)
T ss_dssp             HHHHHHCT--TS-SSEEEEES-TTSHHHHHHHHT--T-EEEEEESSHHHHHHHHHHHHHTT-TEEEEE-BGCCBS-TTTE
T ss_pred             HHHHHHHh--hcCCCcEEEcCCCCcHHHHHHHHC--CCeEEEEECCHHHHHHHHHHHhhcCceeEEEEecchhccccCCc
Confidence            34666666  556789999999999999999999  678999998 434444332     3348999999988 5664 9


Q ss_pred             cEEEeccccccC
Q 042491          252 DAVFMKVIVLIQ  263 (266)
Q Consensus       252 D~~~l~~vLHd~  263 (266)
                      |+|+..-|+|..
T Consensus        96 D~I~st~v~~fL  107 (192)
T PF03848_consen   96 DFIVSTVVFMFL  107 (192)
T ss_dssp             EEEEEESSGGGS
T ss_pred             CEEEEEEEeccC
Confidence            999877676653

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.

>PRK00811 spermidine synthase; Provisional

Probab=97.81  E-value=3.4e-05  Score=68.13  Aligned_cols=67  Identities=22%  Similarity=0.288  Sum_probs=53.9

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-----------CCCeEEEEccCCCCC---C-CccEE
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-----------YEGVSHVGGDMLNAV---P-NADAV  254 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-----------~~ri~~~~gd~~~~~---p-~aD~~  254 (266)
                      ++.++||+||||.|..++++++..+..+++++|+ |++++.+++           .+|++++.+|..+-+   + .+|+|
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            4678999999999999999998655568999998 777776653           478999999987622   2 49999


Q ss_pred             Eec
Q 042491          255 FMK  257 (266)
Q Consensus       255 ~l~  257 (266)
                      ++-
T Consensus       155 i~D  157 (283)
T PRK00811        155 IVD  157 (283)
T ss_pred             EEC
Confidence            874

>PHA03412 putative methyltransferase; Provisional

Probab=97.80  E-value=5.7e-05  Score=64.51  Aligned_cols=65  Identities=17%  Similarity=0.130  Sum_probs=53.0

Q ss_pred             CceEEEecCCchHHHHHHHHHC---CCCeEEEeec-HHHHhhCCC-CCCeEEEEccCCC-CCC-CccEEEec
Q 042491          193 IRSLVDVGGGTGEELAEIVEFY---PHIKGVNFDL-PHVVATAPV-YEGVSHVGGDMLN-AVP-NADAVFMK  257 (266)
Q Consensus       193 ~~~vvDvGgG~G~~~~~l~~~~---P~l~~~~~Dl-p~v~~~a~~-~~ri~~~~gd~~~-~~p-~aD~~~l~  257 (266)
                      ..+|||+|||+|.++..++++.   +..+++.+|+ +.+++.++. ..++.++.+|+.. +.+ .+|+|+..
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            4699999999999999999886   4678999998 667776665 4679999999987 344 49999864

>PRK14967 putative methyltransferase; Provisional

Probab=97.79  E-value=8.3e-05  Score=63.24  Aligned_cols=67  Identities=21%  Similarity=0.162  Sum_probs=51.6

Q ss_pred             CCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-----CCCeEEEEccCCCCCC--CccEEEec
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-----YEGVSHVGGDMLNAVP--NADAVFMK  257 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-----~~ri~~~~gd~~~~~p--~aD~~~l~  257 (266)
                      .....+|||+|||+|.++..+++. +..+++++|+ |.+++.+++     .-+++++.+|+.+.++  .+|+|++.
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            344579999999999999998876 4458999998 666664443     2368899999988655  49999985

>PTZ00338 dimethyladenosine transferase-like protein; Provisional

Probab=97.77  E-value=9.2e-05  Score=65.72  Aligned_cols=74  Identities=18%  Similarity=0.381  Sum_probs=55.5

Q ss_pred             HHHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCC-CCC
Q 042491          179 MSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLN-AVP  249 (266)
Q Consensus       179 ~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~-~~p  249 (266)
                      ...+++..+  .....+|+|||||.|.+...+++...  +++++|+ +.+++.+++       .++++++.+|+.+ +++
T Consensus        25 ~~~Iv~~~~--~~~~~~VLEIG~G~G~LT~~Ll~~~~--~V~avEiD~~li~~l~~~~~~~~~~~~v~ii~~Dal~~~~~  100 (294)
T PTZ00338         25 LDKIVEKAA--IKPTDTVLEIGPGTGNLTEKLLQLAK--KVIAIEIDPRMVAELKKRFQNSPLASKLEVIEGDALKTEFP  100 (294)
T ss_pred             HHHHHHhcC--CCCcCEEEEecCchHHHHHHHHHhCC--cEEEEECCHHHHHHHHHHHHhcCCCCcEEEEECCHhhhccc
Confidence            334555555  55668999999999999999999854  6788888 555554432       4689999999988 566


Q ss_pred             CccEEEe
Q 042491          250 NADAVFM  256 (266)
Q Consensus       250 ~aD~~~l  256 (266)
                      .+|+++.
T Consensus       101 ~~d~Vva  107 (294)
T PTZ00338        101 YFDVCVA  107 (294)
T ss_pred             ccCEEEe
Confidence            7887653

>PRK01581 speE spermidine synthase; Validated

Probab=97.77  E-value=5.1e-05  Score=68.72  Aligned_cols=67  Identities=18%  Similarity=0.187  Sum_probs=54.7

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------------CCCeEEEEccCCCC---CC-Ccc
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------------YEGVSHVGGDMLNA---VP-NAD  252 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------------~~ri~~~~gd~~~~---~p-~aD  252 (266)
                      .++.+||+||||.|..++++++..|..+++++|+ |++++.++.             .+|++++.+|..+-   .+ .+|
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            4678999999999999999998656678999998 777776652             57999999998872   23 499


Q ss_pred             EEEec
Q 042491          253 AVFMK  257 (266)
Q Consensus       253 ~~~l~  257 (266)
                      +|++-
T Consensus       229 VIIvD  233 (374)
T PRK01581        229 VIIID  233 (374)
T ss_pred             EEEEc
Confidence            99975

>PRK14968 putative methyltransferase; Provisional

Probab=97.75  E-value=0.00011  Score=60.30  Aligned_cols=67  Identities=19%  Similarity=0.256  Sum_probs=53.0

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCC-eEEEEccCCCCCC--CccEEEeccc
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEG-VSHVGGDMLNAVP--NADAVFMKVI  259 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~r-i~~~~gd~~~~~p--~aD~~~l~~v  259 (266)
                      .+..+|||+|||+|.++..+++.  ..+++++|+ |++++.+++       .++ +.++.+|+.++++  .+|++++..-
T Consensus        22 ~~~~~vLd~G~G~G~~~~~l~~~--~~~v~~~D~s~~~~~~a~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~d~vi~n~p   99 (188)
T PRK14968         22 KKGDRVLEVGTGSGIVAIVAAKN--GKKVVGVDINPYAVECAKCNAKLNNIRNNGVEVIRSDLFEPFRGDKFDVILFNPP   99 (188)
T ss_pred             cCCCEEEEEccccCHHHHHHHhh--cceEEEEECCHHHHHHHHHHHHHcCCCCcceEEEeccccccccccCceEEEECCC
Confidence            35578999999999999999998  578999998 667766542       233 8999999998755  3999987643

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

Probab=97.75  E-value=0.00015  Score=60.47  Aligned_cols=68  Identities=16%  Similarity=0.227  Sum_probs=54.3

Q ss_pred             CCCCceEEEecCCchHHHHHHHHHC-CCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCC---C-CCccEEEe
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEFY-PHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNA---V-PNADAVFM  256 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~~-P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~---~-p~aD~~~l  256 (266)
                      .....+|+|+|||+|.++..+++.. |..+++.+|. |+.++.+++       .++++++.+|+.+.   . +.+|++++
T Consensus        38 ~~~~~~vlDlG~GtG~~s~~~a~~~~~~~~v~avD~~~~~~~~a~~n~~~~g~~~~v~~~~~d~~~~l~~~~~~~D~V~~  117 (198)
T PRK00377         38 LRKGDMILDIGCGTGSVTVEASLLVGETGKVYAVDKDEKAINLTRRNAEKFGVLNNIVLIKGEAPEILFTINEKFDRIFI  117 (198)
T ss_pred             CCCcCEEEEeCCcCCHHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHHHHhCCCCCeEEEEechhhhHhhcCCCCCEEEE
Confidence            5567899999999999999998874 6789999998 777775542       36899999998762   3 34999998


Q ss_pred             c
Q 042491          257 K  257 (266)
Q Consensus       257 ~  257 (266)
                      .
T Consensus       118 ~  118 (198)
T PRK00377        118 G  118 (198)
T ss_pred             C
Confidence            3

>PLN02672 methionine S-methyltransferase

Probab=97.73  E-value=7.4e-05  Score=76.29  Aligned_cols=64  Identities=22%  Similarity=0.288  Sum_probs=53.1

Q ss_pred             CceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC----------------------CCCeEEEEccCCCCCC
Q 042491          193 IRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV----------------------YEGVSHVGGDMLNAVP  249 (266)
Q Consensus       193 ~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~----------------------~~ri~~~~gd~~~~~p  249 (266)
                      ..+|+|||||+|..+..+++++|+.+++.+|+ |.+++.++.                      .+||+++.+|++++++
T Consensus       119 ~~~VLDlG~GSG~Iai~La~~~~~~~v~avDis~~Al~~A~~Na~~n~l~~~~~~~~~~~~~~l~~rV~f~~sDl~~~~~  198 (1082)
T PLN02672        119 DKTVAELGCGNGWISIAIAEKWLPSKVYGLDINPRAVKVAWINLYLNALDDDGLPVYDGEGKTLLDRVEFYESDLLGYCR  198 (1082)
T ss_pred             CCEEEEEecchHHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHHHcCcccccccccccccccccccEEEEECchhhhcc
Confidence            36899999999999999999999999999998 666665532                      2589999999998654


Q ss_pred             ----CccEEEe
Q 042491          250 ----NADAVFM  256 (266)
Q Consensus       250 ----~aD~~~l  256 (266)
                          .+|+|+.
T Consensus       199 ~~~~~fDlIVS  209 (1082)
T PLN02672        199 DNNIELDRIVG  209 (1082)
T ss_pred             ccCCceEEEEE
Confidence                3898875

>PRK11188 rrmJ 23S rRNA methyltransferase J; Provisional

Probab=97.73  E-value=0.00026  Score=59.75  Aligned_cols=68  Identities=19%  Similarity=0.195  Sum_probs=52.6

Q ss_pred             CCCCceEEEecCCchHHHHHHHHHC-CCCeEEEeecHHHHhhCCCCCCeEEEEccCCCC---------CC--CccEEEec
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEFY-PHIKGVNFDLPHVVATAPVYEGVSHVGGDMLNA---------VP--NADAVFMK  257 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~~-P~l~~~~~Dlp~v~~~a~~~~ri~~~~gd~~~~---------~p--~aD~~~l~  257 (266)
                      +....+|||||||+|.+...+++.. |..+++.+|+.++.    ...+|.++.+|+.++         ++  .+|+++..
T Consensus        49 ~~~~~~VLDlG~GtG~~t~~l~~~~~~~~~V~aVDi~~~~----~~~~v~~i~~D~~~~~~~~~i~~~~~~~~~D~V~S~  124 (209)
T PRK11188         49 FKPGMTVVDLGAAPGGWSQYAVTQIGDKGRVIACDILPMD----PIVGVDFLQGDFRDELVLKALLERVGDSKVQVVMSD  124 (209)
T ss_pred             CCCCCEEEEEcccCCHHHHHHHHHcCCCceEEEEeccccc----CCCCcEEEecCCCChHHHHHHHHHhCCCCCCEEecC
Confidence            3456799999999999999999987 45789999996532    235699999999883         33  39999975


Q ss_pred             cccc
Q 042491          258 VIVL  261 (266)
Q Consensus       258 ~vLH  261 (266)
                      -..|
T Consensus       125 ~~~~  128 (209)
T PRK11188        125 MAPN  128 (209)
T ss_pred             CCCc
Confidence            4443

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

Probab=97.69  E-value=0.00016  Score=61.60  Aligned_cols=72  Identities=15%  Similarity=0.053  Sum_probs=54.0

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-----CCCeEEEEccCCC-C--CC-CccEEEeccccc
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-----YEGVSHVGGDMLN-A--VP-NADAVFMKVIVL  261 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-----~~ri~~~~gd~~~-~--~p-~aD~~~l~~vLH  261 (266)
                      +..+|||||||+|.++..+++.  ..+++++|. +..++.+++     ..+++++.+|+.+ +  .+ .+|++++.++++
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            4578999999999999988886  457899998 455554442     3467888888765 2  22 399999999998


Q ss_pred             cCCC
Q 042491          262 IQDL  265 (266)
Q Consensus       262 d~~~  265 (266)
                      ...+
T Consensus       126 ~~~~  129 (233)
T PRK05134        126 HVPD  129 (233)
T ss_pred             ccCC
Confidence            7654

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

Probab=97.68  E-value=0.00018  Score=64.64  Aligned_cols=77  Identities=26%  Similarity=0.330  Sum_probs=57.6

Q ss_pred             HHhhcccCCCCCceEEEecCCchHHHHHHHHHCCC-CeEEEeec-HHHHhhCCC------CCCeEEEEccCCCCCC---C
Q 042491          182 LLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPH-IKGVNFDL-PHVVATAPV------YEGVSHVGGDMLNAVP---N  250 (266)
Q Consensus       182 ~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~-l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~~~p---~  250 (266)
                      ++...+  ..+..+|||||||+|.++..+++..+. -+++.+|. |++++.+++      .+++.++.+|..+..+   .
T Consensus        72 ll~~L~--i~~g~~VLDIG~GtG~~a~~LA~~~~~~g~VvgVDis~~~l~~Ar~~l~~~g~~nV~~i~gD~~~~~~~~~~  149 (322)
T PRK13943         72 FMEWVG--LDKGMRVLEIGGGTGYNAAVMSRVVGEKGLVVSVEYSRKICEIAKRNVRRLGIENVIFVCGDGYYGVPEFAP  149 (322)
T ss_pred             HHHhcC--CCCCCEEEEEeCCccHHHHHHHHhcCCCCEEEEEECCHHHHHHHHHHHHHcCCCcEEEEeCChhhcccccCC
Confidence            444444  456689999999999999999998875 46888997 666665543      4679999999877433   4


Q ss_pred             ccEEEecccc
Q 042491          251 ADAVFMKVIV  260 (266)
Q Consensus       251 aD~~~l~~vL  260 (266)
                      +|++++...+
T Consensus       150 fD~Ii~~~g~  159 (322)
T PRK13943        150 YDVIFVTVGV  159 (322)
T ss_pred             ccEEEECCch
Confidence            9999986443

>PRK04266 fibrillarin; Provisional

Probab=97.63  E-value=0.00044  Score=59.07  Aligned_cols=67  Identities=10%  Similarity=0.199  Sum_probs=52.4

Q ss_pred             CCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHh----hCCCCCCeEEEEccCCCC-----CC-CccEEEe
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVA----TAPVYEGVSHVGGDMLNA-----VP-NADAVFM  256 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~----~a~~~~ri~~~~gd~~~~-----~p-~aD~~~l  256 (266)
                      .....+|+|+|||+|.++..+++..+.-+++.+|. |++++    .+++..+|.++.+|...+     ++ .+|+++.
T Consensus        70 i~~g~~VlD~G~G~G~~~~~la~~v~~g~V~avD~~~~ml~~l~~~a~~~~nv~~i~~D~~~~~~~~~l~~~~D~i~~  147 (226)
T PRK04266         70 IKKGSKVLYLGAASGTTVSHVSDIVEEGVVYAVEFAPRPMRELLEVAEERKNIIPILADARKPERYAHVVEKVDVIYQ  147 (226)
T ss_pred             CCCCCEEEEEccCCCHHHHHHHHhcCCCeEEEEECCHHHHHHHHHHhhhcCCcEEEECCCCCcchhhhccccCCEEEE
Confidence            55678999999999999999999998668899998 65554    333346799999998753     23 3899874

>TIGR01983 UbiG ubiquinone biosynthesis O-methyltransferase

Probab=97.62  E-value=0.00011  Score=62.26  Aligned_cols=72  Identities=14%  Similarity=0.005  Sum_probs=54.8

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-----C-CCeEEEEccCCC-C--CC-CccEEEecccc
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-----Y-EGVSHVGGDMLN-A--VP-NADAVFMKVIV  260 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-----~-~ri~~~~gd~~~-~--~p-~aD~~~l~~vL  260 (266)
                      +..+|||+|||+|.++..+++..+  +++++|+ +.+++.++.     . .++++..+|+.+ +  .+ .+|++++.+++
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            467999999999999999988755  5888998 556555443     2 268888888766 2  22 39999999999


Q ss_pred             ccCCC
Q 042491          261 LIQDL  265 (266)
Q Consensus       261 Hd~~~  265 (266)
                      |...+
T Consensus       123 ~~~~~  127 (224)
T TIGR01983       123 EHVPD  127 (224)
T ss_pred             HhCCC
Confidence            87654

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.

>PRK04148 hypothetical protein; Provisional

Probab=97.61  E-value=0.00029  Score=54.98  Aligned_cols=72  Identities=18%  Similarity=0.217  Sum_probs=51.9

Q ss_pred             HHhhcccCCCCCceEEEecCCchH-HHHHHHHHCCCCeEEEeec-HHHHhhCCCCCCeEEEEccCCCCCC----CccEEE
Q 042491          182 LLSHYKDGFDGIRSLVDVGGGTGE-ELAEIVEFYPHIKGVNFDL-PHVVATAPVYEGVSHVGGDMLNAVP----NADAVF  255 (266)
Q Consensus       182 ~~~~~~~~~~~~~~vvDvGgG~G~-~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~~ri~~~~gd~~~~~p----~aD~~~  255 (266)
                      +.+.++  -.+..+++|||||.|. ++..|.+.  +..++++|. |..++.+++ ..++++.+|+|+|-+    +||+++
T Consensus         8 l~~~~~--~~~~~kileIG~GfG~~vA~~L~~~--G~~ViaIDi~~~aV~~a~~-~~~~~v~dDlf~p~~~~y~~a~liy   82 (134)
T PRK04148          8 IAENYE--KGKNKKIVELGIGFYFKVAKKLKES--GFDVIVIDINEKAVEKAKK-LGLNAFVDDLFNPNLEIYKNAKLIY   82 (134)
T ss_pred             HHHhcc--cccCCEEEEEEecCCHHHHHHHHHC--CCEEEEEECCHHHHHHHHH-hCCeEEECcCCCCCHHHHhcCCEEE
Confidence            344454  2244789999999997 77777754  568999998 666665543 457999999999633    599887


Q ss_pred             ecc
Q 042491          256 MKV  258 (266)
Q Consensus       256 l~~  258 (266)
                      -.+
T Consensus        83 sir   85 (134)
T PRK04148         83 SIR   85 (134)
T ss_pred             EeC
Confidence            654

>TIGR00406 prmA ribosomal protein L11 methyltransferase

Probab=97.59  E-value=0.00016  Score=64.08  Aligned_cols=66  Identities=20%  Similarity=0.258  Sum_probs=48.0

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCCCC-CccEEEecc
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNAVP-NADAVFMKV  258 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~~p-~aD~~~l~~  258 (266)
                      ...+|+|||||+|.++..+++. +..+++.+|. |.+++.+++       .+++.+..+|.....+ .+|++++.-
T Consensus       159 ~g~~VLDvGcGsG~lai~aa~~-g~~~V~avDid~~al~~a~~n~~~n~~~~~~~~~~~~~~~~~~~~fDlVvan~  233 (288)
T TIGR00406       159 KDKNVIDVGCGSGILSIAALKL-GAAKVVGIDIDPLAVESARKNAELNQVSDRLQVKLIYLEQPIEGKADVIVANI  233 (288)
T ss_pred             CCCEEEEeCCChhHHHHHHHHc-CCCeEEEEECCHHHHHHHHHHHHHcCCCcceEEEecccccccCCCceEEEEec
Confidence            4489999999999999888765 4458999998 566665543       3567777776433333 499998743

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.

>PRK03612 spermidine synthase; Provisional

Probab=97.58  E-value=0.00013  Score=69.80  Aligned_cols=66  Identities=27%  Similarity=0.434  Sum_probs=54.5

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCC-CeEEEeec-HHHHhhCCC-------------CCCeEEEEccCCCC---CC-Cc
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPH-IKGVNFDL-PHVVATAPV-------------YEGVSHVGGDMLNA---VP-NA  251 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~-l~~~~~Dl-p~v~~~a~~-------------~~ri~~~~gd~~~~---~p-~a  251 (266)
                      ++.++|+|||||+|..++++++ +|. .+++++|+ |++++.+++             .+|++++.+|..+-   .+ .+
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            4678999999999999999997 566 79999998 888887654             37999999998772   34 49


Q ss_pred             cEEEec
Q 042491          252 DAVFMK  257 (266)
Q Consensus       252 D~~~l~  257 (266)
                      |+|++.
T Consensus       375 DvIi~D  380 (521)
T PRK03612        375 DVIIVD  380 (521)
T ss_pred             CEEEEe
Confidence            999875

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

Probab=97.54  E-value=0.00023  Score=58.40  Aligned_cols=65  Identities=22%  Similarity=0.282  Sum_probs=51.9

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-----CCCeEEEEccCCCCCCCccEEEec
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-----YEGVSHVGGDMLNAVPNADAVFMK  257 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-----~~ri~~~~gd~~~~~p~aD~~~l~  257 (266)
                      ..++|+|+|||+|.+++..+-..|. +++.+|+ |+.++.+++     ..+|.++..|.-+--..+|.++|+
T Consensus        45 ~g~~V~DlG~GTG~La~ga~~lGa~-~V~~vdiD~~a~ei~r~N~~~l~g~v~f~~~dv~~~~~~~dtvimN  115 (198)
T COG2263          45 EGKTVLDLGAGTGILAIGAALLGAS-RVLAVDIDPEALEIARANAEELLGDVEFVVADVSDFRGKFDTVIMN  115 (198)
T ss_pred             CCCEEEEcCCCcCHHHHHHHhcCCc-EEEEEecCHHHHHHHHHHHHhhCCceEEEEcchhhcCCccceEEEC
Confidence            4478999999999999998888775 8888898 777776654     568999999988744457777664

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

Probab=97.51  E-value=0.00025  Score=62.83  Aligned_cols=75  Identities=19%  Similarity=0.249  Sum_probs=58.9

Q ss_pred             HHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCC-CCeEEEeec-HHHHhhCCC----CCCeEEEEccCCC--C-CC-
Q 042491          180 STLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYP-HIKGVNFDL-PHVVATAPV----YEGVSHVGGDMLN--A-VP-  249 (266)
Q Consensus       180 ~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P-~l~~~~~Dl-p~v~~~a~~----~~ri~~~~gd~~~--~-~p-  249 (266)
                      ..+++.+.  ......+||.+||.|.++..+++.+| +.+++++|. |++++.+++    .+||+++.+||-+  . ++ 
T Consensus         9 ~Evl~~L~--~~pg~~vlD~TlG~GGhS~~il~~~~~~g~VigiD~D~~al~~ak~~L~~~~ri~~i~~~f~~l~~~l~~   86 (296)
T PRK00050          9 DEVVDALA--IKPDGIYVDGTFGGGGHSRAILERLGPKGRLIAIDRDPDAIAAAKDRLKPFGRFTLVHGNFSNLKEVLAE   86 (296)
T ss_pred             HHHHHhhC--CCCCCEEEEeCcCChHHHHHHHHhCCCCCEEEEEcCCHHHHHHHHHhhccCCcEEEEeCCHHHHHHHHHc
Confidence            45566554  34557999999999999999999996 789999998 888877664    3699999999987  1 22 


Q ss_pred             ---CccEEEe
Q 042491          250 ---NADAVFM  256 (266)
Q Consensus       250 ---~aD~~~l  256 (266)
                         .+|.+++
T Consensus        87 ~~~~vDgIl~   96 (296)
T PRK00050         87 GLGKVDGILL   96 (296)
T ss_pred             CCCccCEEEE
Confidence               4787765

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

Probab=97.50  E-value=0.00019  Score=63.16  Aligned_cols=67  Identities=19%  Similarity=0.325  Sum_probs=57.7

Q ss_pred             CCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC----------CCCeEEEEccCCC---CCC-CccEE
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV----------YEGVSHVGGDMLN---AVP-NADAV  254 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~----------~~ri~~~~gd~~~---~~p-~aD~~  254 (266)
                      .+.+++||-||||.|..++++++..|--++++.|+ |+|++.+++          .+|++.+.+|-++   ..+ .+|+|
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            34567999999999999999999999889999999 888887764          4899999999877   344 49999


Q ss_pred             Ee
Q 042491          255 FM  256 (266)
Q Consensus       255 ~l  256 (266)
                      ++
T Consensus       154 i~  155 (282)
T COG0421         154 IV  155 (282)
T ss_pred             EE
Confidence            86

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

Probab=97.49  E-value=0.00016  Score=60.72  Aligned_cols=79  Identities=22%  Similarity=0.321  Sum_probs=49.1

Q ss_pred             HHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC---------------CCCeEEEEccC
Q 042491          181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV---------------YEGVSHVGGDM  244 (266)
Q Consensus       181 ~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~---------------~~ri~~~~gd~  244 (266)
                      .+++.+.  ......++|||||.|......+..++--+++++++ |...+.+..               ..+|++..|||
T Consensus        33 ~il~~~~--l~~~dvF~DlGSG~G~~v~~aal~~~~~~~~GIEi~~~~~~~a~~~~~~~~~~~~~~g~~~~~v~l~~gdf  110 (205)
T PF08123_consen   33 KILDELN--LTPDDVFYDLGSGVGNVVFQAALQTGCKKSVGIEILPELHDLAEELLEELKKRMKHYGKRPGKVELIHGDF  110 (205)
T ss_dssp             HHHHHTT----TT-EEEEES-TTSHHHHHHHHHH--SEEEEEE-SHHHHHHHHHHHHHHHHHHHHCTB---EEEEECS-T
T ss_pred             HHHHHhC--CCCCCEEEECCCCCCHHHHHHHHHcCCcEEEEEEechHHHHHHHHHHHHHHHHHHHhhcccccceeeccCc
Confidence            3455555  55678999999999999999888887666999997 333322221               46789999999


Q ss_pred             CCC------CCCccEEEeccccc
Q 042491          245 LNA------VPNADAVFMKVIVL  261 (266)
Q Consensus       245 ~~~------~p~aD~~~l~~vLH  261 (266)
                      .++      +.+||++++.+.+-
T Consensus       111 l~~~~~~~~~s~AdvVf~Nn~~F  133 (205)
T PF08123_consen  111 LDPDFVKDIWSDADVVFVNNTCF  133 (205)
T ss_dssp             TTHHHHHHHGHC-SEEEE--TTT
T ss_pred             cccHhHhhhhcCCCEEEEecccc
Confidence            983      24699999998763

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 ....

>PRK13255 thiopurine S-methyltransferase; Reviewed

Probab=97.49  E-value=0.00049  Score=58.46  Aligned_cols=72  Identities=13%  Similarity=0.103  Sum_probs=55.5

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCC------------------CCCCeEEEEccCCCC----
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAP------------------VYEGVSHVGGDMLNA----  247 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~------------------~~~ri~~~~gd~~~~----  247 (266)
                      ....+|||+|||.|..+..|+++  +.+++++|+ |..++.+.                  ...+|++..+|+++.    
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            34579999999999999999875  678999998 55555321                  146799999999983    


Q ss_pred             CCCccEEEeccccccCC
Q 042491          248 VPNADAVFMKVIVLIQD  264 (266)
Q Consensus       248 ~p~aD~~~l~~vLHd~~  264 (266)
                      .+.+|+++-+-++|..+
T Consensus       114 ~~~fd~v~D~~~~~~l~  130 (218)
T PRK13255        114 LADVDAVYDRAALIALP  130 (218)
T ss_pred             CCCeeEEEehHhHhhCC
Confidence            23489999888777553

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

Probab=97.48  E-value=0.00029  Score=59.44  Aligned_cols=79  Identities=19%  Similarity=0.283  Sum_probs=57.5

Q ss_pred             HHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCC-CeEEEeec-HHHHhhCCC------CCCeEEEEccCCCCCC--
Q 042491          180 STLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPH-IKGVNFDL-PHVVATAPV------YEGVSHVGGDMLNAVP--  249 (266)
Q Consensus       180 ~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~-l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~~~p--  249 (266)
                      ..+++.++  .....+|||||+|+|..+..+++..-. -+++.+|. |..++.+++      ..+|+++.||-...+|  
T Consensus        62 a~~l~~L~--l~pg~~VLeIGtGsGY~aAlla~lvg~~g~Vv~vE~~~~l~~~A~~~l~~~~~~nv~~~~gdg~~g~~~~  139 (209)
T PF01135_consen   62 ARMLEALD--LKPGDRVLEIGTGSGYQAALLAHLVGPVGRVVSVERDPELAERARRNLARLGIDNVEVVVGDGSEGWPEE  139 (209)
T ss_dssp             HHHHHHTT--C-TT-EEEEES-TTSHHHHHHHHHHSTTEEEEEEESBHHHHHHHHHHHHHHTTHSEEEEES-GGGTTGGG
T ss_pred             HHHHHHHh--cCCCCEEEEecCCCcHHHHHHHHhcCccceEEEECccHHHHHHHHHHHHHhccCceeEEEcchhhccccC
Confidence            34566666  677899999999999999999988643 46788886 777776664      4589999999888655  


Q ss_pred             -CccEEEecccc
Q 042491          250 -NADAVFMKVIV  260 (266)
Q Consensus       250 -~aD~~~l~~vL  260 (266)
                       .||.|++.--+
T Consensus       140 apfD~I~v~~a~  151 (209)
T PF01135_consen  140 APFDRIIVTAAV  151 (209)
T ss_dssp             -SEEEEEESSBB
T ss_pred             CCcCEEEEeecc
Confidence             39999886443

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 ....

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

Probab=97.48  E-value=0.0002  Score=67.29  Aligned_cols=73  Identities=14%  Similarity=0.097  Sum_probs=54.6

Q ss_pred             HHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCCC-----
Q 042491          180 STLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLNA-----  247 (266)
Q Consensus       180 ~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~~-----  247 (266)
                      ..+++.++  .....+|+|+|||+|.++..+++..  .+++.+|. +++++.+++      .++++++.+|+.+.     
T Consensus       287 ~~vl~~l~--~~~~~~VLDlgcGtG~~sl~la~~~--~~V~gvD~s~~al~~A~~n~~~~~~~~v~~~~~d~~~~l~~~~  362 (443)
T PRK13168        287 ARALEWLD--PQPGDRVLDLFCGLGNFTLPLARQA--AEVVGVEGVEAMVERARENARRNGLDNVTFYHANLEEDFTDQP  362 (443)
T ss_pred             HHHHHHhc--CCCCCEEEEEeccCCHHHHHHHHhC--CEEEEEeCCHHHHHHHHHHHHHcCCCceEEEEeChHHhhhhhh
Confidence            34444444  3455799999999999999999886  57899998 777776653      35799999998752     


Q ss_pred             CC--CccEEEe
Q 042491          248 VP--NADAVFM  256 (266)
Q Consensus       248 ~p--~aD~~~l  256 (266)
                      ++  .+|++++
T Consensus       363 ~~~~~fD~Vi~  373 (443)
T PRK13168        363 WALGGFDKVLL  373 (443)
T ss_pred             hhcCCCCEEEE
Confidence            22  3899886

>KOG2904 consensus Predicted methyltransferase [General function prediction only]

Probab=97.47  E-value=0.00046  Score=59.70  Aligned_cols=67  Identities=15%  Similarity=0.237  Sum_probs=49.9

Q ss_pred             CCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEE----EccCCCCCC---C-ccE
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHV----GGDMLNAVP---N-ADA  253 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~----~gd~~~~~p---~-aD~  253 (266)
                      +.....++|+|||+|..+..++...|..+++.+|. +.++..+.+       .+||.++    .+|.+.+.|   + .|+
T Consensus       146 ~~~~~~ildlgtGSGaIslsll~~L~~~~v~AiD~S~~Ai~La~eN~qr~~l~g~i~v~~~~me~d~~~~~~l~~~~~dl  225 (328)
T KOG2904|consen  146 HSKHTHILDLGTGSGAISLSLLHGLPQCTVTAIDVSKAAIKLAKENAQRLKLSGRIEVIHNIMESDASDEHPLLEGKIDL  225 (328)
T ss_pred             hcccceEEEecCCccHHHHHHHhcCCCceEEEEeccHHHHHHHHHHHHHHhhcCceEEEecccccccccccccccCceeE
Confidence            44567999999999999999999999999999998 444443332       7888887    455555443   3 666


Q ss_pred             EEe
Q 042491          254 VFM  256 (266)
Q Consensus       254 ~~l  256 (266)
                      ++.
T Consensus       226 lvs  228 (328)
T KOG2904|consen  226 LVS  228 (328)
T ss_pred             Eec
Confidence            553

>PRK00517 prmA ribosomal protein L11 methyltransferase; Reviewed

Probab=97.45  E-value=0.00035  Score=60.51  Aligned_cols=61  Identities=25%  Similarity=0.305  Sum_probs=43.0

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCCCCCccEEEec
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNAVPNADAVFMK  257 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~~p~aD~~~l~  257 (266)
                      ....+|+|||||+|.++..+.+..+. +++++|. |.+++.+++       .+++.+..+|.     .+|+++..
T Consensus       118 ~~~~~VLDiGcGsG~l~i~~~~~g~~-~v~giDis~~~l~~A~~n~~~~~~~~~~~~~~~~~-----~fD~Vvan  186 (250)
T PRK00517        118 LPGKTVLDVGCGSGILAIAAAKLGAK-KVLAVDIDPQAVEAARENAELNGVELNVYLPQGDL-----KADVIVAN  186 (250)
T ss_pred             CCCCEEEEeCCcHHHHHHHHHHcCCC-eEEEEECCHHHHHHHHHHHHHcCCCceEEEccCCC-----CcCEEEEc
Confidence            35689999999999999987776554 7999998 677766553       23444444432     58888754

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

Probab=97.45  E-value=0.00023  Score=59.43  Aligned_cols=53  Identities=26%  Similarity=0.406  Sum_probs=42.1

Q ss_pred             ceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCC------CCCCeEEEEccCCC
Q 042491          194 RSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAP------VYEGVSHVGGDMLN  246 (266)
Q Consensus       194 ~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~------~~~ri~~~~gd~~~  246 (266)
                      ..+||||||.|.++.++++.+|+..++++|. ...+..+.      ..+++.++.+|...
T Consensus        19 ~l~lEIG~G~G~~l~~~A~~~Pd~n~iGiE~~~~~v~~a~~~~~~~~l~Nv~~~~~da~~   78 (195)
T PF02390_consen   19 PLILEIGCGKGEFLIELAKRNPDINFIGIEIRKKRVAKALRKAEKRGLKNVRFLRGDARE   78 (195)
T ss_dssp             EEEEEET-TTSHHHHHHHHHSTTSEEEEEES-HHHHHHHHHHHHHHTTSSEEEEES-CTT
T ss_pred             CeEEEecCCCCHHHHHHHHHCCCCCEEEEecchHHHHHHHHHHHhhcccceEEEEccHHH
Confidence            4999999999999999999999999999998 33333322      16889999999777

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 ....

>TIGR00438 rrmJ cell division protein FtsJ

Probab=97.43  E-value=0.00065  Score=56.12  Aligned_cols=64  Identities=22%  Similarity=0.268  Sum_probs=50.6

Q ss_pred             CCCCceEEEecCCchHHHHHHHHHC-CCCeEEEeecHHHHhhCCCCCCeEEEEccCCCC---------CC--CccEEEec
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEFY-PHIKGVNFDLPHVVATAPVYEGVSHVGGDMLNA---------VP--NADAVFMK  257 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~~-P~l~~~~~Dlp~v~~~a~~~~ri~~~~gd~~~~---------~p--~aD~~~l~  257 (266)
                      .....+|||+|||+|.++..+++++ +..+++++|+.+..    ..++++++.+|+.++         .|  .+|+++..
T Consensus        30 i~~g~~VLDiG~GtG~~~~~l~~~~~~~~~v~~vDis~~~----~~~~i~~~~~d~~~~~~~~~l~~~~~~~~~D~V~~~  105 (188)
T TIGR00438        30 IKPGDTVLDLGAAPGGWSQVAVEQVGGKGRVIAVDLQPMK----PIENVDFIRGDFTDEEVLNKIRERVGDDKVDVVMSD  105 (188)
T ss_pred             cCCCCEEEEecCCCCHHHHHHHHHhCCCceEEEEeccccc----cCCCceEEEeeCCChhHHHHHHHHhCCCCccEEEcC
Confidence            3566899999999999999999987 66789999995533    245789999998762         33  39999974

>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=97.43  E-value=3.2e-05  Score=50.28  Aligned_cols=47  Identities=23%  Similarity=0.482  Sum_probs=40.6

Q ss_pred             cChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           36 LRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        36 lglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      +.|+++|...+++.|..|||+++|++...      +.|+|..|+..|++.+++
T Consensus         6 l~iL~~l~~~~~~~t~~eia~~~gl~~st------v~r~L~tL~~~g~v~~dp   52 (52)
T PF09339_consen    6 LRILEALAESGGPLTLSEIARALGLPKST------VHRLLQTLVEEGYVERDP   52 (52)
T ss_dssp             HHHHHCHHCTBSCEEHHHHHHHHTS-HHH------HHHHHHHHHHTTSEEECS
T ss_pred             HHHHHHHHcCCCCCCHHHHHHHHCcCHHH------HHHHHHHHHHCcCeecCc
Confidence            46788888876788999999999999766      999999999999998763

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.

>PLN02823 spermine synthase

Probab=97.41  E-value=0.0003  Score=63.52  Aligned_cols=67  Identities=18%  Similarity=0.189  Sum_probs=55.5

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC----------CCCeEEEEccCCCC---CC-CccEEE
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV----------YEGVSHVGGDMLNA---VP-NADAVF  255 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~----------~~ri~~~~gd~~~~---~p-~aD~~~  255 (266)
                      ..+++||.||||.|..++++++..+..+++++|+ |++++.+++          .+|++++.+|.++-   .+ .+|+|+
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            3678999999999999999999777778999998 788877663          47999999997773   23 499998


Q ss_pred             ec
Q 042491          256 MK  257 (266)
Q Consensus       256 l~  257 (266)
                      +-
T Consensus       182 ~D  183 (336)
T PLN02823        182 GD  183 (336)
T ss_pred             ec
Confidence            74

>TIGR00417 speE spermidine synthase

Probab=97.40  E-value=0.00031  Score=61.57  Aligned_cols=68  Identities=18%  Similarity=0.234  Sum_probs=53.1

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC----------CCCeEEEEccCCCC---CC-CccEEE
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV----------YEGVSHVGGDMLNA---VP-NADAVF  255 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~----------~~ri~~~~gd~~~~---~p-~aD~~~  255 (266)
                      +++.+||+||||+|..+.++++..+..+++++|+ |++++.+++          .+|++++.+|.++-   .+ .+|+|+
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            3567999999999999999998776778999998 666665543          46899999997762   23 499998


Q ss_pred             ecc
Q 042491          256 MKV  258 (266)
Q Consensus       256 l~~  258 (266)
                      +-.
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.

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

Probab=97.39  E-value=0.00038  Score=58.31  Aligned_cols=65  Identities=15%  Similarity=0.130  Sum_probs=49.1

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCCCCC----CccEEEec
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLNAVP----NADAVFMK  257 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~~~p----~aD~~~l~  257 (266)
                      ...+|||+|||+|.++.+++.+.. .+++.+|. |++++.+++      .++++++.+|+++.++    .+|++++.
T Consensus        53 ~~~~vLDl~~GsG~l~l~~lsr~a-~~V~~vE~~~~a~~~a~~Nl~~~~~~~v~~~~~D~~~~l~~~~~~fDlV~~D  128 (199)
T PRK10909         53 VDARCLDCFAGSGALGLEALSRYA-AGATLLEMDRAVAQQLIKNLATLKAGNARVVNTNALSFLAQPGTPHNVVFVD  128 (199)
T ss_pred             CCCEEEEcCCCccHHHHHHHHcCC-CEEEEEECCHHHHHHHHHHHHHhCCCcEEEEEchHHHHHhhcCCCceEEEEC
Confidence            346999999999999998776664 58899997 666655443      3579999999887332    38998863

>KOG2899 consensus Predicted methyltransferase [General function prediction only]

Probab=97.37  E-value=0.0004  Score=59.05  Aligned_cols=53  Identities=15%  Similarity=0.214  Sum_probs=42.7

Q ss_pred             HHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCC
Q 042491          180 STLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAP  232 (266)
Q Consensus       180 ~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~  232 (266)
                      +..+..++..|-....+|||||.+|.+...+++.+-...++++|+ |..|..|+
T Consensus        46 D~rLk~L~~~~f~~~~~LDIGCNsG~lt~~iak~F~~r~iLGvDID~~LI~~Ar   99 (288)
T KOG2899|consen   46 DPRLKVLEKDWFEPKQALDIGCNSGFLTLSIAKDFGPRRILGVDIDPVLIQRAR   99 (288)
T ss_pred             ChhhhhccccccCcceeEeccCCcchhHHHHHHhhccceeeEeeccHHHHHHHH
Confidence            445566654577789999999999999999999999999999999 44455444

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

Probab=97.36  E-value=0.0012  Score=55.35  Aligned_cols=73  Identities=19%  Similarity=0.317  Sum_probs=57.5

Q ss_pred             HHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCCCCC---C
Q 042491          181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLNAVP---N  250 (266)
Q Consensus       181 ~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~~~p---~  250 (266)
                      .+++.++  .+...+||+||||+|..+.-+++-.-  +++.+|+ ++..+.|++      .++|.++.||-.+-+|   .
T Consensus        63 ~m~~~L~--~~~g~~VLEIGtGsGY~aAvla~l~~--~V~siEr~~~L~~~A~~~L~~lg~~nV~v~~gDG~~G~~~~aP  138 (209)
T COG2518          63 RMLQLLE--LKPGDRVLEIGTGSGYQAAVLARLVG--RVVSIERIEELAEQARRNLETLGYENVTVRHGDGSKGWPEEAP  138 (209)
T ss_pred             HHHHHhC--CCCCCeEEEECCCchHHHHHHHHHhC--eEEEEEEcHHHHHHHHHHHHHcCCCceEEEECCcccCCCCCCC
Confidence            4556666  77789999999999999998888866  7788887 565665553      4569999999999766   3


Q ss_pred             ccEEEec
Q 042491          251 ADAVFMK  257 (266)
Q Consensus       251 aD~~~l~  257 (266)
                      ||.|+..
T Consensus       139 yD~I~Vt  145 (209)
T COG2518         139 YDRIIVT  145 (209)
T ss_pred             cCEEEEe
Confidence            9998864

>PRK03522 rumB 23S rRNA methyluridine methyltransferase; Reviewed

Probab=97.34  E-value=0.0005  Score=61.66  Aligned_cols=63  Identities=17%  Similarity=0.100  Sum_probs=49.7

Q ss_pred             CceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCCC---CC-CccEEEec
Q 042491          193 IRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLNA---VP-NADAVFMK  257 (266)
Q Consensus       193 ~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~~---~p-~aD~~~l~  257 (266)
                      ..+|||+|||+|.++..+++.  ..+++++|. +.+++.+++      .++++++.+|+.+-   .. .+|++++.
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  468999998 777766553      35799999998762   22 38998864

>PRK11727 23S rRNA mA1618 methyltransferase; Provisional

Probab=97.32  E-value=0.00052  Score=61.56  Aligned_cols=66  Identities=17%  Similarity=0.148  Sum_probs=50.6

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC--------CCCeEEEE----ccCCCCC--C--CccEE
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV--------YEGVSHVG----GDMLNAV--P--NADAV  254 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~--------~~ri~~~~----gd~~~~~--p--~aD~~  254 (266)
                      ...++||||||+|.....++.+.|+.++++.|+ |..++.++.        .+||+++.    .+++..+  +  .+|++
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            457999999999999999999999999999998 666665553        35787754    4555542  3  38999


Q ss_pred             Eec
Q 042491          255 FMK  257 (266)
Q Consensus       255 ~l~  257 (266)
                      ++.
T Consensus       194 vcN  196 (321)
T PRK11727        194 LCN  196 (321)
T ss_pred             EeC
Confidence            875

>KOG1500 consensus Protein arginine N-methyltransferase CARM1 [Posttranslational modification, protein turnover, chaperones; Transcription]

Probab=97.30  E-value=0.00087  Score=59.61  Aligned_cols=62  Identities=16%  Similarity=0.240  Sum_probs=49.5

Q ss_pred             ceEEEecCCchHHHHHHHHHCCCCeEEEeecHHHHhhCCC-------CCCeEEEEccCCC-CCCC-ccEEEe
Q 042491          194 RSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPV-------YEGVSHVGGDMLN-AVPN-ADAVFM  256 (266)
Q Consensus       194 ~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~a~~-------~~ri~~~~gd~~~-~~p~-aD~~~l  256 (266)
                      +.|||||||+|.+..-.+++-. -++-.++-.++.+.+++       .+||++++|-+.+ ++|+ +|+++-
T Consensus       179 kiVlDVGaGSGILS~FAaqAGA-~~vYAvEAS~MAqyA~~Lv~~N~~~~rItVI~GKiEdieLPEk~DviIS  249 (517)
T KOG1500|consen  179 KIVLDVGAGSGILSFFAAQAGA-KKVYAVEASEMAQYARKLVASNNLADRITVIPGKIEDIELPEKVDVIIS  249 (517)
T ss_pred             cEEEEecCCccHHHHHHHHhCc-ceEEEEehhHHHHHHHHHHhcCCccceEEEccCccccccCchhccEEEe
Confidence            7999999999998876666643 35666777777766553       7999999999999 8997 999873

>KOG0820 consensus Ribosomal RNA adenine dimethylase [RNA processing and modification]

Probab=97.29  E-value=0.00092  Score=57.84  Aligned_cols=74  Identities=22%  Similarity=0.368  Sum_probs=56.4

Q ss_pred             HHHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCC-CCC
Q 042491          179 MSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLN-AVP  249 (266)
Q Consensus       179 ~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~-~~p  249 (266)
                      ...+++.-+  ......||+||+|+|.+...++++-.  +++.+++ |.+++...+       +.+++++.||+++ ++|
T Consensus        47 ~~~I~~ka~--~k~tD~VLEvGPGTGnLT~~lLe~~k--kVvA~E~Dprmvael~krv~gtp~~~kLqV~~gD~lK~d~P  122 (315)
T KOG0820|consen   47 IDQIVEKAD--LKPTDVVLEVGPGTGNLTVKLLEAGK--KVVAVEIDPRMVAELEKRVQGTPKSGKLQVLHGDFLKTDLP  122 (315)
T ss_pred             HHHHHhccC--CCCCCEEEEeCCCCCHHHHHHHHhcC--eEEEEecCcHHHHHHHHHhcCCCccceeeEEecccccCCCc
Confidence            344555555  67788999999999999999999955  5666666 455444332       5789999999999 799


Q ss_pred             CccEEEe
Q 042491          250 NADAVFM  256 (266)
Q Consensus       250 ~aD~~~l  256 (266)
                      -+|.++-
T Consensus       123 ~fd~cVs  129 (315)
T KOG0820|consen  123 RFDGCVS  129 (315)
T ss_pred             ccceeec
Confidence            8887764

>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=97.29  E-value=0.00087  Score=62.87  Aligned_cols=98  Identities=17%  Similarity=0.266  Sum_probs=63.0

Q ss_pred             CcchhcccCchHHHHHHHHHHhhhHHHHHHHHhhcccCC--CCCceEEEecCCchHHHHHHHHHC----CCCeEEEeec-
Q 042491          152 EMWDFASQNSQFNNSFNKAMACTAKIVMSTLLSHYKDGF--DGIRSLVDVGGGTGEELAEIVEFY----PHIKGVNFDL-  224 (266)
Q Consensus       152 ~~~~~~~~~~~~~~~f~~~m~~~~~~~~~~~~~~~~~~~--~~~~~vvDvGgG~G~~~~~l~~~~----P~l~~~~~Dl-  224 (266)
                      ..|+.+++|+..-+.|.+++..       .+.+.....-  .+...|+|||+|+|-++...+++.    -..++..++- 
T Consensus       151 ~tYe~fE~D~vKY~~Ye~AI~~-------al~D~~~~~~~~~~~~vVldVGAGrGpL~~~al~A~~~~~~a~~VyAVEkn  223 (448)
T PF05185_consen  151 QTYEVFEKDPVKYDQYERAIEE-------ALKDRVRKNSYSSKDKVVLDVGAGRGPLSMFALQAGARAGGAVKVYAVEKN  223 (448)
T ss_dssp             HHHHHHCC-HHHHHHHHHHHHH-------HHHHHHTTS-SEETT-EEEEES-TTSHHHHHHHHTTHHHCCESEEEEEESS
T ss_pred             ccHhhHhcCHHHHHHHHHHHHH-------HHHhhhhhccccccceEEEEeCCCccHHHHHHHHHHHHhCCCeEEEEEcCC
Confidence            4678888999887888887632       2233222000  135789999999999987666554    4567877775 


Q ss_pred             HHHHhhC------CC-CCCeEEEEccCCC-CCCC-ccEEEe
Q 042491          225 PHVVATA------PV-YEGVSHVGGDMLN-AVPN-ADAVFM  256 (266)
Q Consensus       225 p~v~~~a------~~-~~ri~~~~gd~~~-~~p~-aD~~~l  256 (266)
                      |.++...      +. .++|+++.+|+.+ ..|+ +|+++-
T Consensus       224 ~~A~~~l~~~v~~n~w~~~V~vi~~d~r~v~lpekvDIIVS  264 (448)
T PF05185_consen  224 PNAVVTLQKRVNANGWGDKVTVIHGDMREVELPEKVDIIVS  264 (448)
T ss_dssp             THHHHHHHHHHHHTTTTTTEEEEES-TTTSCHSS-EEEEEE
T ss_pred             HhHHHHHHHHHHhcCCCCeEEEEeCcccCCCCCCceeEEEE
Confidence            4333221      12 6899999999999 6785 999863

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 ....

>COG2264 PrmA Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]

Probab=97.28  E-value=0.0004  Score=61.37  Aligned_cols=48  Identities=25%  Similarity=0.330  Sum_probs=37.4

Q ss_pred             HHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC
Q 042491          182 LLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV  233 (266)
Q Consensus       182 ~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~  233 (266)
                      +++.+.   .+..+++|+|||+|.++++.++--.. +++++|+ |..++.++.
T Consensus       155 ~Le~~~---~~g~~vlDvGcGSGILaIAa~kLGA~-~v~g~DiDp~AV~aa~e  203 (300)
T COG2264         155 ALEKLL---KKGKTVLDVGCGSGILAIAAAKLGAK-KVVGVDIDPQAVEAARE  203 (300)
T ss_pred             HHHHhh---cCCCEEEEecCChhHHHHHHHHcCCc-eEEEecCCHHHHHHHHH
Confidence            455553   47799999999999999999888654 7899999 666666554

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

Probab=97.24  E-value=0.00043  Score=61.38  Aligned_cols=82  Identities=22%  Similarity=0.307  Sum_probs=50.2

Q ss_pred             HHHHHHhhhHHHHHHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeE
Q 042491          167 FNKAMACTAKIVMSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVS  238 (266)
Q Consensus       167 f~~~m~~~~~~~~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~  238 (266)
                      |-.+-...++... .+++.+.   .+..+|+|||||+|.++++.++.... +++.+|. |..++.+++       .+++.
T Consensus       140 FGTG~H~TT~lcl-~~l~~~~---~~g~~vLDvG~GSGILaiaA~klGA~-~v~a~DiDp~Av~~a~~N~~~N~~~~~~~  214 (295)
T PF06325_consen  140 FGTGHHPTTRLCL-ELLEKYV---KPGKRVLDVGCGSGILAIAAAKLGAK-KVVAIDIDPLAVEAARENAELNGVEDRIE  214 (295)
T ss_dssp             S-SSHCHHHHHHH-HHHHHHS---STTSEEEEES-TTSHHHHHHHHTTBS-EEEEEESSCHHHHHHHHHHHHTT-TTCEE
T ss_pred             ccCCCCHHHHHHH-HHHHHhc---cCCCEEEEeCCcHHHHHHHHHHcCCC-eEEEecCCHHHHHHHHHHHHHcCCCeeEE
Confidence            3333333444433 3444453   34479999999999999999998553 7899998 666665553       45665


Q ss_pred             EEEccCCCCCC--CccEEEe
Q 042491          239 HVGGDMLNAVP--NADAVFM  256 (266)
Q Consensus       239 ~~~gd~~~~~p--~aD~~~l  256 (266)
                      +.   ...+.+  .||+|+.
T Consensus       215 v~---~~~~~~~~~~dlvvA  231 (295)
T PF06325_consen  215 VS---LSEDLVEGKFDLVVA  231 (295)
T ss_dssp             ES---CTSCTCCS-EEEEEE
T ss_pred             EE---EecccccccCCEEEE
Confidence            53   122333  4998874

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 ....

>PLN02781 Probable caffeoyl-CoA O-methyltransferase

Probab=97.24  E-value=0.00048  Score=59.13  Aligned_cols=67  Identities=18%  Similarity=0.236  Sum_probs=53.6

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCC-CCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCC---C------CCcc
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYP-HIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNA---V------PNAD  252 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P-~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~---~------p~aD  252 (266)
                      .+.++|||||||+|.-+..+++..| +.+++.+|. |+.++.+++       .++|+++.||..+-   +      +.+|
T Consensus        67 ~~~~~vLEiGt~~G~s~l~la~~~~~~g~v~tiD~d~~~~~~A~~n~~~~gl~~~i~~~~gda~~~L~~l~~~~~~~~fD  146 (234)
T PLN02781         67 MNAKNTLEIGVFTGYSLLTTALALPEDGRITAIDIDKEAYEVGLEFIKKAGVDHKINFIQSDALSALDQLLNNDPKPEFD  146 (234)
T ss_pred             hCCCEEEEecCcccHHHHHHHHhCCCCCEEEEEECCHHHHHHHHHHHHHcCCCCcEEEEEccHHHHHHHHHhCCCCCCCC
Confidence            4678999999999999999998875 679999998 666665553       57899999998772   1      2499


Q ss_pred             EEEec
Q 042491          253 AVFMK  257 (266)
Q Consensus       253 ~~~l~  257 (266)
                      ++++-
T Consensus       147 ~VfiD  151 (234)
T PLN02781        147 FAFVD  151 (234)
T ss_pred             EEEEC
Confidence            99874

>PRK00536 speE spermidine synthase; Provisional

Probab=97.20  E-value=0.00082  Score=58.55  Aligned_cols=63  Identities=10%  Similarity=0.055  Sum_probs=50.3

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC----------CCCeEEEEccCCCC-CC-CccEEEec
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV----------YEGVSHVGGDMLNA-VP-NADAVFMK  257 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~----------~~ri~~~~gd~~~~-~p-~aD~~~l~  257 (266)
                      +.+++||=||||.|..++++++. |. +++.+|+ ++|++.+++          ++|++++.  ++.+ -+ .+|+|+.=
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            47899999999999999999998 55 9999999 777776654          78999986  3333 22 49999864

>PF10294 Methyltransf_16: Putative methyltransferase; InterPro: IPR019410 There are a number of unidentified genes that have a high probability of coding for methyltransferases

Probab=97.18  E-value=0.00042  Score=56.67  Aligned_cols=74  Identities=16%  Similarity=0.149  Sum_probs=47.7

Q ss_pred             CCCCceEEEecCCchHHHHHHHHHCCCCeEEEeecHHHHhhCCC---------CCCeEEEEccCCCCC------C-CccE
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPV---------YEGVSHVGGDMLNAV------P-NADA  253 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~a~~---------~~ri~~~~gd~~~~~------p-~aD~  253 (266)
                      ....++||++|||.|..+..+++..+..++++-|.+++++..+.         ..+|++.+.|+.++.      + .+|+
T Consensus        43 ~~~~~~VLELGaG~Gl~gi~~a~~~~~~~Vv~TD~~~~l~~l~~Ni~~N~~~~~~~v~v~~L~Wg~~~~~~~~~~~~~D~  122 (173)
T PF10294_consen   43 LFRGKRVLELGAGTGLPGIAAAKLFGAARVVLTDYNEVLELLRRNIELNGSLLDGRVSVRPLDWGDELDSDLLEPHSFDV  122 (173)
T ss_dssp             GTTTSEEEETT-TTSHHHHHHHHT-T-SEEEEEE-S-HHHHHHHHHHTT--------EEEE--TTS-HHHHHHS-SSBSE
T ss_pred             hcCCceEEEECCccchhHHHHHhccCCceEEEeccchhhHHHHHHHHhccccccccccCcEEEecCcccccccccccCCE
Confidence            34568999999999999999999987788999999877664432         478999999987732      2 3999


Q ss_pred             EEeccccccC
Q 042491          254 VFMKVIVLIQ  263 (266)
Q Consensus       254 ~~l~~vLHd~  263 (266)
                      |+.+.|+++-
T Consensus       123 IlasDv~Y~~  132 (173)
T PF10294_consen  123 ILASDVLYDE  132 (173)
T ss_dssp             EEEES--S-G
T ss_pred             EEEecccchH
Confidence            9999999864

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.

>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=97.17  E-value=0.002  Score=56.84  Aligned_cols=71  Identities=13%  Similarity=0.090  Sum_probs=48.1

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeecH-------HHHhhCCC-CCCeEEEEccCCCCCC---CccEEEecccc
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLP-------HVVATAPV-YEGVSHVGGDMLNAVP---NADAVFMKVIV  260 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp-------~v~~~a~~-~~ri~~~~gd~~~~~p---~aD~~~l~~vL  260 (266)
                      ..++|+|||||+|.++..++++.|. .++++|--       ..+...-. ..++.+++ ...+.+|   .||++++--||
T Consensus       115 ~gk~VLDIGC~nGY~~frM~~~GA~-~ViGiDP~~lf~~QF~~i~~~lg~~~~~~~lp-lgvE~Lp~~~~FDtVF~MGVL  192 (315)
T PF08003_consen  115 KGKRVLDIGCNNGYYSFRMLGRGAK-SVIGIDPSPLFYLQFEAIKHFLGQDPPVFELP-LGVEDLPNLGAFDTVFSMGVL  192 (315)
T ss_pred             CCCEEEEecCCCcHHHHHHhhcCCC-EEEEECCChHHHHHHHHHHHHhCCCccEEEcC-cchhhccccCCcCEEEEeeeh
Confidence            3479999999999999999999876 68888861       12222221 23344443 2333344   49999999999


Q ss_pred             ccCC
Q 042491          261 LIQD  264 (266)
Q Consensus       261 Hd~~  264 (266)
                      ++-.
T Consensus       193 YHrr  196 (315)
T PF08003_consen  193 YHRR  196 (315)
T ss_pred             hccC
Confidence            8743

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

>PF06080 DUF938: Protein of unknown function (DUF938); InterPro: IPR010342 This family consists of several hypothetical proteins from both prokaryotes and eukaryotes

Probab=97.16  E-value=0.00077  Score=56.32  Aligned_cols=75  Identities=16%  Similarity=0.223  Sum_probs=48.4

Q ss_pred             CCCCc-eEEEecCCchHHHHHHHHHCCCCeEEEeecHHHH-hhC----CC--CCCe-EEEEccCCCC---CC--------
Q 042491          190 FDGIR-SLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVV-ATA----PV--YEGV-SHVGGDMLNA---VP--------  249 (266)
Q Consensus       190 ~~~~~-~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp~v~-~~a----~~--~~ri-~~~~gd~~~~---~p--------  249 (266)
                      +.... +||+||+|+|+++..+++++|+++..==|..... ..+    ..  .+++ .-+.-|..++   ++        
T Consensus        22 l~~~~~~vLEiaSGtGqHa~~FA~~lP~l~WqPSD~~~~~~~sI~a~~~~~~~~Nv~~P~~lDv~~~~w~~~~~~~~~~~  101 (204)
T PF06080_consen   22 LPDSGTRVLEIASGTGQHAVYFAQALPHLTWQPSDPDDNLRPSIRAWIAEAGLPNVRPPLALDVSAPPWPWELPAPLSPE  101 (204)
T ss_pred             hCccCceEEEEcCCccHHHHHHHHHCCCCEEcCCCCChHHHhhHHHHHHhcCCcccCCCeEeecCCCCCccccccccCCC
Confidence            33444 5999999999999999999999987544553222 111    11  1221 2233454442   21        


Q ss_pred             CccEEEeccccccCC
Q 042491          250 NADAVFMKVIVLIQD  264 (266)
Q Consensus       250 ~aD~~~l~~vLHd~~  264 (266)
                      .+|++++.|++|.-+
T Consensus       102 ~~D~i~~~N~lHI~p  116 (204)
T PF06080_consen  102 SFDAIFCINMLHISP  116 (204)
T ss_pred             CcceeeehhHHHhcC
Confidence            389999999999743

The function of this family is unknown.

>PRK14902 16S rRNA methyltransferase B; Provisional

Probab=97.15  E-value=0.0013  Score=61.75  Aligned_cols=67  Identities=16%  Similarity=0.209  Sum_probs=53.3

Q ss_pred             CCCCceEEEecCCchHHHHHHHHHC-CCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCCC---CC-CccEEEe
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEFY-PHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLNA---VP-NADAVFM  256 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~~-P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~~---~p-~aD~~~l  256 (266)
                      ..+..+|+|+|||+|..+..+++.. |..+++.+|+ +..++.+++      .+.|+++.+|+.+.   ++ .+|+|++
T Consensus       248 ~~~g~~VLDlgaG~G~~t~~la~~~~~~~~v~avDi~~~~l~~~~~n~~~~g~~~v~~~~~D~~~~~~~~~~~fD~Vl~  326 (444)
T PRK14902        248 PKGGDTVLDACAAPGGKTTHIAELLKNTGKVVALDIHEHKLKLIEENAKRLGLTNIETKALDARKVHEKFAEKFDKILV  326 (444)
T ss_pred             CCCCCEEEEeCCCCCHHHHHHHHHhCCCCEEEEEeCCHHHHHHHHHHHHHcCCCeEEEEeCCcccccchhcccCCEEEE
Confidence            4456799999999999999999987 6789999998 666665543      24599999998762   44 4999986

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

Probab=97.12  E-value=0.00037  Score=58.49  Aligned_cols=73  Identities=19%  Similarity=0.256  Sum_probs=52.4

Q ss_pred             HHhhcccCCCC--CceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCCCCCe--EEEEccCCCCCC---C-cc
Q 042491          182 LLSHYKDGFDG--IRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPVYEGV--SHVGGDMLNAVP---N-AD  252 (266)
Q Consensus       182 ~~~~~~~~~~~--~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~~ri--~~~~gd~~~~~p---~-aD  252 (266)
                      .++-++  +++  ..-|||||||+|.-+..|...-  ...+++|. |++++.+.+ ..+  .++-+||-+.+|   + ||
T Consensus        40 aLELLa--lp~~~~~~iLDIGCGsGLSg~vL~~~G--h~wiGvDiSpsML~~a~~-~e~egdlil~DMG~GlpfrpGtFD  114 (270)
T KOG1541|consen   40 ALELLA--LPGPKSGLILDIGCGSGLSGSVLSDSG--HQWIGVDISPSMLEQAVE-RELEGDLILCDMGEGLPFRPGTFD  114 (270)
T ss_pred             HHHHhh--CCCCCCcEEEEeccCCCcchheeccCC--ceEEeecCCHHHHHHHHH-hhhhcCeeeeecCCCCCCCCCccc
Confidence            344444  444  7899999999999888777654  67899997 899888764 223  467788888543   4 88


Q ss_pred             EEEeccc
Q 042491          253 AVFMKVI  259 (266)
Q Consensus       253 ~~~l~~v  259 (266)
                      -++....
T Consensus       115 g~ISISA  121 (270)
T KOG1541|consen  115 GVISISA  121 (270)
T ss_pred             eEEEeee
Confidence            7765443

>TIGR01177 conserved hypothetical protein TIGR01177

Probab=97.08  E-value=0.0019  Score=58.22  Aligned_cols=66  Identities=24%  Similarity=0.191  Sum_probs=50.8

Q ss_pred             CCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCC-CCC--CccEEEec
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLN-AVP--NADAVFMK  257 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~-~~p--~aD~~~l~  257 (266)
                      +....+|+|+|||+|.++.+.+..  ..++++.|. +.++..++.      .+.+.+..+|+.+ +++  .+|++++.
T Consensus       180 ~~~g~~vLDp~cGtG~~lieaa~~--~~~v~g~Di~~~~~~~a~~nl~~~g~~~i~~~~~D~~~l~~~~~~~D~Iv~d  255 (329)
T TIGR01177       180 VTEGDRVLDPFCGTGGFLIEAGLM--GAKVIGCDIDWKMVAGARINLEHYGIEDFFVKRGDATKLPLSSESVDAIATD  255 (329)
T ss_pred             CCCcCEEEECCCCCCHHHHHHHHh--CCeEEEEcCCHHHHHHHHHHHHHhCCCCCeEEecchhcCCcccCCCCEEEEC
Confidence            556679999999999999886653  678899998 667765443      2348899999998 554  38999873

This family is found exclusively in the Archaea.

>PRK10901 16S rRNA methyltransferase B; Provisional

Probab=97.07  E-value=0.0013  Score=61.52  Aligned_cols=67  Identities=16%  Similarity=0.218  Sum_probs=53.0

Q ss_pred             CCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-----CCCeEEEEccCCCC---CC--CccEEEe
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-----YEGVSHVGGDMLNA---VP--NADAVFM  256 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-----~~ri~~~~gd~~~~---~p--~aD~~~l  256 (266)
                      .....+|||+|||+|..+..+++..++.+++.+|. ++.++.+++     .-+++++.+|..+.   .+  .+|.|++
T Consensus       242 ~~~g~~VLDlgaG~G~~t~~la~~~~~~~v~a~D~s~~~l~~~~~n~~~~g~~~~~~~~D~~~~~~~~~~~~fD~Vl~  319 (427)
T PRK10901        242 PQNGERVLDACAAPGGKTAHILELAPQAQVVALDIDAQRLERVRENLQRLGLKATVIVGDARDPAQWWDGQPFDRILL  319 (427)
T ss_pred             CCCCCEEEEeCCCCChHHHHHHHHcCCCEEEEEeCCHHHHHHHHHHHHHcCCCeEEEEcCcccchhhcccCCCCEEEE
Confidence            34567999999999999999999998889999998 666666543     23478999999863   22  3999984

>smart00346 HTH_ICLR helix_turn_helix isocitrate lyase regulation

Probab=97.07  E-value=0.00055  Score=49.46  Aligned_cols=58  Identities=19%  Similarity=0.209  Sum_probs=48.6

Q ss_pred             cChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhc
Q 042491           36 LRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQIS  104 (266)
Q Consensus        36 lglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s  104 (266)
                      +.|++.|...++++|..|||+.+|++...      +.|.|+.|...|++.+...     .+.|++++..
T Consensus         8 ~~Il~~l~~~~~~~t~~~ia~~l~i~~~t------v~r~l~~L~~~g~l~~~~~-----~~~y~l~~~~   65 (91)
T smart00346        8 LAVLRALAEEPGGLTLAELAERLGLSKST------AHRLLNTLQELGYVEQDGQ-----NGRYRLGPKV   65 (91)
T ss_pred             HHHHHHHHhCCCCcCHHHHHHHhCCCHHH------HHHHHHHHHHCCCeeecCC-----CCceeecHHH
Confidence            56788887643689999999999999877      9999999999999998742     3789998843

>PTZ00146 fibrillarin; Provisional

Probab=97.01  E-value=0.0031  Score=55.70  Aligned_cols=70  Identities=14%  Similarity=0.222  Sum_probs=53.1

Q ss_pred             CCCCceEEEecCCchHHHHHHHHHCC-CCeEEEeecHH-----HHhhCCCCCCeEEEEccCCCC------CCCccEEEec
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEFYP-HIKGVNFDLPH-----VVATAPVYEGVSHVGGDMLNA------VPNADAVFMK  257 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~~P-~l~~~~~Dlp~-----v~~~a~~~~ri~~~~gd~~~~------~p~aD~~~l~  257 (266)
                      +....+|||+|||+|.+...+++... .=+++.+|..+     +++.+....+|.++.+|...+      .+.+|++++.
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            45668999999999999999999974 44788889743     455555457899999998764      2248999876


Q ss_pred             cc
Q 042491          258 VI  259 (266)
Q Consensus       258 ~v  259 (266)
                      ..
T Consensus       210 va  211 (293)
T PTZ00146        210 VA  211 (293)
T ss_pred             CC
Confidence            53

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

Probab=96.98  E-value=0.0012  Score=56.32  Aligned_cols=53  Identities=21%  Similarity=0.367  Sum_probs=42.3

Q ss_pred             ceEEEecCCchHHHHHHHHHCCCCeEEEeec--HHHHhhCCC-----CCCeEEEEccCCC
Q 042491          194 RSLVDVGGGTGEELAEIVEFYPHIKGVNFDL--PHVVATAPV-----YEGVSHVGGDMLN  246 (266)
Q Consensus       194 ~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl--p~v~~~a~~-----~~ri~~~~gd~~~  246 (266)
                      ..+||||||.|.++..+++++|+..++++|+  +.+....+.     .++|.++.+|..+
T Consensus        50 pi~lEIGfG~G~~l~~~A~~nP~~nfiGiEi~~~~v~~~l~k~~~~~l~Nlri~~~DA~~  109 (227)
T COG0220          50 PIVLEIGFGMGEFLVEMAKKNPEKNFLGIEIRVPGVAKALKKIKELGLKNLRLLCGDAVE  109 (227)
T ss_pred             cEEEEECCCCCHHHHHHHHHCCCCCEEEEEEehHHHHHHHHHHHHcCCCcEEEEcCCHHH
Confidence            5899999999999999999999999999998  443333222     3378888888655

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

Probab=96.97  E-value=0.0012  Score=60.56  Aligned_cols=62  Identities=13%  Similarity=0.120  Sum_probs=47.9

Q ss_pred             CceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCCC---C-CCccEEEe
Q 042491          193 IRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLNA---V-PNADAVFM  256 (266)
Q Consensus       193 ~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~~---~-p~aD~~~l  256 (266)
                      ..+|+|+|||+|.++..++..  ..+++++|. |..++.++.      .++++++.+|+.+.   . ..+|++++
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            369999999999999999864  468999997 667765553      35799999998652   2 24898876

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.

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

Probab=96.94  E-value=0.0011  Score=45.62  Aligned_cols=60  Identities=20%  Similarity=0.356  Sum_probs=49.1

Q ss_pred             HHhcChhhHhhhCCC-CCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCch
Q 042491           33 AVELRLADIMHCHGS-PITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQ  102 (266)
Q Consensus        33 a~elglfd~L~~~g~-~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~  102 (266)
                      ..+-.|+..|..+|+ ++|+.|||+.+|++...      +.|+|.-|...|++...+.    .++.|+++.
T Consensus         6 ~~~~~IL~~L~~~g~~~~ta~eLa~~lgl~~~~------v~r~L~~L~~~G~V~~~~~----~~~~W~i~~   66 (68)
T smart00550        6 SLEEKILEFLENSGDETSTALQLAKNLGLPKKE------VNRVLYSLEKKGKVCKQGG----TPPLWKLTD   66 (68)
T ss_pred             HHHHHHHHHHHHCCCCCcCHHHHHHHHCCCHHH------HHHHHHHHHHCCCEEecCC----CCCceEeec
Confidence            345678889988754 39999999999999877      9999999999999998762    146787764

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

>TIGR00479 rumA 23S rRNA (uracil-5-)-methyltransferase RumA

Probab=96.93  E-value=0.0012  Score=61.83  Aligned_cols=65  Identities=18%  Similarity=0.257  Sum_probs=50.7

Q ss_pred             CCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCCC---C---C-CccEEE
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLNA---V---P-NADAVF  255 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~~---~---p-~aD~~~  255 (266)
                      ..+..+|+|+|||+|.++..+++...  +++.+|. +++++.++.      .++++++.+|+.+.   +   . .+|+++
T Consensus       290 ~~~~~~vLDl~cG~G~~sl~la~~~~--~V~~vE~~~~av~~a~~n~~~~~~~nv~~~~~d~~~~l~~~~~~~~~~D~vi  367 (431)
T TIGR00479       290 LQGEELVVDAYCGVGTFTLPLAKQAK--SVVGIEVVPESVEKAQQNAELNGIANVEFLAGTLETVLPKQPWAGQIPDVLL  367 (431)
T ss_pred             cCCCCEEEEcCCCcCHHHHHHHHhCC--EEEEEEcCHHHHHHHHHHHHHhCCCceEEEeCCHHHHHHHHHhcCCCCCEEE
Confidence            44567999999999999999998753  7899998 777776654      36899999998652   2   1 278888


Q ss_pred             e
Q 042491          256 M  256 (266)
Q Consensus       256 l  256 (266)
                      +
T Consensus       368 ~  368 (431)
T TIGR00479       368 L  368 (431)
T ss_pred             E
Confidence            6

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.

>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=96.92  E-value=0.001  Score=57.56  Aligned_cols=66  Identities=21%  Similarity=0.296  Sum_probs=52.6

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC----------CCCeEEEEccCCC---CCC--CccEE
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV----------YEGVSHVGGDMLN---AVP--NADAV  254 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~----------~~ri~~~~gd~~~---~~p--~aD~~  254 (266)
                      +.+++||=||||.|..++++++..|-.+++++|+ |.|++.+++          ++|++++.+|-..   .-+  .+|++
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            4689999999999999999998877789999999 777777654          5799999999765   333  49998


Q ss_pred             Ee
Q 042491          255 FM  256 (266)
Q Consensus       255 ~l  256 (266)
                      ++
T Consensus       155 i~  156 (246)
T PF01564_consen  155 IV  156 (246)
T ss_dssp             EE
T ss_pred             EE
Confidence            76

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 ....

>COG1414 IclR Transcriptional regulator [Transcription]

Probab=96.79  E-value=0.0011  Score=57.42  Aligned_cols=58  Identities=19%  Similarity=0.293  Sum_probs=49.6

Q ss_pred             cChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhc
Q 042491           36 LRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQIS  104 (266)
Q Consensus        36 lglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s  104 (266)
                      +.|+++|...+.+++..|||+++|++...      +.|+|..|+..|++.+++.     .++|++++..
T Consensus         7 l~iL~~l~~~~~~l~l~ela~~~glpksT------~~RlL~tL~~~G~v~~d~~-----~g~Y~Lg~~~   64 (246)
T COG1414           7 LAILDLLAEGPGGLSLAELAERLGLPKST------VHRLLQTLVELGYVEQDPE-----DGRYRLGPRL   64 (246)
T ss_pred             HHHHHHHHhCCCCCCHHHHHHHhCcCHHH------HHHHHHHHHHCCCEEEcCC-----CCcEeehHHH
Confidence            56788888743456799999999999877      9999999999999999994     3799999954

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

Probab=96.77  E-value=0.0012  Score=57.14  Aligned_cols=56  Identities=18%  Similarity=0.248  Sum_probs=48.8

Q ss_pred             cChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhc
Q 042491           36 LRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQIS  104 (266)
Q Consensus        36 lglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s  104 (266)
                      +.|+++|.....++|+.|||+.+|++...      +.|+|.-|+..|++.+++       ++|++.+..
T Consensus        12 l~IL~~l~~~~~~~~l~eia~~lglpksT------~~RlL~tL~~~G~l~~~~-------~~Y~lG~~~   67 (248)
T TIGR02431        12 LAVIEAFGAERPRLTLTDVAEATGLTRAA------ARRFLLTLVELGYVTSDG-------RLFWLTPRV   67 (248)
T ss_pred             HHHHHHHhcCCCCCCHHHHHHHHCcCHHH------HHHHHHHHHHCCCEEeCC-------CEEEecHHH
Confidence            56788887655789999999999999877      999999999999999865       899999954

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.

>PF00398 RrnaAD: Ribosomal RNA adenine dimethylase; InterPro: IPR001737 This family of proteins include rRNA adenine dimethylases (e

Probab=96.77  E-value=0.0035  Score=54.68  Aligned_cols=67  Identities=13%  Similarity=0.301  Sum_probs=51.3

Q ss_pred             HHHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCC----CCCCeEEEEccCCC-CCC
Q 042491          179 MSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAP----VYEGVSHVGGDMLN-AVP  249 (266)
Q Consensus       179 ~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~----~~~ri~~~~gd~~~-~~p  249 (266)
                      +..+++..+  ......|+|||+|.|.+...|++..  -+.+++|. +..++..+    ..+|++++.+|+++ +.+
T Consensus        19 ~~~Iv~~~~--~~~~~~VlEiGpG~G~lT~~L~~~~--~~v~~vE~d~~~~~~L~~~~~~~~~~~vi~~D~l~~~~~   91 (262)
T PF00398_consen   19 ADKIVDALD--LSEGDTVLEIGPGPGALTRELLKRG--KRVIAVEIDPDLAKHLKERFASNPNVEVINGDFLKWDLY   91 (262)
T ss_dssp             HHHHHHHHT--CGTTSEEEEESSTTSCCHHHHHHHS--SEEEEEESSHHHHHHHHHHCTTCSSEEEEES-TTTSCGG
T ss_pred             HHHHHHhcC--CCCCCEEEEeCCCCccchhhHhccc--CcceeecCcHhHHHHHHHHhhhcccceeeecchhccccH
Confidence            455666666  5677999999999999999999998  67888887 44444433    36899999999998 443

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 ....

>PRK11569 transcriptional repressor IclR; Provisional

Probab=96.75  E-value=0.0014  Score=57.52  Aligned_cols=58  Identities=12%  Similarity=0.214  Sum_probs=49.6

Q ss_pred             cChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhc
Q 042491           36 LRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQIS  104 (266)
Q Consensus        36 lglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s  104 (266)
                      +.|+++|.+.+.++|..|||+.+|++...      +.|+|.-|+..|++.+++.     .++|++.+..
T Consensus        31 l~IL~~l~~~~~~~~lseia~~lglpksT------v~RlL~tL~~~G~l~~~~~-----~~~Y~lG~~l   88 (274)
T PRK11569         31 LKLLEWIAESNGSVALTELAQQAGLPNST------THRLLTTMQQQGFVRQVGE-----LGHWAIGAHA   88 (274)
T ss_pred             HHHHHHHHhCCCCcCHHHHHHHHCcCHHH------HHHHHHHHHHCCCEEEcCC-----CCeEecCHHH
Confidence            56777787655789999999999999877      9999999999999998763     4899998854

>KOG1499 consensus Protein arginine N-methyltransferase PRMT1 and related enzymes [Posttranslational modification, protein turnover, chaperones; Transcription; Signal transduction mechanisms]

Probab=96.75  E-value=0.0023  Score=57.24  Aligned_cols=64  Identities=17%  Similarity=0.191  Sum_probs=52.2

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeecHHHHhhCCC-------CCCeEEEEccCCC-CCC--CccEEEe
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPV-------YEGVSHVGGDMLN-AVP--NADAVFM  256 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~a~~-------~~ri~~~~gd~~~-~~p--~aD~~~l  256 (266)
                      +.++|+|||||+|.++.-.+++. ..++..+|-.++++.+.+       .+.|+++.|...+ ++|  ..|+++-
T Consensus        60 ~dK~VlDVGcGtGILS~F~akAG-A~~V~aVe~S~ia~~a~~iv~~N~~~~ii~vi~gkvEdi~LP~eKVDiIvS  133 (346)
T KOG1499|consen   60 KDKTVLDVGCGTGILSMFAAKAG-ARKVYAVEASSIADFARKIVKDNGLEDVITVIKGKVEDIELPVEKVDIIVS  133 (346)
T ss_pred             CCCEEEEcCCCccHHHHHHHHhC-cceEEEEechHHHHHHHHHHHhcCccceEEEeecceEEEecCccceeEEee
Confidence            34899999999999999888887 568889998888776654       6779999998888 676  3888764

>PF01596 Methyltransf_3: O-methyltransferase; InterPro: IPR002935 Members of this family are O-methyltransferases

Probab=96.74  E-value=0.00092  Score=56.22  Aligned_cols=67  Identities=21%  Similarity=0.298  Sum_probs=52.3

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCC-CCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCCC---------CCcc
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYP-HIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNAV---------PNAD  252 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P-~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~~---------p~aD  252 (266)
                      .++++||+||++.|.-+..+++..| +.+++.+|. |+..+.+++       .+||+++.||..+-+         ..||
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            3678999999999999999999988 489999998 656655543       579999999987621         1489


Q ss_pred             EEEec
Q 042491          253 AVFMK  257 (266)
Q Consensus       253 ~~~l~  257 (266)
                      ++++=
T Consensus       124 ~VFiD  128 (205)
T PF01596_consen  124 FVFID  128 (205)
T ss_dssp             EEEEE
T ss_pred             EEEEc
Confidence            99874

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 ....

>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=96.73  E-value=0.006  Score=50.94  Aligned_cols=74  Identities=19%  Similarity=0.233  Sum_probs=45.6

Q ss_pred             CCceEEEecCCchHHH----HHHHHH---CC--CCeEEEeec-HHHHhhCCC----------------------------
Q 042491          192 GIRSLVDVGGGTGEEL----AEIVEF---YP--HIKGVNFDL-PHVVATAPV----------------------------  233 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~----~~l~~~---~P--~l~~~~~Dl-p~v~~~a~~----------------------------  233 (266)
                      +.-+|.-.||++|.-.    +.+.+.   ..  ..+++.-|+ +.+++.|++                            
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            5689999999999643    333331   22  356777787 666665542                            


Q ss_pred             ------CCCeEEEEccCCC-C-CC-CccEEEeccccccCCC
Q 042491          234 ------YEGVSHVGGDMLN-A-VP-NADAVFMKVIVLIQDL  265 (266)
Q Consensus       234 ------~~ri~~~~gd~~~-~-~p-~aD~~~l~~vLHd~~~  265 (266)
                            ..+|+|..+|..+ + .+ .+|+|+|+|||-++++
T Consensus       111 ~v~~~lr~~V~F~~~NL~~~~~~~~~fD~I~CRNVlIYF~~  151 (196)
T PF01739_consen  111 RVKPELRKMVRFRRHNLLDPDPPFGRFDLIFCRNVLIYFDP  151 (196)
T ss_dssp             TE-HHHHTTEEEEE--TT-S------EEEEEE-SSGGGS-H
T ss_pred             eEChHHcCceEEEecccCCCCcccCCccEEEecCEEEEeCH
Confidence                  3679999999999 3 22 4999999999988763

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.

>PRK13256 thiopurine S-methyltransferase; Reviewed

Probab=96.71  E-value=0.0087  Score=51.06  Aligned_cols=72  Identities=11%  Similarity=0.061  Sum_probs=55.8

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCC------------------CCCCeEEEEccCCC-CC--
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAP------------------VYEGVSHVGGDMLN-AV--  248 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~------------------~~~ri~~~~gd~~~-~~--  248 (266)
                      .+..+|++.|||.|..+.-|++.  +.+++++|+ |..++.+.                  ...+|++..||||+ +.  
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            34579999999999999999987  567999998 55555521                  14689999999999 32  


Q ss_pred             ---CCccEEEeccccccCC
Q 042491          249 ---PNADAVFMKVIVLIQD  264 (266)
Q Consensus       249 ---p~aD~~~l~~vLHd~~  264 (266)
                         ..+|+|+=+-+|+..+
T Consensus       120 ~~~~~fD~VyDra~~~Alp  138 (226)
T PRK13256        120 NNLPVFDIWYDRGAYIALP  138 (226)
T ss_pred             cccCCcCeeeeehhHhcCC
Confidence               2489999888877654

>KOG3010 consensus Methyltransferase [General function prediction only]

Probab=96.71  E-value=0.0022  Score=54.58  Aligned_cols=73  Identities=25%  Similarity=0.287  Sum_probs=51.8

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCCCCCeEEEE--ccCCC----C-C--CC-ccEEEeccc
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPVYEGVSHVG--GDMLN----A-V--PN-ADAVFMKVI  259 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~~ri~~~~--gd~~~----~-~--p~-aD~~~l~~v  259 (266)
                      ++.+.++|||||+|+.++.++..|.+  +|..|. +.+++.+.+..+++++.  --|-+    + .  ++ .|+|...+.
T Consensus        32 ~~h~~a~DvG~G~Gqa~~~iae~~k~--VIatD~s~~mL~~a~k~~~~~y~~t~~~ms~~~~v~L~g~e~SVDlI~~Aqa  109 (261)
T KOG3010|consen   32 EGHRLAWDVGTGNGQAARGIAEHYKE--VIATDVSEAMLKVAKKHPPVTYCHTPSTMSSDEMVDLLGGEESVDLITAAQA  109 (261)
T ss_pred             CCcceEEEeccCCCcchHHHHHhhhh--heeecCCHHHHHHhhcCCCcccccCCccccccccccccCCCcceeeehhhhh
Confidence            35569999999999777777777664  666687 78888888755544432  22332    1 2  33 899999999


Q ss_pred             cccCCC
Q 042491          260 VLIQDL  265 (266)
Q Consensus       260 LHd~~~  265 (266)
                      +|-++.
T Consensus       110 ~HWFdl  115 (261)
T KOG3010|consen  110 VHWFDL  115 (261)
T ss_pred             HHhhch
Confidence            998763

>TIGR00095 RNA methyltransferase, RsmD family

Probab=96.71  E-value=0.0017  Score=53.96  Aligned_cols=63  Identities=17%  Similarity=0.074  Sum_probs=47.4

Q ss_pred             CceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCC---C--CC--ccEEEe
Q 042491          193 IRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNA---V--PN--ADAVFM  256 (266)
Q Consensus       193 ~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~---~--p~--aD~~~l  256 (266)
                      ..+|||++||+|.++.+++.+... +++.+|. +.+++.+++       .++++++.+|.++.   +  ++  +|++++
T Consensus        50 g~~vLDLfaGsG~lglea~srga~-~v~~vE~~~~a~~~~~~N~~~~~~~~~~~~~~~D~~~~l~~~~~~~~~~dvv~~  127 (189)
T TIGR00095        50 GAHLLDVFAGSGLLGEEALSRGAK-VAFLEEDDRKANQTLKENLALLKSGEQAEVVRNSALRALKFLAKKPTFDNVIYL  127 (189)
T ss_pred             CCEEEEecCCCcHHHHHHHhCCCC-EEEEEeCCHHHHHHHHHHHHHhCCcccEEEEehhHHHHHHHhhccCCCceEEEE
Confidence            478999999999999999999764 7888897 555554432       35899999998662   2  12  677765

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.

>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=96.70  E-value=0.00099  Score=53.84  Aligned_cols=62  Identities=18%  Similarity=0.392  Sum_probs=44.5

Q ss_pred             ceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCC---CC--C-ccEEEec
Q 042491          194 RSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNA---VP--N-ADAVFMK  257 (266)
Q Consensus       194 ~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~---~p--~-aD~~~l~  257 (266)
                      ++|+|+-||.|..++++++.++.  ++.+|+ |..++.++.       .+||.++.||+++-   ++  . +|+++++
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            47999999999999999999764  777787 555555442       67999999999983   33  2 7999875

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.

>PRK10163 DNA-binding transcriptional repressor AllR; Provisional

Probab=96.67  E-value=0.0018  Score=56.83  Aligned_cols=58  Identities=5%  Similarity=0.129  Sum_probs=49.5

Q ss_pred             cChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhc
Q 042491           36 LRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQIS  104 (266)
Q Consensus        36 lglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s  104 (266)
                      +.|+++|...+.++|+.|||+.+|++...      +.|+|.-|+..|++.+++.     .++|++++..
T Consensus        28 l~IL~~~~~~~~~~tl~eIa~~lglpkSt------v~RlL~tL~~~G~l~~~~~-----~~~Y~lG~~l   85 (271)
T PRK10163         28 IAILQYLEKSGGSSSVSDISLNLDLPLST------TFRLLKVLQAADFVYQDSQ-----LGWWHIGLGV   85 (271)
T ss_pred             HHHHHHHHhCCCCcCHHHHHHHHCcCHHH------HHHHHHHHHHCCCEEEcCC-----CCeEEecHHH
Confidence            55777787655689999999999999877      9999999999999988763     4899999854

>TIGR00478 tly hemolysin TlyA family protein

Probab=96.67  E-value=0.011  Score=50.63  Aligned_cols=77  Identities=16%  Similarity=0.151  Sum_probs=50.1

Q ss_pred             HHHHhhcccCC-CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-H-HHHhhCCCCCCeEE-EEccCCC--------C
Q 042491          180 STLLSHYKDGF-DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-P-HVVATAPVYEGVSH-VGGDMLN--------A  247 (266)
Q Consensus       180 ~~~~~~~~~~~-~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p-~v~~~a~~~~ri~~-~~gd~~~--------~  247 (266)
                      ..+++.++  . ....+++|||||+|.+...+++. +.-+++.+|. + ++....+..+|+.. ...|+..        +
T Consensus        64 ~~~l~~~~--~~~~~~~vlDiG~gtG~~t~~l~~~-ga~~v~avD~~~~~l~~~l~~~~~v~~~~~~ni~~~~~~~~~~d  140 (228)
T TIGR00478        64 KEALEEFN--IDVKNKIVLDVGSSTGGFTDCALQK-GAKEVYGVDVGYNQLAEKLRQDERVKVLERTNIRYVTPADIFPD  140 (228)
T ss_pred             HHHHHhcC--CCCCCCEEEEcccCCCHHHHHHHHc-CCCEEEEEeCCHHHHHHHHhcCCCeeEeecCCcccCCHhHcCCC
Confidence            34555554  2 24579999999999999999987 4568999998 3 34444555666543 3334442        1


Q ss_pred             CCCccEEEeccc
Q 042491          248 VPNADAVFMKVI  259 (266)
Q Consensus       248 ~p~aD~~~l~~v  259 (266)
                      ++.+|+.+.+..
T Consensus       141 ~~~~DvsfiS~~  152 (228)
T TIGR00478       141 FATFDVSFISLI  152 (228)
T ss_pred             ceeeeEEEeehH
Confidence            234888887654

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).

>COG0030 KsgA Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]

Probab=96.66  E-value=0.012  Score=51.02  Aligned_cols=69  Identities=14%  Similarity=0.376  Sum_probs=50.9

Q ss_pred             HHHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeecHHHHhhC----CCCCCeEEEEccCCC-CCCC
Q 042491          179 MSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATA----PVYEGVSHVGGDMLN-AVPN  250 (266)
Q Consensus       179 ~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~a----~~~~ri~~~~gd~~~-~~p~  250 (266)
                      ...+++..+  ......|++||+|.|.+-..|+++...+.++=+|. ..++..    ...++++++.||+.+ ++|+
T Consensus        19 ~~kIv~~a~--~~~~d~VlEIGpG~GaLT~~Ll~~~~~v~aiEiD~-~l~~~L~~~~~~~~n~~vi~~DaLk~d~~~   92 (259)
T COG0030          19 IDKIVEAAN--ISPGDNVLEIGPGLGALTEPLLERAARVTAIEIDR-RLAEVLKERFAPYDNLTVINGDALKFDFPS   92 (259)
T ss_pred             HHHHHHhcC--CCCCCeEEEECCCCCHHHHHHHhhcCeEEEEEeCH-HHHHHHHHhcccccceEEEeCchhcCcchh
Confidence            455666665  55578999999999999999999988755554443 222222    236899999999999 6774

>PF13679 Methyltransf_32: Methyltransferase domain

Probab=96.62  E-value=0.0021  Score=50.63  Aligned_cols=57  Identities=21%  Similarity=0.376  Sum_probs=42.8

Q ss_pred             CCCCceEEEecCCchHHHHHHHHH----CCCCeEEEeec-HHHHhhCCC---------CCCeEEEEccCCC
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEF----YPHIKGVNFDL-PHVVATAPV---------YEGVSHVGGDMLN  246 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~----~P~l~~~~~Dl-p~v~~~a~~---------~~ri~~~~gd~~~  246 (266)
                      -.+..+|||+|||.|.++..|...    .|+++++.+|. ++.++.+..         ..++++..+++..
T Consensus        23 ~~~~~~vvD~GsG~GyLs~~La~~l~~~~~~~~v~~iD~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~   93 (141)
T PF13679_consen   23 SKRCITVVDLGSGKGYLSRALAHLLCNSSPNLRVLGIDCNESLVESAQKRAQKLGSDLEKRLSFIQGDIAD   93 (141)
T ss_pred             cCCCCEEEEeCCChhHHHHHHHHHHHhcCCCCeEEEEECCcHHHHHHHHHHHHhcchhhccchhhccchhh
Confidence            357789999999999999999992    28899999997 444444332         3567777776655

>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=96.60  E-value=0.0013  Score=44.73  Aligned_cols=63  Identities=22%  Similarity=0.363  Sum_probs=42.9

Q ss_pred             cChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhc
Q 042491           36 LRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQIS  104 (266)
Q Consensus        36 lglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s  104 (266)
                      +-|...|...+++.+..+||+.++++...      +.+.++-|...|++++.....+.....|++|+.+
T Consensus         6 ~~vL~~l~~~~~~~t~~~l~~~~~~~~~~------vs~~i~~L~~~glv~~~~~~~d~R~~~~~LT~~G   68 (68)
T PF13463_consen    6 WQVLRALAHSDGPMTQSDLAERLGISKST------VSRIIKKLEEKGLVEKERDPHDKRSKRYRLTPAG   68 (68)
T ss_dssp             HHHHHHHT--TS-BEHHHHHHHTT--HHH------HHHHHHHHHHTTSEEEEEESSCTTSEEEEE-HHH
T ss_pred             HHHHHHHHccCCCcCHHHHHHHHCcCHHH------HHHHHHHHHHCCCEEecCCCCcCCeeEEEeCCCC
Confidence            33455555223899999999999999766      9999999999999977763222233579999864

>PRK10611 chemotaxis methyltransferase CheR; Provisional

Probab=96.57  E-value=0.022  Score=50.40  Aligned_cols=74  Identities=20%  Similarity=0.213  Sum_probs=53.2

Q ss_pred             CCceEEEecCCchHH----HHHHHHHCC----CCeEEEeec-HHHHhhCCC-----------------------------
Q 042491          192 GIRSLVDVGGGTGEE----LAEIVEFYP----HIKGVNFDL-PHVVATAPV-----------------------------  233 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~----~~~l~~~~P----~l~~~~~Dl-p~v~~~a~~-----------------------------  233 (266)
                      +.-+|...||++|.-    ++.+.+..+    +++++.-|+ +.+++.|++                             
T Consensus       115 ~~irIWSAgCStGEEpYSlAmll~e~~~~~~~~~~I~atDIs~~aL~~Ar~G~Y~~~~~r~~p~~~~~ryF~~~~~~~~~  194 (287)
T PRK10611        115 GEYRVWSAAASTGEEPYSIAMTLADTLGTAPGRWKVFASDIDTEVLEKARSGIYRQEELKTLSPQQLQRYFMRGTGPHEG  194 (287)
T ss_pred             CCEEEEEccccCCHHHHHHHHHHHHhhcccCCCcEEEEEECCHHHHHHHHhCCCCHHHHhcCCHHHHHHHcccccCCCCc
Confidence            347999999999964    344444433    367888898 555544432                             


Q ss_pred             --------CCCeEEEEccCCC-CCC---CccEEEeccccccCCC
Q 042491          234 --------YEGVSHVGGDMLN-AVP---NADAVFMKVIVLIQDL  265 (266)
Q Consensus       234 --------~~ri~~~~gd~~~-~~p---~aD~~~l~~vLHd~~~  265 (266)
                              ..+|+|..+|..+ ++|   .+|+|+++|||.++++
T Consensus       195 ~~~v~~~lr~~V~F~~~NL~~~~~~~~~~fD~I~cRNvliyF~~  238 (287)
T PRK10611        195 LVRVRQELANYVDFQQLNLLAKQWAVPGPFDAIFCRNVMIYFDK  238 (287)
T ss_pred             eEEEChHHHccCEEEcccCCCCCCccCCCcceeeHhhHHhcCCH
Confidence                    2568999999998 454   4999999999998864

>PRK09834 DNA-binding transcriptional activator MhpR; Provisional

Probab=96.53  E-value=0.0025  Score=55.66  Aligned_cols=60  Identities=17%  Similarity=0.164  Sum_probs=50.3

Q ss_pred             hcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhch
Q 042491           35 ELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISK  105 (266)
Q Consensus        35 elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~  105 (266)
                      -+.|+++|...+.++|..|||+.+|++...      +.|+|+.|...|++.++..     .++|++++...
T Consensus        13 al~iL~~l~~~~~~ls~~eia~~lgl~kst------v~RlL~tL~~~g~v~~~~~-----~~~Y~Lg~~~~   72 (263)
T PRK09834         13 GLMVLRALNRLDGGATVGLLAELTGLHRTT------VRRLLETLQEEGYVRRSAS-----DDSFRLTLKVR   72 (263)
T ss_pred             HHHHHHHHHhcCCCCCHHHHHHHHCcCHHH------HHHHHHHHHHCCCEEEecC-----CCcEEEcHHHH
Confidence            356777887654679999999999999877      9999999999999998753     47899998654

>PRK14904 16S rRNA methyltransferase B; Provisional

Probab=96.52  E-value=0.009  Score=56.18  Aligned_cols=66  Identities=15%  Similarity=0.234  Sum_probs=50.9

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCC-CCeEEEeec-HHHHhhCCC------CCCeEEEEccCCCCCC--CccEEEe
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYP-HIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLNAVP--NADAVFM  256 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P-~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~~~p--~aD~~~l  256 (266)
                      ....+|||+|||+|..+..+++..+ .-+++.+|. ++.++.+++      .++|+++.+|..+..|  .+|+|++
T Consensus       249 ~~g~~VLDlgaG~G~kt~~la~~~~~~~~V~avD~s~~~l~~~~~~~~~~g~~~v~~~~~Da~~~~~~~~fD~Vl~  324 (445)
T PRK14904        249 QPGSTVLDLCAAPGGKSTFMAELMQNRGQITAVDRYPQKLEKIRSHASALGITIIETIEGDARSFSPEEQPDAILL  324 (445)
T ss_pred             CCCCEEEEECCCCCHHHHHHHHHhCCCcEEEEEECCHHHHHHHHHHHHHhCCCeEEEEeCcccccccCCCCCEEEE
Confidence            3457999999999999988888764 458999998 666665543      3568999999887333  3999986

>TIGR01444 fkbM_fam methyltransferase, FkbM family

Probab=96.50  E-value=0.0046  Score=48.33  Aligned_cols=52  Identities=13%  Similarity=0.176  Sum_probs=40.6

Q ss_pred             eEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCC
Q 042491          195 SLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLN  246 (266)
Q Consensus       195 ~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~  246 (266)
                      +++|||||.|.++..+++.+|..+++.+|. |...+.+++      .++++++...+..
T Consensus         1 ~vlDiGa~~G~~~~~~~~~~~~~~v~~~E~~~~~~~~l~~~~~~n~~~~v~~~~~al~~   59 (143)
T TIGR01444         1 VVIDVGANIGDTSLYFARKGAEGRVIAFEPLPDAYEILEENVKLNNLPNVVLLNAAVGD   59 (143)
T ss_pred             CEEEccCCccHHHHHHHHhCCCCEEEEEecCHHHHHHHHHHHHHcCCCcEEEEEeeeeC
Confidence            589999999999999999999999999997 666654443      2457776655554

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.

>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=96.47  E-value=0.00097  Score=44.70  Aligned_cols=55  Identities=22%  Similarity=0.384  Sum_probs=45.3

Q ss_pred             HHHHHHHHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           27 SMALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        27 ~~~L~~a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      +.+|.--.++.|+..|.. +++.|+.|||+.+|+++..      +.+.|+.|...|+++...
T Consensus         4 ~~aL~~p~R~~Il~~L~~-~~~~t~~ela~~l~~~~~t------~s~hL~~L~~aGli~~~~   58 (61)
T PF12840_consen    4 FKALSDPTRLRILRLLAS-NGPMTVSELAEELGISQST------VSYHLKKLEEAGLIEVER   58 (61)
T ss_dssp             HHHHTSHHHHHHHHHHHH-CSTBEHHHHHHHHTS-HHH------HHHHHHHHHHTTSEEEEE
T ss_pred             HHHhCCHHHHHHHHHHhc-CCCCCHHHHHHHHCCCHHH------HHHHHHHHHHCCCeEEec
Confidence            345555667888888844 3899999999999999776      999999999999998876

...

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

Probab=96.44  E-value=0.0064  Score=51.65  Aligned_cols=72  Identities=17%  Similarity=0.227  Sum_probs=54.5

Q ss_pred             CCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhC----CC--------------CCCeEEEEccCCC-C--
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATA----PV--------------YEGVSHVGGDMLN-A--  247 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a----~~--------------~~ri~~~~gd~~~-~--  247 (266)
                      .....+|++.|||.|.-+..|+++  +.+++++|+ |..|+.+    ..              .++|++..||||+ +  
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            446679999999999999999987  568999998 5555543    10              4689999999999 2  


Q ss_pred             CC-CccEEEeccccccC
Q 042491          248 VP-NADAVFMKVIVLIQ  263 (266)
Q Consensus       248 ~p-~aD~~~l~~vLHd~  263 (266)
                      .. .+|+|+=+-.|+-.
T Consensus       113 ~~g~fD~iyDr~~l~Al  129 (218)
T PF05724_consen  113 DVGKFDLIYDRTFLCAL  129 (218)
T ss_dssp             CHHSEEEEEECSSTTTS
T ss_pred             hcCCceEEEEecccccC
Confidence            11 48999877776643

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.

>PRK15090 DNA-binding transcriptional regulator KdgR; Provisional

Probab=96.43  E-value=0.0028  Score=55.08  Aligned_cols=57  Identities=16%  Similarity=0.207  Sum_probs=48.2

Q ss_pred             cChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhc
Q 042491           36 LRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQIS  104 (266)
Q Consensus        36 lglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s  104 (266)
                      +.|++.|... +++|+.|||+.+|++...      +.|+|+-|+..|++.++..     .++|++++..
T Consensus        17 l~IL~~l~~~-~~l~l~eia~~lgl~kst------v~Rll~tL~~~G~l~~~~~-----~~~Y~lG~~~   73 (257)
T PRK15090         17 FGILQALGEE-REIGITELSQRVMMSKST------VYRFLQTMKTLGYVAQEGE-----SEKYSLTLKL   73 (257)
T ss_pred             HHHHHHhhcC-CCCCHHHHHHHHCcCHHH------HHHHHHHHHHCCCEEEcCC-----CCcEEecHHH
Confidence            4566777654 689999999999999877      9999999999999998753     4899999854

>COG1352 CheR Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]

Probab=96.40  E-value=0.093  Score=45.94  Aligned_cols=73  Identities=18%  Similarity=0.186  Sum_probs=55.9

Q ss_pred             CCceEEEecCCchH----HHHHHHHHCCC-----CeEEEeec-HHHHhhCCC----------------------------
Q 042491          192 GIRSLVDVGGGTGE----ELAEIVEFYPH-----IKGVNFDL-PHVVATAPV----------------------------  233 (266)
Q Consensus       192 ~~~~vvDvGgG~G~----~~~~l~~~~P~-----l~~~~~Dl-p~v~~~a~~----------------------------  233 (266)
                      +.-+|.-+||++|.    ++..+.+..|.     .+++.-|+ ..+++.|+.                            
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            57899999999995    66778888874     57777787 555554442                            


Q ss_pred             -------CCCeEEEEccCCCC--CCC-ccEEEeccccccCC
Q 042491          234 -------YEGVSHVGGDMLNA--VPN-ADAVFMKVIVLIQD  264 (266)
Q Consensus       234 -------~~ri~~~~gd~~~~--~p~-aD~~~l~~vLHd~~  264 (266)
                             ...|.|..+|.+++  .++ +|+|+|+|||=+++
T Consensus       176 y~v~~~ir~~V~F~~~NLl~~~~~~~~fD~IfCRNVLIYFd  216 (268)
T COG1352         176 YRVKEELRKMVRFRRHNLLDDSPFLGKFDLIFCRNVLIYFD  216 (268)
T ss_pred             EEEChHHhcccEEeecCCCCCccccCCCCEEEEcceEEeeC
Confidence                   24688999999984  444 99999999997765

>PRK11783 rlmL 23S rRNA m(2)G2445 methyltransferase; Provisional

Probab=96.39  E-value=0.0039  Score=61.93  Aligned_cols=64  Identities=13%  Similarity=0.041  Sum_probs=50.6

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------C-CCeEEEEccCCCC---CC-CccEEEe
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------Y-EGVSHVGGDMLNA---VP-NADAVFM  256 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~-~ri~~~~gd~~~~---~p-~aD~~~l  256 (266)
                      ..++|||+|||+|.++..+++. ...+++.+|. +..++.+++       . ++++++.+|.++.   .+ .+|+|++
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 3447999998 666665553       2 5899999998873   23 4999987

>PRK15128 23S rRNA m(5)C1962 methyltransferase; Provisional

Probab=96.38  E-value=0.0047  Score=57.13  Aligned_cols=65  Identities=14%  Similarity=0.075  Sum_probs=48.9

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------C-CCeEEEEccCCCCC------C-CccEEE
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------Y-EGVSHVGGDMLNAV------P-NADAVF  255 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~-~ri~~~~gd~~~~~------p-~aD~~~  255 (266)
                      ..++|||+|||+|.++...+.. +..+++.+|+ +..++.+++       . ++++++.+|.++.+      . .||+|+
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 4458999998 666665543       2 48999999998732      2 399998


Q ss_pred             ec
Q 042491          256 MK  257 (266)
Q Consensus       256 l~  257 (266)
                      +-
T Consensus       299 lD  300 (396)
T PRK15128        299 MD  300 (396)
T ss_pred             EC
Confidence            74

>PRK05031 tRNA (uracil-5-)-methyltransferase; Validated

Probab=96.34  E-value=0.0073  Score=55.24  Aligned_cols=51  Identities=14%  Similarity=0.170  Sum_probs=41.5

Q ss_pred             ceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCC
Q 042491          194 RSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLN  246 (266)
Q Consensus       194 ~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~  246 (266)
                      .+|+|++||+|.++..+++...  +++++|. +.+++.+++      .++++++.+|..+
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            5799999999999999998865  7889997 666665543      3589999999865

>TIGR02143 trmA_only tRNA (uracil-5-)-methyltransferase

Probab=96.33  E-value=0.0049  Score=56.18  Aligned_cols=51  Identities=12%  Similarity=0.156  Sum_probs=42.0

Q ss_pred             ceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCC
Q 042491          194 RSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLN  246 (266)
Q Consensus       194 ~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~  246 (266)
                      .+|+|+|||+|.++..+.+...  +++++|. +++++.+++      .++++++.+|..+
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  7899997 777776654      3579999999865

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.

>PRK11760 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional

Probab=96.33  E-value=0.015  Score=52.34  Aligned_cols=66  Identities=18%  Similarity=0.121  Sum_probs=54.5

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeecHHHHhhCCCCCCeEEEEccCCCCCC---CccEEEecc
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPVYEGVSHVGGDMLNAVP---NADAVFMKV  258 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~a~~~~ri~~~~gd~~~~~p---~aD~~~l~~  258 (266)
                      ....++||||+++|.+...++++  +.+++.+|.-++.+.....+||+++.+|-+...|   .+|++++=.
T Consensus       210 ~~g~~vlDLGAsPGGWT~~L~~r--G~~V~AVD~g~l~~~L~~~~~V~h~~~d~fr~~p~~~~vDwvVcDm  278 (357)
T PRK11760        210 APGMRAVDLGAAPGGWTYQLVRR--GMFVTAVDNGPMAQSLMDTGQVEHLRADGFKFRPPRKNVDWLVCDM  278 (357)
T ss_pred             CCCCEEEEeCCCCcHHHHHHHHc--CCEEEEEechhcCHhhhCCCCEEEEeccCcccCCCCCCCCEEEEec
Confidence            45689999999999999999998  4599999987776666668999999999988543   378877643

>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=96.30  E-value=0.015  Score=51.11  Aligned_cols=75  Identities=15%  Similarity=0.141  Sum_probs=59.3

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCC--CeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCC------CCCccEE
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPH--IKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNA------VPNADAV  254 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~--l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~------~p~aD~~  254 (266)
                      ....+||||.||+|.+....++.+|.  .++.+.|. |..++..++       .+-++|..+|-|+.      -|..+++
T Consensus       134 g~pvrIlDIAaG~GRYvlDal~~~~~~~~~i~LrDys~~Nv~~g~~li~~~gL~~i~~f~~~dAfd~~~l~~l~p~P~l~  213 (311)
T PF12147_consen  134 GRPVRILDIAAGHGRYVLDALEKHPERPDSILLRDYSPINVEKGRALIAERGLEDIARFEQGDAFDRDSLAALDPAPTLA  213 (311)
T ss_pred             CCceEEEEeccCCcHHHHHHHHhCCCCCceEEEEeCCHHHHHHHHHHHHHcCCccceEEEecCCCCHhHhhccCCCCCEE
Confidence            35789999999999999999999998  68888897 555555443       34459999999983      3457999


Q ss_pred             EeccccccCCC
Q 042491          255 FMKVIVLIQDL  265 (266)
Q Consensus       255 ~l~~vLHd~~~  265 (266)
                      +.+-+.-.++|
T Consensus       214 iVsGL~ElF~D  224 (311)
T PF12147_consen  214 IVSGLYELFPD  224 (311)
T ss_pred             EEecchhhCCc
Confidence            98887766665

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.

>PLN02476 O-methyltransferase

Probab=96.27  E-value=0.0062  Score=53.55  Aligned_cols=67  Identities=18%  Similarity=0.129  Sum_probs=53.0

Q ss_pred             CCCCceEEEecCCchHHHHHHHHHCC-CCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCC---C------CCc
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEFYP-HIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNA---V------PNA  251 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~~P-~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~---~------p~a  251 (266)
                      ..+.++|||||+++|..+..+++..| +-+++-+|. |+..+.+++       .++|+++.||..+-   +      +.+
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            45789999999999999999999876 557888898 555665543       57999999998762   2      248


Q ss_pred             cEEEe
Q 042491          252 DAVFM  256 (266)
Q Consensus       252 D~~~l  256 (266)
                      |++++
T Consensus       196 D~VFI  200 (278)
T PLN02476        196 DFAFV  200 (278)
T ss_pred             CEEEE
Confidence            98876

>TIGR02337 HpaR homoprotocatechuate degradation operon regulator, HpaR

Probab=96.21  E-value=0.016  Score=44.00  Aligned_cols=70  Identities=23%  Similarity=0.297  Sum_probs=54.4

Q ss_pred             HHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhhc
Q 042491           33 AVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLLR  109 (266)
Q Consensus        33 a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~~  109 (266)
                      ..++.|+..|... +++|..+||+.++++...      +.+.++-|...|++.+.....+...-.|.+|+.++.+..
T Consensus        28 ~~q~~iL~~l~~~-~~~t~~ela~~~~~~~~t------vs~~l~~Le~~GlI~r~~~~~D~R~~~v~LT~~G~~~~~   97 (118)
T TIGR02337        28 EQQWRILRILAEQ-GSMEFTQLANQACILRPS------LTGILARLERDGLVTRLKASNDQRRVYISLTPKGQALYA   97 (118)
T ss_pred             HHHHHHHHHHHHc-CCcCHHHHHHHhCCCchh------HHHHHHHHHHCCCEEeccCCCCCCeeEEEECHhHHHHHH
Confidence            3445677888764 689999999999999877      999999999999999875322122346999999975543

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.

>PRK10141 DNA-binding transcriptional repressor ArsR; Provisional

Probab=96.16  E-value=0.0064  Score=46.41  Aligned_cols=65  Identities=15%  Similarity=0.309  Sum_probs=54.3

Q ss_pred             HHHHHHHHHHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCce---EeCc
Q 042491           25 ADSMALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETM---YGLT  101 (266)
Q Consensus        25 ~~~~~L~~a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~---y~lt  101 (266)
                      -.+++|.--.++.|+..|... ++.++.||++.+++++..      +.+.|+.|...|++....      .|+   |+++
T Consensus         8 ~~fkaLadptRl~IL~~L~~~-~~~~v~ela~~l~lsqst------vS~HL~~L~~AGLV~~~r------~Gr~~~Y~l~   74 (117)
T PRK10141          8 QLFKILSDETRLGIVLLLRES-GELCVCDLCTALDQSQPK------ISRHLALLRESGLLLDRK------QGKWVHYRLS   74 (117)
T ss_pred             HHHHHhCCHHHHHHHHHHHHc-CCcCHHHHHHHHCcCHHH------HHHHHHHHHHCCceEEEE------EcCEEEEEEC
Confidence            456677777888999999753 689999999999999887      999999999999998877      344   7776


Q ss_pred             h
Q 042491          102 Q  102 (266)
Q Consensus       102 ~  102 (266)
                      +
T Consensus        75 ~   75 (117)
T PRK10141         75 P   75 (117)
T ss_pred             c
Confidence            5

>TIGR00563 rsmB ribosomal RNA small subunit methyltransferase RsmB

Probab=96.07  E-value=0.021  Score=53.37  Aligned_cols=67  Identities=16%  Similarity=0.236  Sum_probs=49.8

Q ss_pred             CCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCC-C--C--CccEEEe
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNA-V--P--NADAVFM  256 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~-~--p--~aD~~~l  256 (266)
                      .....+|+|+|||+|..+..+++..|+.+++.+|. ++.++.+++       ..++.++.+|.... .  +  .+|.|++
T Consensus       236 ~~~g~~VLDlcag~G~kt~~la~~~~~~~v~a~D~~~~~l~~~~~n~~r~g~~~~v~~~~~d~~~~~~~~~~~~fD~Vll  315 (426)
T TIGR00563       236 PQNEETILDACAAPGGKTTHILELAPQAQVVALDIHEHRLKRVYENLKRLGLTIKAETKDGDGRGPSQWAENEQFDRILL  315 (426)
T ss_pred             CCCCCeEEEeCCCccHHHHHHHHHcCCCeEEEEeCCHHHHHHHHHHHHHcCCCeEEEEeccccccccccccccccCEEEE
Confidence            34557999999999999999999998788999998 666665543       12344477887652 2  2  3999986

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.

>KOG3115 consensus Methyltransferase-like protein [General function prediction only]

Probab=96.03  E-value=0.0065  Score=50.51  Aligned_cols=57  Identities=16%  Similarity=0.336  Sum_probs=41.1

Q ss_pred             CceEEEecCCchHHHHHHHHHCCCCeEEEeec--------HHHHhhCCC------CCCeEEEEccCCCCCC
Q 042491          193 IRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL--------PHVVATAPV------YEGVSHVGGDMLNAVP  249 (266)
Q Consensus       193 ~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl--------p~v~~~a~~------~~ri~~~~gd~~~~~p  249 (266)
                      .-.++|||||-|.++..|...||+.-..++++        .+-|..++.      ..+|.++..|-+.-+|
T Consensus        61 kvefaDIGCGyGGLlv~Lsp~fPdtLiLGmEIR~KVsdYVk~RI~ALR~~~a~~~~~ni~vlr~namk~lp  131 (249)
T KOG3115|consen   61 KVEFADIGCGYGGLLMKLAPKFPDTLILGMEIRDKVSDYVKERIQALRRTSAEGQYPNISVLRTNAMKFLP  131 (249)
T ss_pred             cceEEeeccCccchhhhccccCccceeeeehhhHHHHHHHHHHHHHHhccccccccccceeeeccchhhcc
Confidence            35799999999999999999999988888887        222333321      3557777666555444

>smart00347 HTH_MARR helix_turn_helix multiple antibiotic resistance protein

Probab=96.02  E-value=0.011  Score=42.86  Aligned_cols=67  Identities=21%  Similarity=0.362  Sum_probs=51.5

Q ss_pred             hcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           35 ELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        35 elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      ++.++..|... ++.|..+||+.+++++..      +.+.++-|...|++.......+.....|.+|+.+..+.
T Consensus        12 ~~~il~~l~~~-~~~~~~~la~~~~~s~~~------i~~~l~~L~~~g~v~~~~~~~~~r~~~~~lT~~g~~~~   78 (101)
T smart00347       12 QFLVLRILYEE-GPLSVSELAKRLGVSPST------VTRVLDRLEKKGLIRRLPSPEDRRSVLVSLTEEGRELI   78 (101)
T ss_pred             HHHHHHHHHHc-CCcCHHHHHHHHCCCchh------HHHHHHHHHHCCCeEecCCCCCCCeEEEEECHhHHHHH
Confidence            55677778764 579999999999999887      99999999999999877532111224688888886544

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

Probab=95.99  E-value=0.0097  Score=56.85  Aligned_cols=54  Identities=11%  Similarity=0.199  Sum_probs=42.2

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec--HHHHhhCCC-----CCCeEEEEccCC
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL--PHVVATAPV-----YEGVSHVGGDML  245 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl--p~v~~~a~~-----~~ri~~~~gd~~  245 (266)
                      ....+||||||.|.++..+++.+|+..++++|.  +.+...++.     ..++.++.+|+.
T Consensus       347 ~~p~~lEIG~G~G~~~~~~A~~~p~~~~iGiE~~~~~~~~~~~~~~~~~l~N~~~~~~~~~  407 (506)
T PRK01544        347 KRKVFLEIGFGMGEHFINQAKMNPDALFIGVEVYLNGVANVLKLAGEQNITNFLLFPNNLD  407 (506)
T ss_pred             CCceEEEECCCchHHHHHHHHhCCCCCEEEEEeeHHHHHHHHHHHHHcCCCeEEEEcCCHH
Confidence            468999999999999999999999999999998  333332222     456777877763

>PRK14903 16S rRNA methyltransferase B; Provisional

Probab=95.98  E-value=0.014  Score=54.66  Aligned_cols=67  Identities=13%  Similarity=0.164  Sum_probs=51.4

Q ss_pred             CCCCceEEEecCCchHHHHHHHHHC-CCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCC-C--CCC-ccEEEe
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEFY-PHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLN-A--VPN-ADAVFM  256 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~~-P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~-~--~p~-aD~~~l  256 (266)
                      .....+|+|+|||+|..+..+++.. +.-+++.+|+ ++.++.+++      .++|+++.+|..+ +  .++ +|.|++
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            3456799999999999999999886 4578999998 666655543      3468999999876 2  233 999986

>KOG3420 consensus Predicted RNA methylase [Translation, ribosomal structure and biogenesis]

Probab=95.96  E-value=0.017  Score=45.63  Aligned_cols=73  Identities=22%  Similarity=0.294  Sum_probs=51.5

Q ss_pred             HHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCC-eEEEeec-HHHHhhCCC-----CCCeEEEEccCCCCCC--C-
Q 042491          181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHI-KGVNFDL-PHVVATAPV-----YEGVSHVGGDMLNAVP--N-  250 (266)
Q Consensus       181 ~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l-~~~~~Dl-p~v~~~a~~-----~~ri~~~~gd~~~~~p--~-  250 (266)
                      .+-+.|++ + ....+.|+|||.|.+.  ++-.+|.. .++++|+ |+.++..+.     .-.+.+...|+.++.+  + 
T Consensus        39 ~Ih~Tygd-i-Egkkl~DLgcgcGmLs--~a~sm~~~e~vlGfDIdpeALEIf~rNaeEfEvqidlLqcdildle~~~g~  114 (185)
T KOG3420|consen   39 TIHNTYGD-I-EGKKLKDLGCGCGMLS--IAFSMPKNESVLGFDIDPEALEIFTRNAEEFEVQIDLLQCDILDLELKGGI  114 (185)
T ss_pred             HHHhhhcc-c-cCcchhhhcCchhhhH--HHhhcCCCceEEeeecCHHHHHHHhhchHHhhhhhheeeeeccchhccCCe
Confidence            34555652 2 3489999999999998  55566665 5789999 777776654     3456888888888533  3 


Q ss_pred             ccEEEec
Q 042491          251 ADAVFMK  257 (266)
Q Consensus       251 aD~~~l~  257 (266)
                      +|..++.
T Consensus       115 fDtaviN  121 (185)
T KOG3420|consen  115 FDTAVIN  121 (185)
T ss_pred             EeeEEec
Confidence            7776654

>smart00419 HTH_CRP helix_turn_helix, cAMP Regulatory protein

Probab=95.95  E-value=0.0065  Score=38.04  Aligned_cols=42  Identities=14%  Similarity=0.257  Sum_probs=36.7

Q ss_pred             CCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCc
Q 042491           47 SPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLT  101 (266)
Q Consensus        47 ~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt  101 (266)
                      -++|..+||+.+|++...      +.+.|+.|...|++....       +.|.++
T Consensus         7 ~~~s~~~la~~l~~s~~t------v~~~l~~L~~~g~l~~~~-------~~~~i~   48 (48)
T smart00419        7 LPLTRQEIAELLGLTRET------VSRTLKRLEKEGLISREG-------GRIVIL   48 (48)
T ss_pred             eccCHHHHHHHHCCCHHH------HHHHHHHHHHCCCEEEeC-------CEEEEC
Confidence            368999999999999777      999999999999998776       677654

>PF02527 GidB: rRNA small subunit methyltransferase G; InterPro: IPR003682 This entry represents a rRNA small subunit methyltransferase G

Probab=95.91  E-value=0.038  Score=45.65  Aligned_cols=64  Identities=17%  Similarity=0.238  Sum_probs=48.2

Q ss_pred             eEEEecCCchHHHHHHHHHCCCCeEEEeec--------HHHHhhCCCCCCeEEEEccCCC-CCC-CccEEEeccc
Q 042491          195 SLVDVGGGTGEELAEIVEFYPHIKGVNFDL--------PHVVATAPVYEGVSHVGGDMLN-AVP-NADAVFMKVI  259 (266)
Q Consensus       195 ~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl--------p~v~~~a~~~~ri~~~~gd~~~-~~p-~aD~~~l~~v  259 (266)
                      +++|||.|.|.=++-++=.+|+++++++|.        ..++.... .++++++.+...+ ..+ .||+++.+-+
T Consensus        51 ~~lDiGSGaGfPGipLaI~~p~~~~~LvEs~~KK~~FL~~~~~~L~-L~nv~v~~~R~E~~~~~~~fd~v~aRAv  124 (184)
T PF02527_consen   51 KVLDIGSGAGFPGIPLAIARPDLQVTLVESVGKKVAFLKEVVRELG-LSNVEVINGRAEEPEYRESFDVVTARAV  124 (184)
T ss_dssp             EEEEETSTTTTTHHHHHHH-TTSEEEEEESSHHHHHHHHHHHHHHT--SSEEEEES-HHHTTTTT-EEEEEEESS
T ss_pred             eEEecCCCCCChhHHHHHhCCCCcEEEEeCCchHHHHHHHHHHHhC-CCCEEEEEeeecccccCCCccEEEeehh
Confidence            899999999999999999999999999997        23333222 4679999888877 344 4999987754

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.

>PF04816 DUF633: Family of unknown function (DUF633) ; InterPro: IPR006901 This is a family of uncharacterised bacterial proteins

Probab=95.90  E-value=0.012  Score=49.56  Aligned_cols=62  Identities=18%  Similarity=0.243  Sum_probs=46.6

Q ss_pred             EEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCCCC--C-ccEEEec
Q 042491          196 LVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNAVP--N-ADAVFMK  257 (266)
Q Consensus       196 vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~~p--~-aD~~~l~  257 (266)
                      |.||||-+|.+.+.|+++...-+++..|+ |.-.+.+++       .++|++.-||-++.++  + .|+++++
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            68999999999999999999999999998 444444432       6899999999998755  3 8888775

; GO: 0016429 tRNA (adenine-N1-)-methyltransferase activity; PDB: 3LEC_A 3KU1_G 3KR9_A 3GNL_B.

>PRK14901 16S rRNA methyltransferase B; Provisional

Probab=95.88  E-value=0.016  Score=54.30  Aligned_cols=67  Identities=12%  Similarity=0.091  Sum_probs=51.4

Q ss_pred             CCCCceEEEecCCchHHHHHHHHHCC-CCeEEEeec-HHHHhhCCC------CCCeEEEEccCCC-C----C-C-CccEE
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEFYP-HIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLN-A----V-P-NADAV  254 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~~P-~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~-~----~-p-~aD~~  254 (266)
                      .....+|+|+|||+|..+..+++..+ .-+++.+|. ++.++.+++      .++|+++.+|..+ +    . + .+|.|
T Consensus       250 ~~~g~~VLDl~ag~G~kt~~la~~~~~~g~v~a~D~~~~rl~~~~~n~~r~g~~~v~~~~~D~~~~~~~~~~~~~~fD~V  329 (434)
T PRK14901        250 PQPGEVILDACAAPGGKTTHIAELMGDQGEIWAVDRSASRLKKLQENAQRLGLKSIKILAADSRNLLELKPQWRGYFDRI  329 (434)
T ss_pred             CCCcCEEEEeCCCCchhHHHHHHHhCCCceEEEEcCCHHHHHHHHHHHHHcCCCeEEEEeCChhhcccccccccccCCEE
Confidence            34557999999999999999999864 468899998 666665543      3569999999876 2    1 2 39999


Q ss_pred             Ee
Q 042491          255 FM  256 (266)
Q Consensus       255 ~l  256 (266)
                      ++
T Consensus       330 l~  331 (434)
T PRK14901        330 LL  331 (434)
T ss_pred             EE
Confidence            97

>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=95.86  E-value=0.002  Score=44.10  Aligned_cols=47  Identities=19%  Similarity=0.268  Sum_probs=40.4

Q ss_pred             hcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           35 ELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        35 elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      |..|+..|-.. ++.|+.|||+.+|++...      +.+.|+-|...|++.+..
T Consensus        10 E~~vy~~Ll~~-~~~t~~eIa~~l~i~~~~------v~~~L~~L~~~GlV~~~~   56 (68)
T PF01978_consen   10 EAKVYLALLKN-GPATAEEIAEELGISRST------VYRALKSLEEKGLVEREE   56 (68)
T ss_dssp             HHHHHHHHHHH-CHEEHHHHHHHHTSSHHH------HHHHHHHHHHTTSEEEEE
T ss_pred             HHHHHHHHHHc-CCCCHHHHHHHHCcCHHH------HHHHHHHHHHCCCEEEEc
Confidence            45566666443 799999999999999877      999999999999999987

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.

>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=95.85  E-value=0.017  Score=38.84  Aligned_cols=44  Identities=16%  Similarity=0.324  Sum_probs=39.3

Q ss_pred             CCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCch
Q 042491           47 SPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQ  102 (266)
Q Consensus        47 ~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~  102 (266)
                      .++|..|||+.+|++...      +.+.++.|...|++....      .+.|.++|
T Consensus        24 ~~~s~~ela~~~g~s~~t------v~r~l~~L~~~g~i~~~~------~~~~~l~~   67 (67)
T cd00092          24 LPLTRQEIADYLGLTRET------VSRTLKELEEEGLISRRG------RGKYRVNP   67 (67)
T ss_pred             CCcCHHHHHHHHCCCHHH------HHHHHHHHHHCCCEEecC------CCeEEeCC
Confidence            689999999999999877      999999999999999876      37888765

>PF14947 HTH_45: Winged helix-turn-helix; PDB: 1XSX_B 1R7J_A

Probab=95.84  E-value=0.0066  Score=42.73  Aligned_cols=55  Identities=18%  Similarity=0.247  Sum_probs=41.2

Q ss_pred             hhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhh
Q 042491           38 LADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWL  107 (266)
Q Consensus        38 lfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l  107 (266)
                      |...+..  ++.+..+|+..++++...      +.+.|..|...|++...+       +.|.+|+.|.-+
T Consensus        11 IL~~l~~--~~~~~t~i~~~~~L~~~~------~~~yL~~L~~~gLI~~~~-------~~Y~lTekG~~~   65 (77)
T PF14947_consen   11 ILKILSK--GGAKKTEIMYKANLNYST------LKKYLKELEEKGLIKKKD-------GKYRLTEKGKEF   65 (77)
T ss_dssp             HHHHH-T--T-B-HHHHHTTST--HHH------HHHHHHHHHHTTSEEEET-------TEEEE-HHHHHH
T ss_pred             HHHHHHc--CCCCHHHHHHHhCcCHHH------HHHHHHHHHHCcCeeCCC-------CEEEECccHHHH
Confidence            3444543  789999999999999877      999999999999997754       999999999643

>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=95.84  E-value=0.0028  Score=40.12  Aligned_cols=43  Identities=21%  Similarity=0.421  Sum_probs=37.6

Q ss_pred             hcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCccc
Q 042491           35 ELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFA   85 (266)
Q Consensus        35 elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~   85 (266)
                      ++.|...|..  ++.++.||++.+|+++..      +.+.|+.|...|++.
T Consensus         4 R~~Il~~L~~--~~~~~~el~~~l~~s~~~------vs~hL~~L~~~glV~   46 (47)
T PF01022_consen    4 RLRILKLLSE--GPLTVSELAEELGLSQST------VSHHLKKLREAGLVE   46 (47)
T ss_dssp             HHHHHHHHTT--SSEEHHHHHHHHTS-HHH------HHHHHHHHHHTTSEE
T ss_pred             HHHHHHHHHh--CCCchhhHHHhccccchH------HHHHHHHHHHCcCee
Confidence            4567788887  899999999999999877      999999999999986

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 ....

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

Probab=95.81  E-value=0.019  Score=51.89  Aligned_cols=65  Identities=31%  Similarity=0.509  Sum_probs=52.7

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCC-eEEEeec-HHHHhhCCC-------------CCCeEEEEccCCCCCC----Cc
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHI-KGVNFDL-PHVVATAPV-------------YEGVSHVGGDMLNAVP----NA  251 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l-~~~~~Dl-p~v~~~a~~-------------~~ri~~~~gd~~~~~p----~a  251 (266)
                      .+..+++-+|||.|-.++++++ ||.. +.+..|+ |+||+.++.             ++|++++.-|-|+-+.    .+
T Consensus       288 ~~a~~vLvlGGGDGLAlRellk-yP~~~qI~lVdLDP~miela~~~~vlr~~N~~sf~dpRv~Vv~dDAf~wlr~a~~~f  366 (508)
T COG4262         288 RGARSVLVLGGGDGLALRELLK-YPQVEQITLVDLDPRMIELASHATVLRALNQGSFSDPRVTVVNDDAFQWLRTAADMF  366 (508)
T ss_pred             cccceEEEEcCCchHHHHHHHh-CCCcceEEEEecCHHHHHHhhhhhHhhhhccCCccCCeeEEEeccHHHHHHhhcccc
Confidence            4778999999999999999876 6865 7888999 999998772             6899999999888432    27


Q ss_pred             cEEEe
Q 042491          252 DAVFM  256 (266)
Q Consensus       252 D~~~l  256 (266)
                      |.++.
T Consensus       367 D~vIV  371 (508)
T COG4262         367 DVVIV  371 (508)
T ss_pred             cEEEE
Confidence            77654

>PF01170 UPF0020: Putative RNA methylase family UPF0020; InterPro: IPR000241 This domain is probably a methylase

Probab=95.79  E-value=0.02  Score=47.00  Aligned_cols=67  Identities=21%  Similarity=0.233  Sum_probs=48.5

Q ss_pred             CCCCceEEEecCCchHHHHHHHHHCCCCe---------EEEeec-HHHHhhCCC-------CCCeEEEEccCCC-CCC-C
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEFYPHIK---------GVNFDL-PHVVATAPV-------YEGVSHVGGDMLN-AVP-N  250 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~~P~l~---------~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~-~~p-~  250 (266)
                      +.+...|+|-=||+|+++++.+...++..         +++.|. +++++.++.       ...|.+..+|+.+ +++ +
T Consensus        26 ~~~~~~vlDP~CGsGtiliEaa~~~~~~~~~~~~~~~~~~g~Di~~~~v~~a~~N~~~ag~~~~i~~~~~D~~~l~~~~~  105 (179)
T PF01170_consen   26 WRPGDVVLDPFCGSGTILIEAALMGANIPPLNDINELKIIGSDIDPKAVRGARENLKAAGVEDYIDFIQWDARELPLPDG  105 (179)
T ss_dssp             --TTS-EEETT-TTSHHHHHHHHHHTTTSTTTH-CH--EEEEESSHHHHHHHHHHHHHTT-CGGEEEEE--GGGGGGTTS
T ss_pred             CCCCCEEeecCCCCCHHHHHHHHHhhCcccccccccccEEecCCCHHHHHHHHHHHHhcccCCceEEEecchhhcccccC
Confidence            55678999999999999999888888877         889998 666665543       5678999999998 533 3


Q ss_pred             -ccEEEe
Q 042491          251 -ADAVFM  256 (266)
Q Consensus       251 -aD~~~l  256 (266)
                       .|+++.
T Consensus       106 ~~d~Ivt  112 (179)
T PF01170_consen  106 SVDAIVT  112 (179)
T ss_dssp             BSCEEEE
T ss_pred             CCCEEEE
Confidence             788775

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.

>PF03141 Methyltransf_29: Putative S-adenosyl-L-methionine-dependent methyltransferase; InterPro: IPR004159 Members of this family of hypothetical plant proteins are putative methyltransferases

Probab=95.79  E-value=0.0089  Score=56.04  Aligned_cols=72  Identities=25%  Similarity=0.258  Sum_probs=46.2

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec----HHHHhhCCCCCCeEEEEccCCC---CCCC--ccEEEeccccc
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL----PHVVATAPVYEGVSHVGGDMLN---AVPN--ADAVFMKVIVL  261 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl----p~v~~~a~~~~ri~~~~gd~~~---~~p~--aD~~~l~~vLH  261 (266)
                      ...+++||||||.|.++..|+++.  +..+-+-.    +.-+.-+.+ ..|-.+-+-+-+   |+|.  +|++.+++++.
T Consensus       116 g~iR~~LDvGcG~aSF~a~l~~r~--V~t~s~a~~d~~~~qvqfale-RGvpa~~~~~~s~rLPfp~~~fDmvHcsrc~i  192 (506)
T PF03141_consen  116 GGIRTALDVGCGVASFGAYLLERN--VTTMSFAPNDEHEAQVQFALE-RGVPAMIGVLGSQRLPFPSNAFDMVHCSRCLI  192 (506)
T ss_pred             CceEEEEeccceeehhHHHHhhCC--ceEEEcccccCCchhhhhhhh-cCcchhhhhhccccccCCccchhhhhcccccc
Confidence            457899999999999999999984  33322222    111222211 224333344422   6774  99999999999


Q ss_pred             cCCC
Q 042491          262 IQDL  265 (266)
Q Consensus       262 d~~~  265 (266)
                      .|..
T Consensus       193 ~W~~  196 (506)
T PF03141_consen  193 PWHP  196 (506)
T ss_pred             cchh
Confidence            9975

; GO: 0008168 methyltransferase activity

>TIGR00446 nop2p NOL1/NOP2/sun family putative RNA methylase

Probab=95.75  E-value=0.039  Score=48.17  Aligned_cols=66  Identities=17%  Similarity=0.154  Sum_probs=49.9

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCC-CeEEEeec-HHHHhhCCC------CCCeEEEEccCCC-C--CCCccEEEe
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPH-IKGVNFDL-PHVVATAPV------YEGVSHVGGDMLN-A--VPNADAVFM  256 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~-l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~-~--~p~aD~~~l  256 (266)
                      ....+|+|+|||+|..+..+++..++ -+++.+|. +..++.+++      ..+|+++.+|... +  .+.+|+|++
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            35579999999999999999998754 57899998 666654443      3568899898654 2  235999986

>PF09243 Rsm22: Mitochondrial small ribosomal subunit Rsm22; InterPro: IPR015324 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=95.75  E-value=0.028  Score=49.43  Aligned_cols=73  Identities=21%  Similarity=0.258  Sum_probs=48.9

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCC-eEEEeec-HHHHhhCCC----CCCe--EEEEccCCC---CCCCccEEEecccc
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHI-KGVNFDL-PHVVATAPV----YEGV--SHVGGDMLN---AVPNADAVFMKVIV  260 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l-~~~~~Dl-p~v~~~a~~----~~ri--~~~~gd~~~---~~p~aD~~~l~~vL  260 (266)
                      .+++|||+|+|.|+.+-++...+|++ +++.+|. +.+.+.++.    ....  .....++..   +++..|+++++++|
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            45799999999999999999999965 4778887 555554332    1111  111122222   35567999999998


Q ss_pred             ccCC
Q 042491          261 LIQD  264 (266)
Q Consensus       261 Hd~~  264 (266)
                      -.-+
T Consensus       113 ~EL~  116 (274)
T PF09243_consen  113 NELP  116 (274)
T ss_pred             hcCC
Confidence            7643

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

>PF07091 FmrO: Ribosomal RNA methyltransferase (FmrO); PDB: 3LCU_A 3LCV_B 3FRH_A 3FRI_A 3B89_A 3FZG_A

Probab=95.70  E-value=0.0072  Score=51.95  Aligned_cols=71  Identities=17%  Similarity=0.158  Sum_probs=53.1

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-----CCCeEEEEccCCCCCCC--ccEEEecccccc
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-----YEGVSHVGGDMLNAVPN--ADAVFMKVIVLI  262 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-----~~ri~~~~gd~~~~~p~--aD~~~l~~vLHd  262 (266)
                      .+.+|+|||||-=-++.-.....|+.+.+..|+ .+.++..+.     ..+.+....|.....|.  +|+.++-.++|.
T Consensus       105 ~p~sVlDigCGlNPlalp~~~~~~~a~Y~a~DID~~~ve~l~~~l~~l~~~~~~~v~Dl~~~~~~~~~DlaLllK~lp~  183 (251)
T PF07091_consen  105 PPDSVLDIGCGLNPLALPWMPEAPGATYIAYDIDSQLVEFLNAFLAVLGVPHDARVRDLLSDPPKEPADLALLLKTLPC  183 (251)
T ss_dssp             --SEEEEET-TTCHHHHHTTTSSTT-EEEEEESBHHHHHHHHHHHHHTT-CEEEEEE-TTTSHTTSEESEEEEET-HHH
T ss_pred             CCchhhhhhccCCceehhhcccCCCcEEEEEeCCHHHHHHHHHHHHhhCCCcceeEeeeeccCCCCCcchhhHHHHHHH
Confidence            479999999999999999999999999999999 555554443     56778888899997653  999999988874

>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=95.64  E-value=0.006  Score=38.60  Aligned_cols=45  Identities=20%  Similarity=0.336  Sum_probs=37.0

Q ss_pred             HhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCccc
Q 042491           34 VELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFA   85 (266)
Q Consensus        34 ~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~   85 (266)
                      .+..|+..|.++ +.+|..|||+.+|++...      +.+.++-|...|+++
T Consensus         4 ~~~~Il~~l~~~-~~~t~~ela~~~~is~~t------v~~~l~~L~~~g~I~   48 (48)
T PF13412_consen    4 TQRKILNYLREN-PRITQKELAEKLGISRST------VNRYLKKLEEKGLIE   48 (48)
T ss_dssp             HHHHHHHHHHHC-TTS-HHHHHHHHTS-HHH------HHHHHHHHHHTTSEE
T ss_pred             HHHHHHHHHHHc-CCCCHHHHHHHhCCCHHH------HHHHHHHHHHCcCcC
Confidence            356788889885 679999999999999766      999999999999874

...

>PRK11512 DNA-binding transcriptional repressor MarR; Provisional

Probab=95.63  E-value=0.08  Score=41.68  Aligned_cols=66  Identities=20%  Similarity=0.236  Sum_probs=51.1

Q ss_pred             cChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           36 LRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        36 lglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      +.|+-.|... +++|..|||+.+++++..      +.++++-|...|++.+....++...-.+.+|+.++.+.
T Consensus        43 ~~vL~~l~~~-~~~t~~eLa~~l~i~~~t------vsr~l~~Le~~GlI~R~~~~~DrR~~~l~LT~~G~~~~  108 (144)
T PRK11512         43 FKVLCSIRCA-ACITPVELKKVLSVDLGA------LTRMLDRLVCKGWVERLPNPNDKRGVLVKLTTSGAAIC  108 (144)
T ss_pred             HHHHHHHHHc-CCCCHHHHHHHHCCCHHH------HHHHHHHHHHCCCEEeccCcccCCeeEeEEChhHHHHH
Confidence            4456677653 689999999999999887      99999999999999987632212234578899887554

>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=95.55  E-value=0.022  Score=42.54  Aligned_cols=32  Identities=22%  Similarity=0.286  Sum_probs=26.4

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL  224 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl  224 (266)
                      .....+||||||.|.+.--|.++  .-+|.++|.
T Consensus        57 ~~~~~FVDlGCGNGLLV~IL~~E--Gy~G~GiD~   88 (112)
T PF07757_consen   57 QKFQGFVDLGCGNGLLVYILNSE--GYPGWGIDA   88 (112)
T ss_pred             CCCCceEEccCCchHHHHHHHhC--CCCcccccc
Confidence            46789999999999998877776  456888886

; GO: 0008168 methyltransferase activity

>COG2519 GCD14 tRNA(1-methyladenosine) methyltransferase and related methyltransferases [Translation, ribosomal structure and biogenesis]

Probab=95.47  E-value=0.077  Score=45.72  Aligned_cols=73  Identities=19%  Similarity=0.282  Sum_probs=56.9

Q ss_pred             HHhhcccCCCCCceEEEecCCchHHHHHHHH-HCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCC-CC-C
Q 042491          182 LLSHYKDGFDGIRSLVDVGGGTGEELAEIVE-FYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNA-VP-N  250 (266)
Q Consensus       182 ~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~-~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~-~p-~  250 (266)
                      ++....  .....+|+|.|-|+|.++..|+. -.|.=+++.+|. ++-.+.|.+       .++|++..+|+.+. .+ .
T Consensus        86 I~~~~g--i~pg~rVlEAGtGSG~lt~~La~~vg~~G~v~tyE~r~d~~k~A~~Nl~~~~l~d~v~~~~~Dv~~~~~~~~  163 (256)
T COG2519          86 IVARLG--ISPGSRVLEAGTGSGALTAYLARAVGPEGHVTTYEIREDFAKTARENLSEFGLGDRVTLKLGDVREGIDEED  163 (256)
T ss_pred             HHHHcC--CCCCCEEEEcccCchHHHHHHHHhhCCCceEEEEEecHHHHHHHHHHHHHhccccceEEEeccccccccccc
Confidence            444444  67789999999999999999997 557789999997 555555443       67799999999994 44 4


Q ss_pred             ccEEEe
Q 042491          251 ADAVFM  256 (266)
Q Consensus       251 aD~~~l  256 (266)
                      +|+++|
T Consensus       164 vDav~L  169 (256)
T COG2519         164 VDAVFL  169 (256)
T ss_pred             cCEEEE
Confidence            998886

>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=95.46  E-value=0.034  Score=46.63  Aligned_cols=94  Identities=12%  Similarity=0.152  Sum_probs=47.6

Q ss_pred             hhcccCchHHHHHHHHHH----hhhHHHHHHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeecHHHHhh
Q 042491          155 DFASQNSQFNNSFNKAMA----CTAKIVMSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVAT  230 (266)
Q Consensus       155 ~~~~~~~~~~~~f~~~m~----~~~~~~~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~  230 (266)
                      +.+.++|+.-..|+++-+    .+-......+++.+. ..+....|.|.|||.+.++..+.+   ..++.-||+-..   
T Consensus        32 ~lf~~dP~~F~~YH~Gfr~Qv~~WP~nPvd~iI~~l~-~~~~~~viaD~GCGdA~la~~~~~---~~~V~SfDLva~---  104 (219)
T PF05148_consen   32 KLFQEDPELFDIYHEGFRQQVKKWPVNPVDVIIEWLK-KRPKSLVIADFGCGDAKLAKAVPN---KHKVHSFDLVAP---  104 (219)
T ss_dssp             HHHHH-HHHHHHHHHHHHHHHCTSSS-HHHHHHHHHC-TS-TTS-EEEES-TT-HHHHH--S------EEEEESS-S---
T ss_pred             HHHHhCHHHHHHHHHHHHHHHhcCCCCcHHHHHHHHH-hcCCCEEEEECCCchHHHHHhccc---CceEEEeeccCC---
Confidence            444556655444444433    222223444555554 134567999999999999966532   257888998442   


Q ss_pred             CCCCCCeEEEEccCCC-CCCC--ccEEEecccc
Q 042491          231 APVYEGVSHVGGDMLN-AVPN--ADAVFMKVIV  260 (266)
Q Consensus       231 a~~~~ri~~~~gd~~~-~~p~--aD~~~l~~vL  260 (266)
                         .+  .+.+.|+-. |++.  .|+++++--|
T Consensus       105 ---n~--~Vtacdia~vPL~~~svDv~VfcLSL  132 (219)
T PF05148_consen  105 ---NP--RVTACDIANVPLEDESVDVAVFCLSL  132 (219)
T ss_dssp             ---ST--TEEES-TTS-S--TT-EEEEEEES--
T ss_pred             ---CC--CEEEecCccCcCCCCceeEEEEEhhh
Confidence               22  467789976 7663  8988887554

; GO: 0008168 methyltransferase activity; PDB: 2ZFU_B.

>KOG1661 consensus Protein-L-isoaspartate(D-aspartate) O-methyltransferase [Posttranslational modification, protein turnover, chaperones]

Probab=95.39  E-value=0.037  Score=46.33  Aligned_cols=76  Identities=22%  Similarity=0.201  Sum_probs=52.7

Q ss_pred             HHhhcccCCCCCceEEEecCCchHHHHHHHHHC--CCCeEEEeec-HHHHhhCCC----------------CCCeEEEEc
Q 042491          182 LLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFY--PHIKGVNFDL-PHVVATAPV----------------YEGVSHVGG  242 (266)
Q Consensus       182 ~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~--P~l~~~~~Dl-p~v~~~a~~----------------~~ri~~~~g  242 (266)
                      +++.++..+....++||||+|+|.+...+..-.  |....+++|+ |++++.+.+                ..+++++.|
T Consensus        72 ~le~L~~~L~pG~s~LdvGsGSGYLt~~~~~mvg~~g~~~~GIEh~~eLVe~Sk~nl~k~i~~~e~~~~~~~~~l~ivvG  151 (237)
T KOG1661|consen   72 ALEYLDDHLQPGASFLDVGSGSGYLTACFARMVGATGGNVHGIEHIPELVEYSKKNLDKDITTSESSSKLKRGELSIVVG  151 (237)
T ss_pred             HHHHHHHhhccCcceeecCCCccHHHHHHHHHhcCCCccccchhhhHHHHHHHHHHHHhhccCchhhhhhccCceEEEeC
Confidence            344444345567899999999999987776443  3333477786 777765442                467899999


Q ss_pred             cCCCCCC---CccEEEec
Q 042491          243 DMLNAVP---NADAVFMK  257 (266)
Q Consensus       243 d~~~~~p---~aD~~~l~  257 (266)
                      |-.+-.+   .||.|+.-
T Consensus       152 Dgr~g~~e~a~YDaIhvG  169 (237)
T KOG1661|consen  152 DGRKGYAEQAPYDAIHVG  169 (237)
T ss_pred             CccccCCccCCcceEEEc
Confidence            9887333   48988763

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

Probab=95.31  E-value=0.0057  Score=43.43  Aligned_cols=65  Identities=18%  Similarity=0.348  Sum_probs=48.6

Q ss_pred             HhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCC-ceEeCchhch
Q 042491           34 VELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEE-TMYGLTQISK  105 (266)
Q Consensus        34 ~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~-~~y~lt~~s~  105 (266)
                      ++++|...|... +.+++.+|.+.+|++...      +.+.|+.|...|+++....-.+..+ -.|++|+.++
T Consensus         1 vRl~Il~~L~~~-~~~~f~~L~~~l~lt~g~------Ls~hL~~Le~~GyV~~~k~~~~~~p~t~~~lT~~Gr   66 (80)
T PF13601_consen    1 VRLAILALLYAN-EEATFSELKEELGLTDGN------LSKHLKKLEEAGYVEVEKEFEGRRPRTWYSLTDKGR   66 (80)
T ss_dssp             HHHHHHHHHHHH-SEEEHHHHHHHTT--HHH------HHHHHHHHHHTTSEEEEEE-SSS--EEEEEE-HHHH
T ss_pred             CHHHHHHHHhhc-CCCCHHHHHHHhCcCHHH------HHHHHHHHHHCCCEEEEEeccCCCCeEEEEECHHHH
Confidence            467788888764 789999999999999877      9999999999999988764322222 2499999986

>COG4122 Predicted O-methyltransferase [General function prediction only]

Probab=95.27  E-value=0.038  Score=46.84  Aligned_cols=67  Identities=16%  Similarity=0.249  Sum_probs=54.6

Q ss_pred             CCCCceEEEecCCchHHHHHHHHHCC-CCeEEEeec-HHHHhhCCC-------CCCeEEEE-ccCCC---C-C-CCccEE
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEFYP-HIKGVNFDL-PHVVATAPV-------YEGVSHVG-GDMLN---A-V-PNADAV  254 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~~P-~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~-gd~~~---~-~-p~aD~~  254 (266)
                      .++.+++|+||.+.|.-+..++..-| +-+.|-+|+ |+.++.|++       .+||+++. ||-.+   . . +.+|++
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            45889999999999999999999999 788899998 666766664       67899988 57665   2 2 349998


Q ss_pred             Ee
Q 042491          255 FM  256 (266)
Q Consensus       255 ~l  256 (266)
                      ++
T Consensus       137 FI  138 (219)
T COG4122         137 FI  138 (219)
T ss_pred             EE
Confidence            86

>COG3963 Phospholipid N-methyltransferase [Lipid metabolism]

Probab=95.21  E-value=0.068  Score=43.25  Aligned_cols=83  Identities=19%  Similarity=0.234  Sum_probs=61.2

Q ss_pred             HHHHHHHHhhcccCCCCCceEEEecCCchHHHHHHHHHC-CCCeEEEeec-HHHHhhCCC-CCCeEEEEccCCC-C----
Q 042491          176 KIVMSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFY-PHIKGVNFDL-PHVVATAPV-YEGVSHVGGDMLN-A----  247 (266)
Q Consensus       176 ~~~~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~-P~l~~~~~Dl-p~v~~~a~~-~~ri~~~~gd~~~-~----  247 (266)
                      ...+..+...++  +++..-|+++|.|+|.+-++++++- +.-..+.++. |+-.....+ -+.++++.||-+. .    
T Consensus        34 s~lA~~M~s~I~--pesglpVlElGPGTGV~TkaIL~~gv~~~~L~~iE~~~dF~~~L~~~~p~~~ii~gda~~l~~~l~  111 (194)
T COG3963          34 SILARKMASVID--PESGLPVLELGPGTGVITKAILSRGVRPESLTAIEYSPDFVCHLNQLYPGVNIINGDAFDLRTTLG  111 (194)
T ss_pred             HHHHHHHHhccC--cccCCeeEEEcCCccHhHHHHHhcCCCccceEEEEeCHHHHHHHHHhCCCccccccchhhHHHHHh
Confidence            344566677778  8888999999999999999988875 5566777775 666665554 6777899999876 2    


Q ss_pred             -CC--CccEEEecccc
Q 042491          248 -VP--NADAVFMKVIV  260 (266)
Q Consensus       248 -~p--~aD~~~l~~vL  260 (266)
                       .+  .+|+++..-=|
T Consensus       112 e~~gq~~D~viS~lPl  127 (194)
T COG3963         112 EHKGQFFDSVISGLPL  127 (194)
T ss_pred             hcCCCeeeeEEecccc
Confidence             33  39998875433

>COG0357 GidB Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]

Probab=95.17  E-value=0.052  Score=45.88  Aligned_cols=65  Identities=20%  Similarity=0.244  Sum_probs=50.2

Q ss_pred             CceEEEecCCchHHHHHHHHHCCCCeEEEeec--------HHHHhhCCCCCCeEEEEccCCCC--CCC-ccEEEecc
Q 042491          193 IRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL--------PHVVATAPVYEGVSHVGGDMLNA--VPN-ADAVFMKV  258 (266)
Q Consensus       193 ~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl--------p~v~~~a~~~~ri~~~~gd~~~~--~p~-aD~~~l~~  258 (266)
                      ..+++|||.|.|.=+.-++=.+|+++++++|.        ..++.... .++++++.+-..+-  .+. +|++..+-
T Consensus        68 ~~~~~DIGSGaGfPGipLAI~~p~~~vtLles~~Kk~~FL~~~~~eL~-L~nv~i~~~RaE~~~~~~~~~D~vtsRA  143 (215)
T COG0357          68 AKRVLDIGSGAGFPGIPLAIAFPDLKVTLLESLGKKIAFLREVKKELG-LENVEIVHGRAEEFGQEKKQYDVVTSRA  143 (215)
T ss_pred             CCEEEEeCCCCCCchhhHHHhccCCcEEEEccCchHHHHHHHHHHHhC-CCCeEEehhhHhhcccccccCcEEEeeh
Confidence            58999999999999999999999999999997        22222222 57788888876662  234 99988764

>PRK04338 N(2),N(2)-dimethylguanosine tRNA methyltransferase; Provisional

Probab=95.15  E-value=0.032  Score=51.45  Aligned_cols=64  Identities=17%  Similarity=0.003  Sum_probs=49.7

Q ss_pred             CceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCCC---CCCccEEEe
Q 042491          193 IRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLNA---VPNADAVFM  256 (266)
Q Consensus       193 ~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~~---~p~aD~~~l  256 (266)
                      ..+|+|++||+|.++..++++.+..+++..|. |..++.+++      .+.+++..+|..+-   .+.+|++.+
T Consensus        58 ~~~vLDl~aGsG~~~l~~a~~~~~~~V~a~Din~~Av~~a~~N~~~N~~~~~~v~~~Da~~~l~~~~~fD~V~l  131 (382)
T PRK04338         58 RESVLDALSASGIRGIRYALETGVEKVTLNDINPDAVELIKKNLELNGLENEKVFNKDANALLHEERKFDVVDI  131 (382)
T ss_pred             CCEEEECCCcccHHHHHHHHHCCCCEEEEEeCCHHHHHHHHHHHHHhCCCceEEEhhhHHHHHhhcCCCCEEEE
Confidence            35899999999999999999988668999998 777766553      34567888887652   234898876

>PRK11783 rlmL 23S rRNA m(2)G2445 methyltransferase; Provisional

Probab=95.14  E-value=0.071  Score=53.07  Aligned_cols=77  Identities=22%  Similarity=0.230  Sum_probs=54.3

Q ss_pred             HHHHHhhcccCC-CCCceEEEecCCchHHHHHHHHHC----C--------------------------------------
Q 042491          179 MSTLLSHYKDGF-DGIRSLVDVGGGTGEELAEIVEFY----P--------------------------------------  215 (266)
Q Consensus       179 ~~~~~~~~~~~~-~~~~~vvDvGgG~G~~~~~l~~~~----P--------------------------------------  215 (266)
                      +..++....  | .+...++|.+||+|+++++.+...    |                                      
T Consensus       178 Aaa~l~~a~--w~~~~~~l~DP~CGSGTilIEAa~~~~~~~pg~~r~~f~f~~~~~~~~~~w~~~~~~a~~~~~~~~~~~  255 (702)
T PRK11783        178 AAAILLRSG--WPQEGTPLLDPMCGSGTLLIEAAMMAADIAPGLHRERWGFSGWLGHDEALWQELLEEAQERARAGLAEL  255 (702)
T ss_pred             HHHHHHHcC--CCCCCCeEEccCCCccHHHHHHHHHHhcCCCCccccccccccCCCCCHHHHHHHHHHHHHHHhhccccc
Confidence            334444444  5 456899999999999999876531    1                                      


Q ss_pred             CCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCC-CCC----CccEEEec
Q 042491          216 HIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLN-AVP----NADAVFMK  257 (266)
Q Consensus       216 ~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~-~~p----~aD~~~l~  257 (266)
                      ..+++++|+ |.+++.++.       .++|.+..+|+.+ +.|    .+|+++..
T Consensus       256 ~~~i~G~Did~~av~~A~~N~~~~g~~~~i~~~~~D~~~~~~~~~~~~~d~IvtN  310 (702)
T PRK11783        256 PSKFYGSDIDPRVIQAARKNARRAGVAELITFEVKDVADLKNPLPKGPTGLVISN  310 (702)
T ss_pred             CceEEEEECCHHHHHHHHHHHHHcCCCcceEEEeCChhhcccccccCCCCEEEEC
Confidence            236789997 777776654       5679999999988 332    28887654

>PLN02589 caffeoyl-CoA O-methyltransferase

Probab=95.12  E-value=0.036  Score=47.98  Aligned_cols=67  Identities=16%  Similarity=0.160  Sum_probs=52.6

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCC-CCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCC---C-------CCc
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYP-HIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNA---V-------PNA  251 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P-~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~---~-------p~a  251 (266)
                      .+.+++|+||.+.|.-+..+++..| +.+++-+|. |+..+.|++       .++|+++.||..+-   +       ..+
T Consensus        78 ~~ak~iLEiGT~~GySal~la~al~~~g~v~tiE~~~~~~~~Ar~~~~~ag~~~~I~~~~G~a~e~L~~l~~~~~~~~~f  157 (247)
T PLN02589         78 INAKNTMEIGVYTGYSLLATALALPEDGKILAMDINRENYELGLPVIQKAGVAHKIDFREGPALPVLDQMIEDGKYHGTF  157 (247)
T ss_pred             hCCCEEEEEeChhhHHHHHHHhhCCCCCEEEEEeCCHHHHHHHHHHHHHCCCCCceEEEeccHHHHHHHHHhccccCCcc
Confidence            4678999999999999999998875 678899998 555555543       68999999998762   1       248


Q ss_pred             cEEEec
Q 042491          252 DAVFMK  257 (266)
Q Consensus       252 D~~~l~  257 (266)
                      |++++=
T Consensus       158 D~iFiD  163 (247)
T PLN02589        158 DFIFVD  163 (247)
T ss_pred             cEEEec
Confidence            988763

>PHA00738 putative HTH transcription regulator

Probab=95.07  E-value=0.022  Score=42.41  Aligned_cols=48  Identities=8%  Similarity=0.202  Sum_probs=42.7

Q ss_pred             HhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           34 VELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        34 ~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      .++.|++.|.. +++.++.+|++.+++++..      +.+.|+.|...|++....
T Consensus        13 tRr~IL~lL~~-~e~~~V~eLae~l~lSQpt------VS~HLKvLreAGLV~srK   60 (108)
T PHA00738         13 LRRKILELIAE-NYILSASLISHTLLLSYTT------VLRHLKILNEQGYIELYK   60 (108)
T ss_pred             HHHHHHHHHHH-cCCccHHHHHHhhCCCHHH------HHHHHHHHHHCCceEEEE
Confidence            46778888986 3579999999999999887      999999999999999887

>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=95.04  E-value=0.013  Score=41.84  Aligned_cols=47  Identities=21%  Similarity=0.374  Sum_probs=37.6

Q ss_pred             CCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchh
Q 042491           47 SPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQI  103 (266)
Q Consensus        47 ~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~  103 (266)
                      ++.|.+|||+++++++..      +.+++..|...|+++....    ..|.|.++.-
T Consensus        24 ~~~s~~eiA~~~~i~~~~------l~kil~~L~~~Gli~s~~G----~~GGy~L~~~   70 (83)
T PF02082_consen   24 KPVSSKEIAERLGISPSY------LRKILQKLKKAGLIESSRG----RGGGYRLARP   70 (83)
T ss_dssp             C-BEHHHHHHHHTS-HHH------HHHHHHHHHHTTSEEEETS----TTSEEEESS-
T ss_pred             CCCCHHHHHHHHCcCHHH------HHHHHHHHhhCCeeEecCC----CCCceeecCC
Confidence            469999999999999866      9999999999999987762    1378888764

(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.

>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=95.02  E-value=0.044  Score=37.38  Aligned_cols=61  Identities=16%  Similarity=0.154  Sum_probs=46.2

Q ss_pred             hhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhch
Q 042491           38 LADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISK  105 (266)
Q Consensus        38 lfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~  105 (266)
                      |+++|.++++|++..+|++.+...... .-.+.+.|.|++|...|+..+.+      .+.+.+|+.+.
T Consensus         3 IL~~L~~~~~P~g~~~l~~~L~~~g~~-~se~avRrrLr~me~~Glt~~~g------~~G~~iT~~G~   63 (66)
T PF08461_consen    3 ILRILAESDKPLGRKQLAEELKLRGEE-LSEEAVRRRLRAMERDGLTRKVG------RQGRIITEKGL   63 (66)
T ss_pred             HHHHHHHcCCCCCHHHHHHHHHhcChh-hhHHHHHHHHHHHHHCCCccccC------CcccccCHHHH
Confidence            567888877999999999999754221 01255999999999999877665      45667888764

>PRK03902 manganese transport transcriptional regulator; Provisional

Probab=95.01  E-value=0.036  Score=43.66  Aligned_cols=51  Identities=12%  Similarity=0.089  Sum_probs=44.1

Q ss_pred             CCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           46 GSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        46 g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      +++.+..+||+.+++++..      +.+.++.|...|++....      .+.|++|+.++.+.
T Consensus        20 ~~~~~~~ela~~l~vs~~s------vs~~l~~L~~~Gli~~~~------~~~i~LT~~G~~~a   70 (142)
T PRK03902         20 KGYARVSDIAEALSVHPSS------VTKMVQKLDKDEYLIYEK------YRGLVLTPKGKKIG   70 (142)
T ss_pred             CCCcCHHHHHHHhCCChhH------HHHHHHHHHHCCCEEEec------CceEEECHHHHHHH
Confidence            4788999999999999877      999999999999998655      37899999986543

>PRK03573 transcriptional regulator SlyA; Provisional

Probab=94.98  E-value=0.049  Score=42.83  Aligned_cols=65  Identities=22%  Similarity=0.239  Sum_probs=50.1

Q ss_pred             hhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           38 LADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        38 lfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      ++..|...+++.|..|||+.+++++..      +.++++-|...|++.+....++...-.+.+|+.++.+.
T Consensus        36 vL~~l~~~~~~~t~~eLa~~l~~~~~t------vt~~v~~Le~~GlV~r~~~~~DrR~~~l~LT~~G~~~~  100 (144)
T PRK03573         36 TLHNIHQLPPEQSQIQLAKAIGIEQPS------LVRTLDQLEEKGLISRQTCASDRRAKRIKLTEKAEPLI  100 (144)
T ss_pred             HHHHHHHcCCCCCHHHHHHHhCCChhh------HHHHHHHHHHCCCEeeecCCCCcCeeeeEEChHHHHHH
Confidence            566665433568999999999999888      99999999999999988632222234688999887654

>KOG2361 consensus Predicted methyltransferase [General function prediction only]

Probab=94.88  E-value=0.02  Score=48.89  Aligned_cols=68  Identities=16%  Similarity=0.305  Sum_probs=53.4

Q ss_pred             ceEEEecCCchHHHHHHHHHCCC--CeEEEeec-HHHHhhCCC-----CCCeEEEEccCCCC-----CC-C-ccEEEecc
Q 042491          194 RSLVDVGGGTGEELAEIVEFYPH--IKGVNFDL-PHVVATAPV-----YEGVSHVGGDMLNA-----VP-N-ADAVFMKV  258 (266)
Q Consensus       194 ~~vvDvGgG~G~~~~~l~~~~P~--l~~~~~Dl-p~v~~~a~~-----~~ri~~~~gd~~~~-----~p-~-aD~~~l~~  258 (266)
                      .+|++||||.|...--|++.+|+  ++...+|. |..++..++     ..|+..-..|+-.+     .+ + .|++.|.-
T Consensus        73 ~~ilEvGCGvGNtvfPll~~~~n~~l~v~acDfsp~Ai~~vk~~~~~~e~~~~afv~Dlt~~~~~~~~~~~svD~it~IF  152 (264)
T KOG2361|consen   73 ETILEVGCGVGNTVFPLLKTSPNNRLKVYACDFSPRAIELVKKSSGYDESRVEAFVWDLTSPSLKEPPEEGSVDIITLIF  152 (264)
T ss_pred             hhheeeccCCCcccchhhhcCCCCCeEEEEcCCChHHHHHHHhccccchhhhcccceeccchhccCCCCcCccceEEEEE
Confidence            48999999999999999999999  89999996 888887765     35666666777663     21 2 88888876


Q ss_pred             ccc
Q 042491          259 IVL  261 (266)
Q Consensus       259 vLH  261 (266)
                      ||-
T Consensus       153 vLS  155 (264)
T KOG2361|consen  153 VLS  155 (264)
T ss_pred             EEe
Confidence            664

>TIGR00006 S-adenosyl-methyltransferase MraW

Probab=94.81  E-value=0.099  Score=46.61  Aligned_cols=75  Identities=16%  Similarity=0.183  Sum_probs=58.3

Q ss_pred             HHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-----CCCeEEEEccCCC-C--C--
Q 042491          180 STLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-----YEGVSHVGGDMLN-A--V--  248 (266)
Q Consensus       180 ~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-----~~ri~~~~gd~~~-~--~--  248 (266)
                      .++++.+.  ......+||.=+|.|..+..++++.|+.+++++|. |.+++.+++     .+|++++.++|-+ .  +  
T Consensus        10 ~Evl~~L~--~~~ggiyVD~TlG~GGHS~~iL~~l~~g~vigiD~D~~Al~~ak~~L~~~~~R~~~i~~nF~~l~~~l~~   87 (305)
T TIGR00006        10 DEVVEGLN--IKPDGIYIDCTLGFGGHSKAILEQLGTGRLIGIDRDPQAIAFAKERLSDFEGRVVLIHDNFANFFEHLDE   87 (305)
T ss_pred             HHHHHhcC--cCCCCEEEEeCCCChHHHHHHHHhCCCCEEEEEcCCHHHHHHHHHHHhhcCCcEEEEeCCHHHHHHHHHh
Confidence            45566554  34557999999999999999999998899999998 777776654     4699999999886 1  2  


Q ss_pred             ---CCccEEEe
Q 042491          249 ---PNADAVFM  256 (266)
Q Consensus       249 ---p~aD~~~l  256 (266)
                         ..+|.+++
T Consensus        88 ~~~~~vDgIl~   98 (305)
T TIGR00006        88 LLVTKIDGILV   98 (305)
T ss_pred             cCCCcccEEEE
Confidence               23787765

Genetics paper in 1972 links mra cluster to peptidoglycan biosynthesis in E. coli. Seems to be common in proteobacteria.wn.

>PRK10857 DNA-binding transcriptional regulator IscR; Provisional

Probab=94.70  E-value=0.039  Score=44.69  Aligned_cols=46  Identities=20%  Similarity=0.317  Sum_probs=39.0

Q ss_pred             CCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCch
Q 042491           47 SPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQ  102 (266)
Q Consensus        47 ~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~  102 (266)
                      +++|+++||+.+++++.-      +.++|..|...|++.....    ..|.|.+..
T Consensus        24 ~~vs~~eIA~~~~ip~~~------l~kIl~~L~~aGLv~s~rG----~~GGy~Lar   69 (164)
T PRK10857         24 GPVPLADISERQGISLSY------LEQLFSRLRKNGLVSSVRG----PGGGYLLGK   69 (164)
T ss_pred             CcCcHHHHHHHHCcCHHH------HHHHHHHHHHCCCEEeCCC----CCCCeeccC
Confidence            689999999999999765      9999999999999997642    146788765

>PF02475 Met_10: Met-10+ like-protein; InterPro: IPR003402 This entry represents the Trm5 family

Probab=94.67  E-value=0.051  Score=45.50  Aligned_cols=68  Identities=21%  Similarity=0.228  Sum_probs=48.8

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCCCC--CccEEEecc
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNAVP--NADAVFMKV  258 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~~p--~aD~~~l~~  258 (266)
                      ....+|+|.-||.|.++..+++..+..+++..|+ |..++-+++       .++|..+.+|..+-.+  .+|-++|..
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 676665442       6889999999887432  389888854

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.

>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=94.60  E-value=0.087  Score=47.00  Aligned_cols=65  Identities=20%  Similarity=0.212  Sum_probs=48.6

Q ss_pred             HHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-----CCCeEEEEccCCC
Q 042491          180 STLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-----YEGVSHVGGDMLN  246 (266)
Q Consensus       180 ~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-----~~ri~~~~gd~~~  246 (266)
                      .++++.+.  ......+||.=-|.|.++.++++++|+.+.+++|. |.+++.+++     .+|+.++.++|-+
T Consensus        10 ~Evl~~L~--~~~~g~~vD~T~G~GGHS~aiL~~~~~~~li~~DrD~~a~~~a~~~l~~~~~r~~~~~~~F~~   80 (310)
T PF01795_consen   10 KEVLEALN--PKPGGIYVDCTFGGGGHSKAILEKLPNGRLIGIDRDPEALERAKERLKKFDDRFIFIHGNFSN   80 (310)
T ss_dssp             HHHHHHHT----TT-EEEETT-TTSHHHHHHHHT-TT-EEEEEES-HHHHHHHHCCTCCCCTTEEEEES-GGG
T ss_pred             HHHHHhhC--cCCCceEEeecCCcHHHHHHHHHhCCCCeEEEecCCHHHHHHHHHHHhhccceEEEEeccHHH
Confidence            45566665  45667999999999999999999999999999999 777766553     6899999999876

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.

>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=94.55  E-value=0.021  Score=41.30  Aligned_cols=63  Identities=19%  Similarity=0.263  Sum_probs=46.9

Q ss_pred             hhhHhhhCCCCCCHHHHHhhc-CCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           38 LADIMHCHGSPITLPQLASGI-NSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        38 lfd~L~~~g~~~t~~eLA~~~-g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      |+..|..  ++..+.||.+.+ |+++.-      |.+-|+-|...|++.+....+.+..-.|++|+.++.|.
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--GPMRFSELQRRLPGISPKV------LSQRLKELEEAGLVERRVYPEVPPRVEYSLTEKGKELL   73 (90)
T ss_dssp             HHHHHTT--SSEEHHHHHHHSTTS-HHH------HHHHHHHHHHTTSEEEEEESSSSSEEEEEE-HHHHHHH
T ss_pred             HHHHHHh--CCCcHHHHHHhcchhHHHH------HHHHHHHHHHcchhhcccccCCCCCCccCCCcCHHHHH
Confidence            4455565  799999999999 888765      99999999999999887532111123699999998766

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.

>COG4742 Predicted transcriptional regulator [Transcription]

Probab=94.47  E-value=0.047  Score=47.33  Aligned_cols=65  Identities=18%  Similarity=0.312  Sum_probs=57.2

Q ss_pred             HHHHHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhhc
Q 042491           30 LKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLLR  109 (266)
Q Consensus        30 L~~a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~~  109 (266)
                      +...-+.+|+=.|.+  +|.|.+||-..+++++..      +..-++-|...|++.+.+       +.|++|..++.++.
T Consensus        10 f~SekRk~lLllL~e--gPkti~EI~~~l~vs~~a------i~pqiKkL~~~~LV~~~~-------~~Y~LS~~G~iiv~   74 (260)
T COG4742          10 FLSEKRKDLLLLLKE--GPKTIEEIKNELNVSSSA------ILPQIKKLKDKGLVVQEG-------DRYSLSSLGKIIVE   74 (260)
T ss_pred             HccHHHHHHHHHHHh--CCCCHHHHHHHhCCCcHH------HHHHHHHHhhCCCEEecC-------CEEEecchHHHHHH
Confidence            344556778888887  899999999999999877      899999999999999998       99999999987764

>KOG3191 consensus Predicted N6-DNA-methyltransferase [Translation, ribosomal structure and biogenesis]

Probab=94.43  E-value=0.087  Score=43.22  Aligned_cols=65  Identities=15%  Similarity=0.268  Sum_probs=48.8

Q ss_pred             CceEEEecCCchHHHHHHHHHC-CCCeEEEeec-HHHHhhCCC-----CCCeEEEEccCCCCCC--CccEEEec
Q 042491          193 IRSLVDVGGGTGEELAEIVEFY-PHIKGVNFDL-PHVVATAPV-----YEGVSHVGGDMLNAVP--NADAVFMK  257 (266)
Q Consensus       193 ~~~vvDvGgG~G~~~~~l~~~~-P~l~~~~~Dl-p~v~~~a~~-----~~ri~~~~gd~~~~~p--~aD~~~l~  257 (266)
                      ...+++||||+|.....|.+.. |+.-...-|+ |+.++...+     .-++..+..|++..+.  +.|+.+++
T Consensus        44 ~~i~lEIG~GSGvvstfL~~~i~~~~~~latDiNp~A~~~Tl~TA~~n~~~~~~V~tdl~~~l~~~~VDvLvfN  117 (209)
T KOG3191|consen   44 PEICLEIGCGSGVVSTFLASVIGPQALYLATDINPEALEATLETARCNRVHIDVVRTDLLSGLRNESVDVLVFN  117 (209)
T ss_pred             ceeEEEecCCcchHHHHHHHhcCCCceEEEecCCHHHHHHHHHHHHhcCCccceeehhHHhhhccCCccEEEEC
Confidence            6789999999999998887776 6777777788 776665332     4457888889888532  37877764

>PF09012 FeoC: FeoC like transcriptional regulator; InterPro: IPR015102 This entry contains several transcriptional regulators, including FeoC, which contain a HTH motif

Probab=94.29  E-value=0.02  Score=39.31  Aligned_cols=44  Identities=20%  Similarity=0.339  Sum_probs=36.7

Q ss_pred             hhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           38 LADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        38 lfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      |-+.|... +.+|..|||..+++++..      ++.+|..|+..|.+.+..
T Consensus         5 i~~~l~~~-~~~S~~eLa~~~~~s~~~------ve~mL~~l~~kG~I~~~~   48 (69)
T PF09012_consen    5 IRDYLRER-GRVSLAELAREFGISPEA------VEAMLEQLIRKGYIRKVD   48 (69)
T ss_dssp             HHHHHHHS--SEEHHHHHHHTT--HHH------HHHHHHHHHCCTSCEEEE
T ss_pred             HHHHHHHc-CCcCHHHHHHHHCcCHHH------HHHHHHHHHHCCcEEEec
Confidence            56777774 789999999999999877      999999999999999887

FeoC acts as a [Fe-S] dependent transcriptional repressor []. ; PDB: 1XN7_A 2K02_A.

>COG2384 Predicted SAM-dependent methyltransferase [General function prediction only]

Probab=94.28  E-value=0.22  Score=42.10  Aligned_cols=66  Identities=15%  Similarity=0.147  Sum_probs=52.1

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-----HHHHhhCCC---CCCeEEEEccCCCCC-CC--ccEEEec
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-----PHVVATAPV---YEGVSHVGGDMLNAV-PN--ADAVFMK  257 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-----p~v~~~a~~---~~ri~~~~gd~~~~~-p~--aD~~~l~  257 (266)
                      +...+.||||-+|.+.+.|++.+|..+++.-|.     ..++...++   .+||++..||-+.++ ++  .|++...
T Consensus        16 ~~~~iaDIGsDHAYLp~~Lv~~~~~~~~va~eV~~gpl~~a~~~v~~~~l~~~i~vr~~dgl~~l~~~d~~d~ivIA   92 (226)
T COG2384          16 QGARIADIGSDHAYLPIYLVKNNPASTAVAGEVVPGPLESAIRNVKKNNLSERIDVRLGDGLAVLELEDEIDVIVIA   92 (226)
T ss_pred             cCCceeeccCchhHhHHHHHhcCCcceEEEeecccCHHHHHHHHHHhcCCcceEEEeccCCccccCccCCcCEEEEe
Confidence            445699999999999999999999999999887     333443333   789999999998874 33  7777654

>PF04967 HTH_10: HTH DNA binding domain; InterPro: IPR007050 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif

Probab=94.26  E-value=0.045  Score=35.57  Aligned_cols=42  Identities=31%  Similarity=0.346  Sum_probs=33.9

Q ss_pred             HHHHHHHHHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHH
Q 042491           26 DSMALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRM   77 (266)
Q Consensus        26 ~~~~L~~a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~   77 (266)
                      .-.+|.+|.++|-||. +   ..+|..|||+.+|+++..      +...||-
T Consensus         5 Q~e~L~~A~~~GYfd~-P---R~~tl~elA~~lgis~st------~~~~LRr   46 (53)
T PF04967_consen    5 QREILKAAYELGYFDV-P---RRITLEELAEELGISKST------VSEHLRR   46 (53)
T ss_pred             HHHHHHHHHHcCCCCC-C---CcCCHHHHHHHhCCCHHH------HHHHHHH
Confidence            4578999999999998 4   369999999999998755      5555553

This entry represents the HTH DNA binding domain found in Halobacterium salinarium (Halobacterium halobium) and described as a putative bacterio-opsin activator.

>PF03291 Pox_MCEL: mRNA capping enzyme; InterPro: IPR004971 This is a family of viral mRNA capping enzymes

Probab=94.23  E-value=0.17  Score=45.76  Aligned_cols=70  Identities=16%  Similarity=0.167  Sum_probs=47.2

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------------C----CCeEEEEccCCCC-----CC
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------------Y----EGVSHVGGDMLNA-----VP  249 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------------~----~ri~~~~gd~~~~-----~p  249 (266)
                      ...+|||+|||.|.-+.-..+..+. ..+++|+ +..|+.+++            .    =...++.+|-+..     ++
T Consensus        62 ~~~~VLDl~CGkGGDL~Kw~~~~i~-~~vg~Dis~~si~ea~~Ry~~~~~~~~~~~~~~~f~a~f~~~D~f~~~l~~~~~  140 (331)
T PF03291_consen   62 PGLTVLDLCCGKGGDLQKWQKAKIK-HYVGIDISEESIEEARERYKQLKKRNNSKQYRFDFIAEFIAADCFSESLREKLP  140 (331)
T ss_dssp             TT-EEEEET-TTTTTHHHHHHTT-S-EEEEEES-HHHHHHHHHHHHHHHTSTT-HTSEECCEEEEEESTTCCSHHHCTSS
T ss_pred             CCCeEEEecCCCchhHHHHHhcCCC-EEEEEeCCHHHHHHHHHHHHHhccccccccccccchhheeccccccchhhhhcc
Confidence            5689999999999998888877443 6788998 444554432            1    1246688887752     22


Q ss_pred             ----CccEEEecccccc
Q 042491          250 ----NADAVFMKVIVLI  262 (266)
Q Consensus       250 ----~aD~~~l~~vLHd  262 (266)
                          .+|+|-+--.||+
T Consensus       141 ~~~~~FDvVScQFalHY  157 (331)
T PF03291_consen  141 PRSRKFDVVSCQFALHY  157 (331)
T ss_dssp             STTS-EEEEEEES-GGG
T ss_pred             ccCCCcceeehHHHHHH
Confidence                4999999999997

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.

>PRK11050 manganese transport regulator MntR; Provisional

Probab=94.18  E-value=0.061  Score=42.97  Aligned_cols=58  Identities=19%  Similarity=0.228  Sum_probs=47.6

Q ss_pred             hhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           38 LADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        38 lfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      |..++.. +++.+..+||+.+++++..      +.+.++-|...|++....      ...+.+|+.++.+.
T Consensus        42 I~~~l~~-~~~~t~~eLA~~l~is~st------Vsr~l~~Le~~GlI~r~~------~~~v~LT~~G~~l~   99 (152)
T PRK11050         42 IADLIAE-VGEARQVDIAARLGVSQPT------VAKMLKRLARDGLVEMRP------YRGVFLTPEGEKLA   99 (152)
T ss_pred             HHHHHHh-cCCCCHHHHHHHHCCCHHH------HHHHHHHHHHCCCEEEec------CCceEECchHHHHH
Confidence            5556654 3789999999999999877      999999999999998765      35788999886544

>COG0293 FtsJ 23S rRNA methylase [Translation, ribosomal structure and biogenesis]

Probab=94.16  E-value=0.19  Score=42.06  Aligned_cols=64  Identities=22%  Similarity=0.213  Sum_probs=49.9

Q ss_pred             HHHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCC-CeEEEeecHHHHhhCCCCCCeEEEEccCCCC
Q 042491          179 MSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPH-IKGVNFDLPHVVATAPVYEGVSHVGGDMLNA  247 (266)
Q Consensus       179 ~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~-l~~~~~Dlp~v~~~a~~~~ri~~~~gd~~~~  247 (266)
                      ...+.+.|. .+++...|+|+|+-.|.++..+.+.-.. .+++.+|+-++-.    -+.|.++.+||+.+
T Consensus        33 L~el~~k~~-i~~~~~~ViDLGAAPGgWsQva~~~~~~~~~ivavDi~p~~~----~~~V~~iq~d~~~~   97 (205)
T COG0293          33 LLELNEKFK-LFKPGMVVVDLGAAPGGWSQVAAKKLGAGGKIVAVDILPMKP----IPGVIFLQGDITDE   97 (205)
T ss_pred             HHHHHHhcC-eecCCCEEEEcCCCCCcHHHHHHHHhCCCCcEEEEECccccc----CCCceEEeeeccCc
Confidence            345666663 4678899999999999999988887754 5689999866544    34599999999983

>COG4976 Predicted methyltransferase (contains TPR repeat) [General function prediction only]

Probab=94.13  E-value=0.071  Score=45.37  Aligned_cols=77  Identities=16%  Similarity=0.242  Sum_probs=46.8

Q ss_pred             HHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC---CCCeEEE-EccCCCC--CCCccE
Q 042491          181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV---YEGVSHV-GGDMLNA--VPNADA  253 (266)
Q Consensus       181 ~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~---~~ri~~~-~gd~~~~--~p~aD~  253 (266)
                      .++...+  ...+++++|+|||+|..+..|...--.  .+++|+ ..+++.+.+   .+.+..- ..+|...  ...+|+
T Consensus       116 emI~~~~--~g~F~~~lDLGCGTGL~G~~lR~~a~~--ltGvDiS~nMl~kA~eKg~YD~L~~Aea~~Fl~~~~~er~DL  191 (287)
T COG4976         116 EMIGKAD--LGPFRRMLDLGCGTGLTGEALRDMADR--LTGVDISENMLAKAHEKGLYDTLYVAEAVLFLEDLTQERFDL  191 (287)
T ss_pred             HHHHhcc--CCccceeeecccCcCcccHhHHHHHhh--ccCCchhHHHHHHHHhccchHHHHHHHHHHHhhhccCCcccc
Confidence            3445555  445899999999999999988877554  456687 556665554   1221111 1124432  223777


Q ss_pred             EEeccccc
Q 042491          254 VFMKVIVL  261 (266)
Q Consensus       254 ~~l~~vLH  261 (266)
                      |.-..||-
T Consensus       192 i~AaDVl~  199 (287)
T COG4976         192 IVAADVLP  199 (287)
T ss_pred             hhhhhHHH
Confidence            77666654

>TIGR01889 Staph_reg_Sar staphylococcal accessory regulator family

Probab=94.12  E-value=0.067  Score=40.10  Aligned_cols=69  Identities=19%  Similarity=0.288  Sum_probs=51.1

Q ss_pred             HhcChhhHhh--hC-CCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           34 VELRLADIMH--CH-GSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        34 ~elglfd~L~--~~-g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      .++.++..|.  .. ++++|..+||+.+++++..      +.++++-|...|++.+....++...-.+.+|+.+..+.
T Consensus        26 ~q~~vL~~l~~~~~~~~~~t~~eL~~~l~~~~st------vs~~i~~Le~kg~I~r~~~~~D~R~~~i~lT~~G~~~~   97 (109)
T TIGR01889        26 EELLILYYLGKLENNEGKLTLKEIIKEILIKQSA------LVKIIKKLSKKGYLSKERSEDDERKVIISINKEQRSKI   97 (109)
T ss_pred             HHHHHHHHHHhhhccCCcCcHHHHHHHHCCCHHH------HHHHHHHHHHCCCEeccCCcccCCeEEEEECHHHHHHH
Confidence            3455666665  21 3689999999999999877      99999999999999987632211233588888886544

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.

>PF04703 FaeA: FaeA-like protein; PDB: 2JT1_A 2HTJ_A

Probab=94.03  E-value=0.022  Score=38.34  Aligned_cols=46  Identities=11%  Similarity=0.232  Sum_probs=37.2

Q ss_pred             ChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           37 RLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        37 glfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      .|.+.|....+|.+..|||+.+|++...      ++++|..|...|.++...
T Consensus         4 ~Il~~i~~~~~p~~T~eiA~~~gls~~~------aR~yL~~Le~eG~V~~~~   49 (62)
T PF04703_consen    4 KILEYIKEQNGPLKTREIADALGLSIYQ------ARYYLEKLEKEGKVERSP   49 (62)
T ss_dssp             CHHHHHHHHTS-EEHHHHHHHHTS-HHH------HHHHHHHHHHCTSEEEES
T ss_pred             HHHHHHHHcCCCCCHHHHHHHhCCCHHH------HHHHHHHHHHCCCEEEec
Confidence            4566666534899999999999999877      999999999999998755

>COG2345 Predicted transcriptional regulator [Transcription]

Probab=93.98  E-value=0.064  Score=45.34  Aligned_cols=65  Identities=20%  Similarity=0.357  Sum_probs=49.5

Q ss_pred             ChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCC--CceEeCchhchhhh
Q 042491           37 RLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSE--ETMYGLTQISKWLL  108 (266)
Q Consensus        37 glfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g--~~~y~lt~~s~~l~  108 (266)
                      .|...|..+ +|+|+.|||+++|+++..      +++.|..|.+.|++......-+.|  .-.|++|..+....
T Consensus        15 ~il~lL~~~-g~~sa~elA~~Lgis~~a------vR~HL~~Le~~Glv~~~~~~~g~GRP~~~y~Lt~~g~~~f   81 (218)
T COG2345          15 RILELLKKS-GPVSADELAEELGISPMA------VRRHLDDLEAEGLVEVERQQGGRGRPAKLYRLTEKGREQF   81 (218)
T ss_pred             HHHHHHhcc-CCccHHHHHHHhCCCHHH------HHHHHHHHHhCcceeeeeccCCCCCCceeeeecccchhhc
Confidence            355566655 799999999999999887      999999999999998775321111  13599999876533

>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=93.95  E-value=0.06  Score=35.47  Aligned_cols=45  Identities=13%  Similarity=0.299  Sum_probs=40.1

Q ss_pred             ChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           37 RLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        37 glfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      .|.+.|... +.+|++|||+.+|+++..      ++|=|..|...|++.+.-
T Consensus         4 ~Il~~l~~~-~~~s~~ela~~~~VS~~T------iRRDl~~L~~~g~i~r~~   48 (57)
T PF08220_consen    4 QILELLKEK-GKVSVKELAEEFGVSEMT------IRRDLNKLEKQGLIKRTH   48 (57)
T ss_pred             HHHHHHHHc-CCEEHHHHHHHHCcCHHH------HHHHHHHHHHCCCEEEEc
Confidence            366777775 789999999999999877      999999999999999887

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

>KOG4300 consensus Predicted methyltransferase [General function prediction only]

Probab=93.91  E-value=0.16  Score=42.57  Aligned_cols=69  Identities=22%  Similarity=0.231  Sum_probs=44.3

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeE-EEEccCCC-C-CC--CccEEEeccc
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVS-HVGGDMLN-A-VP--NADAVFMKVI  259 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~-~~~gd~~~-~-~p--~aD~~~l~~v  259 (266)
                      +...||+||||+|..-.- -.--|..++|.+|. |.+-+.+.+      ...+. |+.++-.+ + ++  .+|+|+..-+
T Consensus        76 ~K~~vLEvgcGtG~Nfkf-y~~~p~~svt~lDpn~~mee~~~ks~~E~k~~~~~~fvva~ge~l~~l~d~s~DtVV~Tlv  154 (252)
T KOG4300|consen   76 GKGDVLEVGCGTGANFKF-YPWKPINSVTCLDPNEKMEEIADKSAAEKKPLQVERFVVADGENLPQLADGSYDTVVCTLV  154 (252)
T ss_pred             CccceEEecccCCCCccc-ccCCCCceEEEeCCcHHHHHHHHHHHhhccCcceEEEEeechhcCcccccCCeeeEEEEEE
Confidence            446789999999986431 12224668899997 444333221      44565 77777666 3 45  3999988766


Q ss_pred             cc
Q 042491          260 VL  261 (266)
Q Consensus       260 LH  261 (266)
                      |-
T Consensus       155 LC  156 (252)
T KOG4300|consen  155 LC  156 (252)
T ss_pred             Ee
Confidence            63

>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=93.78  E-value=0.29  Score=42.37  Aligned_cols=73  Identities=16%  Similarity=0.247  Sum_probs=50.5

Q ss_pred             HHhhcccCCCCCceEEEecCCchHHHHHHHHHC-CCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCC-CC--
Q 042491          182 LLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFY-PHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNA-VP--  249 (266)
Q Consensus       182 ~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~-P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~-~p--  249 (266)
                      ++...+  .....+||+.|-|+|.+...|++.. |+=++.-+|. ++-++.|++       .++|++..+|+-++ ++  
T Consensus        32 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   32 ILMRLD--IRPGSRVLEAGTGSGSLTHALARAVGPTGHVYTYEFREDRAEKARKNFERHGLDDNVTVHHRDVCEEGFDEE  109 (247)
T ss_dssp             HHHHTT----TT-EEEEE--TTSHHHHHHHHHHTTTSEEEEEESSHHHHHHHHHHHHHTTCCTTEEEEES-GGCG--STT
T ss_pred             HHHHcC--CCCCCEEEEecCCcHHHHHHHHHHhCCCeEEEccccCHHHHHHHHHHHHHcCCCCCceeEecceeccccccc
Confidence            455566  6778999999999999999999754 8888899997 444544443       57899999998653 32  


Q ss_pred             ---CccEEEe
Q 042491          250 ---NADAVFM  256 (266)
Q Consensus       250 ---~aD~~~l  256 (266)
                         .+|.++|
T Consensus       110 ~~~~~DavfL  119 (247)
T PF08704_consen  110 LESDFDAVFL  119 (247)
T ss_dssp             -TTSEEEEEE
T ss_pred             ccCcccEEEE
Confidence               3899887

; 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.

>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=93.71  E-value=0.026  Score=37.47  Aligned_cols=48  Identities=25%  Similarity=0.401  Sum_probs=38.6

Q ss_pred             hcChhhHhhhCCCC-CCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           35 ELRLADIMHCHGSP-ITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        35 elglfd~L~~~g~~-~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      ++.|+-.|...++. +|..|||+.+++++..      +.++++.|...|++.+..
T Consensus         7 q~~vL~~l~~~~~~~~t~~~la~~l~~~~~~------vs~~v~~L~~~Glv~r~~   55 (62)
T PF12802_consen    7 QFRVLMALARHPGEELTQSELAERLGISKST------VSRIVKRLEKKGLVERER   55 (62)
T ss_dssp             HHHHHHHHHHSTTSGEEHHHHHHHHTS-HHH------HHHHHHHHHHTTSEEEEE
T ss_pred             HHHHHHHHHHCCCCCcCHHHHHHHHCcCHHH------HHHHHHHHHHCCCEEEeC
Confidence            44566667664322 8999999999999776      999999999999999876

...

>COG1321 TroR Mn-dependent transcriptional regulator [Transcription]

Probab=93.68  E-value=0.1  Score=41.89  Aligned_cols=51  Identities=18%  Similarity=0.141  Sum_probs=46.1

Q ss_pred             CCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           46 GSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        46 g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      ++++...+||+.+++.|..      +...++-|...|+++...      .+.|.+|+.++...
T Consensus        22 ~~~~~~~diA~~L~Vsp~s------Vt~ml~rL~~~GlV~~~~------y~gi~LT~~G~~~a   72 (154)
T COG1321          22 KGFARTKDIAERLKVSPPS------VTEMLKRLERLGLVEYEP------YGGVTLTEKGREKA   72 (154)
T ss_pred             cCcccHHHHHHHhCCCcHH------HHHHHHHHHHCCCeEEec------CCCeEEChhhHHHH
Confidence            4899999999999999887      999999999999999987      58999999887544

>COG4076 Predicted RNA methylase [General function prediction only]

Probab=93.61  E-value=0.14  Score=42.30  Aligned_cols=62  Identities=21%  Similarity=0.224  Sum_probs=47.8

Q ss_pred             ceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCC-CCCCccEEEec
Q 042491          194 RSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLN-AVPNADAVFMK  257 (266)
Q Consensus       194 ~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~-~~p~aD~~~l~  257 (266)
                      .++.|+|.|+|.++.-.+++  .-|++.+++ |....-+.+      ..+++++.||..+ ++..||++++-
T Consensus        34 d~~~DLGaGsGiLs~~Aa~~--A~rViAiE~dPk~a~~a~eN~~v~g~~n~evv~gDA~~y~fe~ADvvicE  103 (252)
T COG4076          34 DTFADLGAGSGILSVVAAHA--AERVIAIEKDPKRARLAEENLHVPGDVNWEVVVGDARDYDFENADVVICE  103 (252)
T ss_pred             hceeeccCCcchHHHHHHhh--hceEEEEecCcHHHHHhhhcCCCCCCcceEEEecccccccccccceeHHH
Confidence            48899999999998766665  447777777 555554443      5789999999998 68679998764

>COG3355 Predicted transcriptional regulator [Transcription]

Probab=93.60  E-value=0.072  Score=41.01  Aligned_cols=46  Identities=20%  Similarity=0.318  Sum_probs=38.1

Q ss_pred             hhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCccccccc
Q 042491           38 LADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRS   89 (266)
Q Consensus        38 lfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~   89 (266)
                      ++-+|-...+|.|+++||+.++.+...      +.|-|+-|...|++.+...
T Consensus        32 v~~~LL~~~~~~tvdelae~lnr~rSt------v~rsl~~L~~~GlV~Rek~   77 (126)
T COG3355          32 VYKALLEENGPLTVDELAEILNRSRST------VYRSLQNLLEAGLVEREKV   77 (126)
T ss_pred             HHHHHHhhcCCcCHHHHHHHHCccHHH------HHHHHHHHHHcCCeeeeee
Confidence            444444213899999999999998766      9999999999999999874

>smart00420 HTH_DEOR helix_turn_helix, Deoxyribose operon repressor

Probab=93.59  E-value=0.074  Score=33.62  Aligned_cols=44  Identities=14%  Similarity=0.264  Sum_probs=37.4

Q ss_pred             hhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           38 LADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        38 lfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      +++.|... ++.|..+|++.+++++..      +.+.+..|...|++.+..
T Consensus         5 il~~l~~~-~~~s~~~l~~~l~~s~~t------v~~~l~~L~~~g~i~~~~   48 (53)
T smart00420        5 ILELLAQQ-GKVSVEELAELLGVSEMT------IRRDLNKLEEQGLLTRVH   48 (53)
T ss_pred             HHHHHHHc-CCcCHHHHHHHHCCCHHH------HHHHHHHHHHCCCEEEee
Confidence            45555554 679999999999998877      999999999999998776

>TIGR02702 SufR_cyano iron-sulfur cluster biosynthesis transcriptional regulator SufR

Probab=93.59  E-value=0.093  Score=43.92  Aligned_cols=66  Identities=15%  Similarity=0.176  Sum_probs=49.4

Q ss_pred             cChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCC--CceEeCchhchhhh
Q 042491           36 LRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSE--ETMYGLTQISKWLL  108 (266)
Q Consensus        36 lglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g--~~~y~lt~~s~~l~  108 (266)
                      ..|+..|... ++.|..|||+.+|+++..      +.+.|+.|...|++.......+.|  .-.|++|+.+..+.
T Consensus         4 ~~IL~~L~~~-~~~t~~eLA~~lgis~~t------V~~~L~~Le~~GlV~r~~~~~~~gRp~~~y~LT~~G~~~~   71 (203)
T TIGR02702         4 EDILSYLLKQ-GQATAAALAEALAISPQA------VRRHLKDLETEGLIEYEAVVQGMGRPQYHYQLSRQGREQF   71 (203)
T ss_pred             HHHHHHHHHc-CCCCHHHHHHHHCcCHHH------HHHHHHHHHHCCCeEEeecccCCCCCceEEEECcchhhhc
Confidence            3567777664 689999999999999877      999999999999998763111111  23489999886544

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.

>TIGR01884 cas_HTH CRISPR locus-related DNA-binding protein

Probab=93.53  E-value=0.07  Score=44.68  Aligned_cols=59  Identities=20%  Similarity=0.436  Sum_probs=47.9

Q ss_pred             hcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhc
Q 042491           35 ELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQIS  104 (266)
Q Consensus        35 elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s  104 (266)
                      ++.++..|..+ ++.+..|||+.+++++..      +.|.|..|...|++.+.+.    ....|.+|+.+
T Consensus       145 ~~~IL~~l~~~-g~~s~~eia~~l~is~st------v~r~L~~Le~~GlI~r~~~----r~~~~~lT~~G  203 (203)
T TIGR01884       145 ELKVLEVLKAE-GEKSVKNIAKKLGKSLST------ISRHLRELEKKGLVEQKGR----KGKRYSLTKLG  203 (203)
T ss_pred             HHHHHHHHHHc-CCcCHHHHHHHHCcCHHH------HHHHHHHHHHCCCEEEEcC----CccEEEeCCCC
Confidence            45677777764 579999999999999877      9999999999999998861    13578888754

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.

>TIGR02944 suf_reg_Xantho FeS assembly SUF system regulator, gammaproteobacterial

Probab=93.49  E-value=0.051  Score=42.02  Aligned_cols=46  Identities=22%  Similarity=0.454  Sum_probs=37.5

Q ss_pred             CCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCch
Q 042491           47 SPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQ  102 (266)
Q Consensus        47 ~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~  102 (266)
                      ++.|..|||+++++++..      +.++|+.|...|++.....    ..+.|.+..
T Consensus        24 ~~~s~~eia~~l~is~~~------v~~~l~~L~~~Gli~~~~g----~~ggy~l~~   69 (130)
T TIGR02944        24 QPYSAAEIAEQTGLNAPT------VSKILKQLSLAGIVTSKRG----VEGGYTLAR   69 (130)
T ss_pred             CCccHHHHHHHHCcCHHH------HHHHHHHHHHCCcEEecCC----CCCChhhcC
Confidence            689999999999999876      9999999999999986531    135666644

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.

>TIGR02010 IscR iron-sulfur cluster assembly transcription factor IscR

Probab=93.35  E-value=0.069  Score=41.69  Aligned_cols=47  Identities=21%  Similarity=0.314  Sum_probs=39.0

Q ss_pred             CCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchh
Q 042491           47 SPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQI  103 (266)
Q Consensus        47 ~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~  103 (266)
                      ++.|.++||+.+++++.-      +.++|+.|...|++.....    ..|.|+++.-
T Consensus        24 ~~~s~~~ia~~~~ip~~~------l~kil~~L~~~glv~s~~G----~~Ggy~l~~~   70 (135)
T TIGR02010        24 GPVTLADISERQGISLSY------LEQLFAKLRKAGLVKSVRG----PGGGYQLGRP   70 (135)
T ss_pred             CcCcHHHHHHHHCcCHHH------HHHHHHHHHHCCceEEEeC----CCCCEeccCC
Confidence            689999999999999766      9999999999999987541    1367887663

This model describes IscR, an iron-sulfur binding transcription factor of the ISC iron-sulfur cluster assembly system.

>KOG1331 consensus Predicted methyltransferase [General function prediction only]

Probab=93.33  E-value=0.062  Score=47.02  Aligned_cols=69  Identities=22%  Similarity=0.193  Sum_probs=53.1

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeecH-HHHhhCCCCCCeEEEEccCCC-CCC--CccEEEeccccccCC
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLP-HVVATAPVYEGVSHVGGDMLN-AVP--NADAVFMKVIVLIQD  264 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp-~v~~~a~~~~ri~~~~gd~~~-~~p--~aD~~~l~~vLHd~~  264 (266)
                      ....++|+|||.|.++.    -+|.+-.+++|+- ..+..+++.+.......|+.+ |.+  .+|..+-..++|.|+
T Consensus        45 ~gsv~~d~gCGngky~~----~~p~~~~ig~D~c~~l~~~ak~~~~~~~~~ad~l~~p~~~~s~d~~lsiavihhls  117 (293)
T KOG1331|consen   45 TGSVGLDVGCGNGKYLG----VNPLCLIIGCDLCTGLLGGAKRSGGDNVCRADALKLPFREESFDAALSIAVIHHLS  117 (293)
T ss_pred             CcceeeecccCCcccCc----CCCcceeeecchhhhhccccccCCCceeehhhhhcCCCCCCccccchhhhhhhhhh
Confidence            56899999999998764    3488899999994 444445544443677789888 655  499999999999986

>cd00090 HTH_ARSR Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors

Probab=93.24  E-value=0.1  Score=35.21  Aligned_cols=57  Identities=25%  Similarity=0.462  Sum_probs=44.2

Q ss_pred             hcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCch
Q 042491           35 ELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQ  102 (266)
Q Consensus        35 elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~  102 (266)
                      +..|+..|..  ++.+..||++.++++...      +.+.++.|...|++......   ....|++|+
T Consensus         9 ~~~il~~l~~--~~~~~~ei~~~~~i~~~~------i~~~l~~L~~~g~i~~~~~~---~~~~~~~~~   65 (78)
T cd00090           9 RLRILRLLLE--GPLTVSELAERLGLSQST------VSRHLKKLEEAGLVESRREG---RRVYYSLTD   65 (78)
T ss_pred             HHHHHHHHHH--CCcCHHHHHHHHCcCHhH------HHHHHHHHHHCCCeEEEEec---cEEEEEeCC
Confidence            3446666666  349999999999999877      99999999999999976521   235677776

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.

>cd07153 Fur_like Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators

Probab=93.20  E-value=0.12  Score=38.86  Aligned_cols=64  Identities=13%  Similarity=0.261  Sum_probs=44.2

Q ss_pred             hcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCc
Q 042491           35 ELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLT  101 (266)
Q Consensus        35 elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt  101 (266)
                      +..|++.|...+++.|++||.+.+.-... ......+.|.|+.|+..|++.+...+  ++..+|.++
T Consensus         3 R~~Il~~l~~~~~~~sa~ei~~~l~~~~~-~i~~~TVYR~L~~L~~~Gli~~~~~~--~~~~~y~~~   66 (116)
T cd07153           3 RLAILEVLLESDGHLTAEEIYERLRKKGP-SISLATVYRTLELLEEAGLVREIELG--DGKARYELN   66 (116)
T ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHhcCC-CCCHHHHHHHHHHHHhCCCEEEEEeC--CCceEEEeC
Confidence            34578888775578999999999842110 11134599999999999999987632  123456553

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.

>TIGR00738 rrf2_super rrf2 family protein (putative transcriptional regulator)

Probab=93.03  E-value=0.096  Score=40.43  Aligned_cols=48  Identities=25%  Similarity=0.387  Sum_probs=39.2

Q ss_pred             CCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhc
Q 042491           47 SPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQIS  104 (266)
Q Consensus        47 ~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s  104 (266)
                      ++.|.++||+.+++++..      +.++++.|...|++.....    ..|.|.++.-.
T Consensus        24 ~~~s~~eia~~~~i~~~~------v~~il~~L~~~gli~~~~g----~~ggy~l~~~~   71 (132)
T TIGR00738        24 GPVSVKEIAERQGISRSY------LEKILRTLRRAGLVESVRG----PGGGYRLARPP   71 (132)
T ss_pred             CcCcHHHHHHHHCcCHHH------HHHHHHHHHHCCcEEeccC----CCCCccCCCCH
Confidence            589999999999999876      9999999999999987531    13568776543

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.

>smart00418 HTH_ARSR helix_turn_helix, Arsenical Resistance Operon Repressor

Probab=92.97  E-value=0.15  Score=33.35  Aligned_cols=54  Identities=17%  Similarity=0.311  Sum_probs=41.5

Q ss_pred             hhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCch
Q 042491           38 LADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQ  102 (266)
Q Consensus        38 lfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~  102 (266)
                      |+..|..  ++.|..+|++.++++...      +.+.++.|...|++.....   .+...|.+|.
T Consensus         2 il~~l~~--~~~~~~~i~~~l~is~~~------v~~~l~~L~~~g~i~~~~~---~~~~~~~~~~   55 (66)
T smart00418        2 ILKLLAE--GELCVCELAEILGLSQST------VSHHLKKLREAGLVESRRE---GKRVYYSLTD   55 (66)
T ss_pred             HHHHhhc--CCccHHHHHHHHCCCHHH------HHHHHHHHHHCCCeeeeec---CCEEEEEEch
Confidence            4555653  789999999999998877      9999999999999986551   1134566665

>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=92.79  E-value=0.065  Score=36.42  Aligned_cols=41  Identities=22%  Similarity=0.374  Sum_probs=32.0

Q ss_pred             hhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           43 HCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        43 ~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      .++|-|-|+.|||+.+|+..     ...+.+.|+.|...|++.+..
T Consensus        20 ~~~G~~Pt~rEIa~~~g~~S-----~~tv~~~L~~Le~kG~I~r~~   60 (65)
T PF01726_consen   20 EENGYPPTVREIAEALGLKS-----TSTVQRHLKALERKGYIRRDP   60 (65)
T ss_dssp             HHHSS---HHHHHHHHTSSS-----HHHHHHHHHHHHHTTSEEEGC
T ss_pred             HHcCCCCCHHHHHHHhCCCC-----hHHHHHHHHHHHHCcCccCCC
Confidence            34567889999999999972     234999999999999999886

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.

>TIGR00122 birA_repr_reg BirA biotin operon repressor domain

Probab=92.66  E-value=0.1  Score=35.58  Aligned_cols=56  Identities=20%  Similarity=0.216  Sum_probs=43.5

Q ss_pred             hcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhc
Q 042491           35 ELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQIS  104 (266)
Q Consensus        35 elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s  104 (266)
                      ++.++..|.+  ++.|..+||+.+|++...      +.+-++.|...|+.....      ...|++.+..
T Consensus         2 ~~~il~~L~~--~~~~~~eLa~~l~vS~~t------v~~~l~~L~~~g~~i~~~------~~g~~l~~~~   57 (69)
T TIGR00122         2 PLRLLALLAD--NPFSGEKLGEALGMSRTA------VNKHIQTLREWGVDVLTV------GKGYRLPPPI   57 (69)
T ss_pred             hHHHHHHHHc--CCcCHHHHHHHHCCCHHH------HHHHHHHHHHCCCeEEec------CCceEecCcc
Confidence            3457778886  689999999999999877      999999999999965443      1566665543

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.

>TIGR01610 phage_O_Nterm phage replication protein O, N-terminal domain

Probab=92.65  E-value=0.11  Score=37.94  Aligned_cols=44  Identities=14%  Similarity=0.191  Sum_probs=39.1

Q ss_pred             CCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCc
Q 042491           47 SPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLT  101 (266)
Q Consensus        47 ~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt  101 (266)
                      .++|..|||+.+|+++..      +.|.|..|...|++...+     |.+.|+.+
T Consensus        46 ~~is~~eLa~~~g~sr~t------Vsr~L~~Le~~GlI~r~~-----~~~~~~~n   89 (95)
T TIGR01610        46 DRVTATVIAELTGLSRTH------VSDAIKSLARRRIIFRQG-----MMGIVGVN   89 (95)
T ss_pred             CccCHHHHHHHHCcCHHH------HHHHHHHHHHCCCeeeec-----CCceeecC
Confidence            689999999999999877      999999999999999877     35778776

This model represents the N-terminal region of the phage lambda replication protein O and homologous regions of other phage proteins.

>smart00529 HTH_DTXR Helix-turn-helix diphteria tox regulatory element

Probab=92.56  E-value=0.14  Score=37.12  Aligned_cols=46  Identities=22%  Similarity=0.315  Sum_probs=40.2

Q ss_pred             HHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           51 LPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        51 ~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      +.+||+.+++++..      +.+.++-|...|++....      ...|.+|+.+..+.
T Consensus         2 ~~ela~~l~is~st------vs~~l~~L~~~glI~r~~------~~~~~lT~~g~~~~   47 (96)
T smart00529        2 TSEIAERLNVSPPT------VTQMLKKLEKDGLVEYEP------YRGITLTEKGRRLA   47 (96)
T ss_pred             HHHHHHHhCCChHH------HHHHHHHHHHCCCEEEcC------CCceEechhHHHHH
Confidence            56899999999877      999999999999999987      35899999886544

iron dependent repressor

>smart00344 HTH_ASNC helix_turn_helix ASNC type

Probab=92.53  E-value=0.099  Score=38.85  Aligned_cols=48  Identities=17%  Similarity=0.292  Sum_probs=41.6

Q ss_pred             HhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           34 VELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        34 ~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      .+..|+..|... ++.|..+||+.+|+++..      +.+.++.|...|++....
T Consensus         4 ~D~~il~~L~~~-~~~~~~~la~~l~~s~~t------v~~~l~~L~~~g~i~~~~   51 (108)
T smart00344        4 IDRKILEELQKD-ARISLAELAKKVGLSPST------VHNRVKRLEEEGVIKGYT   51 (108)
T ss_pred             HHHHHHHHHHHh-CCCCHHHHHHHHCcCHHH------HHHHHHHHHHCCCeeceE
Confidence            456788888874 689999999999999887      999999999999998543

AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli

>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=92.52  E-value=0.037  Score=36.40  Aligned_cols=47  Identities=30%  Similarity=0.455  Sum_probs=38.7

Q ss_pred             hcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           35 ELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        35 elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      ++.++..|... +++|..+||+.+++++..      +.++++-|...|++.+..
T Consensus         5 q~~iL~~l~~~-~~~~~~~la~~~~~~~~~------~t~~i~~L~~~g~I~r~~   51 (59)
T PF01047_consen    5 QFRILRILYEN-GGITQSELAEKLGISRST------VTRIIKRLEKKGLIERER   51 (59)
T ss_dssp             HHHHHHHHHHH-SSEEHHHHHHHHTS-HHH------HHHHHHHHHHTTSEEEEE
T ss_pred             HHHHHHHHHHc-CCCCHHHHHHHHCCChhH------HHHHHHHHHHCCCEEecc
Confidence            34455566665 679999999999998776      999999999999998876

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 ....

>COG0275 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]

Probab=92.50  E-value=0.38  Score=42.57  Aligned_cols=65  Identities=22%  Similarity=0.238  Sum_probs=53.9

Q ss_pred             HHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCe-EEEeec-HHHHhhCCC-----CCCeEEEEccCCC
Q 042491          180 STLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIK-GVNFDL-PHVVATAPV-----YEGVSHVGGDMLN  246 (266)
Q Consensus       180 ~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~-~~~~Dl-p~v~~~a~~-----~~ri~~~~gd~~~  246 (266)
                      ..+++.+.  .......||.==|.|.++..+++++|... .+++|. |.+++.+++     .+|++++.++|-+
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            34555555  44558999999999999999999999875 999999 888888775     6799999998876

>PF05219 DREV: DREV methyltransferase; InterPro: IPR007884 This family contains DREV protein homologues from several eukaryotes

Probab=92.48  E-value=0.19  Score=43.58  Aligned_cols=68  Identities=16%  Similarity=0.235  Sum_probs=48.5

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCCCCCeEEEEccCCCCCC-CccEEEecccccc
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPVYEGVSHVGGDMLNAVP-NADAVFMKVIVLI  262 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~~ri~~~~gd~~~~~p-~aD~~~l~~vLHd  262 (266)
                      +..++||||.|.|.....++..+.++.+|  +. +.+....+ ..+++++..|=+..-+ .+|+|.+-|+|--
T Consensus        94 ~~~~lLDlGAGdG~VT~~l~~~f~~v~aT--E~S~~Mr~rL~-~kg~~vl~~~~w~~~~~~fDvIscLNvLDR  163 (265)
T PF05219_consen   94 KDKSLLDLGAGDGEVTERLAPLFKEVYAT--EASPPMRWRLS-KKGFTVLDIDDWQQTDFKFDVISCLNVLDR  163 (265)
T ss_pred             cCCceEEecCCCcHHHHHHHhhcceEEee--cCCHHHHHHHH-hCCCeEEehhhhhccCCceEEEeehhhhhc
Confidence            45799999999999999999999986665  43 33333333 3556666655444333 4999999999853

The function of this protein is unknown []. However, these proteins appear to be related to other methyltransferases.

>PF01728 FtsJ: FtsJ-like methyltransferase; InterPro: IPR002877 RrmJ (FtsJ) is a well conserved heat shock protein present in prokaryotes, archaea, and eukaryotes

Probab=92.35  E-value=0.25  Score=40.21  Aligned_cols=61  Identities=23%  Similarity=0.294  Sum_probs=41.7

Q ss_pred             HHHhhcccCCC--CCceEEEecCCchHHHHHHHHHC-CCCeEEEeecHHHHhhCCCCCCeEEEEccCCC
Q 042491          181 TLLSHYKDGFD--GIRSLVDVGGGTGEELAEIVEFY-PHIKGVNFDLPHVVATAPVYEGVSHVGGDMLN  246 (266)
Q Consensus       181 ~~~~~~~~~~~--~~~~vvDvGgG~G~~~~~l~~~~-P~l~~~~~Dlp~v~~~a~~~~ri~~~~gd~~~  246 (266)
                      ++.+.|+ .++  +..++||+||++|.+...++++. +..+++.+|+...-+    ...+..+.||+.+
T Consensus        11 ei~~~~~-~~~~~~~~~vlDlG~aPGGws~~~~~~~~~~~~v~avDl~~~~~----~~~~~~i~~d~~~   74 (181)
T PF01728_consen   11 EIDEKFK-IFKPGKGFTVLDLGAAPGGWSQVLLQRGGPAGRVVAVDLGPMDP----LQNVSFIQGDITN   74 (181)
T ss_dssp             HHHHTTS-SS-TTTTEEEEEET-TTSHHHHHHHTSTTTEEEEEEEESSSTGS-----TTEEBTTGGGEE
T ss_pred             HHHHHCC-CCCcccccEEEEcCCcccceeeeeeecccccceEEEEecccccc----ccceeeeecccch
Confidence            4556665 122  45899999999999999999998 778999999965522    2334444555443

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 ....

>PRK06266 transcription initiation factor E subunit alpha; Validated

Probab=92.08  E-value=0.23  Score=40.80  Aligned_cols=46  Identities=11%  Similarity=0.113  Sum_probs=40.4

Q ss_pred             cChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           36 LRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        36 lglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      ..|+++|..+ +.+|.+|||+.+|++...      ++++|..|...|++....
T Consensus        25 ~~Vl~~L~~~-g~~tdeeLA~~Lgi~~~~------VRk~L~~L~e~gLv~~~r   70 (178)
T PRK06266         25 FEVLKALIKK-GEVTDEEIAEQTGIKLNT------VRKILYKLYDARLADYKR   70 (178)
T ss_pred             hHHHHHHHHc-CCcCHHHHHHHHCCCHHH------HHHHHHHHHHCCCeEEee
Confidence            3488988875 689999999999999877      999999999999998544

>PF02384 N6_Mtase: N-6 DNA Methylase; InterPro: IPR003356 This domain is fpound in N-6 adenine-specific DNA methylase (2

Probab=92.06  E-value=0.39  Score=42.67  Aligned_cols=68  Identities=22%  Similarity=0.284  Sum_probs=46.2

Q ss_pred             CCCCceEEEecCCchHHHHHHHHH-------CCCCeEEEeec-HHHHhhCC------C--CCCeEEEEccCCCC--CC--
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEF-------YPHIKGVNFDL-PHVVATAP------V--YEGVSHVGGDMLNA--VP--  249 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~-------~P~l~~~~~Dl-p~v~~~a~------~--~~ri~~~~gd~~~~--~p--  249 (266)
                      -....+|+|-.||+|.++.++.+.       .+..+..++|. +.++..+.      .  ........+|.+..  ..  
T Consensus        44 ~~~~~~VlDPacGsG~fL~~~~~~i~~~~~~~~~~~i~G~ei~~~~~~la~~nl~l~~~~~~~~~i~~~d~l~~~~~~~~  123 (311)
T PF02384_consen   44 PKKGDSVLDPACGSGGFLVAAMEYIKEKRNKIKEINIYGIEIDPEAVALAKLNLLLHGIDNSNINIIQGDSLENDKFIKN  123 (311)
T ss_dssp             T-TTEEEEETT-TTSHHHHHHHHHHHTCHHHHCCEEEEEEES-HHHHHHHHHHHHHTTHHCBGCEEEES-TTTSHSCTST
T ss_pred             ccccceeechhhhHHHHHHHHHHhhcccccccccceeEeecCcHHHHHHHHhhhhhhccccccccccccccccccccccc
Confidence            345578999999999999998875       48888999998 44443322      1  33356888998873  32  


Q ss_pred             -CccEEEec
Q 042491          250 -NADAVFMK  257 (266)
Q Consensus       250 -~aD~~~l~  257 (266)
                       .+|++++.
T Consensus       124 ~~~D~ii~N  132 (311)
T PF02384_consen  124 QKFDVIIGN  132 (311)
T ss_dssp             --EEEEEEE
T ss_pred             cccccccCC
Confidence             49998864

1.1.72 from EC) from Type I and Type IC restriction systems. These enzymes are responsible for the methylation of specific DNA sequences in order to prevent the host from digesting its own genome via its restriction enzymes. These methylases have the same sequence specificity as their corresponding restriction enzymes. The type I restriction and modification system is composed of three polypeptides R, M and S. The M and S subunits together form a methyltransferase that methylates two adenine residues in complementary strands of a bipartite DNA recognition sequence. In the presence of the R subunit, the complex can also act as an endonuclease, binding to the same target sequence but cutting the DNA some distance from this site. Whether the DNA is cut or modified depends on the methylation state of the target sequence. When the target site is unmodified, the DNA is cut. When the target site is hemimethylated, the complex acts as a maintenance methyltransferase, modifying the DNA so that both strands become methylated.; GO: 0003677 DNA binding, 0008170 N-methyltransferase activity, 0006306 DNA methylation; PDB: 2F8L_A 2Y7C_C 2Y7H_C 2AR0_B 3KHK_A 3LKD_A 2OKC_B.

>PRK10870 transcriptional repressor MprA; Provisional

Probab=92.05  E-value=0.19  Score=41.12  Aligned_cols=68  Identities=21%  Similarity=0.236  Sum_probs=51.4

Q ss_pred             cChhhHhhhC-CCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhhc
Q 042491           36 LRLADIMHCH-GSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLLR  109 (266)
Q Consensus        36 lglfd~L~~~-g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~~  109 (266)
                      +.++-.|... ++++|..|||+.++++...      +.+++.-|...|++.+....++...-.+++|+.++.+..
T Consensus        58 ~~iL~~L~~~~~~~it~~eLa~~l~l~~~t------vsr~v~rLe~kGlV~R~~~~~DrR~~~v~LT~~G~~~~~  126 (176)
T PRK10870         58 FMALITLESQENHSIQPSELSCALGSSRTN------ATRIADELEKRGWIERRESDNDRRCLHLQLTEKGHEFLR  126 (176)
T ss_pred             HHHHHHHhcCCCCCcCHHHHHHHHCCCHHH------HHHHHHHHHHCCCEEecCCCCCCCeeEEEECHHHHHHHH
Confidence            4455566532 2578999999999999877      999999999999999887432223346889999876553

>COG3897 Predicted methyltransferase [General function prediction only]

Probab=92.01  E-value=0.65  Score=38.66  Aligned_cols=74  Identities=14%  Similarity=0.168  Sum_probs=52.2

Q ss_pred             CCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-----CCCeEEEEccCCCCCCCccEEEeccccccC
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-----YEGVSHVGGDMLNAVPNADAVFMKVIVLIQ  263 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-----~~ri~~~~gd~~~~~p~aD~~~l~~vLHd~  263 (266)
                      +-..++|+|.|.|+|..+++.++.--. .++.-|. |..+..++-     .-.|.+..-|..-+-|++|++++..++.+.
T Consensus        77 tVrgkrVLd~gagsgLvaIAaa~aGA~-~v~a~d~~P~~~~ai~lNa~angv~i~~~~~d~~g~~~~~Dl~LagDlfy~~  155 (218)
T COG3897          77 TVRGKRVLDLGAGSGLVAIAAARAGAA-EVVAADIDPWLEQAIRLNAAANGVSILFTHADLIGSPPAFDLLLAGDLFYNH  155 (218)
T ss_pred             ccccceeeecccccChHHHHHHHhhhH-HHHhcCCChHHHHHhhcchhhccceeEEeeccccCCCcceeEEEeeceecCc
Confidence            446799999999999999888777433 3333333 554444332     345788888877755569999999998875


Q ss_pred             C
Q 042491          264 D  264 (266)
Q Consensus       264 ~  264 (266)
                      +
T Consensus       156 ~  156 (218)
T COG3897         156 T  156 (218)
T ss_pred             h
Confidence            4

>COG4189 Predicted transcriptional regulator [Transcription]

Probab=91.98  E-value=0.23  Score=42.21  Aligned_cols=57  Identities=16%  Similarity=0.350  Sum_probs=50.4

Q ss_pred             HHHHHHHHHHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           25 ADSMALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        25 ~~~~~L~~a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      -..++|...++..|+++|+.. +|+.+.|||+++|+++..      +..-+..|...|++....
T Consensus        15 dv~kalaS~vRv~Il~lL~~k-~plNvneiAe~lgLpqst------~s~~ik~Le~aGlirT~t   71 (308)
T COG4189          15 DVLKALASKVRVAILQLLHRK-GPLNVNEIAEALGLPQST------MSANIKVLEKAGLIRTET   71 (308)
T ss_pred             hHHHHHHHHHHHHHHHHHHHh-CCCCHHHHHHHhCCchhh------hhhhHHHHHhcCceeeee
Confidence            356788889999999999984 799999999999999877      999999999999997654

>TIGR02987 met_A_Alw26 type II restriction m6 adenine DNA methyltransferase, Alw26I/Eco31I/Esp3I family

Probab=91.97  E-value=0.22  Score=47.88  Aligned_cols=65  Identities=14%  Similarity=0.154  Sum_probs=44.2

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCC--------CeEEEeec-HHHHhhCCC----C--CCeEEEEccCCCC--------C
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPH--------IKGVNFDL-PHVVATAPV----Y--EGVSHVGGDMLNA--------V  248 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~--------l~~~~~Dl-p~v~~~a~~----~--~ri~~~~gd~~~~--------~  248 (266)
                      ...+|+|.|||+|.++.+++++.+.        +...++|+ |.+++.++.    .  -.++...+|+...        .
T Consensus        31 ~~~~ilDP~cGsG~fl~~~~~~~~~~~~~~~~~~~i~g~DId~~a~~~a~~~l~~~~~~~~~i~~~d~l~~~~~~~~~~~  110 (524)
T TIGR02987        31 TKTKIIDPCCGDGRLIAALLKKNEEINYFKEVELNIYFADIDKTLLKRAKKLLGEFALLEINVINFNSLSYVLLNIESYL  110 (524)
T ss_pred             cceEEEeCCCCccHHHHHHHHHHHhcCCcccceeeeeeechhHHHHHHHHHHHhhcCCCCceeeeccccccccccccccc
Confidence            4569999999999999999988863        45678887 444443332    1  2456666665541        1


Q ss_pred             CCccEEEe
Q 042491          249 PNADAVFM  256 (266)
Q Consensus       249 p~aD~~~l  256 (266)
                      +.||+|+.
T Consensus       111 ~~fD~IIg  118 (524)
T TIGR02987       111 DLFDIVIT  118 (524)
T ss_pred             CcccEEEe
Confidence            24898875

Members of this family are the m6-adenine DNA methyltransferase protein, or domain of a fusion protein that also carries m5 cytosine methyltransferase activity, of type II restriction systems of the Alw26I/Eco31I/Esp3I family. A methyltransferase of this family is alway accompanied by a type II restriction endonuclease from the Alw26I/Eco31I/Esp3I family (TIGR02986) and by an adenine-specific modification methyltransferase. Members of this family are unusual in that regions of similarity to homologs outside this family are circularly permuted.

>PF06163 DUF977: Bacterial protein of unknown function (DUF977); InterPro: IPR010382 This entry consists of several hypothetical bacterial proteins of unknown function

Probab=91.95  E-value=0.16  Score=38.83  Aligned_cols=51  Identities=25%  Similarity=0.438  Sum_probs=44.5

Q ss_pred             HHHHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           31 KSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        31 ~~a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      +..+...|.+.+.++ |.+|..|++..+|++-..      +.++++-|++.|-|...+
T Consensus        10 r~eLk~rIvElVRe~-GRiTi~ql~~~TGasR~T------vk~~lreLVa~G~l~~~G   60 (127)
T PF06163_consen   10 REELKARIVELVREH-GRITIKQLVAKTGASRNT------VKRYLRELVARGDLYRHG   60 (127)
T ss_pred             HHHHHHHHHHHHHHc-CCccHHHHHHHHCCCHHH------HHHHHHHHHHcCCeEeCC
Confidence            345566788888887 799999999999998766      999999999999999987

>KOG3045 consensus Predicted RNA methylase involved in rRNA processing [RNA processing and modification]

Probab=91.82  E-value=0.5  Score=41.04  Aligned_cols=94  Identities=15%  Similarity=0.174  Sum_probs=55.8

Q ss_pred             cchhcccCchHHHHHHHHHHh----hhHHHHHHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeecHHHH
Q 042491          153 MWDFASQNSQFNNSFNKAMAC----TAKIVMSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVV  228 (266)
Q Consensus       153 ~~~~~~~~~~~~~~f~~~m~~----~~~~~~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp~v~  228 (266)
                      .+..+.++|..-..|+++.+.    +-..-...++..+. .-++...|-|+|||.+.++.    .-+ -++.-|||-.+-
T Consensus       138 A~~lfkedp~afdlYH~gfr~QV~kWP~nPld~ii~~ik-~r~~~~vIaD~GCGEakiA~----~~~-~kV~SfDL~a~~  211 (325)
T KOG3045|consen  138 AFDLFKEDPTAFDLYHAGFRSQVKKWPENPLDVIIRKIK-RRPKNIVIADFGCGEAKIAS----SER-HKVHSFDLVAVN  211 (325)
T ss_pred             HHHHHhcCcHHHHHHHHHHHHHHHhCCCChHHHHHHHHH-hCcCceEEEecccchhhhhh----ccc-cceeeeeeecCC
Confidence            344556677655555554432    22222344555544 12467899999999999887    112 257778875432


Q ss_pred             hhCCCCCCeEEEEccCCC-CCCC--ccEEEecccc
Q 042491          229 ATAPVYEGVSHVGGDMLN-AVPN--ADAVFMKVIV  260 (266)
Q Consensus       229 ~~a~~~~ri~~~~gd~~~-~~p~--aD~~~l~~vL  260 (266)
                      +        ++++.||-+ |++.  .|+.+++--|
T Consensus       212 ~--------~V~~cDm~~vPl~d~svDvaV~CLSL  238 (325)
T KOG3045|consen  212 E--------RVIACDMRNVPLEDESVDVAVFCLSL  238 (325)
T ss_pred             C--------ceeeccccCCcCccCcccEEEeeHhh
Confidence            2        456778888 6552  7877665443

>PRK06474 hypothetical protein; Provisional

Probab=91.74  E-value=0.17  Score=41.52  Aligned_cols=72  Identities=15%  Similarity=0.283  Sum_probs=52.6

Q ss_pred             HHHHHHHHhcChhhHhhhCCCCCCHHHHHhhc-CCCCCCCCchhhHHHHHHHHhccCcccccccCC-CCC-CceEeCchh
Q 042491           27 SMALKSAVELRLADIMHCHGSPITLPQLASGI-NSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSD-GSE-ETMYGLTQI  103 (266)
Q Consensus        27 ~~~L~~a~elglfd~L~~~g~~~t~~eLA~~~-g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~-~~g-~~~y~lt~~  103 (266)
                      ..+|.-..++.|++.|...+++.|+.||++.+ +++...      +.|.|+.|...|++....... .++ +..|++++.
T Consensus         5 ~~~La~p~R~~Il~~L~~~~~~~ta~el~~~l~~is~aT------vYrhL~~L~e~GLI~~~~~~~~~~~~ek~y~~~~~   78 (178)
T PRK06474          5 AEILMHPVRMKICQVLMRNKEGLTPLELVKILKDVPQAT------LYRHLQTMVDSGILHVVKEKKVRSVSEKYYAINEE   78 (178)
T ss_pred             HHhhCCHHHHHHHHHHHhCCCCCCHHHHHHHhcCCCHHH------HHHHHHHHHHCCCEEEeecccccCceeEEEEeccc
Confidence            34566667888999998754459999999999 566555      999999999999999865210 001 234778775


Q ss_pred             c
Q 042491          104 S  104 (266)
Q Consensus       104 s  104 (266)
                      +
T Consensus        79 ~   79 (178)
T PRK06474         79 D   79 (178)
T ss_pred             e
Confidence            5

>PRK13777 transcriptional regulator Hpr; Provisional

Probab=91.74  E-value=0.31  Score=40.30  Aligned_cols=66  Identities=15%  Similarity=0.100  Sum_probs=51.3

Q ss_pred             cChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           36 LRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        36 lglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      +.+.-.|... +++|..+||+.++++...      +.++++-|...|++.+....++...-...+|+.++.+.
T Consensus        48 ~~iL~~L~~~-~~itq~eLa~~l~l~~sT------vtr~l~rLE~kGlI~R~~~~~DrR~~~I~LTekG~~l~  113 (185)
T PRK13777         48 HHILWIAYHL-KGASISEIAKFGVMHVST------AFNFSKKLEERGYLTFSKKEDDKRNTYIELTEKGEELL  113 (185)
T ss_pred             HHHHHHHHhC-CCcCHHHHHHHHCCCHhh------HHHHHHHHHHCCCEEecCCCCCCCeeEEEECHHHHHHH
Confidence            4566777664 689999999999998776      99999999999999987532222334588999987655

>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=91.67  E-value=0.21  Score=36.16  Aligned_cols=68  Identities=19%  Similarity=0.265  Sum_probs=50.1

Q ss_pred             HHHhcChhhHhhhC-CCCCCHHHHHhhcCCCCCCCCchhhHHHHHHH----------HhccCcc-cccccCCCCCCceEe
Q 042491           32 SAVELRLADIMHCH-GSPITLPQLASGINSSCPDVHIIPSLTRIMRM----------LVRKGVF-AAHRSSDGSEETMYG   99 (266)
Q Consensus        32 ~a~elglfd~L~~~-g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~----------L~~~gil-~~~~~~~~~g~~~y~   99 (266)
                      .=++.+|+..|... ..+.++.|||..+++++..      +..-|+-          |+.+|++ .+...   .|...|+
T Consensus         8 S~~R~~vl~~L~~~yp~~~~~~eIar~v~~~~sn------V~GaL~G~g~rY~~e~SLv~lGLV~~~~~~---~g~k~Y~   78 (90)
T PF07381_consen    8 SKVRKKVLEYLCSIYPEPAYPSEIARSVGSDYSN------VLGALRGDGKRYNKEDSLVGLGLVEEEEEK---GGFKYYR   78 (90)
T ss_pred             HHHHHHHHHHHHHcCCCcCCHHHHHHHHCCCHHH------HHHHHhcCCCCcCcchhHHHcCCeeEeeec---CCeeEEE
Confidence            44567788888776 4789999999999999876      6666654          8899999 33331   1345799


Q ss_pred             Cchhchhhh
Q 042491          100 LTQISKWLL  108 (266)
Q Consensus       100 lt~~s~~l~  108 (266)
                      +|+.++.++
T Consensus        79 lT~~G~~~~   87 (90)
T PF07381_consen   79 LTEKGKRIA   87 (90)
T ss_pred             eChhhhhHH
Confidence            999886543

The function of this family is unknown, although one sequence (Q8U3W1 from SWISSPROT) is described as a putative HTH transcription regulator.

>KOG4589 consensus Cell division protein FtsJ [Cell cycle control, cell division, chromosome partitioning]

Probab=91.63  E-value=0.7  Score=38.25  Aligned_cols=40  Identities=20%  Similarity=0.241  Sum_probs=33.3

Q ss_pred             CCCCceEEEecCCchHHHHHHHHHC-CCCeEEEeecHHHHh
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEFY-PHIKGVNFDLPHVVA  229 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~~-P~l~~~~~Dlp~v~~  229 (266)
                      +....+|+|+|+-.|.++.-..++. |+-.+.++|+-.+.+
T Consensus        67 l~p~~~VlD~G~APGsWsQVavqr~~p~g~v~gVDllh~~p  107 (232)
T KOG4589|consen   67 LRPEDTVLDCGAAPGSWSQVAVQRVNPNGMVLGVDLLHIEP  107 (232)
T ss_pred             cCCCCEEEEccCCCChHHHHHHHhhCCCceEEEEeeeeccC
Confidence            4567899999999999998887776 999999999855443

>cd07377 WHTH_GntR Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators

Probab=91.53  E-value=0.33  Score=32.07  Aligned_cols=34  Identities=18%  Similarity=0.218  Sum_probs=30.2

Q ss_pred             CCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           49 ITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        49 ~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      .|..+||+.++++...      +.+.+..|...|++....
T Consensus        26 ~~~~~la~~~~is~~~------v~~~l~~L~~~G~i~~~~   59 (66)
T cd07377          26 PSERELAEELGVSRTT------VREALRELEAEGLVERRP   59 (66)
T ss_pred             CCHHHHHHHHCCCHHH------HHHHHHHHHHCCCEEecC
Confidence            3599999999998776      999999999999998665

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

>PRK11014 transcriptional repressor NsrR; Provisional

Probab=91.29  E-value=0.21  Score=39.27  Aligned_cols=47  Identities=19%  Similarity=0.262  Sum_probs=39.1

Q ss_pred             CCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCch
Q 042491           46 GSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQ  102 (266)
Q Consensus        46 g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~  102 (266)
                      |.+.|..+||+.+|+++..      ++++|+.|...|+++-....    .|.|.++.
T Consensus        23 g~~~s~~~ia~~~~is~~~------vrk~l~~L~~~Glv~s~~G~----~GG~~l~~   69 (141)
T PRK11014         23 GRMTSISEVTEVYGVSRNH------MVKIINQLSRAGYVTAVRGK----NGGIRLGK   69 (141)
T ss_pred             CCccCHHHHHHHHCcCHHH------HHHHHHHHHhCCEEEEecCC----CCCeeecC
Confidence            4678999999999999876      99999999999999888721    35677754

>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=91.28  E-value=0.15  Score=42.00  Aligned_cols=64  Identities=14%  Similarity=0.159  Sum_probs=46.0

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCC---C--C--CccEEEe
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNA---V--P--NADAVFM  256 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~---~--p--~aD~~~l  256 (266)
                      ...++||+=||+|.++.+.+.+.-. +++.+|. +..+..+++       .++++.+.+|.+..   .  +  .+|+|++
T Consensus        42 ~g~~vLDLFaGSGalGlEALSRGA~-~v~fVE~~~~a~~~i~~N~~~l~~~~~~~v~~~d~~~~l~~~~~~~~~fDiIfl  120 (183)
T PF03602_consen   42 EGARVLDLFAGSGALGLEALSRGAK-SVVFVEKNRKAIKIIKKNLEKLGLEDKIRVIKGDAFKFLLKLAKKGEKFDIIFL  120 (183)
T ss_dssp             TT-EEEETT-TTSHHHHHHHHTT-S-EEEEEES-HHHHHHHHHHHHHHT-GGGEEEEESSHHHHHHHHHHCTS-EEEEEE
T ss_pred             CCCeEEEcCCccCccHHHHHhcCCC-eEEEEECCHHHHHHHHHHHHHhCCCcceeeeccCHHHHHHhhcccCCCceEEEE
Confidence            4589999999999999999998643 7888887 555554443       46799999997662   2  2  3999986

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.

>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=91.22  E-value=0.44  Score=33.46  Aligned_cols=52  Identities=17%  Similarity=0.106  Sum_probs=42.7

Q ss_pred             CCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccc-cccCCCCCCceEeCchhch-hhh
Q 042491           46 GSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAA-HRSSDGSEETMYGLTQISK-WLL  108 (266)
Q Consensus        46 g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~-~~~~~~~g~~~y~lt~~s~-~l~  108 (266)
                      +.|+...+||+.+++++.-      ++..|..|..+|+++. ...     .+.|..|..+. ++.
T Consensus        21 ~~PVgSk~ia~~l~~s~aT------IRN~M~~Le~lGlve~~p~~-----s~GriPT~~aYr~~~   74 (78)
T PF03444_consen   21 GEPVGSKTIAEELGRSPAT------IRNEMADLEELGLVESQPHP-----SGGRIPTDKAYRALN   74 (78)
T ss_pred             CCCcCHHHHHHHHCCChHH------HHHHHHHHHHCCCccCCCCC-----CCCCCcCHHHHHHHc
Confidence            5899999999999998766      9999999999999984 443     37788888773 443

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

>COG1959 Predicted transcriptional regulator [Transcription]

Probab=91.20  E-value=0.19  Score=40.08  Aligned_cols=47  Identities=21%  Similarity=0.311  Sum_probs=40.1

Q ss_pred             CCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchh
Q 042491           47 SPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQI  103 (266)
Q Consensus        47 ~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~  103 (266)
                      ++.|.++||+..|+++.-      |.+++..|...|+++-....    .|.|+|+.-
T Consensus        24 ~~~s~~~IA~~~~is~~~------L~kil~~L~kaGlV~S~rG~----~GGy~Lar~   70 (150)
T COG1959          24 GPVSSAEIAERQGISPSY------LEKILSKLRKAGLVKSVRGK----GGGYRLARP   70 (150)
T ss_pred             CcccHHHHHHHhCcCHHH------HHHHHHHHHHcCCEEeecCC----CCCccCCCC
Confidence            389999999999999755      99999999999999988731    578888764

>COG0116 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]

Probab=91.00  E-value=0.7  Score=42.36  Aligned_cols=68  Identities=19%  Similarity=0.188  Sum_probs=52.6

Q ss_pred             CCCCceEEEecCCchHHHHHHHHHCCCC---------------------------------------eEEEeec-HHHHh
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEFYPHI---------------------------------------KGVNFDL-PHVVA  229 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~~P~l---------------------------------------~~~~~Dl-p~v~~  229 (266)
                      |...+.++|-=||+|+++++.+...+++                                       ..++.|. |.+++
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            6566899999999999999988888652                                       1568887 77776


Q ss_pred             hCCC-------CCCeEEEEccCCC-CCC--CccEEEec
Q 042491          230 TAPV-------YEGVSHVGGDMLN-AVP--NADAVFMK  257 (266)
Q Consensus       230 ~a~~-------~~ri~~~~gd~~~-~~p--~aD~~~l~  257 (266)
                      .|+.       .+.|+|..+|+.. +-|  ++|++++.
T Consensus       269 ~Ak~NA~~AGv~d~I~f~~~d~~~l~~~~~~~gvvI~N  306 (381)
T COG0116         269 GAKANARAAGVGDLIEFKQADATDLKEPLEEYGVVISN  306 (381)
T ss_pred             HHHHHHHhcCCCceEEEEEcchhhCCCCCCcCCEEEeC
Confidence            6553       6889999999886 333  58888764

>PF10007 DUF2250: Uncharacterized protein conserved in archaea (DUF2250); InterPro: IPR019254 Members of this family of hypothetical archaeal proteins have no known function

Probab=90.99  E-value=0.23  Score=36.10  Aligned_cols=48  Identities=10%  Similarity=0.218  Sum_probs=42.5

Q ss_pred             HhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           34 VELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        34 ~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      .++.|..+|... +|-.+.-||..++++...      +...|+-|..+|++++..
T Consensus         8 l~~~IL~hl~~~-~~Dy~k~ia~~l~~~~~~------v~~~l~~Le~~GLler~~   55 (92)
T PF10007_consen    8 LDLKILQHLKKA-GPDYAKSIARRLKIPLEE------VREALEKLEEMGLLERVE   55 (92)
T ss_pred             hHHHHHHHHHHH-CCCcHHHHHHHHCCCHHH------HHHHHHHHHHCCCeEEec
Confidence            356678888875 788999999999999877      999999999999999998

>PF04672 Methyltransf_19: S-adenosyl methyltransferase; InterPro: IPR006764 This is a family of uncharacterised proteins

Probab=90.94  E-value=1  Score=39.28  Aligned_cols=74  Identities=26%  Similarity=0.354  Sum_probs=43.0

Q ss_pred             CCceEEEecCCchH---HHHHHHHHCCCCeEEEeec-HHHHhhCCC----CCC--eEEEEccCCCC---C--C---C-cc
Q 042491          192 GIRSLVDVGGGTGE---ELAEIVEFYPHIKGVNFDL-PHVVATAPV----YEG--VSHVGGDMLNA---V--P---N-AD  252 (266)
Q Consensus       192 ~~~~vvDvGgG~G~---~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~----~~r--i~~~~gd~~~~---~--p---~-aD  252 (266)
                      ++..+||||||.=+   .=.-..+..|+.+++=.|. |-|+.+++.    .++  ..++.+|+.+|   +  |   + -|
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            88999999998642   2233456689999999998 777777664    344  89999999984   2  2   1 23


Q ss_pred             -----EEEeccccccCCC
Q 042491          253 -----AVFMKVIVLIQDL  265 (266)
Q Consensus       253 -----~~~l~~vLHd~~~  265 (266)
                           .++|..|||.-+|
T Consensus       148 ~~rPVavll~~vLh~v~D  165 (267)
T PF04672_consen  148 FDRPVAVLLVAVLHFVPD  165 (267)
T ss_dssp             TTS--EEEECT-GGGS-C
T ss_pred             CCCCeeeeeeeeeccCCC
Confidence                 7899999998765

; PDB: 3GIW_A 3GO4_A 2QE6_A.

>smart00345 HTH_GNTR helix_turn_helix gluconate operon transcriptional repressor

Probab=90.89  E-value=0.24  Score=32.08  Aligned_cols=36  Identities=14%  Similarity=0.217  Sum_probs=32.1

Q ss_pred             CCC-CHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           47 SPI-TLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        47 ~~~-t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      ..+ |..+||+.+|++...      +.+.++.|...|++....
T Consensus        18 ~~l~s~~~la~~~~vs~~t------v~~~l~~L~~~g~i~~~~   54 (60)
T smart00345       18 DKLPSERELAAQLGVSRTT------VREALSRLEAEGLVQRRP   54 (60)
T ss_pred             CcCcCHHHHHHHHCCCHHH------HHHHHHHHHHCCCEEEec
Confidence            456 899999999998776      999999999999998765

>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=90.77  E-value=0.18  Score=32.52  Aligned_cols=42  Identities=21%  Similarity=0.286  Sum_probs=33.1

Q ss_pred             ChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcc
Q 042491           37 RLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVF   84 (266)
Q Consensus        37 glfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil   84 (266)
                      .|+..|..+++++|.++||+.++++.+.      +.+-+..|...|+.
T Consensus         4 ~il~~L~~~~~~it~~eLa~~l~vS~rT------i~~~i~~L~~~~~~   45 (55)
T PF08279_consen    4 QILKLLLESKEPITAKELAEELGVSRRT------IRRDIKELREWGIP   45 (55)
T ss_dssp             HHHHHHHHTTTSBEHHHHHHHCTS-HHH------HHHHHHHHHHTT-E
T ss_pred             HHHHHHHHcCCCcCHHHHHHHhCCCHHH------HHHHHHHHHHCCCe
Confidence            4566774444679999999999999876      99999999999933

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 ....

>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=90.76  E-value=0.15  Score=34.02  Aligned_cols=37  Identities=24%  Similarity=0.490  Sum_probs=33.1

Q ss_pred             CCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           46 GSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        46 g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      +++++..+||+.+|+.+..      +...++-|...|+++...
T Consensus        20 ~~~v~~~~iA~~L~vs~~t------vt~ml~~L~~~GlV~~~~   56 (60)
T PF01325_consen   20 GGPVRTKDIAERLGVSPPT------VTEMLKRLAEKGLVEYEP   56 (60)
T ss_dssp             TSSBBHHHHHHHHTS-HHH------HHHHHHHHHHTTSEEEET
T ss_pred             CCCccHHHHHHHHCCChHH------HHHHHHHHHHCCCEEecC
Confidence            5899999999999999776      999999999999998775

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 ....

>COG1846 MarR Transcriptional regulators [Transcription]

Probab=90.76  E-value=0.32  Score=36.27  Aligned_cols=70  Identities=20%  Similarity=0.283  Sum_probs=52.4

Q ss_pred             HHHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           32 SAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        32 ~a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      ...++.++..|... ++.+..+||+.+++++..      +.++++-|...|++.+....++...-.+.+|+.++.+.
T Consensus        21 t~~q~~~L~~l~~~-~~~~~~~la~~l~i~~~~------vt~~l~~Le~~glv~r~~~~~DrR~~~l~lT~~G~~~~   90 (126)
T COG1846          21 TPPQYQVLLALYEA-GGITVKELAERLGLDRST------VTRLLKRLEDKGLIERLRDPEDRRAVLVRLTEKGRELL   90 (126)
T ss_pred             CHHHHHHHHHHHHh-CCCcHHHHHHHHCCCHHH------HHHHHHHHHHCCCeeecCCccccceeeEEECccHHHHH
Confidence            34456677777764 344449999999999887      99999999999999998843222344689999887544

>PF14394 DUF4423: Domain of unknown function (DUF4423)

Probab=90.66  E-value=0.27  Score=40.09  Aligned_cols=46  Identities=15%  Similarity=0.161  Sum_probs=41.2

Q ss_pred             CCCCHHHHHhhc--CCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhc
Q 042491           47 SPITLPQLASGI--NSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQIS  104 (266)
Q Consensus        47 ~~~t~~eLA~~~--g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s  104 (266)
                      +..++.+||+++  +++...      ++.-|..|...|++++.+      +|.|..|..+
T Consensus        38 ~~~d~~~iak~l~p~is~~e------v~~sL~~L~~~gli~k~~------~g~y~~t~~~   85 (171)
T PF14394_consen   38 FAPDPEWIAKRLRPKISAEE------VRDSLEFLEKLGLIKKDG------DGKYVQTDKS   85 (171)
T ss_pred             CCCCHHHHHHHhcCCCCHHH------HHHHHHHHHHCCCeEECC------CCcEEEecce
Confidence            334999999999  999888      999999999999999999      5899998866

>COG4190 Predicted transcriptional regulator [Transcription]

Probab=90.41  E-value=0.35  Score=37.34  Aligned_cols=56  Identities=18%  Similarity=0.296  Sum_probs=47.2

Q ss_pred             HHHHHHHHHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           26 DSMALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        26 ~~~~L~~a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      ..+.+-+--.+.|...|+.. +|.|..|+|+..|-+...      +.|-|+.|.-.|++....
T Consensus        57 ~la~vLsp~nleLl~~Ia~~-~P~Si~ElAe~vgRdv~n------vhr~Ls~l~~~GlI~fe~  112 (144)
T COG4190          57 DLARVLSPRNLELLELIAQE-EPASINELAELVGRDVKN------VHRTLSTLADLGLIFFEE  112 (144)
T ss_pred             HHHHHhChhHHHHHHHHHhc-CcccHHHHHHHhCcchHH------HHHHHHHHHhcCeEEEec
Confidence            34444445567788999875 899999999999999888      999999999999998776

>KOG1975 consensus mRNA cap methyltransferase [RNA processing and modification]

Probab=90.35  E-value=0.58  Score=41.87  Aligned_cols=78  Identities=18%  Similarity=0.297  Sum_probs=55.5

Q ss_pred             HHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeecHHH-HhhCCC--------CC----CeEEEEccCCCC
Q 042491          181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHV-VATAPV--------YE----GVSHVGGDMLNA  247 (266)
Q Consensus       181 ~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp~v-~~~a~~--------~~----ri~~~~gd~~~~  247 (266)
                      .+++.|.   +....++|+|||-|.-++-.-++--+ ..++.|+.+| |.++++        ..    .+.|+.+|=+..
T Consensus       109 ~LI~~y~---~~~~~~~~LgCGKGGDLlKw~kAgI~-~~igiDIAevSI~qa~~RYrdm~~r~~~~~f~a~f~~~Dc~~~  184 (389)
T KOG1975|consen  109 VLINLYT---KRGDDVLDLGCGKGGDLLKWDKAGIG-EYIGIDIAEVSINQARKRYRDMKNRFKKFIFTAVFIAADCFKE  184 (389)
T ss_pred             HHHHHHh---ccccccceeccCCcccHhHhhhhccc-ceEeeehhhccHHHHHHHHHHHHhhhhcccceeEEEEeccchh
Confidence            4556553   46678999999999998887766322 5788899665 555553        12    257888886652


Q ss_pred             -----C----CCccEEEecccccc
Q 042491          248 -----V----PNADAVFMKVIVLI  262 (266)
Q Consensus       248 -----~----p~aD~~~l~~vLHd  262 (266)
                           +    |.+|++-+--++|+
T Consensus       185 ~l~d~~e~~dp~fDivScQF~~HY  208 (389)
T KOG1975|consen  185 RLMDLLEFKDPRFDIVSCQFAFHY  208 (389)
T ss_pred             HHHHhccCCCCCcceeeeeeeEee
Confidence                 2    34999999999997

>PRK11920 rirA iron-responsive transcriptional regulator; Reviewed

Probab=90.18  E-value=0.26  Score=39.45  Aligned_cols=47  Identities=21%  Similarity=0.221  Sum_probs=39.8

Q ss_pred             CCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchh
Q 042491           47 SPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQI  103 (266)
Q Consensus        47 ~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~  103 (266)
                      +++|..+||+..++++.-      |.+++..|+..|++.-...    ..|.|+++.-
T Consensus        23 ~~~s~~eIA~~~~is~~~------L~kIl~~L~~aGlv~S~rG----~~GGy~La~~   69 (153)
T PRK11920         23 KLSRIPEIARAYGVSELF------LFKILQPLVEAGLVETVRG----RNGGVRLGRP   69 (153)
T ss_pred             CcCcHHHHHHHHCcCHHH------HHHHHHHHHHCCCEEeecC----CCCCeeecCC
Confidence            578999999999999765      9999999999999998872    1467887663

>COG5459 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]

Probab=90.14  E-value=0.12  Score=46.68  Aligned_cols=69  Identities=26%  Similarity=0.449  Sum_probs=45.0

Q ss_pred             CceEEEecCCchHHHHHHHHHCCCCe-EEEeec-H---HHHhhCCC---CCCeEEEEccCCC---CCCCccEEEeccccc
Q 042491          193 IRSLVDVGGGTGEELAEIVEFYPHIK-GVNFDL-P---HVVATAPV---YEGVSHVGGDMLN---AVPNADAVFMKVIVL  261 (266)
Q Consensus       193 ~~~vvDvGgG~G~~~~~l~~~~P~l~-~~~~Dl-p---~v~~~a~~---~~ri~~~~gd~~~---~~p~aD~~~l~~vLH  261 (266)
                      +++|||||-|.|+-+-++-.-+|+++ +++++. |   +|+.....   ..+......|+..   ++|.+|.|.+.-++|
T Consensus       114 pqsiLDvG~GPgtgl~A~n~i~Pdl~sa~ile~sp~lrkV~~tl~~nv~t~~td~r~s~vt~dRl~lp~ad~ytl~i~~~  193 (484)
T COG5459         114 PQSILDVGAGPGTGLWALNDIWPDLKSAVILEASPALRKVGDTLAENVSTEKTDWRASDVTEDRLSLPAADLYTLAIVLD  193 (484)
T ss_pred             cchhhccCCCCchhhhhhcccCCCchhhhhhccCHHHHHHHHHHHhhcccccCCCCCCccchhccCCCccceeehhhhhh
Confidence            47799999999999999999999996 566665 3   23332221   1222233445544   477788777665554

>KOG4058 consensus Uncharacterized conserved protein [Function unknown]

Probab=90.04  E-value=0.38  Score=38.20  Aligned_cols=69  Identities=20%  Similarity=0.250  Sum_probs=48.4

Q ss_pred             HHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCC-----C--CCCeEEEEccCCC-CCCC
Q 042491          180 STLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAP-----V--YEGVSHVGGDMLN-AVPN  250 (266)
Q Consensus       180 ~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~-----~--~~ri~~~~gd~~~-~~p~  250 (266)
                      ..++.-.+  -....+++|+|.|.|....+.++.. -.+.++.++ |..+.-.+     .  ..+.+|.--|+|+ ++..
T Consensus        62 ~nVLSll~--~n~~GklvDlGSGDGRiVlaaar~g-~~~a~GvELNpwLVaysrl~a~R~g~~k~trf~RkdlwK~dl~d  138 (199)
T KOG4058|consen   62 ENVLSLLR--GNPKGKLVDLGSGDGRIVLAAARCG-LRPAVGVELNPWLVAYSRLHAWRAGCAKSTRFRRKDLWKVDLRD  138 (199)
T ss_pred             HHHHHHcc--CCCCCcEEeccCCCceeehhhhhhC-CCcCCceeccHHHHHHHHHHHHHHhcccchhhhhhhhhhccccc
Confidence            34555555  3445899999999999988877775 456788888 54444332     1  6778888889888 5654


Q ss_pred             c
Q 042491          251 A  251 (266)
Q Consensus       251 a  251 (266)
                      +
T Consensus       139 y  139 (199)
T KOG4058|consen  139 Y  139 (199)
T ss_pred             c
Confidence            3

>PF00325 Crp: Bacterial regulatory proteins, crp family; InterPro: IPR001808 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif

Probab=89.69  E-value=0.13  Score=29.66  Aligned_cols=31  Identities=26%  Similarity=0.501  Sum_probs=24.6

Q ss_pred             CCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcc
Q 042491           48 PITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVF   84 (266)
Q Consensus        48 ~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil   84 (266)
                      ++|-+|||+.+|+..+-      +.|+|.-|...|++
T Consensus         2 ~mtr~diA~~lG~t~ET------VSR~l~~l~~~glI   32 (32)
T PF00325_consen    2 PMTRQDIADYLGLTRET------VSRILKKLERQGLI   32 (32)
T ss_dssp             E--HHHHHHHHTS-HHH------HHHHHHHHHHTTSE
T ss_pred             CcCHHHHHHHhCCcHHH------HHHHHHHHHHcCCC
Confidence            47889999999998765      99999999988874

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 ....

>TIGR00373 conserved hypothetical protein TIGR00373

Probab=89.46  E-value=0.32  Score=39.14  Aligned_cols=46  Identities=9%  Similarity=0.052  Sum_probs=39.4

Q ss_pred             cChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           36 LRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        36 lglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      ..|+++|..+ +.+|-+|||+.+|++...      ++++|..|...|++....
T Consensus        17 v~Vl~aL~~~-~~~tdEeLa~~Lgi~~~~------VRk~L~~L~e~~Lv~~~r   62 (158)
T TIGR00373        17 GLVLFSLGIK-GEFTDEEISLELGIKLNE------VRKALYALYDAGLADYKR   62 (158)
T ss_pred             HHHHHHHhcc-CCCCHHHHHHHHCCCHHH------HHHHHHHHHHCCCceeee
Confidence            4478888754 689999999999999877      999999999999996443

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.

>COG3432 Predicted transcriptional regulator [Transcription]

Probab=89.27  E-value=0.24  Score=36.19  Aligned_cols=62  Identities=24%  Similarity=0.413  Sum_probs=46.3

Q ss_pred             hhhHhh-hCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           38 LADIMH-CHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        38 lfd~L~-~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      +||.|. ..+++....-|.-.++++-..      ...+++.|+..|++.....   .....|.+|+.+.-|.
T Consensus        20 i~dIL~~~~~~~~~~Tri~y~aNlny~~------~~~yi~~L~~~Gli~~~~~---~~~~~y~lT~KG~~fl   82 (95)
T COG3432          20 IFDILKAISEGGIGITRIIYGANLNYKR------AQKYIEMLVEKGLIIKQDN---GRRKVYELTEKGKRFL   82 (95)
T ss_pred             HHHHHHHhcCCCCCceeeeeecCcCHHH------HHHHHHHHHhCCCEEeccC---CccceEEEChhHHHHH
Confidence            456665 334788888899999998777      9999999999996655551   1123799999997543

>KOG2940 consensus Predicted methyltransferase [General function prediction only]

Probab=89.15  E-value=0.57  Score=40.01  Aligned_cols=72  Identities=13%  Similarity=0.060  Sum_probs=51.1

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC--CCC--eEEEEccCCC-CCC--CccEEEecccccc
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV--YEG--VSHVGGDMLN-AVP--NADAVFMKVIVLI  262 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~--~~r--i~~~~gd~~~-~~p--~aD~~~l~~vLHd  262 (266)
                      ..+..+.|||||-|...+.|..+.-+ +.+..|. -.+++..+.  .+.  ++...+|=.. ++.  ..|+++-+.-||=
T Consensus        71 k~fp~a~diGcs~G~v~rhl~~e~ve-kli~~DtS~~M~~s~~~~qdp~i~~~~~v~DEE~Ldf~ens~DLiisSlslHW  149 (325)
T KOG2940|consen   71 KSFPTAFDIGCSLGAVKRHLRGEGVE-KLIMMDTSYDMIKSCRDAQDPSIETSYFVGDEEFLDFKENSVDLIISSLSLHW  149 (325)
T ss_pred             hhCcceeecccchhhhhHHHHhcchh-heeeeecchHHHHHhhccCCCceEEEEEecchhcccccccchhhhhhhhhhhh
Confidence            45679999999999999999999732 6677786 566666554  233  3455566333 454  3999998888884


Q ss_pred             C
Q 042491          263 Q  263 (266)
Q Consensus       263 ~  263 (266)
                      -
T Consensus       150 ~  150 (325)
T KOG2940|consen  150 T  150 (325)
T ss_pred             h
Confidence            3

>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional

Probab=88.96  E-value=0.34  Score=38.63  Aligned_cols=48  Identities=10%  Similarity=0.187  Sum_probs=42.6

Q ss_pred             HhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           34 VELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        34 ~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      .+..|.++|..+ +..|..+||+.+|+++..      +.+=++-|...|++....
T Consensus        10 ~D~~Il~~Lq~d-~R~s~~eiA~~lglS~~t------V~~Ri~rL~~~GvI~~~~   57 (153)
T PRK11179         10 LDRGILEALMEN-ARTPYAELAKQFGVSPGT------IHVRVEKMKQAGIITGTR   57 (153)
T ss_pred             HHHHHHHHHHHc-CCCCHHHHHHHHCcCHHH------HHHHHHHHHHCCCeeeEE
Confidence            567889999885 799999999999999887      999999999999998554

>TIGR00308 TRM1 tRNA(guanine-26,N2-N2) methyltransferase

Probab=88.89  E-value=0.49  Score=43.55  Aligned_cols=63  Identities=13%  Similarity=0.133  Sum_probs=48.0

Q ss_pred             ceEEEecCCchHHHHHHHHHCCCC-eEEEeec-HHHHhhCCC------CCCeEEEEccCCCCC----CCccEEEe
Q 042491          194 RSLVDVGGGTGEELAEIVEFYPHI-KGVNFDL-PHVVATAPV------YEGVSHVGGDMLNAV----PNADAVFM  256 (266)
Q Consensus       194 ~~vvDvGgG~G~~~~~l~~~~P~l-~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~~~----p~aD~~~l  256 (266)
                      -+|||.-+|+|..+.+.+++.++. +++..|+ |+.++.+++      .+.+++..+|...-+    ..+|+|.+
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            589999999999999999997665 6788898 777665543      345788888877631    23888865

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.

>COG2512 Predicted membrane-associated trancriptional regulator [Transcription]

Probab=88.58  E-value=0.31  Score=42.42  Aligned_cols=49  Identities=24%  Similarity=0.453  Sum_probs=44.3

Q ss_pred             hcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCccccccc
Q 042491           35 ELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRS   89 (266)
Q Consensus        35 elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~   89 (266)
                      |..+.++|..+||.++-+||.+++|++...      +.|.|+-|...|++++...
T Consensus       197 e~~il~~i~~~GGri~Q~eL~r~lglsktT------vsR~L~~LEk~GlIe~~K~  245 (258)
T COG2512         197 EKEILDLIRERGGRITQAELRRALGLSKTT------VSRILRRLEKRGLIEKEKK  245 (258)
T ss_pred             HHHHHHHHHHhCCEEeHHHHHHhhCCChHH------HHHHHHHHHhCCceEEEEe
Confidence            356888998888889999999999999888      9999999999999998873

>PLN02853 Probable phenylalanyl-tRNA synthetase alpha chain

Probab=88.50  E-value=0.39  Score=45.46  Aligned_cols=70  Identities=14%  Similarity=0.092  Sum_probs=56.2

Q ss_pred             HHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhch-hhhcCC
Q 042491           33 AVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISK-WLLRDS  111 (266)
Q Consensus        33 a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~-~l~~~~  111 (266)
                      +.+..|+..|...+...+.++||+.+|++...      +.+.+..|.+.|+++-....    ...|.+|..++ ++..+.
T Consensus         3 ~~e~~iL~~l~~~~~~~~~~~la~~~g~~~~~------v~~~~~~L~~kg~v~~~~~~----~~~~~LT~eG~~~l~~G~   72 (492)
T PLN02853          3 MAEEALLGALSNNEEISDSGQFAASHGLDHNE------VVGVIKSLHGFRYVDAQDIK----RETWVLTEEGKKYAAEGS   72 (492)
T ss_pred             hHHHHHHHHHHhcCCCCCHHHHHHHcCCCHHH------HHHHHHHHHhCCCEEEEEEE----EEEEEECHHHHHHHHcCC
Confidence            45677888888642238999999999999887      99999999999998777642    46899999997 666665


Q ss_pred             C
Q 042491          112 E  112 (266)
Q Consensus       112 ~  112 (266)
                      |
T Consensus        73 P   73 (492)
T PLN02853         73 P   73 (492)
T ss_pred             H
Confidence            5

>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=88.45  E-value=0.27  Score=33.84  Aligned_cols=43  Identities=21%  Similarity=0.343  Sum_probs=37.4

Q ss_pred             CCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCch
Q 042491           47 SPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQ  102 (266)
Q Consensus        47 ~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~  102 (266)
                      -++|-++||..+|++...      +.|+|+.|...|++...+       +.+.+..
T Consensus        27 ~~lt~~~iA~~~g~sr~t------v~r~l~~l~~~g~I~~~~-------~~i~I~d   69 (76)
T PF13545_consen   27 LPLTQEEIADMLGVSRET------VSRILKRLKDEGIIEVKR-------GKIIILD   69 (76)
T ss_dssp             EESSHHHHHHHHTSCHHH------HHHHHHHHHHTTSEEEET-------TEEEESS
T ss_pred             ecCCHHHHHHHHCCCHHH------HHHHHHHHHHCCCEEEcC-------CEEEECC
Confidence            479999999999999766      999999999999999877       6666554

...

>PRK04172 pheS phenylalanyl-tRNA synthetase subunit alpha; Provisional

Probab=88.41  E-value=0.43  Score=45.53  Aligned_cols=65  Identities=22%  Similarity=0.213  Sum_probs=52.2

Q ss_pred             HhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhhc
Q 042491           34 VELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLLR  109 (266)
Q Consensus        34 ~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~~  109 (266)
                      .+..|+..|... +++|..+||+.+++++..      +.+.++-|.+.|++.....    ....|.+|+.++.+..
T Consensus         7 ~e~~vL~~L~~~-~~~s~~eLA~~l~l~~~t------Vt~~i~~Le~kGlV~~~~~----~~~~i~LTeeG~~~~~   71 (489)
T PRK04172          7 NEKKVLKALKEL-KEATLEELAEKLGLPPEA------VMRAAEWLEEKGLVKVEER----VEEVYVLTEEGKKYAE   71 (489)
T ss_pred             HHHHHHHHHHhC-CCCCHHHHHHHhCcCHHH------HHHHHHHHHhCCCEEEEee----eEEEEEECHHHHHHHH
Confidence            455666777654 689999999999999877      9999999999999998762    1356999999975443

>PRK11169 leucine-responsive transcriptional regulator; Provisional

Probab=88.31  E-value=0.36  Score=38.92  Aligned_cols=49  Identities=14%  Similarity=0.177  Sum_probs=43.0

Q ss_pred             HHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           33 AVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        33 a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      ..+..|+.+|..+ +.+|..|||+++|+++..      +.+=++-|...|++....
T Consensus        14 ~~D~~IL~~Lq~d-~R~s~~eiA~~lglS~~t------v~~Ri~rL~~~GvI~~~~   62 (164)
T PRK11169         14 RIDRNILNELQKD-GRISNVELSKRVGLSPTP------CLERVRRLERQGFIQGYT   62 (164)
T ss_pred             HHHHHHHHHhccC-CCCCHHHHHHHHCcCHHH------HHHHHHHHHHCCCeEEEE
Confidence            3678899999885 799999999999999877      999999999999998543

>PRK14165 winged helix-turn-helix domain-containing protein/riboflavin kinase; Provisional

Probab=88.27  E-value=0.56  Score=39.74  Aligned_cols=59  Identities=15%  Similarity=0.194  Sum_probs=45.7

Q ss_pred             hHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           40 DIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        40 d~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      ..+... ..+|..|||+.+++++..      +.|.|+-|...|++.+....   ....+++|+.++.+.
T Consensus        14 g~l~~~-~~IS~~eLA~~L~iS~~T------vsr~Lk~LEe~GlI~R~~~~---r~~~v~LTekG~~ll   72 (217)
T PRK14165         14 GAVNNT-VKISSSEFANHTGTSSKT------AARILKQLEDEGYITRTIVP---RGQLITITEKGLDVL   72 (217)
T ss_pred             hccCCC-CCcCHHHHHHHHCcCHHH------HHHHHHHHHHCCCEEEEEcC---CceEEEECHHHHHHH
Confidence            344432 468999999999999877      99999999999999887521   135689999886443

>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=88.20  E-value=0.5  Score=39.95  Aligned_cols=73  Identities=10%  Similarity=-0.004  Sum_probs=42.8

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-----CCCe-EEEEccCCC--CCCC-ccEEEeccccc
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-----YEGV-SHVGGDMLN--AVPN-ADAVFMKVIVL  261 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-----~~ri-~~~~gd~~~--~~p~-aD~~~l~~vLH  261 (266)
                      +..+.||+|+|.|.....++..+= -++-++|. +.-++.+++     ..++ ++...-+-+  |.++ ||+|++-+++-
T Consensus        55 ~~~~alDcGAGIGRVTk~lLl~~f-~~VDlVEp~~~Fl~~a~~~l~~~~~~v~~~~~~gLQ~f~P~~~~YDlIW~QW~lg  133 (218)
T PF05891_consen   55 KFNRALDCGAGIGRVTKGLLLPVF-DEVDLVEPVEKFLEQAKEYLGKDNPRVGEFYCVGLQDFTPEEGKYDLIWIQWCLG  133 (218)
T ss_dssp             --SEEEEET-TTTHHHHHTCCCC--SEEEEEES-HHHHHHHHHHTCCGGCCEEEEEES-GGG----TT-EEEEEEES-GG
T ss_pred             CcceEEecccccchhHHHHHHHhc-CEeEEeccCHHHHHHHHHHhcccCCCcceEEecCHhhccCCCCcEeEEEehHhhc
Confidence            578999999999999998876542 14556664 666665552     2343 333333333  3333 99999999987


Q ss_pred             cCCC
Q 042491          262 IQDL  265 (266)
Q Consensus       262 d~~~  265 (266)
                      +-+|
T Consensus       134 hLTD  137 (218)
T PF05891_consen  134 HLTD  137 (218)
T ss_dssp             GS-H
T ss_pred             cCCH
Confidence            6553

; GO: 0008168 methyltransferase activity; PDB: 1XTP_A 2EX4_B.

>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=88.04  E-value=0.41  Score=33.32  Aligned_cols=49  Identities=14%  Similarity=0.188  Sum_probs=42.7

Q ss_pred             HhcChhhHhhhCC-CCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           34 VELRLADIMHCHG-SPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        34 ~elglfd~L~~~g-~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      .+..+++.|..+. .+++..||++.+|.+++.      +...++.|...|++.+..
T Consensus         3 ~~~~~Le~I~rsR~~Gi~q~~L~~~~~~D~r~------i~~~~k~L~~~gLI~k~~   52 (75)
T PF04182_consen    3 IQYCLLERIARSRYNGITQSDLSKLLGIDPRS------IFYRLKKLEKKGLIVKQS   52 (75)
T ss_pred             hHHHHHHHHHhcCCCCEehhHHHHHhCCCchH------HHHHHHHHHHCCCEEEEE
Confidence            4556778887754 689999999999999988      999999999999999887

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.

>COG1378 Predicted transcriptional regulators [Transcription]

Probab=87.95  E-value=0.83  Score=39.55  Aligned_cols=60  Identities=13%  Similarity=0.232  Sum_probs=48.2

Q ss_pred             hhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           38 LADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        38 lfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      +.-.|-.. |+.|+.|||+.+|+|..+      +..+|+-|...|++....+    .+..|+.-+....+.
T Consensus        21 vY~aLl~~-g~~tA~eis~~sgvP~~k------vY~vl~sLe~kG~v~~~~g----~P~~y~av~p~~~i~   80 (247)
T COG1378          21 VYLALLCL-GEATAKEISEASGVPRPK------VYDVLRSLEKKGLVEVIEG----RPKKYRAVPPEELIE   80 (247)
T ss_pred             HHHHHHHh-CCccHHHHHHHcCCCchh------HHHHHHHHHHCCCEEeeCC----CCceEEeCCHHHHHH
Confidence            44444443 799999999999999999      9999999999999998763    267898877655443

>PRK10742 putative methyltransferase; Provisional

Probab=87.89  E-value=1.4  Score=38.13  Aligned_cols=72  Identities=15%  Similarity=0.191  Sum_probs=50.6

Q ss_pred             HHHhhcccCCCCCc--eEEEecCCchHHHHHHHHHCCCCeEEEeecH-HHHh-------hCC------C--CCCeEEEEc
Q 042491          181 TLLSHYKDGFDGIR--SLVDVGGGTGEELAEIVEFYPHIKGVNFDLP-HVVA-------TAP------V--YEGVSHVGG  242 (266)
Q Consensus       181 ~~~~~~~~~~~~~~--~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp-~v~~-------~a~------~--~~ri~~~~g  242 (266)
                      .++....  +.+..  +|||.=+|.|..+..++.+  +.+++.+|.. .+..       .+.      .  ..|++++.+
T Consensus        77 ~l~kAvg--lk~g~~p~VLD~TAGlG~Da~~las~--G~~V~~vEr~p~vaalL~dgL~ra~~~~~~~~~~~~ri~l~~~  152 (250)
T PRK10742         77 AVAKAVG--IKGDYLPDVVDATAGLGRDAFVLASV--GCRVRMLERNPVVAALLDDGLARGYADAEIGGWLQERLQLIHA  152 (250)
T ss_pred             HHHHHhC--CCCCCCCEEEECCCCccHHHHHHHHc--CCEEEEEECCHHHHHHHHHHHHHhhhccccchhhhceEEEEeC
Confidence            3444444  44433  9999999999999999998  6779999983 3222       221      1  167999999


Q ss_pred             cCCCC---CC-CccEEEe
Q 042491          243 DMLNA---VP-NADAVFM  256 (266)
Q Consensus       243 d~~~~---~p-~aD~~~l  256 (266)
                      |..+-   .+ .+|+|++
T Consensus       153 da~~~L~~~~~~fDVVYl  170 (250)
T PRK10742        153 SSLTALTDITPRPQVVYL  170 (250)
T ss_pred             cHHHHHhhCCCCCcEEEE
Confidence            97763   34 4999986

>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=87.72  E-value=1.1  Score=36.73  Aligned_cols=56  Identities=21%  Similarity=0.289  Sum_probs=42.5

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeecHHHHhhCCC---------CCCeEEEEccCCC
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPV---------YEGVSHVGGDMLN  246 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~a~~---------~~ri~~~~gd~~~  246 (266)
                      ++...||-+|||-=+..-.+...+|+++..=+|+|++++..++         ..++++++.|+.+
T Consensus        77 ~~~~qvV~LGaGlDTr~~Rl~~~~~~~~~~evD~p~v~~~K~~~l~~~~~~~~~~~~~v~~Dl~~  141 (183)
T PF04072_consen   77 PGARQVVNLGAGLDTRAYRLDNPAGGVRWFEVDLPEVIALKRRLLPESGARPPANYRYVPADLRD  141 (183)
T ss_dssp             TTESEEEEET-TT--HHHHHHHTTTTEEEEEEE-HHHHHHHHHHHHHTHHHHHEESSEEES-TTS
T ss_pred             CCCcEEEEcCCCCCchHHHhhccccceEEEEeCCHHHHHHHHHHHHhCcccCCcceeEEeccccc
Confidence            3567999999999999999999999999999999999886553         1236789999997

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 ....

>PF12324 HTH_15: Helix-turn-helix domain of alkylmercury lyase; InterPro: IPR024259 Alkylmercury lyase (EC:4

Probab=87.61  E-value=0.95  Score=31.68  Aligned_cols=41  Identities=20%  Similarity=0.264  Sum_probs=25.9

Q ss_pred             hhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           38 LADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        38 lfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      ++..|+. |.|+|..+||..+|.+         +.++-.+|...-=.+.++
T Consensus        29 LLr~LA~-G~PVt~~~LA~a~g~~---------~e~v~~~L~~~p~tEyD~   69 (77)
T PF12324_consen   29 LLRLLAK-GQPVTVEQLAAALGWP---------VEEVRAALAAMPDTEYDD   69 (77)
T ss_dssp             HHHHHTT-TS-B-HHHHHHHHT-----------HHHHHHHHHH-TTSEEET
T ss_pred             HHHHHHc-CCCcCHHHHHHHHCCC---------HHHHHHHHHhCCCceEcC
Confidence            7788887 8999999999999997         555555555543344443

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.

>COG1522 Lrp Transcriptional regulators [Transcription]

Probab=87.23  E-value=0.51  Score=37.21  Aligned_cols=48  Identities=19%  Similarity=0.305  Sum_probs=43.1

Q ss_pred             HhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           34 VELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        34 ~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      .+..|...|..+ ++.|..+||+++|+++..      +.+-++-|...|++....
T Consensus         9 ~D~~IL~~L~~d-~r~~~~eia~~lglS~~~------v~~Ri~~L~~~GiI~~~~   56 (154)
T COG1522           9 IDRRILRLLQED-ARISNAELAERVGLSPST------VLRRIKRLEEEGVIKGYT   56 (154)
T ss_pred             HHHHHHHHHHHh-CCCCHHHHHHHHCCCHHH------HHHHHHHHHHCCceeeEE
Confidence            466788899885 789999999999999888      999999999999999886

>TIGR00498 lexA SOS regulatory protein LexA

Probab=87.01  E-value=0.7  Score=38.36  Aligned_cols=48  Identities=17%  Similarity=0.331  Sum_probs=38.5

Q ss_pred             hcChhhHhhh----CCCCCCHHHHHhhcCCC-CCCCCchhhHHHHHHHHhccCcccccc
Q 042491           35 ELRLADIMHC----HGSPITLPQLASGINSS-CPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        35 elglfd~L~~----~g~~~t~~eLA~~~g~~-~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      +..|++.|.+    .+-+.|..|||+.+|++ ...      +.+.|+.|...|++....
T Consensus         8 q~~iL~~l~~~~~~~~~~~~~~ela~~~~~~s~~t------v~~~l~~L~~~g~i~~~~   60 (199)
T TIGR00498         8 QQEVLDLIRAHIESTGYPPSIREIARAVGLRSPSA------AEEHLKALERKGYIERDP   60 (199)
T ss_pred             HHHHHHHHHHHHHhcCCCCcHHHHHHHhCCCChHH------HHHHHHHHHHCCCEecCC
Confidence            4445555553    24578999999999998 666      999999999999999987

LexA acts as a homodimer to repress a number of genes involved in the response to DNA damage (SOS response), including itself and RecA. RecA, in the presence of single-stranded DNA, acts as a co-protease to activate a latent autolytic protease activity (EC 3.4.21.88) of LexA, where the active site Ser is part of LexA. The autolytic cleavage site is an Ala-Gly bond in LexA (at position 84-85 in E. coli LexA; this sequence is replaced by Gly-Gly in Synechocystis). The cleavage leads to derepression of the SOS regulon and eventually to DNA repair. LexA in Bacillus subtilis is called DinR. LexA is much less broadly distributed than RecA.

>KOG2730 consensus Methylase [General function prediction only]

Probab=86.97  E-value=0.49  Score=40.12  Aligned_cols=53  Identities=23%  Similarity=0.332  Sum_probs=42.0

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCC
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLN  246 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~  246 (266)
                      ....|||.=||.|...+.++..+|.  ++.+|+ |--|..++.       .+||+|+.||+++
T Consensus        94 ~~~~iidaf~g~gGntiqfa~~~~~--VisIdiDPikIa~AkhNaeiYGI~~rItFI~GD~ld  154 (263)
T KOG2730|consen   94 NAEVIVDAFCGVGGNTIQFALQGPY--VIAIDIDPVKIACARHNAEVYGVPDRITFICGDFLD  154 (263)
T ss_pred             CcchhhhhhhcCCchHHHHHHhCCe--EEEEeccHHHHHHHhccceeecCCceeEEEechHHH
Confidence            5578999999999999999999996  555566 444555543       5799999999997

>PF04989 CmcI: Cephalosporin hydroxylase; InterPro: IPR007072 This entry contains Rhamnosyl O-methyltransferase which catalyses the O-methylation of the hydroxyl group located on C-2 of the first rhamnosyl residue linked to the phenolic group of glycosylated phenolphthiocerol dimycocerosates (PGL) and p-hydroxybenzoic acid derivatives (p-HBAD) []

Probab=86.96  E-value=1.2  Score=37.36  Aligned_cols=55  Identities=18%  Similarity=0.366  Sum_probs=35.4

Q ss_pred             CCceEEEec---CCchHHHHHHHHHC-CCCeEEEeec--HH----HHhhCCCCCCeEEEEccCCC
Q 042491          192 GIRSLVDVG---GGTGEELAEIVEFY-PHIKGVNFDL--PH----VVATAPVYEGVSHVGGDMLN  246 (266)
Q Consensus       192 ~~~~vvDvG---gG~G~~~~~l~~~~-P~l~~~~~Dl--p~----v~~~a~~~~ri~~~~gd~~~  246 (266)
                      ++.+|+++|   ||+..+...+++.. ++.+++++|+  +.    .++.-+-.+||+++.||-.+
T Consensus        32 kPd~IIE~Gi~~GGSli~~A~ml~~~~~~~~VigiDIdir~~~~~a~e~hp~~~rI~~i~Gds~d   96 (206)
T PF04989_consen   32 KPDLIIETGIAHGGSLIFWASMLELLGGKGKVIGIDIDIRPHNRKAIESHPMSPRITFIQGDSID   96 (206)
T ss_dssp             --SEEEEE--TTSHHHHHHHHHHHHTT---EEEEEES-GTT--S-GGGG----TTEEEEES-SSS
T ss_pred             CCCeEEEEecCCCchHHHHHHHHHHhCCCceEEEEeCCcchhchHHHhhccccCceEEEECCCCC
Confidence            568999999   78888888888888 8889999998  22    22211115999999999876

Members of this family are about 220 amino acids long. It also includes the CmcI protein O85726 from SWISSPROT, which is presumed to represent the cephalosporin-7--hydroxylase []. However this has not been experimentally verified.; GO: 0008168 methyltransferase activity, 0008610 lipid biosynthetic process; PDB: 2BR4_B 2BR3_E 2BR5_E 2BM8_J 2BM9_E.

>KOG0822 consensus Protein kinase inhibitor [Cell cycle control, cell division, chromosome partitioning]

Probab=86.92  E-value=3.2  Score=39.71  Aligned_cols=97  Identities=16%  Similarity=0.294  Sum_probs=64.9

Q ss_pred             CcchhcccCchHHHHHHHHHHhhhHHHHHHHHhhcccCC-CCCceEEEecCCchHHHHHHHHHCCC----CeEEEeec-H
Q 042491          152 EMWDFASQNSQFNNSFNKAMACTAKIVMSTLLSHYKDGF-DGIRSLVDVGGGTGEELAEIVEFYPH----IKGVNFDL-P  225 (266)
Q Consensus       152 ~~~~~~~~~~~~~~~f~~~m~~~~~~~~~~~~~~~~~~~-~~~~~vvDvGgG~G~~~~~l~~~~P~----l~~~~~Dl-p  225 (266)
                      .-|+-+++||-.-..|++++       ...+++..++.- +..+.|.-+|+|.|-+..+.+++--.    ++...++- |
T Consensus       333 ~TYetFEkD~VKY~~Yq~Ai-------~~AL~Drvpd~~a~~~tVimvlGaGRGPLv~~~lkaa~~~~RkVklyavEKNP  405 (649)
T KOG0822|consen  333 QTYETFEKDPVKYDQYQQAI-------LKALLDRVPDESAKTTTVIMVLGAGRGPLVDASLKAAEETDRKVKLYAVEKNP  405 (649)
T ss_pred             hhhhhhhccchHHHHHHHHH-------HHHHHhhCcccccCceEEEEEecCCCccHHHHHHHHHHHhcCceEEEEEecCc
Confidence            45777888887767777765       334555555321 23577888999999998776665433    34455543 6


Q ss_pred             HHHhhCCC------CCCeEEEEccCCC-CCC--CccEEE
Q 042491          226 HVVATAPV------YEGVSHVGGDMLN-AVP--NADAVF  255 (266)
Q Consensus       226 ~v~~~a~~------~~ri~~~~gd~~~-~~p--~aD~~~  255 (266)
                      .++.....      .+||+.+..||.+ .-|  ++|+++
T Consensus       406 NAivtL~~~n~~~W~~~Vtii~~DMR~w~ap~eq~DI~V  444 (649)
T KOG0822|consen  406 NAIVTLQNRNFECWDNRVTIISSDMRKWNAPREQADIIV  444 (649)
T ss_pred             chhhhhhhhchhhhcCeeEEEeccccccCCchhhccchH
Confidence            66654442      7899999999998 344  388753

>PTZ00326 phenylalanyl-tRNA synthetase alpha chain; Provisional

Probab=86.69  E-value=0.64  Score=44.16  Aligned_cols=70  Identities=13%  Similarity=0.161  Sum_probs=55.6

Q ss_pred             HHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhch-hhhcCC
Q 042491           33 AVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISK-WLLRDS  111 (266)
Q Consensus        33 a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~-~l~~~~  111 (266)
                      ..+..|+..|...++..+..+||+.+|++...      +.+.+..|.+.|+++-....    ...|.+|+.++ ++..+.
T Consensus         6 ~~e~~iL~~l~~~~~~~~~~~la~~~~~~~~~------v~~~~~~L~~kg~v~~~~~~----~~~~~LT~eG~~~~~~G~   75 (494)
T PTZ00326          6 LEENTILSKLESENEIVNSLALAESLNIDHQK------VVGAIKSLESANYITTEMKK----SNTWTLTEEGEDYLKNGS   75 (494)
T ss_pred             HHHHHHHHHHHhcCCCCCHHHHHHHcCCCHHH------HHHHHHHHHhCCCEEEEEEE----EEEEEECHHHHHHHHcCC
Confidence            34556777777533579999999999998877      99999999999999877642    46899999997 666666


Q ss_pred             C
Q 042491          112 E  112 (266)
Q Consensus       112 ~  112 (266)
                      |
T Consensus        76 P   76 (494)
T PTZ00326         76 P   76 (494)
T ss_pred             H
Confidence            5

>PRK15431 ferrous iron transport protein FeoC; Provisional

Probab=86.68  E-value=0.68  Score=32.51  Aligned_cols=44  Identities=14%  Similarity=0.286  Sum_probs=38.9

Q ss_pred             hhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           38 LADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        38 lfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      |=|.|+.+ +..++.+||..++++++.      ++..|..++..|-+.+..
T Consensus         7 lRd~l~~~-gr~s~~~Ls~~~~~p~~~------VeaMLe~l~~kGkverv~   50 (78)
T PRK15431          7 VRDLLALR-GRMEAAQISQTLNTPQPM------INAMLQQLESMGKAVRIQ   50 (78)
T ss_pred             HHHHHHHc-CcccHHHHHHHHCcCHHH------HHHHHHHHHHCCCeEeec
Confidence            44677775 789999999999999876      999999999999999886

>PF11968 DUF3321: Putative methyltransferase (DUF3321); InterPro: IPR021867 This family is conserved in fungi and is annotated as being a nucleolar protein

Probab=86.55  E-value=1.1  Score=37.92  Aligned_cols=62  Identities=13%  Similarity=0.178  Sum_probs=44.9

Q ss_pred             CceEEEecCCchHHHHHHHHHCCCCeEEEeecHHHHhhCCCCCCeEEEEccCCC-CCC-----CccEEEeccccccCCC
Q 042491          193 IRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPVYEGVSHVGGDMLN-AVP-----NADAVFMKVIVLIQDL  265 (266)
Q Consensus       193 ~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~a~~~~ri~~~~gd~~~-~~p-----~aD~~~l~~vLHd~~~  265 (266)
                      .-++||||+=+....+.   .++-+.++-+|+-..      .+  .+...||++ |+|     .||+|.++-||..-++
T Consensus        52 ~lrlLEVGals~~N~~s---~~~~fdvt~IDLns~------~~--~I~qqDFm~rplp~~~~e~FdvIs~SLVLNfVP~  119 (219)
T PF11968_consen   52 KLRLLEVGALSTDNACS---TSGWFDVTRIDLNSQ------HP--GILQQDFMERPLPKNESEKFDVISLSLVLNFVPD  119 (219)
T ss_pred             cceEEeecccCCCCccc---ccCceeeEEeecCCC------CC--CceeeccccCCCCCCcccceeEEEEEEEEeeCCC
Confidence            46999999876654443   456677888898541      12  446689999 887     2999999999976553

>PRK11639 zinc uptake transcriptional repressor; Provisional

Probab=86.51  E-value=1.9  Score=35.03  Aligned_cols=56  Identities=16%  Similarity=0.256  Sum_probs=42.2

Q ss_pred             HHHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           32 SAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        32 ~a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      +-.+.-|++.|...++++|++||.+.+.-... +.....+.|.|+.|...|++.+..
T Consensus        25 T~qR~~IL~~l~~~~~hlSa~eI~~~L~~~~~-~is~aTVYRtL~~L~e~Glv~~~~   80 (169)
T PRK11639         25 TPQRLEVLRLMSLQPGAISAYDLLDLLREAEP-QAKPPTVYRALDFLLEQGFVHKVE   80 (169)
T ss_pred             CHHHHHHHHHHHhcCCCCCHHHHHHHHHhhCC-CCCcchHHHHHHHHHHCCCEEEEe
Confidence            44556688888765579999999998853211 122455999999999999999986

>PHA02943 hypothetical protein; Provisional

Probab=86.46  E-value=0.64  Score=36.86  Aligned_cols=44  Identities=11%  Similarity=0.127  Sum_probs=38.6

Q ss_pred             ChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           37 RLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        37 glfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      .|.+.|..  |+.|..|||+++|++-..      ++-.|..|...|.+.+..
T Consensus        15 eILE~Lk~--G~~TtseIAkaLGlS~~q------a~~~LyvLErEG~VkrV~   58 (165)
T PHA02943         15 KTLRLLAD--GCKTTSRIANKLGVSHSM------ARNALYQLAKEGMVLKVE   58 (165)
T ss_pred             HHHHHHhc--CCccHHHHHHHHCCCHHH------HHHHHHHHHHcCceEEEe
Confidence            46667743  789999999999999887      999999999999999887

>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=86.35  E-value=0.26  Score=34.00  Aligned_cols=43  Identities=21%  Similarity=0.268  Sum_probs=36.2

Q ss_pred             hhhHhhhCCCCCCHHHHHhhc---CC--CCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           38 LADIMHCHGSPITLPQLASGI---NS--SCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        38 lfd~L~~~g~~~t~~eLA~~~---g~--~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      +|...+.  +.+++.++|+.+   +.  ..++      +.-++.+|.+.|++++.+
T Consensus        16 ~~~~~~~--~~i~l~~ia~~l~~~~~k~~~RR------lYDI~NVLealgli~K~~   63 (71)
T PF02319_consen   16 LFESSPD--KSISLNEIADKLISENVKTQRRR------LYDIINVLEALGLIEKQS   63 (71)
T ss_dssp             HHHHCCC--TEEEHHHHHHHCHHHCCHHHCHH------HHHHHHHHHHCTSEEEEE
T ss_pred             HHHHCCC--CcccHHHHHHHHcccccccccch------hhHHHHHHHHhCceeecC
Confidence            3444443  789999999999   98  7777      999999999999999966

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.

>COG1733 Predicted transcriptional regulators [Transcription]

Probab=86.20  E-value=1  Score=34.43  Aligned_cols=79  Identities=18%  Similarity=0.175  Sum_probs=57.6

Q ss_pred             HHHHHHHHHHhHHHHHHHHHHHhcChhhHhhhCCCCCCHHHHHhhcC-CCCCCCCchhhHHHHHHHHhccCcccccccCC
Q 042491           13 GQAQVWQLMFAFADSMALKSAVELRLADIMHCHGSPITLPQLASGIN-SSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSD   91 (266)
Q Consensus        13 ~~~~l~~~~~g~~~~~~L~~a~elglfd~L~~~g~~~t~~eLA~~~g-~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~   91 (266)
                      +.+...+++.+=|..-+|+..         ..  ++....||-..++ +++.-      |.+-|+.|...|++.+..-.+
T Consensus        12 ~~~~~l~~ig~kW~~lIl~~L---------~~--g~~RF~eL~r~i~~Is~k~------Ls~~Lk~Le~~Glv~R~~~~~   74 (120)
T COG1733          12 PVEEALEVIGGKWTLLILRDL---------FD--GPKRFNELRRSIGGISPKM------LSRRLKELEEDGLVERVVYPE   74 (120)
T ss_pred             CHHHHHHHHcCccHHHHHHHH---------hc--CCCcHHHHHHHccccCHHH------HHHHHHHHHHCCCEEeeecCC
Confidence            455666666666666665543         32  6888999999987 88766      999999999999999887421


Q ss_pred             CCCCceEeCchhchhhh
Q 042491           92 GSEETMYGLTQISKWLL  108 (266)
Q Consensus        92 ~~g~~~y~lt~~s~~l~  108 (266)
                      -+-.-.|++|+.++.|.
T Consensus        75 ~PprveY~LT~~G~~L~   91 (120)
T COG1733          75 EPPRVEYRLTEKGRDLL   91 (120)
T ss_pred             CCceeEEEEhhhHHHHH
Confidence            11234699999987655

>PF05732 RepL: Firmicute plasmid replication protein (RepL); InterPro: IPR008813 This entry consists of proteins thought to be involved in plasmid replication

Probab=86.14  E-value=0.58  Score=37.94  Aligned_cols=44  Identities=20%  Similarity=0.283  Sum_probs=39.7

Q ss_pred             CCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhc
Q 042491           49 ITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQIS  104 (266)
Q Consensus        49 ~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s  104 (266)
                      .|..+||+.+|++...      +.|.+..|...+|+.+..      .|.|.++|.-
T Consensus        76 ~t~~~ia~~l~iS~~T------v~r~ik~L~e~~iI~k~~------~G~Y~iNP~~  119 (165)
T PF05732_consen   76 ATQKEIAEKLGISKPT------VSRAIKELEEKNIIKKIR------NGAYMINPNF  119 (165)
T ss_pred             eeHHHHHHHhCCCHHH------HHHHHHHHHhCCcEEEcc------CCeEEECcHH
Confidence            5899999999999776      999999999999999987      5999999953

; GO: 0006260 DNA replication, 0006276 plasmid maintenance

>KOG3924 consensus Putative protein methyltransferase involved in meiosis and transcriptional silencing (Dot1) [Cell cycle control, cell division, chromosome partitioning; Transcription]

Probab=85.98  E-value=1  Score=41.36  Aligned_cols=73  Identities=18%  Similarity=0.374  Sum_probs=52.5

Q ss_pred             CCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec---HHHHhhCCC-------------CCCeEEEEccCCCC------
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL---PHVVATAPV-------------YEGVSHVGGDMLNA------  247 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl---p~v~~~a~~-------------~~ri~~~~gd~~~~------  247 (266)
                      ......++|+|+|.|.....++...-.-+-+++++   |.-+...+.             ...++.+.|+|..+      
T Consensus       190 ~g~~D~F~DLGSGVGqlv~~~aa~a~~k~svG~eim~~pS~~a~~~~~~~kk~~k~fGk~~~~~~~i~gsf~~~~~v~eI  269 (419)
T KOG3924|consen  190 LGPADVFMDLGSGVGQLVCFVAAYAGCKKSVGFEIMDKPSQCAELNKEEFKKLMKHFGKKPNKIETIHGSFLDPKRVTEI  269 (419)
T ss_pred             cCCCCcccCCCcccchhhHHHHHhhccccccceeeecCcHHHHHHHHHHHHHHHHHhCCCcCceeecccccCCHHHHHHH
Confidence            45678999999999999988777665555555554   444433321             34588899999984      


Q ss_pred             CCCccEEEecccccc
Q 042491          248 VPNADAVFMKVIVLI  262 (266)
Q Consensus       248 ~p~aD~~~l~~vLHd  262 (266)
                      .++|+++++.++.-|
T Consensus       270 ~~eatvi~vNN~~Fd  284 (419)
T KOG3924|consen  270 QTEATVIFVNNVAFD  284 (419)
T ss_pred             hhcceEEEEecccCC
Confidence            356999999988654

>COG4565 CitB Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]

Probab=85.15  E-value=0.7  Score=38.88  Aligned_cols=45  Identities=20%  Similarity=0.297  Sum_probs=37.1

Q ss_pred             hhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           38 LADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        38 lfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      |.+.|...+.+.|++|+|+++|++.-.      .+|-|.+|++.|+++..-
T Consensus       163 i~~~~~~~~~~~Taeela~~~giSRvT------aRRYLeyl~~~~~l~a~i  207 (224)
T COG4565         163 VREALKEPDQELTAEELAQALGISRVT------ARRYLEYLVSNGILEAEI  207 (224)
T ss_pred             HHHHHhCcCCccCHHHHHHHhCccHHH------HHHHHHHHHhcCeeeEEe
Confidence            445555334799999999999998766      999999999999998654

>TIGR02147 Fsuc_second hypothetical protein, TIGR02147

Probab=85.12  E-value=0.91  Score=39.84  Aligned_cols=53  Identities=15%  Similarity=0.194  Sum_probs=42.2

Q ss_pred             hHhhhCCCCCCHHHHHhhcC--CCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhc
Q 042491           40 DIMHCHGSPITLPQLASGIN--SSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQIS  104 (266)
Q Consensus        40 d~L~~~g~~~t~~eLA~~~g--~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s  104 (266)
                      ++++..++..++.+||++++  ++...      ++.-|..|...|++++++      +|.|..|..+
T Consensus       129 el~~~~~~~~~~~~ia~~l~p~is~~e------v~~sL~~L~~~glikk~~------~g~y~~t~~~  183 (271)
T TIGR02147       129 ELLGVMPFADDPEELAKRCFPKISAEQ------VKESLDLLERLGLIKKNE------DGFYKQTDKA  183 (271)
T ss_pred             HHhhcCCCCCCHHHHHHHhCCCCCHHH------HHHHHHHHHHCCCeeECC------CCcEEeecce
Confidence            33433324447899999999  66666      999999999999999998      5899998865

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.

>KOG2793 consensus Putative N2,N2-dimethylguanosine tRNA methyltransferase [RNA processing and modification]

Probab=85.02  E-value=2.4  Score=36.68  Aligned_cols=70  Identities=24%  Similarity=0.227  Sum_probs=47.4

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeecHHHHhhCCC------------CCCeEEEEccCCCC------CCC-cc
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPV------------YEGVSHVGGDMLNA------VPN-AD  252 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~a~~------------~~ri~~~~gd~~~~------~p~-aD  252 (266)
                      ....+|.+|+|+| +...++.......++.-|.|.+++..+.            ...+.+..-++-.+      .|. +|
T Consensus        86 ~~~~vlELGsGtg-lvG~~aa~~~~~~v~ltD~~~~~~~L~~~~~~~~~~l~~~g~~v~v~~L~Wg~~~~~~~~~~~~~D  164 (248)
T KOG2793|consen   86 KYINVLELGSGTG-LVGILAALLLGAEVVLTDLPKVVENLKFNRDKNNIALNQLGGSVIVAILVWGNALDVSFRLPNPFD  164 (248)
T ss_pred             cceeEEEecCCcc-HHHHHHHHHhcceeccCCchhhHHHHHHhhhhhhhhhhhcCCceeEEEEecCCcccHhhccCCccc
Confidence            4678999999999 4444445556778888899888765442            23555555555442      234 79


Q ss_pred             EEEecccccc
Q 042491          253 AVFMKVIVLI  262 (266)
Q Consensus       253 ~~~l~~vLHd  262 (266)
                      +++.+.++.+
T Consensus       165 lilasDvvy~  174 (248)
T KOG2793|consen  165 LILASDVVYE  174 (248)
T ss_pred             EEEEeeeeec
Confidence            9999888764

>COG2265 TrmA SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]

Probab=85.02  E-value=3  Score=39.16  Aligned_cols=72  Identities=21%  Similarity=0.247  Sum_probs=51.2

Q ss_pred             HHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCC--C-CC-
Q 042491          181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLN--A-VP-  249 (266)
Q Consensus       181 ~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~--~-~p-  249 (266)
                      .+++..+  ..+..+|+|+=||.|.++..|+++.  -++++.|. |+.++.+++      -++++|+.+|-.+  + +. 
T Consensus       284 ~a~~~~~--~~~~~~vlDlYCGvG~f~l~lA~~~--~~V~gvEi~~~aV~~A~~NA~~n~i~N~~f~~~~ae~~~~~~~~  359 (432)
T COG2265         284 TALEWLE--LAGGERVLDLYCGVGTFGLPLAKRV--KKVHGVEISPEAVEAAQENAAANGIDNVEFIAGDAEEFTPAWWE  359 (432)
T ss_pred             HHHHHHh--hcCCCEEEEeccCCChhhhhhcccC--CEEEEEecCHHHHHHHHHHHHHcCCCcEEEEeCCHHHHhhhccc
Confidence            3444444  3456799999999999999999553  46777786 777766653      4569999999776  2 32 


Q ss_pred             --CccEEEe
Q 042491          250 --NADAVFM  256 (266)
Q Consensus       250 --~aD~~~l  256 (266)
                        .+|++++
T Consensus       360 ~~~~d~Vvv  368 (432)
T COG2265         360 GYKPDVVVV  368 (432)
T ss_pred             cCCCCEEEE
Confidence              3787765

>PRK04214 rbn ribonuclease BN/unknown domain fusion protein; Reviewed

Probab=85.02  E-value=0.8  Score=42.69  Aligned_cols=45  Identities=13%  Similarity=0.238  Sum_probs=38.6

Q ss_pred             CCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCch
Q 042491           46 GSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQ  102 (266)
Q Consensus        46 g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~  102 (266)
                      |++.|.++|+++++++++.      ++++|..|...|++.+.+      ++.|.+..
T Consensus       308 g~~~t~~~La~~l~~~~~~------v~~iL~~L~~agLI~~~~------~g~~~l~r  352 (412)
T PRK04214        308 GKALDVDEIRRLEPMGYDE------LGELLCELARIGLLRRGE------RGQWVLAR  352 (412)
T ss_pred             CCCCCHHHHHHHhCCCHHH------HHHHHHHHHhCCCeEecC------CCceEecC
Confidence            5799999999999999877      999999999999999765      36676543

>PF03059 NAS: Nicotianamine synthase protein; InterPro: IPR004298 Nicotianamine synthase 2

Probab=84.76  E-value=1.7  Score=38.18  Aligned_cols=68  Identities=19%  Similarity=0.264  Sum_probs=37.6

Q ss_pred             CCceEEEecCCchHHH-HHHHHHC-CCCeEEEeec-HHHHhhCCC--------CCCeEEEEccCCC---CCCCccEEEec
Q 042491          192 GIRSLVDVGGGTGEEL-AEIVEFY-PHIKGVNFDL-PHVVATAPV--------YEGVSHVGGDMLN---AVPNADAVFMK  257 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~-~~l~~~~-P~l~~~~~Dl-p~v~~~a~~--------~~ri~~~~gd~~~---~~p~aD~~~l~  257 (266)
                      .+.+|+=||+|.==+. ..+++.+ ++.+++++|. |+.++.+++        ..|++|+.+|..+   ++.++|+|++.
T Consensus       120 ~p~rVaFIGSGPLPlT~i~la~~~~~~~~v~~iD~d~~A~~~a~~lv~~~~~L~~~m~f~~~d~~~~~~dl~~~DvV~lA  199 (276)
T PF03059_consen  120 PPSRVAFIGSGPLPLTSIVLAKQHGPGARVHNIDIDPEANELARRLVASDLGLSKRMSFITADVLDVTYDLKEYDVVFLA  199 (276)
T ss_dssp             ---EEEEE---SS-HHHHHHH--HTT--EEEEEESSHHHHHHHHHHHH---HH-SSEEEEES-GGGG-GG----SEEEE-
T ss_pred             ccceEEEEcCCCcchHHHHHHHHhCCCCeEEEEeCCHHHHHHHHHHHhhcccccCCeEEEecchhccccccccCCEEEEh
Confidence            4579999999965554 4455444 7889999998 666665543        7899999999876   24579999986


Q ss_pred             cc
Q 042491          258 VI  259 (266)
Q Consensus       258 ~v  259 (266)
                      -.
T Consensus       200 al  201 (276)
T PF03059_consen  200 AL  201 (276)
T ss_dssp             TT
T ss_pred             hh
Confidence            53

5.1.43 from EC catalyzes the trimerization of S-adenosylmethionine to yield one molecule of nicotianamine. Nicotianamine has an important role in plant iron uptake mechanisms. Plants adopt two strategies (termed I and II) of iron acquisition. Strategy I is adopted by all higher plants except graminaceous plants, which adopt strategy II [, ]. In strategy I plants, the role of nicotianamine is not fully determined: possible roles include the formation of more stable complexes with ferrous than with ferric ion, which might serve as a sensor of the physiological status of iron within a plant, or which might be involved in the transport of iron []. In strategy II (graminaceous) plants, nicotianamine is the key intermediate (and nicotianamine synthase the key enzyme) in the synthesis of the mugineic family (the only known family in plants) of phytosiderophores. Phytosiderophores are iron chelators whose secretion by the roots is greatly increased in instances of iron deficiency []. The 3D structures of five example NAS from Methanothermobacter thermautotrophicus reveal the monomer to consist of a five-helical bundle N-terminal domain on top of a classic Rossmann fold C-terminal domain. The N-terminal domain is unique to the NAS family, whereas the C-terminal domain is homologous to the class I family of SAM-dependent methyltransferases. An active site is created at the interface of the two domains, at the rim of a large cavity that corresponds to the nucleotide binding site such as is found in other proteins adopting a Rossmann fold [].; GO: 0030410 nicotianamine synthase activity, 0030418 nicotianamine biosynthetic process; PDB: 3O31_B 3FPH_A 3FPJ_A 3FPE_B 3FPF_B 3FPG_B.

>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=84.68  E-value=0.39  Score=35.66  Aligned_cols=45  Identities=20%  Similarity=0.306  Sum_probs=33.9

Q ss_pred             ChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           37 RLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        37 glfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      .|++.|... +.++-++||+.+|+++..      ++++|..|...|++....
T Consensus        17 ~Il~~L~~~-~~l~de~la~~~~l~~~~------vRkiL~~L~~~~lv~~~~   61 (105)
T PF02002_consen   17 RILDALLRK-GELTDEDLAKKLGLKPKE------VRKILYKLYEDGLVSYRR   61 (105)
T ss_dssp             HHHHHHHHH---B-HHHHHHTT-S-HHH------HHHHHHHHHHHSS-EEEE
T ss_pred             HHHHHHHHc-CCcCHHHHHHHhCCCHHH------HHHHHHHHHHCCCeEEEE
Confidence            368888764 689999999999999877      999999999999997665

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.

>PF07789 DUF1627: Protein of unknown function (DUF1627); InterPro: IPR012432 This is a group of sequences found in hypothetical proteins predicted to be expressed in a number of bacterial species

Probab=84.41  E-value=1.2  Score=35.02  Aligned_cols=47  Identities=13%  Similarity=0.186  Sum_probs=40.1

Q ss_pred             CCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCch
Q 042491           47 SPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQ  102 (266)
Q Consensus        47 ~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~  102 (266)
                      |+.|++|||.+.|+..++      +..-|-++++.|-|.+.+..   |.=+|+++.
T Consensus         5 Ga~T~eELA~~FGvttRk------vaStLa~~ta~Grl~Rv~q~---gkfRy~iPg   51 (155)
T PF07789_consen    5 GAKTAEELAGKFGVTTRK------VASTLAMVTATGRLIRVNQN---GKFRYCIPG   51 (155)
T ss_pred             CcccHHHHHHHhCcchhh------hHHHHHHHHhcceeEEecCC---CceEEeCCC
Confidence            899999999999999999      99999999999999998852   233577753

The region in question is approximately 150 amino acid residues long.

>KOG2187 consensus tRNA uracil-5-methyltransferase and related tRNA-modifying enzymes [Translation, ribosomal structure and biogenesis]

Probab=84.17  E-value=1.6  Score=41.50  Aligned_cols=51  Identities=20%  Similarity=0.288  Sum_probs=40.1

Q ss_pred             CCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEc
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGG  242 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~g  242 (266)
                      ++.-+.++||-||+|.++.++++..-  +++++++ |+.++.|+.      -.+.+|+.|
T Consensus       381 l~~~k~llDv~CGTG~iglala~~~~--~ViGvEi~~~aV~dA~~nA~~NgisNa~Fi~g  438 (534)
T KOG2187|consen  381 LPADKTLLDVCCGTGTIGLALARGVK--RVIGVEISPDAVEDAEKNAQINGISNATFIVG  438 (534)
T ss_pred             CCCCcEEEEEeecCCceehhhhcccc--ceeeeecChhhcchhhhcchhcCccceeeeec
Confidence            45569999999999999999988754  6777765 777776664      467788888

>COG3413 Predicted DNA binding protein [General function prediction only]

Probab=84.09  E-value=1.1  Score=37.85  Aligned_cols=36  Identities=19%  Similarity=0.192  Sum_probs=31.4

Q ss_pred             HHHHHHHHHHhcChhhHhhhCCCCCCHHHHHhhcCCCCCC
Q 042491           25 ADSMALKSAVELRLADIMHCHGSPITLPQLASGINSSCPD   64 (266)
Q Consensus        25 ~~~~~L~~a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~   64 (266)
                      ..-.+|+.|.++|-||. +   ..++..|||+.+|+++..
T Consensus       159 rQ~~vL~~A~~~GYFd~-P---R~~~l~dLA~~lGISkst  194 (215)
T COG3413         159 RQLEVLRLAYKMGYFDY-P---RRVSLKDLAKELGISKST  194 (215)
T ss_pred             HHHHHHHHHHHcCCCCC-C---ccCCHHHHHHHhCCCHHH
Confidence            46789999999999998 5   469999999999998754

>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=83.81  E-value=0.47  Score=34.96  Aligned_cols=48  Identities=8%  Similarity=0.234  Sum_probs=37.8

Q ss_pred             HhcChhhHhhh---CCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCccccc
Q 042491           34 VELRLADIMHC---HGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAH   87 (266)
Q Consensus        34 ~elglfd~L~~---~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~   87 (266)
                      +.-.|++.|..   ...++++++|+++++++...      ++..++.|...|++-..
T Consensus        48 ~~~~Vl~~i~~~~~~~~Gv~v~~I~~~l~~~~~~------v~~al~~L~~eG~IYsT   98 (102)
T PF08784_consen   48 LQDKVLNFIKQQPNSEEGVHVDEIAQQLGMSENE------VRKALDFLSNEGHIYST   98 (102)
T ss_dssp             HHHHHHHHHHC----TTTEEHHHHHHHSTS-HHH------HHHHHHHHHHTTSEEES
T ss_pred             HHHHHHHHHHhcCCCCCcccHHHHHHHhCcCHHH------HHHHHHHHHhCCeEecc
Confidence            34557777765   23679999999999999888      99999999999988654

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.

>COG1497 Predicted transcriptional regulator [Transcription]

Probab=83.66  E-value=1.1  Score=38.41  Aligned_cols=83  Identities=14%  Similarity=0.234  Sum_probs=56.9

Q ss_pred             CCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhch-hhhcCCCCChHHHHHHhcCh
Q 042491           47 SPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISK-WLLRDSEMSLAPMILFQNSQ  125 (266)
Q Consensus        47 ~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~-~l~~~~~~~~~~~~~~~~~~  125 (266)
                      ..+...|||+++|+.+..      +...++-|+..|++++.+      .++|..|..+. ++.. .-..++.+..+....
T Consensus        24 p~v~q~eIA~~lgiT~Qa------VsehiK~Lv~eG~i~~~g------R~~Y~iTkkG~e~l~~-~~~dlr~f~~ev~~~   90 (260)
T COG1497          24 PRVKQKEIAKKLGITLQA------VSEHIKELVKEGLIEKEG------RGEYEITKKGAEWLLE-QLSDLRRFSEEVELV   90 (260)
T ss_pred             CCCCHHHHHHHcCCCHHH------HHHHHHHHHhccceeecC------CeeEEEehhHHHHHHH-HHHHHHHHHHHHHHH
Confidence            567999999999998776      999999999999999977      57999999985 4442 212344444433110


Q ss_pred             -hhhhhhhhhHH-HHhcCC
Q 042491          126 -LLQAPCHHLSQ-CVEEGG  142 (266)
Q Consensus       126 -~~~~~~~~l~~-~l~~~~  142 (266)
                       .+...|..++. -+++|.
T Consensus        91 l~~~~vw~AIA~edI~~Gd  109 (260)
T COG1497          91 LDYVMVWTAIAKEDIKEGD  109 (260)
T ss_pred             HhhHHHHHHhhHhhhccCC
Confidence             12346766654 355553

>PRK00215 LexA repressor; Validated

Probab=83.59  E-value=1.3  Score=36.99  Aligned_cols=37  Identities=22%  Similarity=0.333  Sum_probs=33.7

Q ss_pred             CCCCCHHHHHhhcCC-CCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           46 GSPITLPQLASGINS-SCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        46 g~~~t~~eLA~~~g~-~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      +.+.|..|||+.+|+ +...      +.|+|+.|...|++.+..
T Consensus        21 ~~~~s~~ela~~~~~~~~~t------v~~~l~~L~~~g~i~~~~   58 (205)
T PRK00215         21 GYPPSRREIADALGLRSPSA------VHEHLKALERKGFIRRDP   58 (205)
T ss_pred             CCCCCHHHHHHHhCCCChHH------HHHHHHHHHHCCCEEeCC
Confidence            468899999999999 7766      999999999999998887

>PF05958 tRNA_U5-meth_tr: tRNA (Uracil-5-)-methyltransferase; InterPro: IPR010280 This family consists of (uracil-5-)-methyltransferases 2

Probab=83.50  E-value=1.7  Score=39.55  Aligned_cols=60  Identities=17%  Similarity=0.237  Sum_probs=39.3

Q ss_pred             HHHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEcc
Q 042491          179 MSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGD  243 (266)
Q Consensus       179 ~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd  243 (266)
                      ...+++.++  ..+ ..|+|+=||.|.++..+++..-  +++++|. ++.++.|+.      -++++|+.++
T Consensus       186 ~~~~~~~l~--~~~-~~vlDlycG~G~fsl~la~~~~--~V~gvE~~~~av~~A~~Na~~N~i~n~~f~~~~  252 (352)
T PF05958_consen  186 YEQALEWLD--LSK-GDVLDLYCGVGTFSLPLAKKAK--KVIGVEIVEEAVEDARENAKLNGIDNVEFIRGD  252 (352)
T ss_dssp             HHHHHHHCT--T-T-TEEEEES-TTTCCHHHHHCCSS--EEEEEES-HHHHHHHHHHHHHTT--SEEEEE--
T ss_pred             HHHHHHHhh--cCC-CcEEEEeecCCHHHHHHHhhCC--eEEEeeCCHHHHHHHHHHHHHcCCCcceEEEee
Confidence            334455444  333 3799999999999999998875  5777786 677766653      4678888654

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.

>PF12793 SgrR_N: Sugar transport-related sRNA regulator N-term

Probab=83.33  E-value=0.9  Score=34.50  Aligned_cols=36  Identities=17%  Similarity=0.214  Sum_probs=34.2

Q ss_pred             CCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           47 SPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        47 ~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      .++|++|||+.+.++++.      ++.+|+-|...|.+....
T Consensus        18 ~~vtl~elA~~l~cS~Rn------~r~lLkkm~~~gWi~W~p   53 (115)
T PF12793_consen   18 VEVTLDELAELLFCSRRN------ARTLLKKMQEEGWITWQP   53 (115)
T ss_pred             cceeHHHHHHHhCCCHHH------HHHHHHHHHHCCCeeeeC
Confidence            578999999999999988      999999999999999998

>COG1565 Uncharacterized conserved protein [Function unknown]

Probab=83.17  E-value=3.5  Score=37.52  Aligned_cols=59  Identities=19%  Similarity=0.318  Sum_probs=38.5

Q ss_pred             CchHHHHHHHHHHhhhHHHHHHHHhhcccCCCCCceEEEecCCchHHHHHHHHH----CC----CCeEEEeec
Q 042491          160 NSQFNNSFNKAMACTAKIVMSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEF----YP----HIKGVNFDL  224 (266)
Q Consensus       160 ~~~~~~~f~~~m~~~~~~~~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~----~P----~l~~~~~Dl  224 (266)
                      -|+..+.|-+.++..-   . .++....  .+..-.+|++|.|+|.++.-+++.    +|    .+++.+++.
T Consensus        51 Apels~lFGella~~~---~-~~wq~~g--~p~~~~lvEiGaG~G~l~~DiL~~l~~L~P~~~~~~~~~iiE~  117 (370)
T COG1565          51 APELSQLFGELLAEQF---L-QLWQELG--RPAPLKLVEIGAGRGTLASDILRTLRRLYPELYEALSYYIIEP  117 (370)
T ss_pred             chhHHHHHHHHHHHHH---H-HHHHHhc--CCCCceEEEeCCCcChHHHHHHHHHHHhCHHHHhcceEEEEec
Confidence            4677777777664331   1 1222222  345678999999999999776654    46    457788886

>COG5631 Predicted transcription regulator, contains HTH domain (MarR family) [Transcription]

Probab=82.91  E-value=3.9  Score=32.84  Aligned_cols=76  Identities=21%  Similarity=0.327  Sum_probs=58.1

Q ss_pred             HHhHHHHHHHHHHHhcC-------hhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCC
Q 042491           21 MFAFADSMALKSAVELR-------LADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGS   93 (266)
Q Consensus        21 ~~g~~~~~~L~~a~elg-------lfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~   93 (266)
                      .++.|...|+.+|.+.+       |.-++...+.++++.+|+..++.+.-     ..+..-||-|...|+++..+.    
T Consensus        64 Af~rW~vrCmAaag~~~ls~~e~l~lH~irhrdR~K~laDic~~ln~eDt-----h~itYslrKL~k~gLit~t~~----  134 (199)
T COG5631          64 AFGRWQVRCMAAAGEFSLSGPENLLLHIIRHRDRPKSLADICQMLNREDT-----HNITYSLRKLLKGGLITRTGS----  134 (199)
T ss_pred             HHHHHHHHHHHHhcCCCCcchHHHHHHHHhhcCchhhHHHHHHHhccccc-----hhHHHHHHHHHhccceecCCC----
Confidence            45778888888887765       34455555689999999999998643     357888999999999998872    


Q ss_pred             C-CceEeCchhch
Q 042491           94 E-ETMYGLTQISK  105 (266)
Q Consensus        94 g-~~~y~lt~~s~  105 (266)
                      | +-.|..|+++.
T Consensus       135 gkevTy~vTa~G~  147 (199)
T COG5631         135 GKEVTYEVTALGH  147 (199)
T ss_pred             CceEEEEEecchH
Confidence            2 23699999874

>PF14338 Mrr_N: Mrr N-terminal domain

Probab=82.54  E-value=8  Score=27.79  Aligned_cols=64  Identities=8%  Similarity=0.073  Sum_probs=38.1

Q ss_pred             hhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           38 LADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        38 lfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      |.+.+.+. -.+|.+|....+.-....+.....+.=-+-.|...|+++...      .|.|++|+.++.+.
T Consensus        25 i~~~v~~~-~~ls~e~~~~~~~sg~~~~~~~~ri~Wa~~~L~~aGli~~~~------rG~~~iT~~G~~~l   88 (92)
T PF14338_consen   25 IYERVAER-FGLSDEERNERLPSGQGYSRFKNRIRWARSYLKKAGLIERPK------RGIWRITEKGRKAL   88 (92)
T ss_pred             HHHHHHHH-hCCCHHHHHHHcccCCcchhHHHhHHHHHHHHHHCCCccCCC------CCceEECHhHHHHH
Confidence            55555543 456666666554311110001122444467889999998877      59999999997443

>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=82.23  E-value=1.1  Score=29.81  Aligned_cols=37  Identities=19%  Similarity=0.282  Sum_probs=31.6

Q ss_pred             CCCC-CHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           46 GSPI-TLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        46 g~~~-t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      |..+ |..+||+.+|++...      +.+-|+.|...|++....
T Consensus        21 g~~lps~~~la~~~~vsr~t------vr~al~~L~~~g~i~~~~   58 (64)
T PF00392_consen   21 GDRLPSERELAERYGVSRTT------VREALRRLEAEGLIERRP   58 (64)
T ss_dssp             TSBE--HHHHHHHHTS-HHH------HHHHHHHHHHTTSEEEET
T ss_pred             CCEeCCHHHHHHHhccCCcH------HHHHHHHHHHCCcEEEEC
Confidence            4677 999999999999766      999999999999998876

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 ....

>PLN02668 indole-3-acetate carboxyl methyltransferase

Probab=81.40  E-value=9.3  Score=35.31  Aligned_cols=71  Identities=18%  Similarity=0.223  Sum_probs=45.6

Q ss_pred             CCceEEEecCCchHHHH--------HHHHH-------CCCCeEEEeecHH-----HHhhCC---------------CCCC
Q 042491          192 GIRSLVDVGGGTGEELA--------EIVEF-------YPHIKGVNFDLPH-----VVATAP---------------VYEG  236 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~--------~l~~~-------~P~l~~~~~Dlp~-----v~~~a~---------------~~~r  236 (266)
                      +.-+|+|+|||+|..+.        .+.++       -|++++..=|+|.     +.....               ...+
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            46699999999995542        23333       3567777778862     111111               0112


Q ss_pred             ---eEEEEccCCCC-CCC--ccEEEecccccc
Q 042491          237 ---VSHVGGDMLNA-VPN--ADAVFMKVIVLI  262 (266)
Q Consensus       237 ---i~~~~gd~~~~-~p~--aD~~~l~~vLHd  262 (266)
                         +..++|+|+.- +|.  -++++.+..||=
T Consensus       143 ~~f~~gvpGSFY~RLfP~~Slh~~~Ss~slHW  174 (386)
T PLN02668        143 SYFAAGVPGSFYRRLFPARSIDVFHSAFSLHW  174 (386)
T ss_pred             ceEEEecCccccccccCCCceEEEEeecccee
Confidence               46678999995 784  788888888873

>TIGR03439 methyl_EasF probable methyltransferase domain, EasF family

Probab=81.26  E-value=7  Score=35.17  Aligned_cols=81  Identities=14%  Similarity=0.188  Sum_probs=51.4

Q ss_pred             HHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCC----CCeEEEeecH-HHH----hhCC-C-CCCeEE--EEccCCC
Q 042491          180 STLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYP----HIKGVNFDLP-HVV----ATAP-V-YEGVSH--VGGDMLN  246 (266)
Q Consensus       180 ~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P----~l~~~~~Dlp-~v~----~~a~-~-~~ri~~--~~gd~~~  246 (266)
                      +.+...++    ....|||+|||+|.-.+.|+++..    ..+.+-+|+. +.+    .... . .+.|++  +.|||.+
T Consensus        68 ~~Ia~~i~----~~~~lIELGsG~~~Kt~~LL~aL~~~~~~~~Y~plDIS~~~L~~a~~~L~~~~~p~l~v~~l~gdy~~  143 (319)
T TIGR03439        68 SDIAASIP----SGSMLVELGSGNLRKVGILLEALERQKKSVDYYALDVSRSELQRTLAELPLGNFSHVRCAGLLGTYDD  143 (319)
T ss_pred             HHHHHhcC----CCCEEEEECCCchHHHHHHHHHHHhcCCCceEEEEECCHHHHHHHHHhhhhccCCCeEEEEEEecHHH
Confidence            34455444    456899999999998777666663    4678999983 233    3333 2 355555  7899977


Q ss_pred             C---CC------Cc-cEEEeccccccCC
Q 042491          247 A---VP------NA-DAVFMKVIVLIQD  264 (266)
Q Consensus       247 ~---~p------~a-D~~~l~~vLHd~~  264 (266)
                      .   +|      .. -++++-+.+.+++
T Consensus       144 ~l~~l~~~~~~~~~r~~~flGSsiGNf~  171 (319)
T TIGR03439       144 GLAWLKRPENRSRPTTILWLGSSIGNFS  171 (319)
T ss_pred             HHhhcccccccCCccEEEEeCccccCCC
Confidence            3   22      12 4556666777765

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).

>COG0500 SmtA SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]

Probab=80.27  E-value=6.6  Score=29.03  Aligned_cols=65  Identities=31%  Similarity=0.417  Sum_probs=39.4

Q ss_pred             EEEecCCchHHHHHHHHHCCC-CeEEEeec-HHHHhhCCC-C--CC---eEEEEccCCC---CCC---CccEEEeccccc
Q 042491          196 LVDVGGGTGEELAEIVEFYPH-IKGVNFDL-PHVVATAPV-Y--EG---VSHVGGDMLN---AVP---NADAVFMKVIVL  261 (266)
Q Consensus       196 vvDvGgG~G~~~~~l~~~~P~-l~~~~~Dl-p~v~~~a~~-~--~r---i~~~~gd~~~---~~p---~aD~~~l~~vLH  261 (266)
                      ++|+|||.|... .+.+..+. ...+++|. +..+..... .  ..   +.+..+|...   +++   .+|++ .....+
T Consensus        52 ~ld~~~g~g~~~-~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~-~~~~~~  129 (257)
T COG0500          52 VLDIGCGTGRLA-LLARLGGRGAYVVGVDLSPEMLALARARAEGAGLGLVDFVVADALGGVLPFEDSASFDLV-ISLLVL  129 (257)
T ss_pred             eEEecCCcCHHH-HHHHhCCCCceEEEEeCCHHHHHHHHhhhhhcCCCceEEEEeccccCCCCCCCCCceeEE-eeeeeh
Confidence            999999999977 44444443 36677787 434443221 1  11   6788888775   333   38888 444444


Q ss_pred             c
Q 042491          262 I  262 (266)
Q Consensus       262 d  262 (266)
                      .
T Consensus       130 ~  130 (257)
T COG0500         130 H  130 (257)
T ss_pred             h
Confidence            3

>PRK05638 threonine synthase; Validated

Probab=80.18  E-value=2.2  Score=40.18  Aligned_cols=61  Identities=13%  Similarity=0.174  Sum_probs=46.0

Q ss_pred             cChhhHhhhCCCCCCHHHHHhhcC--CCCCCCCchhhHHHHHHHHhccCcccccccCCCCCC-ceEeCchhchhh
Q 042491           36 LRLADIMHCHGSPITLPQLASGIN--SSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEE-TMYGLTQISKWL  107 (266)
Q Consensus        36 lglfd~L~~~g~~~t~~eLA~~~g--~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~-~~y~lt~~s~~l  107 (266)
                      +.|+..|..  ++.+.-||++.++  +++..      +.+.|+.|...|++.....   .|. -.|++|+.++.+
T Consensus       374 ~~IL~~L~~--~~~~~~el~~~l~~~~s~~~------v~~hL~~Le~~GLV~~~~~---~g~~~~Y~Lt~~g~~~  437 (442)
T PRK05638        374 LEILKILSE--REMYGYEIWKALGKPLKYQA------VYQHIKELEELGLIEEAYR---KGRRVYYKLTEKGRRL  437 (442)
T ss_pred             HHHHHHHhh--CCccHHHHHHHHcccCCcch------HHHHHHHHHHCCCEEEeec---CCCcEEEEECcHHHHH
Confidence            336666765  6899999999998  66666      9999999999999975311   012 349999988643

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	266
1kyw_A	365	Crystal Structure Analysis Of Caffeic Acid5-Hydroxy		1e-39
3reo_A	368	Monolignol O-Methyltransferase (Momt) Length = 368		1e-39
1fp2_A	352	Crystal Structure Analysis Of Isoflavone O-Methyltr		1e-34
2qyo_A	357	Crystal Structure Of Isoflavone O-Methyltransferase		2e-34
3p9c_A	364	Crystal Structure Of Perennial Ryegrass Lpomt1 Boun		2e-33
1fpx_A	352	Crystal Structure Analysis Of Selenomethionine Subs		9e-31
1fp1_D	372	Crystal Structure Analysis Of Chalcone O-Methyltran		5e-30
1fpq_A	372	Crystal Structure Analysis Of Selenomethionine Subs		4e-24
1zga_A	357	Crystal Structure Of Isoflavanone 4'-o-methyltransf		3e-23
1zg3_A	358	Crystal Structure Of The Isoflavanone 4'-O-Methyltr		3e-23
1zgj_A	354	Crystal Structure Of Isoflavanone 4'-O-Methyltransf		3e-23
2ip2_A	334	Structure Of The Pyocyanin Biosynthetic Protein Phz		2e-08
3gwz_A	369	Structure Of The Mitomycin 7-O-Methyltransferase Mm		5e-05
1qzz_A	374	Crystal Structure Of Aclacinomycin-10-Hydroxylase (		2e-04
1x19_A	359	Crystal Structure Of Bchu Involved In Bacteriochlor		3e-04
3lst_A	348	Crystal Structure Of Calo1, Methyltransferase In Ca		4e-04

>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 =  159 bits (402), Expect = 1e-39,   Method: Compositional matrix adjust.
 Identities = 96/249 (38%), Positives = 143/249 (57%), Gaps = 14/249 (5%)
Query: 19  QLMFAFADSMALKSAVELRLADIMHCHG-----SPITLPQLASGINSSCPDVHIIPSLTR 73
           QL  A    M LKSA+EL L +I+   G     SPI   ++AS + ++ PD  ++  L R
Sbjct: 25  QLASASVLPMILKSALELDLLEIIAKAGPGAQISPI---EIASQLPTTNPDAPVM--LDR 79
Query: 74  IMRMLVRKGVF--AAHRSSDGSEETMYGLTQISKWLLRDSE-MSLAPMILFQNSQLLQAP 130
           ++R+L    +   +     DG  + +YGL  ++K+L+++ + +S++ + L    ++L   
Sbjct: 80  MLRLLACYIILTCSVRTQQDGKVQRLYGLATVAKYLVKNEDGVSISALNLMNQDKVLMES 139
Query: 131 CHHLSQCVEEGGHAFKKAHGCEMWDFAXXXXXXXXXXXKAMACTAKIVMSTLLSHYKDGF 190
            +HL   V +GG  F KA+G   +++            K M+  + I M  +L  Y  GF
Sbjct: 140 WYHLKDAVLDGGIPFNKAYGMTAFEYHGTDPRFNKVFNKGMSDHSTITMKKILETYT-GF 198
Query: 191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPVYEGVSHVGGDMLNAVPN 250
           +G++SLVDVGGGTG  +  IV  YP IKG+NFDLPHV+  AP Y GV HVGGDM  ++P 
Sbjct: 199 EGLKSLVDVGGGTGAVINTIVSKYPTIKGINFDLPHVIEDAPSYPGVEHVGGDMFVSIPK 258
Query: 251 ADAVFMKVI 259
           ADAVFMK I
Sbjct: 259 ADAVFMKWI 267

>pdb|3REO|A Chain A, Monolignol O-Methyltransferase (Momt) Length = 368

Iteration: 1
 Score =  159 bits (402), Expect = 1e-39,   Method: Compositional matrix adjust.
 Identities = 89/247 (36%), Positives = 139/247 (56%), Gaps = 9/247 (3%)
Query: 19  QLMFAFADSMALKSAVELRLADIMHCHGSP---ITLPQLASGINSSCPDVHIIPSLTRIM 75
           QL  A    MALK+A+EL + +IM     P   I+  ++A+ + ++ P+  ++  L R++
Sbjct: 27  QLASAAVLPMALKAAIELDVLEIMAKSVPPSGYISPAEIAAQLPTTNPEAPVM--LDRVL 84
Query: 76  RMLVRKGV--FAAHRSSDGSEETMYGLTQISKWLLRDSE-MSLAPMILFQNSQLLQAPCH 132
           R+L    V  +       G  E +YGL  + K+L ++ + +SLAP +L    ++L  P  
Sbjct: 85  RLLASYSVVTYTLRELPSGKVERLYGLAPVCKFLTKNEDGVSLAPFLLLATDKVLLEPWF 144
Query: 133 HLSQCVEEGGHAFKKAHGCEMWDFAXXXXXXXXXXXKAMACTAKIVMSTLLSHYKDGFDG 192
           +L   + EGG  F KA+G  ++D+            K M+  + I M  +L  Y +GF+G
Sbjct: 145 YLKDAILEGGIPFNKAYGMNIFDYHGTDHRINKVFNKGMSSNSTITMKKILEMY-NGFEG 203
Query: 193 IRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPVYEGVSHVGGDMLNAVPNAD 252
           + ++VDVGGGTG   + IV  YP I  +NFDLPHV+  AP + GV H+GGDM + VP  D
Sbjct: 204 LTTIVDVGGGTGAVASMIVAKYPSINAINFDLPHVIQDAPAFSGVEHLGGDMFDGVPKGD 263
Query: 253 AVFMKVI 259
           A+F+K I
Sbjct: 264 AIFIKWI 270

>pdb|1FP2|A Chain A, Crystal Structure Analysis Of Isoflavone O-Methyltransferase Length = 352

Iteration: 1
 Score =  143 bits (361), Expect = 1e-34,   Method: Compositional matrix adjust.
 Identities = 89/253 (35%), Positives = 130/253 (51%), Gaps = 9/253 (3%)
Query: 9   DVLRGQAQVWQLMFAFADSMALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHII 68
           ++ + QA +++ ++AF DSM+LK AVE+ + +I+  HG PI+L  L S +         I
Sbjct: 12  EIFKAQALLYKHIYAFIDSMSLKWAVEMNIPNIIQNHGKPISLSNLVSILQVPSSK---I 68
Query: 69  PSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLLRDSEMSLAPMILFQNSQLLQ 128
            ++ R+MR L   G F         EE  Y LT  S+ L+R S++ LAPM+       L 
Sbjct: 69  GNVRRLMRYLAHNGFFEIITK----EEESYALTVASELLVRGSDLCLAPMVECVLDPTLS 124
Query: 129 APCHHLSQCV-EEGGHAFKKAHGCEMWDFAXXXXXXXXXXXKAMACTAKIVMSTLLSHYK 187
              H L + + EE    F    G   WDF             AMA  +K++ +  L    
Sbjct: 125 GSYHELKKWIYEEDLTLFGVTLGSGFWDFLDKNPEYNTSFNDAMASDSKLI-NLALRDCD 183
Query: 188 DGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPVYEGVSHVGGDMLNA 247
             FDG+ S+VDVGGGTG     I E +P +K + FD P VV        +++VGGDM  +
Sbjct: 184 FVFDGLESIVDVGGGTGTTAKIICETFPKLKCIVFDRPQVVENLSGSNNLTYVGGDMFTS 243
Query: 248 VPNADAVFMKVIV 260
           +PNADAV +K I+
Sbjct: 244 IPNADAVLLKYIL 256

>pdb|2QYO|A Chain A, Crystal Structure Of Isoflavone O-Methyltransferase Homolog In Complex With Biochanin A And Sah Length = 357

Iteration: 1
 Score =  142 bits (358), Expect = 2e-34,   Method: Compositional matrix adjust.
 Identities = 85/254 (33%), Positives = 135/254 (53%), Gaps = 6/254 (2%)
Query: 9   DVLRGQAQVWQLMFAFADSMALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHII 68
           ++ + QA +++ M+AF DSM+LK ++E+ + +I+H HG PITL  L S +      V   
Sbjct: 12  EIFKAQALLYKNMYAFVDSMSLKWSIEMNIPNIIHNHGKPITLSNLVSILQIPSTKVD-- 69
Query: 69  PSLTRIMRMLVRKGVFAAHRSSD-GSEETMYGLTQISKWLLRDSEMSLAPMILFQNSQLL 127
            ++ R+MR L   G F    + +  +EE  Y LT  S+ L++ +E+ LAPM+       L
Sbjct: 70  -NVQRLMRYLAHNGFFEIITNQELENEEEAYALTVASELLVKGTELCLAPMVECVLDPTL 128
Query: 128 QAPCHHLSQCV-EEGGHAFKKAHGCEMWDFAXXXXXXXXXXXKAMACTAKIVMSTLLSHY 186
               H+L + V EE    F    GC++W+F             A+A  +K++ +  +   
Sbjct: 129 STSFHNLKKWVYEEDLTLFAVNLGCDLWEFLNKNPEYNTLYNDALASDSKMI-NLAMKDC 187
Query: 187 KDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPVYEGVSHVGGDMLN 246
              F+G+ S+VDVGGG G     I E +P +  V FD P VV        +++VGGDM  
Sbjct: 188 NLVFEGLESIVDVGGGNGTTGKIICETFPKLTCVVFDRPKVVENLCGSNNLTYVGGDMFI 247
Query: 247 AVPNADAVFMKVIV 260
           +VP ADAV +K ++
Sbjct: 248 SVPKADAVLLKAVL 261

>pdb|3P9C|A Chain A, Crystal Structure Of Perennial Ryegrass Lpomt1 Bound To Sah Length = 364

Iteration: 1
 Score =  139 bits (350), Expect = 2e-33,   Method: Compositional matrix adjust.
 Identities = 85/241 (35%), Positives = 124/241 (51%), Gaps = 14/241 (5%)
Query: 28  MALKSAVELRLADIMHCHGSPITLP-----QLASGINSSCPDVHIIPSLTRIMRMLVRKG 82
           M LK+A+EL L +I+   G     P     +L S  N   PD+     + RI+R+L    
Sbjct: 35  MTLKNAIELGLLEILVAAGGKSLTPTEVAAKLPSAANPEAPDM-----VDRILRLLASYN 89
Query: 83  VFA--AHRSSDGSEETMYGLTQISKWLLRDSE-MSLAPMILFQNSQLLQAPCHHLSQCVE 139
           V         DG     YG   + K+L  + + +S+A + L    ++L    ++L   V 
Sbjct: 90  VVTCLVEEGKDGRLSRSYGAAPVCKFLTPNEDGVSMAALALMNQDKVLMESWYYLKDAVL 149
Query: 140 EGGHAFKKAHGCEMWDFAXXXXXXXXXXXKAMACTAKIVMSTLLSHYKDGFDGIRSLVDV 199
           +GG  F KA+G   +++            + M   + I+   LL  Y  GF+G+ +LVDV
Sbjct: 150 DGGIPFNKAYGMSAFEYHGTDPRFNRVFNEGMKNHSIIITKKLLELYH-GFEGLGTLVDV 208
Query: 200 GGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPVYEGVSHVGGDMLNAVPNADAVFMKVI 259
           GGG G  +A I   YP IKGVNFDLPHV++ AP + GV+HVGGDM   VP+ D + MK I
Sbjct: 209 GGGVGATVAAIAAHYPTIKGVNFDLPHVISEAPQFPGVTHVGGDMFKEVPSGDTILMKWI 268
Query: 260 V 260
           +
Sbjct: 269 L 269

>pdb|1FPX|A Chain A, Crystal Structure Analysis Of Selenomethionine Substituted Isoflavone O-Methyltransferase Length = 352

Iteration: 1
 Score =  130 bits (326), Expect = 9e-31,   Method: Compositional matrix adjust.
 Identities = 84/253 (33%), Positives = 124/253 (49%), Gaps = 9/253 (3%)
Query: 9   DVLRGQAQVWQLMFAFADSMALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHII 68
           ++ + QA +++ ++AF DS +LK AVE  + +I+  HG PI+L  L S +         I
Sbjct: 12  EIFKAQALLYKHIYAFIDSXSLKWAVEXNIPNIIQNHGKPISLSNLVSILQVPSSK---I 68
Query: 69  PSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLLRDSEMSLAPMILFQNSQLLQ 128
            ++ R+ R L   G F         EE  Y LT  S+ L+R S++ LAP +       L 
Sbjct: 69  GNVRRLXRYLAHNGFFEIITK----EEESYALTVASELLVRGSDLCLAPXVECVLDPTLS 124
Query: 129 APCHHLSQCV-EEGGHAFKKAHGCEMWDFAXXXXXXXXXXXKAMACTAKIVMSTLLSHYK 187
              H L + + EE    F    G   WDF             A A  +K++ +  L    
Sbjct: 125 GSYHELKKWIYEEDLTLFGVTLGSGFWDFLDKNPEYNTSFNDAXASDSKLI-NLALRDCD 183
Query: 188 DGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPVYEGVSHVGGDMLNA 247
             FDG+ S+VDVGGGTG     I E +P +K + FD P VV        +++VGGD   +
Sbjct: 184 FVFDGLESIVDVGGGTGTTAKIICETFPKLKCIVFDRPQVVENLSGSNNLTYVGGDXFTS 243
Query: 248 VPNADAVFMKVIV 260
           +PNADAV +K I+
Sbjct: 244 IPNADAVLLKYIL 256

>pdb|1FP1|D Chain D, Crystal Structure Analysis Of Chalcone O-Methyltransferase Length = 372

Iteration: 1
 Score =  127 bits (320), Expect = 5e-30,   Method: Compositional matrix adjust.
 Identities = 81/237 (34%), Positives = 120/237 (50%), Gaps = 8/237 (3%)
Query: 30  LKSAVELRLADIMHCHGSP---ITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAA 86
           L +A++L L +I+     P   ++  ++AS + +S     +   L R++R+L    V  +
Sbjct: 41  LNAAIDLNLFEIIAKATPPGAFMSPSEIASKLPASTQHSDLPNRLDRMLRLLASYSVLTS 100
Query: 87  HRSS--DGSEETMYGLTQISKWLLRD-SEMSLAPMILFQ-NSQLLQAPCHHLSQCVEEGG 142
              +  DG  E +YGL+ + K+L+ D S   LA    F     LLQ   +     V+E  
Sbjct: 101 TTRTIEDGGAERVYGLSMVGKYLVPDESRGYLASFTTFLCYPALLQVWMNFKEAVVDEDI 160
Query: 143 HAFKKAHGCEMWDFAXXXXXXXXXXXKAMACTAKIVMSTLLSHYKDGFDGIRSLVDVGGG 202
             FK  HG   ++F            K+M       M  +L  Y  GF+GI +LVDVGGG
Sbjct: 161 DLFKNVHGVTKYEFMGKDKKMNQIFNKSMVDVCATEMKRMLEIYT-GFEGISTLVDVGGG 219
Query: 203 TGEELAEIVEFYPHIKGVNFDLPHVVATAPVYEGVSHVGGDMLNAVPNADAVFMKVI 259
           +G  L  I+  YP IKG+NFDLP V+  AP   G+ HVGGDM  +VP  DA+ +K +
Sbjct: 220 SGRNLELIISKYPLIKGINFDLPQVIENAPPLSGIEHVGGDMFASVPQGDAMILKAV 276

>pdb|1FPQ|A Chain A, Crystal Structure Analysis Of Selenomethionine Substituted Chalcone O- Methyltransferase Length = 372

Iteration: 1
 Score =  108 bits (269), Expect = 4e-24,   Method: Compositional matrix adjust.
 Identities = 65/171 (38%), Positives = 85/171 (49%), Gaps = 3/171 (1%)
Query: 91  DGSEETMYGLTQISKWLLRD-SEMSLAPMILFQ-NSQLLQAPCHHLSQCVEEGGHAFKKA 148
           DG  E +YGL+ + K+L+ D S   LA    F     LLQ   +     V+E    FK  
Sbjct: 107 DGGAERVYGLSXVGKYLVPDESRGYLASFTTFLCYPALLQVWXNFKEAVVDEDIDLFKNV 166
Query: 149 HGCEMWDFAXXXXXXXXXXXKAMACTAKIVMSTLLSHYKDGFDGIRSLVDVGGGTGEELA 208
           HG   ++F            K+            L  Y  GF+GI +LVDVGGG+G  L 
Sbjct: 167 HGVTKYEFXGKDKKXNQIFNKSXVDVCATEXKRXLEIYT-GFEGISTLVDVGGGSGRNLE 225
Query: 209 EIVEFYPHIKGVNFDLPHVVATAPVYEGVSHVGGDMLNAVPNADAVFMKVI 259
            I+  YP IKG+NFDLP V+  AP   G+ HVGGD   +VP  DA  +K +
Sbjct: 226 LIISKYPLIKGINFDLPQVIENAPPLSGIEHVGGDXFASVPQGDAXILKAV 276

>pdb|1ZGA|A Chain A, Crystal Structure Of Isoflavanone 4'-o-methyltransferase Complexed With (+)-6a-hydroxymaackiain Length = 357

Iteration: 1
 Score =  105 bits (262), Expect = 3e-23,   Method: Compositional matrix adjust.
 Identities = 89/262 (33%), Positives = 133/262 (50%), Gaps = 16/262 (6%)
Query: 9   DVLRGQAQVWQLMFAFADSMALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHII 68
           ++   Q  +++ ++ F  SMALKSA+EL +AD +H HG P+TL +LAS +      V+I 
Sbjct: 5   ELYHAQIHLYKHVYNFVSSMALKSAMELGIADAIHNHGKPMTLSELASSLKLHPSKVNI- 63
Query: 69  PSLTRIMRMLVRKGVFAA----HRSSDGSEETMYGLTQISKWLLRDSEMSLAPMI---LF 121
             L R +R+L   G FA      +  D  EE  Y LT  SK L+      L+ ++   L 
Sbjct: 64  --LHRFLRLLTHNGFFAKTIVKGKEGDEEEEIAYSLTPPSKLLISGKPTCLSSIVKGALH 121
Query: 122 QNS-QLLQAPCHHLSQCVEEGGHAFKKAHGCEMWDF--AXXXXXXXXXXXKAMACTAKIV 178
            +S  +  +     ++  E+    F+ A G   WDF               AMA  +++ 
Sbjct: 122 PSSLDMWSSSKKWFNEDKEQT--LFECATGESFWDFLNKDSESSTLSMFQDAMASDSRM- 178
Query: 179 MSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPVYEGVS 238
              +L   K  F+G+ SLVDVGGGTG     I E +PH+K   FD P VV      E ++
Sbjct: 179 FKLVLQENKRVFEGLESLVDVGGGTGGVTKLIHEIFPHLKCTVFDQPQVVGNLTGNENLN 238
Query: 239 HVGGDMLNAVPNADAVFMKVIV 260
            VGGDM  ++P+ADAV +K ++
Sbjct: 239 FVGGDMFKSIPSADAVLLKWVL 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 =  105 bits (262), Expect = 3e-23,   Method: Compositional matrix adjust.
 Identities = 89/262 (33%), Positives = 133/262 (50%), Gaps = 16/262 (6%)
Query: 9   DVLRGQAQVWQLMFAFADSMALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHII 68
           ++   Q  +++ ++ F  SMALKSA+EL +AD +H HG P+TL +LAS +      V+I 
Sbjct: 6   ELYHAQIHLYKHVYNFVSSMALKSAMELGIADAIHNHGKPMTLSELASSLKLHPSKVNI- 64
Query: 69  PSLTRIMRMLVRKGVFAA----HRSSDGSEETMYGLTQISKWLLRDSEMSLAPMI---LF 121
             L R +R+L   G FA      +  D  EE  Y LT  SK L+      L+ ++   L 
Sbjct: 65  --LHRFLRLLTHNGFFAKTIVKGKEGDEEEEIAYSLTPPSKLLISGKPTCLSSIVKGALH 122
Query: 122 QNS-QLLQAPCHHLSQCVEEGGHAFKKAHGCEMWDF--AXXXXXXXXXXXKAMACTAKIV 178
            +S  +  +     ++  E+    F+ A G   WDF               AMA  +++ 
Sbjct: 123 PSSLDMWSSSKKWFNEDKEQT--LFECATGESFWDFLNKDSESSTLSMFQDAMASDSRM- 179
Query: 179 MSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPVYEGVS 238
              +L   K  F+G+ SLVDVGGGTG     I E +PH+K   FD P VV      E ++
Sbjct: 180 FKLVLQENKRVFEGLESLVDVGGGTGGVTKLIHEIFPHLKCTVFDQPQVVGNLTGNENLN 239
Query: 239 HVGGDMLNAVPNADAVFMKVIV 260
            VGGDM  ++P+ADAV +K ++
Sbjct: 240 FVGGDMFKSIPSADAVLLKWVL 261

>pdb|1ZGJ|A Chain A, Crystal Structure Of Isoflavanone 4'-O-Methyltransferase Complexed With (+)-Pisatin Length = 354

Iteration: 1
 Score =  105 bits (262), Expect = 3e-23,   Method: Compositional matrix adjust.
 Identities = 88/260 (33%), Positives = 128/260 (49%), Gaps = 12/260 (4%)
Query: 9   DVLRGQAQVWQLMFAFADSMALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHII 68
           ++   Q  +++ ++ F  SMALKSA+EL +AD +H HG P+TL +LAS +      V+I 
Sbjct: 2   ELYHAQIHLYKHVYNFVSSMALKSAMELGIADAIHNHGKPMTLSELASSLKLHPSKVNI- 60
Query: 69  PSLTRIMRMLVRKGVFAA----HRSSDGSEETMYGLTQISKWLLRDSEMSLAPMI--LFQ 122
             L R +R+L   G FA      +  D  EE  Y LT  SK L+      L+ ++     
Sbjct: 61  --LHRFLRLLTHNGFFAKTIVKGKEGDEEEEIAYSLTPPSKLLISGKPTCLSSIVKGALH 118
Query: 123 NSQLLQAPCHHLSQCVEEGGHAFKKAHGCEMWDF--AXXXXXXXXXXXKAMACTAKIVMS 180
            S L            ++    F+ A G   WDF               AMA  +++   
Sbjct: 119 PSSLDMWSSSKKWFNEDKEQTLFECATGESFWDFLNKDSESSTLSMFQDAMASDSRM-FK 177
Query: 181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPVYEGVSHV 240
            +L   K  F+G+ SLVDVGGGTG     I E +PH+K   FD P VV      E ++ V
Sbjct: 178 LVLQENKRVFEGLESLVDVGGGTGGVTKLIHEIFPHLKCTVFDQPQVVGNLTGNENLNFV 237
Query: 241 GGDMLNAVPNADAVFMKVIV 260
           GGDM  ++P+ADAV +K ++
Sbjct: 238 GGDMFKSIPSADAVLLKWVL 257

>pdb|2IP2|A Chain A, Structure Of The Pyocyanin Biosynthetic Protein Phzm Length = 334

Iteration: 1
 Score = 56.2 bits (134), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 72/239 (30%), Positives = 98/239 (41%), Gaps = 34/239 (14%)
Query: 33  AVELRLADIMHCHGSPITLPQ-LASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSD 91
           A  L LAD++    S I   + LA+ + S    +H      R+MR+LV   +F       
Sbjct: 28  ATRLGLADLIE---SGIDSDETLAAAVGSDAERIH------RLMRLLVAFEIF------Q 72
Query: 92  GSEETMYGLTQISKWLLRDSEMSLAPMILFQNSQLLQAPCHHLSQCVEEGGHAFKKAHGC 151
           G     Y  T  S  LLRD E S   M+LF   +   A      + +  G   F+ A G 
Sbjct: 73  GDTRDGYANTPTSH-LLRDVEGSFRDMVLFYGEEF-HAAWTPACEALLSGTPGFELAFGE 130
Query: 152 EMWDFAXXXXXXXXXXXKAMACT--AKIVMSTLLSHYKDGFDGIRSLVDVGGGTGEELAE 209
           + + +             AM  +  A   +  LL      F G RS VDVGGG+GE    
Sbjct: 131 DFYSYLKRCPDAGRRFLLAMKASNLAFHEIPRLLD-----FRG-RSFVDVGGGSGELTKA 184
Query: 210 IVEFYPHIKGVNFDLPHVVATAP-------VYEGVSHVGGDMLNAVP-NADAVFMKVIV 260
           I++  P  +GV  D    +  A          E VS VGGDML  VP N D   +  I+
Sbjct: 185 ILQAEPSARGVMLDREGSLGVARDNLSSLLAGERVSLVGGDMLQEVPSNGDIYLLSRII 243

>pdb|3GWZ|A Chain A, Structure Of The Mitomycin 7-O-Methyltransferase Mmcr Length = 369

Iteration: 1
 Score = 44.7 bits (104), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 39/182 (21%), Positives = 68/182 (37%), Gaps = 14/182 (7%)
Query: 82  GVFAAHRSSDGSEETMYGLTQISKWLLRDSEMSLAPMILFQNSQLLQAPCHHLSQCVEEG 141
           GVF      D   + ++    +S  LL D    +A    FQ +         L+  V  G
Sbjct: 99  GVF-----DDLGHDDLFAQNALSAVLLPDPASPVATDARFQAAPWHWRAWEQLTHSVRTG 153
Query: 142 GHAFKKAHGCEMWDFAXXXXXXXXXXXKAMACTAKIVMSTLLSHYKDGFDGIRSLVDVGG 201
             +F  A+G   W              +A    +      + + Y   F G  + VD+GG
Sbjct: 154 EASFDVANGTSFWQLTHEDPKARELFNRAXGSVSLTEAGQVAAAYD--FSGAATAVDIGG 211
Query: 202 GTGEELAEIVEFYPHIKGVNFDLPHVVATAP---VYEGVSH----VGGDMLNAVPNADAV 254
           G G   A +++ +P ++G   + P V   A       G++     + GD    +P+   V
Sbjct: 212 GRGSLXAAVLDAFPGLRGTLLERPPVAEEARELLTGRGLADRCEILPGDFFETIPDGADV 271
Query: 255 FM 256
           ++
Sbjct: 272 YL 273

>pdb|1QZZ|A Chain A, Crystal Structure Of Aclacinomycin-10-Hydroxylase (Rdmb) In Complex With S-Adensyl-L-Methionine (Sam) Length = 374

Iteration: 1
 Score = 43.1 bits (100), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 61/250 (24%), Positives = 90/250 (36%), Gaps = 37/250 (14%)
Query: 28  MALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVF-AA 86
           MAL+ A  LRL D  H      TL  LA        D H   +L+R++R L   GV    
Sbjct: 31  MALRVAATLRLVD--HLLAGADTLAGLADRT-----DTHP-QALSRLVRHLTVVGVLEGG 82
Query: 87  HRSSDGSEETMYGL-------TQISKWLLRDSEMSLAPMILFQNSQLLQAPCHHLSQCVE 139
            +       T  G+        Q   WL  +  +S A +               L   V 
Sbjct: 83  EKQGRPLRPTRLGMLLADGHPAQQRAWLDLNGAVSHADLAF-----------TGLLDVVR 131
Query: 140 EGGHAFKKAHGCEMWDFAXXXXXXXXXXXKAMACTAKIVMSTLLSHYKDGFDGIRSLVDV 199
            G  A+   +G   W+               M+C   +        Y   +  +R ++DV
Sbjct: 132 TGRPAYAGRYGRPFWEDLSADVALADSFDALMSCDEDLAYEAPADAYD--WSAVRHVLDV 189
Query: 200 GGGTGEELAEIVEFYPHIKGVNFDLP-------HVVATAPVYEGVSHVGGDMLNAVP-NA 251
           GGG G  LA I    PH++G   +L           A A + + V+   GD    +P  A
Sbjct: 190 GGGNGGMLAAIALRAPHLRGTLVELAGPAERARRRFADAGLADRVTVAEGDFFKPLPVTA 249
Query: 252 DAVFMKVIVL 261
           D V +  ++L
Sbjct: 250 DVVLLSFVLL 259

>pdb|1X19|A Chain A, Crystal Structure Of Bchu Involved In Bacteriochlorophyll C Biosynthesis Length = 359

Iteration: 1
 Score = 42.4 bits (98), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 62/272 (22%), Positives = 109/272 (40%), Gaps = 49/272 (18%)
Query: 1   MESADVREDVLRGQAQVWQLMFAFADSMALKSAVELRLADIMHCHGSPITLPQLASGINS 60
           M + D+     R    V++ +  F+    +K+A+EL L    H    P  L  LA+   S
Sbjct: 22  MSNNDLLNYYHRANELVFKGLIEFS---CMKAAIELDL--FSHMAEGPKDLATLAADTGS 76
Query: 61  SCPDVHIIPSLTRIMRML-VRKGV-----FAAHRSSDGSEETMYGLTQISK---WLLRDS 111
             P + ++    R MR++ +  G      FA +  S   +E     T ++K   +L  D 
Sbjct: 77  VPPRLEMLLETLRQMRVINLEDGKWSLTEFADYMFSPTPKEPNLHQTPVAKAMAFLADDF 136
Query: 112 EMSLAPMILFQNSQLLQAPCHHLSQCVEEGGHAFKKAHGCEMWDFAXXXXXXXXXXXKAM 171
            M L+  +  Q +   Q P   +++   E    F++ H                      
Sbjct: 137 YMGLSQAVRGQKNFKGQVPYPPVTR---EDNLYFEEIH---------------------- 171
Query: 172 ACTAKIVMSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVV--- 228
              AK  +  LL   K   DG++ ++DVGGG G+  A +++ +P +     +LP  +   
Sbjct: 172 RSNAKFAIQLLLEEAK--LDGVKKMIDVGGGIGDISAAMLKHFPELDSTILNLPGAIDLV 229
Query: 229 ----ATAPVYEGVSHVGGDMLN-AVPNADAVF 255
               A   V + +  +  D+   + P ADAV 
Sbjct: 230 NENAAEKGVADRMRGIAVDIYKESYPEADAVL 261

>pdb|3LST|A Chain A, Crystal Structure Of Calo1, Methyltransferase In Calicheamicin Biosynthesis, Sah Bound Form Length = 348

Iteration: 1
 Score = 41.6 bits (96), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 51/195 (26%), Positives = 75/195 (38%), Gaps = 14/195 (7%)
Query: 71  LTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLLRDSEMSLAPMILFQNSQLLQAP 130
           L R++R+L  + V    R SDG     + LT     L  DS +     IL          
Sbjct: 72  LRRVLRLLAVRDVV---RESDG----RFALTDKGAALRSDSPVPARAGILXFTDTXFWTX 124
Query: 131 CHHLSQCVEEGGHAFKKAHGCEMWDFAXXXXXXXXXXXKAMACTAKIVMSTLLSHYKDGF 190
            H ++  +     AF    G  +  +            +    T       +L+   D F
Sbjct: 125 SHRVASALGPERPAFADIFGSSLDAYFDGDAEVEALYYEGXE-TVSAAEHLILARAGD-F 182
Query: 191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVAT----APVYEGV-SHVGGDML 245
               ++ DVGGG G  L  ++  +P ++GV  D   VVA     AP   G    V GD L
Sbjct: 183 PATGTVADVGGGRGGFLLTVLREHPGLQGVLLDRAEVVARHRLDAPDVAGRWKVVEGDFL 242
Query: 246 NAVPNADAVFMKVIV 260
             VP+AD   +K I+
Sbjct: 243 REVPHADVHVLKRIL 257

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	266
1fp2_A	352	Isoflavone O-methyltransferase; protein-product co	3e-91
3reo_A	368	(ISO)eugenol O-methyltransferase; directed evoluti	4e-89
1fp1_D	372	Isoliquiritigenin 2'-O-methyltransferase; protein-	7e-88
3p9c_A	364	Caffeic acid O-methyltransferase; S-adenosylmethio	1e-87
3lst_A	348	CALO1 methyltransferase; calicheamicin, enediyne,	4e-87
1zg3_A	358	Isoflavanone 4'-O-methyltransferase; rossman fold,	2e-86
3gwz_A	369	MMCR; methyltransferase, mitomycin, S-adenosyl met	2e-83
3i53_A	332	O-methyltransferase; CO-complex, rossmann-like fol	4e-81
1qzz_A	374	RDMB, aclacinomycin-10-hydroxylase; anthracycline,	3e-79
1tw3_A	360	COMT, carminomycin 4-O-methyltransferase; anthracy	2e-77
2ip2_A	334	Probable phenazine-specific methyltransferase; pyo	1e-76
1x19_A	359	CRTF-related protein; methyltransferase, bacterioc	7e-64
2r3s_A	335	Uncharacterized protein; methyltransferase domain,	3e-60
3mcz_A	352	O-methyltransferase; adomet_mtases, S-adenosylmeth	7e-57
3dp7_A	363	SAM-dependent methyltransferase; structural genomi	5e-56

>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 =  272 bits (698), Expect = 3e-91
 Identities = 92/253 (36%), Positives = 135/253 (53%), Gaps = 9/253 (3%)

Query: 8   EDVLRGQAQVWQLMFAFADSMALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHI 67
            ++ + QA +++ ++AF DSM+LK AVE+ + +I+  HG PI+L  L S +      +  
Sbjct: 11  SEIFKAQALLYKHIYAFIDSMSLKWAVEMNIPNIIQNHGKPISLSNLVSILQVPSSKI-- 68

Query: 68  IPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLLRDSEMSLAPMILFQNSQLL 127
             ++ R+MR L   G F         EE  Y LT  S+ L+R S++ LAPM+       L
Sbjct: 69  -GNVRRLMRYLAHNGFFEII----TKEEESYALTVASELLVRGSDLCLAPMVECVLDPTL 123

Query: 128 QAPCHHLSQCVEEGGH-AFKKAHGCEMWDFASQNSQFNNSFNKAMACTAKIVMSTLLSHY 186
               H L + + E     F    G   WDF  +N ++N SFN AMA  +K++   L    
Sbjct: 124 SGSYHELKKWIYEEDLTLFGVTLGSGFWDFLDKNPEYNTSFNDAMASDSKLINLALR-DC 182

Query: 187 KDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPVYEGVSHVGGDMLN 246
              FDG+ S+VDVGGGTG     I E +P +K + FD P VV        +++VGGDM  
Sbjct: 183 DFVFDGLESIVDVGGGTGTTAKIICETFPKLKCIVFDRPQVVENLSGSNNLTYVGGDMFT 242

Query: 247 AVPNADAVFMKVI 259
           ++PNADAV +K I
Sbjct: 243 SIPNADAVLLKYI 255

>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 =  268 bits (686), Expect = 4e-89
 Identities = 92/253 (36%), Positives = 141/253 (55%), Gaps = 9/253 (3%)

Query: 13  GQAQVWQLMFAFADSMALKSAVELRLADIMHCHGSP---ITLPQLASGINSSCPDVHIIP 69
                 QL  A    MALK+A+EL + +IM     P   I+  ++A+ + ++ P+     
Sbjct: 21  ANLFAMQLASAAVLPMALKAAIELDVLEIMAKSVPPSGYISPAEIAAQLPTTNPE--APV 78

Query: 70  SLTRIMRMLVRKGVFA--AHRSSDGSEETMYGLTQISKWLLRDSE-MSLAPMILFQNSQL 126
            L R++R+L    V          G  E +YGL  + K+L ++ + +SLAP +L    ++
Sbjct: 79  MLDRVLRLLASYSVVTYTLRELPSGKVERLYGLAPVCKFLTKNEDGVSLAPFLLLATDKV 138

Query: 127 LQAPCHHLSQCVEEGGHAFKKAHGCEMWDFASQNSQFNNSFNKAMACTAKIVMSTLLSHY 186
           L  P  +L   + EGG  F KA+G  ++D+   + + N  FNK M+  + I M  +L  Y
Sbjct: 139 LLEPWFYLKDAILEGGIPFNKAYGMNIFDYHGTDHRINKVFNKGMSSNSTITMKKILEMY 198

Query: 187 KDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPVYEGVSHVGGDMLN 246
            +GF+G+ ++VDVGGGTG   + IV  YP I  +NFDLPHV+  AP + GV H+GGDM +
Sbjct: 199 -NGFEGLTTIVDVGGGTGAVASMIVAKYPSINAINFDLPHVIQDAPAFSGVEHLGGDMFD 257

Query: 247 AVPNADAVFMKVI 259
            VP  DA+F+K I
Sbjct: 258 GVPKGDAIFIKWI 270

>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 =  264 bits (677), Expect = 7e-88
 Identities = 84/264 (31%), Positives = 128/264 (48%), Gaps = 8/264 (3%)

Query: 3   SADVREDVLRGQAQVWQLMFAFADSMALKSAVELRLADIMHCHGSP---ITLPQLASGIN 59
           SA   +           L         L +A++L L +I+     P   ++  ++AS + 
Sbjct: 14  SATSEQTEDSACLSAMVLTTNLVYPAVLNAAIDLNLFEIIAKATPPGAFMSPSEIASKLP 73

Query: 60  SSCPDVHIIPSLTRIMRMLVRKGVFAAHRSS--DGSEETMYGLTQISKWLLRD-SEMSLA 116
           +S     +   L R++R+L    V  +   +  DG  E +YGL+ + K+L+ D S   LA
Sbjct: 74  ASTQHSDLPNRLDRMLRLLASYSVLTSTTRTIEDGGAERVYGLSMVGKYLVPDESRGYLA 133

Query: 117 PMILFQNSQLLQAPCHHLSQCVEEGGH-AFKKAHGCEMWDFASQNSQFNNSFNKAMACTA 175
               F     L     +  + V +     FK  HG   ++F  ++ + N  FNK+M    
Sbjct: 134 SFTTFLCYPALLQVWMNFKEAVVDEDIDLFKNVHGVTKYEFMGKDKKMNQIFNKSMVDVC 193

Query: 176 KIVMSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPVYE 235
              M  +L  Y  GF+GI +LVDVGGG+G  L  I+  YP IKG+NFDLP V+  AP   
Sbjct: 194 ATEMKRMLEIY-TGFEGISTLVDVGGGSGRNLELIISKYPLIKGINFDLPQVIENAPPLS 252

Query: 236 GVSHVGGDMLNAVPNADAVFMKVI 259
           G+ HVGGDM  +VP  DA+ +K +
Sbjct: 253 GIEHVGGDMFASVPQGDAMILKAV 276

>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 =  263 bits (675), Expect = 1e-87
 Identities = 88/250 (35%), Positives = 133/250 (53%), Gaps = 6/250 (2%)

Query: 14  QAQVWQLMFAFADSMALKSAVELRLADIMH-CHGSPITLPQLASGINSSCPDVHIIPSLT 72
                QL  +    M LK+A+EL L +I+    G  +T  ++A+ + S+         + 
Sbjct: 21  CMFALQLASSSVLPMTLKNAIELGLLEILVAAGGKSLTPTEVAAKLPSAANPEAP-DMVD 79

Query: 73  RIMRMLVRKGVFA--AHRSSDGSEETMYGLTQISKWLLRDSE-MSLAPMILFQNSQLLQA 129
           RI+R+L    V         DG     YG   + K+L  + + +S+A + L    ++L  
Sbjct: 80  RILRLLASYNVVTCLVEEGKDGRLSRSYGAAPVCKFLTPNEDGVSMAALALMNQDKVLME 139

Query: 130 PCHHLSQCVEEGGHAFKKAHGCEMWDFASQNSQFNNSFNKAMACTAKIVMSTLLSHYKDG 189
             ++L   V +GG  F KA+G   +++   + +FN  FN+ M   + I+   LL  Y  G
Sbjct: 140 SWYYLKDAVLDGGIPFNKAYGMSAFEYHGTDPRFNRVFNEGMKNHSIIITKKLLELY-HG 198

Query: 190 FDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPVYEGVSHVGGDMLNAVP 249
           F+G+ +LVDVGGG G  +A I   YP IKGVNFDLPHV++ AP + GV+HVGGDM   VP
Sbjct: 199 FEGLGTLVDVGGGVGATVAAIAAHYPTIKGVNFDLPHVISEAPQFPGVTHVGGDMFKEVP 258

Query: 250 NADAVFMKVI 259
           + D + MK I
Sbjct: 259 SGDTILMKWI 268

>3lst_A CALO1 methyltransferase; calicheamicin, enediyne, SAH, STRU genomics, PSI-2, protein structure initiative; HET: SAH; 2.40A {Micromonospora echinospora} Length = 348

 Score =  262 bits (671), Expect = 4e-87
 Identities = 55/257 (21%), Positives = 98/257 (38%), Gaps = 22/257 (8%)

Query: 8   EDVLRGQAQVWQLMFAFADSMALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHI 67
            D L+    +++    +  + AL++A  + +AD +     P T  +LA+   +       
Sbjct: 17  MDRLQSALALYEEAMGYTYAAALRAAAAVGVADHLV--DGPRTPAELAAATGTD------ 68

Query: 68  IPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLLRDSEMSLAPMILFQNSQLL 127
             +L R++R+L  + V           +  + LT     L  DS +     IL     + 
Sbjct: 69  ADALRRVLRLLAVRDVVRE-------SDGRFALTDKGAALRSDSPVPARAGILMFTDTMF 121

Query: 128 QAPCHHLSQCVEEGGHAFKKAHGCEMWDFASQNSQFNNSFNKAMACTAKIVMSTLLSHYK 187
               H ++  +     AF    G  +  +   +++    + + M   +      L     
Sbjct: 122 WTMSHRVASALGPERPAFADIFGSSLDAYFDGDAEVEALYYEGMETVSAAEHLILARAG- 180

Query: 188 DGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATA-----PVYEGVSHVGG 242
             F    ++ DVGGG G  L  ++  +P ++GV  D   VVA        V      V G
Sbjct: 181 -DFPATGTVADVGGGRGGFLLTVLREHPGLQGVLLDRAEVVARHRLDAPDVAGRWKVVEG 239

Query: 243 DMLNAVPNADAVFMKVI 259
           D L  VP+AD   +K I
Sbjct: 240 DFLREVPHADVHVLKRI 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 =  260 bits (666), Expect = 2e-86
 Identities = 87/260 (33%), Positives = 128/260 (49%), Gaps = 12/260 (4%)

Query: 8   EDVLRGQAQVWQLMFAFADSMALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHI 67
            ++   Q  +++ ++ F  SMALKSA+EL +AD +H HG P+TL +LAS +      V  
Sbjct: 5   SELYHAQIHLYKHVYNFVSSMALKSAMELGIADAIHNHGKPMTLSELASSLKLHPSKV-- 62

Query: 68  IPSLTRIMRMLVRKGVFAAHRSS----DGSEETMYGLTQISKWLLRDSEMSLAPMILFQN 123
              L R +R+L   G FA         D  EE  Y LT  SK L+      L+ ++    
Sbjct: 63  -NILHRFLRLLTHNGFFAKTIVKGKEGDEEEEIAYSLTPPSKLLISGKPTCLSSIVKGAL 121

Query: 124 SQLLQAPCHHLSQCVEEGG--HAFKKAHGCEMWDFASQNSQFNN--SFNKAMACTAKIVM 179
                       +   E      F+ A G   WDF +++S+ +    F  AMA  +++  
Sbjct: 122 HPSSLDMWSSSKKWFNEDKEQTLFECATGESFWDFLNKDSESSTLSMFQDAMASDSRMFK 181

Query: 180 STLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPVYEGVSH 239
             L  +    F+G+ SLVDVGGGTG     I E +PH+K   FD P VV      E ++ 
Sbjct: 182 LVLQENK-RVFEGLESLVDVGGGTGGVTKLIHEIFPHLKCTVFDQPQVVGNLTGNENLNF 240

Query: 240 VGGDMLNAVPNADAVFMKVI 259
           VGGDM  ++P+ADAV +K +
Sbjct: 241 VGGDMFKSIPSADAVLLKWV 260

>3gwz_A MMCR; methyltransferase, mitomycin, S-adenosyl methionine, transferase; HET: MSE SAH; 1.91A {Streptomyces lavendulae} PDB: 3gxo_A* Length = 369

 Score =  253 bits (649), Expect = 2e-83
 Identities = 57/267 (21%), Positives = 102/267 (38%), Gaps = 23/267 (8%)

Query: 1   MESADVREDVLRGQAQVWQLMFAFADSMALKSAVELRLADIMHCHGSPITLPQLASGINS 60
                        +  V  ++     + A+  AVEL + +++     P T   LA    +
Sbjct: 26  TPENPGTAARAAAEETVNDILQGAWKARAIHVAVELGVPELLQ--EGPRTATALAEATGA 83

Query: 61  SCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLLRDSEMSLAPMIL 120
                    +L R++R+L   GVF      D   + ++    +S  LL D    +A    
Sbjct: 84  H-EQ-----TLRRLLRLLATVGVF-----DDLGHDDLFAQNALSAVLLPDPASPVATDAR 132

Query: 121 FQNSQLLQAPCHHLSQCVEEGGHAFKKAHGCEMWDFASQNSQFNNSFNKAMACTAKIVMS 180
           FQ +         L+  V  G  +F  A+G   W    ++ +    FN+AM   +     
Sbjct: 133 FQAAPWHWRAWEQLTHSVRTGEASFDVANGTSFWQLTHEDPKARELFNRAMGSVSLTEAG 192

Query: 181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPVY------ 234
            + + Y   F G  + VD+GGG G  +A +++ +P ++G   + P V   A         
Sbjct: 193 QVAAAYD--FSGAATAVDIGGGRGSLMAAVLDAFPGLRGTLLERPPVAEEARELLTGRGL 250

Query: 235 -EGVSHVGGDMLNAVP-NADAVFMKVI 259
            +    + GD    +P  AD   +K +
Sbjct: 251 ADRCEILPGDFFETIPDGADVYLIKHV 277

>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 =  246 bits (630), Expect = 4e-81
 Identities = 52/257 (20%), Positives = 100/257 (38%), Gaps = 25/257 (9%)

Query: 12  RGQAQVWQLMFAFADSMALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSL 71
           R      + +   A  MA++ A  LR+AD +       T  ++AS   +   D     SL
Sbjct: 4   RAAHIGLRALADLATPMAVRVAATLRVADHIA--AGHRTAAEIASAAGAH-AD-----SL 55

Query: 72  TRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLLRDSEMSLAPMILFQNSQLLQAPC 131
            R++R LV  G+F          + +YGLT+  + L  D        +   ++       
Sbjct: 56  DRLLRHLVAVGLFTRD------GQGVYGLTEFGEQLRDDHAAGKRKWLDMNSAVGRGDLG 109

Query: 132 -HHLSQCVEEGGHAFKKAHGCEMWDFASQNSQFNNSFNKAMACTAKIVMSTLLSHYKDGF 190
              L+  +  G  A+   +G   W+    +   + SF+  M+   ++  + + + Y   +
Sbjct: 110 FVELAHSIRTGQPAYPVRYGTSFWEDLGSDPVLSASFDTLMSHHLELDYTGIAAKYD--W 167

Query: 191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAP-------VYEGVSHVGGD 243
             +  +VDVGGG+G  L+ ++  +  + G   DL    + A        +      V G 
Sbjct: 168 AALGHVVDVGGGSGGLLSALLTAHEDLSGTVLDLQGPASAAHRRFLDTGLSGRAQVVVGS 227

Query: 244 MLNAVP-NADAVFMKVI 259
             + +P  A    +  +
Sbjct: 228 FFDPLPAGAGGYVLSAV 244

>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 =  243 bits (621), Expect = 3e-79
 Identities = 56/266 (21%), Positives = 94/266 (35%), Gaps = 23/266 (8%)

Query: 3   SADVREDVLRGQAQVWQLMFAFADSMALKSAVELRLADIMHCHGSPITLPQLASGINSSC 62
             +  E   +    + + +      MAL+ A  LRL D +       TL  LA   ++  
Sbjct: 6   PGEPLEPTDQDLDVLLKNLGNLVTPMALRVAATLRLVDHLL--AGADTLAGLADRTDTH- 62

Query: 63  PDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLLRDSEMSLAPMILFQ 122
           P      +L+R++R L   GV                 T++   L           +   
Sbjct: 63  PQ-----ALSRLVRHLTVVGVLEGGEKQGRP----LRPTRLGMLLADGHPAQQRAWLDLN 113

Query: 123 NSQLLQAPC-HHLSQCVEEGGHAFKKAHGCEMWDFASQNSQFNNSFNKAMACTAKIVMST 181
            +          L   V  G  A+   +G   W+  S +    +SF+  M+C   +    
Sbjct: 114 GAVSHADLAFTGLLDVVRTGRPAYAGRYGRPFWEDLSADVALADSFDALMSCDEDLAYEA 173

Query: 182 LLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAP-------VY 234
               Y   +  +R ++DVGGG G  LA I    PH++G   +L      A        + 
Sbjct: 174 PADAYD--WSAVRHVLDVGGGNGGMLAAIALRAPHLRGTLVELAGPAERARRRFADAGLA 231

Query: 235 EGVSHVGGDMLNAVP-NADAVFMKVI 259
           + V+   GD    +P  AD V +  +
Sbjct: 232 DRVTVAEGDFFKPLPVTADVVLLSFV 257

>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 =  237 bits (607), Expect = 2e-77
 Identities = 51/260 (19%), Positives = 96/260 (36%), Gaps = 25/260 (9%)

Query: 9   DVLRGQAQVWQLMFAFADSMALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHII 68
                  +    + +    M +++A  LRL D +       T+  LA+  ++  P+    
Sbjct: 15  PQQIDALRTLIRLGSLHTPMVVRTAATLRLVDHIL--AGARTVKALAARTDTR-PE---- 67

Query: 69  PSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLLRDSEMSLAPMI-LFQNSQLL 127
            +L R++R LV  G+              +  T++ + L  D   +      L Q     
Sbjct: 68  -ALLRLIRHLVAIGLLEED------APGEFVPTEVGELLADDHPAAQRAWHDLTQAVARA 120

Query: 128 QAPCHHLSQCVEEGGHAFKKAHGCEMWDFASQNSQFNNSFNKAMACTAKIVMSTLLSHYK 187
                 L   +  G   ++  +G   ++  +       SF+  +AC   +      + Y 
Sbjct: 121 DISFTRLPDAIRTGRPTYESIYGKPFYEDLAGRPDLRASFDSLLACDQDVAFDAPAAAY- 179

Query: 188 DGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAP-------VYEGVSHV 240
             +  +R ++DVGGG G   A I    PH+     ++   V TA        + + V  V
Sbjct: 180 -DWTNVRHVLDVGGGKGGFAAAIARRAPHVSATVLEMAGTVDTARSYLKDEGLSDRVDVV 238

Query: 241 GGDMLNAVPN-ADAVFMKVI 259
            GD    +P  ADA+ +  +
Sbjct: 239 EGDFFEPLPRKADAIILSFV 258

>2ip2_A Probable phenazine-specific methyltransferase; pyocyanin, phenazine-1-carboxy PHZM; 1.80A {Pseudomonas aeruginosa} Length = 334

 Score =  234 bits (600), Expect = 1e-76
 Identities = 69/267 (25%), Positives = 104/267 (38%), Gaps = 33/267 (12%)

Query: 1   MESADVREDVLRGQAQVWQLMFAFADSMALKSAVELRLADIMHCHGSPITLPQLASGINS 60
           M +++     L     + Q++     S  +  A  L LAD++       +   LA+ + S
Sbjct: 1   MNNSN-----LAAARNLIQVVTGEWKSRCVYVATRLGLADLIESG--IDSDETLAAAVGS 53

Query: 61  SCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLLRDSEMSLAPMIL 120
              +      + R+MR+LV   +F             Y  T  S  LLRD E S   M+L
Sbjct: 54  D-AE-----RIHRLMRLLVAFEIFQGD------TRDGYANTPTSH-LLRDVEGSFRDMVL 100

Query: 121 FQNSQLLQAPCHHLSQCVEEGGHAFKKAHGCEMWDFASQNSQFNNSFNKAMACTAKIVMS 180
           F   +          + +  G   F+ A G + + +  +       F  AM  +  +   
Sbjct: 101 FYGEEFHA-AWTPACEALLSGTPGFELAFGEDFYSYLKRCPDAGRRFLLAMKASN-LAFH 158

Query: 181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPVY------ 234
            +       F G RS VDVGGG+GE    I++  P  +GV  D    +  A         
Sbjct: 159 EIPRLL--DFRG-RSFVDVGGGSGELTKAILQAEPSARGVMLDREGSLGVARDNLSSLLA 215

Query: 235 -EGVSHVGGDMLNAVP-NADAVFMKVI 259
            E VS VGGDML  VP N D   +  I
Sbjct: 216 GERVSLVGGDMLQEVPSNGDIYLLSRI 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 =  203 bits (517), Expect = 7e-64
 Identities = 53/264 (20%), Positives = 96/264 (36%), Gaps = 35/264 (13%)

Query: 8   EDVLRGQAQVWQLMFA-FADSMALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVH 66
            D+L    +  +L+F    +   +K+A+EL L   M     P  L  LA+   S  P   
Sbjct: 25  NDLLNYYHRANELVFKGLIEFSCMKAAIELDLFSHMA--EGPKDLATLAADTGSVPP--- 79

Query: 67  IIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLLRDSEMS---LAPMILFQN 123
               L  ++  L +  V          E+  + LT+ + ++   +          +    
Sbjct: 80  ---RLEMLLETLRQMRVINL-------EDGKWSLTEFADYMFSPTPKEPNLHQTPVAKAM 129

Query: 124 SQLLQAPCHHLSQCVEEGGHAFKKAHGCEMWDFASQNSQFNNSFNKAMACTAKIVMSTLL 183
           + L       LSQ V    +            +     + N  F +     AK  +  LL
Sbjct: 130 AFLADDFYMGLSQAVRGQKNFK------GQVPYPPVTREDNLYFEEIHRSNAKFAIQLLL 183

Query: 184 SHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPVY-------EG 236
              K   DG++ ++DVGGG G+  A +++ +P +     +LP  +             + 
Sbjct: 184 EEAK--LDGVKKMIDVGGGIGDISAAMLKHFPELDSTILNLPGAIDLVNENAAEKGVADR 241

Query: 237 VSHVGGDMLN-AVPNADAVFMKVI 259
           +  +  D+   + P ADAV    I
Sbjct: 242 MRGIAVDIYKESYPEADAVLFCRI 265

>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 =  192 bits (491), Expect = 3e-60
 Identities = 44/254 (17%), Positives = 83/254 (32%), Gaps = 31/254 (12%)

Query: 14  QAQVWQLMFAFADSMALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTR 73
            A  +  + A+  S A+K+AVEL +   +       +   LA    +S         +  
Sbjct: 7   PALFFNTVNAYQRSAAIKAAVELNVFTAIS--QGIESSQSLAQKCQTS-ER-----GMRM 58

Query: 74  IMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLLR-DSEMSLAPMILFQNSQLLQAPCH 132
           +   LV  G     + ++G     Y LT  S   L   S+  +   I F  S ++    +
Sbjct: 59  LCDYLVIIGFM--TKQAEG-----YRLTSDSAMFLDRQSKFYVGDAIEFLLSPMITNGFN 111

Query: 133 HLSQCVEEGGHAFKKAHGCEMWDFASQNSQFNNSFNKAMACTAKIVMSTLLSHYKDGFDG 192
            L+  V +GG A        +        QF  + +  MA  A+++         +    
Sbjct: 112 DLTAAVLKGGTAISSEGT--LSPEHPVWVQFAKAMSPMMANPAQLIAQ----LVNENKIE 165

Query: 193 IRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPVY-------EGVSHVGGDML 245
              ++D+    G     + +  P+ +    D   V+  A               + G   
Sbjct: 166 PLKVLDISASHGLFGIAVAQHNPNAEIFGVDWASVLEVAKENARIQGVASRYHTIAGSAF 225

Query: 246 NAV--PNADAVFMK 257
                 + D V + 
Sbjct: 226 EVDYGNDYDLVLLP 239

>3mcz_A O-methyltransferase; adomet_mtases, S-adenosylmethionine-dependent methyltransfer structural genomics, PSI-2; HET: MSE; 1.90A {Burkholderia thailandensis} Length = 352

 Score =  184 bits (470), Expect = 7e-57
 Identities = 45/271 (16%), Positives = 98/271 (36%), Gaps = 37/271 (13%)

Query: 1   MESADVREDVLRGQAQVWQLMFAFADSMALKSAVELRLADIMHCHGSPITLPQLASGINS 60
           +  +   +  L     + +L   +  S  L  AV  +L D+     +  T  ++A+    
Sbjct: 12  IYESTEDKAALTSVVDLVKLSDQYRQSAILHYAVADKLFDLTQ---TGRTPAEVAASFGM 68

Query: 61  SCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQIS-KWLLRDSEMSLAPMI 119
                        ++  L   G+    +  D      +  T ++ ++L   S   + P++
Sbjct: 69  V-EG-----KAAILLHALAALGLL--TKEGDA-----FRNTALTERYLTTTSADYIGPIV 115

Query: 120 LFQNSQLLQAPCHHLSQCVEEGGHAFKKAHGCEMWDFASQNSQFNNSFNKAMACTAKIVM 179
             Q  Q        L + +        K    +     + +++  ++FN AM   ++ ++
Sbjct: 116 EHQYLQW--DNWPRLGEILRSE-----KPLAFQQESRFAHDTRARDAFNDAMVRLSQPMV 168

Query: 180 STLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAP------- 232
             +       F   R+++D+ GG G  LA+++  +P + G  +DLP     A        
Sbjct: 169 DVVSELG--VFARARTVIDLAGGHGTYLAQVLRRHPQLTGQIWDLPTTRDAARKTIHAHD 226

Query: 233 VYEGVSHVGGDMLNAVP----NADAVFMKVI 259
           +   V     ++L+A       AD V +   
Sbjct: 227 LGGRVEFFEKNLLDARNFEGGAADVVMLNDC 257

>3dp7_A SAM-dependent methyltransferase; structural genomics, protein structure initiative, NEW YORK structural genomix research; 2.33A {Bacteroides vulgatus} Length = 363

 Score =  182 bits (465), Expect = 5e-56
 Identities = 38/263 (14%), Positives = 81/263 (30%), Gaps = 32/263 (12%)

Query: 11  LRGQAQVWQLMFAFADSMALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPS 70
              Q    ++ F        +  ++  +  ++       TL +++     +        +
Sbjct: 13  AEAQRLAQEIAFGPVVFQVSRLMLKFGIFQLLSGKREGYTLQEISGRTGLT-RY-----A 66

Query: 71  LTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLLRDSEMSLAPMILFQNSQLLQAP 130
              ++   +  G        D      Y L +   +LL D    +A + +  N  +    
Sbjct: 67  AQVLLEASLTIGTIL--LEEDR-----YVLAKAGWFLLNDK---MARVNMEFNHDVNYQG 116

Query: 131 CHHLSQCVEEGGHAFKKAHGCEMWDF---ASQNSQFNNSFNKAMACTAKIVMSTLLSHYK 187
             HL + +  G     K  G     +   +    Q   S+       +       L    
Sbjct: 117 LFHLEEALLNGRPEGLKVFGEWPTIYEGLSQLPEQVQKSWFGFDHFYSDQSFGKALEIV- 175

Query: 188 DGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAP-------VYEGVSHV 240
                 + L+D+GG TG+   + V++   ++    DLP  +             E +   
Sbjct: 176 -FSHHPKRLLDIGGNTGKWATQCVQYNKEVEVTIVDLPQQLEMMRKQTAGLSGSERIHGH 234

Query: 241 GGDMLNAVP----NADAVFMKVI 259
           G ++L+         DAV+M   
Sbjct: 235 GANLLDRDVPFPTGFDAVWMSQF 257

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	266
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
1fp2_A	352	Isoflavone O-methyltransferase; protein-product co	100.0
1zg3_A	358	Isoflavanone 4'-O-methyltransferase; rossman fold,	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
3mcz_A	352	O-methyltransferase; adomet_mtases, S-adenosylmeth	100.0
2r3s_A	335	Uncharacterized protein; methyltransferase domain,	100.0
2qm3_A	373	Predicted methyltransferase; putative methyltransf	99.34
4gek_A	261	TRNA (CMO5U34)-methyltransferase; structural genom	99.08
3dtn_A	234	Putative methyltransferase MM_2633; structural gen	98.98
1ve3_A	227	Hypothetical protein PH0226; dimer, riken structur	98.93
3ege_A	261	Putative methyltransferase from antibiotic biosyn	98.93
3dlc_A	219	Putative S-adenosyl-L-methionine-dependent methylt	98.9
1vl5_A	260	Unknown conserved protein BH2331; putative methylt	98.88
2qe6_A	274	Uncharacterized protein TFU_2867; putative methylt	98.87
1nkv_A	256	Hypothetical protein YJHP; structural genomics, PS	98.86
2o57_A	297	Putative sarcosine dimethylglycine methyltransfera	98.84
3bus_A	273	REBM, methyltransferase; rebeccamycin synthesis; H	98.83
4hg2_A	257	Methyltransferase type 11; structural genomics, PS	98.82
3dh0_A	219	SAM dependent methyltransferase; cystal structure,	98.82
3ou2_A	218	SAM-dependent methyltransferase; O-methyltransfera	98.8
1xxl_A	239	YCGJ protein; structural genomics, protein structu	98.8
2p35_A	259	Trans-aconitate 2-methyltransferase; SAM dependent	98.79
3g5l_A	253	Putative S-adenosylmethionine dependent methyltran	98.79
3mgg_A	276	Methyltransferase; NYSGXRC, PSI-II, protein struct	98.79
3vc1_A	312	Geranyl diphosphate 2-C-methyltransferase; rossman	98.79
3gu3_A	284	Methyltransferase; alpha-beta protein, structural	98.78
3jwg_A	219	HEN1, methyltransferase type 12; 1.90A {Clostridiu	98.77
3jwh_A	217	HEN1; methyltransferase; HET: SAH; 2.20A {Anabaena	98.77
3hem_A	302	Cyclopropane-fatty-acyl-phospholipid synthase 2; p	98.75
3ujc_A	266	Phosphoethanolamine N-methyltransferase; parasite;	98.74
3f4k_A	257	Putative methyltransferase; structural genomics, P	98.74
3hnr_A	220	Probable methyltransferase BT9727_4108; structural	98.72
3ccf_A	279	Cyclopropane-fatty-acyl-phospholipid synthase; YP_	98.71
3kkz_A	267	Uncharacterized protein Q5LES9; putative methyltra	98.7
1xtp_A	254	LMAJ004091AAA; SGPP, structural genomics, PSI, pro	98.7
3bkw_A	243	MLL3908 protein, S-adenosylmethionine dependent me	98.69
3pfg_A	263	N-methyltransferase; N,N-dimethyltransferase, SAM	98.69
3g07_A	292	7SK snRNA methylphosphate capping enzyme; structur	98.68
3g5t_A	299	Trans-aconitate 3-methyltransferase; structural ge	98.66
3ocj_A	305	Putative exported protein; structural genomics, PS	98.66
3e05_A	204	Precorrin-6Y C5,15-methyltransferase (decarboxyla;	98.65
3l8d_A	242	Methyltransferase; structural genomics, PSI, nysgr	98.65
1kpg_A	287	CFA synthase;, cyclopropane-fatty-acyl-phospholipi	98.64
2yqz_A	263	Hypothetical protein TTHA0223; RNA methyltransfera	98.64
2p7i_A	250	Hypothetical protein; putative methyltransferase,	98.63
3dli_A	240	Methyltransferase; PSI-II, NYSGXRC, structural gen	98.62
3bkx_A	275	SAM-dependent methyltransferase; YP_807781.1, cycl	98.62
1pjz_A	203	Thiopurine S-methyltransferase; polymorphism, S-ad	98.61
3hm2_A	178	Precorrin-6Y C5,15-methyltransferase; alpha-beta-s	98.6
2xvm_A	199	Tellurite resistance protein TEHB; antibiotic resi	98.59
1jg1_A	235	PIMT;, protein-L-isoaspartate O-methyltransferase;	98.58
4fsd_A	383	Arsenic methyltransferase; rossmann fold; 1.75A {C	98.57
3ofk_A	216	Nodulation protein S; NODS, N-methyltransferase, S	98.57
3i9f_A	170	Putative type 11 methyltransferase; structural gen	98.57
3uwp_A	438	Histone-lysine N-methyltransferase, H3 lysine-79;	98.56
2fk8_A	318	Methoxy mycolic acid synthase 4; S-adenosylmethion	98.56
3q87_B	170	N6 adenine specific DNA methylase; SAM-methyltrans	98.55
3bxo_A	239	N,N-dimethyltransferase; desosamine, sugar, carboh	98.55
3kr9_A	225	SAM-dependent methyltransferase; class I rossmann-	98.55
3h2b_A	203	SAM-dependent methyltransferase; alpha-beta protei	98.55
3cgg_A	195	SAM-dependent methyltransferase; NP_600671.1, meth	98.53
4htf_A	285	S-adenosylmethionine-dependent methyltransferase;	98.53
3fzg_A	200	16S rRNA methylase; methyltransferase, plasmid, tr	98.51
3b3j_A	480	Histone-arginine methyltransferase CARM1; protein	98.5
3ggd_A	245	SAM-dependent methyltransferase; YP_325210.1, stru	98.5
3sm3_A	235	SAM-dependent methyltransferases; NESG, structural	98.5
3m70_A	286	Tellurite resistance protein TEHB homolog; structu	98.49
1nv8_A	284	HEMK protein; class I adoMet-dependent methyltrans	98.48
3lcc_A	235	Putative methyl chloride transferase; halide methy	98.48
1wzn_A	252	SAM-dependent methyltransferase; structural genomi	98.48
3lec_A	230	NADB-rossmann superfamily protein; PSI, MCSG, stru	98.47
2yxe_A	215	Protein-L-isoaspartate O-methyltransferase; rossma	98.47
3lbf_A	210	Protein-L-isoaspartate O-methyltransferase; modifi	98.46
4dcm_A	375	Ribosomal RNA large subunit methyltransferase G; 2	98.45
3gnl_A	244	Uncharacterized protein, DUF633, LMOF2365_1472; st	98.45
3cc8_A	230	Putative methyltransferase; structural genomics, j	98.44
1af7_A	274	Chemotaxis receptor methyltransferase CHER; chemot	98.43
1yzh_A	214	TRNA (guanine-N(7)-)-methyltransferase; alpha-beta	98.43
2ex4_A	241	Adrenal gland protein AD-003; methyltransferase, s	98.43
1yb2_A	275	Hypothetical protein TA0852; structural genomics,	98.43
3mb5_A	255	SAM-dependent methyltransferase; RNA methyltransfe	98.43
1y8c_A	246	S-adenosylmethionine-dependent methyltransferase;	98.42
1jsx_A	207	Glucose-inhibited division protein B; methyltransf	98.42
2pxx_A	215	Uncharacterized protein MGC2408; structural genomi	98.41
4dzr_A	215	Protein-(glutamine-N5) methyltransferase, release	98.41
3e8s_A	227	Putative SAM dependent methyltransferase; NP_74470	98.41
2pjd_A	343	Ribosomal RNA small subunit methyltransferase C; g	98.41
2b3t_A	276	Protein methyltransferase HEMK; translation termin	98.41
3e23_A	211	Uncharacterized protein RPA2492; alpha-beta protei	98.4
2yxd_A	183	Probable cobalt-precorrin-6Y C(15)-methyltransfer	98.39
3d2l_A	243	SAM-dependent methyltransferase; ZP_00538691.1, st	98.39
2gs9_A	211	Hypothetical protein TT1324; methyl transferase, s	98.39
3g2m_A	299	PCZA361.24; SAM-dependent methyltransferase, glyco	98.39
3thr_A	293	Glycine N-methyltransferase; GNMT, folate, methylt	98.39
3grz_A	205	L11 mtase, ribosomal protein L11 methyltransferase	98.38
2gb4_A	252	Thiopurine S-methyltransferase; 18204406, thiopuri	98.37
1dus_A	194	MJ0882; hypothetical protein, methanococcus jannas	98.37
2y1w_A	348	Histone-arginine methyltransferase CARM1; histone	98.36
3njr_A	204	Precorrin-6Y methylase; methyltransferase, decarbo	98.36
3htx_A	950	HEN1; HEN1, small RNA methyltransferase, protein-R	98.35
1vbf_A	231	231AA long hypothetical protein-L-isoaspartate O-	98.34
3bgv_A	313	MRNA CAP guanine-N7 methyltransferase; alternative	98.33
3mq2_A	218	16S rRNA methyltransferase; methyltranferase, ribo	98.32
1ri5_A	298	MRNA capping enzyme; methyltransferase, M7G, messe	98.32
3ntv_A	232	MW1564 protein; rossmann fold, putative methyltran	98.32
1ne2_A	200	Hypothetical protein TA1320; structural genomics,	98.32
2h00_A	254	Methyltransferase 10 domain containing protein; st	98.31
2p8j_A	209	S-adenosylmethionine-dependent methyltransferase;	98.31
1fbn_A	230	MJ fibrillarin homologue; MJ proteins, ribosomal R	98.31
2fca_A	213	TRNA (guanine-N(7)-)-methyltransferase; 2.10A {Bac	98.3
3dxy_A	218	TRNA (guanine-N(7)-)-methyltransferase; rossmann f	98.29
3q7e_A	349	Protein arginine N-methyltransferase 1; HET: SAH;	98.29
3gjy_A	317	Spermidine synthase; APC62791, structural genomics	98.28
1vlm_A	219	SAM-dependent methyltransferase; possible histamin	98.28
2plw_A	201	Ribosomal RNA methyltransferase, putative; malaria	98.27
3iv6_A	261	Putative Zn-dependent alcohol dehydrogenase; alpha	98.26
3fpf_A	298	Mtnas, putative uncharacterized protein; thermonic	98.25
2fyt_A	340	Protein arginine N-methyltransferase 3; structural	98.24
3g89_A	249	Ribosomal RNA small subunit methyltransferase G; 1	98.24
2aot_A	292	HMT, histamine N-methyltransferase; classic methyl	98.23
1dl5_A	317	Protein-L-isoaspartate O-methyltransferase; isoasp	98.23
2ozv_A	260	Hypothetical protein ATU0636; structural genomics,	98.21
1o9g_A	250	RRNA methyltransferase; antibiotic resistance, Se-	98.21
1l3i_A	192	Precorrin-6Y methyltransferase/putative decarboxyl	98.21
3mti_A	185	RRNA methylase; SAM-dependent, PSI, MCSG, structur	98.19
2gpy_A	233	O-methyltransferase; structural genomics, PSI, pro	98.19
2pwy_A	258	TRNA (adenine-N(1)-)-methyltransferase; mtase, ado	98.19
1xdz_A	240	Methyltransferase GIDB; MCSG, protein structure in	98.18
1zq9_A	285	Probable dimethyladenosine transferase; SGC, struc	98.18
3ckk_A	235	TRNA (guanine-N(7)-)-methyltransferase; mettl1, S-	98.18
3r0q_C	376	Probable protein arginine N-methyltransferase 4.2;	98.18
1o54_A	277	SAM-dependent O-methyltransferase; TM0748, structu	98.18
1g6q_1	328	HnRNP arginine N-methyltransferase; SAM-binding do	98.17
3u81_A	221	Catechol O-methyltransferase; neurotransmitter deg	98.16
3adn_A	294	Spermidine synthase; aminopropyltransferase, polya	98.16
1ej0_A	180	FTSJ; methyltransferase, adoMet, adenosyl methioni	98.16
1u2z_A	433	Histone-lysine N-methyltransferase, H3 lysine-79 s	98.15
3tfw_A	248	Putative O-methyltransferase; PSI-biology, nysgrc,	98.15
2fhp_A	187	Methylase, putative; alpha-beta-alpha sandwich, st	98.15
2bm8_A	236	Cephalosporin hydroxylase CMCI; cephamycin biosynt	98.15
3m33_A	226	Uncharacterized protein; structural genomics, PSI-	98.15
3lpm_A	259	Putative methyltransferase; structural genomics, p	98.14
2vdv_E	246	TRNA (guanine-N(7)-)-methyltransferase; S-adenosyl	98.14
3frh_A	253	16S rRNA methylase; methyltransferase domain, heli	98.14
2esr_A	177	Methyltransferase; structural genomics, hypothetic	98.14
4hc4_A	376	Protein arginine N-methyltransferase 6; HRMT1L6, S	98.14
2zfu_A	215	Nucleomethylin, cerebral protein 1; nucleolar prot	98.13
1qam_A	244	ERMC' methyltransferase; rRNA methyltransferase ER	98.13
3duw_A	223	OMT, O-methyltransferase, putative; alternating of	98.13
3gdh_A	241	Trimethylguanosine synthase homolog; M7G, CAP, dim	98.13
1m6y_A	301	S-adenosyl-methyltransferase MRAW; SAM-dependent m	98.13
3gru_A	295	Dimethyladenosine transferase; rossman fold, ribos	98.13
1ws6_A	171	Methyltransferase; structural genomics, riken stru	98.12
1p91_A	269	Ribosomal RNA large subunit methyltransferase A; R	98.11
1nt2_A	210	Fibrillarin-like PRE-rRNA processing protein; adeM	98.1
3p2e_A	225	16S rRNA methylase; methyltransferase, transferase	98.1
3eey_A	197	Putative rRNA methylase; rRNA methylation, S-adeno	98.1
2pbf_A	227	Protein-L-isoaspartate O-methyltransferase beta-A	98.1
3p9n_A	189	Possible methyltransferase (methylase); RV2966C, a	98.09
3tma_A	354	Methyltransferase; thump domain; 2.05A {Thermus th	98.08
3orh_A	236	Guanidinoacetate N-methyltransferase; structura ge	98.07
3tr6_A	225	O-methyltransferase; cellular processes; HET: SAH;	98.06
3lcv_B	281	Sisomicin-gentamicin resistance methylase SGM; ant	98.06
2ipx_A	233	RRNA 2'-O-methyltransferase fibrillarin; FBL, stru	98.05
1iy9_A	275	Spermidine synthase; rossmann fold, structural gen	98.04
3dr5_A	221	Putative O-methyltransferase; Q8NRD3, CGL1119, PF0	98.04
1g8a_A	227	Fibrillarin-like PRE-rRNA processing protein; rRNA	98.04
3evz_A	230	Methyltransferase; NYSGXRC, NEW YORK SGX research	98.03
2avn_A	260	Ubiquinone/menaquinone biosynthesis methyltransfe	98.02
1r18_A	227	Protein-L-isoaspartate(D-aspartate)-O-methyltrans;	98.02
2kw5_A	202	SLR1183 protein; structural genomics, northeast st	98.02
2h1r_A	299	Dimethyladenosine transferase, putative; SGC toron	98.02
2avd_A	229	Catechol-O-methyltransferase; structural genomics,	98.0
4e2x_A	416	TCAB9; kijanose, tetronitrose, tetradeoxy sugar, s	98.0
2frn_A	278	Hypothetical protein PH0793; structural genomics,	98.0
3bwc_A	304	Spermidine synthase; SAM, SGPP, structura genomics	98.0
2hnk_A	239	SAM-dependent O-methyltransferase; modified rossma	97.99
1i1n_A	226	Protein-L-isoaspartate O-methyltransferase; S-aden	97.99
2nxc_A	254	L11 mtase, ribosomal protein L11 methyltransferase	97.99
3c3p_A	210	Methyltransferase; NP_951602.1, structural genomic	97.98
3ftd_A	249	Dimethyladenosine transferase; KSGA, rossmann-like	97.98
1zx0_A	236	Guanidinoacetate N-methyltransferase; structural g	97.98
3giw_A	277	Protein of unknown function DUF574; rossmann-fold	97.98
1i9g_A	280	Hypothetical protein RV2118C; mtase, adoMet, cryst	97.97
2i62_A	265	Nicotinamide N-methyltransferase; structural genom	97.96
2yvl_A	248	TRMI protein, hypothetical protein; tRNA, methyltr	97.96
3r3h_A	242	O-methyltransferase, SAM-dependent; structural gen	97.96
2ift_A	201	Putative methylase HI0767; NESG, Y767_haein, struc	97.96
3fut_A	271	Dimethyladenosine transferase; methyltransferase,	97.95
2cmg_A	262	Spermidine synthase; transferase, putrescine amino	97.95
2b25_A	336	Hypothetical protein; structural genomics, methyl	97.95
4azs_A	569	Methyltransferase WBDD; kinase; HET: AMP SAM; 2.15	97.95
3bzb_A	281	Uncharacterized protein; RED ALGA, protein structu	97.93
3a27_A	272	TYW2, uncharacterized protein MJ1557; wybutosine m	97.93
3tm4_A	373	TRNA (guanine N2-)-methyltransferase TRM14; rossma	97.92
1wy7_A	207	Hypothetical protein PH1948; seven-stranded beta s	97.92
3dou_A	191	Ribosomal RNA large subunit methyltransferase J; c	97.91
1xj5_A	334	Spermidine synthase 1; structural genomics, protei	97.91
2pt6_A	321	Spermidine synthase; transferase, structural genom	97.91
2vdw_A	302	Vaccinia virus capping enzyme D1 subunit; nucleoti	97.9
3uzu_A	279	Ribosomal RNA small subunit methyltransferase A; s	97.9
2ih2_A	421	Modification methylase TAQI; DNA, DNA methyltransf	97.89
3tqs_A	255	Ribosomal RNA small subunit methyltransferase A; p	97.89
3k0b_A	393	Predicted N6-adenine-specific DNA methylase; methy	97.89
1sui_A	247	Caffeoyl-COA O-methyltransferase; rossmann fold, p	97.89
3dmg_A	381	Probable ribosomal RNA small subunit methyltransf;	97.88
2fpo_A	202	Methylase YHHF; structural genomics, putative meth	97.88
2o07_A	304	Spermidine synthase; structural genomics, structur	97.87
2nyu_A	196	Putative ribosomal RNA methyltransferase 2; SAM, s	97.87
2i7c_A	283	Spermidine synthase; transferase, structural genom	97.87
1inl_A	296	Spermidine synthase; beta-barrel, rossman fold, st	97.86
1mjf_A	281	Spermidine synthase; spermidine synthetase, struct	97.86
1uir_A	314	Polyamine aminopropyltransferase; spermidien synth	97.85
3ldu_A	385	Putative methylase; structural genomics, PSI-2, pr	97.84
3c3y_A	237	Pfomt, O-methyltransferase; plant secondary metabo	97.82
3ldg_A	384	Putative uncharacterized protein SMU.472; YPSC, me	97.81
2b2c_A	314	Spermidine synthase; beta-alpha, transferase; 2.50	97.8
3cbg_A	232	O-methyltransferase; cyanobacterium; HET: SAH FER	97.79
1uwv_A	433	23S rRNA (uracil-5-)-methyltransferase RUMA; RNA m	97.77
2g72_A	289	Phenylethanolamine N-methyltransferase; HET: SAM F	97.74
2a14_A	263	Indolethylamine N-methyltransferase; SGC,INMT, str	97.7
1yub_A	245	Ermam, rRNA methyltransferase; MLS antibiotics; NM	97.62
3o4f_A	294	Spermidine synthase; aminopropyltransferase, polya	97.6
1qyr_A	252	KSGA, high level kasugamycin resistance protein, S	97.57
4gqb_A	637	Protein arginine N-methyltransferase 5; TIM barrel	97.56
4df3_A	233	Fibrillarin-like rRNA/TRNA 2'-O-methyltransferase;	97.55
2oxt_A	265	Nucleoside-2'-O-methyltransferase; flavivirus, vir	97.55
2wa2_A	276	Non-structural protein 5; transferase, S-adenosyl-	97.54
1ixk_A	315	Methyltransferase; open beta sheet; 1.90A {Pyrococ	97.52
2p41_A	305	Type II methyltransferase; vizier, viral enzymes i	97.5
2f8l_A	344	Hypothetical protein LMO1582; structural genomics,	97.49
3id6_C	232	Fibrillarin-like rRNA/TRNA 2'-O-methyltransferase;	97.47
3k6r_A	278	Putative transferase PH0793; structural genomics,	97.47
3ajd_A	274	Putative methyltransferase MJ0026; tRNA, M5C, ross	97.42
2r6z_A	258	UPF0341 protein in RSP 3' region; alpha-beta prote	97.39
2yx1_A	336	Hypothetical protein MJ0883; methyl transferase, t	97.37
2igt_A	332	SAM dependent methyltransferase; alpha-beta sandwi	97.35
2k4m_A	153	TR8_protein, UPF0146 protein MTH_1000; alpha+beta,	97.34
3sso_A	419	Methyltransferase; macrolide, natural product, ros	97.33
2qfm_A	364	Spermine synthase; spermidine aminopropyltransfera	97.33
2jjq_A	425	Uncharacterized RNA methyltransferase pyrab10780;	97.31
2yxl_A	450	PH0851 protein, 450AA long hypothetical FMU protei	97.28
2heo_A	67	Z-DNA binding protein 1; protein DLM1-Z-DNA comple	97.28
2b78_A	385	Hypothetical protein SMU.776; structure genomics,	97.13
3hp7_A	291	Hemolysin, putative; structural genomics, APC64019	97.12
3v97_A	703	Ribosomal RNA large subunit methyltransferase L; Y	97.12
3b73_A	111	PHIH1 repressor-like protein; winged-helix-turn-he	97.08
2oyr_A	258	UPF0341 protein YHIQ; alpha-beta protein, structur	97.06
3mq0_A	275	Transcriptional repressor of the blcabc operon; he	96.99
3ll7_A	410	Putative methyltransferase; methytransferase, stru	96.99
1y0u_A	96	Arsenical resistance operon repressor, putative; s	96.99
2as0_A	396	Hypothetical protein PH1915; RNA methyltransferase	96.97
3ua3_A	745	Protein arginine N-methyltransferase 5; TIM-barrel	96.96
3bt7_A	369	TRNA (uracil-5-)-methyltransferase; methyluridine,	96.94
3ech_A	142	MEXR, multidrug resistance operon repressor; winge	96.94
2okc_A	445	Type I restriction enzyme stysji M protein; NP_813	96.94
1sqg_A	429	SUN protein, FMU protein; rossmann-fold, mixed bet	96.92
1wg8_A	285	Predicted S-adenosylmethionine-dependent methyltra	96.88
1wxx_A	382	TT1595, hypothetical protein TTHA1280; thermus the	96.85
3c0k_A	396	UPF0064 protein YCCW; PUA domain, adoMet dependent	96.82
1xmk_A	79	Double-stranded RNA-specific adenosine deaminase;	96.77
3m6w_A	464	RRNA methylase; rRNA methyltransferase, 5-methylcy	96.63
2frx_A	479	Hypothetical protein YEBU; rossmann-type S-adenosy	96.6
4dmg_A	393	Putative uncharacterized protein TTHA1493; rRNA, m	96.59
3pqk_A	102	Biofilm growth-associated repressor; helix-turn-he	96.55
1qbj_A	81	Protein (double-stranded RNA specific adenosine D	96.46
2xyq_A	290	Putative 2'-O-methyl transferase; transferase-vira	96.46
2b9e_A	309	NOL1/NOP2/SUN domain family, member 5 isoform 2; m	96.44
2dul_A	378	N(2),N(2)-dimethylguanosine tRNA methyltransferas;	96.41
3opn_A	232	Putative hemolysin; structural genomics, PSI-2, pr	96.41
3m4x_A	456	NOL1/NOP2/SUN family protein; mtase domain, PUA do	96.4
3v97_A	703	Ribosomal RNA large subunit methyltransferase L; Y	96.38
3r4k_A	260	Transcriptional regulator, ICLR family; DNA/RNA-bi	96.38
4auk_A	375	Ribosomal RNA large subunit methyltransferase M; Y	96.34
2hzt_A	107	Putative HTH-type transcriptional regulator YTCD;	96.31
1mkm_A	249	ICLR transcriptional regulator; structural genomic	96.3
2ld4_A	176	Anamorsin; methyltransferase-like fold, alpha/beta	96.29
1qgp_A	77	Protein (double stranded RNA adenosine deaminase);	96.29
3tka_A	347	Ribosomal RNA small subunit methyltransferase H; H	96.28
2xrn_A	241	HTH-type transcriptional regulator TTGV; DNA-bindi	96.26
2oqg_A	114	Possible transcriptional regulator, ARSR family P;	96.24
2g7u_A	257	Transcriptional regulator; ICLR family, structural	96.23
3bdd_A	142	Regulatory protein MARR; putative multiple antibio	96.23
1ub9_A	100	Hypothetical protein PH1061; helix-turn-helix moti	96.22
3jth_A	98	Transcription activator HLYU; transcription factor	96.21
1u2w_A	122	CADC repressor, cadmium efflux system accessory pr	96.21
4a5n_A	131	Uncharacterized HTH-type transcriptional regulato;	96.11
3f6o_A	118	Probable transcriptional regulator, ARSR family pr	96.09
3bja_A	139	Transcriptional regulator, MARR family, putative;	96.07
3cuo_A	99	Uncharacterized HTH-type transcriptional regulato;	96.05
3nrv_A	148	Putative transcriptional regulator (MARR/EMRR FAM;	96.0
2ia2_A	265	Putative transcriptional regulator; SAD, PSI-2, st	96.0
3df8_A	111	Possible HXLR family transcriptional factor; APC89	96.0
2gxg_A	146	146AA long hypothetical transcriptional regulator;	95.99
3b5i_A	374	S-adenosyl-L-methionine:salicylic acid carboxyl me	95.99
3f3x_A	144	Transcriptional regulator, MARR family, putative;	95.99
3c6k_A	381	Spermine synthase; spermidine aminopropyltransfera	95.98
2o0y_A	260	Transcriptional regulator; ICLR-family, structural	95.98
3axs_A	392	Probable N(2),N(2)-dimethylguanosine tRNA methylt	95.96
1r7j_A	95	Conserved hypothetical protein SSO10A; winged heli	95.95
1z7u_A	112	Hypothetical protein EF0647; winged-helix-turn-hel	95.91
3k0l_A	162	Repressor protein; helix-turn-helix, structural ge	95.91
2jsc_A	118	Transcriptional regulator RV1994C/MT2050; cadmium,	95.91
3cdh_A	155	Transcriptional regulator, MARR family; helix-turn	95.91
1r1u_A	106	CZRA, repressor protein; zinc, DNA binding, transc	95.89
2qww_A	154	Transcriptional regulator, MARR family; YP_013417.	95.88
3boq_A	160	Transcriptional regulator, MARR family; MARR famil	95.85
2fu4_A	83	Ferric uptake regulation protein; DNA binding doma	95.83
2nyx_A	168	Probable transcriptional regulatory protein, RV14;	95.83
3fm5_A	150	Transcriptional regulator; MCSG, PF04017, PSI, MAR	95.82
2kko_A	108	Possible transcriptional regulatory protein (possi	95.78
3f6v_A	151	Possible transcriptional regulator, ARSR family pr	95.77
3g3z_A	145	NMB1585, transcriptional regulator, MARR family; t	95.76
2hr3_A	147	Probable transcriptional regulator; MCSG, structur	95.75
3bj6_A	152	Transcriptional regulator, MARR family; helix-turn	95.75
2f2e_A	146	PA1607; transcription factor, helix-TRUN-helix, AP	95.71
1yyv_A	131	Putative transcriptional regulator; reductive meth	95.7
2fsw_A	107	PG_0823 protein; alpha-beta structure, helix-turn-	95.67
1oyi_A	82	Double-stranded RNA-binding protein; (alpha+beta)	95.67
1on2_A	142	Transcriptional regulator MNTR; helix-turn-helix,	95.64
3jw4_A	148	Transcriptional regulator, MARR/EMRR family; DNA-b	95.63
1s3j_A	155	YUSO protein; structural genomics, MARR transcript	95.59
3eco_A	139	MEPR; mutlidrug efflux pump regulator winged helix	95.58
2wte_A	244	CSA3; antiviral protein, viral resistance, winged	95.57
2bv6_A	142	MGRA, HTH-type transcriptional regulator MGRA; mul	95.55
2rdp_A	150	Putative transcriptional regulator MARR; PFAM PF01	95.54
3oop_A	143	LIN2960 protein; protein structure initiative, PSI	95.54
2jt1_A	77	PEFI protein; solution structure, winged helix-tur	95.53
3kp7_A	151	Transcriptional regulator TCAR; multiple drug resi	95.47
2efj_A	384	3,7-dimethylxanthine methyltransferase; SAM-depend	95.46
3bro_A	141	Transcriptional regulator; helix_TURN_helix, multi	95.45
3e6m_A	161	MARR family transcriptional regulator; APC88769, s	95.43
3deu_A	166	Transcriptional regulator SLYA; MARR, WING-helix,	95.39
1jgs_A	138	Multiple antibiotic resistance protein MARR; trans	95.38
3hsr_A	140	HTH-type transcriptional regulator SARZ; helix-tur	95.35
1tbx_A	99	ORF F-93, hypothetical 11.0 kDa protein; sulfolobu	95.32
2y75_A	129	HTH-type transcriptional regulator CYMR; DNA bindi	95.31
2fbh_A	146	Transcriptional regulator PA3341; MARR, transcript	95.28
4hbl_A	149	Transcriptional regulator, MARR family; HTH, trans	95.27
2nnn_A	140	Probable transcriptional regulator; structural gen	95.24
2fa5_A	162	Transcriptional regulator MARR/EMRR family; multip	95.18
3tgn_A	146	ADC operon repressor ADCR; helix-turn-helix, trans	95.16
2x4h_A	139	Hypothetical protein SSO2273; transcription; 2.30A	95.14
4aik_A	151	Transcriptional regulator SLYA; transcription, tra	95.14
2eth_A	154	Transcriptional regulator, putative, MAR family; M	95.13
3s1s_A	878	Restriction endonuclease bpusi; PD--(D/E)XK cataly	95.13
3p8z_A	267	Mtase, non-structural protein 5; methyltransferase	95.11
1r1t_A	122	Transcriptional repressor SMTB; zinc, transcriptio	95.09
3cjn_A	162	Transcriptional regulator, MARR family; silicibact	95.07
1lj9_A	144	Transcriptional regulator SLYA; HTH DNA binding pr	95.04
2pex_A	153	Transcriptional regulator OHRR; transcription regu	94.99
3s2w_A	159	Transcriptional regulator, MARR family; structural	94.96
2ar0_A	541	M.ecoki, type I restriction enzyme ecoki M protein	94.94
3bpv_A	138	Transcriptional regulator; MARR, DNA binding, tran	94.92
1xn7_A	78	Hypothetical protein YHGG; alpha+beta, GFT structu	94.92
2htj_A	81	P fimbrial regulatory protein KS71A; winged helix-	94.86
1i4w_A	353	Mitochondrial replication protein MTF1; mitochondr	94.85
1z91_A	147	Organic hydroperoxide resistance transcriptional;	94.82
3nqo_A	189	MARR-family transcriptional regulator; structural	94.8
2k02_A	87	Ferrous iron transport protein C; FEOC, iron-sulfu	94.79
2frh_A	127	SARA, staphylococcal accessory regulator A; winged	94.78
2a61_A	145	Transcriptional regulator TM0710; APC4350, MCSG, m	94.78
1sfx_A	109	Conserved hypothetical protein AF2008; structural	94.71
3khk_A	544	Type I restriction-modification system methylation	94.7
2lnb_A	80	Z-DNA-binding protein 1; structural genomics, nort	94.69
1rjd_A	334	PPM1P, carboxy methyl transferase for protein phos	94.65
3r0a_A	123	Putative transcriptional regulator; structural gen	94.62
3u2r_A	168	Regulatory protein MARR; structural genomics, PSI-	94.61
2fbi_A	142	Probable transcriptional regulator; MARR, APC5816,	94.53
2fbk_A	181	Transcriptional regulator, MARR family; winged-hel	94.44
1ylf_A	149	RRF2 family protein; structural genomics, transcri	94.4
3lkd_A	542	Type I restriction-modification system methyltrans	94.36
4g6q_A	182	Putative uncharacterized protein; structural genom	94.25
2obp_A	96	Putative DNA-binding protein; structural genomics,	94.23
2h09_A	155	Transcriptional regulator MNTR; transcription regu	94.01
2qvo_A	95	Uncharacterized protein AF_1382; PSI, structural g	94.01
2dk5_A	91	DNA-directed RNA polymerase III 39 kDa polypeptide	93.99
2lkp_A	119	Transcriptional regulator, ARSR family; symmetric	93.83
2zkz_A	99	Transcriptional repressor PAGR; protein-DNA, HTH m	93.81
3hrs_A	214	Metalloregulator SCAR; DTXR/MNTR family member, tr	93.58
2px2_A	269	Genome polyprotein [contains: capsid protein C (co	93.55
1m6e_X	359	S-adenosyl-L-methionnine:salicylic acid carboxyl m	93.48
3evf_A	277	RNA-directed RNA polymerase NS5; NS5 methyltransfe	93.4
2esh_A	118	Conserved hypothetical protein TM0937; APC5794, st	93.3
1xd7_A	145	YWNA; structural genomics, protein structure initi	93.23
3k69_A	162	Putative transcription regulator; putative transcr	93.19
3lkz_A	321	Non-structural protein 5; flavivirus, methyltransf	93.15
2fxa_A	207	Protease production regulatory protein HPR; protea	93.09
1bja_A	95	Transcription regulatory protein MOTA; activation	93.02
4b8x_A	147	SCO5413, possible MARR-transcriptional regulator;	92.92
3lwf_A	159	LIN1550 protein, putative transcriptional regulato	92.91
2fe3_A	145	Peroxide operon regulator; oxidative stress regula	92.85
2vn2_A	128	DNAD, chromosome replication initiation protein; D	92.82
2pg4_A	95	Uncharacterized protein; structural genomics, join	92.7
2qlz_A	232	Transcription factor PF0095; 2.50A {Pyrococcus fur	92.7
3t8r_A	143	Staphylococcus aureus CYMR; transcriptional regula	92.52
3gcz_A	282	Polyprotein; flavivirus, RNA capping, methyltransf	92.51
2o03_A	131	Probable zinc uptake regulation protein FURB; DNA-	92.48
2pn6_A	150	ST1022, 150AA long hypothetical transcriptional re	92.25
1q1h_A	110	TFE, transcription factor E, TFE; TFIIE, transcrip	92.22
1p4x_A	250	Staphylococcal accessory regulator A homologue; wi	92.19
2cfx_A	144	HTH-type transcriptional regulator LRPC; transcrip	92.08
2qy6_A	257	UPF0209 protein YFCK; structural genomics, unknown	91.94
2p4w_A	202	Transcriptional regulatory protein ARSR family; ar	91.91
2w25_A	150	Probable transcriptional regulatory protein; trans	91.85
3u1d_A	151	Uncharacterized protein; GNTR-superfamily, structu	91.83
4fx0_A	148	Probable transcriptional repressor protein; helix-	91.71
2v79_A	135	DNA replication protein DNAD; primosome, DNA-bindi	91.51
2zig_A	297	TTHA0409, putative modification methylase; methylt	91.51
1sfu_A	75	34L protein; protein/Z-DNA complex, DNA binding pr	91.42
1j5y_A	187	Transcriptional regulator, biotin repressor famil;	91.42
2p5v_A	162	Transcriptional regulator, LRP/ASNC family; NMB057	91.4
2dbb_A	151	Putative HTH-type transcriptional regulator PH006;	91.34
3cta_A	230	Riboflavin kinase; structural genomics, transferas	91.32
2cyy_A	151	Putative HTH-type transcriptional regulator PH151;	91.29
1okr_A	123	MECI, methicillin resistance regulatory protein ME	91.28
1mzb_A	136	Ferric uptake regulation protein; ferric uptake re	91.17
3i4p_A	162	Transcriptional regulator, ASNC family; PSI, struc	91.11
2xvc_A	59	ESCRT-III, SSO0910; cell cycle, cell division, cyt	90.96
1uly_A	192	Hypothetical protein PH1932; helix-turn-helix, str	90.95
2cg4_A	152	Regulatory protein ASNC; DNA binding, FFRP, LRP fa	90.92
1p6r_A	82	Penicillinase repressor; transcription regulation,	90.85
3mwm_A	139	ZUR, putative metal uptake regulation protein; FUR	90.81
2e1c_A	171	Putative HTH-type transcriptional regulator PH151;	90.8
1i1g_A	141	Transcriptional regulator LRPA; helix-turn-helix,	90.79
2k4b_A	99	Transcriptional regulator; DNA binding protein, wi	90.77
2ia0_A	171	Putative HTH-type transcriptional regulator PF086;	90.51
2d1h_A	109	ST1889, 109AA long hypothetical transcriptional re	90.48
3k2z_A	196	LEXA repressor; winged helix-turn-helix, SOS syste	90.34
4esf_A	117	PADR-like transcriptional regulator; PADR family,	90.11
1v4r_A	102	Transcriptional repressor; helix-turn-helix, winge	89.8
1ku9_A	152	Hypothetical protein MJ223; putative transcription	89.72
3i71_A	68	Ethanolamine utilization protein EUTK; helix-turn-	89.49
1p4x_A	250	Staphylococcal accessory regulator A homologue; wi	89.29
3cvo_A	202	Methyltransferase-like protein of unknown functio;	89.27
1zkd_A	387	DUF185; NESG, RPR58, structural genomics, PSI, pro	89.12
1hsj_A	487	Fusion protein consisting of staphylococcus access	88.79
1fx7_A	230	Iron-dependent repressor IDER; DTXR, iron-dependen	88.06
3elk_A	117	Putative transcriptional regulator TA0346; structu	88.05
2xig_A	150	Ferric uptake regulation protein; hpfur, transcrip	87.85
2wk1_A	282	NOVP; transferase, O-methyltransferase, novobiocin	87.25
2uyo_A	310	Hypothetical protein ML2640; putative methyltransf	87.23
1yg2_A	179	Gene activator APHA; virulence factor, winged heli	87.19
1cf7_A	76	Protein (transcription factor E2F-4); E2F, winged-	86.85
2g9w_A	138	Conserved hypothetical protein; DNA-binding domain	86.69
2hoe_A	380	N-acetylglucosamine kinase; TM1224, structural gen	86.66
3f8b_A	116	Transcriptional regulator, PADR-like family; winge	86.55
3hhh_A	116	Transcriptional regulator, PADR family; PF03551, s	86.4
2o0m_A	345	Transcriptional regulator, SORC family; structural	86.19
1xma_A	145	Predicted transcriptional regulator; southea colla	86.13
2qq9_A	226	Diphtheria toxin repressor; regulator, DTXR, helix	86.04
2pjp_A	121	Selenocysteine-specific elongation factor; SELB, p	85.6
3eld_A	300	Methyltransferase; flavivirus, RNA capping, guanyl	85.06
2p8t_A	200	Hypothetical protein PH0730; pyrococcus horikoshii	83.72
1sd4_A	126	Penicillinase repressor; BLAI, MECI, methicillin,	83.6
2yu3_A	95	DNA-directed RNA polymerase III 39 kDa polypeptide	83.5
1z6r_A	406	MLC protein; transcriptional repressor, ROK family	83.22
2w57_A	150	Ferric uptake regulation protein; gene regulation,	83.21
1g60_A	260	Adenine-specific methyltransferase MBOIIA; structu	82.25
1jhg_A	101	Trp operon repressor; complex (regulatory protein-	82.25
2py6_A	409	Methyltransferase FKBM; YP_546752.1, structural ge	82.17
2qlz_A	232	Transcription factor PF0095; 2.50A {Pyrococcus fur	82.13
3l7w_A	108	Putative uncharacterized protein SMU.1704; PADR, t	81.69
3eyy_A	145	Putative iron uptake regulatory protein; NUR, nick	81.2
1z05_A	429	Transcriptional regulator, ROK family; structural	80.82
3lmm_A	583	Uncharacterized protein; multi-domained alpha-beta	80.58
4esb_A	115	Transcriptional regulator, PADR family; DNA bindin	80.58

>4a6d_A Hydroxyindole O-methyltransferase; melatonin, circadian clock; HET: SAM; 2.40A {Homo sapiens} PDB: 4a6e_A*

Probab=100.00  E-value=4e-46  Score=336.90  Aligned_cols=242  Identities=21%  Similarity=0.310  Sum_probs=218.9

Q ss_pred             HHHHHHHHHHHhHHHHHHHHHHHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCC
Q 042491           12 RGQAQVWQLMFAFADSMALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSD   91 (266)
Q Consensus        12 ~~~~~l~~~~~g~~~~~~L~~a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~   91 (266)
                      ++...|.+++.||+.+++|++|++|||||+|.+.++|+|++|||+++|++++.      +.|+||+|++.|+|.+...  
T Consensus         7 ~~~~~L~~l~~Gf~~s~~L~aa~eLglfd~L~~~~~p~t~~eLA~~~g~~~~~------l~rlLr~L~~~gll~~~~~--   78 (353)
T 4a6d_A            7 QAYRLLNDYANGFMVSQVLFAACELGVFDLLAEAPGPLDVAAVAAGVRASAHG------TELLLDICVSLKLLKVETR--   78 (353)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHTHHHHHHHSSSCBCHHHHHHHHTCCHHH------HHHHHHHHHHTTSEEEEEE--
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHcCHHHHHhcCCCCCCHHHHHHhhCcCHHH------HHHHHHHHHHCCCEEEecc--
Confidence            66778999999999999999999999999998755799999999999999877      9999999999999986542  


Q ss_pred             CCCCceEeCchhch-hhhcCCCCChHHHHHHhcChhhhhhhhhhHHHHhcCCchhhhhhCC---CcchhcccCchHHHHH
Q 042491           92 GSEETMYGLTQISK-WLLRDSEMSLAPMILFQNSQLLQAPCHHLSQCVEEGGHAFKKAHGC---EMWDFASQNSQFNNSF  167 (266)
Q Consensus        92 ~~g~~~y~lt~~s~-~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~g~---~~~~~~~~~~~~~~~f  167 (266)
                       ++.+.|++|++++ +|+++++.++.+++.++. ...++.|.+|.+++++++++|...+|.   ++|+++.++|+....|
T Consensus        79 -~~~~~y~~t~~s~~~l~~~~~~~~~~~~~~~~-~~~~~~~~~L~~~vr~g~~~~~~~~g~~~~~~~~~~~~~~~~~~~f  156 (353)
T 4a6d_A           79 -GGKAFYRNTELSSDYLTTVSPTSQCSMLKYMG-RTSYRCWGHLADAVREGRNQYLETFGVPAEELFTAIYRSEGERLQF  156 (353)
T ss_dssp             -TTEEEEEECHHHHHHHSTTSTTCCHHHHHHHH-HTHHHHHTTHHHHHHHTSCCHHHHHSCCCSSHHHHHTSSHHHHHHH
T ss_pred             -CccceeeCCHHHHHHhhcCCchHHHHHHHHhC-HHHHHHHHHHHHHHhcCCChhHHhcCCChHHHHHHHhhCHHHHHHH
Confidence             1246899999986 677888889999988874 567899999999999999999999884   6899999999999999


Q ss_pred             HHHHHhhhHHHHHHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeecHHHHhhCCC------CCCeEEEE
Q 042491          168 NKAMACTAKIVMSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPV------YEGVSHVG  241 (266)
Q Consensus       168 ~~~m~~~~~~~~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~a~~------~~ri~~~~  241 (266)
                      +++|...+....+.+++.++  |++..+|||||||+|.++.+++++||+++++++|+|++++.+++      .+||++++
T Consensus       157 ~~aM~~~~~~~~~~~~~~~~--~~~~~~v~DvGgG~G~~~~~l~~~~p~~~~~~~dlp~v~~~a~~~~~~~~~~rv~~~~  234 (353)
T 4a6d_A          157 MQALQEVWSVNGRSVLTAFD--LSVFPLMCDLGGGAGALAKECMSLYPGCKITVFDIPEVVWTAKQHFSFQEEEQIDFQE  234 (353)
T ss_dssp             HHHHHTTHHHHHHHHHHSSC--GGGCSEEEEETCTTSHHHHHHHHHCSSCEEEEEECHHHHHHHHHHSCC--CCSEEEEE
T ss_pred             HHHHHHHHHHHHHHHHHhcC--cccCCeEEeeCCCCCHHHHHHHHhCCCceeEeccCHHHHHHHHHhhhhcccCceeeec
Confidence            99999998888889999999  88999999999999999999999999999999999999987653      68999999


Q ss_pred             ccCCCC-CCCccEEEeccccccCCC
Q 042491          242 GDMLNA-VPNADAVFMKVIVLIQDL  265 (266)
Q Consensus       242 gd~~~~-~p~aD~~~l~~vLHd~~~  265 (266)
                      ||||++ .|++|+|++++|||||+|
T Consensus       235 gD~~~~~~~~~D~~~~~~vlh~~~d  259 (353)
T 4a6d_A          235 GDFFKDPLPEADLYILARVLHDWAD  259 (353)
T ss_dssp             SCTTTSCCCCCSEEEEESSGGGSCH
T ss_pred             CccccCCCCCceEEEeeeecccCCH
Confidence            999984 778999999999999986

>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=9.2e-44  Score=322.67  Aligned_cols=256  Identities=34%  Similarity=0.558  Sum_probs=228.8

Q ss_pred             chHHhhHHHHHHHHHHHhHHHHHHHHHHHhcChhhHhhhCC-CCCCHHHHHhhcCC--CCCCCCchhhHHHHHHHHhccC
Q 042491            6 VREDVLRGQAQVWQLMFAFADSMALKSAVELRLADIMHCHG-SPITLPQLASGINS--SCPDVHIIPSLTRIMRMLVRKG   82 (266)
Q Consensus         6 ~~~~~~~~~~~l~~~~~g~~~~~~L~~a~elglfd~L~~~g-~~~t~~eLA~~~g~--~~~~~~~~~~l~rlLr~L~~~g   82 (266)
                      ...|..+++..+++++.+++.+++|++|++|||||+|..+| +|+|++|||+++|+  +++.   +.++.||||+|++.|
T Consensus        13 ~~~~~~~~~~~~~~l~~~~~~~~~l~~a~~Lgifd~L~~~g~~~~t~~eLA~~~g~~~~~~~---~~~l~rlLr~L~~~g   89 (364)
T 3p9c_A           13 AASADEDACMFALQLASSSVLPMTLKNAIELGLLEILVAAGGKSLTPTEVAAKLPSAANPEA---PDMVDRILRLLASYN   89 (364)
T ss_dssp             CHHHHHHHHHHHHHHTTTTHHHHHHHHHHHHTHHHHHHHTTTCCBCHHHHHHTTTCTTCTTH---HHHHHHHHHHHHHTT
T ss_pred             cchHHHHHHHHHHHHHHhHHHHHHHHHHHHCChHHHHhhcCCCCCCHHHHHHhcCCCCCccc---hhhHHHHHHHHHhCC
Confidence            66778899999999999999999999999999999999864 69999999999998  7662   346999999999999


Q ss_pred             cccccccCCCCC--CceEeCchhchhhhcCC-CCChHHHHHHhcChhhhhhhhhhHHHHhcCCchhhhhhCCCcchhccc
Q 042491           83 VFAAHRSSDGSE--ETMYGLTQISKWLLRDS-EMSLAPMILFQNSQLLQAPCHHLSQCVEEGGHAFKKAHGCEMWDFASQ  159 (266)
Q Consensus        83 il~~~~~~~~~g--~~~y~lt~~s~~l~~~~-~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~g~~~~~~~~~  159 (266)
                      +|++...++++|  .++|++|+.++.|+.++ +.++++++.++.++.+++.|.+|.+++++|.+||+..+|.++|+++.+
T Consensus        90 ~l~~~~~~~~~g~~~~~y~~t~~s~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~~r~g~~~~~~~~g~~~~~~~~~  169 (364)
T 3p9c_A           90 VVTCLVEEGKDGRLSRSYGAAPVCKFLTPNEDGVSMAALALMNQDKVLMESWYYLKDAVLDGGIPFNKAYGMSAFEYHGT  169 (364)
T ss_dssp             SEEEEEEECSSSCEEEEEEECGGGGGSSCCTTSCCTHHHHHHHTSHHHHGGGGGHHHHHHHCSCHHHHHHSSCHHHHHTT
T ss_pred             CEEEeccccCCCCcCCEEecCHHHHHHcCCCCCCCHHHHHHHhcCHHHHHHHhCHHHHHhhCCChHHHhcCCCHHHHHHh
Confidence            999973211112  37899999999887654 568999988876677789999999999999999999999999999999


Q ss_pred             CchHHHHHHHHHHhhhHHHHHHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeecHHHHhhCCCCCCeEE
Q 042491          160 NSQFNNSFNKAMACTAKIVMSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPVYEGVSH  239 (266)
Q Consensus       160 ~~~~~~~f~~~m~~~~~~~~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~a~~~~ri~~  239 (266)
                      +|+..+.|+++|...+....+.+++.++ .+++..+|||||||+|.++..+++++|+++++++|+|++++.+++.+||++
T Consensus       170 ~~~~~~~f~~~m~~~~~~~~~~~~~~~~-~~~~~~~vlDvG~G~G~~~~~l~~~~p~~~~~~~D~~~~~~~a~~~~~v~~  248 (364)
T 3p9c_A          170 DPRFNRVFNEGMKNHSIIITKKLLELYH-GFEGLGTLVDVGGGVGATVAAIAAHYPTIKGVNFDLPHVISEAPQFPGVTH  248 (364)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHCC-TTTTCSEEEEETCTTSHHHHHHHHHCTTCEEEEEECHHHHTTCCCCTTEEE
T ss_pred             CHHHHHHHHHHHHHhhHHHHHHHHHhcc-cccCCCEEEEeCCCCCHHHHHHHHHCCCCeEEEecCHHHHHhhhhcCCeEE
Confidence            9999999999999988888888898887 367889999999999999999999999999999999999999988899999


Q ss_pred             EEccCCCCCCCccEEEeccccccCCC
Q 042491          240 VGGDMLNAVPNADAVFMKVIVLIQDL  265 (266)
Q Consensus       240 ~~gd~~~~~p~aD~~~l~~vLHd~~~  265 (266)
                      +.+||++++|..|+|+++++||+|++
T Consensus       249 ~~~D~~~~~p~~D~v~~~~vlh~~~d  274 (364)
T 3p9c_A          249 VGGDMFKEVPSGDTILMKWILHDWSD  274 (364)
T ss_dssp             EECCTTTCCCCCSEEEEESCGGGSCH
T ss_pred             EeCCcCCCCCCCCEEEehHHhccCCH
Confidence            99999999887799999999999975

>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=3.7e-42  Score=312.53  Aligned_cols=256  Identities=35%  Similarity=0.592  Sum_probs=223.9

Q ss_pred             chHHhhHHHHHHHHHHHhHHHHHHHHHHHhcChhhHhhhC-C--CCCCHHHHHhhcCC-CCCCCCchhhHHHHHHHHhcc
Q 042491            6 VREDVLRGQAQVWQLMFAFADSMALKSAVELRLADIMHCH-G--SPITLPQLASGINS-SCPDVHIIPSLTRIMRMLVRK   81 (266)
Q Consensus         6 ~~~~~~~~~~~l~~~~~g~~~~~~L~~a~elglfd~L~~~-g--~~~t~~eLA~~~g~-~~~~~~~~~~l~rlLr~L~~~   81 (266)
                      .+.+..++...+++++.|++.+++|++|++|||||+|.+. |  +|+|++|||+++|. ++..   +.++.||||+|++.
T Consensus        14 ~~~~~~~~~~~~~~l~~~~~~~~~l~~a~~Lglfd~L~~~~gp~~~~t~~eLA~~~~~~~~~~---~~~l~rlLr~L~~~   90 (368)
T 3reo_A           14 THSSDEEANLFAMQLASAAVLPMALKAAIELDVLEIMAKSVPPSGYISPAEIAAQLPTTNPEA---PVMLDRVLRLLASY   90 (368)
T ss_dssp             ---CHHHHHHHHHHHHTTTHHHHHHHHHHHTTHHHHHHHHCCTTCCBCHHHHHTTSSCCCTTH---HHHHHHHHHHHHHT
T ss_pred             CchHHHHHHHHHHHHHHHHHHHHHHHHHHHCCchhHHhhcCCCCCCcCHHHHHHhcCcCCCcc---hhhHHHHHHHHHhC
Confidence            3346778889999999999999999999999999999974 2  47999999999984 6542   45699999999999


Q ss_pred             CcccccccCCCCC--CceEeCchhchhhhcCC-CCChHHHHHHhcChhhhhhhhhhHHHHhcCCchhhhhhCCCcchhcc
Q 042491           82 GVFAAHRSSDGSE--ETMYGLTQISKWLLRDS-EMSLAPMILFQNSQLLQAPCHHLSQCVEEGGHAFKKAHGCEMWDFAS  158 (266)
Q Consensus        82 gil~~~~~~~~~g--~~~y~lt~~s~~l~~~~-~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~g~~~~~~~~  158 (266)
                      |+|++...++++|  .++|++|+.++.|+.+. +.++++++.++.++.+++.|.+|.+++++|.++|+..+|.++|+++.
T Consensus        91 gll~~~~~~~~~g~~~~~y~~t~~s~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~r~g~~~~~~~~g~~~~~~~~  170 (368)
T 3reo_A           91 SVVTYTLRELPSGKVERLYGLAPVCKFLTKNEDGVSLAPFLLLATDKVLLEPWFYLKDAILEGGIPFNKAYGMNIFDYHG  170 (368)
T ss_dssp             TSEEEEEEECTTSCEEEEEEECTTHHHHSCCTTSCCSHHHHHHHTCHHHHGGGGGHHHHHHHCSCHHHHHSSSCHHHHHT
T ss_pred             CCeEEecccCCCCcccceeCcCHHHHHHhCCCCCCCHHHHHHHhcCHHHHhhhhchHHHHhcCCCHHHHHhCCCHHHHHh
Confidence            9999872111112  37899999999887554 57899998887666778999999999999999999999999999999


Q ss_pred             cCchHHHHHHHHHHhhhHHHHHHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeecHHHHhhCCCCCCeE
Q 042491          159 QNSQFNNSFNKAMACTAKIVMSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPVYEGVS  238 (266)
Q Consensus       159 ~~~~~~~~f~~~m~~~~~~~~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~a~~~~ri~  238 (266)
                      ++|+..+.|+++|...+....+.+++.++ .+++..+|||||||+|.++..+++++|+++++++|+|++++.+++.+||+
T Consensus       171 ~~~~~~~~f~~~m~~~~~~~~~~~~~~~~-~~~~~~~vlDvG~G~G~~~~~l~~~~p~~~~~~~D~~~~~~~a~~~~~v~  249 (368)
T 3reo_A          171 TDHRINKVFNKGMSSNSTITMKKILEMYN-GFEGLTTIVDVGGGTGAVASMIVAKYPSINAINFDLPHVIQDAPAFSGVE  249 (368)
T ss_dssp             TCHHHHHHHHHHHHHHHHHHHHHHHTTCC-TTTTCSEEEEETCTTSHHHHHHHHHCTTCEEEEEECHHHHTTCCCCTTEE
T ss_pred             hCHHHHHHHHHHHHhhhhhHHHHHHHhcc-cccCCCEEEEeCCCcCHHHHHHHHhCCCCEEEEEehHHHHHhhhhcCCCE
Confidence            99999999999999998888888898886 36788999999999999999999999999999999999999998888999


Q ss_pred             EEEccCCCCCCCccEEEeccccccCCC
Q 042491          239 HVGGDMLNAVPNADAVFMKVIVLIQDL  265 (266)
Q Consensus       239 ~~~gd~~~~~p~aD~~~l~~vLHd~~~  265 (266)
                      ++.|||++++|..|+|+++++||+|++
T Consensus       250 ~~~~d~~~~~p~~D~v~~~~vlh~~~~  276 (368)
T 3reo_A          250 HLGGDMFDGVPKGDAIFIKWICHDWSD  276 (368)
T ss_dssp             EEECCTTTCCCCCSEEEEESCGGGBCH
T ss_pred             EEecCCCCCCCCCCEEEEechhhcCCH
Confidence            999999999987799999999999975

>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=2.5e-42  Score=311.24  Aligned_cols=244  Identities=22%  Similarity=0.306  Sum_probs=222.0

Q ss_pred             cchHHhhHHHHHHHHHHHhHHHHHHHHHHHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcc
Q 042491            5 DVREDVLRGQAQVWQLMFAFADSMALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVF   84 (266)
Q Consensus         5 ~~~~~~~~~~~~l~~~~~g~~~~~~L~~a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil   84 (266)
                      ..+....++...+++++.|++.+++|++|+++||||+|.+  +|+|++|||+++|++++.      +.||||+|++.|+|
T Consensus        14 ~~~~~~~~~~~~l~~~~~~~~~~~~l~~a~~lglf~~l~~--g~~t~~elA~~~g~~~~~------l~rlLr~l~~~g~l   85 (348)
T 3lst_A           14 GGDMDRLQSALALYEEAMGYTYAAALRAAAAVGVADHLVD--GPRTPAELAAATGTDADA------LRRVLRLLAVRDVV   85 (348)
T ss_dssp             --CCCHHHHHHHHHHHHTTHHHHHHHHHHHHHTGGGGGTT--SCBCHHHHHHHHTCCHHH------HHHHHHHHHHTTSE
T ss_pred             CCCCCCchHHHHHHHHHHHHHHHHHHHHHHHcCchhHhhC--CCCCHHHHHHHhCcCHHH------HHHHHHHHHhCCCE
Confidence            3455667888999999999999999999999999999986  799999999999998766      99999999999999


Q ss_pred             cccccCCCCCCceEeCchhchhhhcCCCCChHHHHHHhcChhhhhhhhhhHHHHhcCCchhhhhhCCCcchhcccCchHH
Q 042491           85 AAHRSSDGSEETMYGLTQISKWLLRDSEMSLAPMILFQNSQLLQAPCHHLSQCVEEGGHAFKKAHGCEMWDFASQNSQFN  164 (266)
Q Consensus        85 ~~~~~~~~~g~~~y~lt~~s~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~g~~~~~~~~~~~~~~  164 (266)
                      ++ +      +++|++|+.++.|+++++.++.+++.++.++..++.|.+|+++++++.++|+..+|.++|+++.++|+..
T Consensus        86 ~~-~------~~~y~~t~~s~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~g~~~~~~~~g~~~~~~~~~~~~~~  158 (348)
T 3lst_A           86 RE-S------DGRFALTDKGAALRSDSPVPARAGILMFTDTMFWTMSHRVASALGPERPAFADIFGSSLDAYFDGDAEVE  158 (348)
T ss_dssp             EE-E------TTEEEECTTTGGGSTTSSSCSHHHHHHHTSHHHHHHHHTHHHHTCTTCCCHHHHHSSCHHHHHTTCHHHH
T ss_pred             Ee-c------CCEEecCHHHHHHhcCCCccHHHHHHHhcCHHHHHHHHHHHHHHhcCCChhhHHhCCCHHHHHHhCHHHH
Confidence            99 4      4899999999988887777899988887666578999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhhhHHHHHHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeecHHHHhhCCC-----CCCeEE
Q 042491          165 NSFNKAMACTAKIVMSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPV-----YEGVSH  239 (266)
Q Consensus       165 ~~f~~~m~~~~~~~~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~a~~-----~~ri~~  239 (266)
                      +.|+++|...+....+.+++.++  +++..+|||||||+|.++..+++++|+++++++|+|+++...+.     .+||++
T Consensus       159 ~~f~~~m~~~~~~~~~~~~~~~~--~~~~~~vLDvG~G~G~~~~~l~~~~p~~~~~~~D~~~~~~~~~~~~~~~~~~v~~  236 (348)
T 3lst_A          159 ALYYEGMETVSAAEHLILARAGD--FPATGTVADVGGGRGGFLLTVLREHPGLQGVLLDRAEVVARHRLDAPDVAGRWKV  236 (348)
T ss_dssp             HHHHHHHHHHHHTTHHHHHHHSC--CCSSEEEEEETCTTSHHHHHHHHHCTTEEEEEEECHHHHTTCCCCCGGGTTSEEE
T ss_pred             HHHHHHHHHhhhhhHHHHHHhCC--ccCCceEEEECCccCHHHHHHHHHCCCCEEEEecCHHHhhcccccccCCCCCeEE
Confidence            99999999998888888999998  88899999999999999999999999999999999999883321     578999


Q ss_pred             EEccCCCCCCCccEEEeccccccCCC
Q 042491          240 VGGDMLNAVPNADAVFMKVIVLIQDL  265 (266)
Q Consensus       240 ~~gd~~~~~p~aD~~~l~~vLHd~~~  265 (266)
                      +.+|+++++|++|+|+++++||+|++
T Consensus       237 ~~~d~~~~~p~~D~v~~~~vlh~~~d  262 (348)
T 3lst_A          237 VEGDFLREVPHADVHVLKRILHNWGD  262 (348)
T ss_dssp             EECCTTTCCCCCSEEEEESCGGGSCH
T ss_pred             EecCCCCCCCCCcEEEEehhccCCCH
Confidence            99999988889999999999999985

>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=6.7e-42  Score=308.77  Aligned_cols=252  Identities=37%  Similarity=0.605  Sum_probs=226.3

Q ss_pred             chHHhhHHHHHHHHHHHhHHHHHHHHHHHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCccc
Q 042491            6 VREDVLRGQAQVWQLMFAFADSMALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFA   85 (266)
Q Consensus         6 ~~~~~~~~~~~l~~~~~g~~~~~~L~~a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~   85 (266)
                      ..++++++...+++++.+++.+++|++++++|||++|+..|+++|++|||+++|+++..   ++.+.|+||+|++.|+|+
T Consensus         9 ~~~~~~~a~~~l~~~~~~~~~~~~l~~a~~lgif~~L~~~~~~~t~~ela~~~~~~~~~---~~~l~rlLr~L~~~gll~   85 (352)
T 1fp2_A            9 KPSEIFKAQALLYKHIYAFIDSMSLKWAVEMNIPNIIQNHGKPISLSNLVSILQVPSSK---IGNVRRLMRYLAHNGFFE   85 (352)
T ss_dssp             CSTHHHHHHHHHHHHHTTHHHHHHHHHHHHTTHHHHHHHHTSCEEHHHHHHHHTCCGGG---HHHHHHHHHHHHHTTSEE
T ss_pred             ChHHHhhHHHHHHHHHHHHHHHHHHHHHHHCChhhhhhhcCCCccHHHHHHHhCcCCCC---hHHHHHHHHHHHhCCeEE
Confidence            45789999999999999999999999999999999999754599999999999997544   567999999999999999


Q ss_pred             ccccCCCCCCceEeCchhchhhhcCCCCChHHHHHHhcChhhhhhhhhhHHHHh-cCCchhhhhhCCCcchhcccCchHH
Q 042491           86 AHRSSDGSEETMYGLTQISKWLLRDSEMSLAPMILFQNSQLLQAPCHHLSQCVE-EGGHAFKKAHGCEMWDFASQNSQFN  164 (266)
Q Consensus        86 ~~~~~~~~g~~~y~lt~~s~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~-~~~~~~~~~~g~~~~~~~~~~~~~~  164 (266)
                      +..    +++++|++|+.+++|+++++.++.+++.++.++..++.|.+|+++++ +|.++|+.++|.++|+++.++|+..
T Consensus        86 ~~~----~~~~~y~~t~~s~~L~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~~~g~~~~~~~~g~~~~~~~~~~~~~~  161 (352)
T 1fp2_A           86 IIT----KEEESYALTVASELLVRGSDLCLAPMVECVLDPTLSGSYHELKKWIYEEDLTLFGVTLGSGFWDFLDKNPEYN  161 (352)
T ss_dssp             EEE----SSSEEEEECHHHHTTSTTSSSCCHHHHHHHTCHHHHHGGGGHHHHHTCSSCCHHHHHHSSCHHHHHHHCHHHH
T ss_pred             Eec----CCCCeEeCCHHHHHHhCCCCccHHHHHHHhcCchHHHHHHHHHHHHHhcCCChHHHHcCCCHHHHHHhChHHH
Confidence            882    01489999999999998887789999988766667899999999999 8889999999999999999999999


Q ss_pred             HHHHHHHHhhhHHHHHHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeecHHHHhhCCCCCCeEEEEccC
Q 042491          165 NSFNKAMACTAKIVMSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPVYEGVSHVGGDM  244 (266)
Q Consensus       165 ~~f~~~m~~~~~~~~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~a~~~~ri~~~~gd~  244 (266)
                      +.|+++|...+....+. +..+++.+++..+|||||||+|.++..+++++|+++++++|+|.+++.+++.++|+++.+|+
T Consensus       162 ~~f~~~m~~~~~~~~~~-~~~~~~~~~~~~~vlDvG~G~G~~~~~l~~~~p~~~~~~~D~~~~~~~a~~~~~v~~~~~d~  240 (352)
T 1fp2_A          162 TSFNDAMASDSKLINLA-LRDCDFVFDGLESIVDVGGGTGTTAKIICETFPKLKCIVFDRPQVVENLSGSNNLTYVGGDM  240 (352)
T ss_dssp             HHHHHHHHHTHHHHHHH-HHTCHHHHTTCSEEEEETCTTSHHHHHHHHHCTTCEEEEEECHHHHTTCCCBTTEEEEECCT
T ss_pred             HHHHHHHHhcchhhhhH-HHhcccccccCceEEEeCCCccHHHHHHHHHCCCCeEEEeeCHHHHhhcccCCCcEEEeccc
Confidence            99999999988777677 77782227788999999999999999999999999999999999999988767799999999


Q ss_pred             CCCCCCccEEEeccccccCCC
Q 042491          245 LNAVPNADAVFMKVIVLIQDL  265 (266)
Q Consensus       245 ~~~~p~aD~~~l~~vLHd~~~  265 (266)
                      ++++|++|+|+++++||+|++
T Consensus       241 ~~~~p~~D~v~~~~~lh~~~d  261 (352)
T 1fp2_A          241 FTSIPNADAVLLKYILHNWTD  261 (352)
T ss_dssp             TTCCCCCSEEEEESCGGGSCH
T ss_pred             cCCCCCccEEEeehhhccCCH
Confidence            998889999999999999975

>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=9.2e-42  Score=308.54  Aligned_cols=254  Identities=34%  Similarity=0.533  Sum_probs=224.0

Q ss_pred             HHhhHHHHHHHHHHHhHHHHHHHHHHHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCccccc
Q 042491            8 EDVLRGQAQVWQLMFAFADSMALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAH   87 (266)
Q Consensus         8 ~~~~~~~~~l~~~~~g~~~~~~L~~a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~   87 (266)
                      ++++++...+++++.+++.+++|++++++||||+|+..|+|+|++|||+++|+++..   ++.+.|+||+|++.|+|.+.
T Consensus         5 ~~~~~~~~~l~~~~~~~~~~~~l~~a~~lgif~~L~~~~~~~t~~eLA~~~g~~~~~---~~~l~rlLr~L~~~gll~~~   81 (358)
T 1zg3_A            5 SELYHAQIHLYKHVYNFVSSMALKSAMELGIADAIHNHGKPMTLSELASSLKLHPSK---VNILHRFLRLLTHNGFFAKT   81 (358)
T ss_dssp             SCCTTHHHHHHHHHTTHHHHHHHHHHHHHTHHHHHHHHTSCEEHHHHHHHTTCCTTT---HHHHHHHHHHHHHTTSEEEE
T ss_pred             HHhhhHHHHHHHHHHHHHHHHHHHHHHHCChHhHHhhcCCCcCHHHHHHhcCCCCcc---hHHHHHHHHHHhhCCcEEEe
Confidence            578899999999999999999999999999999999744599999999999997554   66799999999999999987


Q ss_pred             ccCC-C-CC--CceEeCchhchhhhcCCCCChHHHHHHhcChhhhhhhhhhHHHHhcC--CchhhhhhCCCcchhcccCc
Q 042491           88 RSSD-G-SE--ETMYGLTQISKWLLRDSEMSLAPMILFQNSQLLQAPCHHLSQCVEEG--GHAFKKAHGCEMWDFASQNS  161 (266)
Q Consensus        88 ~~~~-~-~g--~~~y~lt~~s~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~--~~~~~~~~g~~~~~~~~~~~  161 (266)
                      ..+. + +|  +++|++|+.+++|+++++.++.+++.++.++..++.|.+|+++++++  .++|+.++|.++|+++.++|
T Consensus        82 ~~~~~~~~g~~~~~y~~t~~s~~l~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~~g~~~~~~~~~~g~~~~~~~~~~p  161 (358)
T 1zg3_A           82 IVKGKEGDEEEEIAYSLTPPSKLLISGKPTCLSSIVKGALHPSSLDMWSSSKKWFNEDKEQTLFECATGESFWDFLNKDS  161 (358)
T ss_dssp             EECCSSSSCCCEEEEEECHHHHTTCTTSTTCCHHHHHHHTSHHHHGGGGGHHHHHHCSCCCCHHHHHHSSCHHHHHTSGG
T ss_pred             cccccccCCCCCCEEeCCHHHHHHhCCCCccHHHHHHHhcCcHHHHHHHHHHHHHhCCCCCChHHHHhCCCHHHHHhcCh
Confidence            1000 0 01  37999999999999888778999998876667789999999999998  78999999999999999999


Q ss_pred             hHHH--HHHHHHHhhhHHHHHHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeecHHHHhhCCCCCCeEE
Q 042491          162 QFNN--SFNKAMACTAKIVMSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPVYEGVSH  239 (266)
Q Consensus       162 ~~~~--~f~~~m~~~~~~~~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~a~~~~ri~~  239 (266)
                      +..+  .|+++|...+.... .+++.+++.+++..+|||||||+|.++..+++++|+++++++|+|.+++.+++.++|++
T Consensus       162 ~~~~~~~f~~~m~~~~~~~~-~~~~~~~~~~~~~~~vlDvG~G~G~~~~~l~~~~p~~~~~~~D~~~~~~~a~~~~~v~~  240 (358)
T 1zg3_A          162 ESSTLSMFQDAMASDSRMFK-LVLQENKRVFEGLESLVDVGGGTGGVTKLIHEIFPHLKCTVFDQPQVVGNLTGNENLNF  240 (358)
T ss_dssp             GHHHHHHHHHHHHHHHHTHH-HHHHHTHHHHHTCSEEEEETCTTSHHHHHHHHHCTTSEEEEEECHHHHSSCCCCSSEEE
T ss_pred             hhhhHHHHHHHHhcccHHHH-HHHHhcchhccCCCEEEEECCCcCHHHHHHHHHCCCCeEEEeccHHHHhhcccCCCcEE
Confidence            9999  99999998877666 78888832267788999999999999999999999999999999999998887677999


Q ss_pred             EEccCCCCCCCccEEEeccccccCCC
Q 042491          240 VGGDMLNAVPNADAVFMKVIVLIQDL  265 (266)
Q Consensus       240 ~~gd~~~~~p~aD~~~l~~vLHd~~~  265 (266)
                      +.+|+++++|.+|+|+++++||+|++
T Consensus       241 ~~~d~~~~~~~~D~v~~~~vlh~~~d  266 (358)
T 1zg3_A          241 VGGDMFKSIPSADAVLLKWVLHDWND  266 (358)
T ss_dssp             EECCTTTCCCCCSEEEEESCGGGSCH
T ss_pred             EeCccCCCCCCceEEEEcccccCCCH
Confidence            99999998889999999999999975

>3gwz_A MMCR; methyltransferase, mitomycin, S-adenosyl methionine, transferase; HET: MSE SAH; 1.91A {Streptomyces lavendulae} PDB: 3gxo_A*

Probab=100.00  E-value=2e-41  Score=307.72  Aligned_cols=244  Identities=23%  Similarity=0.399  Sum_probs=222.9

Q ss_pred             chHHhhHHHHHHHHHHHhHHHHHHHHHHHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCccc
Q 042491            6 VREDVLRGQAQVWQLMFAFADSMALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFA   85 (266)
Q Consensus         6 ~~~~~~~~~~~l~~~~~g~~~~~~L~~a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~   85 (266)
                      .+....+...++++++.+++.+++|++++++||||+|++  +|+|++|||+++|++++.      +.||||+|++.|+|+
T Consensus        31 ~~~~~~~~~~~l~~l~~~~~~~~~l~~a~~lglf~~l~~--g~~t~~eLA~~~g~~~~~------l~rlLr~L~~~g~l~  102 (369)
T 3gwz_A           31 GTAARAAAEETVNDILQGAWKARAIHVAVELGVPELLQE--GPRTATALAEATGAHEQT------LRRLLRLLATVGVFD  102 (369)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTGGGGTT--SCEEHHHHHHHHTCCHHH------HHHHHHHHHHTTSSE
T ss_pred             CCCCCChHHHHHHHHHHHHHHHHHHHHHHHCChhhhhcC--CCCCHHHHHHHHCcCHHH------HHHHHHHHHhCCCEE
Confidence            344455777899999999999999999999999999995  799999999999998766      999999999999999


Q ss_pred             ccccCCCCCCce-EeCchhchhhhcCCCCChHHHHHHhcChhhhhhhhhhHHHHhcCCchhhhhhCCCcchhcccCchHH
Q 042491           86 AHRSSDGSEETM-YGLTQISKWLLRDSEMSLAPMILFQNSQLLQAPCHHLSQCVEEGGHAFKKAHGCEMWDFASQNSQFN  164 (266)
Q Consensus        86 ~~~~~~~~g~~~-y~lt~~s~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~g~~~~~~~~~~~~~~  164 (266)
                      +.+      +++ |++|++++.|+++.+.++.+++.++.++..++.|.+|.++++++.++|...+|.++|+++.++|+..
T Consensus       103 ~~~------~~~~y~~t~~s~~L~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~g~~~~~~~~g~~~~~~~~~~~~~~  176 (369)
T 3gwz_A          103 DLG------HDDLFAQNALSAVLLPDPASPVATDARFQAAPWHWRAWEQLTHSVRTGEASFDVANGTSFWQLTHEDPKAR  176 (369)
T ss_dssp             ECS------STTEEECCHHHHTTSCCTTCHHHHHHHHHHSHHHHHHHHTHHHHHHHSSCSHHHHHSSCHHHHHHHCHHHH
T ss_pred             EeC------CCceEecCHHHHHHhcCCchhHHHHHHHcCCHHHHHHHHhHHHHHhCCCChhHhhcCCCHHHHHHhCHHHH
Confidence            976      478 9999999988888777888888887665568899999999999999999999989999999999999


Q ss_pred             HHHHHHHHhhhHHHHHHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeecHHHHhhCCC-------CCCe
Q 042491          165 NSFNKAMACTAKIVMSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPV-------YEGV  237 (266)
Q Consensus       165 ~~f~~~m~~~~~~~~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~a~~-------~~ri  237 (266)
                      +.|+++|...+....+.+++.++  +++..+|||||||+|.++..+++++|+++++++|+|.+++.+++       .+||
T Consensus       177 ~~f~~~m~~~~~~~~~~l~~~~~--~~~~~~vlDvG~G~G~~~~~l~~~~p~~~~~~~D~~~~~~~a~~~~~~~~l~~~v  254 (369)
T 3gwz_A          177 ELFNRAMGSVSLTEAGQVAAAYD--FSGAATAVDIGGGRGSLMAAVLDAFPGLRGTLLERPPVAEEARELLTGRGLADRC  254 (369)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHSC--CTTCSEEEEETCTTSHHHHHHHHHCTTCEEEEEECHHHHHHHHHHHHHTTCTTTE
T ss_pred             HHHHHHHHHHHhhhHHHHHHhCC--CccCcEEEEeCCCccHHHHHHHHHCCCCeEEEEcCHHHHHHHHHhhhhcCcCCce
Confidence            99999999998888888999998  88889999999999999999999999999999999999987764       5799


Q ss_pred             EEEEccCCCCCC-CccEEEeccccccCCC
Q 042491          238 SHVGGDMLNAVP-NADAVFMKVIVLIQDL  265 (266)
Q Consensus       238 ~~~~gd~~~~~p-~aD~~~l~~vLHd~~~  265 (266)
                      +++.+|+++++| ++|+|+++++||+|++
T Consensus       255 ~~~~~d~~~~~p~~~D~v~~~~vlh~~~d  283 (369)
T 3gwz_A          255 EILPGDFFETIPDGADVYLIKHVLHDWDD  283 (369)
T ss_dssp             EEEECCTTTCCCSSCSEEEEESCGGGSCH
T ss_pred             EEeccCCCCCCCCCceEEEhhhhhccCCH
Confidence            999999998888 6999999999999985

>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=8e-41  Score=303.90  Aligned_cols=259  Identities=31%  Similarity=0.517  Sum_probs=210.2

Q ss_pred             CccchHHhhHHHHHHH--HHHHhHHHHHHHHHHHhcChhhHhhhCCCC---CCHHHHHhhcCC---CCCCCCchhhHHHH
Q 042491            3 SADVREDVLRGQAQVW--QLMFAFADSMALKSAVELRLADIMHCHGSP---ITLPQLASGINS---SCPDVHIIPSLTRI   74 (266)
Q Consensus         3 ~~~~~~~~~~~~~~l~--~~~~g~~~~~~L~~a~elglfd~L~~~g~~---~t~~eLA~~~g~---~~~~~~~~~~l~rl   74 (266)
                      ++.+.++.++++..++  +++.+++.+++|++|+++||||+|+..|+|   +|++|||+++|+   ++..   ++.+.|+
T Consensus        12 ~~~~~~~~~~~~~~l~~~~l~~~~~~~~~l~~a~~lgif~~L~~~g~pg~~~t~~eLA~~~~~~~~~~~~---~~~l~rl   88 (372)
T 1fp1_D           12 QISATSEQTEDSACLSAMVLTTNLVYPAVLNAAIDLNLFEIIAKATPPGAFMSPSEIASKLPASTQHSDL---PNRLDRM   88 (372)
T ss_dssp             -------CCHHHHHHHHHHHHHTTHHHHHHHHHHHTTHHHHHHTCSSTTCCBCHHHHHTTSCGGGCCTTH---HHHHHHH
T ss_pred             ccCchhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHCChHHHHHhcCCCCCCcCHHHHHHhcCCCCCCCcC---hHHHHHH
Confidence            4566778889999999  999999999999999999999999974226   999999999999   5433   5679999


Q ss_pred             HHHHhccCcccccccCCCCC--CceEeCchhchhhhcCCC-CChHHHHHHhcChhhhhhhhhhHHHHhcC-CchhhhhhC
Q 042491           75 MRMLVRKGVFAAHRSSDGSE--ETMYGLTQISKWLLRDSE-MSLAPMILFQNSQLLQAPCHHLSQCVEEG-GHAFKKAHG  150 (266)
Q Consensus        75 Lr~L~~~gil~~~~~~~~~g--~~~y~lt~~s~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~l~~~l~~~-~~~~~~~~g  150 (266)
                      ||+|++.|+|++....+++|  .++|++|+.+++|+++++ .++++++.++.++.+++.|.+|+++++++ .+||+..+|
T Consensus        89 Lr~L~~~gll~~~~~~~~~g~~~~~y~~t~~s~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~~g~~~~~~~~~g  168 (372)
T 1fp1_D           89 LRLLASYSVLTSTTRTIEDGGAERVYGLSMVGKYLVPDESRGYLASFTTFLCYPALLQVWMNFKEAVVDEDIDLFKNVHG  168 (372)
T ss_dssp             HHHHHHTTSEEEEEEECTTSCEEEEEEECTTGGGGSTTCTTCCCTHHHHHHTCHHHHHHHTTHHHHHHSCC---------
T ss_pred             HHHHhhCCceEecccccCCCCcCCeEecCHHHHHHhCCCCCCCHHHHHHHhcCchHHHHHHHHHHHHHcCCCChhHHHhC
Confidence            99999999999872000012  369999999999998876 68899998876667789999999999999 889999999


Q ss_pred             CCcchhcccCchHHHHHHHHHHhhhHHHHHHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeecHHHHhh
Q 042491          151 CEMWDFASQNSQFNNSFNKAMACTAKIVMSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVAT  230 (266)
Q Consensus       151 ~~~~~~~~~~~~~~~~f~~~m~~~~~~~~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~  230 (266)
                      .++|+++.++|+..+.|+++|...+....+.+++.++ .+++..+|||||||+|.++..+++++|+++++++|+|.+++.
T Consensus       169 ~~~~~~~~~~~~~~~~f~~~m~~~~~~~~~~l~~~~~-~~~~~~~vLDvG~G~G~~~~~l~~~~~~~~~~~~D~~~~~~~  247 (372)
T 1fp1_D          169 VTKYEFMGKDKKMNQIFNKSMVDVCATEMKRMLEIYT-GFEGISTLVDVGGGSGRNLELIISKYPLIKGINFDLPQVIEN  247 (372)
T ss_dssp             -----CCSSCHHHHHHHHHHHHHHHHHHHHHHHHHCC-TTTTCSEEEEETCTTSHHHHHHHHHCTTCEEEEEECHHHHTT
T ss_pred             CCHHHHHHhCHHHHHHHHHHHHhhhHHHHHHHHHHhh-ccCCCCEEEEeCCCCcHHHHHHHHHCCCCeEEEeChHHHHHh
Confidence            9999999999999999999999988877788888885 367789999999999999999999999999999999999999


Q ss_pred             CCCCCCeEEEEccCCCCCCCccEEEeccccccCCC
Q 042491          231 APVYEGVSHVGGDMLNAVPNADAVFMKVIVLIQDL  265 (266)
Q Consensus       231 a~~~~ri~~~~gd~~~~~p~aD~~~l~~vLHd~~~  265 (266)
                      +++.++|+++.+|+++++|.+|+|+++++||+|++
T Consensus       248 a~~~~~v~~~~~d~~~~~~~~D~v~~~~~lh~~~d  282 (372)
T 1fp1_D          248 APPLSGIEHVGGDMFASVPQGDAMILKAVCHNWSD  282 (372)
T ss_dssp             CCCCTTEEEEECCTTTCCCCEEEEEEESSGGGSCH
T ss_pred             hhhcCCCEEEeCCcccCCCCCCEEEEecccccCCH
Confidence            88778899999999998888999999999999975

>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=8.2e-42  Score=305.66  Aligned_cols=236  Identities=21%  Similarity=0.340  Sum_probs=214.4

Q ss_pred             HHHHHHHHHhHHHHHHHHHHHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCC
Q 042491           14 QAQVWQLMFAFADSMALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGS   93 (266)
Q Consensus        14 ~~~l~~~~~g~~~~~~L~~a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~   93 (266)
                      +..+++++.|++.+++|++|+++||||+|.+  +|+|++|||+++|++++.      +.||||+|++.|+|.+.+     
T Consensus         6 ~~~l~~~~~g~~~~~~l~~a~~lglf~~l~~--g~~t~~elA~~~~~~~~~------l~rlLr~l~~~gl~~~~~-----   72 (332)
T 3i53_A            6 AHIGLRALADLATPMAVRVAATLRVADHIAA--GHRTAAEIASAAGAHADS------LDRLLRHLVAVGLFTRDG-----   72 (332)
T ss_dssp             CSSCHHHHTCCHHHHHHHHHHHHTHHHHHHT--TCCBHHHHHHHHTCCHHH------HHHHHHHHHHTTSEEECT-----
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHcChHHHHhc--CCCCHHHHHHHHCcCHHH------HHHHHHHHHhCCcEEecC-----
Confidence            4567899999999999999999999999986  799999999999998766      999999999999999986     


Q ss_pred             CCceEeCchhchhhhcCCCCChHHHHHHhcChhhh-hhhhhhHHHHhcCCchhhhhhCCCcchhcccCchHHHHHHHHHH
Q 042491           94 EETMYGLTQISKWLLRDSEMSLAPMILFQNSQLLQ-APCHHLSQCVEEGGHAFKKAHGCEMWDFASQNSQFNNSFNKAMA  172 (266)
Q Consensus        94 g~~~y~lt~~s~~l~~~~~~~~~~~~~~~~~~~~~-~~~~~l~~~l~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~m~  172 (266)
                       +++|.+|++++.|+++++.++.+++.++.+...+ +.|.+|+++++++.++|+..+|.++|+++.++|+..+.|+++|.
T Consensus        73 -~~~y~~t~~s~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~m~  151 (332)
T 3i53_A           73 -QGVYGLTEFGEQLRDDHAAGKRKWLDMNSAVGRGDLGFVELAHSIRTGQPAYPVRYGTSFWEDLGSDPVLSASFDTLMS  151 (332)
T ss_dssp             -TSBEEECTTGGGGSTTCTTCCHHHHCTTSHHHHHGGGGGGHHHHHHHSSCSHHHHHSSCHHHHHHHCHHHHHHHHHHHH
T ss_pred             -CCeEEcCHhHHHHhcCCchhHHHHHHHcCCHhHHHHHHHHhHHHHhcCCCHHHHhhCCCHHHHHHhCHHHHHHHHHHHH
Confidence             5899999999988877777888888776433445 89999999999999999999998999999999999999999999


Q ss_pred             hhhHHHHHHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeecHHHHhhCCC-------CCCeEEEEccCC
Q 042491          173 CTAKIVMSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPV-------YEGVSHVGGDML  245 (266)
Q Consensus       173 ~~~~~~~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~a~~-------~~ri~~~~gd~~  245 (266)
                      ..+....+.+++.++  +++..+|||||||+|.++..+++++|+++++++|+|++++.+++       .+||+++.+|++
T Consensus       152 ~~~~~~~~~~~~~~~--~~~~~~vlDvG~G~G~~~~~l~~~~p~~~~~~~D~~~~~~~a~~~~~~~~~~~~v~~~~~d~~  229 (332)
T 3i53_A          152 HHLELDYTGIAAKYD--WAALGHVVDVGGGSGGLLSALLTAHEDLSGTVLDLQGPASAAHRRFLDTGLSGRAQVVVGSFF  229 (332)
T ss_dssp             HHHHHHHTTGGGSSC--CGGGSEEEEETCTTSHHHHHHHHHCTTCEEEEEECHHHHHHHHHHHHHTTCTTTEEEEECCTT
T ss_pred             HhHHhhHHHHHHhCC--CCCCCEEEEeCCChhHHHHHHHHHCCCCeEEEecCHHHHHHHHHhhhhcCcCcCeEEecCCCC
Confidence            988777777888888  77889999999999999999999999999999999999988764       479999999999


Q ss_pred             CCCC-CccEEEeccccccCCC
Q 042491          246 NAVP-NADAVFMKVIVLIQDL  265 (266)
Q Consensus       246 ~~~p-~aD~~~l~~vLHd~~~  265 (266)
                      +++| ++|+|+++++||+|++
T Consensus       230 ~~~p~~~D~v~~~~vlh~~~~  250 (332)
T 3i53_A          230 DPLPAGAGGYVLSAVLHDWDD  250 (332)
T ss_dssp             SCCCCSCSEEEEESCGGGSCH
T ss_pred             CCCCCCCcEEEEehhhccCCH
Confidence            8888 6999999999999985

>2ip2_A Probable phenazine-specific methyltransferase; pyocyanin, phenazine-1-carboxy PHZM; 1.80A {Pseudomonas aeruginosa}

Probab=100.00  E-value=6.3e-40  Score=293.37  Aligned_cols=234  Identities=28%  Similarity=0.381  Sum_probs=214.0

Q ss_pred             HHHHHHHHHHHhHHHHHHHHHHHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCC
Q 042491           12 RGQAQVWQLMFAFADSMALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSD   91 (266)
Q Consensus        12 ~~~~~l~~~~~g~~~~~~L~~a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~   91 (266)
                      .++..+++++.|++.+++|++++++|||++|..  +|+|++|||+++|++++.      +.|+||+|++.|+|.+.+   
T Consensus         7 ~~~~~l~~~~~~~~~~~~l~~~~~lgi~~~l~~--~~~t~~ela~~~~~~~~~------l~r~Lr~L~~~g~l~~~~---   75 (334)
T 2ip2_A            7 AAARNLIQVVTGEWKSRCVYVATRLGLADLIES--GIDSDETLAAAVGSDAER------IHRLMRLLVAFEIFQGDT---   75 (334)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHTTHHHHHHT--TCCSHHHHHHHHTCCHHH------HHHHHHHHHHTTSEEEET---
T ss_pred             ccHHHHHHHHHHHHHHHHHHHHHHcCcHHHHhC--CCCCHHHHHHHhCcCHHH------HHHHHHHHHhCCceEecC---
Confidence            677899999999999999999999999999986  799999999999998766      999999999999999986   


Q ss_pred             CCCCceEeCchhchhhhcCCCCChHHHHHHhcChhhhhhhhhhHHHHhcCCchhhhhhCCCcchhcccCchHHHHHHHHH
Q 042491           92 GSEETMYGLTQISKWLLRDSEMSLAPMILFQNSQLLQAPCHHLSQCVEEGGHAFKKAHGCEMWDFASQNSQFNNSFNKAM  171 (266)
Q Consensus        92 ~~g~~~y~lt~~s~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~m  171 (266)
                         ++.|++|+.++.|+ +++.++.+++.++.+... +.|.+|+++++++.++|+..+|.++|+++.++|+..+.|+++|
T Consensus        76 ---~~~y~~t~~s~~l~-~~~~~~~~~~~~~~~~~~-~~~~~l~~~l~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~m  150 (334)
T 2ip2_A           76 ---RDGYANTPTSHLLR-DVEGSFRDMVLFYGEEFH-AAWTPACEALLSGTPGFELAFGEDFYSYLKRCPDAGRRFLLAM  150 (334)
T ss_dssp             ---TTEEEECHHHHTTS-SSTTCSHHHHHHHTTHHH-HHTTTHHHHHHHCCCHHHHHHSSCHHHHHHHCHHHHHHHHHHH
T ss_pred             ---CCeEecCHHHHHHh-CCCccHHHHHHHhcCchh-hHHHHHHHHHhcCCChhhhhcCCCHHHHHhhChHHHHHHHHHH
Confidence               58999999999888 767788999988765444 8999999999999999999999999999999999999999999


Q ss_pred             HhhhHHHHHHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeecHHHHhhCCC-------CCCeEEEEccC
Q 042491          172 ACTAKIVMSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPV-------YEGVSHVGGDM  244 (266)
Q Consensus       172 ~~~~~~~~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~a~~-------~~ri~~~~gd~  244 (266)
                       ..+....+.+++.++  +++ .+|||||||+|.++..+++++|+++++++|+|.+++.+++       .+||+++.+|+
T Consensus       151 -~~~~~~~~~~~~~~~--~~~-~~vlDvG~G~G~~~~~l~~~~p~~~~~~~D~~~~~~~a~~~~~~~~~~~~v~~~~~d~  226 (334)
T 2ip2_A          151 -KASNLAFHEIPRLLD--FRG-RSFVDVGGGSGELTKAILQAEPSARGVMLDREGSLGVARDNLSSLLAGERVSLVGGDM  226 (334)
T ss_dssp             -GGGHHHHHHHHHHSC--CTT-CEEEEETCTTCHHHHHHHHHCTTCEEEEEECTTCTHHHHHHTHHHHHTTSEEEEESCT
T ss_pred             -HHHHHHHHHHHHhCC--CCC-CEEEEeCCCchHHHHHHHHHCCCCEEEEeCcHHHHHHHHHHHhhcCCCCcEEEecCCC
Confidence             888777888999888  777 9999999999999999999999999999999888877654       47899999999


Q ss_pred             CCCCCC-ccEEEeccccccCCC
Q 042491          245 LNAVPN-ADAVFMKVIVLIQDL  265 (266)
Q Consensus       245 ~~~~p~-aD~~~l~~vLHd~~~  265 (266)
                      ++++|+ +|+|+++++||+|++
T Consensus       227 ~~~~~~~~D~v~~~~vl~~~~~  248 (334)
T 2ip2_A          227 LQEVPSNGDIYLLSRIIGDLDE  248 (334)
T ss_dssp             TTCCCSSCSEEEEESCGGGCCH
T ss_pred             CCCCCCCCCEEEEchhccCCCH
Confidence            998885 999999999999974

>3dp7_A SAM-dependent methyltransferase; structural genomics, protein structure initiative, NEW YORK structural genomix research; 2.33A {Bacteroides vulgatus}

Probab=100.00  E-value=3e-39  Score=292.78  Aligned_cols=239  Identities=16%  Similarity=0.188  Sum_probs=202.2

Q ss_pred             chHHhhHHHHHHHHHHHhHHHHHHHHHHHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCccc
Q 042491            6 VREDVLRGQAQVWQLMFAFADSMALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFA   85 (266)
Q Consensus         6 ~~~~~~~~~~~l~~~~~g~~~~~~L~~a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~   85 (266)
                      .+++++++...+++++.|++.+++|++++++||||+|+.+++|+|++|||+++|++++.      +.||||+|++.|+|+
T Consensus         8 ~~~~~~~a~~~l~~l~~g~~~~~~l~~a~~lgifd~L~~~~~~~t~~eLA~~~g~~~~~------l~rlLr~l~~~g~l~   81 (363)
T 3dp7_A            8 EQCTAAEAQRLAQEIAFGPVVFQVSRLMLKFGIFQLLSGKREGYTLQEISGRTGLTRYA------AQVLLEASLTIGTIL   81 (363)
T ss_dssp             SCCCSTTHHHHHHHHHHHHHHHHHHHHHHHTTHHHHHHTCTTCBCHHHHHHHHTCCHHH------HHHHHHHHHHHTSEE
T ss_pred             CchhHHHHHHHHHHHHhhHHHHHHHHHHHHhCHHHHHHhcCCCCCHHHHHHHhCcCHHH------HHHHHHHHhhCCCeE
Confidence            45678899999999999999999999999999999999755799999999999999876      999999999999998


Q ss_pred             ccccCCCCCCceEeCchhchhhhcCCCCChHHHHHHhcChhhhhhhhhhHHHHhcCCchhhhhhC--CCcchhcccCchH
Q 042491           86 AHRSSDGSEETMYGLTQISKWLLRDSEMSLAPMILFQNSQLLQAPCHHLSQCVEEGGHAFKKAHG--CEMWDFASQNSQF  163 (266)
Q Consensus        86 ~~~~~~~~g~~~y~lt~~s~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~g--~~~~~~~~~~~~~  163 (266)
                      +.+       ++|++|+.+++|+++++.  ..++.+. .+..++.|.+|+++++++.+++...+|  .++|+++.++|+.
T Consensus        82 ~~~-------~~y~~t~~s~~L~~~~~~--~~~~~~~-~~~~~~~~~~L~~~lr~g~~~~~~~~g~~~~~~~~~~~~~~~  151 (363)
T 3dp7_A           82 LEE-------DRYVLAKAGWFLLNDKMA--RVNMEFN-HDVNYQGLFHLEEALLNGRPEGLKVFGEWPTIYEGLSQLPEQ  151 (363)
T ss_dssp             EET-------TEEEECHHHHHHHHCHHH--HHHHHHH-HHTTHHHHTTHHHHHHHSSCGGGGGTCCCSSHHHHGGGSCHH
T ss_pred             ecC-------CEEecccchHHhhCCCcc--cchheee-cHHhhhhHHHHHHHHhcCCCccccccCchHhHHHHHhhCHHH
Confidence            865       899999999999876532  2233333 356789999999999999988888888  5899999999987


Q ss_pred             HHH----HHHHHHhhhHHHHHHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeecHHHHhhCCC------
Q 042491          164 NNS----FNKAMACTAKIVMSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPV------  233 (266)
Q Consensus       164 ~~~----f~~~m~~~~~~~~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~a~~------  233 (266)
                      .+.    |+.+|....   ...++..+.  ..+..+|||||||+|.++..+++++|+++++++|+|++++.+++      
T Consensus       152 ~~~~~~~f~~~~~~~~---~~~~l~~~~--~~~~~~vlDvG~G~G~~~~~l~~~~p~~~~~~~D~~~~~~~a~~~~~~~~  226 (363)
T 3dp7_A          152 VQKSWFGFDHFYSDQS---FGKALEIVF--SHHPKRLLDIGGNTGKWATQCVQYNKEVEVTIVDLPQQLEMMRKQTAGLS  226 (363)
T ss_dssp             HHHHHHHHHHHTTCCC---CHHHHHHHG--GGCCSEEEEESCTTCHHHHHHHHHSTTCEEEEEECHHHHHHHHHHHTTCT
T ss_pred             HHHHHHHHHHHhhhhh---HHHHHHHhc--ccCCCEEEEeCCCcCHHHHHHHHhCCCCEEEEEeCHHHHHHHHHHHHhcC
Confidence            663    566554432   223445444  35778999999999999999999999999999999999987764      


Q ss_pred             -CCCeEEEEccCCCC---CC-CccEEEeccccccCCC
Q 042491          234 -YEGVSHVGGDMLNA---VP-NADAVFMKVIVLIQDL  265 (266)
Q Consensus       234 -~~ri~~~~gd~~~~---~p-~aD~~~l~~vLHd~~~  265 (266)
                       .+||+++.+|++++   +| ++|+|+++++||+|++
T Consensus       227 ~~~~v~~~~~d~~~~~~~~p~~~D~v~~~~vlh~~~~  263 (363)
T 3dp7_A          227 GSERIHGHGANLLDRDVPFPTGFDAVWMSQFLDCFSE  263 (363)
T ss_dssp             TGGGEEEEECCCCSSSCCCCCCCSEEEEESCSTTSCH
T ss_pred             cccceEEEEccccccCCCCCCCcCEEEEechhhhCCH
Confidence             36899999999994   77 5999999999999975

>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=1.7e-37  Score=281.52  Aligned_cols=239  Identities=23%  Similarity=0.344  Sum_probs=213.2

Q ss_pred             hHHHHHHHHHHHhHHHHHHHHHHHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccC
Q 042491           11 LRGQAQVWQLMFAFADSMALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSS   90 (266)
Q Consensus        11 ~~~~~~l~~~~~g~~~~~~L~~a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~   90 (266)
                      .+....+++++.+++.+++|++++++|||++|..  +++|++|||+++|++++.      +.|+||+|++.|+|.+.+  
T Consensus        14 ~~~~~~l~~~~~~~~~~~~l~~~~~l~i~~~l~~--~~~t~~eLA~~~g~~~~~------l~r~Lr~L~~~Gll~~~~--   83 (374)
T 1qzz_A           14 DQDLDVLLKNLGNLVTPMALRVAATLRLVDHLLA--GADTLAGLADRTDTHPQA------LSRLVRHLTVVGVLEGGE--   83 (374)
T ss_dssp             HHHHHHHHHTTTCCHHHHHHHHHHHTTHHHHHHT--TCCSHHHHHHHHTCCHHH------HHHHHHHHHHTTSEECCC--
T ss_pred             chHHHHHHHHHHhhHHHHHHHHHHHcChHHHHhC--CCCCHHHHHHHhCcCHHH------HHHHHHHHhhCCCEEEeC--
Confidence            3455689999999999999999999999999975  799999999999998766      999999999999999865  


Q ss_pred             CCCCCc--eEeCchhchhhhcCCCCChHHHHHHhcChhhh-hhhhhhHHHHhcCCchhhhhhCCCcchhcccCchHHHHH
Q 042491           91 DGSEET--MYGLTQISKWLLRDSEMSLAPMILFQNSQLLQ-APCHHLSQCVEEGGHAFKKAHGCEMWDFASQNSQFNNSF  167 (266)
Q Consensus        91 ~~~g~~--~y~lt~~s~~l~~~~~~~~~~~~~~~~~~~~~-~~~~~l~~~l~~~~~~~~~~~g~~~~~~~~~~~~~~~~f  167 (266)
                          ++  .|++|++++.|+++++.++..++.+..++..+ ..|.+|.+.++++.++|+..+|.++|+++.++|+..+.|
T Consensus        84 ----~~~~~y~~t~~s~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~g~~~~~~~~~~~~~~~~f  159 (374)
T 1qzz_A           84 ----KQGRPLRPTRLGMLLADGHPAQQRAWLDLNGAVSHADLAFTGLLDVVRTGRPAYAGRYGRPFWEDLSADVALADSF  159 (374)
T ss_dssp             ----C-CCCCEECTTGGGGSTTCTTCHHHHHCTTSHHHHHHGGGGGHHHHHHHSCCSHHHHHSSCHHHHHHHCHHHHHHH
T ss_pred             ----CCCeEEEEChHHHhhcCCCcccHHHHHHHcCChhhHHHHHHHHHHHHhcCCChhhhhhCCCHHHHHhhChHHHHHH
Confidence                36  99999999999988877888888776433456 899999999999999999999999999999999999999


Q ss_pred             HHHHHhhhHHHHHHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeecHHHHhhCCC-------CCCeEEE
Q 042491          168 NKAMACTAKIVMSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPV-------YEGVSHV  240 (266)
Q Consensus       168 ~~~m~~~~~~~~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~a~~-------~~ri~~~  240 (266)
                      +++|...+....+.+++.++  +.+..+|||||||+|.++..+++.+|+++++++|+|.+++.+++       .+||+++
T Consensus       160 ~~~~~~~~~~~~~~~~~~~~--~~~~~~vlDvG~G~G~~~~~l~~~~~~~~~~~~D~~~~~~~a~~~~~~~~~~~~v~~~  237 (374)
T 1qzz_A          160 DALMSCDEDLAYEAPADAYD--WSAVRHVLDVGGGNGGMLAAIALRAPHLRGTLVELAGPAERARRRFADAGLADRVTVA  237 (374)
T ss_dssp             HHTCGGGSTTTTHHHHHTSC--CTTCCEEEEETCTTSHHHHHHHHHCTTCEEEEEECHHHHHHHHHHHHHTTCTTTEEEE
T ss_pred             HHHHHHhhHhHHHHHHHhCC--CCCCCEEEEECCCcCHHHHHHHHHCCCCEEEEEeCHHHHHHHHHHHHhcCCCCceEEE
Confidence            99998877766778888888  77889999999999999999999999999999999988887764       3589999


Q ss_pred             EccCCCCCCC-ccEEEeccccccCCC
Q 042491          241 GGDMLNAVPN-ADAVFMKVIVLIQDL  265 (266)
Q Consensus       241 ~gd~~~~~p~-aD~~~l~~vLHd~~~  265 (266)
                      .+|+++++|. +|+|+++++||+|++
T Consensus       238 ~~d~~~~~~~~~D~v~~~~vl~~~~~  263 (374)
T 1qzz_A          238 EGDFFKPLPVTADVVLLSFVLLNWSD  263 (374)
T ss_dssp             ECCTTSCCSCCEEEEEEESCGGGSCH
T ss_pred             eCCCCCcCCCCCCEEEEeccccCCCH
Confidence            9999998885 999999999999975

>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=9.7e-37  Score=275.34  Aligned_cols=236  Identities=21%  Similarity=0.353  Sum_probs=212.4

Q ss_pred             HHHHHHHHHhHHHHHHHHHHHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCC
Q 042491           14 QAQVWQLMFAFADSMALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGS   93 (266)
Q Consensus        14 ~~~l~~~~~g~~~~~~L~~a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~   93 (266)
                      ..++++++.+++.+++|++++++|||++|..  +++|++|||+++|+++..      +.|+||+|++.|+|.+.+     
T Consensus        20 ~~~~~~~~~~~~~~~~l~~~~~l~i~~~l~~--~~~t~~ela~~~~~~~~~------l~r~L~~L~~~g~~~~~~-----   86 (360)
T 1tw3_A           20 ALRTLIRLGSLHTPMVVRTAATLRLVDHILA--GARTVKALAARTDTRPEA------LLRLIRHLVAIGLLEEDA-----   86 (360)
T ss_dssp             HHHHHHHHHCSHHHHHHHHHHHTTHHHHHHT--TCCBHHHHHHHHTCCHHH------HHHHHHHHHHTTSEEEEE-----
T ss_pred             hHHHHHHHHhHHHHHHHHHHHHhCHHHHHhC--CCCCHHHHHHHhCcCHHH------HHHHHHHHHHCCCEEecC-----
Confidence            5778999999999999999999999999975  799999999999998766      999999999999999966     


Q ss_pred             CCceEeCchhchhhhcCCCCChHHHHHHhcChh-hhhhhhhhHHHHhcCCchhhhhhCCCcchhcccCchHHHHHHHHHH
Q 042491           94 EETMYGLTQISKWLLRDSEMSLAPMILFQNSQL-LQAPCHHLSQCVEEGGHAFKKAHGCEMWDFASQNSQFNNSFNKAMA  172 (266)
Q Consensus        94 g~~~y~lt~~s~~l~~~~~~~~~~~~~~~~~~~-~~~~~~~l~~~l~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~m~  172 (266)
                       +++|++|+.+++|+++.+.++..++.+...+. .+..|.+|.+.++++.++|+..+|.++|+++.++|+....|..+|.
T Consensus        87 -~g~y~~t~~s~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~g~~~~~~~~g~~~~~~~~~~p~~~~~f~~~~~  165 (360)
T 1tw3_A           87 -PGEFVPTEVGELLADDHPAAQRAWHDLTQAVARADISFTRLPDAIRTGRPTYESIYGKPFYEDLAGRPDLRASFDSLLA  165 (360)
T ss_dssp             -TTEEEECTTGGGGSTTSTTCHHHHTCTTSHHHHHGGGGGGHHHHHHHCCCCHHHHHSSCHHHHHHTCHHHHHHHHHHHT
T ss_pred             -CCeEEeCHHHHHHhcCCchhHHHHHHHhcCchhHHHHHHHHHHHHHcCCCHHHHhcCCCHHHHHHhChHHHHHHHHHHH
Confidence             48999999999999888778888887764333 5789999999999999999999999999999999999999999998


Q ss_pred             hhhHHHHHHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeecHHHHhhCCC-------CCCeEEEEccCC
Q 042491          173 CTAKIVMSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPV-------YEGVSHVGGDML  245 (266)
Q Consensus       173 ~~~~~~~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~a~~-------~~ri~~~~gd~~  245 (266)
                      ..+....+.+++.++  +.+..+|||||||+|.++..+++++|+++++++|+|.+++.+++       .+||+++.+|++
T Consensus       166 ~~~~~~~~~l~~~~~--~~~~~~vLDvG~G~G~~~~~l~~~~~~~~~~~~D~~~~~~~a~~~~~~~~~~~~v~~~~~d~~  243 (360)
T 1tw3_A          166 CDQDVAFDAPAAAYD--WTNVRHVLDVGGGKGGFAAAIARRAPHVSATVLEMAGTVDTARSYLKDEGLSDRVDVVEGDFF  243 (360)
T ss_dssp             TTTTTTTHHHHHHSC--CTTCSEEEEETCTTSHHHHHHHHHCTTCEEEEEECTTHHHHHHHHHHHTTCTTTEEEEECCTT
T ss_pred             HHHHHhHHHHHHhCC--CccCcEEEEeCCcCcHHHHHHHHhCCCCEEEEecCHHHHHHHHHHHHhcCCCCceEEEeCCCC
Confidence            877777778888888  77889999999999999999999999999999999888887664       358999999999


Q ss_pred             CCCCC-ccEEEeccccccCCC
Q 042491          246 NAVPN-ADAVFMKVIVLIQDL  265 (266)
Q Consensus       246 ~~~p~-aD~~~l~~vLHd~~~  265 (266)
                      +++|. +|+|+++++||+|++
T Consensus       244 ~~~~~~~D~v~~~~vl~~~~~  264 (360)
T 1tw3_A          244 EPLPRKADAIILSFVLLNWPD  264 (360)
T ss_dssp             SCCSSCEEEEEEESCGGGSCH
T ss_pred             CCCCCCccEEEEcccccCCCH
Confidence            98885 999999999999974

>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=4.5e-36  Score=271.22  Aligned_cols=231  Identities=22%  Similarity=0.333  Sum_probs=205.3

Q ss_pred             hHHhhHHHHHHHHHHH-hHHHHHHHHHHHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCccc
Q 042491            7 REDVLRGQAQVWQLMF-AFADSMALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFA   85 (266)
Q Consensus         7 ~~~~~~~~~~l~~~~~-g~~~~~~L~~a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~   85 (266)
                      .+++.++..++++++. |++.+++|++++++||||+|++  +|+|++|||+++|++++.      +.|+||+|++.|+|+
T Consensus        24 ~~~~~~~~~~~~~~~~~~~~~~~~l~~a~~lgif~~L~~--~~~t~~eLA~~~g~~~~~------l~rlLr~L~~~gll~   95 (359)
T 1x19_A           24 NNDLLNYYHRANELVFKGLIEFSCMKAAIELDLFSHMAE--GPKDLATLAADTGSVPPR------LEMLLETLRQMRVIN   95 (359)
T ss_dssp             CCHHHHHHHHHHHHHTHHHHHHHHHHHHHHHTHHHHHTT--CCBCHHHHHHHHTCCHHH------HHHHHHHHHHTTSEE
T ss_pred             ccccCCcchHHHHHHHHHHHHHHHHHHHHHcCcHHHHcC--CCCCHHHHHHHhCcChHH------HHHHHHHHHhCCCeE
Confidence            3567788889999986 8999999999999999999996  799999999999998766      999999999999999


Q ss_pred             ccccCCCCCCceEeCchhc-hhhhcCCC---CChHHHHHHhcChhhhhhhhhhHHHHhcCCchhhhhhCCCcchhcccCc
Q 042491           86 AHRSSDGSEETMYGLTQIS-KWLLRDSE---MSLAPMILFQNSQLLQAPCHHLSQCVEEGGHAFKKAHGCEMWDFASQNS  161 (266)
Q Consensus        86 ~~~~~~~~g~~~y~lt~~s-~~l~~~~~---~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~g~~~~~~~~~~~  161 (266)
                      +.+       ++|++|+.+ ++|+++++   .++++++.+. ....++.|.+|+++++++.+          |+++.++|
T Consensus        96 ~~~-------~~y~~t~~~~~~l~~~~~~~~~~~~~~~~~~-~~~~~~~~~~L~~~l~~g~~----------~~~~~~~p  157 (359)
T 1x19_A           96 LED-------GKWSLTEFADYMFSPTPKEPNLHQTPVAKAM-AFLADDFYMGLSQAVRGQKN----------FKGQVPYP  157 (359)
T ss_dssp             EET-------TEEEECHHHHHHSSSSCSBTTBCCHHHHHHH-HHHHHHTGGGHHHHHTTSCC----------CCCSSCSS
T ss_pred             eeC-------CeEecCHHHHHHhcCCCCCccccHHHHHHHH-HHHHHHHHHHHHHHHhcCCC----------CcccccCc
Confidence            986       799999974 68888777   6888888876 35678999999999998764          67777888


Q ss_pred             h---HHHHHHHHHHhhhH-HHHHHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeecHHHHhhCCC----
Q 042491          162 Q---FNNSFNKAMACTAK-IVMSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPV----  233 (266)
Q Consensus       162 ~---~~~~f~~~m~~~~~-~~~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~a~~----  233 (266)
                      +   ..+.|..+|...+. ...+.+++.++  +.+..+|||||||+|.++..+++++|+++++++|+|.+++.+++    
T Consensus       158 ~~~~~~~~f~~~m~~~~~~~~~~~l~~~~~--~~~~~~vLDvG~G~G~~~~~l~~~~p~~~~~~~D~~~~~~~a~~~~~~  235 (359)
T 1x19_A          158 PVTREDNLYFEEIHRSNAKFAIQLLLEEAK--LDGVKKMIDVGGGIGDISAAMLKHFPELDSTILNLPGAIDLVNENAAE  235 (359)
T ss_dssp             CCSHHHHHHHHHHHHTTCHHHHHHHHHHCC--CTTCCEEEEESCTTCHHHHHHHHHCTTCEEEEEECGGGHHHHHHHHHH
T ss_pred             hhhHHHHHHHHHHHHhccchhHHHHHHhcC--CCCCCEEEEECCcccHHHHHHHHHCCCCeEEEEecHHHHHHHHHHHHh
Confidence            8   99999999999887 77788999998  78889999999999999999999999999999999998887763    


Q ss_pred             ---CCCeEEEEccCCC-CCCCccEEEeccccccCCC
Q 042491          234 ---YEGVSHVGGDMLN-AVPNADAVFMKVIVLIQDL  265 (266)
Q Consensus       234 ---~~ri~~~~gd~~~-~~p~aD~~~l~~vLHd~~~  265 (266)
                         .+||+++.+|+++ ++|++|+|+++++||+|++
T Consensus       236 ~~~~~~v~~~~~d~~~~~~~~~D~v~~~~vlh~~~d  271 (359)
T 1x19_A          236 KGVADRMRGIAVDIYKESYPEADAVLFCRILYSANE  271 (359)
T ss_dssp             TTCTTTEEEEECCTTTSCCCCCSEEEEESCGGGSCH
T ss_pred             cCCCCCEEEEeCccccCCCCCCCEEEEechhccCCH
Confidence               4689999999998 5777899999999999975

>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=1.2e-35  Score=267.36  Aligned_cols=232  Identities=20%  Similarity=0.278  Sum_probs=195.9

Q ss_pred             hHHhhHHHHHHHHHHHhHHHHHHHHHHHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccc
Q 042491            7 REDVLRGQAQVWQLMFAFADSMALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAA   86 (266)
Q Consensus         7 ~~~~~~~~~~l~~~~~g~~~~~~L~~a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~   86 (266)
                      +.+.+..+..+++++.+++.+++|++++++||||+|.   +|+|++|||+++|++++.      +.||||+|++.|+|++
T Consensus        18 ~~~~l~~p~~l~~~~~~~~~~~~l~~a~~lgif~~l~---~~~t~~elA~~~~~~~~~------l~rlLr~L~~~gll~~   88 (352)
T 3mcz_A           18 DKAALTSVVDLVKLSDQYRQSAILHYAVADKLFDLTQ---TGRTPAEVAASFGMVEGK------AAILLHALAALGLLTK   88 (352)
T ss_dssp             SCCCCCSHHHHHHHHHTHHHHHHHHHHHHTTHHHHTT---SCBCHHHHHHHHTCCHHH------HHHHHHHHHHTTSEEE
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHHHHHHHCChHHHhC---CCCCHHHHHHHhCcChHH------HHHHHHHHHHCCCeEe
Confidence            3344445566999999999999999999999999997   499999999999998876      9999999999999999


Q ss_pred             cccCCCCCCceEeCchhch-hhhcCCCCChHHHHHHhcChhhhhhhhhhHHHHhcCCch-hhhhhCCCcchhcccCchHH
Q 042491           87 HRSSDGSEETMYGLTQISK-WLLRDSEMSLAPMILFQNSQLLQAPCHHLSQCVEEGGHA-FKKAHGCEMWDFASQNSQFN  164 (266)
Q Consensus        87 ~~~~~~~g~~~y~lt~~s~-~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~-~~~~~g~~~~~~~~~~~~~~  164 (266)
                      .+       ++|++|+.++ +|.++.+.+++.++.++  ...++.|.+|+++++++.+. |+..      .++.++|+..
T Consensus        89 ~~-------~~y~~t~~s~~~l~~~~~~~~~~~~~~~--~~~~~~~~~l~~~l~~g~~~~f~~~------~~~~~~~~~~  153 (352)
T 3mcz_A           89 EG-------DAFRNTALTERYLTTTSADYIGPIVEHQ--YLQWDNWPRLGEILRSEKPLAFQQE------SRFAHDTRAR  153 (352)
T ss_dssp             ET-------TEEEECHHHHHHHSTTCTTCCHHHHHHH--HTTTTTGGGHHHHHTCSSCCTTSHH------HHTTTCHHHH
T ss_pred             cC-------CeeecCHHHHhhccCCChhhHHHHHHHh--HHHHHHHHHHHHHHhCCCCCCcccc------cccccCHHHH
Confidence            87       7999999997 67777777888888765  34678999999999998643 3332      1234688999


Q ss_pred             HHHHHHHHhhhHHHHHHHHhhcccCCCC-CceEEEecCCchHHHHHHHHHCCCCeEEEeecHHHHhhCCC-------CCC
Q 042491          165 NSFNKAMACTAKIVMSTLLSHYKDGFDG-IRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPV-------YEG  236 (266)
Q Consensus       165 ~~f~~~m~~~~~~~~~~~~~~~~~~~~~-~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~a~~-------~~r  236 (266)
                      +.|.++|...... +..+++.++  +.+ ..+|||||||+|.++..+++++|+++++++|+|++++.+++       .+|
T Consensus       154 ~~f~~~m~~~~~~-~~~~l~~~~--~~~~~~~vlDvG~G~G~~~~~l~~~~p~~~~~~~D~~~~~~~a~~~~~~~~~~~~  230 (352)
T 3mcz_A          154 DAFNDAMVRLSQP-MVDVVSELG--VFARARTVIDLAGGHGTYLAQVLRRHPQLTGQIWDLPTTRDAARKTIHAHDLGGR  230 (352)
T ss_dssp             HHHHHHHHHHHHH-HHHHHHTCG--GGTTCCEEEEETCTTCHHHHHHHHHCTTCEEEEEECGGGHHHHHHHHHHTTCGGG
T ss_pred             HHHHHHHHhhhhh-HHHHHHhCC--CcCCCCEEEEeCCCcCHHHHHHHHhCCCCeEEEEECHHHHHHHHHHHHhcCCCCc
Confidence            9999999884433 236888888  666 89999999999999999999999999999999998876653       468


Q ss_pred             eEEEEccCCCC---CCC-ccEEEeccccccCCC
Q 042491          237 VSHVGGDMLNA---VPN-ADAVFMKVIVLIQDL  265 (266)
Q Consensus       237 i~~~~gd~~~~---~p~-aD~~~l~~vLHd~~~  265 (266)
                      |+++.+|++++   .|+ +|+|+++++||+|++
T Consensus       231 v~~~~~d~~~~~~~~~~~~D~v~~~~vlh~~~~  263 (352)
T 3mcz_A          231 VEFFEKNLLDARNFEGGAADVVMLNDCLHYFDA  263 (352)
T ss_dssp             EEEEECCTTCGGGGTTCCEEEEEEESCGGGSCH
T ss_pred             eEEEeCCcccCcccCCCCccEEEEecccccCCH
Confidence            99999999994   564 999999999999985

>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=1.3e-35  Score=265.08  Aligned_cols=228  Identities=20%  Similarity=0.187  Sum_probs=203.7

Q ss_pred             HHHHHHHHhHHHHHHHHHHHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCC
Q 042491           15 AQVWQLMFAFADSMALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSE   94 (266)
Q Consensus        15 ~~l~~~~~g~~~~~~L~~a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g   94 (266)
                      ..+++++.|++.+++|++++++|||++|++  +++|++|||+++|++++.      +.|+||+|++.|+|++.+      
T Consensus         8 ~~l~~~~~~~~~~~~l~~~~~l~i~~~l~~--~~~t~~ela~~~~~~~~~------l~r~L~~L~~~g~l~~~~------   73 (335)
T 2r3s_A            8 ALFFNTVNAYQRSAAIKAAVELNVFTAISQ--GIESSQSLAQKCQTSERG------MRMLCDYLVIIGFMTKQA------   73 (335)
T ss_dssp             HHHHHHHTTHHHHHHHHHHHHTTHHHHHTT--SEECHHHHHHHHTCCHHH------HHHHHHHHHHTTSEEEET------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHcChHHHHhc--CCCCHHHHHHHhCCCchH------HHHHHHHHHhcCCeEecC------
Confidence            678999999999999999999999999996  799999999999998766      999999999999998854      


Q ss_pred             CceEeCchhc-hhhhcCCCCChHHHHHHhcChhhhhhhhhhHHHHhcCCchhhhhhCCCcchhcccCchHHHHHHHHHHh
Q 042491           95 ETMYGLTQIS-KWLLRDSEMSLAPMILFQNSQLLQAPCHHLSQCVEEGGHAFKKAHGCEMWDFASQNSQFNNSFNKAMAC  173 (266)
Q Consensus        95 ~~~y~lt~~s-~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~m~~  173 (266)
                       ++|++|+.+ ++|+++++.++.+++.++.++..++.|.+|+++++++.++|+     + |+++.++++..+.|.+.|..
T Consensus        74 -~~y~~t~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~-----~-~~~~~~~~~~~~~~~~~~~~  146 (335)
T 2r3s_A           74 -EGYRLTSDSAMFLDRQSKFYVGDAIEFLLSPMITNGFNDLTAAVLKGGTAIS-----S-EGTLSPEHPVWVQFAKAMSP  146 (335)
T ss_dssp             -TEEEECHHHHHHTCTTSTTCCGGGHHHHTCHHHHGGGTTHHHHHHHTSCCST-----T-TGGGSTTCTHHHHHHHHSGG
T ss_pred             -CEEecCHHHHHHhccCCcHHHHHHHHHhcchhhHHHHHhHHHHHhcCCCCCC-----C-cccccCCHHHHHHHHHHHHH
Confidence             899999999 688888777888888887554678999999999999887664     3 78888899999999999998


Q ss_pred             hhHHHHHHHHhhcccCC--CCCceEEEecCCchHHHHHHHHHCCCCeEEEeecHHHHhhCCC-------CCCeEEEEccC
Q 042491          174 TAKIVMSTLLSHYKDGF--DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPV-------YEGVSHVGGDM  244 (266)
Q Consensus       174 ~~~~~~~~~~~~~~~~~--~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~a~~-------~~ri~~~~gd~  244 (266)
                      ........+++.++  +  .+..+|||||||+|.++..+++++|+.+++++|++.+++.+++       .+||+++.+|+
T Consensus       147 ~~~~~~~~~~~~~~--~~~~~~~~vlDvG~G~G~~~~~l~~~~p~~~~~~~D~~~~~~~a~~~~~~~~~~~~v~~~~~d~  224 (335)
T 2r3s_A          147 MMANPAQLIAQLVN--ENKIEPLKVLDISASHGLFGIAVAQHNPNAEIFGVDWASVLEVAKENARIQGVASRYHTIAGSA  224 (335)
T ss_dssp             GGHHHHHHHHHHHT--C--CCCSEEEEETCTTCHHHHHHHHHCTTCEEEEEECHHHHHHHHHHHHHHTCGGGEEEEESCT
T ss_pred             HHhhhHHHHHHhcc--cccCCCCEEEEECCCcCHHHHHHHHHCCCCeEEEEecHHHHHHHHHHHHhcCCCcceEEEeccc
Confidence            88777788888888  6  7889999999999999999999999999999999988877664       35899999999


Q ss_pred             CC-CCCC-ccEEEeccccccCCC
Q 042491          245 LN-AVPN-ADAVFMKVIVLIQDL  265 (266)
Q Consensus       245 ~~-~~p~-aD~~~l~~vLHd~~~  265 (266)
                      ++ ++|+ +|+|+++++||+|++
T Consensus       225 ~~~~~~~~~D~v~~~~~l~~~~~  247 (335)
T 2r3s_A          225 FEVDYGNDYDLVLLPNFLHHFDV  247 (335)
T ss_dssp             TTSCCCSCEEEEEEESCGGGSCH
T ss_pred             ccCCCCCCCcEEEEcchhccCCH
Confidence            98 6775 999999999999963

>2qm3_A Predicted methyltransferase; putative methyltransferase, structural genomics, pyrococcus PSI-2, protein structure initiative; HET: MSE; 2.05A {Pyrococcus furiosus dsm 3638}

Probab=99.34  E-value=4.7e-12  Score=114.55  Aligned_cols=187  Identities=9%  Similarity=0.031  Sum_probs=119.2

Q ss_pred             ChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhch-hhhcCCCCCh
Q 042491           37 RLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISK-WLLRDSEMSL  115 (266)
Q Consensus        37 glfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~-~l~~~~~~~~  115 (266)
                      ++|..| .  +|.|+.|||+++|++++.      +.++|+.|.+.|+++..+       + |++|+.+. ++....+.+.
T Consensus        47 ~ll~~L-~--~~~t~~eLa~~~g~~~~~------v~~~L~~l~~~gll~~~~-------~-~~lt~~~~~~l~~~~~~~~  109 (373)
T 2qm3_A           47 NVLSAV-L--ASDDIWRIVDLSEEPLPL------VVAILESLNELGYVTFED-------G-VKLTEKGEELVAEYGIGKR  109 (373)
T ss_dssp             HHHHHH-H--HCSCHHHHHHHHTSCHHH------HHHHHHHHHHTTSEECSS-------S-SEECHHHHHHHHHHTCCCC
T ss_pred             HHHHHh-c--CCCCHHHHHHHhCCChHH------HHHHHHHHhhCCcEEECC-------C-EEECHHHHHHHHhcCcccc
Confidence            789999 4  689999999999999876      999999999999998754       5 99999775 5554222111


Q ss_pred             HHHHHH-hcC-h----hhhhhhhhhHHHHhcCCchhhhhhCCCcchhcccCchHHHHHHHHHHhhhHHHHHHHHhhcccC
Q 042491          116 APMILF-QNS-Q----LLQAPCHHLSQCVEEGGHAFKKAHGCEMWDFASQNSQFNNSFNKAMACTAKIVMSTLLSHYKDG  189 (266)
Q Consensus       116 ~~~~~~-~~~-~----~~~~~~~~l~~~l~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~m~~~~~~~~~~~~~~~~~~  189 (266)
                      .+.+.. ..+ .    .....|..+.+.++....+- .     .|+.....+..  .....+         .... ..  
T Consensus       110 ~~~~~~~~~g~g~~~~~~~~~~~~l~~~~~~~~~~~-~-----~~~~~~~~~~~--~~~~~l---------~~~~-~~--  169 (373)
T 2qm3_A          110 YDFTCPHCQGKTVDLQAFADLLEQFREIVKDRPEPL-H-----EFDQAYVTPET--TVARVI---------LMHT-RG--  169 (373)
T ss_dssp             CC------------CGGGHHHHHHHHHHHTTCCCCC-G-----GGTCCCBCHHH--HHHHHH---------HHHH-TT--
T ss_pred             ccccchhhcCCCcchhhhHHHHHHHHHHHhcCCccc-h-----hcCCeecCHHH--HHHHHH---------HHhh-cC--
Confidence            111100 000 0    11123455556665432211 1     11110001111  111110         0011 11  


Q ss_pred             CCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCCCCC-----CccEEEec
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLNAVP-----NADAVFMK  257 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~~~p-----~aD~~~l~  257 (266)
                      .....+||||| |+|.++..+++..|+.+++++|+ |.+++.+++      .+||+++.+|+.+++|     .+|+|++.
T Consensus       170 ~~~~~~VLDlG-G~G~~~~~la~~~~~~~v~~vDi~~~~l~~a~~~~~~~g~~~v~~~~~D~~~~l~~~~~~~fD~Vi~~  248 (373)
T 2qm3_A          170 DLENKDIFVLG-DDDLTSIALMLSGLPKRIAVLDIDERLTKFIEKAANEIGYEDIEIFTFDLRKPLPDYALHKFDTFITD  248 (373)
T ss_dssp             CSTTCEEEEES-CTTCHHHHHHHHTCCSEEEEECSCHHHHHHHHHHHHHHTCCCEEEECCCTTSCCCTTTSSCBSEEEEC
T ss_pred             CCCCCEEEEEC-CCCHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHHHHcCCCCEEEEEChhhhhchhhccCCccEEEEC
Confidence            12457999999 99999999999999899999998 888887764      2389999999988544     39999997


Q ss_pred             cccc
Q 042491          258 VIVL  261 (266)
Q Consensus       258 ~vLH  261 (266)
                      ..+|
T Consensus       249 ~p~~  252 (373)
T 2qm3_A          249 PPET  252 (373)
T ss_dssp             CCSS
T ss_pred             CCCc
Confidence            6554

>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=99.08  E-value=6.7e-10  Score=95.63  Aligned_cols=75  Identities=17%  Similarity=0.239  Sum_probs=64.6

Q ss_pred             CCCCceEEEecCCchHHHHHHHHHC--CCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCC-CCCCccEEEecc
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEFY--PHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLN-AVPNADAVFMKV  258 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~~--P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~-~~p~aD~~~l~~  258 (266)
                      .....+|||||||+|..+..+++++  |+++++++|+ |.+++.+++       ..+|+++.+|+.+ +++.+|++++..
T Consensus        68 ~~~~~~vLDlGcGtG~~~~~la~~~~~~~~~v~gvD~s~~ml~~A~~~~~~~~~~~~v~~~~~D~~~~~~~~~d~v~~~~  147 (261)
T 4gek_A           68 VQPGTQVYDLGCSLGAATLSVRRNIHHDNCKIIAIDNSPAMIERCRRHIDAYKAPTPVDVIEGDIRDIAIENASMVVLNF  147 (261)
T ss_dssp             CCTTCEEEEETCTTTHHHHHHHHTCCSSSCEEEEEESCHHHHHHHHHHHHTSCCSSCEEEEESCTTTCCCCSEEEEEEES
T ss_pred             CCCCCEEEEEeCCCCHHHHHHHHhcCCCCCEEEEEECCHHHHHHHHHHHHhhccCceEEEeecccccccccccccceeee
Confidence            3466899999999999999999986  6789999998 888877653       4689999999988 677899999999


Q ss_pred             ccccCC
Q 042491          259 IVLIQD  264 (266)
Q Consensus       259 vLHd~~  264 (266)
                      +||..+
T Consensus       148 ~l~~~~  153 (261)
T 4gek_A          148 TLQFLE  153 (261)
T ss_dssp             CGGGSC
T ss_pred             eeeecC
Confidence            999764

>3dtn_A Putative methyltransferase MM_2633; structural genomics, unknown function, PSI-2, protein structure initiative; 2.09A {Methanosarcina mazei}

Probab=98.98  E-value=1.9e-09  Score=90.30  Aligned_cols=85  Identities=19%  Similarity=0.139  Sum_probs=68.6

Q ss_pred             HHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC----CCCeEEEEccCCC-CCCC-cc
Q 042491          180 STLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV----YEGVSHVGGDMLN-AVPN-AD  252 (266)
Q Consensus       180 ~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~----~~ri~~~~gd~~~-~~p~-aD  252 (266)
                      ..++..+.. .....+|||||||+|.++..+++.+|+.+++++|+ |.+++.+++    ..+++++.+|+.+ +.++ +|
T Consensus        33 ~~~~~~~~~-~~~~~~vLDiG~G~G~~~~~l~~~~~~~~v~~vD~s~~~~~~a~~~~~~~~~~~~~~~d~~~~~~~~~fD  111 (234)
T 3dtn_A           33 GVSVSIASV-DTENPDILDLGAGTGLLSAFLMEKYPEATFTLVDMSEKMLEIAKNRFRGNLKVKYIEADYSKYDFEEKYD  111 (234)
T ss_dssp             HHHHHTCCC-SCSSCEEEEETCTTSHHHHHHHHHCTTCEEEEEESCHHHHHHHHHHTCSCTTEEEEESCTTTCCCCSCEE
T ss_pred             HHHHHHhhc-CCCCCeEEEecCCCCHHHHHHHHhCCCCeEEEEECCHHHHHHHHHhhccCCCEEEEeCchhccCCCCCce
Confidence            334444431 24568999999999999999999999999999998 777766553    3489999999998 4554 99


Q ss_pred             EEEeccccccCCC
Q 042491          253 AVFMKVIVLIQDL  265 (266)
Q Consensus       253 ~~~l~~vLHd~~~  265 (266)
                      +|++..++|.+++
T Consensus       112 ~v~~~~~l~~~~~  124 (234)
T 3dtn_A          112 MVVSALSIHHLED  124 (234)
T ss_dssp             EEEEESCGGGSCH
T ss_pred             EEEEeCccccCCH
Confidence            9999999998863

>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=98.93  E-value=1.7e-09  Score=89.89  Aligned_cols=71  Identities=15%  Similarity=0.158  Sum_probs=60.0

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-----CCCeEEEEccCCC-CCC--CccEEEecccccc
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-----YEGVSHVGGDMLN-AVP--NADAVFMKVIVLI  262 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-----~~ri~~~~gd~~~-~~p--~aD~~~l~~vLHd  262 (266)
                      ...+|||||||+|.++..+++..|  +++++|+ |.+++.+++     ..+++++.+|+.+ ++|  .+|++++..++|.
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  8999998 777776654     3789999999988 555  3999999999665


Q ss_pred             CC
Q 042491          263 QD  264 (266)
Q Consensus       263 ~~  264 (266)
                      +.
T Consensus       116 ~~  117 (227)
T 1ve3_A          116 FE  117 (227)
T ss_dssp             CC
T ss_pred             CC
Confidence            53

>3ege_A Putative methyltransferase from antibiotic biosyn pathway; YP_324569.1, putative methyltransferase from antibiotic BIOS pathway; 2.40A {Anabaena variabilis atcc 29413}

Probab=98.93  E-value=5.2e-09  Score=89.49  Aligned_cols=81  Identities=17%  Similarity=0.174  Sum_probs=68.3

Q ss_pred             HHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCCCCCeEEEEccCCC-CCC--CccEEEe
Q 042491          181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPVYEGVSHVGGDMLN-AVP--NADAVFM  256 (266)
Q Consensus       181 ~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~~ri~~~~gd~~~-~~p--~aD~~~l  256 (266)
                      .++..++  .....+|||||||+|.++..+++  |+.+++++|+ |.+++.++...+++++.+|+.+ ++|  .+|+|++
T Consensus        25 ~l~~~~~--~~~~~~vLDiGcG~G~~~~~l~~--~~~~v~gvD~s~~~~~~a~~~~~~~~~~~d~~~~~~~~~~fD~v~~  100 (261)
T 3ege_A           25 AIINLLN--LPKGSVIADIGAGTGGYSVALAN--QGLFVYAVEPSIVMRQQAVVHPQVEWFTGYAENLALPDKSVDGVIS  100 (261)
T ss_dssp             HHHHHHC--CCTTCEEEEETCTTSHHHHHHHT--TTCEEEEECSCHHHHHSSCCCTTEEEECCCTTSCCSCTTCBSEEEE
T ss_pred             HHHHHhC--CCCCCEEEEEcCcccHHHHHHHh--CCCEEEEEeCCHHHHHHHHhccCCEEEECchhhCCCCCCCEeEEEE
Confidence            4455555  55678999999999999999998  7889999998 7888877776699999999988 565  3999999


Q ss_pred             ccccccCCC
Q 042491          257 KVIVLIQDL  265 (266)
Q Consensus       257 ~~vLHd~~~  265 (266)
                      .+++|.+.+
T Consensus       101 ~~~l~~~~~  109 (261)
T 3ege_A          101 ILAIHHFSH  109 (261)
T ss_dssp             ESCGGGCSS
T ss_pred             cchHhhccC
Confidence            999998865

>3dlc_A Putative S-adenosyl-L-methionine-dependent methyltransferase; structural genomics, joint center for structural genomics; HET: MSE SAM; 1.15A {Methanococcus maripaludis}

Probab=98.90  E-value=2.7e-09  Score=87.89  Aligned_cols=82  Identities=17%  Similarity=0.286  Sum_probs=66.7

Q ss_pred             HHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCC-CCC-
Q 042491          180 STLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLN-AVP-  249 (266)
Q Consensus       180 ~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~-~~p-  249 (266)
                      ..++..++  ..+. +|||||||+|.++..+++. |+.+++++|. |.+++.+++       .++++++.+|+.+ +++ 
T Consensus        34 ~~~~~~~~--~~~~-~vLdiG~G~G~~~~~l~~~-~~~~v~~~D~s~~~~~~a~~~~~~~~~~~~~~~~~~d~~~~~~~~  109 (219)
T 3dlc_A           34 ENIINRFG--ITAG-TCIDIGSGPGALSIALAKQ-SDFSIRALDFSKHMNEIALKNIADANLNDRIQIVQGDVHNIPIED  109 (219)
T ss_dssp             HHHHHHHC--CCEE-EEEEETCTTSHHHHHHHHH-SEEEEEEEESCHHHHHHHHHHHHHTTCTTTEEEEECBTTBCSSCT
T ss_pred             HHHHHhcC--CCCC-EEEEECCCCCHHHHHHHHc-CCCeEEEEECCHHHHHHHHHHHHhccccCceEEEEcCHHHCCCCc
Confidence            34455554  3343 9999999999999999999 8899999998 777776654       4689999999998 666 


Q ss_pred             -CccEEEeccccccCCC
Q 042491          250 -NADAVFMKVIVLIQDL  265 (266)
Q Consensus       250 -~aD~~~l~~vLHd~~~  265 (266)
                       .+|+|++..++|.+.+
T Consensus       110 ~~~D~v~~~~~l~~~~~  126 (219)
T 3dlc_A          110 NYADLIVSRGSVFFWED  126 (219)
T ss_dssp             TCEEEEEEESCGGGCSC
T ss_pred             ccccEEEECchHhhccC
Confidence             3999999999998864

>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=98.88  E-value=2.7e-09  Score=90.94  Aligned_cols=83  Identities=22%  Similarity=0.274  Sum_probs=67.4

Q ss_pred             HHHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCC-CCC-
Q 042491          179 MSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLN-AVP-  249 (266)
Q Consensus       179 ~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~-~~p-  249 (266)
                      ...++..++  .....+|||||||+|.++..+++..+  +++++|+ |.+++.+++      .++++++.+|+.+ ++| 
T Consensus        26 ~~~l~~~l~--~~~~~~vLDiGcG~G~~~~~l~~~~~--~v~gvD~s~~~l~~a~~~~~~~~~~~v~~~~~d~~~l~~~~  101 (260)
T 1vl5_A           26 LAKLMQIAA--LKGNEEVLDVATGGGHVANAFAPFVK--KVVAFDLTEDILKVARAFIEGNGHQQVEYVQGDAEQMPFTD  101 (260)
T ss_dssp             HHHHHHHHT--CCSCCEEEEETCTTCHHHHHHGGGSS--EEEEEESCHHHHHHHHHHHHHTTCCSEEEEECCC-CCCSCT
T ss_pred             HHHHHHHhC--CCCCCEEEEEeCCCCHHHHHHHHhCC--EEEEEeCCHHHHHHHHHHHHhcCCCceEEEEecHHhCCCCC
Confidence            344555565  55778999999999999999999986  8999998 777776653      3679999999988 666 


Q ss_pred             -CccEEEeccccccCCC
Q 042491          250 -NADAVFMKVIVLIQDL  265 (266)
Q Consensus       250 -~aD~~~l~~vLHd~~~  265 (266)
                       .+|+|++..++|.+++
T Consensus       102 ~~fD~V~~~~~l~~~~d  118 (260)
T 1vl5_A          102 ERFHIVTCRIAAHHFPN  118 (260)
T ss_dssp             TCEEEEEEESCGGGCSC
T ss_pred             CCEEEEEEhhhhHhcCC
Confidence             3999999999999875

>2qe6_A Uncharacterized protein TFU_2867; putative methyltransferase, structural genomics, joint cente structural genomics, JCSG; HET: NEP SAM; 1.95A {Thermobifida fusca}

Probab=98.87  E-value=1.2e-08  Score=88.42  Aligned_cols=74  Identities=16%  Similarity=0.284  Sum_probs=64.5

Q ss_pred             CCceEEEecCCc---hHHHHHHHHHCCCCeEEEeec-HHHHhhCCC----CCCeEEEEccCCCC------------C--C
Q 042491          192 GIRSLVDVGGGT---GEELAEIVEFYPHIKGVNFDL-PHVVATAPV----YEGVSHVGGDMLNA------------V--P  249 (266)
Q Consensus       192 ~~~~vvDvGgG~---G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~----~~ri~~~~gd~~~~------------~--p  249 (266)
                      +..+|||||||+   |.+...+.+.+|+.+++.+|+ |.+++.+++    .++++++.+|+.++            +  .
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            568999999999   999888889999999999999 888887764    47899999999862            2  2


Q ss_pred             CccEEEeccccccCCC
Q 042491          250 NADAVFMKVIVLIQDL  265 (266)
Q Consensus       250 ~aD~~~l~~vLHd~~~  265 (266)
                      .+|++++..+||.+++
T Consensus       157 ~~d~v~~~~vlh~~~d  172 (274)
T 2qe6_A          157 RPAAIMLVGMLHYLSP  172 (274)
T ss_dssp             SCCEEEETTTGGGSCT
T ss_pred             CCEEEEEechhhhCCc
Confidence            5899999999999876

>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=98.86  E-value=9e-09  Score=87.24  Aligned_cols=82  Identities=22%  Similarity=0.215  Sum_probs=66.8

Q ss_pred             HHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCC-CCCC-
Q 042491          181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLN-AVPN-  250 (266)
Q Consensus       181 ~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~-~~p~-  250 (266)
                      .++..++  .....+|||||||+|.++..+++.+ +.+++++|+ |.+++.+++       .++|+++.+|+.+ +.++ 
T Consensus        27 ~l~~~~~--~~~~~~VLDiGcG~G~~~~~la~~~-~~~v~gvD~s~~~l~~a~~~~~~~~~~~~v~~~~~d~~~~~~~~~  103 (256)
T 1nkv_A           27 TLGRVLR--MKPGTRILDLGSGSGEMLCTWARDH-GITGTGIDMSSLFTAQAKRRAEELGVSERVHFIHNDAAGYVANEK  103 (256)
T ss_dssp             HHHHHTC--CCTTCEEEEETCTTCHHHHHHHHHT-CCEEEEEESCHHHHHHHHHHHHHTTCTTTEEEEESCCTTCCCSSC
T ss_pred             HHHHhcC--CCCCCEEEEECCCCCHHHHHHHHhc-CCeEEEEeCCHHHHHHHHHHHHhcCCCcceEEEECChHhCCcCCC
Confidence            4455555  5667899999999999999999998 678999998 777776653       3689999999988 3433 


Q ss_pred             ccEEEeccccccCCC
Q 042491          251 ADAVFMKVIVLIQDL  265 (266)
Q Consensus       251 aD~~~l~~vLHd~~~  265 (266)
                      +|+|++..++|.+++
T Consensus       104 fD~V~~~~~~~~~~~  118 (256)
T 1nkv_A          104 CDVAACVGATWIAGG  118 (256)
T ss_dssp             EEEEEEESCGGGTSS
T ss_pred             CCEEEECCChHhcCC
Confidence            999999999998865

>2o57_A Putative sarcosine dimethylglycine methyltransferase; structural genomics, protein structure initiative, PSI-2; 1.95A {Galdieria sulphuraria} SCOP: c.66.1.18

Probab=98.84  E-value=1.2e-08  Score=88.69  Aligned_cols=83  Identities=14%  Similarity=0.143  Sum_probs=67.4

Q ss_pred             HHHHhhc----ccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCC-
Q 042491          180 STLLSHY----KDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLN-  246 (266)
Q Consensus       180 ~~~~~~~----~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~-  246 (266)
                      ..++..+    +  +....+|||||||+|.++..+++.+ +.+++++|+ +.+++.+++       .++|+++.+|+.+ 
T Consensus        68 ~~l~~~l~~~~~--~~~~~~vLDiGcG~G~~~~~l~~~~-~~~v~gvD~s~~~~~~a~~~~~~~~~~~~~~~~~~d~~~~  144 (297)
T 2o57_A           68 EWLASELAMTGV--LQRQAKGLDLGAGYGGAARFLVRKF-GVSIDCLNIAPVQNKRNEEYNNQAGLADNITVKYGSFLEI  144 (297)
T ss_dssp             HHHHHHHHHTTC--CCTTCEEEEETCTTSHHHHHHHHHH-CCEEEEEESCHHHHHHHHHHHHHHTCTTTEEEEECCTTSC
T ss_pred             HHHHHHhhhccC--CCCCCEEEEeCCCCCHHHHHHHHHh-CCEEEEEeCCHHHHHHHHHHHHhcCCCcceEEEEcCcccC
Confidence            3455555    3  5677899999999999999999987 459999998 667666543       3789999999998 


Q ss_pred             CCC--CccEEEeccccccCCC
Q 042491          247 AVP--NADAVFMKVIVLIQDL  265 (266)
Q Consensus       247 ~~p--~aD~~~l~~vLHd~~~  265 (266)
                      ++|  .+|+|++..++|++++
T Consensus       145 ~~~~~~fD~v~~~~~l~~~~~  165 (297)
T 2o57_A          145 PCEDNSYDFIWSQDAFLHSPD  165 (297)
T ss_dssp             SSCTTCEEEEEEESCGGGCSC
T ss_pred             CCCCCCEeEEEecchhhhcCC
Confidence            665  3999999999999875

>3bus_A REBM, methyltransferase; rebeccamycin synthesis; HET: SAH; 2.65A {Lechevalieria aerocolonigenes}

Probab=98.83  E-value=1.6e-08  Score=86.62  Aligned_cols=84  Identities=14%  Similarity=0.168  Sum_probs=68.6

Q ss_pred             HHHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCC-CCC
Q 042491          179 MSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLN-AVP  249 (266)
Q Consensus       179 ~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~-~~p  249 (266)
                      ...+++.++  .....+|||||||+|.++..+++.+ ..+++++|+ +..++.+++       .+|++++.+|+.+ ++|
T Consensus        50 ~~~l~~~~~--~~~~~~vLDiGcG~G~~~~~l~~~~-~~~v~gvD~s~~~~~~a~~~~~~~~~~~~~~~~~~d~~~~~~~  126 (273)
T 3bus_A           50 TDEMIALLD--VRSGDRVLDVGCGIGKPAVRLATAR-DVRVTGISISRPQVNQANARATAAGLANRVTFSYADAMDLPFE  126 (273)
T ss_dssp             HHHHHHHSC--CCTTCEEEEESCTTSHHHHHHHHHS-CCEEEEEESCHHHHHHHHHHHHHTTCTTTEEEEECCTTSCCSC
T ss_pred             HHHHHHhcC--CCCCCEEEEeCCCCCHHHHHHHHhc-CCEEEEEeCCHHHHHHHHHHHHhcCCCcceEEEECccccCCCC
Confidence            345566666  6677899999999999999999987 679999998 666665543       4689999999988 665


Q ss_pred             --CccEEEeccccccCCC
Q 042491          250 --NADAVFMKVIVLIQDL  265 (266)
Q Consensus       250 --~aD~~~l~~vLHd~~~  265 (266)
                        .+|+|++..++|..++
T Consensus       127 ~~~fD~v~~~~~l~~~~~  144 (273)
T 3bus_A          127 DASFDAVWALESLHHMPD  144 (273)
T ss_dssp             TTCEEEEEEESCTTTSSC
T ss_pred             CCCccEEEEechhhhCCC
Confidence              3999999999998764

>4hg2_A Methyltransferase type 11; structural genomics, PSI-biology, midwest center for structu genomics, MCSG; HET: MES; 1.60A {Anaeromyxobacter dehalogenans}

Probab=98.82  E-value=9.1e-09  Score=88.33  Aligned_cols=71  Identities=17%  Similarity=0.195  Sum_probs=62.5

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCCCCCeEEEEccCCC-CCCC--ccEEEeccccccCC
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPVYEGVSHVGGDMLN-AVPN--ADAVFMKVIVLIQD  264 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~~ri~~~~gd~~~-~~p~--aD~~~l~~vLHd~~  264 (266)
                      ...+|||||||+|.++..|++.+.  +++++|. +.+++.+++.++|+++.+|+.+ ++|.  +|+|++..++|..+
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            457999999999999999998874  6889998 8889998888899999999988 6773  99999999998654

>3dh0_A SAM dependent methyltransferase; cystal structure, PSI-2, NYSGXRC, structural genomics, protein structure initiative; HET: SAM; 2.72A {Aquifex aeolicus}

Probab=98.82  E-value=6.3e-09  Score=86.12  Aligned_cols=83  Identities=19%  Similarity=0.239  Sum_probs=69.1

Q ss_pred             HHHhhcccCCCCCceEEEecCCchHHHHHHHHHC-CCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCC-CCCC-
Q 042491          181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFY-PHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLN-AVPN-  250 (266)
Q Consensus       181 ~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~-P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~-~~p~-  250 (266)
                      .++..++  .....+|||||||+|.++..+++.. |+.+++++|. +.+++.+++      .++++++.+|+.+ +++. 
T Consensus        28 ~~~~~~~--~~~~~~vLDiG~G~G~~~~~l~~~~~~~~~v~~vD~s~~~~~~a~~~~~~~~~~~~~~~~~d~~~~~~~~~  105 (219)
T 3dh0_A           28 KVLKEFG--LKEGMTVLDVGTGAGFYLPYLSKMVGEKGKVYAIDVQEEMVNYAWEKVNKLGLKNVEVLKSEENKIPLPDN  105 (219)
T ss_dssp             HHHHHHT--CCTTCEEEESSCTTCTTHHHHHHHHTTTCEEEEEESCHHHHHHHHHHHHHHTCTTEEEEECBTTBCSSCSS
T ss_pred             HHHHHhC--CCCCCEEEEEecCCCHHHHHHHHHhCCCcEEEEEECCHHHHHHHHHHHHHcCCCcEEEEecccccCCCCCC
Confidence            4455555  5677899999999999999999997 8899999998 777776654      3589999999988 5553 


Q ss_pred             -ccEEEeccccccCCC
Q 042491          251 -ADAVFMKVIVLIQDL  265 (266)
Q Consensus       251 -aD~~~l~~vLHd~~~  265 (266)
                       +|+|++..++|.+.+
T Consensus       106 ~fD~v~~~~~l~~~~~  121 (219)
T 3dh0_A          106 TVDFIFMAFTFHELSE  121 (219)
T ss_dssp             CEEEEEEESCGGGCSS
T ss_pred             CeeEEEeehhhhhcCC
Confidence             999999999998864

>3ou2_A SAM-dependent methyltransferase; O-methyltransferase, SAH; HET: SAH; 1.50A {Streptomyces luridus} PDB: 3ou6_A* 3ou7_A*

Probab=98.80  E-value=2.1e-08  Score=82.61  Aligned_cols=82  Identities=17%  Similarity=0.170  Sum_probs=65.7

Q ss_pred             HHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC--CCCeEEEEccCCCCCC--CccEEE
Q 042491          181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV--YEGVSHVGGDMLNAVP--NADAVF  255 (266)
Q Consensus       181 ~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~--~~ri~~~~gd~~~~~p--~aD~~~  255 (266)
                      .++..+.. .....+|||||||+|.++..+++.  ..+++++|. +.+++.+++  .++++++.+|+.+..+  .+|+++
T Consensus        36 ~~~~~l~~-~~~~~~vLdiG~G~G~~~~~l~~~--~~~v~~~D~s~~~~~~a~~~~~~~~~~~~~d~~~~~~~~~~D~v~  112 (218)
T 3ou2_A           36 AALERLRA-GNIRGDVLELASGTGYWTRHLSGL--ADRVTALDGSAEMIAEAGRHGLDNVEFRQQDLFDWTPDRQWDAVF  112 (218)
T ss_dssp             HHHHHHTT-TTSCSEEEEESCTTSHHHHHHHHH--SSEEEEEESCHHHHHHHGGGCCTTEEEEECCTTSCCCSSCEEEEE
T ss_pred             HHHHHHhc-CCCCCeEEEECCCCCHHHHHHHhc--CCeEEEEeCCHHHHHHHHhcCCCCeEEEecccccCCCCCceeEEE
Confidence            34444431 345579999999999999999999  568999998 777777665  3789999999988644  399999


Q ss_pred             eccccccCCC
Q 042491          256 MKVIVLIQDL  265 (266)
Q Consensus       256 l~~vLHd~~~  265 (266)
                      +..+||.+++
T Consensus       113 ~~~~l~~~~~  122 (218)
T 3ou2_A          113 FAHWLAHVPD  122 (218)
T ss_dssp             EESCGGGSCH
T ss_pred             EechhhcCCH
Confidence            9999998764

>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=98.80  E-value=1.4e-08  Score=85.68  Aligned_cols=83  Identities=14%  Similarity=0.237  Sum_probs=68.3

Q ss_pred             HHHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCC-CCC-
Q 042491          179 MSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLN-AVP-  249 (266)
Q Consensus       179 ~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~-~~p-  249 (266)
                      ...++...+  .....+|||||||+|.++..+++..+  +++++|+ +.+++.+++      .++++++.+|+.+ +++ 
T Consensus        10 ~~~~~~~~~--~~~~~~vLDiGcG~G~~~~~l~~~~~--~v~~vD~s~~~~~~a~~~~~~~~~~~v~~~~~d~~~~~~~~   85 (239)
T 1xxl_A           10 LGLMIKTAE--CRAEHRVLDIGAGAGHTALAFSPYVQ--ECIGVDATKEMVEVASSFAQEKGVENVRFQQGTAESLPFPD   85 (239)
T ss_dssp             HHHHHHHHT--CCTTCEEEEESCTTSHHHHHHGGGSS--EEEEEESCHHHHHHHHHHHHHHTCCSEEEEECBTTBCCSCT
T ss_pred             cchHHHHhC--cCCCCEEEEEccCcCHHHHHHHHhCC--EEEEEECCHHHHHHHHHHHHHcCCCCeEEEecccccCCCCC
Confidence            445666666  67788999999999999999999986  8899998 777776553      3689999999987 555 


Q ss_pred             -CccEEEeccccccCCC
Q 042491          250 -NADAVFMKVIVLIQDL  265 (266)
Q Consensus       250 -~aD~~~l~~vLHd~~~  265 (266)
                       .+|+|++..++|.|++
T Consensus        86 ~~fD~v~~~~~l~~~~~  102 (239)
T 1xxl_A           86 DSFDIITCRYAAHHFSD  102 (239)
T ss_dssp             TCEEEEEEESCGGGCSC
T ss_pred             CcEEEEEECCchhhccC
Confidence             3999999999999875

>2p35_A Trans-aconitate 2-methyltransferase; SAM dependent methyltrans agrobacterium tumefaciens, structural genomics, PSI-2; HET: SAH; 1.95A {Agrobacterium tumefaciens str}

Probab=98.79  E-value=1.1e-08  Score=86.78  Aligned_cols=83  Identities=14%  Similarity=0.177  Sum_probs=68.9

Q ss_pred             HHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-CCCeEEEEccCCC-CCC-CccEEEe
Q 042491          181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-YEGVSHVGGDMLN-AVP-NADAVFM  256 (266)
Q Consensus       181 ~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-~~ri~~~~gd~~~-~~p-~aD~~~l  256 (266)
                      .++..++  .....+|||||||+|.++..+++.+|..+++++|+ |.+++.+++ .++++++.+|+.+ +.+ .+|+|++
T Consensus        24 ~l~~~~~--~~~~~~vLdiG~G~G~~~~~l~~~~~~~~v~~~D~s~~~~~~a~~~~~~~~~~~~d~~~~~~~~~fD~v~~  101 (259)
T 2p35_A           24 DLLAQVP--LERVLNGYDLGCGPGNSTELLTDRYGVNVITGIDSDDDMLEKAADRLPNTNFGKADLATWKPAQKADLLYA  101 (259)
T ss_dssp             HHHTTCC--CSCCSSEEEETCTTTHHHHHHHHHHCTTSEEEEESCHHHHHHHHHHSTTSEEEECCTTTCCCSSCEEEEEE
T ss_pred             HHHHhcC--CCCCCEEEEecCcCCHHHHHHHHhCCCCEEEEEECCHHHHHHHHHhCCCcEEEECChhhcCccCCcCEEEE
Confidence            4555555  55678999999999999999999999999999998 777776654 5789999999987 422 3999999


Q ss_pred             ccccccCCC
Q 042491          257 KVIVLIQDL  265 (266)
Q Consensus       257 ~~vLHd~~~  265 (266)
                      ..++|..++
T Consensus       102 ~~~l~~~~~  110 (259)
T 2p35_A          102 NAVFQWVPD  110 (259)
T ss_dssp             ESCGGGSTT
T ss_pred             eCchhhCCC
Confidence            999998754

>3g5l_A Putative S-adenosylmethionine dependent methyltransferase; structural genomics, PSI-2, protein structure initiative; 2.35A {Listeria monocytogenes str}

Probab=98.79  E-value=1.7e-08  Score=85.50  Aligned_cols=82  Identities=16%  Similarity=0.099  Sum_probs=66.9

Q ss_pred             HHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC---CCCeEEEEccCCC-CCC--CccE
Q 042491          181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV---YEGVSHVGGDMLN-AVP--NADA  253 (266)
Q Consensus       181 ~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~---~~ri~~~~gd~~~-~~p--~aD~  253 (266)
                      .+...++  .....+|||||||+|.++..+++..+. +++++|+ +.+++.+++   ..+++++.+|+.+ +++  .+|+
T Consensus        35 ~l~~~~~--~~~~~~vLD~GcG~G~~~~~l~~~~~~-~v~~vD~s~~~~~~a~~~~~~~~~~~~~~d~~~~~~~~~~fD~  111 (253)
T 3g5l_A           35 ELKKMLP--DFNQKTVLDLGCGFGWHCIYAAEHGAK-KVLGIDLSERMLTEAKRKTTSPVVCYEQKAIEDIAIEPDAYNV  111 (253)
T ss_dssp             HHHTTCC--CCTTCEEEEETCTTCHHHHHHHHTTCS-EEEEEESCHHHHHHHHHHCCCTTEEEEECCGGGCCCCTTCEEE
T ss_pred             HHHHhhh--ccCCCEEEEECCCCCHHHHHHHHcCCC-EEEEEECCHHHHHHHHHhhccCCeEEEEcchhhCCCCCCCeEE
Confidence            3455454  346689999999999999999999776 8999998 777776654   5789999999987 565  3999


Q ss_pred             EEeccccccCCC
Q 042491          254 VFMKVIVLIQDL  265 (266)
Q Consensus       254 ~~l~~vLHd~~~  265 (266)
                      |++..++|.+.+
T Consensus       112 v~~~~~l~~~~~  123 (253)
T 3g5l_A          112 VLSSLALHYIAS  123 (253)
T ss_dssp             EEEESCGGGCSC
T ss_pred             EEEchhhhhhhh
Confidence            999999998854

>3mgg_A Methyltransferase; NYSGXRC, PSI-II, protein structure initiative, structural genomics, NEW YORK SGX research center for structural genomics; 1.86A {Methanosarcina mazei}

Probab=98.79  E-value=1.3e-08  Score=87.39  Aligned_cols=76  Identities=13%  Similarity=0.275  Sum_probs=65.6

Q ss_pred             CCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCC-CCC--CccEEEeccc
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLN-AVP--NADAVFMKVI  259 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~-~~p--~aD~~~l~~v  259 (266)
                      +....+|||||||+|.++..+++.+|+.+++++|. |.+++.+++      .++++++.+|+.+ +++  .+|+|++..+
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 777776553      3579999999998 555  3999999999


Q ss_pred             cccCCC
Q 042491          260 VLIQDL  265 (266)
Q Consensus       260 LHd~~~  265 (266)
                      ||.+++
T Consensus       115 l~~~~~  120 (276)
T 3mgg_A          115 LEHLQS  120 (276)
T ss_dssp             GGGCSC
T ss_pred             hhhcCC
Confidence            998865

>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=98.79  E-value=4e-08  Score=86.21  Aligned_cols=92  Identities=15%  Similarity=0.117  Sum_probs=71.1

Q ss_pred             HHhhhHHHHHHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEc
Q 042491          171 MACTAKIVMSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGG  242 (266)
Q Consensus       171 m~~~~~~~~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~g  242 (266)
                      +..........+++.++ .+....+|||||||+|.++..+++++ ..+++++|+ +.+++.+++       .++++++.+
T Consensus        97 ~~~~~~~~~~~l~~~l~-~~~~~~~vLDiGcG~G~~~~~la~~~-~~~v~gvD~s~~~~~~a~~~~~~~~~~~~v~~~~~  174 (312)
T 3vc1_A           97 LHRLESAQAEFLMDHLG-QAGPDDTLVDAGCGRGGSMVMAHRRF-GSRVEGVTLSAAQADFGNRRARELRIDDHVRSRVC  174 (312)
T ss_dssp             HHHHHHHHHHHHHTTSC-CCCTTCEEEEESCTTSHHHHHHHHHH-CCEEEEEESCHHHHHHHHHHHHHTTCTTTEEEEEC
T ss_pred             hhhHHHHHHHHHHHHhc-cCCCCCEEEEecCCCCHHHHHHHHHc-CCEEEEEeCCHHHHHHHHHHHHHcCCCCceEEEEC
Confidence            44444444455666554 14566899999999999999999986 578999998 777776653       368999999


Q ss_pred             cCCC-CCC--CccEEEeccccccCC
Q 042491          243 DMLN-AVP--NADAVFMKVIVLIQD  264 (266)
Q Consensus       243 d~~~-~~p--~aD~~~l~~vLHd~~  264 (266)
                      |+.+ +++  .+|+|++..++|.++
T Consensus       175 d~~~~~~~~~~fD~V~~~~~l~~~~  199 (312)
T 3vc1_A          175 NMLDTPFDKGAVTASWNNESTMYVD  199 (312)
T ss_dssp             CTTSCCCCTTCEEEEEEESCGGGSC
T ss_pred             ChhcCCCCCCCEeEEEECCchhhCC
Confidence            9998 565  399999999999873

>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=98.78  E-value=1.2e-08  Score=88.35  Aligned_cols=76  Identities=18%  Similarity=0.179  Sum_probs=64.6

Q ss_pred             CCCCceEEEecCCchHHHHHHHHHCCC-CeEEEeec-HHHHhhCCC-----CCCeEEEEccCCC-CCCC-ccEEEecccc
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEFYPH-IKGVNFDL-PHVVATAPV-----YEGVSHVGGDMLN-AVPN-ADAVFMKVIV  260 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~~P~-l~~~~~Dl-p~v~~~a~~-----~~ri~~~~gd~~~-~~p~-aD~~~l~~vL  260 (266)
                      .....+|||||||+|.++..+++.+|+ .+++++|+ |.+++.+++     ..+++++.+|+.+ +.++ +|+|++..++
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            456789999999999999999999995 89999998 666765543     3489999999998 4555 9999999999


Q ss_pred             ccCCC
Q 042491          261 LIQDL  265 (266)
Q Consensus       261 Hd~~~  265 (266)
                      |.+++
T Consensus       100 ~~~~~  104 (284)
T 3gu3_A          100 LHMTT  104 (284)
T ss_dssp             GGCSS
T ss_pred             hcCCC
Confidence            98865

>3jwg_A HEN1, methyltransferase type 12; 1.90A {Clostridium thermocellum} PDB: 3jwi_A

Probab=98.77  E-value=8.9e-09  Score=85.36  Aligned_cols=74  Identities=16%  Similarity=0.166  Sum_probs=62.5

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------C----CCeEEEEccCCC-CCC--CccEEE
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------Y----EGVSHVGGDMLN-AVP--NADAVF  255 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~----~ri~~~~gd~~~-~~p--~aD~~~  255 (266)
                      ....+|||||||+|.++..+++..|..+++++|+ +.+++.+++       .    .+++++.+|+.. +.+  .+|+|+
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            3567999999999999999999999999999998 777776653       1    289999999966 333  499999


Q ss_pred             eccccccCC
Q 042491          256 MKVIVLIQD  264 (266)
Q Consensus       256 l~~vLHd~~  264 (266)
                      +..++|.++
T Consensus       108 ~~~~l~~~~  116 (219)
T 3jwg_A          108 VIEVIEHLD  116 (219)
T ss_dssp             EESCGGGCC
T ss_pred             EHHHHHhCC
Confidence            999999876

>3jwh_A HEN1; methyltransferase; HET: SAH; 2.20A {Anabaena variabilis} PDB: 3jwj_A

Probab=98.77  E-value=1.5e-08  Score=83.98  Aligned_cols=74  Identities=18%  Similarity=0.205  Sum_probs=62.0

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-----------CCCeEEEEccCCC-CCC--CccEEE
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-----------YEGVSHVGGDMLN-AVP--NADAVF  255 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-----------~~ri~~~~gd~~~-~~p--~aD~~~  255 (266)
                      .+..+|||||||+|.++..+++.+|..+++++|. +.+++.+++           ..+++++.+|+.. +.+  .+|+|+
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            3557999999999999999999999999999998 777766543           1289999999866 333  499999


Q ss_pred             eccccccCC
Q 042491          256 MKVIVLIQD  264 (266)
Q Consensus       256 l~~vLHd~~  264 (266)
                      +..++|.++
T Consensus       108 ~~~~l~~~~  116 (217)
T 3jwh_A          108 VIEVIEHLD  116 (217)
T ss_dssp             EESCGGGCC
T ss_pred             eHHHHHcCC
Confidence            999999875

>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=98.75  E-value=2.9e-08  Score=86.56  Aligned_cols=82  Identities=13%  Similarity=0.068  Sum_probs=67.9

Q ss_pred             HHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCCCCC-
Q 042491          180 STLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNAVPN-  250 (266)
Q Consensus       180 ~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~~p~-  250 (266)
                      ..++..++  .....+|||||||+|.++..+++.+| .+++++|+ |.+++.+++       .++|+++.+|+.+- ++ 
T Consensus        62 ~~~~~~~~--~~~~~~vLDiGcG~G~~~~~la~~~~-~~v~gvD~s~~~~~~a~~~~~~~~~~~~v~~~~~d~~~~-~~~  137 (302)
T 3hem_A           62 KLALDKLN--LEPGMTLLDIGCGWGSTMRHAVAEYD-VNVIGLTLSENQYAHDKAMFDEVDSPRRKEVRIQGWEEF-DEP  137 (302)
T ss_dssp             HHHHHTTC--CCTTCEEEEETCTTSHHHHHHHHHHC-CEEEEEECCHHHHHHHHHHHHHSCCSSCEEEEECCGGGC-CCC
T ss_pred             HHHHHHcC--CCCcCEEEEeeccCcHHHHHHHHhCC-CEEEEEECCHHHHHHHHHHHHhcCCCCceEEEECCHHHc-CCC
Confidence            44566665  66778999999999999999999988 89999998 777776653       35899999999764 54 


Q ss_pred             ccEEEeccccccCCC
Q 042491          251 ADAVFMKVIVLIQDL  265 (266)
Q Consensus       251 aD~~~l~~vLHd~~~  265 (266)
                      +|+|++..++|.+++
T Consensus       138 fD~v~~~~~~~~~~d  152 (302)
T 3hem_A          138 VDRIVSLGAFEHFAD  152 (302)
T ss_dssp             CSEEEEESCGGGTTC
T ss_pred             ccEEEEcchHHhcCc
Confidence            999999999998843

>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=98.74  E-value=2.3e-08  Score=84.95  Aligned_cols=81  Identities=22%  Similarity=0.367  Sum_probs=67.3

Q ss_pred             HHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC----CCCeEEEEccCCC-CCC--Cc
Q 042491          180 STLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV----YEGVSHVGGDMLN-AVP--NA  251 (266)
Q Consensus       180 ~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~----~~ri~~~~gd~~~-~~p--~a  251 (266)
                      ..++..++  .....+|||||||+|.++..+++.+ +.+++++|+ +.+++.+++    .++++++.+|+.+ ++|  .+
T Consensus        45 ~~~~~~~~--~~~~~~vLdiG~G~G~~~~~l~~~~-~~~v~~vD~s~~~~~~a~~~~~~~~~~~~~~~d~~~~~~~~~~f  121 (266)
T 3ujc_A           45 KKILSDIE--LNENSKVLDIGSGLGGGCMYINEKY-GAHTHGIDICSNIVNMANERVSGNNKIIFEANDILTKEFPENNF  121 (266)
T ss_dssp             HHHTTTCC--CCTTCEEEEETCTTSHHHHHHHHHH-CCEEEEEESCHHHHHHHHHTCCSCTTEEEEECCTTTCCCCTTCE
T ss_pred             HHHHHhcC--CCCCCEEEEECCCCCHHHHHHHHHc-CCEEEEEeCCHHHHHHHHHHhhcCCCeEEEECccccCCCCCCcE
Confidence            44555555  5677899999999999999999998 779999998 777766553    3789999999998 565  39


Q ss_pred             cEEEeccccccC
Q 042491          252 DAVFMKVIVLIQ  263 (266)
Q Consensus       252 D~~~l~~vLHd~  263 (266)
                      |+|++..++|.+
T Consensus       122 D~v~~~~~l~~~  133 (266)
T 3ujc_A          122 DLIYSRDAILAL  133 (266)
T ss_dssp             EEEEEESCGGGS
T ss_pred             EEEeHHHHHHhc
Confidence            999999999987

>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=98.74  E-value=3.4e-08  Score=83.65  Aligned_cols=80  Identities=18%  Similarity=0.270  Sum_probs=64.8

Q ss_pred             HHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCC-CCC--C
Q 042491          182 LLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLN-AVP--N  250 (266)
Q Consensus       182 ~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~-~~p--~  250 (266)
                      ++..+. ......+|||||||+|.++..+++.+|. +++++|+ |.+++.+++       .+|++++.+|+.+ +++  .
T Consensus        37 ~l~~l~-~~~~~~~vLDiG~G~G~~~~~l~~~~~~-~v~~vD~s~~~~~~a~~~~~~~~~~~~~~~~~~d~~~~~~~~~~  114 (257)
T 3f4k_A           37 AVSFIN-ELTDDAKIADIGCGTGGQTLFLADYVKG-QITGIDLFPDFIEIFNENAVKANCADRVKGITGSMDNLPFQNEE  114 (257)
T ss_dssp             HHTTSC-CCCTTCEEEEETCTTSHHHHHHHHHCCS-EEEEEESCHHHHHHHHHHHHHTTCTTTEEEEECCTTSCSSCTTC
T ss_pred             HHHHHh-cCCCCCeEEEeCCCCCHHHHHHHHhCCC-eEEEEECCHHHHHHHHHHHHHcCCCCceEEEECChhhCCCCCCC
Confidence            444443 1456679999999999999999999997 9999998 777766543       4679999999977 555  3


Q ss_pred             ccEEEeccccccC
Q 042491          251 ADAVFMKVIVLIQ  263 (266)
Q Consensus       251 aD~~~l~~vLHd~  263 (266)
                      +|+|++..++|..
T Consensus       115 fD~v~~~~~l~~~  127 (257)
T 3f4k_A          115 LDLIWSEGAIYNI  127 (257)
T ss_dssp             EEEEEEESCSCCC
T ss_pred             EEEEEecChHhhc
Confidence            9999999999986

>3hnr_A Probable methyltransferase BT9727_4108; structural genomics, PSI-2, protein structure initiative; 2.80A {Bacillus thuringiensis serovarkonkukian}

Probab=98.72  E-value=1.8e-08  Score=83.45  Aligned_cols=73  Identities=16%  Similarity=0.171  Sum_probs=61.5

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC--CCCeEEEEccCCC-CCC-CccEEEeccccccCCC
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV--YEGVSHVGGDMLN-AVP-NADAVFMKVIVLIQDL  265 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~--~~ri~~~~gd~~~-~~p-~aD~~~l~~vLHd~~~  265 (266)
                      ....+|||||||+|.++..+++.  +.+++++|. +.+++.+++  ..+++++.+|+.+ +.+ .+|++++..+||.+++
T Consensus        44 ~~~~~vLDiGcG~G~~~~~l~~~--~~~v~~vD~s~~~~~~a~~~~~~~~~~~~~d~~~~~~~~~fD~v~~~~~l~~~~~  121 (220)
T 3hnr_A           44 KSFGNVLEFGVGTGNLTNKLLLA--GRTVYGIEPSREMRMIAKEKLPKEFSITEGDFLSFEVPTSIDTIVSTYAFHHLTD  121 (220)
T ss_dssp             TCCSEEEEECCTTSHHHHHHHHT--TCEEEEECSCHHHHHHHHHHSCTTCCEESCCSSSCCCCSCCSEEEEESCGGGSCH
T ss_pred             cCCCeEEEeCCCCCHHHHHHHhC--CCeEEEEeCCHHHHHHHHHhCCCceEEEeCChhhcCCCCCeEEEEECcchhcCCh
Confidence            35679999999999999999998  568999998 777776654  2589999999998 555 4999999999998764

>3ccf_A Cyclopropane-fatty-acyl-phospholipid synthase; YP_321342.1, putative methyltransferase; 1.90A {Anabaena variabilis atcc 29413}

Probab=98.71  E-value=3e-08  Score=85.38  Aligned_cols=81  Identities=22%  Similarity=0.237  Sum_probs=66.4

Q ss_pred             HHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-CCCeEEEEccCCC-CCCC-ccEEEe
Q 042491          181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-YEGVSHVGGDMLN-AVPN-ADAVFM  256 (266)
Q Consensus       181 ~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-~~ri~~~~gd~~~-~~p~-aD~~~l  256 (266)
                      .+++.++  .....+|||||||+|.++..+++  |..+++++|+ |.+++.+++ .++++++.+|+.+ ++++ +|+|++
T Consensus        48 ~l~~~l~--~~~~~~vLDiGcG~G~~~~~l~~--~~~~v~gvD~s~~~~~~a~~~~~~~~~~~~d~~~~~~~~~fD~v~~  123 (279)
T 3ccf_A           48 DLLQLLN--PQPGEFILDLGCGTGQLTEKIAQ--SGAEVLGTDNAATMIEKARQNYPHLHFDVADARNFRVDKPLDAVFS  123 (279)
T ss_dssp             HHHHHHC--CCTTCEEEEETCTTSHHHHHHHH--TTCEEEEEESCHHHHHHHHHHCTTSCEEECCTTTCCCSSCEEEEEE
T ss_pred             HHHHHhC--CCCCCEEEEecCCCCHHHHHHHh--CCCeEEEEECCHHHHHHHHhhCCCCEEEECChhhCCcCCCcCEEEE
Confidence            3445555  45668999999999999999998  8889999998 777776654 4789999999988 4554 999999


Q ss_pred             ccccccCCC
Q 042491          257 KVIVLIQDL  265 (266)
Q Consensus       257 ~~vLHd~~~  265 (266)
                      ..++|...+
T Consensus       124 ~~~l~~~~d  132 (279)
T 3ccf_A          124 NAMLHWVKE  132 (279)
T ss_dssp             ESCGGGCSC
T ss_pred             cchhhhCcC
Confidence            999998764

>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=98.70  E-value=4.2e-08  Score=83.89  Aligned_cols=73  Identities=14%  Similarity=0.176  Sum_probs=62.7

Q ss_pred             CCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCC-CCC--CccEEEecc
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLN-AVP--NADAVFMKV  258 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~-~~p--~aD~~~l~~  258 (266)
                      .....+|||||||+|.++..+++. |..+++++|+ |.+++.+++       .++|+++.+|+.+ +++  .+|+|++..
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            456789999999999999999999 8899999998 777766553       3789999999987 555  399999999


Q ss_pred             ccccC
Q 042491          259 IVLIQ  263 (266)
Q Consensus       259 vLHd~  263 (266)
                      ++|.+
T Consensus       123 ~~~~~  127 (267)
T 3kkz_A          123 AIYNI  127 (267)
T ss_dssp             CGGGT
T ss_pred             Cceec
Confidence            99986

>1xtp_A LMAJ004091AAA; SGPP, structural genomics, PSI, protein structure initiative dependent methyltransferase; HET: SAI; 1.94A {Leishmania major} SCOP: c.66.1.42

Probab=98.70  E-value=1.3e-08  Score=86.03  Aligned_cols=82  Identities=12%  Similarity=0.169  Sum_probs=66.1

Q ss_pred             HHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC----CCCeEEEEccCCC-CCC--Cc
Q 042491          180 STLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV----YEGVSHVGGDMLN-AVP--NA  251 (266)
Q Consensus       180 ~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~----~~ri~~~~gd~~~-~~p--~a  251 (266)
                      ..++..++  .....+|||||||+|.++..+++.. ..+++++|. +.+++.+++    ..+++++.+|+.+ ++|  .+
T Consensus        83 ~~~l~~l~--~~~~~~vLDiG~G~G~~~~~l~~~~-~~~v~~vD~s~~~~~~a~~~~~~~~~~~~~~~d~~~~~~~~~~f  159 (254)
T 1xtp_A           83 RNFIASLP--GHGTSRALDCGAGIGRITKNLLTKL-YATTDLLEPVKHMLEEAKRELAGMPVGKFILASMETATLPPNTY  159 (254)
T ss_dssp             HHHHHTST--TCCCSEEEEETCTTTHHHHHTHHHH-CSEEEEEESCHHHHHHHHHHTTTSSEEEEEESCGGGCCCCSSCE
T ss_pred             HHHHHhhc--ccCCCEEEEECCCcCHHHHHHHHhh-cCEEEEEeCCHHHHHHHHHHhccCCceEEEEccHHHCCCCCCCe
Confidence            34555555  4567899999999999999999887 557999997 777776654    3689999999987 555  39


Q ss_pred             cEEEeccccccCC
Q 042491          252 DAVFMKVIVLIQD  264 (266)
Q Consensus       252 D~~~l~~vLHd~~  264 (266)
                      |+|++..+||.++
T Consensus       160 D~v~~~~~l~~~~  172 (254)
T 1xtp_A          160 DLIVIQWTAIYLT  172 (254)
T ss_dssp             EEEEEESCGGGSC
T ss_pred             EEEEEcchhhhCC
Confidence            9999999999874

>3bkw_A MLL3908 protein, S-adenosylmethionine dependent methyltransferase; NP_104914.1; HET: MSE; 1.60A {Mesorhizobium loti}

Probab=98.69  E-value=3.5e-08  Score=82.74  Aligned_cols=82  Identities=20%  Similarity=0.157  Sum_probs=64.3

Q ss_pred             HHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC---CCCeEEEEccCCC-CCC--CccE
Q 042491          181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV---YEGVSHVGGDMLN-AVP--NADA  253 (266)
Q Consensus       181 ~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~---~~ri~~~~gd~~~-~~p--~aD~  253 (266)
                      .+...++  .....+|||||||+|.++..+++..+ .+++++|. +.+++.+++   ..+++++.+|+.+ +++  .+|+
T Consensus        34 ~l~~~~~--~~~~~~vLdiG~G~G~~~~~l~~~~~-~~v~~vD~s~~~~~~a~~~~~~~~~~~~~~d~~~~~~~~~~fD~  110 (243)
T 3bkw_A           34 ALRAMLP--EVGGLRIVDLGCGFGWFCRWAHEHGA-SYVLGLDLSEKMLARARAAGPDTGITYERADLDKLHLPQDSFDL  110 (243)
T ss_dssp             HHHHHSC--CCTTCEEEEETCTTCHHHHHHHHTTC-SEEEEEESCHHHHHHHHHTSCSSSEEEEECCGGGCCCCTTCEEE
T ss_pred             HHHHhcc--ccCCCEEEEEcCcCCHHHHHHHHCCC-CeEEEEcCCHHHHHHHHHhcccCCceEEEcChhhccCCCCCceE
Confidence            3444454  34568999999999999999998843 38999998 777776553   3579999999988 555  3999


Q ss_pred             EEeccccccCCC
Q 042491          254 VFMKVIVLIQDL  265 (266)
Q Consensus       254 ~~l~~vLHd~~~  265 (266)
                      |++..++|.+++
T Consensus       111 v~~~~~l~~~~~  122 (243)
T 3bkw_A          111 AYSSLALHYVED  122 (243)
T ss_dssp             EEEESCGGGCSC
T ss_pred             EEEeccccccch
Confidence            999999998764

>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=98.69  E-value=4.6e-08  Score=83.40  Aligned_cols=72  Identities=22%  Similarity=0.218  Sum_probs=60.9

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-CCCeEEEEccCCC-CCCC-ccEEEecc-ccccCC
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-YEGVSHVGGDMLN-AVPN-ADAVFMKV-IVLIQD  264 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-~~ri~~~~gd~~~-~~p~-aD~~~l~~-vLHd~~  264 (266)
                      .+..+|||||||+|.++..+++..+  +++++|+ |.+++.+++ ..+++++.+|+.+ +.++ +|+|++.. +||...
T Consensus        49 ~~~~~vLDiGcG~G~~~~~l~~~~~--~v~gvD~s~~~~~~a~~~~~~~~~~~~d~~~~~~~~~fD~v~~~~~~l~~~~  125 (263)
T 3pfg_A           49 PKAASLLDVACGTGMHLRHLADSFG--TVEGLELSADMLAIARRRNPDAVLHHGDMRDFSLGRRFSAVTCMFSSIGHLA  125 (263)
T ss_dssp             TTCCEEEEETCTTSHHHHHHTTTSS--EEEEEESCHHHHHHHHHHCTTSEEEECCTTTCCCSCCEEEEEECTTGGGGSC
T ss_pred             CCCCcEEEeCCcCCHHHHHHHHcCC--eEEEEECCHHHHHHHHhhCCCCEEEECChHHCCccCCcCEEEEcCchhhhcC
Confidence            4568999999999999999999865  7899998 888877765 5689999999998 4554 99999997 998763

>3g07_A 7SK snRNA methylphosphate capping enzyme; structural genomics consortium (SGC), methyltransferase, phosphoprotein, S-adenosyl-L-methionine; HET: SAM; 2.65A {Homo sapiens}

Probab=98.68  E-value=2.1e-08  Score=87.40  Aligned_cols=43  Identities=19%  Similarity=0.264  Sum_probs=37.2

Q ss_pred             CCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCC
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAP  232 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~  232 (266)
                      +....+|||||||+|.++..+++.+|..+++++|+ +.+++.++
T Consensus        44 ~~~~~~VLDiGCG~G~~~~~la~~~~~~~v~gvDis~~~i~~A~   87 (292)
T 3g07_A           44 WFRGRDVLDLGCNVGHLTLSIACKWGPSRMVGLDIDSRLIHSAR   87 (292)
T ss_dssp             GTTTSEEEEESCTTCHHHHHHHHHTCCSEEEEEESCHHHHHHHH
T ss_pred             hcCCCcEEEeCCCCCHHHHHHHHHcCCCEEEEECCCHHHHHHHH
Confidence            34568999999999999999999999999999998 66666544

>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=98.66  E-value=5.9e-08  Score=84.49  Aligned_cols=73  Identities=23%  Similarity=0.234  Sum_probs=62.6

Q ss_pred             CCCceEEEecCCchHHHHHHHHHC-CCCeEEEeec-HHHHhhCCC--------CCCeEEEEccCCC-CCC--------Cc
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFY-PHIKGVNFDL-PHVVATAPV--------YEGVSHVGGDMLN-AVP--------NA  251 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~-P~l~~~~~Dl-p~v~~~a~~--------~~ri~~~~gd~~~-~~p--------~a  251 (266)
                      ....+|||||||+|.++..+++.+ |..+++++|+ |.+++.+++        .++++++.+|+.+ +++        .+
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            467899999999999999999997 8999999998 777776643        4689999999988 432        39


Q ss_pred             cEEEeccccccC
Q 042491          252 DAVFMKVIVLIQ  263 (266)
Q Consensus       252 D~~~l~~vLHd~  263 (266)
                      |+|++..++|..
T Consensus       115 D~V~~~~~l~~~  126 (299)
T 3g5t_A          115 DMITAVECAHWF  126 (299)
T ss_dssp             EEEEEESCGGGS
T ss_pred             eEEeHhhHHHHh
Confidence            999999999986

>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=98.66  E-value=1.1e-08  Score=89.54  Aligned_cols=76  Identities=14%  Similarity=0.082  Sum_probs=64.2

Q ss_pred             CCCCceEEEecCCchHHHHHHH-HHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCC-CCCC-ccEEEecc
Q 042491          190 FDGIRSLVDVGGGTGEELAEIV-EFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLN-AVPN-ADAVFMKV  258 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~-~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~-~~p~-aD~~~l~~  258 (266)
                      .....+|||||||+|.++..++ +.+|+.+++++|+ |.+++.+++       .+||+++.+|+.+ ++++ +|+|++..
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            4567899999999999999996 7889999999998 777776653       3569999999998 4554 99999999


Q ss_pred             ccccCCC
Q 042491          259 IVLIQDL  265 (266)
Q Consensus       259 vLHd~~~  265 (266)
                      ++|.+.+
T Consensus       196 ~~~~~~~  202 (305)
T 3ocj_A          196 LNIYEPD  202 (305)
T ss_dssp             SGGGCCC
T ss_pred             hhhhcCC
Confidence            9998754

>3e05_A Precorrin-6Y C5,15-methyltransferase (decarboxyla; porphyrin metabolism, S-adenosyl-methionine; 1.80A {Geobacter metallireducens} SCOP: c.66.1.0

Probab=98.65  E-value=1.2e-07  Score=77.83  Aligned_cols=80  Identities=18%  Similarity=0.218  Sum_probs=65.6

Q ss_pred             HHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCCCC---CC
Q 042491          181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLNAV---PN  250 (266)
Q Consensus       181 ~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~~~---p~  250 (266)
                      .++..++  .....+|||||||+|.++..+++.+|..+++++|. |++++.+++      .++++++.+|+.+.+   +.
T Consensus        31 ~~l~~l~--~~~~~~vLDiG~G~G~~~~~la~~~~~~~v~~vD~s~~~~~~a~~~~~~~~~~~v~~~~~d~~~~~~~~~~  108 (204)
T 3e05_A           31 VTLSKLR--LQDDLVMWDIGAGSASVSIEASNLMPNGRIFALERNPQYLGFIRDNLKKFVARNVTLVEAFAPEGLDDLPD  108 (204)
T ss_dssp             HHHHHTT--CCTTCEEEEETCTTCHHHHHHHHHCTTSEEEEEECCHHHHHHHHHHHHHHTCTTEEEEECCTTTTCTTSCC
T ss_pred             HHHHHcC--CCCCCEEEEECCCCCHHHHHHHHHCCCCEEEEEeCCHHHHHHHHHHHHHhCCCcEEEEeCChhhhhhcCCC
Confidence            3455555  56678999999999999999999999999999998 777776654      378999999998743   35


Q ss_pred             ccEEEecccccc
Q 042491          251 ADAVFMKVIVLI  262 (266)
Q Consensus       251 aD~~~l~~vLHd  262 (266)
                      +|++++...+++
T Consensus       109 ~D~i~~~~~~~~  120 (204)
T 3e05_A          109 PDRVFIGGSGGM  120 (204)
T ss_dssp             CSEEEESCCTTC
T ss_pred             CCEEEECCCCcC
Confidence            999999887663

>3l8d_A Methyltransferase; structural genomics, PSI, nysgrc, protein structure initiative, NEW YORK SGX research center for STRU genomics; 1.70A {Bacillus thuringiensis}

Probab=98.65  E-value=5.1e-08  Score=81.72  Aligned_cols=73  Identities=16%  Similarity=0.211  Sum_probs=62.0

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC---CCCeEEEEccCCC-CCC--CccEEEeccccccC
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV---YEGVSHVGGDMLN-AVP--NADAVFMKVIVLIQ  263 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~---~~ri~~~~gd~~~-~~p--~aD~~~l~~vLHd~  263 (266)
                      ....+|||||||+|.++..+++.  +.+++++|. |.+++.+++   ..+++++.+|+.+ ++|  .+|++++.+++|.+
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            35679999999999999999998  568999998 777776654   5789999999998 565  39999999999987


Q ss_pred             CC
Q 042491          264 DL  265 (266)
Q Consensus       264 ~~  265 (266)
                      ++
T Consensus       130 ~~  131 (242)
T 3l8d_A          130 EE  131 (242)
T ss_dssp             SC
T ss_pred             cC
Confidence            64

>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=98.64  E-value=9.3e-08  Score=82.53  Aligned_cols=81  Identities=16%  Similarity=0.101  Sum_probs=65.4

Q ss_pred             HHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCCCC-C
Q 042491          180 STLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNAVP-N  250 (266)
Q Consensus       180 ~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~~p-~  250 (266)
                      ..+++.++  .....+|||||||+|.++..++++++. +++++|+ |..++.+++       .++++++.+|+.+ +| .
T Consensus        54 ~~~~~~~~--~~~~~~vLDiGcG~G~~~~~l~~~~~~-~v~gvd~s~~~~~~a~~~~~~~~~~~~~~~~~~d~~~-~~~~  129 (287)
T 1kpg_A           54 DLALGKLG--LQPGMTLLDVGCGWGATMMRAVEKYDV-NVVGLTLSKNQANHVQQLVANSENLRSKRVLLAGWEQ-FDEP  129 (287)
T ss_dssp             HHHHTTTT--CCTTCEEEEETCTTSHHHHHHHHHHCC-EEEEEESCHHHHHHHHHHHHTCCCCSCEEEEESCGGG-CCCC
T ss_pred             HHHHHHcC--CCCcCEEEEECCcccHHHHHHHHHcCC-EEEEEECCHHHHHHHHHHHHhcCCCCCeEEEECChhh-CCCC
Confidence            44566665  566789999999999999999988765 9999998 676665543       3689999999965 44 4


Q ss_pred             ccEEEeccccccCC
Q 042491          251 ADAVFMKVIVLIQD  264 (266)
Q Consensus       251 aD~~~l~~vLHd~~  264 (266)
                      +|+|++..+||.++
T Consensus       130 fD~v~~~~~l~~~~  143 (287)
T 1kpg_A          130 VDRIVSIGAFEHFG  143 (287)
T ss_dssp             CSEEEEESCGGGTC
T ss_pred             eeEEEEeCchhhcC
Confidence            99999999999884

>2yqz_A Hypothetical protein TTHA0223; RNA methyltransferase, SAM, structural genomics, NPPSFA; HET: SAM; 1.80A {Thermus thermophilus} PDB: 2yr0_A

Probab=98.64  E-value=1e-07  Score=80.86  Aligned_cols=74  Identities=14%  Similarity=0.140  Sum_probs=61.0

Q ss_pred             CCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-----CCCeEEEEccCCC-CCC--CccEEEecccc
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-----YEGVSHVGGDMLN-AVP--NADAVFMKVIV  260 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-----~~ri~~~~gd~~~-~~p--~aD~~~l~~vL  260 (266)
                      .....+|||||||+|.++..+++.  ..+++++|. +.+++.+++     .++++++.+|+.+ +++  .+|++++..++
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            456789999999999999999987  568999998 666665442     4789999999977 555  39999999999


Q ss_pred             ccCCC
Q 042491          261 LIQDL  265 (266)
Q Consensus       261 Hd~~~  265 (266)
                      |.+++
T Consensus       115 ~~~~~  119 (263)
T 2yqz_A          115 HLVPD  119 (263)
T ss_dssp             GGCTT
T ss_pred             hhcCC
Confidence            98764

>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=98.63  E-value=3.3e-08  Score=82.81  Aligned_cols=72  Identities=13%  Similarity=0.178  Sum_probs=59.6

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC--CCCeEEEEccCCCCCC-C-ccEEEeccccccCCC
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV--YEGVSHVGGDMLNAVP-N-ADAVFMKVIVLIQDL  265 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~--~~ri~~~~gd~~~~~p-~-aD~~~l~~vLHd~~~  265 (266)
                      ...+|||||||+|.++..+++..+  +++++|+ +.+++.+++  ..+++++.+|+.+..+ + +|+|++.++||..++
T Consensus        42 ~~~~vLDiGcG~G~~~~~l~~~~~--~v~gvD~s~~~~~~a~~~~~~~v~~~~~d~~~~~~~~~fD~v~~~~~l~~~~~  118 (250)
T 2p7i_A           42 RPGNLLELGSFKGDFTSRLQEHFN--DITCVEASEEAISHAQGRLKDGITYIHSRFEDAQLPRRYDNIVLTHVLEHIDD  118 (250)
T ss_dssp             CSSCEEEESCTTSHHHHHHTTTCS--CEEEEESCHHHHHHHHHHSCSCEEEEESCGGGCCCSSCEEEEEEESCGGGCSS
T ss_pred             CCCcEEEECCCCCHHHHHHHHhCC--cEEEEeCCHHHHHHHHHhhhCCeEEEEccHHHcCcCCcccEEEEhhHHHhhcC
Confidence            457899999999999999999987  6888898 677766654  2289999999988534 3 999999999998865

>3dli_A Methyltransferase; PSI-II, NYSGXRC, structural genomics, protein structure initiative; 2.46A {Archaeoglobus fulgidus}

Probab=98.62  E-value=7.7e-08  Score=80.91  Aligned_cols=80  Identities=25%  Similarity=0.342  Sum_probs=62.5

Q ss_pred             HHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCCCCCeEEEEccCCC---CCC--CccE
Q 042491          180 STLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPVYEGVSHVGGDMLN---AVP--NADA  253 (266)
Q Consensus       180 ~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~~ri~~~~gd~~~---~~p--~aD~  253 (266)
                      ..+...++ .+.+..+|||||||+|.++..+++.  +.+++++|+ +.+++.+++.  ++++.+|+.+   ++|  .+|+
T Consensus        30 ~~~~~~l~-~~~~~~~vLDiGcG~G~~~~~l~~~--~~~v~gvD~s~~~~~~a~~~--~~~~~~d~~~~~~~~~~~~fD~  104 (240)
T 3dli_A           30 ARLRRYIP-YFKGCRRVLDIGCGRGEFLELCKEE--GIESIGVDINEDMIKFCEGK--FNVVKSDAIEYLKSLPDKYLDG  104 (240)
T ss_dssp             HHHGGGGG-GTTTCSCEEEETCTTTHHHHHHHHH--TCCEEEECSCHHHHHHHHTT--SEEECSCHHHHHHTSCTTCBSE
T ss_pred             HHHHHHHh-hhcCCCeEEEEeCCCCHHHHHHHhC--CCcEEEEECCHHHHHHHHhh--cceeeccHHHHhhhcCCCCeeE
Confidence            33344343 1456689999999999999999998  457899998 7777766543  9999999877   555  3999


Q ss_pred             EEeccccccCC
Q 042491          254 VFMKVIVLIQD  264 (266)
Q Consensus       254 ~~l~~vLHd~~  264 (266)
                      |++..+||.++
T Consensus       105 i~~~~~l~~~~  115 (240)
T 3dli_A          105 VMISHFVEHLD  115 (240)
T ss_dssp             EEEESCGGGSC
T ss_pred             EEECCchhhCC
Confidence            99999999876

>3bkx_A SAM-dependent methyltransferase; YP_807781.1, cyclopropane-fatty-acyl-phospholipid synthase-L protein, methyltransferase domain; 1.85A {Lactobacillus casei}

Probab=98.62  E-value=5.9e-08  Score=83.12  Aligned_cols=83  Identities=10%  Similarity=0.120  Sum_probs=65.5

Q ss_pred             HHHhhcccCCCCCceEEEecCCchHHHHHHHHHC-CCCeEEEeecHH-------HHhhCCC-------CCCeEEEEcc-C
Q 042491          181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFY-PHIKGVNFDLPH-------VVATAPV-------YEGVSHVGGD-M  244 (266)
Q Consensus       181 ~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~-P~l~~~~~Dlp~-------v~~~a~~-------~~ri~~~~gd-~  244 (266)
                      .+++.++  .....+|||||||+|.++..+++++ |+.+++++|+..       +++.+++       .++|+++.+| +
T Consensus        34 ~l~~~~~--~~~~~~vLDiGcG~G~~~~~l~~~~g~~~~v~gvD~s~~~~~~~~~~~~a~~~~~~~~~~~~v~~~~~d~~  111 (275)
T 3bkx_A           34 AIAEAWQ--VKPGEKILEIGCGQGDLSAVLADQVGSSGHVTGIDIASPDYGAPLTLGQAWNHLLAGPLGDRLTVHFNTNL  111 (275)
T ss_dssp             HHHHHHT--CCTTCEEEEESCTTSHHHHHHHHHHCTTCEEEEECSSCTTCCSSSCHHHHHHHHHTSTTGGGEEEECSCCT
T ss_pred             HHHHHcC--CCCCCEEEEeCCCCCHHHHHHHHHhCCCCEEEEEECCccccccHHHHHHHHHHHHhcCCCCceEEEECChh
Confidence            4556665  6677899999999999999999996 889999999843       5555443       2689999998 6


Q ss_pred             CC---CCC--CccEEEeccccccCCC
Q 042491          245 LN---AVP--NADAVFMKVIVLIQDL  265 (266)
Q Consensus       245 ~~---~~p--~aD~~~l~~vLHd~~~  265 (266)
                      ..   +++  .+|+|++..++|.+++
T Consensus       112 ~~~~~~~~~~~fD~v~~~~~l~~~~~  137 (275)
T 3bkx_A          112 SDDLGPIADQHFDRVVLAHSLWYFAS  137 (275)
T ss_dssp             TTCCGGGTTCCCSEEEEESCGGGSSC
T ss_pred             hhccCCCCCCCEEEEEEccchhhCCC
Confidence            54   234  3999999999998764

>1pjz_A Thiopurine S-methyltransferase; polymorphism, S-adenosylmethionine, drug metabolism; NMR {Pseudomonas syringae PV} SCOP: c.66.1.36

Probab=98.61  E-value=4.4e-08  Score=80.74  Aligned_cols=73  Identities=11%  Similarity=0.075  Sum_probs=59.9

Q ss_pred             CCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------------------CCCeEEEEccCCC-CCC
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------------------YEGVSHVGGDMLN-AVP  249 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------------------~~ri~~~~gd~~~-~~p  249 (266)
                      .....+|||||||+|..+..|++.  ..+++++|+ +.+++.+++                  ..+|+++.+|+++ +.+
T Consensus        20 ~~~~~~vLD~GCG~G~~~~~la~~--g~~V~gvD~S~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~v~~~~~d~~~l~~~   97 (203)
T 1pjz_A           20 VVPGARVLVPLCGKSQDMSWLSGQ--GYHVVGAELSEAAVERYFTERGEQPHITSQGDFKVYAAPGIEIWCGDFFALTAR   97 (203)
T ss_dssp             CCTTCEEEETTTCCSHHHHHHHHH--CCEEEEEEECHHHHHHHHHHHCSCSEEEEETTEEEEECSSSEEEEECCSSSTHH
T ss_pred             cCCCCEEEEeCCCCcHhHHHHHHC--CCeEEEEeCCHHHHHHHHHHccCCcccccccccccccCCccEEEECccccCCcc
Confidence            456689999999999999999998  468999998 777776543                  2589999999998 443


Q ss_pred             ---CccEEEeccccccCC
Q 042491          250 ---NADAVFMKVIVLIQD  264 (266)
Q Consensus       250 ---~aD~~~l~~vLHd~~  264 (266)
                         .+|+|+.+.++|..+
T Consensus        98 ~~~~fD~v~~~~~l~~l~  115 (203)
T 1pjz_A           98 DIGHCAAFYDRAAMIALP  115 (203)
T ss_dssp             HHHSEEEEEEESCGGGSC
T ss_pred             cCCCEEEEEECcchhhCC
Confidence               499999998888754

>3hm2_A Precorrin-6Y C5,15-methyltransferase; alpha-beta-sandwich, structural genomics, PSI-2, protein structure initiative; 2.21A {Corynebacterium diphtheriae}

Probab=98.60  E-value=7.6e-08  Score=76.72  Aligned_cols=78  Identities=21%  Similarity=0.253  Sum_probs=61.7

Q ss_pred             HHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCCCC----
Q 042491          182 LLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNAVP----  249 (266)
Q Consensus       182 ~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~~p----  249 (266)
                      ++..++  .....+|||||||+|.++..+++.+|..+++++|. |.+++.+++       .+++ ++.+|..+.+|    
T Consensus        17 ~~~~~~--~~~~~~vldiG~G~G~~~~~l~~~~~~~~v~~vD~~~~~~~~a~~~~~~~~~~~~~-~~~~d~~~~~~~~~~   93 (178)
T 3hm2_A           17 AISALA--PKPHETLWDIGGGSGSIAIEWLRSTPQTTAVCFEISEERRERILSNAINLGVSDRI-AVQQGAPRAFDDVPD   93 (178)
T ss_dssp             HHHHHC--CCTTEEEEEESTTTTHHHHHHHTTSSSEEEEEECSCHHHHHHHHHHHHTTTCTTSE-EEECCTTGGGGGCCS
T ss_pred             HHHHhc--ccCCCeEEEeCCCCCHHHHHHHHHCCCCeEEEEeCCHHHHHHHHHHHHHhCCCCCE-EEecchHhhhhccCC
Confidence            444455  55668999999999999999999999999999998 667766553       3488 88899877533    


Q ss_pred             CccEEEecccccc
Q 042491          250 NADAVFMKVIVLI  262 (266)
Q Consensus       250 ~aD~~~l~~vLHd  262 (266)
                      .+|++++...+|.
T Consensus        94 ~~D~i~~~~~~~~  106 (178)
T 3hm2_A           94 NPDVIFIGGGLTA  106 (178)
T ss_dssp             CCSEEEECC-TTC
T ss_pred             CCCEEEECCcccH
Confidence            4999999998875

>2xvm_A Tellurite resistance protein TEHB; antibiotic resistance, transferase; HET: SAH; 1.48A {Escherichia coli} PDB: 2xva_A* 4dq0_A* 2i6g_A*

Probab=98.59  E-value=1.3e-07  Score=76.64  Aligned_cols=79  Identities=15%  Similarity=0.178  Sum_probs=63.3

Q ss_pred             HHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCC-CCCC-cc
Q 042491          182 LLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLN-AVPN-AD  252 (266)
Q Consensus       182 ~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~-~~p~-aD  252 (266)
                      +++.++  .....+|||||||+|.++..+++.  ..+++++|. +.+++.+++      .++++++.+|+.+ +.++ +|
T Consensus        24 l~~~~~--~~~~~~vLdiG~G~G~~~~~l~~~--~~~v~~vD~s~~~~~~a~~~~~~~~~~~~~~~~~d~~~~~~~~~~D   99 (199)
T 2xvm_A           24 VLEAVK--VVKPGKTLDLGCGNGRNSLYLAAN--GYDVDAWDKNAMSIANVERIKSIENLDNLHTRVVDLNNLTFDRQYD   99 (199)
T ss_dssp             HHHHTT--TSCSCEEEEETCTTSHHHHHHHHT--TCEEEEEESCHHHHHHHHHHHHHHTCTTEEEEECCGGGCCCCCCEE
T ss_pred             HHHHhh--ccCCCeEEEEcCCCCHHHHHHHHC--CCeEEEEECCHHHHHHHHHHHHhCCCCCcEEEEcchhhCCCCCCce
Confidence            444444  445679999999999999999988  569999998 777776653      3479999999988 4443 99


Q ss_pred             EEEeccccccCC
Q 042491          253 AVFMKVIVLIQD  264 (266)
Q Consensus       253 ~~~l~~vLHd~~  264 (266)
                      ++++..++|.++
T Consensus       100 ~v~~~~~l~~~~  111 (199)
T 2xvm_A          100 FILSTVVLMFLE  111 (199)
T ss_dssp             EEEEESCGGGSC
T ss_pred             EEEEcchhhhCC
Confidence            999999999875

>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=98.58  E-value=4.1e-08  Score=82.58  Aligned_cols=83  Identities=19%  Similarity=0.215  Sum_probs=66.1

Q ss_pred             HHHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCCCCC--
Q 042491          179 MSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLNAVP--  249 (266)
Q Consensus       179 ~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~~~p--  249 (266)
                      ...+++.++  .....+|||||||+|.++..+++..| .+++++|. |.+++.+++      .++++++.+|+..++|  
T Consensus        80 ~~~~~~~l~--~~~~~~vLdiG~G~G~~~~~la~~~~-~~v~~vD~~~~~~~~a~~~~~~~~~~~v~~~~~d~~~~~~~~  156 (235)
T 1jg1_A           80 VAIMLEIAN--LKPGMNILEVGTGSGWNAALISEIVK-TDVYTIERIPELVEFAKRNLERAGVKNVHVILGDGSKGFPPK  156 (235)
T ss_dssp             HHHHHHHHT--CCTTCCEEEECCTTSHHHHHHHHHHC-SCEEEEESCHHHHHHHHHHHHHTTCCSEEEEESCGGGCCGGG
T ss_pred             HHHHHHhcC--CCCCCEEEEEeCCcCHHHHHHHHHhC-CEEEEEeCCHHHHHHHHHHHHHcCCCCcEEEECCcccCCCCC
Confidence            344555555  56678999999999999999999998 89999996 777766653      3569999999866665  


Q ss_pred             C-ccEEEeccccccCC
Q 042491          250 N-ADAVFMKVIVLIQD  264 (266)
Q Consensus       250 ~-aD~~~l~~vLHd~~  264 (266)
                      + +|+|++...+|.+.
T Consensus       157 ~~fD~Ii~~~~~~~~~  172 (235)
T 1jg1_A          157 APYDVIIVTAGAPKIP  172 (235)
T ss_dssp             CCEEEEEECSBBSSCC
T ss_pred             CCccEEEECCcHHHHH
Confidence            2 89999999988764

>4fsd_A Arsenic methyltransferase; rossmann fold; 1.75A {Cyanidioschyzon SP} PDB: 4fr0_A* 4fs8_A 3p7e_A 3qnh_A 3qhu_A

Probab=98.57  E-value=9e-08  Score=86.57  Aligned_cols=74  Identities=23%  Similarity=0.348  Sum_probs=63.4

Q ss_pred             CCceEEEecCCchHHHHHHHHHC-CCCeEEEeec-HHHHhhCCCC--------------CCeEEEEccCCC-------CC
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFY-PHIKGVNFDL-PHVVATAPVY--------------EGVSHVGGDMLN-------AV  248 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~-P~l~~~~~Dl-p~v~~~a~~~--------------~ri~~~~gd~~~-------~~  248 (266)
                      ...+|||||||+|.++..+++.+ |+.+++++|+ |.+++.+++.              ++|+++.+|+.+       ++
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 8899999998 7777766531              699999999987       55


Q ss_pred             C--CccEEEeccccccCCC
Q 042491          249 P--NADAVFMKVIVLIQDL  265 (266)
Q Consensus       249 p--~aD~~~l~~vLHd~~~  265 (266)
                      |  .+|+|++..++|.+++
T Consensus       163 ~~~~fD~V~~~~~l~~~~d  181 (383)
T 4fsd_A          163 PDSSVDIVISNCVCNLSTN  181 (383)
T ss_dssp             CTTCEEEEEEESCGGGCSC
T ss_pred             CCCCEEEEEEccchhcCCC
Confidence            5  3999999999998865

>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=98.57  E-value=1.1e-07  Score=78.33  Aligned_cols=74  Identities=12%  Similarity=0.198  Sum_probs=60.8

Q ss_pred             CCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC----CCCeEEEEccCCCCCC--CccEEEecccccc
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV----YEGVSHVGGDMLNAVP--NADAVFMKVIVLI  262 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~----~~ri~~~~gd~~~~~p--~aD~~~l~~vLHd  262 (266)
                      .....+|||||||+|.++..+++..  .+++++|. +.+++.+++    .++++++.+|+.+..|  .+|+|++..++|.
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            3456899999999999999999986  37899998 667765543    4689999999998433  3999999999998


Q ss_pred             CCC
Q 042491          263 QDL  265 (266)
Q Consensus       263 ~~~  265 (266)
                      .++
T Consensus       127 ~~~  129 (216)
T 3ofk_A          127 LED  129 (216)
T ss_dssp             SSS
T ss_pred             CCC
Confidence            764

>3i9f_A Putative type 11 methyltransferase; structural genomics, PSI-2, protein structure initiative; 2.50A {Sulfolobus solfataricus}

Probab=98.57  E-value=2.9e-08  Score=78.88  Aligned_cols=77  Identities=18%  Similarity=0.194  Sum_probs=63.1

Q ss_pred             HhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-CCCeEEEEccCCCCCC--CccEEEecc
Q 042491          183 LSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-YEGVSHVGGDMLNAVP--NADAVFMKV  258 (266)
Q Consensus       183 ~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-~~ri~~~~gd~~~~~p--~aD~~~l~~  258 (266)
                      ++.++  .....+|||||||+|.++..+++...  +++++|. +.+++.+++ .++++++.+|  .+++  .+|++++..
T Consensus        10 ~~~~~--~~~~~~vLDiG~G~G~~~~~l~~~~~--~v~~vD~s~~~~~~a~~~~~~v~~~~~d--~~~~~~~~D~v~~~~   83 (170)
T 3i9f_A           10 LPNIF--EGKKGVIVDYGCGNGFYCKYLLEFAT--KLYCIDINVIALKEVKEKFDSVITLSDP--KEIPDNSVDFILFAN   83 (170)
T ss_dssp             HHHHH--SSCCEEEEEETCTTCTTHHHHHTTEE--EEEEECSCHHHHHHHHHHCTTSEEESSG--GGSCTTCEEEEEEES
T ss_pred             HHhcC--cCCCCeEEEECCCCCHHHHHHHhhcC--eEEEEeCCHHHHHHHHHhCCCcEEEeCC--CCCCCCceEEEEEcc
Confidence            44444  55678999999999999999999984  8999998 777776655 6799999999  4454  499999999


Q ss_pred             ccccCCC
Q 042491          259 IVLIQDL  265 (266)
Q Consensus       259 vLHd~~~  265 (266)
                      ++|.+.+
T Consensus        84 ~l~~~~~   90 (170)
T 3i9f_A           84 SFHDMDD   90 (170)
T ss_dssp             CSTTCSC
T ss_pred             chhcccC
Confidence            9998754

>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=98.56  E-value=9.1e-08  Score=86.94  Aligned_cols=80  Identities=15%  Similarity=0.232  Sum_probs=63.2

Q ss_pred             HHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC---------------CCCeEEEEcc
Q 042491          180 STLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV---------------YEGVSHVGGD  243 (266)
Q Consensus       180 ~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~---------------~~ri~~~~gd  243 (266)
                      ..++..++  .....+|||||||+|..+..+++.++.-+++++|+ |.+++.++.               .++|+++.||
T Consensus       163 ~~il~~l~--l~~gd~VLDLGCGtG~l~l~lA~~~g~~kVvGIDiS~~~lelAr~n~e~frkr~~~~Gl~~~rVefi~GD  240 (438)
T 3uwp_A          163 AQMIDEIK--MTDDDLFVDLGSGVGQVVLQVAAATNCKHHYGVEKADIPAKYAETMDREFRKWMKWYGKKHAEYTLERGD  240 (438)
T ss_dssp             HHHHHHHC--CCTTCEEEEESCTTSHHHHHHHHHCCCSEEEEEECCHHHHHHHHHHHHHHHHHHHHHTBCCCEEEEEECC
T ss_pred             HHHHHhcC--CCCCCEEEEeCCCCCHHHHHHHHHCCCCEEEEEeCCHHHHHHHHHHHHHHHHHHHHhCCCCCCeEEEECc
Confidence            34555565  66778999999999999999999988778999998 444444321               3789999999


Q ss_pred             CCC-CC----CCccEEEeccccc
Q 042491          244 MLN-AV----PNADAVFMKVIVL  261 (266)
Q Consensus       244 ~~~-~~----p~aD~~~l~~vLH  261 (266)
                      +++ ++    +.+|+|++.+++|
T Consensus       241 ~~~lp~~d~~~~aDVVf~Nn~~F  263 (438)
T 3uwp_A          241 FLSEEWRERIANTSVIFVNNFAF  263 (438)
T ss_dssp             TTSHHHHHHHHTCSEEEECCTTC
T ss_pred             ccCCccccccCCccEEEEccccc
Confidence            998 44    3599999988765

>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=98.56  E-value=1.8e-07  Score=81.98  Aligned_cols=82  Identities=13%  Similarity=0.125  Sum_probs=66.2

Q ss_pred             HHHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCCCC-
Q 042491          179 MSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNAVP-  249 (266)
Q Consensus       179 ~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~~p-  249 (266)
                      ...+++.++  .....+|||||||+|.++..+++.+ +.+++++|+ |.+++.+++       .++++++.+|+.+ +| 
T Consensus        79 ~~~~~~~~~--~~~~~~vLDiGcG~G~~~~~la~~~-~~~v~gvD~s~~~~~~a~~~~~~~~~~~~v~~~~~d~~~-~~~  154 (318)
T 2fk8_A           79 VDLNLDKLD--LKPGMTLLDIGCGWGTTMRRAVERF-DVNVIGLTLSKNQHARCEQVLASIDTNRSRQVLLQGWED-FAE  154 (318)
T ss_dssp             HHHHHTTSC--CCTTCEEEEESCTTSHHHHHHHHHH-CCEEEEEESCHHHHHHHHHHHHTSCCSSCEEEEESCGGG-CCC
T ss_pred             HHHHHHhcC--CCCcCEEEEEcccchHHHHHHHHHC-CCEEEEEECCHHHHHHHHHHHHhcCCCCceEEEECChHH-CCC
Confidence            345566665  5667899999999999999999987 569999998 777766553       3679999999866 44 


Q ss_pred             CccEEEeccccccCC
Q 042491          250 NADAVFMKVIVLIQD  264 (266)
Q Consensus       250 ~aD~~~l~~vLHd~~  264 (266)
                      .+|+|++..++|..+
T Consensus       155 ~fD~v~~~~~l~~~~  169 (318)
T 2fk8_A          155 PVDRIVSIEAFEHFG  169 (318)
T ss_dssp             CCSEEEEESCGGGTC
T ss_pred             CcCEEEEeChHHhcC
Confidence            499999999999874

>3q87_B N6 adenine specific DNA methylase; SAM-methyltransferase, methyltransferase, methylation, trans activator-transferase complex; HET: SAM; 2.00A {Encephalitozoon cuniculi}

Probab=98.55  E-value=2.2e-07  Score=74.29  Aligned_cols=67  Identities=19%  Similarity=0.263  Sum_probs=57.3

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCCCCCeEEEEccCCCCCC-C-ccEEEeccccccCC
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPVYEGVSHVGGDMLNAVP-N-ADAVFMKVIVLIQD  264 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~~ri~~~~gd~~~~~p-~-aD~~~l~~vLHd~~  264 (266)
                      ...+|||||||+|.++..+++..   +++++|+ |.+++.   .++++++.+|+.++++ + +|++++.-.+|..+
T Consensus        23 ~~~~vLD~GcG~G~~~~~l~~~~---~v~gvD~s~~~~~~---~~~~~~~~~d~~~~~~~~~fD~i~~n~~~~~~~   92 (170)
T 3q87_B           23 EMKIVLDLGTSTGVITEQLRKRN---TVVSTDLNIRALES---HRGGNLVRADLLCSINQESVDVVVFNPPYVPDT   92 (170)
T ss_dssp             CSCEEEEETCTTCHHHHHHTTTS---EEEEEESCHHHHHT---CSSSCEEECSTTTTBCGGGCSEEEECCCCBTTC
T ss_pred             CCCeEEEeccCccHHHHHHHhcC---cEEEEECCHHHHhc---ccCCeEEECChhhhcccCCCCEEEECCCCccCC
Confidence            44699999999999999999988   9999998 777776   5789999999999766 3 99999988777543

>3bxo_A N,N-dimethyltransferase; desosamine, sugar, carbohydrate, antibiotic, SAM, adoMet; HET: SAM UPP; 2.00A {Streptomyces venezuelae}

Probab=98.55  E-value=2.6e-07  Score=77.15  Aligned_cols=71  Identities=24%  Similarity=0.270  Sum_probs=59.3

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-CCCeEEEEccCCC-CCCC-ccEEE-eccccccC
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-YEGVSHVGGDMLN-AVPN-ADAVF-MKVIVLIQ  263 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-~~ri~~~~gd~~~-~~p~-aD~~~-l~~vLHd~  263 (266)
                      .+..+|||||||+|.++..+++.++  +++++|. |.+++.+++ .++++++.+|+.+ +.++ +|+|+ +..++|..
T Consensus        39 ~~~~~vLdiG~G~G~~~~~l~~~~~--~v~~~D~s~~~~~~a~~~~~~~~~~~~d~~~~~~~~~~D~v~~~~~~~~~~  114 (239)
T 3bxo_A           39 PEASSLLDVACGTGTHLEHFTKEFG--DTAGLELSEDMLTHARKRLPDATLHQGDMRDFRLGRKFSAVVSMFSSVGYL  114 (239)
T ss_dssp             TTCCEEEEETCTTSHHHHHHHHHHS--EEEEEESCHHHHHHHHHHCTTCEEEECCTTTCCCSSCEEEEEECTTGGGGC
T ss_pred             CCCCeEEEecccCCHHHHHHHHhCC--cEEEEeCCHHHHHHHHHhCCCCEEEECCHHHcccCCCCcEEEEcCchHhhc
Confidence            3568999999999999999999987  8899998 888877665 5689999999988 4554 99999 45588765

>3kr9_A SAM-dependent methyltransferase; class I rossmann-like methyltransferase fold; 2.00A {Streptococcus pneumoniae} PDB: 3ku1_A*

Probab=98.55  E-value=8.6e-08  Score=80.55  Aligned_cols=69  Identities=16%  Similarity=0.045  Sum_probs=58.2

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCCCC---CccEEEeccc
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNAVP---NADAVFMKVI  259 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~~p---~aD~~~l~~v  259 (266)
                      .+..+|+|||||+|.+++.+++..|..+++..|. |..++.+++       .+||+++.+|.++++|   .+|+++...+
T Consensus        14 ~~g~~VlDIGtGsG~l~i~la~~~~~~~V~avDi~~~al~~A~~N~~~~gl~~~i~~~~~d~l~~l~~~~~~D~IviaG~   93 (225)
T 3kr9_A           14 SQGAILLDVGSDHAYLPIELVERGQIKSAIAGEVVEGPYQSAVKNVEAHGLKEKIQVRLANGLAAFEETDQVSVITIAGM   93 (225)
T ss_dssp             CTTEEEEEETCSTTHHHHHHHHTTSEEEEEEEESSHHHHHHHHHHHHHTTCTTTEEEEECSGGGGCCGGGCCCEEEEEEE
T ss_pred             CCCCEEEEeCCCcHHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHHHHcCCCceEEEEECchhhhcccCcCCCEEEEcCC
Confidence            3557999999999999999999999999999998 666666653       5689999999999776   3999887553

>3h2b_A SAM-dependent methyltransferase; alpha-beta protein, structural genomics, PSI-2, protein structure initiative; HET: SAH; 2.00A {Corynebacterium glutamicum atcc 13032}

Probab=98.55  E-value=6.3e-08  Score=79.11  Aligned_cols=70  Identities=14%  Similarity=0.155  Sum_probs=60.4

Q ss_pred             CceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-CCCeEEEEccCCC-CCC--CccEEEeccccccCC
Q 042491          193 IRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-YEGVSHVGGDMLN-AVP--NADAVFMKVIVLIQD  264 (266)
Q Consensus       193 ~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-~~ri~~~~gd~~~-~~p--~aD~~~l~~vLHd~~  264 (266)
                      ..+|||||||+|.++..+++.  +.+++++|. +.+++.+++ ..+++++.+|+.+ +++  .+|+|++..+||.++
T Consensus        42 ~~~vLDiGcG~G~~~~~l~~~--~~~v~gvD~s~~~~~~a~~~~~~~~~~~~d~~~~~~~~~~fD~v~~~~~l~~~~  116 (203)
T 3h2b_A           42 DGVILDVGSGTGRWTGHLASL--GHQIEGLEPATRLVELARQTHPSVTFHHGTITDLSDSPKRWAGLLAWYSLIHMG  116 (203)
T ss_dssp             CSCEEEETCTTCHHHHHHHHT--TCCEEEECCCHHHHHHHHHHCTTSEEECCCGGGGGGSCCCEEEEEEESSSTTCC
T ss_pred             CCeEEEecCCCCHHHHHHHhc--CCeEEEEeCCHHHHHHHHHhCCCCeEEeCcccccccCCCCeEEEEehhhHhcCC
Confidence            579999999999999999998  558999998 777777665 6789999999988 555  399999999999885

>3cgg_A SAM-dependent methyltransferase; NP_600671.1, methyltransferase domain, structural genomics; HET: NHE CIT; 2.00A {Corynebacterium glutamicum atcc 13032}

Probab=98.53  E-value=2.1e-07  Score=74.81  Aligned_cols=72  Identities=17%  Similarity=0.191  Sum_probs=59.7

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-CCCeEEEEccCCC-CCC--CccEEEec-cccccCC
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-YEGVSHVGGDMLN-AVP--NADAVFMK-VIVLIQD  264 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-~~ri~~~~gd~~~-~~p--~aD~~~l~-~vLHd~~  264 (266)
                      ....+|||||||+|.++..+++.  +.+++++|. |.+++.+++ ..+++++.+|+.+ ++|  .+|++++. .++|..+
T Consensus        45 ~~~~~vLdiG~G~G~~~~~l~~~--~~~v~~~D~~~~~~~~a~~~~~~~~~~~~d~~~~~~~~~~~D~i~~~~~~~~~~~  122 (195)
T 3cgg_A           45 PRGAKILDAGCGQGRIGGYLSKQ--GHDVLGTDLDPILIDYAKQDFPEARWVVGDLSVDQISETDFDLIVSAGNVMGFLA  122 (195)
T ss_dssp             CTTCEEEEETCTTTHHHHHHHHT--TCEEEEEESCHHHHHHHHHHCTTSEEEECCTTTSCCCCCCEEEEEECCCCGGGSC
T ss_pred             cCCCeEEEECCCCCHHHHHHHHC--CCcEEEEcCCHHHHHHHHHhCCCCcEEEcccccCCCCCCceeEEEECCcHHhhcC
Confidence            46679999999999999999988  568999998 777776654 5679999999998 565  39999998 7888653

>4htf_A S-adenosylmethionine-dependent methyltransferase; structural genomics, PSI-biology, midwest center for structu genomics, MCSG; HET: MSE SAM; 1.60A {Escherichia coli}

Probab=98.53  E-value=1.2e-07  Score=81.90  Aligned_cols=72  Identities=15%  Similarity=0.217  Sum_probs=60.6

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCC-C-CC--CccEEEeccc
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLN-A-VP--NADAVFMKVI  259 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~-~-~p--~aD~~~l~~v  259 (266)
                      +..+|||||||+|.++..+++.  ..+++++|+ |.+++.+++       .++++++.+|+.+ + ++  .+|+|++..+
T Consensus        68 ~~~~vLDiGcG~G~~~~~l~~~--~~~v~gvD~s~~~~~~a~~~~~~~~~~~~v~~~~~d~~~~~~~~~~~fD~v~~~~~  145 (285)
T 4htf_A           68 QKLRVLDAGGGEGQTAIKMAER--GHQVILCDLSAQMIDRAKQAAEAKGVSDNMQFIHCAAQDVASHLETPVDLILFHAV  145 (285)
T ss_dssp             SCCEEEEETCTTCHHHHHHHHT--TCEEEEEESCHHHHHHHHHHHHC-CCGGGEEEEESCGGGTGGGCSSCEEEEEEESC
T ss_pred             CCCEEEEeCCcchHHHHHHHHC--CCEEEEEECCHHHHHHHHHHHHhcCCCcceEEEEcCHHHhhhhcCCCceEEEECch
Confidence            3579999999999999999998  668999998 777776654       2789999999988 3 34  3999999999


Q ss_pred             cccCCC
Q 042491          260 VLIQDL  265 (266)
Q Consensus       260 LHd~~~  265 (266)
                      ||.+++
T Consensus       146 l~~~~~  151 (285)
T 4htf_A          146 LEWVAD  151 (285)
T ss_dssp             GGGCSC
T ss_pred             hhcccC
Confidence            998865

>3fzg_A 16S rRNA methylase; methyltransferase, plasmid, transferase; HET: SAM; 2.00A {Escherichia coli}

Probab=98.51  E-value=8.1e-08  Score=78.44  Aligned_cols=70  Identities=14%  Similarity=0.073  Sum_probs=58.2

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCC-CCC-ccEEEecccc
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNA-VPN-ADAVFMKVIV  260 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~-~p~-aD~~~l~~vL  260 (266)
                      ....+|+|+|||.|-++..+....|+.+++..|. +.+++.+++       ..++++  .|.... .|+ ||++++.++|
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            4678999999999999999999999999999998 777777664       225665  777664 444 9999999999


Q ss_pred             cc
Q 042491          261 LI  262 (266)
Q Consensus       261 Hd  262 (266)
                      |.
T Consensus       126 Hl  127 (200)
T 3fzg_A          126 PV  127 (200)
T ss_dssp             HH
T ss_pred             Hh
Confidence            95

>3b3j_A Histone-arginine methyltransferase CARM1; protein arginine methyltransferase 4, APO catalytic domain, regulator, mRNA processing; 2.55A {Rattus norvegicus}

Probab=98.50  E-value=4.7e-07  Score=84.38  Aligned_cols=82  Identities=15%  Similarity=0.144  Sum_probs=65.1

Q ss_pred             HHHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeecHHHHhhCCC-------CCCeEEEEccCCC-CCCC
Q 042491          179 MSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPV-------YEGVSHVGGDMLN-AVPN  250 (266)
Q Consensus       179 ~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~a~~-------~~ri~~~~gd~~~-~~p~  250 (266)
                      ...++..++  .....+|||||||+|.++..+++ .|..+++++|+.++++.+++       .+||+++.+|+.+ ++|+
T Consensus       147 ~~~il~~l~--~~~~~~VLDiGcGtG~la~~la~-~~~~~V~gvD~s~~l~~A~~~~~~~gl~~~v~~~~~d~~~~~~~~  223 (480)
T 3b3j_A          147 QRAILQNHT--DFKDKIVLDVGCGSGILSFFAAQ-AGARKIYAVEASTMAQHAEVLVKSNNLTDRIVVIPGKVEEVSLPE  223 (480)
T ss_dssp             HHHHHHTGG--GTTTCEEEEESCSTTHHHHHHHH-TTCSEEEEEECHHHHHHHHHHHHHTTCTTTEEEEESCTTTCCCSS
T ss_pred             HHHHHHhhh--hcCCCEEEEecCcccHHHHHHHH-cCCCEEEEEEcHHHHHHHHHHHHHcCCCCcEEEEECchhhCccCC
Confidence            445566555  44568999999999999998877 68889999999777665543       3789999999998 6775


Q ss_pred             -ccEEEeccccccC
Q 042491          251 -ADAVFMKVIVLIQ  263 (266)
Q Consensus       251 -aD~~~l~~vLHd~  263 (266)
                       +|+|++..++|.+
T Consensus       224 ~fD~Ivs~~~~~~~  237 (480)
T 3b3j_A          224 QVDIIISEPMGYML  237 (480)
T ss_dssp             CEEEEECCCCHHHH
T ss_pred             CeEEEEEeCchHhc
Confidence             9999998776654

>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=98.50  E-value=9e-08  Score=80.60  Aligned_cols=73  Identities=18%  Similarity=0.254  Sum_probs=60.8

Q ss_pred             CCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC---CCCeEEEEccCCC-CCC-------CccEEEec
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV---YEGVSHVGGDMLN-AVP-------NADAVFMK  257 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~---~~ri~~~~gd~~~-~~p-------~aD~~~l~  257 (266)
                      .....+|||||||+|.++..+++..+  +++++|. |.+++.+++   ..+++++.+|+.+ +.+       .+|++++.
T Consensus        54 ~~~~~~vLD~GcG~G~~~~~la~~~~--~v~gvD~s~~~~~~a~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~d~v~~~  131 (245)
T 3ggd_A           54 FNPELPLIDFACGNGTQTKFLSQFFP--RVIGLDVSKSALEIAAKENTAANISYRLLDGLVPEQAAQIHSEIGDANIYMR  131 (245)
T ss_dssp             SCTTSCEEEETCTTSHHHHHHHHHSS--CEEEEESCHHHHHHHHHHSCCTTEEEEECCTTCHHHHHHHHHHHCSCEEEEE
T ss_pred             cCCCCeEEEEcCCCCHHHHHHHHhCC--CEEEEECCHHHHHHHHHhCcccCceEEECcccccccccccccccCccEEEEc
Confidence            34567999999999999999999998  7889998 777776653   4589999999998 332       28999999


Q ss_pred             cccccCC
Q 042491          258 VIVLIQD  264 (266)
Q Consensus       258 ~vLHd~~  264 (266)
                      .++|..+
T Consensus       132 ~~~~~~~  138 (245)
T 3ggd_A          132 TGFHHIP  138 (245)
T ss_dssp             SSSTTSC
T ss_pred             chhhcCC
Confidence            9999876

>3sm3_A SAM-dependent methyltransferases; NESG, structural genomics, PSI-biology, protein structure in northeast structural genomics; 2.20A {Methanosarcina mazei}

Probab=98.50  E-value=2.3e-07  Score=77.07  Aligned_cols=73  Identities=12%  Similarity=0.110  Sum_probs=60.2

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-----------CCCeEEEEccCCC-CCC--CccEEE
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-----------YEGVSHVGGDMLN-AVP--NADAVF  255 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-----------~~ri~~~~gd~~~-~~p--~aD~~~  255 (266)
                      ....+|||||||+|.++..+++.  ..+++++|+ |.+++.+++           .++++++.+|+.+ +++  .+|+++
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            35689999999999999999998  669999998 666665543           2368999999988 555  399999


Q ss_pred             eccccccCCC
Q 042491          256 MKVIVLIQDL  265 (266)
Q Consensus       256 l~~vLHd~~~  265 (266)
                      +..++|.+.+
T Consensus       107 ~~~~l~~~~~  116 (235)
T 3sm3_A          107 MQAFLTSVPD  116 (235)
T ss_dssp             EESCGGGCCC
T ss_pred             EcchhhcCCC
Confidence            9999998864

>3m70_A Tellurite resistance protein TEHB homolog; structural genomics, PSI-2, protein ST initiative; 1.95A {Haemophilus influenzae}

Probab=98.49  E-value=2.1e-07  Score=80.27  Aligned_cols=80  Identities=14%  Similarity=0.153  Sum_probs=63.3

Q ss_pred             HHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-----CCCeEEEEccCCC-CCCC-cc
Q 042491          181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-----YEGVSHVGGDMLN-AVPN-AD  252 (266)
Q Consensus       181 ~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-----~~ri~~~~gd~~~-~~p~-aD  252 (266)
                      .+++.++  .....+|||||||+|.++..+++.  +.+++++|. +.+++.+++     .-+++++.+|+.+ +.++ +|
T Consensus       111 ~~~~~~~--~~~~~~vLD~GcG~G~~~~~l~~~--g~~v~~vD~s~~~~~~a~~~~~~~~~~~~~~~~d~~~~~~~~~fD  186 (286)
T 3m70_A          111 DVVDAAK--IISPCKVLDLGCGQGRNSLYLSLL--GYDVTSWDHNENSIAFLNETKEKENLNISTALYDINAANIQENYD  186 (286)
T ss_dssp             HHHHHHH--HSCSCEEEEESCTTCHHHHHHHHT--TCEEEEEESCHHHHHHHHHHHHHTTCCEEEEECCGGGCCCCSCEE
T ss_pred             HHHHHhh--ccCCCcEEEECCCCCHHHHHHHHC--CCeEEEEECCHHHHHHHHHHHHHcCCceEEEEeccccccccCCcc
Confidence            3444444  336689999999999999999998  568999998 777766553     2389999999998 3444 99


Q ss_pred             EEEeccccccCC
Q 042491          253 AVFMKVIVLIQD  264 (266)
Q Consensus       253 ~~~l~~vLHd~~  264 (266)
                      +|++..++|..+
T Consensus       187 ~i~~~~~~~~~~  198 (286)
T 3m70_A          187 FIVSTVVFMFLN  198 (286)
T ss_dssp             EEEECSSGGGSC
T ss_pred             EEEEccchhhCC
Confidence            999999999765

>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=98.48  E-value=1.8e-07  Score=81.29  Aligned_cols=65  Identities=18%  Similarity=0.332  Sum_probs=55.9

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCCCCC-c---cEEEec
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNAVPN-A---DAVFMK  257 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~~p~-a---D~~~l~  257 (266)
                      ...+|||||||+|.++..+++. |+.+++++|+ +.+++.+++       .+||+++.+|+++++++ +   |+|+..
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            4469999999999999999999 9999999998 777776653       35799999999997654 8   999985

>3lcc_A Putative methyl chloride transferase; halide methyltransferase; HET: SAH; 1.80A {Arabidopsis thaliana}

Probab=98.48  E-value=1.2e-07  Score=79.48  Aligned_cols=69  Identities=23%  Similarity=0.257  Sum_probs=57.9

Q ss_pred             ceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCCCC--CccEEEeccccccC
Q 042491          194 RSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNAVP--NADAVFMKVIVLIQ  263 (266)
Q Consensus       194 ~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~~p--~aD~~~l~~vLHd~  263 (266)
                      .+|||||||+|.++..+++  +..+++++|+ |.+++.+++       ..+|+++.+|+.+..|  .+|+|++..++|.+
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  6778999998 777776553       2569999999999434  49999999999987


Q ss_pred             C
Q 042491          264 D  264 (266)
Q Consensus       264 ~  264 (266)
                      +
T Consensus       146 ~  146 (235)
T 3lcc_A          146 E  146 (235)
T ss_dssp             C
T ss_pred             C
Confidence            6

>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=98.48  E-value=1.1e-06  Score=74.21  Aligned_cols=71  Identities=28%  Similarity=0.352  Sum_probs=56.4

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-----CCCeEEEEccCCC-CCCC-ccEEEec-cccc
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-----YEGVSHVGGDMLN-AVPN-ADAVFMK-VIVL  261 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-----~~ri~~~~gd~~~-~~p~-aD~~~l~-~vLH  261 (266)
                      ....+|||||||+|.++..+++.  +.+++++|+ |.+++.+++     ..+++++.+|+.+ +.++ +|++++. ..+|
T Consensus        40 ~~~~~vLDlGcG~G~~~~~l~~~--~~~v~gvD~s~~~l~~a~~~~~~~~~~v~~~~~d~~~~~~~~~fD~v~~~~~~~~  117 (252)
T 1wzn_A           40 REVRRVLDLACGTGIPTLELAER--GYEVVGLDLHEEMLRVARRKAKERNLKIEFLQGDVLEIAFKNEFDAVTMFFSTIM  117 (252)
T ss_dssp             SCCCEEEEETCTTCHHHHHHHHT--TCEEEEEESCHHHHHHHHHHHHHTTCCCEEEESCGGGCCCCSCEEEEEECSSGGG
T ss_pred             cCCCEEEEeCCCCCHHHHHHHHC--CCeEEEEECCHHHHHHHHHHHHhcCCceEEEECChhhcccCCCccEEEEcCCchh
Confidence            45679999999999999999987  568999998 777776653     3479999999988 4554 9999975 4444


Q ss_pred             cC
Q 042491          262 IQ  263 (266)
Q Consensus       262 d~  263 (266)
                      .+
T Consensus       118 ~~  119 (252)
T 1wzn_A          118 YF  119 (252)
T ss_dssp             GS
T ss_pred             cC
Confidence            43

>3lec_A NADB-rossmann superfamily protein; PSI, MCSG, structural genomics, midwest CENT structural genomics, protein structure initiative; 1.80A {Streptococcus agalactiae}

Probab=98.47  E-value=2e-07  Score=78.54  Aligned_cols=69  Identities=13%  Similarity=-0.009  Sum_probs=58.0

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCCCC---CccEEEeccc
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNAVP---NADAVFMKVI  259 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~~p---~aD~~~l~~v  259 (266)
                      .+..+|+|||||+|.+++.+++..|..+++..|. |..++.+++       .+||+++.||.++.++   .+|++++.++
T Consensus        20 ~~g~~VlDIGtGsG~l~i~la~~~~~~~V~AvDi~~~al~~A~~N~~~~gl~~~I~~~~gD~l~~~~~~~~~D~IviaGm   99 (230)
T 3lec_A           20 PKGARLLDVGSDHAYLPIFLLQMGYCDFAIAGEVVNGPYQSALKNVSEHGLTSKIDVRLANGLSAFEEADNIDTITICGM   99 (230)
T ss_dssp             CTTEEEEEETCSTTHHHHHHHHTTCEEEEEEEESSHHHHHHHHHHHHHTTCTTTEEEEECSGGGGCCGGGCCCEEEEEEE
T ss_pred             CCCCEEEEECCchHHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHHHHcCCCCcEEEEECchhhccccccccCEEEEeCC
Confidence            3558999999999999999999999999999998 666666653       5789999999999644   3999986654

>2yxe_A Protein-L-isoaspartate O-methyltransferase; rossman-type fold, alpha/beta/alpha sandwich structure, STRU genomics, NPPSFA; 2.00A {Methanocaldococcus jannaschii}

Probab=98.47  E-value=4.5e-07  Score=74.72  Aligned_cols=81  Identities=16%  Similarity=0.161  Sum_probs=65.0

Q ss_pred             HHhhcccCCCCCceEEEecCCchHHHHHHHHHC-CCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCCCCC---C
Q 042491          182 LLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFY-PHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLNAVP---N  250 (266)
Q Consensus       182 ~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~-P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~~~p---~  250 (266)
                      ++..+.  .....+|||||||+|.++..+++.. |+.+++++|. |.+++.+++      .++++++.+|+..+++   .
T Consensus        69 ~~~~~~--~~~~~~vLdiG~G~G~~~~~l~~~~~~~~~v~~vD~~~~~~~~a~~~~~~~~~~~v~~~~~d~~~~~~~~~~  146 (215)
T 2yxe_A           69 MCELLD--LKPGMKVLEIGTGCGYHAAVTAEIVGEDGLVVSIERIPELAEKAERTLRKLGYDNVIVIVGDGTLGYEPLAP  146 (215)
T ss_dssp             HHHHTT--CCTTCEEEEECCTTSHHHHHHHHHHCTTSEEEEEESCHHHHHHHHHHHHHHTCTTEEEEESCGGGCCGGGCC
T ss_pred             HHHhhC--CCCCCEEEEECCCccHHHHHHHHHhCCCCEEEEEeCCHHHHHHHHHHHHHcCCCCeEEEECCcccCCCCCCC
Confidence            344444  4566899999999999999999998 7789999998 777766653      3579999999977654   4


Q ss_pred             ccEEEeccccccCC
Q 042491          251 ADAVFMKVIVLIQD  264 (266)
Q Consensus       251 aD~~~l~~vLHd~~  264 (266)
                      +|++++..++|...
T Consensus       147 fD~v~~~~~~~~~~  160 (215)
T 2yxe_A          147 YDRIYTTAAGPKIP  160 (215)
T ss_dssp             EEEEEESSBBSSCC
T ss_pred             eeEEEECCchHHHH
Confidence            99999999998754

>3lbf_A Protein-L-isoaspartate O-methyltransferase; modified rossman-type fold, S-adenosyl-L- methionine; HET: SAH; 1.80A {Escherichia coli}

Probab=98.46  E-value=5.1e-07  Score=74.12  Aligned_cols=80  Identities=14%  Similarity=0.115  Sum_probs=64.0

Q ss_pred             HHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCCCCC---Cc
Q 042491          182 LLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLNAVP---NA  251 (266)
Q Consensus       182 ~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~~~p---~a  251 (266)
                      ++..++  .....+|||||||+|.++..+++.  ..+++.+|. |.+++.+++      .++++++.+|+.+..+   .+
T Consensus        69 ~~~~l~--~~~~~~vLdiG~G~G~~~~~la~~--~~~v~~vD~~~~~~~~a~~~~~~~~~~~v~~~~~d~~~~~~~~~~~  144 (210)
T 3lbf_A           69 MTELLE--LTPQSRVLEIGTGSGYQTAILAHL--VQHVCSVERIKGLQWQARRRLKNLDLHNVSTRHGDGWQGWQARAPF  144 (210)
T ss_dssp             HHHHTT--CCTTCEEEEECCTTSHHHHHHHHH--SSEEEEEESCHHHHHHHHHHHHHTTCCSEEEEESCGGGCCGGGCCE
T ss_pred             HHHhcC--CCCCCEEEEEcCCCCHHHHHHHHh--CCEEEEEecCHHHHHHHHHHHHHcCCCceEEEECCcccCCccCCCc
Confidence            344455  566789999999999999999998  578999998 777766553      3579999999988533   49


Q ss_pred             cEEEeccccccCCC
Q 042491          252 DAVFMKVIVLIQDL  265 (266)
Q Consensus       252 D~~~l~~vLHd~~~  265 (266)
                      |++++...+|...+
T Consensus       145 D~i~~~~~~~~~~~  158 (210)
T 3lbf_A          145 DAIIVTAAPPEIPT  158 (210)
T ss_dssp             EEEEESSBCSSCCT
T ss_pred             cEEEEccchhhhhH
Confidence            99999999987653

>4dcm_A Ribosomal RNA large subunit methyltransferase G; 23S rRNA (guanine1835-N2)-methyltransferase; HET: SAM; 2.30A {Escherichia coli}

Probab=98.45  E-value=3.5e-07  Score=82.60  Aligned_cols=79  Identities=22%  Similarity=0.239  Sum_probs=63.3

Q ss_pred             HHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------C--CCeEEEEccCCCCCC--
Q 042491          182 LLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------Y--EGVSHVGGDMLNAVP--  249 (266)
Q Consensus       182 ~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~--~ri~~~~gd~~~~~p--  249 (266)
                      +++.++  .....+|+|+|||+|.++..+++.+|..+++++|. +.+++.+++       .  .+++++.+|++++++  
T Consensus       214 ll~~l~--~~~~~~VLDlGcG~G~~s~~la~~~p~~~V~gvD~s~~al~~Ar~n~~~ngl~~~~~v~~~~~D~~~~~~~~  291 (375)
T 4dcm_A          214 FMQHLP--ENLEGEIVDLGCGNGVIGLTLLDKNPQAKVVFVDESPMAVASSRLNVETNMPEALDRCEFMINNALSGVEPF  291 (375)
T ss_dssp             HHHTCC--CSCCSEEEEETCTTCHHHHHHHHHCTTCEEEEEESCHHHHHHHHHHHHHHCGGGGGGEEEEECSTTTTCCTT
T ss_pred             HHHhCc--ccCCCeEEEEeCcchHHHHHHHHHCCCCEEEEEECcHHHHHHHHHHHHHcCCCcCceEEEEechhhccCCCC
Confidence            455555  33448999999999999999999999999999998 777776654       1  258889999999876  


Q ss_pred             CccEEEecccccc
Q 042491          250 NADAVFMKVIVLI  262 (266)
Q Consensus       250 ~aD~~~l~~vLHd  262 (266)
                      .+|+|++.-.+|.
T Consensus       292 ~fD~Ii~nppfh~  304 (375)
T 4dcm_A          292 RFNAVLCNPPFHQ  304 (375)
T ss_dssp             CEEEEEECCCC--
T ss_pred             CeeEEEECCCccc
Confidence            3999999877774

>3gnl_A Uncharacterized protein, DUF633, LMOF2365_1472; structural genomics, PSI-2, protein structure initiative; 1.50A {Listeria monocytogenes str}

Probab=98.45  E-value=2.1e-07  Score=78.98  Aligned_cols=69  Identities=12%  Similarity=0.094  Sum_probs=57.8

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCCCC--C-ccEEEeccc
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNAVP--N-ADAVFMKVI  259 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~~p--~-aD~~~l~~v  259 (266)
                      .+..+|+|||||+|.+++.+++..|..+++..|. |..++.+++       .+||++..+|.++.++  + +|++++.++
T Consensus        20 ~~g~~VlDIGtGsG~l~i~la~~~~~~~V~avDi~~~al~~A~~N~~~~gl~~~I~v~~gD~l~~~~~~~~~D~Iviagm   99 (244)
T 3gnl_A           20 TKNERIADIGSDHAYLPCFAVKNQTASFAIAGEVVDGPFQSAQKQVRSSGLTEQIDVRKGNGLAVIEKKDAIDTIVIAGM   99 (244)
T ss_dssp             CSSEEEEEETCSTTHHHHHHHHTTSEEEEEEEESSHHHHHHHHHHHHHTTCTTTEEEEECSGGGGCCGGGCCCEEEEEEE
T ss_pred             CCCCEEEEECCccHHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHHHHcCCCceEEEEecchhhccCccccccEEEEeCC
Confidence            3558999999999999999999999999999998 666666553       5789999999999654  3 999987654

>3cc8_A Putative methyltransferase; structural genomics, joint center for structural genomics, JCSG, protein structure initiative, PS transferase; 1.64A {Bacillus cereus}

Probab=98.44  E-value=4.1e-07  Score=75.18  Aligned_cols=80  Identities=21%  Similarity=0.173  Sum_probs=61.7

Q ss_pred             HHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCCCCCeEEEEccCCC---CCC--CccE
Q 042491          180 STLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPVYEGVSHVGGDMLN---AVP--NADA  253 (266)
Q Consensus       180 ~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~~ri~~~~gd~~~---~~p--~aD~  253 (266)
                      ..+++.++   ....+|||||||+|.++..+++. + .+++++|. +.+++.++.. -.+++.+|+.+   +++  .+|+
T Consensus        23 ~~l~~~~~---~~~~~vLdiG~G~G~~~~~l~~~-~-~~~~~~D~~~~~~~~~~~~-~~~~~~~d~~~~~~~~~~~~fD~   96 (230)
T 3cc8_A           23 PNLLKHIK---KEWKEVLDIGCSSGALGAAIKEN-G-TRVSGIEAFPEAAEQAKEK-LDHVVLGDIETMDMPYEEEQFDC   96 (230)
T ss_dssp             HHHHTTCC---TTCSEEEEETCTTSHHHHHHHTT-T-CEEEEEESSHHHHHHHHTT-SSEEEESCTTTCCCCSCTTCEEE
T ss_pred             HHHHHHhc---cCCCcEEEeCCCCCHHHHHHHhc-C-CeEEEEeCCHHHHHHHHHh-CCcEEEcchhhcCCCCCCCccCE
Confidence            34455443   35689999999999999999998 5 89999998 7777766542 24788999875   344  3999


Q ss_pred             EEeccccccCCC
Q 042491          254 VFMKVIVLIQDL  265 (266)
Q Consensus       254 ~~l~~vLHd~~~  265 (266)
                      +++..++|.+++
T Consensus        97 v~~~~~l~~~~~  108 (230)
T 3cc8_A           97 VIFGDVLEHLFD  108 (230)
T ss_dssp             EEEESCGGGSSC
T ss_pred             EEECChhhhcCC
Confidence            999999998764

>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=98.43  E-value=2e-07  Score=80.72  Aligned_cols=74  Identities=19%  Similarity=0.195  Sum_probs=58.6

Q ss_pred             CCceEEEecCCchH----HHHHHHHHCC----CCeEEEeec-HHHHhhCCCC----------------------------
Q 042491          192 GIRSLVDVGGGTGE----ELAEIVEFYP----HIKGVNFDL-PHVVATAPVY----------------------------  234 (266)
Q Consensus       192 ~~~~vvDvGgG~G~----~~~~l~~~~P----~l~~~~~Dl-p~v~~~a~~~----------------------------  234 (266)
                      +..+|+|+|||+|.    +++.|++..|    +.++++.|+ +.+++.|++.                            
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            34799999999998    6666777756    468999998 7777655420                            


Q ss_pred             ---------CCeEEEEccCCC-CCC---CccEEEeccccccCCC
Q 042491          235 ---------EGVSHVGGDMLN-AVP---NADAVFMKVIVLIQDL  265 (266)
Q Consensus       235 ---------~ri~~~~gd~~~-~~p---~aD~~~l~~vLHd~~~  265 (266)
                               ++|+|..+|+.+ ++|   .+|+|+++++||++++
T Consensus       185 ~~~v~~~lr~~V~F~~~dl~~~~~~~~~~fDlI~crnvliyf~~  228 (274)
T 1af7_A          185 LVRVRQELANYVEFSSVNLLEKQYNVPGPFDAIFCRNVMIYFDK  228 (274)
T ss_dssp             EEEECHHHHTTEEEEECCTTCSSCCCCCCEEEEEECSSGGGSCH
T ss_pred             ceeechhhcccCeEEecccCCCCCCcCCCeeEEEECCchHhCCH
Confidence                     379999999999 465   4999999999998863

>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=98.43  E-value=4.7e-07  Score=74.83  Aligned_cols=68  Identities=18%  Similarity=0.253  Sum_probs=57.0

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCC-C--CC--CccEEEeccc
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLN-A--VP--NADAVFMKVI  259 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~-~--~p--~aD~~~l~~v  259 (266)
                      ...+|||||||+|.++..+++.+|+.+++++|. +.+++.+++      .++|+++.+|+.+ +  ++  .+|++++...
T Consensus        41 ~~~~vLDiGcG~G~~~~~la~~~p~~~v~gvD~s~~~l~~a~~~~~~~~~~~v~~~~~d~~~~~~~~~~~~~D~i~~~~~  120 (214)
T 1yzh_A           41 DNPIHVEVGSGKGAFVSGMAKQNPDINYIGIDIQKSVLSYALDKVLEVGVPNIKLLWVDGSDLTDYFEDGEIDRLYLNFS  120 (214)
T ss_dssp             CCCEEEEESCTTSHHHHHHHHHCTTSEEEEEESCHHHHHHHHHHHHHHCCSSEEEEECCSSCGGGTSCTTCCSEEEEESC
T ss_pred             CCCeEEEEccCcCHHHHHHHHHCCCCCEEEEEcCHHHHHHHHHHHHHcCCCCEEEEeCCHHHHHhhcCCCCCCEEEEECC
Confidence            457999999999999999999999999999998 777776654      3689999999987 3  54  3899988643

>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=98.43  E-value=1.3e-07  Score=79.49  Aligned_cols=73  Identities=11%  Similarity=0.103  Sum_probs=60.2

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCC-CCC--CccEEEeccccc
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLN-AVP--NADAVFMKVIVL  261 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~-~~p--~aD~~~l~~vLH  261 (266)
                      ...+|||||||+|.++..+++.. ..+++++|. +.+++.+++      ..+++++.+|+.+ +.+  .+|+|++..+||
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            46899999999999999999987 568999998 777776653      2368999999877 444  399999999999


Q ss_pred             cCCC
Q 042491          262 IQDL  265 (266)
Q Consensus       262 d~~~  265 (266)
                      .+++
T Consensus       158 ~~~~  161 (241)
T 2ex4_A          158 HLTD  161 (241)
T ss_dssp             GSCH
T ss_pred             hCCH
Confidence            8764

>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=98.43  E-value=3.1e-07  Score=79.16  Aligned_cols=74  Identities=15%  Similarity=0.138  Sum_probs=58.2

Q ss_pred             HHHhhcccCCCCCceEEEecCCchHHHHHHHHH-CCCCeEEEeec-HHHHhhCCC----C---CCeEEEEccCCCCCCC-
Q 042491          181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEF-YPHIKGVNFDL-PHVVATAPV----Y---EGVSHVGGDMLNAVPN-  250 (266)
Q Consensus       181 ~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~-~P~l~~~~~Dl-p~v~~~a~~----~---~ri~~~~gd~~~~~p~-  250 (266)
                      .++..++  .....+|||+|||+|.++..+++. +|..+++++|. |.+++.+++    .   ++++++.+|+.+++|+ 
T Consensus       101 ~~~~~~~--~~~~~~VLD~G~G~G~~~~~la~~~~~~~~v~~vD~s~~~~~~a~~~~~~~~g~~~v~~~~~d~~~~~~~~  178 (275)
T 1yb2_A          101 YIIMRCG--LRPGMDILEVGVGSGNMSSYILYALNGKGTLTVVERDEDNLKKAMDNLSEFYDIGNVRTSRSDIADFISDQ  178 (275)
T ss_dssp             -----CC--CCTTCEEEEECCTTSHHHHHHHHHHTTSSEEEEECSCHHHHHHHHHHHHTTSCCTTEEEECSCTTTCCCSC
T ss_pred             HHHHHcC--CCCcCEEEEecCCCCHHHHHHHHHcCCCCEEEEEECCHHHHHHHHHHHHhcCCCCcEEEEECchhccCcCC
Confidence            3444455  566789999999999999999998 89999999998 777765543    2   5899999999987663 


Q ss_pred             -ccEEEe
Q 042491          251 -ADAVFM  256 (266)
Q Consensus       251 -aD~~~l  256 (266)
                       +|+|++
T Consensus       179 ~fD~Vi~  185 (275)
T 1yb2_A          179 MYDAVIA  185 (275)
T ss_dssp             CEEEEEE
T ss_pred             CccEEEE
Confidence             999997

>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=98.43  E-value=4.7e-07  Score=76.66  Aligned_cols=74  Identities=15%  Similarity=0.179  Sum_probs=61.9

Q ss_pred             HHHhhcccCCCCCceEEEecCCchHHHHHHHHH-CCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCCCCC-
Q 042491          181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEF-YPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNAVPN-  250 (266)
Q Consensus       181 ~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~-~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~~p~-  250 (266)
                      .++..++  .....+|||+|||+|.++..+++. .|..+++++|. |+.++.+++       .+|++++.+|+.+.+|. 
T Consensus        84 ~i~~~~~--~~~~~~vldiG~G~G~~~~~l~~~~~~~~~v~~~D~~~~~~~~a~~~~~~~~~~~~v~~~~~d~~~~~~~~  161 (255)
T 3mb5_A           84 LIVAYAG--ISPGDFIVEAGVGSGALTLFLANIVGPEGRVVSYEIREDFAKLAWENIKWAGFDDRVTIKLKDIYEGIEEE  161 (255)
T ss_dssp             HHHHHTT--CCTTCEEEEECCTTSHHHHHHHHHHCTTSEEEEECSCHHHHHHHHHHHHHHTCTTTEEEECSCGGGCCCCC
T ss_pred             HHHHhhC--CCCCCEEEEecCCchHHHHHHHHHhCCCeEEEEEecCHHHHHHHHHHHHHcCCCCceEEEECchhhccCCC
Confidence            4455555  567789999999999999999999 89999999998 777776654       46799999999987763 


Q ss_pred             -ccEEEe
Q 042491          251 -ADAVFM  256 (266)
Q Consensus       251 -aD~~~l  256 (266)
                       +|++++
T Consensus       162 ~~D~v~~  168 (255)
T 3mb5_A          162 NVDHVIL  168 (255)
T ss_dssp             SEEEEEE
T ss_pred             CcCEEEE
Confidence             999987

>1y8c_A S-adenosylmethionine-dependent methyltransferase; structural genomics, protein structure initiative, PSI; 2.50A {Clostridium acetobutylicum} SCOP: c.66.1.43

Probab=98.42  E-value=4.1e-07  Score=76.08  Aligned_cols=70  Identities=14%  Similarity=0.069  Sum_probs=58.8

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-----CCCeEEEEccCCC-CCCC-ccEEEecc-cccc
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-----YEGVSHVGGDMLN-AVPN-ADAVFMKV-IVLI  262 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-----~~ri~~~~gd~~~-~~p~-aD~~~l~~-vLHd  262 (266)
                      ...+|||||||+|.++..+++.  ..+++++|. |.+++.+++     ..+++++.+|+.+ +.++ +|+|++.. +||.
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            5579999999999999999998  458999998 777776654     2389999999988 4554 99999998 9998


Q ss_pred             C
Q 042491          263 Q  263 (266)
Q Consensus       263 ~  263 (266)
                      +
T Consensus       115 ~  115 (246)
T 1y8c_A          115 I  115 (246)
T ss_dssp             C
T ss_pred             c
Confidence            7

>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=98.42  E-value=1.4e-07  Score=77.22  Aligned_cols=66  Identities=18%  Similarity=0.137  Sum_probs=55.0

Q ss_pred             CceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCCCCC--CccEEEecc
Q 042491          193 IRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLNAVP--NADAVFMKV  258 (266)
Q Consensus       193 ~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~~~p--~aD~~~l~~  258 (266)
                      ..+|||||||+|..+..+++.+|+.+++++|. |.+++.++.      .++++++.+|+.+..|  .+|++++..
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            57999999999999999999999999999998 777766553      2459999999988443  499998653

>2pxx_A Uncharacterized protein MGC2408; structural genomics consortium, SGC, methyltransferase, LOC84291, transferase; HET: SAH; 1.30A {Homo sapiens}

Probab=98.41  E-value=4.1e-07  Score=74.46  Aligned_cols=71  Identities=17%  Similarity=0.053  Sum_probs=58.7

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC----CCCeEEEEccCCC-CCC--CccEEEecccccc
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV----YEGVSHVGGDMLN-AVP--NADAVFMKVIVLI  262 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~----~~ri~~~~gd~~~-~~p--~aD~~~l~~vLHd  262 (266)
                      ....+|||||||+|.++..+++..+. +++++|. |.+++.+++    .++++++.+|+.+ +++  .+|+|++..++|.
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            45679999999999999999999776 8999998 667665543    3689999999988 565  3999999888754

>4dzr_A Protein-(glutamine-N5) methyltransferase, release specific; structural genomics, PSI-biology; 2.55A {Alicyclobacillus acidocaldarius subsp}

Probab=98.41  E-value=1e-07  Score=78.05  Aligned_cols=76  Identities=20%  Similarity=0.179  Sum_probs=50.8

Q ss_pred             HHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-----CCCeEEEEccCCCCCC-----
Q 042491          181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-----YEGVSHVGGDMLNAVP-----  249 (266)
Q Consensus       181 ~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-----~~ri~~~~gd~~~~~p-----  249 (266)
                      .+++.++. .....+|||||||+|.++..+++.+|+.+++++|+ |.+++.+++     ..+++++.+|+.++++     
T Consensus        20 ~~~~~l~~-~~~~~~vLDiG~G~G~~~~~l~~~~~~~~v~~vD~~~~~~~~a~~~~~~~~~~~~~~~~d~~~~~~~~~~~   98 (215)
T 4dzr_A           20 EAIRFLKR-MPSGTRVIDVGTGSGCIAVSIALACPGVSVTAVDLSMDALAVARRNAERFGAVVDWAAADGIEWLIERAER   98 (215)
T ss_dssp             HHHHHHTT-CCTTEEEEEEESSBCHHHHHHHHHCTTEEEEEEECC-------------------CCHHHHHHHHHHHHHT
T ss_pred             HHHHHhhh-cCCCCEEEEecCCHhHHHHHHHHhCCCCeEEEEECCHHHHHHHHHHHHHhCCceEEEEcchHhhhhhhhhc
Confidence            34444431 25678999999999999999999999999999998 788877765     1178999999988532     


Q ss_pred             --CccEEEec
Q 042491          250 --NADAVFMK  257 (266)
Q Consensus       250 --~aD~~~l~  257 (266)
                        .+|++++.
T Consensus        99 ~~~fD~i~~n  108 (215)
T 4dzr_A           99 GRPWHAIVSN  108 (215)
T ss_dssp             TCCBSEEEEC
T ss_pred             cCcccEEEEC
Confidence              49999984

>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=98.41  E-value=5.1e-07  Score=74.46  Aligned_cols=80  Identities=16%  Similarity=0.098  Sum_probs=62.6

Q ss_pred             HHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCCCCCeEEEEccCCCC-----CC-C-cc
Q 042491          181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPVYEGVSHVGGDMLNA-----VP-N-AD  252 (266)
Q Consensus       181 ~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~~ri~~~~gd~~~~-----~p-~-aD  252 (266)
                      .++..+.  .....+|||||||+|.++..+++.  ..+++++|+ +.+++.+++..+++++.+|+.+.     .+ + +|
T Consensus        43 ~~~~~~~--~~~~~~vLdiG~G~G~~~~~l~~~--~~~v~~vD~s~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~fD  118 (227)
T 3e8s_A           43 AILLAIL--GRQPERVLDLGCGEGWLLRALADR--GIEAVGVDGDRTLVDAARAAGAGEVHLASYAQLAEAKVPVGKDYD  118 (227)
T ss_dssp             HHHHHHH--HTCCSEEEEETCTTCHHHHHHHTT--TCEEEEEESCHHHHHHHHHTCSSCEEECCHHHHHTTCSCCCCCEE
T ss_pred             HHHHHhh--cCCCCEEEEeCCCCCHHHHHHHHC--CCEEEEEcCCHHHHHHHHHhcccccchhhHHhhcccccccCCCcc
Confidence            3455444  345589999999999999999998  568999998 77787776667888998887652     22 3 99


Q ss_pred             EEEeccccccCCC
Q 042491          253 AVFMKVIVLIQDL  265 (266)
Q Consensus       253 ~~~l~~vLHd~~~  265 (266)
                      +|++..++| +.+
T Consensus       119 ~v~~~~~l~-~~~  130 (227)
T 3e8s_A          119 LICANFALL-HQD  130 (227)
T ss_dssp             EEEEESCCC-SSC
T ss_pred             EEEECchhh-hhh
Confidence            999999999 554

>2pjd_A Ribosomal RNA small subunit methyltransferase C; gene duplication, RNA modification, SAM binding; 2.10A {Escherichia coli}

Probab=98.41  E-value=2.9e-07  Score=82.01  Aligned_cols=80  Identities=18%  Similarity=0.148  Sum_probs=63.5

Q ss_pred             HHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-----CCCeEEEEccCCCCCC-CccE
Q 042491          181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-----YEGVSHVGGDMLNAVP-NADA  253 (266)
Q Consensus       181 ~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-----~~ri~~~~gd~~~~~p-~aD~  253 (266)
                      .+++.++  .....+|||||||+|.++..+++.+|+.+++++|. +.+++.+++     .-+++++.+|+++..+ .+|+
T Consensus       187 ~ll~~l~--~~~~~~VLDlGcG~G~~~~~la~~~~~~~v~~vD~s~~~l~~a~~~~~~~~~~~~~~~~d~~~~~~~~fD~  264 (343)
T 2pjd_A          187 LLLSTLT--PHTKGKVLDVGCGAGVLSVAFARHSPKIRLTLCDVSAPAVEASRATLAANGVEGEVFASNVFSEVKGRFDM  264 (343)
T ss_dssp             HHHHHSC--TTCCSBCCBTTCTTSHHHHHHHHHCTTCBCEEEESBHHHHHHHHHHHHHTTCCCEEEECSTTTTCCSCEEE
T ss_pred             HHHHhcC--cCCCCeEEEecCccCHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHHHhCCCCEEEEccccccccCCeeE
Confidence            4455554  23456899999999999999999999999999998 666766553     3347889999988545 4999


Q ss_pred             EEecccccc
Q 042491          254 VFMKVIVLI  262 (266)
Q Consensus       254 ~~l~~vLHd  262 (266)
                      |++...+|.
T Consensus       265 Iv~~~~~~~  273 (343)
T 2pjd_A          265 IISNPPFHD  273 (343)
T ss_dssp             EEECCCCCS
T ss_pred             EEECCCccc
Confidence            999998885

>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=98.41  E-value=7.9e-07  Score=76.51  Aligned_cols=66  Identities=18%  Similarity=0.269  Sum_probs=56.8

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCCCCC--CccEEEec
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLNAVP--NADAVFMK  257 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~~~p--~aD~~~l~  257 (266)
                      ...+|||||||+|..+..+++.+|+.+++++|. +.+++.+++      .++++++.+|++++++  .+|+|++.
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            457999999999999999999999999999998 777776653      3589999999998763  49999987

>3e23_A Uncharacterized protein RPA2492; alpha-beta protein, structural genomics, PSI-2, protein structure initiative; HET: SAM; 1.60A {Rhodopseudomonas palustris}

Probab=98.40  E-value=2.5e-07  Score=76.07  Aligned_cols=73  Identities=16%  Similarity=0.133  Sum_probs=59.9

Q ss_pred             CCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCCCCCeEEEEccCCC-CCCC-ccEEEeccccccCC
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPVYEGVSHVGGDMLN-AVPN-ADAVFMKVIVLIQD  264 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~~ri~~~~gd~~~-~~p~-aD~~~l~~vLHd~~  264 (266)
                      +....+|||||||+|.++..+++.  ..+++++|. +.+++.+++.-+++++.+|+.+ +.++ +|+|++..+||.++
T Consensus        41 ~~~~~~vLDiGcG~G~~~~~l~~~--~~~v~~vD~s~~~~~~a~~~~~~~~~~~d~~~~~~~~~fD~v~~~~~l~~~~  116 (211)
T 3e23_A           41 LPAGAKILELGCGAGYQAEAMLAA--GFDVDATDGSPELAAEASRRLGRPVRTMLFHQLDAIDAYDAVWAHACLLHVP  116 (211)
T ss_dssp             SCTTCEEEESSCTTSHHHHHHHHT--TCEEEEEESCHHHHHHHHHHHTSCCEECCGGGCCCCSCEEEEEECSCGGGSC
T ss_pred             cCCCCcEEEECCCCCHHHHHHHHc--CCeEEEECCCHHHHHHHHHhcCCceEEeeeccCCCCCcEEEEEecCchhhcC
Confidence            345679999999999999999988  568999998 7777766653378889999887 4333 99999999999875

>2yxd_A Probable cobalt-precorrin-6Y C(15)-methyltransfer [decarboxylating]; alpha and beta protein (A/B) class; HET: MES; 2.30A {Methanocaldococcus jannaschii}

Probab=98.39  E-value=3.5e-07  Score=72.86  Aligned_cols=74  Identities=15%  Similarity=0.196  Sum_probs=59.8

Q ss_pred             HHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCCCCC--Ccc
Q 042491          182 LLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLNAVP--NAD  252 (266)
Q Consensus       182 ~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~~~p--~aD  252 (266)
                      ++..++  .....+|||||||+|.++..+++  +..+++++|. |.+++.+++      .++++++.+|+.+++|  .+|
T Consensus        27 ~~~~~~--~~~~~~vLdiG~G~G~~~~~l~~--~~~~v~~vD~~~~~~~~a~~~~~~~~~~~~~~~~~d~~~~~~~~~~D  102 (183)
T 2yxd_A           27 SIGKLN--LNKDDVVVDVGCGSGGMTVEIAK--RCKFVYAIDYLDGAIEVTKQNLAKFNIKNCQIIKGRAEDVLDKLEFN  102 (183)
T ss_dssp             HHHHHC--CCTTCEEEEESCCCSHHHHHHHT--TSSEEEEEECSHHHHHHHHHHHHHTTCCSEEEEESCHHHHGGGCCCS
T ss_pred             HHHHcC--CCCCCEEEEeCCCCCHHHHHHHh--cCCeEEEEeCCHHHHHHHHHHHHHcCCCcEEEEECCccccccCCCCc
Confidence            344444  45667999999999999999999  8889999998 777766654      2689999999988665  499


Q ss_pred             EEEeccc
Q 042491          253 AVFMKVI  259 (266)
Q Consensus       253 ~~~l~~v  259 (266)
                      ++++..+
T Consensus       103 ~i~~~~~  109 (183)
T 2yxd_A          103 KAFIGGT  109 (183)
T ss_dssp             EEEECSC
T ss_pred             EEEECCc
Confidence            9998876

>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=98.39  E-value=5.5e-07  Score=75.29  Aligned_cols=69  Identities=20%  Similarity=0.256  Sum_probs=57.6

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-----CCCeEEEEccCCC-CCCC-ccEEEecc-cccc
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-----YEGVSHVGGDMLN-AVPN-ADAVFMKV-IVLI  262 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-----~~ri~~~~gd~~~-~~p~-aD~~~l~~-vLHd  262 (266)
                      ...+|||||||+|.++..+++.   .+++++|. |.+++.+++     ..+++++.+|+.+ +.++ +|++++.. ++|.
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            4589999999999999999887   68999998 777776654     3689999999988 4554 99999986 8887


Q ss_pred             C
Q 042491          263 Q  263 (266)
Q Consensus       263 ~  263 (266)
                      .
T Consensus       110 ~  110 (243)
T 3d2l_A          110 L  110 (243)
T ss_dssp             C
T ss_pred             c
Confidence            6

>2gs9_A Hypothetical protein TT1324; methyl transferase, structural genomics, NPPSFA, national PR protein structural and functional analyses; HET: SAH; 2.60A {Thermus thermophilus}

Probab=98.39  E-value=5.4e-07  Score=73.94  Aligned_cols=69  Identities=20%  Similarity=0.181  Sum_probs=57.4

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCC-eEEEeec-HHHHhhCCC-CCCeEEEEccCCC-CCC--CccEEEeccccccCCC
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHI-KGVNFDL-PHVVATAPV-YEGVSHVGGDMLN-AVP--NADAVFMKVIVLIQDL  265 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l-~~~~~Dl-p~v~~~a~~-~~ri~~~~gd~~~-~~p--~aD~~~l~~vLHd~~~  265 (266)
                      ...+|||||||+|.++..+     .. +++++|. +.+++.+++ ..+++++.+|+.+ +++  .+|++++..++|..++
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            5679999999999999888     45 8999998 677776654 4789999999988 565  3999999999998764

>3g2m_A PCZA361.24; SAM-dependent methyltransferase, glycopeptide antibiotics biosynthesis, structural genomics; 2.00A {Amycolatopsis orientalis} PDB: 3g2o_A* 3g2p_A* 3g2q_A*

Probab=98.39  E-value=3.9e-07  Score=79.22  Aligned_cols=81  Identities=15%  Similarity=0.152  Sum_probs=61.8

Q ss_pred             HHHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-----C----CCeEEEEccCCC-C
Q 042491          179 MSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-----Y----EGVSHVGGDMLN-A  247 (266)
Q Consensus       179 ~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-----~----~ri~~~~gd~~~-~  247 (266)
                      ...++..++  . ...+|||||||+|.++..+++.  ..+++++|+ |.+++.+++     .    .+|+++.+|+.+ +
T Consensus        72 ~~~~~~~~~--~-~~~~vLDlGcG~G~~~~~l~~~--~~~v~gvD~s~~~~~~a~~~~~~~~~~~~~~v~~~~~d~~~~~  146 (299)
T 3g2m_A           72 AREFATRTG--P-VSGPVLELAAGMGRLTFPFLDL--GWEVTALELSTSVLAAFRKRLAEAPADVRDRCTLVQGDMSAFA  146 (299)
T ss_dssp             HHHHHHHHC--C-CCSCEEEETCTTTTTHHHHHTT--TCCEEEEESCHHHHHHHHHHHHTSCHHHHTTEEEEECBTTBCC
T ss_pred             HHHHHHhhC--C-CCCcEEEEeccCCHHHHHHHHc--CCeEEEEECCHHHHHHHHHHHhhcccccccceEEEeCchhcCC
Confidence            344555554  2 3349999999999999999998  568999998 777777664     1    789999999998 5


Q ss_pred             CCC-ccEEEec-cccccCC
Q 042491          248 VPN-ADAVFMK-VIVLIQD  264 (266)
Q Consensus       248 ~p~-aD~~~l~-~vLHd~~  264 (266)
                      .++ +|+|++. .++|..+
T Consensus       147 ~~~~fD~v~~~~~~~~~~~  165 (299)
T 3g2m_A          147 LDKRFGTVVISSGSINELD  165 (299)
T ss_dssp             CSCCEEEEEECHHHHTTSC
T ss_pred             cCCCcCEEEECCcccccCC
Confidence            554 9988865 6666554

>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=98.39  E-value=1.7e-07  Score=80.95  Aligned_cols=73  Identities=19%  Similarity=0.105  Sum_probs=59.5

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC----------CCCeEEEEccCCC-C---CC--CccE
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV----------YEGVSHVGGDMLN-A---VP--NADA  253 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~----------~~ri~~~~gd~~~-~---~p--~aD~  253 (266)
                      .+..+|||||||+|.++..+++..+  +++++|+ |.+++.+++          ..++.+..+|+.+ +   ++  .+|+
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            3567999999999999999999854  8999998 667766532          3678999999888 4   44  3999


Q ss_pred             EEec-cccccCCC
Q 042491          254 VFMK-VIVLIQDL  265 (266)
Q Consensus       254 ~~l~-~vLHd~~~  265 (266)
                      |++. +++|.+.+
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 89998765

>3grz_A L11 mtase, ribosomal protein L11 methyltransferase; methylase, SAM-binding domain, PSI-2, nysgxrc; 2.00A {Lactobacillus delbrueckii subsp}

Probab=98.38  E-value=7.4e-07  Score=72.93  Aligned_cols=71  Identities=15%  Similarity=0.149  Sum_probs=57.3

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCCCCCC-ccEEEecccccc
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLNAVPN-ADAVFMKVIVLI  262 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~~~p~-aD~~~l~~vLHd  262 (266)
                      ....+|||||||+|.++..+++ .|..+++++|. +.+++.+++      ..+++++.+|+.+..++ +|++++...+|.
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            3567999999999999999776 57789999998 777776653      23499999999886554 999999877764

>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=98.37  E-value=3.3e-07  Score=78.27  Aligned_cols=71  Identities=7%  Similarity=-0.033  Sum_probs=57.6

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-----------------------CCCeEEEEccCCC-
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-----------------------YEGVSHVGGDMLN-  246 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-----------------------~~ri~~~~gd~~~-  246 (266)
                      ...+|||||||+|..+..|++.  ..+++++|+ |.+++.+++                       ..+|+++.+|+++ 
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            5579999999999999999987  568999998 777765531                       2589999999998 


Q ss_pred             CCC---CccEEEeccccccCC
Q 042491          247 AVP---NADAVFMKVIVLIQD  264 (266)
Q Consensus       247 ~~p---~aD~~~l~~vLHd~~  264 (266)
                      +.+   .+|+|+.+.+||..+
T Consensus       146 ~~~~~~~FD~V~~~~~l~~l~  166 (252)
T 2gb4_A          146 PRANIGKFDRIWDRGALVAIN  166 (252)
T ss_dssp             GGGCCCCEEEEEESSSTTTSC
T ss_pred             CcccCCCEEEEEEhhhhhhCC
Confidence            432   499999988887653

>1dus_A MJ0882; hypothetical protein, methanococcus jannaschii, structural genomics, BSGC structure funded by NIH; 1.80A {Methanocaldococcus jannaschii} SCOP: c.66.1.4

Probab=98.37  E-value=1.1e-06  Score=70.49  Aligned_cols=78  Identities=14%  Similarity=0.170  Sum_probs=61.5

Q ss_pred             HHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CC--CeEEEEccCCCCCC--
Q 042491          181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YE--GVSHVGGDMLNAVP--  249 (266)
Q Consensus       181 ~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~--ri~~~~gd~~~~~p--  249 (266)
                      .+++.+.  .....+|||||||+|.++..+++.  ..+++++|. |.+++.++.      .+  |++++.+|+.++.+  
T Consensus        43 ~l~~~~~--~~~~~~vLdiG~G~G~~~~~~~~~--~~~v~~~D~~~~~~~~a~~~~~~~~~~~~~~~~~~~d~~~~~~~~  118 (194)
T 1dus_A           43 ILVENVV--VDKDDDILDLGCGYGVIGIALADE--VKSTTMADINRRAIKLAKENIKLNNLDNYDIRVVHSDLYENVKDR  118 (194)
T ss_dssp             HHHHHCC--CCTTCEEEEETCTTSHHHHHHGGG--SSEEEEEESCHHHHHHHHHHHHHTTCTTSCEEEEECSTTTTCTTS
T ss_pred             HHHHHcc--cCCCCeEEEeCCCCCHHHHHHHHc--CCeEEEEECCHHHHHHHHHHHHHcCCCccceEEEECchhcccccC
Confidence            3455555  456689999999999999999998  779999998 677665553      22  59999999998654  


Q ss_pred             CccEEEecccccc
Q 042491          250 NADAVFMKVIVLI  262 (266)
Q Consensus       250 ~aD~~~l~~vLHd  262 (266)
                      .+|++++...+|.
T Consensus       119 ~~D~v~~~~~~~~  131 (194)
T 1dus_A          119 KYNKIITNPPIRA  131 (194)
T ss_dssp             CEEEEEECCCSTT
T ss_pred             CceEEEECCCccc
Confidence            3999999887763

>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=98.36  E-value=1e-06  Score=78.66  Aligned_cols=81  Identities=15%  Similarity=0.132  Sum_probs=62.9

Q ss_pred             HHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeecHHHHhhCCC-------CCCeEEEEccCCC-CCCC-c
Q 042491          181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPV-------YEGVSHVGGDMLN-AVPN-A  251 (266)
Q Consensus       181 ~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~a~~-------~~ri~~~~gd~~~-~~p~-a  251 (266)
                      .++..+.  .....+|||||||+|.++..++++ +..+++++|..++++.+++       .++|+++.+|+.+ ++|+ +
T Consensus        41 ~i~~~l~--~~~~~~VLDiGcGtG~ls~~la~~-g~~~V~~vD~s~~~~~a~~~~~~~~l~~~v~~~~~d~~~~~~~~~~  117 (348)
T 2y1w_A           41 AILQNHT--DFKDKIVLDVGCGSGILSFFAAQA-GARKIYAVEASTMAQHAEVLVKSNNLTDRIVVIPGKVEEVSLPEQV  117 (348)
T ss_dssp             HHHHTGG--GTTTCEEEEETCTTSHHHHHHHHT-TCSEEEEEECSTHHHHHHHHHHHTTCTTTEEEEESCTTTCCCSSCE
T ss_pred             HHHhccc--cCCcCEEEEcCCCccHHHHHHHhC-CCCEEEEECCHHHHHHHHHHHHHcCCCCcEEEEEcchhhCCCCCce
Confidence            3455554  345679999999999999998886 6679999999666655443       3789999999988 5665 9


Q ss_pred             cEEEeccccccCC
Q 042491          252 DAVFMKVIVLIQD  264 (266)
Q Consensus       252 D~~~l~~vLHd~~  264 (266)
                      |+|+...++|.+.
T Consensus       118 D~Ivs~~~~~~~~  130 (348)
T 2y1w_A          118 DIIISEPMGYMLF  130 (348)
T ss_dssp             EEEEECCCBTTBT
T ss_pred             eEEEEeCchhcCC
Confidence            9999988877653

>3njr_A Precorrin-6Y methylase; methyltransferase, decarboxylase, transferase; HET: SAH PG4; 2.70A {Rhodobacter capsulatus}

Probab=98.36  E-value=1.4e-06  Score=71.80  Aligned_cols=74  Identities=20%  Similarity=0.202  Sum_probs=58.6

Q ss_pred             HHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCC---CCC
Q 042491          182 LLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNA---VPN  250 (266)
Q Consensus       182 ~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~---~p~  250 (266)
                      ++..++  .....+|||||||+|.++..+++.  ..+++++|. |++++.+++       .++|+++.+|+.+.   .+.
T Consensus        47 ~l~~l~--~~~~~~vLDlGcG~G~~~~~la~~--~~~v~~vD~s~~~~~~a~~~~~~~g~~~~v~~~~~d~~~~~~~~~~  122 (204)
T 3njr_A           47 TLAALA--PRRGELLWDIGGGSGSVSVEWCLA--GGRAITIEPRADRIENIQKNIDTYGLSPRMRAVQGTAPAALADLPL  122 (204)
T ss_dssp             HHHHHC--CCTTCEEEEETCTTCHHHHHHHHT--TCEEEEEESCHHHHHHHHHHHHHTTCTTTEEEEESCTTGGGTTSCC
T ss_pred             HHHhcC--CCCCCEEEEecCCCCHHHHHHHHc--CCEEEEEeCCHHHHHHHHHHHHHcCCCCCEEEEeCchhhhcccCCC
Confidence            344444  556689999999999999999998  779999998 777776653       23899999999883   346


Q ss_pred             ccEEEeccc
Q 042491          251 ADAVFMKVI  259 (266)
Q Consensus       251 aD~~~l~~v  259 (266)
                      +|++++...
T Consensus       123 ~D~v~~~~~  131 (204)
T 3njr_A          123 PEAVFIGGG  131 (204)
T ss_dssp             CSEEEECSC
T ss_pred             CCEEEECCc
Confidence            999997653

>3htx_A HEN1; HEN1, small RNA methyltransferase, protein-RNA complex; HET: SAH; 3.10A {Arabidopsis thaliana}

Probab=98.35  E-value=5.5e-07  Score=87.95  Aligned_cols=74  Identities=19%  Similarity=0.288  Sum_probs=62.2

Q ss_pred             CCceEEEecCCchHHHHHHHHHC-CCCeEEEeec-HHHHhhCCC------------CCCeEEEEccCCC-CCC--CccEE
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFY-PHIKGVNFDL-PHVVATAPV------------YEGVSHVGGDMLN-AVP--NADAV  254 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~-P~l~~~~~Dl-p~v~~~a~~------------~~ri~~~~gd~~~-~~p--~aD~~  254 (266)
                      +..+|||||||+|.++..+++.. |..+++++|+ +.+++.+++            ..+|+++.+|+.+ +.+  .||+|
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            56899999999999999999998 5679999998 666665532            3579999999988 444  49999


Q ss_pred             EeccccccCCC
Q 042491          255 FMKVIVLIQDL  265 (266)
Q Consensus       255 ~l~~vLHd~~~  265 (266)
                      ++..+||.+++
T Consensus       801 V~~eVLeHL~d  811 (950)
T 3htx_A          801 TCLEVIEHMEE  811 (950)
T ss_dssp             EEESCGGGSCH
T ss_pred             EEeCchhhCCh
Confidence            99999998763

>1vbf_A 231AA long hypothetical protein-L-isoaspartate O- methyltransferase; trimeric coiled coil assembly; 2.80A {Sulfolobus tokodaii} SCOP: c.66.1.7

Probab=98.34  E-value=1.4e-06  Score=72.52  Aligned_cols=80  Identities=19%  Similarity=0.182  Sum_probs=63.2

Q ss_pred             HHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC----CCCeEEEEccCCCCCC---Ccc
Q 042491          181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV----YEGVSHVGGDMLNAVP---NAD  252 (266)
Q Consensus       181 ~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~----~~ri~~~~gd~~~~~p---~aD  252 (266)
                      .++..+.  .....+|||||||+|.++..+++..  .+++++|. +.+++.+++    ..+++++.+|+.+.+|   .+|
T Consensus        61 ~~~~~~~--~~~~~~vLdiG~G~G~~~~~l~~~~--~~v~~vD~~~~~~~~a~~~~~~~~~v~~~~~d~~~~~~~~~~fD  136 (231)
T 1vbf_A           61 FMLDELD--LHKGQKVLEIGTGIGYYTALIAEIV--DKVVSVEINEKMYNYASKLLSYYNNIKLILGDGTLGYEEEKPYD  136 (231)
T ss_dssp             HHHHHTT--CCTTCEEEEECCTTSHHHHHHHHHS--SEEEEEESCHHHHHHHHHHHTTCSSEEEEESCGGGCCGGGCCEE
T ss_pred             HHHHhcC--CCCCCEEEEEcCCCCHHHHHHHHHc--CEEEEEeCCHHHHHHHHHHHhhcCCeEEEECCcccccccCCCcc
Confidence            3444444  5566899999999999999999987  68999998 777766553    2389999999988443   399


Q ss_pred             EEEeccccccCC
Q 042491          253 AVFMKVIVLIQD  264 (266)
Q Consensus       253 ~~~l~~vLHd~~  264 (266)
                      ++++..++|...
T Consensus       137 ~v~~~~~~~~~~  148 (231)
T 1vbf_A          137 RVVVWATAPTLL  148 (231)
T ss_dssp             EEEESSBBSSCC
T ss_pred             EEEECCcHHHHH
Confidence            999999998764

>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=98.33  E-value=1.9e-06  Score=75.35  Aligned_cols=96  Identities=17%  Similarity=0.155  Sum_probs=67.4

Q ss_pred             HHHHHHHHHhhhHHHHHHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC---------
Q 042491          164 NNSFNKAMACTAKIVMSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV---------  233 (266)
Q Consensus       164 ~~~f~~~m~~~~~~~~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~---------  233 (266)
                      .+.|+.++...   ....+++.+........+|||||||+|.++..+++. +..+++++|+ +.+++.+++         
T Consensus         9 lr~~~~~~k~~---l~~~~~~~l~~~~~~~~~VLDlGcG~G~~~~~l~~~-~~~~v~gvD~s~~~l~~a~~~~~~~~~~~   84 (313)
T 3bgv_A            9 LRNFNNWMKSV---LIGEFLEKVRQKKKRDITVLDLGCGKGGDLLKWKKG-RINKLVCTDIADVSVKQCQQRYEDMKNRR   84 (313)
T ss_dssp             HHHHHHHHHHH---HHHHHHHHHHHTC--CCEEEEETCTTTTTHHHHHHT-TCSEEEEEESCHHHHHHHHHHHHHHHSSS
T ss_pred             hhhccHHHHHH---HHHHHHHHhhhccCCCCEEEEECCCCcHHHHHHHhc-CCCEEEEEeCCHHHHHHHHHHHHHhhhcc
Confidence            34566666442   233344443322346689999999999999999884 6779999998 666665543         


Q ss_pred             ----CCCeEEEEccCCC-C----C--C--CccEEEeccccccC
Q 042491          234 ----YEGVSHVGGDMLN-A----V--P--NADAVFMKVIVLIQ  263 (266)
Q Consensus       234 ----~~ri~~~~gd~~~-~----~--p--~aD~~~l~~vLHd~  263 (266)
                          ..+++++.+|+.+ +    +  +  .+|+|++..+||..
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                2379999999987 3    3  3  49999999999864

>3mq2_A 16S rRNA methyltransferase; methyltranferase, ribosomal, antibiotic resistance, aminoglycoside, S-adenosyl-L-methionine; HET: SAH; 1.69A {Streptomyces SP}

Probab=98.32  E-value=1.8e-06  Score=71.25  Aligned_cols=66  Identities=14%  Similarity=0.094  Sum_probs=51.8

Q ss_pred             CCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhh----CCC------CCCeEEEEccCCC-CCC-CccEEE
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVAT----APV------YEGVSHVGGDMLN-AVP-NADAVF  255 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~----a~~------~~ri~~~~gd~~~-~~p-~aD~~~  255 (266)
                      .....+|||||||+|.++..+++.+|+.+++++|+ +.+++.    +++      .++++++.+|+.+ +++ +.|.+.
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            44668999999999999999999999999999998 554442    221      4589999999998 444 236665

>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=98.32  E-value=1.5e-06  Score=74.95  Aligned_cols=71  Identities=17%  Similarity=0.093  Sum_probs=58.2

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCC-CC-C--CccEEEecc
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLN-AV-P--NADAVFMKV  258 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~-~~-p--~aD~~~l~~  258 (266)
                      ....+|||||||+|.++..+++. +..+++++|+ +.+++.+++       ..+++++.+|+.+ ++ +  .+|+|++..
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            45689999999999999998776 5669999998 777766553       2579999999998 55 3  399999999


Q ss_pred             cccc
Q 042491          259 IVLI  262 (266)
Q Consensus       259 vLHd  262 (266)
                      ++|.
T Consensus       142 ~l~~  145 (298)
T 1ri5_A          142 SFHY  145 (298)
T ss_dssp             CGGG
T ss_pred             hhhh
Confidence            9986

>3ntv_A MW1564 protein; rossmann fold, putative methyltransferase, transferase; HET: MSE; 1.55A {Staphylococcus aureus}

Probab=98.32  E-value=5.1e-07  Score=75.77  Aligned_cols=67  Identities=13%  Similarity=0.286  Sum_probs=56.7

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCCCC-----CccEEEecc
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNAVP-----NADAVFMKV  258 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~~p-----~aD~~~l~~  258 (266)
                      +..+|||||||+|..+..+++.+|..+++.+|+ |++++.+++       .++|+++.+|+.+.+|     .+|+|++..
T Consensus        71 ~~~~vLDiG~G~G~~~~~la~~~~~~~v~~vD~~~~~~~~a~~~~~~~~~~~~v~~~~~d~~~~~~~~~~~~fD~V~~~~  150 (232)
T 3ntv_A           71 NVKNILEIGTAIGYSSMQFASISDDIHVTTIERNETMIQYAKQNLATYHFENQVRIIEGNALEQFENVNDKVYDMIFIDA  150 (232)
T ss_dssp             TCCEEEEECCSSSHHHHHHHTTCTTCEEEEEECCHHHHHHHHHHHHHTTCTTTEEEEESCGGGCHHHHTTSCEEEEEEET
T ss_pred             CCCEEEEEeCchhHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHHHHcCCCCcEEEEECCHHHHHHhhccCCccEEEEcC
Confidence            567999999999999999999999999999998 777776654       3689999999988433     399998754

>1ne2_A Hypothetical protein TA1320; structural genomics, conserved hypothetical protein, PSI, protein structure initiative; 1.75A {Thermoplasma acidophilum} SCOP: c.66.1.32

Probab=98.32  E-value=6.7e-07  Score=72.96  Aligned_cols=72  Identities=24%  Similarity=0.243  Sum_probs=57.0

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-CCCeEEEEccCCCCCC-CccEEEeccccccCC
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-YEGVSHVGGDMLNAVP-NADAVFMKVIVLIQD  264 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-~~ri~~~~gd~~~~~p-~aD~~~l~~vLHd~~  264 (266)
                      ....+|||+|||+|.++..+++. +..+++++|. |.+++.++. ..+++++.+|+.+ +| .+|++++.-.+|.+.
T Consensus        50 ~~~~~vlD~gcG~G~~~~~l~~~-~~~~v~~vD~~~~~~~~a~~~~~~~~~~~~d~~~-~~~~~D~v~~~~p~~~~~  124 (200)
T 1ne2_A           50 IGGRSVIDAGTGNGILACGSYLL-GAESVTAFDIDPDAIETAKRNCGGVNFMVADVSE-ISGKYDTWIMNPPFGSVV  124 (200)
T ss_dssp             SBTSEEEEETCTTCHHHHHHHHT-TBSEEEEEESCHHHHHHHHHHCTTSEEEECCGGG-CCCCEEEEEECCCC----
T ss_pred             CCCCEEEEEeCCccHHHHHHHHc-CCCEEEEEECCHHHHHHHHHhcCCCEEEECcHHH-CCCCeeEEEECCCchhcc
Confidence            35579999999999999999987 6568999998 778776664 3389999999988 45 499999998888765

>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=98.31  E-value=7.3e-07  Score=75.56  Aligned_cols=70  Identities=11%  Similarity=0.019  Sum_probs=56.6

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccC----CCCCC-----CccEE
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDM----LNAVP-----NADAV  254 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~----~~~~p-----~aD~~  254 (266)
                      ...+|||||||+|.++..+++++|+.+++++|+ |.+++.+++       .+||+++.+|.    +++++     .+|+|
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            457999999999999999999999999999998 777776653       45799999994    33554     39999


Q ss_pred             Eeccccc
Q 042491          255 FMKVIVL  261 (266)
Q Consensus       255 ~l~~vLH  261 (266)
                      ++.-..|
T Consensus       145 ~~npp~~  151 (254)
T 2h00_A          145 MCNPPFF  151 (254)
T ss_dssp             EECCCCC
T ss_pred             EECCCCc
Confidence            9874444

>2p8j_A S-adenosylmethionine-dependent methyltransferase; NP_349143.1; HET: PGE GOL; 2.00A {Clostridium acetobutylicum}

Probab=98.31  E-value=6.8e-07  Score=73.05  Aligned_cols=73  Identities=12%  Similarity=0.086  Sum_probs=58.0

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-----CCCeEEEEccCCC-CCC-C-ccEEEeccccc
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-----YEGVSHVGGDMLN-AVP-N-ADAVFMKVIVL  261 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-----~~ri~~~~gd~~~-~~p-~-aD~~~l~~vLH  261 (266)
                      ....+|||||||+|.....++.. ++.+++++|. +.+++.+++     ..+++++.+|+.+ ++| + +|++++..++|
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            35579999999999985555544 5679999998 777776553     4689999999988 565 3 99999999999


Q ss_pred             cCC
Q 042491          262 IQD  264 (266)
Q Consensus       262 d~~  264 (266)
                      .++
T Consensus       101 ~~~  103 (209)
T 2p8j_A          101 HMR  103 (209)
T ss_dssp             GSC
T ss_pred             hCC
Confidence            873

>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=98.31  E-value=1.4e-06  Score=72.78  Aligned_cols=66  Identities=11%  Similarity=0.239  Sum_probs=53.6

Q ss_pred             CCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhh----CCCCCCeEEEEccCCCC-----CC-CccEEE
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVAT----APVYEGVSHVGGDMLNA-----VP-NADAVF  255 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~----a~~~~ri~~~~gd~~~~-----~p-~aD~~~  255 (266)
                      +....+|||||||+|.++..+++.+|..+++++|. |.+++.    ++..+++.++.+|+.++     ++ .+|+++
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            45668999999999999999999999889999998 666643    33357899999999862     33 489988

>2fca_A TRNA (guanine-N(7)-)-methyltransferase; 2.10A {Bacillus subtilis} SCOP: c.66.1.53

Probab=98.30  E-value=7.9e-07  Score=73.72  Aligned_cols=66  Identities=20%  Similarity=0.313  Sum_probs=54.3

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCC-C--CC--CccEEEec
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLN-A--VP--NADAVFMK  257 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~-~--~p--~aD~~~l~  257 (266)
                      ...+|||||||+|.++..+++.+|+.+++++|. +.+++.+++      .++|+++.+|+.+ +  +|  .+|.+++.
T Consensus        38 ~~~~vLDiGcG~G~~~~~la~~~p~~~v~giD~s~~~l~~a~~~~~~~~~~nv~~~~~d~~~l~~~~~~~~~d~v~~~  115 (213)
T 2fca_A           38 DNPIHIEVGTGKGQFISGMAKQNPDINYIGIELFKSVIVTAVQKVKDSEAQNVKLLNIDADTLTDVFEPGEVKRVYLN  115 (213)
T ss_dssp             CCCEEEEECCTTSHHHHHHHHHCTTSEEEEECSCHHHHHHHHHHHHHSCCSSEEEECCCGGGHHHHCCTTSCCEEEEE
T ss_pred             CCceEEEEecCCCHHHHHHHHHCCCCCEEEEEechHHHHHHHHHHHHcCCCCEEEEeCCHHHHHhhcCcCCcCEEEEE
Confidence            457899999999999999999999999999998 666665543      3679999999887 3  54  38988764

>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=98.29  E-value=8.2e-07  Score=74.06  Aligned_cols=66  Identities=14%  Similarity=0.211  Sum_probs=54.1

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCCC----CC--CccEEEec
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLNA----VP--NADAVFMK  257 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~~----~p--~aD~~~l~  257 (266)
                      ...+|||||||+|.++..+++.+|+.+++++|. +.+++.+++      .++|+++.+|..+.    +|  .+|.+++.
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            457999999999999999999999999999998 666665442      45799999997662    55  38888875

>3q7e_A Protein arginine N-methyltransferase 1; HET: SAH; 2.20A {Rattus norvegicus} PDB: 1orh_A* 1ori_A* 1or8_A*

Probab=98.29  E-value=1.5e-06  Score=77.68  Aligned_cols=68  Identities=18%  Similarity=0.189  Sum_probs=56.4

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeecHHHHhhCCC-------CCCeEEEEccCCC-CCC-C-ccEEEecccc
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPV-------YEGVSHVGGDMLN-AVP-N-ADAVFMKVIV  260 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~a~~-------~~ri~~~~gd~~~-~~p-~-aD~~~l~~vL  260 (266)
                      ...+|||||||+|.++..++++ +..+++++|..++++.+++       .++|+++.+|+.+ ++| + +|+|+...+.
T Consensus        66 ~~~~VLDvGcG~G~~~~~la~~-g~~~v~gvD~s~~l~~a~~~~~~~~~~~~v~~~~~d~~~~~~~~~~fD~Iis~~~~  143 (349)
T 3q7e_A           66 KDKVVLDVGSGTGILCMFAAKA-GARKVIGIECSSISDYAVKIVKANKLDHVVTIIKGKVEEVELPVEKVDIIISEWMG  143 (349)
T ss_dssp             TTCEEEEESCTTSHHHHHHHHT-TCSEEEEEECSTHHHHHHHHHHHTTCTTTEEEEESCTTTCCCSSSCEEEEEECCCB
T ss_pred             CCCEEEEEeccchHHHHHHHHC-CCCEEEEECcHHHHHHHHHHHHHcCCCCcEEEEECcHHHccCCCCceEEEEEcccc
Confidence            4579999999999999999988 7779999999767666553       5679999999998 677 3 9999986543

>3gjy_A Spermidine synthase; APC62791, structural genomics, PSI-2, protein structure initiative; HET: MSE; 1.47A {Corynebacterium glutamicum atcc 13032}

Probab=98.28  E-value=7e-07  Score=78.68  Aligned_cols=67  Identities=15%  Similarity=0.229  Sum_probs=56.5

Q ss_pred             ceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCC---CCC--CccEEEecccc
Q 042491          194 RSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLN---AVP--NADAVFMKVIV  260 (266)
Q Consensus       194 ~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~---~~p--~aD~~~l~~vL  260 (266)
                      .+|||||||.|.+++.+++.+|+.+++++|+ |.+++.+++      .+|++++.+|..+   ..+  .||+|++--..
T Consensus        91 ~rVLdIG~G~G~la~~la~~~p~~~v~~VEidp~vi~~Ar~~~~~~~~~rv~v~~~Da~~~l~~~~~~~fDvIi~D~~~  169 (317)
T 3gjy_A           91 LRITHLGGGACTMARYFADVYPQSRNTVVELDAELARLSREWFDIPRAPRVKIRVDDARMVAESFTPASRDVIIRDVFA  169 (317)
T ss_dssp             CEEEEESCGGGHHHHHHHHHSTTCEEEEEESCHHHHHHHHHHSCCCCTTTEEEEESCHHHHHHTCCTTCEEEEEECCST
T ss_pred             CEEEEEECCcCHHHHHHHHHCCCcEEEEEECCHHHHHHHHHhccccCCCceEEEECcHHHHHhhccCCCCCEEEECCCC
Confidence            4999999999999999999999999999998 888887653      5799999999876   344  39999985433

>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=98.28  E-value=1.2e-06  Score=72.46  Aligned_cols=66  Identities=20%  Similarity=0.175  Sum_probs=54.8

Q ss_pred             CceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCCCCCeEEEEccCCC-CCC--CccEEEeccccccCCC
Q 042491          193 IRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPVYEGVSHVGGDMLN-AVP--NADAVFMKVIVLIQDL  265 (266)
Q Consensus       193 ~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~~ri~~~~gd~~~-~~p--~aD~~~l~~vLHd~~~  265 (266)
                      ..+|||||||+|.++..+++.      +++|. +.+++.+++. +++++.+|+.+ +++  .+|++++..+||..++
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            679999999999999998765      88898 7777666544 79999999887 555  3999999999998754

>2plw_A Ribosomal RNA methyltransferase, putative; malaria, SAM, structural genomics, structural genomics consortium, SGC; HET: SAM; 1.70A {Plasmodium falciparum}

Probab=98.27  E-value=3.1e-06  Score=68.79  Aligned_cols=76  Identities=17%  Similarity=0.163  Sum_probs=58.6

Q ss_pred             HHhhcccCCCCCceEEEecCCchHHHHHHHHHCC--CCeEEEeecHHHHhhCCCCCCeEEEEccCCC-C-----------
Q 042491          182 LLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYP--HIKGVNFDLPHVVATAPVYEGVSHVGGDMLN-A-----------  247 (266)
Q Consensus       182 ~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P--~l~~~~~Dlp~v~~~a~~~~ri~~~~gd~~~-~-----------  247 (266)
                      +.+.+. .+....+|||||||+|.++..+++++|  +.+++++|+.++    ...++++++.+|+.+ +           
T Consensus        13 ~~~~~~-~~~~~~~vLDlGcG~G~~~~~l~~~~~~~~~~v~gvD~s~~----~~~~~v~~~~~d~~~~~~~~~~~~~~i~   87 (201)
T 2plw_A           13 LDNKYL-FLKKNKIILDIGCYPGSWCQVILERTKNYKNKIIGIDKKIM----DPIPNVYFIQGEIGKDNMNNIKNINYID   87 (201)
T ss_dssp             HHHHHC-CCCTTEEEEEESCTTCHHHHHHHHHTTTSCEEEEEEESSCC----CCCTTCEEEECCTTTTSSCCC-------
T ss_pred             HHHHcC-CCCCCCEEEEeCCCCCHHHHHHHHHcCCCCceEEEEeCCcc----CCCCCceEEEccccchhhhhhccccccc
Confidence            444554 134567999999999999999999998  689999998663    124679999999987 3           


Q ss_pred             --------------CC--CccEEEecccccc
Q 042491          248 --------------VP--NADAVFMKVIVLI  262 (266)
Q Consensus       248 --------------~p--~aD~~~l~~vLHd  262 (266)
                                    ++  .+|++++...+|.
T Consensus        88 ~~~~~~~~~~~~~~~~~~~fD~v~~~~~~~~  118 (201)
T 2plw_A           88 NMNNNSVDYKLKEILQDKKIDIILSDAAVPC  118 (201)
T ss_dssp             ----CHHHHHHHHHHTTCCEEEEEECCCCCC
T ss_pred             cccchhhHHHHHhhcCCCcccEEEeCCCcCC
Confidence                          35  4899998766553

>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=98.26  E-value=1.1e-06  Score=75.51  Aligned_cols=81  Identities=11%  Similarity=-0.013  Sum_probs=56.8

Q ss_pred             HHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC---CCCeEEEEccCCC----CCC-C
Q 042491          180 STLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV---YEGVSHVGGDMLN----AVP-N  250 (266)
Q Consensus       180 ~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~---~~ri~~~~gd~~~----~~p-~  250 (266)
                      ..++..++  .....+|||||||+|.++..++++  ..+++++|. |.+++.+++   ...+.....++..    ..+ .
T Consensus        35 ~~il~~l~--l~~g~~VLDlGcGtG~~a~~La~~--g~~V~gvD~S~~ml~~Ar~~~~~~~v~~~~~~~~~~~~~~~~~~  110 (261)
T 3iv6_A           35 ENDIFLEN--IVPGSTVAVIGASTRFLIEKALER--GASVTVFDFSQRMCDDLAEALADRCVTIDLLDITAEIPKELAGH  110 (261)
T ss_dssp             HHHHHTTT--CCTTCEEEEECTTCHHHHHHHHHT--TCEEEEEESCHHHHHHHHHHTSSSCCEEEECCTTSCCCGGGTTC
T ss_pred             HHHHHhcC--CCCcCEEEEEeCcchHHHHHHHhc--CCEEEEEECCHHHHHHHHHHHHhccceeeeeecccccccccCCC
Confidence            34555555  566789999999999999999987  458999998 778877654   1223322222221    123 4


Q ss_pred             ccEEEeccccccCC
Q 042491          251 ADAVFMKVIVLIQD  264 (266)
Q Consensus       251 aD~~~l~~vLHd~~  264 (266)
                      +|+|++..++|.|.
T Consensus       111 fD~Vv~~~~l~~~~  124 (261)
T 3iv6_A          111 FDFVLNDRLINRFT  124 (261)
T ss_dssp             CSEEEEESCGGGSC
T ss_pred             ccEEEEhhhhHhCC
Confidence            99999999999875

>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=98.25  E-value=1.4e-06  Score=76.07  Aligned_cols=70  Identities=16%  Similarity=0.215  Sum_probs=57.7

Q ss_pred             CCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCC-CCCCccEEEeccc
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLN-AVPNADAVFMKVI  259 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~-~~p~aD~~~l~~v  259 (266)
                      .....+|||||||+|.+...++.+.|+.+++++|+ |++++.|++      .+||+++.||..+ +-..||++++...
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 FRRGERAVFIGGGPLPLTGILLSHVYGMRVNVVEIEPDIAELSRKVIEGLGVDGVNVITGDETVIDGLEFDVLMVAAL  197 (298)
T ss_dssp             CCTTCEEEEECCCSSCHHHHHHHHTTCCEEEEEESSHHHHHHHHHHHHHHTCCSEEEEESCGGGGGGCCCSEEEECTT
T ss_pred             CCCcCEEEEECCCccHHHHHHHHHccCCEEEEEECCHHHHHHHHHHHHhcCCCCeEEEECchhhCCCCCcCEEEECCC
Confidence            56789999999999988777777888999999998 888887764      3799999999987 3224999997654

>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=98.24  E-value=3.1e-06  Score=75.28  Aligned_cols=74  Identities=16%  Similarity=0.188  Sum_probs=58.3

Q ss_pred             HHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeecHHHHhhCCC-------CCCeEEEEccCCC-CCC-C-c
Q 042491          182 LLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPV-------YEGVSHVGGDMLN-AVP-N-A  251 (266)
Q Consensus       182 ~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~a~~-------~~ri~~~~gd~~~-~~p-~-a  251 (266)
                      +.....  .....+|||||||+|.++..+++. +..+++++|..++++.+++       .++|+++.+|+.+ ++| + +
T Consensus        56 i~~~~~--~~~~~~VLDiGcGtG~ls~~la~~-g~~~v~gvD~s~~~~~a~~~~~~~~~~~~i~~~~~d~~~~~~~~~~~  132 (340)
T 2fyt_A           56 IYQNPH--IFKDKVVLDVGCGTGILSMFAAKA-GAKKVLGVDQSEILYQAMDIIRLNKLEDTITLIKGKIEEVHLPVEKV  132 (340)
T ss_dssp             HHHCGG--GTTTCEEEEETCTTSHHHHHHHHT-TCSEEEEEESSTHHHHHHHHHHHTTCTTTEEEEESCTTTSCCSCSCE
T ss_pred             HHhhhh--hcCCCEEEEeeccCcHHHHHHHHc-CCCEEEEEChHHHHHHHHHHHHHcCCCCcEEEEEeeHHHhcCCCCcE
Confidence            344444  445689999999999999999887 5568999999667766553       3799999999988 566 3 9


Q ss_pred             cEEEecc
Q 042491          252 DAVFMKV  258 (266)
Q Consensus       252 D~~~l~~  258 (266)
                      |+++...
T Consensus       133 D~Ivs~~  139 (340)
T 2fyt_A          133 DVIISEW  139 (340)
T ss_dssp             EEEEECC
T ss_pred             EEEEEcC
Confidence            9999766

>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=98.24  E-value=8.9e-07  Score=75.40  Aligned_cols=69  Identities=19%  Similarity=0.174  Sum_probs=56.3

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCC-CC----C-CccEEEec
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLN-AV----P-NADAVFMK  257 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~-~~----p-~aD~~~l~  257 (266)
                      ....+|||||||+|..+..++..+|+.+++++|. +..++.+++      ..+|+++.+|+.+ +.    + .||+|+.+
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            4568999999999999999999999999999997 666666553      3469999999876 32    2 49999986


Q ss_pred             cc
Q 042491          258 VI  259 (266)
Q Consensus       258 ~v  259 (266)
                      .+
T Consensus       159 a~  160 (249)
T 3g89_A          159 AV  160 (249)
T ss_dssp             SS
T ss_pred             Cc
Confidence            54

>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=98.23  E-value=1.5e-06  Score=75.41  Aligned_cols=74  Identities=16%  Similarity=0.162  Sum_probs=52.0

Q ss_pred             CCceEEEecCCchHHH----HHHHHHCCCCeE--EEeec-HHHHhhCCC-------CCCeEE--EEccCCC-C------C
Q 042491          192 GIRSLVDVGGGTGEEL----AEIVEFYPHIKG--VNFDL-PHVVATAPV-------YEGVSH--VGGDMLN-A------V  248 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~----~~l~~~~P~l~~--~~~Dl-p~v~~~a~~-------~~ri~~--~~gd~~~-~------~  248 (266)
                      ...+|||||||+|.++    ..++.++|+.++  +++|. +++++.+++       .+++++  ..++..+ +      +
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            4569999999999754    456677898865  99997 677765442       134544  4454432 1      2


Q ss_pred             C--CccEEEeccccccCCC
Q 042491          249 P--NADAVFMKVIVLIQDL  265 (266)
Q Consensus       249 p--~aD~~~l~~vLHd~~~  265 (266)
                      +  .||+|+++++||.++|
T Consensus       132 ~~~~fD~V~~~~~l~~~~d  150 (292)
T 2aot_A          132 ELQKWDFIHMIQMLYYVKD  150 (292)
T ss_dssp             CCCCEEEEEEESCGGGCSC
T ss_pred             CCCceeEEEEeeeeeecCC
Confidence            3  3999999999999876

>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=98.23  E-value=2.6e-06  Score=74.96  Aligned_cols=81  Identities=25%  Similarity=0.275  Sum_probs=64.1

Q ss_pred             HHHhhcccCCCCCceEEEecCCchHHHHHHHHHCC-CCeEEEeec-HHHHhhCCC------CCCeEEEEccCCCCCC---
Q 042491          181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYP-HIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLNAVP---  249 (266)
Q Consensus       181 ~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P-~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~~~p---  249 (266)
                      .++..++  .....+|||||||+|.++..+++..+ +.+++++|+ |+.++.+++      .++++++.+|+.+..+   
T Consensus        66 ~l~~~l~--~~~~~~VLDiGcG~G~~~~~la~~~~~~~~v~gvD~s~~~~~~a~~~~~~~g~~~v~~~~~d~~~~~~~~~  143 (317)
T 1dl5_A           66 LFMEWVG--LDKGMRVLEIGGGTGYNAAVMSRVVGEKGLVVSVEYSRKICEIAKRNVERLGIENVIFVCGDGYYGVPEFS  143 (317)
T ss_dssp             HHHHHTT--CCTTCEEEEECCTTSHHHHHHHHHHCTTCEEEEEESCHHHHHHHHHHHHHTTCCSEEEEESCGGGCCGGGC
T ss_pred             HHHHhcC--CCCcCEEEEecCCchHHHHHHHHhcCCCCEEEEEECCHHHHHHHHHHHHHcCCCCeEEEECChhhccccCC
Confidence            3444444  55668999999999999999999988 488999998 777766553      3569999999988432   


Q ss_pred             CccEEEeccccccC
Q 042491          250 NADAVFMKVIVLIQ  263 (266)
Q Consensus       250 ~aD~~~l~~vLHd~  263 (266)
                      .+|+|++...+|..
T Consensus       144 ~fD~Iv~~~~~~~~  157 (317)
T 1dl5_A          144 PYDVIFVTVGVDEV  157 (317)
T ss_dssp             CEEEEEECSBBSCC
T ss_pred             CeEEEEEcCCHHHH
Confidence            49999999998865

>2ozv_A Hypothetical protein ATU0636; structural genomics, predicted transferase, predicted O-methyltransferase, PFAM PF05175; HET: MSE; 1.70A {Agrobacterium tumefaciens str}

Probab=98.21  E-value=2.2e-06  Score=73.29  Aligned_cols=68  Identities=15%  Similarity=0.193  Sum_probs=55.9

Q ss_pred             CCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC----------CCCeEEEEccCCCC--------CC-
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV----------YEGVSHVGGDMLNA--------VP-  249 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~----------~~ri~~~~gd~~~~--------~p-  249 (266)
                      .....+|||+|||+|.++..+++++|+.+++++|+ |.+++.+++          .+||+++.+|+.+.        ++ 
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            34567999999999999999999999999999998 666665442          24799999999874        33 


Q ss_pred             -CccEEEec
Q 042491          250 -NADAVFMK  257 (266)
Q Consensus       250 -~aD~~~l~  257 (266)
                       .+|+|++.
T Consensus       114 ~~fD~Vv~n  122 (260)
T 2ozv_A          114 EHFHHVIMN  122 (260)
T ss_dssp             TCEEEEEEC
T ss_pred             CCcCEEEEC
Confidence             39999986

>1o9g_A RRNA methyltransferase; antibiotic resistance, Se-MAD; 1.5A {Streptomyces viridochromogenes} SCOP: c.66.1.29 PDB: 1o9h_A

Probab=98.21  E-value=1.5e-06  Score=73.61  Aligned_cols=71  Identities=17%  Similarity=0.111  Sum_probs=57.6

Q ss_pred             CCceEEEecCCchHHHHHHHHH--CCCCeEEEeec-HHHHhhCCC---CC-------C----------------------
Q 042491          192 GIRSLVDVGGGTGEELAEIVEF--YPHIKGVNFDL-PHVVATAPV---YE-------G----------------------  236 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~--~P~l~~~~~Dl-p~v~~~a~~---~~-------r----------------------  236 (266)
                      ...+|||+|||+|.++..+++.  +|..+++++|+ |.+++.++.   ..       +                      
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            4579999999999999999999  88889999998 777776653   12       2                      


Q ss_pred             ---eE-------------EEEccCCCCC------C--CccEEEecccccc
Q 042491          237 ---VS-------------HVGGDMLNAV------P--NADAVFMKVIVLI  262 (266)
Q Consensus       237 ---i~-------------~~~gd~~~~~------p--~aD~~~l~~vLHd  262 (266)
                         |+             ++.+|++++.      +  .+|+|++...++.
T Consensus       131 ~~~v~~~~~~~~~~~~~~~~~~D~~~~~~~~~~~~~~~fD~Iv~npp~~~  180 (250)
T 1o9g_A          131 ARRLRERLTAEGGALPCAIRTADVFDPRALSAVLAGSAPDVVLTDLPYGE  180 (250)
T ss_dssp             HHHHHHHHHHTTSSCCEEEEECCTTCGGGHHHHHTTCCCSEEEEECCGGG
T ss_pred             hhhhhhhccccccccccceeecccccccccccccCCCCceEEEeCCCeec
Confidence               77             9999999864      4  4999999766554

>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=98.21  E-value=1.5e-06  Score=69.59  Aligned_cols=77  Identities=22%  Similarity=0.221  Sum_probs=60.9

Q ss_pred             HHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCCC---CC
Q 042491          182 LLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNAV---PN  250 (266)
Q Consensus       182 ~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~~---p~  250 (266)
                      ++..++  .....+|||+|||+|.++..+++..  .+++++|. +.+++.+++       .++++++.+|+.+++   +.
T Consensus        25 ~~~~~~--~~~~~~vldiG~G~G~~~~~l~~~~--~~v~~~D~~~~~~~~a~~~~~~~~~~~~~~~~~~d~~~~~~~~~~  100 (192)
T 1l3i_A           25 IMCLAE--PGKNDVAVDVGCGTGGVTLELAGRV--RRVYAIDRNPEAISTTEMNLQRHGLGDNVTLMEGDAPEALCKIPD  100 (192)
T ss_dssp             HHHHHC--CCTTCEEEEESCTTSHHHHHHHTTS--SEEEEEESCHHHHHHHHHHHHHTTCCTTEEEEESCHHHHHTTSCC
T ss_pred             HHHhcC--CCCCCEEEEECCCCCHHHHHHHHhc--CEEEEEECCHHHHHHHHHHHHHcCCCcceEEEecCHHHhcccCCC
Confidence            334444  5566899999999999999999988  78999998 777766553       268999999987743   35


Q ss_pred             ccEEEecccccc
Q 042491          251 ADAVFMKVIVLI  262 (266)
Q Consensus       251 aD~~~l~~vLHd  262 (266)
                      +|++++...+|+
T Consensus       101 ~D~v~~~~~~~~  112 (192)
T 1l3i_A          101 IDIAVVGGSGGE  112 (192)
T ss_dssp             EEEEEESCCTTC
T ss_pred             CCEEEECCchHH
Confidence            999999888765

>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=98.19  E-value=3.2e-06  Score=67.82  Aligned_cols=66  Identities=18%  Similarity=0.212  Sum_probs=53.2

Q ss_pred             CCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCC--CC-CC-ccEEEec
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLN--AV-PN-ADAVFMK  257 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~--~~-p~-aD~~~l~  257 (266)
                      .....+|||||||+|.++..+++.  ..+++++|+ |.+++.+++      .++++++.+|+..  ++ ++ +|++++.
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            446689999999999999999988  789999998 777777664      3789999977655  13 33 9999876

>2gpy_A O-methyltransferase; structural genomics, PSI, protein structure initiative, NEW research center for structural genomics, nysgxrc; HET: MSE; 1.90A {Bacillus halodurans}

Probab=98.19  E-value=1.4e-06  Score=72.90  Aligned_cols=71  Identities=14%  Similarity=0.154  Sum_probs=58.8

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCC---C--C-CccEEEec
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNA---V--P-NADAVFMK  257 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~---~--p-~aD~~~l~  257 (266)
                      +..+|||||||+|..+..+++.+|+.+++++|. |..++.+++       .++|+++.+|+.+.   .  + .+|+|++.
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 777766653       36899999999873   2  3 39999987


Q ss_pred             ccccc
Q 042491          258 VIVLI  262 (266)
Q Consensus       258 ~vLHd  262 (266)
                      ...++
T Consensus       134 ~~~~~  138 (233)
T 2gpy_A          134 AAKGQ  138 (233)
T ss_dssp             GGGSC
T ss_pred             CCHHH
Confidence            76653

>2pwy_A TRNA (adenine-N(1)-)-methyltransferase; mtase, adoMet, TRMI, tRNA-M1A58; HET: SAH; 1.70A {Thermus thermophilus}

Probab=98.19  E-value=3.3e-06  Score=71.26  Aligned_cols=74  Identities=18%  Similarity=0.196  Sum_probs=61.0

Q ss_pred             HHHhhcccCCCCCceEEEecCCchHHHHHHHHH-CCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCC-CCC
Q 042491          181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEF-YPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNA-VPN  250 (266)
Q Consensus       181 ~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~-~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~-~p~  250 (266)
                      .++..++  .....+|||+|||+|.++..+++. .|..+++++|. |.+++.+++       .++++++.+|+.+. +|.
T Consensus        87 ~~~~~~~--~~~~~~vLdiG~G~G~~~~~l~~~~~~~~~v~~~D~~~~~~~~a~~~~~~~~g~~~v~~~~~d~~~~~~~~  164 (258)
T 2pwy_A           87 AMVTLLD--LAPGMRVLEAGTGSGGLTLFLARAVGEKGLVESYEARPHHLAQAERNVRAFWQVENVRFHLGKLEEAELEE  164 (258)
T ss_dssp             HHHHHTT--CCTTCEEEEECCTTSHHHHHHHHHHCTTSEEEEEESCHHHHHHHHHHHHHHCCCCCEEEEESCGGGCCCCT
T ss_pred             HHHHHcC--CCCCCEEEEECCCcCHHHHHHHHHhCCCCEEEEEeCCHHHHHHHHHHHHHhcCCCCEEEEECchhhcCCCC
Confidence            4555565  667789999999999999999999 78899999998 777766553       26899999999884 763


Q ss_pred             --ccEEEe
Q 042491          251 --ADAVFM  256 (266)
Q Consensus       251 --aD~~~l  256 (266)
                        +|+|++
T Consensus       165 ~~~D~v~~  172 (258)
T 2pwy_A          165 AAYDGVAL  172 (258)
T ss_dssp             TCEEEEEE
T ss_pred             CCcCEEEE
Confidence              999997

>1xdz_A Methyltransferase GIDB; MCSG, protein structure initiative, structural genomics, methyltransferase fold, PSI; 1.60A {Bacillus subtilis} SCOP: c.66.1.20

Probab=98.18  E-value=1e-06  Score=74.24  Aligned_cols=69  Identities=17%  Similarity=0.248  Sum_probs=56.3

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCC-CC----C-CccEEEec
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLN-AV----P-NADAVFMK  257 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~-~~----p-~aD~~~l~  257 (266)
                      ....+|||||||+|..+..+++..|+.+++++|. +.+++.+++      .++|+++.+|+.+ +.    + .+|+|++.
T Consensus        69 ~~~~~vLDiG~G~G~~~~~la~~~~~~~v~~vD~s~~~~~~a~~~~~~~~~~~v~~~~~d~~~~~~~~~~~~~fD~V~~~  148 (240)
T 1xdz_A           69 NQVNTICDVGAGAGFPSLPIKICFPHLHVTIVDSLNKRITFLEKLSEALQLENTTFCHDRAETFGQRKDVRESYDIVTAR  148 (240)
T ss_dssp             GGCCEEEEECSSSCTTHHHHHHHCTTCEEEEEESCHHHHHHHHHHHHHHTCSSEEEEESCHHHHTTCTTTTTCEEEEEEE
T ss_pred             CCCCEEEEecCCCCHHHHHHHHhCCCCEEEEEeCCHHHHHHHHHHHHHcCCCCEEEEeccHHHhcccccccCCccEEEEe
Confidence            4568999999999999999999999999999998 767766553      3469999999876 33    2 39999986


Q ss_pred             cc
Q 042491          258 VI  259 (266)
Q Consensus       258 ~v  259 (266)
                      .+
T Consensus       149 ~~  150 (240)
T 1xdz_A          149 AV  150 (240)
T ss_dssp             CC
T ss_pred             cc
Confidence            53

>1zq9_A Probable dimethyladenosine transferase; SGC, structural genomics, structural genomics consortium; HET: SAM; 1.90A {Homo sapiens} SCOP: c.66.1.24

Probab=98.18  E-value=3e-06  Score=73.55  Aligned_cols=74  Identities=23%  Similarity=0.357  Sum_probs=58.8

Q ss_pred             HHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCC-CCCC
Q 042491          180 STLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLN-AVPN  250 (266)
Q Consensus       180 ~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~-~~p~  250 (266)
                      ..+++.++  .....+|||||||+|.++..+++...  +++++|+ +.+++.+++       .++++++.+|+.+ ++|.
T Consensus        18 ~~i~~~~~--~~~~~~VLDiG~G~G~lt~~L~~~~~--~v~~vD~~~~~~~~a~~~~~~~~~~~~v~~~~~D~~~~~~~~   93 (285)
T 1zq9_A           18 NSIIDKAA--LRPTDVVLEVGPGTGNMTVKLLEKAK--KVVACELDPRLVAELHKRVQGTPVASKLQVLVGDVLKTDLPF   93 (285)
T ss_dssp             HHHHHHTC--CCTTCEEEEECCTTSTTHHHHHHHSS--EEEEEESCHHHHHHHHHHHTTSTTGGGEEEEESCTTTSCCCC
T ss_pred             HHHHHhcC--CCCCCEEEEEcCcccHHHHHHHhhCC--EEEEEECCHHHHHHHHHHHHhcCCCCceEEEEcceecccchh
Confidence            34555565  55668999999999999999999854  7889998 666665543       2589999999998 6788


Q ss_pred             ccEEEec
Q 042491          251 ADAVFMK  257 (266)
Q Consensus       251 aD~~~l~  257 (266)
                      +|+++..
T Consensus        94 fD~vv~n  100 (285)
T 1zq9_A           94 FDTCVAN  100 (285)
T ss_dssp             CSEEEEE
T ss_pred             hcEEEEe
Confidence            9998874

>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=98.18  E-value=2.5e-06  Score=71.96  Aligned_cols=67  Identities=13%  Similarity=0.309  Sum_probs=53.3

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCC------------CCCCeEEEEccCCCC----CC--Cc
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAP------------VYEGVSHVGGDMLNA----VP--NA  251 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~------------~~~ri~~~~gd~~~~----~p--~a  251 (266)
                      .+..+|||||||+|.++..+++.+|+.+++++|+ +.+++.++            ...+|+++.+|+.+.    ++  .+
T Consensus        45 ~~~~~vLDiGcG~G~~~~~la~~~p~~~v~GiDis~~~l~~A~~~~~~l~~~~~~~~~nv~~~~~d~~~~l~~~~~~~~~  124 (235)
T 3ckk_A           45 QAQVEFADIGCGYGGLLVELSPLFPDTLILGLEIRVKVSDYVQDRIRALRAAPAGGFQNIACLRSNAMKHLPNFFYKGQL  124 (235)
T ss_dssp             -CCEEEEEETCTTCHHHHHHGGGSTTSEEEEEESCHHHHHHHHHHHHHHHHSTTCCCTTEEEEECCTTTCHHHHCCTTCE
T ss_pred             CCCCeEEEEccCCcHHHHHHHHHCCCCeEEEEECCHHHHHHHHHHHHHHHHHHhcCCCeEEEEECcHHHhhhhhCCCcCe
Confidence            3557999999999999999999999999999998 66655332            246899999998862    44  38


Q ss_pred             cEEEec
Q 042491          252 DAVFMK  257 (266)
Q Consensus       252 D~~~l~  257 (266)
                      |.+++.
T Consensus       125 D~v~~~  130 (235)
T 3ckk_A          125 TKMFFL  130 (235)
T ss_dssp             EEEEEE
T ss_pred             eEEEEe
Confidence            888763

>3r0q_C Probable protein arginine N-methyltransferase 4.2; arginine methyltransferase, methylation; HET: SAH; 2.61A {Arabidopsis thaliana}

Probab=98.18  E-value=3.4e-06  Score=76.07  Aligned_cols=72  Identities=15%  Similarity=0.147  Sum_probs=56.9

Q ss_pred             CCCCceEEEecCCchHHHHHHHHHCCCCeEEEeecHHHHhhCCC-------CCCeEEEEccCCC-CCCC-ccEEEecccc
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPV-------YEGVSHVGGDMLN-AVPN-ADAVFMKVIV  260 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~a~~-------~~ri~~~~gd~~~-~~p~-aD~~~l~~vL  260 (266)
                      .....+|||||||+|.++..++++. ..+++++|...+++.+++       .++|+++.+|+.+ ++|+ +|+|++..+.
T Consensus        61 ~~~~~~VLDlGcGtG~ls~~la~~g-~~~V~gvD~s~~~~~a~~~~~~~~~~~~v~~~~~d~~~~~~~~~~D~Iv~~~~~  139 (376)
T 3r0q_C           61 HFEGKTVLDVGTGSGILAIWSAQAG-ARKVYAVEATKMADHARALVKANNLDHIVEVIEGSVEDISLPEKVDVIISEWMG  139 (376)
T ss_dssp             TTTTCEEEEESCTTTHHHHHHHHTT-CSEEEEEESSTTHHHHHHHHHHTTCTTTEEEEESCGGGCCCSSCEEEEEECCCB
T ss_pred             cCCCCEEEEeccCcCHHHHHHHhcC-CCEEEEEccHHHHHHHHHHHHHcCCCCeEEEEECchhhcCcCCcceEEEEcChh
Confidence            4456899999999999999999883 348999998766665543       4789999999988 5665 9999986544


Q ss_pred             cc
Q 042491          261 LI  262 (266)
Q Consensus       261 Hd  262 (266)
                      |.
T Consensus       140 ~~  141 (376)
T 3r0q_C          140 YF  141 (376)
T ss_dssp             TT
T ss_pred             hc
Confidence            43

>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=98.18  E-value=2.6e-06  Score=73.21  Aligned_cols=74  Identities=18%  Similarity=0.184  Sum_probs=60.8

Q ss_pred             HHHhhcccCCCCCceEEEecCCchHHHHHHHHH-CCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCCCC--
Q 042491          181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEF-YPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNAVP--  249 (266)
Q Consensus       181 ~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~-~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~~p--  249 (266)
                      .++..++  .....+|||+|||+|.++..+++. .|..+++.+|. |..++.+++       .++++++.+|+.+.+|  
T Consensus       103 ~i~~~~~--~~~~~~VLDiG~G~G~~~~~la~~~~~~~~v~~vD~s~~~~~~a~~~~~~~~~~~~v~~~~~d~~~~~~~~  180 (277)
T 1o54_A          103 FIAMMLD--VKEGDRIIDTGVGSGAMCAVLARAVGSSGKVFAYEKREEFAKLAESNLTKWGLIERVTIKVRDISEGFDEK  180 (277)
T ss_dssp             HHHHHTT--CCTTCEEEEECCTTSHHHHHHHHHTTTTCEEEEECCCHHHHHHHHHHHHHTTCGGGEEEECCCGGGCCSCC
T ss_pred             HHHHHhC--CCCCCEEEEECCcCCHHHHHHHHHhCCCcEEEEEECCHHHHHHHHHHHHHcCCCCCEEEEECCHHHcccCC
Confidence            4555555  566789999999999999999999 78999999998 777776653       2689999999988765  


Q ss_pred             CccEEEe
Q 042491          250 NADAVFM  256 (266)
Q Consensus       250 ~aD~~~l  256 (266)
                      .+|++++
T Consensus       181 ~~D~V~~  187 (277)
T 1o54_A          181 DVDALFL  187 (277)
T ss_dssp             SEEEEEE
T ss_pred             ccCEEEE
Confidence            3999987

>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=98.17  E-value=2.7e-06  Score=75.26  Aligned_cols=68  Identities=16%  Similarity=0.249  Sum_probs=54.8

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeecHHHHhhCCC-------CCCeEEEEccCCC-CCC-C-ccEEEecccc
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPV-------YEGVSHVGGDMLN-AVP-N-ADAVFMKVIV  260 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~a~~-------~~ri~~~~gd~~~-~~p-~-aD~~~l~~vL  260 (266)
                      ...+|||||||+|.++..++++ +..+++++|..++++.+++       .++|+++.+|+.+ ++| + +|++++..+.
T Consensus        38 ~~~~VLDiGcGtG~ls~~la~~-g~~~v~~vD~s~~~~~a~~~~~~~~~~~~i~~~~~d~~~~~~~~~~~D~Ivs~~~~  115 (328)
T 1g6q_1           38 KDKIVLDVGCGTGILSMFAAKH-GAKHVIGVDMSSIIEMAKELVELNGFSDKITLLRGKLEDVHLPFPKVDIIISEWMG  115 (328)
T ss_dssp             TTCEEEEETCTTSHHHHHHHHT-CCSEEEEEESSTHHHHHHHHHHHTTCTTTEEEEESCTTTSCCSSSCEEEEEECCCB
T ss_pred             CCCEEEEecCccHHHHHHHHHC-CCCEEEEEChHHHHHHHHHHHHHcCCCCCEEEEECchhhccCCCCcccEEEEeCch
Confidence            4479999999999999988886 5568999999766665543       4789999999988 566 3 9999987543

>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=98.16  E-value=1.6e-06  Score=72.04  Aligned_cols=72  Identities=13%  Similarity=0.203  Sum_probs=58.3

Q ss_pred             CCceEEEecCCchHHHHHHHHHCC-CCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCC---CCC------CccE
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYP-HIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLN---AVP------NADA  253 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P-~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~---~~p------~aD~  253 (266)
                      +..+|||||||+|..+..+++..| +.+++.+|+ |.+++.+++       .+||+++.+|+.+   .++      .+|+
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            567999999999999999999875 789999998 777776654       4689999999754   233      4999


Q ss_pred             EEeccccccC
Q 042491          254 VFMKVIVLIQ  263 (266)
Q Consensus       254 ~~l~~vLHd~  263 (266)
                      +++....|.+
T Consensus       138 V~~d~~~~~~  147 (221)
T 3u81_A          138 VFLDHWKDRY  147 (221)
T ss_dssp             EEECSCGGGH
T ss_pred             EEEcCCcccc
Confidence            9988766654

>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=98.16  E-value=7.2e-06  Score=64.41  Aligned_cols=77  Identities=19%  Similarity=0.189  Sum_probs=60.0

Q ss_pred             HHhhcccCCCCCceEEEecCCchHHHHHHHHHC-CCCeEEEeecHHHHhhCCCCCCeEEEEccCCC-C--------CC--
Q 042491          182 LLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFY-PHIKGVNFDLPHVVATAPVYEGVSHVGGDMLN-A--------VP--  249 (266)
Q Consensus       182 ~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~-P~l~~~~~Dlp~v~~~a~~~~ri~~~~gd~~~-~--------~p--  249 (266)
                      ++..+. ......+|||||||+|.++..+++.+ |+.+++++|...+++    ..+++++.+|+.+ +        ++  
T Consensus        13 ~~~~~~-~~~~~~~vLd~G~G~G~~~~~l~~~~~~~~~v~~~D~~~~~~----~~~~~~~~~d~~~~~~~~~~~~~~~~~   87 (180)
T 1ej0_A           13 IQQSDK-LFKPGMTVVDLGAAPGGWSQYVVTQIGGKGRIIACDLLPMDP----IVGVDFLQGDFRDELVMKALLERVGDS   87 (180)
T ss_dssp             HHHHHC-CCCTTCEEEEESCTTCHHHHHHHHHHCTTCEEEEEESSCCCC----CTTEEEEESCTTSHHHHHHHHHHHTTC
T ss_pred             HHHHhC-CCCCCCeEEEeCCCCCHHHHHHHHHhCCCCeEEEEECccccc----cCcEEEEEcccccchhhhhhhccCCCC
Confidence            344443 13456799999999999999999995 779999999966322    3789999999988 4        55  


Q ss_pred             CccEEEeccccccC
Q 042491          250 NADAVFMKVIVLIQ  263 (266)
Q Consensus       250 ~aD~~~l~~vLHd~  263 (266)
                      .+|++++...+|..
T Consensus        88 ~~D~i~~~~~~~~~  101 (180)
T 1ej0_A           88 KVQVVMSDMAPNMS  101 (180)
T ss_dssp             CEEEEEECCCCCCC
T ss_pred             ceeEEEECCCcccc
Confidence            39999998877754

>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=98.15  E-value=4.5e-06  Score=76.62  Aligned_cols=79  Identities=10%  Similarity=0.212  Sum_probs=59.0

Q ss_pred             HHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhC-------CC--------CCCeEEEEccC
Q 042491          181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATA-------PV--------YEGVSHVGGDM  244 (266)
Q Consensus       181 ~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a-------~~--------~~ri~~~~gd~  244 (266)
                      .+++.++  .....+|||||||+|.++..+++.+|..+++++|+ +..++.+       +.        .++|+++.+|-
T Consensus       233 ~ml~~l~--l~~g~~VLDLGCGsG~la~~LA~~~g~~~V~GVDis~~~l~~A~~Ml~~ar~~~~~~Gl~~~nV~~i~gD~  310 (433)
T 1u2z_A          233 DVYQQCQ--LKKGDTFMDLGSGVGNCVVQAALECGCALSFGCEIMDDASDLTILQYEELKKRCKLYGMRLNNVEFSLKKS  310 (433)
T ss_dssp             HHHHHTT--CCTTCEEEEESCTTSHHHHHHHHHHCCSEEEEEECCHHHHHHHHHHHHHHHHHHHHTTBCCCCEEEEESSC
T ss_pred             HHHHhcC--CCCCCEEEEeCCCcCHHHHHHHHHCCCCEEEEEeCCHHHHHHHHHhHHHHHHHHHHcCCCCCceEEEEcCc
Confidence            3444454  55678999999999999999999999889999998 5554444       22        26899998854


Q ss_pred             C-CC--C----CCccEEEeccccc
Q 042491          245 L-NA--V----PNADAVFMKVIVL  261 (266)
Q Consensus       245 ~-~~--~----p~aD~~~l~~vLH  261 (266)
                      + .+  +    ..||+|++.+.++
T Consensus       311 ~~~~~~~~~~~~~FDvIvvn~~l~  334 (433)
T 1u2z_A          311 FVDNNRVAELIPQCDVILVNNFLF  334 (433)
T ss_dssp             STTCHHHHHHGGGCSEEEECCTTC
T ss_pred             cccccccccccCCCCEEEEeCccc
Confidence            4 32  2    2499999887764

>3tfw_A Putative O-methyltransferase; PSI-biology, nysgrc, structural genomics, NEW YORK structura genomics research consortium; 1.88A {Klebsiella pneumoniae subsp}

Probab=98.15  E-value=1e-06  Score=74.78  Aligned_cols=67  Identities=15%  Similarity=0.208  Sum_probs=55.7

Q ss_pred             CCceEEEecCCchHHHHHHHHHCC-CCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCC---CC---CccEEEe
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYP-HIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNA---VP---NADAVFM  256 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P-~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~---~p---~aD~~~l  256 (266)
                      +..+|||||||+|..+..+++.+| +.+++.+|+ |+.++.+++       .+||+++.+|..+.   ++   .+|+|++
T Consensus        63 ~~~~VLdiG~G~G~~~~~la~~~~~~~~v~~vD~s~~~~~~a~~~~~~~g~~~~v~~~~~d~~~~l~~~~~~~~fD~V~~  142 (248)
T 3tfw_A           63 QAKRILEIGTLGGYSTIWMARELPADGQLLTLEADAHHAQVARENLQLAGVDQRVTLREGPALQSLESLGECPAFDLIFI  142 (248)
T ss_dssp             TCSEEEEECCTTSHHHHHHHTTSCTTCEEEEEECCHHHHHHHHHHHHHTTCTTTEEEEESCHHHHHHTCCSCCCCSEEEE
T ss_pred             CCCEEEEecCCchHHHHHHHHhCCCCCEEEEEECCHHHHHHHHHHHHHcCCCCcEEEEEcCHHHHHHhcCCCCCeEEEEE
Confidence            568999999999999999999998 899999998 777776653       46899999998762   22   4999997


Q ss_pred             cc
Q 042491          257 KV  258 (266)
Q Consensus       257 ~~  258 (266)
                      ..
T Consensus       143 d~  144 (248)
T 3tfw_A          143 DA  144 (248)
T ss_dssp             CS
T ss_pred             CC
Confidence            54

>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=98.15  E-value=1.8e-06  Score=69.16  Aligned_cols=70  Identities=16%  Similarity=-0.001  Sum_probs=56.2

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCCC------C-CccEEE
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNAV------P-NADAVF  255 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~~------p-~aD~~~  255 (266)
                      ....+|||+|||+|.++..+++ .+..+++++|. |.+++.++.       .++++++.+|+.+..      + .+|+++
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            3567999999999999999887 56679999998 777776654       258999999998731      3 499999


Q ss_pred             eccccc
Q 042491          256 MKVIVL  261 (266)
Q Consensus       256 l~~vLH  261 (266)
                      +....|
T Consensus       122 ~~~~~~  127 (187)
T 2fhp_A          122 LDPPYA  127 (187)
T ss_dssp             ECCCGG
T ss_pred             ECCCCC
Confidence            876654

>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=98.15  E-value=3.3e-06  Score=71.23  Aligned_cols=66  Identities=17%  Similarity=0.194  Sum_probs=54.4

Q ss_pred             CceEEEecCCchHHHHHHHHH----CCCCeEEEeec-HHHHhhCCC-CCCeEEEEccCCCC--C---C--CccEEEecc
Q 042491          193 IRSLVDVGGGTGEELAEIVEF----YPHIKGVNFDL-PHVVATAPV-YEGVSHVGGDMLNA--V---P--NADAVFMKV  258 (266)
Q Consensus       193 ~~~vvDvGgG~G~~~~~l~~~----~P~l~~~~~Dl-p~v~~~a~~-~~ri~~~~gd~~~~--~---p--~aD~~~l~~  258 (266)
                      ..+|||||||+|..+..+++.    +|+.+++.+|+ |++++.++. .++|+++.||..+.  +   +  .+|++++..
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    79999999998 676666654 57899999999873  2   2  389988754

>3m33_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, MCSG, midwest center for structural genomics; 2.19A {Deinococcus radiodurans}

Probab=98.15  E-value=3.1e-06  Score=70.45  Aligned_cols=65  Identities=11%  Similarity=0.120  Sum_probs=54.1

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-CCCeEEEEccCCCC--CC---CccEEEec
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-YEGVSHVGGDMLNA--VP---NADAVFMK  257 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-~~ri~~~~gd~~~~--~p---~aD~~~l~  257 (266)
                      ....+|||||||+|.++..+++.  ..+++++|+ |.+++.+++ .++++++.+|+.+.  ++   .+|+|++.
T Consensus        47 ~~~~~vLDiGcG~G~~~~~l~~~--~~~v~~vD~s~~~~~~a~~~~~~~~~~~~d~~~~~~~~~~~~fD~v~~~  118 (226)
T 3m33_A           47 TPQTRVLEAGCGHGPDAARFGPQ--AARWAAYDFSPELLKLARANAPHADVYEWNGKGELPAGLGAPFGLIVSR  118 (226)
T ss_dssp             CTTCEEEEESCTTSHHHHHHGGG--SSEEEEEESCHHHHHHHHHHCTTSEEEECCSCSSCCTTCCCCEEEEEEE
T ss_pred             CCCCeEEEeCCCCCHHHHHHHHc--CCEEEEEECCHHHHHHHHHhCCCceEEEcchhhccCCcCCCCEEEEEeC
Confidence            35579999999999999999998  568999998 777777665 67899999999763  44   39999876

>3lpm_A Putative methyltransferase; structural genomics, protein structure initiative, NEW YORK structural genomix research consortium, nysgxrc; 2.40A {Listeria monocytogenes}

Probab=98.14  E-value=2.4e-06  Score=72.77  Aligned_cols=67  Identities=16%  Similarity=0.184  Sum_probs=55.7

Q ss_pred             CC-CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCC---CC--CccEEE
Q 042491          190 FD-GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNA---VP--NADAVF  255 (266)
Q Consensus       190 ~~-~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~---~p--~aD~~~  255 (266)
                      .. ...+|||||||+|.++..++++.+. +++++|+ |.+++.+++       .+||+++.+|+.+.   ++  .+|+|+
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            45 6789999999999999999999887 9999998 777766653       46899999999883   43  399999


Q ss_pred             ec
Q 042491          256 MK  257 (266)
Q Consensus       256 l~  257 (266)
                      +.
T Consensus       125 ~n  126 (259)
T 3lpm_A          125 CN  126 (259)
T ss_dssp             EC
T ss_pred             EC
Confidence            85

>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=98.14  E-value=2.6e-06  Score=71.95  Aligned_cols=65  Identities=12%  Similarity=0.302  Sum_probs=51.3

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCC--------------CCCCeEEEEccCCCC----CC-C
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAP--------------VYEGVSHVGGDMLNA----VP-N  250 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~--------------~~~ri~~~~gd~~~~----~p-~  250 (266)
                      ....+|||||||+|.++..+++.+|+.+++++|. +.+++.++              ..++|+++.+|.++.    ++ +
T Consensus        48 ~~~~~vLDiGcG~G~~~~~la~~~~~~~v~gvD~s~~~l~~a~~~~~~~~~~~~~~~~~~nv~~~~~D~~~~l~~~~~~~  127 (246)
T 2vdv_E           48 TKKVTIADIGCGFGGLMIDLSPAFPEDLILGMEIRVQVTNYVEDRIIALRNNTASKHGFQNINVLRGNAMKFLPNFFEKG  127 (246)
T ss_dssp             SCCEEEEEETCTTSHHHHHHHHHSTTSEEEEEESCHHHHHHHHHHHHHHHHTC-CCSTTTTEEEEECCTTSCGGGTSCTT
T ss_pred             CCCCEEEEEcCCCCHHHHHHHHhCCCCCEEEEEcCHHHHHHHHHHHHHHhhccccccCCCcEEEEeccHHHHHHHhcccc
Confidence            4567999999999999999999999999999997 66665442              125799999998873    33 2


Q ss_pred             -ccEEE
Q 042491          251 -ADAVF  255 (266)
Q Consensus       251 -aD~~~  255 (266)
                       +|.++
T Consensus       128 ~~d~v~  133 (246)
T 2vdv_E          128 QLSKMF  133 (246)
T ss_dssp             CEEEEE
T ss_pred             ccCEEE
Confidence             66665

>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=98.14  E-value=3.2e-06  Score=71.46  Aligned_cols=69  Identities=10%  Similarity=0.017  Sum_probs=58.8

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-----CCCeEEEEccCCC-CCCC-ccEEEecccccc
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-----YEGVSHVGGDMLN-AVPN-ADAVFMKVIVLI  262 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-----~~ri~~~~gd~~~-~~p~-aD~~~l~~vLHd  262 (266)
                      ..+.+|+|||||.|-++..+.   |..+.+.+|+ +.+++.++.     ..++++..+|+.. +.|+ +|++++.-++|.
T Consensus       104 ~~p~~VLDlGCG~gpLal~~~---~~~~y~a~DId~~~i~~ar~~~~~~g~~~~~~v~D~~~~~~~~~~DvvLllk~lh~  180 (253)
T 3frh_A          104 ETPRRVLDIACGLNPLALYER---GIASVWGCDIHQGLGDVITPFAREKDWDFTFALQDVLCAPPAEAGDLALIFKLLPL  180 (253)
T ss_dssp             CCCSEEEEETCTTTHHHHHHT---TCSEEEEEESBHHHHHHHHHHHHHTTCEEEEEECCTTTSCCCCBCSEEEEESCHHH
T ss_pred             CCCCeEEEecCCccHHHHHhc---cCCeEEEEeCCHHHHHHHHHHHHhcCCCceEEEeecccCCCCCCcchHHHHHHHHH
Confidence            467899999999999999888   9999999998 777776664     5778999999998 4555 999999977775

>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=98.14  E-value=1e-06  Score=70.25  Aligned_cols=69  Identities=16%  Similarity=0.042  Sum_probs=55.4

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCC---CC-CccEEEecc
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNA---VP-NADAVFMKV  258 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~---~p-~aD~~~l~~  258 (266)
                      ....+|||+|||+|.++..+++. +..+++++|+ +.+++.+++       .++++++.+|+.+.   .+ .+|++++..
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            35679999999999999999988 7779999998 777776653       25799999999873   33 499999865


Q ss_pred             cc
Q 042491          259 IV  260 (266)
Q Consensus       259 vL  260 (266)
                      .+
T Consensus       109 ~~  110 (177)
T 2esr_A          109 PY  110 (177)
T ss_dssp             SS
T ss_pred             CC
Confidence            44

>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=98.14  E-value=4.6e-06  Score=75.21  Aligned_cols=63  Identities=19%  Similarity=0.198  Sum_probs=49.7

Q ss_pred             CceEEEecCCchHHHHHHHHHCCCCeEEEeecHHHHhhCCC-------CCCeEEEEccCCC-CCCC-ccEEEe
Q 042491          193 IRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPV-------YEGVSHVGGDMLN-AVPN-ADAVFM  256 (266)
Q Consensus       193 ~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~a~~-------~~ri~~~~gd~~~-~~p~-aD~~~l  256 (266)
                      .++|||||||+|.++...+++. .-+++.+|..++++.+++       .++|+++.+|+.+ ++|+ +|+++.
T Consensus        84 ~k~VLDvG~GtGiLs~~Aa~aG-A~~V~ave~s~~~~~a~~~~~~n~~~~~i~~i~~~~~~~~lpe~~Dvivs  155 (376)
T 4hc4_A           84 GKTVLDVGAGTGILSIFCAQAG-ARRVYAVEASAIWQQAREVVRFNGLEDRVHVLPGPVETVELPEQVDAIVS  155 (376)
T ss_dssp             TCEEEEETCTTSHHHHHHHHTT-CSEEEEEECSTTHHHHHHHHHHTTCTTTEEEEESCTTTCCCSSCEEEEEC
T ss_pred             CCEEEEeCCCccHHHHHHHHhC-CCEEEEEeChHHHHHHHHHHHHcCCCceEEEEeeeeeeecCCccccEEEe
Confidence            3689999999999887666653 348999998655555443       6899999999988 6886 999875

>2zfu_A Nucleomethylin, cerebral protein 1; nucleolar protein, SAM-binding protein, protein structure, N phosphoprotein, nuclear protein; HET: SAH; 2.00A {Homo sapiens}

Probab=98.13  E-value=4e-06  Score=68.95  Aligned_cols=58  Identities=17%  Similarity=0.162  Sum_probs=48.3

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeecHHHHhhCCCCCCeEEEEccCCC-CCC--CccEEEeccccc
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPVYEGVSHVGGDMLN-AVP--NADAVFMKVIVL  261 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~a~~~~ri~~~~gd~~~-~~p--~aD~~~l~~vLH  261 (266)
                      ....+|||||||+|.++..+.     .+++++|..+.        +++++.+|+.+ +++  .+|++++..+||
T Consensus        66 ~~~~~vLDiG~G~G~~~~~l~-----~~v~~~D~s~~--------~~~~~~~d~~~~~~~~~~fD~v~~~~~l~  126 (215)
T 2zfu_A           66 PASLVVADFGCGDCRLASSIR-----NPVHCFDLASL--------DPRVTVCDMAQVPLEDESVDVAVFCLSLM  126 (215)
T ss_dssp             CTTSCEEEETCTTCHHHHHCC-----SCEEEEESSCS--------STTEEESCTTSCSCCTTCEEEEEEESCCC
T ss_pred             CCCCeEEEECCcCCHHHHHhh-----ccEEEEeCCCC--------CceEEEeccccCCCCCCCEeEEEEehhcc
Confidence            456799999999999998883     57888898543        67899999988 565  399999999998

>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=98.13  E-value=3.9e-06  Score=71.14  Aligned_cols=76  Identities=12%  Similarity=0.265  Sum_probs=56.5

Q ss_pred             HHHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC----CCCeEEEEccCCC-CCCC-c
Q 042491          179 MSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV----YEGVSHVGGDMLN-AVPN-A  251 (266)
Q Consensus       179 ~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~----~~ri~~~~gd~~~-~~p~-a  251 (266)
                      ...+++..+  .....+|||||||+|.++..++++.  .+++++|. +.+++.+++    .++++++.+|+.+ +++. .
T Consensus        19 ~~~i~~~~~--~~~~~~VLDiG~G~G~lt~~l~~~~--~~v~~vD~~~~~~~~a~~~~~~~~~v~~~~~D~~~~~~~~~~   94 (244)
T 1qam_A           19 IDKIMTNIR--LNEHDNIFEIGSGKGHFTLELVQRC--NFVTAIEIDHKLCKTTENKLVDHDNFQVLNKDILQFKFPKNQ   94 (244)
T ss_dssp             HHHHHTTCC--CCTTCEEEEECCTTSHHHHHHHHHS--SEEEEECSCHHHHHHHHHHTTTCCSEEEECCCGGGCCCCSSC
T ss_pred             HHHHHHhCC--CCCCCEEEEEeCCchHHHHHHHHcC--CeEEEEECCHHHHHHHHHhhccCCCeEEEEChHHhCCcccCC
Confidence            345566555  5566899999999999999999996  68999998 666665543    4689999999998 6663 3


Q ss_pred             cEEEecc
Q 042491          252 DAVFMKV  258 (266)
Q Consensus       252 D~~~l~~  258 (266)
                      +..++.+
T Consensus        95 ~~~vv~n  101 (244)
T 1qam_A           95 SYKIFGN  101 (244)
T ss_dssp             CCEEEEE
T ss_pred             CeEEEEe
Confidence            3344433

>3duw_A OMT, O-methyltransferase, putative; alternating of alpha and beta with complex SAH; HET: SAH; 1.20A {Bacillus cereus} PDB: 3dul_A*

Probab=98.13  E-value=9.7e-07  Score=73.19  Aligned_cols=68  Identities=16%  Similarity=0.178  Sum_probs=55.9

Q ss_pred             CCceEEEecCCchHHHHHHHHHCC-CCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCC---C-----CCccEE
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYP-HIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNA---V-----PNADAV  254 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P-~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~---~-----p~aD~~  254 (266)
                      +..+|||||||+|..+..+++.+| +.+++.+|+ |..++.+++       .+||+++.+|..+.   +     ..+|++
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            568999999999999999999999 789999998 777766553       46899999998763   2     239999


Q ss_pred             Eeccc
Q 042491          255 FMKVI  259 (266)
Q Consensus       255 ~l~~v  259 (266)
                      ++...
T Consensus       138 ~~d~~  142 (223)
T 3duw_A          138 FIDAD  142 (223)
T ss_dssp             EECSC
T ss_pred             EEcCC
Confidence            87654

>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=98.13  E-value=1e-06  Score=73.95  Aligned_cols=71  Identities=23%  Similarity=0.244  Sum_probs=58.0

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCCCC--CccEEEeccccc
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNAVP--NADAVFMKVIVL  261 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~~p--~aD~~~l~~vLH  261 (266)
                      ...+|||||||+|.++..+++..  .+++++|+ |.+++.++.       .++++++.+|+.+..+  .+|+|++...+|
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            45799999999999999999975  78999998 777776654       2589999999988323  499999988887


Q ss_pred             cCC
Q 042491          262 IQD  264 (266)
Q Consensus       262 d~~  264 (266)
                      ..+
T Consensus       156 ~~~  158 (241)
T 3gdh_A          156 GPD  158 (241)
T ss_dssp             SGG
T ss_pred             Ccc
Confidence            643

>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=98.13  E-value=3.1e-06  Score=74.13  Aligned_cols=74  Identities=19%  Similarity=0.283  Sum_probs=58.8

Q ss_pred             HHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-----CCCeEEEEccCCC-C--C---
Q 042491          181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-----YEGVSHVGGDMLN-A--V---  248 (266)
Q Consensus       181 ~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-----~~ri~~~~gd~~~-~--~---  248 (266)
                      .+++.++  .....+|||+|||+|.++..+++.+|+.+++++|. |.+++.+++     .+|++++.+||.+ +  +   
T Consensus        17 e~l~~L~--~~~g~~vLD~g~G~G~~s~~la~~~~~~~VigvD~d~~al~~A~~~~~~~g~~v~~v~~d~~~l~~~l~~~   94 (301)
T 1m6y_A           17 EVIEFLK--PEDEKIILDCTVGEGGHSRAILEHCPGCRIIGIDVDSEVLRIAEEKLKEFSDRVSLFKVSYREADFLLKTL   94 (301)
T ss_dssp             HHHHHHC--CCTTCEEEETTCTTSHHHHHHHHHCTTCEEEEEESCHHHHHHHHHHTGGGTTTEEEEECCGGGHHHHHHHT
T ss_pred             HHHHhcC--CCCCCEEEEEeCCcCHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHHhcCCcEEEEECCHHHHHHHHHhc
Confidence            3445454  44567999999999999999999999999999998 777776653     3799999999876 2  1   


Q ss_pred             --CCccEEEe
Q 042491          249 --PNADAVFM  256 (266)
Q Consensus       249 --p~aD~~~l  256 (266)
                        ..+|.+++
T Consensus        95 g~~~~D~Vl~  104 (301)
T 1m6y_A           95 GIEKVDGILM  104 (301)
T ss_dssp             TCSCEEEEEE
T ss_pred             CCCCCCEEEE
Confidence              24898886

>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=98.13  E-value=5.5e-06  Score=72.34  Aligned_cols=74  Identities=15%  Similarity=0.206  Sum_probs=58.3

Q ss_pred             HHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC----CCCeEEEEccCCC-CCCC--c
Q 042491          180 STLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV----YEGVSHVGGDMLN-AVPN--A  251 (266)
Q Consensus       180 ~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~----~~ri~~~~gd~~~-~~p~--a  251 (266)
                      ..+++..+  .....+|||||||+|.+...+++.  ..+++++|+ +.+++.+++    .++++++.+|+.+ ++|.  +
T Consensus        40 ~~Iv~~l~--~~~~~~VLEIG~G~G~lT~~La~~--~~~V~aVEid~~li~~a~~~~~~~~~v~vi~gD~l~~~~~~~~f  115 (295)
T 3gru_A           40 NKAVESAN--LTKDDVVLEIGLGKGILTEELAKN--AKKVYVIEIDKSLEPYANKLKELYNNIEIIWGDALKVDLNKLDF  115 (295)
T ss_dssp             HHHHHHTT--CCTTCEEEEECCTTSHHHHHHHHH--SSEEEEEESCGGGHHHHHHHHHHCSSEEEEESCTTTSCGGGSCC
T ss_pred             HHHHHhcC--CCCcCEEEEECCCchHHHHHHHhc--CCEEEEEECCHHHHHHHHHHhccCCCeEEEECchhhCCcccCCc
Confidence            34555555  556679999999999999999998  468899998 666665543    4789999999998 6764  8


Q ss_pred             cEEEec
Q 042491          252 DAVFMK  257 (266)
Q Consensus       252 D~~~l~  257 (266)
                      |+++..
T Consensus       116 D~Iv~N  121 (295)
T 3gru_A          116 NKVVAN  121 (295)
T ss_dssp             SEEEEE
T ss_pred             cEEEEe
Confidence            988854

>1ws6_A Methyltransferase; structural genomics, riken structural genomics/proteomics initiative, RSGI; 2.50A {Thermus thermophilus} SCOP: c.66.1.46

Probab=98.12  E-value=1.2e-06  Score=69.15  Aligned_cols=68  Identities=18%  Similarity=0.028  Sum_probs=55.5

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-----CCCeEEEEccCCCCCC-------CccEEEecc
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-----YEGVSHVGGDMLNAVP-------NADAVFMKV  258 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-----~~ri~~~~gd~~~~~p-------~aD~~~l~~  258 (266)
                      ...+|||+|||+|.++..+++..++  ++++|. |.+++.++.     .-+++++.+|+.+..+       .+|++++..
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            4579999999999999999999876  899998 777776654     1289999999887322       499999987


Q ss_pred             ccc
Q 042491          259 IVL  261 (266)
Q Consensus       259 vLH  261 (266)
                      .+|
T Consensus       119 ~~~  121 (171)
T 1ws6_A          119 PYA  121 (171)
T ss_dssp             CTT
T ss_pred             CCc
Confidence            765

>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=98.11  E-value=3.6e-06  Score=71.72  Aligned_cols=68  Identities=18%  Similarity=0.277  Sum_probs=57.2

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-CCCeEEEEccCCC-CCC--CccEEEeccc
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-YEGVSHVGGDMLN-AVP--NADAVFMKVI  259 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-~~ri~~~~gd~~~-~~p--~aD~~~l~~v  259 (266)
                      ...+|||||||+|.++..+++.+|..+++++|. +.+++.+++ ..++.++.+|+.+ +++  .+|+++...+
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            567999999999999999999999999999998 777776654 5789999999987 555  3999997654

>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=98.10  E-value=4.8e-06  Score=68.91  Aligned_cols=68  Identities=7%  Similarity=0.134  Sum_probs=53.2

Q ss_pred             CCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHH----HhhCCCCCCeEEEEccCCCC-----CCC-ccEEEec
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHV----VATAPVYEGVSHVGGDMLNA-----VPN-ADAVFMK  257 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v----~~~a~~~~ri~~~~gd~~~~-----~p~-aD~~~l~  257 (266)
                      .....+|||||||+|.++..+++..|+.+++++|+ |.+    ++.++...++.++.+|+..+     +++ +|++++.
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            45667999999999999999999998778999998 543    33333346799999998763     334 9999875

>3p2e_A 16S rRNA methylase; methyltransferase, transferase, NPMA; HET: SAH; 1.68A {Escherichia coli} PDB: 3p2i_A 3p2k_A* 3pb3_A* 3mte_A*

Probab=98.10  E-value=3.3e-06  Score=70.71  Aligned_cols=67  Identities=15%  Similarity=0.096  Sum_probs=50.6

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec--HHHHhhC---CC------CCCeEEEEccCCCCCCC--ccEEEecc
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL--PHVVATA---PV------YEGVSHVGGDMLNAVPN--ADAVFMKV  258 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl--p~v~~~a---~~------~~ri~~~~gd~~~~~p~--aD~~~l~~  258 (266)
                      ...+|||||||+|.++..+++++|+.+++++|+  +.+++.+   ++      ..+|+++.+|... +|.  +|++....
T Consensus        24 ~~~~vLDiGCG~G~~~~~la~~~~~~~v~GvD~s~~~ml~~A~~A~~~~~~~~~~~v~~~~~d~~~-l~~~~~d~v~~i~  102 (225)
T 3p2e_A           24 FDRVHIDLGTGDGRNIYKLAINDQNTFYIGIDPVKENLFDISKKIIKKPSKGGLSNVVFVIAAAES-LPFELKNIADSIS  102 (225)
T ss_dssp             CSEEEEEETCTTSHHHHHHHHTCTTEEEEEECSCCGGGHHHHHHHTSCGGGTCCSSEEEECCBTTB-CCGGGTTCEEEEE
T ss_pred             CCCEEEEEeccCcHHHHHHHHhCCCCEEEEEeCCHHHHHHHHHHHHHHHHHcCCCCeEEEEcCHHH-hhhhccCeEEEEE
Confidence            557999999999999999999999999999998  4444443   33      3579999999876 342  35554443


Q ss_pred             c
Q 042491          259 I  259 (266)
Q Consensus       259 v  259 (266)
                      +
T Consensus       103 ~  103 (225)
T 3p2e_A          103 I  103 (225)
T ss_dssp             E
T ss_pred             E
Confidence            3

>3eey_A Putative rRNA methylase; rRNA methylation, S-adenosyl-methionine, structural genomics structure initiative, PSI; HET: SAM; 2.20A {Clostridium thermocellum atcc 27405}

Probab=98.10  E-value=2.4e-06  Score=69.34  Aligned_cols=71  Identities=17%  Similarity=0.224  Sum_probs=56.9

Q ss_pred             CCCCceEEEecCCchHHHHHHHHHC-CCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCC-C-C-CC-ccEEEe
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEFY-PHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLN-A-V-PN-ADAVFM  256 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~~-P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~-~-~-p~-aD~~~l  256 (266)
                      .....+|||+|||+|.++..+++.+ |..+++++|. +.+++.+++       .++++++.+|+.+ + . ++ +|++++
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            3456799999999999999999996 7789999998 777776654       3689999999876 2 3 33 999997


Q ss_pred             cccc
Q 042491          257 KVIV  260 (266)
Q Consensus       257 ~~vL  260 (266)
                      ...+
T Consensus       100 ~~~~  103 (197)
T 3eey_A          100 NLGY  103 (197)
T ss_dssp             EESB
T ss_pred             cCCc
Confidence            7544

>2pbf_A Protein-L-isoaspartate O-methyltransferase beta-A methyltransferase; protein repair, isoaspartyl formation, P. falciparum; HET: SAH; 2.00A {Plasmodium falciparum}

Probab=98.10  E-value=1.2e-05  Score=66.57  Aligned_cols=74  Identities=11%  Similarity=0.066  Sum_probs=59.9

Q ss_pred             CCCCceEEEecCCchHHHHHHHHHC-----CCCeEEEeec-HHHHhhCCC-----------CCCeEEEEccCCCCC----
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEFY-----PHIKGVNFDL-PHVVATAPV-----------YEGVSHVGGDMLNAV----  248 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~~-----P~l~~~~~Dl-p~v~~~a~~-----------~~ri~~~~gd~~~~~----  248 (266)
                      .....+|||||||+|.++..+++..     |+.+++++|. +..++.+++           .++++++.+|+.+..    
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            4456899999999999999999987     6789999998 666665543           258999999998854    


Q ss_pred             C---CccEEEeccccccC
Q 042491          249 P---NADAVFMKVIVLIQ  263 (266)
Q Consensus       249 p---~aD~~~l~~vLHd~  263 (266)
                      +   .+|+|++...+|..
T Consensus       158 ~~~~~fD~I~~~~~~~~~  175 (227)
T 2pbf_A          158 KELGLFDAIHVGASASEL  175 (227)
T ss_dssp             HHHCCEEEEEECSBBSSC
T ss_pred             ccCCCcCEEEECCchHHH
Confidence            2   39999998888753

>3p9n_A Possible methyltransferase (methylase); RV2966C, adoMet binding, RNA methylase, RSMD, SAM-fold, RNA methyltransferase; 1.90A {Mycobacterium tuberculosis}

Probab=98.09  E-value=3.8e-06  Score=67.84  Aligned_cols=70  Identities=13%  Similarity=0.048  Sum_probs=55.9

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCCC---C-C-CccEEEeccc
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLNA---V-P-NADAVFMKVI  259 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~~---~-p-~aD~~~l~~v  259 (266)
                      ...+|||+|||+|.++..+++. +..+++++|+ |.+++.+++      .++++++.+|+.+.   + + .+|++++.-.
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            4579999999999999988774 6668999998 777777664      36899999998872   3 2 4999999766


Q ss_pred             ccc
Q 042491          260 VLI  262 (266)
Q Consensus       260 LHd  262 (266)
                      +|.
T Consensus       123 ~~~  125 (189)
T 3p9n_A          123 YNV  125 (189)
T ss_dssp             TTS
T ss_pred             CCc
Confidence            554

>3tma_A Methyltransferase; thump domain; 2.05A {Thermus thermophilus}

Probab=98.08  E-value=4.9e-06  Score=74.25  Aligned_cols=76  Identities=16%  Similarity=0.070  Sum_probs=61.1

Q ss_pred             HHHHhhcccCCCCCceEEEecCCchHHHHHHHHHC-CCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCC-CCC-
Q 042491          180 STLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFY-PHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLN-AVP-  249 (266)
Q Consensus       180 ~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~-P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~-~~p-  249 (266)
                      ..++....  +....+|||+|||+|.++.+++... |+.+++++|. |.+++.++.      .++|+++.+|+.+ +.+ 
T Consensus       193 ~~l~~~~~--~~~~~~vLD~gcGsG~~~ie~a~~~~~~~~v~g~Di~~~~i~~a~~n~~~~g~~~i~~~~~D~~~~~~~~  270 (354)
T 3tma_A          193 QALLRLAD--ARPGMRVLDPFTGSGTIALEAASTLGPTSPVYAGDLDEKRLGLAREAALASGLSWIRFLRADARHLPRFF  270 (354)
T ss_dssp             HHHHHHTT--CCTTCCEEESSCTTSHHHHHHHHHHCTTSCEEEEESCHHHHHHHHHHHHHTTCTTCEEEECCGGGGGGTC
T ss_pred             HHHHHHhC--CCCCCEEEeCCCCcCHHHHHHHHhhCCCceEEEEECCHHHHHHHHHHHHHcCCCceEEEeCChhhCcccc
Confidence            34455555  6677899999999999999999998 9999999998 777776654      2389999999998 433 


Q ss_pred             -CccEEEec
Q 042491          250 -NADAVFMK  257 (266)
Q Consensus       250 -~aD~~~l~  257 (266)
                       .+|++++.
T Consensus       271 ~~~D~Ii~n  279 (354)
T 3tma_A          271 PEVDRILAN  279 (354)
T ss_dssp             CCCSEEEEC
T ss_pred             CCCCEEEEC
Confidence             47999883

>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=98.07  E-value=1.4e-06  Score=73.35  Aligned_cols=64  Identities=14%  Similarity=0.101  Sum_probs=51.5

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-----CCCeEEEEccCCC---CCCC--ccEEEe
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-----YEGVSHVGGDMLN---AVPN--ADAVFM  256 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-----~~ri~~~~gd~~~---~~p~--aD~~~l  256 (266)
                      ...+|||||||.|..+..+++..|. +++++|+ |.+++.+++     ..+++++.+|...   ++|.  ||.+++
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            5579999999999999999998885 7899998 888887764     4578889888654   3553  888864

>3tr6_A O-methyltransferase; cellular processes; HET: SAH; 2.70A {Coxiella burnetii} SCOP: c.66.1.0

Probab=98.06  E-value=1.7e-06  Score=71.67  Aligned_cols=68  Identities=13%  Similarity=0.111  Sum_probs=55.3

Q ss_pred             CCceEEEecCCchHHHHHHHHHCC-CCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCC---C------CCccE
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYP-HIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNA---V------PNADA  253 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P-~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~---~------p~aD~  253 (266)
                      +..+|||||||+|..+..+++.+| +.+++.+|. |+.++.+++       .++|+++.+|..+.   +      ..+|+
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 789999998 677766553       46899999998762   2      34999


Q ss_pred             EEeccc
Q 042491          254 VFMKVI  259 (266)
Q Consensus       254 ~~l~~v  259 (266)
                      +++...
T Consensus       144 v~~~~~  149 (225)
T 3tr6_A          144 IYIDAD  149 (225)
T ss_dssp             EEECSC
T ss_pred             EEECCC
Confidence            996543

>3lcv_B Sisomicin-gentamicin resistance methylase SGM; antibiotic resistance, methyltransferase, transferase; HET: SAM; 2.00A {Micromonospora zionensis} PDB: 3lcu_A*

Probab=98.06  E-value=2.1e-06  Score=73.33  Aligned_cols=73  Identities=14%  Similarity=0.048  Sum_probs=62.2

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-----CCCeEEEEccCCCCCC-C-ccEEEecccccc
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-----YEGVSHVGGDMLNAVP-N-ADAVFMKVIVLI  262 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-----~~ri~~~~gd~~~~~p-~-aD~~~l~~vLHd  262 (266)
                      ..+.+|+|||||.|-++..+...+|+.+.+.+|+ +.+++.+++     ..+.++...|+..+.| + +|++++.-++|.
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            4578999999999999999999999999999998 667766554     4568999999999644 4 999999998886


Q ss_pred             C
Q 042491          263 Q  263 (266)
Q Consensus       263 ~  263 (266)
                      -
T Consensus       211 L  211 (281)
T 3lcv_B          211 L  211 (281)
T ss_dssp             H
T ss_pred             h
Confidence            3

>2ipx_A RRNA 2'-O-methyltransferase fibrillarin; FBL, structural genomics, structural genomics consortium, SGC; HET: MTA; 1.82A {Homo sapiens}

Probab=98.05  E-value=4.3e-06  Score=69.91  Aligned_cols=68  Identities=12%  Similarity=0.179  Sum_probs=54.0

Q ss_pred             CCCCceEEEecCCchHHHHHHHHHC-CCCeEEEeec-HH----HHhhCCCCCCeEEEEccCCCC--CC----CccEEEec
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEFY-PHIKGVNFDL-PH----VVATAPVYEGVSHVGGDMLNA--VP----NADAVFMK  257 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~~-P~l~~~~~Dl-p~----v~~~a~~~~ri~~~~gd~~~~--~p----~aD~~~l~  257 (266)
                      +....+|||||||+|.++..+++.+ |+.+++++|+ |.    +++.++...+++++.+|+.++  +|    .+|++++.
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            4566899999999999999999997 7889999998 43    344443357899999999883  22    38999974

>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=98.04  E-value=3.6e-06  Score=72.69  Aligned_cols=67  Identities=19%  Similarity=0.216  Sum_probs=55.3

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC----------CCCeEEEEccCCCC---CC-CccEEEe
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV----------YEGVSHVGGDMLNA---VP-NADAVFM  256 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~----------~~ri~~~~gd~~~~---~p-~aD~~~l  256 (266)
                      ...+|||||||+|..++++++..|..+++++|+ |.+++.+++          .+|++++.+|..+.   .+ .+|+|++
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            568999999999999999999878889999998 777775542          47999999998762   23 3999998


Q ss_pred             cc
Q 042491          257 KV  258 (266)
Q Consensus       257 ~~  258 (266)
                      --
T Consensus       155 d~  156 (275)
T 1iy9_A          155 DS  156 (275)
T ss_dssp             SC
T ss_pred             CC
Confidence            43

>3dr5_A Putative O-methyltransferase; Q8NRD3, CGL1119, PF01596, CGR117, NESG, structural genomics, PSI-2, protein structure initiative; 2.25A {Corynebacterium glutamicum}

Probab=98.04  E-value=5.2e-06  Score=69.30  Aligned_cols=67  Identities=13%  Similarity=0.021  Sum_probs=54.1

Q ss_pred             ceEEEecCCchHHHHHHHHHCC-CCeEEEeec-HHHHhhCCC-------C-CCeEEEEccCCC---CC-C-CccEEEecc
Q 042491          194 RSLVDVGGGTGEELAEIVEFYP-HIKGVNFDL-PHVVATAPV-------Y-EGVSHVGGDMLN---AV-P-NADAVFMKV  258 (266)
Q Consensus       194 ~~vvDvGgG~G~~~~~l~~~~P-~l~~~~~Dl-p~v~~~a~~-------~-~ri~~~~gd~~~---~~-p-~aD~~~l~~  258 (266)
                      .+|||||||+|..+..+++..| +.+++.+|. |+.++.+++       . +||+++.||..+   .+ + .||++++..
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 789999998 666666553       3 689999999876   24 3 399998864


Q ss_pred             cc
Q 042491          259 IV  260 (266)
Q Consensus       259 vL  260 (266)
                      ..
T Consensus       138 ~~  139 (221)
T 3dr5_A          138 SP  139 (221)
T ss_dssp             CT
T ss_pred             cH
Confidence            43

>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=98.04  E-value=1.1e-05  Score=66.89  Aligned_cols=69  Identities=16%  Similarity=0.248  Sum_probs=53.5

Q ss_pred             CCCCceEEEecCCchHHHHHHHHHC-CCCeEEEeec-HHHHh----hCCCCCCeEEEEccCCCC-----CC-CccEEEec
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEFY-PHIKGVNFDL-PHVVA----TAPVYEGVSHVGGDMLNA-----VP-NADAVFMK  257 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~~-P~l~~~~~Dl-p~v~~----~a~~~~ri~~~~gd~~~~-----~p-~aD~~~l~  257 (266)
                      .....+|||+|||+|.++..+++.. |+.+++++|. +.+++    .++..++++++.+|+.++     ++ .+|++++.
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            4466799999999999999999985 6789999998 54443    333357899999999872     23 39999964


Q ss_pred             c
Q 042491          258 V  258 (266)
Q Consensus       258 ~  258 (266)
                      .
T Consensus       151 ~  151 (227)
T 1g8a_A          151 V  151 (227)
T ss_dssp             C
T ss_pred             C
Confidence            3

>3evz_A Methyltransferase; NYSGXRC, NEW YORK SGX research CE structural genomics, protein structure initiative, pyrococc furiosus, PSI-2; 2.20A {Pyrococcus furiosus}

Probab=98.03  E-value=8.7e-06  Score=67.59  Aligned_cols=71  Identities=17%  Similarity=0.190  Sum_probs=56.4

Q ss_pred             CCCCceEEEecCC-chHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-----CCCeEEEEccC--CCCCC--CccEEEecc
Q 042491          190 FDGIRSLVDVGGG-TGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-----YEGVSHVGGDM--LNAVP--NADAVFMKV  258 (266)
Q Consensus       190 ~~~~~~vvDvGgG-~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-----~~ri~~~~gd~--~~~~p--~aD~~~l~~  258 (266)
                      .....+||||||| +|.++..+++.. ..+++++|. |.+++.+++     .-+++++.+|+  +.+++  .+|++++.-
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            3466899999999 999999999987 779999998 777776653     23899999996  44555  399999864


Q ss_pred             ccc
Q 042491          259 IVL  261 (266)
Q Consensus       259 vLH  261 (266)
                      ..|
T Consensus       132 p~~  134 (230)
T 3evz_A          132 PYY  134 (230)
T ss_dssp             CCC
T ss_pred             CCc
Confidence            443

>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=98.02  E-value=5.2e-06  Score=70.53  Aligned_cols=69  Identities=23%  Similarity=0.162  Sum_probs=54.1

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-CCCeEEEEccCCC-CCC--CccEEEeccccccC
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-YEGVSHVGGDMLN-AVP--NADAVFMKVIVLIQ  263 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-~~ri~~~~gd~~~-~~p--~aD~~~l~~vLHd~  263 (266)
                      ...+|||||||+|.++..+++.  ..+++++|. +.+++.+++ ... .++.+|+.+ ++|  .+|++++..+++.|
T Consensus        54 ~~~~vLDiGcG~G~~~~~l~~~--~~~v~gvD~s~~~l~~a~~~~~~-~~~~~d~~~~~~~~~~fD~v~~~~~~~~~  127 (260)
T 2avn_A           54 NPCRVLDLGGGTGKWSLFLQER--GFEVVLVDPSKEMLEVAREKGVK-NVVEAKAEDLPFPSGAFEAVLALGDVLSY  127 (260)
T ss_dssp             SCCEEEEETCTTCHHHHHHHTT--TCEEEEEESCHHHHHHHHHHTCS-CEEECCTTSCCSCTTCEEEEEECSSHHHH
T ss_pred             CCCeEEEeCCCcCHHHHHHHHc--CCeEEEEeCCHHHHHHHHhhcCC-CEEECcHHHCCCCCCCEEEEEEcchhhhc
Confidence            5679999999999999999987  468999998 777776654 222 388899987 565  39999998866554

>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=98.02  E-value=6.4e-06  Score=68.52  Aligned_cols=74  Identities=18%  Similarity=0.200  Sum_probs=59.6

Q ss_pred             CCCCceEEEecCCchHHHHHHHHHCC------CCeEEEeec-HHHHhhCCC-----------CCCeEEEEccCCCCCC--
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEFYP------HIKGVNFDL-PHVVATAPV-----------YEGVSHVGGDMLNAVP--  249 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~~P------~l~~~~~Dl-p~v~~~a~~-----------~~ri~~~~gd~~~~~p--  249 (266)
                      .....+|||||||+|.++..+++..+      ..+++++|. |++++.+++           .++++++.+|..+++|  
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            34567999999999999999999766      368999997 666666553           2589999999988654  


Q ss_pred             -CccEEEeccccccC
Q 042491          250 -NADAVFMKVIVLIQ  263 (266)
Q Consensus       250 -~aD~~~l~~vLHd~  263 (266)
                       .+|++++...+|..
T Consensus       162 ~~fD~I~~~~~~~~~  176 (227)
T 1r18_A          162 APYNAIHVGAAAPDT  176 (227)
T ss_dssp             CSEEEEEECSCBSSC
T ss_pred             CCccEEEECCchHHH
Confidence             39999999888764

>2kw5_A SLR1183 protein; structural genomics, northeast structural genomics consortium (NESG), PSI-2, protein structure initiative, unknown function; NMR {Synechocystis} PDB: 3mer_A

Probab=98.02  E-value=8.4e-06  Score=66.21  Aligned_cols=61  Identities=10%  Similarity=0.125  Sum_probs=50.9

Q ss_pred             eEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-----CCCeEEEEccCCC-CCC--CccEEEec
Q 042491          195 SLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-----YEGVSHVGGDMLN-AVP--NADAVFMK  257 (266)
Q Consensus       195 ~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-----~~ri~~~~gd~~~-~~p--~aD~~~l~  257 (266)
                      +|||||||+|.++..+++.  ..+++++|. +.+++.+++     ..+++++.+|+.+ ++|  .+|++++.
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  568999998 777776654     3489999999988 555  39999984

>2h1r_A Dimethyladenosine transferase, putative; SGC toronto dimethyladenosine transferase, structural genomics, structural genomics consortium; 1.89A {Plasmodium falciparum}

Probab=98.02  E-value=6.1e-06  Score=72.09  Aligned_cols=74  Identities=16%  Similarity=0.363  Sum_probs=53.9

Q ss_pred             HHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCC-CCCCc
Q 042491          180 STLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLN-AVPNA  251 (266)
Q Consensus       180 ~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~-~~p~a  251 (266)
                      ..+++..+  .....+|||||||+|.++..+++.  ..+++++|+ +.+++.+++      .++++++.+|+.+ +.+.+
T Consensus        32 ~~i~~~~~--~~~~~~VLDiG~G~G~lt~~La~~--~~~v~~vDi~~~~~~~a~~~~~~~~~~~v~~~~~D~~~~~~~~~  107 (299)
T 2h1r_A           32 DKIIYAAK--IKSSDIVLEIGCGTGNLTVKLLPL--AKKVITIDIDSRMISEVKKRCLYEGYNNLEVYEGDAIKTVFPKF  107 (299)
T ss_dssp             HHHHHHHC--CCTTCEEEEECCTTSTTHHHHTTT--SSEEEEECSCHHHHHHHHHHHHHTTCCCEEC----CCSSCCCCC
T ss_pred             HHHHHhcC--CCCcCEEEEEcCcCcHHHHHHHhc--CCEEEEEECCHHHHHHHHHHHHHcCCCceEEEECchhhCCcccC
Confidence            34455555  556689999999999999999987  458999998 666665543      3689999999988 56679


Q ss_pred             cEEEec
Q 042491          252 DAVFMK  257 (266)
Q Consensus       252 D~~~l~  257 (266)
                      |++++.
T Consensus       108 D~Vv~n  113 (299)
T 2h1r_A          108 DVCTAN  113 (299)
T ss_dssp             SEEEEE
T ss_pred             CEEEEc
Confidence            998873

>2avd_A Catechol-O-methyltransferase; structural genomics, structural genomics consortium, SGC; HET: SAM; 1.70A {Homo sapiens} SCOP: c.66.1.1

Probab=98.00  E-value=2.5e-06  Score=70.91  Aligned_cols=68  Identities=12%  Similarity=0.061  Sum_probs=55.1

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCC-CCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCC---C------CCcc
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYP-HIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNA---V------PNAD  252 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P-~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~---~------p~aD  252 (266)
                      .+..+|||||||+|..+..+++..| +.+++++|. |..++.+++       .++|+++.+|+.+.   +      ..+|
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            3567999999999999999999988 789999998 666665553       37899999998662   2      3499


Q ss_pred             EEEecc
Q 042491          253 AVFMKV  258 (266)
Q Consensus       253 ~~~l~~  258 (266)
                      ++++..
T Consensus       148 ~v~~d~  153 (229)
T 2avd_A          148 VAVVDA  153 (229)
T ss_dssp             EEEECS
T ss_pred             EEEECC
Confidence            998753

>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=98.00  E-value=7.7e-06  Score=74.38  Aligned_cols=82  Identities=16%  Similarity=0.120  Sum_probs=59.2

Q ss_pred             HHHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCCCCCeEEEEccCCC------CCC--
Q 042491          179 MSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPVYEGVSHVGGDMLN------AVP--  249 (266)
Q Consensus       179 ~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~~ri~~~~gd~~~------~~p--  249 (266)
                      ...+++.+.  .....+|||||||+|.++..++++.  .+++++|. +.+++.+++. .+......|..      +++  
T Consensus        96 ~~~l~~~~~--~~~~~~VLDiGcG~G~~~~~l~~~g--~~v~gvD~s~~~~~~a~~~-~~~~~~~~~~~~~~~~l~~~~~  170 (416)
T 4e2x_A           96 ARDFLATEL--TGPDPFIVEIGCNDGIMLRTIQEAG--VRHLGFEPSSGVAAKAREK-GIRVRTDFFEKATADDVRRTEG  170 (416)
T ss_dssp             HHHHHHTTT--CSSSCEEEEETCTTTTTHHHHHHTT--CEEEEECCCHHHHHHHHTT-TCCEECSCCSHHHHHHHHHHHC
T ss_pred             HHHHHHHhC--CCCCCEEEEecCCCCHHHHHHHHcC--CcEEEECCCHHHHHHHHHc-CCCcceeeechhhHhhcccCCC
Confidence            455666665  5667899999999999999999874  48999998 6777766542 34433322221      122  


Q ss_pred             CccEEEeccccccCCC
Q 042491          250 NADAVFMKVIVLIQDL  265 (266)
Q Consensus       250 ~aD~~~l~~vLHd~~~  265 (266)
                      .+|+|++.++||++++
T Consensus       171 ~fD~I~~~~vl~h~~d  186 (416)
T 4e2x_A          171 PANVIYAANTLCHIPY  186 (416)
T ss_dssp             CEEEEEEESCGGGCTT
T ss_pred             CEEEEEECChHHhcCC
Confidence            4999999999999865

>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=98.00  E-value=6.2e-06  Score=71.17  Aligned_cols=65  Identities=18%  Similarity=0.095  Sum_probs=54.3

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCCC-C-CccEEEec
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNAV-P-NADAVFMK  257 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~~-p-~aD~~~l~  257 (266)
                      ...+|||+|||+|.++..+++..+. +++++|+ |.+++.+++       .++++++.+|+++.. + .+|++++.
T Consensus       125 ~~~~VLDlgcG~G~~~~~la~~~~~-~V~~vD~s~~~~~~a~~n~~~n~~~~~v~~~~~D~~~~~~~~~fD~Vi~~  199 (278)
T 2frn_A          125 PDELVVDMFAGIGHLSLPIAVYGKA-KVIAIEKDPYTFKFLVENIHLNKVEDRMSAYNMDNRDFPGENIADRILMG  199 (278)
T ss_dssp             TTCEEEETTCTTTTTHHHHHHHTCC-EEEEECCCHHHHHHHHHHHHHTTCTTTEEEECSCTTTCCCCSCEEEEEEC
T ss_pred             CCCEEEEecccCCHHHHHHHHhCCC-EEEEEECCHHHHHHHHHHHHHcCCCceEEEEECCHHHhcccCCccEEEEC
Confidence            4689999999999999999999887 8999998 777776553       457999999999843 3 39999884

>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=98.00  E-value=3.3e-06  Score=73.92  Aligned_cols=73  Identities=19%  Similarity=0.179  Sum_probs=56.6

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC----------CCCeEEEEccCCCC---CC--CccEE
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV----------YEGVSHVGGDMLNA---VP--NADAV  254 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~----------~~ri~~~~gd~~~~---~p--~aD~~  254 (266)
                      ....+|||||||+|..++.+++..|..+++++|+ |.+++.+++          .+|++++.+|+.+.   .+  .+|+|
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            3568999999999999999999888889999998 777765542          47899999998772   13  39999


Q ss_pred             EeccccccC
Q 042491          255 FMKVIVLIQ  263 (266)
Q Consensus       255 ~l~~vLHd~  263 (266)
                      ++....+.+
T Consensus       174 i~d~~~~~~  182 (304)
T 3bwc_A          174 IIDTTDPAG  182 (304)
T ss_dssp             EEECC----
T ss_pred             EECCCCccc
Confidence            986655543

>2hnk_A SAM-dependent O-methyltransferase; modified rossman fold; HET: SAH; 2.30A {Leptospira interrogans}

Probab=97.99  E-value=4.8e-06  Score=69.94  Aligned_cols=70  Identities=17%  Similarity=0.162  Sum_probs=55.9

Q ss_pred             CCceEEEecCCchHHHHHHHHHCC-CCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCC---C-----------
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYP-HIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNA---V-----------  248 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P-~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~---~-----------  248 (266)
                      +..+|||||||+|..+..+++.+| ..+++++|. |..++.+++       .++|+++.+|+.+.   +           
T Consensus        60 ~~~~VLdiG~G~G~~~~~la~~~~~~~~v~~vD~~~~~~~~a~~~~~~~g~~~~v~~~~~d~~~~~~~~~~~~~~~~~~~  139 (239)
T 2hnk_A           60 GAKRIIEIGTFTGYSSLCFASALPEDGKILCCDVSEEWTNVARKYWKENGLENKIFLKLGSALETLQVLIDSKSAPSWAS  139 (239)
T ss_dssp             TCSEEEEECCTTCHHHHHHHHHSCTTCEEEEEESCHHHHHHHHHHHHHTTCGGGEEEEESCHHHHHHHHHHCSSCCGGGT
T ss_pred             CcCEEEEEeCCCCHHHHHHHHhCCCCCEEEEEECCHHHHHHHHHHHHHcCCCCCEEEEECCHHHHHHHHHhhcccccccc
Confidence            457999999999999999999998 689999998 777766553       35799999998662   2           


Q ss_pred             ------CCccEEEeccccc
Q 042491          249 ------PNADAVFMKVIVL  261 (266)
Q Consensus       249 ------p~aD~~~l~~vLH  261 (266)
                            ..+|+|++.....
T Consensus       140 ~f~~~~~~fD~I~~~~~~~  158 (239)
T 2hnk_A          140 DFAFGPSSIDLFFLDADKE  158 (239)
T ss_dssp             TTCCSTTCEEEEEECSCGG
T ss_pred             cccCCCCCcCEEEEeCCHH
Confidence                  3499999875443

>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=97.99  E-value=1.7e-05  Score=65.64  Aligned_cols=74  Identities=20%  Similarity=0.138  Sum_probs=58.8

Q ss_pred             CCCCceEEEecCCchHHHHHHHHHC-CCCeEEEeec-HHHHhhCCC-----------CCCeEEEEccCCCCCC---CccE
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEFY-PHIKGVNFDL-PHVVATAPV-----------YEGVSHVGGDMLNAVP---NADA  253 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~~-P~l~~~~~Dl-p~v~~~a~~-----------~~ri~~~~gd~~~~~p---~aD~  253 (266)
                      .....+|||||||+|..+..+++.. |..+++++|. |..++.+++           .++++++.+|+....+   .+|+
T Consensus        75 ~~~~~~vLDiG~G~G~~~~~la~~~~~~~~v~~vD~s~~~~~~a~~~~~~~~~~~~~~~~v~~~~~d~~~~~~~~~~fD~  154 (226)
T 1i1n_A           75 LHEGAKALDVGSGSGILTACFARMVGCTGKVIGIDHIKELVDDSVNNVRKDDPTLLSSGRVQLVVGDGRMGYAEEAPYDA  154 (226)
T ss_dssp             SCTTCEEEEETCTTSHHHHHHHHHHCTTCEEEEEESCHHHHHHHHHHHHHHCTHHHHTSSEEEEESCGGGCCGGGCCEEE
T ss_pred             CCCCCEEEEEcCCcCHHHHHHHHHhCCCcEEEEEeCCHHHHHHHHHHHHhhcccccCCCcEEEEECCcccCcccCCCcCE
Confidence            3456799999999999999999985 7789999998 676665543           2589999999886422   4999


Q ss_pred             EEeccccccC
Q 042491          254 VFMKVIVLIQ  263 (266)
Q Consensus       254 ~~l~~vLHd~  263 (266)
                      +++...++..
T Consensus       155 i~~~~~~~~~  164 (226)
T 1i1n_A          155 IHVGAAAPVV  164 (226)
T ss_dssp             EEECSBBSSC
T ss_pred             EEECCchHHH
Confidence            9998877654

>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=97.99  E-value=2.9e-06  Score=72.24  Aligned_cols=68  Identities=19%  Similarity=0.263  Sum_probs=53.0

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-----CCCeEEEEccCCCCCC--CccEEEecccc
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-----YEGVSHVGGDMLNAVP--NADAVFMKVIV  260 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-----~~ri~~~~gd~~~~~p--~aD~~~l~~vL  260 (266)
                      .+..+|||||||+|.++..+++..+  +++++|. |.+++.+++     .-.+++..+|+.+.+|  .+|++++....
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--KALGVDIDPMVLPQAEANAKRNGVRPRFLEGSLEAALPFGPFDLLVANLYA  194 (254)
T ss_dssp             CTTCEEEEETCTTSHHHHHHHHTTC--EEEEEESCGGGHHHHHHHHHHTTCCCEEEESCHHHHGGGCCEEEEEEECCH
T ss_pred             CCCCEEEEecCCCcHHHHHHHHhCC--eEEEEECCHHHHHHHHHHHHHcCCcEEEEECChhhcCcCCCCCEEEECCcH
Confidence            3567999999999999999999876  9999998 666665553     1128999999887554  49999976443

>3c3p_A Methyltransferase; NP_951602.1, structural genomics, joint for structural genomics, JCSG, protein structure initiative transferase; 1.90A {Geobacter sulfurreducens pca}

Probab=97.98  E-value=2.8e-06  Score=69.77  Aligned_cols=66  Identities=24%  Similarity=0.168  Sum_probs=54.4

Q ss_pred             CCceEEEecCCchHHHHHHHHHCC-CCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCC--C-CCCccEEEec
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYP-HIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLN--A-VPNADAVFMK  257 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P-~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~--~-~p~aD~~~l~  257 (266)
                      +..+|||||||+|..+..+++..| +.+++.+|. |.+++.+++       .++|+++.+|..+  + .+++|++++.
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 789999998 777776653       3589999999876  2 2238999875

>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=97.98  E-value=1.8e-05  Score=67.26  Aligned_cols=76  Identities=17%  Similarity=0.245  Sum_probs=56.9

Q ss_pred             HHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC--CCCeEEEEccCCC-CCCC-c-cE
Q 042491          180 STLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV--YEGVSHVGGDMLN-AVPN-A-DA  253 (266)
Q Consensus       180 ~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~--~~ri~~~~gd~~~-~~p~-a-D~  253 (266)
                      ..+++..+  .....+|||||||+|.+...++++ +..+++++|+ +.+++.+++  ..+++++.+|+.+ +++. . +.
T Consensus        21 ~~iv~~~~--~~~~~~VLDiG~G~G~lt~~L~~~-~~~~v~avEid~~~~~~~~~~~~~~v~~i~~D~~~~~~~~~~~~~   97 (249)
T 3ftd_A           21 KKIAEELN--IEEGNTVVEVGGGTGNLTKVLLQH-PLKKLYVIELDREMVENLKSIGDERLEVINEDASKFPFCSLGKEL   97 (249)
T ss_dssp             HHHHHHTT--CCTTCEEEEEESCHHHHHHHHTTS-CCSEEEEECCCHHHHHHHTTSCCTTEEEECSCTTTCCGGGSCSSE
T ss_pred             HHHHHhcC--CCCcCEEEEEcCchHHHHHHHHHc-CCCeEEEEECCHHHHHHHHhccCCCeEEEEcchhhCChhHccCCc
Confidence            34555555  556689999999999999999987 5678999998 667766554  4689999999998 5653 2 34


Q ss_pred             EEecc
Q 042491          254 VFMKV  258 (266)
Q Consensus       254 ~~l~~  258 (266)
                      .++.|
T Consensus        98 ~vv~N  102 (249)
T 3ftd_A           98 KVVGN  102 (249)
T ss_dssp             EEEEE
T ss_pred             EEEEE
Confidence            44444

>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=97.98  E-value=3.3e-06  Score=70.73  Aligned_cols=67  Identities=13%  Similarity=0.074  Sum_probs=52.5

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-----CCCeEEEEccCCC---CCC--CccEEEe-ccc
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-----YEGVSHVGGDMLN---AVP--NADAVFM-KVI  259 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-----~~ri~~~~gd~~~---~~p--~aD~~~l-~~v  259 (266)
                      ...+|||||||+|.++..+++..+. +++++|. |.+++.+++     ..+++++.+|+.+   +++  .+|+|++ ...
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            4579999999999999999665543 8999998 777766653     4679999999876   455  3999998 443

>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=97.98  E-value=3e-05  Score=66.80  Aligned_cols=74  Identities=27%  Similarity=0.309  Sum_probs=57.1

Q ss_pred             CCceEEEecCCc---hHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCCC---C--C----Ccc
Q 042491          192 GIRSLVDVGGGT---GEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLNA---V--P----NAD  252 (266)
Q Consensus       192 ~~~~vvDvGgG~---G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~~---~--p----~aD  252 (266)
                      +..+|||||||.   |.....+.+..|+.+++.+|. |.+++.++.      ..+++++.+|+.++   +  |    .+|
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            678999999996   444444556789999999998 999988864      24799999999873   1  1    145


Q ss_pred             -----EEEeccccccCCC
Q 042491          253 -----AVFMKVIVLIQDL  265 (266)
Q Consensus       253 -----~~~l~~vLHd~~~  265 (266)
                           ++++..+||.-++
T Consensus       158 ~~~p~av~~~avLH~l~d  175 (277)
T 3giw_A          158 LTRPVALTVIAIVHFVLD  175 (277)
T ss_dssp             TTSCCEEEEESCGGGSCG
T ss_pred             cCCcchHHhhhhHhcCCc
Confidence                 6889999997654

>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=97.97  E-value=1.3e-05  Score=68.67  Aligned_cols=74  Identities=12%  Similarity=0.196  Sum_probs=59.2

Q ss_pred             HHHhhcccCCCCCceEEEecCCchHHHHHHHHH-CCCCeEEEeec-HHHHhhCCC---------CCCeEEEEccCCC-CC
Q 042491          181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEF-YPHIKGVNFDL-PHVVATAPV---------YEGVSHVGGDMLN-AV  248 (266)
Q Consensus       181 ~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~-~P~l~~~~~Dl-p~v~~~a~~---------~~ri~~~~gd~~~-~~  248 (266)
                      .++..++  .....+|||||||+|.++..+++. .|..+++.+|. |.+++.+++         .++++++.+|+.+ ++
T Consensus        90 ~i~~~~~--~~~~~~vLdiG~G~G~~~~~l~~~~~~~~~v~~vD~~~~~~~~a~~~~~~~~g~~~~~v~~~~~d~~~~~~  167 (280)
T 1i9g_A           90 QIVHEGD--IFPGARVLEAGAGSGALTLSLLRAVGPAGQVISYEQRADHAEHARRNVSGCYGQPPDNWRLVVSDLADSEL  167 (280)
T ss_dssp             HHHHHTT--CCTTCEEEEECCTTSHHHHHHHHHHCTTSEEEEECSCHHHHHHHHHHHHHHHTSCCTTEEEECSCGGGCCC
T ss_pred             HHHHHcC--CCCCCEEEEEcccccHHHHHHHHHhCCCCEEEEEeCCHHHHHHHHHHHHHhcCCCCCcEEEEECchHhcCC
Confidence            4555555  566789999999999999999996 58899999998 777665543         2589999999988 45


Q ss_pred             C--CccEEEe
Q 042491          249 P--NADAVFM  256 (266)
Q Consensus       249 p--~aD~~~l  256 (266)
                      +  .+|+|++
T Consensus       168 ~~~~~D~v~~  177 (280)
T 1i9g_A          168 PDGSVDRAVL  177 (280)
T ss_dssp             CTTCEEEEEE
T ss_pred             CCCceeEEEE
Confidence            4  3999987

>2i62_A Nicotinamide N-methyltransferase; structural genomics, structural genomics consortium, SGC; HET: SAH; 1.80A {Mus musculus} PDB: 2iip_A* 3rod_A*

Probab=97.96  E-value=6.6e-06  Score=69.56  Aligned_cols=70  Identities=11%  Similarity=-0.015  Sum_probs=55.7

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC----CC------------------------------
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV----YE------------------------------  235 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~----~~------------------------------  235 (266)
                      ....+|||||||+|.++..+++..+ .+++++|. +.+++.+++    ..                              
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            4567999999999999999998877 68999998 666665543    11                              


Q ss_pred             -Ce-EEEEccCCCC--C-C---C-ccEEEeccccc
Q 042491          236 -GV-SHVGGDMLNA--V-P---N-ADAVFMKVIVL  261 (266)
Q Consensus       236 -ri-~~~~gd~~~~--~-p---~-aD~~~l~~vLH  261 (266)
                       +| +++.+|+.+.  + +   + +|+|++..+||
T Consensus       134 ~~v~~~~~~d~~~~~~~~~~~~~~fD~v~~~~~l~  168 (265)
T 2i62_A          134 RAIKQVLKCDVTQSQPLGGVSLPPADCLLSTLCLD  168 (265)
T ss_dssp             HHEEEEEECCTTSSSTTTTCCCCCEEEEEEESCHH
T ss_pred             hhheeEEEeeeccCCCCCccccCCccEEEEhhhhh
Confidence             28 9999999873  1 2   3 99999999999

>2yvl_A TRMI protein, hypothetical protein; tRNA, methyltransferase, S-adenosylmethionine, structural GE NPPSFA; HET: SAM; 2.20A {Aquifex aeolicus}

Probab=97.96  E-value=2.2e-05  Score=65.79  Aligned_cols=72  Identities=21%  Similarity=0.258  Sum_probs=57.5

Q ss_pred             HHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCCC-C--
Q 042491          181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNAV-P--  249 (266)
Q Consensus       181 ~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~~-p--  249 (266)
                      .++...+  .....+|||+|||+|.++..+++.  ..+++++|. |+.++.+++       .++++++.+|+.+.. +  
T Consensus        82 ~~~~~~~--~~~~~~vldiG~G~G~~~~~l~~~--~~~v~~vD~~~~~~~~a~~~~~~~~~~~~~~~~~~d~~~~~~~~~  157 (248)
T 2yvl_A           82 YIALKLN--LNKEKRVLEFGTGSGALLAVLSEV--AGEVWTFEAVEEFYKTAQKNLKKFNLGKNVKFFNVDFKDAEVPEG  157 (248)
T ss_dssp             HHHHHTT--CCTTCEEEEECCTTSHHHHHHHHH--SSEEEEECSCHHHHHHHHHHHHHTTCCTTEEEECSCTTTSCCCTT
T ss_pred             HHHHhcC--CCCCCEEEEeCCCccHHHHHHHHh--CCEEEEEecCHHHHHHHHHHHHHcCCCCcEEEEEcChhhcccCCC
Confidence            3444455  556789999999999999999999  679999997 666665553       378999999999865 5  


Q ss_pred             CccEEEe
Q 042491          250 NADAVFM  256 (266)
Q Consensus       250 ~aD~~~l  256 (266)
                      .+|++++
T Consensus       158 ~~D~v~~  164 (248)
T 2yvl_A          158 IFHAAFV  164 (248)
T ss_dssp             CBSEEEE
T ss_pred             cccEEEE
Confidence            3999987

>3r3h_A O-methyltransferase, SAM-dependent; structural genomics, PSI-biology, NEW YORK structural genomi research consortium, nysgrc; 2.65A {Legionella pneumophila subsp}

Probab=97.96  E-value=2e-06  Score=72.79  Aligned_cols=68  Identities=15%  Similarity=0.155  Sum_probs=54.6

Q ss_pred             CCceEEEecCCchHHHHHHHHHCC-CCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCC---C-----C-CccE
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYP-HIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNA---V-----P-NADA  253 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P-~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~---~-----p-~aD~  253 (266)
                      +..+|||||||+|..+..+++..| +.+++.+|+ |+.++.+++       .+||+++.||..+.   +     + .+|+
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 789999998 555554443       46999999998762   2     2 4999


Q ss_pred             EEeccc
Q 042491          254 VFMKVI  259 (266)
Q Consensus       254 ~~l~~v  259 (266)
                      +++...
T Consensus       140 V~~d~~  145 (242)
T 3r3h_A          140 IFIDAD  145 (242)
T ss_dssp             EEEESC
T ss_pred             EEEcCC
Confidence            987644

>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=97.96  E-value=4.9e-06  Score=68.18  Aligned_cols=68  Identities=18%  Similarity=0.080  Sum_probs=53.6

Q ss_pred             CceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------C--CCeEEEEccCCCC---C--CC-ccEEEec
Q 042491          193 IRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------Y--EGVSHVGGDMLNA---V--PN-ADAVFMK  257 (266)
Q Consensus       193 ~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~--~ri~~~~gd~~~~---~--p~-aD~~~l~  257 (266)
                      ..+|||+|||+|.++..++++.+ .+++++|+ |.+++.+++      .  ++++++.+|+.+.   +  .. +|++++.
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            46999999999999999887754 58999998 777776654      2  6899999998762   2  25 8999987


Q ss_pred             cccc
Q 042491          258 VIVL  261 (266)
Q Consensus       258 ~vLH  261 (266)
                      -.+|
T Consensus       133 ~~~~  136 (201)
T 2ift_A          133 PPFH  136 (201)
T ss_dssp             CCSS
T ss_pred             CCCC
Confidence            6644

>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=97.95  E-value=1.3e-05  Score=69.19  Aligned_cols=70  Identities=13%  Similarity=0.006  Sum_probs=52.2

Q ss_pred             HHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC---CCCeEEEEccCCC-CCC---Ccc
Q 042491          181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV---YEGVSHVGGDMLN-AVP---NAD  252 (266)
Q Consensus       181 ~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~---~~ri~~~~gd~~~-~~p---~aD  252 (266)
                      .+++..+  .... +|||||||+|.+...++++.  .+++++|+ +.+++.+++   .++++++.+|+.+ +++   .+|
T Consensus        38 ~Iv~~~~--~~~~-~VLEIG~G~G~lt~~L~~~~--~~V~avEid~~~~~~l~~~~~~~~v~vi~~D~l~~~~~~~~~~~  112 (271)
T 3fut_A           38 RIVEAAR--PFTG-PVFEVGPGLGALTRALLEAG--AEVTAIEKDLRLRPVLEETLSGLPVRLVFQDALLYPWEEVPQGS  112 (271)
T ss_dssp             HHHHHHC--CCCS-CEEEECCTTSHHHHHHHHTT--CCEEEEESCGGGHHHHHHHTTTSSEEEEESCGGGSCGGGSCTTE
T ss_pred             HHHHhcC--CCCC-eEEEEeCchHHHHHHHHHcC--CEEEEEECCHHHHHHHHHhcCCCCEEEEECChhhCChhhccCcc
Confidence            4555555  4455 99999999999999999986  57888888 556555443   4689999999998 555   355


Q ss_pred             EEE
Q 042491          253 AVF  255 (266)
Q Consensus       253 ~~~  255 (266)
                      .++
T Consensus       113 ~iv  115 (271)
T 3fut_A          113 LLV  115 (271)
T ss_dssp             EEE
T ss_pred             EEE
Confidence            543

>2cmg_A Spermidine synthase; transferase, putrescine aminopropyltransferase, spermidine biosynthesis, polyamine biosynthesis, SPEE; 2.0A {Helicobacter pylori} PDB: 2cmh_A

Probab=97.95  E-value=1.4e-05  Score=68.49  Aligned_cols=64  Identities=9%  Similarity=0.069  Sum_probs=54.4

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC----------CCCeEEEEccCCCCCCCccEEEec
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV----------YEGVSHVGGDMLNAVPNADAVFMK  257 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~----------~~ri~~~~gd~~~~~p~aD~~~l~  257 (266)
                      ...+|||||||+|..++++++. | .+++++|+ |.+++.+++          .+|++++.+|..+-+..+|+|++.
T Consensus        72 ~~~~VL~iG~G~G~~~~~ll~~-~-~~v~~veid~~~i~~ar~~~~~~~~~~~~~rv~~~~~D~~~~~~~fD~Ii~d  146 (262)
T 2cmg_A           72 ELKEVLIVDGFDLELAHQLFKY-D-THIDFVQADEKILDSFISFFPHFHEVKNNKNFTHAKQLLDLDIKKYDLIFCL  146 (262)
T ss_dssp             CCCEEEEESSCCHHHHHHHTTS-S-CEEEEECSCHHHHGGGTTTSTTHHHHHTCTTEEEESSGGGSCCCCEEEEEES
T ss_pred             CCCEEEEEeCCcCHHHHHHHhC-C-CEEEEEECCHHHHHHHHHHHHhhccccCCCeEEEEechHHHHHhhCCEEEEC
Confidence            5689999999999999999998 8 89999998 888887764          368999999988744449999874

>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=97.95  E-value=1.6e-05  Score=70.27  Aligned_cols=74  Identities=18%  Similarity=0.235  Sum_probs=57.2

Q ss_pred             HHhhcccCCCCCceEEEecCCchHHHHHHHHH-CCCCeEEEeec-HHHHhhCCC-----------------CCCeEEEEc
Q 042491          182 LLSHYKDGFDGIRSLVDVGGGTGEELAEIVEF-YPHIKGVNFDL-PHVVATAPV-----------------YEGVSHVGG  242 (266)
Q Consensus       182 ~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~-~P~l~~~~~Dl-p~v~~~a~~-----------------~~ri~~~~g  242 (266)
                      ++..++  .....+|||||||+|.++..+++. .|+.+++.+|. |..++.+++                 .++|+++.+
T Consensus        97 ~l~~l~--~~~g~~VLDiG~G~G~~~~~la~~~g~~~~v~~vD~~~~~~~~a~~~~~~~~~~~~ln~~~~~~~~v~~~~~  174 (336)
T 2b25_A           97 ILSMMD--INPGDTVLEAGSGSGGMSLFLSKAVGSQGRVISFEVRKDHHDLAKKNYKHWRDSWKLSHVEEWPDNVDFIHK  174 (336)
T ss_dssp             HHHHHT--CCTTCEEEEECCTTSHHHHHHHHHHCTTCEEEEEESSHHHHHHHHHHHHHHHHHHTTTCSSCCCCCEEEEES
T ss_pred             HHHhcC--CCCCCEEEEeCCCcCHHHHHHHHHhCCCceEEEEeCCHHHHHHHHHHHHHhhcccccccccccCCceEEEEC
Confidence            444455  556789999999999999999998 58899999998 666665543                 268999999


Q ss_pred             cCCCC---CC--CccEEEec
Q 042491          243 DMLNA---VP--NADAVFMK  257 (266)
Q Consensus       243 d~~~~---~p--~aD~~~l~  257 (266)
                      |+.+.   ++  .+|+|++.
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            99883   44  39999874

>4azs_A Methyltransferase WBDD; kinase; HET: AMP SAM; 2.15A {Escherichia coli} PDB: 4azt_A* 4azv_A* 4azw_A*

Probab=97.95  E-value=1.5e-05  Score=75.65  Aligned_cols=71  Identities=11%  Similarity=0.030  Sum_probs=57.1

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC----C--CCeEEEEccCCC---CC-C-CccEEEecc
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV----Y--EGVSHVGGDMLN---AV-P-NADAVFMKV  258 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~----~--~ri~~~~gd~~~---~~-p-~aD~~~l~~  258 (266)
                      .+..+|||||||.|.++..+++.  +.+++++|+ +..|+.|+.    .  -.|+|..++..+   +. + .||+|++..
T Consensus        65 ~~~~~vLDvGCG~G~~~~~la~~--ga~V~giD~~~~~i~~a~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~fD~v~~~e  142 (569)
T 4azs_A           65 GRPLNVLDLGCAQGFFSLSLASK--GATIVGIDFQQENINVCRALAEENPDFAAEFRVGRIEEVIAALEEGEFDLAIGLS  142 (569)
T ss_dssp             TSCCEEEEETCTTSHHHHHHHHT--TCEEEEEESCHHHHHHHHHHHHTSTTSEEEEEECCHHHHHHHCCTTSCSEEEEES
T ss_pred             CCCCeEEEECCCCcHHHHHHHhC--CCEEEEECCCHHHHHHHHHHHHhcCCCceEEEECCHHHHhhhccCCCccEEEECc
Confidence            35679999999999999999998  568999998 777776653    2  368999998765   23 3 399999999


Q ss_pred             ccccC
Q 042491          259 IVLIQ  263 (266)
Q Consensus       259 vLHd~  263 (266)
                      +||+-
T Consensus       143 ~~ehv  147 (569)
T 4azs_A          143 VFHHI  147 (569)
T ss_dssp             CHHHH
T ss_pred             chhcC
Confidence            99863

>3bzb_A Uncharacterized protein; RED ALGA, protein structure initiat center for eukaryotic structural genomics, CESG, structural genomics; 2.79A {Cyanidioschyzon merolae}

Probab=97.93  E-value=1.8e-05  Score=68.26  Aligned_cols=73  Identities=11%  Similarity=0.063  Sum_probs=54.4

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec--HHHHhhCCC------------C----CCeEEEEccCCCC---C-
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL--PHVVATAPV------------Y----EGVSHVGGDMLNA---V-  248 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl--p~v~~~a~~------------~----~ri~~~~gd~~~~---~-  248 (266)
                      ....+|||||||+|.++..+++.. ..+++++|+  |.+++.++.            .    ++|+++..|+.+.   + 
T Consensus        78 ~~~~~vLDlG~G~G~~~~~~a~~~-~~~v~~~D~s~~~~~~~a~~n~~~N~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~  156 (281)
T 3bzb_A           78 IAGKTVCELGAGAGLVSIVAFLAG-ADQVVATDYPDPEILNSLESNIREHTANSCSSETVKRASPKVVPYRWGDSPDSLQ  156 (281)
T ss_dssp             TTTCEEEETTCTTSHHHHHHHHTT-CSEEEEEECSCHHHHHHHHHHHHTTCC----------CCCEEEECCTTSCTHHHH
T ss_pred             cCCCeEEEecccccHHHHHHHHcC-CCEEEEEeCCCHHHHHHHHHHHHHhhhhhcccccCCCCCeEEEEecCCCccHHHH
Confidence            355799999999999999888763 458999999  677665432            1    4788887665542   2 


Q ss_pred             ----C-CccEEEeccccccCC
Q 042491          249 ----P-NADAVFMKVIVLIQD  264 (266)
Q Consensus       249 ----p-~aD~~~l~~vLHd~~  264 (266)
                          + .+|+|++..++|+..
T Consensus       157 ~~~~~~~fD~Ii~~dvl~~~~  177 (281)
T 3bzb_A          157 RCTGLQRFQVVLLADLLSFHQ  177 (281)
T ss_dssp             HHHSCSSBSEEEEESCCSCGG
T ss_pred             hhccCCCCCEEEEeCcccChH
Confidence                2 499999999998754

>3a27_A TYW2, uncharacterized protein MJ1557; wybutosine modification, transferase; HET: SAM; 2.00A {Methanocaldococcus jannaschii}

Probab=97.93  E-value=1e-05  Score=69.67  Aligned_cols=69  Identities=16%  Similarity=0.083  Sum_probs=57.1

Q ss_pred             CCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCCC-CC-CccEEEecc
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLNA-VP-NADAVFMKV  258 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~~-~p-~aD~~~l~~  258 (266)
                      +.+..+|||+|||+|.++..+++..+..+++.+|+ |.+++.+++      .++++++.+|+.+. .+ .+|++++.-
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            44668999999999999999999999889999998 777776654      35789999999884 22 399998754

>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=97.92  E-value=6.6e-06  Score=74.08  Aligned_cols=67  Identities=15%  Similarity=0.101  Sum_probs=56.7

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCC-CCC--CccEEEec
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLN-AVP--NADAVFMK  257 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~-~~p--~aD~~~l~  257 (266)
                      .+..+|||+|||+|.++.++++..+..+++++|+ |.+++.++.       .++|+++.+|+.+ +.+  .+|++++.
T Consensus       216 ~~~~~vLD~gCGsG~~~i~~a~~~~~~~v~g~Dis~~~l~~A~~n~~~~gl~~~i~~~~~D~~~~~~~~~~fD~Ii~n  293 (373)
T 3tm4_A          216 LDGGSVLDPMCGSGTILIELALRRYSGEIIGIEKYRKHLIGAEMNALAAGVLDKIKFIQGDATQLSQYVDSVDFAISN  293 (373)
T ss_dssp             CCSCCEEETTCTTCHHHHHHHHTTCCSCEEEEESCHHHHHHHHHHHHHTTCGGGCEEEECCGGGGGGTCSCEEEEEEE
T ss_pred             CCCCEEEEccCcCcHHHHHHHHhCCCCeEEEEeCCHHHHHHHHHHHHHcCCCCceEEEECChhhCCcccCCcCEEEEC
Confidence            4668999999999999999999998888999998 777776654       3689999999998 554  39999984

>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=97.92  E-value=2.2e-05  Score=64.02  Aligned_cols=71  Identities=17%  Similarity=0.138  Sum_probs=56.7

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC----CC-CeEEEEccCCCCCC-CccEEEeccccccCC
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV----YE-GVSHVGGDMLNAVP-NADAVFMKVIVLIQD  264 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~----~~-ri~~~~gd~~~~~p-~aD~~~l~~vLHd~~  264 (266)
                      ...+|||+|||+|.++..+++..+ .+++++|. |.+++.++.    .. +++++.+|+.+ +| .+|++++.-.+|.+.
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            457999999999999999998843 37999998 777766553    12 79999999988 45 599999987776654

>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=97.91  E-value=2.7e-05  Score=63.35  Aligned_cols=70  Identities=19%  Similarity=0.303  Sum_probs=54.0

Q ss_pred             HHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeecHHHHhhCCCCCCeEEEEccCCCCC------------
Q 042491          181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPVYEGVSHVGGDMLNAV------------  248 (266)
Q Consensus       181 ~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~a~~~~ri~~~~gd~~~~~------------  248 (266)
                      .+.+.+. .+....+|||+|||+|.++..++++  ..+++++|+.+.    ...++++++.+|+.+.-            
T Consensus        15 ei~~~~~-~~~~g~~VLDlG~G~G~~s~~la~~--~~~V~gvD~~~~----~~~~~v~~~~~D~~~~~~~~~~~~~~~~~   87 (191)
T 3dou_A           15 FLLDRYR-VVRKGDAVIEIGSSPGGWTQVLNSL--ARKIISIDLQEM----EEIAGVRFIRCDIFKETIFDDIDRALREE   87 (191)
T ss_dssp             HHHHHHC-CSCTTCEEEEESCTTCHHHHHHTTT--CSEEEEEESSCC----CCCTTCEEEECCTTSSSHHHHHHHHHHHH
T ss_pred             HHHHHcC-CCCCCCEEEEEeecCCHHHHHHHHc--CCcEEEEecccc----ccCCCeEEEEccccCHHHHHHHHHHhhcc
Confidence            4555555 2456789999999999999999988  778999998542    22468999999998831            


Q ss_pred             --CCccEEEec
Q 042491          249 --PNADAVFMK  257 (266)
Q Consensus       249 --p~aD~~~l~  257 (266)
                        ..+|+|+..
T Consensus        88 ~~~~~D~Vlsd   98 (191)
T 3dou_A           88 GIEKVDDVVSD   98 (191)
T ss_dssp             TCSSEEEEEEC
T ss_pred             cCCcceEEecC
Confidence              258999873

>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=97.91  E-value=7.7e-06  Score=72.64  Aligned_cols=67  Identities=22%  Similarity=0.251  Sum_probs=55.5

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC----------CCCeEEEEccCCC---CCC--CccEE
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV----------YEGVSHVGGDMLN---AVP--NADAV  254 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~----------~~ri~~~~gd~~~---~~p--~aD~~  254 (266)
                      ....+|||||||+|..++.+++..|..+++++|+ |.+++.+++          .+||+++.+|..+   ..+  .+|+|
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 777776543          3689999999876   233  39999


Q ss_pred             Eec
Q 042491          255 FMK  257 (266)
Q Consensus       255 ~l~  257 (266)
                      ++.
T Consensus       199 i~d  201 (334)
T 1xj5_A          199 IVD  201 (334)
T ss_dssp             EEC
T ss_pred             EEC
Confidence            974

>2pt6_A Spermidine synthase; transferase, structural genomics consor SGC,dcadoMet complex; HET: S4M 1PG; 2.00A {Plasmodium falciparum} PDB: 2pss_A* 2pt9_A*

Probab=97.91  E-value=4.8e-06  Score=73.53  Aligned_cols=67  Identities=16%  Similarity=0.236  Sum_probs=55.0

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC----------CCCeEEEEccCCCC---CC-CccEEEe
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV----------YEGVSHVGGDMLNA---VP-NADAVFM  256 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~----------~~ri~~~~gd~~~~---~p-~aD~~~l  256 (266)
                      ...+|||||||+|..++++++..|..+++++|+ |.+++.+++          .+|++++.+|..+.   .+ .+|+|++
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 777765542          36899999998763   23 3999997


Q ss_pred             cc
Q 042491          257 KV  258 (266)
Q Consensus       257 ~~  258 (266)
                      ..
T Consensus       196 d~  197 (321)
T 2pt6_A          196 DS  197 (321)
T ss_dssp             EC
T ss_pred             CC
Confidence            43

>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=97.90  E-value=3.2e-05  Score=67.57  Aligned_cols=70  Identities=10%  Similarity=0.035  Sum_probs=52.3

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-----CC-------CeEEEEccCCC---------CCC
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-----YE-------GVSHVGGDMLN---------AVP  249 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-----~~-------ri~~~~gd~~~---------~~p  249 (266)
                      ...+|||||||+|..+..+++.. ..+++++|+ +.+++.|++     ..       ++++..+|+..         ++|
T Consensus        48 ~~~~VLDlGCG~G~~l~~~~~~~-~~~v~GiD~S~~~l~~A~~~~~~~~~~~~~~~~~~~f~~~d~~~d~~~~~l~~~~~  126 (302)
T 2vdw_A           48 NKRKVLAIDFGNGADLEKYFYGE-IALLVATDPDADAIARGNERYNKLNSGIKTKYYKFDYIQETIRSDTFVSSVREVFY  126 (302)
T ss_dssp             SCCEEEETTCTTTTTHHHHHHTT-CSEEEEEESCHHHHHHHHHHHHHHCC----CCCEEEEEECCTTSSSHHHHHHTTCC
T ss_pred             CCCeEEEEecCCcHhHHHHHhcC-CCeEEEEECCHHHHHHHHHHHHhccccccccccccchhhhhcccchhhhhhhcccc
Confidence            35799999999998777766643 458999998 788877764     11       26788888722         234


Q ss_pred             --CccEEEecccccc
Q 042491          250 --NADAVFMKVIVLI  262 (266)
Q Consensus       250 --~aD~~~l~~vLHd  262 (266)
                        .+|+|++..+||.
T Consensus       127 ~~~FD~V~~~~~lhy  141 (302)
T 2vdw_A          127 FGKFNIIDWQFAIHY  141 (302)
T ss_dssp             SSCEEEEEEESCGGG
T ss_pred             CCCeeEEEECchHHH
Confidence              4999999999986

>3uzu_A Ribosomal RNA small subunit methyltransferase A; ssgcid, seattle structural genomics center for infectio disease; 1.75A {Burkholderia pseudomallei}

Probab=97.90  E-value=7.8e-06  Score=70.78  Aligned_cols=68  Identities=13%  Similarity=0.179  Sum_probs=53.3

Q ss_pred             HHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCC--CeEEEeec-HHHHhhCCC--CCCeEEEEccCCC-CCCC
Q 042491          181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPH--IKGVNFDL-PHVVATAPV--YEGVSHVGGDMLN-AVPN  250 (266)
Q Consensus       181 ~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~--l~~~~~Dl-p~v~~~a~~--~~ri~~~~gd~~~-~~p~  250 (266)
                      .+++..+  .....+|||||||+|.+...|+++.+.  .+++++|+ +.+++.+++  .++++++.+|+.+ +++.
T Consensus        33 ~iv~~~~--~~~~~~VLEIG~G~G~lt~~La~~~~~~~~~V~avDid~~~l~~a~~~~~~~v~~i~~D~~~~~~~~  106 (279)
T 3uzu_A           33 AIVAAIR--PERGERMVEIGPGLGALTGPVIARLATPGSPLHAVELDRDLIGRLEQRFGELLELHAGDALTFDFGS  106 (279)
T ss_dssp             HHHHHHC--CCTTCEEEEECCTTSTTHHHHHHHHCBTTBCEEEEECCHHHHHHHHHHHGGGEEEEESCGGGCCGGG
T ss_pred             HHHHhcC--CCCcCEEEEEccccHHHHHHHHHhCCCcCCeEEEEECCHHHHHHHHHhcCCCcEEEECChhcCChhH
Confidence            3555555  556689999999999999999998765  56899998 667766554  4789999999998 5553

>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=97.89  E-value=2.4e-05  Score=70.99  Aligned_cols=63  Identities=14%  Similarity=0.112  Sum_probs=52.8

Q ss_pred             CCceEEEecCCchHHHHHHHHHC-CCCeEEEeec-HHHHhhCCCCCCeEEEEccCCCCCC--CccEEEec
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFY-PHIKGVNFDL-PHVVATAPVYEGVSHVGGDMLNAVP--NADAVFMK  257 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~-P~l~~~~~Dl-p~v~~~a~~~~ri~~~~gd~~~~~p--~aD~~~l~  257 (266)
                      ...+|+|+|||+|.++..+++++ +..+++++|+ |.+++.+   .+++++.+|+++..+  .+|+|++.
T Consensus        39 ~~~~vLD~gcGtG~~~~~~~~~~~~~~~i~gvDi~~~~~~~a---~~~~~~~~D~~~~~~~~~fD~Ii~N  105 (421)
T 2ih2_A           39 RGGRVLEPACAHGPFLRAFREAHGTAYRFVGVEIDPKALDLP---PWAEGILADFLLWEPGEAFDLILGN  105 (421)
T ss_dssp             TTCEEEEETCTTCHHHHHHHHHHCSCSEEEEEESCTTTCCCC---TTEEEEESCGGGCCCSSCEEEEEEC
T ss_pred             CCCEEEECCCCChHHHHHHHHHhCCCCeEEEEECCHHHHHhC---CCCcEEeCChhhcCccCCCCEEEEC
Confidence            45699999999999999999988 7789999998 6655554   789999999998433  49999983

>3tqs_A Ribosomal RNA small subunit methyltransferase A; protein synthesis; 1.98A {Coxiella burnetii} SCOP: c.66.1.0

Probab=97.89  E-value=1.3e-05  Score=68.43  Aligned_cols=66  Identities=15%  Similarity=0.172  Sum_probs=52.2

Q ss_pred             HHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC----CCCeEEEEccCCC-CCC
Q 042491          180 STLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV----YEGVSHVGGDMLN-AVP  249 (266)
Q Consensus       180 ~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~----~~ri~~~~gd~~~-~~p  249 (266)
                      ..+++..+  .....+|||||||+|.++..++++.  .+++++|+ +.+++.+++    .++++++.+|+.+ +++
T Consensus        19 ~~iv~~~~--~~~~~~VLEIG~G~G~lt~~La~~~--~~V~avEid~~~~~~~~~~~~~~~~v~~i~~D~~~~~~~   90 (255)
T 3tqs_A           19 QKIVSAIH--PQKTDTLVEIGPGRGALTDYLLTEC--DNLALVEIDRDLVAFLQKKYNQQKNITIYQNDALQFDFS   90 (255)
T ss_dssp             HHHHHHHC--CCTTCEEEEECCTTTTTHHHHTTTS--SEEEEEECCHHHHHHHHHHHTTCTTEEEEESCTTTCCGG
T ss_pred             HHHHHhcC--CCCcCEEEEEcccccHHHHHHHHhC--CEEEEEECCHHHHHHHHHHHhhCCCcEEEEcchHhCCHH
Confidence            34555555  5567899999999999999999985  58899998 667666553    4799999999998 553

>3k0b_A Predicted N6-adenine-specific DNA methylase; methylase,PF01170, putative RNA methylase, PSI,MCSG, structu genomics; 1.50A {Listeria monocytogenes str}

Probab=97.89  E-value=1.9e-05  Score=71.66  Aligned_cols=75  Identities=12%  Similarity=0.077  Sum_probs=58.6

Q ss_pred             HHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCC--------------------------------------CeEEEe
Q 042491          181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPH--------------------------------------IKGVNF  222 (266)
Q Consensus       181 ~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~--------------------------------------l~~~~~  222 (266)
                      .++....  |.+...|+|++||+|+++++.+....+                                      .+++++
T Consensus       192 ~ll~l~~--~~~~~~vlDp~CGSGt~~ieaa~~~~~~apg~~R~f~f~~w~~~~~~~w~~~~~~a~~~~~~~~~~~V~Gv  269 (393)
T 3k0b_A          192 ALVLLTS--WHPDRPFYDPVCGSGTIPIEAALIGQNIAPGFNREFVSETWDWMPKQVWADARQEAEDLANYDQPLNIIGG  269 (393)
T ss_dssp             HHHHHSC--CCTTSCEEETTCTTSHHHHHHHHHHTTCCTTTTSCCGGGGCTTSCHHHHHHHHHHHHHHCCTTCCCCEEEE
T ss_pred             HHHHHhC--CCCCCeEEEcCCCCCHHHHHHHHHhcCcCCCccccchhhccccCCHHHHHHHHHHHHHhhcccCCceEEEE
Confidence            3455555  667789999999999999998876554                                      579999


Q ss_pred             ec-HHHHhhCCC-------CCCeEEEEccCCC-CCC-CccEEEec
Q 042491          223 DL-PHVVATAPV-------YEGVSHVGGDMLN-AVP-NADAVFMK  257 (266)
Q Consensus       223 Dl-p~v~~~a~~-------~~ri~~~~gd~~~-~~p-~aD~~~l~  257 (266)
                      |. |.+++.++.       .++|+++.+|+++ +.+ .+|+|++.
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            98 777776653       4579999999998 444 49999875

>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=97.89  E-value=4.6e-06  Score=70.78  Aligned_cols=67  Identities=16%  Similarity=0.177  Sum_probs=54.6

Q ss_pred             CCceEEEecCCchHHHHHHHHHCC-CCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCC--C-C------C-Ccc
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYP-HIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLN--A-V------P-NAD  252 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P-~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~--~-~------p-~aD  252 (266)
                      +..+|||||||+|..+..+++..| +.+++.+|. |++++.+++       .+||+++.+|..+  + +      + .||
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            557999999999999999999998 789999998 666665553       3689999999876  2 2      3 399


Q ss_pred             EEEecc
Q 042491          253 AVFMKV  258 (266)
Q Consensus       253 ~~~l~~  258 (266)
                      ++++..
T Consensus       159 ~V~~d~  164 (247)
T 1sui_A          159 FIFVDA  164 (247)
T ss_dssp             EEEECS
T ss_pred             EEEEcC
Confidence            999754

>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=97.88  E-value=2.9e-05  Score=70.13  Aligned_cols=69  Identities=14%  Similarity=0.115  Sum_probs=56.8

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-----CCCeEEEEccCCCC-CC--CccEEEecccccc
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-----YEGVSHVGGDMLNA-VP--NADAVFMKVIVLI  262 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-----~~ri~~~~gd~~~~-~p--~aD~~~l~~vLHd  262 (266)
                      ...+|||+|||+|.++..+++.  +.+++++|. +.+++.+++     .-+++++.+|+.+. .+  .+|+|++.-.+|.
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            4579999999999999999998  569999998 777776654     23599999999984 44  4999999888875

>2fpo_A Methylase YHHF; structural genomics, putative methyltransferase, PSI, protei structure initiative; HET: MSE; 2.05A {Escherichia coli} SCOP: c.66.1.46

Probab=97.88  E-value=1e-05  Score=66.32  Aligned_cols=68  Identities=15%  Similarity=0.100  Sum_probs=53.7

Q ss_pred             CceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCC--CCC--CccEEEeccccc
Q 042491          193 IRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLN--AVP--NADAVFMKVIVL  261 (266)
Q Consensus       193 ~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~--~~p--~aD~~~l~~vLH  261 (266)
                      ..+|||+|||+|.++..++++.. .+++.+|. |.+++.+++      .++++++.+|+.+  +.+  .+|++++.-.+|
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            46999999999999999888764 38999998 777776654      2589999999877  332  399999876544

>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=97.87  E-value=9.1e-06  Score=71.22  Aligned_cols=68  Identities=19%  Similarity=0.251  Sum_probs=55.7

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC----------CCCeEEEEccCCCC---CC-CccEEE
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV----------YEGVSHVGGDMLNA---VP-NADAVF  255 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~----------~~ri~~~~gd~~~~---~p-~aD~~~  255 (266)
                      ....+|||||||+|..++.+++..|..+++++|+ |.+++.+++          .+|++++.+|..+.   .+ .+|+|+
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 777765542          47899999998762   23 399999


Q ss_pred             ecc
Q 042491          256 MKV  258 (266)
Q Consensus       256 l~~  258 (266)
                      +..
T Consensus       174 ~d~  176 (304)
T 2o07_A          174 TDS  176 (304)
T ss_dssp             EEC
T ss_pred             ECC
Confidence            743

>2nyu_A Putative ribosomal RNA methyltransferase 2; SAM, structural genomics, structural genomics consortium, SGC; HET: SAM; 1.76A {Homo sapiens}

Probab=97.87  E-value=3.7e-05  Score=61.93  Aligned_cols=74  Identities=18%  Similarity=0.204  Sum_probs=55.3

Q ss_pred             HHhhcccCCCCCceEEEecCCchHHHHHHHHHCCC---------CeEEEeecHHHHhhCCCCCCeEEE-EccCCCC----
Q 042491          182 LLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPH---------IKGVNFDLPHVVATAPVYEGVSHV-GGDMLNA----  247 (266)
Q Consensus       182 ~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~---------l~~~~~Dlp~v~~~a~~~~ri~~~-~gd~~~~----  247 (266)
                      +...+. .+....+|||||||+|.++..+++++|.         .+++++|+.+..    ..++++++ .+|+.+.    
T Consensus        13 l~~~~~-~~~~~~~vLDlGcG~G~~~~~la~~~~~~~~~~~~~~~~v~~vD~s~~~----~~~~~~~~~~~d~~~~~~~~   87 (196)
T 2nyu_A           13 VNERHQ-ILRPGLRVLDCGAAPGAWSQVAVQKVNAAGTDPSSPVGFVLGVDLLHIF----PLEGATFLCPADVTDPRTSQ   87 (196)
T ss_dssp             HHHHHC-CCCTTCEEEEETCCSCHHHHHHHHHTTTTCCCTTSCCCEEEEECSSCCC----CCTTCEEECSCCTTSHHHHH
T ss_pred             HHHhcC-CCCCCCEEEEeCCCCCHHHHHHHHHhccccccccCCCceEEEEechhcc----cCCCCeEEEeccCCCHHHHH
Confidence            334444 1345689999999999999999999875         799999986521    24678999 9998762    


Q ss_pred             -----CC--CccEEEecccc
Q 042491          248 -----VP--NADAVFMKVIV  260 (266)
Q Consensus       248 -----~p--~aD~~~l~~vL  260 (266)
                           ++  .+|+|++...+
T Consensus        88 ~~~~~~~~~~fD~V~~~~~~  107 (196)
T 2nyu_A           88 RILEVLPGRRADVILSDMAP  107 (196)
T ss_dssp             HHHHHSGGGCEEEEEECCCC
T ss_pred             HHHHhcCCCCCcEEEeCCCC
Confidence                 23  49999975433

>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=97.87  E-value=7.6e-06  Score=70.88  Aligned_cols=68  Identities=16%  Similarity=0.235  Sum_probs=55.7

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC----------CCCeEEEEccCCCC---CC-CccEEE
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV----------YEGVSHVGGDMLNA---VP-NADAVF  255 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~----------~~ri~~~~gd~~~~---~p-~aD~~~  255 (266)
                      ....+|||||||+|..++.+++..|..+++++|+ |.+++.+++          .+|++++.+|..+.   .+ .+|+|+
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            3568999999999999999999888899999998 777765542          37899999998762   24 399999


Q ss_pred             ecc
Q 042491          256 MKV  258 (266)
Q Consensus       256 l~~  258 (266)
                      +..
T Consensus       157 ~d~  159 (283)
T 2i7c_A          157 VDS  159 (283)
T ss_dssp             EEC
T ss_pred             EcC
Confidence            843

>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=97.86  E-value=8.5e-06  Score=71.06  Aligned_cols=66  Identities=17%  Similarity=0.230  Sum_probs=54.1

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC----------CCCeEEEEccCCCC---CC-CccEEEe
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV----------YEGVSHVGGDMLNA---VP-NADAVFM  256 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~----------~~ri~~~~gd~~~~---~p-~aD~~~l  256 (266)
                      ...+|||||||+|..++.+++..|..+++++|+ |.+++.+++          .+|++++.+|..+.   .+ .+|+|++
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 777765542          47999999997662   23 3999997


Q ss_pred             c
Q 042491          257 K  257 (266)
Q Consensus       257 ~  257 (266)
                      .
T Consensus       170 d  170 (296)
T 1inl_A          170 D  170 (296)
T ss_dssp             E
T ss_pred             c
Confidence            3

>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=97.86  E-value=8.4e-06  Score=70.52  Aligned_cols=67  Identities=15%  Similarity=0.259  Sum_probs=54.0

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCC----------------CCCCeEEEEccCCCCC--C-Cc
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAP----------------VYEGVSHVGGDMLNAV--P-NA  251 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~----------------~~~ri~~~~gd~~~~~--p-~a  251 (266)
                      ...+|||||||+|..++.+++. |..+++++|+ |.+++.++                ..+|++++.+|..+.+  + .+
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            5579999999999999999998 8889999998 77766543                2468999999976522  4 49


Q ss_pred             cEEEeccc
Q 042491          252 DAVFMKVI  259 (266)
Q Consensus       252 D~~~l~~v  259 (266)
                      |+|++...
T Consensus       154 D~Ii~d~~  161 (281)
T 1mjf_A          154 DVIIADST  161 (281)
T ss_dssp             EEEEEECC
T ss_pred             eEEEECCC
Confidence            99997544

>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=97.85  E-value=9.5e-06  Score=71.36  Aligned_cols=71  Identities=23%  Similarity=0.237  Sum_probs=57.5

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-----------CCCeEEEEccCCCC---CC-CccEEE
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-----------YEGVSHVGGDMLNA---VP-NADAVF  255 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-----------~~ri~~~~gd~~~~---~p-~aD~~~  255 (266)
                      ...+|||||||+|..++.+++..|..+++++|+ |.+++.+++           .+|++++.+|..+.   .+ .+|+|+
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 777765442           36899999998763   23 399999


Q ss_pred             ecccccc
Q 042491          256 MKVIVLI  262 (266)
Q Consensus       256 l~~vLHd  262 (266)
                      +....|.
T Consensus       157 ~d~~~~~  163 (314)
T 1uir_A          157 IDLTDPV  163 (314)
T ss_dssp             EECCCCB
T ss_pred             ECCCCcc
Confidence            8765543

>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=97.84  E-value=1.8e-05  Score=71.60  Aligned_cols=75  Identities=20%  Similarity=0.164  Sum_probs=58.5

Q ss_pred             HHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCC--------------------------------------CeEEEe
Q 042491          181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPH--------------------------------------IKGVNF  222 (266)
Q Consensus       181 ~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~--------------------------------------l~~~~~  222 (266)
                      .++....  |.+..+|+|++||+|+++++++....+                                      .+++++
T Consensus       186 ~ll~~~~--~~~~~~vlDp~CGSGt~lieaa~~~~~~apg~~R~f~f~~w~~~~~~~w~~~~~~a~~~~~~~~~~~V~Gv  263 (385)
T 3ldu_A          186 GLIYLTP--WKAGRVLVDPMCGSGTILIEAAMIGINMAPGLNREFISEKWRTLDKKIWWDVRKDAFNKIDNESKFKIYGY  263 (385)
T ss_dssp             HHHHTSC--CCTTSCEEETTCTTCHHHHHHHHHHTTCCTTTTSCCGGGGCTTSCHHHHHHHHHHHHHHSCCSCCCCEEEE
T ss_pred             HHHHhhC--CCCCCeEEEcCCCCCHHHHHHHHHHhhhCCCcccccchhhcccCCHHHHHHHHHHHHHHhhccCCceEEEE
Confidence            4455555  667789999999999999998876433                                      579999


Q ss_pred             ec-HHHHhhCCC-------CCCeEEEEccCCC-CCCC-ccEEEec
Q 042491          223 DL-PHVVATAPV-------YEGVSHVGGDMLN-AVPN-ADAVFMK  257 (266)
Q Consensus       223 Dl-p~v~~~a~~-------~~ri~~~~gd~~~-~~p~-aD~~~l~  257 (266)
                      |. |.+++.++.       .++|+++.+|+++ +.|+ +|+|++.
T Consensus       264 Did~~ai~~Ar~Na~~~gl~~~i~~~~~D~~~l~~~~~~D~Iv~N  308 (385)
T 3ldu_A          264 DIDEESIDIARENAEIAGVDEYIEFNVGDATQFKSEDEFGFIITN  308 (385)
T ss_dssp             ESCHHHHHHHHHHHHHHTCGGGEEEEECCGGGCCCSCBSCEEEEC
T ss_pred             ECCHHHHHHHHHHHHHcCCCCceEEEECChhhcCcCCCCcEEEEC
Confidence            98 788877664       3589999999998 3444 9999873

>3c3y_A Pfomt, O-methyltransferase; plant secondary metabolism; HET: SAH; 1.37A {Mesembryanthemum crystallinum}

Probab=97.82  E-value=7.5e-06  Score=68.91  Aligned_cols=67  Identities=16%  Similarity=0.137  Sum_probs=54.8

Q ss_pred             CCceEEEecCCchHHHHHHHHHCC-CCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCC--C-C------C-Ccc
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYP-HIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLN--A-V------P-NAD  252 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P-~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~--~-~------p-~aD  252 (266)
                      +..+|||||||+|..+..+++..| +.+++.+|. |+.++.+++       .+||+++.+|..+  + +      + .+|
T Consensus        70 ~~~~VLeiG~G~G~~~~~la~~~~~~~~v~~iD~~~~~~~~a~~~~~~~g~~~~i~~~~gda~~~l~~l~~~~~~~~~fD  149 (237)
T 3c3y_A           70 NAKKTIEVGVFTGYSLLLTALSIPDDGKITAIDFDREAYEIGLPFIRKAGVEHKINFIESDAMLALDNLLQGQESEGSYD  149 (237)
T ss_dssp             TCCEEEEECCTTSHHHHHHHHHSCTTCEEEEEESCHHHHHHHHHHHHHTTCGGGEEEEESCHHHHHHHHHHSTTCTTCEE
T ss_pred             CCCEEEEeCCCCCHHHHHHHHhCCCCCEEEEEECCHHHHHHHHHHHHHcCCCCcEEEEEcCHHHHHHHHHhccCCCCCcC
Confidence            567999999999999999999998 789999998 777766553       4589999999876  2 2      3 399


Q ss_pred             EEEecc
Q 042491          253 AVFMKV  258 (266)
Q Consensus       253 ~~~l~~  258 (266)
                      ++++..
T Consensus       150 ~I~~d~  155 (237)
T 3c3y_A          150 FGFVDA  155 (237)
T ss_dssp             EEEECS
T ss_pred             EEEECC
Confidence            998753

>3ldg_A Putative uncharacterized protein SMU.472; YPSC, methyltransferase, transferase; HET: SAH; 1.96A {Streptococcus mutans}

Probab=97.81  E-value=3.2e-05  Score=69.97  Aligned_cols=75  Identities=13%  Similarity=0.076  Sum_probs=58.3

Q ss_pred             HHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCC--------------------------------------CeEEEe
Q 042491          181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPH--------------------------------------IKGVNF  222 (266)
Q Consensus       181 ~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~--------------------------------------l~~~~~  222 (266)
                      .++....  |.+...|+|.+||+|+++++.+....+                                      .+++++
T Consensus       185 all~l~~--~~~~~~llDp~CGSGt~lIEAa~~a~~iapg~~R~f~f~~w~~~~~~~w~~~~~~a~~~~~~~~~~~v~Gv  262 (384)
T 3ldg_A          185 AIILLSN--WFPDKPFVDPTCGSGTFCIEAAMIGMNIAPGFNRDFAFEEWPWVDEALVTRVRNEADEQADYDIQLDISGF  262 (384)
T ss_dssp             HHHHHTT--CCTTSCEEETTCTTSHHHHHHHHHHTTCCTTTTCCCGGGGCTTSCHHHHHHHHHHHHHHCCTTCCCCEEEE
T ss_pred             HHHHHhC--CCCCCeEEEeCCcCCHHHHHHHHHhcCcCCCccccchhhhhccCCHHHHHHHHHHHHHhhhccCCceEEEE
Confidence            3454455  667789999999999999998876554                                      579999


Q ss_pred             ec-HHHHhhCCC-------CCCeEEEEccCCC-CCC-CccEEEec
Q 042491          223 DL-PHVVATAPV-------YEGVSHVGGDMLN-AVP-NADAVFMK  257 (266)
Q Consensus       223 Dl-p~v~~~a~~-------~~ri~~~~gd~~~-~~p-~aD~~~l~  257 (266)
                      |. +.+++.++.       .++|+++.+|+++ +.+ .+|++++.
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            98 777776653       4689999999998 444 49999874

>2b2c_A Spermidine synthase; beta-alpha, transferase; 2.50A {Caenorhabditis elegans} SCOP: c.66.1.17

Probab=97.80  E-value=8.2e-06  Score=71.85  Aligned_cols=67  Identities=18%  Similarity=0.247  Sum_probs=55.1

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC----------CCCeEEEEccCCCCC---C-CccEEEe
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV----------YEGVSHVGGDMLNAV---P-NADAVFM  256 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~----------~~ri~~~~gd~~~~~---p-~aD~~~l  256 (266)
                      ...+|||||||+|..++.+++..|..+++++|+ |.+++.+++          .+||+++.+|..+.+   + .+|+|++
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            557999999999999999999888899999998 777765542          368999999987632   3 3999997


Q ss_pred             cc
Q 042491          257 KV  258 (266)
Q Consensus       257 ~~  258 (266)
                      .-
T Consensus       188 d~  189 (314)
T 2b2c_A          188 DS  189 (314)
T ss_dssp             CC
T ss_pred             cC
Confidence            43

>3cbg_A O-methyltransferase; cyanobacterium; HET: SAH FER 4FE; 2.00A {Synechocystis SP}

Probab=97.79  E-value=6.7e-06  Score=68.89  Aligned_cols=68  Identities=22%  Similarity=0.291  Sum_probs=54.6

Q ss_pred             CCceEEEecCCchHHHHHHHHHCC-CCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCC---C------CCccE
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYP-HIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNA---V------PNADA  253 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P-~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~---~------p~aD~  253 (266)
                      +..+|||||||+|..+..+++..| +.+++.+|. |..++.+++       .++|+++.+|..+.   +      ..+|+
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 789999998 666666553       36899999997651   2      34999


Q ss_pred             EEeccc
Q 042491          254 VFMKVI  259 (266)
Q Consensus       254 ~~l~~v  259 (266)
                      +++...
T Consensus       152 V~~d~~  157 (232)
T 3cbg_A          152 IFIDAD  157 (232)
T ss_dssp             EEECSC
T ss_pred             EEECCC
Confidence            987644

>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=97.77  E-value=5.6e-05  Score=69.35  Aligned_cols=72  Identities=15%  Similarity=0.175  Sum_probs=55.8

Q ss_pred             HHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCCCC-----
Q 042491          181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLNAV-----  248 (266)
Q Consensus       181 ~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~~~-----  248 (266)
                      .+++.++  ..+..+|+|+|||+|.++..+++.  ..+++++|. +.+++.++.      .++++++.+|+.+.+     
T Consensus       277 ~~~~~l~--~~~~~~VLDlgcG~G~~~~~la~~--~~~V~gvD~s~~al~~A~~n~~~~~~~~v~f~~~d~~~~l~~~~~  352 (433)
T 1uwv_A          277 RALEWLD--VQPEDRVLDLFCGMGNFTLPLATQ--AASVVGVEGVPALVEKGQQNARLNGLQNVTFYHENLEEDVTKQPW  352 (433)
T ss_dssp             HHHHHHT--CCTTCEEEEESCTTTTTHHHHHTT--SSEEEEEESCHHHHHHHHHHHHHTTCCSEEEEECCTTSCCSSSGG
T ss_pred             HHHHhhc--CCCCCEEEECCCCCCHHHHHHHhh--CCEEEEEeCCHHHHHHHHHHHHHcCCCceEEEECCHHHHhhhhhh
Confidence            3444444  445679999999999999999988  568999998 777776653      358999999998842     


Q ss_pred             C--CccEEEe
Q 042491          249 P--NADAVFM  256 (266)
Q Consensus       249 p--~aD~~~l  256 (266)
                      +  .+|++++
T Consensus       353 ~~~~fD~Vv~  362 (433)
T 1uwv_A          353 AKNGFDKVLL  362 (433)
T ss_dssp             GTTCCSEEEE
T ss_pred             hcCCCCEEEE
Confidence            2  3899986

>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=97.74  E-value=2e-05  Score=67.88  Aligned_cols=70  Identities=14%  Similarity=0.012  Sum_probs=49.5

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC--C------------C---------------------
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV--Y------------E---------------------  235 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~--~------------~---------------------  235 (266)
                      ...+|||||||+|.+ ..++...+..+++++|+ +.+++.+++  .            .                     
T Consensus        71 ~~~~vLDiGcG~G~~-~~l~~~~~~~~v~gvD~s~~~l~~a~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~  149 (289)
T 2g72_A           71 SGRTLIDIGSGPTVY-QLLSACSHFEDITMTDFLEVNRQELGRWLQEEPGAFNWSMYSQHACLIEGKGECWQDKERQLRA  149 (289)
T ss_dssp             CCSEEEEETCTTCCG-GGTTGGGGCSEEEEECSCHHHHHHHHHHHTTCTTCCCCHHHHHHHHHHHCSCCCHHHHHHHHHH
T ss_pred             CCCeEEEECCCcChH-HHHhhccCCCeEEEeCCCHHHHHHHHHHHhhCcccccchhhhhHHHHhcCcccchhhhHHHHHh
Confidence            457999999999994 44444445669999998 666664432  0            0                     


Q ss_pred             -CeEEEEccCCCC-------CCC--ccEEEecccccc
Q 042491          236 -GVSHVGGDMLNA-------VPN--ADAVFMKVIVLI  262 (266)
Q Consensus       236 -ri~~~~gd~~~~-------~p~--aD~~~l~~vLHd  262 (266)
                       .++++.+|+.+.       +|.  +|+|++..+||.
T Consensus       150 ~~~~~~~~D~~~~~~~~~~~~~~~~fD~V~~~~~l~~  186 (289)
T 2g72_A          150 RVKRVLPIDVHQPQPLGAGSPAPLPADALVSAFCLEA  186 (289)
T ss_dssp             HEEEEECCCTTSSSTTCSSCSSCSSEEEEEEESCHHH
T ss_pred             hhceEEecccCCCCCccccccCCCCCCEEEehhhhhh
Confidence             145677798772       222  999999999986

>2a14_A Indolethylamine N-methyltransferase; SGC,INMT, structural genomics, structural genomics consortium; HET: SAH; 1.70A {Homo sapiens} SCOP: c.66.1.15

Probab=97.70  E-value=1e-05  Score=69.08  Aligned_cols=71  Identities=15%  Similarity=-0.006  Sum_probs=50.4

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC----C-------------------------------
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV----Y-------------------------------  234 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~----~-------------------------------  234 (266)
                      .+..+|||||||+|.+...+++..- -+++++|+ |.+++.+++    .                               
T Consensus        54 ~~g~~vLDiGCG~G~~~~~~~~~~~-~~v~g~D~s~~~l~~a~~~~~~~~~~~d~s~~~~~~~~~~~~~~~~~~~~~~~~  132 (263)
T 2a14_A           54 LQGDTLIDIGSGPTIYQVLAACDSF-QDITLSDFTDRNREELEKWLKKEPGAYDWTPAVKFACELEGNSGRWEEKEEKLR  132 (263)
T ss_dssp             CCEEEEEESSCTTCCGGGTTGGGTE-EEEEEEESCHHHHHHHHHHHHTCTTCCCCHHHHHHHHHHTTCGGGHHHHHHHHH
T ss_pred             CCCceEEEeCCCccHHHHHHHHhhh-cceeeccccHHHHHHHHHHHhcCCCcccchHHHHHHHhcCCCCcchhhHHHHHH
Confidence            3557999999999987766554432 26899998 666664432    0                               


Q ss_pred             CCeE-EEEccCCCC--C-----CCccEEEecccccc
Q 042491          235 EGVS-HVGGDMLNA--V-----PNADAVFMKVIVLI  262 (266)
Q Consensus       235 ~ri~-~~~gd~~~~--~-----p~aD~~~l~~vLHd  262 (266)
                      .+|+ ++.+|+.+.  +     +.+|+|++..+||.
T Consensus       133 ~~i~~~~~~D~~~~~~~~~~~~~~fD~V~~~~~l~~  168 (263)
T 2a14_A          133 AAVKRVLKCDVHLGNPLAPAVLPLADCVLTLLAMEC  168 (263)
T ss_dssp             HHEEEEEECCTTSSSTTTTCCCCCEEEEEEESCHHH
T ss_pred             hhhheEEeccccCCCCCCccccCCCCEeeehHHHHH
Confidence            1244 889999883  2     24999999999985

>1yub_A Ermam, rRNA methyltransferase; MLS antibiotics; NMR {Streptococcus pneumoniae} SCOP: c.66.1.24

Probab=97.62  E-value=3.6e-05  Score=64.98  Aligned_cols=65  Identities=14%  Similarity=0.351  Sum_probs=52.3

Q ss_pred             HHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC----CCCeEEEEccCCC-CCC
Q 042491          181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV----YEGVSHVGGDMLN-AVP  249 (266)
Q Consensus       181 ~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~----~~ri~~~~gd~~~-~~p  249 (266)
                      .+++.++  .....+|||||||+|.++..+++..  .+++++|+ +.+++.+++    .++++++.+|+.+ +++
T Consensus        20 ~i~~~~~--~~~~~~VLDiG~G~G~~~~~l~~~~--~~v~~id~~~~~~~~a~~~~~~~~~v~~~~~D~~~~~~~   90 (245)
T 1yub_A           20 QIIKQLN--LKETDTVYEIGTGKGHLTTKLAKIS--KQVTSIELDSHLFNLSSEKLKLNTRVTLIHQDILQFQFP   90 (245)
T ss_dssp             HHHHHCC--CCSSEEEEECSCCCSSCSHHHHHHS--SEEEESSSSCSSSSSSSCTTTTCSEEEECCSCCTTTTCC
T ss_pred             HHHHhcC--CCCCCEEEEEeCCCCHHHHHHHHhC--CeEEEEECCHHHHHHHHHHhccCCceEEEECChhhcCcc
Confidence            4455555  5566899999999999999999986  78999998 677776665    3689999999998 555

>3o4f_A Spermidine synthase; aminopropyltransferase, polyamine synthase, rossmann fold, P biosynthesis, spermidine biosynthesis, transferase; 2.90A {Escherichia coli}

Probab=97.60  E-value=0.0001  Score=64.01  Aligned_cols=66  Identities=20%  Similarity=0.199  Sum_probs=55.9

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-----------CCCeEEEEccCCCCC---C-CccEE
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-----------YEGVSHVGGDMLNAV---P-NADAV  254 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-----------~~ri~~~~gd~~~~~---p-~aD~~  254 (266)
                      +.+++||-||||.|..++++++..|-.+++++|+ |+|++.+++           .+|++++.+|-++-+   + .+|+|
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            4678999999999999999999888889999998 888876543           689999999988742   2 39999


Q ss_pred             Ee
Q 042491          255 FM  256 (266)
Q Consensus       255 ~l  256 (266)
                      ++
T Consensus       162 i~  163 (294)
T 3o4f_A          162 IS  163 (294)
T ss_dssp             EE
T ss_pred             EE
Confidence            86

>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=97.57  E-value=6e-05  Score=64.21  Aligned_cols=67  Identities=10%  Similarity=0.038  Sum_probs=50.2

Q ss_pred             HHHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC----CCCeEEEEccCCC-CCC
Q 042491          179 MSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV----YEGVSHVGGDMLN-AVP  249 (266)
Q Consensus       179 ~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~----~~ri~~~~gd~~~-~~p  249 (266)
                      ...+++..+  .....+|||||||+|.+.. + ++.++.+++++|+ +.+++.+++    .++++++.+|+.+ +++
T Consensus        10 ~~~iv~~~~--~~~~~~VLEIG~G~G~lt~-l-~~~~~~~v~avEid~~~~~~a~~~~~~~~~v~~i~~D~~~~~~~   82 (252)
T 1qyr_A           10 IDSIVSAIN--PQKGQAMVEIGPGLAALTE-P-VGERLDQLTVIELDRDLAARLQTHPFLGPKLTIYQQDAMTFNFG   82 (252)
T ss_dssp             HHHHHHHHC--CCTTCCEEEECCTTTTTHH-H-HHTTCSCEEEECCCHHHHHHHHTCTTTGGGEEEECSCGGGCCHH
T ss_pred             HHHHHHhcC--CCCcCEEEEECCCCcHHHH-h-hhCCCCeEEEEECCHHHHHHHHHHhccCCceEEEECchhhCCHH
Confidence            344555555  5566799999999999999 5 4555555999998 777776654    2589999999988 554

>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=97.56  E-value=0.00012  Score=69.95  Aligned_cols=98  Identities=16%  Similarity=0.202  Sum_probs=65.2

Q ss_pred             CcchhcccCchHHHHHHHHHHhhhHHHHHHHHhhcccC--CCCCceEEEecCCchHHHHHHHH---H-CCCCeEEEeecH
Q 042491          152 EMWDFASQNSQFNNSFNKAMACTAKIVMSTLLSHYKDG--FDGIRSLVDVGGGTGEELAEIVE---F-YPHIKGVNFDLP  225 (266)
Q Consensus       152 ~~~~~~~~~~~~~~~f~~~m~~~~~~~~~~~~~~~~~~--~~~~~~vvDvGgG~G~~~~~l~~---~-~P~l~~~~~Dlp  225 (266)
                      ..||.+++|+-.-..|.+|+..       .+.+.....  -.+...|+|||||+|-+....++   + .-++|+..++-.
T Consensus       322 ~tYevFEkD~vKy~~Ye~AI~~-------Al~d~~~~~~~~~~~~vVldVGaGrGpLv~~al~A~a~~~~~vkVyAVEkn  394 (637)
T 4gqb_A          322 QTYEVFEKDPIKYSQYQQAIYK-------CLLDRVPEEEKDTNVQVLMVLGAGRGPLVNASLRAAKQADRRIKLYAVEKN  394 (637)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH-------HHHHHSCGGGTTTCEEEEEEESCTTSHHHHHHHHHHHHTTCEEEEEEEESC
T ss_pred             hhhhhhcCChhhHHHHHHHHHH-------HHHHhhhhccccCCCcEEEEECCCCcHHHHHHHHHHHhcCCCcEEEEEECC
Confidence            4578888898877888887732       233322211  22446899999999988433333   2 223466777764


Q ss_pred             HHHhhCCC-------CCCeEEEEccCCC-CCCC-ccEEEe
Q 042491          226 HVVATAPV-------YEGVSHVGGDMLN-AVPN-ADAVFM  256 (266)
Q Consensus       226 ~v~~~a~~-------~~ri~~~~gd~~~-~~p~-aD~~~l  256 (266)
                      .++..+.+       .++|+++.||+.+ .+|+ +|+++.
T Consensus       395 p~A~~a~~~v~~N~~~dkVtVI~gd~eev~LPEKVDIIVS  434 (637)
T 4gqb_A          395 PNAVVTLENWQFEEWGSQVTVVSSDMREWVAPEKADIIVS  434 (637)
T ss_dssp             HHHHHHHHHHHHHTTGGGEEEEESCTTTCCCSSCEEEEEC
T ss_pred             HHHHHHHHHHHhccCCCeEEEEeCcceeccCCcccCEEEE
Confidence            44444432       7899999999999 7886 999874

>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=97.55  E-value=0.00011  Score=61.90  Aligned_cols=68  Identities=12%  Similarity=0.192  Sum_probs=53.9

Q ss_pred             CCCCceEEEecCCchHHHHHHHHHC-CCCeEEEeec-HHHHhhCC----CCCCeEEEEccCCCC--CC----CccEEEec
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEFY-PHIKGVNFDL-PHVVATAP----VYEGVSHVGGDMLNA--VP----NADAVFMK  257 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~~-P~l~~~~~Dl-p~v~~~a~----~~~ri~~~~gd~~~~--~p----~aD~~~l~  257 (266)
                      ++...+|||+|||+|.+...+++.. |+=+++.+|. |++++.+.    +..+|..+.+|...+  .|    .+|++++-
T Consensus        75 ikpG~~VldlG~G~G~~~~~la~~VG~~G~V~avD~s~~~~~~l~~~a~~~~ni~~V~~d~~~p~~~~~~~~~vDvVf~d  154 (233)
T 4df3_A           75 VKEGDRILYLGIASGTTASHMSDIIGPRGRIYGVEFAPRVMRDLLTVVRDRRNIFPILGDARFPEKYRHLVEGVDGLYAD  154 (233)
T ss_dssp             CCTTCEEEEETCTTSHHHHHHHHHHCTTCEEEEEECCHHHHHHHHHHSTTCTTEEEEESCTTCGGGGTTTCCCEEEEEEC
T ss_pred             CCCCCEEEEecCcCCHHHHHHHHHhCCCceEEEEeCCHHHHHHHHHhhHhhcCeeEEEEeccCccccccccceEEEEEEe
Confidence            5677999999999999999999985 8889999998 66665443    357899999988773  22    28887753

>2oxt_A Nucleoside-2'-O-methyltransferase; flavivirus, viral enzyme, RNA capping, S-adenosyl-L-methionine, viral protein; HET: SAM; 2.90A {Meaban virus}

Probab=97.55  E-value=0.00014  Score=62.27  Aligned_cols=66  Identities=14%  Similarity=0.090  Sum_probs=49.9

Q ss_pred             CCCCceEEEecCCchHHHHHHHHHCCCCeEEEeecHHHHhhCCC--CC------CeEEE--EccCCCCCC--CccEEEec
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPV--YE------GVSHV--GGDMLNAVP--NADAVFMK  257 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~a~~--~~------ri~~~--~gd~~~~~p--~aD~~~l~  257 (266)
                      +....+|||||||+|.++..+++.   -+++.+|+-.++..+.+  ..      +|.++  .+|+.+ +|  .+|+|++.
T Consensus        72 ~~~g~~VLDlGcGtG~~s~~la~~---~~V~gvD~s~m~~~a~~~~~~~~~~~~~v~~~~~~~D~~~-l~~~~fD~V~sd  147 (265)
T 2oxt_A           72 VELTGRVVDLGCGRGGWSYYAASR---PHVMDVRAYTLGVGGHEVPRITESYGWNIVKFKSRVDIHT-LPVERTDVIMCD  147 (265)
T ss_dssp             CCCCEEEEEESCTTSHHHHHHHTS---TTEEEEEEECCCCSSCCCCCCCCBTTGGGEEEECSCCTTT-SCCCCCSEEEEC
T ss_pred             CCCCCEEEEeCcCCCHHHHHHHHc---CcEEEEECchhhhhhhhhhhhhhccCCCeEEEecccCHhH-CCCCCCcEEEEe
Confidence            456689999999999999999887   57999998555333221  11      68999  899987 33  49999986


Q ss_pred             cc
Q 042491          258 VI  259 (266)
Q Consensus       258 ~v  259 (266)
                      ..
T Consensus       148 ~~  149 (265)
T 2oxt_A          148 VG  149 (265)
T ss_dssp             CC
T ss_pred             Cc
Confidence            44

>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=97.54  E-value=0.00013  Score=62.90  Aligned_cols=66  Identities=14%  Similarity=0.052  Sum_probs=50.0

Q ss_pred             CCCCceEEEecCCchHHHHHHHHHCCCCeEEEeecHHHHhhCCC--CC------CeEEE--EccCCCCCC--CccEEEec
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPV--YE------GVSHV--GGDMLNAVP--NADAVFMK  257 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~a~~--~~------ri~~~--~gd~~~~~p--~aD~~~l~  257 (266)
                      +....+|||||||+|.++..+++.   -+++.+|+..++..+.+  ..      +|+++  .+|+.+ +|  .+|+|++.
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            456689999999999999999988   57999998555333322  11      78999  999887 33  49999986


Q ss_pred             cc
Q 042491          258 VI  259 (266)
Q Consensus       258 ~v  259 (266)
                      ..
T Consensus       156 ~~  157 (276)
T 2wa2_A          156 IG  157 (276)
T ss_dssp             CC
T ss_pred             CC
Confidence            54

>1ixk_A Methyltransferase; open beta sheet; 1.90A {Pyrococcus horikoshii} SCOP: c.66.1.38

Probab=97.52  E-value=7.6e-05  Score=65.52  Aligned_cols=67  Identities=10%  Similarity=0.119  Sum_probs=54.0

Q ss_pred             CCCCceEEEecCCchHHHHHHHHHCC-CCeEEEeec-HHHHhhCCC------CCCeEEEEccCCC-C-CC-CccEEEe
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEFYP-HIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLN-A-VP-NADAVFM  256 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~~P-~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~-~-~p-~aD~~~l  256 (266)
                      .....+|||+|||+|..+..+++..+ ..+++.+|. +..++.+++      ..+|+++.+|+.+ + .+ .+|+|++
T Consensus       116 ~~~g~~VLDlg~G~G~~t~~la~~~~~~~~v~avD~s~~~l~~a~~~~~~~g~~~v~~~~~D~~~~~~~~~~fD~Il~  193 (315)
T 1ixk_A          116 PKPGEIVADMAAAPGGKTSYLAQLMRNDGVIYAFDVDENRLRETRLNLSRLGVLNVILFHSSSLHIGELNVEFDKILL  193 (315)
T ss_dssp             CCTTCEEEECCSSCSHHHHHHHHHTTTCSEEEEECSCHHHHHHHHHHHHHHTCCSEEEESSCGGGGGGGCCCEEEEEE
T ss_pred             CCCCCEEEEeCCCCCHHHHHHHHHhCCCCEEEEEcCCHHHHHHHHHHHHHhCCCeEEEEECChhhcccccccCCEEEE
Confidence            45667999999999999999999986 479999998 666665543      3579999999987 3 34 4999997

>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=97.50  E-value=0.0001  Score=64.52  Aligned_cols=68  Identities=16%  Similarity=0.127  Sum_probs=50.0

Q ss_pred             CCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-----HHHHhhCC--C--CCCeEEEEc-cCCC-CCCCccEEEecc
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-----PHVVATAP--V--YEGVSHVGG-DMLN-AVPNADAVFMKV  258 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-----p~v~~~a~--~--~~ri~~~~g-d~~~-~~p~aD~~~l~~  258 (266)
                      +....+|||||||+|.++..++++   -+++.+|.     +..++..+  .  .++|+++.+ |+.+ +...+|+|++..
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            445689999999999999999988   36888898     53333222  1  267999999 9887 333599999854


Q ss_pred             cc
Q 042491          259 IV  260 (266)
Q Consensus       259 vL  260 (266)
                      ..
T Consensus       157 ~~  158 (305)
T 2p41_A          157 GE  158 (305)
T ss_dssp             CC
T ss_pred             cc
Confidence            43

>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=97.49  E-value=0.00012  Score=65.02  Aligned_cols=71  Identities=18%  Similarity=0.194  Sum_probs=56.4

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCC-----CeEEEeec-HHHHhhCCC-----CCCeEEEEccCCCCCC--CccEEEecc
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPH-----IKGVNFDL-PHVVATAPV-----YEGVSHVGGDMLNAVP--NADAVFMKV  258 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~-----l~~~~~Dl-p~v~~~a~~-----~~ri~~~~gd~~~~~p--~aD~~~l~~  258 (266)
                      ...+|+|+|||+|.++..+.+..|.     .+++++|+ |.+++.++.     .-++.++.+|.+++.+  .+|+|+..-
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            4579999999999999999999875     68899998 666665543     3378999999998654  499999875


Q ss_pred             cccc
Q 042491          259 IVLI  262 (266)
Q Consensus       259 vLHd  262 (266)
                      -++.
T Consensus       210 Pfg~  213 (344)
T 2f8l_A          210 PVGY  213 (344)
T ss_dssp             CCSE
T ss_pred             CCCC
Confidence            5443

>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=97.47  E-value=0.0004  Score=58.33  Aligned_cols=77  Identities=17%  Similarity=0.261  Sum_probs=55.6

Q ss_pred             HHHhhccc-CCCCCceEEEecCCchHHHHHHHHHC-CCCeEEEeec-HHHH----hhCCCCCCeEEEEccCCCC-----C
Q 042491          181 TLLSHYKD-GFDGIRSLVDVGGGTGEELAEIVEFY-PHIKGVNFDL-PHVV----ATAPVYEGVSHVGGDMLNA-----V  248 (266)
Q Consensus       181 ~~~~~~~~-~~~~~~~vvDvGgG~G~~~~~l~~~~-P~l~~~~~Dl-p~v~----~~a~~~~ri~~~~gd~~~~-----~  248 (266)
                      .++..++. .+....+|||+|||+|..+..+++.. |+-+++.+|. |.++    +.+++..+|.++.+|...+     +
T Consensus        64 ~ll~~l~~~~l~~g~~VLDlG~GtG~~t~~la~~v~~~G~V~avD~s~~~l~~l~~~a~~r~nv~~i~~Da~~~~~~~~~  143 (232)
T 3id6_C           64 AILKGLKTNPIRKGTKVLYLGAASGTTISHVSDIIELNGKAYGVEFSPRVVRELLLVAQRRPNIFPLLADARFPQSYKSV  143 (232)
T ss_dssp             HHHTTCSCCSCCTTCEEEEETCTTSHHHHHHHHHHTTTSEEEEEECCHHHHHHHHHHHHHCTTEEEEECCTTCGGGTTTT
T ss_pred             HHHhhhhhcCCCCCCEEEEEeecCCHHHHHHHHHhCCCCEEEEEECcHHHHHHHHHHhhhcCCeEEEEcccccchhhhcc
Confidence            34444431 14567899999999999999998874 6789999998 5443    3333356899999998763     2


Q ss_pred             C-CccEEEec
Q 042491          249 P-NADAVFMK  257 (266)
Q Consensus       249 p-~aD~~~l~  257 (266)
                      + .+|++++.
T Consensus       144 ~~~~D~I~~d  153 (232)
T 3id6_C          144 VENVDVLYVD  153 (232)
T ss_dssp             CCCEEEEEEC
T ss_pred             ccceEEEEec
Confidence            2 49999865

>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=97.47  E-value=0.00011  Score=63.52  Aligned_cols=66  Identities=18%  Similarity=0.108  Sum_probs=53.3

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCCCC--CccEEEec
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNAVP--NADAVFMK  257 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~~p--~aD~~~l~  257 (266)
                      ....+|||+|||+|.++..+++. +..+++.+|+ |..++.+++       .++|+++.+|..+-.+  .||.|+|.
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            35689999999999999999887 4568999998 777766553       6889999999888333  39988875

>3ajd_A Putative methyltransferase MJ0026; tRNA, M5C, rossmann fold, structural genomics, riken structu genomics/proteomics initiative; 1.27A {Methanocaldococcus jannaschii} PDB: 3a4t_A

Probab=97.42  E-value=0.00012  Score=62.87  Aligned_cols=68  Identities=9%  Similarity=0.070  Sum_probs=54.2

Q ss_pred             CCCCceEEEecCCchHHHHHHHHHCCC-CeEEEeec-HHHHhhCCC------CCCeEEEEccCCC-CC-----C-CccEE
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEFYPH-IKGVNFDL-PHVVATAPV------YEGVSHVGGDMLN-AV-----P-NADAV  254 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~~P~-l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~-~~-----p-~aD~~  254 (266)
                      .....+|||+|||+|..+..+++..++ .+++.+|. +..++.+++      ..+++++.+|+.+ +.     + .+|+|
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            345679999999999999999999887 79999998 565655443      3589999999877 22     3 49999


Q ss_pred             Eec
Q 042491          255 FMK  257 (266)
Q Consensus       255 ~l~  257 (266)
                      ++.
T Consensus       161 l~d  163 (274)
T 3ajd_A          161 LLD  163 (274)
T ss_dssp             EEE
T ss_pred             EEc
Confidence            875

>2r6z_A UPF0341 protein in RSP 3' region; alpha-beta protein, structural genomics, PSI-2, protein structure initiative; 1.80A {Neisseria gonorrhoeae}

Probab=97.39  E-value=5e-05  Score=64.91  Aligned_cols=66  Identities=14%  Similarity=0.243  Sum_probs=51.5

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-H-------HHHhhCCC-------CCCeEEEEccCCCC---CC----
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-P-------HVVATAPV-------YEGVSHVGGDMLNA---VP----  249 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p-------~v~~~a~~-------~~ri~~~~gd~~~~---~p----  249 (266)
                      ...+|||+|||+|..+..+++.  ..+++.+|+ |       ..++.++.       .+||+++.+|..+-   ++    
T Consensus        83 ~~~~VLDlgcG~G~~a~~lA~~--g~~V~~vD~s~~~~~ll~~~l~~a~~n~~~~~~~~ri~~~~~d~~~~l~~~~~~~~  160 (258)
T 2r6z_A           83 AHPTVWDATAGLGRDSFVLASL--GLTVTAFEQHPAVACLLSDGIRRALLNPETQDTAARINLHFGNAAEQMPALVKTQG  160 (258)
T ss_dssp             GCCCEEETTCTTCHHHHHHHHT--TCCEEEEECCHHHHHHHHHHHHHHHHSHHHHHHHTTEEEEESCHHHHHHHHHHHHC
T ss_pred             CcCeEEEeeCccCHHHHHHHHh--CCEEEEEECChhhhHHHHHHHHHHHhHHHhhCCccCeEEEECCHHHHHHhhhccCC
Confidence            4479999999999999999986  468999998 5       55555542       36799999998772   43    


Q ss_pred             CccEEEeccc
Q 042491          250 NADAVFMKVI  259 (266)
Q Consensus       250 ~aD~~~l~~v  259 (266)
                      .+|+|++.-.
T Consensus       161 ~fD~V~~dP~  170 (258)
T 2r6z_A          161 KPDIVYLDPM  170 (258)
T ss_dssp             CCSEEEECCC
T ss_pred             CccEEEECCC
Confidence            4999998543

>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=97.37  E-value=0.00017  Score=63.87  Aligned_cols=64  Identities=17%  Similarity=0.151  Sum_probs=52.4

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCCCCCccEEEec
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNAVPNADAVFMK  257 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~~p~aD~~~l~  257 (266)
                      ....+|||+|||+|.++.. ++  +..+++.+|+ |.+++.+++       .++++++.+|.++....+|++++.
T Consensus       194 ~~~~~VLDlg~G~G~~~l~-a~--~~~~V~~vD~s~~ai~~a~~n~~~n~l~~~v~~~~~D~~~~~~~fD~Vi~d  265 (336)
T 2yx1_A          194 SLNDVVVDMFAGVGPFSIA-CK--NAKKIYAIDINPHAIELLKKNIKLNKLEHKIIPILSDVREVDVKGNRVIMN  265 (336)
T ss_dssp             CTTCEEEETTCTTSHHHHH-TT--TSSEEEEEESCHHHHHHHHHHHHHTTCTTTEEEEESCGGGCCCCEEEEEEC
T ss_pred             CCCCEEEEccCccCHHHHh-cc--CCCEEEEEECCHHHHHHHHHHHHHcCCCCcEEEEECChHHhcCCCcEEEEC
Confidence            3567999999999999999 76  5778999998 777776653       368999999999854459999884

>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=97.35  E-value=8.8e-05  Score=65.70  Aligned_cols=63  Identities=11%  Similarity=0.059  Sum_probs=50.6

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CC-CeEEEEccCCCCC------C-CccEEE
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YE-GVSHVGGDMLNAV------P-NADAVF  255 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~-ri~~~~gd~~~~~------p-~aD~~~  255 (266)
                      ...+|||+|||+|.++..+++...  +++.+|+ +.+++.+++       .+ +++++.+|+++..      . .+|+|+
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            446999999999999999999754  8999998 777776653       23 6999999998732      2 499998


Q ss_pred             e
Q 042491          256 M  256 (266)
Q Consensus       256 l  256 (266)
                      +
T Consensus       231 ~  231 (332)
T 2igt_A          231 T  231 (332)
T ss_dssp             E
T ss_pred             E
Confidence            8

>2k4m_A TR8_protein, UPF0146 protein MTH_1000; alpha+beta, rossman fold, structural genomics, PSI-2; NMR {Methanothermobacterthermautotrophicus str}

Probab=97.34  E-value=0.00018  Score=55.90  Aligned_cols=58  Identities=19%  Similarity=0.129  Sum_probs=43.4

Q ss_pred             CCCceEEEecCCchH-HHHHHHHHCCCCeEEEeec-HHHHhhCCCCCCeEEEEccCCCCCC----CccEEEecc
Q 042491          191 DGIRSLVDVGGGTGE-ELAEIVEFYPHIKGVNFDL-PHVVATAPVYEGVSHVGGDMLNAVP----NADAVFMKV  258 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~-~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~~ri~~~~gd~~~~~p----~aD~~~l~~  258 (266)
                      ....++||||||.|. .+..|++. -+..++..|+ |..++         ++..|+|+|.+    +||+++..|
T Consensus        34 ~~~~rVlEVG~G~g~~vA~~La~~-~g~~V~atDInp~Av~---------~v~dDiF~P~~~~Y~~~DLIYsir   97 (153)
T 2k4m_A           34 GPGTRVVEVGAGRFLYVSDYIRKH-SKVDLVLTDIKPSHGG---------IVRDDITSPRMEIYRGAALIYSIR   97 (153)
T ss_dssp             CSSSEEEEETCTTCCHHHHHHHHH-SCCEEEEECSSCSSTT---------EECCCSSSCCHHHHTTEEEEEEES
T ss_pred             CCCCcEEEEccCCChHHHHHHHHh-CCCeEEEEECCccccc---------eEEccCCCCcccccCCcCEEEEcC
Confidence            355799999999995 77777654 4577888897 44333         88899999754    699987654

>3sso_A Methyltransferase; macrolide, natural product, rossman fold; HET: SAH; 1.90A {Micromonospora griseorubida} PDB: 3ssn_A* 3ssm_A*

Probab=97.33  E-value=0.00032  Score=63.54  Aligned_cols=68  Identities=15%  Similarity=0.116  Sum_probs=50.6

Q ss_pred             CCceEEEecCC------chHHHHHHHHH-CCCCeEEEeec-HHHHhhCCCCCCeEEEEccCCC-CCC--------CccEE
Q 042491          192 GIRSLVDVGGG------TGEELAEIVEF-YPHIKGVNFDL-PHVVATAPVYEGVSHVGGDMLN-AVP--------NADAV  254 (266)
Q Consensus       192 ~~~~vvDvGgG------~G~~~~~l~~~-~P~l~~~~~Dl-p~v~~~a~~~~ri~~~~gd~~~-~~p--------~aD~~  254 (266)
                      +..+|||||||      +|..+..++++ +|+.+++++|+ |.+.   ...+||+++.+|+.+ +++        .||+|
T Consensus       216 ~~~rVLDIGCG~~~~~~TGG~Sl~la~~~fP~a~V~GVDiSp~m~---~~~~rI~fv~GDa~dlpf~~~l~~~d~sFDlV  292 (419)
T 3sso_A          216 QQVRVLEIGVGGYKHPEWGGGSLRMWKSFFPRGQIYGLDIMDKSH---VDELRIRTIQGDQNDAEFLDRIARRYGPFDIV  292 (419)
T ss_dssp             SCCEEEEECCSCTTCSSCCCHHHHHHHHHCTTCEEEEEESSCCGG---GCBTTEEEEECCTTCHHHHHHHHHHHCCEEEE
T ss_pred             CCCEEEEEecCCCcCCCCCHHHHHHHHHhCCCCEEEEEECCHHHh---hcCCCcEEEEecccccchhhhhhcccCCccEE
Confidence            45899999999      55556666655 69999999998 4432   235799999999988 443        39999


Q ss_pred             EeccccccC
Q 042491          255 FMKVIVLIQ  263 (266)
Q Consensus       255 ~l~~vLHd~  263 (266)
                      +.. ..|.|
T Consensus       293 isd-gsH~~  300 (419)
T 3sso_A          293 IDD-GSHIN  300 (419)
T ss_dssp             EEC-SCCCH
T ss_pred             EEC-Ccccc
Confidence            875 45654

>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=97.31  E-value=0.00043  Score=63.33  Aligned_cols=63  Identities=13%  Similarity=0.066  Sum_probs=51.4

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCCCCC-CccEEEec
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLNAVP-NADAVFMK  257 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~~~p-~aD~~~l~  257 (266)
                      +..+|+|+|||+|.++..+++.  ..+++++|. +++++.+++      .+ ++++.+|+.+..+ .+|++++.
T Consensus       290 ~~~~VLDlgcG~G~~sl~la~~--~~~V~gvD~s~~ai~~A~~n~~~ngl~-v~~~~~d~~~~~~~~fD~Vv~d  360 (425)
T 2jjq_A          290 EGEKILDMYSGVGTFGIYLAKR--GFNVKGFDSNEFAIEMARRNVEINNVD-AEFEVASDREVSVKGFDTVIVD  360 (425)
T ss_dssp             CSSEEEEETCTTTHHHHHHHHT--TCEEEEEESCHHHHHHHHHHHHHHTCC-EEEEECCTTTCCCTTCSEEEEC
T ss_pred             CCCEEEEeeccchHHHHHHHHc--CCEEEEEECCHHHHHHHHHHHHHcCCc-EEEEECChHHcCccCCCEEEEc
Confidence            5579999999999999999987  458999998 777776654      23 9999999998555 59999873

>2yxl_A PH0851 protein, 450AA long hypothetical FMU protein; FMU-homolog, methyltransferase, structural genomics, NPPSFA; HET: SFG; 2.55A {Pyrococcus horikoshii}

Probab=97.28  E-value=0.00036  Score=64.22  Aligned_cols=67  Identities=18%  Similarity=0.181  Sum_probs=54.0

Q ss_pred             CCCCceEEEecCCchHHHHHHHHHCCC-CeEEEeec-HHHHhhCCC------CCCeEEEEccCCC-C--CC-C-ccEEEe
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEFYPH-IKGVNFDL-PHVVATAPV------YEGVSHVGGDMLN-A--VP-N-ADAVFM  256 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~~P~-l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~-~--~p-~-aD~~~l  256 (266)
                      .....+|||+|||+|..+..+++..++ .+++.+|. +..++.+++      ..+|+++.+|+.+ +  ++ + +|+|++
T Consensus       257 ~~~g~~VLDlgaG~G~~t~~la~~~~~~~~v~a~D~s~~~l~~~~~~~~~~g~~~v~~~~~D~~~~~~~~~~~~fD~Vl~  336 (450)
T 2yxl_A          257 PKPGETVVDLAAAPGGKTTHLAELMKNKGKIYAFDVDKMRMKRLKDFVKRMGIKIVKPLVKDARKAPEIIGEEVADKVLL  336 (450)
T ss_dssp             CCTTCEEEESSCTTCHHHHHHHHHTTTCSEEEEECSCHHHHHHHHHHHHHTTCCSEEEECSCTTCCSSSSCSSCEEEEEE
T ss_pred             CCCcCEEEEeCCCccHHHHHHHHHcCCCCEEEEEcCCHHHHHHHHHHHHHcCCCcEEEEEcChhhcchhhccCCCCEEEE
Confidence            445679999999999999999999987 79999998 555554432      3579999999987 3  55 4 999996

>2heo_A Z-DNA binding protein 1; protein DLM1-Z-DNA complex, immune system-DNA complex; 1.70A {Mus musculus} PDB: 1j75_A

Probab=97.28  E-value=6.7e-05  Score=50.47  Aligned_cols=55  Identities=13%  Similarity=0.293  Sum_probs=46.0

Q ss_pred             hcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCc
Q 042491           35 ELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLT  101 (266)
Q Consensus        35 elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt  101 (266)
                      +..|+++|..++.++|..|||+.+|++...      +.+++..|...|++....      .+.|+++
T Consensus        12 ~~~IL~~L~~~~~~~s~~eLA~~lglsr~t------v~~~l~~L~~~G~I~~~~------~G~y~lg   66 (67)
T 2heo_A           12 EQKILQVLSDDGGPVAIFQLVKKCQVPKKT------LNQVLYRLKKEDRVSSPS------PKYWSIG   66 (67)
T ss_dssp             HHHHHHHHHHHCSCEEHHHHHHHHCSCHHH------HHHHHHHHHHTTSEEEEE------TTEEEEC
T ss_pred             HHHHHHHHHHcCCCcCHHHHHHHHCcCHHH------HHHHHHHHHHCCcEecCC------CceEeeC
Confidence            456888887655689999999999999766      999999999999987755      4788764

>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=97.13  E-value=0.00018  Score=64.94  Aligned_cols=64  Identities=11%  Similarity=-0.020  Sum_probs=50.4

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CC-CeEEEEccCCCCC------C-CccEEE
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YE-GVSHVGGDMLNAV------P-NADAVF  255 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~-ri~~~~gd~~~~~------p-~aD~~~  255 (266)
                      +..+|||+|||+|.++..+++.. ..+++.+|+ |.+++.+++       .+ +++++.+|.++.+      + .+|+|+
T Consensus       212 ~~~~VLDl~cGtG~~sl~la~~g-a~~V~~vD~s~~al~~A~~N~~~n~~~~~~v~~~~~D~~~~l~~~~~~~~~fD~Ii  290 (385)
T 2b78_A          212 AGKTVLNLFSYTAAFSVAAAMGG-AMATTSVDLAKRSRALSLAHFEANHLDMANHQLVVMDVFDYFKYARRHHLTYDIII  290 (385)
T ss_dssp             BTCEEEEETCTTTHHHHHHHHTT-BSEEEEEESCTTHHHHHHHHHHHTTCCCTTEEEEESCHHHHHHHHHHTTCCEEEEE
T ss_pred             CCCeEEEEeeccCHHHHHHHHCC-CCEEEEEECCHHHHHHHHHHHHHcCCCccceEEEECCHHHHHHHHHHhCCCccEEE
Confidence            45799999999999999999863 237999998 777766553       23 8999999988732      2 489999


Q ss_pred             e
Q 042491          256 M  256 (266)
Q Consensus       256 l  256 (266)
                      +
T Consensus       291 ~  291 (385)
T 2b78_A          291 I  291 (385)
T ss_dssp             E
T ss_pred             E
Confidence            7

>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=97.12  E-value=0.00064  Score=59.00  Aligned_cols=79  Identities=10%  Similarity=0.061  Sum_probs=53.3

Q ss_pred             HHHhhcccCCC-CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhh-CCCCCCeEEEE-ccCCC----CCC-C-
Q 042491          181 TLLSHYKDGFD-GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVAT-APVYEGVSHVG-GDMLN----AVP-N-  250 (266)
Q Consensus       181 ~~~~~~~~~~~-~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~-a~~~~ri~~~~-gd~~~----~~p-~-  250 (266)
                      .++..+.  .. ...+|||||||+|.++..+++. +..+++.+|+ +.+++. ++..+|+.... .|+..    .+| . 
T Consensus        75 ~~l~~~~--~~~~g~~vLDiGcGTG~~t~~L~~~-ga~~V~aVDvs~~mL~~a~r~~~rv~~~~~~ni~~l~~~~l~~~~  151 (291)
T 3hp7_A           75 KALAVFN--LSVEDMITIDIGASTGGFTDVMLQN-GAKLVYAVDVGTNQLVWKLRQDDRVRSMEQYNFRYAEPVDFTEGL  151 (291)
T ss_dssp             HHHHHTT--CCCTTCEEEEETCTTSHHHHHHHHT-TCSEEEEECSSSSCSCHHHHTCTTEEEECSCCGGGCCGGGCTTCC
T ss_pred             HHHHhcC--CCccccEEEecCCCccHHHHHHHhC-CCCEEEEEECCHHHHHHHHHhCcccceecccCceecchhhCCCCC
Confidence            3455554  33 4579999999999999988887 5568999998 555554 33356665544 34422    245 2 


Q ss_pred             ccEEEecccccc
Q 042491          251 ADAVFMKVIVLI  262 (266)
Q Consensus       251 aD~~~l~~vLHd  262 (266)
                      +|++.+...+|+
T Consensus       152 fD~v~~d~sf~s  163 (291)
T 3hp7_A          152 PSFASIDVSFIS  163 (291)
T ss_dssp             CSEEEECCSSSC
T ss_pred             CCEEEEEeeHhh
Confidence            899988776664

>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=97.12  E-value=0.00053  Score=66.65  Aligned_cols=75  Identities=17%  Similarity=0.108  Sum_probs=56.7

Q ss_pred             HHHhhcccCCCCCceEEEecCCchHHHHHHHHH------------------------------------------CCCCe
Q 042491          181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEF------------------------------------------YPHIK  218 (266)
Q Consensus       181 ~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~------------------------------------------~P~l~  218 (266)
                      .++....  |.....|+|.+||+|+++++.+..                                          .|+.+
T Consensus       181 ~ll~~~~--~~~~~~llDP~CGSGt~lIeAa~~a~~~apG~~R~~f~fe~w~~~~~~~w~~~~~ea~~~~~~~~~~~~~~  258 (703)
T 3v97_A          181 AIVMRSG--WQPGTPLLDPMCGSGTLLIEAAMLATDRAPGLHRGRWGFSGWAQHDEAIWQEVKAEAQTRARKGLAEYSSH  258 (703)
T ss_dssp             HHHHHTT--CCTTSCEEETTCTTSHHHHHHHHHHTTCCTTTTCCCCTTTTBTTCCHHHHHHHHHHHHHHHHHHHHHCCCC
T ss_pred             HHHHhhC--CCCCCeEEecCCCCcHHHHHHHHHHhhcCCCCCccccchhhcccCCHHHHHHHHHHHHHHhhhccccCCcc
Confidence            3444445  667789999999999999987764                                          24468


Q ss_pred             EEEeec-HHHHhhCCC-------CCCeEEEEccCCC-CCC----CccEEEec
Q 042491          219 GVNFDL-PHVVATAPV-------YEGVSHVGGDMLN-AVP----NADAVFMK  257 (266)
Q Consensus       219 ~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~-~~p----~aD~~~l~  257 (266)
                      ++++|. |.+++.++.       .++|++..+|+.+ ..|    .+|++++.
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            999998 777776654       4579999999987 223    48998874

>3b73_A PHIH1 repressor-like protein; winged-helix-turn-helix, structural genomics, PSI-2, protein structure initiative; 2.12A {Haloarcula marismortui atcc 43049}

Probab=97.08  E-value=0.00025  Score=52.63  Aligned_cols=63  Identities=16%  Similarity=0.211  Sum_probs=52.8

Q ss_pred             hcChhhHhhhCCCCCCHHHHHhhc--CCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhhcC
Q 042491           35 ELRLADIMHCHGSPITLPQLASGI--NSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLLRD  110 (266)
Q Consensus        35 elglfd~L~~~g~~~t~~eLA~~~--g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~~~  110 (266)
                      +..|++.|..+ +++|+.+||+.+  |+++..      +.+.|+.|...|++...+      .+.|++|+.+..+...
T Consensus        15 d~~IL~~L~~~-g~~s~~eLA~~l~~giS~~a------Vs~rL~~Le~~GLV~~~~------rg~Y~LT~~G~~~l~~   79 (111)
T 3b73_A           15 DDRILEIIHEE-GNGSPKELEDRDEIRISKSS------VSRRLKKLADHDLLQPLA------NGVYVITEEGEAYLNG   79 (111)
T ss_dssp             HHHHHHHHHHH-SCBCHHHHHTSTTCCSCHHH------HHHHHHHHHHTTSEEECS------TTCEEECHHHHHHHTT
T ss_pred             HHHHHHHHHHc-CCCCHHHHHHHHhcCCCHHH------HHHHHHHHHHCCCEEecC------CceEEECchHHHHHHH
Confidence            45688888765 699999999999  888766      999999999999999876      4699999999754433

>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=97.06  E-value=0.00031  Score=59.98  Aligned_cols=65  Identities=15%  Similarity=0.269  Sum_probs=48.7

Q ss_pred             ceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHH-------HhhCC----C-C---CCeEEEEccCCC---CCC-CccE
Q 042491          194 RSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHV-------VATAP----V-Y---EGVSHVGGDMLN---AVP-NADA  253 (266)
Q Consensus       194 ~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v-------~~~a~----~-~---~ri~~~~gd~~~---~~p-~aD~  253 (266)
                      .+|||+|||.|..+..+++.  ..+++.+|. |.+       ++.++    . .   +||+++.+|..+   .++ .+|+
T Consensus        90 ~~VLDl~~G~G~dal~lA~~--g~~V~~vE~~~~~~~l~~~~l~~a~~~~~~~~~l~~~i~~~~~D~~~~L~~~~~~fDv  167 (258)
T 2oyr_A           90 PDVVDATAGLGRDAFVLASV--GCRVRMLERNPVVAALLDDGLARGYADAEIGGWLQERLQLIHASSLTALTDITPRPQV  167 (258)
T ss_dssp             CCEEETTCTTCHHHHHHHHH--TCCEEEEECCHHHHHHHHHHHHHHHHCTTTHHHHHHHEEEEESCHHHHSTTCSSCCSE
T ss_pred             CEEEEcCCcCCHHHHHHHHc--CCEEEEEECCHHHHHHHHHHHHHHHhhHhhhhhhhcCEEEEECCHHHHHHhCcccCCE
Confidence            79999999999999999998  458999998 433       32221    1 1   589999999876   244 4999


Q ss_pred             EEecccc
Q 042491          254 VFMKVIV  260 (266)
Q Consensus       254 ~~l~~vL  260 (266)
                      |++--..
T Consensus       168 V~lDP~y  174 (258)
T 2oyr_A          168 VYLDPMF  174 (258)
T ss_dssp             EEECCCC
T ss_pred             EEEcCCC
Confidence            9985443

>3mq0_A Transcriptional repressor of the blcabc operon; helix-turn-helix, GAF fold, transcription repressor; 1.79A {Agrobacterium tumefaciens}

Probab=96.99  E-value=0.00041  Score=59.69  Aligned_cols=57  Identities=11%  Similarity=0.177  Sum_probs=48.8

Q ss_pred             cChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhc
Q 042491           36 LRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQIS  104 (266)
Q Consensus        36 lglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s  104 (266)
                      +.|+++|...+.++|+.|||+++|++...      +.|+|+-|+..|++.+++      .++|++++..
T Consensus        33 l~IL~~l~~~~~~ltl~eia~~lgl~ksT------v~RlL~tL~~~G~v~~~~------~~~Y~LG~~~   89 (275)
T 3mq0_A           33 VRILDLVAGSPRDLTAAELTRFLDLPKSS------AHGLLAVMTELDLLARSA------DGTLRIGPHS   89 (275)
T ss_dssp             HHHHHHHHHCSSCEEHHHHHHHHTCC--C------HHHHHHHHHHTTSEEECT------TSEEEECTHH
T ss_pred             HHHHHHHhhCCCCCCHHHHHHHHCcCHHH------HHHHHHHHHHCCCEEECC------CCcEEehHHH
Confidence            56888888765689999999999999988      999999999999999987      4799999854

>3ll7_A Putative methyltransferase; methytransferase, structural genomics, MCSG, PSI-2, protein initiative; HET: MSE; 1.80A {Porphyromonas gingivalis}

Probab=96.99  E-value=0.00036  Score=63.48  Aligned_cols=63  Identities=17%  Similarity=0.337  Sum_probs=50.4

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC----C----CCeEEEEccCCCC---CC--CccEEEe
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV----Y----EGVSHVGGDMLNA---VP--NADAVFM  256 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~----~----~ri~~~~gd~~~~---~p--~aD~~~l  256 (266)
                      ...+|+|+|||+|..+..+++..  .+++.+|. |.+++.++.    .    ++|+++.+|+.+.   .+  .+|+|++
T Consensus        93 ~g~~VLDLgcG~G~~al~LA~~g--~~V~~VD~s~~~l~~Ar~N~~~~~~gl~~i~~i~~Da~~~L~~~~~~~fDvV~l  169 (410)
T 3ll7_A           93 EGTKVVDLTGGLGIDFIALMSKA--SQGIYIERNDETAVAARHNIPLLLNEGKDVNILTGDFKEYLPLIKTFHPDYIYV  169 (410)
T ss_dssp             TTCEEEESSCSSSHHHHHHHTTC--SEEEEEESCHHHHHHHHHHHHHHSCTTCEEEEEESCGGGSHHHHHHHCCSEEEE
T ss_pred             CCCEEEEeCCCchHHHHHHHhcC--CEEEEEECCHHHHHHHHHhHHHhccCCCcEEEEECcHHHhhhhccCCCceEEEE
Confidence            35899999999999999988874  58999998 666666543    1    5799999999883   22  4999987

>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=96.99  E-value=0.00096  Score=47.73  Aligned_cols=62  Identities=11%  Similarity=0.100  Sum_probs=52.1

Q ss_pred             HHHHHHHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhch
Q 042491           28 MALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISK  105 (266)
Q Consensus        28 ~~L~~a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~  105 (266)
                      .+|..-.++.|+..| .  ++.|+.|||+.+|+++..      +.+.|+.|...|++.+..       +.|++|+.++
T Consensus        26 ~~l~~~~r~~Il~~L-~--~~~~~~eLa~~l~is~~t------v~~~L~~L~~~Glv~~~~-------g~y~l~~~g~   87 (96)
T 1y0u_A           26 YAVTNPVRRKILRML-D--KGRSEEEIMQTLSLSKKQ------LDYHLKVLEAGFCIERVG-------ERWVVTDAGK   87 (96)
T ss_dssp             HHHSCHHHHHHHHHH-H--TTCCHHHHHHHHTCCHHH------HHHHHHHHHHTTSEEEET-------TEEEECTTTC
T ss_pred             HHhCCHHHHHHHHHH-c--CCCCHHHHHHHHCcCHHH------HHHHHHHHHHCCCEEEEC-------CEEEECCCch
Confidence            344455567788888 5  789999999999998766      999999999999999876       5999998764

>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=96.97  E-value=0.00026  Score=64.04  Aligned_cols=64  Identities=17%  Similarity=0.121  Sum_probs=51.3

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCCC------C-CccEEEe
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNAV------P-NADAVFM  256 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~~------p-~aD~~~l  256 (266)
                      +..+|||+|||+|.++..+++. +..+++.+|+ |.+++.+++       .++++++.+|+++..      + .+|++++
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            5679999999999999999987 4558999998 777766553       238999999988731      2 4999998

>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=96.96  E-value=0.00094  Score=64.30  Aligned_cols=97  Identities=16%  Similarity=0.158  Sum_probs=63.3

Q ss_pred             CcchhcccCchHHHHHHHHHHhhhHHHHHHHHhhcccCCCCCceEEEecCCchHHHHHHHHH----C---------CCCe
Q 042491          152 EMWDFASQNSQFNNSFNKAMACTAKIVMSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEF----Y---------PHIK  218 (266)
Q Consensus       152 ~~~~~~~~~~~~~~~f~~~m~~~~~~~~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~----~---------P~l~  218 (266)
                      ..|+.+.+|+-+-..|.+++...       +.+..+. -.+...|+|||||+|-+....+++    .         ...+
T Consensus       377 ~tYe~fekD~vRy~~Y~~AI~~a-------l~d~~~~-~~~~~VVldVGaGtGpLs~~al~A~~~a~~~~~~~~~~~~~k  448 (745)
T 3ua3_A          377 GVYNTFEQDQIKYDVYGEAVVGA-------LKDLGAD-GRKTVVIYLLGGGRGPIGTKILKSEREYNNTFRQGQESLKVK  448 (745)
T ss_dssp             HHHHHHHHCHHHHHHHHHHHHHH-------HHHHHTT-CCSEEEEEEESCTTCHHHHHHHHHHHHHHHHHSTTSCCCEEE
T ss_pred             HHHHHHcCChhhHHHHHHHHHHH-------HHHhhcc-cCCCcEEEEECCCCCHHHHHHHHHHHHhCccccccccccccE
Confidence            45778888888888888887543       2222221 124578999999999996432222    2         2347


Q ss_pred             EEEeec-HHHHhhCC-----C-CCCeEEEEccCCC-CC------CC-ccEEEe
Q 042491          219 GVNFDL-PHVVATAP-----V-YEGVSHVGGDMLN-AV------PN-ADAVFM  256 (266)
Q Consensus       219 ~~~~Dl-p~v~~~a~-----~-~~ri~~~~gd~~~-~~------p~-aD~~~l  256 (266)
                      +..+|- |.++...+     . .++|+++.||+.+ .+      |+ +|+++.
T Consensus       449 VyAVEknp~A~~~l~~~~~Ng~~d~VtVI~gd~eev~lp~~~~~~ekVDIIVS  501 (745)
T 3ua3_A          449 LYIVEKNPNAIVTLKYMNVRTWKRRVTIIESDMRSLPGIAKDRGFEQPDIIVS  501 (745)
T ss_dssp             EEEEECCHHHHHHHHHHHHHTTTTCSEEEESCGGGHHHHHHHTTCCCCSEEEE
T ss_pred             EEEEeCChHHHHHHHHHHhcCCCCeEEEEeCchhhcccccccCCCCcccEEEE
Confidence            778886 33332222     1 6899999999998 56      55 999874

>3bt7_A TRNA (uracil-5-)-methyltransferase; methyluridine, methyltransferase, TRMA, RUMT; HET: 5MU; 2.43A {Escherichia coli}

Probab=96.94  E-value=0.00079  Score=60.28  Aligned_cols=52  Identities=13%  Similarity=0.125  Sum_probs=42.2

Q ss_pred             CceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCC
Q 042491          193 IRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLN  246 (266)
Q Consensus       193 ~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~  246 (266)
                      ..+|+|+|||+|.++..+++..  -+++.+|. |++++.+++      .++++++.+|..+
T Consensus       214 ~~~vLDl~cG~G~~~l~la~~~--~~V~gvd~~~~ai~~a~~n~~~ng~~~v~~~~~d~~~  272 (369)
T 3bt7_A          214 KGDLLELYCGNGNFSLALARNF--DRVLATEIAKPSVAAAQYNIAANHIDNVQIIRMAAEE  272 (369)
T ss_dssp             CSEEEEESCTTSHHHHHHGGGS--SEEEEECCCHHHHHHHHHHHHHTTCCSEEEECCCSHH
T ss_pred             CCEEEEccCCCCHHHHHHHhcC--CEEEEEECCHHHHHHHHHHHHHcCCCceEEEECCHHH
Confidence            3689999999999999988754  47899998 777776653      3689999999876

>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=96.94  E-value=0.0017  Score=49.41  Aligned_cols=96  Identities=15%  Similarity=0.132  Sum_probs=60.1

Q ss_pred             chHHhhHHHHHHHHHHHhHHHHHHHH-----HHHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhc
Q 042491            6 VREDVLRGQAQVWQLMFAFADSMALK-----SAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVR   80 (266)
Q Consensus         6 ~~~~~~~~~~~l~~~~~g~~~~~~L~-----~a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~   80 (266)
                      .++++......+...+........-.     ...++.|+..|... +++|..+||+.+++++..      +.++++-|..
T Consensus         5 ~~~~l~~~l~~~~~~~~~~~~~~l~~~~~~lt~~~~~vL~~l~~~-~~~t~~eLa~~l~~~~~t------vs~~l~~L~~   77 (142)
T 3ech_A            5 VNPDLMPALMAVFQHVRTRIQSELDCQRLDLTPPDVHVLKLIDEQ-RGLNLQDLGRQMCRDKAL------ITRKIRELEG   77 (142)
T ss_dssp             CCTTHHHHHHHHHHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHT-TTCCHHHHHHHHC---CH------HHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHhhccCCCCHHHHHHHHHHHhC-CCcCHHHHHHHhCCCHHH------HHHHHHHHHH
Confidence            34455555555555554333332222     24567788888875 689999999999999887      9999999999


Q ss_pred             cCcccccccCCCCCCceEeCchhchhhh
Q 042491           81 KGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        81 ~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      .|++.+....++...-.+.+|+.++.+.
T Consensus        78 ~Glv~r~~~~~DrR~~~~~LT~~G~~~~  105 (142)
T 3ech_A           78 RNLVRRERNPSDQRSFQLFLTDEGLAIH  105 (142)
T ss_dssp             TTSEEC----------CCEECHHHHHHH
T ss_pred             CCCEeeccCCCCCCeeeeEECHHHHHHH
Confidence            9999987621111123478999887544

>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=96.94  E-value=0.00079  Score=61.82  Aligned_cols=69  Identities=20%  Similarity=0.168  Sum_probs=52.4

Q ss_pred             CCCceEEEecCCchHHHHHHHHHC-------------CCCeEEEeec-HHHHhhCCC------C--CCeEEEEccCCCC-
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFY-------------PHIKGVNFDL-PHVVATAPV------Y--EGVSHVGGDMLNA-  247 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~-------------P~l~~~~~Dl-p~v~~~a~~------~--~ri~~~~gd~~~~-  247 (266)
                      ....+|+|+|||+|.++..+.+..             +..+++++|+ |.++..++.      .  .++.++.+|.+.. 
T Consensus       170 ~~~~~VlDpacGsG~fl~~~~~~l~~~~~~~~~~~~~~~~~i~G~Ei~~~~~~lA~~nl~l~g~~~~~~~i~~gD~l~~~  249 (445)
T 2okc_A          170 QMGETVCDPACGTGGFLLTAYDYMKGQSASKEKRDFLRDKALHGVDNTPLVVTLASMNLYLHGIGTDRSPIVCEDSLEKE  249 (445)
T ss_dssp             CTTCCEEETTCTTCHHHHHHHHHHHTCC-CCHHHHHHHHTTEEEEESCHHHHHHHHHHHHHTTCCSSCCSEEECCTTTSC
T ss_pred             CCCCEEeccCCCcchHHHHHHHHHHHhcCCHHHHHhhcCeEEEEEeCCHHHHHHHHHHHHHhCCCcCCCCEeeCCCCCCc
Confidence            345699999999999999988764             5578999998 666665442      2  2788999999983 


Q ss_pred             CC-CccEEEeccc
Q 042491          248 VP-NADAVFMKVI  259 (266)
Q Consensus       248 ~p-~aD~~~l~~v  259 (266)
                      .+ .+|+|+..--
T Consensus       250 ~~~~fD~Iv~NPP  262 (445)
T 2okc_A          250 PSTLVDVILANPP  262 (445)
T ss_dssp             CSSCEEEEEECCC
T ss_pred             ccCCcCEEEECCC
Confidence            33 5999987643

>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=96.92  E-value=0.0013  Score=60.07  Aligned_cols=67  Identities=15%  Similarity=0.162  Sum_probs=52.9

Q ss_pred             CCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-----CCCeEEEEccCCCC---CC--CccEEEe
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-----YEGVSHVGGDMLNA---VP--NADAVFM  256 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-----~~ri~~~~gd~~~~---~p--~aD~~~l  256 (266)
                      .....+|||+|||+|..+..+++..|+.+++.+|. +..++.+++     .-+++++.+|+.+.   ++  .+|+|++
T Consensus       244 ~~~g~~VLDlgaG~G~~t~~la~~~~~~~v~a~D~~~~~l~~~~~~~~~~g~~~~~~~~D~~~~~~~~~~~~fD~Vl~  321 (429)
T 1sqg_A          244 PQNGEHILDLCAAPGGKTTHILEVAPEAQVVAVDIDEQRLSRVYDNLKRLGMKATVKQGDGRYPSQWCGEQQFDRILL  321 (429)
T ss_dssp             CCTTCEEEEESCTTCHHHHHHHHHCTTCEEEEEESSTTTHHHHHHHHHHTTCCCEEEECCTTCTHHHHTTCCEEEEEE
T ss_pred             CCCcCeEEEECCCchHHHHHHHHHcCCCEEEEECCCHHHHHHHHHHHHHcCCCeEEEeCchhhchhhcccCCCCEEEE
Confidence            34567999999999999999999999989999998 444444332     23589999999873   44  3999996

>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=96.88  E-value=0.0014  Score=56.42  Aligned_cols=74  Identities=20%  Similarity=0.222  Sum_probs=57.3

Q ss_pred             HHHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC--CCCeEEEEccCCC-C--C----
Q 042491          179 MSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV--YEGVSHVGGDMLN-A--V----  248 (266)
Q Consensus       179 ~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~--~~ri~~~~gd~~~-~--~----  248 (266)
                      ...+++.+.  ......+||.+||.|.++..|+++  +.+++++|. |.+++.+++  .+|++++.+||-+ +  +    
T Consensus        11 l~e~le~L~--~~~gg~~VD~T~G~GGHS~~il~~--~g~VigiD~Dp~Ai~~A~~L~~~rv~lv~~~f~~l~~~L~~~g   86 (285)
T 1wg8_A           11 YQEALDLLA--VRPGGVYVDATLGGAGHARGILER--GGRVIGLDQDPEAVARAKGLHLPGLTVVQGNFRHLKRHLAALG   86 (285)
T ss_dssp             HHHHHHHHT--CCTTCEEEETTCTTSHHHHHHHHT--TCEEEEEESCHHHHHHHHHTCCTTEEEEESCGGGHHHHHHHTT
T ss_pred             HHHHHHhhC--CCCCCEEEEeCCCCcHHHHHHHHC--CCEEEEEeCCHHHHHHHHhhccCCEEEEECCcchHHHHHHHcC
Confidence            345666665  556689999999999999999998  779999998 667654432  2699999999976 2  2    


Q ss_pred             -CCccEEEe
Q 042491          249 -PNADAVFM  256 (266)
Q Consensus       249 -p~aD~~~l  256 (266)
                       ..+|.+++
T Consensus        87 ~~~vDgIL~   95 (285)
T 1wg8_A           87 VERVDGILA   95 (285)
T ss_dssp             CSCEEEEEE
T ss_pred             CCCcCEEEe
Confidence             24888876

>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=96.85  E-value=0.00036  Score=62.77  Aligned_cols=63  Identities=14%  Similarity=0.044  Sum_probs=51.0

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCCCC------C-CccEEEe
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLNAV------P-NADAVFM  256 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~~~------p-~aD~~~l  256 (266)
                      +..+|||+|||+|.++..+++.  ..+++++|. |..++.+++      .++++++.+|.++..      + .+|++++
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            5579999999999999999998  568999998 777776653      245999999988731      3 4999998

>3c0k_A UPF0064 protein YCCW; PUA domain, adoMet dependent methyltransferase fold; 2.00A {Escherichia coli K12}

Probab=96.82  E-value=0.00039  Score=62.83  Aligned_cols=65  Identities=14%  Similarity=0.061  Sum_probs=51.5

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------C-C-CeEEEEccCCCCC------C-CccEEE
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------Y-E-GVSHVGGDMLNAV------P-NADAVF  255 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~-~-ri~~~~gd~~~~~------p-~aD~~~  255 (266)
                      +..+|||+|||+|.++..+++.. ..+++.+|+ |..++.+++      . + +++++.+|.++..      + .+|+++
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            45799999999999999999875 458999998 677766553      2 3 8999999988732      2 499998


Q ss_pred             ec
Q 042491          256 MK  257 (266)
Q Consensus       256 l~  257 (266)
                      +.
T Consensus       299 ~d  300 (396)
T 3c0k_A          299 MD  300 (396)
T ss_dssp             EC
T ss_pred             EC
Confidence            84

>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=96.77  E-value=0.0006  Score=47.28  Aligned_cols=61  Identities=16%  Similarity=0.221  Sum_probs=49.9

Q ss_pred             hcChhhHhhhCCCCCCHHHHHhhcCCCCC-CCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchh
Q 042491           35 ELRLADIMHCHGSPITLPQLASGINSSCP-DVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKW  106 (266)
Q Consensus        35 elglfd~L~~~g~~~t~~eLA~~~g~~~~-~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~  106 (266)
                      +-.|.+.|... ++.|+.+||+.+|+... .      +.+.|..|...|++...+.    |...|++|+.++.
T Consensus        13 ~~~IL~~Lk~~-g~~ta~eiA~~Lgit~~~a------Vr~hL~~Le~eGlV~~~~~----gRP~w~LT~~g~~   74 (79)
T 1xmk_A           13 KEKICDYLFNV-SDSSALNLAKNIGLTKARD------INAVLIDMERQGDVYRQGT----TPPIWHLTDKKRE   74 (79)
T ss_dssp             HHHHHHHHHHT-CCEEHHHHHHHHCGGGHHH------HHHHHHHHHHTTSEEEECS----SSCEEEECHHHHT
T ss_pred             HHHHHHHHHHc-CCcCHHHHHHHcCCCcHHH------HHHHHHHHHHCCCEEecCC----CCCCeEeCHhHHh
Confidence            44566777775 79999999999999986 6      9999999999999986652    3458999998753

>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=96.63  E-value=0.0014  Score=60.65  Aligned_cols=66  Identities=8%  Similarity=-0.047  Sum_probs=52.6

Q ss_pred             CCCCceEEEecCCchHHHHHHHHHCCC-CeEEEeec-HHHHhhCCC------CCCeEEEEccCCC-C--CCC-ccEEEe
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEFYPH-IKGVNFDL-PHVVATAPV------YEGVSHVGGDMLN-A--VPN-ADAVFM  256 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~~P~-l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~-~--~p~-aD~~~l  256 (266)
                      .....+|||+|||+|..+..+++..++ .+++.+|+ +..++.+++      .. |+++.+|..+ +  .++ +|+|++
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            345679999999999999999999876 68999998 666665543      34 9999999876 2  344 999996

>2frx_A Hypothetical protein YEBU; rossmann-type S-adenosylmethionine-dependent methyltransfera domain; 2.90A {Escherichia coli}

Probab=96.60  E-value=0.0034  Score=58.28  Aligned_cols=65  Identities=17%  Similarity=0.160  Sum_probs=52.6

Q ss_pred             CCceEEEecCCchHHHHHHHHHCC-CCeEEEeec-HHHHhhCCC------CCCeEEEEccCCC-C--CCC-ccEEEe
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYP-HIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLN-A--VPN-ADAVFM  256 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P-~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~-~--~p~-aD~~~l  256 (266)
                      ...+|||+|||+|..+..+++..+ ..+++.+|+ +..++.+++      ..+|+++.+|..+ +  .++ +|+|++
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            557999999999999999999976 478999998 666655543      3579999999987 2  444 999997

>4dmg_A Putative uncharacterized protein TTHA1493; rRNA, methyltransferase, S-adenosyl-methionine, 23S ribosoma transferase; HET: SAM; 1.70A {Thermus thermophilus}

Probab=96.59  E-value=0.0018  Score=58.63  Aligned_cols=63  Identities=13%  Similarity=-0.002  Sum_probs=47.5

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-----CCCeEEEEccCCCC---CC-CccEEEe
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-----YEGVSHVGGDMLNA---VP-NADAVFM  256 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-----~~ri~~~~gd~~~~---~p-~aD~~~l  256 (266)
                      ...+|||+|||+|.++..+++...  +++.+|+ |.+++.+++     .-..++..+|.++.   .+ .+|+|++
T Consensus       214 ~g~~VLDlg~GtG~~sl~~a~~ga--~V~avDis~~al~~a~~n~~~ng~~~~~~~~D~~~~l~~~~~~fD~Ii~  286 (393)
T 4dmg_A          214 PGERVLDVYSYVGGFALRAARKGA--YALAVDKDLEALGVLDQAALRLGLRVDIRHGEALPTLRGLEGPFHHVLL  286 (393)
T ss_dssp             TTCEEEEESCTTTHHHHHHHHTTC--EEEEEESCHHHHHHHHHHHHHHTCCCEEEESCHHHHHHTCCCCEEEEEE
T ss_pred             CCCeEEEcccchhHHHHHHHHcCC--eEEEEECCHHHHHHHHHHHHHhCCCCcEEEccHHHHHHHhcCCCCEEEE
Confidence            368999999999999999999744  4899998 667766553     11235668998873   23 3999987

>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=96.55  E-value=0.0016  Score=47.03  Aligned_cols=65  Identities=22%  Similarity=0.346  Sum_probs=49.7

Q ss_pred             HHHHHHHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchh
Q 042491           28 MALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQI  103 (266)
Q Consensus        28 ~~L~~a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~  103 (266)
                      .+|.--.++.|+..|..  ++.|+.|||+.+|+++..      +.+.|+.|...|++.....   .....|++|+.
T Consensus        18 ~~l~~~~r~~Il~~L~~--~~~~~~ela~~l~is~~t------vs~~L~~L~~~Glv~~~~~---g~~~~y~l~~~   82 (102)
T 3pqk_A           18 KTLSHPVRLMLVCTLVE--GEFSVGELEQQIGIGQPT------LSQQLGVLRESGIVETRRN---IKQIFYRLTEA   82 (102)
T ss_dssp             HHHCSHHHHHHHHHHHT--CCBCHHHHHHHHTCCTTH------HHHHHHHHHHTTSEEEECS---SSCCEEEECSS
T ss_pred             HHcCCHHHHHHHHHHHh--CCCCHHHHHHHHCcCHHH------HHHHHHHHHHCCCeEEEEe---CCEEEEEECcH
Confidence            34444456667777865  789999999999999887      9999999999999987652   01235777763

>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=96.46  E-value=0.0013  Score=45.88  Aligned_cols=65  Identities=14%  Similarity=0.264  Sum_probs=47.5

Q ss_pred             HhcChhhHhhhCC--CCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           34 VELRLADIMHCHG--SPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        34 ~elglfd~L~~~g--~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      .+..|++.|..++  .++|+.|||+++|++...      +.+.|.-|...|++...+.    .++.|.+.+....+.
T Consensus        11 ~~~~IL~~L~~~~pg~~~t~~eLA~~Lgvsr~t------V~~~L~~Le~~G~I~~~g~----~~~~W~i~~~~~~~~   77 (81)
T 1qbj_A           11 QEQRILKFLEELGEGKATTAHDLSGKLGTPKKE------INRVLYSLAKKGKLQKEAG----TPPLWKIAVSTQAWN   77 (81)
T ss_dssp             HHHHHHHHHHHHCTTCCBCHHHHHHHHTCCHHH------HHHHHHHHHHTTSEEEESS----SSCEEEEC-------
T ss_pred             HHHHHHHHHHHcCCCCCcCHHHHHHHHCcCHHH------HHHHHHHHHHCCCEEecCC----CCCeeEEeCcHHhcc
Confidence            3556778887652  379999999999999776      9999999999999988763    257898888665444

>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=96.46  E-value=0.0034  Score=54.37  Aligned_cols=60  Identities=20%  Similarity=0.249  Sum_probs=45.8

Q ss_pred             CCCCceEEEecC------CchHHHHHHHHHCC-CCeEEEeecHHHHhhCCCCCCeEE-EEccCCC-CCCC-ccEEEec
Q 042491          190 FDGIRSLVDVGG------GTGEELAEIVEFYP-HIKGVNFDLPHVVATAPVYEGVSH-VGGDMLN-AVPN-ADAVFMK  257 (266)
Q Consensus       190 ~~~~~~vvDvGg------G~G~~~~~l~~~~P-~l~~~~~Dlp~v~~~a~~~~ri~~-~~gd~~~-~~p~-aD~~~l~  257 (266)
                      +....+|||+||      |+|.  ..+++..| +.+++.+|+.+.+      +++++ +.+|+.+ ++++ +|+|+..
T Consensus        61 l~~g~~VLDLGcGsg~~~GpGs--~~~a~~~~~~~~V~gvDis~~v------~~v~~~i~gD~~~~~~~~~fD~Vvsn  130 (290)
T 2xyq_A           61 VPYNMRVIHFGAGSDKGVAPGT--AVLRQWLPTGTLLVDSDLNDFV------SDADSTLIGDCATVHTANKWDLIISD  130 (290)
T ss_dssp             CCTTCEEEEESCCCTTSBCHHH--HHHHHHSCTTCEEEEEESSCCB------CSSSEEEESCGGGCCCSSCEEEEEEC
T ss_pred             CCCCCEEEEeCCCCCCCCCcHH--HHHHHHcCCCCEEEEEECCCCC------CCCEEEEECccccCCccCcccEEEEc
Confidence            456679999999      4477  45567777 6899999985441      47899 9999988 4554 9999974

>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=96.44  E-value=0.0067  Score=52.97  Aligned_cols=67  Identities=13%  Similarity=0.166  Sum_probs=52.0

Q ss_pred             CCCCceEEEecCCchHHHHHHHHHC-CCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCCC---C---CCccEEE
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEFY-PHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLNA---V---PNADAVF  255 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~~-P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~~---~---p~aD~~~  255 (266)
                      .....+|||+|||+|..+..+++.. +.-+++.+|+ +..++.+++      ..+|+++.+|+.+-   .   ..+|.|+
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            3456799999999999999999985 5678999998 555555443      36799999998762   2   2489998


Q ss_pred             e
Q 042491          256 M  256 (266)
Q Consensus       256 l  256 (266)
                      +
T Consensus       180 ~  180 (309)
T 2b9e_A          180 L  180 (309)
T ss_dssp             E
T ss_pred             E
Confidence            6

>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=96.41  E-value=0.0018  Score=58.28  Aligned_cols=64  Identities=9%  Similarity=-0.098  Sum_probs=50.5

Q ss_pred             CceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC----C-----------------CCeEEEEccCCCC---
Q 042491          193 IRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV----Y-----------------EGVSHVGGDMLNA---  247 (266)
Q Consensus       193 ~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~----~-----------------~ri~~~~gd~~~~---  247 (266)
                      ..+|||+|||+|..+..++++.|..+++..|+ |+.++.+++    .                 ++++++.+|..+.   
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            46999999999999999999999889999998 666554432    1                 2388999998762   


Q ss_pred             CC-CccEEEe
Q 042491          248 VP-NADAVFM  256 (266)
Q Consensus       248 ~p-~aD~~~l  256 (266)
                      .+ .+|+|++
T Consensus       128 ~~~~fD~I~l  137 (378)
T 2dul_A          128 RHRYFHFIDL  137 (378)
T ss_dssp             STTCEEEEEE
T ss_pred             ccCCCCEEEe
Confidence            33 4899885

>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=96.41  E-value=0.0053  Score=51.28  Aligned_cols=38  Identities=16%  Similarity=0.152  Sum_probs=30.8

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhh
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVAT  230 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~  230 (266)
                      ...+|||||||+|.++..+++. +..+++++|+ +.+++.
T Consensus        37 ~g~~VLDiGcGtG~~t~~la~~-g~~~V~gvDis~~ml~~   75 (232)
T 3opn_A           37 NGKTCLDIGSSTGGFTDVMLQN-GAKLVYALDVGTNQLAW   75 (232)
T ss_dssp             TTCEEEEETCTTSHHHHHHHHT-TCSEEEEECSSCCCCCH
T ss_pred             CCCEEEEEccCCCHHHHHHHhc-CCCEEEEEcCCHHHHHH
Confidence            4569999999999999999988 3348999998 555544

>3m4x_A NOL1/NOP2/SUN family protein; mtase domain, PUA domain, RRM motif, transferase; 2.28A {Enterococcus faecium}

Probab=96.40  E-value=0.0019  Score=59.54  Aligned_cols=67  Identities=7%  Similarity=0.024  Sum_probs=52.6

Q ss_pred             CCCCceEEEecCCchHHHHHHHHHCCC-CeEEEeec-HHHHhhCCC------CCCeEEEEccCCC-C--CCC-ccEEEe
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEFYPH-IKGVNFDL-PHVVATAPV------YEGVSHVGGDMLN-A--VPN-ADAVFM  256 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~~P~-l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~-~--~p~-aD~~~l  256 (266)
                      .....+|||+|||+|..+..+++..++ .+++.+|+ +..++.+++      ..+|.++.+|..+ +  .++ +|+|++
T Consensus       103 ~~~g~~VLDlcaGpGgkt~~lA~~~~~~g~V~AvDis~~rl~~~~~n~~r~g~~nv~v~~~Da~~l~~~~~~~FD~Il~  181 (456)
T 3m4x_A          103 AKPGEKVLDLCAAPGGKSTQLAAQMKGKGLLVTNEIFPKRAKILSENIERWGVSNAIVTNHAPAELVPHFSGFFDRIVV  181 (456)
T ss_dssp             CCTTCEEEESSCTTCHHHHHHHHHHTTCSEEEEECSSHHHHHHHHHHHHHHTCSSEEEECCCHHHHHHHHTTCEEEEEE
T ss_pred             CCCCCEEEEECCCcCHHHHHHHHHcCCCCEEEEEeCCHHHHHHHHHHHHHcCCCceEEEeCCHHHhhhhccccCCEEEE
Confidence            345679999999999999999998765 68999998 556655443      4579999999876 2  444 999987

>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=96.38  E-value=0.0018  Score=62.90  Aligned_cols=64  Identities=13%  Similarity=0.028  Sum_probs=50.3

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------C-CCeEEEEccCCCC---CC-CccEEEe
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------Y-EGVSHVGGDMLNA---VP-NADAVFM  256 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~-~ri~~~~gd~~~~---~p-~aD~~~l  256 (266)
                      ...+|||+|||+|.++..+++... .+++.+|+ +.+++.+++       . ++++++.+|.++.   .+ .||+|++
T Consensus       539 ~g~~VLDlg~GtG~~sl~aa~~ga-~~V~aVD~s~~al~~a~~N~~~ngl~~~~v~~i~~D~~~~l~~~~~~fD~Ii~  615 (703)
T 3v97_A          539 KGKDFLNLFSYTGSATVHAGLGGA-RSTTTVDMSRTYLEWAERNLRLNGLTGRAHRLIQADCLAWLREANEQFDLIFI  615 (703)
T ss_dssp             TTCEEEEESCTTCHHHHHHHHTTC-SEEEEEESCHHHHHHHHHHHHHTTCCSTTEEEEESCHHHHHHHCCCCEEEEEE
T ss_pred             CCCcEEEeeechhHHHHHHHHCCC-CEEEEEeCCHHHHHHHHHHHHHcCCCccceEEEecCHHHHHHhcCCCccEEEE
Confidence            347999999999999999988543 46999998 666665553       2 5899999999883   23 3999997

>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=96.38  E-value=0.00058  Score=58.25  Aligned_cols=58  Identities=19%  Similarity=0.166  Sum_probs=49.3

Q ss_pred             cChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhc
Q 042491           36 LRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQIS  104 (266)
Q Consensus        36 lglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s  104 (266)
                      +.|+++|...++++|..|||+++|++...      +.|+|+-|+..|++.++..     .++|++++..
T Consensus         9 l~IL~~l~~~~~~lsl~eia~~lgl~ksT------~~RlL~tL~~~G~v~~~~~-----~~~Y~lG~~~   66 (260)
T 3r4k_A            9 LTLLTYFNHGRLEIGLSDLTRLSGMNKAT------VYRLMSELQEAGFVEQVEG-----ARSYRLGPQV   66 (260)
T ss_dssp             HHHHTTCBTTBSEEEHHHHHHHHCSCHHH------HHHHHHHHHHTTSEEECSS-----SSEEEECTTH
T ss_pred             HHHHHHHhhCCCCCCHHHHHHHHCcCHHH------HHHHHHHHHHCCCEEEcCC-----CCcEEcCHHH
Confidence            45778887644789999999999999766      9999999999999999873     3899999854

>4auk_A Ribosomal RNA large subunit methyltransferase M; YGDE; HET: TLA PGE; 1.90A {Escherichia coli} PDB: 4atn_A* 4b17_A*

Probab=96.34  E-value=0.0042  Score=55.51  Aligned_cols=68  Identities=15%  Similarity=0.082  Sum_probs=53.1

Q ss_pred             CCCCceEEEecCCchHHHHHHHHHCCCCeEEEeecHHHHhhCCCCCCeEEEEccCCCCCC---CccEEEeccc
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPVYEGVSHVGGDMLNAVP---NADAVFMKVI  259 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~a~~~~ri~~~~gd~~~~~p---~aD~~~l~~v  259 (266)
                      +....++||+|++.|.+...++++  +.+++.+|.-++-......++|+++.+|.++..|   .+|++++=.+
T Consensus       209 l~~G~~vlDLGAaPGGWT~~l~~r--g~~V~aVD~~~l~~~l~~~~~V~~~~~d~~~~~~~~~~~D~vvsDm~  279 (375)
T 4auk_A          209 LANGMWAVDLGACPGGWTYQLVKR--NMWVYSVDNGPMAQSLMDTGQVTWLREDGFKFRPTRSNISWMVCDMV  279 (375)
T ss_dssp             SCTTCEEEEETCTTCHHHHHHHHT--TCEEEEECSSCCCHHHHTTTCEEEECSCTTTCCCCSSCEEEEEECCS
T ss_pred             CCCCCEEEEeCcCCCHHHHHHHHC--CCEEEEEEhhhcChhhccCCCeEEEeCccccccCCCCCcCEEEEcCC
Confidence            456789999999999999999988  5799999974443333346899999999999433   3898876443

>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=96.31  E-value=0.002  Score=47.13  Aligned_cols=63  Identities=17%  Similarity=0.151  Sum_probs=48.0

Q ss_pred             hhhHhhhCCCCCCHHHHHhhc-CCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           38 LADIMHCHGSPITLPQLASGI-NSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        38 lfd~L~~~g~~~t~~eLA~~~-g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      |+..|..  ++.+..||++.+ |+++..      +.+.|+-|...|++.+....++...-.|.+|+.++.+.
T Consensus        19 IL~~L~~--~~~~~~eLa~~l~~is~~t------ls~~L~~Le~~GlI~r~~~~~d~r~~~y~LT~~G~~l~   82 (107)
T 2hzt_A           19 ILXHLTH--GKKRTSELKRLMPNITQKM------LTQQLRELEADGVINRIVYNQVPPKVEYELSEYGRSLE   82 (107)
T ss_dssp             HHHHHTT--CCBCHHHHHHHCTTSCHHH------HHHHHHHHHHTTSEEEEEECSSSCEEEEEECTTGGGGH
T ss_pred             HHHHHHh--CCCCHHHHHHHhcCCCHHH------HHHHHHHHHHCCCEEEeecCCCCCeEEEEECccHHHHH
Confidence            4445553  789999999999 999776      99999999999999987632111224699999886544

>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=96.30  E-value=0.0015  Score=55.18  Aligned_cols=57  Identities=16%  Similarity=0.240  Sum_probs=48.3

Q ss_pred             cChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhc
Q 042491           36 LRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQIS  104 (266)
Q Consensus        36 lglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s  104 (266)
                      +.|++.|...++++|..|||+.+|++...      +.|+|+.|...|++.+..      .++|++++..
T Consensus        11 l~iL~~l~~~~~~~~~~ela~~~gl~~st------v~r~l~~L~~~G~v~~~~------~~~Y~lg~~~   67 (249)
T 1mkm_A           11 FEILDFIVKNPGDVSVSEIAEKFNMSVSN------AYKYMVVLEEKGFVLRKK------DKRYVPGYKL   67 (249)
T ss_dssp             HHHHHHHHHCSSCBCHHHHHHHTTCCHHH------HHHHHHHHHHTTSEEECT------TSCEEECTHH
T ss_pred             HHHHHHHHhCCCCCCHHHHHHHHCcCHHH------HHHHHHHHHHCCcEEECC------CCcEEECHHH
Confidence            45777887654589999999999998766      999999999999999884      4899998854

>2ld4_A Anamorsin; methyltransferase-like fold, alpha/beta fold, iron-sulfur PR biogenesis, apoptosis; NMR {Homo sapiens} PDB: 2yui_A

Probab=96.29  E-value=0.0017  Score=51.23  Aligned_cols=58  Identities=5%  Similarity=-0.089  Sum_probs=44.8

Q ss_pred             CCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC--CCCeEEEEccCCC-CC---C-C-ccEEEecccc
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV--YEGVSHVGGDMLN-AV---P-N-ADAVFMKVIV  260 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~--~~ri~~~~gd~~~-~~---p-~-aD~~~l~~vL  260 (266)
                      .....+|+|||||.                +.+|. +.+++.+++  ..+++++.+|+.+ +.   + + +|+|++..+|
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            45678999999996                23676 667776654  3469999999987 44   4 3 9999999999


Q ss_pred             ccC
Q 042491          261 LIQ  263 (266)
Q Consensus       261 Hd~  263 (266)
                      |..
T Consensus        74 ~~~   76 (176)
T 2ld4_A           74 GST   76 (176)
T ss_dssp             TCC
T ss_pred             hhc
Confidence            987

>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=96.29  E-value=0.0011  Score=45.83  Aligned_cols=58  Identities=16%  Similarity=0.339  Sum_probs=47.2

Q ss_pred             hcChhhHhhhCC--CCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCch
Q 042491           35 ELRLADIMHCHG--SPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQ  102 (266)
Q Consensus        35 elglfd~L~~~g--~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~  102 (266)
                      +..|++.|...+  +++|+.|||+++|++...      +.+.|.-|...|++...+.    .++.|.+++
T Consensus        16 ~~~IL~~L~~~~~~~~~t~~eLA~~Lgvs~~t------V~~~L~~L~~~G~I~~~g~----~~~~W~i~~   75 (77)
T 1qgp_A           16 EQRILKFLEELGEGKATTAHDLSGKLGTPKKE------INRVLYSLAKKGKLQKEAG----TPPLWKIAV   75 (77)
T ss_dssp             HHHHHHHHHHHCSSSCEEHHHHHHHHCCCHHH------HHHHHHHHHHHTSEEEECS----SSCEEEECC
T ss_pred             HHHHHHHHHHcCCCCCcCHHHHHHHHCcCHHH------HHHHHHHHHHCCCEEecCC----CCCceEecC
Confidence            566778887752  379999999999999766      9999999999999988762    257787765

>3tka_A Ribosomal RNA small subunit methyltransferase H; HET: SAM CTN PG4; 2.25A {Escherichia coli}

Probab=96.28  E-value=0.011  Score=52.21  Aligned_cols=75  Identities=15%  Similarity=0.148  Sum_probs=59.4

Q ss_pred             HHHHhhcccCCCCCceEEEecCCchHHHHHHHHHC-CCCeEEEeec-HHHHhhCCC--CCCeEEEEccCCC-C-------
Q 042491          180 STLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFY-PHIKGVNFDL-PHVVATAPV--YEGVSHVGGDMLN-A-------  247 (266)
Q Consensus       180 ~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~-P~l~~~~~Dl-p~v~~~a~~--~~ri~~~~gd~~~-~-------  247 (266)
                      ..+++.+.  ......+||..+|.|..+..|+++. |+.+++++|. |++++.++.  .+|++++.++|-+ .       
T Consensus        47 ~Evl~~L~--i~pggiyVD~TlG~GGHS~~iL~~lg~~GrVig~D~Dp~Al~~A~rL~~~Rv~lv~~nF~~l~~~L~~~g  124 (347)
T 3tka_A           47 DEAVNGLN--IRPDGIYIDGTFGRGGHSRLILSQLGEEGRLLAIDRDPQAIAVAKTIDDPRFSIIHGPFSALGEYVAERD  124 (347)
T ss_dssp             HHHHHHTC--CCTTCEEEESCCTTSHHHHHHHTTCCTTCEEEEEESCHHHHHHHTTCCCTTEEEEESCGGGHHHHHHHTT
T ss_pred             HHHHHhhC--CCCCCEEEEeCcCCCHHHHHHHHhCCCCCEEEEEECCHHHHHHHHhhcCCcEEEEeCCHHHHHHHHHhcC
Confidence            45666665  5566899999999999999999985 8899999998 777776644  5799999999876 1       


Q ss_pred             CC-CccEEEe
Q 042491          248 VP-NADAVFM  256 (266)
Q Consensus       248 ~p-~aD~~~l  256 (266)
                      ++ .+|.+++
T Consensus       125 ~~~~vDgILf  134 (347)
T 3tka_A          125 LIGKIDGILL  134 (347)
T ss_dssp             CTTCEEEEEE
T ss_pred             CCCcccEEEE
Confidence            22 3777765

>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=96.26  E-value=0.0013  Score=55.27  Aligned_cols=60  Identities=13%  Similarity=0.122  Sum_probs=49.5

Q ss_pred             cChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchh
Q 042491           36 LRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKW  106 (266)
Q Consensus        36 lglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~  106 (266)
                      +.|++.|...++++|..|||+.+|++...      +.|+|+.|...|++.+...     .++|++++....
T Consensus         9 l~iL~~l~~~~~~~s~~ela~~~gl~~st------v~r~l~~L~~~G~v~~~~~-----~~~Y~lg~~~~~   68 (241)
T 2xrn_A            9 ASIMRALGSHPHGLSLAAIAQLVGLPRST------VQRIINALEEEFLVEALGP-----AGGFRLGPALGQ   68 (241)
T ss_dssp             HHHHHHHHTCTTCEEHHHHHHHTTSCHHH------HHHHHHHHHTTTSEEECGG-----GCEEEECSHHHH
T ss_pred             HHHHHHHHhCCCCCCHHHHHHHHCcCHHH------HHHHHHHHHHCCCEEEeCC-----CCeEEECHHHHH
Confidence            45777787644589999999999998766      9999999999999999762     378999986543

>2oqg_A Possible transcriptional regulator, ARSR family P; winged-helix-turn-helix, structural genomics, PSI-2, protein structure initiative; 1.54A {Rhodococcus SP}

Probab=96.24  E-value=0.0012  Score=48.56  Aligned_cols=63  Identities=11%  Similarity=0.123  Sum_probs=48.5

Q ss_pred             HHHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhch
Q 042491           32 SAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISK  105 (266)
Q Consensus        32 ~a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~  105 (266)
                      .-.++.|+..|..  ++.|..|||+.+|+++..      +.+.|+.|...|++......   ....|++|+.+.
T Consensus        20 ~~~r~~IL~~L~~--~~~~~~ela~~l~is~~t------v~~~l~~L~~~gli~~~~~g---r~~~y~l~~~~~   82 (114)
T 2oqg_A           20 DETRWEILTELGR--ADQSASSLATRLPVSRQA------IAKHLNALQACGLVESVKVG---REIRYRALGAEL   82 (114)
T ss_dssp             CHHHHHHHHHHHH--SCBCHHHHHHHSSSCHHH------HHHHHHHHHHTTSEEEEEET---TEEEEEECSHHH
T ss_pred             ChHHHHHHHHHHc--CCCCHHHHHHHHCcCHHH------HHHHHHHHHHCCCeeEEecC---CEEEEEechHHH
Confidence            3445677777854  789999999999998766      99999999999999876510   013488888663

>2g7u_A Transcriptional regulator; ICLR family, structural genomics, PSI, protein structure initiative, midwest center for struc genomics; 2.30A {Rhodococcus SP}

Probab=96.23  E-value=0.0016  Score=55.29  Aligned_cols=60  Identities=22%  Similarity=0.199  Sum_probs=49.9

Q ss_pred             cChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           36 LRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        36 lglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      +.|+++|...++++|..|||+.+|++...      +.|+|+.|...|++.+++       ++|++++....|.
T Consensus        17 l~iL~~l~~~~~~~~~~eia~~~gl~~st------v~r~l~~L~~~G~v~~~~-------~~Y~Lg~~~~~l~   76 (257)
T 2g7u_A           17 FAVLLAFDAQRPNPTLAELATEAGLSRPA------VRRILLTLQKLGYVAGSG-------GRWSLTPRVLSIG   76 (257)
T ss_dssp             HHHHHTCSSSCSSCBHHHHHHHHTCCHHH------HHHHHHHHHHTTSEEEET-------TEEEECGGGHHHH
T ss_pred             HHHHHHHHhCCCCCCHHHHHHHHCcCHHH------HHHHHHHHHHCCCEEeCC-------CEEEEcHHHHHHH
Confidence            45677776544689999999999998766      999999999999999875       8999999764444

>3bdd_A Regulatory protein MARR; putative multiple antibiotic-resistance repressor, structura genomics, joint center for structural genomics, JCSG; 2.20A {Streptococcus suis}

Probab=96.23  E-value=0.01  Score=44.72  Aligned_cols=68  Identities=16%  Similarity=0.244  Sum_probs=53.1

Q ss_pred             HhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           34 VELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        34 ~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      .++.|+..|... ++.|..+||+.+++++..      +.+.++-|...|++......++...-.|.+|+.++.+.
T Consensus        32 ~~~~iL~~l~~~-~~~~~~ela~~l~is~~~------vs~~l~~L~~~gli~~~~~~~d~r~~~~~lT~~G~~~~   99 (142)
T 3bdd_A           32 TRYSILQTLLKD-APLHQLALQERLQIDRAA------VTRHLKLLEESGYIIRKRNPDNQREVLVWPTEQAREAL   99 (142)
T ss_dssp             HHHHHHHHHHHH-CSBCHHHHHHHHTCCHHH------HHHHHHHHHHTTSEEEEECSSSTTCEEEEECHHHHHHH
T ss_pred             HHHHHHHHHHhC-CCCCHHHHHHHHCCCHHH------HHHHHHHHHHCCCEEecCCCCCCCeeEEEECHHHHHHH
Confidence            345578888764 689999999999998766      99999999999999887632111234689999987655

>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=96.22  E-value=0.0014  Score=46.70  Aligned_cols=71  Identities=15%  Similarity=0.207  Sum_probs=53.5

Q ss_pred             HHHHHHHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhch
Q 042491           28 MALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISK  105 (266)
Q Consensus        28 ~~L~~a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~  105 (266)
                      .++..-.++.|+..|... ++.|..|||+.+|+++..      +.+.|+.|...|++......++.....|++|+.+.
T Consensus        11 ~~l~~~~~~~iL~~L~~~-~~~~~~ela~~l~is~~t------vs~~l~~L~~~gli~~~~~~~~~r~~~~~lt~~g~   81 (100)
T 1ub9_A           11 HILGNPVRLGIMIFLLPR-RKAPFSQIQKVLDLTPGN------LDSHIRVLERNGLVKTYKVIADRPRTVVEITDFGM   81 (100)
T ss_dssp             HHHHSHHHHHHHHHHHHH-SEEEHHHHHHHTTCCHHH------HHHHHHHHHHTTSEEEEEECSSSCEEEEEECHHHH
T ss_pred             cccCChHHHHHHHHHHhc-CCcCHHHHHHHHCcCHHH------HHHHHHHHHHCCCEEEEecCCCcceEEEEECHHHH
Confidence            455556677788888643 689999999999999776      99999999999999864311111134689999875

>3jth_A Transcription activator HLYU; transcription factor, RTXA, DNA-binding, transcription regulation; 2.00A {Vibrio vulnificus}

Probab=96.21  E-value=0.0011  Score=47.45  Aligned_cols=65  Identities=17%  Similarity=0.335  Sum_probs=50.6

Q ss_pred             HHHHHHHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchh
Q 042491           28 MALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQI  103 (266)
Q Consensus        28 ~~L~~a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~  103 (266)
                      .+|.--.++.|+..|..  ++.|+.|||+.+|+++..      +.+.|+.|...|++.....   ...-.|++++.
T Consensus        18 ~~l~~~~r~~Il~~L~~--~~~~~~ela~~l~is~~t------vs~~L~~L~~~Glv~~~~~---g~~~~y~l~~~   82 (98)
T 3jth_A           18 KAMANERRLQILCMLHN--QELSVGELCAKLQLSQSA------LSQHLAWLRRDGLVTTRKE---AQTVYYTLKSE   82 (98)
T ss_dssp             HHHCSHHHHHHHHHTTT--SCEEHHHHHHHHTCCHHH------HHHHHHHHHHTTSEEEECC---TTCCEEEECCH
T ss_pred             HHcCCHHHHHHHHHHhc--CCCCHHHHHHHHCcCHHH------HHHHHHHHHHCCCeEEEEe---CCEEEEEECHH
Confidence            34445556778888886  799999999999998766      9999999999999987762   01235777764

>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=96.21  E-value=0.0016  Score=48.80  Aligned_cols=69  Identities=12%  Similarity=0.197  Sum_probs=51.7

Q ss_pred             HHHHHHHHHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhc
Q 042491           26 DSMALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQIS  104 (266)
Q Consensus        26 ~~~~L~~a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s  104 (266)
                      ...+|.--.++.|+..|... ++.|+.|||+.+|+++..      +.+.|+.|...|++......   ....|++++..
T Consensus        35 ~~~al~~~~rl~IL~~L~~~-~~~s~~eLa~~l~is~st------vs~~L~~L~~~Glv~~~~~g---r~~~y~l~~~~  103 (122)
T 1u2w_A           35 ILKAIADENRAKITYALCQD-EELCVCDIANILGVTIAN------ASHHLRTLYKQGVVNFRKEG---KLALYSLGDEH  103 (122)
T ss_dssp             HHHHHHSHHHHHHHHHHHHS-SCEEHHHHHHHHTCCHHH------HHHHHHHHHHTTSEEEC-------CCEEEESCHH
T ss_pred             HHHHhCCHHHHHHHHHHHHC-CCcCHHHHHHHHCcCHHH------HHHHHHHHHHCCCeEEEEEC---CEEEEEECHHH
Confidence            34455555677899999753 789999999999999776      99999999999999876520   12358887743

>4a5n_A Uncharacterized HTH-type transcriptional regulato; activator, DNA binding, MARR-like; 1.81A {Bacillus subtilis} PDB: 4a5m_A

Probab=96.11  E-value=0.0031  Score=48.10  Aligned_cols=79  Identities=13%  Similarity=0.027  Sum_probs=57.2

Q ss_pred             HHHHHHHHHHhHHHHHHHHHHHhcChhhHhhhCCCCCCHHHHHhhc-CCCCCCCCchhhHHHHHHHHhccCcccccccCC
Q 042491           13 GQAQVWQLMFAFADSMALKSAVELRLADIMHCHGSPITLPQLASGI-NSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSD   91 (266)
Q Consensus        13 ~~~~l~~~~~g~~~~~~L~~a~elglfd~L~~~g~~~t~~eLA~~~-g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~   91 (266)
                      +....++++.+-|...+|.         .|..  ++.++.||++.+ |+++..      |.+.|+-|...|++.+....+
T Consensus        15 pi~~~l~~lg~kW~l~IL~---------~L~~--g~~rf~eL~~~l~gIs~~~------Ls~~L~~Le~~GLV~R~~~~~   77 (131)
T 4a5n_A           15 PVEFTLDVIGGKWKGILFY---------HMID--GKKRFNEFRRICPSITQRM------LTLQLRELEADGIVHREVYHQ   77 (131)
T ss_dssp             HHHHHHHHHCSSSHHHHHH---------HHTT--SCBCHHHHHHHCTTSCHHH------HHHHHHHHHHTTSEEEEEECS
T ss_pred             cHHHHHHHHcCcCHHHHHH---------HHhc--CCcCHHHHHHHhcccCHHH------HHHHHHHHHHCCCEEEEecCC
Confidence            3455555555555554443         3343  789999999999 998776      999999999999999876321


Q ss_pred             CCCCceEeCchhchhhh
Q 042491           92 GSEETMYGLTQISKWLL  108 (266)
Q Consensus        92 ~~g~~~y~lt~~s~~l~  108 (266)
                      ....-.|++|+.++.|.
T Consensus        78 d~r~v~y~LT~~G~~l~   94 (131)
T 4a5n_A           78 VPPKVEYSLTEFGRTLE   94 (131)
T ss_dssp             SSCEEEEEECTTGGGGH
T ss_pred             CCCeEEEEECHhHHHHH
Confidence            11224699999998765

>3f6o_A Probable transcriptional regulator, ARSR family protein; transcriptional regulator,RHA00566,MCSG, structural genomics, PSI-2; 1.90A {Rhodococcus SP}

Probab=96.09  E-value=0.0015  Score=48.71  Aligned_cols=67  Identities=15%  Similarity=0.249  Sum_probs=52.5

Q ss_pred             HHHHHHHHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhc
Q 042491           27 SMALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQIS  104 (266)
Q Consensus        27 ~~~L~~a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s  104 (266)
                      .++|.--.++.|+..|..  ++.|+.|||+.+|+++..      +.+.|+.|...|++......   ..-.|++++.+
T Consensus        12 ~~al~~~~R~~Il~~L~~--~~~~~~eLa~~l~is~~t------vs~hL~~L~~~GlV~~~~~g---r~~~y~l~~~~   78 (118)
T 3f6o_A           12 FQALADPTRRAVLGRLSR--GPATVSELAKPFDMALPS------FMKHIHFLEDSGWIRTHKQG---RVRTCAIEKEP   78 (118)
T ss_dssp             HHHHTSHHHHHHHHHHHT--CCEEHHHHHTTCCSCHHH------HHHHHHHHHHTTSEEEEEET---TEEEEEECSHH
T ss_pred             HHHhCCHHHHHHHHHHHh--CCCCHHHHHHHhCcCHHH------HHHHHHHHHHCCCeEEEecC---CEEEEEECHHH
Confidence            345555667888888885  799999999999999776      99999999999999876520   12358888754

>3bja_A Transcriptional regulator, MARR family, putative; NP_978771.1, putative MARR-like transcription regulator, MAR structural genomics; 2.38A {Bacillus cereus}

Probab=96.07  E-value=0.0061  Score=45.77  Aligned_cols=67  Identities=12%  Similarity=0.269  Sum_probs=51.6

Q ss_pred             hcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           35 ELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        35 elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      ++.|+..|... ++.|..+||+.+++++..      +.+.++-|...|++.......+...-.|.+|+.++.+.
T Consensus        35 ~~~iL~~l~~~-~~~~~~ela~~l~~~~~t------vs~~l~~L~~~gli~r~~~~~d~r~~~~~lT~~G~~~~  101 (139)
T 3bja_A           35 QFGVIQVLAKS-GKVSMSKLIENMGCVPSN------MTTMIQRMKRDGYVMTEKNPNDQRETLVYLTKKGEETK  101 (139)
T ss_dssp             HHHHHHHHHHS-CSEEHHHHHHHCSSCCTT------HHHHHHHHHHTTSEEEEECSSCTTCEEEEECHHHHHHH
T ss_pred             HHHHHHHHHHc-CCcCHHHHHHHHCCChhH------HHHHHHHHHHCCCeeeccCCCCCceeEEEECHHHHHHH
Confidence            45577778764 689999999999999988      99999999999999886421111223488999887544

>3cuo_A Uncharacterized HTH-type transcriptional regulato; DNA-binding transcriptional regulator, structural genomics, MCSG; 2.00A {Escherichia coli K12}

Probab=96.05  E-value=0.0017  Score=46.25  Aligned_cols=66  Identities=11%  Similarity=0.207  Sum_probs=50.5

Q ss_pred             HHHHHHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhc
Q 042491           29 ALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQIS  104 (266)
Q Consensus        29 ~L~~a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s  104 (266)
                      ++..-.++.|+..|.. +++.|..|||+.+|+++..      +.+.|+.|...|++.....   .....|++|+.+
T Consensus        20 ~l~~~~~~~il~~l~~-~~~~s~~ela~~l~is~~t------vs~~l~~L~~~glv~~~~~---~r~~~y~l~~~~   85 (99)
T 3cuo_A           20 AMSHPKRLLILCMLSG-SPGTSAGELTRITGLSASA------TSQHLARMRDEGLIDSQRD---AQRILYSIKNEA   85 (99)
T ss_dssp             HHCSHHHHHHHHHHTT-CCSEEHHHHHHHHCCCHHH------HHHHHHHHHHTTSEEEEEC---SSCEEEEECCHH
T ss_pred             HhCChHHHHHHHHHHh-CCCcCHHHHHHHHCcCHHH------HHHHHHHHHHCCCEEEEec---CCEEEEEEChHH
Confidence            3444556778888876 3689999999999998766      9999999999999987761   012357787754

>3nrv_A Putative transcriptional regulator (MARR/EMRR FAM; PSI-2, protein structure initiati structural genomics; HET: MSE; 2.00A {Acinetobacter SP}

Probab=96.00  E-value=0.0038  Score=47.66  Aligned_cols=68  Identities=15%  Similarity=0.240  Sum_probs=49.6

Q ss_pred             HhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           34 VELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        34 ~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      .++.++..|... +++|..+||+.+++++..      +.++++-|...|++.+....++...-.+.+|+.++.+.
T Consensus        41 ~~~~iL~~l~~~-~~~t~~ela~~l~~~~~t------vs~~l~~Le~~Glv~r~~~~~D~R~~~~~lT~~G~~~~  108 (148)
T 3nrv_A           41 TEWRIISVLSSA-SDCSVQKISDILGLDKAA------VSRTVKKLEEKKYIEVNGHSEDKRTYAINLTEMGQELY  108 (148)
T ss_dssp             HHHHHHHHHHHS-SSBCHHHHHHHHTCCHHH------HHHHHHHHHHTTSEEC---------CCBEECHHHHHHH
T ss_pred             HHHHHHHHHHcC-CCCCHHHHHHHHCCCHHH------HHHHHHHHHHCCCEEeecCCCCcceeEeEECHhHHHHH
Confidence            456677888775 689999999999998776      99999999999999987522111234688999886544

>2ia2_A Putative transcriptional regulator; SAD, PSI-2, structural genomics, structure initiative, midwest center for structural genomic transcription; 2.10A {Rhodococcus SP}

Probab=96.00  E-value=0.0017  Score=55.49  Aligned_cols=56  Identities=20%  Similarity=0.215  Sum_probs=47.6

Q ss_pred             cChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhc
Q 042491           36 LRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQIS  104 (266)
Q Consensus        36 lglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s  104 (266)
                      +.|+++|...++++|..|||+.+|++...      +.|+|+.|...|++.+++       ++|++++..
T Consensus        24 l~iL~~l~~~~~~~~~~eia~~~gl~~st------v~r~l~tL~~~G~v~~~~-------~~Y~Lg~~~   79 (265)
T 2ia2_A           24 LAVIRCFDHRNQRRTLSDVARATDLTRAT------ARRFLLTLVELGYVATDG-------SAFWLTPRV   79 (265)
T ss_dssp             HHHHHTCCSSCSSEEHHHHHHHHTCCHHH------HHHHHHHHHHHTSEEESS-------SEEEECGGG
T ss_pred             HHHHHHHHhCCCCCCHHHHHHHHCcCHHH------HHHHHHHHHHCCCEEecC-------CEEEEcHHH
Confidence            45677776534689999999999998766      999999999999999875       899998854

>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=96.00  E-value=0.0025  Score=47.03  Aligned_cols=75  Identities=17%  Similarity=0.219  Sum_probs=55.1

Q ss_pred             HHHHHHHHHHhHHHHHHHHHHHhcChhhHhhhCCCCCC--HHHHHhhc-CCCCCCCCchhhHHHHHHHHhccCccccccc
Q 042491           13 GQAQVWQLMFAFADSMALKSAVELRLADIMHCHGSPIT--LPQLASGI-NSSCPDVHIIPSLTRIMRMLVRKGVFAAHRS   89 (266)
Q Consensus        13 ~~~~l~~~~~g~~~~~~L~~a~elglfd~L~~~g~~~t--~~eLA~~~-g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~   89 (266)
                      +...+++++.+.+...+|         ..|..  ++.+  +.||++.+ |+++..      +.+.|+.|...|++.+...
T Consensus        16 ~~~~~l~~l~~~wrl~IL---------~~L~~--g~~~~~~~eL~~~l~gis~~~------ls~~L~~Le~~GlV~r~~~   78 (111)
T 3df8_A           16 PSESVLHLLGKKYTMLII---------SVLGN--GSTRQNFNDIRSSIPGISSTI------LSRRIKDLIDSGLVERRSG   78 (111)
T ss_dssp             TTSSTHHHHHSTTHHHHH---------HHHTS--SSSCBCHHHHHHTSTTCCHHH------HHHHHHHHHHTTSEEEEES
T ss_pred             HHHHHHHHHcCccHHHHH---------HHHhc--CCCCCCHHHHHHHccCCCHHH------HHHHHHHHHHCCCEEEeec
Confidence            334455555555554444         34553  6777  99999999 999776      9999999999999998741


Q ss_pred             CCCCCCceEeCchhchhhh
Q 042491           90 SDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        90 ~~~~g~~~y~lt~~s~~l~  108 (266)
                          ....|++|+.++.+.
T Consensus        79 ----r~~~y~LT~~G~~l~   93 (111)
T 3df8_A           79 ----QITTYALTEKGMNVR   93 (111)
T ss_dssp             ----SSEEEEECHHHHHHH
T ss_pred             ----CcEEEEECccHHHHH
Confidence                125799999987655

>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=95.99  E-value=0.012  Score=44.52  Aligned_cols=67  Identities=13%  Similarity=0.168  Sum_probs=50.9

Q ss_pred             HhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           34 VELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        34 ~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      .++.++..|. . +++|..+||+.+++++..      +.++++-|...|++.+.....+...-.+.+|+.++.+.
T Consensus        38 ~~~~iL~~l~-~-~~~~~~ela~~l~~s~~t------vs~~l~~Le~~glv~r~~~~~d~r~~~~~lT~~G~~~~  104 (146)
T 2gxg_A           38 LDFLVLRATS-D-GPKTMAYLANRYFVTQSA------ITASVDKLEEMGLVVRVRDREDRRKILIEITEKGLETF  104 (146)
T ss_dssp             HHHHHHHHHT-T-SCBCHHHHHHHTTCCHHH------HHHHHHHHHHTTSEEEEECSSCTTCEEEEECHHHHHHH
T ss_pred             HHHHHHHHHh-c-CCcCHHHHHHHhCCCchh------HHHHHHHHHHCCCEEeecCCCCCceEEEEECHHHHHHH
Confidence            3455777787 3 799999999999998766      99999999999999986521111223588999886544

>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=95.99  E-value=0.034  Score=49.84  Aligned_cols=73  Identities=21%  Similarity=0.227  Sum_probs=52.4

Q ss_pred             CCceEEEecCCchHHHHHH--------HHHC-------CCCeEEEeecHHH-----HhhCCC--------------C-C-
Q 042491          192 GIRSLVDVGGGTGEELAEI--------VEFY-------PHIKGVNFDLPHV-----VATAPV--------------Y-E-  235 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l--------~~~~-------P~l~~~~~Dlp~v-----~~~a~~--------------~-~-  235 (266)
                      +.-+|+|+|||+|.....+        .+++       |++++..-|+|.-     -.....              . + 
T Consensus        52 ~~~~IaDlGCssG~Nt~~~v~~ii~~i~~~~~~~~~~~pe~~v~~nDLp~NDFn~lF~~L~~~~~~~~~~~~~~~~~~~~  131 (374)
T 3b5i_A           52 PPFTAVDLGCSSGANTVHIIDFIVKHISKRFDAAGIDPPEFTAFFSDLPSNDFNTLFQLLPPLVSNTCMEECLAADGNRS  131 (374)
T ss_dssp             CCEEEEEETCCSSHHHHHHHHHHHHHHHHHHHHTTCCCCCEEEEEEECTTSCHHHHHHHSCCBCCCC--CCC---CCCBC
T ss_pred             CceEEEecCCCCChhHHHHHHHHHHHHHHHHhhcCCCCCceeEEecCCCccchHHHHhhhhhhhhhcchhhhccccCCCc
Confidence            3579999999999888765        3444       8889999899642     111111              0 1 


Q ss_pred             -CeEEEEccCCC-CCCC--ccEEEeccccccCC
Q 042491          236 -GVSHVGGDMLN-AVPN--ADAVFMKVIVLIQD  264 (266)
Q Consensus       236 -ri~~~~gd~~~-~~p~--aD~~~l~~vLHd~~  264 (266)
                       =+..++|.|.. .+|.  +|+++.+..||--+
T Consensus       132 ~f~~gvpgSFy~rlfP~~S~d~v~Ss~aLHWls  164 (374)
T 3b5i_A          132 YFVAGVPGSFYRRLFPARTIDFFHSAFSLHWLS  164 (374)
T ss_dssp             SEEEEEESCTTSCCSCTTCEEEEEEESCTTBCS
T ss_pred             eEEEecChhhhcccCCCcceEEEEecceeeeec
Confidence             14668899998 5784  99999999999654

>3f3x_A Transcriptional regulator, MARR family, putative; DNA binding protein, DNA-binding, transcription regulation; 1.90A {Sulfolobus solfataricus}

Probab=95.99  E-value=0.0066  Score=46.13  Aligned_cols=67  Identities=15%  Similarity=0.172  Sum_probs=50.9

Q ss_pred             HhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           34 VELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        34 ~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      .++.++..|... ++ |..+||+.+++++..      +.++++-|...|++.+....++...-.+.+|+.++.+.
T Consensus        38 ~~~~iL~~l~~~-~~-~~~~la~~l~~~~~t------vs~~l~~Le~~Glv~r~~~~~D~R~~~~~LT~~G~~~~  104 (144)
T 3f3x_A           38 LDFSILKATSEE-PR-SMVYLANRYFVTQSA------ITAAVDKLEAKGLVRRIRDSKDRRIVIVEITPKGRQVL  104 (144)
T ss_dssp             HHHHHHHHHHHS-CE-EHHHHHHHHTCCHHH------HHHHHHHHHHTTSEEEEEETTEEEEEEEEECHHHHHHH
T ss_pred             HHHHHHHHHHHC-CC-CHHHHHHHHCCChhH------HHHHHHHHHHCCCEEeccCCCCCceEEEEECHHHHHHH
Confidence            456788888874 45 999999999999776      99999999999999987621000112589999887544

>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=95.98  E-value=0.0037  Score=56.04  Aligned_cols=64  Identities=19%  Similarity=0.199  Sum_probs=50.6

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC--------------CCCeEEEEccCCCCC-------C
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV--------------YEGVSHVGGDMLNAV-------P  249 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~--------------~~ri~~~~gd~~~~~-------p  249 (266)
                      .+++||=||||.|..++++++. |.-+++++|+ |.|++.+++              .+|++++.+|-++-+       .
T Consensus       205 ~pkrVLIIGgGdG~~~revlkh-~~~~V~~VEIDp~VVe~ar~yfp~~~~~~~d~pr~~rv~vii~Da~~fl~~~~~~~~  283 (381)
T 3c6k_A          205 TGKDVLILGGGDGGILCEIVKL-KPKMVTMVEIDQMVIDGCKKYMRKTCGDVLDNLKGDCYQVLIEDCIPVLKRYAKEGR  283 (381)
T ss_dssp             TTCEEEEEECTTCHHHHHHHTT-CCSEEEEEESCHHHHHHHHHHCCC----CCSSSEETTEEEEESCHHHHHHHHHHHTC
T ss_pred             CCCeEEEECCCcHHHHHHHHhc-CCceeEEEccCHHHHHHHHhhchhhhhhhhccccccceeeehHHHHHHHHhhhhccC
Confidence            4689999999999999999985 5578999998 888776542              367999999976521       2


Q ss_pred             CccEEEe
Q 042491          250 NADAVFM  256 (266)
Q Consensus       250 ~aD~~~l  256 (266)
                      .||+|++
T Consensus       284 ~yDvIIv  290 (381)
T 3c6k_A          284 EFDYVIN  290 (381)
T ss_dssp             CEEEEEE
T ss_pred             ceeEEEE
Confidence            4899886

>2o0y_A Transcriptional regulator; ICLR-family, structural genomics, protein structure initiative, midwest center for structural genomics, MCSG; 2.00A {Rhodococcus SP}

Probab=95.98  E-value=0.0021  Score=54.66  Aligned_cols=57  Identities=14%  Similarity=0.303  Sum_probs=47.4

Q ss_pred             cChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhc
Q 042491           36 LRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQIS  104 (266)
Q Consensus        36 lglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s  104 (266)
                      +.|++.|...++++|+.|||+.+|++...      +.|+|+.|...|++.+..      .++|++++..
T Consensus        26 l~iL~~l~~~~~~~~~~eia~~~gl~kst------v~r~l~tL~~~G~v~~~~------~~~Y~lg~~~   82 (260)
T 2o0y_A           26 IDLLELFDAAHPTRSLKELVEGTKLPKTT------VVRLVATMCARSVLTSRA------DGSYSLGPEM   82 (260)
T ss_dssp             HHHHTTCBTTBSSBCHHHHHHHHCCCHHH------HHHHHHHHHHTTSEEECT------TSCEEECHHH
T ss_pred             HHHHHHHhhCCCCcCHHHHHHHHCcCHHH------HHHHHHHHHHCCCEEECC------CCeEEecHHH
Confidence            45677776433689999999999998766      999999999999999986      2499998854

>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=95.96  E-value=0.0023  Score=57.84  Aligned_cols=65  Identities=12%  Similarity=-0.059  Sum_probs=51.4

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCC-CeEEEeec-HHHHhhCCC-------CCC-eEEEEccCCCC----CC-CccEEEe
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPH-IKGVNFDL-PHVVATAPV-------YEG-VSHVGGDMLNA----VP-NADAVFM  256 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~-l~~~~~Dl-p~v~~~a~~-------~~r-i~~~~gd~~~~----~p-~aD~~~l  256 (266)
                      +..+|||++||+|.++..++++.++ -+++..|. |..++.+++       .++ ++++.+|.++-    .+ .||+|++
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            4579999999999999999998776 47889998 777766553       345 99999997652    23 3999987

>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=95.95  E-value=0.0042  Score=44.53  Aligned_cols=55  Identities=20%  Similarity=0.232  Sum_probs=46.9

Q ss_pred             hhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           38 LADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        38 lfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      |...|..  + ++..+||..+|++++.      +.+.++.|...|++....       +.|.+|+.++.+.
T Consensus        13 IL~~i~~--~-~~~t~La~~~~ls~~~------~~~~l~~L~~~GLI~~~~-------~~~~LT~kG~~~l   67 (95)
T 1r7j_A           13 ILEACKS--G-SPKTRIMYGANLSYAL------TGRYIKMLMDLEIIRQEG-------KQYMLTKKGEELL   67 (95)
T ss_dssp             HHHHHTT--C-BCHHHHHHHHTCCHHH------HHHHHHHHHHTTSEEEET-------TEEEECHHHHHHH
T ss_pred             HHHHHHc--C-CCHHHHHHHhCcCHHH------HHHHHHHHHHCCCeEEEC-------CeeEEChhHHHHH
Confidence            3444543  4 9999999999999887      999999999999999987       6799999997544

>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=95.91  E-value=0.0034  Score=46.23  Aligned_cols=63  Identities=17%  Similarity=0.138  Sum_probs=48.0

Q ss_pred             hhhHhhhCCCCCCHHHHHhhc-CCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           38 LADIMHCHGSPITLPQLASGI-NSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        38 lfd~L~~~g~~~t~~eLA~~~-g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      |+..|..  ++.+..|||+.+ ++++..      +.+.|+-|...|++.+....++...-.|.+|+.++.+.
T Consensus        27 IL~~L~~--~~~~~~eLa~~l~~is~~t------vs~~L~~Le~~GlI~r~~~~~d~r~~~~~LT~~G~~~~   90 (112)
T 1z7u_A           27 LMDELFQ--GTKRNGELMRALDGITQRV------LTDRLREMEKDGLVHRESFNELPPRVEYTLTPEGYALY   90 (112)
T ss_dssp             HHHHHHH--SCBCHHHHHHHSTTCCHHH------HHHHHHHHHHHTSEEEEEECCSSCEEEEEECHHHHHHH
T ss_pred             HHHHHHh--CCCCHHHHHHHhccCCHHH------HHHHHHHHHHCCCEEEeecCCCCCeEEEEECHhHHHHH
Confidence            4445554  689999999999 998766      99999999999999987632111223599999987544

>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=95.91  E-value=0.0073  Score=47.02  Aligned_cols=67  Identities=10%  Similarity=0.106  Sum_probs=52.8

Q ss_pred             hcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           35 ELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        35 elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      ++.|+..|... +++|..+||+.+++++..      +.++++-|...|++.+....++...-.+.+|+.++.+.
T Consensus        48 q~~iL~~l~~~-~~~t~~eLa~~l~~~~~t------vs~~l~~Le~~Glv~r~~~~~DrR~~~l~LT~~G~~~~  114 (162)
T 3k0l_A           48 QFTALSVLAAK-PNLSNAKLAERSFIKPQS------ANKILQDLLANGWIEKAPDPTHGRRILVTVTPSGLDKL  114 (162)
T ss_dssp             HHHHHHHHHHC-TTCCHHHHHHHHTSCGGG------HHHHHHHHHHTTSEEEEECCSSSCCEEEEECHHHHHHH
T ss_pred             HHHHHHHHHHC-CCCCHHHHHHHHCCCHHH------HHHHHHHHHHCcCeEecCCCCcCCeeEeEECHhHHHHH
Confidence            45577888775 689999999999999877      99999999999999987632111233589999887554

>3cdh_A Transcriptional regulator, MARR family; helix-turn-hleix, structura genomics, PSI-2, protein structure initiative; 2.69A {Silicibacter pomeroyi dss-3}

Probab=95.91  E-value=0.016  Score=44.47  Aligned_cols=67  Identities=16%  Similarity=0.171  Sum_probs=50.1

Q ss_pred             hcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           35 ELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        35 elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      ++.|+..|... +++|..+||+.+++++..      +.++++-|...|++.+....++...-.+.+|+.++.+.
T Consensus        45 ~~~iL~~l~~~-~~~t~~ela~~l~i~~~t------vs~~l~~Le~~Glv~r~~~~~d~R~~~~~lT~~G~~~~  111 (155)
T 3cdh_A           45 EWRVLACLVDN-DAMMITRLAKLSLMEQSR------MTRIVDQMDARGLVTRVADAKDKRRVRVRLTDDGRALA  111 (155)
T ss_dssp             HHHHHHHHSSC-SCBCHHHHHHHTTCCHHH------HHHHHHHHHHTTSEEECC------CCCEEECHHHHHHH
T ss_pred             HHHHHHHHHHC-CCcCHHHHHHHHCCCHHH------HHHHHHHHHHCCCEEeccCCCcCCeeEeEECHHHHHHH
Confidence            45577778764 689999999999998766      99999999999999876521111223588999887544

>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=95.89  E-value=0.002  Score=46.98  Aligned_cols=64  Identities=19%  Similarity=0.381  Sum_probs=47.7

Q ss_pred             HHHHHHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchh
Q 042491           29 ALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQI  103 (266)
Q Consensus        29 ~L~~a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~  103 (266)
                      +|.--.++.|+..|..  ++.|+.|||+.+|+++..      +.+.|+.|...|++......   ....|++++.
T Consensus        22 ~l~~~~r~~IL~~L~~--~~~~~~ela~~l~is~st------vs~~L~~L~~~Glv~~~~~g---r~~~y~l~~~   85 (106)
T 1r1u_A           22 ALGDYNRIRIMELLSV--SEASVGHISHQLNLSQSN------VSHQLKLLKSVHLVKAKRQG---QSMIYSLDDI   85 (106)
T ss_dssp             HTCSHHHHHHHHHHHH--CCBCHHHHHHHHTCCHHH------HHHHHHHHHHTTSEEEEEET---TEEEEEESSH
T ss_pred             HhCCHHHHHHHHHHHh--CCCCHHHHHHHHCcCHHH------HHHHHHHHHHCCCeEEEEeC---CEEEEEEChH
Confidence            3334455667777775  789999999999998766      99999999999999876620   0124777664

>2qww_A Transcriptional regulator, MARR family; YP_013417.1, multiple antibiotic-resistance repressor (MARR) structural genomics; HET: MSE; 2.07A {Listeria monocytogenes str}

Probab=95.88  E-value=0.038  Score=42.21  Aligned_cols=67  Identities=12%  Similarity=0.168  Sum_probs=50.5

Q ss_pred             hcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccc--cccCCCCCCceEeCchhchhhh
Q 042491           35 ELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAA--HRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        35 elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~--~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      ++.++..|... +++|..+||+.+++++..      +.++++-|...|++.+  .....+...-.+.+|+.++.+.
T Consensus        43 ~~~iL~~l~~~-~~~t~~eLa~~l~~~~~t------vs~~l~~Le~~Glv~r~~~~~~~d~R~~~~~LT~~G~~~~  111 (154)
T 2qww_A           43 QLAMINVIYST-PGISVADLTKRLIITGSS------AAANVDGLISLGLVVKLNKTIPNDSMDLTLKLSKKGEDLS  111 (154)
T ss_dssp             HHHHHHHHHHS-TTEEHHHHHHHHTCCHHH------HHHHHHHHHHTTSEEESCC--CTTCTTCEEEECHHHHHHH
T ss_pred             HHHHHHHHHHC-CCCCHHHHHHHHCCCHHH------HHHHHHHHHHCCCEEecCcCCCCCCceeEeEECHHHHHHH
Confidence            45677788765 689999999999998766      9999999999999998  4321111223688999887544

>3boq_A Transcriptional regulator, MARR family; MARR famil structural genomics, PSI-2, protein structure initiative; 2.39A {Silicibacter pomeroyi dss-3}

Probab=95.85  E-value=0.038  Score=42.53  Aligned_cols=68  Identities=10%  Similarity=0.187  Sum_probs=49.6

Q ss_pred             hcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           35 ELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        35 elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      ++.|+..|...++++|..+||+.+++++..      +.++++-|...|++.+....++...-.+.+|+.++.+.
T Consensus        49 ~~~iL~~L~~~~~~~~~~ela~~l~i~~~t------vs~~l~~Le~~Gli~r~~~~~d~R~~~~~lT~~G~~~~  116 (160)
T 3boq_A           49 KFDAMAQLARNPDGLSMGKLSGALKVTNGN------VSGLVNRLIKDGMVVKAMSADDRRSFSAKLTDAGLTTF  116 (160)
T ss_dssp             HHHHHHHHHHCTTCEEHHHHHHHCSSCCSC------HHHHHHHHHHHTSEEEC--------CEEEECHHHHHHH
T ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHCCChhh------HHHHHHHHHHCCCEEeecCCCCCCeEEEEEChhHHHHH
Confidence            455788884224789999999999999988      99999999999999986521111123488999886544

>2fu4_A Ferric uptake regulation protein; DNA binding domain, helix-turn-helix, DNA binding protein; 1.80A {Escherichia coli}

Probab=95.83  E-value=0.0024  Score=44.26  Aligned_cols=48  Identities=10%  Similarity=0.302  Sum_probs=40.6

Q ss_pred             hcChhhHhhhCC-CCCCHHHHHhhc-----CCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           35 ELRLADIMHCHG-SPITLPQLASGI-----NSSCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        35 elglfd~L~~~g-~~~t~~eLA~~~-----g~~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      +..|++.|...+ ++.|++||++.+     +++...      +.|.|+.|...|++.+..
T Consensus        19 r~~IL~~l~~~~~~~~s~~el~~~l~~~~~~is~~T------VyR~L~~L~~~Glv~~~~   72 (83)
T 2fu4_A           19 RLKILEVLQEPDNHHVSAEDLYKRLIDMGEEIGLAT------VYRVLNQFDDAGIVTRHN   72 (83)
T ss_dssp             HHHHHHHHTSGGGSSBCHHHHHHHHHHTTCCCCHHH------HHHHHHHHHHHTSEEEEE
T ss_pred             HHHHHHHHHhCCCCCCCHHHHHHHHHHhCCCCCHhh------HHHHHHHHHHCCCeEEEe
Confidence            456888887654 689999999999     777555      999999999999999876

>2nyx_A Probable transcriptional regulatory protein, RV14; alpha/beta, structural genomics, PSI-2; 2.30A {Mycobacterium tuberculosis}

Probab=95.83  E-value=0.017  Score=45.21  Aligned_cols=67  Identities=21%  Similarity=0.268  Sum_probs=51.5

Q ss_pred             hcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           35 ELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        35 elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      ++.|+..|... +++|..|||+.+++++..      +.++++-|...|++.+....++...-.+.+|+.++.+.
T Consensus        47 ~~~iL~~L~~~-~~~t~~eLa~~l~is~~t------vs~~l~~Le~~GlV~r~~~~~DrR~~~~~LT~~G~~~~  113 (168)
T 2nyx_A           47 QFRTLVILSNH-GPINLATLATLLGVQPSA------TGRMVDRLVGAELIDRLPHPTSRRELLAALTKRGRDVV  113 (168)
T ss_dssp             HHHHHHHHHHH-CSEEHHHHHHHHTSCHHH------HHHHHHHHHHTTSEEEEECSSCSSCEEEEECHHHHHHH
T ss_pred             HHHHHHHHHHc-CCCCHHHHHHHhCCCHHH------HHHHHHHHHHCCCEEeccCCCCCCeeEEEECHHHHHHH
Confidence            45677788764 689999999999998766      99999999999999886522111223588999887544

>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=95.82  E-value=0.01  Score=45.40  Aligned_cols=69  Identities=7%  Similarity=0.104  Sum_probs=48.5

Q ss_pred             HhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           34 VELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        34 ~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      .++.++..|...++++|..+||+.+++++..      +.++++-|...|++.+....++...-.+.+|+.++.+.
T Consensus        40 ~q~~vL~~l~~~~~~~t~~eLa~~l~i~~~t------vs~~l~~Le~~Glv~r~~~~~D~R~~~~~LT~~G~~~~  108 (150)
T 3fm5_A           40 RSYSVLVLACEQAEGVNQRGVAATMGLDPSQ------IVGLVDELEERGLVVRTLDPSDRRNKLIAATEEGRRLR  108 (150)
T ss_dssp             HHHHHHHHHHHSTTCCCSHHHHHHHTCCHHH------HHHHHHHHHTTTSEEC-----------CEECHHHHHHH
T ss_pred             HHHHHHHHHHhCCCCcCHHHHHHHHCCCHhH------HHHHHHHHHHCCCEEeeCCccccchheeeECHHHHHHH
Confidence            3556777776544678999999999998766      99999999999999986521111122388999887554

>2kko_A Possible transcriptional regulatory protein (possibly ARSR-family); NESG, DNA-binding, transcription regulation, WHTH, homodimer; NMR {Mycobacterium bovis} PDB: 3gw2_A

Probab=95.78  E-value=0.0012  Score=48.41  Aligned_cols=61  Identities=13%  Similarity=0.238  Sum_probs=46.1

Q ss_pred             HHHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchh
Q 042491           32 SAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQI  103 (266)
Q Consensus        32 ~a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~  103 (266)
                      .-.++.|+..|..  ++.|+.|||+.+|+++..      +.+.|+.|...|++......   ....|++++.
T Consensus        24 ~~~r~~IL~~L~~--~~~s~~eLa~~lgis~st------vs~~L~~L~~~GlV~~~~~g---r~~~y~l~~~   84 (108)
T 2kko_A           24 NGRRLQILDLLAQ--GERAVEAIATATGMNLTT------ASANLQALKSGGLVEARREG---TRQYYRIAGE   84 (108)
T ss_dssp             TSTTHHHHHHHTT--CCEEHHHHHHHHTCCHHH------HHHHHHHHHHHTSEEEEEET---TEEEEEESCH
T ss_pred             CHHHHHHHHHHHc--CCcCHHHHHHHHCcCHHH------HHHHHHHHHHCCCeEEEEeC---CEEEEEEChH
Confidence            3345566777775  789999999999999776      99999999999999876520   0124777664

>3f6v_A Possible transcriptional regulator, ARSR family protein; probable transcriptional repressor ARSR family, structural genomics, PSI-2; 1.48A {Rhodococcus SP}

Probab=95.77  E-value=0.0031  Score=49.21  Aligned_cols=68  Identities=16%  Similarity=0.267  Sum_probs=55.0

Q ss_pred             HHHHHHHHHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhc
Q 042491           26 DSMALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQIS  104 (266)
Q Consensus        26 ~~~~L~~a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s  104 (266)
                      ..++|.--.++.|+..|..  ++.|+.|||+.+|+++..      +.+.|+.|...|++......   ..-.|++|+.+
T Consensus        51 ~l~aL~~p~R~~IL~~L~~--~~~t~~eLa~~lgls~st------vs~hL~~L~~aGlV~~~~~G---r~~~y~lt~~~  118 (151)
T 3f6v_A           51 QLEVAAEPTRRRLVQLLTS--GEQTVNNLAAHFPASRSA------ISQHLRVLTEAGLVTPRKDG---RFRYYRLDPQG  118 (151)
T ss_dssp             HHHHHTSHHHHHHHHHGGG--CCEEHHHHHTTSSSCHHH------HHHHHHHHHHTTSEEEEEET---TEEEEEECHHH
T ss_pred             HHHHhCCHHHHHHHHHHHh--CCCCHHHHHHHHCcCHHH------HHHHHHHHHHCCCEEEEecC---CEEEEEEChHH
Confidence            4566777778899999985  799999999999998766      99999999999999876620   01358888865

>3g3z_A NMB1585, transcriptional regulator, MARR family; transcription factor, structur genomics, oxford protein production facility; 2.10A {Neisseria meningitidis serogroup B}

Probab=95.76  E-value=0.0066  Score=46.17  Aligned_cols=68  Identities=9%  Similarity=0.116  Sum_probs=52.5

Q ss_pred             HhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           34 VELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        34 ~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      .++.++..|... +++|..+||+.+++++..      +.++++-|...|++.+....++...-.+.+|+.++.+.
T Consensus        32 ~q~~iL~~l~~~-~~~t~~eLa~~l~~~~~t------vs~~l~~Le~~Glv~r~~~~~D~R~~~~~LT~~G~~~~   99 (145)
T 3g3z_A           32 NLFAVLYTLATE-GSRTQKHIGEKWSLPKQT------VSGVCKTLAGQGLIEWQEGEQDRRKRLLSLTETGKAYA   99 (145)
T ss_dssp             HHHHHHHHHHHH-CSBCHHHHHHHHTCCHHH------HHHHHHHHHHTTSEEECCCSSCGGGSCEEECHHHHHHH
T ss_pred             HHHHHHHHHHHC-CCCCHHHHHHHHCCCHHH------HHHHHHHHHHCCCEeeccCCCCCceeeeeEChhHHHHH
Confidence            356677888665 679999999999998766      99999999999999986522111234589999887544

>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=95.75  E-value=0.015  Score=44.06  Aligned_cols=70  Identities=20%  Similarity=0.280  Sum_probs=51.6

Q ss_pred             HHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           33 AVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        33 a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      ..++.|+..|...++++|..+||+.+|+++..      +.++++-|...|++.+.....+...-.+.+|+.++.+.
T Consensus        35 ~~~~~iL~~l~~~~~~~~~~~la~~l~i~~~~------vs~~l~~Le~~glv~r~~~~~d~R~~~~~lT~~G~~~~  104 (147)
T 2hr3_A           35 FSQLVVLGAIDRLGGDVTPSELAAAERMRSSN------LAALLRELERGGLIVRHADPQDGRRTRVSLSSEGRRNL  104 (147)
T ss_dssp             HHHHHHHHHHHHTTSCBCHHHHHHHTTCCHHH------HHHHHHHHHHTTSEEEEC------CCEEEECHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHhCCChhh------HHHHHHHHHHCCCEeeCCCCCCCCceeeEECHHHHHHH
Confidence            34567788887622789999999999998766      99999999999999887521111223588999886544

>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=95.75  E-value=0.029  Score=42.76  Aligned_cols=67  Identities=16%  Similarity=0.275  Sum_probs=51.4

Q ss_pred             hcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           35 ELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        35 elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      ++.|+..|... +++|..+||+.+++++..      +.++++-|...|++.+....++...-.+.+|+.++.+.
T Consensus        42 ~~~iL~~l~~~-~~~t~~ela~~l~~~~~~------vs~~l~~Le~~Glv~r~~~~~d~R~~~~~lT~~G~~~~  108 (152)
T 3bj6_A           42 QRAILEGLSLT-PGATAPQLGAALQMKRQY------ISRILQEVQRAGLIERRTNPEHARSHRYWLTPRGEAII  108 (152)
T ss_dssp             HHHHHHHHHHS-TTEEHHHHHHHHTCCHHH------HHHHHHHHHHTTSEEEECCSSSTTSCEEEECHHHHHHH
T ss_pred             HHHHHHHHHhC-CCCCHHHHHHHHCCCHHH------HHHHHHHHHHCCCeeecCCcccccceeeEEChhhHHHH
Confidence            45577778764 689999999999998766      99999999999999987522111233688999886544

>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=95.71  E-value=0.0069  Score=46.87  Aligned_cols=55  Identities=24%  Similarity=0.302  Sum_probs=45.4

Q ss_pred             CCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           47 SPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        47 ~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      ++.+..||++.+|+++..      +.+.|+-|...|++.+....++. .-.|++|+.++.+.
T Consensus        36 g~~~~~eLa~~lgis~~t------ls~~L~~Le~~GlI~r~~~~~d~-~~~y~LT~~G~~l~   90 (146)
T 2f2e_A           36 GLTRFGEFQKSLGLAKNI------LAARLRNLVEHGVMVAVPAESGS-HQEYRLTDKGRALF   90 (146)
T ss_dssp             TCCSHHHHHHHHCCCHHH------HHHHHHHHHHTTSEEEEECSSSS-CEEEEECHHHHTTH
T ss_pred             CCCCHHHHHHHhCCCHHH------HHHHHHHHHHCCCEEEEecCCCC-eEEEEECchHHHHH
Confidence            689999999999998766      99999999999999987632222 34799999986544

>1yyv_A Putative transcriptional regulator; reductive methylation, D lysine, structural genomics, PSI; HET: MLY; 2.35A {Salmonella typhimurium} SCOP: a.4.5.69

Probab=95.70  E-value=0.0051  Score=46.78  Aligned_cols=78  Identities=12%  Similarity=0.106  Sum_probs=54.6

Q ss_pred             HHHHHHHHHhHHHHHHHHHHHhcChhhHhhhCCCCCCHHHHHhhc-CCCCCCCCchhhHHHHHHHHhccCcccccccCCC
Q 042491           14 QAQVWQLMFAFADSMALKSAVELRLADIMHCHGSPITLPQLASGI-NSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDG   92 (266)
Q Consensus        14 ~~~l~~~~~g~~~~~~L~~a~elglfd~L~~~g~~~t~~eLA~~~-g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~   92 (266)
                      ...+++++.+-+...         |+..|..  ++.+..||++.+ |+++..      +.+.|+.|...|++.+....++
T Consensus        25 ~~~~l~~l~~~w~l~---------IL~~L~~--g~~~~~eLa~~l~gis~~t------ls~~L~~Le~~GlV~r~~~~~d   87 (131)
T 1yyv_A           25 SREVLKHVTSRWGVL---------ILVALRD--GTHRFSDLRRXMGGVSEXM------LAQSLQALEQDGFLNRVSYPVV   87 (131)
T ss_dssp             HHHHHHHHHSHHHHH---------HHHHGGG--CCEEHHHHHHHSTTCCHHH------HHHHHHHHHHHTCEEEEEECSS
T ss_pred             HHHHHHHHcCCcHHH---------HHHHHHc--CCCCHHHHHHHhccCCHHH------HHHHHHHHHHCCcEEEEecCCC
Confidence            344555554444443         3344443  789999999999 798776      9999999999999998763211


Q ss_pred             CCCceEeCchhchhhh
Q 042491           93 SEETMYGLTQISKWLL  108 (266)
Q Consensus        93 ~g~~~y~lt~~s~~l~  108 (266)
                      ...-.|++|+.++.+.
T Consensus        88 ~r~~~y~LT~~G~~l~  103 (131)
T 1yyv_A           88 PPHVEYSLTPLGEQVS  103 (131)
T ss_dssp             SCEEEEEECHHHHHHH
T ss_pred             CCeEEEEECccHHHHH
Confidence            1123699999987654

>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=95.67  E-value=0.0041  Score=45.35  Aligned_cols=79  Identities=16%  Similarity=0.143  Sum_probs=54.6

Q ss_pred             HHHHHHHHHHhHHHHHHHHHHHhcChhhHhhhCCCCCCHHHHHhhc-CCCCCCCCchhhHHHHHHHHhccCcccccccCC
Q 042491           13 GQAQVWQLMFAFADSMALKSAVELRLADIMHCHGSPITLPQLASGI-NSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSD   91 (266)
Q Consensus        13 ~~~~l~~~~~g~~~~~~L~~a~elglfd~L~~~g~~~t~~eLA~~~-g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~   91 (266)
                      +...+++++.+-+...+         +..|..  ++.+..||++.+ |+++..      +.+.|+.|...|++.+....+
T Consensus        14 ~~~~~l~~l~~~~~~~I---------L~~L~~--~~~~~~eL~~~l~gis~~~------ls~~L~~Le~~GlV~r~~~~~   76 (107)
T 2fsw_A           14 PVRKSMQIFAGKWTLLI---------IFQINR--RIIRYGELKRAIPGISEKM------LIDELKFLCGKGLIKKKQYPE   76 (107)
T ss_dssp             HHHHHHHHHTSSSHHHH---------HHHHTT--SCEEHHHHHHHSTTCCHHH------HHHHHHHHHHTTSEEEEEECS
T ss_pred             CHHHHHHHHcCccHHHH---------HHHHHh--CCcCHHHHHHHcccCCHHH------HHHHHHHHHHCCCEEEeecCC
Confidence            34445555544444433         334543  789999999999 598766      999999999999999876321


Q ss_pred             CCCCceEeCchhchhhh
Q 042491           92 GSEETMYGLTQISKWLL  108 (266)
Q Consensus        92 ~~g~~~y~lt~~s~~l~  108 (266)
                      +...-.|.+|+.++.+.
T Consensus        77 d~r~~~y~LT~~G~~l~   93 (107)
T 2fsw_A           77 VPPRVEYSLTPLGEKVL   93 (107)
T ss_dssp             SSCEEEEEECHHHHTTH
T ss_pred             CCCeeEEEECccHHHHH
Confidence            11224699999986544

>1oyi_A Double-stranded RNA-binding protein; (alpha+beta) helix-turn-helix, viral protein; NMR {Vaccinia virus} SCOP: a.4.5.19

Probab=95.67  E-value=0.0048  Score=42.91  Aligned_cols=60  Identities=12%  Similarity=0.099  Sum_probs=47.9

Q ss_pred             HHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhc
Q 042491           33 AVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQIS  104 (266)
Q Consensus        33 a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s  104 (266)
                      .....|.+.|...  ++|+.|||+++|++...      +.+.|.-|...|++...+.+    +-.|+++...
T Consensus        17 ~~~~~IL~lL~~~--g~sa~eLAk~LgiSk~a------Vr~~L~~Le~eG~I~~~~~~----PP~W~~~~~~   76 (82)
T 1oyi_A           17 EIVCEAIKTIGIE--GATAAQLTRQLNMEKRE------VNKALYDLQRSAMVYSSDDI----PPRWFMTTEA   76 (82)
T ss_dssp             HHHHHHHHHHSSS--TEEHHHHHHHSSSCHHH------HHHHHHHHHHHTSSEECSSS----SCEEESCC--
T ss_pred             HHHHHHHHHHHHc--CCCHHHHHHHHCcCHHH------HHHHHHHHHHCCCEEeCCCC----CCcceeccCc
Confidence            3445677888863  39999999999999877      99999999999999988732    5678887643

>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=95.64  E-value=0.0061  Score=46.44  Aligned_cols=50  Identities=12%  Similarity=0.092  Sum_probs=44.2

Q ss_pred             CCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           47 SPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        47 ~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      ++.|..+||+.+|+++..      +.+.++.|...|++.+..      ...|.+|+.+..+.
T Consensus        21 ~~~~~~ela~~l~vs~~t------vs~~l~~Le~~Glv~r~~------~~~~~LT~~g~~~~   70 (142)
T 1on2_A           21 GYARVSDIAEALAVHPSS------VTKMVQKLDKDEYLIYEK------YRGLVLTSKGKKIG   70 (142)
T ss_dssp             SSCCHHHHHHHHTSCHHH------HHHHHHHHHHTTSEEEET------TTEEEECHHHHHHH
T ss_pred             CCCCHHHHHHHhCCCHHH------HHHHHHHHHHCCCEEEee------CceEEEchhHHHHH
Confidence            689999999999999776      999999999999999876      37899999886544

>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=95.63  E-value=0.0086  Score=45.76  Aligned_cols=68  Identities=15%  Similarity=0.126  Sum_probs=44.0

Q ss_pred             hcChhhHhhhCC-CCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           35 ELRLADIMHCHG-SPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        35 elglfd~L~~~g-~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      ++.++..|...+ +++|..+||+.+++++..      +.++++-|...|++.+....++...-.+.+|+.++.+.
T Consensus        43 q~~vL~~l~~~~~~~~t~~eLa~~l~~~~~~------vs~~l~~L~~~Glv~r~~~~~DrR~~~~~LT~~G~~~~  111 (148)
T 3jw4_A           43 QGRMIGYIYENQESGIIQKDLAQFFGRRGAS------ITSMLQGLEKKGYIERRIPENNARQKNIYVLPKGAALV  111 (148)
T ss_dssp             HHHHHHHHHHHTTTCCCHHHHHHC------C------HHHHHHHHHHTTSBCCC--------CCCCBCHHHHHHH
T ss_pred             HHHHHHHHHhCCCCCCCHHHHHHHHCCChhH------HHHHHHHHHHCCCEEeeCCCCCchhheeeECHHHHHHH
Confidence            345677776643 689999999999999988      99999999999999987522111223578898887544

>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=95.59  E-value=0.027  Score=43.03  Aligned_cols=67  Identities=13%  Similarity=0.176  Sum_probs=50.6

Q ss_pred             hcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           35 ELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        35 elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      ++.|+..|... ++.|..+||+.+++++..      +.++++-|...|++.+....++...-.|.+|+.++.+.
T Consensus        39 ~~~iL~~l~~~-~~~t~~ela~~l~~s~~t------vs~~l~~Le~~glv~r~~~~~d~R~~~~~lT~~G~~~~  105 (155)
T 1s3j_A           39 QLFVLASLKKH-GSLKVSEIAERMEVKPSA------VTLMADRLEQKNLIARTHNTKDRRVIDLSLTDEGDIKF  105 (155)
T ss_dssp             HHHHHHHHHHH-SEEEHHHHHHHHTSCHHH------HHHHHHHHHHTTSEEEEECSSCTTSEEEEECHHHHHHH
T ss_pred             HHHHHHHHHHc-CCCCHHHHHHHHCCCHHH------HHHHHHHHHHCCCEeecCCCCCCceEEEEECHHHHHHH
Confidence            34477777764 689999999999998766      99999999999999987521111123588899886544

>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=95.58  E-value=0.0052  Score=46.39  Aligned_cols=69  Identities=17%  Similarity=0.235  Sum_probs=52.2

Q ss_pred             HhcChhhHhhhCC-CCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           34 VELRLADIMHCHG-SPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        34 ~elglfd~L~~~g-~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      .++.++..|...+ +++|..+||+.+++++..      +.++++-|...|++.+....++...-.+.+|+.++.+.
T Consensus        32 ~~~~vL~~l~~~~~~~~t~~ela~~l~~~~~t------vs~~l~~Le~~Gli~r~~~~~D~R~~~~~LT~~G~~~~  101 (139)
T 3eco_A           32 EQGHTLGYLYAHQQDGLTQNDIAKALQRTGPT------VSNLLRNLERKKLIYRYVDAQDTRRKNIGLTTSGIKLV  101 (139)
T ss_dssp             HHHHHHHHHHHSTTTCEEHHHHHHHHTCCHHH------HHHHHHHHHHTTSEEEEECCC--CCEEEEECHHHHHHH
T ss_pred             HHHHHHHHHHhcCCCCcCHHHHHHHhCCCccc------HHHHHHHHHHCCCEeecCCCCCCCeeeeEECHHHHHHH
Confidence            3455777777653 589999999999998766      99999999999999987522111234588999887554

>2wte_A CSA3; antiviral protein, viral resistance, winged helix-turn-helix prnai nucleotide-binding domain; HET: MSE; 1.80A {Sulfolobus solfataricus}

Probab=95.57  E-value=0.0047  Score=52.16  Aligned_cols=63  Identities=14%  Similarity=0.230  Sum_probs=51.8

Q ss_pred             HhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           34 VELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        34 ~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      .++.|+..|... +++|..|||+.+|+++..      +.|.|+-|...|++.+.+.     ...|++|+.++.+.
T Consensus       153 ~~~~IL~~L~~~-~~~s~~eLA~~lglsksT------v~r~L~~Le~~GlV~r~~r-----~~~~~LT~~G~~l~  215 (244)
T 2wte_A          153 EEMKLLNVLYET-KGTGITELAKMLDKSEKT------LINKIAELKKFGILTQKGK-----DRKVELNELGLNVI  215 (244)
T ss_dssp             HHHHHHHHHHHH-TCBCHHHHHHHHTCCHHH------HHHHHHHHHHTTSEEEETT-----TTEEEECHHHHHHH
T ss_pred             HHHHHHHHHHHc-CCCCHHHHHHHHCcCHHH------HHHHHHHHHHCCCEEEeCC-----ccEEEECHHHHHHH
Confidence            345567777554 689999999999999766      9999999999999998752     47899999987554

>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=95.55  E-value=0.011  Score=44.68  Aligned_cols=68  Identities=13%  Similarity=0.231  Sum_probs=52.3

Q ss_pred             HhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           34 VELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        34 ~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      .++.|+..|... +++|..+||+.+++++..      +.+.++-|...|++......++...-.+.+|+.++.+.
T Consensus        38 ~~~~iL~~l~~~-~~~~~~ela~~l~~~~~t------vs~~l~~L~~~gli~r~~~~~d~R~~~~~lT~~G~~~~  105 (142)
T 2bv6_A           38 PQFLVLTILWDE-SPVNVKKVVTELALDTGT------VSPLLKRMEQVDLIKRERSEVDQREVFIHLTDKSETIR  105 (142)
T ss_dssp             HHHHHHHHHHHS-SEEEHHHHHHHTTCCTTT------HHHHHHHHHHTTSEEEEECSSSTTCEEEEECHHHHHHH
T ss_pred             HHHHHHHHHHHc-CCcCHHHHHHHHCCChhh------HHHHHHHHHHCCCEEeecCCCCcceEEEEEChHHHHHH
Confidence            355677788764 689999999999999888      99999999999999887622111223588899886544

>2rdp_A Putative transcriptional regulator MARR; PFAM PF01047, winged-helix binding motif, structural genomics, PSI-2; 2.30A {Geobacillus stearothermophilus}

Probab=95.54  E-value=0.031  Score=42.44  Aligned_cols=67  Identities=13%  Similarity=0.237  Sum_probs=50.3

Q ss_pred             hcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           35 ELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        35 elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      ++.++..|... +++|..+||+.+++++..      +.++++-|...|++......++...-.+.+|+.++.+.
T Consensus        44 ~~~iL~~l~~~-~~~t~~ela~~l~~~~~t------vs~~l~~Le~~Glv~r~~~~~d~R~~~~~lT~~G~~~~  110 (150)
T 2rdp_A           44 QFVALQWLLEE-GDLTVGELSNKMYLACST------TTDLVDRMERNGLVARVRDEHDRRVVRIRLLEKGERII  110 (150)
T ss_dssp             HHHHHHHHHHH-CSBCHHHHHHHHTCCHHH------HHHHHHHHHHTTSEEEEECCC---CEEEEECHHHHHHH
T ss_pred             HHHHHHHHHHc-CCCCHHHHHHHHCCCchh------HHHHHHHHHHCCCeeecCCCCCcceeEeEECHhHHHHH
Confidence            34577777764 689999999999998766      99999999999999986521111223588999887544

>3oop_A LIN2960 protein; protein structure initiative, PSI-2, structural genomics, MI center for structural genomics, MCSG, unknown function; 1.78A {Listeria innocua}

Probab=95.54  E-value=0.0044  Score=47.09  Aligned_cols=68  Identities=18%  Similarity=0.289  Sum_probs=51.6

Q ss_pred             HhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           34 VELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        34 ~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      .++.|+..|... +++|..|||+.+++++..      +.++++-|...|++.+....++...-.+.+|+.++.+.
T Consensus        38 ~~~~iL~~l~~~-~~~t~~eLa~~l~~~~~~------vs~~l~~L~~~Glv~r~~~~~D~R~~~~~LT~~G~~~~  105 (143)
T 3oop_A           38 EQWSVLEGIEAN-EPISQKEIALWTKKDTPT------VNRIVDVLLRKELIVREISTEDRRISLLSLTDKGRKET  105 (143)
T ss_dssp             HHHHHHHHHHHH-SSEEHHHHHHHHTCCHHH------HHHHHHHHHHTTSEEEEC----CCSCEEEECHHHHHHH
T ss_pred             HHHHHHHHHHHc-CCcCHHHHHHHHCCCHhh------HHHHHHHHHHCCCeeccCCCccCceeeeeECHHHHHHH
Confidence            345577777764 789999999999998766      99999999999999986522111234688999887544

>2jt1_A PEFI protein; solution structure, winged helix-turn-helix, transcripti regulatory protein, structural genomics, PSI-2; NMR {Salmonella typhimurium LT2}

Probab=95.53  E-value=0.0034  Score=43.22  Aligned_cols=45  Identities=18%  Similarity=0.279  Sum_probs=38.8

Q ss_pred             hhhHhhhC-----CCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           38 LADIMHCH-----GSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        38 lfd~L~~~-----g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      |++.|...     |+|.|+.|||+.+|+++..      +.+-|..|...|++....
T Consensus         9 IL~~I~~~i~~~~g~~psv~EIa~~lgvS~~T------Vrr~L~~Le~kG~I~R~~   58 (77)
T 2jt1_A            9 IISIVQERQNMDDGAPVKTRDIADAAGLSIYQ------VRLYLEQLHDVGVLEKVN   58 (77)
T ss_dssp             HHHHHHHHHHHHTTSCEEHHHHHHHHTCCHHH------HHHHHHHHHHTTSEEEES
T ss_pred             HHHHHHHHHhhccCCCcCHHHHHHHHCCCHHH------HHHHHHHHHHCCcEEecC
Confidence            56666654     6899999999999997655      999999999999999875

>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=95.47  E-value=0.05  Score=41.48  Aligned_cols=66  Identities=11%  Similarity=0.201  Sum_probs=47.9

Q ss_pred             hcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc-cCCCC-CCceEeCchhchhhh
Q 042491           35 ELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR-SSDGS-EETMYGLTQISKWLL  108 (266)
Q Consensus        35 elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~-~~~~~-g~~~y~lt~~s~~l~  108 (266)
                      ++.++..| .. +++|..|||+.+++++..      +.++++-|...|++.+.. .+..| ..-.+.+|+.++.+.
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-EALTVGQITEKQGVNKAA------VSRRVKKLLNAELVKLEKPDSNTDQRLKIIKLSNKGKKYI  107 (151)
T ss_dssp             HHHHHHHH-HH-SCBCHHHHHHHHCSCSSH------HHHHHHHHHHTTSEEC-----------CCBEECHHHHHHH
T ss_pred             HHHHHHHH-Hc-CCcCHHHHHHHHCCCHHH------HHHHHHHHHHCCCEEeeCCCCCCCCCeeEEEECHhHHHHH
Confidence            34478888 43 799999999999999888      999999999999999731 11111 123478888886544

>2efj_A 3,7-dimethylxanthine methyltransferase; SAM-dependant methyltransferase, SAH, theobromine; HET: SAH 37T; 2.00A {Coffea canephora} PDB: 2eg5_A*

Probab=95.46  E-value=0.026  Score=50.72  Aligned_cols=70  Identities=14%  Similarity=0.090  Sum_probs=50.8

Q ss_pred             CceEEEecCCchHHHHHHHHH-----------------CCCCeEEEeecH-----------H-HHhhC-----CCCCC--
Q 042491          193 IRSLVDVGGGTGEELAEIVEF-----------------YPHIKGVNFDLP-----------H-VVATA-----PVYEG--  236 (266)
Q Consensus       193 ~~~vvDvGgG~G~~~~~l~~~-----------------~P~l~~~~~Dlp-----------~-v~~~a-----~~~~r--  236 (266)
                      .-+|+|+||++|.....++..                 .|+++++.-|+|           . ..+..     ...+.  
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            679999999999998877776                 588888889997           1 11111     11112  


Q ss_pred             eEEEEccCCC-CCCC--ccEEEecccccc
Q 042491          237 VSHVGGDMLN-AVPN--ADAVFMKVIVLI  262 (266)
Q Consensus       237 i~~~~gd~~~-~~p~--aD~~~l~~vLHd  262 (266)
                      +.-++|.|+. -+|.  .|+++.+..||=
T Consensus       133 ~~gvpgSFy~rlfp~~S~d~v~Ss~aLHW  161 (384)
T 2efj_A          133 IGAMPGSFYSRLFPEESMHFLHSCYCLHW  161 (384)
T ss_dssp             EEECCSCTTSCCSCTTCEEEEEEESCTTB
T ss_pred             EEecchhhhhccCCCCceEEEEecceeee
Confidence            4557788998 4884  999999999994

>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=95.45  E-value=0.0084  Score=45.16  Aligned_cols=68  Identities=15%  Similarity=0.166  Sum_probs=50.6

Q ss_pred             hcChhhHhhhCCC-CCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           35 ELRLADIMHCHGS-PITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        35 elglfd~L~~~g~-~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      ++.++..|...++ ++|..+||+.+++++..      +.++++-|...|++.+....++...-.+.+|+.++.+.
T Consensus        36 ~~~iL~~l~~~~~~~~~~~ela~~l~~~~~t------vs~~l~~Le~~Gli~r~~~~~d~R~~~i~lT~~G~~~~  104 (141)
T 3bro_A           36 QMTIIDYLSRNKNKEVLQRDLESEFSIKSST------ATVLLQRMEIKKLLYRKVSGKDSRQKCLKLTKKANKLE  104 (141)
T ss_dssp             HHHHHHHHHHTTTSCCBHHHHHHHHTCCHHH------HHHHHHHHHHTTSEEEEECSSCTTSEEEEECHHHHTTH
T ss_pred             HHHHHHHHHHCCCCCcCHHHHHHHHCCCcch------HHHHHHHHHHCCCEEeeCCCcCCCeeeeEECHHHHHHH
Confidence            4456777776532 89999999999998766      99999999999999887522111223588899886544

>3e6m_A MARR family transcriptional regulator; APC88769, silicibacter pomeroyi DSS, structural genomics, PSI-2, protein structure initiative; 2.20A {Silicibacter pomeroyi}

Probab=95.43  E-value=0.025  Score=43.82  Aligned_cols=67  Identities=25%  Similarity=0.197  Sum_probs=51.5

Q ss_pred             hcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           35 ELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        35 elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      ++.|+..|... +++|..+||+.+++++..      +.++++-|...|++.+....++...-.+.+|+.++.+.
T Consensus        55 q~~vL~~l~~~-~~~t~~eLa~~l~~~~~~------vs~~l~~Le~~Glv~r~~~~~DrR~~~~~LT~~G~~~~  121 (161)
T 3e6m_A           55 KLRLLSSLSAY-GELTVGQLATLGVMEQST------TSRTVDQLVDEGLAARSISDADQRKRTVVLTRKGKKKL  121 (161)
T ss_dssp             HHHHHHHHHHH-SEEEHHHHHHHTTCCHHH------HHHHHHHHHHTTSEEECC---CCCSCEEEECHHHHHHH
T ss_pred             HHHHHHHHHhC-CCCCHHHHHHHHCCCHHH------HHHHHHHHHHCCCEEeeCCcccCCeeEeeECHHHHHHH
Confidence            45577778765 689999999999998766      99999999999999987632212234689999887544

>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=0.0062  Score=47.88  Aligned_cols=68  Identities=21%  Similarity=0.213  Sum_probs=49.9

Q ss_pred             hcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           35 ELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        35 elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      ++.|+..|...++++|..|||+.++++...      +.++++-|...|++.+....++...-.+.+|+.++.+.
T Consensus        55 q~~vL~~L~~~~~~~t~~eLa~~l~i~~~t------vs~~l~~Le~~GlV~r~~~~~DrR~~~l~LT~~G~~~~  122 (166)
T 3deu_A           55 HWVTLHNIHQLPPDQSQIQLAKAIGIEQPS------LVRTLDQLEDKGLISRQTCASDRRAKRIKLTEKAEPLI  122 (166)
T ss_dssp             HHHHHHHHHHSCSSEEHHHHHHHHTSCHHH------HHHHHHHHHHTTSEEEC--------CEEEECGGGHHHH
T ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHCCCHhh------HHHHHHHHHHCCCEEeeCCCCCCCeeEEEECHHHHHHH
Confidence            455777777644679999999999998766      99999999999999987632111234688999887554

>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=95.38  E-value=0.007  Score=45.50  Aligned_cols=67  Identities=19%  Similarity=0.227  Sum_probs=50.8

Q ss_pred             hcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           35 ELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        35 elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      ++.++..|... ++.|..+||+.+++++..      +.++++-|...|++.+....++...-.+.+|+.++.+.
T Consensus        36 ~~~iL~~l~~~-~~~~~~~la~~l~~~~~t------vs~~l~~L~~~gli~r~~~~~d~R~~~~~lT~~G~~~~  102 (138)
T 1jgs_A           36 QFKVLCSIRCA-ACITPVELKKVLSVDLGA------LTRMLDRLVCKGWVERLPNPNDKRGVLVKLTTGGAAIC  102 (138)
T ss_dssp             HHHHHHHHHHH-SSBCHHHHHHHHTCCHHH------HHHHHHHHHHTTSEEEEECTTCSSCEEEEECHHHHHHH
T ss_pred             HHHHHHHHHhc-CCCCHHHHHHHHCCChHH------HHHHHHHHHHCCCEEecCCcccCceeEeEEChhHHHHH
Confidence            45567777654 689999999999998766      99999999999999986521111223588999887544

>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=95.35  E-value=0.0038  Score=47.44  Aligned_cols=67  Identities=13%  Similarity=0.165  Sum_probs=49.9

Q ss_pred             hcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           35 ELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        35 elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      ++.|+..|... +++|..|||+.+++++..      +.++++-|...|++.+....++...-.+.+|+.++.+.
T Consensus        38 q~~vL~~l~~~-~~~t~~eLa~~l~~~~~t------vs~~l~~L~~~Glv~r~~~~~D~R~~~~~LT~~G~~~~  104 (140)
T 3hsr_A           38 GYIVLMAIEND-EKLNIKKLGERVFLDSGT------LTPLLKKLEKKDYVVRTREEKDERNLQISLTEQGKAIK  104 (140)
T ss_dssp             HHHHHHHSCTT-CEEEHHHHHHHHTCCHHH------HHHHHHHHHHTTSEEEEC-------CEEEECHHHHHTH
T ss_pred             HHHHHHHHHHc-CCcCHHHHHHHHCCChhh------HHHHHHHHHHCCCeEecCCCCCcceeeeeEChHHHHHH
Confidence            34566777654 789999999999998766      99999999999999987532111234689999987644

>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=95.32  E-value=0.0081  Score=42.84  Aligned_cols=64  Identities=16%  Similarity=0.157  Sum_probs=49.9

Q ss_pred             hcChhhHhhhCCCCCCHHHH----HhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           35 ELRLADIMHCHGSPITLPQL----ASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        35 elglfd~L~~~g~~~t~~eL----A~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      ++.++..|... ++.|..+|    |+.+++++..      +.++++-|...|++.+....   ....|.+|+.++.+.
T Consensus        10 q~~iL~~l~~~-~~~~~~el~~~la~~l~is~~t------vs~~l~~Le~~gli~r~~~~---r~~~~~LT~~G~~~~   77 (99)
T 1tbx_A           10 EAIVLAYLYDN-EGIATYDLYKKVNAEFPMSTAT------FYDAKKFLIQEGFVKERQER---GEKRLYLTEKGKLFA   77 (99)
T ss_dssp             HHHHHHHHTTC-TTCBHHHHHHHHHTTSCCCHHH------HHHHHHHHHHTTSEEEEEET---TEEEEEECHHHHHHH
T ss_pred             HHHHHHHHHHc-CCcCHHHHHHHHHHHcCCCHHH------HHHHHHHHHHCCCEEEEecC---CceEEEECHHHHHHH
Confidence            34566677654 68999999    9999998766      99999999999999886410   134689999887554

>2y75_A HTH-type transcriptional regulator CYMR; DNA binding protein; 2.00A {Bacillus subtilis}

Probab=95.31  E-value=0.0065  Score=45.76  Aligned_cols=47  Identities=23%  Similarity=0.227  Sum_probs=38.1

Q ss_pred             CCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCch
Q 042491           46 GSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQ  102 (266)
Q Consensus        46 g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~  102 (266)
                      +++.|..|||+.+|+++..      +.++|+.|...|++.....    ..|.|.++.
T Consensus        24 ~~~~s~~ela~~~~i~~~~------v~~il~~L~~~Glv~~~~g----~~ggy~L~~   70 (129)
T 2y75_A           24 EGPTSLKSIAQTNNLSEHY------LEQLVSPLRNAGLVKSIRG----AYGGYVLGS   70 (129)
T ss_dssp             SCCBCHHHHHHHTTSCHHH------HHHHHHHHHHTTSEEEC--------CCEEESS
T ss_pred             CCcCCHHHHHHHHCcCHHH------HHHHHHHHHHCCceEecCC----CCCceEeCC
Confidence            3789999999999999766      9999999999999987641    036788765

>2fbh_A Transcriptional regulator PA3341; MARR, transcription regulator, APC5857, structural genomics, protein structure initiative; 1.80A {Pseudomonas aeruginosa} SCOP: a.4.5.28

Probab=95.28  E-value=0.01  Score=44.87  Aligned_cols=67  Identities=16%  Similarity=0.179  Sum_probs=50.4

Q ss_pred             hcChhhHh-hhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           35 ELRLADIM-HCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        35 elglfd~L-~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      ++.++..| .. +++.|..+||+.+++++..      +.++++-|...|++......++...-.+.+|+.++.+.
T Consensus        39 ~~~iL~~l~~~-~~~~t~~~la~~l~~s~~~------vs~~l~~L~~~glv~r~~~~~d~R~~~~~lT~~G~~~~  106 (146)
T 2fbh_A           39 RWLVLLHLARH-RDSPTQRELAQSVGVEGPT------LARLLDGLESQGLVRRLAVAEDRRAKHIVLTPKADVLI  106 (146)
T ss_dssp             HHHHHHHHHHC-SSCCBHHHHHHHHTCCHHH------HHHHHHHHHHTTSEEEECCBTTBCSCEEEECTTHHHHH
T ss_pred             HHHHHHHHHHc-CCCCCHHHHHHHhCCChhh------HHHHHHHHHHCCCeeecCCCcccCeeeeEECHhHHHHH
Confidence            34577777 54 3789999999999998776      99999999999999987522111233588888876544

>4hbl_A Transcriptional regulator, MARR family; HTH, transcription factor, DNA binding; 2.50A {Staphylococcus epidermidis}

Probab=95.27  E-value=0.02  Score=43.74  Aligned_cols=68  Identities=16%  Similarity=0.197  Sum_probs=49.4

Q ss_pred             HhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           34 VELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        34 ~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      .++.|+..|... +++|..+||+.+++++..      +.++++-|...|++.+....++...-.+.+|+.++.+.
T Consensus        42 ~q~~iL~~l~~~-~~~~~~eLa~~l~~~~~~------vs~~l~~L~~~Glv~r~~~~~D~R~~~~~LT~~G~~~~  109 (149)
T 4hbl_A           42 SQYLVMLTLWEE-NPQTLNSIGRHLDLSSNT------LTPMLKRLEQSGWVKRERQQSDKRQLIITLTDNGQQQQ  109 (149)
T ss_dssp             HHHHHHHHHHHS-SSEEHHHHHHHHTCCHHH------HHHHHHHHHHHTSEEC---------CEEEECSHHHHHH
T ss_pred             HHHHHHHHHHHC-CCCCHHHHHHHHCCCHHH------HHHHHHHHHHCCCEeeCCCCCCcceeeeeECHHHHHHH
Confidence            345677788764 789999999999998766      99999999999999987522111234588999887544

>2nnn_A Probable transcriptional regulator; structural genomics, PSI-2, protein structure initiative, M center for structural genomics, MCSG; 2.40A {Pseudomonas aeruginosa}

Probab=95.24  E-value=0.0049  Score=46.42  Aligned_cols=67  Identities=12%  Similarity=0.148  Sum_probs=50.9

Q ss_pred             hcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           35 ELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        35 elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      ++.|+..|... +++|..+||+.+++++..      +.++++-|...|++......++...-.|.+|+.++.+.
T Consensus        40 ~~~iL~~l~~~-~~~t~~ela~~l~~~~~t------vs~~l~~L~~~glv~r~~~~~d~R~~~~~lT~~G~~~~  106 (140)
T 2nnn_A           40 QWAALVRLGET-GPCPQNQLGRLTAMDAAT------IKGVVERLDKRGLIQRSADPDDGRRLLVSLSPAGRAEL  106 (140)
T ss_dssp             HHHHHHHHHHH-SSBCHHHHHHHTTCCHHH------HHHHHHHHHHTTCEEEEEETTEEEEEEEEECHHHHHHH
T ss_pred             HHHHHHHHHHc-CCCCHHHHHHHHCCCHHH------HHHHHHHHHHCCCEEeeCCCCCCCeeeeEECHhHHHHH
Confidence            56688888764 689999999999998766      99999999999999986421000112488999886544

>2fa5_A Transcriptional regulator MARR/EMRR family; multiple antibiotics resistance repressor, XCC structural genomics, X-RAY diffraction; 1.80A {Xanthomonas campestris}

Probab=95.18  E-value=0.0086  Score=46.39  Aligned_cols=67  Identities=13%  Similarity=0.234  Sum_probs=48.6

Q ss_pred             hcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           35 ELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        35 elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      ++.|+..|... +++|..+||+.+++++..      +.++++-|...|++.+....++...-.|.+|+.++.+.
T Consensus        51 ~~~iL~~l~~~-~~~t~~ela~~l~is~~t------vs~~l~~Le~~glv~r~~~~~d~R~~~~~lT~~G~~~~  117 (162)
T 2fa5_A           51 EWRVITILALY-PGSSASEVSDRTAMDKVA------VSRAVARLLERGFIRRETHGDDRRRSMLALSPAGRQVY  117 (162)
T ss_dssp             HHHHHHHHHHS-TTCCHHHHHHHHTCCHHH------HHHHHHHHHHTTSEEC---------CCCEECHHHHHHH
T ss_pred             HHHHHHHHHhC-CCCCHHHHHHHHCCCHHH------HHHHHHHHHHCCCEeeecCCCCCCeeEEEECHHHHHHH
Confidence            45577888764 789999999999998766      99999999999999886521111124588888886544

>3tgn_A ADC operon repressor ADCR; helix-turn-helix, transcriptional regulator, transcription; 2.00A {Streptococcus pneumoniae}

Probab=95.16  E-value=0.0091  Score=45.33  Aligned_cols=67  Identities=21%  Similarity=0.369  Sum_probs=47.9

Q ss_pred             HhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           34 VELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        34 ~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      .++.|+..|... + +|..|||+.+|+++..      +.++++-|...|++.+....++...-.|.+|+.+..+.
T Consensus        39 ~~~~iL~~l~~~-~-~t~~eLa~~l~~s~~t------vs~~l~~L~~~Glv~r~~~~~d~R~~~~~lT~~g~~~~  105 (146)
T 3tgn_A           39 TQEHILMLLSEE-S-LTNSELARRLNVSQAA------VTKAIKSLVKEGMLETSKDSKDARVIFYQLTDLARPIA  105 (146)
T ss_dssp             HHHHHHHHHTTC-C-CCHHHHHHHHTCCHHH------HHHHHHHHHHTTSEEC----------CCEECGGGHHHH
T ss_pred             HHHHHHHHHHhC-C-CCHHHHHHHHCCCHHH------HHHHHHHHHHCCCeEeccCCCCCceeEEEECHhHHHHH
Confidence            456677888773 4 9999999999999776      99999999999999886521111234588888886544

>2x4h_A Hypothetical protein SSO2273; transcription; 2.30A {Sulfolobus solfataricus}

Probab=95.14  E-value=0.01  Score=44.98  Aligned_cols=50  Identities=12%  Similarity=0.135  Sum_probs=43.7

Q ss_pred             CCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           46 GSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        46 g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      +++.|..+||+.+++++..      +.+.++.|...|++.+..       ..|.+|+.+..+.
T Consensus        29 ~~~~s~~ela~~l~is~~t------v~~~l~~Le~~Gli~r~~-------~~~~Lt~~g~~~~   78 (139)
T 2x4h_A           29 GEGAKINRIAKDLKIAPSS------VFEEVSHLEEKGLVKKKE-------DGVWITNNGTRSI   78 (139)
T ss_dssp             TSCBCHHHHHHHHTCCHHH------HHHHHHHHHHTTSEEEET-------TEEEECHHHHHHH
T ss_pred             CCCcCHHHHHHHhCCChHH------HHHHHHHHHHCCCEEecC-------CeEEEChhHHHHH
Confidence            4789999999999998766      999999999999999876       6899999886543

>4aik_A Transcriptional regulator SLYA; transcription, transcription factor; 1.85A {Yersinia pseudotuberculosis} PDB: 4aih_A 4aij_A 3qpt_A* 3q5f_A*

Probab=95.14  E-value=0.015  Score=44.99  Aligned_cols=68  Identities=22%  Similarity=0.214  Sum_probs=51.0

Q ss_pred             hcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           35 ELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        35 elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      ++.++-.|...+++.+..|||+.+++++..      +.++++-|...|++.+....++...-.+.+|+.++.+.
T Consensus        33 q~~vL~~L~~~~~~~~~~eLa~~l~~~~~t------vs~~v~~Le~~GlV~R~~~~~DrR~~~l~LT~~G~~~~  100 (151)
T 4aik_A           33 HWVTLYNINRLPPEQSQIQLAKAIGIEQPS------LVRTLDQLEEKGLITRHTSANDRRAKRIKLTEQSSPII  100 (151)
T ss_dssp             HHHHHHHHHHSCTTSCHHHHHHHHTSCHHH------HHHHHHHHHHTTSEEEEECSSCTTCEEEEECGGGHHHH
T ss_pred             HHHHHHHHHHcCCCCcHHHHHHHHCcCHHH------HHHHHHHHHhCCCeEeecCCCCCcchhhhcCHHHHHHH
Confidence            344566666545678889999999999776      99999999999999977632212234588999987554

>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=95.13  E-value=0.011  Score=45.57  Aligned_cols=68  Identities=15%  Similarity=0.176  Sum_probs=51.9

Q ss_pred             HhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           34 VELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        34 ~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      .++.|+..|... +++|..+||+.+++++..      +.++++-|...|++.+....++...-.|.+|+.++.+.
T Consensus        45 ~~~~iL~~l~~~-~~~t~~ela~~l~is~~t------vs~~l~~Le~~Gli~r~~~~~d~R~~~~~lT~~G~~~~  112 (154)
T 2eth_A           45 TELYAFLYVALF-GPKKMKEIAEFLSTTKSN------VTNVVDSLEKRGLVVREMDPVDRRTYRVVLTEKGKEIF  112 (154)
T ss_dssp             HHHHHHHHHHHH-CCBCHHHHHHHTTSCHHH------HHHHHHHHHHTTSEEEEECTTTSSCEEEEECHHHHHHH
T ss_pred             HHHHHHHHHHHc-CCCCHHHHHHHHCCCHHH------HHHHHHHHHHCCCEEeeCCCCCcceeEEEECHHHHHHH
Confidence            456678888764 689999999999998766      99999999999999886521111223588999887544

>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=95.13  E-value=0.033  Score=54.62  Aligned_cols=68  Identities=16%  Similarity=0.181  Sum_probs=47.8

Q ss_pred             CCCCceEEEecCCchHHHHHHHHHCCC---CeEEEeec-HHHHhhC--C------C----CCCeEEEEccCCCC----CC
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEFYPH---IKGVNFDL-PHVVATA--P------V----YEGVSHVGGDMLNA----VP  249 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~~P~---l~~~~~Dl-p~v~~~a--~------~----~~ri~~~~gd~~~~----~p  249 (266)
                      +....+|+|.|||+|.++.+++++.++   .++.++|+ |.+++.+  +      .    .+...+...|++.+    .+
T Consensus       319 l~~g~rVLDPaCGSG~FLIaaA~~l~ei~~~~IyGvEIDp~Al~LAK~RlNL~lN~LlhGi~~~~I~~dD~L~~~~~~~~  398 (878)
T 3s1s_A          319 LTEDEVISDPAAGSGNLLATVSAGFNNVMPRQIWANDIETLFLELLSIRLGLLFPQLVSSNNAPTITGEDVCSLNPEDFA  398 (878)
T ss_dssp             CCTTCEEEETTCTTSHHHHHHHHTSTTCCGGGEEEECSCGGGHHHHHHHHHTTSTTTCBTTBCCEEECCCGGGCCGGGGT
T ss_pred             CCCCCEEEECCCCccHHHHHHHHHhcccCCCeEEEEECCHHHHHHHHHHHHHHHhhhhcCCCcceEEecchhcccccccC
Confidence            345679999999999999999998873   57899998 5555444  1      0    12245666777762    22


Q ss_pred             CccEEEec
Q 042491          250 NADAVFMK  257 (266)
Q Consensus       250 ~aD~~~l~  257 (266)
                      .+|+|+..
T Consensus       399 kFDVVIgN  406 (878)
T 3s1s_A          399 NVSVVVMN  406 (878)
T ss_dssp             TEEEEEEC
T ss_pred             CCCEEEEC
Confidence            49998863

>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=95.11  E-value=0.047  Score=45.68  Aligned_cols=74  Identities=12%  Similarity=0.110  Sum_probs=52.0

Q ss_pred             HHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeecHHHHhhCC----C--CCCeEEEEc-cCCC-CCCCcc
Q 042491          181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAP----V--YEGVSHVGG-DMLN-AVPNAD  252 (266)
Q Consensus       181 ~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~a~----~--~~ri~~~~g-d~~~-~~p~aD  252 (266)
                      .+.+.+-  +....+|||+||+.|.+..-.+....-.++..+|+-..-..-+    .  -+-|+|+.+ |++. +--.+|
T Consensus        69 ei~ek~~--l~~g~~VvDLGaapGGWSq~~a~~~g~~~V~avdvG~~ghe~P~~~~s~gwn~v~fk~gvDv~~~~~~~~D  146 (267)
T 3p8z_A           69 WFVERNM--VIPEGRVIDLGCGRGGWSYYCAGLKKVTEVRGYTKGGPGHEEPVPMSTYGWNIVKLMSGKDVFYLPPEKCD  146 (267)
T ss_dssp             HHHHTTS--SCCCEEEEEESCTTSHHHHHHHTSTTEEEEEEECCCSTTSCCCCCCCCTTTTSEEEECSCCGGGCCCCCCS
T ss_pred             HHHHhcC--CCCCCEEEEcCCCCCcHHHHHHHhcCCCEEEEEecCCCCccCcchhhhcCcCceEEEeccceeecCCcccc
Confidence            4455553  6666799999999999999887777666888999833211111    1  367999999 9776 222389


Q ss_pred             EEEe
Q 042491          253 AVFM  256 (266)
Q Consensus       253 ~~~l  256 (266)
                      ++++
T Consensus       147 tllc  150 (267)
T 3p8z_A          147 TLLC  150 (267)
T ss_dssp             EEEE
T ss_pred             EEEE
Confidence            8876

>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=95.09  E-value=0.0073  Score=45.25  Aligned_cols=63  Identities=21%  Similarity=0.280  Sum_probs=48.5

Q ss_pred             HHHHHHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCC-ceEeCchh
Q 042491           29 ALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEE-TMYGLTQI  103 (266)
Q Consensus        29 ~L~~a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~-~~y~lt~~  103 (266)
                      +|.--.++.|+..|..  ++.++.|||+.+|+++..      +.+.|+.|...|++.....    |. -.|++++.
T Consensus        42 aL~~~~rl~IL~~L~~--~~~s~~ela~~lgis~st------vs~~L~~Le~~Glv~~~~~----gr~~~y~l~~~  105 (122)
T 1r1t_A           42 VLADPNRLRLLSLLAR--SELCVGDLAQAIGVSESA------VSHQLRSLRNLRLVSYRKQ----GRHVYYQLQDH  105 (122)
T ss_dssp             HHCCHHHHHHHHHHTT--CCBCHHHHHHHHTCCHHH------HHHHHHHHHHTTSEEEEEE----TTEEEEEESSH
T ss_pred             HhCCHHHHHHHHHHHc--CCCCHHHHHHHHCcCHHH------HHHHHHHHHHCCCeEEEEe----CCEEEEEEChH
Confidence            3334456778888875  689999999999999776      9999999999999987652    11 24777664

>3cjn_A Transcriptional regulator, MARR family; silicibacter pomeroy structural genomics, PSI-2, protein structure initiative; 1.95A {Silicibacter pomeroyi dss-3}

Probab=95.07  E-value=0.0089  Score=46.35  Aligned_cols=68  Identities=16%  Similarity=0.173  Sum_probs=51.7

Q ss_pred             HhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           34 VELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        34 ~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      .++.|+..|... +++|..+||+.+++++..      +.++++-|...|++.+....++...-.|.+|+.++.+.
T Consensus        53 ~~~~iL~~l~~~-~~~t~~ela~~l~is~~t------vs~~l~~Le~~Gli~r~~~~~d~R~~~~~lT~~G~~~~  120 (162)
T 3cjn_A           53 AKMRALAILSAK-DGLPIGTLGIFAVVEQST------LSRALDGLQADGLVRREVDSDDQRSSRVYLTPAGRAVY  120 (162)
T ss_dssp             HHHHHHHHHHHS-CSEEHHHHHHHHTCCHHH------HHHHHHHHHHTTSEEEEEC--CCSSEEEEECHHHHHHH
T ss_pred             HHHHHHHHHHHC-CCCCHHHHHHHHCCChhH------HHHHHHHHHHCCCEEecCCCCCCCeeEEEECHHHHHHH
Confidence            345678888764 689999999999998766      99999999999999986521111233588999886544

>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=95.04  E-value=0.01  Score=44.97  Aligned_cols=67  Identities=12%  Similarity=0.058  Sum_probs=50.8

Q ss_pred             hcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           35 ELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        35 elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      ++.++..|... +++|..+||+.+++++..      +.++++-|...|++.......+...-.+.+|+.++.+.
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-PGIIQEKIAELIKVDRTT------AARAIKRLEEQGFIYRQEDASNKKIKRIYATEKGKNVY   97 (144)
T ss_dssp             HHHHHHHHHHS-TTEEHHHHHHHHTCCHHH------HHHHHHHHHHTTSEEEEECSSCTTCEEEEECHHHHHHH
T ss_pred             HHHHHHHHHHC-cCcCHHHHHHHHCCCHhH------HHHHHHHHHHCCCEEeecCCCCCceeeeEEChhHHHHH
Confidence            34477777764 689999999999998766      99999999999999987522111223488999886544

>2pex_A Transcriptional regulator OHRR; transcription regulator; 1.90A {Xanthomonas campestris} PDB: 2pfb_A

Probab=94.99  E-value=0.0095  Score=45.71  Aligned_cols=68  Identities=12%  Similarity=0.231  Sum_probs=50.7

Q ss_pred             hcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhhc
Q 042491           35 ELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLLR  109 (266)
Q Consensus        35 elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~~  109 (266)
                      ++.|+..|... +++|..+||+.+++++..      +.++++-|...|++.+....++...-.+.+|+.++.+..
T Consensus        49 ~~~iL~~l~~~-~~~t~~ela~~l~~s~~t------vs~~l~~Le~~glv~r~~~~~d~R~~~~~lT~~G~~~~~  116 (153)
T 2pex_A           49 QYLVMLVLWET-DERSVSEIGERLYLDSAT------LTPLLKRLQAAGLVTRTRAASDERQVIIALTETGRALRS  116 (153)
T ss_dssp             HHHHHHHHHHS-CSEEHHHHHHHHTCCHHH------HHHHHHHHHHTTSEEEEC-------CEEEECHHHHHGGG
T ss_pred             HHHHHHHHHhC-CCcCHHHHHHHhCCCccc------HHHHHHHHHHCCCEeecCCcccCCeeEeeECHHHHHHHH
Confidence            45577778764 689999999999998766      999999999999999865211111235889998876553

>3s2w_A Transcriptional regulator, MARR family; structural genomics, PSI-biology, protein structure initiati midwest center for structural genomics; 2.45A {Methanosarcina mazei}

Probab=94.96  E-value=0.0087  Score=46.37  Aligned_cols=66  Identities=17%  Similarity=0.094  Sum_probs=50.2

Q ss_pred             cChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           36 LRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        36 lglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      +.++..|... +++|..|||+.+++++..      +.++++-|...|++.+....++...-.+.+|+.++.+.
T Consensus        53 ~~vL~~l~~~-~~~t~~eLa~~l~~~~~t------vs~~l~~Le~~Glv~r~~~~~DrR~~~l~LT~~G~~~~  118 (159)
T 3s2w_A           53 FPFLMRLYRE-DGINQESLSDYLKIDKGT------TARAIQKLVDEGYVFRQRDEKDRRSYRVFLTEKGKKLE  118 (159)
T ss_dssp             HHHHHHHHHS-CSEEHHHHHHHHTCCHHH------HHHHHHHHHHTTSEEEEECC---CCEEEEECHHHHHHH
T ss_pred             HHHHHHHHHC-CCCCHHHHHHHHCCCHHH------HHHHHHHHHHCCCEEEecCCCCCCeeEEEECHHHHHHH
Confidence            4467777664 789999999999998766      99999999999999987522111223588999887544

>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=94.94  E-value=0.029  Score=52.73  Aligned_cols=66  Identities=24%  Similarity=0.255  Sum_probs=48.1

Q ss_pred             CCceEEEecCCchHHHHHHHHHCC------------------CCeEEEeec-HHHHhhCCC------CC-----CeEEEE
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYP------------------HIKGVNFDL-PHVVATAPV------YE-----GVSHVG  241 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P------------------~l~~~~~Dl-p~v~~~a~~------~~-----ri~~~~  241 (266)
                      ...+|+|.+||+|.++..+.+...                  ..++.++|+ |.++..++.      .+     ++.++.
T Consensus       169 ~~~~VlDPaCGSG~fLi~a~~~l~~~~~~~~~~~~~~~~~~~~~~i~GiEid~~~~~lA~~nl~l~gi~~~~~~~~~I~~  248 (541)
T 2ar0_A          169 PREVVQDPAAGTAGFLIEADRYVKSQTNDLDDLDGDTQDFQIHRAFIGLELVPGTRRLALMNCLLHDIEGNLDHGGAIRL  248 (541)
T ss_dssp             TTCCEEETTCTTTHHHHHHHHHHHTTTTTTTTSCHHHHHHHHHTSEEEEESCHHHHHHHHHHHHTTTCCCBGGGTBSEEE
T ss_pred             CCCeEecCCcccchHHHHHHHHHHHhhcccccCCHHHHhhhhcceEEEEcCCHHHHHHHHHHHHHhCCCccccccCCeEe
Confidence            456999999999999988876532                  247899998 665554432      22     378899


Q ss_pred             ccCCC-C---CCCccEEEec
Q 042491          242 GDMLN-A---VPNADAVFMK  257 (266)
Q Consensus       242 gd~~~-~---~p~aD~~~l~  257 (266)
                      +|.+. +   .+.+|+|+..
T Consensus       249 gDtL~~~~~~~~~fD~Vv~N  268 (541)
T 2ar0_A          249 GNTLGSDGENLPKAHIVATN  268 (541)
T ss_dssp             SCTTSHHHHTSCCEEEEEEC
T ss_pred             CCCcccccccccCCeEEEEC
Confidence            99987 2   2359999874

>3bpv_A Transcriptional regulator; MARR, DNA binding, transcription factor, winged helix motif, DNA-binding; 1.40A {Methanobacterium thermoautotrophicum} PDB: 3bpx_A*

Probab=94.92  E-value=0.0079  Score=45.14  Aligned_cols=67  Identities=13%  Similarity=0.193  Sum_probs=49.9

Q ss_pred             hcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           35 ELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        35 elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      ++.++..|... ++.|..|||+.+++++..      +.++++-|...|++.......+...-.|.+|+.++.+.
T Consensus        31 ~~~iL~~l~~~-~~~~~~ela~~l~~s~~t------vs~~l~~L~~~glv~~~~~~~d~R~~~~~lT~~G~~~~   97 (138)
T 3bpv_A           31 QVACLLRIHRE-PGIKQDELATFFHVDKGT------IARTLRRLEESGFIEREQDPENRRRYILEVTRRGEEII   97 (138)
T ss_dssp             HHHHHHHHHHS-TTCBHHHHHHHHTCCHHH------HHHHHHHHHHTTSEEEEEETTEEEEEEEEECHHHHHTH
T ss_pred             HHHHHHHHHHc-CCCCHHHHHHHHCCCHHH------HHHHHHHHHHCCCEEeecCCCCceeEEeeECHhHHHHH
Confidence            45567777764 789999999999998766      99999999999999986421000112378888886544

>1xn7_A Hypothetical protein YHGG; alpha+beta, GFT structural genomics, protein structure initiative, PSI, NESG; NMR {Escherichia coli} SCOP: a.4.5.62

Probab=94.92  E-value=0.011  Score=40.84  Aligned_cols=43  Identities=14%  Similarity=0.281  Sum_probs=39.0

Q ss_pred             hhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCccccc
Q 042491           38 LADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAH   87 (266)
Q Consensus        38 lfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~   87 (266)
                      |.+.|... +.+++.|||+.+++++..      ++|-|..|...|++.+.
T Consensus         7 Il~~L~~~-g~vsv~eLa~~l~VS~~T------IRrdL~~Le~~G~l~R~   49 (78)
T 1xn7_A            7 VRDLLALR-GRMEAAQISQTLNTPQPM------INAMLQQLESMGKAVRI   49 (78)
T ss_dssp             HHHHHHHS-CSBCHHHHHHHTTCCHHH------HHHHHHHHHHHTSEEEE
T ss_pred             HHHHHHHc-CCCcHHHHHHHHCcCHHH------HHHHHHHHHHCCCEEEe
Confidence            66778775 789999999999999876      99999999999999988

>2htj_A P fimbrial regulatory protein KS71A; winged helix-turn-helix, PAP PILI, transcription activator; NMR {Escherichia coli} SCOP: a.4.5.73

Probab=94.86  E-value=0.0095  Score=41.04  Aligned_cols=45  Identities=9%  Similarity=0.156  Sum_probs=38.5

Q ss_pred             cChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCccccc
Q 042491           36 LRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAH   87 (266)
Q Consensus        36 lglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~   87 (266)
                      ..|++.|... +++|..|||+.+|+++..      +.+.|+.|...|++...
T Consensus         3 ~~Il~~L~~~-~~~s~~eLa~~lgvs~~t------v~r~L~~L~~~GlI~~~   47 (81)
T 2htj_A            3 NEILEFLNRH-NGGKTAEIAEALAVTDYQ------ARYYLLLLEKAGMVQRS   47 (81)
T ss_dssp             HHHHHHHHHS-CCCCHHHHHHHHTSCHHH------HHHHHHHHHHHTSEEEE
T ss_pred             HHHHHHHHHc-CCCCHHHHHHHHCcCHHH------HHHHHHHHHHCCCEEEe
Confidence            3467777764 689999999999998766      99999999999999854

>1i4w_A Mitochondrial replication protein MTF1; mitochondrial transcription factor, transcription initiation; 2.60A {Saccharomyces cerevisiae} SCOP: c.66.1.24

Probab=94.85  E-value=0.068  Score=47.47  Aligned_cols=54  Identities=11%  Similarity=-0.015  Sum_probs=41.1

Q ss_pred             CceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCC---CCCCeEEEEccCCC
Q 042491          193 IRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAP---VYEGVSHVGGDMLN  246 (266)
Q Consensus       193 ~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~---~~~ri~~~~gd~~~  246 (266)
                      ...|||||.|.|.+...|+++...-++++++. +..++..+   ..+|++++.+|+++
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            47899999999999999999754457888877 22222222   35799999999976

>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=94.82  E-value=0.0089  Score=45.44  Aligned_cols=69  Identities=14%  Similarity=0.259  Sum_probs=52.4

Q ss_pred             HhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhhc
Q 042491           34 VELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLLR  109 (266)
Q Consensus        34 ~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~~  109 (266)
                      .++.|+..|... +++|..+||+.+++++..      +.++++-|...|++......++...-.+.+|+.++.+..
T Consensus        41 ~~~~iL~~l~~~-~~~~~~~la~~l~~~~~t------vs~~l~~L~~~glv~r~~~~~d~R~~~~~LT~~G~~~~~  109 (147)
T 1z91_A           41 PQYLALLLLWEH-ETLTVKKMGEQLYLDSGT------LTPMLKRMEQQGLITRKRSEEDERSVLISLTEDGALLKE  109 (147)
T ss_dssp             HHHHHHHHHHHH-SEEEHHHHHHTTTCCHHH------HHHHHHHHHHHTSEECCBCSSCTTSBEEEECHHHHSGGG
T ss_pred             HHHHHHHHHHHC-CCCCHHHHHHHHCCCcCc------HHHHHHHHHHCCCEEeccCCCCCCeeEEEECHhHHHHHH
Confidence            345577777764 689999999999998766      999999999999999875221112335889999875553

>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=94.80  E-value=0.05  Score=43.50  Aligned_cols=71  Identities=14%  Similarity=0.142  Sum_probs=53.9

Q ss_pred             HHhcChhhHhhhC-CCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhhc
Q 042491           33 AVELRLADIMHCH-GSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLLR  109 (266)
Q Consensus        33 a~elglfd~L~~~-g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~~  109 (266)
                      ..++.|+..|... ++++|..+||+.+++++..      +.++++-|...|++.+....++...-.+.+|+.++.+..
T Consensus        41 ~~q~~vL~~L~~~~~~~~t~~eLa~~l~is~~t------vs~~l~~Le~~GlV~r~~~~~DrR~~~l~LT~~G~~~~~  112 (189)
T 3nqo_A           41 SRQYMTILSILHLPEEETTLNNIARKMGTSKQN------INRLVANLEKNGYVDVIPSPHDKRAINVKVTDLGKKVMV  112 (189)
T ss_dssp             HHHHHHHHHHHHSCGGGCCHHHHHHHHTSCHHH------HHHHHHHHHHTTSEEEEECSSCSSCEEEEECHHHHHHHH
T ss_pred             HHHHHHHHHHHhccCCCcCHHHHHHHHCCCHHH------HHHHHHHHHHCCCEEeccCCCCCCeeEEEECHHHHHHHH
Confidence            3456677778752 2689999999999998766      999999999999999876322122346899999875543

>2k02_A Ferrous iron transport protein C; FEOC, iron-sulfur, metal-binding, metal binding protein; NMR {Klebsiella pneumoniae subsp}

Probab=94.79  E-value=0.01  Score=41.79  Aligned_cols=44  Identities=11%  Similarity=0.243  Sum_probs=39.5

Q ss_pred             hhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           38 LADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        38 lfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      |.+.|... +.+++.|||+.+++++..      ++|-|..|...|++.+..
T Consensus         7 Il~~L~~~-g~vsv~eLA~~l~VS~~T------IRrDL~~Le~~G~l~R~~   50 (87)
T 2k02_A            7 VRDMLALQ-GRMEAKQLSARLQTPQPL------IDAMLERMEAMGKVVRIS   50 (87)
T ss_dssp             HHHHHHHS-CSEEHHHHHHHTTCCHHH------HHHHHHHHHTTCCSEEEE
T ss_pred             HHHHHHHc-CCCcHHHHHHHHCcCHHH------HHHHHHHHHHCCCEEEEe
Confidence            66778775 799999999999999876      999999999999999984

>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=94.78  E-value=0.018  Score=43.06  Aligned_cols=68  Identities=10%  Similarity=0.223  Sum_probs=50.9

Q ss_pred             hcChhhHhhhC-CCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           35 ELRLADIMHCH-GSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        35 elglfd~L~~~-g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      ++.++..|... ++++|..|||+.+++++..      +.++++-|...|++.+....++...-.+.+|+.++.+.
T Consensus        39 q~~vL~~l~~~~~~~~t~~eLa~~l~~~~~t------vs~~l~~Le~~Glv~r~~~~~D~R~~~i~LT~~G~~~~  107 (127)
T 2frh_A           39 EFAVLTYISENKEKEYYLKDIINHLNYKQPQ------VVKAVKILSQEDYFDKKRNEHDERTVLILVNAQQRKKI  107 (127)
T ss_dssp             HHHHHHHHHHTCCSEEEHHHHHHHSSSHHHH------HHHHHHHHHHTTSSCCBCCSSSSCCCEEECCSHHHHHH
T ss_pred             HHHHHHHHHhccCCCcCHHHHHHHHCCCHHH------HHHHHHHHHHCCCEEecCCCCCCCeeEEEECHHHHHHH
Confidence            34566667653 2679999999999998766      99999999999999986522212234588999987544

>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=94.78  E-value=0.0077  Score=45.64  Aligned_cols=68  Identities=9%  Similarity=0.143  Sum_probs=51.0

Q ss_pred             HhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           34 VELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        34 ~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      .++.|+..|... +++|..+||+.+++++..      +.++++-|...|++......++...-.|.+|+.++.+.
T Consensus        34 ~~~~iL~~l~~~-~~~~~~~la~~l~~s~~t------vs~~l~~L~~~glv~r~~~~~d~r~~~~~lT~~G~~~~  101 (145)
T 2a61_A           34 AQFDILQKIYFE-GPKRPGELSVLLGVAKST------VTGLVKRLEADGYLTRTPDPADRRAYFLVITRKGEEVI  101 (145)
T ss_dssp             HHHHHHHHHHHH-CCBCHHHHHHHHTCCHHH------HHHHHHHHHHTTSEEEEEETTEEEEEEEEECHHHHHHH
T ss_pred             HHHHHHHHHHHc-CCCCHHHHHHHHCCCchh------HHHHHHHHHHCCCeeecCCCCCCceEEEEECHHHHHHH
Confidence            356677777764 689999999999998766      99999999999999986521000112488999887544

>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=94.71  E-value=0.0078  Score=43.12  Aligned_cols=48  Identities=10%  Similarity=0.285  Sum_probs=40.6

Q ss_pred             HhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           34 VELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        34 ~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      .++.|+..|... ++.|..|||+.+|+++..      +.+.++.|...|++....
T Consensus        21 ~~~~il~~l~~~-~~~s~~ela~~l~is~~t------v~~~l~~L~~~glv~~~~   68 (109)
T 1sfx_A           21 SDVRIYSLLLER-GGMRVSEIARELDLSARF------VRDRLKVLLKRGFVRREI   68 (109)
T ss_dssp             HHHHHHHHHHHH-CCBCHHHHHHHHTCCHHH------HHHHHHHHHHTTSEEEEE
T ss_pred             HHHHHHHHHHHc-CCCCHHHHHHHHCCCHHH------HHHHHHHHHHCCCEEEEe
Confidence            355567777653 689999999999998766      999999999999999875

>3khk_A Type I restriction-modification system methylation subunit; structural genomics, PSI-2, protein structure initiative; 2.55A {Methanosarcina mazei}

Probab=94.70  E-value=0.015  Score=54.67  Aligned_cols=64  Identities=19%  Similarity=0.171  Sum_probs=46.4

Q ss_pred             ceEEEecCCchHHHHHHHHHCC---------------CCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCC-C-C
Q 042491          194 RSLVDVGGGTGEELAEIVEFYP---------------HIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLN-A-V  248 (266)
Q Consensus       194 ~~vvDvGgG~G~~~~~l~~~~P---------------~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~-~-~  248 (266)
                      .+|+|.+||+|.++.++.+..+               +.++.++|+ |.++..++.       ..+|.+..||.+. + .
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            4999999999999998866543               567899998 666555442       2345558899887 3 3


Q ss_pred             C--CccEEEec
Q 042491          249 P--NADAVFMK  257 (266)
Q Consensus       249 p--~aD~~~l~  257 (266)
                      +  .+|+|+..
T Consensus       326 ~~~~fD~Iv~N  336 (544)
T 3khk_A          326 PDLRADFVMTN  336 (544)
T ss_dssp             TTCCEEEEEEC
T ss_pred             ccccccEEEEC
Confidence            3  39999874

>2lnb_A Z-DNA-binding protein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, immune system; NMR {Homo sapiens}

Probab=94.69  E-value=0.0096  Score=40.50  Aligned_cols=55  Identities=18%  Similarity=0.319  Sum_probs=47.6

Q ss_pred             hcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCc
Q 042491           35 ELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLT  101 (266)
Q Consensus        35 elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt  101 (266)
                      +-.|++.|.++|+|++..|||+.+|++...      +.+.+..|-..|.+.-..      .-.|.++
T Consensus        21 eekVLe~LkeaG~PlkageIae~~GvdKKe------VdKaik~LKkEgkI~SPk------RCyw~~~   75 (80)
T 2lnb_A           21 EQRILQVLTEAGSPVKLAQLVKECQAPKRE------LNQVLYRMKKELKVSLTS------PATWCLG   75 (80)
T ss_dssp             HHHHHHHHHHHTSCEEHHHHHHHHTSCHHH------HHHHHHHHHHTTSEEEEE------TTEEEES
T ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHCCCHHH------HHHHHHHHHHcCCccCCC------CceeeCC
Confidence            556888999988999999999999999877      999999999999988776      3567665

>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=94.65  E-value=0.055  Score=47.69  Aligned_cols=73  Identities=14%  Similarity=0.247  Sum_probs=56.7

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeecHHHHhhCCC---------------------------CCCeEEEEccC
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPV---------------------------YEGVSHVGGDM  244 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~a~~---------------------------~~ri~~~~gd~  244 (266)
                      +...||.+|||-.+..-.+...+|+++++=+|+|++++..++                           .+++.+++.|+
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            568999999999999999999999999999999999875332                           27899999999


Q ss_pred             CC-CC----------CC-ccEEEeccccccCC
Q 042491          245 LN-AV----------PN-ADAVFMKVIVLIQD  264 (266)
Q Consensus       245 ~~-~~----------p~-aD~~~l~~vLHd~~  264 (266)
                      .+ ++          |+ ..+++.--+|++.+
T Consensus       177 ~d~~w~~~ll~~~~d~~~Ptl~iaEgvL~YL~  208 (334)
T 1rjd_A          177 NDITETTRLLDVCTKREIPTIVISECLLCYMH  208 (334)
T ss_dssp             TCHHHHHHHHHTTCCTTSCEEEEEESCGGGSC
T ss_pred             CCcHHHHHHHHhcCCCCCCEEEEEcchhhCCC
Confidence            88 23          12 34666656665543

>3r0a_A Putative transcriptional regulator; structural genomics, PSI-biology, midwest center for structu genomics, MCSG; 2.31A {Methanosarcina mazei}

Probab=94.62  E-value=0.012  Score=44.14  Aligned_cols=48  Identities=13%  Similarity=0.216  Sum_probs=40.9

Q ss_pred             hcChhhHhhhCCCC-CCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           35 ELRLADIMHCHGSP-ITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        35 elglfd~L~~~g~~-~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      +..|+..|...+++ +|+.|||+.++++...      +.|.|+.|...|++.+..
T Consensus        28 e~~il~~L~~~~~~~~t~~eLa~~l~~s~sT------V~r~L~~L~~~GlV~r~~   76 (123)
T 3r0a_A           28 DLNVMKSFLNEPDRWIDTDALSKSLKLDVST------VQRSVKKLHEKEILQRSQ   76 (123)
T ss_dssp             HHHHHHHHHHSTTCCEEHHHHHHHHTSCHHH------HHHHHHHHHHTTSEEEEE
T ss_pred             HHHHHHHHHHCCCCCcCHHHHHHHHCcCHHH------HHHHHHHHHHCCCEEeeC
Confidence            55677888765556 9999999999998766      999999999999998864

>3u2r_A Regulatory protein MARR; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, helix-turn-helix; 2.20A {Planctomyces limnophilus}

Probab=94.61  E-value=0.034  Score=43.40  Aligned_cols=69  Identities=20%  Similarity=0.279  Sum_probs=49.2

Q ss_pred             HhcChhhHhhhCC-CCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           34 VELRLADIMHCHG-SPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        34 ~elglfd~L~~~g-~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      .++.|+..|...| +++|..+||+.+++++..      +.++++-|...|++.+....++...-.+.+|+.++.+.
T Consensus        47 ~q~~vL~~l~~~~~~~~t~~eLa~~l~~~~~t------vs~~l~~Le~~Glv~r~~~~~DrR~~~l~LT~~G~~~~  116 (168)
T 3u2r_A           47 QQYNTLRLLRSVHPEGMATLQIADRLISRAPD------ITRLIDRLDDRGLVLRTRKPENRRVVEVALTDAGLKLL  116 (168)
T ss_dssp             HHHHHHHHHHHHTTSCEEHHHHHHHC---CTH------HHHHHHHHHHTTSEEEEEETTEEEEEEEEECHHHHHHH
T ss_pred             HHHHHHHHHHhcCCCCcCHHHHHHHHCCChhh------HHHHHHHHHHCCCEeecCCCCCCCeeEeEECHHHHHHH
Confidence            3455777777652 689999999999999887      99999999999999987521100112588999887554

>2fbi_A Probable transcriptional regulator; MARR, APC5816, structural genomic protein structure initiative; 2.10A {Pseudomonas aeruginosa} SCOP: a.4.5.28

Probab=94.53  E-value=0.0073  Score=45.52  Aligned_cols=68  Identities=18%  Similarity=0.248  Sum_probs=51.0

Q ss_pred             HhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           34 VELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        34 ~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      .++.|+..|... +++|..+||+.+++++..      +.++++-|...|++......++...-.|.+|+.++.+.
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-GEMESYQLANQACILRPS------MTGVLARLERDGIVRRWKAPKDQRRVYVNLTEKGQQCF  104 (142)
T ss_dssp             HHHHHHHHHHHH-CSEEHHHHHHHTTCCHHH------HHHHHHHHHHTTSEEEEEETTEEEEEEEEECHHHHHHH
T ss_pred             HHHHHHHHHHHc-CCCCHHHHHHHHCCCHhH------HHHHHHHHHHCCCEEeecCCCCCCeeEEEECHHHHHHH
Confidence            356677788764 689999999999998766      99999999999999886421000112488999887544

>2fbk_A Transcriptional regulator, MARR family; winged-helix-turn-helix; 2.30A {Deinococcus radiodurans} SCOP: a.4.5.28

Probab=94.44  E-value=0.012  Score=46.71  Aligned_cols=68  Identities=16%  Similarity=0.181  Sum_probs=49.7

Q ss_pred             hcChhhHhhhCCCC--CCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           35 ELRLADIMHCHGSP--ITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        35 elglfd~L~~~g~~--~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      ++.|+..|...+.+  +|..+||+.+++++..      +.++++-|...|++.+....++...-.+.+|+.++.+.
T Consensus        71 ~~~iL~~L~~~~~~~~~t~~eLa~~l~is~~t------vs~~l~~Le~~GlV~r~~~~~DrR~~~~~LT~~G~~~~  140 (181)
T 2fbk_A           71 GWDLLLTLYRSAPPEGLRPTELSALAAISGPS------TSNRIVRLLEKGLIERREDERDRRSASIRLTPQGRALV  140 (181)
T ss_dssp             HHHHHHHHHHHCCSSCBCHHHHHHHCSCCSGG------GSSHHHHHHHHTSEECCC-------CCBEECHHHHHHH
T ss_pred             HHHHHHHHHHcCCCCCCCHHHHHHHHCCCHHH------HHHHHHHHHHCcCEEecCCCCCCCeeEEEECHHHHHHH
Confidence            45577888765433  9999999999999887      99999999999999987521111123588898886544

>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=94.40  E-value=0.015  Score=45.06  Aligned_cols=59  Identities=22%  Similarity=0.177  Sum_probs=43.6

Q ss_pred             HHHHHHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchh
Q 042491           29 ALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQI  103 (266)
Q Consensus        29 ~L~~a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~  103 (266)
                      +|++.+.+...   .  +++.|.++||+.+++++..      +.+++..|...|++....     |.|.|.++.-
T Consensus        16 Al~~L~~La~~---~--~~~~~~~~iA~~~~i~~~~------l~kil~~L~~~Glv~s~r-----G~GGy~L~~~   74 (149)
T 1ylf_A           16 AVHILSILKNN---P--SSLCTSDYMAESVNTNPVV------IRKIMSYLKQAGFVYVNR-----GPGGAGLLKD   74 (149)
T ss_dssp             HHHHHHHHHHS---C--GGGCCHHHHHHHHTSCHHH------HHHHHHHHHHTTSEEEC--------CCEEESSC
T ss_pred             HHHHHHHHHhC---C--CCCcCHHHHHHHHCcCHHH------HHHHHHHHHHCCcEEEcc-----CCCceEeCCC
Confidence            45555544331   2  3689999999999999765      999999999999998765     2477877663

>3lkd_A Type I restriction-modification system methyltransferase subunit; Q5M500_STRT2, STU0711, NESG, SUR80, structural genomics, PSI-2; 2.25A {Streptococcus thermophilus}

Probab=94.36  E-value=0.029  Score=52.72  Aligned_cols=66  Identities=23%  Similarity=0.219  Sum_probs=50.6

Q ss_pred             CCceEEEecCCchHHHHHHHHHC---CCCeEEEeec-HHHHhhCCC--------CCCeEEEEccCCCC-CC-----CccE
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFY---PHIKGVNFDL-PHVVATAPV--------YEGVSHVGGDMLNA-VP-----NADA  253 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~---P~l~~~~~Dl-p~v~~~a~~--------~~ri~~~~gd~~~~-~p-----~aD~  253 (266)
                      ...+|+|.+||+|.++..+.+..   +..++.++|+ |.++..++.        .+++.+..+|.+.. +|     .+|+
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            45699999999999999999885   3578999998 555554432        25688999999873 33     3999


Q ss_pred             EEec
Q 042491          254 VFMK  257 (266)
Q Consensus       254 ~~l~  257 (266)
                      |+..
T Consensus       301 IvaN  304 (542)
T 3lkd_A          301 VLMN  304 (542)
T ss_dssp             EEEC
T ss_pred             EEec
Confidence            9864

>4g6q_A Putative uncharacterized protein; structural genomics, PSI-biology, protein structure initiati midwest center for structural genomics, MCSG; 2.08A {Kribbella flavida}

Probab=94.25  E-value=0.052  Score=43.47  Aligned_cols=73  Identities=19%  Similarity=0.233  Sum_probs=52.6

Q ss_pred             HHHHHHHHhcChhhHhhhCCCCCCHHHHHhhcC-CCCCCCCchhhHHHHHHHHhccCcccccccCCCCC--CceEeCchh
Q 042491           27 SMALKSAVELRLADIMHCHGSPITLPQLASGIN-SSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSE--ETMYGLTQI  103 (266)
Q Consensus        27 ~~~L~~a~elglfd~L~~~g~~~t~~eLA~~~g-~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g--~~~y~lt~~  103 (266)
                      .++|.--.++.|+..|..  ++.|+.+||+.++ ++...      +.+.|+.|...|+++...+.-..|  ...|++++.
T Consensus        17 ~~~La~P~Rl~il~~L~~--~~~~~~~l~~~l~~~~~~~------~s~Hl~~L~~aglv~~~~e~~~~g~~er~y~~~~~   88 (182)
T 4g6q_A           17 VDLLHHPLRWRITQLLIG--RSLTTRELAELLPDVATTT------LYRQVGILVKAGVLMVTAEHQVRGAVERTYTLNTQ   88 (182)
T ss_dssp             HHHTTSHHHHHHHHHTTT--SCEEHHHHHHHCTTBCHHH------HHHHHHHHHHHTSEEEEEEEEETTEEEEEEEECTT
T ss_pred             HHHhCCHHHHHHHHHHHh--CCCCHHHHHHHhcCCCHHH------HHHHHHHHHHCCCeEEEEeecccCcceeEEEeccc
Confidence            345555677888899976  7999999999996 87655      999999999999998655210001  235887776


Q ss_pred             chhh
Q 042491          104 SKWL  107 (266)
Q Consensus       104 s~~l  107 (266)
                      +..+
T Consensus        89 ~~~~   92 (182)
T 4g6q_A           89 AGDA   92 (182)
T ss_dssp             TTTS
T ss_pred             cccC
Confidence            5433

>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=94.23  E-value=0.029  Score=40.16  Aligned_cols=55  Identities=22%  Similarity=0.257  Sum_probs=45.8

Q ss_pred             CCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           46 GSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        46 g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      |++.+..+||+.++++...      |.|.|.-|...|++.....  +|+.+...+|+.++.+.
T Consensus        34 g~~~s~~eLa~~l~l~~st------LsR~l~rLe~~GLV~r~~~--~D~R~~v~LT~~G~~~l   88 (96)
T 2obp_A           34 ATPWSLPKIAKRAQLPMSV------LRRVLTQLQAAGLADVSVE--ADGRGHASLTQEGAALA   88 (96)
T ss_dssp             CCCCBHHHHHHHHTCCHHH------HHHHHHHHHHTTSEEEEEC--TTSCEEEEECHHHHHHH
T ss_pred             CCCcCHHHHHHHhCCchhh------HHHHHHHHHHCCCEEeecC--CCCceeEEECHHHHHHH
Confidence            3689999999999999777      9999999999999998653  45556689999887543

>2h09_A Transcriptional regulator MNTR; transcription regulator, diphtheria toxin, manganese transport, structural genomics, NPPSFA; 2.10A {Escherichia coli}

Probab=94.01  E-value=0.037  Score=42.68  Aligned_cols=57  Identities=16%  Similarity=0.156  Sum_probs=46.2

Q ss_pred             hhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           39 ADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        39 fd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      ...|.. +++.|..+||+.+|+++..      +.+.++.|...|++....      ...+.+|+.+..+.
T Consensus        46 ~~~l~~-~~~~~~~~la~~l~vs~~t------vs~~l~~Le~~Glv~r~~------~~~~~lT~~g~~~~  102 (155)
T 2h09_A           46 SDLIRE-VGEARQVDMAARLGVSQPT------VAKMLKRLATMGLIEMIP------WRGVFLTAEGEKLA  102 (155)
T ss_dssp             HHHHHH-HSCCCHHHHHHHHTSCHHH------HHHHHHHHHHTTCEEEET------TTEEEECHHHHHHH
T ss_pred             HHHHHh-CCCcCHHHHHHHhCcCHHH------HHHHHHHHHHCCCEEEec------CCceEEChhHHHHH
Confidence            335554 3679999999999998766      999999999999998875      36788999886544

>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=94.01  E-value=0.017  Score=40.94  Aligned_cols=52  Identities=13%  Similarity=0.155  Sum_probs=40.2

Q ss_pred             CCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           48 PITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        48 ~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      ++|..+||+.+++++..      +.++++-|...|++.... +  .....|++|+.++.+.
T Consensus        30 ~~t~~eLa~~l~i~~~t------vs~~l~~Le~~Glv~~~~-d--~R~~~v~LT~~G~~~~   81 (95)
T 2qvo_A           30 DVYIQYIASKVNSPHSY------VWLIIKKFEEAKMVECEL-E--GRTKIIRLTDKGQKIA   81 (95)
T ss_dssp             CEEHHHHHHHSSSCHHH------HHHHHHHHHHTTSEEEEE-E--TTEEEEEECHHHHHHH
T ss_pred             CcCHHHHHHHHCcCHHH------HHHHHHHHHHCcCccCCC-C--CCeEEEEEChhHHHHH
Confidence            49999999999998766      999999999999993222 0  0112599999987554

>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=93.99  E-value=0.022  Score=40.39  Aligned_cols=62  Identities=21%  Similarity=0.236  Sum_probs=45.6

Q ss_pred             hcChhhHhhhCC-CCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCch
Q 042491           35 ELRLADIMHCHG-SPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQ  102 (266)
Q Consensus        35 elglfd~L~~~g-~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~  102 (266)
                      ++.|+..|..+| .+++..|||++++++...      +.++|+.|...|++.+.....++..-.|.+.+
T Consensus        22 q~~Vl~~I~~~g~~gi~qkeLa~~~~l~~~t------vt~iLk~LE~kglIkr~~~~~~~~rKvy~Ly~   84 (91)
T 2dk5_A           22 EKLVYQIIEDAGNKGIWSRDVRYKSNLPLTE------INKILKNLESKKLIKAVKSVAASKKKVYMLYN   84 (91)
T ss_dssp             HHHHHHHHHHHCTTCEEHHHHHHHTTCCHHH------HHHHHHHHHHTTSEEEECCSSCSSCCEEEESS
T ss_pred             HHHHHHHHHHcCCCCcCHHHHHHHHCCCHHH------HHHHHHHHHHCCCEEEecCCCCCCcEEEEEec
Confidence            345777777643 479999999999999776      99999999999999965532222233455544

>2lkp_A Transcriptional regulator, ARSR family; symmetric homodimer, NI(II) binding protein, DNA binding Pro transcription regulator; NMR {Mycobacterium tuberculosis}

Probab=93.83  E-value=0.019  Score=42.28  Aligned_cols=52  Identities=21%  Similarity=0.373  Sum_probs=43.5

Q ss_pred             HHHHHHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           29 ALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        29 ~L~~a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      +|....++.|+..|..  ++.|..+||+.+|+++..      +.+.|+.|...|++....
T Consensus        28 ~l~~~~~~~il~~L~~--~~~s~~ela~~l~is~st------vsr~l~~Le~~Glv~~~~   79 (119)
T 2lkp_A           28 ALATPSRLMILTQLRN--GPLPVTDLAEAIGMEQSA------VSHQLRVLRNLGLVVGDR   79 (119)
T ss_dssp             HHCCHHHHHHHHHHHH--CCCCHHHHHHHHSSCHHH------HHHHHHHHHHHCSEEEEE
T ss_pred             HhCCHHHHHHHHHHHH--CCCCHHHHHHHHCcCHHH------HHHHHHHHHHCCCEEEEe
Confidence            3344556778888886  689999999999998776      999999999999998765

>2zkz_A Transcriptional repressor PAGR; protein-DNA, HTH motif, dimer, DN binding, transcription regulation; 2.00A {Bacillus anthracis}

Probab=93.81  E-value=0.015  Score=41.62  Aligned_cols=65  Identities=12%  Similarity=0.254  Sum_probs=45.8

Q ss_pred             HHHHHHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhc
Q 042491           29 ALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQIS  104 (266)
Q Consensus        29 ~L~~a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s  104 (266)
                      +|.--.++.|+..|... ++.|+.|||+.+|+++..      +.+.|+.|... ++......   ..-.|++++..
T Consensus        23 aL~~~~Rl~IL~~l~~~-~~~~~~ela~~l~is~st------vs~hL~~L~~~-lv~~~~~g---r~~~y~l~~~~   87 (99)
T 2zkz_A           23 TMAHPMRLKIVNELYKH-KALNVTQIIQILKLPQST------VSQHLCKMRGK-VLKRNRQG---LEIYYSINNPK   87 (99)
T ss_dssp             HHCSHHHHHHHHHHHHH-SCEEHHHHHHHHTCCHHH------HHHHHHHHBTT-TBEEEEET---TEEEEECCCHH
T ss_pred             HhCCHHHHHHHHHHHHC-CCcCHHHHHHHHCcCHHH------HHHHHHHHHHH-hhhheEeC---cEEEEEEChHH
Confidence            34444556677444332 789999999999999876      99999999999 88765510   01247777643

>3hrs_A Metalloregulator SCAR; DTXR/MNTR family member, transcription; 2.70A {Streptococcus gordonii} PDB: 3hrt_A 3hru_A

Probab=93.58  E-value=0.039  Score=45.35  Aligned_cols=51  Identities=24%  Similarity=0.326  Sum_probs=45.3

Q ss_pred             CCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           46 GSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        46 g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      +++++..+||+.+++++..      +.+.++-|...|++.+..      ...+.+|+.++.+.
T Consensus        18 ~~~~~~~~lA~~l~vs~~t------vs~~l~~Le~~GlV~r~~------~~~i~LT~~G~~~~   68 (214)
T 3hrs_A           18 HNKITNKEIAQLMQVSPPA------VTEMMKKLLAEELLIKDK------KAGYLLTDLGLKLV   68 (214)
T ss_dssp             CSCCCHHHHHHHHTCCHHH------HHHHHHHHHHTTSEEEET------TTEEEECHHHHHHH
T ss_pred             CCCcCHHHHHHHHCCChhH------HHHHHHHHHHCCCEEEec------CCCeEECHHHHHHH
Confidence            4789999999999999776      999999999999999987      47899999987544

>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=93.55  E-value=0.065  Score=45.33  Aligned_cols=73  Identities=18%  Similarity=0.141  Sum_probs=45.1

Q ss_pred             HHHhhcccCCCCCceEEEecCCchHHHHHHHHH--CCCCeEE--EeecHHHHhhCCCCCCe---EEEEc-cCCCCCC-Cc
Q 042491          181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEF--YPHIKGV--NFDLPHVVATAPVYEGV---SHVGG-DMLNAVP-NA  251 (266)
Q Consensus       181 ~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~--~P~l~~~--~~Dlp~v~~~a~~~~ri---~~~~g-d~~~~~p-~a  251 (266)
                      ++-+.+  .+....+|||+||+.|.++.-.++.  ...+++.  ..|+ +..+.......+   +++.| ||++.-| .+
T Consensus        64 EIdeK~--likpg~~VVDLGaAPGGWSQvAa~~~~vg~V~G~vig~D~-~~~P~~~~~~Gv~~i~~~~G~Df~~~~~~~~  140 (269)
T 2px2_A           64 WLVERR--FVQPIGKVVDLGCGRGGWSYYAATMKNVQEVRGYTKGGPG-HEEPMLMQSYGWNIVTMKSGVDVFYKPSEIS  140 (269)
T ss_dssp             HHHHTT--SCCCCEEEEEETCTTSHHHHHHTTSTTEEEEEEECCCSTT-SCCCCCCCSTTGGGEEEECSCCGGGSCCCCC
T ss_pred             HHHHcC--CCCCCCEEEEcCCCCCHHHHHHhhhcCCCCceeEEEcccc-ccCCCcccCCCceEEEeeccCCccCCCCCCC
Confidence            344443  3677899999999999999998886  3222343  3353 111111111455   55557 9998433 49


Q ss_pred             cEEEe
Q 042491          252 DAVFM  256 (266)
Q Consensus       252 D~~~l  256 (266)
                      |+|++
T Consensus       141 DvVLS  145 (269)
T 2px2_A          141 DTLLC  145 (269)
T ss_dssp             SEEEE
T ss_pred             CEEEe
Confidence            99875

>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=93.48  E-value=0.096  Score=46.60  Aligned_cols=72  Identities=18%  Similarity=0.291  Sum_probs=50.0

Q ss_pred             CCCceEEEecCCchHHHHHHHHH----------------CCCCeEEEeecHH-----HHhhCCC---CCC---eEEEEcc
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEF----------------YPHIKGVNFDLPH-----VVATAPV---YEG---VSHVGGD  243 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~----------------~P~l~~~~~Dlp~-----v~~~a~~---~~r---i~~~~gd  243 (266)
                      ++.-+|+|+||++|.....++..                .|++.+..-|+|.     +-.....   ..+   +.-++|.
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            45678999999999665443332                5778888889963     2222221   112   4667899


Q ss_pred             CCC-CCCC--ccEEEecccccc
Q 042491          244 MLN-AVPN--ADAVFMKVIVLI  262 (266)
Q Consensus       244 ~~~-~~p~--aD~~~l~~vLHd  262 (266)
                      |+. .+|.  .|+++.+..||=
T Consensus       130 Fy~rlfp~~S~d~v~Ss~aLHW  151 (359)
T 1m6e_X          130 FYGRLFPRNTLHFIHSSYSLMW  151 (359)
T ss_dssp             SSSCCSCTTCBSCEEEESCTTB
T ss_pred             hhhccCCCCceEEEEehhhhhh
Confidence            998 5884  999999999994

>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=93.40  E-value=0.2  Score=42.81  Aligned_cols=71  Identities=10%  Similarity=-0.064  Sum_probs=41.9

Q ss_pred             CCCCceEEEecCCchHHHHHHHHHCCCCeEEEeecHHHHhh-CCC----CCCeEEEEccCCC-CCC--CccEEEecccc
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVAT-APV----YEGVSHVGGDMLN-AVP--NADAVFMKVIV  260 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~-a~~----~~ri~~~~gd~~~-~~p--~aD~~~l~~vL  260 (266)
                      +....+|||+|||.|.+...+++..|-.+++.+|+-.-... ...    ...+..+..++-. +++  .+|+++.-...
T Consensus        72 l~~~~~VLDLGaAPGGWSQvAa~~~~~~~v~g~dVGvDl~~~pi~~~~~g~~ii~~~~~~dv~~l~~~~~DlVlsD~ap  150 (277)
T 3evf_A           72 VKLEGRVIDLGCGRGGWCYYAAAQKEVSGVKGFTLGRDGHEKPMNVQSLGWNIITFKDKTDIHRLEPVKCDTLLCDIGE  150 (277)
T ss_dssp             SCCCEEEEEETCTTCHHHHHHHTSTTEEEEEEECCCCTTCCCCCCCCBTTGGGEEEECSCCTTTSCCCCCSEEEECCCC
T ss_pred             CCCCCEEEEecCCCCHHHHHHHHhcCCCcceeEEEeccCcccccccCcCCCCeEEEeccceehhcCCCCccEEEecCcc
Confidence            55667999999999999999888876555544544211110 011    1133334454322 344  39999875443

>2esh_A Conserved hypothetical protein TM0937; APC5794, structural genomics, PSI, protein structure initiative; 2.30A {Thermotoga maritima} SCOP: a.4.5.61

Probab=93.30  E-value=0.17  Score=37.35  Aligned_cols=71  Identities=14%  Similarity=0.154  Sum_probs=52.4

Q ss_pred             HHHHHhcChhhHhhhCCCCCCHHHHHhhcC--------CCC-CCCCchhhHHHHHHHHhccCcccccccC-CCCCCceEe
Q 042491           30 LKSAVELRLADIMHCHGSPITLPQLASGIN--------SSC-PDVHIIPSLTRIMRMLVRKGVFAAHRSS-DGSEETMYG   99 (266)
Q Consensus        30 L~~a~elglfd~L~~~g~~~t~~eLA~~~g--------~~~-~~~~~~~~l~rlLr~L~~~gil~~~~~~-~~~g~~~y~   99 (266)
                      +....++-|+..|..  +|.+.-||++.+.        +++ ..      +.+.|+-|...|++...... +++..-.|+
T Consensus        10 ~~~~~~~~IL~~L~~--~~~~gyel~~~l~~~g~~~~~is~~~t------ly~~L~~Le~~GlI~~~~~~~~~~~r~~Y~   81 (118)
T 2esh_A           10 RGWWLASTILLLVAE--KPSHGYELAERLAEFGIEIPGIGHMGN------IYRVLADLEESGFLSTEWDTTVSPPRKIYR   81 (118)
T ss_dssp             HHHHHHHHHHHHHHH--SCBCHHHHHHHHHTTCCSSTTCCCCCC------HHHHHHHHHHTTSEEEEEECSSSSCEEEEE
T ss_pred             ccchHHHHHHHHHHc--CCCCHHHHHHHHHHhCCcccCCCCcch------HHHHHHHHHHCCCeEEEeecCCCCCceEEE
Confidence            344456667777876  7999999999883        677 77      99999999999999876532 111234699


Q ss_pred             Cchhchhhh
Q 042491          100 LTQISKWLL  108 (266)
Q Consensus       100 lt~~s~~l~  108 (266)
                      +|+.++.+.
T Consensus        82 LT~~G~~~l   90 (118)
T 2esh_A           82 ITPQGKLYL   90 (118)
T ss_dssp             ECHHHHHHH
T ss_pred             EChHHHHHH
Confidence            999997433

>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=93.23  E-value=0.036  Score=42.63  Aligned_cols=43  Identities=12%  Similarity=0.187  Sum_probs=36.7

Q ss_pred             CHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchh
Q 042491           50 TLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQI  103 (266)
Q Consensus        50 t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~  103 (266)
                      |.++||+.+++++.-      +.++|..|...|++....     |.|.|+++.-
T Consensus        25 s~~~IA~~~~i~~~~------l~kIl~~L~~aGlv~s~r-----G~GGy~Lar~   67 (145)
T 1xd7_A           25 SSEIIADSVNTNPVV------VRRMISLLKKADILTSRA-----GVPGASLKKD   67 (145)
T ss_dssp             CHHHHHHHHTSCHHH------HHHHHHHHHHTTSEECCS-----SSSSCEESSC
T ss_pred             CHHHHHHHHCcCHHH------HHHHHHHHHHCCceEeec-----CCCCceecCC
Confidence            999999999999765      999999999999998776     2467777653

>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=93.19  E-value=0.084  Score=41.47  Aligned_cols=48  Identities=17%  Similarity=0.245  Sum_probs=40.0

Q ss_pred             CCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchh
Q 042491           46 GSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQI  103 (266)
Q Consensus        46 g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~  103 (266)
                      ++++|.++||+.+++++..      +.+++..|...|++.-...    ..|.|+++.-
T Consensus        26 ~~~~s~~~IA~~~~is~~~------l~kil~~L~~aGlv~s~rG----~~GGy~Lar~   73 (162)
T 3k69_A           26 DSKVASRELAQSLHLNPVM------IRNILSVLHKHGYLTGTVG----KNGGYQLDLA   73 (162)
T ss_dssp             TSCBCHHHHHHHHTSCGGG------THHHHHHHHHTTSSEEECS----TTCEEECCSC
T ss_pred             CCCcCHHHHHHHHCcCHHH------HHHHHHHHHHCCCEEeecC----CCCCeEecCC
Confidence            3689999999999999877      9999999999999977652    1357888763

>3lkz_A Non-structural protein 5; flavivirus, methyltransferase, inhibitor, P nucleotide-binding, RNA replication, viral protein; HET: SFG; 2.00A {West nile virus}

Probab=93.15  E-value=0.1  Score=44.97  Aligned_cols=74  Identities=12%  Similarity=0.115  Sum_probs=48.8

Q ss_pred             HHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeecHHHHhh----CCC--CCCeEEEEc-cCCC-CCCCcc
Q 042491          181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVAT----APV--YEGVSHVGG-DMLN-AVPNAD  252 (266)
Q Consensus       181 ~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~----a~~--~~ri~~~~g-d~~~-~~p~aD  252 (266)
                      .+.+.+.  +....+|||+||++|.+..-.+....-.++..+|+-..-..    .+.  -.-|.++.+ |++. +-..+|
T Consensus        85 ei~~~~~--l~~~~~VlDLGaapGGwsq~~~~~~gv~~V~avdvG~~~he~P~~~~ql~w~lV~~~~~~Dv~~l~~~~~D  162 (321)
T 3lkz_A           85 WLVERRF--LEPVGKVIDLGCGRGGWCYYMATQKRVQEVRGYTKGGPGHEEPQLVQSYGWNIVTMKSGVDVFYRPSECCD  162 (321)
T ss_dssp             HHHHTTS--CCCCEEEEEETCTTCHHHHHHTTCTTEEEEEEECCCSTTSCCCCCCCBTTGGGEEEECSCCTTSSCCCCCS
T ss_pred             HHHHhcC--CCCCCEEEEeCCCCCcHHHHHHhhcCCCEEEEEEcCCCCccCcchhhhcCCcceEEEeccCHhhCCCCCCC
Confidence            3444443  55667999999999999997777766667889998322110    011  133888888 8766 222388


Q ss_pred             EEEe
Q 042491          253 AVFM  256 (266)
Q Consensus       253 ~~~l  256 (266)
                      ++++
T Consensus       163 ~ivc  166 (321)
T 3lkz_A          163 TLLC  166 (321)
T ss_dssp             EEEE
T ss_pred             EEEE
Confidence            8775

>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=93.09  E-value=0.028  Score=45.93  Aligned_cols=67  Identities=12%  Similarity=0.051  Sum_probs=50.3

Q ss_pred             hcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           35 ELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        35 elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      ++.|+..|... +++|..+||+.+++++..      +.++++-|...|++.+....++...-.+.+|+.++.+.
T Consensus        50 q~~iL~~L~~~-~~~t~~eLa~~l~i~~st------vs~~l~~Le~~GlV~r~~~~~DrR~~~l~LT~~G~~~~  116 (207)
T 2fxa_A           50 EHHILWIAYQL-NGASISEIAKFGVMHVST------AFNFSKKLEERGYLRFSKRLNDKRNTYVQLTEEGTEVF  116 (207)
T ss_dssp             HHHHHHHHHHH-TSEEHHHHHHHTTCCHHH------HHHHHHHHHHHTSEEEECC------CEEEECHHHHHHH
T ss_pred             HHHHHHHHHHC-CCcCHHHHHHHHCCCHHH------HHHHHHHHHHCCCEEEecCCCCCceEEEEECHHHHHHH
Confidence            35567777664 689999999999998766      99999999999999987621111223688999987544

>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=93.02  E-value=0.051  Score=38.81  Aligned_cols=60  Identities=10%  Similarity=0.095  Sum_probs=48.0

Q ss_pred             hcChhhHhhhCCCCCCHHHHHh-hcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           35 ELRLADIMHCHGSPITLPQLAS-GINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        35 elglfd~L~~~g~~~t~~eLA~-~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      ++.|+-.|... ++.|..+||+ .++++...      +.|=++.|...|++...+      ++ +.+|+.++.+.
T Consensus        18 QfsiL~~L~~~-~~~t~~~Lae~~l~~drst------vsrnl~~L~r~GlVe~~~------~D-l~LT~~G~~~l   78 (95)
T 1bja_A           18 TATILITIAKK-DFITAAEVREVHPDLGNAV------VNSNIGVLIKKGLVEKSG------DG-LIITGEAQDII   78 (95)
T ss_dssp             HHHHHHHHHHS-TTBCHHHHHHTCTTSCHHH------HHHHHHHHHTTTSEEEET------TE-EEECHHHHHHH
T ss_pred             HHHHHHHHHHC-CCCCHHHHHHHHhcccHHH------HHHHHHHHHHCCCeecCC------CC-eeeCHhHHHHH
Confidence            34566677775 5999999999 99998655      999999999999999333      34 99999987544

>4b8x_A SCO5413, possible MARR-transcriptional regulator; winged helix motif; HET: CME; 1.25A {Streptomyces coelicolor}

Probab=92.92  E-value=0.026  Score=43.31  Aligned_cols=66  Identities=12%  Similarity=0.228  Sum_probs=48.0

Q ss_pred             ChhhHhhhC-CCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           37 RLADIMHCH-GSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        37 glfd~L~~~-g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      .++-.|... ++++|..+||+.+++++..      +.++++-|...|++.+....++...-.+.+|+.++.+.
T Consensus        39 ~vL~~L~~~~~~~~t~~eLa~~l~~~~~t------vs~~v~~Le~~Glv~r~~~~~DrR~~~l~LT~~G~~~~  105 (147)
T 4b8x_A           39 EALVLLTFSKSGELPMSKIGERLMVHPTS------VTNTVDRLVRSGLVAKRPNPNDGRGTLATITDKGREVV  105 (147)
T ss_dssp             HHHHHHHTSGGGEEEHHHHHHHHTCCHHH------HHHHHHHHHHTTSEEEEECC----CEEEEECHHHHHHH
T ss_pred             HHHHHHHHCCCCCcCHHHHHHHHCCCHHH------HHHHHHHHHhCCCEEEeecCCcCceeEEEECHHHHHHH
Confidence            345555322 2679999999999999766      99999999999999987632111223588999887554

>3lwf_A LIN1550 protein, putative transcriptional regulator; structural genomics, JOI for structural genomics, JCSG; HET: SO4; 2.06A {Listeria innocua}

Probab=92.91  E-value=0.05  Score=42.68  Aligned_cols=46  Identities=26%  Similarity=0.317  Sum_probs=39.0

Q ss_pred             CCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCch
Q 042491           47 SPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQ  102 (266)
Q Consensus        47 ~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~  102 (266)
                      ++.|.++||+.+++++.-      +.++|..|...|++.-...    ..|.|.++.
T Consensus        43 ~~~s~~eIA~~~~i~~~~------l~kil~~L~~aGlv~s~rG----~~GGy~Lar   88 (159)
T 3lwf_A           43 GPISLRSIAQDKNLSEHY------LEQLIGPLRNAGIVKSIRG----AHGGYVLNG   88 (159)
T ss_dssp             CCBCHHHHHHHHTCCHHH------HHHHHHHHHHTTSEEEECS----TTCEEEECS
T ss_pred             CCcCHHHHHHHHCcCHHH------HHHHHHHHHHCCeEEEecC----CCCceEecC
Confidence            689999999999999765      9999999999999997762    136788755

>2fe3_A Peroxide operon regulator; oxidative stress regulator, DNA binding protein; 1.75A {Bacillus subtilis} PDB: 3f8n_A 2rgv_A*

Probab=92.85  E-value=0.069  Score=41.05  Aligned_cols=66  Identities=5%  Similarity=0.089  Sum_probs=46.0

Q ss_pred             HHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCc
Q 042491           33 AVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLT  101 (266)
Q Consensus        33 a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt  101 (266)
                      ..+.-|++.|...+++.|++||.+.+.-.- .......+.|.|+.|+..|++.+....  +|..+|.++
T Consensus        22 ~qR~~Il~~L~~~~~~~sa~ei~~~l~~~~-~~is~aTVYR~L~~L~e~Glv~~~~~~--~~~~~Y~~~   87 (145)
T 2fe3_A           22 PQRHAILEYLVNSMAHPTADDIYKALEGKF-PNMSVATVYNNLRVFRESGLVKELTYG--DASSRFDFV   87 (145)
T ss_dssp             HHHHHHHHHHHHCSSCCCHHHHHHHHGGGC-TTCCHHHHHHHHHHHHHTTSEEEECCT--TSCCEEEEC
T ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHhC-CCCChhhHHHHHHHHHHCCCEEEEeeC--CCceEEECC
Confidence            344568888876557999999999993210 011245699999999999999987731  234567654

>2vn2_A DNAD, chromosome replication initiation protein; DNA replication, primosome; 2.3A {Geobacillus kaustophilus HTA426}

Probab=92.82  E-value=0.051  Score=40.89  Aligned_cols=51  Identities=24%  Similarity=0.331  Sum_probs=37.1

Q ss_pred             CCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCC--CceEeCchhc
Q 042491           48 PITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSE--ETMYGLTQIS  104 (266)
Q Consensus        48 ~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g--~~~y~lt~~s  104 (266)
                      ..|..+||+++|+++..      +.+.++.|...|++......+++|  ...|.++|+-
T Consensus        51 ~ps~~~LA~~l~~s~~~------V~~~l~~Le~kGlI~~~~~~~~~g~~~~~Ydl~pl~  103 (128)
T 2vn2_A           51 FPTPAELAERMTVSAAE------CMEMVRRLLQKGMIAIEEHTDEQGIRNEKYTLEPLW  103 (128)
T ss_dssp             SCCHHHHHHTSSSCHHH------HHHHHHHHHHTTSSEECC----------CEECHHHH
T ss_pred             CCCHHHHHHHHCcCHHH------HHHHHHHHHHCCCEEEEeEECCCCcEEEEEehHHHH
Confidence            47999999999999877      999999999999999876322222  2356666644

>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=92.70  E-value=0.083  Score=37.18  Aligned_cols=63  Identities=16%  Similarity=0.139  Sum_probs=45.6

Q ss_pred             hhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhh-HHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           38 LADIMHCHGSPITLPQLASGINSSCPDVHIIPS-LTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        38 lfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~-l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      ++..|...+.+.|..|||+.+++++      .. +.++++-|...|++..+..+  ...-.+.+|+.++.+.
T Consensus        20 ~L~~l~~~~~~~t~~eLa~~l~is~------~t~vs~~l~~Le~~Glv~~~~~d--rR~~~~~LT~~G~~~~   83 (95)
T 2pg4_A           20 TLLEFEKKGYEPSLAEIVKASGVSE------KTFFMGLKDRLIRAGLVKEETLS--YRVKTLKLTEKGRRLA   83 (95)
T ss_dssp             HHHHHHHTTCCCCHHHHHHHHCCCH------HHHHTTHHHHHHHTTSEEEEEEE--TTEEEEEECHHHHHHH
T ss_pred             HHHHHHhcCCCCCHHHHHHHHCCCc------hHHHHHHHHHHHHCCCeecCCCC--CCeEEEEECHhHHHHH
Confidence            4455555433799999999999974      56 89999999999999944210  0123588999887544

>2qlz_A Transcription factor PF0095; 2.50A {Pyrococcus furiosus} PDB: 2quf_A

Probab=92.70  E-value=0.018  Score=48.10  Aligned_cols=70  Identities=16%  Similarity=0.305  Sum_probs=51.0

Q ss_pred             HHHHHHHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCC-CC--CceEeCchhc
Q 042491           28 MALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDG-SE--ETMYGLTQIS  104 (266)
Q Consensus        28 ~~L~~a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~-~g--~~~y~lt~~s  104 (266)
                      .+|.--.++.|+..|..  ++.|+.|||+.+|+++..      +.+.|+.|...|++........ .|  .-.|++|+.+
T Consensus         7 kaL~~~~R~~IL~~L~~--g~~s~~ELa~~lglS~st------Vs~hL~~Le~aGLV~~~~~~gr~~GRp~~~Y~Lt~~~   78 (232)
T 2qlz_A            7 YILGNKVRRDLLSHLTC--MECYFSLLSSKVSVSSTA------VAKHLKIMEREGVLQSYEKEERFIGPTKKYYKISIAK   78 (232)
T ss_dssp             HHHTSHHHHHHHHHHTT--TTTCSSSSCTTCCCCHHH------HHHHHHHHHHTTSEEEEEECC-----CEEEEEECCCE
T ss_pred             HHhCCHHHHHHHHHHHh--CCCCHHHHHHHHCcCHHH------HHHHHHHHHHCCCEEEeeecCCCCCCccEEEEEccch
Confidence            44555566778888885  799999999999999776      9999999999999998321000 00  1248888765


Q ss_pred             h
Q 042491          105 K  105 (266)
Q Consensus       105 ~  105 (266)
                      .
T Consensus        79 ~   79 (232)
T 2qlz_A           79 S   79 (232)
T ss_dssp             E
T ss_pred             h
Confidence            3

>3t8r_A Staphylococcus aureus CYMR; transcriptional regulator protein, dimer, sulfenic acid, UNK function; 1.70A {Staphylococcus aureus} PDB: 3t8t_A

Probab=92.52  E-value=0.05  Score=41.79  Aligned_cols=46  Identities=24%  Similarity=0.225  Sum_probs=38.7

Q ss_pred             CCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCch
Q 042491           47 SPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQ  102 (266)
Q Consensus        47 ~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~  102 (266)
                      ++.|.++||+.+++++..      +.++|..|...|++.-...    ..|.|+++.
T Consensus        27 ~~~s~~~IA~~~~i~~~~------l~kil~~L~~aGlv~s~rG----~~GGy~Lar   72 (143)
T 3t8r_A           27 GCISLKSIAEENNLSDLY------LEQLVGPLRNAGLIRSVRG----AKGGYQLRV   72 (143)
T ss_dssp             CCEEHHHHHHHTTCCHHH------HHHHHHHHHHTTSEEECSS----SSSEEEESS
T ss_pred             CCcCHHHHHHHHCcCHHH------HHHHHHHHHHCCEEEecCC----CCCCeeecC
Confidence            589999999999999765      9999999999999986652    136788765

>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=92.51  E-value=0.13  Score=43.92  Aligned_cols=42  Identities=19%  Similarity=0.087  Sum_probs=33.3

Q ss_pred             HHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec
Q 042491          181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL  224 (266)
Q Consensus       181 ~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl  224 (266)
                      .+.+.+-  +....+|||+|||.|.++..++++.|-.+++++|+
T Consensus        81 ei~eK~~--Lk~~~~VLDLGaAPGGWsQvAa~~~gv~sV~Gvdv  122 (282)
T 3gcz_A           81 WMEERGY--VKPTGIVVDLGCGRGGWSYYAASLKNVKKVMAFTL  122 (282)
T ss_dssp             HHHHTTS--CCCCEEEEEETCTTCHHHHHHHTSTTEEEEEEECC
T ss_pred             HHHHhcC--CCCCCEEEEeCCCCCHHHHHHHHhcCCCeeeeEEe
Confidence            4455553  66667999999999999999998887767777776

>2o03_A Probable zinc uptake regulation protein FURB; DNA-binding, helix-turn-helix, zinc binding, GE regulation; 2.70A {Mycobacterium tuberculosis}

Probab=92.48  E-value=0.066  Score=40.39  Aligned_cols=61  Identities=10%  Similarity=0.250  Sum_probs=46.3

Q ss_pred             HHHhcChhhHhhhCCCCCCHHHHHhhc-----CCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeC
Q 042491           32 SAVELRLADIMHCHGSPITLPQLASGI-----NSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGL  100 (266)
Q Consensus        32 ~a~elglfd~L~~~g~~~t~~eLA~~~-----g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~l  100 (266)
                      +..+.-|++.|...+++.|++||.+.+     +++      ...+.|.|+.|+..|++.+....  +|..+|..
T Consensus        10 T~qR~~Il~~l~~~~~~~sa~ei~~~l~~~~~~is------~~TVYR~L~~L~e~Glv~~~~~~--~~~~~y~~   75 (131)
T 2o03_A           10 TRQRAAISTLLETLDDFRSAQELHDELRRRGENIG------LTTVYRTLQSMASSGLVDTLHTD--TGESVYRR   75 (131)
T ss_dssp             HHHHHHHHHHHHHCCSCEEHHHHHHHHHHTTCCCC------HHHHHHHHHHHHTTTSEEEEECT--TSCEEEEE
T ss_pred             CHHHHHHHHHHHhCCCCCCHHHHHHHHHHhCCCCC------HhhHHHHHHHHHHCCCEEEEEeC--CCceEEEe
Confidence            345667888887655799999999998     454      45599999999999999987732  23446764

>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=92.25  E-value=0.055  Score=41.50  Aligned_cols=48  Identities=21%  Similarity=0.374  Sum_probs=41.5

Q ss_pred             HhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           34 VELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        34 ~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      .++.|+..|... ++.|..|||+.+|+++..      +.+.++.|...|++....
T Consensus         4 ~~~~il~~L~~~-~~~~~~ela~~lg~s~~t------v~~~l~~L~~~G~i~~~~   51 (150)
T 2pn6_A            4 IDLRILKILQYN-AKYSLDEIAREIRIPKAT------LSYRIKKLEKDGVIKGYY   51 (150)
T ss_dssp             HHHHHHHHHTTC-TTSCHHHHHHHHTSCHHH------HHHHHHHHHHTTSSCCCC
T ss_pred             HHHHHHHHHHHc-CCCCHHHHHHHHCcCHHH------HHHHHHHHHHCCcEEEEE
Confidence            356788888864 689999999999999877      999999999999998754

>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=92.22  E-value=0.037  Score=40.19  Aligned_cols=47  Identities=17%  Similarity=0.322  Sum_probs=39.1

Q ss_pred             hcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCccccc
Q 042491           35 ELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAH   87 (266)
Q Consensus        35 elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~   87 (266)
                      ++.|+..+...|.++|..+||+.+|++...      +.+.|+.|...|++...
T Consensus        20 ~l~Il~~l~~~g~~~s~~eLa~~lgvs~~t------V~~~L~~L~~~GlV~~~   66 (110)
T 1q1h_A           20 VIDVLRILLDKGTEMTDEEIANQLNIKVND------VRKKLNLLEEQGFVSYR   66 (110)
T ss_dssp             THHHHHHHHHHCSCBCHHHHHHTTTSCHHH------HHHHHHHHHHHTSCEEE
T ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHCcCHHH------HHHHHHHHHHCCCEEEE
Confidence            345677764334489999999999999776      99999999999999876

>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=92.19  E-value=0.065  Score=45.21  Aligned_cols=68  Identities=16%  Similarity=0.298  Sum_probs=52.7

Q ss_pred             hcChhhHhhhCC-CCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           35 ELRLADIMHCHG-SPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        35 elglfd~L~~~g-~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      ++.|+..|...+ +++|..|||+.+++++..      +.++++-|...|++.+....++...-...+|+.++.+.
T Consensus       160 q~~vL~~L~~~~~~~~t~~eLa~~l~i~~~t------vt~~v~rLe~~GlV~R~~~~~DrR~~~i~LT~~G~~~~  228 (250)
T 1p4x_A          160 EFTILAIITSQNKNIVLLKDLIETIHHKYPQ------TVRALNNLKKQGYLIKERSTEDERKILIHMDDAQQDHA  228 (250)
T ss_dssp             HHHHHHHHHTTTTCCEEHHHHHHHSSSCHHH------HHHHHHHHHHHTSSEEEECSSSTTCEEEECCHHHHHHH
T ss_pred             HHHHHHHHHhCCCCCcCHHHHHHHHCCChhh------HHHHHHHHHHCCCEEeeCCCCCCCeEEEEECHHHHHHH
Confidence            455777787654 359999999999999777      99999999999999988733222334688999987655

>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=92.08  E-value=0.061  Score=41.11  Aligned_cols=47  Identities=21%  Similarity=0.329  Sum_probs=40.8

Q ss_pred             hcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           35 ELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        35 elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      +..|++.|... ++.|..|||+.+|+++..      +.+.++.|...|++.+..
T Consensus         7 d~~il~~L~~~-~~~s~~ela~~lg~s~~t------v~~~l~~L~~~G~i~~~~   53 (144)
T 2cfx_A            7 DLNIIEELKKD-SRLSMRELGRKIKLSPPS------VTERVRQLESFGIIKQYT   53 (144)
T ss_dssp             HHHHHHHHHHC-SCCCHHHHHHHHTCCHHH------HHHHHHHHHHTTSEEEEE
T ss_pred             HHHHHHHHHHc-CCCCHHHHHHHHCcCHHH------HHHHHHHHHHCCCeEEEe
Confidence            45678888774 789999999999999776      999999999999998654

>2qy6_A UPF0209 protein YFCK; structural genomics, unknown function, PSI-2, protein struct initiative; 2.00A {Escherichia coli}

Probab=91.94  E-value=0.099  Score=44.24  Aligned_cols=33  Identities=18%  Similarity=0.330  Sum_probs=27.2

Q ss_pred             CCceEEEecCCchHHHHHHHHH-------CCC-----CeEEEeec
Q 042491          192 GIRSLVDVGGGTGEELAEIVEF-------YPH-----IKGVNFDL  224 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~-------~P~-----l~~~~~Dl  224 (266)
                      +..+|+|||+|+|..+..+++.       +|+     ++++.+|.
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            4579999999999999887765       784     67888886

>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=91.91  E-value=0.066  Score=43.68  Aligned_cols=70  Identities=11%  Similarity=0.150  Sum_probs=50.4

Q ss_pred             HHHHHHHHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCC-CC-CceEeCchhc
Q 042491           27 SMALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDG-SE-ETMYGLTQIS  104 (266)
Q Consensus        27 ~~~L~~a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~-~g-~~~y~lt~~s  104 (266)
                      ..+|..-.++.|+..|..  ++.|..|||+.+|+++..      +.+.|+.|...|++.......+ ++ .-.|++|+..
T Consensus         9 lkaL~~~~rl~IL~~L~~--~~~s~~eLa~~l~is~st------vs~hLk~Le~~GLV~~~~~~~~~g~~~~~Y~Lt~~~   80 (202)
T 2p4w_A            9 LDVLGNETRRRILFLLTK--RPYFVSELSRELGVGQKA------VLEHLRILEEAGLIESRVEKIPRGRPRKYYMIKKGL   80 (202)
T ss_dssp             HHHHHSHHHHHHHHHHHH--SCEEHHHHHHHHTCCHHH------HHHHHHHHHHTTSEEEEECCBTTBCCCEEEEECTTE
T ss_pred             HHHhCCHHHHHHHHHHHh--CCCCHHHHHHHHCcCHHH------HHHHHHHHHHCCceEEEeeccCCCCceEEEEEChHH
Confidence            344445556667777765  799999999999998766      9999999999999988653111 11 2246666643

>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=91.85  E-value=0.065  Score=41.16  Aligned_cols=47  Identities=21%  Similarity=0.232  Sum_probs=40.6

Q ss_pred             hcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           35 ELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        35 elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      +..|+..|... ++.|..|||+.+|+++..      +.+.++-|...|++.+..
T Consensus         9 ~~~iL~~L~~~-~~~s~~ela~~lg~s~~t------v~~~l~~L~~~G~i~~~~   55 (150)
T 2w25_A            9 DRILVRELAAD-GRATLSELATRAGLSVSA------VQSRVRRLESRGVVQGYS   55 (150)
T ss_dssp             HHHHHHHHHHC-TTCCHHHHHHHHTSCHHH------HHHHHHHHHHTTSEEEEE
T ss_pred             HHHHHHHHHHc-CCCCHHHHHHHHCcCHHH------HHHHHHHHHHCCCEEEEE
Confidence            45677888764 789999999999999876      999999999999997654

>3u1d_A Uncharacterized protein; GNTR-superfamily, structural genomics, PSI-biology, midwest for structural genomics, MCSG; 1.80A {Halomicrobium mukohataei}

Probab=91.83  E-value=0.13  Score=39.94  Aligned_cols=87  Identities=14%  Similarity=0.106  Sum_probs=58.1

Q ss_pred             HhcChhhHhhhCC-CCCCHHHHHhhcC-CCCCCCCchhhHHHHHHHHhccCcccccccCCC-CCCc----eEeCchhchh
Q 042491           34 VELRLADIMHCHG-SPITLPQLASGIN-SSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDG-SEET----MYGLTQISKW  106 (266)
Q Consensus        34 ~elglfd~L~~~g-~~~t~~eLA~~~g-~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~-~g~~----~y~lt~~s~~  106 (266)
                      .++.|+..|..+. +..|++||++.++ +++..      +.|.|+.|+..|++++....++ .+.|    .|++|+.++.
T Consensus        30 tR~~IL~~Ll~~p~~~~ta~eL~~~l~~lS~aT------VyrhL~~L~eaGLV~~~~~~~~~~~rGrP~k~Y~LT~~Gr~  103 (151)
T 3u1d_A           30 TRLDVLHQILAQPDGVLSVEELLYRNPDETEAN------LRYHVDELVDRGIVEKIPVPRAKSVDDPPTTFYAVTGEGIA  103 (151)
T ss_dssp             HHHHHHHHHHHSTTSCBCHHHHHHHCTTSCHHH------HHHHHHHHHHTTSEEEEECCCCTTSSSCCCEEEEECHHHHH
T ss_pred             HHHHHHHHHHcCCCCCCCHHHHHHhcCCCCHHH------HHHHHHHHHHCCCeEEeecCcCcccCCCCceEEEECHHHHH
Confidence            4556666665432 4579999999998 87655      9999999999999997643211 1122    6999999974


Q ss_pred             -hhcCCCCChHHHHHHhcChhhhhhhhhhHHHH
Q 042491          107 -LLRDSEMSLAPMILFQNSQLLQAPCHHLSQCV  138 (266)
Q Consensus       107 -l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l  138 (266)
                       |...+  .+.          ....|..|.+.+
T Consensus       104 ~l~~y~--~la----------~~~alr~l~~~v  124 (151)
T 3u1d_A          104 LLRAVS--MYE----------EAAVWRSVYEQM  124 (151)
T ss_dssp             HHHHTT--CST----------HHHHTHHHHHHS
T ss_pred             HHHHhH--HHh----------HHHHHHHHHHHh
Confidence             43321  111          125677777766

>4fx0_A Probable transcriptional repressor protein; helix-turn-helix, DNA binding, transcription regulator; 2.70A {Mycobacterium tuberculosis} PDB: 4fx4_A*

Probab=91.71  E-value=0.066  Score=41.09  Aligned_cols=65  Identities=20%  Similarity=0.271  Sum_probs=41.2

Q ss_pred             cChhhHhhhC----CCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCC-CCceEeCchhchhhh
Q 042491           36 LRLADIMHCH----GSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGS-EETMYGLTQISKWLL  108 (266)
Q Consensus        36 lglfd~L~~~----g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~-g~~~y~lt~~s~~l~  108 (266)
                      +.++..|...    ++++|..|||+.+++++..      +.++++-|...|++.....  .| ..-...+|+.++.+.
T Consensus        36 ~~vL~~l~~~~~~~~~~~t~~eLa~~l~~~~~t------vsr~v~~Le~~glVr~~~~--~DrR~~~v~LT~~G~~~~  105 (148)
T 4fx0_A           36 FSTLAVISLSEGSAGIDLTMSELAARIGVERTT------LTRNLEVMRRDGLVRVMAG--ADARCKRIELTAKGRAAL  105 (148)
T ss_dssp             HHHHHHHHC---------CHHHHHHHHTCCHHH------HHHHHHHHHHTTSBC-------------CCBCHHHHHHH
T ss_pred             HHHHHHHHHhcCCCCCCcCHHHHHHHHCCChhh------HHHHHHHHHHCCCEEeeCC--CCCCeeEEEECHHHHHHH
Confidence            4455566542    2468999999999999776      9999999999999954432  22 123588888887544

>2v79_A DNA replication protein DNAD; primosome, DNA-binding protein; HET: DNA; 2.00A {Bacillus subtilis}

Probab=91.51  E-value=0.074  Score=40.50  Aligned_cols=53  Identities=25%  Similarity=0.293  Sum_probs=41.7

Q ss_pred             CCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCC--CceEeCchhch
Q 042491           47 SPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSE--ETMYGLTQISK  105 (266)
Q Consensus        47 ~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g--~~~y~lt~~s~  105 (266)
                      ...|.++||+++|+++..      +.++++-|...|++......+++|  ...|.++|+-.
T Consensus        50 ~~ps~~~LA~~~~~s~~~------v~~~L~~L~~KGlI~i~~~~d~~g~~~~~ydL~pL~e  104 (135)
T 2v79_A           50 YFPTPNQLQEGMSISVEE------CTNRLRMFIQKGFLFIEECEDQNGIKFEKYSLQPLWG  104 (135)
T ss_dssp             CSCCHHHHHTTSSSCHHH------HHHHHHHHHHHTSCEEEEEECTTCCEEEEEECHHHHH
T ss_pred             CCCCHHHHHHHHCcCHHH------HHHHHHHHHHCCCEEEEeEecCCCceEEEeeHHHHHH
Confidence            568999999999999877      999999999999999854322222  35788888643

>2zig_A TTHA0409, putative modification methylase; methyltransferase, S- adenosylmethionine, structural genomics, NPPSFA; 2.10A {Thermus thermophilus} PDB: 2zie_A* 2zif_A

Probab=91.51  E-value=0.28  Score=42.08  Aligned_cols=49  Identities=18%  Similarity=0.239  Sum_probs=36.2

Q ss_pred             HHHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCC
Q 042491          179 MSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAP  232 (266)
Q Consensus       179 ~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~  232 (266)
                      ...++..+.   .....|||++||+|+.+.++++.  +.+++++|+ |..++.++
T Consensus       225 ~~~~i~~~~---~~~~~vlD~f~GsGt~~~~a~~~--g~~~~g~e~~~~~~~~a~  274 (297)
T 2zig_A          225 AERLVRMFS---FVGDVVLDPFAGTGTTLIAAARW--GRRALGVELVPRYAQLAK  274 (297)
T ss_dssp             HHHHHHHHC---CTTCEEEETTCTTTHHHHHHHHT--TCEEEEEESCHHHHHHHH
T ss_pred             HHHHHHHhC---CCCCEEEECCCCCCHHHHHHHHc--CCeEEEEeCCHHHHHHHH
Confidence            344555443   24569999999999999998886  468999998 66666554

>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=91.42  E-value=0.075  Score=36.09  Aligned_cols=53  Identities=8%  Similarity=-0.000  Sum_probs=41.9

Q ss_pred             hhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCc
Q 042491           38 LADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLT  101 (266)
Q Consensus        38 lfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt  101 (266)
                      .++.|++ |+..|+.+||.++|++...      +.|+|--|...|.+.....+    +-+|..+
T Consensus        20 ~i~~L~~-~~~~Ta~~IAkkLg~sK~~------vNr~LY~L~kkG~V~~~~~~----PP~W~~~   72 (75)
T 1sfu_A           20 EVLSLNT-NDYTTAISLSNRLKINKKK------INQQLYKLQKEDTVKMVPSN----PPKWFKN   72 (75)
T ss_dssp             HHHTSCT-TCEECHHHHHHHTTCCHHH------HHHHHHHHHHTTSEEEECCS----SCEEEEC
T ss_pred             HHHhCCC-CcchHHHHHHHHHCCCHHH------HHHHHHHHHHCCCEecCCCC----CCCccCC
Confidence            3446666 3569999999999999766      99999999999999888732    4566554

>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=91.42  E-value=0.1  Score=41.75  Aligned_cols=59  Identities=19%  Similarity=0.145  Sum_probs=47.1

Q ss_pred             HHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCc-ccccccCCCCCCceEeCchhc
Q 042491           33 AVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGV-FAAHRSSDGSEETMYGLTQIS  104 (266)
Q Consensus        33 a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gi-l~~~~~~~~~g~~~y~lt~~s  104 (266)
                      --...|.+.|...++++|..|||+.+|++.+.      +.|-++.|...|+ +....       +.|.+++..
T Consensus        21 ~R~~~Il~~L~~~~~~~s~~eLa~~l~vS~~T------i~rdi~~L~~~G~~I~~~~-------~Gy~l~~~~   80 (187)
T 1j5y_A           21 ERLKSIVRILERSKEPVSGAQLAEELSVSRQV------IVQDIAYLRSLGYNIVATP-------RGYVLAGGK   80 (187)
T ss_dssp             HHHHHHHHHHHHCSSCBCHHHHHHHHTSCHHH------HHHHHHHHHHHTCCCEEET-------TEEECCTTT
T ss_pred             HHHHHHHHHHHHcCCCcCHHHHHHHHCcCHHH------HHHHHHHHHHCCCeEEEEC-------CEEEECCcc
Confidence            44567888888644679999999999999876      9999999999999 66543       678877643

>2p5v_A Transcriptional regulator, LRP/ASNC family; NMB0573, structu genomics; 1.99A {Neisseria meningitidis} PDB: 2p6s_A 2p6t_A

Probab=91.40  E-value=0.077  Score=41.34  Aligned_cols=47  Identities=13%  Similarity=0.236  Sum_probs=40.7

Q ss_pred             hcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           35 ELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        35 elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      +..|+..|... +++|..|||+.+|+++..      +.+.++.|...|++....
T Consensus        12 ~~~il~~L~~~-~~~s~~ela~~lg~s~~t------v~~~l~~L~~~G~i~~~~   58 (162)
T 2p5v_A           12 DIKILQVLQEN-GRLTNVELSERVALSPSP------CLRRLKQLEDAGIVRQYA   58 (162)
T ss_dssp             HHHHHHHHHHC-TTCCHHHHHHHHTSCHHH------HHHHHHHHHHTTSEEEEE
T ss_pred             HHHHHHHHHHc-CCCCHHHHHHHHCcCHHH------HHHHHHHHHHCCCEeeec
Confidence            45678888774 789999999999999776      999999999999998765

>2dbb_A Putative HTH-type transcriptional regulator PH006; ASNC family, helix-turn-helix (HTH) domain, structural genom NPPSFA; 2.00A {Pyrococcus horikoshii}

Probab=91.34  E-value=0.094  Score=40.24  Aligned_cols=48  Identities=23%  Similarity=0.385  Sum_probs=41.3

Q ss_pred             HhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           34 VELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        34 ~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      .+..|+..|... ++.|..|||+.+|+++..      +.+.++.|...|++.+..
T Consensus        10 ~d~~il~~L~~~-~~~s~~ela~~lg~s~~t------v~~~l~~L~~~G~i~~~~   57 (151)
T 2dbb_A           10 VDMQLVKILSEN-SRLTYRELADILNTTRQR------IARRIDKLKKLGIIRKFT   57 (151)
T ss_dssp             HHHHHHHHHHHC-TTCCHHHHHHHTTSCHHH------HHHHHHHHHHHTSEEEEE
T ss_pred             HHHHHHHHHHHc-CCCCHHHHHHHHCcCHHH------HHHHHHHHHHCCCEEEEE
Confidence            345688888874 789999999999999876      999999999999998654

>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=91.32  E-value=0.063  Score=44.44  Aligned_cols=53  Identities=19%  Similarity=0.202  Sum_probs=44.0

Q ss_pred             CCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           47 SPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        47 ~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      ++.|..++|+++++++..      +.+.++.|...|+|.+...   .+...+.+|+.++.+.
T Consensus        26 ~~~s~s~aA~~L~isq~a------vSr~I~~LE~~~L~~R~~~---~R~~~v~LT~~G~~l~   78 (230)
T 3cta_A           26 AYLTSSKLADMLGISQQS------ASRIIIDLEKNGYITRTVT---KRGQILNITEKGLDVL   78 (230)
T ss_dssp             EECCHHHHHHHHTSCHHH------HHHHHHHHHHTTSEEEEEE---TTEEEEEECHHHHHHH
T ss_pred             CCcCHHHHHHHHCCCHHH------HHHHHHHHHHCCCEEEEEc---CCeEEEEECHHHHHHH
Confidence            568999999999999877      9999999999999999820   0126799999997655

>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=91.29  E-value=0.074  Score=40.91  Aligned_cols=47  Identities=13%  Similarity=0.220  Sum_probs=40.8

Q ss_pred             hcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           35 ELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        35 elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      +..|+..|... ++.|..|||+.+|+++..      +.+.++.|...|++....
T Consensus         9 ~~~il~~L~~~-~~~s~~ela~~lg~s~~t------v~~~l~~L~~~G~i~~~~   55 (151)
T 2cyy_A            9 DKKIIKILQND-GKAPLREISKITGLAEST------IHERIRKLRESGVIKKFT   55 (151)
T ss_dssp             HHHHHHHHHHC-TTCCHHHHHHHHCSCHHH------HHHHHHHHHHHTSSCCCC
T ss_pred             HHHHHHHHHHc-CCCCHHHHHHHHCcCHHH------HHHHHHHHHHCCCeEEEE
Confidence            45678888774 789999999999999776      999999999999998754

>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=91.28  E-value=0.033  Score=41.05  Aligned_cols=64  Identities=16%  Similarity=0.215  Sum_probs=45.9

Q ss_pred             hcChhhHhhhCCCCCCHHHHHhhcC----CCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCce-EeCchhchhhh
Q 042491           35 ELRLADIMHCHGSPITLPQLASGIN----SSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETM-YGLTQISKWLL  108 (266)
Q Consensus        35 elglfd~L~~~g~~~t~~eLA~~~g----~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~-y~lt~~s~~l~  108 (266)
                      ++.|+..|... ++.|..|||+.++    +++..      +.++|+-|...|++.+...   +..-. +.+|+.++.+.
T Consensus        12 ~~~vL~~l~~~-~~~t~~ela~~l~~~~~~s~~t------v~~~l~~L~~~Glv~r~~~---~rr~~~~~lT~~g~~~~   80 (123)
T 1okr_A           12 EWEVMNIIWMK-KYASANNIIEEIQMQKDWSPKT------IRTLITRLYKKGFIDRKKD---NKIFQYYSLVEESDIKY   80 (123)
T ss_dssp             HHHHHHHHHHH-SSEEHHHHHHHHHHHCCCCHHH------HHHHHHHHHHHTSEEEEEE---TTEEEEEESSCHHHHHH
T ss_pred             HHHHHHHHHhC-CCcCHHHHHHHHhccCCCcHhh------HHHHHHHHHHCCCeEEEec---CCeEEEEEecCHHHHHH
Confidence            34456666553 7899999999999    54444      9999999999999998762   11112 46777776544

>1mzb_A Ferric uptake regulation protein; ferric uptake regulator, iron, DTXR, gene regulation; 1.80A {Pseudomonas aeruginosa} SCOP: a.4.5.42

Probab=91.17  E-value=0.1  Score=39.50  Aligned_cols=60  Identities=7%  Similarity=0.293  Sum_probs=44.8

Q ss_pred             HhcChhhHhhhCC-CCCCHHHHHhhc-----CCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCc
Q 042491           34 VELRLADIMHCHG-SPITLPQLASGI-----NSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLT  101 (266)
Q Consensus        34 ~elglfd~L~~~g-~~~t~~eLA~~~-----g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt  101 (266)
                      .+.-|++.|...+ ++.|++||.+.+     +++      ...+.|.|+.|+..|++.+....  +|..+|.++
T Consensus        19 qR~~Il~~L~~~~~~~~sa~ei~~~l~~~~~~is------~aTVYR~L~~L~e~Glv~~~~~~--~~~~~Y~~~   84 (136)
T 1mzb_A           19 PRVKILQMLDSAEQRHMSAEDVYKALMEAGEDVG------LATVYRVLTQFEAAGLVVRHNFD--GGHAVFELA   84 (136)
T ss_dssp             HHHHHHHHHHCC-CCSBCHHHHHHHHHHTTCCCC------HHHHHHHHHHHHHHTSEEEECSS--SSSCEEEES
T ss_pred             HHHHHHHHHHhCCCCCCCHHHHHHHHHhhCCCCC------HHHHHHHHHHHHHCCcEEEEEeC--CCceEEEeC
Confidence            3456888887655 689999999998     444      45699999999999999987631  234567653

>3i4p_A Transcriptional regulator, ASNC family; PSI, structural genom protein structure initiative, midwest center for structural genomics; 2.30A {Agrobacterium tumefaciens str}

Probab=91.11  E-value=0.088  Score=41.13  Aligned_cols=48  Identities=17%  Similarity=0.268  Sum_probs=42.0

Q ss_pred             HhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           34 VELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        34 ~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      .+..|+++|..+ +++|..+||+++|+++..      +.+-++-|...|++....
T Consensus         4 ~d~~il~~L~~~-~~~s~~~la~~lg~s~~t------v~~rl~~L~~~g~i~~~~   51 (162)
T 3i4p_A            4 LDRKILRILQED-STLAVADLAKKVGLSTTP------CWRRIQKMEEDGVIRRRV   51 (162)
T ss_dssp             HHHHHHHHHTTC-SCSCHHHHHHHHTCCHHH------HHHHHHHHHHTTSSCCCC
T ss_pred             HHHHHHHHHHHC-CCCCHHHHHHHHCcCHHH------HHHHHHHHHHCCCeeece
Confidence            456788899874 799999999999999877      999999999999998654

>2xvc_A ESCRT-III, SSO0910; cell cycle, cell division, cytokinesis, winged-helix; 2.15A {Sulfolobus solfataricus}

Probab=90.96  E-value=0.052  Score=34.58  Aligned_cols=46  Identities=17%  Similarity=0.320  Sum_probs=40.9

Q ss_pred             hcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccc
Q 042491           35 ELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAA   86 (266)
Q Consensus        35 elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~   86 (266)
                      |-.|.+.|..+||-+.++..|++.|++.+.      +..+||-|...|++.-
T Consensus        12 e~~lL~yIr~sGGildI~~~a~kygV~kde------V~~~LrrLe~KGLI~l   57 (59)
T 2xvc_A           12 ERELLDYIVNNGGFLDIEHFSKVYGVEKQE------VVKLLEALKNKGLIAV   57 (59)
T ss_dssp             HHHHHHHHHHTTSEEEHHHHHHHHCCCHHH------HHHHHHHHHHTTSEEE
T ss_pred             HHHHHHHHHHcCCEEeHHHHHHHhCCCHHH------HHHHHHHHHHCCCeec
Confidence            456788999888999999999999999877      9999999999999864

>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=90.95  E-value=0.1  Score=42.11  Aligned_cols=52  Identities=10%  Similarity=0.206  Sum_probs=44.2

Q ss_pred             HHHHHHHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCccccc
Q 042491           28 MALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAH   87 (266)
Q Consensus        28 ~~L~~a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~   87 (266)
                      .++....+..|+..|..  +++|..|||+.+|+++..      +.+.++.|...|++...
T Consensus        15 k~l~d~~~~~IL~~L~~--~~~s~~eLA~~lglS~st------v~~~l~~Le~~GlI~~~   66 (192)
T 1uly_A           15 KVMLEDTRRKILKLLRN--KEMTISQLSEILGKTPQT------IYHHIEKLKEAGLVEVK   66 (192)
T ss_dssp             HHHHSHHHHHHHHHHTT--CCBCHHHHHHHHTCCHHH------HHHHHHHHHHTTSEEEE
T ss_pred             HHhCCHHHHHHHHHHHc--CCCCHHHHHHHHCcCHHH------HHHHHHHHHHCCCEEEE
Confidence            34444566778889984  789999999999999776      99999999999999887

>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=90.92  E-value=0.08  Score=40.75  Aligned_cols=47  Identities=11%  Similarity=0.193  Sum_probs=40.8

Q ss_pred             hcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           35 ELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        35 elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      +..|+..|... ++.|..|||+.+|+++..      +.+.++.|...|++....
T Consensus        10 d~~il~~L~~~-~~~s~~ela~~lg~s~~t------v~~~l~~L~~~G~i~~~~   56 (152)
T 2cg4_A           10 DRGILEALMGN-ARTAYAELAKQFGVSPET------IHVRVEKMKQAGIITGAR   56 (152)
T ss_dssp             HHHHHHHHHHC-TTSCHHHHHHHHTSCHHH------HHHHHHHHHHHTSEEEEE
T ss_pred             HHHHHHHHHHc-CCCCHHHHHHHHCcCHHH------HHHHHHHHHHcCCcceEE
Confidence            45678888774 789999999999999876      999999999999998754

>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=90.85  E-value=0.04  Score=37.76  Aligned_cols=52  Identities=17%  Similarity=0.380  Sum_probs=39.7

Q ss_pred             HhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           34 VELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        34 ~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      .++.|++.|... ++.|+.||++.++.++.  .....+.++|+-|...|++.+..
T Consensus        10 ~e~~vL~~L~~~-~~~t~~ei~~~l~~~~~--~s~~Tv~~~l~rL~~kGlv~r~~   61 (82)
T 1p6r_A           10 AELEVMKVIWKH-SSINTNEVIKELSKTST--WSPKTIQTMLLRLIKKGALNHHK   61 (82)
T ss_dssp             HHHHHHHHHHTS-SSEEHHHHHHHHHHHSC--CCHHHHHHHHHHHHHTTSEEEEE
T ss_pred             HHHHHHHHHHcC-CCCCHHHHHHHHhhcCC--ccHHHHHHHHHHHHHCCCeEEEe
Confidence            356677788763 78999999999974210  01345999999999999999876

>3mwm_A ZUR, putative metal uptake regulation protein; FUR, regulatory metal, graded transcription regulation, transcription; 2.40A {Streptomyces coelicolor}

Probab=90.81  E-value=0.14  Score=39.05  Aligned_cols=67  Identities=12%  Similarity=0.142  Sum_probs=47.3

Q ss_pred             HHHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCc
Q 042491           32 SAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLT  101 (266)
Q Consensus        32 ~a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt  101 (266)
                      +..+.-|++.|...+++.|++||.+.+.-.. .......+.|.|+.|+..|++.+...  ++|..+|.+.
T Consensus        13 T~qR~~Il~~L~~~~~h~sa~eI~~~l~~~~-~~is~aTVYR~L~~L~e~Glv~~~~~--~~g~~~Y~~~   79 (139)
T 3mwm_A           13 TRQRAAVSAALQEVEEFRSAQELHDMLKHKG-DAVGLTTVYRTLQSLADAGEVDVLRT--AEGESVYRRC   79 (139)
T ss_dssp             HHHHHHHHHHHTTCSSCEEHHHHHHHHHHTT-CCCCHHHHHHHHHHHHHTTSSEEEEC--TTSCEEEECC
T ss_pred             CHHHHHHHHHHHhCCCCCCHHHHHHHHHHhC-CCCCHHHHHHHHHHHHHCCCEEEEEc--CCCceEEEEC
Confidence            3456668888877557999999999884211 01125669999999999999998763  1234567664

>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=90.79  E-value=0.093  Score=39.64  Aligned_cols=47  Identities=13%  Similarity=0.253  Sum_probs=39.9

Q ss_pred             hcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           35 ELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        35 elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      +..|...|... ++.|..|||+.+|+++..      +.+.++.|...|++....
T Consensus         6 ~~~il~~L~~~-~~~~~~ela~~lg~s~~t------v~~~l~~L~~~G~i~~~~   52 (141)
T 1i1g_A            6 DKIILEILEKD-ARTPFTEIAKKLGISETA------VRKRVKALEEKGIIEGYT   52 (141)
T ss_dssp             HHHHHHHHHHC-TTCCHHHHHHHHTSCHHH------HHHHHHHHHHHTSSCCCC
T ss_pred             HHHHHHHHHHc-CCCCHHHHHHHHCcCHHH------HHHHHHHHHHCCCEeccc
Confidence            45577778763 689999999999998776      999999999999998665

>2k4b_A Transcriptional regulator; DNA binding protein, winged helix; NMR {Lactococcus lactis subsp}

Probab=90.77  E-value=0.047  Score=39.27  Aligned_cols=51  Identities=12%  Similarity=0.266  Sum_probs=40.9

Q ss_pred             hcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           35 ELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        35 elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      ++.|+..|... +++|+.||++.++.+..  .....+.++|+-|...|++.+..
T Consensus        37 e~~VL~~L~~~-~~~t~~eL~~~l~~~~~--~s~sTVt~~L~rLe~KGlV~R~~   87 (99)
T 2k4b_A           37 ELIVMRVIWSL-GEARVDEIYAQIPQELE--WSLATVKTLLGRLVKKEMLSTEK   87 (99)
T ss_dssp             CSHHHHHHHHH-SCEEHHHHHHTCCGGGC--CCHHHHHHHHHHHHHTTSCEEEE
T ss_pred             HHHHHHHHHhC-CCCCHHHHHHHHhcccC--CCHhhHHHHHHHHHHCCCEEEEe
Confidence            56688888874 68999999999986411  11455999999999999999877

>2ia0_A Putative HTH-type transcriptional regulator PF086; ASNC, PSI, structural genomics, southeast collaboratory for structural genomics; 2.37A {Pyrococcus furiosus}

Probab=90.51  E-value=0.1  Score=41.19  Aligned_cols=48  Identities=10%  Similarity=0.267  Sum_probs=41.2

Q ss_pred             HhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           34 VELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        34 ~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      .+..|+..|... +++|..|||+++|+++..      +.+.++-|...|++....
T Consensus        18 ~d~~IL~~L~~~-~~~s~~eLA~~lglS~~t------v~~~l~~L~~~G~I~~~~   65 (171)
T 2ia0_A           18 LDRNILRLLKKD-ARLTISELSEQLKKPEST------IHFRIKKLQERGVIERYT   65 (171)
T ss_dssp             HHHHHHHHHHHC-TTCCHHHHHHHHTSCHHH------HHHHHHHHHHTTSEEEEE
T ss_pred             HHHHHHHHHHHc-CCCCHHHHHHHHCcCHHH------HHHHHHHHHHCCCEEeec
Confidence            345688888874 689999999999999877      999999999999997654

>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=90.48  E-value=0.059  Score=38.36  Aligned_cols=36  Identities=22%  Similarity=0.325  Sum_probs=33.5

Q ss_pred             CCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           47 SPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        47 ~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      ++.|..|||+.+|++...      +.+.|+.|...|++.+..
T Consensus        35 ~~~t~~ela~~l~is~~t------v~~~l~~L~~~g~v~~~~   70 (109)
T 2d1h_A           35 KPITSEELADIFKLSKTT------VENSLKKLIELGLVVRTK   70 (109)
T ss_dssp             SCEEHHHHHHHHTCCHHH------HHHHHHHHHHTTSEEEEE
T ss_pred             CCCCHHHHHHHHCcCHHH------HHHHHHHHHHCCCeEeec
Confidence            789999999999998766      999999999999999876

>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=90.34  E-value=0.11  Score=41.89  Aligned_cols=42  Identities=14%  Similarity=0.199  Sum_probs=35.2

Q ss_pred             HhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           41 IMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        41 ~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      .+.+.|.|.|..|||+.+|++...      +.+.|+.|...|++.+..
T Consensus        17 ~~~~~g~~~s~~eia~~lgl~~~t------v~~~l~~Le~~G~i~~~~   58 (196)
T 3k2z_A           17 FIEKNGYPPSVREIARRFRITPRG------ALLHLIALEKKGYIERKN   58 (196)
T ss_dssp             HHHHHSSCCCHHHHHHHHTSCHHH------HHHHHHHHHHTTSEECC-
T ss_pred             HHHHhCCCCCHHHHHHHcCCCcHH------HHHHHHHHHHCCCEEecC
Confidence            344445689999999999998655      999999999999998876

>4esf_A PADR-like transcriptional regulator; PADR family, DNA binding protein, HTH fold; 2.20A {Bacillus cereus}

Probab=90.11  E-value=0.24  Score=36.54  Aligned_cols=70  Identities=13%  Similarity=0.158  Sum_probs=49.2

Q ss_pred             HHHHHHhcChhhHhhhCCCCCCHHHHHhhc------CCCCCCCCchhhHHHHHHHHhccCcccccccCCCCC--CceEeC
Q 042491           29 ALKSAVELRLADIMHCHGSPITLPQLASGI------NSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSE--ETMYGL  100 (266)
Q Consensus        29 ~L~~a~elglfd~L~~~g~~~t~~eLA~~~------g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g--~~~y~l  100 (266)
                      .++-.+++=|+.+|..  +|.+--||++.+      ++++..      +...|+-|...|++.......+.|  .-.|++
T Consensus         7 l~~g~l~~~IL~lL~~--~p~~Gyei~~~l~~~g~~~is~gt------lY~~L~rLe~~GlI~~~~~~~~~g~~rk~Y~L   78 (117)
T 4esf_A            7 MLKGSLEGCVLEIISR--RETYGYEITRHLNDLGFTEVVEGT------VYTILVRLEKKKLVNIEKKPSDMGPPRKFYSL   78 (117)
T ss_dssp             HHHHHHHHHHHHHHHH--SCBCHHHHHHHHHHHTCTTCCHHH------HHHHHHHHHHTTCEEEEEEC-----CEEEEEE
T ss_pred             HHHChHHHHHHHHHHc--CCCCHHHHHHHHHHcCCCCCCccH------HHHHHHHHHHCCCEEEEeecCCCCCCceEEEE
Confidence            3444445556667776  789999999887      566555      999999999999998764211111  235999


Q ss_pred             chhchh
Q 042491          101 TQISKW  106 (266)
Q Consensus       101 t~~s~~  106 (266)
                      |+.++.
T Consensus        79 T~~G~~   84 (117)
T 4esf_A           79 NEAGRQ   84 (117)
T ss_dssp             CHHHHH
T ss_pred             CHHHHH
Confidence            999974

>1v4r_A Transcriptional repressor; helix-turn-helix, winged-helix, gene regulation; NMR {Streptomyces} SCOP: a.4.5.6

Probab=89.80  E-value=0.22  Score=35.55  Aligned_cols=53  Identities=8%  Similarity=0.258  Sum_probs=40.9

Q ss_pred             HHHHHHhcChhh-HhhhCCCCC-CHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           29 ALKSAVELRLAD-IMHCHGSPI-TLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        29 ~L~~a~elglfd-~L~~~g~~~-t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      .+.-.++..|.+ .+.. |..+ |..+||+.+|++...      +.+.|+.|...|++....
T Consensus        15 ~l~~~i~~~I~~~~l~~-g~~lps~~eLa~~~~vSr~t------vr~al~~L~~~Gli~~~~   69 (102)
T 1v4r_A           15 DVATHFRTLIKSGELAP-GDTLPSVADIRAQFGVAAKT------VSRALAVLKSEGLVSSRG   69 (102)
T ss_dssp             HHHHHHHHHTTTTSCCT-TSBCCCHHHHHHHSSSCTTH------HHHHTTTTTTSSCCEEET
T ss_pred             HHHHHHHHHHHhCCCCC-cCCCcCHHHHHHHHCcCHHH------HHHHHHHHHHCCCEEEeC
Confidence            344445555555 3443 4566 999999999999877      999999999999998776

>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=89.72  E-value=0.089  Score=39.64  Aligned_cols=47  Identities=13%  Similarity=0.174  Sum_probs=38.0

Q ss_pred             cChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           36 LRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        36 lglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      ..++..|....+++|..|||+.+|+++..      +.++++-|...|++.+..
T Consensus        29 ~~il~~L~~~~~~~t~~ela~~l~~~~st------vs~~l~~L~~~G~v~r~~   75 (152)
T 1ku9_A           29 GAVYAILYLSDKPLTISDIMEELKISKGN------VSMSLKKLEELGFVRKVW   75 (152)
T ss_dssp             HHHHHHHHHCSSCEEHHHHHHHHTCCHHH------HHHHHHHHHHTTSEEEEC
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHCcCHHH------HHHHHHHHHHCCCEEEEe
Confidence            33556664223789999999999998766      999999999999999863

>3i71_A Ethanolamine utilization protein EUTK; helix-turn-helix, unknown function; HET: FLC; 2.10A {Escherichia coli}

Probab=89.49  E-value=0.25  Score=31.47  Aligned_cols=49  Identities=12%  Similarity=0.193  Sum_probs=41.5

Q ss_pred             HhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCch
Q 042491           41 IMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQ  102 (266)
Q Consensus        41 ~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~  102 (266)
                      .|.....++|+.|+|...|++-+.      .+.-|..|...|-|.+.+       .+|++.|
T Consensus        11 ll~s~~QGMTaGEVAA~f~w~Le~------ar~aLeqLf~~G~LRKRs-------SRYrlkp   59 (68)
T 3i71_A           11 LLTSVRQGMTAGEVAAHFGWPLEK------ARNALEQLFSAGTLRKRS-------SRYRLKP   59 (68)
T ss_dssp             HHHHCTTCBCHHHHHHHHTCCHHH------HHHHHHHHHHTTSEEEEC-------CEEEECC
T ss_pred             HHHHHhccccHHHHHHHhCCcHHH------HHHHHHHHHhcchhhhhc-------cccccCc
Confidence            344333679999999999999776      888999999999999998       7999877

>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=89.29  E-value=0.2  Score=42.16  Aligned_cols=68  Identities=15%  Similarity=0.247  Sum_probs=52.4

Q ss_pred             hcChhhHhhhCC-CCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           35 ELRLADIMHCHG-SPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        35 elglfd~L~~~g-~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      +..+...|.+.+ +++|..|||+.+++++..      +.++++-|...|++.+....++...-...+|+.++.+.
T Consensus        36 q~~vL~~L~~~~~~~~~~~el~~~l~~~~~t------~t~~l~rLe~~G~i~R~~~~~DrR~~~i~LT~~G~~~~  104 (250)
T 1p4x_A           36 EFILLTYLFHQQENTLPFKKIVSDLCYKQSD------LVQHIKVLVKHSYISKVRSKIDERNTYISISEEQREKI  104 (250)
T ss_dssp             HHHHHHHHHSCSCSEEEHHHHHHHSSSCGGG------THHHHHHHHHTTSCEEEECSSSTTSEEEECCHHHHHHH
T ss_pred             HHHHHHHHHhcCCCCcCHHHHHHHHCCCHhh------HHHHHHHHHHCCCEEecCCCCCCCeEEEEECHHHHHHH
Confidence            345677776542 579999999999999877      99999999999999887633222334688999987644

>3cvo_A Methyltransferase-like protein of unknown functio; rossman fold, structural genomics, joint center for structur genomics, JCSG; HET: MSE PG4; 1.80A {Silicibacter pomeroyi dss-3}

Probab=89.27  E-value=1.6  Score=35.39  Aligned_cols=51  Identities=12%  Similarity=0.051  Sum_probs=34.4

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC---------CCCeEEEEccCC
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV---------YEGVSHVGGDML  245 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~---------~~ri~~~~gd~~  245 (266)
                      +.++||+||+|  . +..++.+.|+-+++-+|. ++-++.+++         .+||+++.||..
T Consensus        30 ~a~~VLEiGtG--y-STl~lA~~~~g~VvtvE~d~~~~~~ar~~l~~~g~~~~~~I~~~~gda~   90 (202)
T 3cvo_A           30 EAEVILEYGSG--G-STVVAAELPGKHVTSVESDRAWARMMKAWLAANPPAEGTEVNIVWTDIG   90 (202)
T ss_dssp             HCSEEEEESCS--H-HHHHHHTSTTCEEEEEESCHHHHHHHHHHHHHSCCCTTCEEEEEECCCS
T ss_pred             CCCEEEEECch--H-HHHHHHHcCCCEEEEEeCCHHHHHHHHHHHHHcCCCCCCceEEEEeCch
Confidence            55799999985  3 444444456778888886 444443332         468999999954

>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=89.12  E-value=1  Score=40.39  Aligned_cols=38  Identities=16%  Similarity=0.301  Sum_probs=28.9

Q ss_pred             CCCceEEEecCCchHHHHHHHHH---C----CCCeEEEeecHHHH
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEF---Y----PHIKGVNFDLPHVV  228 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~---~----P~l~~~~~Dlp~v~  228 (266)
                      +..-+||++|+|+|.++..+++.   .    ..++.+++|.....
T Consensus        79 p~~~~ivElGaG~GtLa~diL~~l~~~p~~~~~~~y~iVE~Sp~L  123 (387)
T 1zkd_A           79 PQTLRLIEIGPGRGTMMADALRALRVLPILYQSLSVHLVEINPVL  123 (387)
T ss_dssp             CSSEEEEEECCTTSHHHHHHHHHHTTSHHHHTTEEEEEECCCHHH
T ss_pred             CCCcEEEEECCCcchHHHHHHHHHHhCCccccccEEEEEecCHHH
Confidence            34568999999999999988865   2    34588899984433

>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=88.79  E-value=0.15  Score=46.60  Aligned_cols=67  Identities=13%  Similarity=0.101  Sum_probs=52.0

Q ss_pred             cChhhHhhhC-CCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           36 LRLADIMHCH-GSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        36 lglfd~L~~~-g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      ..|+..|.+. ++++|..|||+++++++..      +.|+++-|...|++.+....++.+.-...+|+.++.+.
T Consensus       407 ~~vl~~l~~~~~~~~~~~~l~~~~~~~~~~------~t~~~~~le~~g~v~r~~~~~D~R~~~i~lT~~g~~~~  474 (487)
T 1hsj_A          407 IYILNHILRSESNEISSKEIAKCSEFKPYY------LTKALQKLKDLKLLSKKRSLQDERTVIVYVTDTQKANI  474 (487)
T ss_dssp             HHHHHHHHTCSCSEEEHHHHHHSSCCCHHH------HHHHHHHHHTTTTSCCEECCSSSSCCEEECCSSHHHHH
T ss_pred             HHHHHHHHhCCCCCcCHHHHHHHHCCCHHH------HHHHHHHHHHCCCEeecCCCCCCCeEEEEECHHHHHHH
Confidence            4567777653 1579999999999999777      99999999999999987743222344688999887544

>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=88.06  E-value=0.16  Score=41.99  Aligned_cols=47  Identities=17%  Similarity=0.304  Sum_probs=40.6

Q ss_pred             CHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           50 TLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        50 t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      +..+||+.+++++..      +.+.++-|...|++.+..      ...+.+|+.++.+.
T Consensus        26 ~~~~La~~l~vs~~t------vs~~l~~Le~~GlV~r~~------~~~v~LT~~G~~~~   72 (230)
T 1fx7_A           26 LRARIAERLDQSGPT------VSQTVSRMERDGLLRVAG------DRHLELTEKGRALA   72 (230)
T ss_dssp             CHHHHHHHHTCCHHH------HHHHHHHHHHTTSEEECT------TSCEEECHHHHHHH
T ss_pred             cHHHHHHHHCcCHHH------HHHHHHHHHHCCCEEEeC------CccEEECHHHHHHH
Confidence            449999999998766      999999999999999987      36799999987544

>3elk_A Putative transcriptional regulator TA0346; structural genomics, PSI-2, prote structure initiative; 1.70A {Thermoplasma acidophilum}

Probab=88.05  E-value=0.45  Score=35.04  Aligned_cols=71  Identities=14%  Similarity=0.185  Sum_probs=51.7

Q ss_pred             HHHHHHHhcChhhHhhhCCCCCCHHHHHhhcC------CCCCCCCchhhHHHHHHHHhccCcccccccCCCCC--CceEe
Q 042491           28 MALKSAVELRLADIMHCHGSPITLPQLASGIN------SSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSE--ETMYG   99 (266)
Q Consensus        28 ~~L~~a~elglfd~L~~~g~~~t~~eLA~~~g------~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g--~~~y~   99 (266)
                      +.++-..++-|+.+|..  +|.+.-||++.+.      +++..      +...|+-|...|++.......+.+  .-.|+
T Consensus         9 ~l~~g~l~~~IL~lL~~--~p~~gyel~~~l~~~~~~~i~~gt------ly~~L~~Le~~GlI~~~~~~~~~~~~rk~Y~   80 (117)
T 3elk_A            9 RILHGLITLYILKELVK--RPMHGYELQKSMFETTGQALPQGS------IYILLKTMKERGFVISESSVNEKGQQLTVYH   80 (117)
T ss_dssp             HHHHHHHHHHHHHHHHH--SCEEHHHHHHHHHHHHSCCCCTTH------HHHHHHHHHHHTSEEEEEEEC-CCCEEEEEE
T ss_pred             HHHhhHHHHHHHHHHHc--CCCCHHHHHHHHHHHhCCCCCcch------HHHHHHHHHHCCCEEEEeeecCCCCCceEEE
Confidence            34455556667777876  7899999998876      66665      999999999999998765211111  23699


Q ss_pred             Cchhchh
Q 042491          100 LTQISKW  106 (266)
Q Consensus       100 lt~~s~~  106 (266)
                      +|+.++.
T Consensus        81 lT~~G~~   87 (117)
T 3elk_A           81 ITDAGKK   87 (117)
T ss_dssp             ECHHHHH
T ss_pred             ECHHHHH
Confidence            9999974

>2xig_A Ferric uptake regulation protein; hpfur, transcription, homeostasis; HET: CIT; 1.85A {Helicobacter pylori}

Probab=87.85  E-value=0.24  Score=38.23  Aligned_cols=62  Identities=19%  Similarity=0.357  Sum_probs=46.7

Q ss_pred             HHHhcChhhHhhhCCCCCCHHHHHhhc-----CCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCc
Q 042491           32 SAVELRLADIMHCHGSPITLPQLASGI-----NSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLT  101 (266)
Q Consensus        32 ~a~elglfd~L~~~g~~~t~~eLA~~~-----g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt  101 (266)
                      +..+.-|++.|...+++.|++||.+.+     +++      ...+.|.|+.|+..|++.+....  +|..+|..+
T Consensus        26 T~qR~~IL~~l~~~~~~~sa~ei~~~l~~~~~~is------~aTVYR~L~~L~e~Glv~~~~~~--~~~~~Y~~~   92 (150)
T 2xig_A           26 SKQREEVVSVLYRSGTHLSPEEITHSIRQKDKNTS------ISSVYRILNFLEKENFISVLETS--KSGRRYEIA   92 (150)
T ss_dssp             HHHHHHHHHHHHHCSSCBCHHHHHHHHHHHSTTCC------HHHHHHHHHHHHHTTSEEEEEET--TTEEEEEES
T ss_pred             CHHHHHHHHHHHhCCCCCCHHHHHHHHHHhCCCCC------HhhHHHHHHHHHHCCcEEEEEeC--CCceEEEec
Confidence            455667889997755799999999998     444      45699999999999999987632  123457653

>2wk1_A NOVP; transferase, O-methyltransferase, novobiocin, TYLF superfamily; HET: SAH; 1.40A {Streptomyces caeruleus}

Probab=87.25  E-value=1.2  Score=38.08  Aligned_cols=65  Identities=17%  Similarity=0.065  Sum_probs=45.0

Q ss_pred             CCceEEEecCCchHHHHHHHHHC-----CCCeEEEeec----HH-----------------------HHhhCCC------
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFY-----PHIKGVNFDL----PH-----------------------VVATAPV------  233 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~-----P~l~~~~~Dl----p~-----------------------v~~~a~~------  233 (266)
                      ..+.||++|...|.-+..+++..     |+-+++++|.    |+                       .++.+++      
T Consensus       106 ~pg~IlEiGv~~G~Sai~ma~~l~~~g~~~~kI~~~DtfeG~pe~~~~~~~~d~~~~~~~~~~~~~~~~~~ar~n~~~~g  185 (282)
T 2wk1_A          106 VPGDLVETGVWRGGACILMRGILRAHDVRDRTVWVADSFQGIPDVGEDGYAGDRKMALHRRNSVLAVSEEEVRRNFRNYD  185 (282)
T ss_dssp             CCCEEEEECCTTSHHHHHHHHHHHHTTCCSCCEEEEECSSCSCCCCTTSCHHHHHHCGGGGHHHHCCCHHHHHHHHHHTT
T ss_pred             CCCcEEEeecCchHHHHHHHHHhHhcCCCCCEEEEEECCCCCCcccccccccccccccccccccchhHHHHHHHHHHHcC
Confidence            46799999999999887776554     5778999984    11                       0111111      


Q ss_pred             --CCCeEEEEccCCCC---CC--CccEEEe
Q 042491          234 --YEGVSHVGGDMLNA---VP--NADAVFM  256 (266)
Q Consensus       234 --~~ri~~~~gd~~~~---~p--~aD~~~l  256 (266)
                        .++|+++.||+.+.   +|  .+|++++
T Consensus       186 l~~~~I~li~Gda~etL~~~~~~~~d~vfI  215 (282)
T 2wk1_A          186 LLDEQVRFLPGWFKDTLPTAPIDTLAVLRM  215 (282)
T ss_dssp             CCSTTEEEEESCHHHHSTTCCCCCEEEEEE
T ss_pred             CCcCceEEEEeCHHHHHhhCCCCCEEEEEE
Confidence              38999999999874   33  2777765

>2uyo_A Hypothetical protein ML2640; putative methyltransferase, transferas; 1.7A {Mycobacterium leprae} SCOP: c.66.1.57 PDB: 2ckd_A 2uyq_A*

Probab=87.23  E-value=0.98  Score=39.12  Aligned_cols=71  Identities=20%  Similarity=0.258  Sum_probs=52.4

Q ss_pred             CCceEEEecCCchHHHHHHHHHCC-CCeEEEeecHHHHhhCCC---------CCCeEEEEccCCCCCC------C-----
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYP-HIKGVNFDLPHVVATAPV---------YEGVSHVGGDMLNAVP------N-----  250 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P-~l~~~~~Dlp~v~~~a~~---------~~ri~~~~gd~~~~~p------~-----  250 (266)
                      +...||++|||-=+.+..+.  .| +++++-+|.|.|++..++         .++..+++.|+.+.+.      +     
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            56789999999999877765  35 488999999999875442         5789999999987321      1     


Q ss_pred             ccEEEeccccccCC
Q 042491          251 ADAVFMKVIVLIQD  264 (266)
Q Consensus       251 aD~~~l~~vLHd~~  264 (266)
                      -=++++--+||+.+
T Consensus       180 Pt~~i~Egvl~Yl~  193 (310)
T 2uyo_A          180 RTAWLAEGLLMYLP  193 (310)
T ss_dssp             CEEEEECSCGGGSC
T ss_pred             CEEEEEechHhhCC
Confidence            23666667777654

>1yg2_A Gene activator APHA; virulence factor, winged helix, transcripti factor, transcription; 2.20A {Vibrio cholerae} SCOP: a.4.5.61

Probab=87.19  E-value=0.29  Score=38.75  Aligned_cols=63  Identities=11%  Similarity=0.198  Sum_probs=45.9

Q ss_pred             hcChhhHhhhCCCCCCHHHHHhhc--------CCCCCCCCchhhHHHHHHHHhccCcccccccCCCCC--CceEeCchhc
Q 042491           35 ELRLADIMHCHGSPITLPQLASGI--------NSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSE--ETMYGLTQIS  104 (266)
Q Consensus        35 elglfd~L~~~g~~~t~~eLA~~~--------g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g--~~~y~lt~~s  104 (266)
                      ++-|+..|..  +|.+.-||++.+        ++++..      +.+.|+-|...|++.......+++  .-.|++|+.+
T Consensus         4 ~~~iL~lL~~--~~~~gyel~~~l~~~~~~~~~~s~~~------ly~~L~~Le~~GlI~~~~~~~~~~~~r~~Y~lT~~G   75 (179)
T 1yg2_A            4 PHVILTVLST--RDATGYDITKEFSASIGYFWKASHQQ------VYRELNKMGEQGLVTCVLEPQEGKPDRKVYSITQAG   75 (179)
T ss_dssp             HHHHHHHHHH--CCBCHHHHHHHHTTGGGGTCCCCHHH------HHHHHHHHHHTTSEEECCC---------CEEECHHH
T ss_pred             HHHHHHHHhc--CCCCHHHHHHHHHHHhCCccCCCcCc------HHHHHHHHHHCCCeEEEeecCCCCCCceEEEeChHH
Confidence            4556777876  799999999988        455544      999999999999998765321111  3469999998


Q ss_pred             h
Q 042491          105 K  105 (266)
Q Consensus       105 ~  105 (266)
                      +
T Consensus        76 ~   76 (179)
T 1yg2_A           76 R   76 (179)
T ss_dssp             H
T ss_pred             H
Confidence            6

>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=86.85  E-value=0.26  Score=33.53  Aligned_cols=36  Identities=14%  Similarity=0.148  Sum_probs=33.4

Q ss_pred             CCCCHHHHHhhcCC-CCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           47 SPITLPQLASGINS-SCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        47 ~~~t~~eLA~~~g~-~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      +.+++.++|+.+++ ..++      +..++.+|.+.|++++.+
T Consensus        29 ~~i~l~~aa~~L~v~~kRR------iYDI~NVLe~igli~K~~   65 (76)
T 1cf7_A           29 GVLDLKLAADTLAVRQKRR------IYDITNVLEGIGLIEKKS   65 (76)
T ss_dssp             TEEEHHHHHHHTTTCCTHH------HHHHHHHHHHHTSEEEEE
T ss_pred             CcCcHHHHHHHhCCcccee------hhhHHHHHhHhcceeecC
Confidence            67899999999999 7777      999999999999999987

>2g9w_A Conserved hypothetical protein; DNA-binding domain, bacterial transcription repressor, DNA B protein; 1.80A {Mycobacterium tuberculosis} SCOP: a.4.5.39

Probab=86.69  E-value=0.19  Score=37.99  Aligned_cols=53  Identities=15%  Similarity=0.246  Sum_probs=40.3

Q ss_pred             HhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           34 VELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        34 ~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      .++.|+..|....+++|..||++.++.+.  ......+.++|+-|...|++.+..
T Consensus        10 ~e~~vL~~L~~~~~~~t~~el~~~l~~~~--~~~~~Tvt~~l~rLe~kGlv~r~~   62 (138)
T 2g9w_A           10 LERAVMDHLWSRTEPQTVRQVHEALSARR--DLAYTTVMAVLQRLAKKNLVLQIR   62 (138)
T ss_dssp             HHHHHHHHHHTCSSCEEHHHHHHHHTTTC--CCCHHHHHHHHHHHHHTTSEEEEC
T ss_pred             HHHHHHHHHHhcCCCCCHHHHHHHHhccC--CCCHHHHHHHHHHHHHCCCEEEEe
Confidence            45667778876226899999999998421  111345999999999999999876

>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=86.66  E-value=0.19  Score=44.78  Aligned_cols=58  Identities=14%  Similarity=0.285  Sum_probs=43.2

Q ss_pred             HHHHHHHHHHHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCccccccc
Q 042491           24 FADSMALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRS   89 (266)
Q Consensus        24 ~~~~~~L~~a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~   89 (266)
                      +..+++++...+..|++.|. + +++|..|||+.+|+++..      +.++++-|...|++.+.+.
T Consensus        11 ~~~~~~~~~~~~~~il~~l~-~-~~~sr~~la~~~gls~~t------v~~~v~~L~~~gli~~~~~   68 (380)
T 2hoe_A           11 HHMPKSVRAENISRILKRIM-K-SPVSRVELAEELGLTKTT------VGEIAKIFLEKGIVVEEKD   68 (380)
T ss_dssp             -----------CCCSHHHHH-H-SCBCHHHHHHHHTCCHHH------HHHHHHHHHHHTSEEEEEC
T ss_pred             ccCchhHHHHHHHHHHHHHH-c-CCcCHHHHHHHHCcCHHH------HHHHHHHHHHCCCEEeecC
Confidence            34567888888889999999 5 799999999999999766      9999999999999998763

>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=86.55  E-value=0.52  Score=34.56  Aligned_cols=71  Identities=15%  Similarity=0.266  Sum_probs=50.4

Q ss_pred             HHHHHHHhcChhhHhhhCCCCCCHHHHHhhc--------CCCCCCCCchhhHHHHHHHHhccCcccccccC--CCCCCce
Q 042491           28 MALKSAVELRLADIMHCHGSPITLPQLASGI--------NSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSS--DGSEETM   97 (266)
Q Consensus        28 ~~L~~a~elglfd~L~~~g~~~t~~eLA~~~--------g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~--~~~g~~~   97 (266)
                      +.++-..++=|..+|..  +|.+--+|.+.+        ++++..      +.++|+-|...|++......  ++...-.
T Consensus         7 ~~~~g~l~~~IL~~L~~--~~~~Gyei~~~l~~~~~~~~~i~~gt------ly~~L~rLe~~GlI~~~~~~~~~~~~rk~   78 (116)
T 3f8b_A            7 EMLRAQTNVILLNVLKQ--GDNYVYGIIKQVKEASNGEMELNEAT------LYTIFKRLEKDGIISSYWGDESQGGRRKY   78 (116)
T ss_dssp             HHHHHHHHHHHHHHHHH--CCBCHHHHHHHHHHHTTTCCCCCHHH------HHHHHHHHHHTTSEEEEEEC----CCEEE
T ss_pred             HHHhchHHHHHHHHHHh--CCCCHHHHHHHHHHHhCCCCCCCcch------HHHHHHHHHHCCCEEEEeeccCCCCCceE
Confidence            44455556666777776  789999998887        455544      99999999999999876421  1111235


Q ss_pred             EeCchhchh
Q 042491           98 YGLTQISKW  106 (266)
Q Consensus        98 y~lt~~s~~  106 (266)
                      |++|+.++.
T Consensus        79 Y~LT~~G~~   87 (116)
T 3f8b_A           79 YRLTEIGHE   87 (116)
T ss_dssp             EEECHHHHH
T ss_pred             EEECHHHHH
Confidence            999999974

>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=86.40  E-value=0.39  Score=35.35  Aligned_cols=71  Identities=14%  Similarity=0.075  Sum_probs=49.9

Q ss_pred             HHHHHHHhcChhhHhhhCCCCCCHHHHHhhc------CCCCCCCCchhhHHHHHHHHhccCcccccccCCCCC--CceEe
Q 042491           28 MALKSAVELRLADIMHCHGSPITLPQLASGI------NSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSE--ETMYG   99 (266)
Q Consensus        28 ~~L~~a~elglfd~L~~~g~~~t~~eLA~~~------g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g--~~~y~   99 (266)
                      +.++-.+++=|..+|..  +|.+--||++.+      ++++..      +..+|+-|...|++.......++|  .-.|+
T Consensus         8 ~l~~g~l~~~IL~lL~~--~p~~Gyei~~~l~~~g~~~is~gt------lY~~L~rLe~~GlI~~~~~~~~~g~~rk~Y~   79 (116)
T 3hhh_A            8 ELLKGILEGLVLAIIQR--KETYGYEITKILNDQGFTEIVEGT------VYTILLRLEKNQWVIAEKKPSEKGPMRKFYR   79 (116)
T ss_dssp             HHHTTHHHHHHHHHHHH--SCBCHHHHHHHHHTTSCSSCCHHH------HHHHHHHHHHTTSEEEEEEECC--CEEEEEE
T ss_pred             HHHhhhHHHHHHHHHhc--CCCCHHHHHHHHHHcCCCCCCccH------HHHHHHHHHHCCCEEEEeeecCCCCCceEEE
Confidence            34444455556677776  789989999987      455544      999999999999998764211112  23599


Q ss_pred             Cchhchh
Q 042491          100 LTQISKW  106 (266)
Q Consensus       100 lt~~s~~  106 (266)
                      +|+.++.
T Consensus        80 lT~~G~~   86 (116)
T 3hhh_A           80 LTSSGEA   86 (116)
T ss_dssp             ECHHHHH
T ss_pred             ECHHHHH
Confidence            9999974

>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=86.19  E-value=0.14  Score=45.11  Aligned_cols=60  Identities=12%  Similarity=0.090  Sum_probs=0.0

Q ss_pred             hcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           35 ELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        35 elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      +..|+..|... +++|..|||+.+|+++..      +.|.|+.|...|+++...       ....+|+.++.+.
T Consensus        22 ~~~iL~~l~~~-~~~t~~eLa~~l~vs~~T------v~r~l~~Le~~Glv~~~~-------~gi~LT~~G~~~~   81 (345)
T 2o0m_A           22 RFQILRNIYWM-QPIGRRSLSETMGITERV------LRTETDVLKQLNLIEPSK-------SGMTLTERGLEVY   81 (345)
T ss_dssp             --------------------------------------------------------------------------
T ss_pred             HHHHHHHHHHc-CCCCHHHHHHHHCcCHHH------HHHHHHHHHHCCCEEEEe-------cceEEcHHHHHHH
Confidence            46677788764 789999999999999988      999999999999998544       3466888776544

>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=86.13  E-value=0.22  Score=38.22  Aligned_cols=71  Identities=13%  Similarity=0.120  Sum_probs=50.8

Q ss_pred             HHHHHHhcChhhHhhhCCCCCCHHHHHhhc--------CCCCCCCCchhhHHHHHHHHhccCcccccccC--CCCCCceE
Q 042491           29 ALKSAVELRLADIMHCHGSPITLPQLASGI--------NSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSS--DGSEETMY   98 (266)
Q Consensus        29 ~L~~a~elglfd~L~~~g~~~t~~eLA~~~--------g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~--~~~g~~~y   98 (266)
                      .+.-..++-|+.+|..  ++.+.-||++.+        ++++..      +.++|+-|...|++......  ++...-.|
T Consensus        37 ~~~g~~~~~IL~~L~~--~~~~gyeI~~~l~~~~~~~~~is~gt------Ly~~L~rLE~~GlI~~~~~~~~~~~~rk~Y  108 (145)
T 1xma_A           37 VIRGYVDTIILSLLIE--GDSYGYEISKNIRIKTDELYVIKETT------LYSAFARLEKNGYIKSYYGEETQGKRRTYY  108 (145)
T ss_dssp             SGGGTHHHHHHHHHHH--CCEEHHHHHHHHHHHHTTSCCCCHHH------HHHHHHHHHHTTSEEEEEEEEC--CEEEEE
T ss_pred             HhcCcHHHHHHHHHHh--CCCCHHHHHHHHHHhhCCccCcChhH------HHHHHHHHHHCCCEEEEEeccCCCCCeEEE
Confidence            3444456677778876  789999988887        466555      99999999999999876421  11122469


Q ss_pred             eCchhchhh
Q 042491           99 GLTQISKWL  107 (266)
Q Consensus        99 ~lt~~s~~l  107 (266)
                      ++|+.++.+
T Consensus       109 ~LT~~G~~~  117 (145)
T 1xma_A          109 RITPEGIKY  117 (145)
T ss_dssp             EECHHHHHH
T ss_pred             EECHHHHHH
Confidence            999998744

>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=86.04  E-value=0.34  Score=39.89  Aligned_cols=49  Identities=14%  Similarity=0.248  Sum_probs=41.8

Q ss_pred             CCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           48 PITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        48 ~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      +.+..+||+.+++++..      +.+.++-|...|++.+..      ...+.+|+.++.+.
T Consensus        24 ~~~~~~la~~l~vs~~t------vs~~l~~Le~~GlV~r~~------~~~v~LT~~G~~~~   72 (226)
T 2qq9_A           24 TPLRARIAERLEQSGPT------VSQTVARMERDGLVVVAS------DRSLQMTPTGRTLA   72 (226)
T ss_dssp             CCBHHHHHHHHTCCHHH------HHHHHHHHHHTTSEEECT------TSBEEECHHHHHHH
T ss_pred             CccHHHHHHHHCCCHHH------HHHHHHHHHHCCCEEEeC------CCCeEECHHHHHHH
Confidence            34569999999998766      999999999999999987      46799999987544

>2pjp_A Selenocysteine-specific elongation factor; SELB, protein-RNA complex, elongation factor, winged- helix, bulge, translation/RNA complex; 2.30A {Escherichia coli}

Probab=85.60  E-value=0.3  Score=36.13  Aligned_cols=54  Identities=13%  Similarity=0.157  Sum_probs=43.6

Q ss_pred             cChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchh
Q 042491           36 LRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQI  103 (266)
Q Consensus        36 lglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~  103 (266)
                      ..|.+.+..  .|.++.|||+.+|+++..      +..+|+.|+..|.+....      .+.|.++..
T Consensus        10 ~~i~~~~~~--~p~~~~~la~~~~~~~~~------~~~~l~~l~~~G~l~~i~------~~~~~~~~~   63 (121)
T 2pjp_A           10 QKAEPLFGD--EPWWVRDLAKETGTDEQA------MRLTLRQAAQQGIITAIV------KDRYYRNDR   63 (121)
T ss_dssp             HHHGGGCSS--SCEEHHHHHHHTTCCHHH------HHHHHHHHHHTTSEEEEE------TTEEEEHHH
T ss_pred             HHHHHHHHh--CCCCHHHHHHHhCCCHHH------HHHHHHHHHHCCCEEEec------CCceECHHH
Confidence            345555643  578999999999998766      999999999999999988      477776653

>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=85.06  E-value=0.59  Score=40.27  Aligned_cols=68  Identities=12%  Similarity=0.061  Sum_probs=43.0

Q ss_pred             CCCCceEEEecCCchHHHHHHHHHCCCCeEEEeecHHHHhhCC---C--C-CCeEEEEc-cCCCCCC-CccEEEec
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAP---V--Y-EGVSHVGG-DMLNAVP-NADAVFMK  257 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~a~---~--~-~ri~~~~g-d~~~~~p-~aD~~~l~  257 (266)
                      +....+|||+||+.|.+...+++..+-..++++|+-......+   .  . +-+.+..+ |++.-.+ .+|+++.-
T Consensus        79 ~~~g~~vlDLGaaPGgWsqva~~~~gv~sV~Gvdlg~~~~~~P~~~~~~~~~iv~~~~~~di~~l~~~~~DlVlsD  154 (300)
T 3eld_A           79 LRITGRVLDLGCGRGGWSYYAAAQKEVMSVKGYTLGIEGHEKPIHMQTLGWNIVKFKDKSNVFTMPTEPSDTLLCD  154 (300)
T ss_dssp             CCCCEEEEEETCTTCHHHHHHHTSTTEEEEEEECCCCTTSCCCCCCCBTTGGGEEEECSCCTTTSCCCCCSEEEEC
T ss_pred             CCCCCEEEEcCCCCCHHHHHHHHhcCCceeeeEEeccccccccccccccCCceEEeecCceeeecCCCCcCEEeec
Confidence            5677899999999999999999887666667777732110000   0  1 22444444 5554222 38988864

>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=83.72  E-value=0.5  Score=38.31  Aligned_cols=47  Identities=15%  Similarity=0.144  Sum_probs=41.2

Q ss_pred             CCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchh
Q 042491           47 SPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKW  106 (266)
Q Consensus        47 ~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~  106 (266)
                      ++++..+||+.+|+.+..      +...++.|...|+++...       +...+|+.++.
T Consensus        29 ~~V~~~~LA~~LgvS~~S------V~~~lkkL~e~GLV~~~~-------~Gv~LTe~G~~   75 (200)
T 2p8t_A           29 EPLGRKQISERLELGEGS------VRTLLRKLSHLDIIRSKQ-------RGHFLTLKGKE   75 (200)
T ss_dssp             SCBCHHHHHHHHTCCHHH------HHHHHHHHHHTTSEEEC---------CEEECHHHHH
T ss_pred             CCccHHHHHHHhCCCHHH------HHHHHHHHHHCCCEEEeC-------CCeEECHHHHH
Confidence            689999999999999877      999999999999998886       68889998864

>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=83.60  E-value=0.22  Score=36.65  Aligned_cols=52  Identities=10%  Similarity=0.164  Sum_probs=40.6

Q ss_pred             HhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           34 VELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        34 ~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      .++.|+..|... +++|..|||+.++.+..  .....+.++++-|...|++.+..
T Consensus        11 ~q~~vL~~L~~~-~~~t~~el~~~l~~~~~--~~~~Tvt~~l~rLe~kGlv~R~~   62 (126)
T 1sd4_A           11 AEWDVMNIIWDK-KSVSANEIVVEIQKYKE--VSDKTIRTLITRLYKKEIIKRYK   62 (126)
T ss_dssp             HHHHHHHHHHHS-SSEEHHHHHHHHHTTSC--CCHHHHHHHHHHHHHTTSEEEEE
T ss_pred             HHHHHHHHHHhc-CCCCHHHHHHHHhhcCC--CChhhHHHHHHHHHHCCceEEEe
Confidence            456677788775 68999999999985311  11455999999999999999877

>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=83.50  E-value=0.23  Score=35.33  Aligned_cols=49  Identities=18%  Similarity=0.188  Sum_probs=42.0

Q ss_pred             HhcChhhHhhhCC-CCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           34 VELRLADIMHCHG-SPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        34 ~elglfd~L~~~g-~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      -|.-|+..|..+| .+++..||..+++++...      +.++|+.|...|++....
T Consensus        38 ~E~lVy~~I~~aGn~GIw~kdL~~~tnL~~~~------vtkiLK~LE~k~lIK~Vk   87 (95)
T 2yu3_A           38 QEKLVYQIIEDAGNKGIWSRDVRYKSNLPLTE------INKILKNLESKKLIKAVK   87 (95)
T ss_dssp             HHHHHHHHHHHHTTSCEEHHHHHHHHTCCHHH------HHHHHHHHHHHTSEEEEC
T ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHhCCCHHH------HHHHHHHHHhCCCEEEec
Confidence            3455778887754 679999999999999876      999999999999999876

>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=83.22  E-value=0.55  Score=41.99  Aligned_cols=53  Identities=9%  Similarity=0.127  Sum_probs=43.6

Q ss_pred             HHHHHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCccccccc
Q 042491           30 LKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRS   89 (266)
Q Consensus        30 L~~a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~   89 (266)
                      ++..-+..|++.|..+ +++|..|||+.+|+++..      +.++++-|...|++.+.+.
T Consensus        13 ~r~~n~~~il~~l~~~-~~~sr~~la~~~~ls~~t------v~~~v~~L~~~g~i~~~~~   65 (406)
T 1z6r_A           13 IKQTNAGAVYRLIDQL-GPVSRIDLSRLAQLAPAS------ITKIVHEMLEAHLVQELEI   65 (406)
T ss_dssp             HHHHHHHHHHHHHHSS-CSCCHHHHHHHTTCCHHH------HHHHHHHHHHHTSEEEC--
T ss_pred             HHHhHHHHHHHHHHHc-CCcCHHHHHHHHCCCHHH------HHHHHHHHHHCCcEEeecc
Confidence            4444555688899875 799999999999999766      9999999999999998653

>2w57_A Ferric uptake regulation protein; gene regulation, transcription regulation, transport, iron, repressor, DNA-binding, transcription; 2.60A {Vibrio cholerae}

Probab=83.21  E-value=0.27  Score=37.93  Aligned_cols=64  Identities=11%  Similarity=0.230  Sum_probs=44.2

Q ss_pred             HhcChhhHhhhCC-CCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeC
Q 042491           34 VELRLADIMHCHG-SPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGL  100 (266)
Q Consensus        34 ~elglfd~L~~~g-~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~l  100 (266)
                      .+.-|++.|...+ ++.|++||.+.+.-... ......+.|.|+.|+..|++.+....  +|..+|.+
T Consensus        18 qR~~Il~~L~~~~~~h~sa~ei~~~l~~~~~-~is~aTVYR~L~~L~e~Glv~~~~~~--~~~~~Y~~   82 (150)
T 2w57_A           18 PRLKILEVLQQPECQHISAEELYKKLIDLGE-EIGLATVYRVLNQFDDAGIVTRHHFE--GGKSVFEL   82 (150)
T ss_dssp             HHHHHHHHHTSGGGSSEEHHHHHHHHHHTTC-CCCHHHHHHHHHHHHHTTSEEEEECG--GGCEEEEE
T ss_pred             HHHHHHHHHHhCCCCCCCHHHHHHHHHHhCC-CCCHHHHHHHHHHHHHCCcEEEEEeC--CCceEEEe
Confidence            3455788887655 68999999999832100 11245699999999999999987521  12346765

>1g60_A Adenine-specific methyltransferase MBOIIA; structural genomics, DNA methylation, S- adenosylmethionine, PSI, protein structure initiative; HET: SAM; 1.74A {Moraxella bovis} SCOP: c.66.1.11

Probab=82.25  E-value=2.3  Score=35.49  Aligned_cols=48  Identities=13%  Similarity=0.132  Sum_probs=35.3

Q ss_pred             HHHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhC
Q 042491          179 MSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATA  231 (266)
Q Consensus       179 ~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a  231 (266)
                      ...++..+.   .....|||..||+|+.+.+..+.  +-+++++|+ |..++.+
T Consensus       202 ~~~~i~~~~---~~~~~vlD~f~GsGtt~~~a~~~--gr~~ig~e~~~~~~~~~  250 (260)
T 1g60_A          202 IERIIRASS---NPNDLVLDCFMGSGTTAIVAKKL--GRNFIGCDMNAEYVNQA  250 (260)
T ss_dssp             HHHHHHHHC---CTTCEEEESSCTTCHHHHHHHHT--TCEEEEEESCHHHHHHH
T ss_pred             HHHHHHHhC---CCCCEEEECCCCCCHHHHHHHHc--CCeEEEEeCCHHHHHHH
Confidence            444555442   34579999999999999998887  568999998 5455443

>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=82.25  E-value=0.61  Score=33.52  Aligned_cols=40  Identities=13%  Similarity=0.198  Sum_probs=31.8

Q ss_pred             HHHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHh
Q 042491           32 SAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLV   79 (266)
Q Consensus        32 ~a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~   79 (266)
                      .+.++||+..|..  +..|..|||+.+|++..      ++.|+-|.|.
T Consensus        44 l~~R~~l~~~L~~--ge~TQREIA~~lGiS~s------tISRi~r~L~   83 (101)
T 1jhg_A           44 LGTRVRIIEELLR--GEMSQRELKNELGAGIA------TITRGSNSLK   83 (101)
T ss_dssp             HHHHHHHHHHHHH--CCSCHHHHHHHHCCCHH------HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHc--CCcCHHHHHHHHCCChh------hhhHHHHHHH
Confidence            3456899999986  78999999999999853      4777766654

>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=82.17  E-value=2.1  Score=38.49  Aligned_cols=40  Identities=20%  Similarity=0.201  Sum_probs=32.5

Q ss_pred             CCCceEEEecCCchHHHHHHH-HHCCC-CeEEEeec-HHHHhh
Q 042491          191 DGIRSLVDVGGGTGEELAEIV-EFYPH-IKGVNFDL-PHVVAT  230 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~-~~~P~-l~~~~~Dl-p~v~~~  230 (266)
                      .+...|+|||++.|.++..++ +..|. .+++.++. |...+.
T Consensus       225 ~~~~~viDvGAn~G~~s~~~a~~~~~~~~~V~afEP~p~~~~~  267 (409)
T 2py6_A          225 SDSEKMVDCGASIGESLAGLIGVTKGKFERVWMIEPDRINLQT  267 (409)
T ss_dssp             CSSCEEEEETCTTSHHHHHHHHHHTSCCSEEEEECCCHHHHHH
T ss_pred             CCCCEEEECCCCcCHHHHHHHHHhcCCCCEEEEEcCCHHHHHH
Confidence            466899999999999999988 67776 79999996 555443

>2qlz_A Transcription factor PF0095; 2.50A {Pyrococcus furiosus} PDB: 2quf_A

Probab=82.13  E-value=1.3  Score=36.68  Aligned_cols=53  Identities=11%  Similarity=0.073  Sum_probs=43.7

Q ss_pred             cChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCch
Q 042491           36 LRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQ  102 (266)
Q Consensus        36 lglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~  102 (266)
                      .-|.-.|..  ++.|.++||+.+|++++-      +...|.-|...|+++...      +++..+..
T Consensus       168 ~~l~~~l~~--~~~t~~~la~~~~l~~~~------V~~~l~~L~~~~~v~~~~------~~~~~~~~  220 (232)
T 2qlz_A          168 AILHYLLLN--GRATVEELSDRLNLKERE------VREKISEMARFVPVKIIN------DNTVVLDE  220 (232)
T ss_dssp             HHHHHHHHS--SEEEHHHHHHHHTCCHHH------HHHHHHHHTTTSCEEEET------TTEEEECH
T ss_pred             HHHHHHHhc--CCCCHHHHHHHhCcCHHH------HHHHHHHHHhcCCeEEec------CCeEEecH
Confidence            345555665  899999999999999876      999999999999998776      47777655

>3l7w_A Putative uncharacterized protein SMU.1704; PADR, transcriptional factor, transcription; HET: MSE; 2.20A {Streptococcus mutans} SCOP: a.4.5.0

Probab=81.69  E-value=0.37  Score=34.82  Aligned_cols=65  Identities=15%  Similarity=0.159  Sum_probs=45.9

Q ss_pred             HHhcChhhHhhhCCCCCCHHHHHhhc----CCCCCCCCchhhHHHHHHHHhccCcccccccCCCCC--CceEeCchhchh
Q 042491           33 AVELRLADIMHCHGSPITLPQLASGI----NSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSE--ETMYGLTQISKW  106 (266)
Q Consensus        33 a~elglfd~L~~~g~~~t~~eLA~~~----g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g--~~~y~lt~~s~~  106 (266)
                      ..++-|+..|..  +|.+--+|++.+    ++++..      +.++|+-|...|++....... ++  .-.|++|+.++.
T Consensus         9 ~l~~~IL~~L~~--~~~~gyel~~~l~~~~~i~~~t------ly~~L~~Le~~GlI~~~~~~~-~~r~r~~y~LT~~G~~   79 (108)
T 3l7w_A            9 LIEYLILAIVSK--HDSYGYDISQTIKLIASIKEST------LYPILKKLEKAGYLSTYTQEH-QGRRRKYYHLTDSGEK   79 (108)
T ss_dssp             HHHHHHHHHHHH--SCEEHHHHHHHHTTTCCCCHHH------HHHHHHHHHHTTSEEEEEEEE-TTEEEEEEEECHHHHH
T ss_pred             HHHHHHHHHHHc--CCCcHHHHHHHHHHHhCCCcCh------HHHHHHHHHHCCCeEEEeecC-CCCcceEEEECHHHHH
Confidence            345556667776  677777777664    676655      999999999999998764211 11  234999999874

>3eyy_A Putative iron uptake regulatory protein; NUR, nickel-uptake regulator, D-domain, dimerization domain, DB-domain, DNA-binding domain; 2.40A {Streptomyces coelicolor}

Probab=81.20  E-value=0.56  Score=35.86  Aligned_cols=64  Identities=11%  Similarity=0.140  Sum_probs=44.7

Q ss_pred             HhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCc
Q 042491           34 VELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLT  101 (266)
Q Consensus        34 ~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt  101 (266)
                      .+.-|++.|...+ +.|++||.+.+.-... ......+.|.|+.|+..|++.+....  +|..+|.+.
T Consensus        20 qR~~Il~~l~~~~-h~ta~ei~~~l~~~~~-~is~~TVYR~L~~L~e~Glv~~i~~~--~~~~~Y~~~   83 (145)
T 3eyy_A           20 QRQLVLEAVDTLE-HATPDDILGEVRKTAS-GINISTVYRTLELLEELGLVSHAHLG--HGAPTYHLA   83 (145)
T ss_dssp             HHHHHHHHHHHHS-SBCHHHHHHHHHTTCT-TCCHHHHHHHHHHHHHHTSEEEEECG--GGCEEEEET
T ss_pred             HHHHHHHHHHhcC-CCCHHHHHHHHHhhCC-CCCHhHHHHHHHHHHHCCcEEEEEeC--CCceEEEeC
Confidence            4556788887764 8999999998842211 12356799999999999999987631  233467653

>1z05_A Transcriptional regulator, ROK family; structural genomics, protein structure initiative, midwest center for structural genomics; 2.00A {Vibrio cholerae o1 biovar eltor} SCOP: a.4.5.63 c.55.1.10 c.55.1.10

Probab=80.82  E-value=0.64  Score=41.97  Aligned_cols=53  Identities=17%  Similarity=0.235  Sum_probs=45.6

Q ss_pred             HHHHHHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           29 ALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        29 ~L~~a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      .++..-+..|++.|... +++|..|||+.+|+++..      +.++++-|...|++.+.+
T Consensus        35 ~~r~~n~~~il~~l~~~-~~~sr~ela~~~gls~~t------v~~~v~~L~~~gli~~~~   87 (429)
T 1z05_A           35 HIKQINAGRVYKLIDQK-GPISRIDLSKESELAPAS------ITKITRELIDAHLIHETT   87 (429)
T ss_dssp             HHHHHHHHHHHHHHHHH-CSBCHHHHHHHHTCCHHH------HHHHHHHHHHTTSEEEEC
T ss_pred             HHHHHHHHHHHHHHHHc-CCcCHHHHHHHHCCCHHH------HHHHHHHHHHCCCEEecc
Confidence            35555666789999875 799999999999999766      999999999999999875

>3lmm_A Uncharacterized protein; multi-domained alpha-beta protein, structural genomics, PSI- 2, protein structure initiative; 3.00A {Corynebacterium diphtheriae}

Probab=80.58  E-value=0.72  Score=43.61  Aligned_cols=60  Identities=15%  Similarity=0.154  Sum_probs=50.3

Q ss_pred             hcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhc-----cCcccccccCCCCCCceEeCchhchhhh
Q 042491           35 ELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVR-----KGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        35 elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~-----~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      +..|+..|..+ +.+|..+||+.+++++..      +.+.|+.|..     .|+++..+       +.|.+++......
T Consensus       432 ~~~iL~~l~~~-~~it~~~la~~l~~s~~~------~~~~L~~L~~~~~~~~glie~~g-------~~y~L~~~~~~~~  496 (583)
T 3lmm_A          432 IAIVLYLLFQR-PFITIDVVARGLQSGKEA------ARNALEAARQTTVAGAPLIIAHD-------GVWLLGNACREIL  496 (583)
T ss_dssp             HHHHHHHHHHS-SSBCHHHHHHHHTSCHHH------HHHHHHHHHTCEETTEESEEEET-------TEEEECHHHHHHH
T ss_pred             HHHHHHHHHHC-CCcCHHHHHHHhCcCHHH------HHHHHHHHHhhhccccceEEEeC-------CEEEECHHHHHHh
Confidence            34577777775 789999999999999877      9999999999     89999987       7899999755333

>4esb_A Transcriptional regulator, PADR family; DNA binding protein, HTH fold; 2.50A {Bacillus cereus}

Probab=80.58  E-value=0.5  Score=34.68  Aligned_cols=64  Identities=11%  Similarity=0.078  Sum_probs=45.8

Q ss_pred             hcChhhHhhhCCCCCCHHHHHhhcC------CCCCCCCchhhHHHHHHHHhccCcccccccCCCCC--CceEeCchhchh
Q 042491           35 ELRLADIMHCHGSPITLPQLASGIN------SSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSE--ETMYGLTQISKW  106 (266)
Q Consensus        35 elglfd~L~~~g~~~t~~eLA~~~g------~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g--~~~y~lt~~s~~  106 (266)
                      ++=|+..|..  +|.+--+|++.+.      +++..      +...|+-|...|++.......++|  .-.|++|+.++.
T Consensus        11 ~~~IL~~L~~--~~~~Gyei~~~l~~~~~~~is~gt------lY~~L~rLe~~GlI~~~~~~~~~g~~rk~Y~LT~~G~~   82 (115)
T 4esb_A           11 EGCILYIISQ--EEVYGYELSTKLNKHGFTFVSEGS------IYPLLLRMQKEKLIEGTLKASSLGPKRKYYHITDKGLE   82 (115)
T ss_dssp             HHHHHHHHHH--SCEEHHHHHHHHHHTTCTTCCHHH------HHHHHHHHHHTTSEEEEEEECTTSCEEEEEEECHHHHH
T ss_pred             HHHHHHHHHc--CCCCHHHHHHHHHHcCCCCCCcCh------HHHHHHHHHHCCCeEEEeeecCCCCCcEEEEECHHHHH
Confidence            3445666765  7889999998874      55544      999999999999998764211112  235999999974

---

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	266
d1fp2a2	244	c.66.1.12 (A:109-352) Isoflavone O-methyltransfera	2e-41
d1fp1d2	244	c.66.1.12 (D:129-372) Chalcone O-methyltransferase	1e-39
d1kyza2	243	c.66.1.12 (A:120-362) Caffeic acid/5-hydroxyferuli	9e-37
d1fp2a1	101	a.4.5.29 (A:8-108) Isoflavone O-methyltransferase	6e-28
d1fp1d1	110	a.4.5.29 (D:19-128) Chalcone O-methyltransferase {	7e-26
d1kyza1	107	a.4.5.29 (A:13-119) Caffeic acid/5-hydroxyferulic	5e-24
d1qzza2	256	c.66.1.12 (A:102-357) Aclacinomycin-10-hydroxylase	3e-19
d1tw3a2	253	c.66.1.12 (A:99-351) Carminomycin 4-O-methyltransf	9e-18
d1qzza1	92	a.4.5.29 (A:10-101) Aclacinomycin-10-hydroxylase R	7e-13
d1tw3a1	85	a.4.5.29 (A:14-98) Carminomycin 4-O-methyltransfer	5e-11

>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 =  140 bits (354), Expect = 2e-41
 Identities = 57/149 (38%), Positives = 79/149 (53%), Gaps = 2/149 (1%)

Query: 113 MSLAPMILFQNSQLLQAPCHHLSQCVEEGG-HAFKKAHGCEMWDFASQNSQFNNSFNKAM 171
           + LAPM+       L    H L + + E     F    G   WDF  +N ++N SFN AM
Sbjct: 1   LCLAPMVECVLDPTLSGSYHELKKWIYEEDLTLFGVTLGSGFWDFLDKNPEYNTSFNDAM 60

Query: 172 ACTAKIVMSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATA 231
           A  +K++   L       FDG+ S+VDVGGGTG     I E +P +K + FD P VV   
Sbjct: 61  ASDSKLINLALR-DCDFVFDGLESIVDVGGGTGTTAKIICETFPKLKCIVFDRPQVVENL 119

Query: 232 PVYEGVSHVGGDMLNAVPNADAVFMKVIV 260
                +++VGGDM  ++PNADAV +K I+
Sbjct: 120 SGSNNLTYVGGDMFTSIPNADAVLLKYIL 148

>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 =  136 bits (342), Expect = 1e-39
 Identities = 57/147 (38%), Positives = 78/147 (53%), Gaps = 2/147 (1%)

Query: 114 SLAPMILFQNSQLLQAPCHHLSQCVEEGG-HAFKKAHGCEMWDFASQNSQFNNSFNKAMA 172
            LA    F     L     +  + V +     FK  HG   ++F  ++ + N  FNK+M 
Sbjct: 3   YLASFTTFLCYPALLQVWMNFKEAVVDEDIDLFKNVHGVTKYEFMGKDKKMNQIFNKSMV 62

Query: 173 CTAKIVMSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAP 232
                 M  +L  Y  GF+GI +LVDVGGG+G  L  I+  YP IKG+NFDLP V+  AP
Sbjct: 63  DVCATEMKRMLEIY-TGFEGISTLVDVGGGSGRNLELIISKYPLIKGINFDLPQVIENAP 121

Query: 233 VYEGVSHVGGDMLNAVPNADAVFMKVI 259
              G+ HVGGDM  +VP  DA+ +K +
Sbjct: 122 PLSGIEHVGGDMFASVPQGDAMILKAV 148

>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 =  128 bits (322), Expect = 9e-37
 Identities = 69/147 (46%), Positives = 94/147 (63%), Gaps = 1/147 (0%)

Query: 113 MSLAPMILFQNSQLLQAPCHHLSQCVEEGGHAFKKAHGCEMWDFASQNSQFNNSFNKAMA 172
           +S++ + L    ++L    +HL   V +GG  F KA+G   +++   + +FN  FNK M+
Sbjct: 3   VSISALNLMNQDKVLMESWYHLKDAVLDGGIPFNKAYGMTAFEYHGTDPRFNKVFNKGMS 62

Query: 173 CTAKIVMSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAP 232
             + I M  +L  Y  GF+G++SLVDVGGGTG  +  IV  YP IKG+NFDLPHV+  AP
Sbjct: 63  DHSTITMKKILETY-TGFEGLKSLVDVGGGTGAVINTIVSKYPTIKGINFDLPHVIEDAP 121

Query: 233 VYEGVSHVGGDMLNAVPNADAVFMKVI 259
            Y GV HVGGDM  ++P ADAVFMK I
Sbjct: 122 SYPGVEHVGGDMFVSIPKADAVFMKWI 148

>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 =  101 bits (252), Expect = 6e-28
 Identities = 34/105 (32%), Positives = 57/105 (54%), Gaps = 7/105 (6%)

Query: 8   EDVLRGQAQVWQLMFAFADSMALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHI 67
            ++ + QA +++ ++AF DSM+LK AVE+ + +I+  HG PI+L  L S +      +  
Sbjct: 4   SEIFKAQALLYKHIYAFIDSMSLKWAVEMNIPNIIQNHGKPISLSNLVSILQVPSSKI-- 61

Query: 68  IPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLLRDSE 112
             ++ R+MR L   G F      + S    Y LT  S+ L+R S+
Sbjct: 62  -GNVRRLMRYLAHNGFFEIITKEEES----YALTVASELLVRGSD 101

>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 = 96.0 bits (239), Expect = 7e-26
 Identities = 24/100 (24%), Positives = 45/100 (45%), Gaps = 5/100 (5%)

Query: 16  QVWQLMFAFADSMALKSAVELRLADIMHCHGSP---ITLPQLASGINSSCPDVHIIPSLT 72
               L         L +A++L L +I+     P   ++  ++AS + +S     +   L 
Sbjct: 9   SAMVLTTNLVYPAVLNAAIDLNLFEIIAKATPPGAFMSPSEIASKLPASTQHSDLPNRLD 68

Query: 73  RIMRMLVRKGVFAAHR--SSDGSEETMYGLTQISKWLLRD 110
           R++R+L    V  +      DG  E +YGL+ + K+L+ D
Sbjct: 69  RMLRLLASYSVLTSTTRTIEDGGAERVYGLSMVGKYLVPD 108

>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 = 91.0 bits (226), Expect = 5e-24
 Identities = 29/99 (29%), Positives = 50/99 (50%), Gaps = 6/99 (6%)

Query: 16  QVWQLMFAFADSMALKSAVELRLADIMHCHGS--PITLPQLASGINSSCPDVHIIPSLTR 73
              QL  A    M LKSA+EL L +I+   G    I+  ++AS + ++ PD      L R
Sbjct: 10  FAMQLASASVLPMILKSALELDLLEIIAKAGPGAQISPIEIASQLPTTNPDAP--VMLDR 67

Query: 74  IMRMLVRKGVFAAHR--SSDGSEETMYGLTQISKWLLRD 110
           ++R+L    +         DG  + +YGL  ++K+L+++
Sbjct: 68  MLRLLACYIILTCSVRTQQDGKVQRLYGLATVAKYLVKN 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 = 82.3 bits (202), Expect = 3e-19
 Identities = 27/121 (22%), Positives = 44/121 (36%), Gaps = 3/121 (2%)

Query: 113 MSLAPMILFQNSQLLQAPC-HHLSQCVEEGGHAFKKAHGCEMWDFASQNSQFNNSFNKAM 171
                 +    +          L   V  G  A+   +G   W+  S +    +SF+  M
Sbjct: 3   AQQRAWLDLNGAVSHADLAFTGLLDVVRTGRPAYAGRYGRPFWEDLSADVALADSFDALM 62

Query: 172 ACTAKIVMSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATA 231
           +C   +        Y   +  +R ++DVGGG G  LA I    PH++G   +L      A
Sbjct: 63  SCDEDLAYEAPADAYD--WSAVRHVLDVGGGNGGMLAAIALRAPHLRGTLVELAGPAERA 120

Query: 232 P 232
            
Sbjct: 121 R 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 = 78.2 bits (191), Expect = 9e-18
 Identities = 22/101 (21%), Positives = 40/101 (39%), Gaps = 2/101 (1%)

Query: 132 HHLSQCVEEGGHAFKKAHGCEMWDFASQNSQFNNSFNKAMACTAKIVMSTLLSHYKDGFD 191
             L   +  G   ++  +G   ++  +       SF+  +AC   +      + Y   + 
Sbjct: 22  TRLPDAIRTGRPTYESIYGKPFYEDLAGRPDLRASFDSLLACDQDVAFDAPAAAYD--WT 79

Query: 192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAP 232
            +R ++DVGGG G   A I    PH+     ++   V TA 
Sbjct: 80  NVRHVLDVGGGKGGFAAAIARRAPHVSATVLEMAGTVDTAR 120

>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 = 60.9 bits (148), Expect = 7e-13
 Identities = 22/99 (22%), Positives = 37/99 (37%), Gaps = 13/99 (13%)

Query: 12  RGQAQVWQLMFAFADSMALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSL 71
           +    + + +      MAL+ A  LRL D +       TL  LA   ++         +L
Sbjct: 6   QDLDVLLKNLGNLVTPMALRVAATLRLVDHL--LAGADTLAGLADRTDTHP------QAL 57

Query: 72  TRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLLRD 110
           +R++R L   GV          +      T++   LL D
Sbjct: 58  SRLVRHLTVVGVLEG----GEKQGRPLRPTRLGM-LLAD 91

>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 = 55.6 bits (134), Expect = 5e-11
 Identities = 18/92 (19%), Positives = 36/92 (39%), Gaps = 14/92 (15%)

Query: 19  QLMFAFADSMALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRML 78
             + +    M +++A  LRL D +       T+  LA+  ++         +L R++R L
Sbjct: 7   IRLGSLHTPMVVRTAATLRLVDHILAG--ARTVKALAARTDTRP------EALLRLIRHL 58

Query: 79  VRKGVFAAHRSSDGSEETMYGLTQISKWLLRD 110
           V  G+              +  T++ + L  D
Sbjct: 59  VAIGLLEED------APGEFVPTEVGELLADD 84

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	266
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	99.96
d1tw3a2	253	Carminomycin 4-O-methyltransferase {Streptomyces p	99.94
d1fp2a1	101	Isoflavone O-methyltransferase {Alfalfa (Medicago	99.82
d1fp1d1	110	Chalcone O-methyltransferase {Alfalfa (Medicago sa	99.68
d1tw3a1	85	Carminomycin 4-O-methyltransferase {Streptomyces p	99.67
d1kyza1	107	Caffeic acid/5-hydroxyferulic acid 3/5-O-methyltra	99.63
d1qzza1	92	Aclacinomycin-10-hydroxylase RdmB {Streptomyces pu	99.63
d2o57a1	282	Putative sarcosine dimethylglycine methyltransfera	99.16
d1nkva_	245	Hypothetical Protein YjhP {Escherichia coli [TaxId	99.08
d1vl5a_	231	Hypothetical protein BH2331 {Bacillus halodurans [	99.03
d1xxla_	234	Hypothetical protein YcgJ {Bacillus subtilis [TaxI	98.97
d1im8a_	225	Hypothetical protein HI0319 (YecO) {Haemophilus in	98.94
d2gh1a1	281	Methyltransferase BC2162 {Bacillus cereus [TaxId:	98.87
d1xtpa_	254	Hypothetical protein Lmaj004091aaa (LmjF30.0810) {	98.79
d2ex4a1	222	Adrenal gland protein AD-003 (C9orf32) {Human (Hom	98.79
d1ve3a1	226	Hypothetical protein PH0226 {Archaeon Pyrococcus h	98.77
d1wzna1	251	Hypothetical methyltransferase PH1305 {Archaeon Py	98.76
d2p7ia1	225	Hypothetical protein ECA1738 {Erwinia carotovora [	98.75
d2i6ga1	198	Putative methyltransferase TehB {Salmonella typhim	98.73
d1p91a_	268	rRNA methyltransferase RlmA {Escherichia coli [Tax	98.73
d1dusa_	194	Hypothetical protein MJ0882 {Archaeon Methanococcu	98.63
d2b3ta1	274	N5-glutamine methyltransferase, HemK {Escherichia	98.63
d1vlma_	208	Possible histamine N-methyltransferase TM1293 {The	98.62
d1y8ca_	246	Putative methyltransferase CAC2371 {Clostridium ac	98.54
d2avna1	246	Hypothetical methyltransferase TM1389 {Thermotoga	98.51
d1l3ia_	186	Precorrin-6Y methyltransferase (CbiT) {Archaeon Me	98.51
d1ri5a_	252	mRNA cap (Guanine N-7) methyltransferase {Fungus (	98.51
d1nw3a_	328	Catalytic, N-terminal domain of histone methyltran	98.47
d1pjza_	201	Thiopurine S-methyltransferase {Pseudomonas syring	98.45
d1dl5a1	213	Protein-L-isoaspartyl O-methyltransferase {Thermot	98.35
d1g8sa_	230	Fibrillarin homologue {Archaeon Methanococcus jann	98.27
d2fk8a1	280	Methoxy mycolic acid synthase 4, Mma4 {Mycobacteri	98.26
d2fcaa1	204	tRNA (guanine-N(7)-)-methyltransferase TrmB {Bacil	98.25
d2bzga1	229	Thiopurine S-methyltransferase {Human (Homo sapien	98.23
d1yb2a1	250	Hypothetical protein Ta0852 {Thermoplasma acidophi	98.23
d1yzha1	204	tRNA (guanine-N(7)-)-methyltransferase TrmB {Strep	98.22
d1kpga_	285	CmaA1 {Mycobacterium tuberculosis [TaxId: 1773]}	98.18
d1i9ga_	264	Probable methyltransferase Rv2118c {Mycobacterium	98.17
d1g6q1_	328	Arginine methyltransferase, HMT1 {Baker's yeast (S	98.16
d1kpia_	291	CmaA2 {Mycobacterium tuberculosis [TaxId: 1773]}	98.16
d1jqea_	280	Histamine methyltransferase {Human (Homo sapiens)	98.14
d1ne2a_	197	Hypothetical protein Ta1320 {Archaeon Thermoplasma	98.14
d1u2za_	406	Catalytic, N-terminal domain of histone methyltran	98.14
d2nxca1	254	PrmA-like protein TTHA0656 (TT0836) {Thermus therm	98.12
d1oria_	316	Protein arginine N-methyltransferase 1, PRMT1 {Rat	98.1
d1i1na_	224	Protein-L-isoaspartyl O-methyltransferase {Human (	98.07
d1nt2a_	209	Fibrillarin homologue {Archaeon Archaeoglobus fulg	98.07
d1m6ya2	192	TM0872, methyltransferase domain {Thermotoga marit	98.04
d1zx0a1	229	Guanidinoacetate methyltransferase {Human (Homo sa	98.03
d2fyta1	311	Protein arginine N-methyltransferase 3, PRMT3 {Hum	98.01
d1mkma1	75	Transcriptional regulator IclR, N-terminal domain	98.0
d1vbfa_	224	Protein-L-isoaspartyl O-methyltransferase {Sulfolo	97.9
d1wy7a1	201	Hypothetical protein PH1948 {Archaeon Pyrococcus h	97.89
d1o54a_	266	Hypothetical protein TM0748 {Thermotoga maritima [	97.87
d2h00a1	250	Methyltransferase 10 domain containing protein MET	97.87
d1xvaa_	292	Glycine N-methyltransferase {Rat (Rattus norvegicu	97.84
d1nv8a_	271	N5-glutamine methyltransferase, HemK {Thermotoga m	97.81
d2esra1	152	Putative methyltransferase SPy1538 {Streptococcus	97.78
d1jg1a_	215	Protein-L-isoaspartyl O-methyltransferase {Archaeo	97.68
d2b25a1	324	Hypothetical protein FLJ20628 {Human (Homo sapiens	97.67
d1r18a_	223	Protein-L-isoaspartyl O-methyltransferase {Fruit f	97.64
d2frna1	260	Hypothetical protein PH0793 {Pyrococcus horikoshii	97.62
d1uira_	312	Spermidine synthase {Thermus thermophilus [TaxId:	97.49
d1inla_	295	Spermidine synthase {Thermotoga maritima [TaxId: 2	97.36
d2o07a1	285	Spermidine synthase {Human (Homo sapiens) [TaxId:	97.34
d1iy9a_	274	Spermidine synthase {Bacillus subtilis [TaxId: 142	97.31
d1qama_	235	rRNA adenine dimethylase {Bacillus subtilis, Ermc'	97.28
d2a14a1	257	Indolethylamine N-methyltransferase, INMT {Human (	97.23
d2b2ca1	312	Spermidine synthase {Caenorhabditis elegans [TaxId	97.14
d2fpoa1	183	Methylase YhhF {Escherichia coli [TaxId: 562]}	97.12
d1xj5a_	290	Spermidine synthase {Thale cress (Arabidopsis thal	97.12
d1yuba_	245	rRNA adenine dimethylase {Streptococcus pneumoniae	97.1
d1mjfa_	276	Putative spermidine synthetase PF0127 (SpeE) {Arch	97.1
d2g72a1	263	Phenylethanolamine N-methyltransferase, PNMTase {H	97.1
d1ws6a1	171	Methyltransferase TTHA0928 {Thermus thermophilus [	97.0
d2cl5a1	214	Catechol O-methyltransferase, COMT {Rat (Rattus no	96.9
d1af7a2	193	Chemotaxis receptor methyltransferase CheR, C-term	96.87
d1g8aa_	227	Fibrillarin homologue {Archaeon Pyrococcus horikos	96.81
d2as0a2	324	Hypothetical protein PH1915, middle and C-terminal	96.76
d1ub9a_	100	Hypothetical protein PH1061 {Archaeon Pyrococcus h	96.52
d2avda1	219	COMT domain-containing protein 1, COMTD1 {Human (H	96.5
d1jsxa_	207	Glucose-inhibited division protein B (GidB) {Esche	96.49
d2f8la1	328	Hypothetical protein Lmo1582 {Listeria monocytogen	96.44
d2fhpa1	182	Putative methylase EF2452 {Enterococcus faecalis [	96.4
d2igta1	309	Putative methyltransferase Atu0340 {Agrobacterium	96.24
d1r1ua_	94	Metal-sensing transcriptional repressor CzrA {Stap	96.22
d1lvaa3	64	C-terminal fragment of elongation factor SelB {Moo	96.19
d2ih2a1	223	DNA methylase TaqI, N-terminal domain {Thermus aqu	96.16
d1j5ya1	65	Putative transcriptional regulator TM1602, N-termi	96.16
d1z05a1	71	Transcriptional regulator VC2007 N-terminal domain	96.14
d1wg8a2	182	TM0872, methyltransferase domain {Thermus thermoph	96.06
d1zq9a1	278	Probable dimethyladenosine transferase {Human (Hom	96.03
d1r1ta_	98	SmtB repressor {Cyanobacteria (Synechococcus), pcc	96.0
d1u2wa1	108	Cadmium efflux system accessory protein CadC {Stap	95.89
d1lnwa_	141	MexR repressor {Pseudomonas aeruginosa [TaxId: 287	95.86
d1biaa1	63	Biotin repressor, N-terminal domain {Escherichia c	95.79
d2hr3a1	145	Probable transcriptional regulator PA3067 {Pseudom	95.79
d1susa1	227	Caffeoyl-CoA O-methyltransferase {Alfalfa (Medicag	95.76
d2hoea1	62	N-acetylglucosamine kinase {Thermotoga maritima [T	95.74
d1wxxa2	318	Hypothetical protein TTHA1280, middle and C-termin	95.72
d1qyra_	252	High level kasugamycin resistance protein KsgA {Es	95.71
d2bv6a1	136	Transcriptional regulator MgrA {Staphylococcus aur	95.66
d1uwva2	358	rRNA (Uracil-5-)-methyltransferase RumA, catalytic	95.61
d3broa1	135	Transcriptional regulator OEOE1854 {Oenococcus oen	95.58
d2etha1	140	Putative transcriptional regulator TM0816 {Thermot	95.56
d1z6ra1	70	Mlc protein N-terminal domain {Escherichia coli [T	95.48
d1ulya_	190	Hypothetical protein PH1932 {Pyrococcus horikoshii	95.4
d1s3ja_	143	Putative transcriptional regulator YusO {Bacillus	95.39
d2b78a2	317	Hypothetical protein SMu776, middle and C-terminal	95.37
d1sfxa_	109	Hypothetical protein AF2008 {Archaeoglobus fulgidu	95.12
d2a61a1	139	Transcriptional regulator TM0710 {Thermotoga marit	95.1
d2p4wa1	194	Transcriptional regulatory protein PF1790 {Pyrococ	95.07
d1r7ja_	90	Sso10a (SSO10449) {Archaeon Sulfolobus solfataricu	95.05
d1ku9a_	151	DNA-binding protein Mj223 {Archaeon Methanococcus	94.86
d2d1ha1	109	Hypothetical transcriptional regulator ST1889 {Sul	94.8
d2fbha1	137	Transcriptional regulator PA3341 {Pseudomonas aeru	94.77
d3ctaa1	85	Ta1064 (RFK), N-terminal domain {Thermoplasma acid	94.73
d1ylfa1	138	Hypothetical protein BC1842 {Bacillus cereus [TaxI	94.53
d1ej0a_	180	RNA methyltransferase FtsJ {Escherichia coli [TaxI	94.42
d1i1ga1	60	LprA {Archaeon Pyrococcus furiosus [TaxId: 2261]}	94.41
d2cyya1	60	Putative transcriptional regulator PH1519 {Archaeo	94.29
d1xd7a_	127	Hypothetical protein ywnA {Bacillus subtilis [TaxI	94.25
d1i4wa_	322	Transcription factor sc-mtTFB {Baker's yeast (Sacc	94.19
d1z91a1	137	Organic hydroperoxide resistance transcriptional r	94.19
d1jgsa_	138	Multiple antibiotic resistance repressor, MarR {Es	94.18
d3deua1	140	Transcriptional regulator SlyA {Salmonella typhimu	94.17
d2gxba1	59	Z-alpha domain of dsRNA-specific adenosine deamina	94.06
d2hzta1	95	Putative transcriptional regulator YtcD {Bacillus	93.98
d2p41a1	257	An RNA cap (nucleoside-2'-O-)-methyltransferase do	93.75
d2ifta1	183	Putative methylase HI0767 {Haemophilus influenzae	93.75
d2cfxa1	63	Transcriptional regulator LrpC {Bacillus subtilis	93.56
d1lj9a_	144	Transcriptional regulator SlyA {Enterococcus faeca	93.55
d2cg4a1	63	Regulatory protein AsnC {Escherichia coli [TaxId:	93.42
d2frha1	115	Pleiotropic regulator of virulence genes, SarA {St	93.27
d1j75a_	57	Dlm-1 {Mouse (Mus musculus) [TaxId: 10090]}	93.25
d1p4xa2	125	Staphylococcal accessory regulator A homolog, SarS	93.14
d1hsja1	115	Staphylococcal accessory regulator A homolog, SarR	93.0
d2obpa1	81	Putative DNA-binding protein ReutB4095 {Ralstonia	92.97
d2fbia1	136	Probable transcriptional regulator PA4135 {Pseudom	92.95
d2fxaa1	162	Protease production regulatory protein Hpr {Bacill	92.76
d1p4xa1	125	Staphylococcal accessory regulator A homolog, SarS	92.67
d2fswa1	102	Hypothetical protein PG0823 {Porphyromonas gingiva	92.24
d1yyva1	114	Putative transcriptional regulator YtfH {Salmonell	92.19
d1xdza_	239	Glucose-inhibited division protein B (GidB) {Bacil	92.11
d1z7ua1	108	Hypothetical protein EF0647 {Enterococcus faecalis	91.94
d1jhfa1	71	LexA repressor, N-terminal DNA-binding domain {Esc	91.48
d2isya1	63	Iron-dependent regulator IdeR {Mycobacterium tuber	91.47
d2fbka1	172	Transcriptional regulator DR1159 {Deinococcus radi	91.45
d2f2ea1	142	Hypothetical protein PA1607 {Pseudomonas aeruginos	91.13
d1xmka1	73	Z-alpha domain of dsRNA-specific adenosine deamina	90.58
d2ev0a1	61	Manganese transport regulator MntR {Bacillus subti	89.92
d1zyba1	73	Probable transcription regulator BT4300, C-termina	89.72
d2okca1	425	Type I restriction enzyme StySJI M protein {Bacter	89.69
d1sfua_	70	34L {Yaba-like disease virus, YLDV [TaxId: 132475]	87.25
d2zcwa1	82	Transcriptional regulator TTHA1359, C-terminal dom	86.89
d1dpua_	69	C-terminal domain of RPA32 {Human (Homo sapiens) [	86.19
d2gaua1	81	Transcriptional regulator PG0396, C-terminal domai	86.09
d1stza1	87	Heat-inducible transcription repressor HrcA, N-ter	85.92
d1i5za1	69	Catabolite gene activator protein (CAP), C-termina	85.92
d1q1ha_	88	Transcription factor E/IIe-alpha, N-terminal domai	85.57
d2g9wa1	122	Hypothetical protein Rv1846c {Mycobacterium tuberc	85.17
d1s6la1	60	Alkylmercury lyase MerB {Escherichia coli [TaxId:	85.09
d1zkda1	365	Hypothetical protein RPA4359 {Rhodopseudomonas pal	85.03
d2bm8a1	232	Cephalosporin hydroxylase CmcI {Streptomyces clavu	84.94
d1ft9a1	80	CO-sensing protein CooA, C-terminal domain {Rhodos	84.57
d1bl0a1	54	MarA {Escherichia coli [TaxId: 562]}	83.34
d2hs5a1	69	Putative transcriptional regulator RHA1_ro03477 {R	83.31
d3bwga1	78	Transcriptional regulator YydK {Bacillus subtilis	83.13
d2dk5a1	78	DNA-directed RNA polymerase III subunit RPC6, RPO3	82.54
d1hw1a1	74	Fatty acid responsive transcription factor FadR, N	82.26
d3e5ua1	80	Chlorophenol reduction protein CprK {Desulfitobact	81.74
d1okra_	120	Methicillin resistance regulatory protein MecI {St	80.73
d1nd9a_	49	N-terminal subdomain of bacterial translation init	80.2

>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=2.3e-34  Score=244.97  Aligned_cols=151  Identities=38%  Similarity=0.671  Sum_probs=131.6

Q ss_pred             ChHHHHHHhcChhhhhhhhhhHHHHhcCC-chhhhhhCCCcchhcccCchHHHHHHHHHHhhhHHHHHHHHhhcccCCCC
Q 042491          114 SLAPMILFQNSQLLQAPCHHLSQCVEEGG-HAFKKAHGCEMWDFASQNSQFNNSFNKAMACTAKIVMSTLLSHYKDGFDG  192 (266)
Q Consensus       114 ~~~~~~~~~~~~~~~~~~~~l~~~l~~~~-~~~~~~~g~~~~~~~~~~~~~~~~f~~~m~~~~~~~~~~~~~~~~~~~~~  192 (266)
                      |+++++.|++++.+++.|.+|.+++++++ ++|+.++|.++|+|+.++|+..+.|+++|...+....+.+++.|+ .|++
T Consensus         3 ~l~~~~~~~~~p~~~~~w~~l~~~v~~g~~~~f~~~~G~~~~e~l~~~p~~~~~F~~aM~~~s~~~~~~l~~~~~-~f~~   81 (244)
T d1fp1d2           3 YLASFTTFLCYPALLQVWMNFKEAVVDEDIDLFKNVHGVTKYEFMGKDKKMNQIFNKSMVDVCATEMKRMLEIYT-GFEG   81 (244)
T ss_dssp             CCTHHHHHHTCHHHHHHHTTHHHHHHSCC--------------CCSSCHHHHHHHHHHHHHHHHHHHHHHHHHCC-TTTT
T ss_pred             cHHHHHHHHhCHHHHHHHHHHHHHHhcCCCCHhHHhcCCCHHHHHhhCHHHHHHHHHHHHHHHHHHHHHHHHhcc-cccC
Confidence            78999999988889999999999999876 779999999999999999999999999999999988999999998 4789


Q ss_pred             CceEEEecCCchHHHHHHHHHCCCCeEEEeecHHHHhhCCCCCCeEEEEccCCCCCCCccEEEeccccccCCC
Q 042491          193 IRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPVYEGVSHVGGDMLNAVPNADAVFMKVIVLIQDL  265 (266)
Q Consensus       193 ~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~a~~~~ri~~~~gd~~~~~p~aD~~~l~~vLHd~~~  265 (266)
                      .++|||||||+|.++++++++||++++|++|+|++++.+...+||++++||||+++|++|+|+|++|||||+|
T Consensus        82 ~~~vlDiGGG~G~~~~~l~~~~P~l~~~v~Dlp~vi~~~~~~~ri~~~~gd~~~~~p~~D~~~l~~vLh~~~d  154 (244)
T d1fp1d2          82 ISTLVDVGGGSGRNLELIISKYPLIKGINFDLPQVIENAPPLSGIEHVGGDMFASVPQGDAMILKAVCHNWSD  154 (244)
T ss_dssp             CSEEEEETCTTSHHHHHHHHHCTTCEEEEEECHHHHTTCCCCTTEEEEECCTTTCCCCEEEEEEESSGGGSCH
T ss_pred             CcEEEEecCCCcHHHHHHHHHCCCCeEEEecchhhhhccCCCCCeEEecCCcccccccceEEEEehhhhhCCH
Confidence            9999999999999999999999999999999999999988899999999999999999999999999999986

>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=1.7e-33  Score=239.77  Aligned_cols=152  Identities=45%  Similarity=0.789  Sum_probs=143.8

Q ss_pred             CChHHHHHHhcChhhhhhhhhhHHHHhcCCchhhhhhCCCcchhcccCchHHHHHHHHHHhhhHHHHHHHHhhcccCCCC
Q 042491          113 MSLAPMILFQNSQLLQAPCHHLSQCVEEGGHAFKKAHGCEMWDFASQNSQFNNSFNKAMACTAKIVMSTLLSHYKDGFDG  192 (266)
Q Consensus       113 ~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~m~~~~~~~~~~~~~~~~~~~~~  192 (266)
                      .|+++++.+++++.+++.|.+|.+++|+|+++|+.++|.++|+|+.++|+..+.|+++|...+....+.++..+++ +++
T Consensus         3 ~s~~~~~~~~~~~~~~~~W~~L~~avrtG~~~f~~~~G~~~~~~~~~~p~~~~~F~~aM~~~~~~~~~~~~~~~~~-~~~   81 (243)
T d1kyza2           3 VSISALNLMNQDKVLMESWYHLKDAVLDGGIPFNKAYGMTAFEYHGTDPRFNKVFNKGMSDHSTITMKKILETYTG-FEG   81 (243)
T ss_dssp             CCTHHHHHHHTSHHHHGGGGGHHHHHHHCSCHHHHHHSSCHHHHGGGCHHHHHHHHHHHHHHHHHHHHHHHHHCCT-TSS
T ss_pred             CcHHHHHHHhcCHHHHHHHHHHHHHHhhCCCHHHhhcCCCHHHHHHhCHHHHHHHHHHHhHhhhhHHHHHHHhccc-ccC
Confidence            4889999998887889999999999999999999999999999999999999999999999988888899999983 467


Q ss_pred             CceEEEecCCchHHHHHHHHHCCCCeEEEeecHHHHhhCCCCCCeEEEEccCCCCCCCccEEEeccccccCCC
Q 042491          193 IRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPVYEGVSHVGGDMLNAVPNADAVFMKVIVLIQDL  265 (266)
Q Consensus       193 ~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~a~~~~ri~~~~gd~~~~~p~aD~~~l~~vLHd~~~  265 (266)
                      .++|||||||+|.++++++++||+++++++|+|++++.++..+|++++++||++++|.+|+|++++|||+|++
T Consensus        82 ~~~vvDvGGG~G~~~~~l~~~~P~l~~~v~Dlp~vi~~~~~~~r~~~~~~d~~~~~P~ad~~~l~~vlh~~~d  154 (243)
T d1kyza2          82 LKSLVDVGGGTGAVINTIVSKYPTIKGINFDLPHVIEDAPSYPGVEHVGGDMFVSIPKADAVFMKWICHDWSD  154 (243)
T ss_dssp             CSEEEEETCTTSHHHHHHHHHCTTSEEEEEECTTTTTTCCCCTTEEEEECCTTTCCCCCSCEECSSSSTTSCH
T ss_pred             CcEEEEecCCCcHHHHHHHHHCCCCeEEEcccHHhhhhcccCCceEEecccccccCCCcceEEEEEEeecCCH
Confidence            8999999999999999999999999999999999999988899999999999999999999999999999985

>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=3.6e-33  Score=237.59  Aligned_cols=151  Identities=38%  Similarity=0.591  Sum_probs=138.6

Q ss_pred             ChHHHHHHhcChhhhhhhhhhHHHHhcCC-chhhhhhCCCcchhcccCchHHHHHHHHHHhhhHHHHHHHHhhcccCCCC
Q 042491          114 SLAPMILFQNSQLLQAPCHHLSQCVEEGG-HAFKKAHGCEMWDFASQNSQFNNSFNKAMACTAKIVMSTLLSHYKDGFDG  192 (266)
Q Consensus       114 ~~~~~~~~~~~~~~~~~~~~l~~~l~~~~-~~~~~~~g~~~~~~~~~~~~~~~~f~~~m~~~~~~~~~~~~~~~~~~~~~  192 (266)
                      |++.++.++.++.++..|..|.++++++. ++|+.++|+++|+|+.++|+..+.|+++|...+......+.+.. +.|++
T Consensus         2 s~ap~~~~~~~p~~~~~w~~l~~~~~~~~~~~f~~a~G~~~~e~l~~~pe~~~~F~~aM~~~s~~~~~~~~~~~-~~~~~   80 (244)
T d1fp2a2           2 CLAPMVECVLDPTLSGSYHELKKWIYEEDLTLFGVTLGSGFWDFLDKNPEYNTSFNDAMASDSKLINLALRDCD-FVFDG   80 (244)
T ss_dssp             CCHHHHHHHTCHHHHHGGGGHHHHHTCSSCCHHHHHHSSCHHHHHHHCHHHHHHHHHHHHHTHHHHHHHHHTCH-HHHTT
T ss_pred             ChHHHHHHHhCHHHHHHHHHHHHHHhcCCCCHHHHhhCCCHHHHHHhCHHHHHHHHHHhhhhhhhhhhhHhhhc-ccccC
Confidence            57888999888888999999999999885 79999999999999999999999999999998877666665532 23789


Q ss_pred             CceEEEecCCchHHHHHHHHHCCCCeEEEeecHHHHhhCCCCCCeEEEEccCCCCCCCccEEEeccccccCCC
Q 042491          193 IRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPVYEGVSHVGGDMLNAVPNADAVFMKVIVLIQDL  265 (266)
Q Consensus       193 ~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~a~~~~ri~~~~gd~~~~~p~aD~~~l~~vLHd~~~  265 (266)
                      ..+|||||||+|.++++++++||+++++++|+|++++.+...+||++++||||+++|++|+|++++|||||+|
T Consensus        81 ~~~vvDvGGG~G~~~~~l~~~~P~l~~~v~Dlp~vi~~~~~~~rv~~~~gD~f~~~p~aD~~~l~~vLHdw~d  153 (244)
T d1fp2a2          81 LESIVDVGGGTGTTAKIICETFPKLKCIVFDRPQVVENLSGSNNLTYVGGDMFTSIPNADAVLLKYILHNWTD  153 (244)
T ss_dssp             CSEEEEETCTTSHHHHHHHHHCTTCEEEEEECHHHHTTCCCBTTEEEEECCTTTCCCCCSEEEEESCGGGSCH
T ss_pred             ceEEEEecCCccHHHHHHHHhCCCCeEEEecCHHHHHhCcccCceEEEecCcccCCCCCcEEEEEeecccCCh
Confidence            9999999999999999999999999999999999999998899999999999999999999999999999986

>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=99.96  E-value=1.5e-29  Score=216.63  Aligned_cols=152  Identities=23%  Similarity=0.404  Sum_probs=136.5

Q ss_pred             CCChHHHHHHhcChhh-hhhhhhhHHHHhcCCchhhhhhCCCcchhcccCchHHHHHHHHHHhhhHHHHHHHHhhcccCC
Q 042491          112 EMSLAPMILFQNSQLL-QAPCHHLSQCVEEGGHAFKKAHGCEMWDFASQNSQFNNSFNKAMACTAKIVMSTLLSHYKDGF  190 (266)
Q Consensus       112 ~~~~~~~~~~~~~~~~-~~~~~~l~~~l~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~m~~~~~~~~~~~~~~~~~~~  190 (266)
                      |.++++++.+...... ..+|.+|.+++|+|.++|+..+|.++|+++.++|+..+.|+++|...+....+.+++.+|  |
T Consensus         2 p~~~~~~~~l~~~~~~~~~~~~~L~~~~rtG~~~~~~~~G~~~~e~~~~~p~~~~~f~~~m~~~~~~~~~~~~~~~d--~   79 (256)
T d1qzza2           2 PAQQRAWLDLNGAVSHADLAFTGLLDVVRTGRPAYAGRYGRPFWEDLSADVALADSFDALMSCDEDLAYEAPADAYD--W   79 (256)
T ss_dssp             TTCHHHHHCTTSHHHHHHGGGGGHHHHHHHSCCSHHHHHSSCHHHHHHHCHHHHHHHHHTCGGGSTTTTHHHHHTSC--C
T ss_pred             cHHHHHHHhhcCchhhhHhhHHHHHHHHHhCCchhhhhhCCCHHHHHHhCHHHHHHHHHHHHhhHHHHHHHHHhcCC--C
Confidence            4577887776532222 347999999999999999999999999999999999999999999988888899999999  9


Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeecHHHHhhCCC-------CCCeEEEEccCCCCCC-CccEEEecccccc
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPV-------YEGVSHVGGDMLNAVP-NADAVFMKVIVLI  262 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~a~~-------~~ri~~~~gd~~~~~p-~aD~~~l~~vLHd  262 (266)
                      ++.++|||||||+|.++..++++||+++++++|+|++++.+++       .+||+++.+|+++++| ++|+|++++|||+
T Consensus        80 ~~~~~vlDvG~G~G~~~~~l~~~~P~~~~~~~Dlp~~~~~a~~~~~~~~~~~ri~~~~~d~~~~~p~~~D~v~~~~vLh~  159 (256)
T d1qzza2          80 SAVRHVLDVGGGNGGMLAAIALRAPHLRGTLVELAGPAERARRRFADAGLADRVTVAEGDFFKPLPVTADVVLLSFVLLN  159 (256)
T ss_dssp             TTCCEEEEETCTTSHHHHHHHHHCTTCEEEEEECHHHHHHHHHHHHHTTCTTTEEEEECCTTSCCSCCEEEEEEESCGGG
T ss_pred             ccCCEEEEECCCCCHHHHHHHHhhcCcEEEEecChHHHHHHHHHHhhcCCcceeeeeeeeccccccccchhhhccccccc
Confidence            9999999999999999999999999999999999999887653       6899999999999888 4999999999999


Q ss_pred             CCC
Q 042491          263 QDL  265 (266)
Q Consensus       263 ~~~  265 (266)
                      |++
T Consensus       160 ~~d  162 (256)
T d1qzza2         160 WSD  162 (256)
T ss_dssp             SCH
T ss_pred             cCc
Confidence            985

>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=99.94  E-value=1.8e-27  Score=203.21  Aligned_cols=136  Identities=23%  Similarity=0.453  Sum_probs=127.0

Q ss_pred             hhhhhhhHHHHhcCCchhhhhhCCCcchhcccCchHHHHHHHHHHhhhHHHHHHHHhhcccCCCCCceEEEecCCchHHH
Q 042491          128 QAPCHHLSQCVEEGGHAFKKAHGCEMWDFASQNSQFNNSFNKAMACTAKIVMSTLLSHYKDGFDGIRSLVDVGGGTGEEL  207 (266)
Q Consensus       128 ~~~~~~l~~~l~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~m~~~~~~~~~~~~~~~~~~~~~~~~vvDvGgG~G~~~  207 (266)
                      ..+|.+|++++|+|+++|+.++|.++|+++.++|+..+.|+++|...+....+.+++.+|  |++.++|||||||+|.++
T Consensus        18 ~~~~~~L~~~vr~G~~~~~~~~G~~~~~~~~~~~~~~~~f~~~m~~~~~~~~~~~~~~~d--~~~~~~VLDvGcG~G~~~   95 (253)
T d1tw3a2          18 DISFTRLPDAIRTGRPTYESIYGKPFYEDLAGRPDLRASFDSLLACDQDVAFDAPAAAYD--WTNVRHVLDVGGGKGGFA   95 (253)
T ss_dssp             GGGGGGHHHHHHHCCCCHHHHHSSCHHHHHHTCHHHHHHHHHHHTTTTTTTTHHHHHHSC--CTTCSEEEEETCTTSHHH
T ss_pred             cccHHHHHHHHHhCCchhhhccCCCHHHHHhhCHHHHHHHHHHHHHhHHHHHHHHHhhcC--CccCCEEEEeCCCCCHHH
Confidence            458999999999999999999999999999999999999999999988888889999999  999999999999999999


Q ss_pred             HHHHHHCCCCeEEEeecHHHHhhCCC-------CCCeEEEEccCCCCCC-CccEEEeccccccCCC
Q 042491          208 AEIVEFYPHIKGVNFDLPHVVATAPV-------YEGVSHVGGDMLNAVP-NADAVFMKVIVLIQDL  265 (266)
Q Consensus       208 ~~l~~~~P~l~~~~~Dlp~v~~~a~~-------~~ri~~~~gd~~~~~p-~aD~~~l~~vLHd~~~  265 (266)
                      ..+++++|+++++++|+|++++.+++       .+||+++.+|+++++| ++|+|+++++||+|++
T Consensus        96 ~~la~~~p~~~~~~~D~~~~~~~a~~~~~~~~~~~rv~~~~~D~~~~~~~~~D~v~~~~vlh~~~d  161 (253)
T d1tw3a2          96 AAIARRAPHVSATVLEMAGTVDTARSYLKDEGLSDRVDVVEGDFFEPLPRKADAIILSFVLLNWPD  161 (253)
T ss_dssp             HHHHHHCTTCEEEEEECTTHHHHHHHHHHHTTCTTTEEEEECCTTSCCSSCEEEEEEESCGGGSCH
T ss_pred             HHHHHhcceeEEEEccCHHHHHHHHHHHHHhhcccchhhccccchhhcccchhheeeccccccCCc
Confidence            99999999999999999998887664       5899999999999877 5999999999999975

>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=99.82  E-value=5.6e-21  Score=139.53  Aligned_cols=98  Identities=36%  Similarity=0.611  Sum_probs=88.1

Q ss_pred             hHHhhHHHHHHHHHHHhHHHHHHHHHHHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccc
Q 042491            7 REDVLRGQAQVWQLMFAFADSMALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAA   86 (266)
Q Consensus         7 ~~~~~~~~~~l~~~~~g~~~~~~L~~a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~   86 (266)
                      ++|.++++..||++++||+.+++|++|+++||||+|+.+|+|+|++|||+++++++.+   ++.+.|+||+|++.|||.+
T Consensus         3 ~~e~~qaq~~l~~~~~gf~~s~aL~~aveLgi~d~l~~~~~p~t~~eLa~~~~~~~~~---~~~L~RlLR~L~~~gi~~~   79 (101)
T d1fp2a1           3 PSEIFKAQALLYKHIYAFIDSMSLKWAVEMNIPNIIQNHGKPISLSNLVSILQVPSSK---IGNVRRLMRYLAHNGFFEI   79 (101)
T ss_dssp             STHHHHHHHHHHHHHTTHHHHHHHHHHHHTTHHHHHHHHTSCEEHHHHHHHHTCCGGG---HHHHHHHHHHHHHTTSEEE
T ss_pred             hHHHHHHHHHHHHHHHhHHHHHHHHHHHHcCcHHHHHHcCCCCCHHHHHHHcCCCCcc---chHHHHHHHHHHhCCceee
Confidence            5688889999999999999999999999999999998777899999999999998755   6789999999999999987


Q ss_pred             cccCCCCCCceEeCchhchhhhcCC
Q 042491           87 HRSSDGSEETMYGLTQISKWLLRDS  111 (266)
Q Consensus        87 ~~~~~~~g~~~y~lt~~s~~l~~~~  111 (266)
                      .+.+    +++|++||.|++|++++
T Consensus        80 ~~~~----~~~Y~lt~~s~~Lv~~~  100 (101)
T d1fp2a1          80 ITKE----EESYALTVASELLVRGS  100 (101)
T ss_dssp             EESS----SEEEEECHHHHTTSTTS
T ss_pred             ecCC----CCeEecCHHHHHhhcCC
Confidence            6532    47999999999998764

>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=3.5e-17  Score=119.93  Aligned_cols=101  Identities=22%  Similarity=0.354  Sum_probs=85.4

Q ss_pred             hHHHHHHHHHHHhHHHHHHHHHHHhcChhhHhhhCCCC---CCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCccccc
Q 042491           11 LRGQAQVWQLMFAFADSMALKSAVELRLADIMHCHGSP---ITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAH   87 (266)
Q Consensus        11 ~~~~~~l~~~~~g~~~~~~L~~a~elglfd~L~~~g~~---~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~   87 (266)
                      .++....++++.+++.+++|++|++|||||+|..+|++   +|+.|||.++..++..++.+..|.|+||+|++.|+|...
T Consensus         4 ~~~~l~a~~L~~~~v~pMaLk~AieLgI~diI~~~G~~~~~ls~~ela~~lp~~~~~p~~~~~L~RiLRlLas~~vf~~~   83 (110)
T d1fp1d1           4 DSACLSAMVLTTNLVYPAVLNAAIDLNLFEIIAKATPPGAFMSPSEIASKLPASTQHSDLPNRLDRMLRLLASYSVLTST   83 (110)
T ss_dssp             HHHHHHHHHHHHTTHHHHHHHHHHHTTHHHHHHTCSSTTCCBCHHHHHTTSCGGGCCTTHHHHHHHHHHHHHHTTSEEEE
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHcCCHHHHHHcCCCCCCCCHHHHHHhCCCCCCCccHHHHHHHHHHHHHHcCccccc
Confidence            45667789999999999999999999999999987644   799999999987666656678999999999999999866


Q ss_pred             ccCCCCC--CceEeCchhchhhhcCC
Q 042491           88 RSSDGSE--ETMYGLTQISKWLLRDS  111 (266)
Q Consensus        88 ~~~~~~g--~~~y~lt~~s~~l~~~~  111 (266)
                      ..++++|  +.+|.+||.|++|++++
T Consensus        84 ~~~~~~g~~e~~Y~Ltpvsk~Lv~de  109 (110)
T d1fp1d1          84 TRTIEDGGAERVYGLSMVGKYLVPDE  109 (110)
T ss_dssp             EEECTTSCEEEEEEECTTGGGGSTTC
T ss_pred             cccCCCCCeeeEEecchhhHhhcCCC
Confidence            5443333  45799999999999875

>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=99.67  E-value=3e-17  Score=115.97  Aligned_cols=80  Identities=23%  Similarity=0.310  Sum_probs=72.9

Q ss_pred             HHHHHhHHHHHHHHHHHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCce
Q 042491           18 WQLMFAFADSMALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETM   97 (266)
Q Consensus        18 ~~~~~g~~~~~~L~~a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~   97 (266)
                      +..+.+++.+++|++|+++||||+|..  +|+|++|||+++|+++..      +.|+||+|++.|+|++.+      ++.
T Consensus         6 l~~l~~~~~~~aL~~av~L~ifd~l~~--gp~s~~eLA~~~g~~~~~------l~rlLr~l~a~gl~~e~~------~~~   71 (85)
T d1tw3a1           6 LIRLGSLHTPMVVRTAATLRLVDHILA--GARTVKALAARTDTRPEA------LLRLIRHLVAIGLLEEDA------PGE   71 (85)
T ss_dssp             HHHHHCSHHHHHHHHHHHTTHHHHHHT--TCCBHHHHHHHHTCCHHH------HHHHHHHHHHTTSEEEEE------TTE
T ss_pred             HHHHHchHHHHHHHHHHHcCcHHHhcc--CCCCHHHHHHHhCcChhH------HHHHHHHHHHCCCeEecC------CCe
Confidence            344578999999999999999999986  899999999999999876      999999999999999988      589


Q ss_pred             EeCchhchhhhcCC
Q 042491           98 YGLTQISKWLLRDS  111 (266)
Q Consensus        98 y~lt~~s~~l~~~~  111 (266)
                      |.+|+.|+.|++|+
T Consensus        72 y~lt~~s~~L~~Dh   85 (85)
T d1tw3a1          72 FVPTEVGELLADDH   85 (85)
T ss_dssp             EEECTTGGGGSTTS
T ss_pred             EecCHHHHHhhcCC
Confidence            99999999998763

>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=99.63  E-value=4.3e-16  Score=113.72  Aligned_cols=96  Identities=27%  Similarity=0.402  Sum_probs=79.4

Q ss_pred             HHHHHHHHHhHHHHHHHHHHHhcChhhHhhhCC--CCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCC
Q 042491           14 QAQVWQLMFAFADSMALKSAVELRLADIMHCHG--SPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSD   91 (266)
Q Consensus        14 ~~~l~~~~~g~~~~~~L~~a~elglfd~L~~~g--~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~   91 (266)
                      .-..++++++++.+++|++|++|||||+|..+|  .++|..|||.+++.+..  ..+..+.|+||+|++.|+|.+...++
T Consensus         8 ~l~a~~L~~~~v~pmaLk~AieLgI~DiI~~~G~~~~ls~~eia~~l~~~~p--~~~~~L~RilR~Las~~vf~~~~~~~   85 (107)
T d1kyza1           8 NLFAMQLASASVLPMILKSALELDLLEIIAKAGPGAQISPIEIASQLPTTNP--DAPVMLDRMLRLLACYIILTCSVRTQ   85 (107)
T ss_dssp             HHHHHHHHTTTHHHHHHHHHHHTTHHHHHHTTCTTCCBCHHHHHHTSSCCCT--THHHHHHHHHHHHHHTTSEEEEEEEC
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHcCCHHHHHHcCCCCCCCHHHHHHhcCCCCC--cchHHHHHHHHHHHhcCceEEeeecC
Confidence            345668899999999999999999999999875  46799999999998532  23678999999999999998765443


Q ss_pred             CCC--CceEeCchhchhhhcCC
Q 042491           92 GSE--ETMYGLTQISKWLLRDS  111 (266)
Q Consensus        92 ~~g--~~~y~lt~~s~~l~~~~  111 (266)
                      ++|  +.+|.+||.|++|++++
T Consensus        86 ~dg~~~~~Y~LTpvsk~Lv~de  107 (107)
T d1kyza1          86 QDGKVQRLYGLATVAKYLVKNE  107 (107)
T ss_dssp             TTSCEEEEEEECHHHHHHSCCT
T ss_pred             CCCCeeeEEecchhHHhhcCCC
Confidence            333  45799999999999863

>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=99.63  E-value=9.4e-17  Score=114.85  Aligned_cols=86  Identities=23%  Similarity=0.271  Sum_probs=77.3

Q ss_pred             HHHHHHHHHHHhHHHHHHHHHHHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCC
Q 042491           12 RGQAQVWQLMFAFADSMALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSD   91 (266)
Q Consensus        12 ~~~~~l~~~~~g~~~~~~L~~a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~   91 (266)
                      .....+++++.+++.+++|++|+++||||+|..  +|+|++|||+++|++++.      +.|+||+|++.|+|++.+.  
T Consensus         6 ~~~d~ll~~~~~~~~~~~L~~aveL~ifd~L~~--gp~t~~eLA~~~g~~~~~------l~rLlr~L~a~gll~~~~d--   75 (92)
T d1qzza1           6 QDLDVLLKNLGNLVTPMALRVAATLRLVDHLLA--GADTLAGLADRTDTHPQA------LSRLVRHLTVVGVLEGGEK--   75 (92)
T ss_dssp             HHHHHHHHTTTCCHHHHHHHHHHHTTHHHHHHT--TCCSHHHHHHHHTCCHHH------HHHHHHHHHHTTSEECCCC--
T ss_pred             hhHHHHHHHHHchHHHHHHHHHHHcCchHHHhC--CCCCHHHHHHHHCcCchH------HHHHHHHHHHCCCeeeecC--
Confidence            456788999999999999999999999999986  899999999999999877      9999999999999999872  


Q ss_pred             CCCCceEeCchhchhhhc
Q 042491           92 GSEETMYGLTQISKWLLR  109 (266)
Q Consensus        92 ~~g~~~y~lt~~s~~l~~  109 (266)
                        +.+.|++|+.|+.|+.
T Consensus        76 --~~~~~~~t~~g~lL~d   91 (92)
T d1qzza1          76 --QGRPLRPTRLGMLLAD   91 (92)
T ss_dssp             ---CCCCEECTTGGGGST
T ss_pred             --CCceecccHHHHhccC
Confidence              3467999999998875

>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=99.16  E-value=4.2e-11  Score=101.92  Aligned_cols=95  Identities=16%  Similarity=0.132  Sum_probs=74.4

Q ss_pred             HHHHHhhhHHHHHHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEE
Q 042491          168 NKAMACTAKIVMSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSH  239 (266)
Q Consensus       168 ~~~m~~~~~~~~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~  239 (266)
                      ..++......+...+....+  +++..+|||||||+|.++..|++++ +.+++++|+ |.+++.+++       .+||++
T Consensus        45 ~~a~~~~~~~~~~~l~~~~~--l~~~~~vLDiGcG~G~~~~~la~~~-~~~v~gvD~s~~~i~~a~~~~~~~gl~~~v~~  121 (282)
T d2o57a1          45 REASLRTDEWLASELAMTGV--LQRQAKGLDLGAGYGGAARFLVRKF-GVSIDCLNIAPVQNKRNEEYNNQAGLADNITV  121 (282)
T ss_dssp             HHHHHHHHHHHHHHHHHTTC--CCTTCEEEEETCTTSHHHHHHHHHH-CCEEEEEESCHHHHHHHHHHHHHHTCTTTEEE
T ss_pred             HHHHHHHHHHHHHHHHHhcC--CCCCCEEEEeCCCCcHHHhhhhccC-CcEEEEEeccchhhhhhhcccccccccccccc
Confidence            33444434444455555555  7788999999999999999999886 578999997 777776654       579999


Q ss_pred             EEccCCC-CCC-C-ccEEEeccccccCCC
Q 042491          240 VGGDMLN-AVP-N-ADAVFMKVIVLIQDL  265 (266)
Q Consensus       240 ~~gd~~~-~~p-~-aD~~~l~~vLHd~~~  265 (266)
                      +.+|+.+ |+| + +|+|++..++|++++
T Consensus       122 ~~~d~~~l~~~~~sfD~V~~~~~l~h~~d  150 (282)
T d2o57a1         122 KYGSFLEIPCEDNSYDFIWSQDAFLHSPD  150 (282)
T ss_dssp             EECCTTSCSSCTTCEEEEEEESCGGGCSC
T ss_pred             cccccccccccccccchhhccchhhhccC
Confidence            9999988 666 3 999999999998875

>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=99.08  E-value=2e-10  Score=95.56  Aligned_cols=83  Identities=23%  Similarity=0.225  Sum_probs=68.8

Q ss_pred             HHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCCCC--
Q 042491          180 STLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNAVP--  249 (266)
Q Consensus       180 ~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~~p--  249 (266)
                      ..+.+.+.  +....+|||||||+|..+..++++++ .+++++|+ |.+++.+++       .+||+++.+|+.+..+  
T Consensus        23 ~~l~~~~~--l~pg~~VLDiGCG~G~~~~~la~~~~-~~v~GvD~s~~~~~~ar~~~~~~gl~~~v~~~~~d~~~~~~~~   99 (245)
T d1nkva_          23 ATLGRVLR--MKPGTRILDLGSGSGEMLCTWARDHG-ITGTGIDMSSLFTAQAKRRAEELGVSERVHFIHNDAAGYVANE   99 (245)
T ss_dssp             HHHHHHTC--CCTTCEEEEETCTTCHHHHHHHHHTC-CEEEEEESCHHHHHHHHHHHHHTTCTTTEEEEESCCTTCCCSS
T ss_pred             HHHHHHcC--CCCCCEEEEEcCCCCHHHHHHHHhcC-CEEEEEecccchhhHHHHHHHHhhccccchhhhhHHhhccccC
Confidence            34556666  77779999999999999999998876 79999998 777765543       5799999999988544  


Q ss_pred             CccEEEeccccccCCC
Q 042491          250 NADAVFMKVIVLIQDL  265 (266)
Q Consensus       250 ~aD~~~l~~vLHd~~~  265 (266)
                      .+|++++..++|.+.|
T Consensus       100 ~fD~v~~~~~~~~~~d  115 (245)
T d1nkva_         100 KCDVAACVGATWIAGG  115 (245)
T ss_dssp             CEEEEEEESCGGGTSS
T ss_pred             ceeEEEEEehhhccCC
Confidence            3999999999999876

>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=99.03  E-value=2.7e-10  Score=93.44  Aligned_cols=81  Identities=22%  Similarity=0.265  Sum_probs=67.0

Q ss_pred             HHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCC-CCC--C
Q 042491          181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLN-AVP--N  250 (266)
Q Consensus       181 ~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~-~~p--~  250 (266)
                      .+++..+  +.+..+|||||||+|.++..+++..+  +++++|+ +.+++.+++      .++|+++.+|+.+ ++|  .
T Consensus         6 ~ll~~~~--l~~~~rVLDiGcG~G~~~~~l~~~~~--~v~gvD~s~~~i~~A~~~~~~~~~~~i~~~~~d~~~l~~~~~~   81 (231)
T d1vl5a_           6 KLMQIAA--LKGNEEVLDVATGGGHVANAFAPFVK--KVVAFDLTEDILKVARAFIEGNGHQQVEYVQGDAEQMPFTDER   81 (231)
T ss_dssp             HHHHHHT--CCSCCEEEEETCTTCHHHHHHGGGSS--EEEEEESCHHHHHHHHHHHHHTTCCSEEEEECCC-CCCSCTTC
T ss_pred             HHHHhcC--CCCcCEEEEecccCcHHHHHHHHhCC--EEEEEECCHHHHhhhhhcccccccccccccccccccccccccc
Confidence            4666666  77889999999999999999999875  6888898 777776543      5889999999988 676  3


Q ss_pred             ccEEEeccccccCCC
Q 042491          251 ADAVFMKVIVLIQDL  265 (266)
Q Consensus       251 aD~~~l~~vLHd~~~  265 (266)
                      +|+|++..+||..+|
T Consensus        82 fD~v~~~~~l~~~~d   96 (231)
T d1vl5a_          82 FHIVTCRIAAHHFPN   96 (231)
T ss_dssp             EEEEEEESCGGGCSC
T ss_pred             cccccccccccccCC
Confidence            999999999998865

>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=98.97  E-value=5.3e-10  Score=92.24  Aligned_cols=81  Identities=15%  Similarity=0.235  Sum_probs=67.9

Q ss_pred             HHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCC-CCC-C-
Q 042491          181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLN-AVP-N-  250 (266)
Q Consensus       181 ~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~-~~p-~-  250 (266)
                      -+++.++  ++...+|||||||+|.++..++++.+  +++++|+ +.+++.+++      .+++.++.+|..+ ++| + 
T Consensus         7 ~l~~~~~--~~~~~rILDiGcGtG~~~~~la~~~~--~v~gvD~S~~~l~~A~~~~~~~~~~~~~~~~~d~~~~~~~~~~   82 (234)
T d1xxla_           7 LMIKTAE--CRAEHRVLDIGAGAGHTALAFSPYVQ--ECIGVDATKEMVEVASSFAQEKGVENVRFQQGTAESLPFPDDS   82 (234)
T ss_dssp             HHHHHHT--CCTTCEEEEESCTTSHHHHHHGGGSS--EEEEEESCHHHHHHHHHHHHHHTCCSEEEEECBTTBCCSCTTC
T ss_pred             HHHHHhC--CCCCCEEEEeCCcCcHHHHHHHHhCC--eEEEEeCChhhhhhhhhhhcccccccccccccccccccccccc
Confidence            3566777  88889999999999999999999875  6889997 677766653      4789999999988 666 3 


Q ss_pred             ccEEEeccccccCCC
Q 042491          251 ADAVFMKVIVLIQDL  265 (266)
Q Consensus       251 aD~~~l~~vLHd~~~  265 (266)
                      +|+|++..++|..+|
T Consensus        83 fD~v~~~~~l~~~~d   97 (234)
T d1xxla_          83 FDIITCRYAAHHFSD   97 (234)
T ss_dssp             EEEEEEESCGGGCSC
T ss_pred             cceeeeeceeecccC
Confidence            999999999998765

>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=98.94  E-value=1.6e-09  Score=88.74  Aligned_cols=74  Identities=16%  Similarity=0.185  Sum_probs=63.3

Q ss_pred             CCCceEEEecCCchHHHHHHHHH--CCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCC-CCCCccEEEeccc
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEF--YPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLN-AVPNADAVFMKVI  259 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~--~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~-~~p~aD~~~l~~v  259 (266)
                      ....+|||||||+|..+..|++.  +|+.+++++|+ +++++.+++       ..++++..+|+.+ +.+.+|++++..+
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            45679999999999999999986  48999999998 888887763       5678888899887 4557999999999


Q ss_pred             cccCC
Q 042491          260 VLIQD  264 (266)
Q Consensus       260 LHd~~  264 (266)
                      +|.++
T Consensus       118 l~~~~  122 (225)
T d1im8a_         118 LQFLP  122 (225)
T ss_dssp             GGGSC
T ss_pred             ccccC
Confidence            99875

>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=98.87  E-value=1.3e-09  Score=92.71  Aligned_cols=76  Identities=18%  Similarity=0.179  Sum_probs=64.9

Q ss_pred             CCCCceEEEecCCchHHHHHHHHHCCC-CeEEEeec-HHHHhhCCC-----CCCeEEEEccCCC-CCCC-ccEEEecccc
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEFYPH-IKGVNFDL-PHVVATAPV-----YEGVSHVGGDMLN-AVPN-ADAVFMKVIV  260 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~~P~-l~~~~~Dl-p~v~~~a~~-----~~ri~~~~gd~~~-~~p~-aD~~~l~~vL  260 (266)
                      ..++.+|||||||+|.++..+++.+|. .+++++|+ +.+++.+++     ..+++++.+|+.+ ++++ +|+|++.++|
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            567899999999999999999999985 78999998 777776654     3479999999988 5664 9999999999


Q ss_pred             ccCCC
Q 042491          261 LIQDL  265 (266)
Q Consensus       261 Hd~~~  265 (266)
                      |..++
T Consensus       105 ~~~~d  109 (281)
T d2gh1a1         105 LHMTT  109 (281)
T ss_dssp             GGCSS
T ss_pred             hcCCC
Confidence            98765

>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=98.79  E-value=2.8e-09  Score=89.24  Aligned_cols=83  Identities=13%  Similarity=0.161  Sum_probs=67.2

Q ss_pred             HHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC----CCCeEEEEccCCC-CCC-C-c
Q 042491          180 STLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV----YEGVSHVGGDMLN-AVP-N-A  251 (266)
Q Consensus       180 ~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~----~~ri~~~~gd~~~-~~p-~-a  251 (266)
                      ..+++.++  ..+..+|||||||+|.++..|++.+++ +++++|. +.+++.+++    .++++++.+|+.+ +++ + +
T Consensus        83 ~~fl~~l~--~~~~~~vLD~GcG~G~~t~~ll~~~~~-~v~~vD~s~~~l~~a~~~~~~~~~~~~~~~d~~~~~~~~~~f  159 (254)
T d1xtpa_          83 RNFIASLP--GHGTSRALDCGAGIGRITKNLLTKLYA-TTDLLEPVKHMLEEAKRELAGMPVGKFILASMETATLPPNTY  159 (254)
T ss_dssp             HHHHHTST--TCCCSEEEEETCTTTHHHHHTHHHHCS-EEEEEESCHHHHHHHHHHTTTSSEEEEEESCGGGCCCCSSCE
T ss_pred             HHHHhhCC--CCCCCeEEEecccCChhhHHHHhhcCc-eEEEEcCCHHHHHhhhccccccccceeEEccccccccCCCcc
Confidence            34566666  567789999999999999999988776 7888897 777777654    4668999999987 444 3 9


Q ss_pred             cEEEeccccccCCC
Q 042491          252 DAVFMKVIVLIQDL  265 (266)
Q Consensus       252 D~~~l~~vLHd~~~  265 (266)
                      |+|++..+||++++
T Consensus       160 D~I~~~~vl~hl~d  173 (254)
T d1xtpa_         160 DLIVIQWTAIYLTD  173 (254)
T ss_dssp             EEEEEESCGGGSCH
T ss_pred             ceEEeeccccccch
Confidence            99999999999864

>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=98.79  E-value=1.5e-09  Score=88.79  Aligned_cols=75  Identities=11%  Similarity=0.089  Sum_probs=62.1

Q ss_pred             CCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCC-CCC-C-ccEEEeccc
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLN-AVP-N-ADAVFMKVI  259 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~-~~p-~-aD~~~l~~v  259 (266)
                      ..+..+|||||||+|.++..+++.++. +++++|+ +.+++.+++      ..+++++.+|+.+ +++ + +|+|++..+
T Consensus        58 ~~~~~~vLDiGcG~G~~~~~l~~~~~~-~v~~vD~s~~~l~~ak~~~~~~~~~~~~f~~~d~~~~~~~~~~fD~I~~~~~  136 (222)
T d2ex4a1          58 KTGTSCALDCGAGIGRITKRLLLPLFR-EVDMVDITEDFLVQAKTYLGEEGKRVRNYFCCGLQDFTPEPDSYDVIWIQWV  136 (222)
T ss_dssp             CCCCSEEEEETCTTTHHHHHTTTTTCS-EEEEEESCHHHHHHHHHHTGGGGGGEEEEEECCGGGCCCCSSCEEEEEEESC
T ss_pred             CCCCCEEEEeccCCCHhhHHHHHhcCC-EEEEeecCHHHhhccccccccccccccccccccccccccccccccccccccc
Confidence            345689999999999999999888875 7899998 888877653      3568999999988 544 3 999999999


Q ss_pred             cccCCC
Q 042491          260 VLIQDL  265 (266)
Q Consensus       260 LHd~~~  265 (266)
                      ||+.++
T Consensus       137 l~h~~~  142 (222)
T d2ex4a1         137 IGHLTD  142 (222)
T ss_dssp             GGGSCH
T ss_pred             cccchh
Confidence            998763

>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=98.77  E-value=1.7e-08  Score=81.69  Aligned_cols=72  Identities=15%  Similarity=0.192  Sum_probs=60.2

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-----CCCeEEEEccCCC-CCC--CccEEEeccccc
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-----YEGVSHVGGDMLN-AVP--NADAVFMKVIVL  261 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-----~~ri~~~~gd~~~-~~p--~aD~~~l~~vLH  261 (266)
                      ....+|||||||+|.++..+++.  +.+++++|+ +.+++.+++     ..++.++.+|+.+ +++  .+|+|++..++|
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            35579999999999999999985  568999998 778877653     4678999999988 666  399999999999


Q ss_pred             cCC
Q 042491          262 IQD  264 (266)
Q Consensus       262 d~~  264 (266)
                      .++
T Consensus       114 ~~~  116 (226)
T d1ve3a1         114 HFE  116 (226)
T ss_dssp             GCC
T ss_pred             hCC
Confidence            875

>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=98.76  E-value=2.3e-08  Score=82.55  Aligned_cols=79  Identities=25%  Similarity=0.290  Sum_probs=61.9

Q ss_pred             HHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-----CCCeEEEEccCCC-CCCC-cc
Q 042491          181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-----YEGVSHVGGDMLN-AVPN-AD  252 (266)
Q Consensus       181 ~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-----~~ri~~~~gd~~~-~~p~-aD  252 (266)
                      .++..+.  ..+.++|||||||+|.++..|+++..  +++++|+ |.+++.+++     ..+++++.+|+.+ ++++ +|
T Consensus        32 ~~~~~~~--~~~~~~iLDiGcGtG~~~~~l~~~~~--~v~gvD~s~~mi~~a~~~~~~~~~~i~~~~~d~~~l~~~~~fD  107 (251)
T d1wzna1          32 EIFKEDA--KREVRRVLDLACGTGIPTLELAERGY--EVVGLDLHEEMLRVARRKAKERNLKIEFLQGDVLEIAFKNEFD  107 (251)
T ss_dssp             HHHHHTC--SSCCCEEEEETCTTCHHHHHHHHTTC--EEEEEESCHHHHHHHHHHHHHTTCCCEEEESCGGGCCCCSCEE
T ss_pred             HHHHHhc--CCCCCEEEEeCCCCCccchhhcccce--EEEEEeeccccccccccccccccccchheehhhhhcccccccc
Confidence            3444444  55678999999999999999999754  7899998 778887764     4589999999988 6665 99


Q ss_pred             EEEec-cccccC
Q 042491          253 AVFMK-VIVLIQ  263 (266)
Q Consensus       253 ~~~l~-~vLHd~  263 (266)
                      ++++. +++|.+
T Consensus       108 ~I~~~~~~~~~~  119 (251)
T d1wzna1         108 AVTMFFSTIMYF  119 (251)
T ss_dssp             EEEECSSGGGGS
T ss_pred             hHhhhhhhhhcC
Confidence            98875 555544

>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=98.75  E-value=4.6e-09  Score=86.08  Aligned_cols=74  Identities=14%  Similarity=0.232  Sum_probs=61.6

Q ss_pred             CCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC--CCCeEEEEccCCC-CCCC-ccEEEeccccccCC
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV--YEGVSHVGGDMLN-AVPN-ADAVFMKVIVLIQD  264 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~--~~ri~~~~gd~~~-~~p~-aD~~~l~~vLHd~~  264 (266)
                      +....+|||||||+|.++..++++..  +++++|+ |++++.+++  .++++++.+|+.+ +.++ +|++++.++||+.+
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            34567899999999999999998865  5889998 778887764  5689999999887 4554 99999999999876


Q ss_pred             C
Q 042491          265 L  265 (266)
Q Consensus       265 ~  265 (266)
                      +
T Consensus        96 d   96 (225)
T d2p7ia1          96 D   96 (225)
T ss_dssp             S
T ss_pred             C
Confidence            5

>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=98.73  E-value=1.6e-08  Score=81.10  Aligned_cols=74  Identities=14%  Similarity=0.140  Sum_probs=59.9

Q ss_pred             CCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCCC-CCC-ccEEEecccc
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLNA-VPN-ADAVFMKVIV  260 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~~-~p~-aD~~~l~~vL  260 (266)
                      +....+|||||||+|..+..++++.+  +++++|+ +.+++.++.      .+++++..+|+.+. .++ +|+|++..++
T Consensus        28 ~~~~grvLDiGcG~G~~~~~la~~g~--~v~gvD~s~~~l~~a~~~~~~~~~~~~~~~~~d~~~~~~~~~fD~I~~~~~~  105 (198)
T d2i6ga1          28 VVAPGRTLDLGCGNGRNSLYLAANGY--DVTAWDKNPASMANLERIKAAEGLDNLQTDLVDLNTLTFDGEYDFILSTVVM  105 (198)
T ss_dssp             TSCSCEEEEETCTTSHHHHHHHHTTC--EEEEEESCHHHHHHHHHHHHHTTCTTEEEEECCTTTCCCCCCEEEEEEESCG
T ss_pred             cCCCCcEEEECCCCCHHHHHHHHHhh--hhccccCcHHHHHHHHHHhhhccccchhhhheecccccccccccEEEEeeee
Confidence            44557999999999999999999854  7889998 666765543      46799999999984 444 9999999999


Q ss_pred             ccCCC
Q 042491          261 LIQDL  265 (266)
Q Consensus       261 Hd~~~  265 (266)
                      |..++
T Consensus       106 ~~~~~  110 (198)
T d2i6ga1         106 MFLEA  110 (198)
T ss_dssp             GGSCT
T ss_pred             ecCCH
Confidence            98653

>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=98.73  E-value=1.2e-08  Score=86.01  Aligned_cols=72  Identities=18%  Similarity=0.265  Sum_probs=62.9

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-CCCeEEEEccCCC-CCCC--ccEEEecccccc
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-YEGVSHVGGDMLN-AVPN--ADAVFMKVIVLI  262 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-~~ri~~~~gd~~~-~~p~--aD~~~l~~vLHd  262 (266)
                      .+..+|||||||+|.++..+++.+|+.+++++|+ +.+++.+++ .++++++.+|..+ +++.  +|+++....+|.
T Consensus        83 ~~~~~iLDiGcG~G~~~~~l~~~~~~~~~~giD~s~~~~~~a~~~~~~~~~~~~d~~~l~~~~~sfD~v~~~~~~~~  159 (268)
T d1p91a_          83 DKATAVLDIGCGEGYYTHAFADALPEITTFGLDVSKVAIKAAAKRYPQVTFCVASSHRLPFSDTSMDAIIRIYAPCK  159 (268)
T ss_dssp             TTCCEEEEETCTTSTTHHHHHHTCTTSEEEEEESCHHHHHHHHHHCTTSEEEECCTTSCSBCTTCEEEEEEESCCCC
T ss_pred             CCCCEEEEeCCCCcHHHHHHHHHCCCCEEEEecchHhhhhhhhcccccccceeeehhhccCCCCCEEEEeecCCHHH
Confidence            3568999999999999999999999999999998 778887765 6889999999988 6663  999998877765

>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=98.63  E-value=3.7e-08  Score=78.73  Aligned_cols=78  Identities=14%  Similarity=0.149  Sum_probs=61.2

Q ss_pred             HHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC--------CCCeEEEEccCCCCCC--C
Q 042491          182 LLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV--------YEGVSHVGGDMLNAVP--N  250 (266)
Q Consensus       182 ~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~--------~~ri~~~~gd~~~~~p--~  250 (266)
                      +++.++  .....+|||||||+|.++..+++..|  +++++|+ |.+++.+++        ..+++++.+|++++++  .
T Consensus        44 Li~~l~--~~~~~~VLDiGcG~G~~~~~la~~~~--~v~~iD~s~~~i~~a~~n~~~~~l~~~~i~~~~~d~~~~~~~~~  119 (194)
T d1dusa_          44 LVENVV--VDKDDDILDLGCGYGVIGIALADEVK--STTMADINRRAIKLAKENIKLNNLDNYDIRVVHSDLYENVKDRK  119 (194)
T ss_dssp             HHHHCC--CCTTCEEEEETCTTSHHHHHHGGGSS--EEEEEESCHHHHHHHHHHHHHTTCTTSCEEEEECSTTTTCTTSC
T ss_pred             HHHhCC--cCCCCeEEEEeecCChhHHHHHhhcc--ccceeeeccccchhHHHHHHHhCCccceEEEEEcchhhhhccCC
Confidence            455555  45678999999999999999999988  4667787 666665542        4679999999998766  3


Q ss_pred             ccEEEeccccccC
Q 042491          251 ADAVFMKVIVLIQ  263 (266)
Q Consensus       251 aD~~~l~~vLHd~  263 (266)
                      +|++++.-.+|..
T Consensus       120 fD~Ii~~~p~~~~  132 (194)
T d1dusa_         120 YNKIITNPPIRAG  132 (194)
T ss_dssp             EEEEEECCCSTTC
T ss_pred             ceEEEEcccEEec
Confidence            9999998777653

>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=98.63  E-value=3.4e-08  Score=83.40  Aligned_cols=67  Identities=18%  Similarity=0.277  Sum_probs=58.1

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCCCCCC--ccEEEec
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLNAVPN--ADAVFMK  257 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~~~p~--aD~~~l~  257 (266)
                      ....+|||+|||+|..+..+++++|+++++..|. +..++.+++      ..||+++.+|+++++++  +|+++..
T Consensus       107 ~~~~~vlDlGtGSG~I~i~la~~~p~~~v~avDis~~Al~~A~~Na~~~~~~~v~~~~~d~~~~~~~~~fDlIvsN  182 (274)
T d2b3ta1         107 EQPCRILDLGTGTGAIALALASERPDCEIIAVDRMPDAVSLAQRNAQHLAIKNIHILQSDWFSALAGQQFAMIVSN  182 (274)
T ss_dssp             SSCCEEEEETCTTSHHHHHHHHHCTTSEEEEECSSHHHHHHHHHHHHHHTCCSEEEECCSTTGGGTTCCEEEEEEC
T ss_pred             ccccceeeeehhhhHHHHHHHhhCCcceeeeccchhHHHhHHHHHHHHhCcccceeeecccccccCCCceeEEEec
Confidence            3557899999999999999999999999999998 777776664      46899999999998774  9999764

>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=98.62  E-value=3.2e-08  Score=79.51  Aligned_cols=67  Identities=19%  Similarity=0.189  Sum_probs=54.7

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCCCCCeEEEEccCCC-CCC--CccEEEeccccccCCC
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPVYEGVSHVGGDMLN-AVP--NADAVFMKVIVLIQDL  265 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~~ri~~~~gd~~~-~~p--~aD~~~l~~vLHd~~~  265 (266)
                      ...+|||||||+|.++..+.      +.+++|. |.+++.+++ .+++++.+|+.+ +++  .+|+|++..+||..++
T Consensus        36 ~~~~vLDiGcG~G~~~~~~~------~~~giD~s~~~~~~a~~-~~~~~~~~d~~~l~~~~~~fD~I~~~~~l~h~~d  106 (208)
T d1vlma_          36 PEGRGVEIGVGTGRFAVPLK------IKIGVEPSERMAEIARK-RGVFVLKGTAENLPLKDESFDFALMVTTICFVDD  106 (208)
T ss_dssp             CSSCEEEETCTTSTTHHHHT------CCEEEESCHHHHHHHHH-TTCEEEECBTTBCCSCTTCEEEEEEESCGGGSSC
T ss_pred             CCCeEEEECCCCcccccccc------eEEEEeCChhhcccccc-cccccccccccccccccccccccccccccccccc
Confidence            34589999999999988774      3578898 778877664 479999999988 666  3999999999999865

>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=98.54  E-value=5.7e-08  Score=80.20  Aligned_cols=70  Identities=14%  Similarity=0.078  Sum_probs=56.2

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-----CCCeEEEEccCCC-CCCC-ccEEEec-ccccc
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-----YEGVSHVGGDMLN-AVPN-ADAVFMK-VIVLI  262 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-----~~ri~~~~gd~~~-~~p~-aD~~~l~-~vLHd  262 (266)
                      ...+|||||||+|.++..++++.+  +++++|+ +++++.|++     ..+++++.+|+.+ ++++ +|+|++. +++|.
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            457999999999999999999865  6889998 777777654     4579999999988 4554 9988753 66655


Q ss_pred             C
Q 042491          263 Q  263 (266)
Q Consensus       263 ~  263 (266)
                      .
T Consensus       115 ~  115 (246)
T d1y8ca_         115 I  115 (246)
T ss_dssp             C
T ss_pred             c
Confidence            4

>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=98.51  E-value=4.8e-08  Score=79.97  Aligned_cols=74  Identities=19%  Similarity=0.169  Sum_probs=57.6

Q ss_pred             CCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCCCCCeEEEEccCCC-CCC-C-ccEEEe-ccccccCC
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPVYEGVSHVGGDMLN-AVP-N-ADAVFM-KVIVLIQD  264 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~~ri~~~~gd~~~-~~p-~-aD~~~l-~~vLHd~~  264 (266)
                      .....+|||||||+|.++..+++.  ..+++++|. +.+++.+++.....++.+|+.+ ++| + +|+|++ ..++|..+
T Consensus        40 ~~~~~~vLDiGcG~G~~~~~l~~~--~~~v~giD~s~~~l~~a~~~~~~~~~~~~~~~l~~~~~~fD~ii~~~~~~~~~~  117 (246)
T d2avna1          40 LKNPCRVLDLGGGTGKWSLFLQER--GFEVVLVDPSKEMLEVAREKGVKNVVEAKAEDLPFPSGAFEAVLALGDVLSYVE  117 (246)
T ss_dssp             CCSCCEEEEETCTTCHHHHHHHTT--TCEEEEEESCHHHHHHHHHHTCSCEEECCTTSCCSCTTCEEEEEECSSHHHHCS
T ss_pred             cCCCCEEEEECCCCchhccccccc--ceEEEEeecccccccccccccccccccccccccccccccccceeeecchhhhhh
Confidence            346679999999999999999876  568999998 8888877763223467788877 666 3 999886 57888766


Q ss_pred             C
Q 042491          265 L  265 (266)
Q Consensus       265 ~  265 (266)
                      |
T Consensus       118 d  118 (246)
T d2avna1         118 N  118 (246)
T ss_dssp             C
T ss_pred             h
Confidence            5

>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=98.51  E-value=6e-08  Score=77.01  Aligned_cols=77  Identities=22%  Similarity=0.233  Sum_probs=60.8

Q ss_pred             HHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCC---CCC
Q 042491          182 LLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNA---VPN  250 (266)
Q Consensus       182 ~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~---~p~  250 (266)
                      ++..+.  .....+|||||||+|.++..+++..+  +++.+|. |.+++.+++       .+||+++.+|+.+.   .+.
T Consensus        25 il~~l~--~~~g~~VLDiGcGsG~~s~~lA~~~~--~V~avD~~~~~l~~a~~n~~~~gl~~~v~~~~gda~~~~~~~~~  100 (186)
T d1l3ia_          25 IMCLAE--PGKNDVAVDVGCGTGGVTLELAGRVR--RVYAIDRNPEAISTTEMNLQRHGLGDNVTLMEGDAPEALCKIPD  100 (186)
T ss_dssp             HHHHHC--CCTTCEEEEESCTTSHHHHHHHTTSS--EEEEEESCHHHHHHHHHHHHHTTCCTTEEEEESCHHHHHTTSCC
T ss_pred             HHHhcC--CCCCCEEEEEECCeEcccccccccce--EEEEecCCHHHHHHHHHHHHHcCCCcceEEEECchhhcccccCC
Confidence            445555  66778999999999999999988765  7889998 788777664       47999999998772   346


Q ss_pred             ccEEEecccccc
Q 042491          251 ADAVFMKVIVLI  262 (266)
Q Consensus       251 aD~~~l~~vLHd  262 (266)
                      +|++++....|+
T Consensus       101 ~D~v~~~~~~~~  112 (186)
T d1l3ia_         101 IDIAVVGGSGGE  112 (186)
T ss_dssp             EEEEEESCCTTC
T ss_pred             cCEEEEeCcccc
Confidence            999998765543

>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=98.51  E-value=1.2e-07  Score=78.63  Aligned_cols=79  Identities=18%  Similarity=0.135  Sum_probs=61.5

Q ss_pred             HHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCC-CC-C-
Q 042491          181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLN-AV-P-  249 (266)
Q Consensus       181 ~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~-~~-p-  249 (266)
                      .++..|-   +...+|||||||+|..+..+++..+. +++++|+ +.+++.|+.       ..++.+..+|+.. ++ + 
T Consensus        16 ~lI~~~~---~~~~~VLDlGCG~G~~~~~~~~~~~~-~v~GiD~S~~~l~~A~~r~~~~~~~~~v~f~~~D~~~~~~~~~   91 (252)
T d1ri5a_          16 CLIRLYT---KRGDSVLDLGCGKGGDLLKYERAGIG-EYYGVDIAEVSINDARVRARNMKRRFKVFFRAQDSYGRHMDLG   91 (252)
T ss_dssp             HHHHHHC---CTTCEEEEETCTTTTTHHHHHHHTCS-EEEEEESCHHHHHHHHHHHHTSCCSSEEEEEESCTTTSCCCCS
T ss_pred             HHHHHhC---CCcCEEEEecccCcHHHHHHHHcCCC-eEEEecCCHHHHHHHHHHHHhcCCCcceEEEEcchhhhccccc
Confidence            3455553   45689999999999999999887553 7899998 777776652       4579999999977 33 2 


Q ss_pred             -CccEEEeccccccC
Q 042491          250 -NADAVFMKVIVLIQ  263 (266)
Q Consensus       250 -~aD~~~l~~vLHd~  263 (266)
                       .+|+|++..++|..
T Consensus        92 ~~fD~V~~~~~l~~~  106 (252)
T d1ri5a_          92 KEFDVISSQFSFHYA  106 (252)
T ss_dssp             SCEEEEEEESCGGGG
T ss_pred             ccceEEEEcceeeec
Confidence             39999999999975

>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=98.47  E-value=1.1e-07  Score=82.31  Aligned_cols=80  Identities=15%  Similarity=0.204  Sum_probs=63.9

Q ss_pred             HHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC---------------CCCeEEEEccC
Q 042491          181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV---------------YEGVSHVGGDM  244 (266)
Q Consensus       181 ~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~---------------~~ri~~~~gd~  244 (266)
                      .+++.+.  .....+|+|||||.|.++..+++.+|..+++++|+ |..++.++.               ..+|+++.||+
T Consensus       142 ~~~~~~~--l~~~~~vlD~GcG~G~~~~~~a~~~~~~~~~Gid~s~~~~~~a~~~~~~~~~~~~~~g~~~~~i~~~~gd~  219 (328)
T d1nw3a_         142 QMIDEIK--MTDDDLFVDLGSGVGQVVLQVAAATNCKHHYGVEKADIPAKYAETMDREFRKWMKWYGKKHAEYTLERGDF  219 (328)
T ss_dssp             HHHHHSC--CCTTCEEEEETCTTSHHHHHHHHHCCCSEEEEEECSHHHHHHHHHHHHHHHHHHHHHTCCCCCEEEEECCT
T ss_pred             HHHHHcC--CCCCCEEEEcCCCCCHHHHHHHHHhCCCeEEEEeCCHHHHHHHHHHHHHHHHHhhhccccCCceEEEECcc
Confidence            4566666  67778999999999999999999999999999998 555554432               46799999999


Q ss_pred             CC-CCC----CccEEEecccccc
Q 042491          245 LN-AVP----NADAVFMKVIVLI  262 (266)
Q Consensus       245 ~~-~~p----~aD~~~l~~vLHd  262 (266)
                      .+ ++.    .+|++++.+.+|.
T Consensus       220 ~~~~~~~~~~~advi~~~~~~f~  242 (328)
T d1nw3a_         220 LSEEWRERIANTSVIFVNNFAFG  242 (328)
T ss_dssp             TSHHHHHHHHHCSEEEECCTTTC
T ss_pred             cccccccccCcceEEEEcceecc
Confidence            98 433    3799998877663

>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=98.45  E-value=1.5e-07  Score=74.05  Aligned_cols=73  Identities=11%  Similarity=0.071  Sum_probs=59.5

Q ss_pred             CCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------------------CCCeEEEEccCCCCCC-
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------------------YEGVSHVGGDMLNAVP-  249 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------------------~~ri~~~~gd~~~~~p-  249 (266)
                      .....+|||||||+|..+..|+++  +.+++++|+ +.+++.+++                  ...+++..+|+++..+ 
T Consensus        18 ~~~~~rvLd~GCG~G~~a~~la~~--G~~V~gvD~S~~~i~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~l~~~   95 (201)
T d1pjza_          18 VVPGARVLVPLCGKSQDMSWLSGQ--GYHVVGAELSEAAVERYFTERGEQPHITSQGDFKVYAAPGIEIWCGDFFALTAR   95 (201)
T ss_dssp             CCTTCEEEETTTCCSHHHHHHHHH--CCEEEEEEECHHHHHHHHHHHCSCSEEEEETTEEEEECSSSEEEEECCSSSTHH
T ss_pred             CCCCCEEEEecCcCCHHHHHHHHc--CCceEeecccHHHHHHHHHHhccccchhhhhhhhhccccccceecccccccccc
Confidence            567789999999999999999997  679999998 777766553                  3557889999988422 


Q ss_pred             ---CccEEEeccccccCC
Q 042491          250 ---NADAVFMKVIVLIQD  264 (266)
Q Consensus       250 ---~aD~~~l~~vLHd~~  264 (266)
                         .+|+++.+.++|..+
T Consensus        96 ~~~~~D~i~~~~~l~~l~  113 (201)
T d1pjza_          96 DIGHCAAFYDRAAMIALP  113 (201)
T ss_dssp             HHHSEEEEEEESCGGGSC
T ss_pred             cccceeEEEEEeeeEecc
Confidence               389999999998754

>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=98.35  E-value=4.3e-07  Score=73.64  Aligned_cols=82  Identities=24%  Similarity=0.274  Sum_probs=66.2

Q ss_pred             HHHhhcccCCCCCceEEEecCCchHHHHHHHHHC-CCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCCCCC---
Q 042491          181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFY-PHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLNAVP---  249 (266)
Q Consensus       181 ~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~-P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~~~p---  249 (266)
                      .+++.++  .....+|||||||+|..+..+++.. |+.+++.+|. |+.++.+++      .+++.++.+|..+..|   
T Consensus        66 ~~l~~l~--l~~g~~VLdiG~GtG~~s~~la~~~~~~g~V~~id~~~~~~~~a~~~~~~~~~~n~~~~~~d~~~~~~~~~  143 (213)
T d1dl5a1          66 LFMEWVG--LDKGMRVLEIGGGTGYNAAVMSRVVGEKGLVVSVEYSRKICEIAKRNVERLGIENVIFVCGDGYYGVPEFS  143 (213)
T ss_dssp             HHHHHTT--CCTTCEEEEECCTTSHHHHHHHHHHCTTCEEEEEESCHHHHHHHHHHHHHTTCCSEEEEESCGGGCCGGGC
T ss_pred             HHHHhhh--ccccceEEEecCccchhHHHHHHHhCCCCcEEEeecchhhHHHhhhhHhhhcccccccccCchHHcccccc
Confidence            3456666  7788999999999999999999876 6789999997 777776654      6789999999887443   


Q ss_pred             CccEEEeccccccCC
Q 042491          250 NADAVFMKVIVLIQD  264 (266)
Q Consensus       250 ~aD~~~l~~vLHd~~  264 (266)
                      .||+|++...+|+..
T Consensus       144 ~fD~I~~~~~~~~~p  158 (213)
T d1dl5a1         144 PYDVIFVTVGVDEVP  158 (213)
T ss_dssp             CEEEEEECSBBSCCC
T ss_pred             chhhhhhhccHHHhH
Confidence            399999998887653

>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=98.27  E-value=5.1e-07  Score=74.07  Aligned_cols=75  Identities=9%  Similarity=0.085  Sum_probs=60.8

Q ss_pred             CCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCC----CCCCeEEEEccCCCC--CC-C-ccEEEecccc
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAP----VYEGVSHVGGDMLNA--VP-N-ADAVFMKVIV  260 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~----~~~ri~~~~gd~~~~--~p-~-aD~~~l~~vL  260 (266)
                      +....+|||||||+|..+..+++..|+-+++.+|. |.+++.+.    ..+++..+.+|...+  .+ . .|+.++.+.+
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            56778999999999999999999999999999998 77766544    367888898888774  22 2 7787777888


Q ss_pred             ccCC
Q 042491          261 LIQD  264 (266)
Q Consensus       261 Hd~~  264 (266)
                      |.+.
T Consensus       152 ~~~~  155 (230)
T d1g8sa_         152 AQPN  155 (230)
T ss_dssp             CSTT
T ss_pred             cchH
Confidence            7664

>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=98.26  E-value=9.3e-07  Score=74.60  Aligned_cols=82  Identities=13%  Similarity=0.120  Sum_probs=63.9

Q ss_pred             HHHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCCCC-
Q 042491          179 MSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNAVP-  249 (266)
Q Consensus       179 ~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~~p-  249 (266)
                      ...+++.++  ++...+|||||||.|.++..++++++ .+++++|+ ++.++.+++       ..++.+...|+.+ +| 
T Consensus        41 ~~~~~~~l~--l~~g~~VLDiGCG~G~~a~~~a~~~g-~~v~gi~ls~~q~~~a~~~~~~~~l~~~~~~~~~d~~~-~~~  116 (280)
T d2fk8a1          41 VDLNLDKLD--LKPGMTLLDIGCGWGTTMRRAVERFD-VNVIGLTLSKNQHARCEQVLASIDTNRSRQVLLQGWED-FAE  116 (280)
T ss_dssp             HHHHHTTSC--CCTTCEEEEESCTTSHHHHHHHHHHC-CEEEEEESCHHHHHHHHHHHHTSCCSSCEEEEESCGGG-CCC
T ss_pred             HHHHHHHcC--CCCCCEEEEecCCchHHHHHHHHhCc-eeEEEecchHHHHHHHHHHHHhhccccchhhhhhhhhh-hcc
Confidence            456778777  78889999999999999999888886 59999998 444443332       5678888888665 45 


Q ss_pred             CccEEEeccccccCC
Q 042491          250 NADAVFMKVIVLIQD  264 (266)
Q Consensus       250 ~aD~~~l~~vLHd~~  264 (266)
                      .+|.++...+++...
T Consensus       117 ~fD~i~si~~~eh~~  131 (280)
T d2fk8a1         117 PVDRIVSIEAFEHFG  131 (280)
T ss_dssp             CCSEEEEESCGGGTC
T ss_pred             chhhhhHhhHHHHhh
Confidence            499999999988764

>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=98.25  E-value=6.6e-07  Score=72.04  Aligned_cols=68  Identities=19%  Similarity=0.277  Sum_probs=53.9

Q ss_pred             CceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCC--C-CC--CccEEEecccc
Q 042491          193 IRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLN--A-VP--NADAVFMKVIV  260 (266)
Q Consensus       193 ~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~--~-~p--~aD~~~l~~vL  260 (266)
                      ...|||||||+|.++..+++.+|+..++++|+ +..+..+..      .++|.++.+|...  + +|  ..|.+++....
T Consensus        30 ~PlvLeIGcG~G~~~~~lA~~~p~~~~iGiD~~~~~i~~a~~~~~~~~l~Nv~~~~~Da~~l~~~~~~~~~d~v~i~fp~  109 (204)
T d2fcaa1          30 NPIHIEVGTGKGQFISGMAKQNPDINYIGIELFKSVIVTAVQKVKDSEAQNVKLLNIDADTLTDVFEPGEVKRVYLNFSD  109 (204)
T ss_dssp             CCEEEEECCTTSHHHHHHHHHCTTSEEEEECSCHHHHHHHHHHHHHSCCSSEEEECCCGGGHHHHCCTTSCCEEEEESCC
T ss_pred             CceEEEEEecCcHHHHHHHHhCCCCcEEEeecchHHHHHHHHHHHHHhccCchhcccchhhhhcccCchhhhcccccccc
Confidence            35899999999999999999999999999997 555554432      5789999999866  2 55  38887765544

>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=98.23  E-value=9e-07  Score=72.17  Aligned_cols=73  Identities=7%  Similarity=-0.051  Sum_probs=58.8

Q ss_pred             CCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-----------------------CCCeEEEEccCC
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-----------------------YEGVSHVGGDML  245 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-----------------------~~ri~~~~gd~~  245 (266)
                      .....+|||+|||.|..+..|++.  +.+++++|+ |.+|+.+++                       ..++++..+|++
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            456689999999999999999986  568999998 777764321                       468999999998


Q ss_pred             CC--CC--CccEEEeccccccCC
Q 042491          246 NA--VP--NADAVFMKVIVLIQD  264 (266)
Q Consensus       246 ~~--~p--~aD~~~l~~vLHd~~  264 (266)
                      +-  .+  .+|+++-+.++|..+
T Consensus       121 ~l~~~~~~~fd~i~~~~~l~~~~  143 (229)
T d2bzga1         121 DLPRTNIGKFDMIWDRGALVAIN  143 (229)
T ss_dssp             GGGGSCCCCEEEEEESSSTTTSC
T ss_pred             hccccccCceeEEEEEEEEEecc
Confidence            82  22  399999999999764

>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=98.23  E-value=1e-06  Score=73.15  Aligned_cols=88  Identities=15%  Similarity=0.164  Sum_probs=59.9

Q ss_pred             HHHHHHhhhHHHHH----HHHhhcccCCCCCceEEEecCCchHHHHHHHHH-CCCCeEEEeec-HHHHhhCCC-------
Q 042491          167 FNKAMACTAKIVMS----TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEF-YPHIKGVNFDL-PHVVATAPV-------  233 (266)
Q Consensus       167 f~~~m~~~~~~~~~----~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~-~P~l~~~~~Dl-p~v~~~a~~-------  233 (266)
                      |...|...++.+.|    .++...+  .....+|||+|||+|.++..+++. .|+-+++.+|. ++.++.+++       
T Consensus        58 ~~~~~~r~~qiiypkD~~~Ii~~l~--i~pG~rVLEiG~GsG~lt~~la~~v~~~g~V~~vD~~e~~~~~A~~n~~~~~~  135 (250)
T d1yb2a1          58 FGRVIRRNTQIISEIDASYIIMRCG--LRPGMDILEVGVGSGNMSSYILYALNGKGTLTVVERDEDNLKKAMDNLSEFYD  135 (250)
T ss_dssp             HHHHC------------------CC--CCTTCEEEEECCTTSHHHHHHHHHHTTSSEEEEECSCHHHHHHHHHHHHTTSC
T ss_pred             HHhhCCCCCcccCHHHHHHHHHHcC--CCCcCEEEEeeeeCcHHHHHHHHHhCCCcEEEEEECCHHHHHHHHHHHHHhcC
Confidence            44556555544322    2444455  667799999999999999999987 68889999998 556665543       


Q ss_pred             CCCeEEEEccCCCCCCC--ccEEEe
Q 042491          234 YEGVSHVGGDMLNAVPN--ADAVFM  256 (266)
Q Consensus       234 ~~ri~~~~gd~~~~~p~--aD~~~l  256 (266)
                      ..+|++..+|+.+.+++  +|++++
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            57899999999987663  999986

>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=98.22  E-value=1.1e-06  Score=70.65  Aligned_cols=65  Identities=18%  Similarity=0.268  Sum_probs=51.5

Q ss_pred             CceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCC--C-CC--CccEEEec
Q 042491          193 IRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLN--A-VP--NADAVFMK  257 (266)
Q Consensus       193 ~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~--~-~p--~aD~~~l~  257 (266)
                      ...+||||||.|.++..+++.+|+..++++|+ +.++..+..      .++|.++.+|...  + +|  ..|.+++.
T Consensus        32 ~plvLdIGcG~G~~~~~lA~~~p~~~~iGid~~~~~v~~a~~~~~~~~l~Ni~~~~~da~~l~~~~~~~~~~~i~i~  108 (204)
T d1yzha1          32 NPIHVEVGSGKGAFVSGMAKQNPDINYIGIDIQKSVLSYALDKVLEVGVPNIKLLWVDGSDLTDYFEDGEIDRLYLN  108 (204)
T ss_dssp             CCEEEEESCTTSHHHHHHHHHCTTSEEEEEESCHHHHHHHHHHHHHHCCSSEEEEECCSSCGGGTSCTTCCSEEEEE
T ss_pred             CCeEEEEeccCCHHHHHHHHHCCCCceEEEeccHHHHHHHHHhhhhhccccceeeecCHHHHhhhccCCceehhccc
Confidence            35899999999999999999999999999997 555554432      5789999999766  2 55  37777653

>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=98.18  E-value=2.9e-06  Score=71.62  Aligned_cols=81  Identities=16%  Similarity=0.137  Sum_probs=61.5

Q ss_pred             HHHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCC-------CCCCeEEEEccCCCCCCC
Q 042491          179 MSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAP-------VYEGVSHVGGDMLNAVPN  250 (266)
Q Consensus       179 ~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~-------~~~ri~~~~gd~~~~~p~  250 (266)
                      ...+++...  .+...+|||||||.|..+..++++++ ++++++++ ++-++.++       ..+++++..+|+.+ +|+
T Consensus        51 ~~~~~~~l~--l~~G~~VLDiGCG~G~~a~~~a~~~g-~~v~git~s~~Q~~~a~~~~~~~g~~~~v~~~~~d~~~-~~~  126 (285)
T d1kpga_          51 IDLALGKLG--LQPGMTLLDVGCGWGATMMRAVEKYD-VNVVGLTLSKNQANHVQQLVANSENLRSKRVLLAGWEQ-FDE  126 (285)
T ss_dssp             HHHHHTTTT--CCTTCEEEEETCTTSHHHHHHHHHHC-CEEEEEESCHHHHHHHHHHHHTCCCCSCEEEEESCGGG-CCC
T ss_pred             HHHHHHHcC--CCCCCEEEEecCcchHHHHHHHhcCC-cceEEEeccHHHHHHHHHHHHhhhhhhhhHHHHhhhhc-ccc
Confidence            456677777  77889999999999999999999995 89999998 33233222       26899999999865 454


Q ss_pred             -ccEEEeccccccC
Q 042491          251 -ADAVFMKVIVLIQ  263 (266)
Q Consensus       251 -aD~~~l~~vLHd~  263 (266)
                       +|.++....+...
T Consensus       127 ~fD~i~si~~~eh~  140 (285)
T d1kpga_         127 PVDRIVSIGAFEHF  140 (285)
T ss_dssp             CCSEEEEESCGGGT
T ss_pred             cccceeeehhhhhc
Confidence             8877766655443

>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=98.17  E-value=1.9e-06  Score=71.89  Aligned_cols=74  Identities=12%  Similarity=0.202  Sum_probs=61.9

Q ss_pred             HHHhhcccCCCCCceEEEecCCchHHHHHHHHH-CCCCeEEEeec-HHHHhhCCC---------CCCeEEEEccCCC-CC
Q 042491          181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEF-YPHIKGVNFDL-PHVVATAPV---------YEGVSHVGGDMLN-AV  248 (266)
Q Consensus       181 ~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~-~P~l~~~~~Dl-p~v~~~a~~---------~~ri~~~~gd~~~-~~  248 (266)
                      .++...+  .....+|||+|||+|.++..|++. .|+-+++.+|. ++.++.+++         .++++++.+|+.+ ++
T Consensus        87 ~Ii~~l~--i~PG~~VLE~G~GsG~lt~~La~~vgp~G~V~~~d~~~~~~~~Ar~n~~~~~~~~~~nv~~~~~d~~~~~~  164 (264)
T d1i9ga_          87 QIVHEGD--IFPGARVLEAGAGSGALTLSLLRAVGPAGQVISYEQRADHAEHARRNVSGCYGQPPDNWRLVVSDLADSEL  164 (264)
T ss_dssp             HHHHHTT--CCTTCEEEEECCTTSHHHHHHHHHHCTTSEEEEECSCHHHHHHHHHHHHHHHTSCCTTEEEECSCGGGCCC
T ss_pred             HHHHHhC--CCCCCEEEecCcCCcHHHHHHHHhhCCCcEEEEecCCHHHHHHHHHhhhhhccCCCceEEEEecccccccc
Confidence            4566666  778899999999999999999998 69999999997 777776653         5789999999987 57


Q ss_pred             CC--ccEEEe
Q 042491          249 PN--ADAVFM  256 (266)
Q Consensus       249 p~--aD~~~l  256 (266)
                      |+  +|.+++
T Consensus       165 ~~~~fDaV~l  174 (264)
T d1i9ga_         165 PDGSVDRAVL  174 (264)
T ss_dssp             CTTCEEEEEE
T ss_pred             cCCCcceEEE
Confidence            63  999987

>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=98.16  E-value=3.1e-06  Score=72.74  Aligned_cols=69  Identities=16%  Similarity=0.229  Sum_probs=53.5

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeecHHHHhhCCC-------CCCeEEEEccCCC-CCCC--ccEEEeccccc
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPV-------YEGVSHVGGDMLN-AVPN--ADAVFMKVIVL  261 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~a~~-------~~ri~~~~gd~~~-~~p~--aD~~~l~~vLH  261 (266)
                      +.++|||||||+|.++..++++.. -+++++|..+++..+++       .++|+++.+|+.+ ++|.  +|+++...+.|
T Consensus        38 ~~~~VLDlGcGtG~ls~~aa~~Ga-~~V~avd~s~~~~~a~~~~~~~~~~~~i~~i~~~~~~l~~~~~~~D~i~se~~~~  116 (328)
T d1g6q1_          38 KDKIVLDVGCGTGILSMFAAKHGA-KHVIGVDMSSIIEMAKELVELNGFSDKITLLRGKLEDVHLPFPKVDIIISEWMGY  116 (328)
T ss_dssp             TTCEEEEETCTTSHHHHHHHHTCC-SEEEEEESSTHHHHHHHHHHHTTCTTTEEEEESCTTTSCCSSSCEEEEEECCCBT
T ss_pred             CcCEEEEeCCCCCHHHHHHHHhCC-CEEEEEeCCHHHHHHHHHHHHhCccccceEEEeehhhccCcccceeEEEEEecce
Confidence            347999999999999987777654 48899998766654442       6889999999998 6663  99998755544

>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=98.16  E-value=3.7e-06  Score=71.23  Aligned_cols=82  Identities=13%  Similarity=0.056  Sum_probs=61.9

Q ss_pred             HHHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCC-------CCCCeEEEEccCCCCCCC
Q 042491          179 MSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAP-------VYEGVSHVGGDMLNAVPN  250 (266)
Q Consensus       179 ~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~-------~~~ri~~~~gd~~~~~p~  250 (266)
                      ...+++...  +....+|||||||.|.+++.++++++ ++++++++ ++-++.++       ..+++++...|+..+-..
T Consensus        50 ~~~~~~~l~--l~~G~~VLDiGCG~G~~~~~~a~~~g-~~v~git~s~~q~~~a~~~~~~~~l~~~v~~~~~d~~~~~~~  126 (291)
T d1kpia_          50 RKLALDKLN--LEPGMTLLDIGCGWGSTMRHAVAEYD-VNVIGLTLSENQYAHDKAMFDEVDSPRRKEVRIQGWEEFDEP  126 (291)
T ss_dssp             HHHHHHTTC--CCTTCEEEEETCTTSHHHHHHHHHHC-CEEEEEESCHHHHHHHHHHHHHSCCSSCEEEEECCGGGCCCC
T ss_pred             HHHHHHhcC--CCCCCEEEEecCcchHHHHHHHHhcC-cceeeccchHHHHHHHHHHHHhhccchhhhhhhhcccccccc
Confidence            456777777  78889999999999999999999997 59999998 33222222       267899999997543224


Q ss_pred             ccEEEeccccccC
Q 042491          251 ADAVFMKVIVLIQ  263 (266)
Q Consensus       251 aD~~~l~~vLHd~  263 (266)
                      ||.|+....+...
T Consensus       127 fD~i~sie~~eH~  139 (291)
T d1kpia_         127 VDRIVSLGAFEHF  139 (291)
T ss_dssp             CSEEEEESCGGGT
T ss_pred             cceEeechhHHhc
Confidence            9998887777543

>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=98.14  E-value=1.3e-06  Score=73.18  Aligned_cols=74  Identities=19%  Similarity=0.223  Sum_probs=48.8

Q ss_pred             CCceEEEecCCchHHHHHH----HHHCCCC--eEEEeec-HHHHhhCCC-------CCCeEE--EEccC-------CCCC
Q 042491          192 GIRSLVDVGGGTGEELAEI----VEFYPHI--KGVNFDL-PHVVATAPV-------YEGVSH--VGGDM-------LNAV  248 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l----~~~~P~l--~~~~~Dl-p~v~~~a~~-------~~ri~~--~~gd~-------~~~~  248 (266)
                      ...+|||||||+|.+...+    .+.+|+.  +.+++|. +.+++.+++       .+.+++  ...++       ..+.
T Consensus        40 ~~~~VLDiGcG~G~~~~~ll~~l~~~~~~~~~~~~~vD~s~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  119 (280)
T d1jqea_          40 SEIKILSIGGGAGEIDLQILSKVQAQYPGVCINNEVVEPSAEQIAKYKELVAKISNLENVKFAWHKETSSEYQSRMLEKK  119 (280)
T ss_dssp             SEEEEEEETCTTSHHHHHHHHHHHHHSTTCEEEEEEECCCHHHHHHHHHHHTTCCSCTTEEEEEECSCHHHHHHHHTTSS
T ss_pred             CCCeEEEEcCCCCHHHHHHHHHhhhhccCCceEEEEEeCcHHHHHHHHHHHhhccccccccccchhhhhhhhcchhcccC
Confidence            3448999999999986655    4557775  4688897 566665432       233443  33322       1222


Q ss_pred             C--CccEEEeccccccCCC
Q 042491          249 P--NADAVFMKVIVLIQDL  265 (266)
Q Consensus       249 p--~aD~~~l~~vLHd~~~  265 (266)
                      +  .+|+|++.++||.++|
T Consensus       120 ~~~~fD~I~~~~~l~~~~d  138 (280)
T d1jqea_         120 ELQKWDFIHMIQMLYYVKD  138 (280)
T ss_dssp             SCCCEEEEEEESCGGGCSC
T ss_pred             CCCceeEEEEccceecCCC
Confidence            2  3999999999999865

>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=98.14  E-value=1.3e-06  Score=69.82  Aligned_cols=63  Identities=25%  Similarity=0.351  Sum_probs=51.9

Q ss_pred             CceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-CCCeEEEEccCCCCCC-CccEEEec
Q 042491          193 IRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-YEGVSHVGGDMLNAVP-NADAVFMK  257 (266)
Q Consensus       193 ~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-~~ri~~~~gd~~~~~p-~aD~~~l~  257 (266)
                      .++|||+|||+|.++..+++..+. +++.+|. |.+++.+++ ..+++++.+|+.+ ++ .+|+|++.
T Consensus        49 Gk~VLDlGcGtG~l~i~a~~~ga~-~V~~vDid~~a~~~ar~N~~~~~~~~~D~~~-l~~~fD~Vi~N  114 (197)
T d1ne2a_          49 GRSVIDAGTGNGILACGSYLLGAE-SVTAFDIDPDAIETAKRNCGGVNFMVADVSE-ISGKYDTWIMN  114 (197)
T ss_dssp             TSEEEEETCTTCHHHHHHHHTTBS-EEEEEESCHHHHHHHHHHCTTSEEEECCGGG-CCCCEEEEEEC
T ss_pred             CCEEEEeCCCCcHHHHHHHHcCCC-cccccccCHHHHHHHHHccccccEEEEehhh-cCCcceEEEeC
Confidence            479999999999999888887664 7999998 777777665 6789999999876 55 49999874

>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=98.14  E-value=2.1e-06  Score=75.91  Aligned_cols=82  Identities=10%  Similarity=0.250  Sum_probs=61.2

Q ss_pred             HHHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC---------------CCCeEE-EE
Q 042491          179 MSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV---------------YEGVSH-VG  241 (266)
Q Consensus       179 ~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~---------------~~ri~~-~~  241 (266)
                      +..+++.++  +....+|||||||.|..+..+++++|..+++++|+ |..++.|+.               ...+.+ ..
T Consensus       205 i~~Il~~l~--Lkpgd~fLDLGCG~G~~vl~aA~~~g~~~v~GIDiS~~~i~~Ak~~~~e~~~~~~~~g~~~~~~~~~~~  282 (406)
T d1u2za_         205 LSDVYQQCQ--LKKGDTFMDLGSGVGNCVVQAALECGCALSFGCEIMDDASDLTILQYEELKKRCKLYGMRLNNVEFSLK  282 (406)
T ss_dssp             HHHHHHHTT--CCTTCEEEEESCTTSHHHHHHHHHHCCSEEEEEECCHHHHHHHHHHHHHHHHHHHHTTBCCCCEEEEES
T ss_pred             HHHHHHHhC--CCCCCEEEeCCCCCcHHHHHHHHHcCCCeEEEEeCCHHHHHHHHHHHHHHhhhhhhhccccccceeeee
Confidence            345566666  77778999999999999999999999889999998 666665542               223344 45


Q ss_pred             ccCCCC------CCCccEEEecccccc
Q 042491          242 GDMLNA------VPNADAVFMKVIVLI  262 (266)
Q Consensus       242 gd~~~~------~p~aD~~~l~~vLHd  262 (266)
                      ++|+..      ++.+|++++.+.+|+
T Consensus       283 ~~f~~~~~~d~~~~~adVV~inn~~f~  309 (406)
T d1u2za_         283 KSFVDNNRVAELIPQCDVILVNNFLFD  309 (406)
T ss_dssp             SCSTTCHHHHHHGGGCSEEEECCTTCC
T ss_pred             echhhccccccccccceEEEEecccCc
Confidence            777762      446999998877663

>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=98.12  E-value=5.5e-07  Score=74.97  Aligned_cols=88  Identities=18%  Similarity=0.259  Sum_probs=58.6

Q ss_pred             HHHHHHHhhhHHHHHHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-----CCCeEE
Q 042491          166 SFNKAMACTAKIVMSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-----YEGVSH  239 (266)
Q Consensus       166 ~f~~~m~~~~~~~~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-----~~ri~~  239 (266)
                      .|-..-...++.....+ ..+.   ....+|||||||+|.+++.+++..  .+++.+|. |.+++.+++     .-++++
T Consensus        98 aFGTG~H~TT~l~l~~l-~~~~---~~g~~VLDiGcGsG~l~i~aa~~g--~~V~gvDis~~av~~A~~na~~n~~~~~~  171 (254)
T d2nxca1          98 AFGTGHHETTRLALKAL-ARHL---RPGDKVLDLGTGSGVLAIAAEKLG--GKALGVDIDPMVLPQAEANAKRNGVRPRF  171 (254)
T ss_dssp             ----CCSHHHHHHHHHH-HHHC---CTTCEEEEETCTTSHHHHHHHHTT--CEEEEEESCGGGHHHHHHHHHHTTCCCEE
T ss_pred             ccCccccchhhHHHHHH-Hhhc---CccCEEEEcccchhHHHHHHHhcC--CEEEEEECChHHHHHHHHHHHHcCCceeE
Confidence            34444334444444433 3332   356899999999999999888754  58999998 777776664     346788


Q ss_pred             EEccCCCCCC--CccEEEeccc
Q 042491          240 VGGDMLNAVP--NADAVFMKVI  259 (266)
Q Consensus       240 ~~gd~~~~~p--~aD~~~l~~v  259 (266)
                      +.+|+...+|  .||+++..-.
T Consensus       172 ~~~d~~~~~~~~~fD~V~ani~  193 (254)
T d2nxca1         172 LEGSLEAALPFGPFDLLVANLY  193 (254)
T ss_dssp             EESCHHHHGGGCCEEEEEEECC
T ss_pred             Eeccccccccccccchhhhccc
Confidence            9999887554  4999987543

>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=98.10  E-value=3.3e-06  Score=72.19  Aligned_cols=69  Identities=17%  Similarity=0.211  Sum_probs=52.0

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeecHHHHhhCC-------CCCCeEEEEccCCC-CCC--CccEEEeccccc
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAP-------VYEGVSHVGGDMLN-AVP--NADAVFMKVIVL  261 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~a~-------~~~ri~~~~gd~~~-~~p--~aD~~~l~~vLH  261 (266)
                      +.++|||||||+|.++..++++.+. +++.+|..+.+..+.       -.++|+++.+|+.+ +.|  .+|+++...+.|
T Consensus        33 ~~~~VLDiGcG~G~ls~~aa~~Ga~-~V~avd~s~~~~~a~~~~~~n~~~~~v~~~~~~~~~~~~~~~~~D~ivs~~~~~  111 (316)
T d1oria_          33 KDKVVLDVGSGTGILCMFAAKAGAR-KVIGIECSSISDYAVKIVKANKLDHVVTIIKGKVEEVELPVEKVDIIISEWMGY  111 (316)
T ss_dssp             TTCEEEEETCTTSHHHHHHHHTTCS-EEEEEECSTTHHHHHHHHHHTTCTTTEEEEESCTTTCCCSSSCEEEEEECCCBB
T ss_pred             CcCEEEEEecCCcHHHHHHHHhCCC-EEEEEcCcHHHhhhhhHHHHhCCccccceEeccHHHcccccceeEEEeeeeeee
Confidence            3478999999999999988887554 788999854433322       26889999999998 566  399997654443

>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=98.07  E-value=5.3e-06  Score=67.52  Aligned_cols=83  Identities=20%  Similarity=0.110  Sum_probs=63.4

Q ss_pred             HHHhhcccCCCCCceEEEecCCchHHHHHHHHH-CCCCeEEEeec-HHHHhhCCC-----------CCCeEEEEccCCCC
Q 042491          181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEF-YPHIKGVNFDL-PHVVATAPV-----------YEGVSHVGGDMLNA  247 (266)
Q Consensus       181 ~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~-~P~l~~~~~Dl-p~v~~~a~~-----------~~ri~~~~gd~~~~  247 (266)
                      .+++.+........+|||||||+|..+..+++. .|.-+++.+|. +++++.+++           ..++.++.||....
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            345554212566789999999999999888875 57889999997 777766543           47899999998884


Q ss_pred             CC---CccEEEeccccccC
Q 042491          248 VP---NADAVFMKVIVLIQ  263 (266)
Q Consensus       248 ~p---~aD~~~l~~vLHd~  263 (266)
                      .|   .||+|++...++.-
T Consensus       145 ~~~~~~fD~I~~~~~~~~i  163 (224)
T d1i1na_         145 YAEEAPYDAIHVGAAAPVV  163 (224)
T ss_dssp             CGGGCCEEEEEECSBBSSC
T ss_pred             cchhhhhhhhhhhcchhhc
Confidence            43   39999998887753

>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=98.07  E-value=3.2e-06  Score=68.16  Aligned_cols=58  Identities=7%  Similarity=0.062  Sum_probs=51.3

Q ss_pred             CCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC----CCCeEEEEccCCCC
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV----YEGVSHVGGDMLNA  247 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~----~~ri~~~~gd~~~~  247 (266)
                      +....+|||||||+|..+..+++..|+.+++++|. |.+++.+++    .+++.++.+|...+
T Consensus        54 lkpg~~VLDlGcG~G~~~~~la~~v~~g~V~gvDis~~~i~~a~~~a~~~~ni~~i~~d~~~~  116 (209)
T d1nt2a_          54 LRGDERVLYLGAASGTTVSHLADIVDEGIIYAVEYSAKPFEKLLELVRERNNIIPLLFDASKP  116 (209)
T ss_dssp             CCSSCEEEEETCTTSHHHHHHHHHTTTSEEEEECCCHHHHHHHHHHHHHCSSEEEECSCTTCG
T ss_pred             CCCCCEEEEeCCcCCHHHHHHHHhccCCeEEEEeCCHHHHHHHHHHhhccCCceEEEeeccCc
Confidence            66789999999999999999999999999999998 888877654    67899999998874

>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=98.04  E-value=3.4e-06  Score=67.08  Aligned_cols=75  Identities=19%  Similarity=0.278  Sum_probs=60.5

Q ss_pred             HHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-----CCCeEEEEccCCC------C
Q 042491          180 STLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-----YEGVSHVGGDMLN------A  247 (266)
Q Consensus       180 ~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-----~~ri~~~~gd~~~------~  247 (266)
                      ..+++.+.  -.....+||++||+|.++..+++++|+.+++++|. |++++.+++     .+|++++.++|-+      .
T Consensus        13 ~evi~~l~--~~~~~~~lD~t~G~Gghs~~il~~~~~~~vi~~D~d~~~l~~a~~~l~~~~~r~~~~~~~f~~~~~~~~~   90 (192)
T d1m6ya2          13 REVIEFLK--PEDEKIILDCTVGEGGHSRAILEHCPGCRIIGIDVDSEVLRIAEEKLKEFSDRVSLFKVSYREADFLLKT   90 (192)
T ss_dssp             HHHHHHHC--CCTTCEEEETTCTTSHHHHHHHHHCTTCEEEEEESCHHHHHHHHHHTGGGTTTEEEEECCGGGHHHHHHH
T ss_pred             HHHHHhhC--CCCCCEEEEecCCCcHHHHHHHhcCCCCeEEEeechHHHHHHHHHhhccccccccchhHHHhhHHHHHHH
Confidence            34566555  45668999999999999999999999999999998 888887764     6799999999975      1


Q ss_pred             CC--CccEEEe
Q 042491          248 VP--NADAVFM  256 (266)
Q Consensus       248 ~p--~aD~~~l  256 (266)
                      ++  .+|.|++
T Consensus        91 ~~~~~vdgIl~  101 (192)
T d1m6ya2          91 LGIEKVDGILM  101 (192)
T ss_dssp             TTCSCEEEEEE
T ss_pred             cCCCCcceeee
Confidence            22  4787765

>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=98.03  E-value=8.5e-07  Score=72.43  Aligned_cols=64  Identities=14%  Similarity=0.096  Sum_probs=49.1

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-----CCCeEEEEccCCC---CCC--CccEEEe
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-----YEGVSHVGGDMLN---AVP--NADAVFM  256 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-----~~ri~~~~gd~~~---~~p--~aD~~~l  256 (266)
                      ...+|||||||+|..+..+++..|. +++++|+ |.+++.+++     ..++.++.+|...   ++|  .+|.+++
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            4579999999999999999987664 7899998 788877664     4567888777544   455  3777763

>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=98.01  E-value=1.2e-05  Score=68.45  Aligned_cols=70  Identities=17%  Similarity=0.224  Sum_probs=53.8

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeecHHHHhhCC-------CCCCeEEEEccCCC-CCC--CccEEEeccccc
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAP-------VYEGVSHVGGDMLN-AVP--NADAVFMKVIVL  261 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~a~-------~~~ri~~~~gd~~~-~~p--~aD~~~l~~vLH  261 (266)
                      +.++|||||||+|.++..++++.+ -+++.+|..+....+.       ..++|+++.+|+.+ +.|  .+|+++.-.+.|
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            457999999999999999888866 4899999854433222       26889999999998 555  399998765555


Q ss_pred             c
Q 042491          262 I  262 (266)
Q Consensus       262 d  262 (266)
                      .
T Consensus       114 ~  114 (311)
T d2fyta1         114 F  114 (311)
T ss_dssp             T
T ss_pred             e
Confidence            3

>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=98.00  E-value=1e-06  Score=59.34  Aligned_cols=57  Identities=16%  Similarity=0.240  Sum_probs=50.3

Q ss_pred             cChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhc
Q 042491           36 LRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQIS  104 (266)
Q Consensus        36 lglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s  104 (266)
                      +.|++.+..++.|+|+.|||+.+|++...      +.|+|..|+..|++.+++      +++|++++..
T Consensus         8 l~IL~~~a~~~~~~s~~eia~~~~~~~st------~~rll~tL~~~g~l~~~~------~g~y~lG~~l   64 (75)
T d1mkma1           8 FEILDFIVKNPGDVSVSEIAEKFNMSVSN------AYKYMVVLEEKGFVLRKK------DKRYVPGYKL   64 (75)
T ss_dssp             HHHHHHHHHCSSCBCHHHHHHHTTCCHHH------HHHHHHHHHHTTSEEECT------TSCEEECTHH
T ss_pred             HHHHHHHHhCCCCCCHHHHHHHHCcCHHH------HHHHHHHHHHCCCEEECC------CCCEeecHHH
Confidence            56788888766899999999999999776      999999999999999987      4899999854

>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=97.90  E-value=1.4e-05  Score=64.89  Aligned_cols=78  Identities=19%  Similarity=0.223  Sum_probs=60.0

Q ss_pred             HHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC----CCCeEEEEccCCCCCC---Ccc
Q 042491          181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV----YEGVSHVGGDMLNAVP---NAD  252 (266)
Q Consensus       181 ~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~----~~ri~~~~gd~~~~~p---~aD  252 (266)
                      .+++.++  .....+|||||||+|.++..|++...  +++.+|. ++.++.+++    ..+++++.+|.+..+|   .||
T Consensus        61 ~ml~~L~--l~~g~~VLdIG~GsGy~ta~La~l~~--~V~aiE~~~~~~~~A~~~~~~~~nv~~~~~d~~~g~~~~~pfD  136 (224)
T d1vbfa_          61 FMLDELD--LHKGQKVLEIGTGIGYYTALIAEIVD--KVVSVEINEKMYNYASKLLSYYNNIKLILGDGTLGYEEEKPYD  136 (224)
T ss_dssp             HHHHHTT--CCTTCEEEEECCTTSHHHHHHHHHSS--EEEEEESCHHHHHHHHHHHTTCSSEEEEESCGGGCCGGGCCEE
T ss_pred             HHHHHhh--hcccceEEEecCCCCHHHHHHHHHhc--ccccccccHHHHHHHHHHHhcccccccccCchhhcchhhhhHH
Confidence            3566666  77888999999999999988888753  6777886 666655543    6789999999888554   399


Q ss_pred             EEEecccccc
Q 042491          253 AVFMKVIVLI  262 (266)
Q Consensus       253 ~~~l~~vLHd  262 (266)
                      +|++...++.
T Consensus       137 ~Iiv~~a~~~  146 (224)
T d1vbfa_         137 RVVVWATAPT  146 (224)
T ss_dssp             EEEESSBBSS
T ss_pred             HHHhhcchhh
Confidence            9998766654

>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=97.89  E-value=1e-05  Score=64.66  Aligned_cols=64  Identities=17%  Similarity=0.134  Sum_probs=49.7

Q ss_pred             CceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-----CCCeEEEEccCCCCCCCccEEEec
Q 042491          193 IRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-----YEGVSHVGGDMLNAVPNADAVFMK  257 (266)
Q Consensus       193 ~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-----~~ri~~~~gd~~~~~p~aD~~~l~  257 (266)
                      ..+|||+|||+|.++.+++.+.+ .+++++|. |.+++.+++     ..+++++.+|..+.-..+|+|++.
T Consensus        47 g~~vLDlg~GtG~l~i~a~~~g~-~~v~~vdi~~~~~~~a~~N~~~~~~~~~~~~~d~~~~~~~fD~Vi~n  116 (201)
T d1wy7a1          47 GKVVADLGAGTGVLSYGALLLGA-KEVICVEVDKEAVDVLIENLGEFKGKFKVFIGDVSEFNSRVDIVIMN  116 (201)
T ss_dssp             TCEEEEETCTTCHHHHHHHHTTC-SEEEEEESCHHHHHHHHHHTGGGTTSEEEEESCGGGCCCCCSEEEEC
T ss_pred             CCEEEECcCcchHHHHHHHHcCC-CEEEEEcCcHHHHHHHHHHHHHcCCCceEEECchhhhCCcCcEEEEc
Confidence            37999999999999999877644 58999998 666665543     567899999987743359998763

>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=97.87  E-value=1.1e-05  Score=67.42  Aligned_cols=74  Identities=18%  Similarity=0.197  Sum_probs=60.1

Q ss_pred             HHHhhcccCCCCCceEEEecCCchHHHHHHHHHC-CCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCCCC--
Q 042491          181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFY-PHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNAVP--  249 (266)
Q Consensus       181 ~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~-P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~~p--  249 (266)
                      .++...+  .....+|||+|||+|.++..+++.. |+.+++.+|. |+.++.+++       .+++.+..+|+...++  
T Consensus        94 ~Ii~~l~--i~pG~~VLDiG~GsG~lt~~lA~~~~~~G~V~~vD~~~~~~~~A~~~~~~~g~~~~v~~~~~d~~~~~~~~  171 (266)
T d1o54a_          94 FIAMMLD--VKEGDRIIDTGVGSGAMCAVLARAVGSSGKVFAYEKREEFAKLAESNLTKWGLIERVTIKVRDISEGFDEK  171 (266)
T ss_dssp             HHHHHTT--CCTTCEEEEECCTTSHHHHHHHHHTTTTCEEEEECCCHHHHHHHHHHHHHTTCGGGEEEECCCGGGCCSCC
T ss_pred             HHHHhhC--CCCCCEEEECCCCCCHHHHHHHHHhCCCcEEEEEeCCHHHHHHHHHHHHHhccccCcEEEecccccccccc
Confidence            4566666  7788999999999999999999885 8899999998 777776654       4789999999877655  


Q ss_pred             CccEEEe
Q 042491          250 NADAVFM  256 (266)
Q Consensus       250 ~aD~~~l  256 (266)
                      .+|.+++
T Consensus       172 ~~D~V~~  178 (266)
T d1o54a_         172 DVDALFL  178 (266)
T ss_dssp             SEEEEEE
T ss_pred             ceeeeEe
Confidence            3787764

>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=97.87  E-value=8.1e-06  Score=67.52  Aligned_cols=67  Identities=10%  Similarity=-0.012  Sum_probs=53.5

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCC----C---C--CccE
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNA----V---P--NADA  253 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~----~---p--~aD~  253 (266)
                      +...+++|||||+|..+..|++++|+.++++.|. |++++.|++       .+|+.++..+....    +   +  .+|+
T Consensus        60 ~~~~~~LDiGtGsg~I~~~l~~~~~~~~~~~~Di~~~al~~A~~N~~~n~l~~~~~~~~~~~~~~~~~~~~~~~~~~fD~  139 (250)
T d2h00a1          60 STLRRGIDIGTGASCIYPLLGATLNGWYFLATEVDDMCFNYAKKNVEQNNLSDLIKVVKVPQKTLLMDALKEESEIIYDF  139 (250)
T ss_dssp             CCCCEEEEESCTTTTHHHHHHHHHHCCEEEEEESCHHHHHHHHHHHHHTTCTTTEEEEECCTTCSSTTTSTTCCSCCBSE
T ss_pred             cccceEEEeCCCchHHHHHHHHhCCCccccceecCHHHHHHHHHHHHHhCCCcceeeeeeccHHhhhhhhhhcccCceeE
Confidence            3457999999999999999999999999999998 777776654       68999887654432    2   1  2899


Q ss_pred             EEec
Q 042491          254 VFMK  257 (266)
Q Consensus       254 ~~l~  257 (266)
                      +++.
T Consensus       140 ivsN  143 (250)
T d2h00a1         140 CMCN  143 (250)
T ss_dssp             EEEC
T ss_pred             EEec
Confidence            8765

>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=97.84  E-value=1.6e-05  Score=66.85  Aligned_cols=71  Identities=23%  Similarity=0.228  Sum_probs=51.5

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC----------CCCeEEEEccCCC---CCC---CccE
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV----------YEGVSHVGGDMLN---AVP---NADA  253 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~----------~~ri~~~~gd~~~---~~p---~aD~  253 (266)
                      .+..+|||||||+|.++..|+++  +.+++++|+ |.+++.|++          ..+..+...|+..   ++|   .+|+
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            35679999999999999999987  578999998 777776543          1344566677765   233   4888


Q ss_pred             EEe-ccccccC
Q 042491          254 VFM-KVIVLIQ  263 (266)
Q Consensus       254 ~~l-~~vLHd~  263 (266)
                      +++ .+++++.
T Consensus       133 v~~~~~~~~~~  143 (292)
T d1xvaa_         133 VICLGNSFAHL  143 (292)
T ss_dssp             EEECSSCGGGS
T ss_pred             EEEecCchhhc
Confidence            875 4566554

>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=97.81  E-value=1.2e-05  Score=67.23  Aligned_cols=65  Identities=17%  Similarity=0.307  Sum_probs=53.7

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCCCC----CccEEEec
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNAVP----NADAVFMK  257 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~~p----~aD~~~l~  257 (266)
                      +..+++|+|||+|..+..++ ++|+.+++..|. |+.++.+++       ..|+.++.+|++++.+    .+|+++..
T Consensus       110 ~~~~vld~g~GsG~i~~~la-~~~~~~v~a~Dis~~Al~~A~~Na~~~~~~~~~~i~~~~~~~~~~~~~~~fDlIVsN  186 (271)
T d1nv8a_         110 GIKTVADIGTGSGAIGVSVA-KFSDAIVFATDVSSKAVEIARKNAERHGVSDRFFVRKGEFLEPFKEKFASIEMILSN  186 (271)
T ss_dssp             TCCEEEEESCTTSHHHHHHH-HHSSCEEEEEESCHHHHHHHHHHHHHTTCTTSEEEEESSTTGGGGGGTTTCCEEEEC
T ss_pred             cccEEEEeeeeeehhhhhhh-hcccceeeechhhhhHHHHHHHHHHHcCCCceeEEeecccccccccccCcccEEEEc
Confidence            45689999999999999987 579999999998 777766653       5789999999999654    38998764

>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=97.78  E-value=4.2e-06  Score=63.92  Aligned_cols=64  Identities=17%  Similarity=0.063  Sum_probs=51.6

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCC--CC--CccEEEe
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNA--VP--NADAVFM  256 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~--~p--~aD~~~l  256 (266)
                      ...+|||+|||+|.++.+.+.+... +++.+|. |.+++.+++       .++++++.+|.++.  .+  .+|++++
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            4589999999999999999988775 8999998 666665443       57899999998762  22  4999987

>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=97.68  E-value=3.3e-05  Score=62.24  Aligned_cols=79  Identities=20%  Similarity=0.223  Sum_probs=60.5

Q ss_pred             HHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCCCCC---C
Q 042491          181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLNAVP---N  250 (266)
Q Consensus       181 ~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~~~p---~  250 (266)
                      .+++.++  .....+|||||||+|..+..+++-.. -+++.+|. ++.++.+++      .+++.++.||.++-+|   .
T Consensus        69 ~ml~~L~--l~~g~~VLeIGsGsGY~taila~l~g-~~V~~ie~~~~l~~~a~~~l~~~g~~nv~~~~gd~~~g~~~~~p  145 (215)
T d1jg1a_          69 IMLEIAN--LKPGMNILEVGTGSGWNAALISEIVK-TDVYTIERIPELVEFAKRNLERAGVKNVHVILGDGSKGFPPKAP  145 (215)
T ss_dssp             HHHHHHT--CCTTCCEEEECCTTSHHHHHHHHHHC-SCEEEEESCHHHHHHHHHHHHHTTCCSEEEEESCGGGCCGGGCC
T ss_pred             HHHHhhc--cCccceEEEecCCCChhHHHHHHhhC-ceeEEEeccHHHHHHHHHHHHHcCCceeEEEECccccCCcccCc
Confidence            4556666  77888999999999999988877643 45777776 667766654      5899999999988544   3


Q ss_pred             ccEEEecccccc
Q 042491          251 ADAVFMKVIVLI  262 (266)
Q Consensus       251 aD~~~l~~vLHd  262 (266)
                      ||+|++.-.++.
T Consensus       146 fD~Iiv~~a~~~  157 (215)
T d1jg1a_         146 YDVIIVTAGAPK  157 (215)
T ss_dssp             EEEEEECSBBSS
T ss_pred             ceeEEeeccccc
Confidence            999998766553

>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=97.67  E-value=6.2e-05  Score=64.35  Aligned_cols=75  Identities=17%  Similarity=0.231  Sum_probs=58.2

Q ss_pred             HHHHhhcccCCCCCceEEEecCCchHHHHHHHHH-CCCCeEEEeec-HHHHhhCCC-----------------CCCeEEE
Q 042491          180 STLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEF-YPHIKGVNFDL-PHVVATAPV-----------------YEGVSHV  240 (266)
Q Consensus       180 ~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~-~P~l~~~~~Dl-p~v~~~a~~-----------------~~ri~~~  240 (266)
                      ..++..++  .....+|||+|||+|.++..|++. .|+-+++.+|. ++.++.|++                 .+++.+.
T Consensus        88 ~~Il~~l~--i~pG~rVLE~GtGsG~lt~~LAr~vg~~G~V~t~E~~~~~~~~A~~n~~~~~~~~~~~~~~~~~~nv~~~  165 (324)
T d2b25a1          88 NMILSMMD--INPGDTVLEAGSGSGGMSLFLSKAVGSQGRVISFEVRKDHHDLAKKNYKHWRDSWKLSHVEEWPDNVDFI  165 (324)
T ss_dssp             HHHHHHHT--CCTTCEEEEECCTTSHHHHHHHHHHCTTCEEEEEESSHHHHHHHHHHHHHHHHHHTTTCSSCCCCCEEEE
T ss_pred             HHHHHHhC--CCCCCEEEEecccccHHHHHHHHHhCCCcEEEEecCCHHHHHHHHHHHHHhhhhhhhhhhhccccceeEE
Confidence            34566677  778899999999999999999987 58889999998 655554432                 4789999


Q ss_pred             EccCCCC---CC--CccEEEe
Q 042491          241 GGDMLNA---VP--NADAVFM  256 (266)
Q Consensus       241 ~gd~~~~---~p--~aD~~~l  256 (266)
                      .+|+-..   ++  .+|.++|
T Consensus       166 ~~di~~~~~~~~~~~fD~V~L  186 (324)
T d2b25a1         166 HKDISGATEDIKSLTFDAVAL  186 (324)
T ss_dssp             ESCTTCCC-------EEEEEE
T ss_pred             ecchhhcccccCCCCcceEee
Confidence            9998763   34  3899887

>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=97.64  E-value=5e-05  Score=61.53  Aligned_cols=83  Identities=18%  Similarity=0.193  Sum_probs=60.7

Q ss_pred             HHHhhcccCCCCCceEEEecCCchHHHHHHHHH------CCCCeEEEeec-HHHHhhCCC-----------CCCeEEEEc
Q 042491          181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEF------YPHIKGVNFDL-PHVVATAPV-----------YEGVSHVGG  242 (266)
Q Consensus       181 ~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~------~P~l~~~~~Dl-p~v~~~a~~-----------~~ri~~~~g  242 (266)
                      .++..+.....+..+|||||||+|..+..+++.      ++..+++.+|. ++.++.+++           ..+|.++.+
T Consensus        69 ~~l~~L~~~l~~g~~VLeIGtGsGY~ta~la~l~g~~g~~~~~~V~~iE~~~~l~~~a~~~l~~~~~~~~~~~nv~~~~~  148 (223)
T d1r18a_          69 FALEYLRDHLKPGARILDVGSGSGYLTACFYRYIKAKGVDADTRIVGIEHQAELVRRSKANLNTDDRSMLDSGQLLIVEG  148 (223)
T ss_dssp             HHHHHTTTTCCTTCEEEEESCTTSHHHHHHHHHHHHSCCCTTCEEEEEESCHHHHHHHHHHHHHHHHHHHHHTSEEEEES
T ss_pred             HHHHHHhhccCCCCeEEEecCCCCHHHHHHHHHhhhccCCcccEEEEEecCHHHHHHHHHhhhhcchhhcCccEEEEEec
Confidence            345554211667789999999999998777665      46678999987 666655532           468999999


Q ss_pred             cCCCCCC---CccEEEeccccccC
Q 042491          243 DMLNAVP---NADAVFMKVIVLIQ  263 (266)
Q Consensus       243 d~~~~~p---~aD~~~l~~vLHd~  263 (266)
                      |..+..|   .||.|++.-.++.-
T Consensus       149 d~~~~~~~~~~fD~Iiv~~a~~~~  172 (223)
T d1r18a_         149 DGRKGYPPNAPYNAIHVGAAAPDT  172 (223)
T ss_dssp             CGGGCCGGGCSEEEEEECSCBSSC
T ss_pred             ccccccccccceeeEEEEeechhc
Confidence            9988543   49999988776543

>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=97.62  E-value=2.9e-05  Score=64.46  Aligned_cols=66  Identities=18%  Similarity=0.108  Sum_probs=53.5

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCCCC--CccEEEec
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNAVP--NADAVFMK  257 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~~p--~aD~~~l~  257 (266)
                      ....+|||+|||+|.++..+++. +..+++.+|+ |..++.+++       .++|+++.+|.++-.+  .+|.|+|.
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            46689999999999999999987 5579999998 777665543       6789999999988433  39988874

>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=97.49  E-value=3e-05  Score=66.03  Aligned_cols=66  Identities=24%  Similarity=0.254  Sum_probs=56.0

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-----------CCCeEEEEccCCCC---CC-CccEE
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-----------YEGVSHVGGDMLNA---VP-NADAV  254 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-----------~~ri~~~~gd~~~~---~p-~aD~~  254 (266)
                      +.+++||.||+|.|..+.++++..|..+++++|+ |+|++.+++           .+|++++.+|.++-   .+ .+|+|
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            4678999999999999999999988889999998 788876543           68999999998872   33 49999


Q ss_pred             Ee
Q 042491          255 FM  256 (266)
Q Consensus       255 ~l  256 (266)
                      ++
T Consensus       156 i~  157 (312)
T d1uira_         156 II  157 (312)
T ss_dssp             EE
T ss_pred             EE
Confidence            85

>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=97.36  E-value=6e-05  Score=63.57  Aligned_cols=67  Identities=16%  Similarity=0.223  Sum_probs=56.3

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC----------CCCeEEEEccCCCC---CC-CccEEE
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV----------YEGVSHVGGDMLNA---VP-NADAVF  255 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~----------~~ri~~~~gd~~~~---~p-~aD~~~  255 (266)
                      +.+++||-||||.|..++++++..|..+++++|+ |+|++.+++          .+|++++.+|.++-   .+ .+|+|+
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            4678999999999999999999888889999998 888887654          68999999997762   33 399998


Q ss_pred             ec
Q 042491          256 MK  257 (266)
Q Consensus       256 l~  257 (266)
                      +-
T Consensus       168 ~D  169 (295)
T d1inla_         168 ID  169 (295)
T ss_dssp             EE
T ss_pred             Ec
Confidence            63

>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=97.34  E-value=7.1e-05  Score=62.84  Aligned_cols=67  Identities=19%  Similarity=0.270  Sum_probs=56.5

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC----------CCCeEEEEccCCC---CCC-CccEEE
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV----------YEGVSHVGGDMLN---AVP-NADAVF  255 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~----------~~ri~~~~gd~~~---~~p-~aD~~~  255 (266)
                      ..+++||-||||.|..++++++..|..+++++|+ |+|++.+++          .+|++++.+|.++   .-+ .+|+|+
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            4678999999999999999998888889999998 888887753          6899999999766   233 499998


Q ss_pred             ec
Q 042491          256 MK  257 (266)
Q Consensus       256 l~  257 (266)
                      +-
T Consensus       157 ~D  158 (285)
T d2o07a1         157 TD  158 (285)
T ss_dssp             EE
T ss_pred             Ec
Confidence            63

>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=97.31  E-value=9.8e-05  Score=61.60  Aligned_cols=67  Identities=19%  Similarity=0.218  Sum_probs=55.8

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC----------CCCeEEEEccCCCC---CC-CccEEE
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV----------YEGVSHVGGDMLNA---VP-NADAVF  255 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~----------~~ri~~~~gd~~~~---~p-~aD~~~  255 (266)
                      ..+++||-||||.|..++++++..|..+++++|+ |+|++.+++          .+|++++.+|..+-   -+ .+|+|+
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            4678999999999999999998888889999998 888776643          68999999997762   23 399998


Q ss_pred             ec
Q 042491          256 MK  257 (266)
Q Consensus       256 l~  257 (266)
                      +-
T Consensus       154 ~D  155 (274)
T d1iy9a_         154 VD  155 (274)
T ss_dssp             ES
T ss_pred             Ec
Confidence            63

>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=0.00036  Score=56.73  Aligned_cols=68  Identities=13%  Similarity=0.323  Sum_probs=52.7

Q ss_pred             HHHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCC----CCCCeEEEEccCCC-CCCC
Q 042491          179 MSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAP----VYEGVSHVGGDMLN-AVPN  250 (266)
Q Consensus       179 ~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~----~~~ri~~~~gd~~~-~~p~  250 (266)
                      +..+++..+  .....+||+||||.|.+...|++...  +++++|. +..++.++    ..++++++.+|+.+ ++|.
T Consensus        10 ~~~iv~~~~--~~~~d~VlEIGpG~G~LT~~Ll~~~~--~v~avE~D~~l~~~l~~~~~~~~n~~i~~~D~l~~~~~~   83 (235)
T d1qama_          10 IDKIMTNIR--LNEHDNIFEIGSGKGHFTLELVQRCN--FVTAIEIDHKLCKTTENKLVDHDNFQVLNKDILQFKFPK   83 (235)
T ss_dssp             HHHHHTTCC--CCTTCEEEEECCTTSHHHHHHHHHSS--EEEEECSCHHHHHHHHHHTTTCCSEEEECCCGGGCCCCS
T ss_pred             HHHHHHhcC--CCCCCeEEEECCCchHHHHHHHhCcC--ceEEEeeccchHHHHHHHhhcccchhhhhhhhhhccccc
Confidence            456677666  67789999999999999999999854  5777776 44444433    36899999999999 6664

>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=97.23  E-value=3.8e-05  Score=62.67  Aligned_cols=50  Identities=14%  Similarity=-0.057  Sum_probs=34.3

Q ss_pred             HHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCC
Q 042491          182 LLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAP  232 (266)
Q Consensus       182 ~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~  232 (266)
                      +.+.+........+|||||||+|.++..+++... -+++++|+ |.+++.++
T Consensus        41 ~~~~~~~~~~~g~~vLDlGcG~G~~~~~~~~~~~-~~v~giD~S~~~i~~a~   91 (257)
T d2a14a1          41 LHKTFGPGGLQGDTLIDIGSGPTIYQVLAACDSF-QDITLSDFTDRNREELE   91 (257)
T ss_dssp             HHHHHSTTSCCEEEEEESSCTTCCGGGTTGGGTE-EEEEEEESCHHHHHHHH
T ss_pred             HHHHhcccCCCCCEEEEECCCCCHhHHHHhcccc-CcEEEecCCHHHHHHHH
Confidence            3333432344668999999999988766665543 36899998 66776554

>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=97.14  E-value=0.00011  Score=62.26  Aligned_cols=66  Identities=18%  Similarity=0.231  Sum_probs=55.0

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC----------CCCeEEEEccCCCC---CC-CccEEE
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV----------YEGVSHVGGDMLNA---VP-NADAVF  255 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~----------~~ri~~~~gd~~~~---~p-~aD~~~  255 (266)
                      +.+++||-||||.|..++++++..|-.+++++|+ |.|++.+++          .+|++++.+|..+-   -+ .||+|+
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            4678999999999999999998877779999998 788776653          58999999998772   23 499998


Q ss_pred             e
Q 042491          256 M  256 (266)
Q Consensus       256 l  256 (266)
                      +
T Consensus       185 ~  185 (312)
T d2b2ca1         185 T  185 (312)
T ss_dssp             E
T ss_pred             E
Confidence            6

>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=97.12  E-value=0.00018  Score=56.17  Aligned_cols=62  Identities=15%  Similarity=0.136  Sum_probs=49.1

Q ss_pred             ceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCCC--CC--CccEEEe
Q 042491          194 RSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLNA--VP--NADAVFM  256 (266)
Q Consensus       194 ~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~~--~p--~aD~~~l  256 (266)
                      .+|||++||+|.++.+.+.+... +++.+|. +.+++.+++      ..+++++.+|.++-  ..  .+|+|++
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            69999999999999999998876 8888898 666654443      56789999997762  22  3999987

>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=97.12  E-value=0.00018  Score=60.37  Aligned_cols=66  Identities=23%  Similarity=0.252  Sum_probs=55.5

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC----------CCCeEEEEccCCC---CCC--CccEE
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV----------YEGVSHVGGDMLN---AVP--NADAV  254 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~----------~~ri~~~~gd~~~---~~p--~aD~~  254 (266)
                      +.+++||=||||.|..++++++..|-.+++++|+ |+|++.+++          .+|++++.+|-++   ..+  .+|+|
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            4778999999999999999999888778999998 888877654          6999999999665   233  39999


Q ss_pred             Ee
Q 042491          255 FM  256 (266)
Q Consensus       255 ~l  256 (266)
                      ++
T Consensus       159 i~  160 (290)
T d1xj5a_         159 IV  160 (290)
T ss_dssp             EE
T ss_pred             EE
Confidence            86

>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=97.10  E-value=0.00016  Score=59.29  Aligned_cols=77  Identities=14%  Similarity=0.331  Sum_probs=57.2

Q ss_pred             HHHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC----CCCeEEEEccCCC-CCCC-c
Q 042491          179 MSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV----YEGVSHVGGDMLN-AVPN-A  251 (266)
Q Consensus       179 ~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~----~~ri~~~~gd~~~-~~p~-a  251 (266)
                      ...+++..+  .....+||+||||.|.+...|++..+  +++.+|. +..++.+++    .++++++.+|+.+ ++|. .
T Consensus        18 i~kIv~~~~--~~~~d~VLEIGpG~G~LT~~L~~~~~--~v~aIE~D~~l~~~l~~~~~~~~n~~ii~~D~l~~~~~~~~   93 (245)
T d1yuba_          18 LNQIIKQLN--LKETDTVYEIGTGKGHLTTKLAKISK--QVTSIELDSHLFNLSSEKLKLNTRVTLIHQDILQFQFPNKQ   93 (245)
T ss_dssp             HHHHHHHCC--CCSSEEEEECSCCCSSCSHHHHHHSS--EEEESSSSCSSSSSSSCTTTTCSEEEECCSCCTTTTCCCSS
T ss_pred             HHHHHHhcC--CCCCCeEEEECCCccHHHHHHHhhcC--ceeEeeecccchhhhhhhhhhccchhhhhhhhhccccccce
Confidence            345666666  66778999999999999999999854  6777887 444555543    4789999999999 6774 4


Q ss_pred             cEEEeccc
Q 042491          252 DAVFMKVI  259 (266)
Q Consensus       252 D~~~l~~v  259 (266)
                      ...+..+.
T Consensus        94 ~~~vv~NL  101 (245)
T d1yuba_          94 RYKIVGNI  101 (245)
T ss_dssp             EEEEEEEC
T ss_pred             eeeEeeee
Confidence            44455554

>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=97.10  E-value=0.00016  Score=60.35  Aligned_cols=65  Identities=15%  Similarity=0.225  Sum_probs=53.1

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC----------------CCCeEEEEccCCCC---CCC
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV----------------YEGVSHVGGDMLNA---VPN  250 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~----------------~~ri~~~~gd~~~~---~p~  250 (266)
                      .++++||.||||.|..+.++++ +|..+++++|+ |+|++.+++                .+|++++.+|.++-   -..
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            4778999999999999999987 56679999998 888876542                58999999997752   235


Q ss_pred             ccEEEe
Q 042491          251 ADAVFM  256 (266)
Q Consensus       251 aD~~~l  256 (266)
                      +|+|++
T Consensus       150 yDvIi~  155 (276)
T d1mjfa_         150 FDVIIA  155 (276)
T ss_dssp             EEEEEE
T ss_pred             CCEEEE
Confidence            999985

>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=97.10  E-value=0.00018  Score=59.40  Aligned_cols=42  Identities=14%  Similarity=-0.092  Sum_probs=30.3

Q ss_pred             CCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCC
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAP  232 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~  232 (266)
                      ..+..+|||||||+|.+....+..... ++++.|. |.+++.++
T Consensus        52 ~~~g~~vLDiGcG~g~~~~~~~~~~~~-~v~~~D~S~~~i~~~~   94 (263)
T d2g72a1          52 EVSGRTLIDIGSGPTVYQLLSACSHFE-DITMTDFLEVNRQELG   94 (263)
T ss_dssp             CSCCSEEEEETCTTCCGGGTTGGGGCS-EEEEECSCHHHHHHHH
T ss_pred             CCCCcEEEEeccCCCHHHHHHhcccCC-eEEEEeCCHHHHHHHH
Confidence            446789999999999776544444443 7999998 77766553

>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=97.00  E-value=0.00015  Score=56.09  Aligned_cols=65  Identities=15%  Similarity=0.092  Sum_probs=47.2

Q ss_pred             CCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCC---CC--CccEEEe
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNA---VP--NADAVFM  256 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~---~p--~aD~~~l  256 (266)
                      .....+|||+|||+|.++.+++++.  .+++.+|. |++++.+++       ..++....+|.+.+   .+  .||+|++
T Consensus        39 ~~~g~~vLDl~~G~G~~~i~a~~~g--a~vv~vD~~~~a~~~~~~N~~~~~~~~~v~~~~~d~~~~~~~~~~~~fD~If~  116 (171)
T d1ws6a1          39 YPRRGRFLDPFAGSGAVGLEAASEG--WEAVLVEKDPEAVRLLKENVRRTGLGARVVALPVEVFLPEAKAQGERFTVAFM  116 (171)
T ss_dssp             CTTCCEEEEETCSSCHHHHHHHHTT--CEEEEECCCHHHHHHHHHHHHHHTCCCEEECSCHHHHHHHHHHTTCCEEEEEE
T ss_pred             ccCCCeEEEeccccchhhhhhhhcc--chhhhcccCHHHHhhhhHHHHhhccccceeeeehhcccccccccCCccceeEE
Confidence            3456799999999999999988874  47888898 777766553       45666666665431   22  3899986

>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=96.90  E-value=0.00022  Score=57.18  Aligned_cols=66  Identities=15%  Similarity=0.327  Sum_probs=53.0

Q ss_pred             CCceEEEecCCchHHHHHHHHHCC-CCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCCCC---------CccE
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYP-HIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNAVP---------NADA  253 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P-~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~~p---------~aD~  253 (266)
                      ++++||+||+|.|..+..+++..| +-+++.+|. |+.++.++.       .+||+++.||..+-+|         .+|+
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            668999999999999999999986 579999998 666665543       6789999999876322         3788


Q ss_pred             EEec
Q 042491          254 VFMK  257 (266)
Q Consensus       254 ~~l~  257 (266)
                      +++-
T Consensus       136 ifiD  139 (214)
T d2cl5a1         136 VFLD  139 (214)
T ss_dssp             EEEC
T ss_pred             eeec
Confidence            8875

>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=96.87  E-value=0.00088  Score=52.53  Aligned_cols=75  Identities=20%  Similarity=0.225  Sum_probs=50.1

Q ss_pred             CCCceEEEecCCchHH----HHHHHHHC----CCCeEEEeec-HHHHhhCCC----------------------------
Q 042491          191 DGIRSLVDVGGGTGEE----LAEIVEFY----PHIKGVNFDL-PHVVATAPV----------------------------  233 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~----~~~l~~~~----P~l~~~~~Dl-p~v~~~a~~----------------------------  233 (266)
                      .+..+|+++|||+|.-    ++.+.+..    +.++++..|+ +.+++.|+.                            
T Consensus        23 ~~~lrIwsaGCstGeE~YSlA~~l~e~~~~~~~~~~I~atDi~~~~l~~A~~g~y~~~~~~~~~~~~~~~yf~~~~~~~~  102 (193)
T d1af7a2          23 HGEYRVWSAAASTGEEPYSIAITLADALGMAPGRWKVFASDIDTEVLEKARSGIYRLSELKTLSPQQLQRYFMRGTGPHE  102 (193)
T ss_dssp             CSCEEEEESCCTTTHHHHHHHHHHHHHHCSCTTSEEEEEEESCHHHHHHHHHTEEEGGGGTTSCHHHHHHHEEECCTTSC
T ss_pred             CCCeEEEEeCCCCchhHHHHHHHHHHhhhhcCCceEEEeecCChHHhhHhhcCcccHHHHhhhhHHHHhhceeecCCCcc
Confidence            3567999999999984    33344332    2346778887 555554431                            


Q ss_pred             ---------CCCeEEEEccCCCC-C-C--CccEEEeccccccCCC
Q 042491          234 ---------YEGVSHVGGDMLNA-V-P--NADAVFMKVIVLIQDL  265 (266)
Q Consensus       234 ---------~~ri~~~~gd~~~~-~-p--~aD~~~l~~vLHd~~~  265 (266)
                               ..++.+...+...+ . |  ++|+|+|+|||+++++
T Consensus       103 ~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~fDvI~CRNVLiYf~~  147 (193)
T d1af7a2         103 GLVRVRQELANYVEFSSVNLLEKQYNVPGPFDAIFCRNVMIYFDK  147 (193)
T ss_dssp             SEEEECHHHHTTEEEEECCTTCSSCCCCCCEEEEEECSSGGGSCH
T ss_pred             ceeehHHHHHHHHHHhhhhccccccCCCCCccEEEeehhHHhcCH
Confidence                     13356677777763 2 2  4999999999998863

>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=96.81  E-value=0.00083  Score=54.16  Aligned_cols=67  Identities=15%  Similarity=0.216  Sum_probs=51.0

Q ss_pred             CCCCceEEEecCCchHHHHHHHHHC-CCCeEEEeec-HHHHhhCCC----CCCeEEEEccCCCC--CC----CccEEEe
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEFY-PHIKGVNFDL-PHVVATAPV----YEGVSHVGGDMLNA--VP----NADAVFM  256 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~~-P~l~~~~~Dl-p~v~~~a~~----~~ri~~~~gd~~~~--~p----~aD~~~l  256 (266)
                      +....+|||+|||+|.....+++.. |+=+++.+|. |.+++.+..    ...+..+.+|...+  .+    .+|++++
T Consensus        71 i~pG~~VLDlGaGsG~~t~~la~~VG~~G~V~aVD~s~~~l~~a~~~a~~~~~~~~i~~d~~~~~~~~~~~~~vD~i~~  149 (227)
T d1g8aa_          71 IKPGKSVLYLGIASGTTASHVSDIVGWEGKIFGIEFSPRVLRELVPIVEERRNIVPILGDATKPEEYRALVPKVDVIFE  149 (227)
T ss_dssp             CCTTCEEEEETTTSTTHHHHHHHHHCTTSEEEEEESCHHHHHHHHHHHSSCTTEEEEECCTTCGGGGTTTCCCEEEEEE
T ss_pred             cCCCCEEEEeccCCCHHHHHHHHHhCCCCEEEEEeCcHHHHHHHHHHHHhcCCceEEEEECCCcccccccccceEEEEE
Confidence            5677899999999999999999986 7889999998 666665543    56678888887653  22    2666654

>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=96.76  E-value=0.00045  Score=58.74  Aligned_cols=65  Identities=17%  Similarity=0.126  Sum_probs=52.0

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCC---CC----CccEEE
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNA---VP----NADAVF  255 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~---~p----~aD~~~  255 (266)
                      ++..+|||+|||+|.++..+++... .+++.+|+ +..++.+++       .++++++.+|.++.   ++    .||+|+
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            4568999999999999999988854 38999998 666666553       46899999998872   21    399998


Q ss_pred             e
Q 042491          256 M  256 (266)
Q Consensus       256 l  256 (266)
                      +
T Consensus       223 ~  223 (324)
T d2as0a2         223 L  223 (324)
T ss_dssp             E
T ss_pred             c
Confidence            7

>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=96.52  E-value=0.00026  Score=49.48  Aligned_cols=71  Identities=15%  Similarity=0.193  Sum_probs=54.1

Q ss_pred             HHHHHHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchh
Q 042491           29 ALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKW  106 (266)
Q Consensus        29 ~L~~a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~  106 (266)
                      .+..-.++.|+..|... ++.|+.|||+.+++++..      +.+.++.|...|+++.....++...-.|++|+.++.
T Consensus        12 ~l~~p~r~~IL~~L~~~-~~~~~~eLa~~l~is~~~------vs~~l~~L~~~glV~~~~~~~d~r~~~~~LT~~G~~   82 (100)
T d1ub9a_          12 ILGNPVRLGIMIFLLPR-RKAPFSQIQKVLDLTPGN------LDSHIRVLERNGLVKTYKVIADRPRTVVEITDFGME   82 (100)
T ss_dssp             HHHSHHHHHHHHHHHHH-SEEEHHHHHHHTTCCHHH------HHHHHHHHHHTTSEEEEEECSSSCEEEEEECHHHHH
T ss_pred             hcCCHHHHHHHHHhccC-CCeeHHHHHHHHhhcccc------ccHHHHHHhhhceeEEEEcCcCCccccccCCHHHHH
Confidence            33345577888899664 689999999999999877      999999999999998765211111235999998853

>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=96.50  E-value=0.00077  Score=54.06  Aligned_cols=67  Identities=12%  Similarity=0.071  Sum_probs=53.3

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCC-CCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCCC--------C-Ccc
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYP-HIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNAV--------P-NAD  252 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P-~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~~--------p-~aD  252 (266)
                      .++++||+||+|.|.-+..+++..| +-+++.+|. |+..+.+++       .++|+++.||..+.+        + .+|
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            4678999999999999999999987 678999997 555554443       789999999976621        2 389


Q ss_pred             EEEec
Q 042491          253 AVFMK  257 (266)
Q Consensus       253 ~~~l~  257 (266)
                      ++++-
T Consensus       138 ~ifiD  142 (219)
T d2avda1         138 VAVVD  142 (219)
T ss_dssp             EEEEC
T ss_pred             EEEEe
Confidence            98875

>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=96.49  E-value=0.0059  Score=48.26  Aligned_cols=67  Identities=19%  Similarity=0.198  Sum_probs=52.3

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec--------HHHHhhCCCCCCeEEEEccCCCC--CCCccEEEeccc
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL--------PHVVATAPVYEGVSHVGGDMLNA--VPNADAVFMKVI  259 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl--------p~v~~~a~~~~ri~~~~gd~~~~--~p~aD~~~l~~v  259 (266)
                      ...+++|||+|.|.=+.-++-.+|+++++++|.        .+++.... .++|+++.+...+-  .+.||+++.+-+
T Consensus        65 ~~~~ilDiGsGaG~PGi~laI~~p~~~~~Lves~~KK~~FL~~~~~~L~-L~nv~v~~~R~E~~~~~~~fD~V~sRA~  141 (207)
T d1jsxa_          65 QGERFIDVGTGPGLPGIPLSIVRPEAHFTLLDSLGKRVRFLRQVQHELK-LENIEPVQSRVEEFPSEPPFDGVISRAF  141 (207)
T ss_dssp             CSSEEEEETCTTTTTHHHHHHHCTTSEEEEEESCHHHHHHHHHHHHHTT-CSSEEEEECCTTTSCCCSCEEEEECSCS
T ss_pred             cCCceeeeeccCCceeeehhhhcccceEEEEecchHHHHHHHHHHHHcC-Ccceeeeccchhhhccccccceehhhhh
Confidence            346999999999999999999999999999997        33333333 46899998887773  235999887643

>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=96.44  E-value=0.0033  Score=52.93  Aligned_cols=67  Identities=18%  Similarity=0.211  Sum_probs=50.6

Q ss_pred             CCCceEEEecCCchHHHHHHHHH-----CCCCeEEEeec-HHHHhhCCC-----CCCeEEEEccCCCCCC--CccEEEec
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEF-----YPHIKGVNFDL-PHVVATAPV-----YEGVSHVGGDMLNAVP--NADAVFMK  257 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~-----~P~l~~~~~Dl-p~v~~~a~~-----~~ri~~~~gd~~~~~p--~aD~~~l~  257 (266)
                      ....+|+|.+||+|.++.++.++     .++.+.+++|. +.++..++.     ...+.+..+|.+...+  .+|+|+..
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            35679999999999999998764     35567889998 555554442     5677888899888544  49999864

>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=96.40  E-value=0.002  Score=49.89  Aligned_cols=64  Identities=17%  Similarity=0.051  Sum_probs=49.9

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCCC-----C--CccEEEe
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNAV-----P--NADAVFM  256 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~~-----p--~aD~~~l  256 (266)
                      ...+|||+.||+|.++.+.+.+... +++.+|. +.+++.+++       .++++++.+|.++-+     .  .+|+|++
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            4589999999999999999998765 7888897 555555442       568999999987621     1  3899987

>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=96.24  E-value=0.0011  Score=55.78  Aligned_cols=65  Identities=12%  Similarity=0.060  Sum_probs=50.7

Q ss_pred             CCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC--------CCCeEEEEccCCCCC------C-CccE
Q 042491          190 FDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV--------YEGVSHVGGDMLNAV------P-NADA  253 (266)
Q Consensus       190 ~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~--------~~ri~~~~gd~~~~~------p-~aD~  253 (266)
                      .....+|||+.||+|.++..+++..  .+++.+|. +..++.+++        ..+++++.+|.++-+      . .||+
T Consensus       130 ~~~~~rVLdlf~~tG~~sl~aa~~G--A~V~~VD~s~~al~~a~~N~~ln~~~~~~~~~i~~D~~~~l~~~~~~~~~fD~  207 (309)
T d2igta1         130 ADRPLKVLNLFGYTGVASLVAAAAG--AEVTHVDASKKAIGWAKENQVLAGLEQAPIRWICEDAMKFIQREERRGSTYDI  207 (309)
T ss_dssp             SSSCCEEEEETCTTCHHHHHHHHTT--CEEEEECSCHHHHHHHHHHHHHHTCTTSCEEEECSCHHHHHHHHHHHTCCBSE
T ss_pred             ccCCCeEEEecCCCcHHHHHHHhCC--CeEEEEeChHHHHHHHHHhhhhhcccCCcEEEEeCCHHHhHHHHhhcCCCCCE
Confidence            3456899999999999999988763  58999998 666665553        357999999998731      1 3999


Q ss_pred             EEe
Q 042491          254 VFM  256 (266)
Q Consensus       254 ~~l  256 (266)
                      |+|
T Consensus       208 Iil  210 (309)
T d2igta1         208 ILT  210 (309)
T ss_dssp             EEE
T ss_pred             EEE
Confidence            997

>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=96.22  E-value=0.00052  Score=47.56  Aligned_cols=64  Identities=17%  Similarity=0.331  Sum_probs=51.4

Q ss_pred             HHHHHHHHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCC-ceEeCch
Q 042491           27 SMALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEE-TMYGLTQ  102 (266)
Q Consensus        27 ~~~L~~a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~-~~y~lt~  102 (266)
                      +++|.--.++.|+..|..  ++.++.||++.+|+++..      +.+.|+.|...|++.....    |. -.|+++.
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--SEASVGHISHQLNLSQSN------VSHQLKLLKSVHLVKAKRQ----GQSMIYSLDD   76 (94)
T ss_dssp             HHHTCSHHHHHHHHHHHH--CCBCHHHHHHHHTCCHHH------HHHHHHHHHHTTSEEEEEE----TTEEEEEESS
T ss_pred             HHHhCCHHHHHHHHHHHc--CCccHHHHHHHHCCCHHH------HHHHHHHHHHCCceEEEEE----CCEEEEEECc
Confidence            456666677888888887  799999999999998766      9999999999999988772    11 1377664

>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=96.19  E-value=0.0012  Score=42.17  Aligned_cols=52  Identities=23%  Similarity=0.405  Sum_probs=43.7

Q ss_pred             ChhhHhhhCC-CCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeC
Q 042491           37 RLADIMHCHG-SPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGL  100 (266)
Q Consensus        37 glfd~L~~~g-~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~l  100 (266)
                      .|-+++...| .|-++.|||+.+|+++..      +..+|+.|+..|.+.+..      ++.|-+
T Consensus        11 ~I~~~~~~~g~~PP~vrdl~~~l~~~e~~------~~~lL~~l~~~G~lvkI~------~d~yfh   63 (64)
T d1lvaa3          11 DLEDKYRVSRWQPPSFKEVAGSFNLDPSE------LEELLHYLVREGVLVKIN------DEFYWH   63 (64)
T ss_dssp             HHHHHHHHHTTSCCBHHHHHHHTTCCHHH------HHHHHHHHHHTTSEEESS------SSBEEE
T ss_pred             HHHHHHHHcCCCCCcHHHHHHHhCCCHHH------HHHHHHHHHHCCCEEEec------cccccc
Confidence            3455555545 799999999999999887      999999999999999998      577754

>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=96.16  E-value=0.0079  Score=47.08  Aligned_cols=73  Identities=12%  Similarity=0.017  Sum_probs=51.9

Q ss_pred             HHhhcccCCCCCceEEEecCCchHHHHHHHHHCCC-CeEEEeecHHHHhhCCCCCCeEEEEccCCCCCC--CccEEEecc
Q 042491          182 LLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPH-IKGVNFDLPHVVATAPVYEGVSHVGGDMLNAVP--NADAVFMKV  258 (266)
Q Consensus       182 ~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~-l~~~~~Dlp~v~~~a~~~~ri~~~~gd~~~~~p--~aD~~~l~~  258 (266)
                      +++...  .....+|+|.|||+|.++..+.++++. .+..++|..+...  ....+.....+|++...+  .+|+++..-
T Consensus        11 m~~l~~--~~~~~~IlDp~~G~G~fl~~~~~~~~~~~~i~g~ei~~~~~--~~~~~~~~~~~~~~~~~~~~~fd~ii~np   86 (223)
T d2ih2a1          11 MVSLAE--APRGGRVLEPACAHGPFLRAFREAHGTAYRFVGVEIDPKAL--DLPPWAEGILADFLLWEPGEAFDLILGNP   86 (223)
T ss_dssp             HHHHCC--CCTTCEEEEETCTTCHHHHHHHHHHCSCSEEEEEESCTTTC--CCCTTEEEEESCGGGCCCSSCEEEEEECC
T ss_pred             HHHhcC--CCCcCEEEECCCchHHHHHHHHHhccccceEEeeecCHHHH--hhcccceeeeeehhccccccccceecccC
Confidence            444444  345679999999999999999988877 4688999844322  113456778899888433  489887653

>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=96.16  E-value=0.0019  Score=41.33  Aligned_cols=60  Identities=17%  Similarity=0.141  Sum_probs=45.8

Q ss_pred             HHHHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCch
Q 042491           31 KSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQ  102 (266)
Q Consensus        31 ~~a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~  102 (266)
                      +.--...|+..|..+.+++|.++||+.++++.+.      +.|-+..|...|+--...      .+.|.+.+
T Consensus         5 k~eR~~~Il~~L~~~~~~vs~~~La~~l~VS~~T------I~rdi~~L~~~G~~I~~~------~gGY~L~~   64 (65)
T d1j5ya1           5 RQERLKSIVRILERSKEPVSGAQLAEELSVSRQV------IVQDIAYLRSLGYNIVAT------PRGYVLAG   64 (65)
T ss_dssp             HHHHHHHHHHHHHHCSSCBCHHHHHHHHTSCHHH------HHHHHHHHHHHTCCCEEE------TTEEECCT
T ss_pred             HHHHHHHHHHHHHHcCCCCcHHHHHHHHCCCHHH------HHHHHHHHHHCCCeEEEe------CCCEEeCC
Confidence            3334456788887644689999999999999876      999999999999843333      36888754

>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=96.14  E-value=0.001  Score=43.35  Aligned_cols=47  Identities=17%  Similarity=0.248  Sum_probs=41.5

Q ss_pred             hcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           35 ELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        35 elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      +..|+.+|... +++|..|||+.+|+++..      +.++++-|...|++.+.+
T Consensus         8 ~~~Il~~l~~~-g~~sr~eLa~~~glS~~T------v~~~l~~L~~~Glv~e~~   54 (71)
T d1z05a1           8 AGRVYKLIDQK-GPISRIDLSKESELAPAS------ITKITRELIDAHLIHETT   54 (71)
T ss_dssp             HHHHHHHHHHH-CSBCHHHHHHHHTCCHHH------HHHHHHHHHHTTSEEEEC
T ss_pred             HHHHHHHHHHc-CCcCHHHHHHHHCCCHHH------HHHHHHHHHHCCCEEEec
Confidence            44688888875 799999999999999776      999999999999998765

>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=96.06  E-value=0.0048  Score=47.77  Aligned_cols=73  Identities=21%  Similarity=0.214  Sum_probs=55.9

Q ss_pred             HHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC--CCCeEEEEccCCC-C--C-----
Q 042491          180 STLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV--YEGVSHVGGDMLN-A--V-----  248 (266)
Q Consensus       180 ~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~--~~ri~~~~gd~~~-~--~-----  248 (266)
                      ..+++.+.  ......+||..+|.|.++.++++.+  .+++.+|+ |+++..++.  .+|+.++.++|-+ .  +     
T Consensus         8 ~Evl~~l~--~~~g~~~vD~T~G~GGhs~~iL~~~--~~viaiD~D~~ai~~a~~~~~~~~~~~~~~f~~~~~~l~~~~~   83 (182)
T d1wg8a2           8 QEALDLLA--VRPGGVYVDATLGGAGHARGILERG--GRVIGLDQDPEAVARAKGLHLPGLTVVQGNFRHLKRHLAALGV   83 (182)
T ss_dssp             HHHHHHHT--CCTTCEEEETTCTTSHHHHHHHHTT--CEEEEEESCHHHHHHHHHTCCTTEEEEESCGGGHHHHHHHTTC
T ss_pred             HHHHHhcC--CCCCCEEEEeCCCCcHHHHHHhccc--CcEEEEhhhhhHHHHHhhccccceeEeehHHHHHHHHHHHcCC
Confidence            45566554  4566899999999999999999974  58999998 777776654  6899999998876 1  1     


Q ss_pred             CCccEEEe
Q 042491          249 PNADAVFM  256 (266)
Q Consensus       249 p~aD~~~l  256 (266)
                      ..+|.|++
T Consensus        84 ~~vdgIl~   91 (182)
T d1wg8a2          84 ERVDGILA   91 (182)
T ss_dssp             SCEEEEEE
T ss_pred             CccCEEEE
Confidence            23777765

>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=96.03  E-value=0.0068  Score=50.07  Aligned_cols=71  Identities=24%  Similarity=0.375  Sum_probs=50.6

Q ss_pred             HHHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCC----C---CCCeEEEEccCCC-CCC
Q 042491          179 MSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAP----V---YEGVSHVGGDMLN-AVP  249 (266)
Q Consensus       179 ~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~----~---~~ri~~~~gd~~~-~~p  249 (266)
                      ...+++...  .....+||+||+|.|.+...|++..+  +++.++. +..++..+    .   .++++++.+|+.+ ++|
T Consensus        10 ~~kIv~~~~--~~~~d~VlEIGPG~G~LT~~Ll~~~~--~v~aiE~D~~l~~~L~~~~~~~~~~~~~~~i~~D~l~~~~~   85 (278)
T d1zq9a1          10 INSIIDKAA--LRPTDVVLEVGPGTGNMTVKLLEKAK--KVVACELDPRLVAELHKRVQGTPVASKLQVLVGDVLKTDLP   85 (278)
T ss_dssp             HHHHHHHTC--CCTTCEEEEECCTTSTTHHHHHHHSS--EEEEEESCHHHHHHHHHHHTTSTTGGGEEEEESCTTTSCCC
T ss_pred             HHHHHHHhC--CCCCCEEEEECCCchHHHHHHHhcCC--cEEEEEEccchhHHHHHHHhhhccccchhhhHHHHhhhhhh
Confidence            445666655  55678999999999999999999976  5666665 23333222    1   4689999999999 576


Q ss_pred             CccE
Q 042491          250 NADA  253 (266)
Q Consensus       250 ~aD~  253 (266)
                      ....
T Consensus        86 ~~~~   89 (278)
T d1zq9a1          86 FFDT   89 (278)
T ss_dssp             CCSE
T ss_pred             hhhh
Confidence            5443

>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=96.00  E-value=0.001  Score=46.31  Aligned_cols=54  Identities=20%  Similarity=0.249  Sum_probs=46.9

Q ss_pred             HHHHHHHHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           27 SMALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        27 ~~~L~~a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      +++|.--.++.|+..|..  ++.++.|||+.+|+++..      +...|+.|...|++....
T Consensus        17 ~kaL~~p~Rl~Il~~L~~--~~~~v~ela~~l~is~st------vS~HL~~L~~aglV~~~r   70 (98)
T d1r1ta_          17 FAVLADPNRLRLLSLLAR--SELCVGDLAQAIGVSESA------VSHQLRSLRNLRLVSYRK   70 (98)
T ss_dssp             HHHHCCHHHHHHHHHHTT--CCBCHHHHHHHHTCCHHH------HHHHHHHHHHTTSEEEEE
T ss_pred             HHHhCCHHHHHHHHHHHc--CCcCHHHHHHHHCcCHHH------HHHHHHHHHHCCceEEEE
Confidence            356666677888888876  789999999999998766      999999999999998877

>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=95.89  E-value=0.0012  Score=46.77  Aligned_cols=67  Identities=12%  Similarity=0.224  Sum_probs=52.6

Q ss_pred             HHHHHHHHHHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCC-ceEeCch
Q 042491           25 ADSMALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEE-TMYGLTQ  102 (266)
Q Consensus        25 ~~~~~L~~a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~-~~y~lt~  102 (266)
                      -.+++|.--.++.|+..|... ++.++.|||+.+|+++..      +.+.|+.|...|++.....    |. -.|++++
T Consensus        23 ~~~kaLadp~Rl~Il~~L~~~-~~~~v~ela~~l~~s~s~------vS~HL~~L~~aGlv~~~r~----G~~~~Y~l~~   90 (108)
T d1u2wa1          23 QILKAIADENRAKITYALCQD-EELCVCDIANILGVTIAN------ASHHLRTLYKQGVVNFRKE----GKLALYSLGD   90 (108)
T ss_dssp             HHHHHHHSHHHHHHHHHHHHS-SCEEHHHHHHHHTCCHHH------HHHHHHHHHHTTSEEEC--------CCEEEESC
T ss_pred             HHHHHhCCHHHHHHHHHHHhC-CCccHHHHHHHHccChhH------HHHHHHHHHHCCeeEEEEE----CCEEEEEECH
Confidence            345677778889999988653 789999999999998766      9999999999999998872    11 2477665

>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=95.86  E-value=0.0064  Score=44.70  Aligned_cols=68  Identities=13%  Similarity=0.149  Sum_probs=52.3

Q ss_pred             HhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           34 VELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        34 ~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      .++.++..|... +++|..+||+.++++...      +.|+++.|+..|++.+....++...-.+.+|+.++.+.
T Consensus        37 ~q~~vL~~l~~~-~~~t~~~la~~l~~~~~~------vsr~l~~L~~~G~v~r~~~~~D~R~~~l~lT~~G~~~~  104 (141)
T d1lnwa_          37 PDVHVLKLIDEQ-RGLNLQDLGRQMCRDKAL------ITRKIRELEGRNLVRRERNPSDQRSFQLFLTDEGLAIH  104 (141)
T ss_dssp             HHHHHHHHHHSS-TTCBHHHHHHHTTCCHHH------HHHHHHHHHHTTSEEEEECSSSSSSEEEEECHHHHHHH
T ss_pred             HHHHHHHHHHHC-CCCCHHHHHHHHCccHhH------HHHHHHHHHHhhceeeeccCCCCcchhhccCHHHHHHH
Confidence            345567777664 679999999999999877      99999999999999887733222234588999886544

>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=95.79  E-value=0.0022  Score=40.73  Aligned_cols=55  Identities=20%  Similarity=0.199  Sum_probs=43.8

Q ss_pred             hcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCc
Q 042491           35 ELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLT  101 (266)
Q Consensus        35 elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt  101 (266)
                      ++.|+..|.+ ++.+|.+|||+.+|++...      +.+-+..|...|+..+...     ...|+++
T Consensus         7 ~~~iL~~L~~-~~~~s~~eLa~~l~vS~~t------i~r~i~~L~~~G~~I~~~~-----g~GY~L~   61 (63)
T d1biaa1           7 PLKLIALLAN-GEFHSGEQLGETLGMSRAA------INKHIQTLRDWGVDVFTVP-----GKGYSLP   61 (63)
T ss_dssp             HHHHHHHHTT-SSCBCHHHHHHHHTSCHHH------HHHHHHHHHHTTCCCEEET-----TTEEECS
T ss_pred             HHHHHHHHHH-CCcCCHHHHHHHHCcCHHH------HHHHHHHHHHCCCcEEEeC-----CCeEEeC
Confidence            4567888876 4789999999999999877      9999999999998554431     1358875

>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=95.79  E-value=0.003  Score=46.80  Aligned_cols=69  Identities=20%  Similarity=0.295  Sum_probs=51.7

Q ss_pred             HhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           34 VELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        34 ~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      .++.++..|...++++|..+||+.++++...      +.++++-|...|++.+....++...-.+.+|+.++.+.
T Consensus        35 ~q~~vL~~L~~~~g~~t~~~La~~~~~~~~~------vs~~i~~L~~~glv~r~~~~~DrR~~~i~LT~~G~~~~  103 (145)
T d2hr3a1          35 SQLVVLGAIDRLGGDVTPSELAAAERMRSSN------LAALLRELERGGLIVRHADPQDGRRTRVSLSSEGRRNL  103 (145)
T ss_dssp             HHHHHHHHHHHTTSCBCHHHHHHHTTCCHHH------HHHHHHHHHHTTSEEEEC------CCEEEECHHHHHHH
T ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHCCCHHH------HHHHHHHHHHcCCeEeeeCccchhHHHhccCHHHHHHH
Confidence            3566777776545689999999999999776      99999999999999877632222234699999997544

>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=95.76  E-value=0.0017  Score=52.24  Aligned_cols=66  Identities=17%  Similarity=0.181  Sum_probs=52.6

Q ss_pred             CCceEEEecCCchHHHHHHHHHCC-CCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCC---C------C-Ccc
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYP-HIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNA---V------P-NAD  252 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P-~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~---~------p-~aD  252 (266)
                      ++++||+||.+.|.-+..+++..| +-+++.+|. |+.++.+++       .+||+++.||..+-   +      . .+|
T Consensus        59 ~~k~iLEiGT~~GyStl~la~al~~~g~v~tie~~~~~~~~A~~~~~~~g~~~~i~~~~g~a~~~L~~l~~~~~~~~~fD  138 (227)
T d1susa1          59 NAKNTMEIGVYTGYSLLATALAIPEDGKILAMDINKENYELGLPVIKKAGVDHKIDFREGPALPVLDEMIKDEKNHGSYD  138 (227)
T ss_dssp             TCCEEEEECCGGGHHHHHHHHHSCTTCEEEEEESCCHHHHHHHHHHHHTTCGGGEEEEESCHHHHHHHHHHCGGGTTCBS
T ss_pred             CCCcEEEecchhhhhHHHHHhhCCCCcEEEEEeccchhHHHHHHHHHHhccccceeeeehHHHHHHHHHHhccccCCcee
Confidence            678999999999999999999997 578899997 555544443       67999999998762   2      2 389


Q ss_pred             EEEec
Q 042491          253 AVFMK  257 (266)
Q Consensus       253 ~~~l~  257 (266)
                      ++++=
T Consensus       139 ~iFiD  143 (227)
T d1susa1         139 FIFVD  143 (227)
T ss_dssp             EEEEC
T ss_pred             EEEec
Confidence            98874

>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=95.74  E-value=0.0017  Score=41.23  Aligned_cols=45  Identities=18%  Similarity=0.380  Sum_probs=40.3

Q ss_pred             ChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCccccccc
Q 042491           37 RLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRS   89 (266)
Q Consensus        37 glfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~   89 (266)
                      .|+..|.+  +|+|..|||+.+|++...      +.++++-|...|++.+.+.
T Consensus         3 ~Il~~i~~--~pisr~eLa~~~gls~~T------Vs~~v~~L~~~GlV~e~~~   47 (62)
T d2hoea1           3 RILKRIMK--SPVSRVELAEELGLTKTT------VGEIAKIFLEKGIVVEEKD   47 (62)
T ss_dssp             CSHHHHHH--SCBCHHHHHHHHTCCHHH------HHHHHHHHHHHTSEEEEEC
T ss_pred             HHHHHHHH--CCcCHHHHHHHHCcCHHH------HHHHHHHHHHCCCEEECCC
Confidence            57888887  799999999999999766      9999999999999998773

>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=95.72  E-value=0.0018  Score=54.80  Aligned_cols=63  Identities=14%  Similarity=0.049  Sum_probs=49.1

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCCC---CC----CccEEEe
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLNA---VP----NADAVFM  256 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~~---~p----~aD~~~l  256 (266)
                      ...+|||++||+|.++..+++.  ..+++.+|. +..++.+++      .++++++.+|.++.   ++    .||+|++
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            4589999999999999998764  347889998 666666553      46799999998762   21    3999987

>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=95.71  E-value=0.003  Score=51.53  Aligned_cols=64  Identities=13%  Similarity=0.142  Sum_probs=48.4

Q ss_pred             HHHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC----CCCeEEEEccCCC
Q 042491          179 MSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV----YEGVSHVGGDMLN  246 (266)
Q Consensus       179 ~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~----~~ri~~~~gd~~~  246 (266)
                      +..+++...  ......||+||+|.|.+...|++...  +++.+|+ +..++..+.    .++++++.+|+.+
T Consensus        10 ~~~Iv~~~~--~~~~d~vlEIGpG~G~LT~~Ll~~~~--~v~aiEiD~~l~~~L~~~~~~~~~~~ii~~D~l~   78 (252)
T d1qyra_          10 IDSIVSAIN--PQKGQAMVEIGPGLAALTEPVGERLD--QLTVIELDRDLAARLQTHPFLGPKLTIYQQDAMT   78 (252)
T ss_dssp             HHHHHHHHC--CCTTCCEEEECCTTTTTHHHHHTTCS--CEEEECCCHHHHHHHHTCTTTGGGEEEECSCGGG
T ss_pred             HHHHHHhcC--CCCCCEEEEECCCchHHHHHHHccCC--ceEEEEeccchhHHHHHHhhhccchhHHhhhhhh
Confidence            445666665  56778999999999999999998865  5666666 444444332    5789999999987

>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=95.66  E-value=0.0045  Score=45.27  Aligned_cols=67  Identities=13%  Similarity=0.244  Sum_probs=53.0

Q ss_pred             hcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           35 ELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        35 elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      ++.++..|... ++.|..+||+.+++++..      +.++++-|...|++.+....++...-.+.+|+.|+.+.
T Consensus        36 q~~vL~~i~~~-~~~t~~~la~~l~~~~~~------~s~~l~~L~~~Gli~r~~~~~D~R~~~l~lT~~G~~~~  102 (136)
T d2bv6a1          36 QFLVLTILWDE-SPVNVKKVVTELALDTGT------VSPLLKRMEQVDLIKRERSEVDQREVFIHLTDKSETIR  102 (136)
T ss_dssp             HHHHHHHHHHS-SEEEHHHHHHHTTCCTTT------HHHHHHHHHHTTSEEEEECSSSTTCEEEEECHHHHHHH
T ss_pred             HHHHHHHHHcC-CCCCHHHHHHHHCCCHhH------HHHHHHHHHHCCCEEEeecCCcccchhhccCHHHHHHH
Confidence            45567778765 689999999999999988      99999999999999987643222234679999987544

>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=95.61  E-value=0.016  Score=49.10  Aligned_cols=71  Identities=15%  Similarity=0.176  Sum_probs=52.8

Q ss_pred             HHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCCCCC-----
Q 042491          182 LLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLNAVP-----  249 (266)
Q Consensus       182 ~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~~~p-----  249 (266)
                      +++..+  ..+..+|+|+-||.|.++..|++...  +++++|. ++.++.++.      ..+++++.+|..+.++     
T Consensus       204 v~~~~~--~~~~~~vlDLycG~G~fsl~La~~~~--~V~gvE~~~~ai~~A~~na~~n~i~n~~~~~~~~~~~~~~~~~~  279 (358)
T d1uwva2         204 ALEWLD--VQPEDRVLDLFCGMGNFTLPLATQAA--SVVGVEGVPALVEKGQQNARLNGLQNVTFYHENLEEDVTKQPWA  279 (358)
T ss_dssp             HHHHHT--CCTTCEEEEESCTTTTTHHHHHTTSS--EEEEEESCHHHHHHHHHHHHHTTCCSEEEEECCTTSCCSSSGGG
T ss_pred             HHHhhc--cCCCceEEEecccccccchhcccccc--EEEeccCcHHHHHHHHHhHHhcccccceeeecchhhhhhhhhhh
Confidence            344444  45678999999999999999988653  6888887 666666553      5789999999877422     


Q ss_pred             --CccEEEe
Q 042491          250 --NADAVFM  256 (266)
Q Consensus       250 --~aD~~~l  256 (266)
                        .+|++++
T Consensus       280 ~~~~d~vil  288 (358)
T d1uwva2         280 KNGFDKVLL  288 (358)
T ss_dssp             TTCCSEEEE
T ss_pred             hccCceEEe
Confidence              2788876

>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=95.58  E-value=0.0029  Score=46.21  Aligned_cols=69  Identities=14%  Similarity=0.167  Sum_probs=52.5

Q ss_pred             HhcChhhHhhhC-CCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           34 VELRLADIMHCH-GSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        34 ~elglfd~L~~~-g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      .++.++..|..+ |+++|..|||+.++++...      +.++++-|...|++.+....++...-.+.+|+.++.+.
T Consensus        30 ~q~~vL~~l~~~~~~~it~~ela~~~~~~~~~------vs~~l~~L~~~g~v~r~~~~~D~R~~~i~lT~~G~~~~   99 (135)
T d3broa1          30 TQMTIIDYLSRNKNKEVLQRDLESEFSIKSST------ATVLLQRMEIKKLLYRKVSGKDSRQKCLKLTKKANKLE   99 (135)
T ss_dssp             HHHHHHHHHHHTTTSCCBHHHHHHHHTCCHHH------HHHHHHHHHHTTSEEEEECSSCTTSEEEEECHHHHTTH
T ss_pred             HHHHHHHHHHHcCCCCCCHHHHHHHHCcCHhH------HHHHHHHHHHHHHHHHHhhhhhhhhhhhcccHHHHHHH
Confidence            345566666654 3679999999999999776      99999999999999887632222234699999887544

>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=95.56  E-value=0.0024  Score=46.98  Aligned_cols=68  Identities=15%  Similarity=0.176  Sum_probs=54.0

Q ss_pred             HhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           34 VELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        34 ~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      .++-++..|..+ ++.|..+||+.++++...      +.++++-|...|++.+....++...-.+++|+.|+.+.
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-GPKKMKEIAEFLSTTKSN------VTNVVDSLEKRGLVVREMDPVDRRTYRVVLTEKGKEIF  100 (140)
T ss_dssp             HHHHHHHHHHHH-CCBCHHHHHHHTTSCHHH------HHHHHHHHHHTTSEEEEECTTTSSCEEEEECHHHHHHH
T ss_pred             HHHHHHHHHHHc-CCcCHHHHHHHHCcCHHH------HHHHHHHHHHCCCeeeeecccccchhhhhcCHHHHHHH
Confidence            345577788775 689999999999999776      99999999999999988743222334699999987544

>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=95.48  E-value=0.0035  Score=40.61  Aligned_cols=47  Identities=9%  Similarity=0.123  Sum_probs=41.0

Q ss_pred             hcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           35 ELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        35 elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      ...|+..|..+ +++|..|||+.+|++...      +.++++-|...|++.+.+
T Consensus         7 ~~~Il~~i~~~-g~~sr~eLa~~~gLS~~T------vs~iv~~L~~~glv~e~g   53 (70)
T d1z6ra1           7 AGAVYRLIDQL-GPVSRIDLSRLAQLAPAS------ITKIVHEMLEAHLVQELE   53 (70)
T ss_dssp             HHHHHHHHHSS-CSCCHHHHHHHTTCCHHH------HHHHHHHHHHHTSEEEC-
T ss_pred             HHHHHHHHHHc-CCcCHHHHHHHHCcCHHH------HHHHHHHHHHCCCEEeeC
Confidence            34588889875 899999999999999766      999999999999998875

>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=95.40  E-value=0.0029  Score=49.10  Aligned_cols=71  Identities=14%  Similarity=0.208  Sum_probs=53.6

Q ss_pred             HHHHHHHHHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCC--CceEeCchh
Q 042491           26 DSMALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSE--ETMYGLTQI  103 (266)
Q Consensus        26 ~~~~L~~a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g--~~~y~lt~~  103 (266)
                      ...+|.--.++.|+++|..  +|.|+.|||+.+|+++..      +.+.|+.|...|++.........|  .-.|.+|+.
T Consensus        12 ~~~~l~~p~R~~Il~~L~~--~~~s~~ela~~lg~s~~~------v~~hl~~L~~~glv~~~~~~~~~g~~~k~y~~~~~   83 (190)
T d1ulya_          12 VIKVMLEDTRRKILKLLRN--KEMTISQLSEILGKTPQT------IYHHIEKLKEAGLVEVKRTEMKGNLVEKYYGRTAD   83 (190)
T ss_dssp             HHHHHHSHHHHHHHHHHTT--CCBCHHHHHHHHTCCHHH------HHHHHHHHHHTTSEEEEEEEEETTEEEEEEEESSS
T ss_pred             HHHHhCCHHHHHHHHHHHh--CCCCHHHHHHHHCcCHHH------HHHHHHHHHHCCCeEEEEeeccCCcceEEEEEccc
Confidence            4556667778889999975  899999999999999877      999999999999997554210001  124777765


Q ss_pred             c
Q 042491          104 S  104 (266)
Q Consensus       104 s  104 (266)
                      +
T Consensus        84 ~   84 (190)
T d1ulya_          84 V   84 (190)
T ss_dssp             E
T ss_pred             c
Confidence            4

>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=95.39  E-value=0.014  Score=42.82  Aligned_cols=67  Identities=13%  Similarity=0.176  Sum_probs=51.8

Q ss_pred             hcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           35 ELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        35 elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      ++.++..|... ++.|..+||+.+++++..      +.+++.-|...|++.+....++...-.+.+|+.|+.+.
T Consensus        37 q~~iL~~l~~~-~~~t~~~la~~~~i~~~~------vs~~l~~L~~~glv~r~~~~~D~R~~~v~lT~~G~~~~  103 (143)
T d1s3ja_          37 QLFVLASLKKH-GSLKVSEIAERMEVKPSA------VTLMADRLEQKNLIARTHNTKDRRVIDLSLTDEGDIKF  103 (143)
T ss_dssp             HHHHHHHHHHH-SEEEHHHHHHHHTSCHHH------HHHHHHHHHHTTSEEEEECSSCTTSEEEEECHHHHHHH
T ss_pred             HHHHHHHHHHC-CCCCHHHHHHHHCcCHHH------HHHHHHHHHHhhhheeeeecCCCCceEEEECHHHHHHH
Confidence            34467777765 689999999999999776      99999999999999877632212233599999987554

>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=95.37  E-value=0.0038  Score=52.70  Aligned_cols=65  Identities=11%  Similarity=0.015  Sum_probs=48.3

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC--------CCCeEEEEccCCCCC------C-CccEE
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV--------YEGVSHVGGDMLNAV------P-NADAV  254 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~--------~~ri~~~~gd~~~~~------p-~aD~~  254 (266)
                      ....+|||+.||+|.++..+++. ..-+++.+|+ +..++.+++        ..+++++.+|.++.+      . .||+|
T Consensus       143 ~~g~~VLdlf~~~G~~sl~aa~~-ga~~V~~vD~s~~a~~~a~~N~~~n~l~~~~~~~i~~d~~~~l~~~~~~~~~fD~I  221 (317)
T d2b78a2         143 AAGKTVLNLFSYTAAFSVAAAMG-GAMATTSVDLAKRSRALSLAHFEANHLDMANHQLVVMDVFDYFKYARRHHLTYDII  221 (317)
T ss_dssp             TBTCEEEEETCTTTHHHHHHHHT-TBSEEEEEESCTTHHHHHHHHHHHTTCCCTTEEEEESCHHHHHHHHHHTTCCEEEE
T ss_pred             hCCCceeecCCCCcHHHHHHHhC-CCceEEEecCCHHHHHHHHHHHHHhcccCcceEEEEccHHHHHHHHHhhcCCCCEE
Confidence            35689999999999999887664 3346888898 555554432        468999999998732      2 39999


Q ss_pred             Ee
Q 042491          255 FM  256 (266)
Q Consensus       255 ~l  256 (266)
                      ++
T Consensus       222 i~  223 (317)
T d2b78a2         222 II  223 (317)
T ss_dssp             EE
T ss_pred             EE
Confidence            87

>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=95.12  E-value=0.0028  Score=44.77  Aligned_cols=46  Identities=11%  Similarity=0.285  Sum_probs=38.7

Q ss_pred             cChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           36 LRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        36 lglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      ..|+-.|... ++.|+.|||+.+|++...      +.++|+-|...|++.+..
T Consensus        23 ~~v~~~L~~~-g~~t~~eia~~~~i~~~~------v~~~l~~L~~~GlV~r~~   68 (109)
T d1sfxa_          23 VRIYSLLLER-GGMRVSEIARELDLSARF------VRDRLKVLLKRGFVRREI   68 (109)
T ss_dssp             HHHHHHHHHH-CCBCHHHHHHHHTCCHHH------HHHHHHHHHHTTSEEEEE
T ss_pred             HHHHHHHHhc-CCCCHHHHHHHhCCCcch------HHHHHHHHHhCCCEEEEe
Confidence            3456666554 799999999999999877      999999999999998653

>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=95.10  E-value=0.0092  Score=43.61  Aligned_cols=68  Identities=9%  Similarity=0.145  Sum_probs=51.6

Q ss_pred             hcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhhc
Q 042491           35 ELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLLR  109 (266)
Q Consensus        35 elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~~  109 (266)
                      ++-++..|... ++.|+.+||+.++++...      +.++++-|...|++.+....++...-.+.+|+.|+.+..
T Consensus        32 q~~iL~~i~~~-~~~t~~~la~~l~i~~~t------vs~~l~~L~~~gli~r~~~~~D~R~~~i~LT~~G~~~~~   99 (139)
T d2a61a1          32 QFDILQKIYFE-GPKRPGELSVLLGVAKST------VTGLVKRLEADGYLTRTPDPADRRAYFLVITRKGEEVIE   99 (139)
T ss_dssp             HHHHHHHHHHH-CCBCHHHHHHHHTCCHHH------HHHHHHHHHHTTSEEEEEETTEEEEEEEEECHHHHHHHH
T ss_pred             HHHHHHHHHHc-CCCCHHHHHHHhCCCccc------chHHHHHHHhcCeeeeeeccCCCCeEEEEECHHHHHHHH
Confidence            34466666654 689999999999999776      999999999999998776321112246999999976553

>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=95.07  E-value=0.0044  Score=48.36  Aligned_cols=70  Identities=11%  Similarity=0.164  Sum_probs=52.3

Q ss_pred             HHHHHHHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCC--CceEeCchhch
Q 042491           28 MALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSE--ETMYGLTQISK  105 (266)
Q Consensus        28 ~~L~~a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g--~~~y~lt~~s~  105 (266)
                      ++|.--.+..|+..|..  +|.|+.|||+.+|+++..      +.+.|+.|...|++.......+.|  ...|++|..+.
T Consensus        10 ~~l~~~~R~~Il~~L~~--~~~~~~ela~~l~~s~~~------v~~HL~~L~~~Glv~~~~~~~~~G~~~~~y~l~~~~~   81 (194)
T d2p4wa1          10 DVLGNETRRRILFLLTK--RPYFVSELSRELGVGQKA------VLEHLRILEEAGLIESRVEKIPRGRPRKYYMIKKGLR   81 (194)
T ss_dssp             HHHHSHHHHHHHHHHHH--SCEEHHHHHHHHTCCHHH------HHHHHHHHHHTTSEEEEECCBTTBCCCEEEEECTTEE
T ss_pred             HHhCCHHHHHHHHHHHh--CCCCHHHHHHHHCcCHHH------HHHHHHHHHHCCCeEEEEeecCCCCceEEEEecccce
Confidence            34444456777888876  799999999999999877      999999999999998654322222  12588887653

>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=95.05  E-value=0.0063  Score=41.43  Aligned_cols=49  Identities=24%  Similarity=0.239  Sum_probs=43.1

Q ss_pred             CCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           47 SPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        47 ~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      ++.+...|...++++...      +.+.|..|...|++.+.+       +.|.+|+.|.-|.
T Consensus        17 ~g~~kT~i~~~aNLs~~~------~~kyl~~L~~~GLI~~~~-------~~Y~iT~kG~~~L   65 (90)
T d1r7ja_          17 SGSPKTRIMYGANLSYAL------TGRYIKMLMDLEIIRQEG-------KQYMLTKKGEELL   65 (90)
T ss_dssp             TCBCHHHHHHHHTCCHHH------HHHHHHHHHHTTSEEEET-------TEEEECHHHHHHH
T ss_pred             CCCCccHHHHHcCCCHHH------HHHHHHHHHHCCCeeecC-------CEEEECccHHHHH
Confidence            346789999999999877      999999999999998876       8999999997443

>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=94.86  E-value=0.0066  Score=44.92  Aligned_cols=48  Identities=13%  Similarity=0.157  Sum_probs=40.4

Q ss_pred             hcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           35 ELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        35 elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      +..|+..|-.+++|+|+.|||+.+|++...      +.+.++-|...|++.+..
T Consensus        28 ~~~i~~~L~~~~~plt~~ela~~l~vsk~~------vs~~l~~L~~~GlV~r~~   75 (151)
T d1ku9a_          28 VGAVYAILYLSDKPLTISDIMEELKISKGN------VSMSLKKLEELGFVRKVW   75 (151)
T ss_dssp             HHHHHHHHHHCSSCEEHHHHHHHHTCCHHH------HHHHHHHHHHTTSEEEEC
T ss_pred             HHHHHHHHHhCCCCcCHHHHHHHhCCCcch------HHHHHHHHHHCCCEEEEE
Confidence            345666775556789999999999999777      999999999999998665

>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=94.80  E-value=0.0024  Score=45.08  Aligned_cols=47  Identities=19%  Similarity=0.193  Sum_probs=38.5

Q ss_pred             cChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           36 LRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        36 lglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      ..|+..|...++++|..|||+.+|+++..      +.++++-|...|++.+..
T Consensus        24 ~~iL~~L~~~~~~~t~~eLa~~~~i~~~t------vs~~l~~L~~~GlV~r~~   70 (109)
T d2d1ha1          24 VAVLLKMVEIEKPITSEELADIFKLSKTT------VENSLKKLIELGLVVRTK   70 (109)
T ss_dssp             HHHHHHHHHHCSCEEHHHHHHHHTCCHHH------HHHHHHHHHHTTSEEEEE
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHCccHhH------HHHHHHHHHHCCCEEEee
Confidence            34555553334789999999999999877      999999999999998776

>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=94.77  E-value=0.0081  Score=43.76  Aligned_cols=66  Identities=18%  Similarity=0.201  Sum_probs=49.2

Q ss_pred             ChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           37 RLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        37 glfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      .+.-.|..+++++|..+||+.+++++..      +.++++-|...|++.+....++...-.+.+|+.++.+.
T Consensus        32 ~iL~~l~~~~~~~t~~~la~~~~~~~~~------vs~~v~~L~~~gli~r~~~~~D~R~~~i~lT~~G~~~~   97 (137)
T d2fbha1          32 LVLLHLARHRDSPTQRELAQSVGVEGPT------LARLLDGLESQGLVRRLAVAEDRRAKHIVLTPKADVLI   97 (137)
T ss_dssp             HHHHHHHHCSSCCBHHHHHHHHTCCHHH------HHHHHHHHHHTTSEEEECCBTTBCSCEEEECTTHHHHH
T ss_pred             HHHHHHHHcCCCCcHHHHHHHHCCCHHH------HHHHHHHHHHcCCccccCCCCCCCchhhhcCHHHHHHH
Confidence            3444555444578999999999999776      99999999999999987732212233688999887544

>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=94.73  E-value=0.0043  Score=41.82  Aligned_cols=51  Identities=18%  Similarity=0.188  Sum_probs=42.6

Q ss_pred             CCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCC-CceEeCchhchhh
Q 042491           47 SPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSE-ETMYGLTQISKWL  107 (266)
Q Consensus        47 ~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g-~~~y~lt~~s~~l  107 (266)
                      +++|..|||+.+++++..      +.++|+-|...|++.+..    |+ .-.|.+|+.+..+
T Consensus        20 ~~lt~~eLa~~l~i~~~~------vs~~l~~Le~~GlV~r~~----D~R~~~i~LT~~G~~~   71 (85)
T d3ctaa1          20 AYLTSSKLADMLGISQQS------ASRIIIDLEKNGYITRTV----TKRGQILNITEKGLDV   71 (85)
T ss_dssp             EECCHHHHHHHHTSCHHH------HHHHHHHHHHTTSEEEEE----ETTEEEEEECHHHHHH
T ss_pred             CCCCHHHHHHHHCCCHHH------HHHHHHHHHHCCCeeeec----ccccccceECHHHHHH
Confidence            689999999999999877      999999999999999865    12 1248899988643

>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=94.53  E-value=0.0081  Score=44.08  Aligned_cols=45  Identities=24%  Similarity=0.253  Sum_probs=37.5

Q ss_pred             CCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCch
Q 042491           47 SPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQ  102 (266)
Q Consensus        47 ~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~  102 (266)
                      .+.|.++||+.+++++..      +.++|+.|...|+++-..     |.|.|.+..
T Consensus        22 ~~vss~~IA~~~~i~~~~------l~kil~~L~~aGlv~S~r-----G~GG~~L~~   66 (138)
T d1ylfa1          22 SLCTSDYMAESVNTNPVV------IRKIMSYLKQAGFVYVNR-----GPGGAGLLK   66 (138)
T ss_dssp             GGCCHHHHHHHHTSCHHH------HHHHHHHHHHTTSEEEC--------CCEEESS
T ss_pred             CcCcHHHHHHHHCcCHHH------HHHHHHHHHHCCCeEeec-----CCCCceecC
Confidence            689999999999999765      999999999999998887     467787754

>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=94.42  E-value=0.064  Score=40.96  Aligned_cols=61  Identities=21%  Similarity=0.209  Sum_probs=47.0

Q ss_pred             HHHhhcccCCCCCceEEEecCCchHHHHHHHHHCC-CCeEEEeecHHHHhhCCCCCCeEEEEccCCC
Q 042491          181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYP-HIKGVNFDLPHVVATAPVYEGVSHVGGDMLN  246 (266)
Q Consensus       181 ~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P-~l~~~~~Dlp~v~~~a~~~~ri~~~~gd~~~  246 (266)
                      ++-..|+ .+.+..+|||+||+.|.+...+.+..+ .-+++.+|+..+    .+-+.+.++.||+.+
T Consensus        12 EI~~k~~-l~k~~~~vlDLg~aPGgw~q~~~~~~~~~~~v~~vDl~~~----~~i~~~~~~~~d~~~   73 (180)
T d1ej0a_          12 EIQQSDK-LFKPGMTVVDLGAAPGGWSQYVVTQIGGKGRIIACDLLPM----DPIVGVDFLQGDFRD   73 (180)
T ss_dssp             HHHHHHC-CCCTTCEEEEESCTTCHHHHHHHHHHCTTCEEEEEESSCC----CCCTTEEEEESCTTS
T ss_pred             HHHHHhC-ccCCCCeEEEEeccCCcceEEEEeeccccceEEEeecccc----cccCCceEeeccccc
Confidence            4555665 356778999999999999998887654 468889997542    235778999999986

>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=94.41  E-value=0.0096  Score=37.22  Aligned_cols=48  Identities=13%  Similarity=0.234  Sum_probs=41.2

Q ss_pred             HhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           34 VELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        34 ~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      .+..|..+|..+ +.+|+.+||+.+|+++..      +.+=++-|...|++....
T Consensus         4 ~D~kIl~~L~~n-~r~s~~~lA~~~gls~~~------v~~Ri~~L~~~giI~~~~   51 (60)
T d1i1ga1           4 RDKIILEILEKD-ARTPFTEIAKKLGISETA------VRKRVKALEEKGIIEGYT   51 (60)
T ss_dssp             HHHHHHHHHHHC-TTCCHHHHHHHHTSCHHH------HHHHHHHHHHHTSSCCCC
T ss_pred             HHHHHHHHHHHc-CCCCHHHHHHHHCcCHHH------HHHHHHHHHHCCCeEeEE
Confidence            356678888875 789999999999999877      999999999999997654

>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=94.29  E-value=0.011  Score=36.93  Aligned_cols=48  Identities=13%  Similarity=0.236  Sum_probs=41.9

Q ss_pred             HhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           34 VELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        34 ~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      ++..|...|..+ +..|+.|||+++|+++..      +.+=++-|...|++....
T Consensus         4 ~D~~Il~~L~~n-~r~s~~eiA~~l~ls~~~------v~~Ri~~L~~~giI~~~~   51 (60)
T d2cyya1           4 IDKKIIKILQND-GKAPLREISKITGLAEST------IHERIRKLRESGVIKKFT   51 (60)
T ss_dssp             HHHHHHHHHHHC-TTCCHHHHHHHHCSCHHH------HHHHHHHHHHHTSSCCCC
T ss_pred             HHHHHHHHHHHc-CCCCHHHHHHHHCcCHHH------HHHHHHHHHHCCCeEeEE
Confidence            466788899885 789999999999999877      999999999999998664

>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=94.25  E-value=0.012  Score=42.42  Aligned_cols=42  Identities=10%  Similarity=0.272  Sum_probs=35.5

Q ss_pred             hHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           40 DIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        40 d~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      -.|+.+ +++|.++||+.+++++.-      ++++|+.|...|+++-..
T Consensus        11 ~~la~~-~~~ss~~IA~~~~~~~~~------v~kIl~~L~~aglV~s~r   52 (127)
T d1xd7a_          11 SLISMD-EKTSSEIIADSVNTNPVV------VRRMISLLKKADILTSRA   52 (127)
T ss_dssp             HHHHTC-SCCCHHHHHHHHTSCHHH------HHHHHHHHHHTTSEECCS
T ss_pred             HHHhcC-CCCCHHHHHHHhCcCHHH------HHHHHHHHHHhCcccccC
Confidence            334443 689999999999999755      999999999999998776

>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=94.19  E-value=0.031  Score=46.88  Aligned_cols=55  Identities=11%  Similarity=-0.019  Sum_probs=41.1

Q ss_pred             CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCC---CCCCeEEEEccCCC
Q 042491          192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAP---VYEGVSHVGGDMLN  246 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~---~~~ri~~~~gd~~~  246 (266)
                      ...+|||||.|.|.+...|+++.---+.+++|. +...+..+   ..+|++++.+|++.
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            457899999999999999998842237888887 33333222   26789999999874

>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=94.19  E-value=0.0072  Score=44.16  Aligned_cols=67  Identities=15%  Similarity=0.267  Sum_probs=52.3

Q ss_pred             cChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhhc
Q 042491           36 LRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLLR  109 (266)
Q Consensus        36 lglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~~  109 (266)
                      +.++..|... +++|..+||+.+++++..      +.|++.-|...|++.+....++...-..++|+.|+.+..
T Consensus        36 ~~vL~~l~~~-~~~t~~~La~~~~i~~~~------vsr~i~~L~~~glv~r~~~~~D~R~~~i~lT~~G~~~~~  102 (137)
T d1z91a1          36 YLALLLLWEH-ETLTVKKMGEQLYLDSGT------LTPMLKRMEQQGLITRKRSEEDERSVLISLTEDGALLKE  102 (137)
T ss_dssp             HHHHHHHHHH-SEEEHHHHHHTTTCCHHH------HHHHHHHHHHHTSEECCBCSSCTTSBEEEECHHHHSGGG
T ss_pred             HHHHHHHHcC-CCCCHHHHHHHHCcCHHH------HHHHHHHHhhccceEEeecCCCCCeEEEEECHHHHHHHH
Confidence            3455666654 689999999999999877      999999999999999887432223446899999976554

>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=94.18  E-value=0.011  Score=43.12  Aligned_cols=67  Identities=19%  Similarity=0.227  Sum_probs=51.4

Q ss_pred             hcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           35 ELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        35 elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      ++.+.-.|... ++.|..|||+.+++++..      +.+++..|...|++.+....++...-.+++|+.++.+.
T Consensus        36 q~~vL~~l~~~-~~~t~~ela~~~~i~~~~------vs~~v~~L~~~glv~r~~~~~D~R~~~i~lT~~G~~~~  102 (138)
T d1jgsa_          36 QFKVLCSIRCA-ACITPVELKKVLSVDLGA------LTRMLDRLVCKGWVERLPNPNDKRGVLVKLTTGGAAIC  102 (138)
T ss_dssp             HHHHHHHHHHH-SSBCHHHHHHHHTCCHHH------HHHHHHHHHHTTSEEEEECTTCSSCEEEEECHHHHHHH
T ss_pred             HHHHHHhHHhC-cCCCHHHHHHHHCCCHhH------HHHHHHHHhhCCCEEEeeccCCCCeeEEEECHHHHHHH
Confidence            34566666654 589999999999998766      99999999999999876632222234799999987654

>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=94.17  E-value=0.0094  Score=43.54  Aligned_cols=68  Identities=21%  Similarity=0.213  Sum_probs=48.4

Q ss_pred             hcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           35 ELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        35 elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      ++.+.-.|...+++.|..+||+.++++...      +.++++-|...|++.+....++...-.+++|+.++.+.
T Consensus        33 ~~~~L~~l~~~~~~~t~~~la~~l~i~~~~------vs~~l~~L~~~glI~~~~~~~D~R~~~l~lT~~G~~~~  100 (140)
T d3deua1          33 HWVTLHNIHQLPPDQSQIQLAKAIGIEQPS------LVRTLDQLEDKGLISRQTCASDRRAKRIKLTEKAEPLI  100 (140)
T ss_dssp             HHHHHHHHHHSCSSEEHHHHHHHHTSCHHH------HHHHHHHHHHTTSEEEC--------CEEEECGGGHHHH
T ss_pred             HHHHHHHHHHcCCCccHHHHHHHHCCCHhH------HHHHHHHHHhCCCEEecccCCCCCceeeEECHHHHHHH
Confidence            344555665434579999999999999776      99999999999999877632222234699999887554

>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=94.06  E-value=0.014  Score=35.80  Aligned_cols=53  Identities=13%  Similarity=0.348  Sum_probs=42.6

Q ss_pred             ChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeC
Q 042491           37 RLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGL  100 (266)
Q Consensus        37 glfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~l  100 (266)
                      ++|..|.+ +...|+.+||.+++++...      +.|+|-.|...|-+.+.+.+    +-.|++
T Consensus         6 ~~l~~lg~-~~~~tA~~LA~kl~vpKk~------iNr~LYsL~~kgkl~k~~gt----PPlWr~   58 (59)
T d2gxba1           6 KFLEELGE-GKATTAHDLSGKLGTPKKE------INRVLYSLAKKGKLQKEAGT----PPLWKI   58 (59)
T ss_dssp             HHHHHHCT-TCCBCHHHHHHHHTCCHHH------HHHHHHHHHHTTSEEEECSS----SCEEEE
T ss_pred             HHHHhcCC-ccchhHHHHHHHhCCcHHH------HHHHHHHHHHccchhhcCCC----CCCccc
Confidence            34555655 4789999999999999877      99999999999999998843    445554

>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=93.98  E-value=0.017  Score=39.63  Aligned_cols=56  Identities=20%  Similarity=0.163  Sum_probs=44.6

Q ss_pred             CCCCHHHHHhhc-CCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           47 SPITLPQLASGI-NSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        47 ~~~t~~eLA~~~-g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      ++..+.||.+.+ |+++.-      |.+=|+-|...|++.+...++.+..-.|++|+.++.|.
T Consensus        23 g~~rF~el~~~l~gis~~~------Ls~rLk~Le~~glv~r~~~~~~p~~veY~LT~~G~~L~   79 (95)
T d2hzta1          23 GKKRTSELKRLMPNITQKM------LTQQLRELEADGVINRIVYNQVPPKVEYELSEYGRSLE   79 (95)
T ss_dssp             CCBCHHHHHHHCTTSCHHH------HHHHHHHHHHTTSEEEEEECSSSCEEEEEECTTGGGGH
T ss_pred             CCCCHHHHHHHhhcCChhH------HHHHHHHHHHhHHHhheeccccccchhhhhhhhHHHHH
Confidence            789999999998 898765      99999999999999987642211123499999998766

>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=93.75  E-value=0.057  Score=43.46  Aligned_cols=74  Identities=12%  Similarity=0.037  Sum_probs=46.1

Q ss_pred             HHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeecHHH---HhhCCC---CCCeEEEEccCCCCCC-C-ccE
Q 042491          182 LLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHV---VATAPV---YEGVSHVGGDMLNAVP-N-ADA  253 (266)
Q Consensus       182 ~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp~v---~~~a~~---~~ri~~~~gd~~~~~p-~-aD~  253 (266)
                      +.+.+-  +....+|||+|||.|.++..+++..+..++..+++---   .+....   .+-+++..++-....| + +|+
T Consensus        58 ~~~~~~--~~~~~~vvDlG~~pGgws~~~a~~~~v~~V~g~~iG~d~~e~P~~~~~~~~ni~~~~~~~dv~~l~~~~~D~  135 (257)
T d2p41a1          58 FVERNL--VTPEGKVVDLGCGRGGWSYYCGGLKNVREVKGLTKGGPGHEEPIPMSTYGWNLVRLQSGVDVFFIPPERCDT  135 (257)
T ss_dssp             HHHTTS--SCCCEEEEEETCTTSHHHHHHHTSTTEEEEEEECCCSTTSCCCCCCCSTTGGGEEEECSCCTTTSCCCCCSE
T ss_pred             HHHhcC--ccCCCeEEEecCCCChHHHHHHhhcCCCceeEEEecCccccCCccccccccccccchhhhhHHhcCCCcCCE
Confidence            344443  56667999999999999999998876666655555100   011111   2335666665444443 3 898


Q ss_pred             EEec
Q 042491          254 VFMK  257 (266)
Q Consensus       254 ~~l~  257 (266)
                      +++=
T Consensus       136 vlcD  139 (257)
T d2p41a1         136 LLCD  139 (257)
T ss_dssp             EEEC
T ss_pred             EEee
Confidence            8864

>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=93.75  E-value=0.03  Score=42.93  Aligned_cols=62  Identities=21%  Similarity=0.204  Sum_probs=44.5

Q ss_pred             ceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC--------CCCeEEEEccCCC----C--CCCccEEEe
Q 042491          194 RSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV--------YEGVSHVGGDMLN----A--VPNADAVFM  256 (266)
Q Consensus       194 ~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~--------~~ri~~~~gd~~~----~--~p~aD~~~l  256 (266)
                      .+|||+-||+|.++.+.+.+-.. +++.+|. +.++..+++        .....++..|.++    .  .+.+|+|++
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            58999999999999999999765 8888887 444433322        3456777776443    1  224999987

>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=93.56  E-value=0.02  Score=36.03  Aligned_cols=48  Identities=21%  Similarity=0.344  Sum_probs=41.5

Q ss_pred             HhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           34 VELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        34 ~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      .+..|..+|..+ +..|..+||+.+|+++..      +.+=++-|...|++....
T Consensus         6 ~D~~IL~~L~~n-~r~s~~~iA~~lgis~~t------v~~Ri~~L~~~giI~~~~   53 (63)
T d2cfxa1           6 IDLNIIEELKKD-SRLSMRELGRKIKLSPPS------VTERVRQLESFGIIKQYT   53 (63)
T ss_dssp             HHHHHHHHHHHC-SCCCHHHHHHHHTCCHHH------HHHHHHHHHHTTSEEEEE
T ss_pred             HHHHHHHHHHHc-CCCCHHHHHHHHCcCHHH------HHHHHHHHHHCCCeeeEE
Confidence            356788889875 789999999999999877      999999999999997654

>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=93.55  E-value=0.015  Score=42.71  Aligned_cols=64  Identities=13%  Similarity=0.063  Sum_probs=49.4

Q ss_pred             hhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           38 LADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        38 lfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      +...|..+ +++|..+||+.+++++..      +.++++-|...|++.+....++...-.+.+|+.++.+.
T Consensus        34 iL~~i~~~-~~~t~~~la~~l~i~~~t------vs~~l~~L~~~glI~r~~~~~D~R~~~l~LT~~G~~~~   97 (144)
T d1lj9a_          34 YLVRVCEN-PGIIQEKIAELIKVDRTT------AARAIKRLEEQGFIYRQEDASNKKIKRIYATEKGKNVY   97 (144)
T ss_dssp             HHHHHHHS-TTEEHHHHHHHHTCCHHH------HHHHHHHHHHTTSEEEEECSSCTTCEEEEECHHHHHHH
T ss_pred             HHHHHHhC-CCCCHHHHHHHHCccHhh------HHHHHHHHHhhhcccccCCCCCCCccccccCHHHHHHH
Confidence            44556664 579999999999999776      99999999999999988743222234688999887544

>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=93.42  E-value=0.016  Score=36.45  Aligned_cols=48  Identities=10%  Similarity=0.202  Sum_probs=41.4

Q ss_pred             HhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           34 VELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        34 ~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      .+..|...|..+ +..|..|||+++|+++..      +.+=++-|...|++....
T Consensus         6 ~D~~IL~~L~~~-~r~s~~eiA~~l~ls~~~------v~~Ri~rL~~~GiI~~~~   53 (63)
T d2cg4a1           6 LDRGILEALMGN-ARTAYAELAKQFGVSPET------IHVRVEKMKQAGIITGAR   53 (63)
T ss_dssp             HHHHHHHHHHHC-TTSCHHHHHHHHTSCHHH------HHHHHHHHHHHTSEEEEE
T ss_pred             HHHHHHHHHHHc-CCCCHHHHHHHHCcCHHH------HHHHHHHHHHCCCeEeEE
Confidence            356688888885 789999999999999877      999999999999998654

>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=93.27  E-value=0.015  Score=41.18  Aligned_cols=65  Identities=9%  Similarity=0.208  Sum_probs=49.6

Q ss_pred             hhhHhhhC-CCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           38 LADIMHCH-GSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        38 lfd~L~~~-g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      ++..|... ++++|..+||+.+++++..      +.++++-|...|++.+....++...-.+.+|+.++.+.
T Consensus        38 vL~~l~~~~~~~~t~~~la~~l~~~~~t------vs~~i~~Le~~gli~r~~~~~D~R~~~i~LT~~G~~~~  103 (115)
T d2frha1          38 VLTYISENKEKEYYLKDIINHLNYKQPQ------VVKAVKILSQEDYFDKKRNEHDERTVLILVNAQQRKKI  103 (115)
T ss_dssp             HHHHHHHTCCSEEEHHHHHHHSSSHHHH------HHHHHHHHHHTTSSCCBCCSSSSCCCEEECCSHHHHHH
T ss_pred             HHHHHHcCCCCCCCHHHHHHHHCCCHhH------HHHHHHHHHhhhhheeeecccCCceEEEEECHHHHHHH
Confidence            44455443 3568999999999998766      99999999999999988743323345689999986543

>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=93.25  E-value=0.013  Score=35.13  Aligned_cols=54  Identities=13%  Similarity=0.320  Sum_probs=46.1

Q ss_pred             hcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeC
Q 042491           35 ELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGL  100 (266)
Q Consensus        35 elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~l  100 (266)
                      |-+|+..|.++|+|+-..+|++++.++...      +.++|..|-..+=+...+      ++.|++
T Consensus         3 EQkILQVL~dagspvk~~ql~k~cqVpkk~------lNqVL~rlkke~kVsl~~------patW~l   56 (57)
T d1j75a_           3 EQKILQVLSDDGGPVKIGQLVKKCQVPKKT------LNQVLYRLKKEDRVSSPE------PATWSI   56 (57)
T ss_dssp             HHHHHHHHHHHCSCEEHHHHHHHHCSCHHH------HHHHHHHHHHTTSEEEEE------TTEEEE
T ss_pred             HHHHHHHHHhcCCchHHHHHHHHHCCCHHH------HHHHHHHHHhccccccCC------CccccC
Confidence            557888899989999999999999999877      999999999888877776      566664

>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=93.14  E-value=0.019  Score=41.30  Aligned_cols=67  Identities=15%  Similarity=0.277  Sum_probs=51.1

Q ss_pred             cChhhHhhhC-CCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           36 LRLADIMHCH-GSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        36 lglfd~L~~~-g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      +.++..|... ++++|..+||+.++++...      +.++++-|...|++.+....++...-...+|+.++.+.
T Consensus        36 ~~vL~~l~~~~~~~~~~~~ia~~l~~~~~~------vs~~v~~L~~~glV~r~~~~~D~R~v~i~LT~~G~~~~  103 (125)
T d1p4xa2          36 FTILAIITSQNKNIVLLKDLIETIHHKYPQ------TVRALNNLKKQGYLIKERSTEDERKILIHMDDAQQDHA  103 (125)
T ss_dssp             HHHHHHHHTTTTCCEEHHHHHHHSSSCHHH------HHHHHHHHHHHTSSEEEECSSSTTCEEEECCHHHHHHH
T ss_pred             HHHHHHHHHccCCCccHHHHHHHHCCCcch------HHHHHHHHHhccCEeeeecCCCCCeEEEEECHHHHHHH
Confidence            3456667432 2578999999999999877      99999999999999887643323345689999987544

>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=93.00  E-value=0.019  Score=40.69  Aligned_cols=66  Identities=14%  Similarity=0.089  Sum_probs=49.8

Q ss_pred             ChhhHhhhC-CCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           37 RLADIMHCH-GSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        37 glfd~L~~~-g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      .++..|... ++++|..+||+.+++++..      +.+++.-|...|++.+....++...-...+|+.++.+.
T Consensus        36 ~vL~~l~~~~~~~~t~~ela~~l~~~~~~------vs~~i~~Le~~gli~r~~~~~D~R~~~i~LT~~G~~~~  102 (115)
T d1hsja1          36 YILNHILRSESNEISSKEIAKCSEFKPYY------LTKALQKLKDLKLLSKKRSLQDERTVIVYVTDTQKANI  102 (115)
T ss_dssp             HHHHHHHTCSCSEEEHHHHHHSSCCCHHH------HHHHHHHHHTTTTSCCEECCSSSSCCEEECCSSHHHHH
T ss_pred             HHHHHHHccCCCCcCHHHHHHHHCCChhh------HHHHHHHHHHcCCeEEEeecCCCceEEEEECHHHHHHH
Confidence            355555432 3689999999999999776      99999999999999988743222344688999886544

>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=92.97  E-value=0.035  Score=35.89  Aligned_cols=55  Identities=22%  Similarity=0.273  Sum_probs=46.7

Q ss_pred             CCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           46 GSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        46 g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      |++-|...|+++.+++=..      |+|.|-.|.+.|+.+..-  ++||.|.=++|+.++.++
T Consensus        22 g~~WSLaklsKra~~PMS~------LRR~LTqL~~aGl~~t~~--~edG~G~A~Lt~~G~~lc   76 (81)
T d2obpa1          22 ATPWSLPKIAKRAQLPMSV------LRRVLTQLQAAGLADVSV--EADGRGHASLTQEGAALA   76 (81)
T ss_dssp             CCCCBHHHHHHHHTCCHHH------HHHHHHHHHHTTSEEEEE--CTTSCEEEEECHHHHHHH
T ss_pred             CCCccHHHHHhhcCCcHHH------HHHHHHHHhhcCceeeee--ccCCcceeeccHHHHHHH
Confidence            5789999999999998655      999999999999987654  456788999999987665

>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=92.95  E-value=0.0098  Score=43.28  Aligned_cols=67  Identities=18%  Similarity=0.259  Sum_probs=51.2

Q ss_pred             hcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           35 ELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        35 elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      ++.++..|... ++.|..+||+.++++...      +.++++-|...|++.+....++...-.+++|+.++.+.
T Consensus        32 q~~vL~~l~~~-~~~t~~~la~~~~i~~~~------vs~~i~~L~~~gli~r~~~~~D~R~~~l~lT~~G~~~~   98 (136)
T d2fbia1          32 QWRVIRILRQQ-GEMESYQLANQACILRPS------MTGVLARLERDGIVRRWKAPKDQRRVYVNLTEKGQQCF   98 (136)
T ss_dssp             HHHHHHHHHHH-CSEEHHHHHHHTTCCHHH------HHHHHHHHHHTTSEEEEEETTEEEEEEEEECHHHHHHH
T ss_pred             HHHHHHHHHHc-CCCCHHHHHHHHCCCHHH------HHHHHHHHHHCCCEEEeecCccCchhhhccCHHHHHHH
Confidence            45566677764 689999999999999776      99999999999999877632111123588999887554

>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=92.76  E-value=0.12  Score=38.57  Aligned_cols=66  Identities=11%  Similarity=0.034  Sum_probs=49.7

Q ss_pred             cChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           36 LRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        36 lglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      +.|+..|... +++|..+||+.++++...      +.++++-|...|++.+....++...-.+++|+.++.+.
T Consensus        44 ~~vL~~l~~~-~~~t~~~la~~~~l~~~t------vs~~i~rL~~~gli~r~~~~~D~R~~~l~lT~~G~~~~  109 (162)
T d2fxaa1          44 HHILWIAYQL-NGASISEIAKFGVMHVST------AFNFSKKLEERGYLRFSKRLNDKRNTYVQLTEEGTEVF  109 (162)
T ss_dssp             HHHHHHHHHH-TSEEHHHHHHHTTCCHHH------HHHHHHHHHHHTSEEEECC------CEEEECHHHHHHH
T ss_pred             HHHHhhhccC-CCcCHHHHHHHHcCCchh------hHHHHHHHHHCCCceeecccccCeeeeeccCHhHHHHH
Confidence            3466677664 689999999999999766      99999999999999987633222344689999987544

>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=92.67  E-value=0.028  Score=40.29  Aligned_cols=68  Identities=15%  Similarity=0.248  Sum_probs=51.1

Q ss_pred             hcChhhHhhhC-CCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           35 ELRLADIMHCH-GSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        35 elglfd~L~~~-g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      ++.|+..|... ++++|..|||+.++++...      +.++++-|...|++.+....++...-...+|+.++-..
T Consensus        36 q~~iL~~l~~~~~~~~t~~eia~~~~~~~~~------vs~~l~~L~~~g~v~r~~~~~D~R~~~i~lT~~G~~~~  104 (125)
T d1p4xa1          36 EFILLTYLFHQQENTLPFKKIVSDLCYKQSD------LVQHIKVLVKHSYISKVRSKIDERNTYISISEEQREKI  104 (125)
T ss_dssp             HHHHHHHHHSCSCSEEEHHHHHHHSSSCGGG------THHHHHHHHHTTSCEEEECSSSTTSEEEECCHHHHHHH
T ss_pred             HHHHHHHHHHhccCCcCHHHHHHHhCCCcch------HHHHHHHHHHCCCceeecccCCCCeEEEEECHHHHHHH
Confidence            34455566443 2579999999999999887      99999999999999988743222334688999886433

>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=92.24  E-value=0.027  Score=39.05  Aligned_cols=79  Identities=16%  Similarity=0.172  Sum_probs=56.6

Q ss_pred             HHHHHHHHHHhHHHHHHHHHHHhcChhhHhhhCCCCCCHHHHHhhc-CCCCCCCCchhhHHHHHHHHhccCcccccccCC
Q 042491           13 GQAQVWQLMFAFADSMALKSAVELRLADIMHCHGSPITLPQLASGI-NSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSD   91 (266)
Q Consensus        13 ~~~~l~~~~~g~~~~~~L~~a~elglfd~L~~~g~~~t~~eLA~~~-g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~   91 (266)
                      +....++++.+=|....|+.         |..  ++..+.||.+.+ |+++.-      |.+=|+-|...|++.+....+
T Consensus         9 pv~~~l~ilg~kW~l~Il~~---------L~~--g~~rF~el~~~l~gIs~~~------Ls~rLkeL~~~glv~r~~~~~   71 (102)
T d2fswa1           9 PVRKSMQIFAGKWTLLIIFQ---------INR--RIIRYGELKRAIPGISEKM------LIDELKFLCGKGLIKKKQYPE   71 (102)
T ss_dssp             HHHHHHHHHTSSSHHHHHHH---------HTT--SCEEHHHHHHHSTTCCHHH------HHHHHHHHHHTTSEEEEEECS
T ss_pred             CHHHHHHHHcCCCHHHHHHH---------Hcc--CCCCHHHHHhhCcccchhH------HHHHHHHHHHCCceeecccCC
Confidence            45566676666666655443         333  689999999998 888655      999999999999998875321


Q ss_pred             CCCCceEeCchhchhhh
Q 042491           92 GSEETMYGLTQISKWLL  108 (266)
Q Consensus        92 ~~g~~~y~lt~~s~~l~  108 (266)
                      .+..-.|++|+.++.|.
T Consensus        72 ~p~~veY~LT~~G~~L~   88 (102)
T d2fswa1          72 VPPRVEYSLTPLGEKVL   88 (102)
T ss_dssp             SSCEEEEEECHHHHTTH
T ss_pred             CCCeehhhhhHhHHHHH
Confidence            11123599999997665

>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=92.19  E-value=0.029  Score=39.77  Aligned_cols=78  Identities=13%  Similarity=0.118  Sum_probs=58.2

Q ss_pred             HHHHHHHHHhHHHHHHHHHHHhcChhhHhhhCCCCCCHHHHHhhc-CCCCCCCCchhhHHHHHHHHhccCcccccccCCC
Q 042491           14 QAQVWQLMFAFADSMALKSAVELRLADIMHCHGSPITLPQLASGI-NSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDG   92 (266)
Q Consensus        14 ~~~l~~~~~g~~~~~~L~~a~elglfd~L~~~g~~~t~~eLA~~~-g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~   92 (266)
                      ....++++.+-|...+|..         |..  ++..+.||.+.+ |+++.-      |.+=|+-|...|++.+....+.
T Consensus        14 v~~~l~~ig~kW~l~Il~~---------L~~--g~~RF~el~~~l~gis~~~------Ls~rL~~Le~~glv~R~~~~~~   76 (114)
T d1yyva1          14 SREVLKHVTSRWGVLILVA---------LRD--GTHRFSDLRRKMGGVSEKM------LAQSLQALEQDGFLNRVSYPVV   76 (114)
T ss_dssp             HHHHHHHHHSHHHHHHHHH---------GGG--CCEEHHHHHHHSTTCCHHH------HHHHHHHHHHHTCEEEEEECSS
T ss_pred             HHHHHHHHcCCCHHHHHHH---------Hhc--CCCCHHHHHHHccccchhH------HHHHHHHHHHHHHHhhcccCCC
Confidence            4667777777777666543         333  789999999999 787655      9999999999999998763211


Q ss_pred             CCCceEeCchhchhhh
Q 042491           93 SEETMYGLTQISKWLL  108 (266)
Q Consensus        93 ~g~~~y~lt~~s~~l~  108 (266)
                      +..-.|++|+.++.|.
T Consensus        77 p~~veY~LT~~G~~L~   92 (114)
T d1yyva1          77 PPHVEYSLTPLGEQVS   92 (114)
T ss_dssp             SCEEEEEECHHHHHHH
T ss_pred             CchhHhHhhHhHHHHH
Confidence            1123599999998766

>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=92.11  E-value=0.043  Score=43.98  Aligned_cols=68  Identities=19%  Similarity=0.292  Sum_probs=49.1

Q ss_pred             CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec--------HHHHhhCCCCCCeEEEEccCCC-----CCC-CccEEEe
Q 042491          191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL--------PHVVATAPVYEGVSHVGGDMLN-----AVP-NADAVFM  256 (266)
Q Consensus       191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl--------p~v~~~a~~~~ri~~~~gd~~~-----~~p-~aD~~~l  256 (266)
                      ....+++|||.|.|.=+.-++=.+|+++++++|.        .+++.... ..++.++.+..-+     +.. .+|+++.
T Consensus        69 ~~~~~ilDiGSGaGfPGi~laI~~p~~~v~Lves~~KK~~FL~~v~~~L~-L~n~~i~~~R~E~~~~~~~~~~~~D~v~s  147 (239)
T d1xdza_          69 NQVNTICDVGAGAGFPSLPIKICFPHLHVTIVDSLNKRITFLEKLSEALQ-LENTTFCHDRAETFGQRKDVRESYDIVTA  147 (239)
T ss_dssp             GGCCEEEEECSSSCTTHHHHHHHCTTCEEEEEESCHHHHHHHHHHHHHHT-CSSEEEEESCHHHHTTCTTTTTCEEEEEE
T ss_pred             cCCCeEEeecCCCchHHHHHHHhCCCccceeecchHHHHHHHHHHHHHhC-CCCcEEEeehhhhccccccccccceEEEE
Confidence            4567999999999999999999999999999997        23333222 4667776654432     233 4898887


Q ss_pred             ccc
Q 042491          257 KVI  259 (266)
Q Consensus       257 ~~v  259 (266)
                      +-+
T Consensus       148 RAv  150 (239)
T d1xdza_         148 RAV  150 (239)
T ss_dssp             ECC
T ss_pred             hhh
Confidence            643

>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=91.94  E-value=0.041  Score=38.49  Aligned_cols=78  Identities=12%  Similarity=0.020  Sum_probs=53.8

Q ss_pred             HHHHHHHHHhHHHHHHHHHHHhcChhhHhhhCCCCCCHHHHHhhc-CCCCCCCCchhhHHHHHHHHhccCcccccccCCC
Q 042491           14 QAQVWQLMFAFADSMALKSAVELRLADIMHCHGSPITLPQLASGI-NSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDG   92 (266)
Q Consensus        14 ~~~l~~~~~g~~~~~~L~~a~elglfd~L~~~g~~~t~~eLA~~~-g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~   92 (266)
                      ....++++.+=|...+|.         .|..  ++..+.||.+.+ |+++.-      |.+=|+.|...|++.+....+.
T Consensus         9 i~~al~iig~kW~~~Il~---------~L~~--g~~RF~el~~~l~gIS~~~------Ls~rLk~L~~~glv~R~~~~~~   71 (108)
T d1z7ua1           9 INLALSTINGKWKLSLMD---------ELFQ--GTKRNGELMRALDGITQRV------LTDRLREMEKDGLVHRESFNEL   71 (108)
T ss_dssp             HHHHHHTTCSTTHHHHHH---------HHHH--SCBCHHHHHHHSTTCCHHH------HHHHHHHHHHHTSEEEEEECCS
T ss_pred             HHHHHHHHcCCCHHHHHH---------HHHc--CCCCHHHHHHHCcCCChhH------HHHHHHHHHHCCcceeeccCCC
Confidence            344444444445444433         3444  789999999998 788655      9999999999999988653211


Q ss_pred             CCCceEeCchhchhhh
Q 042491           93 SEETMYGLTQISKWLL  108 (266)
Q Consensus        93 ~g~~~y~lt~~s~~l~  108 (266)
                      +-.-.|.+|+.++.|.
T Consensus        72 p~~veY~LT~~G~~L~   87 (108)
T d1z7ua1          72 PPRVEYTLTPEGYALY   87 (108)
T ss_dssp             SCEEEEEECHHHHHHH
T ss_pred             cceehhhhchhHHHHH
Confidence            1112499999998766

>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=91.48  E-value=0.045  Score=35.23  Aligned_cols=41  Identities=22%  Similarity=0.275  Sum_probs=34.5

Q ss_pred             hhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           43 HCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        43 ~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      ..+|-|-|+.|||+.+|+..     +..+.+.|..|...|++.+..
T Consensus        19 ~~~G~~Ps~rei~~~~g~~S-----~stv~~~l~~Le~kG~I~r~~   59 (71)
T d1jhfa1          19 SQTGMPPTRAEIAQRLGFRS-----PNAAEEHLKALARKGVIEIVS   59 (71)
T ss_dssp             HHHSSCCCHHHHHHHTTCSS-----HHHHHHHHHHHHHTTSEEECS
T ss_pred             HHhCCCCCHHHHHHHcCCCC-----HHHHHHHHHHHHHCcCeecCC
Confidence            33577999999999999942     234999999999999999976

>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=91.47  E-value=0.067  Score=33.53  Aligned_cols=37  Identities=16%  Similarity=0.334  Sum_probs=34.0

Q ss_pred             CCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           46 GSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        46 g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      +++++..+||+.+|+.+..      +.+.++-|...|++....
T Consensus        21 ~~~v~~~~iA~~L~vs~~S------Vt~mvkrL~~~Glv~~~~   57 (63)
T d2isya1          21 GVTPLRARIAERLDQSGPT------VSQTVSRMERDGLLRVAG   57 (63)
T ss_dssp             TCCCCHHHHHHHHTCCHHH------HHHHHHHHHHTTSEEECT
T ss_pred             CCCCcHHHHHHHhCCCchh------HHHHHHHHHHCCCEEEcC
Confidence            4789999999999999776      999999999999999876

>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=91.45  E-value=0.03  Score=42.48  Aligned_cols=67  Identities=15%  Similarity=0.141  Sum_probs=47.8

Q ss_pred             cChhhHhhhCC--CCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           36 LRLADIMHCHG--SPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        36 lglfd~L~~~g--~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      +.|.-.|...|  .++|..|||+.+++++..      +.++++-|...|++++....++...-.+++|+.++.+.
T Consensus        65 ~~vL~~L~~~~~~~~lt~~eLa~~l~i~~~t------vsr~l~~Le~~GlV~r~~~~~DrR~~~i~LT~~G~~l~  133 (172)
T d2fbka1          65 WDLLLTLYRSAPPEGLRPTELSALAAISGPS------TSNRIVRLLEKGLIERREDERDRRSASIRLTPQGRALV  133 (172)
T ss_dssp             HHHHHHHHHHCCSSCBCHHHHHHHCSCCSGG------GSSHHHHHHHHTSEECCC-------CCBEECHHHHHHH
T ss_pred             HHHHHHHHhhCCCCCcCHHHHHHHHCcCHhH------HHHHHHHHHhCCCeeeeccccchhhHHhhcCHHHHHHH
Confidence            34455554433  348999999999999888      99999999999999988732111223588999887554

>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=91.13  E-value=0.068  Score=39.26  Aligned_cols=55  Identities=20%  Similarity=0.267  Sum_probs=43.4

Q ss_pred             CCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491           47 SPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL  108 (266)
Q Consensus        47 ~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~  108 (266)
                      ++..+.||.+.+|+++.-      |.+=|+.|...|++.+.. ++.+..-.|++|+.++.|.
T Consensus        32 G~~rf~el~~~lgis~~v------Ls~rL~~L~~~gLv~r~~-~~~p~r~~Y~LT~~G~~L~   86 (142)
T d2f2ea1          32 GLTRFGEFQKSLGLAKNI------LAARLRNLVEHGVMVAVP-AESGSHQEYRLTDKGRALF   86 (142)
T ss_dssp             TCCSHHHHHHHHCCCHHH------HHHHHHHHHHTTSEEEEE-CSSSSCEEEEECHHHHTTH
T ss_pred             CCCCHHHHHHHhhccHHH------HHHHHHHHHHhcceeeec-CCCCCeeEEecCcCcchHH
Confidence            799999999999998655      999999999999998743 2111223599999997665

>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=90.58  E-value=0.056  Score=34.82  Aligned_cols=60  Identities=17%  Similarity=0.253  Sum_probs=50.1

Q ss_pred             HhcChhhHhhhCCCCCCHHHHHhhcCCCC-CCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhc
Q 042491           34 VELRLADIMHCHGSPITLPQLASGINSSC-PDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQIS  104 (266)
Q Consensus        34 ~elglfd~L~~~g~~~t~~eLA~~~g~~~-~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s  104 (266)
                      .+..|.+.|... ++.++-+||+.+|++- ..      +.+.|--|...|-+.+.+.+    +..|.++...
T Consensus         6 ~eekI~~~L~~~-g~~~Al~iak~lGl~kake------VN~~LY~L~k~g~v~k~~~t----PP~W~L~~~~   66 (73)
T d1xmka1           6 IKEKICDYLFNV-SDSSALNLAKNIGLTKARD------INAVLIDMERQGDVYRQGTT----PPIWHLTDKK   66 (73)
T ss_dssp             HHHHHHHHHHHT-CCEEHHHHHHHHCGGGHHH------HHHHHHHHHHTTSEEEECSS----SCEEEECHHH
T ss_pred             HHHHHHHHHHHc-CCchHHHHHHHhCCCcHHH------HhHHHHHHHHCCCeecCCCC----CCceeeecch
Confidence            456788999876 6899999999999986 34      99999999999999988743    5689988754

>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=89.92  E-value=0.062  Score=33.45  Aligned_cols=43  Identities=7%  Similarity=0.130  Sum_probs=34.7

Q ss_pred             hhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           39 ADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        39 fd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      |.+..+ +++++..+||+.+|+++..      +...++-|...|+++...
T Consensus        13 ~~l~~~-~~~v~~~~iA~~L~vs~~S------Vs~mikrL~~~GlV~~~~   55 (61)
T d2ev0a1          13 YMLIEE-KGYARVSDIAEALAVHPSS------VTKMVQKLDKDEYLIYEK   55 (61)
T ss_dssp             HHHHHH-HSSCCHHHHHHHHTCCHHH------HHHHHHHHHHTTSEEC--
T ss_pred             HHHHhc-CCCccHHHHHHHhCCCchh------HHHHHHHHHHCCCEEEcc
Confidence            344333 3789999999999999776      999999999999998765

>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=89.72  E-value=0.068  Score=34.47  Aligned_cols=43  Identities=14%  Similarity=0.311  Sum_probs=37.1

Q ss_pred             CCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchh
Q 042491           48 PITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQI  103 (266)
Q Consensus        48 ~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~  103 (266)
                      ++|-+|||+.+|+....      +.|.|..|...|++....       +.+.+...
T Consensus        27 ~lt~~elA~~lg~sr~t------vsr~l~~l~~~g~I~~~~-------~~i~I~d~   69 (73)
T d1zyba1          27 KVKMDDLARCLDDTRLN------ISKTLNELQDNGLIELHR-------KEILIPDA   69 (73)
T ss_dssp             ECCHHHHHHHHTSCHHH------HHHHHHHHHHTTSCEEET-------TEEEESCG
T ss_pred             ecCHHHHHHHHCCCHHH------HHHHHHHHHHCCCEEecC-------CEEEEccH
Confidence            57999999999999766      999999999999998776       77766543

>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=89.69  E-value=0.18  Score=43.47  Aligned_cols=75  Identities=20%  Similarity=0.175  Sum_probs=49.3

Q ss_pred             HHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCC-------------CeEEEeec-HHHHhhCC--------CCCCeE
Q 042491          181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPH-------------IKGVNFDL-PHVVATAP--------VYEGVS  238 (266)
Q Consensus       181 ~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~-------------l~~~~~Dl-p~v~~~a~--------~~~ri~  238 (266)
                      -+++.++  -....+|+|-.||+|.++.++.++..+             ....++|. |.+...+.        ....+.
T Consensus       153 ~mv~ll~--~~~~~~IlDPacGsG~fL~~a~~~~~~~~~~~~~~~~~~~~~l~g~E~~~~~~~la~~n~~l~g~~~~~~~  230 (425)
T d2okca1         153 AMVDCIN--PQMGETVCDPACGTGGFLLTAYDYMKGQSASKEKRDFLRDKALHGVDNTPLVVTLASMNLYLHGIGTDRSP  230 (425)
T ss_dssp             HHHHHHC--CCTTCCEEETTCTTCHHHHHHHHHHHTCC-CCHHHHHHHHTTEEEEESCHHHHHHHHHHHHHTTCCSSCCS
T ss_pred             hhheecc--CcccceeeccccccCccHHHHHHHHHhhccchhhhhhhhhhhhhhhhccHHHHHHHHhhhhhcCCccccce
Confidence            3344444  234579999999999999988776432             23667786 33333322        134567


Q ss_pred             EEEccCCCCCC--CccEEEec
Q 042491          239 HVGGDMLNAVP--NADAVFMK  257 (266)
Q Consensus       239 ~~~gd~~~~~p--~aD~~~l~  257 (266)
                      ...+|++...+  .+|+|+..
T Consensus       231 i~~~d~l~~~~~~~fD~Ii~N  251 (425)
T d2okca1         231 IVCEDSLEKEPSTLVDVILAN  251 (425)
T ss_dssp             EEECCTTTSCCSSCEEEEEEC
T ss_pred             eecCchhhhhcccccceEEec
Confidence            78899998544  49998763

>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=87.25  E-value=0.1  Score=33.14  Aligned_cols=45  Identities=9%  Similarity=0.026  Sum_probs=37.9

Q ss_pred             hhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCccccccc
Q 042491           38 LADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRS   89 (266)
Q Consensus        38 lfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~   89 (266)
                      ..+.|.. |+..|+.+||+.+|++.+.      +.|.|--|...|.+...+.
T Consensus        15 ~l~~L~~-~~~~tA~~LAk~Lg~~Kk~------VNr~LY~L~~~G~v~~~~~   59 (70)
T d1sfua_          15 EVLSLNT-NDYTTAISLSNRLKINKKK------INQQLYKLQKEDTVKMVPS   59 (70)
T ss_dssp             HHHTSCT-TCEECHHHHHHHTTCCHHH------HHHHHHHHHHTTSEEEECC
T ss_pred             HHHhcCC-CCCchHHHHHHHhCCCHHH------HHHHHHHHHHCCCeecCCC
Confidence            3455665 4789999999999998766      9999999999999998873

>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=86.19  E-value=0.19  Score=31.94  Aligned_cols=55  Identities=9%  Similarity=0.256  Sum_probs=41.3

Q ss_pred             ChhhHhhhC--CCCCCHHHHHhhc-CCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCch
Q 042491           37 RLADIMHCH--GSPITLPQLASGI-NSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQ  102 (266)
Q Consensus        37 glfd~L~~~--g~~~t~~eLA~~~-g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~  102 (266)
                      .||.+|...  ..++++.||++++ +++...      ++..++.|...|.+--.-.     ++.|+.|.
T Consensus        10 ~V~~~i~s~~~~eGi~~~el~~~l~~~~~~~------i~~aid~L~~eG~IYsTiD-----ddHfkstd   67 (69)
T d1dpua_          10 QVLNLIKACPRPEGLNFQDLKNQLKHMSVSS------IKQAVDFLSNEGHIYSTVD-----DDHFKSTD   67 (69)
T ss_dssp             HHHHHHHHCCCTTTEEHHHHHHHSTTSCHHH------HHHHHHHHHHTTSEEECSS-----TTEEEESS
T ss_pred             HHHHHHHhCCCccCcCHHHHHHHccCCCHHH------HHHHHHHHHhCCceecccc-----cchhcccC
Confidence            344444431  2679999999998 798877      9999999999999975542     47787653

>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=86.09  E-value=0.18  Score=32.74  Aligned_cols=43  Identities=14%  Similarity=0.159  Sum_probs=36.8

Q ss_pred             CCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCch
Q 042491           47 SPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQ  102 (266)
Q Consensus        47 ~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~  102 (266)
                      -++|-+|||..+|+....      +.|.|.-|...|++...+       +.+.+..
T Consensus        28 ~~lt~~eLA~~~G~sret------vsr~L~~l~~~glI~~~~-------~~i~I~d   70 (81)
T d2gaua1          28 IYLSREELATLSNMTVSN------AIRTLSTFVSERMLALDG-------KRIKIID   70 (81)
T ss_dssp             CCCCHHHHHHHTTSCHHH------HHHHHHHHHHTTSEEEET-------TEEEESC
T ss_pred             ecCCHHHHHHHHCCCHHH------HHHHHHHHHHCCCEEecC-------CEEEEcC
Confidence            478999999999998766      999999999999999877       5665544

>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=85.92  E-value=0.45  Score=31.53  Aligned_cols=51  Identities=14%  Similarity=0.064  Sum_probs=39.3

Q ss_pred             CCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhc
Q 042491           45 HGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQIS  104 (266)
Q Consensus        45 ~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s  104 (266)
                      .|.|++..+|++..|++-.    +..++..|..|...|+|.+...+     +..-.|..+
T Consensus        20 ~g~Pv~s~~i~~~~~l~~S----~aTIRn~m~~LE~~G~l~~~h~s-----~GriPT~~g   70 (87)
T d1stza1          20 NKKPVSSQRVLEVSNIEFS----SATIRNDMKKLEYLGYIYQPHTS-----AGRIPTDKG   70 (87)
T ss_dssp             HCSCBCHHHHHHHSCCCSC----HHHHHHHHHHHHHTTSEECCSSC-----SCBEECHHH
T ss_pred             cCCccCHHHHHHHhCCCCC----HHHHHHHHHHHHHCCcccCCCCC-----CCCcccHHH
Confidence            3789999999999887522    35599999999999999987643     334466655

>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=85.92  E-value=0.14  Score=32.27  Aligned_cols=35  Identities=26%  Similarity=0.396  Sum_probs=32.4

Q ss_pred             CCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           48 PITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        48 ~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      ++|-+|||..+|+....      +.|+|+-|...|++...+
T Consensus        29 ~lt~~~lA~~~G~sRet------vsr~L~~l~~~glI~~~~   63 (69)
T d1i5za1          29 KITRQEIGQIVGCSRET------VGRILKMLEDQNLISAHG   63 (69)
T ss_dssp             ECCHHHHHHHHTCCHHH------HHHHHHHHHHTTSEEEET
T ss_pred             CCCHHHHHHHHCCCHHH------HHHHHHHHHHCCCEEEcC
Confidence            68999999999998766      999999999999999876

>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=85.57  E-value=0.11  Score=34.66  Aligned_cols=46  Identities=17%  Similarity=0.342  Sum_probs=38.5

Q ss_pred             ChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           37 RLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        37 glfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      .|++.|.+.++.+|=++||+.+|+....      ++++|..|...|++....
T Consensus        22 ~v~~~L~~~~~evtDe~iA~~tgi~in~------VRk~Ly~L~~~~L~~y~R   67 (88)
T d1q1ha_          22 DVLRILLDKGTEMTDEEIANQLNIKVND------VRKKLNLLEEQGFVSYRK   67 (88)
T ss_dssp             HHHHHHHHHCSCBCHHHHHHTTTSCHHH------HHHHHHHHHHHTSCEEEE
T ss_pred             HHHHHHHhccCcCCHHHHHHHhCCcHHH------HHHHHHHHHhCCceEEEE
Confidence            4777776434679999999999998766      999999999999996554

>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=85.17  E-value=0.35  Score=34.08  Aligned_cols=54  Identities=15%  Similarity=0.254  Sum_probs=44.2

Q ss_pred             HHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           33 AVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        33 a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      ..|+.|.++|.+.|+|.|+.||.+.+.-+..  .....+..+|+-|...|+|....
T Consensus         7 ~~E~~IM~~lW~~g~~~t~~eI~~~l~~~~~--~~~sTV~T~L~rL~~Kg~l~~~~   60 (122)
T d2g9wa1           7 DLERAVMDHLWSRTEPQTVRQVHEALSARRD--LAYTTVMAVLQRLAKKNLVLQIR   60 (122)
T ss_dssp             HHHHHHHHHHHTCSSCEEHHHHHHHHTTTCC--CCHHHHHHHHHHHHHTTSEEEEC
T ss_pred             HHHHHHHHHHHcCCCCccHHHHHHHHhccCC--CcHHHHHHHHHHHHHCCCEEEee
Confidence            3577899999987678999999999965422  23567999999999999999887

>d1s6la1 a.4.5.79 (A:21-80) Alkylmercury lyase MerB {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: MerB N-terminal domain-like
domain: Alkylmercury lyase MerB
species: Escherichia coli [TaxId: 562]

Probab=85.09  E-value=0.8  Score=27.72  Aligned_cols=41  Identities=17%  Similarity=0.217  Sum_probs=29.2

Q ss_pred             hhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           38 LADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        38 lfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      ++..|+. |.|+|.+.||..+|.+         ..++-.+|.++-=.+.++
T Consensus         7 LLr~LA~-G~PVs~~~LA~alg~~---------~~eV~~aL~~~p~tEyD~   47 (60)
T d1s6la1           7 LLRELAK-GRPVSRTTLAGILDWP---------AERVAAVLEQATSTEYDK   47 (60)
T ss_dssp             HHHHHHT-TCCBCHHHHHHHHTCC---------HHHHHHHHTTCCSSCEET
T ss_pred             HHHHHhC-CCCcCHHHHHHHhCCC---------HHHHHHHHHhCCCceecC
Confidence            4566776 7899999999999998         556666665554344443

>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=85.03  E-value=0.95  Score=37.90  Aligned_cols=63  Identities=11%  Similarity=0.212  Sum_probs=38.9

Q ss_pred             CchHHHHHHHHHHhhhHHHHHHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCC-------CCeEEEeecHHHH
Q 042491          160 NSQFNNSFNKAMACTAKIVMSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYP-------HIKGVNFDLPHVV  228 (266)
Q Consensus       160 ~~~~~~~f~~~m~~~~~~~~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P-------~l~~~~~Dlp~v~  228 (266)
                      .|+....|.+.++..   . -.+.....  -++...||++|+|+|.++..+++...       .++..+++....+
T Consensus        53 sp~is~~Fg~~ia~~---~-~~~~~~~~--~~~~~~ivE~GaG~G~La~dil~~l~~~~~~~~~~~~~~vE~s~~L  122 (365)
T d1zkda1          53 SPEISQMFGELLGLW---S-ASVWKAAD--EPQTLRLIEIGPGRGTMMADALRALRVLPILYQSLSVHLVEINPVL  122 (365)
T ss_dssp             HHHHCHHHHHHHHHH---H-HHHHHHTT--CCSSEEEEEECCTTSHHHHHHHHHHTTSHHHHTTEEEEEECCCHHH
T ss_pred             CCchHHHHHHHHHHH---H-HHHHHHhC--CCccceEEecCCcccHHHHhhhhhhcccccccccceEEEeccchhH
Confidence            355656666665332   1 12223333  34567899999999999988877643       2356777774443

>d2bm8a1 c.66.1.50 (A:2-233) Cephalosporin hydroxylase CmcI {Streptomyces clavuligerus [TaxId: 1901]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: CmcI-like
domain: Cephalosporin hydroxylase CmcI
species: Streptomyces clavuligerus [TaxId: 1901]

Probab=84.94  E-value=0.63  Score=36.63  Aligned_cols=65  Identities=17%  Similarity=0.208  Sum_probs=42.9

Q ss_pred             CCceEEEecCCchHHHHHH---HH-HCCCCeEEEeecH-HHHhhCC-CCCCeEEEEccCCCC-----CC--CccEEEe
Q 042491          192 GIRSLVDVGGGTGEELAEI---VE-FYPHIKGVNFDLP-HVVATAP-VYEGVSHVGGDMLNA-----VP--NADAVFM  256 (266)
Q Consensus       192 ~~~~vvDvGgG~G~~~~~l---~~-~~P~l~~~~~Dlp-~v~~~a~-~~~ri~~~~gd~~~~-----~p--~aD~~~l  256 (266)
                      ++++||+||.+.|.-+.-+   ++ ..++.+++.+|.. ....... ..+||+++.||..++     +.  ..|.+++
T Consensus        80 KPk~ILEIGv~~GgS~~~~a~~l~~~~~~~kI~giDId~~~~~~~~~~~~~I~~i~gDs~~~~~~~~l~~~~~dlIfI  157 (232)
T d2bm8a1          80 RPRTIVELGVYNGGSLAWFRDLTKIMGIDCQVIGIDRDLSRCQIPASDMENITLHQGDCSDLTTFEHLREMAHPLIFI  157 (232)
T ss_dssp             CCSEEEEECCTTSHHHHHHHHHHHHTTCCCEEEEEESCCTTCCCCGGGCTTEEEEECCSSCSGGGGGGSSSCSSEEEE
T ss_pred             CCCEEEEECCCCchHHHHHHHHHHhcCCCceEEecCcChhhhhhhhccccceeeeecccccHHHHHHHHhcCCCEEEE
Confidence            4689999999888655433   33 3478899999973 2222111 268999999997652     22  2676655

>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=84.57  E-value=0.27  Score=31.87  Aligned_cols=43  Identities=19%  Similarity=0.322  Sum_probs=36.6

Q ss_pred             CCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCch
Q 042491           48 PITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQ  102 (266)
Q Consensus        48 ~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~  102 (266)
                      |+|-+|||..+|++...      +.|.|+.|...|+++..+      .+.+.+..
T Consensus        30 ~~t~~eiA~~lG~sret------vsr~l~~l~~~g~I~~~~------~~~i~I~d   72 (80)
T d1ft9a1          30 DFTVEEIANLIGSSRQT------TSTALNSLIKEGYISRQG------RGHYTIPN   72 (80)
T ss_dssp             CCCHHHHHHHHCSCHHH------HHHHHHHHHHTTSSEECS------TTCEECSS
T ss_pred             CCCHHHHHHHHCCCHHH------HHHHHHHHHHCCCEEECC------CCeEEECC
Confidence            78999999999998766      999999999999999775      36666554

>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=83.34  E-value=0.22  Score=29.61  Aligned_cols=41  Identities=17%  Similarity=0.207  Sum_probs=31.0

Q ss_pred             hhhHhhhC-CCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcc
Q 042491           38 LADIMHCH-GSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVF   84 (266)
Q Consensus        38 lfd~L~~~-g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil   84 (266)
                      +.+.|.++ ..++|+++||+.+|+++..      +.|+.+......+.
T Consensus         8 v~~yI~~~~~~~~tl~~lA~~~~~s~~~------l~r~Fk~~~g~tp~   49 (54)
T d1bl0a1           8 ILDWIEDNLESPLSLEKVSERSGYSKWH------LQRMFKKETGHSLG   49 (54)
T ss_dssp             HHHHHHTTTTSCCCCHHHHHHSSSCHHH------HHHHHHHHHSSCHH
T ss_pred             HHHHHHhccCCCCCHHHHHHHHCcCHHH------HHHHHHHHHCcCHH
Confidence            34445443 2799999999999999876      99998887766543

>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=83.31  E-value=0.21  Score=31.52  Aligned_cols=37  Identities=14%  Similarity=0.364  Sum_probs=33.5

Q ss_pred             CCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           46 GSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        46 g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      |..++..+||+.+|++...      +.+-++.|...|++....
T Consensus        23 G~~l~~~~La~~~~vSr~t------vr~Al~~L~~~Gli~~~~   59 (69)
T d2hs5a1          23 GARLSEPDICAALDVSRNT------VREAFQILIEDRLVAHEL   59 (69)
T ss_dssp             TCEECHHHHHHHHTCCHHH------HHHHHHHHHHTTSEEEET
T ss_pred             cCccCHHHHHHHHCCCHHH------HHHHHHHHHHCCcEEEEc
Confidence            5667899999999999776      999999999999999887

>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=83.13  E-value=0.3  Score=31.53  Aligned_cols=44  Identities=20%  Similarity=0.336  Sum_probs=37.1

Q ss_pred             CCCC-CHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeC
Q 042491           46 GSPI-TLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGL  100 (266)
Q Consensus        46 g~~~-t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~l  100 (266)
                      |..+ |..+||+.++++...      +.+-++.|...|++....     |.|.|-.
T Consensus        19 G~~LPse~~La~~~~vSr~t------vr~Al~~L~~~Gli~~~~-----g~G~~V~   63 (78)
T d3bwga1          19 GDKLPVLETLMAQFEVSKST------ITKSLELLEQKGAIFQVR-----GSGIFVR   63 (78)
T ss_dssp             TCBCCCHHHHHHHTTCCHHH------HHHHHHHHHHTTSEEEET-----TTEEEEC
T ss_pred             cCCCcCHHHHHHHHCCCHHH------HHHHHHHHHHCCcEEEEc-----CcEEEEc
Confidence            4567 899999999999766      999999999999999887     3466643

>d2dk5a1 a.4.5.85 (A:8-85) DNA-directed RNA polymerase III subunit RPC6, RPO3F {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: RPO3F domain-like
domain: DNA-directed RNA polymerase III subunit RPC6, RPO3F
species: Human (Homo sapiens) [TaxId: 9606]

Probab=82.54  E-value=0.39  Score=31.17  Aligned_cols=46  Identities=17%  Similarity=0.200  Sum_probs=40.7

Q ss_pred             ChhhHhhhCC-CCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           37 RLADIMHCHG-SPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        37 glfd~L~~~g-~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      -|+++|..+| .++...+|-.+++++...      +.+.|+.|.+.+++....
T Consensus        17 lVY~~I~~ag~~GIW~~dir~ktnL~~~~------l~K~LK~Lesk~lIK~Vk   63 (78)
T d2dk5a1          17 LVYQIIEDAGNKGIWSRDVRYKSNLPLTE------INKILKNLESKKLIKAVK   63 (78)
T ss_dssp             HHHHHHHHHCTTCEEHHHHHHHTTCCHHH------HHHHHHHHHHTTSEEEEC
T ss_pred             HHHHHHHHccccceeHHHHHHHcCCCHHH------HHHHHHHHHhcCCceeec
Confidence            3677887766 789999999999999776      999999999999999887

>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=82.26  E-value=0.28  Score=31.49  Aligned_cols=37  Identities=19%  Similarity=0.338  Sum_probs=33.5

Q ss_pred             CCCC-CHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           46 GSPI-TLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        46 g~~~-t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      |..+ |..+||+.++++...      +.+-++.|...|++....
T Consensus        24 G~~LPs~~eLa~~~~vSr~t------vr~Al~~L~~~G~i~~~~   61 (74)
T d1hw1a1          24 GTILPAERELSELIGVTRTT------LREVLQRLARDGWLTIQH   61 (74)
T ss_dssp             TSBCCCHHHHHHHHTCCHHH------HHHHHHHHHHTTSEEEET
T ss_pred             cCCCccHHHHHHHHCCCHHH------HHHHHHHHHHCCcEEEEe
Confidence            4567 899999999999766      999999999999999887

>d3e5ua1 a.4.5.4 (A:148-227) Chlorophenol reduction protein CprK {Desulfitobacterium hafniense [TaxId: 49338]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: CAP C-terminal domain-like
domain: Chlorophenol reduction protein CprK
species: Desulfitobacterium hafniense [TaxId: 49338]

Probab=81.74  E-value=0.26  Score=31.86  Aligned_cols=36  Identities=11%  Similarity=0.290  Sum_probs=31.5

Q ss_pred             CCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           47 SPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        47 ~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      -++|-+|||..+|+....      +.|+|.-|...|++...+
T Consensus        29 ~~lt~~elA~~~g~sret------vsr~l~~l~~~glI~~~~   64 (80)
T d3e5ua1          29 MPLSQKSIGEITGVHHVT------VSRVLASLKRENILDKKK   64 (80)
T ss_dssp             SCCCHHHHHHHHTCCHHH------HHHHHHHHHHTTSEEC--
T ss_pred             eCCCHHHHHHHHCCCHHH------HHHHHHHHHHCCcEEecC
Confidence            479999999999998766      999999999999998766

>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=80.73  E-value=0.13  Score=36.16  Aligned_cols=52  Identities=12%  Similarity=0.195  Sum_probs=40.5

Q ss_pred             HhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491           34 VELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR   88 (266)
Q Consensus        34 ~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~   88 (266)
                      .|+.|..+|... ++.|+.||++.+..+..  -....+..+|+-|...|++.+..
T Consensus         8 ~E~~VM~~lW~~-~~~t~~ei~~~l~~~~~--~~~sTv~t~L~rL~~Kg~l~r~~   59 (120)
T d1okra_           8 AEWEVMNIIWMK-KYASANNIIEEIQMQKD--WSPKTIRTLITRLYKKGFIDRKK   59 (120)
T ss_dssp             HHHHHHHHHHHH-SSEEHHHHHHHHHHHCC--CCHHHHHHHHHHHHHHTSEEEEE
T ss_pred             HHHHHHHHHHcC-CCCCHHHHHHHHhcccC--ccHHhHHHHHHHHHHCCCeEEEe
Confidence            577889999886 69999999998842111  11345999999999999998876

>d1nd9a_ a.6.1.6 (A:) N-terminal subdomain of bacterial translation initiation factor IF2 {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: Putative DNA-binding domain
superfamily: Putative DNA-binding domain
family: N-terminal subdomain of bacterial translation initiation factor IF2
domain: N-terminal subdomain of bacterial translation initiation factor IF2
species: Escherichia coli [TaxId: 562]

Probab=80.20  E-value=0.79  Score=26.81  Aligned_cols=28  Identities=21%  Similarity=0.421  Sum_probs=25.7

Q ss_pred             CCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCccc
Q 042491           49 ITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFA   85 (266)
Q Consensus        49 ~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~   85 (266)
                      +|++++|+.+|++         +.|+|..|...|+-+
T Consensus         3 vTVk~lA~~v~~~---------vd~Ll~Ql~~AGl~k   30 (49)
T d1nd9a_           3 VTIKTLAAERQTS---------VERLVQQFADAGIRK   30 (49)
T ss_dssp             ECTTHHHHHHSSS---------HHHHHHHHHHHTSCC
T ss_pred             ccHHHHHHHHCcC---------HHHHHHHHHHcCCCC
Confidence            6899999999997         899999999999954