Citrus Sinensis ID: 036971

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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-
Protein Sequence
MGSSTESKSKVTNEEEEVYSHAMVLGSAIVLPAVFQAVVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPVAKYYVSDQNGVSMRPYMNLSLDKVMMPGWFQLKDQILEGELSYNKALGMDFYDYLGTDSRFNEVFNNGMIGQTSFVINKIVESYKGFQNITRLVDVGGGLGITLSDHNFQIPSY
Secondary Structure (PSIPRED)
cccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcHHHHHHHccccccccHHHHHHHccccccccHHHHHHHHHHHHHHHccEEEEccccccccEEccccccccccccccccHHHHHHHcccccHHHHHHHHHHHHHccccHHHHHHcccHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHcccccccccEEEEcccccHHHHHHHHHcccc
Secondary Structure Prediction (SSPRO)
cccccccHHHHHHHcccHHHHHHHHHcccHHHHHHHHHHHccHHHHHHcccccccEcHHHHHccccccccccHHHHHHHHHHHHHHcccEEEEEcccccEEEEEcHHHccccccEccEccHHHHHHHccHHHHHHHccHHHHHHHcccHHHHHHcccHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccEEEEccccccHHHHHHHHcccc
Coil and Loop (DISEMBL)
mgssteskskvtneeEEVYSHAMVLGSAIVLPAVFQAVVNLDVLDIinkagpgaelsaseiasqiptknpeGAAKMLDRVLGLLVSFNILCcsfsthgvrlyslaPVAKyyvsdqngvsmrpymnlsldkvmmpgwfqLKDQILEGELSYnkalgmdfydylgtdsrfnevfnngmigqTSFVINKIVESYKGFQNITRLVDvggglgitlsdhnfqipsy
Flexible Loop (DISEMBL)
mgssteskskvtnEEEEVYSHAMVLGSAIVLPAVFQAVVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPVAKYYVSDQNGVSMRPYMNLSLDKVMMPGWFQLKDQILEGELSYNKALGMDFYDYLGTDSRFNEVFNNGMIGQTSFVINKIVESYKGFQNITRLVDVGGGLGItlsdhnfqipsy
Low Complexity Region (SEG)
MGSSTESKSKVTNEEEEVYSHAMVLGSAIVLPAVFQAVVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPVAKYYVSDQNGVSMRPYMNLSLDKVMMPGWFQLKDQILEGELSYNKALGMDFYDYLGTDSRFNEVFNNGMIGQTSFVINKIVESYKGFQNITRLVDVGGGLGITLSDHNFQIPSY
Disordered region (IsUnstruct)
*****************VYSHAMVLGSAIVLPAVFQAVVNLDVLDIINKAG***********************KMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPVAKYYVSDQNGVSMRPYMNLSLDKVMMPGWFQLKDQILEGELSYNKALGMDFYDYLGTDSRFNEVFNNGMIGQTSFVINKIVESYKGFQNITRLVDVGGGLGITLSDHN******
Disordered Region (DISOPRED)
****************EVYSHAMVLGSAIVLPAVFQAVVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPVAKYYVSDQNGVSMRPYMNLSLDKVMMPGWFQLKDQILEGELSYNKALGMDFYDYLGTDSRFNEVFNNGMIGQTSFVINKIVESYKGFQNITRLVDVGGGLGITLSDHNFQIP**
Disordered Region (DISEMBL)
*****************VYSHAMVLGSAIVLPAVFQAVVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPVAKYYVSDQNGVSMRPYMNLSLDKVMMPGWFQLKDQILEGELSYNKALGMDFYDYLGTDSRFNEVFNNGMIGQTSFVINKIVESYKGFQNITRLVDVGGGLGITLSDHNFQIPSY
Disordered Region (DISPRO)
***********TNEEEEVYSHAMVLGSAIVLPAVFQAVVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPVAKYYVSDQNGVSMRPYMNLSLDKVMMPGWFQLKDQILEGELSYNKALGMDFYDYLGTDSRFNEVFNNGMIGQTSFVINKIVESYKGFQNITRLVDVGGGLGITLSDHNFQIPSY
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MGSSTESKSKVTNEEEEVYSHAMVLGSAIVLPAVFQAVVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPVAKYYVSDQNGVSMRPYMNLSLDKVMMPGWFQLKDQILEGELSYNKALGMDFYDYLGTDSRFNEVFNNGMIGQTSFVINKIVESYKGFQNITRLVDVGGGLGITLSDHNFQIPSY
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	221	2.2.26 [Sep-21-2011]
Q43046	365	Caffeic acid 3-O-methyltr	N/A	no	0.990	0.6	0.484	5e-53
Q8W013	363	Caffeic acid 3-O-methyltr	N/A	no	0.954	0.581	0.479	1e-52
Q00763	365	Caffeic acid 3-O-methyltr	N/A	no	0.990	0.6	0.48	1e-52
Q9FQY8	359	Caffeic acid 3-O-methyltr	N/A	no	0.927	0.571	0.466	8e-51
Q43609	365	Caffeic acid 3-O-methyltr	N/A	no	0.945	0.572	0.474	1e-50
O81646	359	Caffeic acid 3-O-methyltr	N/A	no	0.941	0.579	0.472	1e-50
Q8LL87	350	Caffeic acid 3-O-methyltr	N/A	no	0.891	0.562	0.490	3e-50
Q43047	364	Caffeic acid 3-O-methyltr	N/A	no	0.990	0.601	0.473	4e-50
Q8GU25	365	Caffeic acid 3-O-methyltr	N/A	no	0.927	0.561	0.479	6e-50
P46484	366	Caffeic acid 3-O-methyltr	N/A	no	0.941	0.568	0.462	7e-50

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

 Score =  207 bits (526), Expect = 5e-53,   Method: Compositional matrix adjust.
 Identities = 109/225 (48%), Positives = 149/225 (66%), Gaps = 6/225 (2%)

Query: 1   MGSSTESKSKVTN-EEEEVYSHAMVLGSAIVLPAVFQAVVNLDVLDIINKAGPGAELSAS 59
           MGS+ E++   T   +EE +  AM L SA VLP + +  + LD+L+I+ KAGPGA LS S
Sbjct: 1   MGSTGETQMTPTQVSDEEAHLFAMQLASASVLPMILKTAIELDLLEIMAKAGPGAFLSTS 60

Query: 60  EIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFST----HGVRLYSLAPVAKYYVSDQ 115
           EIAS +PTKNP+ A  MLDR+L LL S++IL CS          RLY LAPV K+   ++
Sbjct: 61  EIASHLPTKNPD-APVMLDRILRLLASYSILTCSLKDLPDGKVERLYGLAPVCKFLTKNE 119

Query: 116 NGVSMRPYMNLSLDKVMMPGWFQLKDQILEGELSYNKALGMDFYDYLGTDSRFNEVFNNG 175
           +GVS+ P   ++ DKV+M  W+ LKD ILEG + +NKA GM  ++Y GTD RFN+VFN G
Sbjct: 120 DGVSVSPLCLMNQDKVLMESWYYLKDAILEGGIPFNKAYGMTAFEYHGTDPRFNKVFNKG 179

Query: 176 MIGQTSFVINKIVESYKGFQNITRLVDVGGGLGITLSDHNFQIPS 220
           M   ++  + KI+E+YKGF+ +T LVDVGGG G  ++    + PS
Sbjct: 180 MSDHSTITMKKILETYKGFEGLTSLVDVGGGTGAVVNTIVSKYPS 224

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

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

 Score =  206 bits (523), Expect = 1e-52,   Method: Compositional matrix adjust.
 Identities = 104/217 (47%), Positives = 152/217 (70%), Gaps = 6/217 (2%)

Query: 1   MGSST-ESKSKVTNEEEEVYSHAMVLGSAIVLPAVFQAVVNLDVLDIINKAGPGAELSAS 59
           MGS+  ++K+ +T EEEE    AM L SA VLP V ++ + LD+L++I K+GPGA +S S
Sbjct: 1   MGSANPDNKNSMTKEEEEACLSAMRLASASVLPMVLKSAIELDLLELIKKSGPGAYVSPS 60

Query: 60  EIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFST---HGV-RLYSLAPVAKYYVSDQ 115
           E+A+Q+PT+NP+ A  MLDR+L LL S+++L C+       G+ RLYSLAPV K+   ++
Sbjct: 61  ELAAQLPTQNPD-APVMLDRILRLLASYSVLNCTLKDLPDGGIERLYSLAPVCKFLTKNE 119

Query: 116 NGVSMRPYMNLSLDKVMMPGWFQLKDQILEGELSYNKALGMDFYDYLGTDSRFNEVFNNG 175
           +GVSM   + ++ DKV+M  W+ LKD +LEG + +NKA GM  ++Y G D RFN+VFN G
Sbjct: 120 DGVSMAALLLMNQDKVLMESWYHLKDAVLEGGIPFNKAYGMTAFEYHGKDPRFNKVFNQG 179

Query: 176 MIGQTSFVINKIVESYKGFQNITRLVDVGGGLGITLS 212
           M   ++ ++ KI+E Y+GFQ +  +VDVGGG G TL+
Sbjct: 180 MSNHSTIIMKKILEIYQGFQGLKTVVDVGGGTGATLN 216

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

Catharanthus roseus (taxid: 4058)

EC: 2

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 6

EC: 8

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

 Score =  206 bits (523), Expect = 1e-52,   Method: Compositional matrix adjust.
 Identities = 108/225 (48%), Positives = 149/225 (66%), Gaps = 6/225 (2%)

Query: 1   MGSSTESKSKVTN-EEEEVYSHAMVLGSAIVLPAVFQAVVNLDVLDIINKAGPGAELSAS 59
           MGS+ E++   T   +EE +  AM L SA VLP + +  + LD+L+I+ KAGPGA LS S
Sbjct: 1   MGSTGETQMTPTQVSDEEAHLFAMQLASASVLPMILKTAIELDLLEIMAKAGPGAFLSTS 60

Query: 60  EIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFST----HGVRLYSLAPVAKYYVSDQ 115
           EIAS +PTKNP+ A  MLDR+L LL S++IL CS          RLY LAPV K+   ++
Sbjct: 61  EIASHLPTKNPD-APVMLDRILRLLASYSILTCSLKDLPDGKVERLYGLAPVCKFLTKNE 119

Query: 116 NGVSMRPYMNLSLDKVMMPGWFQLKDQILEGELSYNKALGMDFYDYLGTDSRFNEVFNNG 175
           +GVS+ P   ++ DKV+M  W+ LKD IL+G + +NKA GM  ++Y GTD RFN+VFN G
Sbjct: 120 DGVSVSPLCLMNQDKVLMESWYYLKDAILDGGIPFNKAYGMTAFEYHGTDPRFNKVFNKG 179

Query: 176 MIGQTSFVINKIVESYKGFQNITRLVDVGGGLGITLSDHNFQIPS 220
           M   ++  + KI+E+YKGF+ +T LVDVGGG G  ++    + PS
Sbjct: 180 MSDHSTITMKKILETYKGFEGLTSLVDVGGGTGAVVNTIVSKYPS 224

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

 Score =  200 bits (508), Expect = 8e-51,   Method: Compositional matrix adjust.
 Identities = 98/210 (46%), Positives = 142/210 (67%), Gaps = 5/210 (2%)

Query: 7   SKSKVTNEEEEVYSHAMVLGSAIVLPAVFQAVVNLDVLDIINKAGPGAELSASEIASQIP 66
           +   +T  E+E +  AM L SA VLP V ++ + LD+L+I+ KAGPGA +S SE+A+Q+P
Sbjct: 4   TNQNLTQTEDEAFLFAMQLASASVLPMVLKSALELDLLEIMAKAGPGAAISPSELAAQLP 63

Query: 67  TKNPEGAAKMLDRVLGLLVSFNILCCSFST----HGVRLYSLAPVAKYYVSDQNGVSMRP 122
           TKNPE A  MLDR+L LL ++++L C+  T       RLYSLAPV K    + +GVS+ P
Sbjct: 64  TKNPE-APVMLDRMLRLLATYSVLNCTLRTLPDGRVERLYSLAPVCKLLTKNADGVSVAP 122

Query: 123 YMNLSLDKVMMPGWFQLKDQILEGELSYNKALGMDFYDYLGTDSRFNEVFNNGMIGQTSF 182
            + ++ DKV+M  W+ L D +L+G + +NKA GM  ++Y GTD RFN+VFN GM   ++ 
Sbjct: 123 LLLMNQDKVLMESWYHLTDAVLDGGVPFNKAYGMTAFEYHGTDPRFNKVFNRGMSDHSTM 182

Query: 183 VINKIVESYKGFQNITRLVDVGGGLGITLS 212
            + KI+E YKGF+ +  +VDVGGG G T++
Sbjct: 183 TMKKILEDYKGFEGLNSIVDVGGGTGATVN 212

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

Capsicum annuum (taxid: 4072)

EC: 2

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 6

EC: 8

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

 Score =  199 bits (506), Expect = 1e-50,   Method: Compositional matrix adjust.
 Identities = 104/219 (47%), Positives = 149/219 (68%), Gaps = 10/219 (4%)

Query: 1   MGSSTESK---SKVTNEEEEVYSHAMVLGSAIVLPAVFQAVVNLDVLDIINKAGPGAELS 57
           MGS+ E++   ++V++EE  ++  AM L SA VLP V +A + LD+L+I+ KAGPG  LS
Sbjct: 1   MGSTGETQMTPTQVSDEEANLF--AMQLASASVLPMVLKAAIELDLLEIMAKAGPGVFLS 58

Query: 58  ASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHG----VRLYSLAPVAKYYVS 113
            ++IASQ+PTKNP+ A  MLDR+L LL S++IL  S  T       RLY L PV K+   
Sbjct: 59  PTDIASQLPTKNPD-APVMLDRMLRLLASYSILTYSLRTLADGKVERLYGLGPVCKFLTK 117

Query: 114 DQNGVSMRPYMNLSLDKVMMPGWFQLKDQILEGELSYNKALGMDFYDYLGTDSRFNEVFN 173
           ++ GVS+ P   ++ DKV++  W+ LKD +LEG + +NKA GM  ++Y GTD RFN+VFN
Sbjct: 118 NEEGVSIAPLCLMNQDKVLLESWYHLKDAVLEGGIPFNKAYGMTAFEYHGTDPRFNKVFN 177

Query: 174 NGMIGQTSFVINKIVESYKGFQNITRLVDVGGGLGITLS 212
            GM   ++  + KI+E+YKGF+ +T +VDVGGG G  L+
Sbjct: 178 RGMADHSTITMKKILETYKGFEGLTSVVDVGGGTGAVLN 216

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

 Score =  199 bits (505), Expect = 1e-50,   Method: Compositional matrix adjust.
 Identities = 102/216 (47%), Positives = 145/216 (67%), Gaps = 8/216 (3%)

Query: 1   MGSSTESKSKVTNEEEEVYSHAMVLGSAIVLPAVFQAVVNLDVLDIINKAGPGAELSASE 60
           MGS  +S   +T  E+E +  AM L SA VLP V +A V LD+L+I+ K+GPGA +S SE
Sbjct: 1   MGSINQS---LTQTEDEAFVFAMQLASASVLPMVLKATVELDLLEIMAKSGPGAFISPSE 57

Query: 61  IASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFST----HGVRLYSLAPVAKYYVSDQN 116
           +A+Q+PTKNPE A  MLDR+  LL ++++L C+  T       RLYSLAPV K+   + +
Sbjct: 58  LAAQLPTKNPE-APVMLDRMFRLLATYSVLNCTLRTLPDGRVERLYSLAPVCKFLTKNGD 116

Query: 117 GVSMRPYMNLSLDKVMMPGWFQLKDQILEGELSYNKALGMDFYDYLGTDSRFNEVFNNGM 176
           GVS+ P + ++ DKV+M  W+ L D +L+G + +NKA GM  ++Y GTD RFN+VFN GM
Sbjct: 117 GVSIAPILLMNQDKVLMESWYHLTDAVLDGGVPFNKAYGMTTFEYHGTDPRFNKVFNCGM 176

Query: 177 IGQTSFVINKIVESYKGFQNITRLVDVGGGLGITLS 212
              T+  + KI+E Y GF+ +  +VDVGGG G T++
Sbjct: 177 SDHTTLSMKKILEDYTGFEGLNSIVDVGGGTGATVN 212

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

Capsicum chinense (taxid: 80379)

EC: 2

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 6

EC: 8

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

 Score =  198 bits (503), Expect = 3e-50,   Method: Compositional matrix adjust.
 Identities = 99/202 (49%), Positives = 140/202 (69%), Gaps = 5/202 (2%)

Query: 15  EEEVYSHAMVLGSAIVLPAVFQAVVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAA 74
           EEE    AM L SA VLP V ++ + LD+L++I KAGPGA +S SE+A+Q+PT NPE A 
Sbjct: 3   EEEACLFAMSLASASVLPMVLKSAIELDLLELIAKAGPGAYVSPSELAAQLPTHNPE-AP 61

Query: 75  KMLDRVLGLLVSFNILCC---SFSTHGV-RLYSLAPVAKYYVSDQNGVSMRPYMNLSLDK 130
            MLDR+L LL ++++L C   + +  GV RLY LAPV K+   + +GVSM P + ++ DK
Sbjct: 62  IMLDRILRLLATYSVLDCKLNNLADGGVERLYGLAPVCKFLTKNADGVSMAPLLLMNQDK 121

Query: 131 VMMPGWFQLKDQILEGELSYNKALGMDFYDYLGTDSRFNEVFNNGMIGQTSFVINKIVES 190
           V+M  W+ LKD +L+G + +NKA GM  ++Y GTD RFN+VFN GM   ++  + KI+E 
Sbjct: 122 VLMESWYHLKDAVLDGGIPFNKAYGMTAFEYHGTDPRFNKVFNQGMSNHSTITMKKILEV 181

Query: 191 YKGFQNITRLVDVGGGLGITLS 212
           Y+GF+ +  +VDVGGG G TL+
Sbjct: 182 YRGFEGLKTVVDVGGGTGATLN 203

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

Coffea canephora (taxid: 49390)

EC: 2

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 6

EC: 8

>sp|Q43047|COMT3_POPKI Caffeic acid 3-O-methyltransferase 3 OS=Populus kitakamiensis GN=HOMT3 PE=3 SV=1

 Score =  197 bits (501), Expect = 4e-50,   Method: Compositional matrix adjust.
 Identities = 106/224 (47%), Positives = 144/224 (64%), Gaps = 5/224 (2%)

Query: 1   MGSSTESKSKVTNEEEEVYSHAMVLGSAIVLPAVFQAVVNLDVLDIINKAGPGAELSASE 60
           MGS+ E++       +E  + AM L S+ VLP V +  + LD+L+I+ KAGPGA LS S+
Sbjct: 1   MGSTGETQMSPAQILDEEANFAMQLISSSVLPMVLKTAIELDLLEIMAKAGPGALLSPSD 60

Query: 61  IASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFST----HGVRLYSLAPVAKYYVSDQN 116
           IAS +PTKNP+ A  MLDR+L LL S++IL CS          RLY LA V K+   +++
Sbjct: 61  IASHLPTKNPD-APVMLDRILRLLASYSILICSLRDLPDGKVERLYGLASVCKFLTKNED 119

Query: 117 GVSMRPYMNLSLDKVMMPGWFQLKDQILEGELSYNKALGMDFYDYLGTDSRFNEVFNNGM 176
           GVS+ P   ++ DKV+M  W+ LKD ILEG + +NKA GM  ++Y GTD RFN+VFN GM
Sbjct: 120 GVSVSPLCLMNQDKVLMESWYHLKDAILEGGIPFNKAYGMTAFEYHGTDPRFNKVFNKGM 179

Query: 177 IGQTSFVINKIVESYKGFQNITRLVDVGGGLGITLSDHNFQIPS 220
              +   + KI+ESYKGF+ +  LVDVGGG G  +S    + PS
Sbjct: 180 SDHSKMAMKKILESYKGFEGLASLVDVGGGTGAVVSTIVSKYPS 223

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|Q8GU25|COMT1_ROSCH Caffeic acid 3-O-methyltransferase OS=Rosa chinensis GN=COMT1 PE=2 SV=1

 Score =  197 bits (500), Expect = 6e-50,   Method: Compositional matrix adjust.
 Identities = 103/215 (47%), Positives = 148/215 (68%), Gaps = 10/215 (4%)

Query: 1   MGSSTESK---SKVTNEEEEVYSHAMVLGSAIVLPAVFQAVVNLDVLDIINKAGPGAELS 57
           MGS+ E++   ++V++EE  ++  AM L SA VLP V +A + LD+L+I+ KAGPGA LS
Sbjct: 1   MGSTGETQMTPTQVSDEEANLF--AMQLASASVLPMVLKAAIELDLLEIMAKAGPGAFLS 58

Query: 58  ASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFST----HGVRLYSLAPVAKYYVS 113
            +++ASQ+PTKNPE A  MLDR+L LL S++IL  S  T       RLY L PV K+   
Sbjct: 59  PNDLASQLPTKNPE-APVMLDRMLRLLASYSILTYSLRTLPDGKVERLYGLGPVCKFLTK 117

Query: 114 DQNGVSMRPYMNLSLDKVMMPGWFQLKDQILEGELSYNKALGMDFYDYLGTDSRFNEVFN 173
           +++GVS+     ++ DKV++  W+ LKD +L+G + +NKA GM  +DY GTD RFN+VFN
Sbjct: 118 NEDGVSIAALCLMNQDKVLVESWYHLKDAVLDGGIPFNKAYGMTAFDYHGTDPRFNKVFN 177

Query: 174 NGMIGQTSFVINKIVESYKGFQNITRLVDVGGGLG 208
            GM   ++  + KI+E+YKGF+ +T +VDVGGG G
Sbjct: 178 KGMADHSTITMKKILETYKGFEGLTSIVDVGGGTG 212

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.

Rosa chinensis (taxid: 74649)

EC: 2

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 6

EC: 8

>sp|P46484|COMT1_EUCGU Caffeic acid 3-O-methyltransferase OS=Eucalyptus gunnii GN=OMT PE=2 SV=1

 Score =  196 bits (499), Expect = 7e-50,   Method: Compositional matrix adjust.
 Identities = 100/216 (46%), Positives = 147/216 (68%), Gaps = 8/216 (3%)

Query: 2   GSSTE-SKSKVTNEEEEVYSHAMVLGSAIVLPAVFQAVVNLDVLDIINKAGPGAELSASE 60
           GS T+ + ++V++EE  ++  AM L SA VLP V +A + LD+L+I+ KAGPGA LS  E
Sbjct: 5   GSETQMTPTQVSDEEANLF--AMQLASASVLPMVLKAAIELDLLEIMAKAGPGAFLSPGE 62

Query: 61  IASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFST----HGVRLYSLAPVAKYYVSDQN 116
           +A+Q+PT+NPE A  MLDR+  LL S+++L C+          RLY LAPV K+ V +++
Sbjct: 63  VAAQLPTQNPE-APVMLDRIFRLLASYSVLTCTLRNLPDGKVERLYGLAPVCKFLVKNED 121

Query: 117 GVSMRPYMNLSLDKVMMPGWFQLKDQILEGELSYNKALGMDFYDYLGTDSRFNEVFNNGM 176
           GVS+     ++ DK++M  W+ LKD +LEG + +NKA GM  ++Y GTD RFN++FN GM
Sbjct: 122 GVSIAALNLMNQDKILMESWYYLKDAVLEGGIPFNKAYGMTAFEYHGTDPRFNKIFNRGM 181

Query: 177 IGQTSFVINKIVESYKGFQNITRLVDVGGGLGITLS 212
              ++  + KI+E+YKGF+ +  +VDVGGG G  LS
Sbjct: 182 SDHSTITMKKILETYKGFEGLETVVDVGGGTGAVLS 217

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.

Eucalyptus gunnii (taxid: 3933)

EC: 2

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 6

EC: 8

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	221
345651709	364	caffeic acid O-methyltransferase [Salvia	0.950	0.576	0.502	2e-52
359490765	360	PREDICTED: caffeic acid 3-O-methyltransf	0.954	0.586	0.495	3e-52
345651711	364	caffeic acid O-methyltransferase [Salvia	0.950	0.576	0.502	3e-52
359490763	364	PREDICTED: caffeic acid 3-O-methyltransf	0.954	0.579	0.495	3e-52
255569707	365	o-methyltransferase, putative [Ricinus c	0.945	0.572	0.497	4e-52
156145680	364	caffeic acid O-3-methyltransferase [Popu	0.990	0.601	0.484	4e-52
7332271	364	O-methyltransferase [Populus trichocarpa	0.990	0.601	0.484	4e-52
444327	364	O-methyltransferase	0.990	0.601	0.484	5e-52
97974173	364	Caffeic acid 3-O-methyltransferase [Ipom	0.941	0.571	0.495	2e-51
97974184	364	Caffeic acid 3-O-methyltransferase [Ipom	0.941	0.571	0.495	2e-51

>gi|345651709|gb|AEO14870.1| caffeic acid O-methyltransferase [Salvia miltiorrhiza]

 Score =  211 bits (536), Expect = 2e-52,   Method: Compositional matrix adjust.
 Identities = 109/217 (50%), Positives = 151/217 (69%), Gaps = 7/217 (3%)

Query: 1   MGSSTES--KSKVTNEEEEVYSHAMVLGSAIVLPAVFQAVVNLDVLDIINKAGPGAELSA 58
           MGS+T++   + V ++EEE +  AM L SA VLP V ++ + LD+L+II KAG GA +S 
Sbjct: 1   MGSTTKNPQTAAVNSDEEESFLFAMQLASASVLPMVLKSAIELDLLEIIKKAGAGAFVSP 60

Query: 59  SEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFST---HGV-RLYSLAPVAKYYVSD 114
           +E+A+Q+PT N EGAA MLDR+L LL S+ IL C   T    GV RLY LAPV K+   +
Sbjct: 61  AEVAAQLPTTN-EGAAVMLDRILRLLASYAILECRLKTLPDGGVQRLYGLAPVCKFLTKN 119

Query: 115 QNGVSMRPYMNLSLDKVMMPGWFQLKDQILEGELSYNKALGMDFYDYLGTDSRFNEVFNN 174
            +GVS+ P   ++ DKV+M  W+ LKD +L+GE+ +NKA GM  ++Y GTD RFN+VFN 
Sbjct: 120 DDGVSVAPLALMNQDKVLMESWYHLKDAVLDGEIPFNKAYGMSAFEYHGTDPRFNKVFNQ 179

Query: 175 GMIGQTSFVINKIVESYKGFQNITRLVDVGGGLGITL 211
           GM G ++  + KI+E+YKGF  +  +VDVGGG+G TL
Sbjct: 180 GMSGHSTITMKKILETYKGFDGLNSVVDVGGGIGATL 216

Source: Salvia miltiorrhiza

Species: Salvia miltiorrhiza

Genus: Salvia

Family: Lamiaceae

Order: Lamiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  211 bits (536), Expect = 3e-52,   Method: Compositional matrix adjust.
 Identities = 107/216 (49%), Positives = 151/216 (69%), Gaps = 5/216 (2%)

Query: 1   MGSSTESKSKVTNEEEEVYSHAMVLGSAIVLPAVFQAVVNLDVLDIINKAGPGAELSASE 60
           MGS++ + + +   +EE    +M L SA VLP V ++ + LD+L+II KAGPGA +S SE
Sbjct: 1   MGSTSMTPTTILESDEEASLFSMQLVSASVLPMVLKSALELDLLEIIAKAGPGAFVSTSE 60

Query: 61  IASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFST---HGV-RLYSLAPVAKYYVSDQN 116
           IA+QIPT NPE A  MLDR+L LL ++ ++ CS       GV RLY LAPV KY   +++
Sbjct: 61  IAAQIPTHNPE-APVMLDRILRLLATYAVVKCSLRNLPDGGVERLYGLAPVCKYLTRNED 119

Query: 117 GVSMRPYMNLSLDKVMMPGWFQLKDQILEGELSYNKALGMDFYDYLGTDSRFNEVFNNGM 176
           GVS+ P + ++ DKV+M  W+ LKD +L+G + +NKA GM  ++Y GTD RFN+VFNNGM
Sbjct: 120 GVSVAPLLLMNQDKVLMESWYYLKDAVLDGGIPFNKAYGMTAFEYHGTDPRFNKVFNNGM 179

Query: 177 IGQTSFVINKIVESYKGFQNITRLVDVGGGLGITLS 212
            G ++  + KI+E+YKGF+ +T +VDVGGG G TL+
Sbjct: 180 SGHSTITMKKILEAYKGFEGLTSIVDVGGGTGATLN 215

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|345651711|gb|AEO14871.1| caffeic acid O-methyltransferase [Salvia miltiorrhiza]

 Score =  211 bits (536), Expect = 3e-52,   Method: Compositional matrix adjust.
 Identities = 109/217 (50%), Positives = 151/217 (69%), Gaps = 7/217 (3%)

Query: 1   MGSSTES--KSKVTNEEEEVYSHAMVLGSAIVLPAVFQAVVNLDVLDIINKAGPGAELSA 58
           MGS+T++   + V ++EEE +  AM L SA VLP V ++ + LD+L+II KAG GA +S 
Sbjct: 1   MGSTTKNPQTAAVNSDEEESFLFAMQLASASVLPMVLKSAIELDLLEIIKKAGAGAFVSP 60

Query: 59  SEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFST---HGV-RLYSLAPVAKYYVSD 114
           +E+A+Q+PT N EGAA MLDR+L LL S+ IL C   T    GV RLY LAPV K+   +
Sbjct: 61  AEVAAQLPTTN-EGAAVMLDRILRLLASYAILECRLKTLPDGGVQRLYGLAPVCKFLTKN 119

Query: 115 QNGVSMRPYMNLSLDKVMMPGWFQLKDQILEGELSYNKALGMDFYDYLGTDSRFNEVFNN 174
            +GVS+ P   ++ DKV+M  W+ LKD +L+GE+ +NKA GM  ++Y GTD RFN+VFN 
Sbjct: 120 DDGVSVAPLALMNQDKVLMESWYHLKDAVLDGEIPFNKAYGMSAFEYHGTDPRFNKVFNQ 179

Query: 175 GMIGQTSFVINKIVESYKGFQNITRLVDVGGGLGITL 211
           GM G ++  + KI+E+YKGF  +  +VDVGGG+G TL
Sbjct: 180 GMSGHSTITMKKILETYKGFDGLNSVVDVGGGIGATL 216

Source: Salvia miltiorrhiza

Species: Salvia miltiorrhiza

Genus: Salvia

Family: Lamiaceae

Order: Lamiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  210 bits (535), Expect = 3e-52,   Method: Compositional matrix adjust.
 Identities = 107/216 (49%), Positives = 151/216 (69%), Gaps = 5/216 (2%)

Query: 1   MGSSTESKSKVTNEEEEVYSHAMVLGSAIVLPAVFQAVVNLDVLDIINKAGPGAELSASE 60
           MGS++ + + +   +EE    +M L SA VLP V ++ + LD+L+II KAGPGA +S SE
Sbjct: 1   MGSTSMTPTTILESDEEASLFSMQLVSASVLPMVLKSALELDLLEIIAKAGPGAFVSTSE 60

Query: 61  IASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFST---HGV-RLYSLAPVAKYYVSDQN 116
           IA+QIPT NPE A  MLDR+L LL ++ ++ CS       GV RLY LAPV KY   +++
Sbjct: 61  IAAQIPTHNPE-APVMLDRILRLLATYAVVKCSLRNLPDGGVERLYGLAPVCKYLTRNED 119

Query: 117 GVSMRPYMNLSLDKVMMPGWFQLKDQILEGELSYNKALGMDFYDYLGTDSRFNEVFNNGM 176
           GVS+ P + ++ DKV+M  W+ LKD +L+G + +NKA GM  ++Y GTD RFN+VFNNGM
Sbjct: 120 GVSVAPLLLMNQDKVLMESWYYLKDAVLDGGIPFNKAYGMTAFEYHGTDPRFNKVFNNGM 179

Query: 177 IGQTSFVINKIVESYKGFQNITRLVDVGGGLGITLS 212
            G ++  + KI+E+YKGF+ +T +VDVGGG G TL+
Sbjct: 180 SGHSTITMKKILEAYKGFEGLTSIVDVGGGTGATLN 215

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255569707|ref|XP_002525818.1| o-methyltransferase, putative [Ricinus communis] gi|223534882|gb|EEF36570.1| o-methyltransferase, putative [Ricinus communis]

 Score =  210 bits (534), Expect = 4e-52,   Method: Compositional matrix adjust.
 Identities = 109/219 (49%), Positives = 152/219 (69%), Gaps = 10/219 (4%)

Query: 1   MGSSTESK---SKVTNEEEEVYSHAMVLGSAIVLPAVFQAVVNLDVLDIINKAGPGAELS 57
           MGS+ E++   ++V++EE  ++  AM L SA VLP V ++ + LD+L+I+ KAGP A LS
Sbjct: 1   MGSTGETQMTPTQVSDEEANLF--AMQLASASVLPMVLKSAIELDLLEIMAKAGPSAFLS 58

Query: 58  ASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFST----HGVRLYSLAPVAKYYVS 113
            SEIASQ+PTKNP+ A  MLDR+L LL S+N+L CS  T       RLY LAPV K+ + 
Sbjct: 59  PSEIASQLPTKNPD-APVMLDRILRLLASYNVLTCSLRTLPDGKVERLYGLAPVCKFLIK 117

Query: 114 DQNGVSMRPYMNLSLDKVMMPGWFQLKDQILEGELSYNKALGMDFYDYLGTDSRFNEVFN 173
           +++GVS+ P   ++ DKV+M  W+ LKD +L G + +NKA GM  +DY GTD RFN+VFN
Sbjct: 118 NEDGVSIAPLCLMNQDKVLMESWYYLKDAVLLGGIPFNKAYGMTAFDYHGTDPRFNKVFN 177

Query: 174 NGMIGQTSFVINKIVESYKGFQNITRLVDVGGGLGITLS 212
            GM   ++  + KI+E+YKGF+ +T +VDVGGG G  LS
Sbjct: 178 RGMSDHSTITMKKILETYKGFEGLTSVVDVGGGTGAVLS 216

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|156145680|gb|ABU53653.1| caffeic acid O-3-methyltransferase [Populus deltoides]

 Score =  210 bits (534), Expect = 4e-52,   Method: Compositional matrix adjust.
 Identities = 109/225 (48%), Positives = 150/225 (66%), Gaps = 6/225 (2%)

Query: 1   MGSSTESKSKVTN-EEEEVYSHAMVLGSAIVLPAVFQAVVNLDVLDIINKAGPGAELSAS 59
           MGS+ E++   T   +EE +  AM L SA VLP + +  + LD+L+I+ KAGPGA LS S
Sbjct: 1   MGSTGETQMTPTQVSDEEAHLFAMQLASASVLPMILKTAIELDLLEIMAKAGPGAFLSTS 60

Query: 60  EIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHG----VRLYSLAPVAKYYVSDQ 115
           EIAS +PTKNP+ A  MLDR+L LL S++IL CS   H      RLY LAPV K+   ++
Sbjct: 61  EIASHLPTKNPD-APVMLDRILRLLASYSILTCSLKDHPDGKVERLYGLAPVCKFLTKNE 119

Query: 116 NGVSMRPYMNLSLDKVMMPGWFQLKDQILEGELSYNKALGMDFYDYLGTDSRFNEVFNNG 175
           +GVS+ P   ++ DKV+M  W+ LKD IL+G + +NKA GM  ++Y GTD RFN+VFN G
Sbjct: 120 DGVSVSPLCLMNQDKVLMESWYYLKDAILDGGIPFNKAYGMTAFEYHGTDPRFNKVFNKG 179

Query: 176 MIGQTSFVINKIVESYKGFQNITRLVDVGGGLGITLSDHNFQIPS 220
           M   ++  + KI+E+YKGF+ +T LVDVGGG G  ++    + PS
Sbjct: 180 MSDHSTITMKKILETYKGFEGLTSLVDVGGGTGAVVNTIVSKYPS 224

Source: Populus deltoides

Species: Populus deltoides

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|7332271|gb|AAF60951.1| O-methyltransferase [Populus trichocarpa x Populus deltoides]

 Score =  210 bits (534), Expect = 4e-52,   Method: Compositional matrix adjust.
 Identities = 109/225 (48%), Positives = 150/225 (66%), Gaps = 6/225 (2%)

Query: 1   MGSSTESKSKVTN-EEEEVYSHAMVLGSAIVLPAVFQAVVNLDVLDIINKAGPGAELSAS 59
           MGS+ E++   T   +EE +  AM L SA VLP + +  + LD+L+I+ KAGPGA LS S
Sbjct: 1   MGSTGETQMTPTQVSDEEAHLFAMQLASASVLPMILKTAIELDLLEIMAKAGPGAFLSTS 60

Query: 60  EIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHG----VRLYSLAPVAKYYVSDQ 115
           EIAS +PTKNP+ A  MLDR+L LL S++IL CS   H      RLY LAPV K+   ++
Sbjct: 61  EIASHLPTKNPD-APVMLDRILRLLASYSILTCSLKDHPDGKVERLYGLAPVCKFLTKNE 119

Query: 116 NGVSMRPYMNLSLDKVMMPGWFQLKDQILEGELSYNKALGMDFYDYLGTDSRFNEVFNNG 175
           +GVS+ P   ++ DKV+M  W+ LKD IL+G + +NKA GM  ++Y GTD RFN+VFN G
Sbjct: 120 DGVSVSPLCLMNQDKVLMESWYYLKDAILDGGIPFNKAYGMTAFEYHGTDPRFNKVFNKG 179

Query: 176 MIGQTSFVINKIVESYKGFQNITRLVDVGGGLGITLSDHNFQIPS 220
           M   ++  + KI+E+YKGF+ +T LVDVGGG G  ++    + PS
Sbjct: 180 MSDHSTITMKKILETYKGFEGLTSLVDVGGGTGAVVNTIVSKYPS 224

Source: Populus trichocarpa x Populus deltoides

Species: Populus trichocarpa x Populus deltoides

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|444327|prf||1906376A O-methyltransferase

 Score =  209 bits (533), Expect = 5e-52,   Method: Compositional matrix adjust.
 Identities = 109/225 (48%), Positives = 150/225 (66%), Gaps = 6/225 (2%)

Query: 1   MGSSTESKSKVTN-EEEEVYSHAMVLGSAIVLPAVFQAVVNLDVLDIINKAGPGAELSAS 59
           MGS+ E++   T   +EE +  AM L SA VLP + +  + LD+L+I+ KAGPGA LS S
Sbjct: 1   MGSTGETQMTPTQVSDEEAHLFAMQLASASVLPMILKTAIELDLLEIMAKAGPGAFLSTS 60

Query: 60  EIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHG----VRLYSLAPVAKYYVSDQ 115
           EIAS +PTKNP+ A  MLDR+L LL S++IL CS   H      RLY LAPV K+   ++
Sbjct: 61  EIASHLPTKNPD-APVMLDRILRLLASYSILICSLKDHPDGKVERLYGLAPVCKFLTKNE 119

Query: 116 NGVSMRPYMNLSLDKVMMPGWFQLKDQILEGELSYNKALGMDFYDYLGTDSRFNEVFNNG 175
           +GVS+ P   ++ DKV+M  W+ LKD IL+G + +NKA GM  ++Y GTD RFN+VFN G
Sbjct: 120 DGVSVSPLCLMNQDKVLMESWYYLKDAILDGGIPFNKAYGMTAFEYHGTDPRFNKVFNKG 179

Query: 176 MIGQTSFVINKIVESYKGFQNITRLVDVGGGLGITLSDHNFQIPS 220
           M   ++  + KI+E+YKGF+ +T LVDVGGG G  ++    + PS
Sbjct: 180 MSDHSTITMKKILETYKGFEGLTSLVDVGGGTGAVVNTIVSKYPS 224

Source: Populus trichocarpa x Populus deltoides

Species: Populus trichocarpa x Populus deltoides

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  208 bits (529), Expect = 2e-51,   Method: Compositional matrix adjust.
 Identities = 107/216 (49%), Positives = 147/216 (68%), Gaps = 8/216 (3%)

Query: 4   STESKSKVTNE---EEEVYSHAMVLGSAIVLPAVFQAVVNLDVLDIINKAGPGAELSASE 60
           ST + S +TN    +EE    AM L SA VLP V ++ + LD+L++I KAGPGA +S SE
Sbjct: 3   STGNDSPMTNRVDSDEEASLFAMQLASASVLPMVLKSAIELDLLELIAKAGPGAAVSPSE 62

Query: 61  IASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFST----HGVRLYSLAPVAKYYVSDQN 116
           +A+Q+PT NP+ AA MLDR+L LL ++++L CS  T       RLYSLAPV KY   + +
Sbjct: 63  LAAQLPTTNPD-AAVMLDRILRLLCTYSVLNCSLRTLPDGRVERLYSLAPVCKYLTKNGD 121

Query: 117 GVSMRPYMNLSLDKVMMPGWFQLKDQILEGELSYNKALGMDFYDYLGTDSRFNEVFNNGM 176
           GVSM P + ++ DKV+M  W+ LKD +LEG + +NKA GM  ++Y GTD RFN+VFN GM
Sbjct: 122 GVSMAPLLLMNQDKVLMESWYHLKDAVLEGGIPFNKAYGMTAFEYHGTDPRFNKVFNRGM 181

Query: 177 IGQTSFVINKIVESYKGFQNITRLVDVGGGLGITLS 212
              ++  + KI++ YKGF+ +  LVDVGGG G TL+
Sbjct: 182 SDHSTITMKKILDDYKGFEGLKSLVDVGGGTGATLN 217

Source: Ipomoea nil

Species: Ipomoea nil

Genus: Ipomoea

Family: Convolvulaceae

Order: Solanales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  207 bits (528), Expect = 2e-51,   Method: Compositional matrix adjust.
 Identities = 107/216 (49%), Positives = 147/216 (68%), Gaps = 8/216 (3%)

Query: 4   STESKSKVTNE---EEEVYSHAMVLGSAIVLPAVFQAVVNLDVLDIINKAGPGAELSASE 60
           ST + S +TN    +EE    AM L SA VLP V ++ + LD+L++I KAGPGA +S SE
Sbjct: 3   STGNDSPMTNRVDSDEEASLFAMQLASASVLPMVLKSAIELDLLELIAKAGPGAAVSPSE 62

Query: 61  IASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFST----HGVRLYSLAPVAKYYVSDQN 116
           +A+Q+PT NP+ AA MLDR+L LL ++++L CS  T       RLYSLAPV KY   + +
Sbjct: 63  LAAQLPTTNPD-AAVMLDRILRLLCTYSVLNCSLRTLPDGRVERLYSLAPVCKYLTKNGD 121

Query: 117 GVSMRPYMNLSLDKVMMPGWFQLKDQILEGELSYNKALGMDFYDYLGTDSRFNEVFNNGM 176
           GVSM P + ++ DKV+M  W+ LKD +LEG + +NKA GM  ++Y GTD RFN+VFN GM
Sbjct: 122 GVSMAPLLLMNQDKVLMESWYHLKDAVLEGGIPFNKAYGMTAFEYHGTDPRFNKVFNRGM 181

Query: 177 IGQTSFVINKIVESYKGFQNITRLVDVGGGLGITLS 212
              ++  + KI++ YKGF+ +  LVDVGGG G TL+
Sbjct: 182 SDHSTITMKKILDDYKGFEGLKSLVDVGGGTGATLN 217

Source: Ipomoea nil

Species: Ipomoea nil

Genus: Ipomoea

Family: Convolvulaceae

Order: Solanales

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	221
TAIR|locus:2153423	363	OMT1 "AT5G54160" [Arabidopsis	0.932	0.567	0.477	6.9e-47
UNIPROTKB|Q84N28	360	OMT1 "Flavone O-methyltransfer	0.936	0.575	0.398	3.9e-37
TAIR|locus:2038026	352	AT1G33030 [Arabidopsis thalian	0.886	0.556	0.416	7.2e-36
UNIPROTKB|Q6ZD89	368	ROMT-9 "Flavone 3'-O-methyltra	0.950	0.570	0.369	1.5e-35
TAIR|locus:2204695	381	AT1G77530 [Arabidopsis thalian	0.936	0.543	0.366	4.2e-31
TAIR|locus:2204680	381	AT1G77520 [Arabidopsis thalian	0.932	0.540	0.381	5.4e-31
TAIR|locus:2199582	373	IGMT4 "indole glucosinolate O-	0.927	0.549	0.371	2.3e-30
TAIR|locus:2199607	373	IGMT1 "indole glucosinolate O-	0.932	0.552	0.376	3e-30
TAIR|locus:2199587	373	IGMT2 "indole glucosinolate O-	0.932	0.552	0.366	4.4e-29
TAIR|locus:2164087	378	AT5G53810 [Arabidopsis thalian	0.923	0.539	0.380	5.6e-29

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

 Score = 491 (177.9 bits), Expect = 6.9e-47, P = 6.9e-47
 Identities = 104/218 (47%), Positives = 150/218 (68%)

Query:     1 MGSSTESKS---KVTNEEEEVYSHAMVLGSAIVLPAVFQAVVNLDVLDIINKAGPGAELS 57
             MGS+ E++    +VT++E  ++  AM L SA VLP   ++ + LD+L+I+ K G  + +S
Sbjct:     1 MGSTAETQLTPVQVTDDEAALF--AMQLASASVLPMALKSALELDLLEIMAKNG--SPMS 56

Query:    58 ASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS---FSTHGV-RLYSLAPVAKYYVS 113
              +EIAS++PTKNPE A  MLDR+L LL S+++L CS    S  GV R+Y L PV KY   
Sbjct:    57 PTEIASKLPTKNPE-APVMLDRILRLLTSYSVLTCSNRKLSGDGVERIYGLGPVCKYLTK 115

Query:   114 DQNGVSMRPYMNLSLDKVMMPGWFQLKDQILEGELSYNKALGMDFYDYLGTDSRFNEVFN 173
             +++GVS+     ++ DKV+M  W+ LKD IL+G + +NKA GM  ++Y GTD RFN+VFN
Sbjct:   116 NEDGVSIAALCLMNQDKVLMESWYHLKDAILDGGIPFNKAYGMSAFEYHGTDPRFNKVFN 175

Query:   174 NGMIGQTSFVINKIVESYKGFQNITRLVDVGGGLGITL 211
             NGM   ++  + KI+E+YKGF+ +T LVDVGGG+G TL
Sbjct:   176 NGMSNHSTITMKKILETYKGFEGLTSLVDVGGGIGATL 213

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

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

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

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

GO:0051555 "flavonol biosynthetic process" evidence=IDA

GO:0009809 "lignin biosynthetic process" evidence=IMP

GO:0005634 "nucleus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

GO:0005886 "plasma membrane" evidence=IDA

GO:0009506 "plasmodesma" evidence=IDA

GO:0006598 "polyamine catabolic process" evidence=RCA

GO:0009611 "response to wounding" evidence=RCA

GO:0009698 "phenylpropanoid metabolic process" evidence=RCA

GO:0009805 "coumarin biosynthetic process" evidence=RCA

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

GO:0016126 "sterol biosynthetic process" evidence=RCA

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

GO:0005829 "cytosol" evidence=TAS

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

 Score = 399 (145.5 bits), Expect = 3.9e-37, P = 3.9e-37
 Identities = 86/216 (39%), Positives = 133/216 (61%)

Query:     1 MGSSTESKSKVTNEEEEVYSHAMVLGSAIVLPAVFQAVVNLDVLDIINKAGPGAELSASE 60
             MGS+    +   +EE  +Y  A+ L S+ +LP   +  + L +L+ +  AG G  L+ +E
Sbjct:     1 MGSTAADMAASADEEACMY--ALQLVSSSILPMTLKNAIELGLLETLVAAG-GKLLTPAE 57

Query:    61 IASQIP-TKNPEGAAKMLDRVLGLLVSFNILCCSFST--HG--VRLYSLAPVAKYYVSDQ 115
             +A+++P T NP  AA M+DR+L LL S+N++ C+      G   R Y  APV K+   ++
Sbjct:    58 VAAKLPSTANP-AAADMVDRMLRLLASYNVVSCTMEEGKDGRLSRRYRAAPVCKFLTPNE 116

Query:   116 NGVSMRPYMNLSLDKVMMPGWFQLKDQILEGELSYNKALGMDFYDYLGTDSRFNEVFNNG 175
             +GVSM     ++ DKV+M  W+ LKD +L+G + +NKA GM  ++Y GTD RFN VFN G
Sbjct:   117 DGVSMAALALMNQDKVLMESWYYLKDAVLDGGIPFNKAYGMSAFEYHGTDPRFNRVFNEG 176

Query:   176 MIGQTSFVINKIVESYKGFQNITRLVDVGGGLGITL 211
             M   +  +  K++E YKGF+ +  +VDVGGG+G T+
Sbjct:   177 MKNHSIIITKKLLEVYKGFEGLGTIVDVGGGVGATV 212

GO:0009611 "response to wounding" evidence=IDA

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

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

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

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

 Score = 387 (141.3 bits), Expect = 7.2e-36, P = 7.2e-36
 Identities = 85/204 (41%), Positives = 126/204 (61%)

Query:    14 EEEEVYSHAMVLGSAIVLPAVFQAVVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGA 73
             EE+ + S+AM+L S+ VLP V +  ++L + DI+ ++GP    SAS+I S +  +  +  
Sbjct:     2 EEQNLSSYAMILSSSSVLPMVLKTAIDLGLFDILAESGPS---SASQIFSLLSNETKKHH 58

Query:    74 -AKMLDRVLGLLVSFNILCCSFST-HG--VRLYSLAPVAKYYVSDQNGV-SMRPYMNLSL 128
              + +++R+L  L S++IL CS ST HG    +Y LAPVAKY+  +QNG  S+ P +NL  
Sbjct:    59 DSSLVNRILRFLASYSILTCSVSTEHGEPFAIYGLAPVAKYFTKNQNGGGSLAPMVNLFQ 118

Query:   129 DKVMMPGWFQLKDQILEGELSYNKALGMDFYDYLGTDSRFNEVFNNGMIGQTSFVINKIV 188
             DKV+   W+ LKD +LEG L +N   G    + +G+DSRF EVF + M G     I + +
Sbjct:   119 DKVVTDMWYNLKDSVLEGGLPFNNTHGSSAVELVGSDSRFREVFQSSMKGFNEVFIEEFL 178

Query:   189 ESYKGFQNITRLVDVGGGLGITLS 212
             ++Y GF  +  LVDVGGG G  LS
Sbjct:   179 KNYNGFDGVKSLVDVGGGDGSLLS 202

GO:0008168 "methyltransferase activity" evidence=IEA

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

GO:0046983 "protein dimerization activity" evidence=IEA

GO:0005829 "cytosol" evidence=IDA;TAS

GO:0009809 "lignin biosynthetic process" evidence=ISS

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

 Score = 384 (140.2 bits), Expect = 1.5e-35, P = 1.5e-35
 Identities = 82/222 (36%), Positives = 131/222 (59%)

Query:     1 MGSSTESKSKVTNEEEEVYSHAMVLGSAIVLPAVFQAVVNLDVLDIINKA------GPGA 54
             MGS+    +   +EE  +Y  A+ L S+ +LP   +  + L +L+ +  A      G  A
Sbjct:     1 MGSTAADMAAAADEEACMY--ALQLASSSILPMTLKNAIELGLLETLQSAAVAGGGGKAA 58

Query:    55 ELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFS--THGV--RLYSLAPVAKY 110
              L+ +E+A ++P+K    AA M+DR+L LL S+N++ C       G   R Y+ APV K+
Sbjct:    59 LLTPAEVADKLPSKANPAAADMVDRMLRLLASYNVVRCEMEEGADGKLSRRYAAAPVCKW 118

Query:   111 YVSDQNGVSMRPYMNLSLDKVMMPGWFQLKDQILEGELSYNKALGMDFYDYLGTDSRFNE 170
                +++GVSM     ++ DKV+M  W+ LKD +L+G + +NKA GM  ++Y GTD+RFN 
Sbjct:   119 LTPNEDGVSMAALALMNQDKVLMESWYYLKDAVLDGGIPFNKAYGMTAFEYHGTDARFNR 178

Query:   171 VFNNGMIGQTSFVINKIVESYKGFQNITRLVDVGGGLGITLS 212
             VFN GM   +  +  K+++ Y GF   + +VDVGGG+G T++
Sbjct:   179 VFNEGMKNHSVIITKKLLDLYTGFDAASTVVDVGGGVGATVA 220

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

GO:0032259 "methylation" evidence=IDA

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

 Score = 342 (125.4 bits), Expect = 4.2e-31, P = 4.2e-31
 Identities = 82/224 (36%), Positives = 132/224 (58%)

Query:     4 STESKSKVTNEEEEVYSHAMVLGS-----AIVLPAVFQAVVNLDVLDIINKAGPGAELSA 58
             +T  K  +T EE+E+    + L +     A+  P V +A + L V+D I  A  G  LS 
Sbjct:    10 TTYPKPGLTKEEQEIDEKMVSLQAESIVNAVAFPMVLKAALELGVIDTIAAASNGTWLSP 69

Query:    59 SEIASQIPTK--NPEGAAKMLDRVLGLLVSFNIL-CCSFST--HGV-----RLYSLAPVA 108
             SEIA  +P K  NPE A  +LDR+L LLVS +IL CC   +  +G      R+Y+  P+ 
Sbjct:    70 SEIAVSLPNKPTNPE-APVLLDRMLRLLVSHSILKCCMVESRENGQTGKIERVYAAEPIC 128

Query:   109 KYYVSDQNGV-SMRPYMNLSLDKVMMPGWFQLKDQILEGELSYNKALGMDFYDYLGTDSR 167
             KY++ D +G  S+   + L   +V++  W  LKD ILEG+ +++ A  M  ++Y+ +D +
Sbjct:   129 KYFLKDSDGSGSLSSLLLLLHSQVILKTWTNLKDVILEGKDAFSSAHDMRLFEYISSDDQ 188

Query:   168 FNEVFNNGMIGQTSFVINKIVESYKGFQNITRLVDVGGGLGITL 211
             F+++F+  M   ++ V+ K++E Y+GF+++  LVDVGGG+G  L
Sbjct:   189 FSKLFHRAMSESSTMVMKKVLEEYRGFEDVNTLVDVGGGIGTIL 232

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 = 85/223 (38%), Positives = 121/223 (54%)

Query:     5 TESKSKVTNEEEEVYSHAMVLGS-----AIVLPAVFQAVVNLDVLDIINKAGPGAELSAS 59
             T  K  +T EE+EV    + L +      +  P V +A   L V+D I  AG    LS  
Sbjct:    11 TYPKPVLTKEEQEVDEKMVSLQAESIVNTVAFPMVLKAAFELGVIDTIAAAGNDTWLSPC 70

Query:    60 EIASQIPTK--NPEGAAKMLDRVLGLLVSFNILCCSFSTHGV--------RLYSLAPVAK 109
             EIA  +PTK  NPE A  +LDR+L LLVS +IL C     G         R+Y+  PV K
Sbjct:    71 EIACSLPTKPTNPE-APVLLDRMLSLLVSHSILKCRMIETGENGRTGKIERVYAAEPVCK 129

Query:   110 YYVSDQNGV-SMRPYMNLSLDKVMMPGWFQLKDQILEGELSYNKALGMDFYDYLGTDSRF 168
             Y++ D +G  S+ P   L   +V    W  LKD ILEG  ++N A GM  ++Y+ +D  F
Sbjct:   130 YFLRDSDGTGSLVPLFMLLHTQVFFKTWTNLKDVILEGRDAFNSAHGMKIFEYINSDQPF 189

Query:   169 NEVFNNGMIGQTSFVINKIVESYKGFQNITRLVDVGGGLGITL 211
              E+FN  M   ++ ++ K+++ Y+GF+++  LVDVGGG G  L
Sbjct:   190 AELFNRAMSEPSTMIMKKVLDVYRGFEDVNTLVDVGGGNGTVL 232

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

 Score = 335 (123.0 bits), Expect = 2.3e-30, P = 2.3e-30
 Identities = 81/218 (37%), Positives = 132/218 (60%)

Query:     4 STESKSKVT-NEEEEVYSHAMVLGSAIVLPAVFQAVVNLDVLDIINKAGPGAE--LSASE 60
             S+ SK+ +  +++ E+   A+ L +A   P V +A + L V D +      ++  LS SE
Sbjct:    10 SSNSKTPIVIDDDNELGLMAVRLANAAAFPMVLKAALELGVFDTLYAEASRSDSFLSPSE 69

Query:    61 IASQIPT--KNPEGAAKMLDRVLGLLVSFNILCCSFSTHGV--RLYSLAPVAKYYVSD-- 114
             IAS++PT  +NPE A  +LDR+L LL S++++ C   + G   R+Y   P+ ++++ D  
Sbjct:    70 IASKLPTTPRNPE-APVLLDRMLRLLASYSVVKCGKVSEGKGERVYRAEPICRFFLKDNI 128

Query:   115 QNGVSMRPYMNLSLDKVMMPGWFQLKDQILEGELSYNKALG-MDFYDYLGTDSRFNEVFN 173
             Q+  S+   + ++ D V +  W QLKD +LEG  ++ +A G M  +DY+GTD RF+++FN
Sbjct:   129 QDIGSLASQVIVNFDSVFLNTWAQLKDVVLEGGDAFGRAHGGMKLFDYMGTDERFSKLFN 188

Query:   174 NGMIGQTSFVINKIVESYKGFQNITRLVDVGGGLGITL 211
                 G T  V+ K +E Y+GF+ +  LVDVGGG+G TL
Sbjct:   189 Q--TGFTIAVVKKALEVYQGFKGVNVLVDVGGGVGNTL 224

GO:0005634 "nucleus" evidence=ISM

GO:0008168 "methyltransferase activity" evidence=IEA

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

GO:0046983 "protein dimerization activity" evidence=IEA

GO:0005829 "cytosol" evidence=TAS

TAIR|locus:2199607 IGMT1 "indole glucosinolate O-methyltransferase 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 334 (122.6 bits), Expect = 3.0e-30, P = 3.0e-30
 Identities = 82/218 (37%), Positives = 129/218 (59%)

Query:     3 SSTESKSKVTNEEEEVYSHAMVLGSAIVLPAVFQAVVNLDVLDIINKAGPGAE--LSASE 60
             SS      V +++ E+   A+ L +A   P V +A + L V D +  A    +  LS  E
Sbjct:    10 SSNPKTPIVVDDDNELGLMAVRLANAAAFPMVLKAALELGVFDTLYAAASRTDSFLSPYE 69

Query:    61 IASQIPT--KNPEGAAKMLDRVLGLLVSFNILCC--SFSTHGVRLYSLAPVAKYYVSD-- 114
             IAS++PT  +NPE A  +LDR+L LL S++++ C  + S  G R+Y   P+ ++++ D  
Sbjct:    70 IASKLPTTPRNPE-APVLLDRMLRLLASYSMVKCGKALSGKGERVYRAEPICRFFLKDNI 128

Query:   115 QNGVSMRPYMNLSLDKVMMPGWFQLKDQILEGELSYNKALG-MDFYDYLGTDSRFNEVFN 173
             Q+  S+   + ++ D V +  W QLKD +LEG  ++ +A G M  +DY+GTD RF+++FN
Sbjct:   129 QDIGSLASQVIVNFDSVFLNTWAQLKDVVLEGGDAFGRAHGGMKLFDYMGTDERFSKLFN 188

Query:   174 NGMIGQTSFVINKIVESYKGFQNITRLVDVGGGLGITL 211
                 G T  V+ K +E Y+GF+ +  LVDVGGG+G TL
Sbjct:   189 Q--TGFTIAVVKKALEVYEGFKGVKVLVDVGGGVGNTL 224

GO:0005634 "nucleus" evidence=ISM

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

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

GO:0046983 "protein dimerization activity" evidence=IEA

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

GO:0005829 "cytosol" evidence=TAS

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

 Score = 323 (118.8 bits), Expect = 4.4e-29, P = 4.4e-29
 Identities = 80/218 (36%), Positives = 128/218 (58%)

Query:     3 SSTESKSKVTNEEEEVYSHAMVLGSAIVLPAVFQAVVNLDVLDIINKAGPGAE--LSASE 60
             SS      V +++ E+   A+ L +A   P V +A + L V D +       +  LS SE
Sbjct:    10 SSNPKTPIVVDDDNELGLMAVRLANAAAFPMVLKASLELGVFDTLYAEASRTDSFLSPSE 69

Query:    61 IASQIPT--KNPEGAAKMLDRVLGLLVSFNILCCSFST--HGVRLYSLAPVAKYYVSD-- 114
             IAS++PT  +NP GA  +LDR+L LL S++++ C   +   G R+Y   P+ ++++ +  
Sbjct:    70 IASKLPTTPRNP-GAPVLLDRMLRLLASYSMVKCEKVSVGKGERVYRAEPICRFFLKNNI 128

Query:   115 QNGVSMRPYMNLSLDKVMMPGWFQLKDQILEGELSYNKALG-MDFYDYLGTDSRFNEVFN 173
             Q+  S+   + ++ D V +  W QLKD +LEG  ++ +A G M  +DY+GTD RF+++FN
Sbjct:   129 QDIGSLASQVIVNFDSVFLNTWAQLKDVVLEGGDAFGRAHGGMKLFDYMGTDERFSKLFN 188

Query:   174 NGMIGQTSFVINKIVESYKGFQNITRLVDVGGGLGITL 211
                 G T  V+ K +E Y+GF+ +  LVDVGGG+G TL
Sbjct:   189 Q--TGFTIAVVKKALEVYQGFKGVNVLVDVGGGVGNTL 224

GO:0005634 "nucleus" evidence=ISM

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

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

GO:0046983 "protein dimerization activity" evidence=IEA

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

GO:0005829 "cytosol" evidence=TAS

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

 Score = 322 (118.4 bits), Expect = 5.6e-29, P = 5.6e-29
 Identities = 84/221 (38%), Positives = 122/221 (55%)

Query:     7 SKSKVTNEEEEVYSHAMVLG----SAIVLPAVFQAVVNLDVLDIINKAGPG-AELSASEI 61
             +K     EE+EV   A +L     +A   P V +A + L V+D I   G G   LS SEI
Sbjct:    10 TKPDRVKEEQEVEEEARLLARRLANAAASPMVLKAALELGVIDTITTVGGGDLWLSPSEI 69

Query:    62 ASQIPTK--NPEGAAKMLDRVLGLLVSFNILCCS--FSTHGV-----RLYSLAPVAKYYV 112
             A ++PTK  N E  A +LDR+L  LVS ++L C      +G      R+Y+  PV KY +
Sbjct:    70 ALRLPTKPCNLEAPA-LLDRMLRFLVSHSVLKCRTVIEENGQTGKVERVYAAEPVCKYLL 128

Query:   113 SDQNGVS--MRPYMNLSLDKVMMPGWFQLKDQILEGELSYNKALGMDFYDYLGTDSRFNE 170
             +  + VS        L L  V +  W  L+D ILEG  +++ A GM  ++Y+  D RF +
Sbjct:   129 NKSDDVSGSFASLFMLDLSDVFIKTWTHLEDVILEGRDAFSSAHGMKLFEYIQADERFGK 188

Query:   171 VFNNGMIGQTSFVINKIVESYKGFQNITRLVDVGGGLGITL 211
             VFN  M+  ++ V  K+++ Y+GF+++  LVDVGGGLG TL
Sbjct:   189 VFNRAMLESSTMVTEKVLKFYEGFKDVKTLVDVGGGLGNTL 229

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

---

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	221
pfam00891	239	pfam00891, Methyltransf_2, O-methyltransferase	2e-35
pfam08100	50	pfam08100, Dimerisation, Dimerisation domain	1e-11

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

 Score =  124 bits (314), Expect = 2e-35
 Identities = 42/115 (36%), Positives = 62/115 (53%)

Query: 98  GVRLYSLAPVAKYYVSDQNGVSMRPYMNLSLDKVMMPGWFQLKDQILEGELSYNKALGMD 157
           G   Y L P +K  V  ++  S+ P + +  D  ++  W  LKD + EG   + +A GM 
Sbjct: 3   GGEDYGLTPASKLLVKGEDSPSLAPLLLMYADPTLLESWAHLKDAVREGGPPFERAFGMP 62

Query: 158 FYDYLGTDSRFNEVFNNGMIGQTSFVINKIVESYKGFQNITRLVDVGGGLGITLS 212
           F++YLG D  FN VFN  M   +  V+ KI+E+   F  ++ LVDVGGG G   +
Sbjct: 63  FFEYLGADPEFNRVFNRAMAAHSRLVMKKILETAFDFSGLSSLVDVGGGTGALAA 117

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

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

 Score = 57.2 bits (139), Expect = 1e-11
 Identities = 30/63 (47%), Positives = 35/63 (55%), Gaps = 13/63 (20%)

Query: 23 MVLGSAIVLPAVFQAVVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLG 82
          MVL  AI           L + DII K G    LS SE+AS++PT NPE A  MLDR+L 
Sbjct: 1  MVLKCAI----------ELGIPDIIAKHGKP--LSPSELASKLPTVNPE-APVMLDRLLR 47

Query: 83 LLV 85
          LL 
Sbjct: 48 LLA 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	221
KOG3178	342	consensus Hydroxyindole-O-methyltransferase and re	99.93
TIGR02716	306	C20_methyl_CrtF C-20 methyltransferase BchU. Membe	99.91
PF00891	241	Methyltransf_2: O-methyltransferase; InterPro: IPR	99.85
PF08100	51	Dimerisation: Dimerisation domain; InterPro: IPR01	99.11
PF09339	52	HTH_IclR: IclR helix-turn-helix domain; InterPro:	97.39
PRK06922	677	hypothetical protein; Provisional	97.32
smart00346	91	HTH_ICLR helix_turn_helix isocitrate lyase regulat	97.22
smart00550	68	Zalpha Z-DNA-binding domain in adenosine deaminase	97.02
COG1414	246	IclR Transcriptional regulator [Transcription]	96.96
TIGR02431	248	pcaR_pcaU beta-ketoadipate pathway transcriptional	96.82
PRK11569	274	transcriptional repressor IclR; Provisional	96.82
PRK10163	271	DNA-binding transcriptional repressor AllR; Provis	96.79
PF02082	83	Rrf2: Transcriptional regulator; InterPro: IPR0009	96.77
PRK15090	257	DNA-binding transcriptional regulator KdgR; Provis	96.71
PRK09834	263	DNA-binding transcriptional activator MhpR; Provis	96.69
PF12840	61	HTH_20: Helix-turn-helix domain; PDB: 1ULY_A 2CWE_	96.48
PF01978	68	TrmB: Sugar-specific transcriptional regulator Trm	96.31
TIGR02469	124	CbiT precorrin-6Y C5,15-methyltransferase (decarbo	96.3
TIGR02021	219	BchM-ChlM magnesium protoporphyrin O-methyltransfe	96.28
PF01022	47	HTH_5: Bacterial regulatory protein, arsR family;	96.27
COG2813	300	RsmC 16S RNA G1207 methylase RsmC [Translation, ri	96.14
PRK10857	164	DNA-binding transcriptional regulator IscR; Provis	96.1
PF13412	48	HTH_24: Winged helix-turn-helix DNA-binding; PDB:	96.09
COG1959	150	Predicted transcriptional regulator [Transcription	96.03
PF09012	69	FeoC: FeoC like transcriptional regulator; InterPr	96.0
PF04703	62	FaeA: FaeA-like protein; PDB: 2JT1_A 2HTJ_A.	95.96
PRK10141	117	DNA-binding transcriptional repressor ArsR; Provis	95.89
PF14947	77	HTH_45: Winged helix-turn-helix; PDB: 1XSX_B 1R7J_	95.88
TIGR02010	135	IscR iron-sulfur cluster assembly transcription fa	95.87
smart00419	48	HTH_CRP helix_turn_helix, cAMP Regulatory protein.	95.86
PRK15001	378	SAM-dependent 23S ribosomal RNA mG1835 methyltrans	95.81
cd00092	67	HTH_CRP helix_turn_helix, cAMP Regulatory protein	95.72
PRK00274	272	ksgA 16S ribosomal RNA methyltransferase KsgA/Dim1	95.69
COG3355	126	Predicted transcriptional regulator [Transcription	95.68
PF13463	68	HTH_27: Winged helix DNA-binding domain; PDB: 3GFL	95.6
TIGR00738	132	rrf2_super rrf2 family protein (putative transcrip	95.52
PRK00107	187	gidB 16S rRNA methyltransferase GidB; Reviewed	95.42
COG2345	218	Predicted transcriptional regulator [Transcription	95.21
smart00347	101	HTH_MARR helix_turn_helix multiple antibiotic resi	95.19
PRK14121	390	tRNA (guanine-N(7)-)-methyltransferase; Provisiona	95.15
PRK03902	142	manganese transport transcriptional regulator; Pro	95.13
TIGR02944	130	suf_reg_Xantho FeS assembly SUF system regulator,	95.11
PRK00121	202	trmB tRNA (guanine-N(7)-)-methyltransferase; Revie	95.01
TIGR02702	203	SufR_cyano iron-sulfur cluster biosynthesis transc	94.97
PF07381	90	DUF1495: Winged helix DNA-binding domain (DUF1495)	94.92
TIGR02752	231	MenG_heptapren 2-heptaprenyl-1,4-naphthoquinone me	94.87
COG2230	283	Cfa Cyclopropane fatty acid synthase and related m	94.87
PRK15068	322	tRNA mo(5)U34 methyltransferase; Provisional	94.84
PRK07402	196	precorrin-6B methylase; Provisional	94.75
PRK10258	251	biotin biosynthesis protein BioC; Provisional	94.71
PRK09489	342	rsmC 16S ribosomal RNA m2G1207 methyltransferase;	94.68
TIGR02337	118	HpaR homoprotocatechuate degradation operon regula	94.61
PF02353	273	CMAS: Mycolic acid cyclopropane synthetase; InterP	94.58
PRK07580	230	Mg-protoporphyrin IX methyl transferase; Validated	94.58
PF08461	66	HTH_12: Ribonuclease R winged-helix domain; InterP	94.54
PF13601	80	HTH_34: Winged helix DNA-binding domain; PDB: 1UB9	94.52
TIGR03587	204	Pse_Me-ase pseudaminic acid biosynthesis-associate	94.49
smart00420	53	HTH_DEOR helix_turn_helix, Deoxyribose operon repr	94.46
PRK06202	232	hypothetical protein; Provisional	94.43
PHA00738	108	putative HTH transcription regulator	94.41
PRK06266	178	transcription initiation factor E subunit alpha; V	94.38
KOG3115	249	consensus Methyltransferase-like protein [General	94.36
PRK11036	255	putative S-adenosyl-L-methionine-dependent methylt	94.32
TIGR00122	69	birA_repr_reg BirA biotin operon repressor domain.	94.31
PRK11050	152	manganese transport regulator MntR; Provisional	94.31
TIGR00138	181	gidB 16S rRNA methyltransferase GidB. GidB (glucos	94.28
PF12802	62	MarR_2: MarR family; PDB: 3ECO_B 2QWW_B 3KP6_B 3KP	94.27
COG4742	260	Predicted transcriptional regulator [Transcription	94.22
PF08220	57	HTH_DeoR: DeoR-like helix-turn-helix domain; Inter	94.18
TIGR00452	314	methyltransferase, putative. Known examples to dat	94.17
PRK11920	153	rirA iron-responsive transcriptional regulator; Re	94.13
PRK11188	209	rrmJ 23S rRNA methyltransferase J; Provisional	94.13
PF01047	59	MarR: MarR family; InterPro: IPR000835 The MarR-ty	93.98
PRK11088	272	rrmA 23S rRNA methyltransferase A; Provisional	93.95
TIGR00080	215	pimt protein-L-isoaspartate(D-aspartate) O-methylt	93.94
smart00418	66	HTH_ARSR helix_turn_helix, Arsenical Resistance Op	93.91
COG1321	154	TroR Mn-dependent transcriptional regulator [Trans	93.9
PTZ00098	263	phosphoethanolamine N-methyltransferase; Provision	93.84
TIGR03438	301	probable methyltransferase. This model represents	93.82
TIGR01884	203	cas_HTH CRISPR locus-related DNA-binding protein.	93.8
COG2264	300	PrmA Ribosomal protein L11 methylase [Translation,	93.78
PLN02336	475	phosphoethanolamine N-methyltransferase	93.62
COG4976	287	Predicted methyltransferase (contains TPR repeat)	93.6
smart00344	108	HTH_ASNC helix_turn_helix ASNC type. AsnC: an auto	93.56
COG0220	227	Predicted S-adenosylmethionine-dependent methyltra	93.55
cd00090	78	HTH_ARSR Arsenical Resistance Operon Repressor and	93.51
PF08003	315	Methyltransf_9: Protein of unknown function (DUF16	93.46
PLN02244	340	tocopherol O-methyltransferase	93.39
PF07757	112	AdoMet_MTase: Predicted AdoMet-dependent methyltra	93.38
cd07153	116	Fur_like Ferric uptake regulator(Fur) and related	93.34
PF06163	127	DUF977: Bacterial protein of unknown function (DUF	93.26
PRK00216	239	ubiE ubiquinone/menaquinone biosynthesis methyltra	93.25
PRK11705	383	cyclopropane fatty acyl phospholipid synthase; Pro	93.22
PRK13944	205	protein-L-isoaspartate O-methyltransferase; Provis	93.22
TIGR01934	223	MenG_MenH_UbiE ubiquinone/menaquinone biosynthesis	93.22
TIGR00740	239	methyltransferase, putative. A simple BLAST search	93.11
PHA02943	165	hypothetical protein; Provisional	93.1
PRK15431	78	ferrous iron transport protein FeoC; Provisional	93.02
COG4190	144	Predicted transcriptional regulator [Transcription	93.01
PRK15451	247	tRNA cmo(5)U34 methyltransferase; Provisional	92.98
KOG2899	288	consensus Predicted methyltransferase [General fun	92.97
PF01638	90	HxlR: HxlR-like helix-turn-helix; InterPro: IPR002	92.96
PF04967	53	HTH_10: HTH DNA binding domain; InterPro: IPR00705	92.88
PF01726	65	LexA_DNA_bind: LexA DNA binding domain; InterPro:	92.84
smart00529	96	HTH_DTXR Helix-turn-helix diphteria tox regulatory	92.77
TIGR03534	251	RF_mod_PrmC protein-(glutamine-N5) methyltransfera	92.67
PTZ00338	294	dimethyladenosine transferase-like protein; Provis	92.65
PRK11014	141	transcriptional repressor NsrR; Provisional	92.51
TIGR03704	251	PrmC_rel_meth putative protein-(glutamine-N5) meth	92.47
PRK09328	275	N5-glutamine S-adenosyl-L-methionine-dependent met	92.41
smart00345	60	HTH_GNTR helix_turn_helix gluconate operon transcr	92.36
COG2226	238	UbiE Methylase involved in ubiquinone/menaquinone	92.36
PF05185	448	PRMT5: PRMT5 arginine-N-methyltransferase; InterPr	92.32
PF06325	295	PrmA: Ribosomal protein L11 methyltransferase (Prm	92.32
COG2890	280	HemK Methylase of polypeptide chain release factor	92.31
PF13679	141	Methyltransf_32: Methyltransferase domain	92.26
PRK04266	226	fibrillarin; Provisional	92.22
TIGR00373	158	conserved hypothetical protein TIGR00373. This fam	92.18
PLN02233	261	ubiquinone biosynthesis methyltransferase	92.16
PF14394	171	DUF4423: Domain of unknown function (DUF4423)	92.1
cd07377	66	WHTH_GntR Winged helix-turn-helix (WHTH) DNA-bindi	92.09
PF04182	75	B-block_TFIIIC: B-block binding subunit of TFIIIC;	92.08
TIGR03533	284	L3_gln_methyl protein-(glutamine-N5) methyltransfe	92.05
PRK05785	226	hypothetical protein; Provisional	91.96
PF10007	92	DUF2250: Uncharacterized protein conserved in arch	91.95
COG2227	243	UbiG 2-polyprenyl-3-methyl-5-hydroxy-6-metoxy-1,4-	91.77
PRK13942	212	protein-L-isoaspartate O-methyltransferase; Provis	91.73
COG4189	308	Predicted transcriptional regulator [Transcription	91.72
PF05148	219	Methyltransf_8: Hypothetical methyltransferase; In	91.68
PRK04457	262	spermidine synthase; Provisional	91.58
smart00138	264	MeTrc Methyltransferase, chemotaxis proteins. Meth	91.58
KOG1271	227	consensus Methyltransferases [General function pre	91.54
PLN02336	475	phosphoethanolamine N-methyltransferase	91.54
TIGR02147	271	Fsuc_second hypothetical protein, TIGR02147. This	91.42
PF01325	60	Fe_dep_repress: Iron dependent repressor, N-termin	91.3
PRK03573	144	transcriptional regulator SlyA; Provisional	91.3
PRK12335	287	tellurite resistance protein TehB; Provisional	91.25
COG3432	95	Predicted transcriptional regulator [Transcription	91.24
PRK11805	307	N5-glutamine S-adenosyl-L-methionine-dependent met	91.2
PF08279	55	HTH_11: HTH domain; InterPro: IPR013196 Winged hel	91.13
COG4123	248	Predicted O-methyltransferase [General function pr	91.1
PLN02490	340	MPBQ/MSBQ methyltransferase	90.89
PRK14966	423	unknown domain/N5-glutamine S-adenosyl-L-methionin	90.78
TIGR00478	228	tly hemolysin TlyA family protein. Hemolysins are	90.76
TIGR00536	284	hemK_fam HemK family putative methylases. The gene	90.73
PRK00517	250	prmA ribosomal protein L11 methyltransferase; Revi	90.55
TIGR00406	288	prmA ribosomal protein L11 methyltransferase. Ribo	90.41
PRK00377	198	cbiT cobalt-precorrin-6Y C(15)-methyltransferase;	90.4
TIGR01610	95	phage_O_Nterm phage replication protein O, N-termi	90.23
PRK01544	506	bifunctional N5-glutamine S-adenosyl-L-methionine-	89.93
PF01209	233	Ubie_methyltran: ubiE/COQ5 methyltransferase famil	89.93
PF08784	102	RPA_C: Replication protein A C terminal; InterPro:	89.83
PRK01544	506	bifunctional N5-glutamine S-adenosyl-L-methionine-	89.66
PRK06474	178	hypothetical protein; Provisional	89.65
PRK13943	322	protein-L-isoaspartate O-methyltransferase; Provis	89.56
PRK11512	144	DNA-binding transcriptional repressor MarR; Provis	89.54
PF02002	105	TFIIE_alpha: TFIIE alpha subunit; InterPro: IPR024	89.37
PRK11179	153	DNA-binding transcriptional regulator AsnC; Provis	89.32
KOG1499	346	consensus Protein arginine N-methyltransferase PRM	89.24
PLN02396	322	hexaprenyldihydroxybenzoate methyltransferase	89.23
PRK13168	443	rumA 23S rRNA m(5)U1939 methyltransferase; Reviewe	89.21
KOG1270	282	consensus Methyltransferases [Coenzyme transport a	89.19
PRK04214	412	rbn ribonuclease BN/unknown domain fusion protein;	89.11
COG2512	258	Predicted membrane-associated trancriptional regul	89.0
PRK00312	212	pcm protein-L-isoaspartate O-methyltransferase; Re	88.98
PRK11169	164	leucine-responsive transcriptional regulator; Prov	88.97
PF03444	78	HrcA_DNA-bdg: Winged helix-turn-helix transcriptio	88.95
PLN02366	308	spermidine synthase	88.86
PRK14967	223	putative methyltransferase; Provisional	88.69
PRK05134	233	bifunctional 3-demethylubiquinone-9 3-methyltransf	88.6
PF07789	155	DUF1627: Protein of unknown function (DUF1627); In	88.08
TIGR00498	199	lexA SOS regulatory protein LexA. LexA acts as a h	87.82
COG1522	154	Lrp Transcriptional regulators [Transcription]	87.75
PRK04172	489	pheS phenylalanyl-tRNA synthetase subunit alpha; P	87.73
COG1378	247	Predicted transcriptional regulators [Transcriptio	87.56
TIGR01889	109	Staph_reg_Sar staphylococcal accessory regulator f	87.48
KOG1541	270	consensus Predicted protein carboxyl methylase [Ge	87.21
PLN02585	315	magnesium protoporphyrin IX methyltransferase	86.87
PRK00811	283	spermidine synthase; Provisional	86.84
PRK10870	176	transcriptional repressor MprA; Provisional	86.66
PHA03412	241	putative methyltransferase; Provisional	86.37
PRK14165	217	winged helix-turn-helix domain-containing protein/	86.35
PRK05638	442	threonine synthase; Validated	86.3
COG4565	224	CitB Response regulator of citrate/malate metaboli	86.15
PF08123	205	DOT1: Histone methylation protein DOT1 ; InterPro:	86.14
KOG1500	517	consensus Protein arginine N-methyltransferase CAR	85.97
PF00325	32	Crp: Bacterial regulatory proteins, crp family; In	85.96
KOG2904	328	consensus Predicted methyltransferase [General fun	85.73
PHA03411	279	putative methyltransferase; Provisional	85.67
PLN02853	492	Probable phenylalanyl-tRNA synthetase alpha chain	85.65
PF08221	62	HTH_9: RNA polymerase III subunit RPC82 helix-turn	85.56
PF01135	209	PCMT: Protein-L-isoaspartate(D-aspartate) O-methyl	85.52
PRK10901	427	16S rRNA methyltransferase B; Provisional	85.3
PRK11873	272	arsM arsenite S-adenosylmethyltransferase; Reviewe	85.29
PRK13255	218	thiopurine S-methyltransferase; Reviewed	84.79
PF03141	506	Methyltransf_29: Putative S-adenosyl-L-methionine-	84.34
PRK13509	251	transcriptional repressor UlaR; Provisional	84.12
PF13404	42	HTH_AsnC-type: AsnC-type helix-turn-helix domain;	84.11
PLN03075	296	nicotianamine synthase; Provisional	83.87
PF00392	64	GntR: Bacterial regulatory proteins, gntR family;	83.51
TIGR00479	431	rumA 23S rRNA (uracil-5-)-methyltransferase RumA.	83.48
TIGR01983	224	UbiG ubiquinone biosynthesis O-methyltransferase.	83.36
PF01475	120	FUR: Ferric uptake regulator family; InterPro: IPR	83.31
COG1733	120	Predicted transcriptional regulators [Transcriptio	83.27
PRK01581	374	speE spermidine synthase; Validated	83.12
PLN02672	1082	methionine S-methyltransferase	82.71
PF12324	77	HTH_15: Helix-turn-helix domain of alkylmercury ly	82.64
COG1497	260	Predicted transcriptional regulator [Transcription	82.44
PF05584	72	Sulfolobus_pRN: Sulfolobus plasmid regulatory prot	82.26
COG2263	198	Predicted RNA methylase [Translation, ribosomal st	82.18
COG5631	199	Predicted transcription regulator, contains HTH do	82.1
PTZ00326	494	phenylalanyl-tRNA synthetase alpha chain; Provisio	81.99
PF13545	76	HTH_Crp_2: Crp-like helix-turn-helix domain; PDB:	81.91
TIGR01177	329	conserved hypothetical protein TIGR01177. This fam	81.89
PRK11727	321	23S rRNA mA1618 methyltransferase; Provisional	81.7
PTZ00146	293	fibrillarin; Provisional	81.7
PF05732	165	RepL: Firmicute plasmid replication protein (RepL)	81.41
PRK11886	319	bifunctional biotin--[acetyl-CoA-carboxylase] synt	80.86
KOG1540	296	consensus Ubiquinone biosynthesis methyltransferas	80.76
PF00165	42	HTH_AraC: Bacterial regulatory helix-turn-helix pr	80.48
TIGR00417	270	speE spermidine synthase. the SpeE subunit of sper	80.23
PRK14902	444	16S rRNA methyltransferase B; Provisional	80.23
PRK03612	521	spermidine synthase; Provisional	80.16
TIGR02085	374	meth_trns_rumB 23S rRNA (uracil-5-)-methyltransfer	80.08
PRK03522	315	rumB 23S rRNA methyluridine methyltransferase; Rev	80.03
PRK11642	813	exoribonuclease R; Provisional	80.01

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

Probab=99.93  E-value=6.2e-25  Score=186.59  Aligned_cols=200  Identities=45%  Similarity=0.712  Sum_probs=174.5

Q ss_pred             hhHHHHHHHHHHHhhhHHHHHHHHHHhhChhhHHHhcCCCCCCCHHHHHhhCCC-CCCcchhhhHHHHHHHHhcCCceee
Q 036971           14 EEEEVYSHAMVLGSAIVLPAVFQAVVNLDVLDIINKAGPGAELSASEIASQIPT-KNPEGAAKMLDRVLGLLVSFNILCC   92 (221)
Q Consensus        14 ~~~~~~~~l~~~~~g~~~~~aL~~av~lglfd~L~~~g~~~~~t~~eLA~~~g~-~~~~~~~~~l~rlLr~L~~~gll~~   92 (221)
                      ++.++..+++++++++..+++|.+|++|||||+|++++   +  +.|||..+.. .++. ++..+.|+||.|++.+++..
T Consensus         2 ~e~~~~l~~~~l~~~~~~~~~lk~A~eL~v~d~l~~~~---~--p~~ia~~l~~~~~~~-~p~ll~r~lr~L~s~~i~k~   75 (342)
T KOG3178|consen    2 EENEASLRAMRLANGFALPMVLKAACELGVFDILANAG---S--PSEIASLLPTPKNPE-APVLLDRILRLLVSYSILKC   75 (342)
T ss_pred             chhHHHHHHHHHHhhhhhHHHHHHHHHcChHHHHHhCC---C--HHHHHHhccCCCCCC-ChhHHHHHHHHHHHhhhcee
Confidence            56677899999999999999999999999999999964   2  7777777762 1444 56699999999999999998


Q ss_pred             eccCCCCcceeccccccccccCCCCCChHHHHHHhcCccchhhhhhhHHHHhcCCchhHhhhCCchhhhhccCchHHHHH
Q 036971           93 SFSTHGVRLYSLAPVAKYYVSDQNGVSMRPYMNLSLDKVMMPGWFQLKDQILEGELSYNKALGMDFYDYLGTDSRFNEVF  172 (221)
Q Consensus        93 ~~~~~~~~~y~lt~~s~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~~g~~~f~~~~g~~~~~~l~~~p~~~~~F  172 (221)
                      .... .. .|+++++++++..++.+.++++++...+++..++.|..|.++++.++.+|..++|...|+|...++.....|
T Consensus        76 ~~~~-~~-~Y~~~~~~~~~l~~~~~~S~a~~~~~~~~~v~~~~w~~l~dai~eg~~~~~~~~G~~l~~~~~~~~~~~~~~  153 (342)
T KOG3178|consen   76 RLVG-GE-VYSATPVCKYFLKDSGGGSLAPLVLLNTSKVIMNTWQFLKDAILEGGDAFATAHGMMLGGYGGADERFSKDF  153 (342)
T ss_pred             eeec-ce-eeeccchhhhheecCCCCchhHHHHHhcccchhhhHHHHHHHHHhcccCCccccchhhhhhcccccccHHHH
Confidence            7321 12 899999999877544345899999888888899999999999999999999999988999999999999999


Q ss_pred             HHHHhhhhHHHHHHHHHhcCCCCCCCeEEEecCCccHHHHHHHhhCCCC
Q 036971          173 NNGMIGQTSFVINKIVESYKGFQNITRLVDVGGGLGITLSDHNFQIPSY  221 (221)
Q Consensus       173 ~~aM~~~~~~~~~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l  221 (221)
                      +++|...+....+.+++.|.+|++...+||||||.|..+..++..||++
T Consensus       154 ~~sm~~l~~~~~~~il~~~~Gf~~v~~avDvGgGiG~v~k~ll~~fp~i  202 (342)
T KOG3178|consen  154 NGSMSFLSTLVMKKILEVYTGFKGVNVAVDVGGGIGRVLKNLLSKYPHI  202 (342)
T ss_pred             HHHHHHHHHHHHHhhhhhhcccccCceEEEcCCcHhHHHHHHHHhCCCC
Confidence            9999999998888889999889999999999999999999999999975

>TIGR02716 C20_methyl_CrtF C-20 methyltransferase BchU

Probab=99.91  E-value=7.3e-24  Score=181.74  Aligned_cols=169  Identities=17%  Similarity=0.289  Sum_probs=125.4

Q ss_pred             HHHHHHHHHHhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceecccccc
Q 036971           30 VLPAVFQAVVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPVAK  109 (221)
Q Consensus        30 ~~~~aL~~av~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~~s~  109 (221)
                      +...+|++|++|||||+|++    +|.|++|||+++|+ +++    .++|+||+|+++|+|++.     +++|+||+.++
T Consensus         2 ~~~~~l~aa~~Lglfd~L~~----gp~t~~eLA~~~~~-~~~----~~~~lL~~L~~lgll~~~-----~~~y~~t~~~~   67 (306)
T TIGR02716         2 IEFSCMKAAIELDLFSHMAE----GPKDLATLAADTGS-VPP----RLEMLLETLRQMRVINLE-----DGKWSLTEFAD   67 (306)
T ss_pred             chHHHHHHHHHcCcHHHHhc----CCCCHHHHHHHcCC-ChH----HHHHHHHHHHhCCCeEec-----CCcEecchhHH
Confidence            35789999999999999998    69999999999999 998    999999999999999985     78999999998


Q ss_pred             ccccCCCCC---ChHHHHHHhcCccchhhhhhhHHHHhcCCchhHhhhCCchhhhhccCchHHHHHHHHHh-hhhHHHHH
Q 036971          110 YYVSDQNGV---SMRPYMNLSLDKVMMPGWFQLKDQILEGELSYNKALGMDFYDYLGTDSRFNEVFNNGMI-GQTSFVIN  185 (221)
Q Consensus       110 ~L~~~~~~~---~~~~~~~~~~~~~~~~~~~~L~~~l~~g~~~f~~~~g~~~~~~l~~~p~~~~~F~~aM~-~~~~~~~~  185 (221)
                      .+..++++.   ++.+++.+.. ......|.+|.+++| ++++|...     +++....++.. .|...|. .......+
T Consensus        68 ~~l~~~~~~~~~~~~~~~~~~~-~~~~~~~~~l~~~~r-~~~~~~~~-----~~~~~~~~~~~-~~~~~~~~~~~~~~~~  139 (306)
T TIGR02716        68 YMFSPTPKEPNLHQTPVAKAMA-FLADDFYMGLSQAVR-GQKNFKGQ-----VPYPPVTREDN-LYFEEIHRSNAKFAIQ  139 (306)
T ss_pred             hhccCCccchhhhcCchHHHHH-HHHHHHHHhHHHHhc-CCcccccc-----cCCCCCCHHHH-HhHHHHHHhcchhHHH
Confidence            665543311   1123443331 123356899999998 45555332     22222223332 3444444 43444556


Q ss_pred             HHHHhcCCCCCCCeEEEecCCccHHHHHHHhhCCCC
Q 036971          186 KIVESYKGFQNITRLVDVGGGLGITLSDHNFQIPSY  221 (221)
Q Consensus       186 ~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l  221 (221)
                      .+++.++ +++..+|||||||+|.++.++++++|++
T Consensus       140 ~l~~~~~-~~~~~~vlDiG~G~G~~~~~~~~~~p~~  174 (306)
T TIGR02716       140 LLLEEAK-LDGVKKMIDVGGGIGDISAAMLKHFPEL  174 (306)
T ss_pred             HHHHHcC-CCCCCEEEEeCCchhHHHHHHHHHCCCC
Confidence            6788888 8888999999999999999999999974

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.

>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=99.85  E-value=4e-21  Score=159.40  Aligned_cols=123  Identities=28%  Similarity=0.568  Sum_probs=107.8

Q ss_pred             CCcceeccccccccccCCCCCChHHHHHHhcCccchhhhhhhHHHHhcCCchhHhhhCCchhhhhccCchHHHHHHHHHh
Q 036971           98 GVRLYSLAPVAKYYVSDQNGVSMRPYMNLSLDKVMMPGWFQLKDQILEGELSYNKALGMDFYDYLGTDSRFNEVFNNGMI  177 (221)
Q Consensus        98 ~~~~y~lt~~s~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~~g~~~f~~~~g~~~~~~l~~~p~~~~~F~~aM~  177 (221)
                      ++++|+||++|+.|+.+++..++..++.+...+..++.|.+|.+++++|+++|+..+|.++|+|+.++|+..+.|+++|.
T Consensus         2 ~~~~y~~t~~s~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~v~~g~~~~~~~~g~~~~~~~~~~~~~~~~f~~~m~   81 (241)
T PF00891_consen    2 EGDRYSLTPLSELLLSDHSSPSMRGFVLFMISPELYPAWFRLTEAVRTGKPPFEKAFGTPFFEYLEEDPELAKRFNAAMA   81 (241)
T ss_dssp             STEEEEE-HHHHGGSTTTTTTHHHHHHHHHTCHHHHHGGGGHHHHHHHSS-HHHHHHSS-HHHHHHCSHHHHHHHHHHHH
T ss_pred             CCCEEeChHHHHHHhCCCCcCcHHHHHHHhcCHHHHHHHHHHHhhhccCCCHHHHhcCCcHHHhhhhChHHHHHHHHHHH
Confidence            58999999999988766542367888877666778999999999999999999999998999999999999999999999


Q ss_pred             hhhHHHH-HHHHHhcCCCCCCCeEEEecCCccHHHHHHHhhCCCC
Q 036971          178 GQTSFVI-NKIVESYKGFQNITRLVDVGGGLGITLSDHNFQIPSY  221 (221)
Q Consensus       178 ~~~~~~~-~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l  221 (221)
                      ..+.... +.+++.++ |++.++|||||||.|+++.+++++||+|
T Consensus        82 ~~~~~~~~~~~~~~~d-~~~~~~vvDvGGG~G~~~~~l~~~~P~l  125 (241)
T PF00891_consen   82 EYSRLNAFDILLEAFD-FSGFKTVVDVGGGSGHFAIALARAYPNL  125 (241)
T ss_dssp             HHHHHHHHHHHHHHST-TTTSSEEEEET-TTSHHHHHHHHHSTTS
T ss_pred             hhhhcchhhhhhcccc-ccCccEEEeccCcchHHHHHHHHHCCCC
Confidence            9988877 78889999 9999999999999999999999999986

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 ....

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

Probab=99.11  E-value=1.5e-10  Score=72.55  Aligned_cols=50  Identities=50%  Similarity=0.816  Sum_probs=43.0

Q ss_pred             HHHHHHHhhChhhHHHhcCCCCCCCHHHHHhhCC-CCCCcchhhhHHHHHHHHh
Q 036971           33 AVFQAVVNLDVLDIINKAGPGAELSASEIASQIP-TKNPEGAAKMLDRVLGLLV   85 (221)
Q Consensus        33 ~aL~~av~lglfd~L~~~g~~~~~t~~eLA~~~g-~~~~~~~~~~l~rlLr~L~   85 (221)
                      .+|++|++|||||+|++.| |+++|++||+.++. . +|. ++..|.|+||+|+
T Consensus         1 MaLk~aveLgI~dii~~~g-~~~ls~~eia~~l~~~-~p~-~~~~L~RimR~L~   51 (51)
T PF08100_consen    1 MALKCAVELGIPDIIHNAG-GGPLSLSEIAARLPTS-NPS-APPMLDRIMRLLV   51 (51)
T ss_dssp             HHHHHHHHTTHHHHHHHHT-TS-BEHHHHHHTSTCT--TT-HHHHHHHHHHHHH
T ss_pred             CcHHHHHHcCcHHHHHHcC-CCCCCHHHHHHHcCCC-Ccc-hHHHHHHHHHHhC
Confidence            4799999999999999996 47999999999999 6 665 7779999999985

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 ....

>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=97.39  E-value=5.8e-05  Score=47.44  Aligned_cols=46  Identities=26%  Similarity=0.357  Sum_probs=40.3

Q ss_pred             hChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           41 LDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        41 lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      +.|++.|.+.+  +++|+.|||+++|+ +..    -+.|+|..|+..|+++++
T Consensus         6 l~iL~~l~~~~--~~~t~~eia~~~gl-~~s----tv~r~L~tL~~~g~v~~d   51 (52)
T PF09339_consen    6 LRILEALAESG--GPLTLSEIARALGL-PKS----TVHRLLQTLVEEGYVERD   51 (52)
T ss_dssp             HHHHHCHHCTB--SCEEHHHHHHHHTS--HH----HHHHHHHHHHHTTSEEEC
T ss_pred             HHHHHHHHcCC--CCCCHHHHHHHHCc-CHH----HHHHHHHHHHHCcCeecC
Confidence            45788899876  67899999999999 776    899999999999999985

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.

>PRK06922 hypothetical protein; Provisional

Probab=97.32  E-value=0.00049  Score=64.40  Aligned_cols=64  Identities=17%  Similarity=0.248  Sum_probs=47.7

Q ss_pred             CchhhhhccCchHHHHHHHHHhhhhHHH--HHHHHHhcCCCCCCCeEEEecCCccHHHHHHHhhCCC
Q 036971          156 MDFYDYLGTDSRFNEVFNNGMIGQTSFV--INKIVESYKGFQNITRLVDVGGGLGITLSDHNFQIPS  220 (221)
Q Consensus       156 ~~~~~~l~~~p~~~~~F~~aM~~~~~~~--~~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~  220 (221)
                      ..+|+++..+++..++|.+.|.......  .......++ |....+|||||||.|.++..+++.+|+
T Consensus       377 ~~~fd~fg~r~D~~dRf~~~~~yle~m~~~~~~k~~i~d-~~~g~rVLDIGCGTG~ls~~LA~~~P~  442 (677)
T PRK06922        377 VLLFDFFGLRKDAYDRFHNEEVYLEHMNSSADDKRIILD-YIKGDTIVDVGAGGGVMLDMIEEETED  442 (677)
T ss_pred             hHHHHHhccChhhHhHHHhHHHHHHhccccHHHHHHHhh-hcCCCEEEEeCCCCCHHHHHHHHhCCC
Confidence            4689999999989888988776543321  111233455 556789999999999999999999886

>smart00346 HTH_ICLR helix_turn_helix isocitrate lyase regulation

Probab=97.22  E-value=0.00054  Score=47.75  Aligned_cols=58  Identities=21%  Similarity=0.255  Sum_probs=48.3

Q ss_pred             hChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceeccccc
Q 036971           41 LDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPVA  108 (221)
Q Consensus        41 lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~~s  108 (221)
                      +.|++.|...+  +++|+.|||+.+|+ +..    .+.|.|+.|...|++.+..   ..+.|++++..
T Consensus         8 ~~Il~~l~~~~--~~~t~~~ia~~l~i-~~~----tv~r~l~~L~~~g~l~~~~---~~~~y~l~~~~   65 (91)
T smart00346        8 LAVLRALAEEP--GGLTLAELAERLGL-SKS----TAHRLLNTLQELGYVEQDG---QNGRYRLGPKV   65 (91)
T ss_pred             HHHHHHHHhCC--CCcCHHHHHHHhCC-CHH----HHHHHHHHHHHCCCeeecC---CCCceeecHHH
Confidence            56788888863  48999999999999 887    9999999999999999862   36678887743

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

Probab=97.02  E-value=0.0017  Score=43.13  Aligned_cols=60  Identities=18%  Similarity=0.271  Sum_probs=48.9

Q ss_pred             HHhhChhhHHHhcCCCC-CCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceeccc
Q 036971           38 VVNLDVLDIINKAGPGA-ELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAP  106 (221)
Q Consensus        38 av~lglfd~L~~~g~~~-~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~  106 (221)
                      .++-.|.+.|.+.|  + ++|+.|||+.+|+ +..    .++|+|.-|...|+|+....  .++.|+.+.
T Consensus         6 ~~~~~IL~~L~~~g--~~~~ta~eLa~~lgl-~~~----~v~r~L~~L~~~G~V~~~~~--~~~~W~i~~   66 (68)
T smart00550        6 SLEEKILEFLENSG--DETSTALQLAKNLGL-PKK----EVNRVLYSLEKKGKVCKQGG--TPPLWKLTD   66 (68)
T ss_pred             HHHHHHHHHHHHCC--CCCcCHHHHHHHHCC-CHH----HHHHHHHHHHHCCCEEecCC--CCCceEeec
Confidence            35567888999985  3 3999999999999 887    99999999999999998621  247787764

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

>COG1414 IclR Transcriptional regulator [Transcription]

Probab=96.96  E-value=0.00099  Score=55.56  Aligned_cols=59  Identities=24%  Similarity=0.315  Sum_probs=49.4

Q ss_pred             hChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceecccccc
Q 036971           41 LDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPVAK  109 (221)
Q Consensus        41 lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~~s~  109 (221)
                      +.|.+.|...+  .++++.|||+++|+ +..    -+.|+|..|+..|+++++.   ++++|++++-..
T Consensus         7 l~iL~~l~~~~--~~l~l~ela~~~gl-pks----T~~RlL~tL~~~G~v~~d~---~~g~Y~Lg~~~~   65 (246)
T COG1414           7 LAILDLLAEGP--GGLSLAELAERLGL-PKS----TVHRLLQTLVELGYVEQDP---EDGRYRLGPRLL   65 (246)
T ss_pred             HHHHHHHHhCC--CCCCHHHHHHHhCc-CHH----HHHHHHHHHHHCCCEEEcC---CCCcEeehHHHH
Confidence            56788888843  45779999999999 887    9999999999999999982   357899998643

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

Probab=96.82  E-value=0.0013  Score=54.71  Aligned_cols=58  Identities=21%  Similarity=0.279  Sum_probs=49.5

Q ss_pred             hChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceeccccccc
Q 036971           41 LDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPVAKY  110 (221)
Q Consensus        41 lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~~s~~  110 (221)
                      +.|.+.|....  +++++.|||+.+|+ +..    -+.|+|.-|+..|+++++     ++.|++++....
T Consensus        12 l~IL~~l~~~~--~~~~l~eia~~lgl-pks----T~~RlL~tL~~~G~l~~~-----~~~Y~lG~~~~~   69 (248)
T TIGR02431        12 LAVIEAFGAER--PRLTLTDVAEATGL-TRA----AARRFLLTLVELGYVTSD-----GRLFWLTPRVLR   69 (248)
T ss_pred             HHHHHHHhcCC--CCCCHHHHHHHHCc-CHH----HHHHHHHHHHHCCCEEeC-----CCEEEecHHHHH
Confidence            56788888754  68999999999999 877    899999999999999984     688999986543

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.

>PRK11569 transcriptional repressor IclR; Provisional

Probab=96.82  E-value=0.0016  Score=55.19  Aligned_cols=59  Identities=15%  Similarity=0.170  Sum_probs=49.5

Q ss_pred             hChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceecccccc
Q 036971           41 LDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPVAK  109 (221)
Q Consensus        41 lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~~s~  109 (221)
                      +.|.+.|.+..  +++++.|||+.+|+ +..    -+.|+|..|+..|+++++.   +.++|++.+...
T Consensus        31 l~IL~~l~~~~--~~~~lseia~~lgl-pks----Tv~RlL~tL~~~G~l~~~~---~~~~Y~lG~~l~   89 (274)
T PRK11569         31 LKLLEWIAESN--GSVALTELAQQAGL-PNS----TTHRLLTTMQQQGFVRQVG---ELGHWAIGAHAF   89 (274)
T ss_pred             HHHHHHHHhCC--CCcCHHHHHHHHCc-CHH----HHHHHHHHHHHCCCEEEcC---CCCeEecCHHHH
Confidence            45777787754  68999999999999 877    8999999999999999862   468999987643

>PRK10163 DNA-binding transcriptional repressor AllR; Provisional

Probab=96.79  E-value=0.0017  Score=54.84  Aligned_cols=59  Identities=15%  Similarity=0.200  Sum_probs=49.7

Q ss_pred             hChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceecccccc
Q 036971           41 LDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPVAK  109 (221)
Q Consensus        41 lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~~s~  109 (221)
                      +.|++.|.+.+  +++++.|||+.+|+ +..    -+.|+|..|+..|++.++.   ..+.|++++-..
T Consensus        28 l~IL~~~~~~~--~~~tl~eIa~~lgl-pkS----tv~RlL~tL~~~G~l~~~~---~~~~Y~lG~~l~   86 (271)
T PRK10163         28 IAILQYLEKSG--GSSSVSDISLNLDL-PLS----TTFRLLKVLQAADFVYQDS---QLGWWHIGLGVF   86 (271)
T ss_pred             HHHHHHHHhCC--CCcCHHHHHHHHCc-CHH----HHHHHHHHHHHCCCEEEcC---CCCeEEecHHHH
Confidence            55778888764  57999999999999 877    9999999999999999862   467899987543

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

Probab=96.77  E-value=0.0015  Score=45.06  Aligned_cols=55  Identities=24%  Similarity=0.286  Sum_probs=41.6

Q ss_pred             HHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceeccccc
Q 036971           47 INKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPVA  108 (221)
Q Consensus        47 L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~~s  108 (221)
                      |+..+.++++|.++||+.+++ ++.    .+++++..|...|+++...  |..|.|.++.-.
T Consensus        17 la~~~~~~~~s~~eiA~~~~i-~~~----~l~kil~~L~~~Gli~s~~--G~~GGy~L~~~~   71 (83)
T PF02082_consen   17 LARHPDGKPVSSKEIAERLGI-SPS----YLRKILQKLKKAGLIESSR--GRGGGYRLARPP   71 (83)
T ss_dssp             HHCTTTSC-BEHHHHHHHHTS--HH----HHHHHHHHHHHTTSEEEET--STTSEEEESS-C
T ss_pred             HHhCCCCCCCCHHHHHHHHCc-CHH----HHHHHHHHHhhCCeeEecC--CCCCceeecCCH
Confidence            344433356999999999999 888    9999999999999998764  246778877543

(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.

>PRK15090 DNA-binding transcriptional regulator KdgR; Provisional

Probab=96.71  E-value=0.002  Score=53.91  Aligned_cols=58  Identities=14%  Similarity=0.215  Sum_probs=48.4

Q ss_pred             hChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceecccccc
Q 036971           41 LDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPVAK  109 (221)
Q Consensus        41 lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~~s~  109 (221)
                      +.|.+.|...   +++|+.|||+.+|+ +..    -+.|+|+.|+..|+++++.   +.+.|++++...
T Consensus        17 l~IL~~l~~~---~~l~l~eia~~lgl-~ks----tv~Rll~tL~~~G~l~~~~---~~~~Y~lG~~~~   74 (257)
T PRK15090         17 FGILQALGEE---REIGITELSQRVMM-SKS----TVYRFLQTMKTLGYVAQEG---ESEKYSLTLKLF   74 (257)
T ss_pred             HHHHHHhhcC---CCCCHHHHHHHHCc-CHH----HHHHHHHHHHHCCCEEEcC---CCCcEEecHHHH
Confidence            4566777764   48999999999999 887    9999999999999999862   468899998654

>PRK09834 DNA-binding transcriptional activator MhpR; Provisional

Probab=96.69  E-value=0.0025  Score=53.61  Aligned_cols=61  Identities=16%  Similarity=0.114  Sum_probs=50.6

Q ss_pred             hChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceecccccccc
Q 036971           41 LDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPVAKYY  111 (221)
Q Consensus        41 lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~~s~~L  111 (221)
                      +.|++.|...+  +++++.|||+.+|+ +..    -+.|+|..|...|+++++.   +++.|++++....|
T Consensus        14 l~iL~~l~~~~--~~ls~~eia~~lgl-~ks----tv~RlL~tL~~~g~v~~~~---~~~~Y~Lg~~~~~l   74 (263)
T PRK09834         14 LMVLRALNRLD--GGATVGLLAELTGL-HRT----TVRRLLETLQEEGYVRRSA---SDDSFRLTLKVRQL   74 (263)
T ss_pred             HHHHHHHHhcC--CCCCHHHHHHHHCc-CHH----HHHHHHHHHHHCCCEEEec---CCCcEEEcHHHHHH
Confidence            55777887754  46999999999999 887    9999999999999999872   46789999865544

>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=96.48  E-value=0.0024  Score=41.37  Aligned_cols=54  Identities=13%  Similarity=0.203  Sum_probs=44.8

Q ss_pred             HHHHHHHHhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           32 PAVFQAVVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        32 ~~aL~~av~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      +.+|.--.++.|+..|...   +++|+.+||+.+|+ ++.    .+.+-|+.|...|+++..
T Consensus         4 ~~aL~~p~R~~Il~~L~~~---~~~t~~ela~~l~~-~~~----t~s~hL~~L~~aGli~~~   57 (61)
T PF12840_consen    4 FKALSDPTRLRILRLLASN---GPMTVSELAEELGI-SQS----TVSYHLKKLEEAGLIEVE   57 (61)
T ss_dssp             HHHHTSHHHHHHHHHHHHC---STBEHHHHHHHHTS--HH----HHHHHHHHHHHTTSEEEE
T ss_pred             HHHhCCHHHHHHHHHHhcC---CCCCHHHHHHHHCC-CHH----HHHHHHHHHHHCCCeEEe
Confidence            3455556778888889554   59999999999999 777    899999999999999986

...

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

Probab=96.31  E-value=0.0022  Score=42.42  Aligned_cols=46  Identities=20%  Similarity=0.148  Sum_probs=39.4

Q ss_pred             hhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           40 NLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        40 ~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      +..++..|-..   +++|+++||+.+|+ +..    .+.+.|+.|...|++++.
T Consensus        10 E~~vy~~Ll~~---~~~t~~eIa~~l~i-~~~----~v~~~L~~L~~~GlV~~~   55 (68)
T PF01978_consen   10 EAKVYLALLKN---GPATAEEIAEELGI-SRS----TVYRALKSLEEKGLVERE   55 (68)
T ss_dssp             HHHHHHHHHHH---CHEEHHHHHHHHTS-SHH----HHHHHHHHHHHTTSEEEE
T ss_pred             HHHHHHHHHHc---CCCCHHHHHHHHCc-CHH----HHHHHHHHHHHCCCEEEE
Confidence            44556666554   59999999999999 877    999999999999999997

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.

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

Probab=96.30  E-value=0.0096  Score=43.23  Aligned_cols=33  Identities=18%  Similarity=0.311  Sum_probs=26.9

Q ss_pred             HHHhcCCCCCCCeEEEecCCccHHHHHHHhhCCC
Q 036971          187 IVESYKGFQNITRLVDVGGGLGITLSDHNFQIPS  220 (221)
Q Consensus       187 ~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~  220 (221)
                      +++.++ .....+|+|||||.|.++..+++.+|+
T Consensus        11 ~~~~~~-~~~~~~vldlG~G~G~~~~~l~~~~~~   43 (124)
T TIGR02469        11 TLSKLR-LRPGDVLWDIGAGSGSITIEAARLVPN   43 (124)
T ss_pred             HHHHcC-CCCCCEEEEeCCCCCHHHHHHHHHCCC
Confidence            455555 555579999999999999999999875

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.

>TIGR02021 BchM-ChlM magnesium protoporphyrin O-methyltransferase

Probab=96.28  E-value=0.011  Score=48.03  Aligned_cols=61  Identities=10%  Similarity=0.017  Sum_probs=36.6

Q ss_pred             hhhhhccCchHHHHHHHHHhhhhHHHHHHHHHhcCC-CCCCCeEEEecCCccHHHHHHHhhC
Q 036971          158 FYDYLGTDSRFNEVFNNGMIGQTSFVINKIVESYKG-FQNITRLVDVGGGLGITLSDHNFQI  218 (221)
Q Consensus       158 ~~~~l~~~p~~~~~F~~aM~~~~~~~~~~~l~~~~~-~~~~~~vvDVGGG~G~~~~~l~~~~  218 (221)
                      .|+.+...+.....+...|..........+++..+. .....+|+|||||.|.++..+++..
T Consensus        16 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~vLDiGcG~G~~~~~la~~~   77 (219)
T TIGR02021        16 RWARIYGSGDPVSRVRQTVREGRAAMRRKLLDWLPKDPLKGKRVLDAGCGTGLLSIELAKRG   77 (219)
T ss_pred             HHHHhhCCchhhHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEeCCCCHHHHHHHHCC
Confidence            455555555555566666643222222333333321 2346899999999999999988754

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.

>PF01022 HTH_5: Bacterial regulatory protein, arsR family; InterPro: IPR001845 Bacterial transcription regulatory proteins that bind DNA via a helix-turn-helix (HTH) motif can be grouped into families on the basis of sequence similarities

Probab=96.27  E-value=0.0028  Score=38.78  Aligned_cols=44  Identities=18%  Similarity=0.295  Sum_probs=38.3

Q ss_pred             hhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceee
Q 036971           40 NLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCC   92 (221)
Q Consensus        40 ~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~   92 (221)
                      ++.|...|.+    ++.++.||++.+|+ ++.    .+.+-|+.|...|+++.
T Consensus         4 R~~Il~~L~~----~~~~~~el~~~l~~-s~~----~vs~hL~~L~~~glV~~   47 (47)
T PF01022_consen    4 RLRILKLLSE----GPLTVSELAEELGL-SQS----TVSHHLKKLREAGLVEK   47 (47)
T ss_dssp             HHHHHHHHTT----SSEEHHHHHHHHTS--HH----HHHHHHHHHHHTTSEEE
T ss_pred             HHHHHHHHHh----CCCchhhHHHhccc-cch----HHHHHHHHHHHCcCeeC
Confidence            5667788888    69999999999999 776    99999999999999874

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 ....

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

Probab=96.14  E-value=0.0079  Score=51.29  Aligned_cols=35  Identities=17%  Similarity=0.200  Sum_probs=29.3

Q ss_pred             HHHHHhcCCCCCCCeEEEecCCccHHHHHHHhhCCC
Q 036971          185 NKIVESYKGFQNITRLVDVGGGLGITLSDHNFQIPS  220 (221)
Q Consensus       185 ~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~  220 (221)
                      +.+++.++ .....+|+|+|||.|.+++.+++.+|+
T Consensus       148 ~lLl~~l~-~~~~~~vlDlGCG~Gvlg~~la~~~p~  182 (300)
T COG2813         148 RLLLETLP-PDLGGKVLDLGCGYGVLGLVLAKKSPQ  182 (300)
T ss_pred             HHHHHhCC-ccCCCcEEEeCCCccHHHHHHHHhCCC
Confidence            45677888 444459999999999999999999995

>PRK10857 DNA-binding transcriptional regulator IscR; Provisional

Probab=96.10  E-value=0.011  Score=46.22  Aligned_cols=47  Identities=11%  Similarity=0.082  Sum_probs=40.3

Q ss_pred             CCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceecccc
Q 036971           54 AELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPV  107 (221)
Q Consensus        54 ~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~~  107 (221)
                      +++|+++||+.+++ +++    .+.++|..|...||+....  |.+|.|.+..-
T Consensus        24 ~~vs~~eIA~~~~i-p~~----~l~kIl~~L~~aGLv~s~r--G~~GGy~Lar~   70 (164)
T PRK10857         24 GPVPLADISERQGI-SLS----YLEQLFSRLRKNGLVSSVR--GPGGGYLLGKD   70 (164)
T ss_pred             CcCcHHHHHHHHCc-CHH----HHHHHHHHHHHCCCEEeCC--CCCCCeeccCC
Confidence            58999999999999 888    9999999999999999753  25677887643

>PF13412 HTH_24: Winged helix-turn-helix DNA-binding; PDB: 1I1G_B 2IA0_B 3I4P_A 2GQQ_A 2L4A_A 2CFX_B 2DBB_B 2EFO_A 2EFQ_A 2PN6_A

Probab=96.09  E-value=0.0065  Score=37.18  Aligned_cols=45  Identities=13%  Similarity=0.280  Sum_probs=37.9

Q ss_pred             HhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCcee
Q 036971           39 VNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILC   91 (221)
Q Consensus        39 v~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~   91 (221)
                      .+..|+..|.+.   +.+|..|||+.+|+ +..    .+.+.++-|...|+++
T Consensus         4 ~~~~Il~~l~~~---~~~t~~ela~~~~i-s~~----tv~~~l~~L~~~g~I~   48 (48)
T PF13412_consen    4 TQRKILNYLREN---PRITQKELAEKLGI-SRS----TVNRYLKKLEEKGLIE   48 (48)
T ss_dssp             HHHHHHHHHHHC---TTS-HHHHHHHHTS--HH----HHHHHHHHHHHTTSEE
T ss_pred             HHHHHHHHHHHc---CCCCHHHHHHHhCC-CHH----HHHHHHHHHHHCcCcC
Confidence            456788899997   47999999999999 777    9999999999999875

...

>COG1959 Predicted transcriptional regulator [Transcription]

Probab=96.03  E-value=0.012  Score=45.38  Aligned_cols=56  Identities=21%  Similarity=0.224  Sum_probs=45.7

Q ss_pred             HHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceeccccc
Q 036971           46 IINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPVA  108 (221)
Q Consensus        46 ~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~~s  108 (221)
                      .|+..+++++.|+++||+..++ +|.    .|.++|..|...||++-.+  |..|.|+++.-.
T Consensus        16 ~LA~~~~~~~~s~~~IA~~~~i-s~~----~L~kil~~L~kaGlV~S~r--G~~GGy~Lar~~   71 (150)
T COG1959          16 YLALLPGGGPVSSAEIAERQGI-SPS----YLEKILSKLRKAGLVKSVR--GKGGGYRLARPP   71 (150)
T ss_pred             HHHhCCCCCcccHHHHHHHhCc-CHH----HHHHHHHHHHHcCCEEeec--CCCCCccCCCCh
Confidence            4555543348999999999999 988    9999999999999999875  357888887543

>PF09012 FeoC: FeoC like transcriptional regulator; InterPro: IPR015102 This entry contains several transcriptional regulators, including FeoC, which contain a HTH motif

Probab=96.00  E-value=0.0076  Score=40.03  Aligned_cols=43  Identities=19%  Similarity=0.320  Sum_probs=37.1

Q ss_pred             hhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           43 VLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        43 lfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      |-++|.+.   +.+|..|||..+++ ++.    .++.+|..|+..|.+++.
T Consensus         5 i~~~l~~~---~~~S~~eLa~~~~~-s~~----~ve~mL~~l~~kG~I~~~   47 (69)
T PF09012_consen    5 IRDYLRER---GRVSLAELAREFGI-SPE----AVEAMLEQLIRKGYIRKV   47 (69)
T ss_dssp             HHHHHHHS----SEEHHHHHHHTT---HH----HHHHHHHHHHCCTSCEEE
T ss_pred             HHHHHHHc---CCcCHHHHHHHHCc-CHH----HHHHHHHHHHHCCcEEEe
Confidence            56788887   58999999999999 888    999999999999999987

FeoC acts as a [Fe-S] dependent transcriptional repressor []. ; PDB: 1XN7_A 2K02_A.

>PF04703 FaeA: FaeA-like protein; PDB: 2JT1_A 2HTJ_A

Probab=95.96  E-value=0.0098  Score=38.76  Aligned_cols=45  Identities=20%  Similarity=0.129  Sum_probs=37.5

Q ss_pred             ChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           42 DVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        42 glfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      .|.+.|....  +|++..|||+++|+ +..    ..+++|..|...|.+++.
T Consensus         4 ~Il~~i~~~~--~p~~T~eiA~~~gl-s~~----~aR~yL~~Le~eG~V~~~   48 (62)
T PF04703_consen    4 KILEYIKEQN--GPLKTREIADALGL-SIY----QARYYLEKLEKEGKVERS   48 (62)
T ss_dssp             CHHHHHHHHT--S-EEHHHHHHHHTS--HH----HHHHHHHHHHHCTSEEEE
T ss_pred             HHHHHHHHcC--CCCCHHHHHHHhCC-CHH----HHHHHHHHHHHCCCEEEe
Confidence            5677777733  69999999999999 877    899999999999999986

>PRK10141 DNA-binding transcriptional repressor ArsR; Provisional

Probab=95.89  E-value=0.014  Score=43.11  Aligned_cols=56  Identities=16%  Similarity=0.285  Sum_probs=48.5

Q ss_pred             HHHHHHHHHHhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           30 VLPAVFQAVVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        30 ~~~~aL~~av~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      -.+.+|.--+++.|+..|...   ++.++.||++.+++ .+.    .+.+-|+.|...|++...
T Consensus         8 ~~fkaLadptRl~IL~~L~~~---~~~~v~ela~~l~l-sqs----tvS~HL~~L~~AGLV~~~   63 (117)
T PRK10141          8 QLFKILSDETRLGIVLLLRES---GELCVCDLCTALDQ-SQP----KISRHLALLRESGLLLDR   63 (117)
T ss_pred             HHHHHhCCHHHHHHHHHHHHc---CCcCHHHHHHHHCc-CHH----HHHHHHHHHHHCCceEEE
Confidence            345677777889999999875   48999999999999 776    999999999999999987

>PF14947 HTH_45: Winged helix-turn-helix; PDB: 1XSX_B 1R7J_A

Probab=95.88  E-value=0.0059  Score=41.55  Aligned_cols=56  Identities=21%  Similarity=0.230  Sum_probs=42.6

Q ss_pred             hhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceeccccccccc
Q 036971           43 VLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPVAKYYV  112 (221)
Q Consensus        43 lfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~~s~~L~  112 (221)
                      |...+..    ++.+..+|+..+++ +..    .+.+.|..|...|++..     .++.|.+|+.+..+.
T Consensus        11 IL~~l~~----~~~~~t~i~~~~~L-~~~----~~~~yL~~L~~~gLI~~-----~~~~Y~lTekG~~~l   66 (77)
T PF14947_consen   11 ILKILSK----GGAKKTEIMYKANL-NYS----TLKKYLKELEEKGLIKK-----KDGKYRLTEKGKEFL   66 (77)
T ss_dssp             HHHHH-T----T-B-HHHHHTTST---HH----HHHHHHHHHHHTTSEEE-----ETTEEEE-HHHHHHH
T ss_pred             HHHHHHc----CCCCHHHHHHHhCc-CHH----HHHHHHHHHHHCcCeeC-----CCCEEEECccHHHHH
Confidence            4445543    58999999999999 887    99999999999999977     499999999987654

>TIGR02010 IscR iron-sulfur cluster assembly transcription factor IscR

Probab=95.87  E-value=0.016  Score=43.78  Aligned_cols=46  Identities=11%  Similarity=0.114  Sum_probs=39.1

Q ss_pred             CCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceeccc
Q 036971           54 AELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAP  106 (221)
Q Consensus        54 ~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~  106 (221)
                      ++.|.++||+.+++ ++.    .++++|+.|...|++....  |..|.|.++.
T Consensus        24 ~~~s~~~ia~~~~i-p~~----~l~kil~~L~~~glv~s~~--G~~Ggy~l~~   69 (135)
T TIGR02010        24 GPVTLADISERQGI-SLS----YLEQLFAKLRKAGLVKSVR--GPGGGYQLGR   69 (135)
T ss_pred             CcCcHHHHHHHHCc-CHH----HHHHHHHHHHHCCceEEEe--CCCCCEeccC
Confidence            58999999999999 888    9999999999999998653  2456677765

This model describes IscR, an iron-sulfur binding transcription factor of the ISC iron-sulfur cluster assembly system.

>smart00419 HTH_CRP helix_turn_helix, cAMP Regulatory protein

Probab=95.86  E-value=0.012  Score=35.47  Aligned_cols=40  Identities=20%  Similarity=0.172  Sum_probs=35.4

Q ss_pred             CCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceec
Q 036971           55 ELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSL  104 (221)
Q Consensus        55 ~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~l  104 (221)
                      +++..+||+.+++ +..    .+.+.|+.|...|+++..     .+.|..
T Consensus         8 ~~s~~~la~~l~~-s~~----tv~~~l~~L~~~g~l~~~-----~~~~~i   47 (48)
T smart00419        8 PLTRQEIAELLGL-TRE----TVSRTLKRLEKEGLISRE-----GGRIVI   47 (48)
T ss_pred             ccCHHHHHHHHCC-CHH----HHHHHHHHHHHCCCEEEe-----CCEEEE
Confidence            6899999999999 777    999999999999999985     566654

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

Probab=95.81  E-value=0.013  Score=51.91  Aligned_cols=35  Identities=17%  Similarity=0.112  Sum_probs=28.2

Q ss_pred             HHHHHhcCCCCCCCeEEEecCCccHHHHHHHhhCCC
Q 036971          185 NKIVESYKGFQNITRLVDVGGGLGITLSDHNFQIPS  220 (221)
Q Consensus       185 ~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~  220 (221)
                      ..+++.+| .....+|+|||||.|.++..+++++|+
T Consensus       218 rllL~~lp-~~~~~~VLDLGCGtGvi~i~la~~~P~  252 (378)
T PRK15001        218 RFFMQHLP-ENLEGEIVDLGCGNGVIGLTLLDKNPQ  252 (378)
T ss_pred             HHHHHhCC-cccCCeEEEEeccccHHHHHHHHhCCC
Confidence            34566776 333469999999999999999999996

>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=95.72  E-value=0.016  Score=37.60  Aligned_cols=44  Identities=25%  Similarity=0.320  Sum_probs=38.6

Q ss_pred             CCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceeccc
Q 036971           54 AELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAP  106 (221)
Q Consensus        54 ~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~  106 (221)
                      .++|..+||+.+|+ ++.    .+.++|+.|...|++...    ..+.|.+++
T Consensus        24 ~~~s~~ela~~~g~-s~~----tv~r~l~~L~~~g~i~~~----~~~~~~l~~   67 (67)
T cd00092          24 LPLTRQEIADYLGL-TRE----TVSRTLKELEEEGLISRR----GRGKYRVNP   67 (67)
T ss_pred             CCcCHHHHHHHHCC-CHH----HHHHHHHHHHHCCCEEec----CCCeEEeCC
Confidence            58999999999999 877    999999999999999986    337787764

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

Probab=95.69  E-value=0.018  Score=48.70  Aligned_cols=35  Identities=23%  Similarity=0.260  Sum_probs=28.3

Q ss_pred             HHHHHhcCCCCCCCeEEEecCCccHHHHHHHhhCCC
Q 036971          185 NKIVESYKGFQNITRLVDVGGGLGITLSDHNFQIPS  220 (221)
Q Consensus       185 ~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~  220 (221)
                      ..+++.++ .....+|+|||||.|.++..++++.++
T Consensus        32 ~~i~~~l~-~~~~~~VLEiG~G~G~lt~~L~~~~~~   66 (272)
T PRK00274         32 DKIVDAAG-PQPGDNVLEIGPGLGALTEPLLERAAK   66 (272)
T ss_pred             HHHHHhcC-CCCcCeEEEeCCCccHHHHHHHHhCCc
Confidence            44566666 666689999999999999999998764

>COG3355 Predicted transcriptional regulator [Transcription]

Probab=95.68  E-value=0.02  Score=42.66  Aligned_cols=47  Identities=15%  Similarity=0.201  Sum_probs=38.5

Q ss_pred             hhChhhHHH-hcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeec
Q 036971           40 NLDVLDIIN-KAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSF   94 (221)
Q Consensus        40 ~lglfd~L~-~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~   94 (221)
                      +..++-+|- .+   +|.|+++||+.++. +..    -+.|-|+-|...|++.+.+
T Consensus        29 Dv~v~~~LL~~~---~~~tvdelae~lnr-~rS----tv~rsl~~L~~~GlV~Rek   76 (126)
T COG3355          29 DVEVYKALLEEN---GPLTVDELAEILNR-SRS----TVYRSLQNLLEAGLVEREK   76 (126)
T ss_pred             HHHHHHHHHhhc---CCcCHHHHHHHHCc-cHH----HHHHHHHHHHHcCCeeeee
Confidence            344444444 44   69999999999999 776    8999999999999999974

>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=95.60  E-value=0.017  Score=37.76  Aligned_cols=49  Identities=14%  Similarity=0.280  Sum_probs=35.8

Q ss_pred             CCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccC--CCCcceecccc
Q 036971           54 AELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFST--HGVRLYSLAPV  107 (221)
Q Consensus        54 ~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~--~~~~~y~lt~~  107 (221)
                      ++++..+||+.+++ +..    .+.+.++.|...|++++....  .....|++|+.
T Consensus        17 ~~~t~~~l~~~~~~-~~~----~vs~~i~~L~~~glv~~~~~~~d~R~~~~~LT~~   67 (68)
T PF13463_consen   17 GPMTQSDLAERLGI-SKS----TVSRIIKKLEEKGLVEKERDPHDKRSKRYRLTPA   67 (68)
T ss_dssp             S-BEHHHHHHHTT---HH----HHHHHHHHHHHTTSEEEEEESSCTTSEEEEE-HH
T ss_pred             CCcCHHHHHHHHCc-CHH----HHHHHHHHHHHCCCEEecCCCCcCCeeEEEeCCC
Confidence            69999999999999 877    899999999999999876321  11235888764

>TIGR00738 rrf2_super rrf2 family protein (putative transcriptional regulator)

Probab=95.52  E-value=0.023  Score=42.42  Aligned_cols=46  Identities=22%  Similarity=0.182  Sum_probs=38.1

Q ss_pred             CCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceeccc
Q 036971           54 AELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAP  106 (221)
Q Consensus        54 ~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~  106 (221)
                      ++.+.++||+.+++ ++.    .++++|+.|...|++....  |..|.|.++.
T Consensus        24 ~~~s~~eia~~~~i-~~~----~v~~il~~L~~~gli~~~~--g~~ggy~l~~   69 (132)
T TIGR00738        24 GPVSVKEIAERQGI-SRS----YLEKILRTLRRAGLVESVR--GPGGGYRLAR   69 (132)
T ss_pred             CcCcHHHHHHHHCc-CHH----HHHHHHHHHHHCCcEEecc--CCCCCccCCC
Confidence            48999999999999 888    9999999999999998742  1345666654

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.

>PRK00107 gidB 16S rRNA methyltransferase GidB; Reviewed

Probab=95.42  E-value=0.031  Score=44.67  Aligned_cols=25  Identities=28%  Similarity=0.393  Sum_probs=22.2

Q ss_pred             CCCeEEEecCCccHHHHHHHhhCCC
Q 036971          196 NITRLVDVGGGLGITLSDHNFQIPS  220 (221)
Q Consensus       196 ~~~~vvDVGGG~G~~~~~l~~~~P~  220 (221)
                      ...+|+|||||+|..+..+++.+|+
T Consensus        45 ~g~~VLDiGcGtG~~al~la~~~~~   69 (187)
T PRK00107         45 GGERVLDVGSGAGFPGIPLAIARPE   69 (187)
T ss_pred             CCCeEEEEcCCCCHHHHHHHHHCCC
Confidence            3679999999999999999988875

>COG2345 Predicted transcriptional regulator [Transcription]

Probab=95.21  E-value=0.036  Score=45.23  Aligned_cols=63  Identities=22%  Similarity=0.361  Sum_probs=49.4

Q ss_pred             ChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCC----Ccceeccccccccc
Q 036971           42 DVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHG----VRLYSLAPVAKYYV  112 (221)
Q Consensus        42 glfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~----~~~y~lt~~s~~L~  112 (221)
                      .|...|.+.   +|+|+.|||+++|+ ++.    .+++-|..|.+.|+++.....++    .-.|++|..++...
T Consensus        15 ~il~lL~~~---g~~sa~elA~~Lgi-s~~----avR~HL~~Le~~Glv~~~~~~~g~GRP~~~y~Lt~~g~~~f   81 (218)
T COG2345          15 RILELLKKS---GPVSADELAEELGI-SPM----AVRRHLDDLEAEGLVEVERQQGGRGRPAKLYRLTEKGREQF   81 (218)
T ss_pred             HHHHHHhcc---CCccHHHHHHHhCC-CHH----HHHHHHHHHHhCcceeeeeccCCCCCCceeeeecccchhhc
Confidence            355677776   59999999999999 888    99999999999999997632111    22599999877544

>smart00347 HTH_MARR helix_turn_helix multiple antibiotic resistance protein

Probab=95.19  E-value=0.032  Score=38.94  Aligned_cols=65  Identities=26%  Similarity=0.293  Sum_probs=47.5

Q ss_pred             hhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccC--CCCcceeccccccccc
Q 036971           40 NLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFST--HGVRLYSLAPVAKYYV  112 (221)
Q Consensus        40 ~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~--~~~~~y~lt~~s~~L~  112 (221)
                      ++.|+..|...   ++++..+||+.+++ ++.    .+.+.++-|...|++......  .....|.+|+.+..+.
T Consensus        12 ~~~il~~l~~~---~~~~~~~la~~~~~-s~~----~i~~~l~~L~~~g~v~~~~~~~~~r~~~~~lT~~g~~~~   78 (101)
T smart00347       12 QFLVLRILYEE---GPLSVSELAKRLGV-SPS----TVTRVLDRLEKKGLIRRLPSPEDRRSVLVSLTEEGRELI   78 (101)
T ss_pred             HHHHHHHHHHc---CCcCHHHHHHHHCC-Cch----hHHHHHHHHHHCCCeEecCCCCCCCeEEEEECHhHHHHH
Confidence            55677788776   47999999999999 877    899999999999999976210  0012455565555443

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

Probab=95.15  E-value=0.03  Score=49.72  Aligned_cols=33  Identities=18%  Similarity=0.214  Sum_probs=26.4

Q ss_pred             HHHhcCCCCCCCeEEEecCCccHHHHHHHhhCCC
Q 036971          187 IVESYKGFQNITRLVDVGGGLGITLSDHNFQIPS  220 (221)
Q Consensus       187 ~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~  220 (221)
                      +++.+. -.....+||||||.|.++..+++.+|+
T Consensus       114 ~~~~~~-~~~~p~vLEIGcGsG~~ll~lA~~~P~  146 (390)
T PRK14121        114 FLDFIS-KNQEKILIEIGFGSGRHLLYQAKNNPN  146 (390)
T ss_pred             HHHHhc-CCCCCeEEEEcCcccHHHHHHHHhCCC
Confidence            444444 234568999999999999999999996

>PRK03902 manganese transport transcriptional regulator; Provisional

Probab=95.13  E-value=0.039  Score=41.93  Aligned_cols=50  Identities=20%  Similarity=0.189  Sum_probs=43.4

Q ss_pred             CCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceeccccccccc
Q 036971           54 AELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPVAKYYV  112 (221)
Q Consensus        54 ~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~~s~~L~  112 (221)
                      ++.++.+||+.+++ ++.    .+.+.++.|...|++...    ..+.|.+|+.+..+.
T Consensus        21 ~~~~~~ela~~l~v-s~~----svs~~l~~L~~~Gli~~~----~~~~i~LT~~G~~~a   70 (142)
T PRK03902         21 GYARVSDIAEALSV-HPS----SVTKMVQKLDKDEYLIYE----KYRGLVLTPKGKKIG   70 (142)
T ss_pred             CCcCHHHHHHHhCC-Chh----HHHHHHHHHHHCCCEEEe----cCceEEECHHHHHHH
Confidence            58999999999999 777    999999999999999975    467799999886543

>TIGR02944 suf_reg_Xantho FeS assembly SUF system regulator, gammaproteobacterial

Probab=95.11  E-value=0.03  Score=41.79  Aligned_cols=46  Identities=28%  Similarity=0.226  Sum_probs=37.8

Q ss_pred             CCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceeccc
Q 036971           54 AELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAP  106 (221)
Q Consensus        54 ~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~  106 (221)
                      ++.++.+||+++++ ++.    .+.++|+.|...|++....  +..+.|.+..
T Consensus        24 ~~~s~~eia~~l~i-s~~----~v~~~l~~L~~~Gli~~~~--g~~ggy~l~~   69 (130)
T TIGR02944        24 QPYSAAEIAEQTGL-NAP----TVSKILKQLSLAGIVTSKR--GVEGGYTLAR   69 (130)
T ss_pred             CCccHHHHHHHHCc-CHH----HHHHHHHHHHHCCcEEecC--CCCCChhhcC
Confidence            58999999999999 887    9999999999999998642  1345666644

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.

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

Probab=95.01  E-value=0.032  Score=44.93  Aligned_cols=32  Identities=19%  Similarity=0.236  Sum_probs=26.1

Q ss_pred             HHHhcCCCCCCCeEEEecCCccHHHHHHHhhCCC
Q 036971          187 IVESYKGFQNITRLVDVGGGLGITLSDHNFQIPS  220 (221)
Q Consensus       187 ~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~  220 (221)
                      |.+.|..  ...+|+|||||.|..+..+++.+|+
T Consensus        33 ~~~~~~~--~~~~VLDiGcGtG~~~~~la~~~p~   64 (202)
T PRK00121         33 WAELFGN--DAPIHLEIGFGKGEFLVEMAKANPD   64 (202)
T ss_pred             HHHHcCC--CCCeEEEEccCCCHHHHHHHHHCCC
Confidence            4555552  4579999999999999999998885

>TIGR02702 SufR_cyano iron-sulfur cluster biosynthesis transcriptional regulator SufR

Probab=94.97  E-value=0.046  Score=44.13  Aligned_cols=65  Identities=18%  Similarity=0.278  Sum_probs=49.3

Q ss_pred             hhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCc----ceeccccccccc
Q 036971           40 NLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVR----LYSLAPVAKYYV  112 (221)
Q Consensus        40 ~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~----~y~lt~~s~~L~  112 (221)
                      +..|+..|...   +++|..+||+.+++ ++.    .+.+.|+.|...|+++........|    .|.+|+.+..+.
T Consensus         3 r~~IL~~L~~~---~~~t~~eLA~~lgi-s~~----tV~~~L~~Le~~GlV~r~~~~~~~gRp~~~y~LT~~G~~~~   71 (203)
T TIGR02702         3 KEDILSYLLKQ---GQATAAALAEALAI-SPQ----AVRRHLKDLETEGLIEYEAVVQGMGRPQYHYQLSRQGREQF   71 (203)
T ss_pred             HHHHHHHHHHc---CCCCHHHHHHHHCc-CHH----HHHHHHHHHHHCCCeEEeecccCCCCCceEEEECcchhhhc
Confidence            34577778776   48999999999999 887    9999999999999998762100122    378887776554

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.

>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=94.92  E-value=0.049  Score=38.21  Aligned_cols=69  Identities=22%  Similarity=0.230  Sum_probs=51.2

Q ss_pred             HHHhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHH----------HHHhcCCce-eeeccCCCCcceecc
Q 036971           37 AVVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVL----------GLLVSFNIL-CCSFSTHGVRLYSLA  105 (221)
Q Consensus        37 ~av~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL----------r~L~~~gll-~~~~~~~~~~~y~lt  105 (221)
                      .=++..|+..|...-+ .+.++.|||..++. ++.    .+.-.|          +.|+.+|++ ++... ++.-.|++|
T Consensus         8 S~~R~~vl~~L~~~yp-~~~~~~eIar~v~~-~~s----nV~GaL~G~g~rY~~e~SLv~lGLV~~~~~~-~g~k~Y~lT   80 (90)
T PF07381_consen    8 SKVRKKVLEYLCSIYP-EPAYPSEIARSVGS-DYS----NVLGALRGDGKRYNKEDSLVGLGLVEEEEEK-GGFKYYRLT   80 (90)
T ss_pred             HHHHHHHHHHHHHcCC-CcCCHHHHHHHHCC-CHH----HHHHHHhcCCCCcCcchhHHHcCCeeEeeec-CCeeEEEeC
Confidence            5577889999999833 58999999999999 887    666666          468999999 44321 123479999


Q ss_pred             ccccccc
Q 036971          106 PVAKYYV  112 (221)
Q Consensus       106 ~~s~~L~  112 (221)
                      +.+..++
T Consensus        81 ~~G~~~~   87 (90)
T PF07381_consen   81 EKGKRIA   87 (90)
T ss_pred             hhhhhHH
Confidence            8776443

The function of this family is unknown, although one sequence (Q8U3W1 from SWISSPROT) is described as a putative HTH transcription regulator.

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

Probab=94.87  E-value=0.04  Score=44.98  Aligned_cols=32  Identities=16%  Similarity=-0.006  Sum_probs=26.0

Q ss_pred             HHHHhcCCCCCCCeEEEecCCccHHHHHHHhhC
Q 036971          186 KIVESYKGFQNITRLVDVGGGLGITLSDHNFQI  218 (221)
Q Consensus       186 ~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~  218 (221)
                      .+++.++ .....+|||||||.|.++..+++.+
T Consensus        36 ~~l~~l~-~~~~~~vLDiGcG~G~~~~~la~~~   67 (231)
T TIGR02752        36 DTMKRMN-VQAGTSALDVCCGTADWSIALAEAV   67 (231)
T ss_pred             HHHHhcC-CCCCCEEEEeCCCcCHHHHHHHHHh
Confidence            3555566 5666899999999999999999876

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.

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

Probab=94.87  E-value=0.053  Score=46.07  Aligned_cols=34  Identities=21%  Similarity=0.234  Sum_probs=30.3

Q ss_pred             HHHHHHhcCCCCCCCeEEEecCCccHHHHHHHhhC
Q 036971          184 INKIVESYKGFQNITRLVDVGGGLGITLSDHNFQI  218 (221)
Q Consensus       184 ~~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~  218 (221)
                      ...+++.+. +++..+|||||||-|.+++-.++.|
T Consensus        61 ~~~~~~kl~-L~~G~~lLDiGCGWG~l~~~aA~~y   94 (283)
T COG2230          61 LDLILEKLG-LKPGMTLLDIGCGWGGLAIYAAEEY   94 (283)
T ss_pred             HHHHHHhcC-CCCCCEEEEeCCChhHHHHHHHHHc
Confidence            456788888 8899999999999999999999887

>PRK15068 tRNA mo(5)U34 methyltransferase; Provisional

Probab=94.84  E-value=0.039  Score=47.89  Aligned_cols=24  Identities=21%  Similarity=0.085  Sum_probs=21.4

Q ss_pred             CCeEEEecCCccHHHHHHHhhCCC
Q 036971          197 ITRLVDVGGGLGITLSDHNFQIPS  220 (221)
Q Consensus       197 ~~~vvDVGGG~G~~~~~l~~~~P~  220 (221)
                      .++|+|||||.|.++..+++..|.
T Consensus       123 g~~VLDIGCG~G~~~~~la~~g~~  146 (322)
T PRK15068        123 GRTVLDVGCGNGYHMWRMLGAGAK  146 (322)
T ss_pred             CCEEEEeccCCcHHHHHHHHcCCC
Confidence            489999999999999999988764

>PRK07402 precorrin-6B methylase; Provisional

Probab=94.75  E-value=0.068  Score=42.64  Aligned_cols=33  Identities=18%  Similarity=0.410  Sum_probs=26.4

Q ss_pred             HHHhcCCCCCCCeEEEecCCccHHHHHHHhhCCC
Q 036971          187 IVESYKGFQNITRLVDVGGGLGITLSDHNFQIPS  220 (221)
Q Consensus       187 ~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~  220 (221)
                      +++.++ .....+|+|||||+|.++..+++..|+
T Consensus        32 l~~~l~-~~~~~~VLDiG~G~G~~~~~la~~~~~   64 (196)
T PRK07402         32 LISQLR-LEPDSVLWDIGAGTGTIPVEAGLLCPK   64 (196)
T ss_pred             HHHhcC-CCCCCEEEEeCCCCCHHHHHHHHHCCC
Confidence            455555 556689999999999999999887764

>PRK10258 biotin biosynthesis protein BioC; Provisional

Probab=94.71  E-value=0.082  Score=43.79  Aligned_cols=34  Identities=15%  Similarity=0.197  Sum_probs=25.1

Q ss_pred             HHHHHHHhcCCCCCCCeEEEecCCccHHHHHHHhh
Q 036971          183 VINKIVESYKGFQNITRLVDVGGGLGITLSDHNFQ  217 (221)
Q Consensus       183 ~~~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~  217 (221)
                      .+..+++.++ .....+|+|||||+|.++..+.+.
T Consensus        30 ~a~~l~~~l~-~~~~~~vLDiGcG~G~~~~~l~~~   63 (251)
T PRK10258         30 SADALLAMLP-QRKFTHVLDAGCGPGWMSRYWRER   63 (251)
T ss_pred             HHHHHHHhcC-ccCCCeEEEeeCCCCHHHHHHHHc
Confidence            3445566666 445679999999999998887654

>PRK09489 rsmC 16S ribosomal RNA m2G1207 methyltransferase; Provisional

Probab=94.68  E-value=0.049  Score=47.68  Aligned_cols=33  Identities=18%  Similarity=0.322  Sum_probs=25.7

Q ss_pred             HHHhcCCCCCCCeEEEecCCccHHHHHHHhhCCC
Q 036971          187 IVESYKGFQNITRLVDVGGGLGITLSDHNFQIPS  220 (221)
Q Consensus       187 ~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~  220 (221)
                      +++.++ -....+|+|+|||.|.++..+++.+|+
T Consensus       188 Ll~~l~-~~~~g~VLDlGCG~G~ls~~la~~~p~  220 (342)
T PRK09489        188 LLSTLT-PHTKGKVLDVGCGAGVLSAVLARHSPK  220 (342)
T ss_pred             HHHhcc-ccCCCeEEEeccCcCHHHHHHHHhCCC
Confidence            445555 222458999999999999999999985

>TIGR02337 HpaR homoprotocatechuate degradation operon regulator, HpaR

Probab=94.61  E-value=0.12  Score=37.69  Aligned_cols=68  Identities=15%  Similarity=0.152  Sum_probs=51.5

Q ss_pred             HhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCC--CcceeccccccccccC
Q 036971           39 VNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHG--VRLYSLAPVAKYYVSD  114 (221)
Q Consensus        39 v~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~--~~~y~lt~~s~~L~~~  114 (221)
                      .+..|+..|...   +++|..+||+.+++ +..    .+.++++-|...|++.......+  .-.+.+|+.+..+...
T Consensus        29 ~q~~iL~~l~~~---~~~t~~ela~~~~~-~~~----tvs~~l~~Le~~GlI~r~~~~~D~R~~~v~LT~~G~~~~~~   98 (118)
T TIGR02337        29 QQWRILRILAEQ---GSMEFTQLANQACI-LRP----SLTGILARLERDGLVTRLKASNDQRRVYISLTPKGQALYAS   98 (118)
T ss_pred             HHHHHHHHHHHc---CCcCHHHHHHHhCC-Cch----hHHHHHHHHHHCCCEEeccCCCCCCeeEEEECHhHHHHHHH
Confidence            344467777776   58999999999999 887    99999999999999998632101  1258888888766543

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.

>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=94.58  E-value=0.04  Score=46.67  Aligned_cols=34  Identities=18%  Similarity=0.235  Sum_probs=25.5

Q ss_pred             HHHHHHhcCCCCCCCeEEEecCCccHHHHHHHhhC
Q 036971          184 INKIVESYKGFQNITRLVDVGGGLGITLSDHNFQI  218 (221)
Q Consensus       184 ~~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~  218 (221)
                      ...+++..+ .++..+|||||||-|.++..++++|
T Consensus        51 ~~~~~~~~~-l~~G~~vLDiGcGwG~~~~~~a~~~   84 (273)
T PF02353_consen   51 LDLLCEKLG-LKPGDRVLDIGCGWGGLAIYAAERY   84 (273)
T ss_dssp             HHHHHTTTT---TT-EEEEES-TTSHHHHHHHHHH
T ss_pred             HHHHHHHhC-CCCCCEEEEeCCCccHHHHHHHHHc
Confidence            345677777 8888999999999999999999875

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 ....

>PRK07580 Mg-protoporphyrin IX methyl transferase; Validated

Probab=94.58  E-value=0.069  Score=43.38  Aligned_cols=26  Identities=19%  Similarity=0.086  Sum_probs=21.3

Q ss_pred             CCCCCeEEEecCCccHHHHHHHhhCC
Q 036971          194 FQNITRLVDVGGGLGITLSDHNFQIP  219 (221)
Q Consensus       194 ~~~~~~vvDVGGG~G~~~~~l~~~~P  219 (221)
                      .....+|+|||||.|.++..+++..+
T Consensus        61 ~~~~~~vLDvGcG~G~~~~~l~~~~~   86 (230)
T PRK07580         61 DLTGLRILDAGCGVGSLSIPLARRGA   86 (230)
T ss_pred             CCCCCEEEEEeCCCCHHHHHHHHcCC
Confidence            34457999999999999999887654

>PF08461 HTH_12: Ribonuclease R winged-helix domain; InterPro: IPR013668 This domain is found at the amino terminus of Ribonuclease R and a number of presumed transcriptional regulatory proteins from archaea

Probab=94.54  E-value=0.058  Score=35.58  Aligned_cols=60  Identities=13%  Similarity=0.134  Sum_probs=44.5

Q ss_pred             hhhHHHhcCCCCCCCHHHHHhhCCCCCCc-chhhhHHHHHHHHhcCCceeeeccCCCCcceecccccc
Q 036971           43 VLDIINKAGPGAELSASEIASQIPTKNPE-GAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPVAK  109 (221)
Q Consensus        43 lfd~L~~~g~~~~~t~~eLA~~~g~~~~~-~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~~s~  109 (221)
                      |.+.|.+.+  +|++..+|++.++. ... .....++|.|++|-..|++++.    ....+.+|+.+.
T Consensus         3 IL~~L~~~~--~P~g~~~l~~~L~~-~g~~~se~avRrrLr~me~~Glt~~~----g~~G~~iT~~G~   63 (66)
T PF08461_consen    3 ILRILAESD--KPLGRKQLAEELKL-RGEELSEEAVRRRLRAMERDGLTRKV----GRQGRIITEKGL   63 (66)
T ss_pred             HHHHHHHcC--CCCCHHHHHHHHHh-cChhhhHHHHHHHHHHHHHCCCcccc----CCcccccCHHHH
Confidence            567888877  79999999999976 322 1124899999999999988875    344556666543

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

Probab=94.52  E-value=0.029  Score=38.49  Aligned_cols=64  Identities=19%  Similarity=0.173  Sum_probs=47.9

Q ss_pred             HhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccC-CC--Ccceeccccccc
Q 036971           39 VNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFST-HG--VRLYSLAPVAKY  110 (221)
Q Consensus        39 v~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~-~~--~~~y~lt~~s~~  110 (221)
                      ++++|...|...   +.++..+|.+.+|+ +..    .|.+.|..|...|+++....- +.  .-.|++|+.++.
T Consensus         1 vRl~Il~~L~~~---~~~~f~~L~~~l~l-t~g----~Ls~hL~~Le~~GyV~~~k~~~~~~p~t~~~lT~~Gr~   67 (80)
T PF13601_consen    1 VRLAILALLYAN---EEATFSELKEELGL-TDG----NLSKHLKKLEEAGYVEVEKEFEGRRPRTWYSLTDKGRE   67 (80)
T ss_dssp             HHHHHHHHHHHH---SEEEHHHHHHHTT---HH----HHHHHHHHHHHTTSEEEEEE-SSS--EEEEEE-HHHHH
T ss_pred             CHHHHHHHHhhc---CCCCHHHHHHHhCc-CHH----HHHHHHHHHHHCCCEEEEEeccCCCCeEEEEECHHHHH
Confidence            567888888886   48999999999999 776    999999999999999986431 11  113777777764

>TIGR03587 Pse_Me-ase pseudaminic acid biosynthesis-associated methylase

Probab=94.49  E-value=0.047  Score=44.14  Aligned_cols=25  Identities=20%  Similarity=0.543  Sum_probs=21.7

Q ss_pred             CCCeEEEecCCccHHHHHHHhhCCC
Q 036971          196 NITRLVDVGGGLGITLSDHNFQIPS  220 (221)
Q Consensus       196 ~~~~vvDVGGG~G~~~~~l~~~~P~  220 (221)
                      ...+|+|||||+|..+..+++..|+
T Consensus        43 ~~~~VLDiGCG~G~~~~~L~~~~~~   67 (204)
T TIGR03587        43 KIASILELGANIGMNLAALKRLLPF   67 (204)
T ss_pred             CCCcEEEEecCCCHHHHHHHHhCCC
Confidence            4578999999999999999887664

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

>smart00420 HTH_DEOR helix_turn_helix, Deoxyribose operon repressor

Probab=94.46  E-value=0.084  Score=32.20  Aligned_cols=43  Identities=19%  Similarity=0.301  Sum_probs=37.3

Q ss_pred             hhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           43 VLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        43 lfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      |++.|.+.   ++.+..+|++.+++ ++.    .+.+.|..|...|++.+.
T Consensus         5 il~~l~~~---~~~s~~~l~~~l~~-s~~----tv~~~l~~L~~~g~i~~~   47 (53)
T smart00420        5 ILELLAQQ---GKVSVEELAELLGV-SEM----TIRRDLNKLEEQGLLTRV   47 (53)
T ss_pred             HHHHHHHc---CCcCHHHHHHHHCC-CHH----HHHHHHHHHHHCCCEEEe
Confidence            55666665   47999999999999 887    999999999999999986

>PRK06202 hypothetical protein; Provisional

Probab=94.43  E-value=0.084  Score=43.27  Aligned_cols=23  Identities=26%  Similarity=0.185  Sum_probs=19.3

Q ss_pred             CCCCeEEEecCCccHHHHHHHhh
Q 036971          195 QNITRLVDVGGGLGITLSDHNFQ  217 (221)
Q Consensus       195 ~~~~~vvDVGGG~G~~~~~l~~~  217 (221)
                      .+..+|+|||||.|.++..+++.
T Consensus        59 ~~~~~iLDlGcG~G~~~~~L~~~   81 (232)
T PRK06202         59 DRPLTLLDIGCGGGDLAIDLARW   81 (232)
T ss_pred             CCCcEEEEeccCCCHHHHHHHHH
Confidence            45679999999999998888753

>PHA00738 putative HTH transcription regulator

Probab=94.41  E-value=0.079  Score=38.27  Aligned_cols=48  Identities=21%  Similarity=0.187  Sum_probs=42.3

Q ss_pred             HHhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           38 VVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        38 av~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      -.++.|++.|...   +++++.+|++.+++ ...    .+.+-|+.|...||+...
T Consensus        12 ptRr~IL~lL~~~---e~~~V~eLae~l~l-SQp----tVS~HLKvLreAGLV~sr   59 (108)
T PHA00738         12 ILRRKILELIAEN---YILSASLISHTLLL-SYT----TVLRHLKILNEQGYIELY   59 (108)
T ss_pred             HHHHHHHHHHHHc---CCccHHHHHHhhCC-CHH----HHHHHHHHHHHCCceEEE
Confidence            3577889999884   37999999999999 666    999999999999999987

>PRK06266 transcription initiation factor E subunit alpha; Validated

Probab=94.38  E-value=0.12  Score=40.98  Aligned_cols=45  Identities=22%  Similarity=0.264  Sum_probs=40.1

Q ss_pred             hChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           41 LDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        41 lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      ..|+++|...   |++|.++||..+|+ ...    .++++|..|...||+...
T Consensus        25 ~~Vl~~L~~~---g~~tdeeLA~~Lgi-~~~----~VRk~L~~L~e~gLv~~~   69 (178)
T PRK06266         25 FEVLKALIKK---GEVTDEEIAEQTGI-KLN----TVRKILYKLYDARLADYK   69 (178)
T ss_pred             hHHHHHHHHc---CCcCHHHHHHHHCC-CHH----HHHHHHHHHHHCCCeEEe
Confidence            3478888887   48999999999999 887    999999999999999954

>KOG3115 consensus Methyltransferase-like protein [General function prediction only]

Probab=94.36  E-value=0.018  Score=46.51  Aligned_cols=24  Identities=25%  Similarity=0.389  Sum_probs=22.1

Q ss_pred             CCeEEEecCCccHHHHHHHhhCCC
Q 036971          197 ITRLVDVGGGLGITLSDHNFQIPS  220 (221)
Q Consensus       197 ~~~vvDVGGG~G~~~~~l~~~~P~  220 (221)
                      ...++|||||.|.++.+|.-.||+
T Consensus        61 kvefaDIGCGyGGLlv~Lsp~fPd   84 (249)
T KOG3115|consen   61 KVEFADIGCGYGGLLMKLAPKFPD   84 (249)
T ss_pred             cceEEeeccCccchhhhccccCcc
Confidence            367999999999999999999996

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

Probab=94.32  E-value=0.076  Score=44.24  Aligned_cols=31  Identities=23%  Similarity=0.278  Sum_probs=23.5

Q ss_pred             HHHHhcCCCCCCCeEEEecCCccHHHHHHHhhC
Q 036971          186 KIVESYKGFQNITRLVDVGGGLGITLSDHNFQI  218 (221)
Q Consensus       186 ~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~  218 (221)
                      .+++.++  ....+|+|||||.|.++..+++..
T Consensus        36 ~~l~~l~--~~~~~vLDiGcG~G~~a~~la~~g   66 (255)
T PRK11036         36 RLLAELP--PRPLRVLDAGGGEGQTAIKLAELG   66 (255)
T ss_pred             HHHHhcC--CCCCEEEEeCCCchHHHHHHHHcC
Confidence            3444544  345799999999999999998764

>TIGR00122 birA_repr_reg BirA biotin operon repressor domain

Probab=94.31  E-value=0.075  Score=35.06  Aligned_cols=55  Identities=13%  Similarity=0.259  Sum_probs=43.4

Q ss_pred             hhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceecccc
Q 036971           40 NLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPV  107 (221)
Q Consensus        40 ~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~~  107 (221)
                      ++.|+..|.+    ++.+..+||+.+++ ...    .+++-++.|...|+....    .+..|.+.+.
T Consensus         2 ~~~il~~L~~----~~~~~~eLa~~l~v-S~~----tv~~~l~~L~~~g~~i~~----~~~g~~l~~~   56 (69)
T TIGR00122         2 PLRLLALLAD----NPFSGEKLGEALGM-SRT----AVNKHIQTLREWGVDVLT----VGKGYRLPPP   56 (69)
T ss_pred             hHHHHHHHHc----CCcCHHHHHHHHCC-CHH----HHHHHHHHHHHCCCeEEe----cCCceEecCc
Confidence            4567788887    58999999999999 777    899999999999997665    3445555443

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.

>PRK11050 manganese transport regulator MntR; Provisional

Probab=94.31  E-value=0.078  Score=40.88  Aligned_cols=59  Identities=17%  Similarity=0.199  Sum_probs=47.1

Q ss_pred             ChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceeccccccccc
Q 036971           42 DVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPVAKYYV  112 (221)
Q Consensus        42 glfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~~s~~L~  112 (221)
                      -|..++...   ++.+..+||+.+++ ++.    .+.+.++.|...|++...    ....+.+|+.+..+.
T Consensus        41 ~I~~~l~~~---~~~t~~eLA~~l~i-s~s----tVsr~l~~Le~~GlI~r~----~~~~v~LT~~G~~l~   99 (152)
T PRK11050         41 LIADLIAEV---GEARQVDIAARLGV-SQP----TVAKMLKRLARDGLVEMR----PYRGVFLTPEGEKLA   99 (152)
T ss_pred             HHHHHHHhc---CCCCHHHHHHHHCC-CHH----HHHHHHHHHHHCCCEEEe----cCCceEECchHHHHH
Confidence            355577664   58999999999999 887    999999999999999885    345677777666543

>TIGR00138 gidB 16S rRNA methyltransferase GidB

Probab=94.28  E-value=0.035  Score=44.03  Aligned_cols=24  Identities=21%  Similarity=0.393  Sum_probs=21.3

Q ss_pred             CCeEEEecCCccHHHHHHHhhCCC
Q 036971          197 ITRLVDVGGGLGITLSDHNFQIPS  220 (221)
Q Consensus       197 ~~~vvDVGGG~G~~~~~l~~~~P~  220 (221)
                      ..+|+|||||+|..+..+++.+|+
T Consensus        43 ~~~vLDiGcGtG~~s~~la~~~~~   66 (181)
T TIGR00138        43 GKKVIDIGSGAGFPGIPLAIARPE   66 (181)
T ss_pred             CCeEEEecCCCCccHHHHHHHCCC
Confidence            579999999999999999888775

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.

>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=94.27  E-value=0.04  Score=35.25  Aligned_cols=49  Identities=18%  Similarity=0.230  Sum_probs=39.0

Q ss_pred             hhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeec
Q 036971           40 NLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSF   94 (221)
Q Consensus        40 ~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~   94 (221)
                      +..|+-.|...++ ..+|..+||+.+++ ++.    .+.++++.|...|++++..
T Consensus         7 q~~vL~~l~~~~~-~~~t~~~la~~l~~-~~~----~vs~~v~~L~~~Glv~r~~   55 (62)
T PF12802_consen    7 QFRVLMALARHPG-EELTQSELAERLGI-SKS----TVSRIVKRLEKKGLVERER   55 (62)
T ss_dssp             HHHHHHHHHHSTT-SGEEHHHHHHHHTS--HH----HHHHHHHHHHHTTSEEEEE
T ss_pred             HHHHHHHHHHCCC-CCcCHHHHHHHHCc-CHH----HHHHHHHHHHHCCCEEEeC
Confidence            3445666777641 12899999999999 877    9999999999999999973

...

>COG4742 Predicted transcriptional regulator [Transcription]

Probab=94.22  E-value=0.081  Score=44.33  Aligned_cols=67  Identities=16%  Similarity=0.223  Sum_probs=58.9

Q ss_pred             HHHHHHhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceecccccccccc
Q 036971           34 VFQAVVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPVAKYYVS  113 (221)
Q Consensus        34 aL~~av~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~~s~~L~~  113 (221)
                      .+...-+.+|+=.|.+    ||.|.+||-..+++ ++.    .+..=++-|...|++.++     ++.|++|..+..++.
T Consensus         9 if~SekRk~lLllL~e----gPkti~EI~~~l~v-s~~----ai~pqiKkL~~~~LV~~~-----~~~Y~LS~~G~iiv~   74 (260)
T COG4742           9 LFLSEKRKDLLLLLKE----GPKTIEEIKNELNV-SSS----AILPQIKKLKDKGLVVQE-----GDRYSLSSLGKIIVE   74 (260)
T ss_pred             HHccHHHHHHHHHHHh----CCCCHHHHHHHhCC-CcH----HHHHHHHHHhhCCCEEec-----CCEEEecchHHHHHH
Confidence            4455677888889999    69999999999999 887    899999999999999995     999999999988775


Q ss_pred             C
Q 036971          114 D  114 (221)
Q Consensus       114 ~  114 (221)
                      .
T Consensus        75 k   75 (260)
T COG4742          75 K   75 (260)
T ss_pred             H
Confidence            4

>PF08220 HTH_DeoR: DeoR-like helix-turn-helix domain; InterPro: IPR001034 The deoR-type HTH domain is a DNA-binding, helix-turn-helix (HTH) domain of about 50-60 amino acids present in transcription regulators of the deoR family, involved in sugar catabolism

Probab=94.18  E-value=0.1  Score=33.18  Aligned_cols=44  Identities=16%  Similarity=0.308  Sum_probs=39.6

Q ss_pred             ChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           42 DVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        42 glfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      .|.+.|.+.   +.+|+++||+.+++ .+.    -++|=|..|...|++.+.
T Consensus         4 ~Il~~l~~~---~~~s~~ela~~~~V-S~~----TiRRDl~~L~~~g~i~r~   47 (57)
T PF08220_consen    4 QILELLKEK---GKVSVKELAEEFGV-SEM----TIRRDLNKLEKQGLIKRT   47 (57)
T ss_pred             HHHHHHHHc---CCEEHHHHHHHHCc-CHH----HHHHHHHHHHHCCCEEEE
Confidence            367788887   59999999999999 887    899999999999999997

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

>TIGR00452 methyltransferase, putative

Probab=94.17  E-value=0.091  Score=45.44  Aligned_cols=33  Identities=15%  Similarity=0.093  Sum_probs=24.4

Q ss_pred             HHHhcCCCCCCCeEEEecCCccHHHHHHHhhCCC
Q 036971          187 IVESYKGFQNITRLVDVGGGLGITLSDHNFQIPS  220 (221)
Q Consensus       187 ~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~  220 (221)
                      ++..+. ....++|+|||||.|.++..+++..++
T Consensus       113 ~l~~l~-~~~g~~VLDvGCG~G~~~~~~~~~g~~  145 (314)
T TIGR00452       113 VLPHLS-PLKGRTILDVGCGSGYHMWRMLGHGAK  145 (314)
T ss_pred             HHHhcC-CCCCCEEEEeccCCcHHHHHHHHcCCC
Confidence            444444 233489999999999999998887663

Known examples to date are restricted to the proteobacteria.

>PRK11920 rirA iron-responsive transcriptional regulator; Reviewed

Probab=94.13  E-value=0.07  Score=41.20  Aligned_cols=47  Identities=17%  Similarity=0.000  Sum_probs=40.7

Q ss_pred             CCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceecccc
Q 036971           54 AELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPV  107 (221)
Q Consensus        54 ~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~~  107 (221)
                      .++++++||+..++ ++.    .|+++|..|...|+++-.+  |..|.|+++.-
T Consensus        23 ~~~s~~eIA~~~~i-s~~----~L~kIl~~L~~aGlv~S~r--G~~GGy~La~~   69 (153)
T PRK11920         23 KLSRIPEIARAYGV-SEL----FLFKILQPLVEAGLVETVR--GRNGGVRLGRP   69 (153)
T ss_pred             CcCcHHHHHHHHCc-CHH----HHHHHHHHHHHCCCEEeec--CCCCCeeecCC
Confidence            47899999999999 888    9999999999999999875  35678887753

>PRK11188 rrmJ 23S rRNA methyltransferase J; Provisional

Probab=94.13  E-value=0.11  Score=42.08  Aligned_cols=32  Identities=31%  Similarity=0.180  Sum_probs=24.4

Q ss_pred             HHHhcCCCCCCCeEEEecCCccHHHHHHHhhC
Q 036971          187 IVESYKGFQNITRLVDVGGGLGITLSDHNFQI  218 (221)
Q Consensus       187 ~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~  218 (221)
                      +.+.|..+....+|||||||+|.++..+++..
T Consensus        42 ~~~~~~~~~~~~~VLDlG~GtG~~t~~l~~~~   73 (209)
T PRK11188         42 IQQSDKLFKPGMTVVDLGAAPGGWSQYAVTQI   73 (209)
T ss_pred             HHHHhccCCCCCEEEEEcccCCHHHHHHHHHc
Confidence            34445424556799999999999999988875

>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=93.98  E-value=0.036  Score=35.18  Aligned_cols=47  Identities=15%  Similarity=0.271  Sum_probs=39.0

Q ss_pred             hhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeec
Q 036971           40 NLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSF   94 (221)
Q Consensus        40 ~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~   94 (221)
                      ++.+...|.+.   ++++..+||+.+++ ++.    .+.++++.|...|++++..
T Consensus         5 q~~iL~~l~~~---~~~~~~~la~~~~~-~~~----~~t~~i~~L~~~g~I~r~~   51 (59)
T PF01047_consen    5 QFRILRILYEN---GGITQSELAEKLGI-SRS----TVTRIIKRLEKKGLIERER   51 (59)
T ss_dssp             HHHHHHHHHHH---SSEEHHHHHHHHTS--HH----HHHHHHHHHHHTTSEEEEE
T ss_pred             HHHHHHHHHHc---CCCCHHHHHHHHCC-Chh----HHHHHHHHHHHCCCEEecc
Confidence            34455567777   48999999999999 877    9999999999999999863

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 ....

>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional

Probab=93.95  E-value=0.16  Score=42.77  Aligned_cols=25  Identities=28%  Similarity=0.399  Sum_probs=21.5

Q ss_pred             CCCeEEEecCCccHHHHHHHhhCCC
Q 036971          196 NITRLVDVGGGLGITLSDHNFQIPS  220 (221)
Q Consensus       196 ~~~~vvDVGGG~G~~~~~l~~~~P~  220 (221)
                      ...+|+|||||.|.++..+++.+|+
T Consensus        85 ~~~~vLDiGcG~G~~~~~l~~~~~~  109 (272)
T PRK11088         85 KATALLDIGCGEGYYTHALADALPE  109 (272)
T ss_pred             CCCeEEEECCcCCHHHHHHHHhccc
Confidence            3468999999999999999988763

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

Probab=93.94  E-value=0.11  Score=42.04  Aligned_cols=33  Identities=12%  Similarity=0.202  Sum_probs=26.4

Q ss_pred             HHHHhcCCCCCCCeEEEecCCccHHHHHHHhhCC
Q 036971          186 KIVESYKGFQNITRLVDVGGGLGITLSDHNFQIP  219 (221)
Q Consensus       186 ~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P  219 (221)
                      .+++.++ .....+|+|||||+|.++..+++..+
T Consensus        68 ~~~~~l~-~~~~~~VLDiG~GsG~~a~~la~~~~  100 (215)
T TIGR00080        68 MMTELLE-LKPGMKVLEIGTGSGYQAAVLAEIVG  100 (215)
T ss_pred             HHHHHhC-CCCcCEEEEECCCccHHHHHHHHHhC
Confidence            4455555 56678999999999999999988764

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

>smart00418 HTH_ARSR helix_turn_helix, Arsenical Resistance Operon Repressor

Probab=93.91  E-value=0.13  Score=32.46  Aligned_cols=42  Identities=17%  Similarity=0.266  Sum_probs=36.2

Q ss_pred             hhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           43 VLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        43 lfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      |+..|..    ++.|..+|++.+++ ++.    .+.+.|+.|...|++...
T Consensus         2 il~~l~~----~~~~~~~i~~~l~i-s~~----~v~~~l~~L~~~g~i~~~   43 (66)
T smart00418        2 ILKLLAE----GELCVCELAEILGL-SQS----TVSHHLKKLREAGLVESR   43 (66)
T ss_pred             HHHHhhc----CCccHHHHHHHHCC-CHH----HHHHHHHHHHHCCCeeee
Confidence            4555653    58999999999999 887    899999999999999975

>COG1321 TroR Mn-dependent transcriptional regulator [Transcription]

Probab=93.90  E-value=0.12  Score=40.08  Aligned_cols=51  Identities=12%  Similarity=0.126  Sum_probs=45.9

Q ss_pred             CCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceecccccccccc
Q 036971           54 AELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPVAKYYVS  113 (221)
Q Consensus        54 ~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~~s~~L~~  113 (221)
                      +++...+||+.+++ .|.    .+...++-|...|+++..    ..+.+.+|+.+..+..
T Consensus        23 ~~~~~~diA~~L~V-sp~----sVt~ml~rL~~~GlV~~~----~y~gi~LT~~G~~~a~   73 (154)
T COG1321          23 GFARTKDIAERLKV-SPP----SVTEMLKRLERLGLVEYE----PYGGVTLTEKGREKAK   73 (154)
T ss_pred             CcccHHHHHHHhCC-CcH----HHHHHHHHHHHCCCeEEe----cCCCeEEChhhHHHHH
Confidence            69999999999999 887    899999999999999998    6889999998875553

>PTZ00098 phosphoethanolamine N-methyltransferase; Provisional

Probab=93.84  E-value=0.093  Score=44.11  Aligned_cols=33  Identities=24%  Similarity=0.405  Sum_probs=27.0

Q ss_pred             HHHHHhcCCCCCCCeEEEecCCccHHHHHHHhhC
Q 036971          185 NKIVESYKGFQNITRLVDVGGGLGITLSDHNFQI  218 (221)
Q Consensus       185 ~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~  218 (221)
                      ..+++.++ .....+|||||||.|..+..+++.+
T Consensus        42 ~~~l~~l~-l~~~~~VLDiGcG~G~~a~~la~~~   74 (263)
T PTZ00098         42 TKILSDIE-LNENSKVLDIGSGLGGGCKYINEKY   74 (263)
T ss_pred             HHHHHhCC-CCCCCEEEEEcCCCChhhHHHHhhc
Confidence            45677777 7777899999999999998887654

>TIGR03438 probable methyltransferase

Probab=93.82  E-value=0.097  Score=44.89  Aligned_cols=60  Identities=10%  Similarity=0.060  Sum_probs=36.1

Q ss_pred             CCchhhhhccCchHHHHHHHHHhhhhHHHHHHHHHhcCCCCCCCeEEEecCCccHHHHHHHhhCC
Q 036971          155 GMDFYDYLGTDSRFNEVFNNGMIGQTSFVINKIVESYKGFQNITRLVDVGGGLGITLSDHNFQIP  219 (221)
Q Consensus       155 g~~~~~~l~~~p~~~~~F~~aM~~~~~~~~~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P  219 (221)
                      |..+|+-+...|++-. +..-+.- -...++.+++..+   ...+|||+|||+|.....|+++.|
T Consensus        27 G~~lf~~i~~~peYy~-tr~E~~i-l~~~~~~ia~~~~---~~~~iLELGcGtG~~t~~Ll~~l~   86 (301)
T TIGR03438        27 GSELFEQICELPEYYP-TRTEAAI-LERHADEIAAATG---AGCELVELGSGSSRKTRLLLDALR   86 (301)
T ss_pred             HHHHHHHHHCCCcccc-HHHHHHH-HHHHHHHHHHhhC---CCCeEEecCCCcchhHHHHHHhhc
Confidence            4566666666665542 1111111 1122334454443   346899999999999999998865

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

>TIGR01884 cas_HTH CRISPR locus-related DNA-binding protein

Probab=93.80  E-value=0.12  Score=41.78  Aligned_cols=58  Identities=22%  Similarity=0.265  Sum_probs=46.2

Q ss_pred             hhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceecccc
Q 036971           40 NLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPV  107 (221)
Q Consensus        40 ~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~~  107 (221)
                      +..|...|.+.   ++++..+||+.+++ ++.    .+.+.|..|...|++.+...  ....|.+|+.
T Consensus       145 ~~~IL~~l~~~---g~~s~~eia~~l~i-s~s----tv~r~L~~Le~~GlI~r~~~--r~~~~~lT~~  202 (203)
T TIGR01884       145 ELKVLEVLKAE---GEKSVKNIAKKLGK-SLS----TISRHLRELEKKGLVEQKGR--KGKRYSLTKL  202 (203)
T ss_pred             HHHHHHHHHHc---CCcCHHHHHHHHCc-CHH----HHHHHHHHHHHCCCEEEEcC--CccEEEeCCC
Confidence            44567777775   47999999999999 877    89999999999999999721  2456777764

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.

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

Probab=93.78  E-value=0.056  Score=46.30  Aligned_cols=43  Identities=26%  Similarity=0.302  Sum_probs=29.5

Q ss_pred             HHHHHHhhhhHHHHHHHHHhcCCCCCCCeEEEecCCccHHHHHHHh
Q 036971          171 VFNNGMIGQTSFVINKIVESYKGFQNITRLVDVGGGLGITLSDHNF  216 (221)
Q Consensus       171 ~F~~aM~~~~~~~~~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~  216 (221)
                      .|-..--..+++.. .+++.+. . +.++++|||||+|.++++.++
T Consensus       140 AFGTG~HpTT~lcL-~~Le~~~-~-~g~~vlDvGcGSGILaIAa~k  182 (300)
T COG2264         140 AFGTGTHPTTSLCL-EALEKLL-K-KGKTVLDVGCGSGILAIAAAK  182 (300)
T ss_pred             ccCCCCChhHHHHH-HHHHHhh-c-CCCEEEEecCChhHHHHHHHH
Confidence            35444334445554 3566665 3 568999999999999988765

>PLN02336 phosphoethanolamine N-methyltransferase

Probab=93.62  E-value=0.083  Score=48.08  Aligned_cols=35  Identities=11%  Similarity=0.135  Sum_probs=27.2

Q ss_pred             HHHHHHhcCCCCCCCeEEEecCCccHHHHHHHhhCC
Q 036971          184 INKIVESYKGFQNITRLVDVGGGLGITLSDHNFQIP  219 (221)
Q Consensus       184 ~~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P  219 (221)
                      .+.+++.++ .....+|||||||.|.++..+++.+.
T Consensus        26 ~~~il~~l~-~~~~~~vLDlGcG~G~~~~~la~~~~   60 (475)
T PLN02336         26 RPEILSLLP-PYEGKSVLELGAGIGRFTGELAKKAG   60 (475)
T ss_pred             hhHHHhhcC-ccCCCEEEEeCCCcCHHHHHHHhhCC
Confidence            345666666 44567999999999999999988754

>COG4976 Predicted methyltransferase (contains TPR repeat) [General function prediction only]

Probab=93.60  E-value=0.078  Score=43.70  Aligned_cols=47  Identities=17%  Similarity=0.443  Sum_probs=31.0

Q ss_pred             HHHHHHHHHhhhhHHH----HHHHHHhcCCCCCCCeEEEecCCccHHHHHHH
Q 036971          168 FNEVFNNGMIGQTSFV----INKIVESYKGFQNITRLVDVGGGLGITLSDHN  215 (221)
Q Consensus       168 ~~~~F~~aM~~~~~~~----~~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~  215 (221)
                      +.++|.+.....-...    ...++...+ ...+++++|+|||+|..+.+|.
T Consensus        94 ~Ae~Fd~~LVdkL~Y~vP~~l~emI~~~~-~g~F~~~lDLGCGTGL~G~~lR  144 (287)
T COG4976          94 YAERFDHILVDKLGYSVPELLAEMIGKAD-LGPFRRMLDLGCGTGLTGEALR  144 (287)
T ss_pred             HHHHHHHHHHHHhcCccHHHHHHHHHhcc-CCccceeeecccCcCcccHhHH
Confidence            4566777665432222    233444555 5558999999999999987764

>smart00344 HTH_ASNC helix_turn_helix ASNC type

Probab=93.56  E-value=0.1  Score=37.43  Aligned_cols=47  Identities=17%  Similarity=0.289  Sum_probs=41.5

Q ss_pred             HhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           39 VNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        39 v~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      .+..|...|...   +++|..+||+.+|+ ++.    .+.+.++.|...|++...
T Consensus         4 ~D~~il~~L~~~---~~~~~~~la~~l~~-s~~----tv~~~l~~L~~~g~i~~~   50 (108)
T smart00344        4 IDRKILEELQKD---ARISLAELAKKVGL-SPS----TVHNRVKRLEEEGVIKGY   50 (108)
T ss_pred             HHHHHHHHHHHh---CCCCHHHHHHHHCc-CHH----HHHHHHHHHHHCCCeece
Confidence            467788899887   48999999999999 887    999999999999999853

AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli

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

Probab=93.55  E-value=0.11  Score=42.87  Aligned_cols=24  Identities=21%  Similarity=0.346  Sum_probs=22.5

Q ss_pred             CeEEEecCCccHHHHHHHhhCCCC
Q 036971          198 TRLVDVGGGLGITLSDHNFQIPSY  221 (221)
Q Consensus       198 ~~vvDVGGG~G~~~~~l~~~~P~l  221 (221)
                      ..+|+||||.|.++.++++++|+.
T Consensus        50 pi~lEIGfG~G~~l~~~A~~nP~~   73 (227)
T COG0220          50 PIVLEIGFGMGEFLVEMAKKNPEK   73 (227)
T ss_pred             cEEEEECCCCCHHHHHHHHHCCCC
Confidence            589999999999999999999974

>cd00090 HTH_ARSR Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors

Probab=93.51  E-value=0.15  Score=33.10  Aligned_cols=57  Identities=21%  Similarity=0.268  Sum_probs=42.5

Q ss_pred             hhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceeccc
Q 036971           40 NLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAP  106 (221)
Q Consensus        40 ~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~  106 (221)
                      +..|...+...    +.+..+|++.+++ +..    .+.+.|+.|...|++...... ....|+.++
T Consensus         9 ~~~il~~l~~~----~~~~~ei~~~~~i-~~~----~i~~~l~~L~~~g~i~~~~~~-~~~~~~~~~   65 (78)
T cd00090           9 RLRILRLLLEG----PLTVSELAERLGL-SQS----TVSRHLKKLEEAGLVESRREG-RRVYYSLTD   65 (78)
T ss_pred             HHHHHHHHHHC----CcCHHHHHHHHCc-CHh----HHHHHHHHHHHCCCeEEEEec-cEEEEEeCC
Confidence            34466667763    5999999999999 877    899999999999999986210 124455554

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.

>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=93.46  E-value=0.097  Score=44.87  Aligned_cols=33  Identities=12%  Similarity=0.125  Sum_probs=25.1

Q ss_pred             HHHhcCCCCCCCeEEEecCCccHHHHHHHhhCCC
Q 036971          187 IVESYKGFQNITRLVDVGGGLGITLSDHNFQIPS  220 (221)
Q Consensus       187 ~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~  220 (221)
                      +...++.+.+ ++|+|||||.|-++.+++++-|.
T Consensus       107 l~p~l~~L~g-k~VLDIGC~nGY~~frM~~~GA~  139 (315)
T PF08003_consen  107 LLPHLPDLKG-KRVLDIGCNNGYYSFRMLGRGAK  139 (315)
T ss_pred             HHhhhCCcCC-CEEEEecCCCcHHHHHHhhcCCC
Confidence            3344432544 89999999999999999887764

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

>PLN02244 tocopherol O-methyltransferase

Probab=93.39  E-value=0.14  Score=44.68  Aligned_cols=24  Identities=29%  Similarity=0.365  Sum_probs=21.0

Q ss_pred             CCCCeEEEecCCccHHHHHHHhhC
Q 036971          195 QNITRLVDVGGGLGITLSDHNFQI  218 (221)
Q Consensus       195 ~~~~~vvDVGGG~G~~~~~l~~~~  218 (221)
                      ....+|||||||.|..+..+++.+
T Consensus       117 ~~~~~VLDiGCG~G~~~~~La~~~  140 (340)
T PLN02244        117 KRPKRIVDVGCGIGGSSRYLARKY  140 (340)
T ss_pred             CCCCeEEEecCCCCHHHHHHHHhc
Confidence            456799999999999999998875

>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=93.38  E-value=0.24  Score=35.91  Aligned_cols=36  Identities=25%  Similarity=0.367  Sum_probs=24.6

Q ss_pred             hhHHHHHHHHHhcCCCCCCCeEEEecCCccHHHHHHH
Q 036971          179 QTSFVINKIVESYKGFQNITRLVDVGGGLGITLSDHN  215 (221)
Q Consensus       179 ~~~~~~~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~  215 (221)
                      .+...+..|-+.+. -.....+||||||.|.+..-|.
T Consensus        42 IAAyLi~LW~~~~~-~~~~~~FVDlGCGNGLLV~IL~   77 (112)
T PF07757_consen   42 IAAYLIELWRDMYG-EQKFQGFVDLGCGNGLLVYILN   77 (112)
T ss_pred             HHHHHHHHHhcccC-CCCCCceEEccCCchHHHHHHH
Confidence            33444555666665 3456789999999999875554

; GO: 0008168 methyltransferase activity

>cd07153 Fur_like Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators

Probab=93.34  E-value=0.18  Score=36.54  Aligned_cols=64  Identities=23%  Similarity=0.309  Sum_probs=43.6

Q ss_pred             hhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceecc
Q 036971           40 NLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLA  105 (221)
Q Consensus        40 ~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt  105 (221)
                      +.-|++.|...+  ++.|++||.+.+.-..+..+..-+.|.|+.|+..|++.+....+....|..+
T Consensus         3 R~~Il~~l~~~~--~~~sa~ei~~~l~~~~~~i~~~TVYR~L~~L~~~Gli~~~~~~~~~~~y~~~   66 (116)
T cd07153           3 RLAILEVLLESD--GHLTAEEIYERLRKKGPSISLATVYRTLELLEEAGLVREIELGDGKARYELN   66 (116)
T ss_pred             HHHHHHHHHhCC--CCCCHHHHHHHHHhcCCCCCHHHHHHHHHHHHhCCCEEEEEeCCCceEEEeC
Confidence            455788888764  6899999999984211111223789999999999999987422112346543

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.

>PF06163 DUF977: Bacterial protein of unknown function (DUF977); InterPro: IPR010382 This entry consists of several hypothetical bacterial proteins of unknown function

Probab=93.26  E-value=0.17  Score=37.47  Aligned_cols=50  Identities=10%  Similarity=0.231  Sum_probs=44.1

Q ss_pred             HHHHhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           36 QAVVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        36 ~~av~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      +..+...|.+.+.++   |.+|..|++..+|+ +-.    .+.++++.|++.|-|...
T Consensus        10 r~eLk~rIvElVRe~---GRiTi~ql~~~TGa-sR~----Tvk~~lreLVa~G~l~~~   59 (127)
T PF06163_consen   10 REELKARIVELVREH---GRITIKQLVAKTGA-SRN----TVKRYLRELVARGDLYRH   59 (127)
T ss_pred             HHHHHHHHHHHHHHc---CCccHHHHHHHHCC-CHH----HHHHHHHHHHHcCCeEeC
Confidence            345667788899998   59999999999999 887    899999999999999985

>PRK00216 ubiE ubiquinone/menaquinone biosynthesis methyltransferase; Reviewed

Probab=93.25  E-value=0.16  Score=41.20  Aligned_cols=33  Identities=12%  Similarity=0.096  Sum_probs=25.9

Q ss_pred             HHHHhcCCCCCCCeEEEecCCccHHHHHHHhhCC
Q 036971          186 KIVESYKGFQNITRLVDVGGGLGITLSDHNFQIP  219 (221)
Q Consensus       186 ~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P  219 (221)
                      .+++.+. .....+|+|||||.|.++..+++.+|
T Consensus        42 ~~~~~~~-~~~~~~vldiG~G~G~~~~~l~~~~~   74 (239)
T PRK00216         42 KTIKWLG-VRPGDKVLDLACGTGDLAIALAKAVG   74 (239)
T ss_pred             HHHHHhC-CCCCCeEEEeCCCCCHHHHHHHHHcC
Confidence            3444555 44457999999999999999998886

>PRK11705 cyclopropane fatty acyl phospholipid synthase; Provisional

Probab=93.22  E-value=0.18  Score=44.87  Aligned_cols=33  Identities=18%  Similarity=0.227  Sum_probs=26.8

Q ss_pred             HHHHHhcCCCCCCCeEEEecCCccHHHHHHHhhC
Q 036971          185 NKIVESYKGFQNITRLVDVGGGLGITLSDHNFQI  218 (221)
Q Consensus       185 ~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~  218 (221)
                      ..+++.++ .....+|||||||.|.++..+++.+
T Consensus       157 ~~l~~~l~-l~~g~rVLDIGcG~G~~a~~la~~~  189 (383)
T PRK11705        157 DLICRKLQ-LKPGMRVLDIGCGWGGLARYAAEHY  189 (383)
T ss_pred             HHHHHHhC-CCCCCEEEEeCCCccHHHHHHHHHC
Confidence            34566666 6667899999999999999988765

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

Probab=93.22  E-value=0.18  Score=40.63  Aligned_cols=33  Identities=18%  Similarity=0.193  Sum_probs=24.9

Q ss_pred             HHHHhcCCCCCCCeEEEecCCccHHHHHHHhhCC
Q 036971          186 KIVESYKGFQNITRLVDVGGGLGITLSDHNFQIP  219 (221)
Q Consensus       186 ~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P  219 (221)
                      .+++.++ .....+|+|||||+|..+..+++..+
T Consensus        63 ~~~~~l~-~~~~~~VLDiG~GsG~~~~~la~~~~   95 (205)
T PRK13944         63 MMCELIE-PRPGMKILEVGTGSGYQAAVCAEAIE   95 (205)
T ss_pred             HHHHhcC-CCCCCEEEEECcCccHHHHHHHHhcC
Confidence            3455555 45567999999999999988887653

>TIGR01934 MenG_MenH_UbiE ubiquinone/menaquinone biosynthesis methyltransferases

Probab=93.22  E-value=0.18  Score=40.48  Aligned_cols=33  Identities=18%  Similarity=0.155  Sum_probs=26.3

Q ss_pred             HHHhcCCCCCCCeEEEecCCccHHHHHHHhhCCC
Q 036971          187 IVESYKGFQNITRLVDVGGGLGITLSDHNFQIPS  220 (221)
Q Consensus       187 ~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~  220 (221)
                      +++... .....+|+|||||.|.++..+++.+|+
T Consensus        31 ~~~~~~-~~~~~~vldiG~G~G~~~~~~~~~~~~   63 (223)
T TIGR01934        31 AVKLIG-VFKGQKVLDVACGTGDLAIELAKSAPD   63 (223)
T ss_pred             HHHHhc-cCCCCeEEEeCCCCChhHHHHHHhcCC
Confidence            444444 445689999999999999999998874

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

>TIGR00740 methyltransferase, putative

Probab=93.11  E-value=0.096  Score=43.13  Aligned_cols=23  Identities=17%  Similarity=0.170  Sum_probs=20.3

Q ss_pred             CCCeEEEecCCccHHHHHHHhhC
Q 036971          196 NITRLVDVGGGLGITLSDHNFQI  218 (221)
Q Consensus       196 ~~~~vvDVGGG~G~~~~~l~~~~  218 (221)
                      ...+|||||||.|..+..+++.+
T Consensus        53 ~~~~iLDlGcG~G~~~~~l~~~~   75 (239)
T TIGR00740        53 PDSNVYDLGCSRGAATLSARRNI   75 (239)
T ss_pred             CCCEEEEecCCCCHHHHHHHHhc
Confidence            45789999999999999999874

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.

>PHA02943 hypothetical protein; Provisional

Probab=93.10  E-value=0.43  Score=36.66  Aligned_cols=105  Identities=11%  Similarity=0.166  Sum_probs=68.7

Q ss_pred             ChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceeccccccccccCCCCCChH
Q 036971           42 DVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPVAKYYVSDQNGVSMR  121 (221)
Q Consensus        42 glfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~~s~~L~~~~~~~~~~  121 (221)
                      .|.+.|..    |+.|..|||+++|+ +-.    .++-.|..|...|.+.++    .-     ...+-+.+.+.   -..
T Consensus        15 eILE~Lk~----G~~TtseIAkaLGl-S~~----qa~~~LyvLErEG~VkrV----~~-----G~~tyw~l~~d---ay~   73 (165)
T PHA02943         15 KTLRLLAD----GCKTTSRIANKLGV-SHS----MARNALYQLAKEGMVLKV----EI-----GRAAIWCLDED---AYT   73 (165)
T ss_pred             HHHHHHhc----CCccHHHHHHHHCC-CHH----HHHHHHHHHHHcCceEEE----ee-----cceEEEEEChH---HHH
Confidence            46677733    68999999999999 776    899999999999999997    22     22333444332   122


Q ss_pred             HHHHHhcCccchhhhhhhHHHHhcCCchhHhhhCCchhhhhccCchHHHHHHHHHh
Q 036971          122 PYMNLSLDKVMMPGWFQLKDQILEGELSYNKALGMDFYDYLGTDSRFNEVFNNGMI  177 (221)
Q Consensus       122 ~~~~~~~~~~~~~~~~~L~~~l~~g~~~f~~~~g~~~~~~l~~~p~~~~~F~~aM~  177 (221)
                      +.+.    ++    +..|-..+++.+-.|-  .-..++.-++++++..+.|.+...
T Consensus        74 ~~v~----~~----~Relwrlv~s~~~kfi--~p~~l~~li~kd~~a~~~~ak~v~  119 (165)
T PHA02943         74 NLVF----EI----KRELWRLVCNSRLKFI--TPSRLLRLIAKDTEAHNIFAKYVP  119 (165)
T ss_pred             HHHH----HH----HHHHHHHHHhcccccc--ChHHHHHHHHhCHHHHHHHHHhcC
Confidence            2221    11    2333456666543332  224677888889888888887664

>PRK15431 ferrous iron transport protein FeoC; Provisional

Probab=93.02  E-value=0.18  Score=34.32  Aligned_cols=43  Identities=21%  Similarity=0.284  Sum_probs=39.3

Q ss_pred             hhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           43 VLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        43 lfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      |=|+|+.+   |.+++.+||..+++ ++.    .++.+|..++.+|-+++.
T Consensus         7 lRd~l~~~---gr~s~~~Ls~~~~~-p~~----~VeaMLe~l~~kGkverv   49 (78)
T PRK15431          7 VRDLLALR---GRMEAAQISQTLNT-PQP----MINAMLQQLESMGKAVRI   49 (78)
T ss_pred             HHHHHHHc---CcccHHHHHHHHCc-CHH----HHHHHHHHHHHCCCeEee
Confidence            45788888   59999999999999 887    999999999999999987

>COG4190 Predicted transcriptional regulator [Transcription]

Probab=93.01  E-value=0.2  Score=37.51  Aligned_cols=53  Identities=21%  Similarity=0.335  Sum_probs=45.3

Q ss_pred             HHHHHHHhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           33 AVFQAVVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        33 ~aL~~av~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      ..+.+=-.+.|.+.|+..   +|.|+.|+|+.+|- ++.    .+.|-|+-|...|++...
T Consensus        59 a~vLsp~nleLl~~Ia~~---~P~Si~ElAe~vgR-dv~----nvhr~Ls~l~~~GlI~fe  111 (144)
T COG4190          59 ARVLSPRNLELLELIAQE---EPASINELAELVGR-DVK----NVHRTLSTLADLGLIFFE  111 (144)
T ss_pred             HHHhChhHHHHHHHHHhc---CcccHHHHHHHhCc-chH----HHHHHHHHHHhcCeEEEe
Confidence            334444557788899987   59999999999999 887    999999999999999987

>PRK15451 tRNA cmo(5)U34 methyltransferase; Provisional

Probab=92.98  E-value=0.1  Score=43.31  Aligned_cols=25  Identities=20%  Similarity=0.163  Sum_probs=20.8

Q ss_pred             CCCeEEEecCCccHHHHHHHhh--CCC
Q 036971          196 NITRLVDVGGGLGITLSDHNFQ--IPS  220 (221)
Q Consensus       196 ~~~~vvDVGGG~G~~~~~l~~~--~P~  220 (221)
                      ...+|+|||||+|..+..+++.  +|+
T Consensus        56 ~~~~vLDlGcGtG~~~~~l~~~~~~~~   82 (247)
T PRK15451         56 PGTQVYDLGCSLGAATLSVRRNIHHDN   82 (247)
T ss_pred             CCCEEEEEcccCCHHHHHHHHhcCCCC
Confidence            4578999999999999998884  454

>KOG2899 consensus Predicted methyltransferase [General function prediction only]

Probab=92.97  E-value=0.089  Score=43.69  Aligned_cols=34  Identities=9%  Similarity=0.130  Sum_probs=27.5

Q ss_pred             HHHHHhcCC-CCCCCeEEEecCCccHHHHHHHhhC
Q 036971          185 NKIVESYKG-FQNITRLVDVGGGLGITLSDHNFQI  218 (221)
Q Consensus       185 ~~~l~~~~~-~~~~~~vvDVGGG~G~~~~~l~~~~  218 (221)
                      +.+++.++. |-..+.++||||+.|.+...+++.|
T Consensus        46 D~rLk~L~~~~f~~~~~LDIGCNsG~lt~~iak~F   80 (288)
T KOG2899|consen   46 DPRLKVLEKDWFEPKQALDIGCNSGFLTLSIAKDF   80 (288)
T ss_pred             ChhhhhccccccCcceeEeccCCcchhHHHHHHhh
Confidence            445666553 6667899999999999999999877

>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=92.96  E-value=0.07  Score=37.25  Aligned_cols=61  Identities=18%  Similarity=0.203  Sum_probs=45.5

Q ss_pred             hhhHHHhcCCCCCCCHHHHHhhC-CCCCCcchhhhHHHHHHHHhcCCceeeeccCCCC--cceeccccccccc
Q 036971           43 VLDIINKAGPGAELSASEIASQI-PTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGV--RLYSLAPVAKYYV  112 (221)
Q Consensus        43 lfd~L~~~g~~~~~t~~eLA~~~-g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~--~~y~lt~~s~~L~  112 (221)
                      |...|..    |+....||.+.+ ++ ++.    .|.+-|+.|...|++.+....+.+  -.|++|+.+..|.
T Consensus        10 IL~~l~~----g~~rf~el~~~l~~i-s~~----~L~~~L~~L~~~GLv~r~~~~~~p~~v~Y~LT~~G~~l~   73 (90)
T PF01638_consen   10 ILRALFQ----GPMRFSELQRRLPGI-SPK----VLSQRLKELEEAGLVERRVYPEVPPRVEYSLTEKGKELL   73 (90)
T ss_dssp             HHHHHTT----SSEEHHHHHHHSTTS--HH----HHHHHHHHHHHTTSEEEEEESSSSSEEEEEE-HHHHHHH
T ss_pred             HHHHHHh----CCCcHHHHHHhcchh-HHH----HHHHHHHHHHHcchhhcccccCCCCCCccCCCcCHHHHH
Confidence            3445555    599999999999 88 777    899999999999999986321111  2599999888776

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.

>PF04967 HTH_10: HTH DNA binding domain; InterPro: IPR007050 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif

Probab=92.88  E-value=0.11  Score=32.68  Aligned_cols=43  Identities=14%  Similarity=0.244  Sum_probs=33.4

Q ss_pred             HHHHHHHHHHhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHH
Q 036971           30 VLPAVFQAVVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGL   83 (221)
Q Consensus        30 ~~~~aL~~av~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~   83 (221)
                      .+-.+|.+|+++|-||.=.      .+|+.|||+.+|+ .+.    .+...||-
T Consensus         4 ~Q~e~L~~A~~~GYfd~PR------~~tl~elA~~lgi-s~s----t~~~~LRr   46 (53)
T PF04967_consen    4 RQREILKAAYELGYFDVPR------RITLEELAEELGI-SKS----TVSEHLRR   46 (53)
T ss_pred             HHHHHHHHHHHcCCCCCCC------cCCHHHHHHHhCC-CHH----HHHHHHHH
Confidence            3456899999999998633      5999999999999 665    55555543

This entry represents the HTH DNA binding domain found in Halobacterium salinarium (Halobacterium halobium) and described as a putative bacterio-opsin activator.

>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=92.84  E-value=0.13  Score=33.74  Aligned_cols=42  Identities=21%  Similarity=0.209  Sum_probs=33.1

Q ss_pred             HHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           46 IINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        46 ~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      .+.+.|  -|-|+.|||+.+|++.+.    .+.+.|+.|...|++...
T Consensus        18 ~~~~~G--~~Pt~rEIa~~~g~~S~~----tv~~~L~~Le~kG~I~r~   59 (65)
T PF01726_consen   18 YIEENG--YPPTVREIAEALGLKSTS----TVQRHLKALERKGYIRRD   59 (65)
T ss_dssp             HHHHHS--S---HHHHHHHHTSSSHH----HHHHHHHHHHHTTSEEEG
T ss_pred             HHHHcC--CCCCHHHHHHHhCCCChH----HHHHHHHHHHHCcCccCC
Confidence            566666  578999999999993255    899999999999999986

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.

>smart00529 HTH_DTXR Helix-turn-helix diphteria tox regulatory element

Probab=92.77  E-value=0.12  Score=36.05  Aligned_cols=46  Identities=20%  Similarity=0.228  Sum_probs=39.1

Q ss_pred             HHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceeccccccccc
Q 036971           58 ASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPVAKYYV  112 (221)
Q Consensus        58 ~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~~s~~L~  112 (221)
                      +.+||+.+++ ++.    .+.+.++.|...|++...    .+..|.+|+.+..+.
T Consensus         2 ~~ela~~l~i-s~s----tvs~~l~~L~~~glI~r~----~~~~~~lT~~g~~~~   47 (96)
T smart00529        2 TSEIAERLNV-SPP----TVTQMLKKLEKDGLVEYE----PYRGITLTEKGRRLA   47 (96)
T ss_pred             HHHHHHHhCC-ChH----HHHHHHHHHHHCCCEEEc----CCCceEechhHHHHH
Confidence            5689999999 887    999999999999999997    345788888776554

iron dependent repressor

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

Probab=92.67  E-value=0.21  Score=41.07  Aligned_cols=24  Identities=25%  Similarity=0.340  Sum_probs=21.8

Q ss_pred             CCeEEEecCCccHHHHHHHhhCCC
Q 036971          197 ITRLVDVGGGLGITLSDHNFQIPS  220 (221)
Q Consensus       197 ~~~vvDVGGG~G~~~~~l~~~~P~  220 (221)
                      ..+|+|+|||.|.++..+++.+|+
T Consensus        88 ~~~ilDig~G~G~~~~~l~~~~~~  111 (251)
T TIGR03534        88 PLRVLDLGTGSGAIALALAKERPD  111 (251)
T ss_pred             CCeEEEEeCcHhHHHHHHHHHCCC
Confidence            468999999999999999998875

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.

>PTZ00338 dimethyladenosine transferase-like protein; Provisional

Probab=92.65  E-value=0.19  Score=43.08  Aligned_cols=34  Identities=21%  Similarity=0.255  Sum_probs=26.6

Q ss_pred             HHHHHhcCCCCCCCeEEEecCCccHHHHHHHhhCC
Q 036971          185 NKIVESYKGFQNITRLVDVGGGLGITLSDHNFQIP  219 (221)
Q Consensus       185 ~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P  219 (221)
                      ..+++..+ .....+|+|||||.|.+...+++...
T Consensus        26 ~~Iv~~~~-~~~~~~VLEIG~G~G~LT~~Ll~~~~   59 (294)
T PTZ00338         26 DKIVEKAA-IKPTDTVLEIGPGTGNLTEKLLQLAK   59 (294)
T ss_pred             HHHHHhcC-CCCcCEEEEecCchHHHHHHHHHhCC
Confidence            34566565 55667999999999999999987654

>PRK11014 transcriptional repressor NsrR; Provisional

Probab=92.51  E-value=0.22  Score=37.73  Aligned_cols=46  Identities=11%  Similarity=0.023  Sum_probs=39.1

Q ss_pred             CCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceeccc
Q 036971           54 AELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAP  106 (221)
Q Consensus        54 ~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~  106 (221)
                      ...+.++||+..|+ ++.    .++++|+.|...|+++-.+.  .+|.|.+..
T Consensus        24 ~~~s~~~ia~~~~i-s~~----~vrk~l~~L~~~Glv~s~~G--~~GG~~l~~   69 (141)
T PRK11014         24 RMTSISEVTEVYGV-SRN----HMVKIINQLSRAGYVTAVRG--KNGGIRLGK   69 (141)
T ss_pred             CccCHHHHHHHHCc-CHH----HHHHHHHHHHhCCEEEEecC--CCCCeeecC
Confidence            57899999999999 888    99999999999999998742  356777764

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

Probab=92.47  E-value=0.25  Score=41.24  Aligned_cols=24  Identities=17%  Similarity=0.118  Sum_probs=21.4

Q ss_pred             CCeEEEecCCccHHHHHHHhhCCC
Q 036971          197 ITRLVDVGGGLGITLSDHNFQIPS  220 (221)
Q Consensus       197 ~~~vvDVGGG~G~~~~~l~~~~P~  220 (221)
                      ..+++|+|||+|.++..+++.+|.
T Consensus        87 ~~~vLDlg~GsG~i~l~la~~~~~  110 (251)
T TIGR03704        87 TLVVVDLCCGSGAVGAALAAALDG  110 (251)
T ss_pred             CCEEEEecCchHHHHHHHHHhCCC
Confidence            458999999999999999988874

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.

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

Probab=92.41  E-value=0.23  Score=41.48  Aligned_cols=27  Identities=22%  Similarity=0.357  Sum_probs=23.0

Q ss_pred             CCCCCeEEEecCCccHHHHHHHhhCCC
Q 036971          194 FQNITRLVDVGGGLGITLSDHNFQIPS  220 (221)
Q Consensus       194 ~~~~~~vvDVGGG~G~~~~~l~~~~P~  220 (221)
                      .....+|+|||||+|..+..+++.+|+
T Consensus       106 ~~~~~~vLDiG~GsG~~~~~la~~~~~  132 (275)
T PRK09328        106 LKEPLRVLDLGTGSGAIALALAKERPD  132 (275)
T ss_pred             ccCCCEEEEEcCcHHHHHHHHHHHCCC
Confidence            344578999999999999999998874

>smart00345 HTH_GNTR helix_turn_helix gluconate operon transcriptional repressor

Probab=92.36  E-value=0.27  Score=30.73  Aligned_cols=35  Identities=20%  Similarity=0.227  Sum_probs=31.6

Q ss_pred             CCC-CHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           54 AEL-SASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        54 ~~~-t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      ..+ |..+||+.+++ +..    .+++.|..|...|++...
T Consensus        18 ~~l~s~~~la~~~~v-s~~----tv~~~l~~L~~~g~i~~~   53 (60)
T smart00345       18 DKLPSERELAAQLGV-SRT----TVREALSRLEAEGLVQRR   53 (60)
T ss_pred             CcCcCHHHHHHHHCC-CHH----HHHHHHHHHHHCCCEEEe
Confidence            356 89999999999 877    999999999999999876

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

Probab=92.36  E-value=0.29  Score=40.60  Aligned_cols=24  Identities=17%  Similarity=0.057  Sum_probs=21.8

Q ss_pred             CCCeEEEecCCccHHHHHHHhhCC
Q 036971          196 NITRLVDVGGGLGITLSDHNFQIP  219 (221)
Q Consensus       196 ~~~~vvDVGGG~G~~~~~l~~~~P  219 (221)
                      ...+|+|||||+|-++..+++..+
T Consensus        51 ~g~~vLDva~GTGd~a~~~~k~~g   74 (238)
T COG2226          51 PGDKVLDVACGTGDMALLLAKSVG   74 (238)
T ss_pred             CCCEEEEecCCccHHHHHHHHhcC
Confidence            468999999999999999999875

>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=92.32  E-value=0.23  Score=45.06  Aligned_cols=57  Identities=14%  Similarity=0.113  Sum_probs=35.5

Q ss_pred             chhhhhccCchHHHHHHHHHhhhhHHHHHHHHHhcCCCCCCCeEEEecCCccHHHHHHHhh
Q 036971          157 DFYDYLGTDSRFNEVFNNGMIGQTSFVINKIVESYKGFQNITRLVDVGGGLGITLSDHNFQ  217 (221)
Q Consensus       157 ~~~~~l~~~p~~~~~F~~aM~~~~~~~~~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~  217 (221)
                      ..|+.+++||.+-+.|.+|+..    ......+.-..-...+.|+|||+|+|.++...+++
T Consensus       151 ~tYe~fE~D~vKY~~Ye~AI~~----al~D~~~~~~~~~~~~vVldVGAGrGpL~~~al~A  207 (448)
T PF05185_consen  151 QTYEVFEKDPVKYDQYERAIEE----ALKDRVRKNSYSSKDKVVLDVGAGRGPLSMFALQA  207 (448)
T ss_dssp             HHHHHHCC-HHHHHHHHHHHHH----HHHHHHTTS-SEETT-EEEEES-TTSHHHHHHHHT
T ss_pred             ccHhhHhcCHHHHHHHHHHHHH----HHHhhhhhccccccceEEEEeCCCccHHHHHHHHH
Confidence            4688899999999999998742    11122222210012578999999999998776654

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 ....

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

Probab=92.32  E-value=0.16  Score=43.49  Aligned_cols=42  Identities=29%  Similarity=0.406  Sum_probs=26.3

Q ss_pred             HHHHHhhhhHHHHHHHHHhcCCCCCCCeEEEecCCccHHHHHHHh
Q 036971          172 FNNGMIGQTSFVINKIVESYKGFQNITRLVDVGGGLGITLSDHNF  216 (221)
Q Consensus       172 F~~aM~~~~~~~~~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~  216 (221)
                      |-..--..+++... +++.+. .+ ..+|+|||||+|.++++-++
T Consensus       140 FGTG~H~TT~lcl~-~l~~~~-~~-g~~vLDvG~GSGILaiaA~k  181 (295)
T PF06325_consen  140 FGTGHHPTTRLCLE-LLEKYV-KP-GKRVLDVGCGSGILAIAAAK  181 (295)
T ss_dssp             S-SSHCHHHHHHHH-HHHHHS-ST-TSEEEEES-TTSHHHHHHHH
T ss_pred             ccCCCCHHHHHHHH-HHHHhc-cC-CCEEEEeCCcHHHHHHHHHH
Confidence            44443344555554 455554 43 47999999999999987665

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 ....

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

Probab=92.31  E-value=0.2  Score=42.66  Aligned_cols=22  Identities=27%  Similarity=0.418  Sum_probs=21.1

Q ss_pred             eEEEecCCccHHHHHHHhhCCC
Q 036971          199 RLVDVGGGLGITLSDHNFQIPS  220 (221)
Q Consensus       199 ~vvDVGGG~G~~~~~l~~~~P~  220 (221)
                      +|+|||+|+|..+..++.++|+
T Consensus       113 ~ilDlGTGSG~iai~la~~~~~  134 (280)
T COG2890         113 RILDLGTGSGAIAIALAKEGPD  134 (280)
T ss_pred             cEEEecCChHHHHHHHHhhCcC
Confidence            8999999999999999999995

>PF13679 Methyltransf_32: Methyltransferase domain

Probab=92.26  E-value=0.1  Score=39.51  Aligned_cols=24  Identities=21%  Similarity=0.257  Sum_probs=20.8

Q ss_pred             CCCCCeEEEecCCccHHHHHHHhh
Q 036971          194 FQNITRLVDVGGGLGITLSDHNFQ  217 (221)
Q Consensus       194 ~~~~~~vvDVGGG~G~~~~~l~~~  217 (221)
                      -.+..+|||+|+|.|.++..++..
T Consensus        23 ~~~~~~vvD~GsG~GyLs~~La~~   46 (141)
T PF13679_consen   23 SKRCITVVDLGSGKGYLSRALAHL   46 (141)
T ss_pred             cCCCCEEEEeCCChhHHHHHHHHH
Confidence            345789999999999999999883

>PRK04266 fibrillarin; Provisional

Probab=92.22  E-value=0.18  Score=41.57  Aligned_cols=29  Identities=14%  Similarity=0.283  Sum_probs=24.4

Q ss_pred             hcCCCCCCCeEEEecCCccHHHHHHHhhCC
Q 036971          190 SYKGFQNITRLVDVGGGLGITLSDHNFQIP  219 (221)
Q Consensus       190 ~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P  219 (221)
                      .++ .....+|+|+|||+|.++..+++..|
T Consensus        67 ~l~-i~~g~~VlD~G~G~G~~~~~la~~v~   95 (226)
T PRK04266         67 NFP-IKKGSKVLYLGAASGTTVSHVSDIVE   95 (226)
T ss_pred             hCC-CCCCCEEEEEccCCCHHHHHHHHhcC
Confidence            355 66678999999999999999988765

>TIGR00373 conserved hypothetical protein TIGR00373

Probab=92.18  E-value=0.22  Score=38.70  Aligned_cols=45  Identities=16%  Similarity=0.075  Sum_probs=39.0

Q ss_pred             hChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           41 LDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        41 lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      ..|+++|...   +.+|-+|||+.+|+ +.+    -++++|..|...||+...
T Consensus        17 v~Vl~aL~~~---~~~tdEeLa~~Lgi-~~~----~VRk~L~~L~e~~Lv~~~   61 (158)
T TIGR00373        17 GLVLFSLGIK---GEFTDEEISLELGI-KLN----EVRKALYALYDAGLADYK   61 (158)
T ss_pred             HHHHHHHhcc---CCCCHHHHHHHHCC-CHH----HHHHHHHHHHHCCCceee
Confidence            3467788765   58999999999999 888    999999999999999754

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.

>PLN02233 ubiquinone biosynthesis methyltransferase

Probab=92.16  E-value=0.4  Score=40.22  Aligned_cols=25  Identities=16%  Similarity=0.016  Sum_probs=21.2

Q ss_pred             CCCCCeEEEecCCccHHHHHHHhhC
Q 036971          194 FQNITRLVDVGGGLGITLSDHNFQI  218 (221)
Q Consensus       194 ~~~~~~vvDVGGG~G~~~~~l~~~~  218 (221)
                      .....+|+|||||+|.++..+++.+
T Consensus        71 ~~~~~~VLDlGcGtG~~~~~la~~~   95 (261)
T PLN02233         71 AKMGDRVLDLCCGSGDLAFLLSEKV   95 (261)
T ss_pred             CCCCCEEEEECCcCCHHHHHHHHHh
Confidence            4456799999999999999888875

>PF14394 DUF4423: Domain of unknown function (DUF4423)

Probab=92.10  E-value=0.27  Score=38.67  Aligned_cols=65  Identities=12%  Similarity=0.083  Sum_probs=51.4

Q ss_pred             hhhHHHHHHHHHHhhChhhHHHhcCCCCCCCHHHHHhhC--CCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceec
Q 036971           27 SAIVLPAVFQAVVNLDVLDIINKAGPGAELSASEIASQI--PTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSL  104 (221)
Q Consensus        27 ~g~~~~~aL~~av~lglfd~L~~~g~~~~~t~~eLA~~~--g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~l  104 (221)
                      +..|...+++..+.+.      .    +.-++.+||+++  ++ ...    -++.-|+.|..+|+++++    ++|.|..
T Consensus        21 ~~~W~~~~ir~l~~l~------~----~~~d~~~iak~l~p~i-s~~----ev~~sL~~L~~~gli~k~----~~g~y~~   81 (171)
T PF14394_consen   21 YSSWYHPAIRELLPLM------P----FAPDPEWIAKRLRPKI-SAE----EVRDSLEFLEKLGLIKKD----GDGKYVQ   81 (171)
T ss_pred             HhhhHHHHHHHHhhcC------C----CCCCHHHHHHHhcCCC-CHH----HHHHHHHHHHHCCCeEEC----CCCcEEE
Confidence            3567777777755532      1    244999999999  88 776    899999999999999998    6789999


Q ss_pred             cccccc
Q 036971          105 APVAKY  110 (221)
Q Consensus       105 t~~s~~  110 (221)
                      |..+-.
T Consensus        82 t~~~l~   87 (171)
T PF14394_consen   82 TDKSLT   87 (171)
T ss_pred             ecceee
Confidence            986655

>cd07377 WHTH_GntR Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators

Probab=92.09  E-value=0.32  Score=31.00  Aligned_cols=33  Identities=15%  Similarity=0.123  Sum_probs=29.9

Q ss_pred             CCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           56 LSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        56 ~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      .+..+||+.+++ +..    .+++.|..|...|++...
T Consensus        26 ~~~~~la~~~~i-s~~----~v~~~l~~L~~~G~i~~~   58 (66)
T cd07377          26 PSERELAEELGV-SRT----TVREALRELEAEGLVERR   58 (66)
T ss_pred             CCHHHHHHHHCC-CHH----HHHHHHHHHHHCCCEEec
Confidence            459999999999 877    999999999999999875

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

>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=92.08  E-value=0.22  Score=33.57  Aligned_cols=49  Identities=12%  Similarity=0.188  Sum_probs=43.3

Q ss_pred             HhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           39 VNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        39 v~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      .+..+++.|+.+.. .+++..+|++.++. |++    .+...++.|...|++.+.
T Consensus         3 ~~~~~Le~I~rsR~-~Gi~q~~L~~~~~~-D~r----~i~~~~k~L~~~gLI~k~   51 (75)
T PF04182_consen    3 IQYCLLERIARSRY-NGITQSDLSKLLGI-DPR----SIFYRLKKLEKKGLIVKQ   51 (75)
T ss_pred             hHHHHHHHHHhcCC-CCEehhHHHHHhCC-Cch----HHHHHHHHHHHCCCEEEE
Confidence            45667888888765 57999999999999 999    999999999999999986

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.

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

Probab=92.05  E-value=0.15  Score=43.34  Aligned_cols=24  Identities=21%  Similarity=0.475  Sum_probs=21.9

Q ss_pred             CCeEEEecCCccHHHHHHHhhCCC
Q 036971          197 ITRLVDVGGGLGITLSDHNFQIPS  220 (221)
Q Consensus       197 ~~~vvDVGGG~G~~~~~l~~~~P~  220 (221)
                      ..+|+|+|||+|.++..+++.+|+
T Consensus       122 ~~~vLDlG~GsG~i~~~la~~~~~  145 (284)
T TIGR03533       122 VKRILDLCTGSGCIAIACAYAFPE  145 (284)
T ss_pred             CCEEEEEeCchhHHHHHHHHHCCC
Confidence            468999999999999999999885

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.

>PRK05785 hypothetical protein; Provisional

Probab=91.96  E-value=0.15  Score=41.84  Aligned_cols=22  Identities=18%  Similarity=0.203  Sum_probs=19.7

Q ss_pred             CCeEEEecCCccHHHHHHHhhC
Q 036971          197 ITRLVDVGGGLGITLSDHNFQI  218 (221)
Q Consensus       197 ~~~vvDVGGG~G~~~~~l~~~~  218 (221)
                      ..+|+|||||+|.++..+++.+
T Consensus        52 ~~~VLDlGcGtG~~~~~l~~~~   73 (226)
T PRK05785         52 PKKVLDVAAGKGELSYHFKKVF   73 (226)
T ss_pred             CCeEEEEcCCCCHHHHHHHHhc
Confidence            5799999999999999998874

>PF10007 DUF2250: Uncharacterized protein conserved in archaea (DUF2250); InterPro: IPR019254 Members of this family of hypothetical archaeal proteins have no known function

Probab=91.95  E-value=0.26  Score=34.70  Aligned_cols=47  Identities=23%  Similarity=0.257  Sum_probs=42.0

Q ss_pred             HhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           39 VNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        39 v~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      .++.|..+|...   +|-.+.-||..+++ +..    .+.+.|+-|..+|++++.
T Consensus         8 l~~~IL~hl~~~---~~Dy~k~ia~~l~~-~~~----~v~~~l~~Le~~GLler~   54 (92)
T PF10007_consen    8 LDLKILQHLKKA---GPDYAKSIARRLKI-PLE----EVREALEKLEEMGLLERV   54 (92)
T ss_pred             hHHHHHHHHHHH---CCCcHHHHHHHHCC-CHH----HHHHHHHHHHHCCCeEEe
Confidence            356688889998   48899999999999 887    999999999999999998

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

Probab=91.77  E-value=0.12  Score=42.70  Aligned_cols=21  Identities=33%  Similarity=0.273  Sum_probs=18.7

Q ss_pred             CCeEEEecCCccHHHHHHHhh
Q 036971          197 ITRLVDVGGGLGITLSDHNFQ  217 (221)
Q Consensus       197 ~~~vvDVGGG~G~~~~~l~~~  217 (221)
                      ..+|+|||||-|.++..+++.
T Consensus        60 g~~vLDvGCGgG~Lse~mAr~   80 (243)
T COG2227          60 GLRVLDVGCGGGILSEPLARL   80 (243)
T ss_pred             CCeEEEecCCccHhhHHHHHC
Confidence            478999999999999998875

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

Probab=91.73  E-value=0.34  Score=39.27  Aligned_cols=32  Identities=13%  Similarity=0.225  Sum_probs=25.4

Q ss_pred             HHHHhcCCCCCCCeEEEecCCccHHHHHHHhhC
Q 036971          186 KIVESYKGFQNITRLVDVGGGLGITLSDHNFQI  218 (221)
Q Consensus       186 ~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~  218 (221)
                      .+++.++ .....+|+|||||+|..+..+++..
T Consensus        67 ~~~~~l~-~~~g~~VLdIG~GsG~~t~~la~~~   98 (212)
T PRK13942         67 IMCELLD-LKEGMKVLEIGTGSGYHAAVVAEIV   98 (212)
T ss_pred             HHHHHcC-CCCcCEEEEECCcccHHHHHHHHhc
Confidence            4555666 6677899999999999998877654

>COG4189 Predicted transcriptional regulator [Transcription]

Probab=91.72  E-value=0.33  Score=39.95  Aligned_cols=55  Identities=13%  Similarity=0.247  Sum_probs=48.5

Q ss_pred             HHHHHHHHhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeec
Q 036971           32 PAVFQAVVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSF   94 (221)
Q Consensus        32 ~~aL~~av~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~   94 (221)
                      -+||...++..|.+.|+..   +|+.+.|||+++|+ +..    -+..-+..|...|+++-.+
T Consensus        17 ~kalaS~vRv~Il~lL~~k---~plNvneiAe~lgL-pqs----t~s~~ik~Le~aGlirT~t   71 (308)
T COG4189          17 LKALASKVRVAILQLLHRK---GPLNVNEIAEALGL-PQS----TMSANIKVLEKAGLIRTET   71 (308)
T ss_pred             HHHHHHHHHHHHHHHHHHh---CCCCHHHHHHHhCC-chh----hhhhhHHHHHhcCceeeee
Confidence            4678889999999999998   59999999999999 776    7888899999999998754

>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=91.68  E-value=0.25  Score=40.16  Aligned_cols=58  Identities=12%  Similarity=0.104  Sum_probs=31.1

Q ss_pred             hhhhccCchHHHHHHH----HHhhhhHHHHHHHHHhcCCCCCCCeEEEecCCccHHHHHHHh
Q 036971          159 YDYLGTDSRFNEVFNN----GMIGQTSFVINKIVESYKGFQNITRLVDVGGGLGITLSDHNF  216 (221)
Q Consensus       159 ~~~l~~~p~~~~~F~~----aM~~~~~~~~~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~  216 (221)
                      ++.+.++|+.-+.|+.    .+..|-..+.+.+++.+..-+....|.|.|||.+.++.++..
T Consensus        31 ~~lf~~dP~~F~~YH~Gfr~Qv~~WP~nPvd~iI~~l~~~~~~~viaD~GCGdA~la~~~~~   92 (219)
T PF05148_consen   31 LKLFQEDPELFDIYHEGFRQQVKKWPVNPVDVIIEWLKKRPKSLVIADFGCGDAKLAKAVPN   92 (219)
T ss_dssp             HHHHHH-HHHHHHHHHHHHHHHCTSSS-HHHHHHHHHCTS-TTS-EEEES-TT-HHHHH--S
T ss_pred             HHHHHhCHHHHHHHHHHHHHHHhcCCCCcHHHHHHHHHhcCCCEEEEECCCchHHHHHhccc
Confidence            4455667766554444    444444445555555554233457999999999999987754

; GO: 0008168 methyltransferase activity; PDB: 2ZFU_B.

>PRK04457 spermidine synthase; Provisional

Probab=91.58  E-value=0.19  Score=42.25  Aligned_cols=25  Identities=16%  Similarity=0.170  Sum_probs=22.8

Q ss_pred             CCCeEEEecCCccHHHHHHHhhCCC
Q 036971          196 NITRLVDVGGGLGITLSDHNFQIPS  220 (221)
Q Consensus       196 ~~~~vvDVGGG~G~~~~~l~~~~P~  220 (221)
                      ..++|+|||||.|.++..+++.+|+
T Consensus        66 ~~~~vL~IG~G~G~l~~~l~~~~p~   90 (262)
T PRK04457         66 RPQHILQIGLGGGSLAKFIYTYLPD   90 (262)
T ss_pred             CCCEEEEECCCHhHHHHHHHHhCCC
Confidence            4679999999999999999999986

>smart00138 MeTrc Methyltransferase, chemotaxis proteins

Probab=91.58  E-value=0.52  Score=39.63  Aligned_cols=34  Identities=15%  Similarity=0.123  Sum_probs=22.2

Q ss_pred             HHHHHhcCCCCCCCeEEEecCCccH----HHHHHHhhCC
Q 036971          185 NKIVESYKGFQNITRLVDVGGGLGI----TLSDHNFQIP  219 (221)
Q Consensus       185 ~~~l~~~~~~~~~~~vvDVGGG~G~----~~~~l~~~~P  219 (221)
                      |.+++.-+ .....+|+|+|||+|.    +++.+++.+|
T Consensus        89 p~l~~~~~-~~~~~ri~d~GCgtGee~YslA~~l~e~~~  126 (264)
T smart00138       89 PLLIASRR-HGRRVRIWSAGCSTGEEPYSLAMLLAETLP  126 (264)
T ss_pred             HHHHHhcC-CCCCEEEEeccccCChHHHHHHHHHHHHhh
Confidence            44444333 3345799999999996    5566666654

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

>KOG1271 consensus Methyltransferases [General function prediction only]

Probab=91.54  E-value=0.26  Score=39.28  Aligned_cols=21  Identities=29%  Similarity=0.390  Sum_probs=18.3

Q ss_pred             CCeEEEecCCccHHHHHHHhh
Q 036971          197 ITRLVDVGGGLGITLSDHNFQ  217 (221)
Q Consensus       197 ~~~vvDVGGG~G~~~~~l~~~  217 (221)
                      ..+|||+|||.|+++..|++.
T Consensus        68 A~~VlDLGtGNG~~L~~L~~e   88 (227)
T KOG1271|consen   68 ADRVLDLGTGNGHLLFQLAKE   88 (227)
T ss_pred             ccceeeccCCchHHHHHHHHh
Confidence            349999999999999999764

>PLN02336 phosphoethanolamine N-methyltransferase

Probab=91.54  E-value=0.27  Score=44.79  Aligned_cols=34  Identities=18%  Similarity=0.229  Sum_probs=26.5

Q ss_pred             HHHHHHhcCCCCCCCeEEEecCCccHHHHHHHhhC
Q 036971          184 INKIVESYKGFQNITRLVDVGGGLGITLSDHNFQI  218 (221)
Q Consensus       184 ~~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~  218 (221)
                      ...+++.++ .+...+|||||||.|..+..+++.+
T Consensus       255 te~l~~~~~-~~~~~~vLDiGcG~G~~~~~la~~~  288 (475)
T PLN02336        255 TKEFVDKLD-LKPGQKVLDVGCGIGGGDFYMAENF  288 (475)
T ss_pred             HHHHHHhcC-CCCCCEEEEEeccCCHHHHHHHHhc
Confidence            344666666 6667899999999999998887754

>TIGR02147 Fsuc_second hypothetical protein, TIGR02147

Probab=91.42  E-value=0.83  Score=38.68  Aligned_cols=47  Identities=17%  Similarity=0.153  Sum_probs=39.4

Q ss_pred             CCCHHHHHhhCC--CCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceeccccccc
Q 036971           55 ELSASEIASQIP--TKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPVAKY  110 (221)
Q Consensus        55 ~~t~~eLA~~~g--~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~~s~~  110 (221)
                      ..++++||+.++  + ...    -++..|+.|..+||++++    ++|.|..|..+-.
T Consensus       137 ~~~~~~ia~~l~p~i-s~~----ev~~sL~~L~~~glikk~----~~g~y~~t~~~l~  185 (271)
T TIGR02147       137 ADDPEELAKRCFPKI-SAE----QVKESLDLLERLGLIKKN----EDGFYKQTDKAVS  185 (271)
T ss_pred             CCCHHHHHHHhCCCC-CHH----HHHHHHHHHHHCCCeeEC----CCCcEEeecceee
Confidence            458999999998  4 444    789999999999999997    6889999987544

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.

>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=91.30  E-value=0.25  Score=31.81  Aligned_cols=35  Identities=14%  Similarity=0.277  Sum_probs=32.1

Q ss_pred             CCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           54 AELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        54 ~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      ++++..+||+.+++ .+.    .+...++-|...|+++..
T Consensus        21 ~~v~~~~iA~~L~v-s~~----tvt~ml~~L~~~GlV~~~   55 (60)
T PF01325_consen   21 GPVRTKDIAERLGV-SPP----TVTEMLKRLAEKGLVEYE   55 (60)
T ss_dssp             SSBBHHHHHHHHTS--HH----HHHHHHHHHHHTTSEEEE
T ss_pred             CCccHHHHHHHHCC-ChH----HHHHHHHHHHHCCCEEec
Confidence            69999999999999 776    899999999999999986

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 ....

>PRK03573 transcriptional regulator SlyA; Provisional

Probab=91.30  E-value=0.45  Score=35.89  Aligned_cols=63  Identities=19%  Similarity=0.167  Sum_probs=45.7

Q ss_pred             hhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCC--Ccceeccccccccc
Q 036971           43 VLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHG--VRLYSLAPVAKYYV  112 (221)
Q Consensus        43 lfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~--~~~y~lt~~s~~L~  112 (221)
                      +...|...+  ++.|..+||+.+++ ++.    .+.++++-|...|++++.....+  .-...+|+.++.+.
T Consensus        36 vL~~l~~~~--~~~t~~eLa~~l~~-~~~----tvt~~v~~Le~~GlV~r~~~~~DrR~~~l~LT~~G~~~~  100 (144)
T PRK03573         36 TLHNIHQLP--PEQSQIQLAKAIGI-EQP----SLVRTLDQLEEKGLISRQTCASDRRAKRIKLTEKAEPLI  100 (144)
T ss_pred             HHHHHHHcC--CCCCHHHHHHHhCC-Chh----hHHHHHHHHHHCCCEeeecCCCCcCeeeeEEChHHHHHH
Confidence            455665543  36899999999999 887    99999999999999998732101  12366666666554

>PRK12335 tellurite resistance protein TehB; Provisional

Probab=91.25  E-value=0.24  Score=42.07  Aligned_cols=21  Identities=19%  Similarity=0.186  Sum_probs=18.4

Q ss_pred             CCeEEEecCCccHHHHHHHhh
Q 036971          197 ITRLVDVGGGLGITLSDHNFQ  217 (221)
Q Consensus       197 ~~~vvDVGGG~G~~~~~l~~~  217 (221)
                      ..+|+|||||.|..+..+++.
T Consensus       121 ~~~vLDlGcG~G~~~~~la~~  141 (287)
T PRK12335        121 PGKALDLGCGQGRNSLYLALL  141 (287)
T ss_pred             CCCEEEeCCCCCHHHHHHHHC
Confidence            469999999999999888764

>COG3432 Predicted transcriptional regulator [Transcription]

Probab=91.24  E-value=0.14  Score=36.20  Aligned_cols=60  Identities=15%  Similarity=0.268  Sum_probs=47.6

Q ss_pred             hhhHHH-hcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCc---ceecccccccccc
Q 036971           43 VLDIIN-KAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVR---LYSLAPVAKYYVS  113 (221)
Q Consensus        43 lfd~L~-~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~---~y~lt~~s~~L~~  113 (221)
                      +||+|. ..+  +++..--|.-.+++ +-+    ..+.+++.|+..|++...    .++   .|.+|+.+.-+..
T Consensus        20 i~dIL~~~~~--~~~~~Tri~y~aNl-ny~----~~~~yi~~L~~~Gli~~~----~~~~~~~y~lT~KG~~fle   83 (95)
T COG3432          20 IFDILKAISE--GGIGITRIIYGANL-NYK----RAQKYIEMLVEKGLIIKQ----DNGRRKVYELTEKGKRFLE   83 (95)
T ss_pred             HHHHHHHhcC--CCCCceeeeeecCc-CHH----HHHHHHHHHHhCCCEEec----cCCccceEEEChhHHHHHH
Confidence            456666 322  68888999999999 888    999999999999977776    333   6999999987654

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

Probab=91.20  E-value=0.17  Score=43.53  Aligned_cols=23  Identities=26%  Similarity=0.489  Sum_probs=21.5

Q ss_pred             CeEEEecCCccHHHHHHHhhCCC
Q 036971          198 TRLVDVGGGLGITLSDHNFQIPS  220 (221)
Q Consensus       198 ~~vvDVGGG~G~~~~~l~~~~P~  220 (221)
                      .+|+|+|||+|.++..+++.+|+
T Consensus       135 ~~VLDlG~GsG~iai~la~~~p~  157 (307)
T PRK11805        135 TRILDLCTGSGCIAIACAYAFPD  157 (307)
T ss_pred             CEEEEEechhhHHHHHHHHHCCC
Confidence            68999999999999999999885

>PF08279 HTH_11: HTH domain; InterPro: IPR013196 Winged helix DNA-binding proteins share a related winged helix-turn-helix DNA-binding motif, where the "wings", or loops, are small beta-sheets

Probab=91.13  E-value=0.48  Score=29.48  Aligned_cols=44  Identities=16%  Similarity=0.284  Sum_probs=34.0

Q ss_pred             ChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceee
Q 036971           42 DVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCC   92 (221)
Q Consensus        42 glfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~   92 (221)
                      .|...|.+..  +++|.++||+.+++ +.+    -+++-+..|...++.-.
T Consensus         4 ~il~~L~~~~--~~it~~eLa~~l~v-S~r----Ti~~~i~~L~~~~~~I~   47 (55)
T PF08279_consen    4 QILKLLLESK--EPITAKELAEELGV-SRR----TIRRDIKELREWGIPIE   47 (55)
T ss_dssp             HHHHHHHHTT--TSBEHHHHHHHCTS--HH----HHHHHHHHHHHTT-EEE
T ss_pred             HHHHHHHHcC--CCcCHHHHHHHhCC-CHH----HHHHHHHHHHHCCCeEE
Confidence            4566775543  57999999999999 887    99999999999994333

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 ....

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

Probab=91.10  E-value=0.25  Score=41.21  Aligned_cols=27  Identities=19%  Similarity=0.171  Sum_probs=23.6

Q ss_pred             CCCCCeEEEecCCccHHHHHHHhhCCC
Q 036971          194 FQNITRLVDVGGGLGITLSDHNFQIPS  220 (221)
Q Consensus       194 ~~~~~~vvDVGGG~G~~~~~l~~~~P~  220 (221)
                      .....+|+|+|+|.|..+..+++++|+
T Consensus        42 ~~~~~~IlDlGaG~G~l~L~la~r~~~   68 (248)
T COG4123          42 VPKKGRILDLGAGNGALGLLLAQRTEK   68 (248)
T ss_pred             cccCCeEEEecCCcCHHHHHHhccCCC
Confidence            344789999999999999999999774

>PLN02490 MPBQ/MSBQ methyltransferase

Probab=90.89  E-value=0.45  Score=41.64  Aligned_cols=33  Identities=27%  Similarity=0.405  Sum_probs=24.8

Q ss_pred             HHHhcCCCC-CCCeEEEecCCccHHHHHHHhhCCC
Q 036971          187 IVESYKGFQ-NITRLVDVGGGLGITLSDHNFQIPS  220 (221)
Q Consensus       187 ~l~~~~~~~-~~~~vvDVGGG~G~~~~~l~~~~P~  220 (221)
                      +++... +. ...+|||||||+|.++..+++.+|.
T Consensus       104 ~l~~~~-l~~~~~~VLDLGcGtG~~~l~La~~~~~  137 (340)
T PLN02490        104 ALEPAD-LSDRNLKVVDVGGGTGFTTLGIVKHVDA  137 (340)
T ss_pred             HHhhcc-cCCCCCEEEEEecCCcHHHHHHHHHCCC
Confidence            444444 42 3469999999999999999887763

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

Probab=90.78  E-value=0.37  Score=43.30  Aligned_cols=25  Identities=24%  Similarity=0.376  Sum_probs=21.9

Q ss_pred             CCCeEEEecCCccHHHHHHHhhCCC
Q 036971          196 NITRLVDVGGGLGITLSDHNFQIPS  220 (221)
Q Consensus       196 ~~~~vvDVGGG~G~~~~~l~~~~P~  220 (221)
                      ...+|+|||||+|.++..+++.+|+
T Consensus       251 ~~~rVLDLGcGSG~IaiaLA~~~p~  275 (423)
T PRK14966        251 ENGRVWDLGTGSGAVAVTVALERPD  275 (423)
T ss_pred             CCCEEEEEeChhhHHHHHHHHhCCC
Confidence            3468999999999999999988875

>TIGR00478 tly hemolysin TlyA family protein

Probab=90.76  E-value=0.5  Score=38.98  Aligned_cols=33  Identities=15%  Similarity=0.070  Sum_probs=24.3

Q ss_pred             HHHHHhcCCCCCCCeEEEecCCccHHHHHHHhh
Q 036971          185 NKIVESYKGFQNITRLVDVGGGLGITLSDHNFQ  217 (221)
Q Consensus       185 ~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~  217 (221)
                      ..+++.++..-...+++|||||+|.++..+++.
T Consensus        64 ~~~l~~~~~~~~~~~vlDiG~gtG~~t~~l~~~   96 (228)
T TIGR00478        64 KEALEEFNIDVKNKIVLDVGSSTGGFTDCALQK   96 (228)
T ss_pred             HHHHHhcCCCCCCCEEEEcccCCCHHHHHHHHc
Confidence            345666651124478999999999999988875

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).

>TIGR00536 hemK_fam HemK family putative methylases

Probab=90.73  E-value=0.21  Score=42.40  Aligned_cols=23  Identities=22%  Similarity=0.520  Sum_probs=21.3

Q ss_pred             CeEEEecCCccHHHHHHHhhCCC
Q 036971          198 TRLVDVGGGLGITLSDHNFQIPS  220 (221)
Q Consensus       198 ~~vvDVGGG~G~~~~~l~~~~P~  220 (221)
                      .+|+|||||+|.++..++..+|+
T Consensus       116 ~~vLDlG~GsG~i~l~la~~~~~  138 (284)
T TIGR00536       116 LHILDLGTGSGCIALALAYEFPN  138 (284)
T ss_pred             CEEEEEeccHhHHHHHHHHHCCC
Confidence            68999999999999999999885

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.

>PRK00517 prmA ribosomal protein L11 methyltransferase; Reviewed

Probab=90.55  E-value=0.31  Score=40.56  Aligned_cols=24  Identities=25%  Similarity=0.156  Sum_probs=19.5

Q ss_pred             CCCeEEEecCCccHHHHHHHhhCC
Q 036971          196 NITRLVDVGGGLGITLSDHNFQIP  219 (221)
Q Consensus       196 ~~~~vvDVGGG~G~~~~~l~~~~P  219 (221)
                      ...+|+|||||+|..+..+++..+
T Consensus       119 ~~~~VLDiGcGsG~l~i~~~~~g~  142 (250)
T PRK00517        119 PGKTVLDVGCGSGILAIAAAKLGA  142 (250)
T ss_pred             CCCEEEEeCCcHHHHHHHHHHcCC
Confidence            457999999999999888776543

>TIGR00406 prmA ribosomal protein L11 methyltransferase

Probab=90.41  E-value=0.34  Score=41.21  Aligned_cols=29  Identities=24%  Similarity=0.260  Sum_probs=21.6

Q ss_pred             HHHhcCCCCCCCeEEEecCCccHHHHHHHhh
Q 036971          187 IVESYKGFQNITRLVDVGGGLGITLSDHNFQ  217 (221)
Q Consensus       187 ~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~  217 (221)
                      ++..+. . ...+|+|||||+|.++..+++.
T Consensus       152 ~l~~~~-~-~g~~VLDvGcGsG~lai~aa~~  180 (288)
T TIGR00406       152 WLEDLD-L-KDKNVIDVGCGSGILSIAALKL  180 (288)
T ss_pred             HHHhhc-C-CCCEEEEeCCChhHHHHHHHHc
Confidence            344444 3 3489999999999999887764

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.

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

Probab=90.40  E-value=0.39  Score=38.35  Aligned_cols=30  Identities=13%  Similarity=0.379  Sum_probs=23.7

Q ss_pred             HHhcCCCCCCCeEEEecCCccHHHHHHHhhC
Q 036971          188 VESYKGFQNITRLVDVGGGLGITLSDHNFQI  218 (221)
Q Consensus       188 l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~  218 (221)
                      +...+ .....+|+|+|||+|.++..+++..
T Consensus        33 l~~l~-~~~~~~vlDlG~GtG~~s~~~a~~~   62 (198)
T PRK00377         33 LSKLR-LRKGDMILDIGCGTGSVTVEASLLV   62 (198)
T ss_pred             HHHcC-CCCcCEEEEeCCcCCHHHHHHHHHh
Confidence            34455 5566899999999999999987754

>TIGR01610 phage_O_Nterm phage replication protein O, N-terminal domain

Probab=90.23  E-value=0.47  Score=33.46  Aligned_cols=44  Identities=11%  Similarity=0.061  Sum_probs=37.3

Q ss_pred             CCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceecc
Q 036971           54 AELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLA  105 (221)
Q Consensus        54 ~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt  105 (221)
                      .++|..|||+.+|+ ++.    .+.|.|..|...|++....   .-+.|..+
T Consensus        46 ~~is~~eLa~~~g~-sr~----tVsr~L~~Le~~GlI~r~~---~~~~~~~n   89 (95)
T TIGR01610        46 DRVTATVIAELTGL-SRT----HVSDAIKSLARRRIIFRQG---MMGIVGVN   89 (95)
T ss_pred             CccCHHHHHHHHCc-CHH----HHHHHHHHHHHCCCeeeec---CCceeecC
Confidence            48999999999999 887    9999999999999999862   23666655

This model represents the N-terminal region of the phage lambda replication protein O and homologous regions of other phage proteins.

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

Probab=89.93  E-value=0.3  Score=45.03  Aligned_cols=26  Identities=15%  Similarity=0.291  Sum_probs=23.6

Q ss_pred             CCCeEEEecCCccHHHHHHHhhCCCC
Q 036971          196 NITRLVDVGGGLGITLSDHNFQIPSY  221 (221)
Q Consensus       196 ~~~~vvDVGGG~G~~~~~l~~~~P~l  221 (221)
                      +...+||||||.|.++.++++++|+.
T Consensus       347 ~~p~~lEIG~G~G~~~~~~A~~~p~~  372 (506)
T PRK01544        347 KRKVFLEIGFGMGEHFINQAKMNPDA  372 (506)
T ss_pred             CCceEEEECCCchHHHHHHHHhCCCC
Confidence            35799999999999999999999973

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

Probab=89.93  E-value=0.31  Score=40.30  Aligned_cols=25  Identities=20%  Similarity=0.288  Sum_probs=18.1

Q ss_pred             CCCCCeEEEecCCccHHHHHHHhhC
Q 036971          194 FQNITRLVDVGGGLGITLSDHNFQI  218 (221)
Q Consensus       194 ~~~~~~vvDVGGG~G~~~~~l~~~~  218 (221)
                      .....+|+|||||+|.++..++++.
T Consensus        45 ~~~g~~vLDv~~GtG~~~~~l~~~~   69 (233)
T PF01209_consen   45 LRPGDRVLDVACGTGDVTRELARRV   69 (233)
T ss_dssp             --S--EEEEET-TTSHHHHHHGGGS
T ss_pred             CCCCCEEEEeCCChHHHHHHHHHHC
Confidence            3446799999999999999998875

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.

>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=89.83  E-value=0.28  Score=34.98  Aligned_cols=51  Identities=18%  Similarity=0.270  Sum_probs=38.8

Q ss_pred             HHhhChhhHHHh-cCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           38 VVNLDVLDIINK-AGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        38 av~lglfd~L~~-~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      .+.-.|++.|.. ...+.++++++|++++++ +..    .++..|+.|+..|++--.
T Consensus        47 ~~~~~Vl~~i~~~~~~~~Gv~v~~I~~~l~~-~~~----~v~~al~~L~~eG~IYsT   98 (102)
T PF08784_consen   47 PLQDKVLNFIKQQPNSEEGVHVDEIAQQLGM-SEN----EVRKALDFLSNEGHIYST   98 (102)
T ss_dssp             HHHHHHHHHHHC----TTTEEHHHHHHHSTS--HH----HHHHHHHHHHHTTSEEES
T ss_pred             HHHHHHHHHHHhcCCCCCcccHHHHHHHhCc-CHH----HHHHHHHHHHhCCeEecc
Confidence            345567777776 222257999999999999 887    999999999999998764

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.

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

Probab=89.66  E-value=0.32  Score=44.90  Aligned_cols=24  Identities=17%  Similarity=0.401  Sum_probs=21.7

Q ss_pred             CCeEEEecCCccHHHHHHHhhCCC
Q 036971          197 ITRLVDVGGGLGITLSDHNFQIPS  220 (221)
Q Consensus       197 ~~~vvDVGGG~G~~~~~l~~~~P~  220 (221)
                      ..+|+|||||+|.++..+++.+|+
T Consensus       139 ~~~VLDlG~GsG~iai~la~~~p~  162 (506)
T PRK01544        139 FLNILELGTGSGCIAISLLCELPN  162 (506)
T ss_pred             CCEEEEccCchhHHHHHHHHHCCC
Confidence            468999999999999999998885

>PRK06474 hypothetical protein; Provisional

Probab=89.65  E-value=0.58  Score=37.05  Aligned_cols=72  Identities=14%  Similarity=0.193  Sum_probs=53.0

Q ss_pred             HHHHHHHhhChhhHHHhcCCCCCCCHHHHHhhC-CCCCCcchhhhHHHHHHHHhcCCceeeeccC----CCCcceecccc
Q 036971           33 AVFQAVVNLDVLDIINKAGPGAELSASEIASQI-PTKNPEGAAKMLDRVLGLLVSFNILCCSFST----HGVRLYSLAPV  107 (221)
Q Consensus        33 ~aL~~av~lglfd~L~~~g~~~~~t~~eLA~~~-g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~----~~~~~y~lt~~  107 (221)
                      .+|.--.++.|++.|...+  .++|+.+|++.+ ++ +..    -+.|.|+.|...|+++.....    +..-.|+.++.
T Consensus         6 ~~La~p~R~~Il~~L~~~~--~~~ta~el~~~l~~i-s~a----TvYrhL~~L~e~GLI~~~~~~~~~~~~ek~y~~~~~   78 (178)
T PRK06474          6 EILMHPVRMKICQVLMRNK--EGLTPLELVKILKDV-PQA----TLYRHLQTMVDSGILHVVKEKKVRSVSEKYYAINEE   78 (178)
T ss_pred             HhhCCHHHHHHHHHHHhCC--CCCCHHHHHHHhcCC-CHH----HHHHHHHHHHHCCCEEEeecccccCceeEEEEeccc
Confidence            4566677888999998864  359999999999 56 554    799999999999999986321    01134777776


Q ss_pred             cccc
Q 036971          108 AKYY  111 (221)
Q Consensus       108 s~~L  111 (221)
                      ...+
T Consensus        79 ~~~~   82 (178)
T PRK06474         79 DAKI   82 (178)
T ss_pred             eeee
Confidence            5443

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

Probab=89.56  E-value=0.61  Score=40.49  Aligned_cols=32  Identities=19%  Similarity=0.332  Sum_probs=25.4

Q ss_pred             HHHhcCCCCCCCeEEEecCCccHHHHHHHhhCC
Q 036971          187 IVESYKGFQNITRLVDVGGGLGITLSDHNFQIP  219 (221)
Q Consensus       187 ~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P  219 (221)
                      +++..+ .....+|+|||||+|.++..+++.++
T Consensus        72 ll~~L~-i~~g~~VLDIG~GtG~~a~~LA~~~~  103 (322)
T PRK13943         72 FMEWVG-LDKGMRVLEIGGGTGYNAAVMSRVVG  103 (322)
T ss_pred             HHHhcC-CCCCCEEEEEeCCccHHHHHHHHhcC
Confidence            445555 55568999999999999999988765

>PRK11512 DNA-binding transcriptional repressor MarR; Provisional

Probab=89.54  E-value=0.61  Score=35.26  Aligned_cols=63  Identities=21%  Similarity=0.154  Sum_probs=46.6

Q ss_pred             hChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCc---ceeccccccccc
Q 036971           41 LDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVR---LYSLAPVAKYYV  112 (221)
Q Consensus        41 lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~---~y~lt~~s~~L~  112 (221)
                      ..|+-.|...   +++|..+||+.+++ ++.    .+.++++-|...|++.+.... .+.   ...+|+.++.+.
T Consensus        43 ~~vL~~l~~~---~~~t~~eLa~~l~i-~~~----tvsr~l~~Le~~GlI~R~~~~-~DrR~~~l~LT~~G~~~~  108 (144)
T PRK11512         43 FKVLCSIRCA---ACITPVELKKVLSV-DLG----ALTRMLDRLVCKGWVERLPNP-NDKRGVLVKLTTSGAAIC  108 (144)
T ss_pred             HHHHHHHHHc---CCCCHHHHHHHHCC-CHH----HHHHHHHHHHHCCCEEeccCc-ccCCeeEeEEChhHHHHH
Confidence            3456666654   58999999999999 887    999999999999999986321 111   256666666544

>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=89.37  E-value=0.3  Score=35.00  Aligned_cols=43  Identities=19%  Similarity=0.372  Sum_probs=33.3

Q ss_pred             hhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           43 VLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        43 lfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      |++.|...   +.++-++||+.+++ ++.    -++++|..|...||+...
T Consensus        18 Il~~L~~~---~~l~de~la~~~~l-~~~----~vRkiL~~L~~~~lv~~~   60 (105)
T PF02002_consen   18 ILDALLRK---GELTDEDLAKKLGL-KPK----EVRKILYKLYEDGLVSYR   60 (105)
T ss_dssp             HHHHHHHH-----B-HHHHHHTT-S--HH----HHHHHHHHHHHHSS-EEE
T ss_pred             HHHHHHHc---CCcCHHHHHHHhCC-CHH----HHHHHHHHHHHCCCeEEE
Confidence            57788865   58999999999999 888    999999999999999765

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.

>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional

Probab=89.32  E-value=0.53  Score=36.14  Aligned_cols=47  Identities=15%  Similarity=0.247  Sum_probs=42.1

Q ss_pred             HhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           39 VNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        39 v~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      .+..|.+.|..+   +..+..+||+++|+ .+.    .+++=++-|...|++...
T Consensus        10 ~D~~Il~~Lq~d---~R~s~~eiA~~lgl-S~~----tV~~Ri~rL~~~GvI~~~   56 (153)
T PRK11179         10 LDRGILEALMEN---ARTPYAELAKQFGV-SPG----TIHVRVEKMKQAGIITGT   56 (153)
T ss_pred             HHHHHHHHHHHc---CCCCHHHHHHHHCc-CHH----HHHHHHHHHHHCCCeeeE
Confidence            677899999997   59999999999999 887    899999999999999853

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

Probab=89.24  E-value=0.61  Score=40.62  Aligned_cols=22  Identities=27%  Similarity=0.152  Sum_probs=18.5

Q ss_pred             CCeEEEecCCccHHHHHHHhhC
Q 036971          197 ITRLVDVGGGLGITLSDHNFQI  218 (221)
Q Consensus       197 ~~~vvDVGGG~G~~~~~l~~~~  218 (221)
                      .++|+|||||+|.+++--+++-
T Consensus        61 dK~VlDVGcGtGILS~F~akAG   82 (346)
T KOG1499|consen   61 DKTVLDVGCGTGILSMFAAKAG   82 (346)
T ss_pred             CCEEEEcCCCccHHHHHHHHhC
Confidence            4899999999999988766653

>PLN02396 hexaprenyldihydroxybenzoate methyltransferase

Probab=89.23  E-value=0.32  Score=42.23  Aligned_cols=21  Identities=19%  Similarity=0.251  Sum_probs=18.0

Q ss_pred             CCeEEEecCCccHHHHHHHhh
Q 036971          197 ITRLVDVGGGLGITLSDHNFQ  217 (221)
Q Consensus       197 ~~~vvDVGGG~G~~~~~l~~~  217 (221)
                      ..+|||||||.|.++..+++.
T Consensus       132 g~~ILDIGCG~G~~s~~La~~  152 (322)
T PLN02396        132 GLKFIDIGCGGGLLSEPLARM  152 (322)
T ss_pred             CCEEEEeeCCCCHHHHHHHHc
Confidence            468999999999999888763

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

Probab=89.21  E-value=0.41  Score=43.30  Aligned_cols=33  Identities=24%  Similarity=0.102  Sum_probs=24.3

Q ss_pred             HHHHHhcCCCCCCCeEEEecCCccHHHHHHHhhC
Q 036971          185 NKIVESYKGFQNITRLVDVGGGLGITLSDHNFQI  218 (221)
Q Consensus       185 ~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~  218 (221)
                      ..+++.++ .....+|+|+|||+|.++..+++..
T Consensus       287 ~~vl~~l~-~~~~~~VLDlgcGtG~~sl~la~~~  319 (443)
T PRK13168        287 ARALEWLD-PQPGDRVLDLFCGLGNFTLPLARQA  319 (443)
T ss_pred             HHHHHHhc-CCCCCEEEEEeccCCHHHHHHHHhC
Confidence            33444444 3445799999999999999998764

>KOG1270 consensus Methyltransferases [Coenzyme transport and metabolism]

Probab=89.19  E-value=0.2  Score=42.05  Aligned_cols=20  Identities=25%  Similarity=0.336  Sum_probs=18.0

Q ss_pred             CeEEEecCCccHHHHHHHhh
Q 036971          198 TRLVDVGGGLGITLSDHNFQ  217 (221)
Q Consensus       198 ~~vvDVGGG~G~~~~~l~~~  217 (221)
                      .+|+|||||.|.++..|++-
T Consensus        91 ~~ilDvGCGgGLLSepLArl  110 (282)
T KOG1270|consen   91 MKILDVGCGGGLLSEPLARL  110 (282)
T ss_pred             ceEEEeccCccccchhhHhh
Confidence            67999999999999988874

>PRK04214 rbn ribonuclease BN/unknown domain fusion protein; Reviewed

Probab=89.11  E-value=0.54  Score=42.20  Aligned_cols=43  Identities=23%  Similarity=0.234  Sum_probs=37.2

Q ss_pred             CCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceecc
Q 036971           54 AELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLA  105 (221)
Q Consensus        54 ~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt  105 (221)
                      .+.|.++|++.+++ +++    .++++|+.|...|++.+.    +++.|.+.
T Consensus       309 ~~~t~~~La~~l~~-~~~----~v~~iL~~L~~agLI~~~----~~g~~~l~  351 (412)
T PRK04214        309 KALDVDEIRRLEPM-GYD----ELGELLCELARIGLLRRG----ERGQWVLA  351 (412)
T ss_pred             CCCCHHHHHHHhCC-CHH----HHHHHHHHHHhCCCeEec----CCCceEec
Confidence            68999999999999 888    999999999999999975    45556544

>COG2512 Predicted membrane-associated trancriptional regulator [Transcription]

Probab=89.00  E-value=0.5  Score=39.74  Aligned_cols=48  Identities=17%  Similarity=0.318  Sum_probs=43.0

Q ss_pred             hhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeec
Q 036971           40 NLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSF   94 (221)
Q Consensus        40 ~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~   94 (221)
                      +..+.++|.+.|  |.++-+||.+++|+ +..    -+.|+|+-|..+|++++.+
T Consensus       197 e~~il~~i~~~G--Gri~Q~eL~r~lgl-skt----TvsR~L~~LEk~GlIe~~K  244 (258)
T COG2512         197 EKEILDLIRERG--GRITQAELRRALGL-SKT----TVSRILRRLEKRGLIEKEK  244 (258)
T ss_pred             HHHHHHHHHHhC--CEEeHHHHHHhhCC-ChH----HHHHHHHHHHhCCceEEEE
Confidence            345788999987  78999999999999 777    8999999999999999975

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

Probab=88.98  E-value=0.7  Score=37.22  Aligned_cols=30  Identities=17%  Similarity=0.295  Sum_probs=22.4

Q ss_pred             HHHhcCCCCCCCeEEEecCCccHHHHHHHhh
Q 036971          187 IVESYKGFQNITRLVDVGGGLGITLSDHNFQ  217 (221)
Q Consensus       187 ~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~  217 (221)
                      ++...+ .....+|+|||||+|..+..+++.
T Consensus        70 l~~~l~-~~~~~~VLeiG~GsG~~t~~la~~   99 (212)
T PRK00312         70 MTELLE-LKPGDRVLEIGTGSGYQAAVLAHL   99 (212)
T ss_pred             HHHhcC-CCCCCEEEEECCCccHHHHHHHHH
Confidence            344455 556689999999999988766654

>PRK11169 leucine-responsive transcriptional regulator; Provisional

Probab=88.97  E-value=0.48  Score=36.85  Aligned_cols=47  Identities=13%  Similarity=0.192  Sum_probs=42.4

Q ss_pred             HHhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceee
Q 036971           38 VVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCC   92 (221)
Q Consensus        38 av~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~   92 (221)
                      .++..|..+|.++   +.+|..+||+++|+ .+.    .+.+=++-|...|+++.
T Consensus        14 ~~D~~IL~~Lq~d---~R~s~~eiA~~lgl-S~~----tv~~Ri~rL~~~GvI~~   60 (164)
T PRK11169         14 RIDRNILNELQKD---GRISNVELSKRVGL-SPT----PCLERVRRLERQGFIQG   60 (164)
T ss_pred             HHHHHHHHHhccC---CCCCHHHHHHHHCc-CHH----HHHHHHHHHHHCCCeEE
Confidence            4688899999998   59999999999999 887    89999999999999985

>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=88.95  E-value=0.85  Score=31.02  Aligned_cols=63  Identities=14%  Similarity=0.158  Sum_probs=46.6

Q ss_pred             HHHHHHHhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceecccccc
Q 036971           33 AVFQAVVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPVAK  109 (221)
Q Consensus        33 ~aL~~av~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~~s~  109 (221)
                      ..|.+.|+    +++...   .|+...+||+.++. ++.    -++-.|..|..+||++...  |..+.|..|..+.
T Consensus         8 ~IL~alV~----~Y~~~~---~PVgSk~ia~~l~~-s~a----TIRN~M~~Le~lGlve~~p--~~s~GriPT~~aY   70 (78)
T PF03444_consen    8 EILKALVE----LYIETG---EPVGSKTIAEELGR-SPA----TIRNEMADLEELGLVESQP--HPSGGRIPTDKAY   70 (78)
T ss_pred             HHHHHHHH----HHHhcC---CCcCHHHHHHHHCC-ChH----HHHHHHHHHHHCCCccCCC--CCCCCCCcCHHHH
Confidence            34555555    244443   69999999999999 887    8999999999999998531  1356677776554

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

>PLN02366 spermidine synthase

Probab=88.86  E-value=0.42  Score=41.25  Aligned_cols=25  Identities=32%  Similarity=0.407  Sum_probs=21.2

Q ss_pred             CCCCeEEEecCCccHHHHHHHhhCCC
Q 036971          195 QNITRLVDVGGGLGITLSDHNFQIPS  220 (221)
Q Consensus       195 ~~~~~vvDVGGG~G~~~~~l~~~~P~  220 (221)
                      ++.++|++||||.|..+.++++. |+
T Consensus        90 ~~pkrVLiIGgG~G~~~rellk~-~~  114 (308)
T PLN02366         90 PNPKKVLVVGGGDGGVLREIARH-SS  114 (308)
T ss_pred             CCCCeEEEEcCCccHHHHHHHhC-CC
Confidence            45789999999999999999865 53

>PRK14967 putative methyltransferase; Provisional

Probab=88.69  E-value=0.51  Score=38.42  Aligned_cols=29  Identities=14%  Similarity=0.107  Sum_probs=22.0

Q ss_pred             HHhcCCCCCCCeEEEecCCccHHHHHHHhh
Q 036971          188 VESYKGFQNITRLVDVGGGLGITLSDHNFQ  217 (221)
Q Consensus       188 l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~  217 (221)
                      +.... .....+|+|+|||.|.++..+++.
T Consensus        29 l~~~~-~~~~~~vLDlGcG~G~~~~~la~~   57 (223)
T PRK14967         29 LAAEG-LGPGRRVLDLCTGSGALAVAAAAA   57 (223)
T ss_pred             HHhcc-cCCCCeEEEecCCHHHHHHHHHHc
Confidence            33444 444579999999999999888764

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

Probab=88.60  E-value=0.81  Score=37.27  Aligned_cols=22  Identities=32%  Similarity=0.262  Sum_probs=18.5

Q ss_pred             CCCeEEEecCCccHHHHHHHhh
Q 036971          196 NITRLVDVGGGLGITLSDHNFQ  217 (221)
Q Consensus       196 ~~~~vvDVGGG~G~~~~~l~~~  217 (221)
                      ...+|+|||||.|.++..+++.
T Consensus        48 ~~~~vLdiG~G~G~~~~~l~~~   69 (233)
T PRK05134         48 FGKRVLDVGCGGGILSESMARL   69 (233)
T ss_pred             CCCeEEEeCCCCCHHHHHHHHc
Confidence            3578999999999998888764

>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=88.08  E-value=0.89  Score=34.69  Aligned_cols=35  Identities=14%  Similarity=0.185  Sum_probs=33.1

Q ss_pred             CCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           54 AELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        54 ~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      |++|++|||.+.|+ ..+    .+---|-.+++.|-+.+.
T Consensus         5 Ga~T~eELA~~FGv-ttR----kvaStLa~~ta~Grl~Rv   39 (155)
T PF07789_consen    5 GAKTAEELAGKFGV-TTR----KVASTLAMVTATGRLIRV   39 (155)
T ss_pred             CcccHHHHHHHhCc-chh----hhHHHHHHHHhcceeEEe
Confidence            69999999999999 888    999999999999999997

The region in question is approximately 150 amino acid residues long.

>TIGR00498 lexA SOS regulatory protein LexA

Probab=87.82  E-value=1  Score=35.98  Aligned_cols=40  Identities=18%  Similarity=0.029  Sum_probs=34.8

Q ss_pred             CCCCHHHHHhhCCCCC-CcchhhhHHHHHHHHhcCCceeeeccCCCCccee
Q 036971           54 AELSASEIASQIPTKN-PEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYS  103 (221)
Q Consensus        54 ~~~t~~eLA~~~g~~~-~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~  103 (221)
                      -+.|..|||+.+|+ + +.    .+.+.|+.|...|++...     ++.|+
T Consensus        24 ~~~~~~ela~~~~~-~s~~----tv~~~l~~L~~~g~i~~~-----~~~~~   64 (199)
T TIGR00498        24 YPPSIREIARAVGL-RSPS----AAEEHLKALERKGYIERD-----PGKPR   64 (199)
T ss_pred             CCCcHHHHHHHhCC-CChH----HHHHHHHHHHHCCCEecC-----CCCCC
Confidence            46889999999999 7 66    899999999999999995     56654

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.

>COG1522 Lrp Transcriptional regulators [Transcription]

Probab=87.75  E-value=0.82  Score=34.70  Aligned_cols=48  Identities=17%  Similarity=0.275  Sum_probs=42.8

Q ss_pred             HHhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           38 VVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        38 av~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      ..+..|.+.|.+.   +..+..+||+++|+ ++.    .+.+-++-|...|++...
T Consensus         8 ~~D~~IL~~L~~d---~r~~~~eia~~lgl-S~~----~v~~Ri~~L~~~GiI~~~   55 (154)
T COG1522           8 DIDRRILRLLQED---ARISNAELAERVGL-SPS----TVLRRIKRLEEEGVIKGY   55 (154)
T ss_pred             HHHHHHHHHHHHh---CCCCHHHHHHHHCC-CHH----HHHHHHHHHHHCCceeeE
Confidence            3567788999997   58999999999999 887    899999999999999976

>PRK04172 pheS phenylalanyl-tRNA synthetase subunit alpha; Provisional

Probab=87.73  E-value=0.6  Score=42.87  Aligned_cols=68  Identities=19%  Similarity=0.207  Sum_probs=53.3

Q ss_pred             HhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceecccccccccc-CCC
Q 036971           39 VNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPVAKYYVS-DQN  116 (221)
Q Consensus        39 v~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~~s~~L~~-~~~  116 (221)
                      .+..|...|...   ++++..+||+.+++ ++.    .+.++++.|.+.|+++....  ....|.+|+.++.++. ..|
T Consensus         7 ~e~~vL~~L~~~---~~~s~~eLA~~l~l-~~~----tVt~~i~~Le~kGlV~~~~~--~~~~i~LTeeG~~~~~~g~p   75 (489)
T PRK04172          7 NEKKVLKALKEL---KEATLEELAEKLGL-PPE----AVMRAAEWLEEKGLVKVEER--VEEVYVLTEEGKKYAEEGLP   75 (489)
T ss_pred             HHHHHHHHHHhC---CCCCHHHHHHHhCc-CHH----HHHHHHHHHHhCCCEEEEee--eEEEEEECHHHHHHHHhcCH
Confidence            344556667665   48999999999999 887    99999999999999998621  2457999999986654 444

>COG1378 Predicted transcriptional regulators [Transcription]

Probab=87.56  E-value=1.3  Score=36.96  Aligned_cols=56  Identities=16%  Similarity=0.048  Sum_probs=45.0

Q ss_pred             hhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceecccccc
Q 036971           44 LDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPVAK  109 (221)
Q Consensus        44 fd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~~s~  109 (221)
                      .-+|-..   |++|+.|||+.+|+ +..    .+..+|+.|...|+++...  |.+..|+.-+...
T Consensus        22 Y~aLl~~---g~~tA~eis~~sgv-P~~----kvY~vl~sLe~kG~v~~~~--g~P~~y~av~p~~   77 (247)
T COG1378          22 YLALLCL---GEATAKEISEASGV-PRP----KVYDVLRSLEKKGLVEVIE--GRPKKYRAVPPEE   77 (247)
T ss_pred             HHHHHHh---CCccHHHHHHHcCC-Cch----hHHHHHHHHHHCCCEEeeC--CCCceEEeCCHHH
Confidence            3444444   59999999999999 777    9999999999999999863  2567788776554

>TIGR01889 Staph_reg_Sar staphylococcal accessory regulator family

Probab=87.48  E-value=0.83  Score=32.92  Aligned_cols=66  Identities=17%  Similarity=0.174  Sum_probs=46.0

Q ss_pred             hhChhhHHH--hcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCc---ceeccccccccc
Q 036971           40 NLDVLDIIN--KAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVR---LYSLAPVAKYYV  112 (221)
Q Consensus        40 ~lglfd~L~--~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~---~y~lt~~s~~L~  112 (221)
                      ++.++..|.  ... +++++..+||..+++ ++.    .+.++++.|...|++.+.... .+.   .+.+|+.+..+.
T Consensus        27 q~~vL~~l~~~~~~-~~~~t~~eL~~~l~~-~~s----tvs~~i~~Le~kg~I~r~~~~-~D~R~~~i~lT~~G~~~~   97 (109)
T TIGR01889        27 ELLILYYLGKLENN-EGKLTLKEIIKEILI-KQS----ALVKIIKKLSKKGYLSKERSE-DDERKVIISINKEQRSKI   97 (109)
T ss_pred             HHHHHHHHHhhhcc-CCcCcHHHHHHHHCC-CHH----HHHHHHHHHHHCCCEeccCCc-ccCCeEEEEECHHHHHHH
Confidence            344555555  211 158999999999999 887    999999999999999986321 122   255666665443

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.

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

Probab=87.21  E-value=0.34  Score=39.79  Aligned_cols=27  Identities=22%  Similarity=0.305  Sum_probs=19.4

Q ss_pred             HHHhcCCCCC--CCeEEEecCCccHHHHHH
Q 036971          187 IVESYKGFQN--ITRLVDVGGGLGITLSDH  214 (221)
Q Consensus       187 ~l~~~~~~~~--~~~vvDVGGG~G~~~~~l  214 (221)
                      .++.++ +++  ...|+|||||+|.-+..+
T Consensus        40 aLELLa-lp~~~~~~iLDIGCGsGLSg~vL   68 (270)
T KOG1541|consen   40 ALELLA-LPGPKSGLILDIGCGSGLSGSVL   68 (270)
T ss_pred             HHHHhh-CCCCCCcEEEEeccCCCcchhee
Confidence            344444 544  689999999999876554

>PLN02585 magnesium protoporphyrin IX methyltransferase

Probab=86.87  E-value=0.56  Score=40.62  Aligned_cols=21  Identities=19%  Similarity=0.210  Sum_probs=18.6

Q ss_pred             CCeEEEecCCccHHHHHHHhh
Q 036971          197 ITRLVDVGGGLGITLSDHNFQ  217 (221)
Q Consensus       197 ~~~vvDVGGG~G~~~~~l~~~  217 (221)
                      ..+|+|||||+|.++..+++.
T Consensus       145 ~~~VLDlGcGtG~~a~~la~~  165 (315)
T PLN02585        145 GVTVCDAGCGTGSLAIPLALE  165 (315)
T ss_pred             CCEEEEecCCCCHHHHHHHHC
Confidence            469999999999999988865

>PRK00811 spermidine synthase; Provisional

Probab=86.84  E-value=0.58  Score=39.79  Aligned_cols=23  Identities=35%  Similarity=0.414  Sum_probs=20.2

Q ss_pred             CCCCeEEEecCCccHHHHHHHhh
Q 036971          195 QNITRLVDVGGGLGITLSDHNFQ  217 (221)
Q Consensus       195 ~~~~~vvDVGGG~G~~~~~l~~~  217 (221)
                      ++.++|+|||||.|..+.++++.
T Consensus        75 ~~p~~VL~iG~G~G~~~~~~l~~   97 (283)
T PRK00811         75 PNPKRVLIIGGGDGGTLREVLKH   97 (283)
T ss_pred             CCCCEEEEEecCchHHHHHHHcC
Confidence            34689999999999999999875

>PRK10870 transcriptional repressor MprA; Provisional

Probab=86.66  E-value=0.86  Score=35.93  Aligned_cols=66  Identities=11%  Similarity=0.070  Sum_probs=47.3

Q ss_pred             ChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCC--Ccceecccccccccc
Q 036971           42 DVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHG--VRLYSLAPVAKYYVS  113 (221)
Q Consensus        42 glfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~--~~~y~lt~~s~~L~~  113 (221)
                      .+.-.|...+ ++++|..+||+.+++ ++.    .+.+++.-|...|++++.....+  .-...+|+.++.+..
T Consensus        59 ~iL~~L~~~~-~~~it~~eLa~~l~l-~~~----tvsr~v~rLe~kGlV~R~~~~~DrR~~~v~LT~~G~~~~~  126 (176)
T PRK10870         59 MALITLESQE-NHSIQPSELSCALGS-SRT----NATRIADELEKRGWIERRESDNDRRCLHLQLTEKGHEFLR  126 (176)
T ss_pred             HHHHHHhcCC-CCCcCHHHHHHHHCC-CHH----HHHHHHHHHHHCCCEEecCCCCCCCeeEEEECHHHHHHHH
Confidence            3455555422 157999999999999 887    99999999999999998632101  124677777776554

>PHA03412 putative methyltransferase; Provisional

Probab=86.37  E-value=0.5  Score=39.21  Aligned_cols=23  Identities=17%  Similarity=0.112  Sum_probs=20.0

Q ss_pred             CCeEEEecCCccHHHHHHHhhCC
Q 036971          197 ITRLVDVGGGLGITLSDHNFQIP  219 (221)
Q Consensus       197 ~~~vvDVGGG~G~~~~~l~~~~P  219 (221)
                      ..+|||+|||+|.++..++++.+
T Consensus        50 ~grVLDlG~GSG~Lalala~~~~   72 (241)
T PHA03412         50 SGSVVDLCAGIGGLSFAMVHMMM   72 (241)
T ss_pred             CCEEEEccChHHHHHHHHHHhcc
Confidence            46999999999999999987653

>PRK14165 winged helix-turn-helix domain-containing protein/riboflavin kinase; Provisional

Probab=86.35  E-value=0.9  Score=37.19  Aligned_cols=53  Identities=17%  Similarity=0.179  Sum_probs=42.6

Q ss_pred             CCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceeccccccccc
Q 036971           54 AELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPVAKYYV  112 (221)
Q Consensus        54 ~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~~s~~L~  112 (221)
                      ..+|..+||+.+++ ++.    .+.|.|+.|...|++++.... ....+.+|+.+..+.
T Consensus        20 ~~IS~~eLA~~L~i-S~~----Tvsr~Lk~LEe~GlI~R~~~~-r~~~v~LTekG~~ll   72 (217)
T PRK14165         20 VKISSSEFANHTGT-SSK----TAARILKQLEDEGYITRTIVP-RGQLITITEKGLDVL   72 (217)
T ss_pred             CCcCHHHHHHHHCc-CHH----HHHHHHHHHHHCCCEEEEEcC-CceEEEECHHHHHHH
Confidence            46999999999999 887    999999999999999986311 245677777776544

>PRK05638 threonine synthase; Validated

Probab=86.30  E-value=1.1  Score=40.58  Aligned_cols=61  Identities=13%  Similarity=0.201  Sum_probs=45.6

Q ss_pred             hhhHHHhcCCCCCCCHHHHHhhCC--CCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceeccccccccc
Q 036971           43 VLDIINKAGPGAELSASEIASQIP--TKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPVAKYYV  112 (221)
Q Consensus        43 lfd~L~~~g~~~~~t~~eLA~~~g--~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~~s~~L~  112 (221)
                      |+..|.+    ++++.-||++.++  + .+.    .+.+.|+.|...|+++.....+..-.|++|+.++.+.
T Consensus       376 IL~~L~~----~~~~~~el~~~l~~~~-s~~----~v~~hL~~Le~~GLV~~~~~~g~~~~Y~Lt~~g~~~l  438 (442)
T PRK05638        376 ILKILSE----REMYGYEIWKALGKPL-KYQ----AVYQHIKELEELGLIEEAYRKGRRVYYKLTEKGRRLL  438 (442)
T ss_pred             HHHHHhh----CCccHHHHHHHHcccC-Ccc----hHHHHHHHHHHCCCEEEeecCCCcEEEEECcHHHHHH
Confidence            5667776    5899999999998  6 666    8999999999999998632111223488888776543

>COG4565 CitB Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]

Probab=86.15  E-value=0.94  Score=36.89  Aligned_cols=44  Identities=30%  Similarity=0.339  Sum_probs=36.4

Q ss_pred             hhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           43 VLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        43 lfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      |.+.|...+  .+.|.+|+|+++|+ ..-    -.+|.|.+|++.|+++..
T Consensus       163 i~~~~~~~~--~~~Taeela~~~gi-SRv----TaRRYLeyl~~~~~l~a~  206 (224)
T COG4565         163 VREALKEPD--QELTAEELAQALGI-SRV----TARRYLEYLVSNGILEAE  206 (224)
T ss_pred             HHHHHhCcC--CccCHHHHHHHhCc-cHH----HHHHHHHHHHhcCeeeEE
Confidence            445666332  69999999999999 665    789999999999999875

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

Probab=86.14  E-value=0.93  Score=36.76  Aligned_cols=32  Identities=22%  Similarity=0.392  Sum_probs=21.7

Q ss_pred             HHHHhcCCCCCCCeEEEecCCccHHHHHHHhhC
Q 036971          186 KIVESYKGFQNITRLVDVGGGLGITLSDHNFQI  218 (221)
Q Consensus       186 ~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~  218 (221)
                      .+++.+. ......++|||+|.|....+.+-.+
T Consensus        33 ~il~~~~-l~~~dvF~DlGSG~G~~v~~aal~~   64 (205)
T PF08123_consen   33 KILDELN-LTPDDVFYDLGSGVGNVVFQAALQT   64 (205)
T ss_dssp             HHHHHTT---TT-EEEEES-TTSHHHHHHHHHH
T ss_pred             HHHHHhC-CCCCCEEEECCCCCCHHHHHHHHHc
Confidence            4566677 7777899999999999987766443

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 ....

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

Probab=85.97  E-value=1.5  Score=38.36  Aligned_cols=23  Identities=35%  Similarity=0.442  Sum_probs=17.6

Q ss_pred             hcCCCCCCCeEEEecCCccHHHHHH
Q 036971          190 SYKGFQNITRLVDVGGGLGITLSDH  214 (221)
Q Consensus       190 ~~~~~~~~~~vvDVGGG~G~~~~~l  214 (221)
                      .-| |++ +.|||||+|+|.++.=-
T Consensus       173 ~sD-F~~-kiVlDVGaGSGILS~FA  195 (517)
T KOG1500|consen  173 HSD-FQD-KIVLDVGAGSGILSFFA  195 (517)
T ss_pred             ccc-cCC-cEEEEecCCccHHHHHH
Confidence            344 665 88999999999987533

>PF00325 Crp: Bacterial regulatory proteins, crp family; InterPro: IPR001808 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif

Probab=85.96  E-value=0.49  Score=26.47  Aligned_cols=31  Identities=19%  Similarity=0.324  Sum_probs=24.8

Q ss_pred             CCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCce
Q 036971           55 ELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNIL   90 (221)
Q Consensus        55 ~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll   90 (221)
                      ++|-.|||..+|+ .++    -+.|+|..|...|++
T Consensus         2 ~mtr~diA~~lG~-t~E----TVSR~l~~l~~~glI   32 (32)
T PF00325_consen    2 PMTRQDIADYLGL-TRE----TVSRILKKLERQGLI   32 (32)
T ss_dssp             E--HHHHHHHHTS--HH----HHHHHHHHHHHTTSE
T ss_pred             CcCHHHHHHHhCC-cHH----HHHHHHHHHHHcCCC
Confidence            5788999999999 777    899999999888864

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 ....

>KOG2904 consensus Predicted methyltransferase [General function prediction only]

Probab=85.73  E-value=1.2  Score=37.74  Aligned_cols=27  Identities=22%  Similarity=0.359  Sum_probs=22.7

Q ss_pred             CCCCCeEEEecCCccHHHHHHHhhCCC
Q 036971          194 FQNITRLVDVGGGLGITLSDHNFQIPS  220 (221)
Q Consensus       194 ~~~~~~vvDVGGG~G~~~~~l~~~~P~  220 (221)
                      +.....++|+|||+|..+..++...|+
T Consensus       146 ~~~~~~ildlgtGSGaIslsll~~L~~  172 (328)
T KOG2904|consen  146 HSKHTHILDLGTGSGAISLSLLHGLPQ  172 (328)
T ss_pred             hcccceEEEecCCccHHHHHHHhcCCC
Confidence            444568999999999999999987774

>PHA03411 putative methyltransferase; Provisional

Probab=85.67  E-value=0.76  Score=39.03  Aligned_cols=23  Identities=13%  Similarity=0.135  Sum_probs=19.9

Q ss_pred             CCeEEEecCCccHHHHHHHhhCC
Q 036971          197 ITRLVDVGGGLGITLSDHNFQIP  219 (221)
Q Consensus       197 ~~~vvDVGGG~G~~~~~l~~~~P  219 (221)
                      ..+|+|+|||.|.++..+++..+
T Consensus        65 ~grVLDLGcGsGilsl~la~r~~   87 (279)
T PHA03411         65 TGKVLDLCAGIGRLSFCMLHRCK   87 (279)
T ss_pred             CCeEEEcCCCCCHHHHHHHHhCC
Confidence            46899999999999998887664

>PLN02853 Probable phenylalanyl-tRNA synthetase alpha chain

Probab=85.65  E-value=0.86  Score=41.69  Aligned_cols=71  Identities=13%  Similarity=0.106  Sum_probs=56.6

Q ss_pred             HHHhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceecccccccc-ccCC
Q 036971           37 AVVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPVAKYY-VSDQ  115 (221)
Q Consensus        37 ~av~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~~s~~L-~~~~  115 (221)
                      ++.+..|...|...+  ...+.++||+.+|+ ++.    .+.+.+..|.+.|+++-...  ....|.+|+.++.+ ..+.
T Consensus         2 ~~~e~~iL~~l~~~~--~~~~~~~la~~~g~-~~~----~v~~~~~~L~~kg~v~~~~~--~~~~~~LT~eG~~~l~~G~   72 (492)
T PLN02853          2 AMAEEALLGALSNNE--EISDSGQFAASHGL-DHN----EVVGVIKSLHGFRYVDAQDI--KRETWVLTEEGKKYAAEGS   72 (492)
T ss_pred             chHHHHHHHHHHhcC--CCCCHHHHHHHcCC-CHH----HHHHHHHHHHhCCCEEEEEE--EEEEEEECHHHHHHHHcCC
Confidence            345677888888753  13899999999999 887    99999999999999987632  36789999999855 4566


Q ss_pred             C
Q 036971          116 N  116 (221)
Q Consensus       116 ~  116 (221)
                      |
T Consensus        73 P   73 (492)
T PLN02853         73 P   73 (492)
T ss_pred             H
Confidence            5

>PF08221 HTH_9: RNA polymerase III subunit RPC82 helix-turn-helix domain; InterPro: IPR013197 DNA-directed RNA polymerases 2

Probab=85.56  E-value=0.77  Score=29.75  Aligned_cols=43  Identities=19%  Similarity=0.318  Sum_probs=34.7

Q ss_pred             hhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           43 VLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        43 lfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      |++.|-..   |..|+.+|.+.+++ +++    .++.-|-.|...|++...
T Consensus        18 V~~~Ll~~---G~ltl~~i~~~t~l-~~~----~Vk~~L~~LiQh~~v~y~   60 (62)
T PF08221_consen   18 VGEVLLSR---GRLTLREIVRRTGL-SPK----QVKKALVVLIQHNLVQYF   60 (62)
T ss_dssp             HHHHHHHC----SEEHHHHHHHHT---HH----HHHHHHHHHHHTTSEEEE
T ss_pred             HHHHHHHc---CCcCHHHHHHHhCC-CHH----HHHHHHHHHHHcCCeeee
Confidence            45566666   59999999999999 887    999999999999999864

7.7.6 from EC (also known as DNA-dependent RNA polymerases) are responsible for the polymerisation of ribonucleotides into a sequence complementary to the template DNA. In eukaryotes, there are three different forms of DNA-directed RNA polymerases transcribing different sets of genes. Most RNA polymerases are multimeric enzymes and are composed of a variable number of subunits. The core RNA polymerase complex consists of five subunits (two alpha, one beta, one beta-prime and one omega) and is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. The core RNA polymerase complex forms a "crab claw"-like structure with an internal channel running along the full length []. The key functional sites of the enzyme, as defined by mutational and cross-linking analysis, are located on the inner wall of this channel. RNA synthesis follows after the attachment of RNA polymerase to a specific site, the promoter, on the template DNA strand. The RNA synthesis process continues until a termination sequence is reached. The RNA product, which is synthesised in the 5' to 3'direction, is known as the primary transcript. Eukaryotic nuclei contain three distinct types of RNA polymerases that differ in the RNA they synthesise: RNA polymerase I: located in the nucleoli, synthesises precursors of most ribosomal RNAs. RNA polymerase II: occurs in the nucleoplasm, synthesises mRNA precursors. RNA polymerase III: also occurs in the nucleoplasm, synthesises the precursors of 5S ribosomal RNA, the tRNAs, and a variety of other small nuclear and cytosolic RNAs. Eukaryotic cells are also known to contain separate mitochondrial and chloroplast RNA polymerases. Eukaryotic RNA polymerases, whose molecular masses vary in size from 500 to 700 kDa, contain two non-identical large (>100 kDa) subunits and an array of up to 12 different small (less than 50 kDa) subunits. This family consists of several DNA-directed RNA polymerase III polypeptides which are related to the Saccharomyces cerevisiae (Baker's yeast) RPC82 protein. RNA polymerase C (III) promotes the transcription of tRNA and 5S RNA genes. In S. cerevisiae, the enzyme is composed of 15 subunits, ranging from 10 kDa to about 160 kDa []. This region is probably a DNA-binding helix-turn-helix.; PDB: 2XV4_S 2XUB_A.

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

Probab=85.52  E-value=1.5  Score=35.63  Aligned_cols=31  Identities=16%  Similarity=0.363  Sum_probs=22.6

Q ss_pred             HHHHHhcCCCCCCCeEEEecCCccHHHHHHHh
Q 036971          185 NKIVESYKGFQNITRLVDVGGGLGITLSDHNF  216 (221)
Q Consensus       185 ~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~  216 (221)
                      ..+++.++ .....+|+|||+|+|..+.-+++
T Consensus        62 a~~l~~L~-l~pg~~VLeIGtGsGY~aAlla~   92 (209)
T PF01135_consen   62 ARMLEALD-LKPGDRVLEIGTGSGYQAALLAH   92 (209)
T ss_dssp             HHHHHHTT-C-TT-EEEEES-TTSHHHHHHHH
T ss_pred             HHHHHHHh-cCCCCEEEEecCCCcHHHHHHHH
Confidence            34667777 77788999999999999877764

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 ....

>PRK10901 16S rRNA methyltransferase B; Provisional

Probab=85.30  E-value=1  Score=40.53  Aligned_cols=32  Identities=19%  Similarity=0.035  Sum_probs=25.1

Q ss_pred             HHHhcCCCCCCCeEEEecCCccHHHHHHHhhCC
Q 036971          187 IVESYKGFQNITRLVDVGGGLGITLSDHNFQIP  219 (221)
Q Consensus       187 ~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P  219 (221)
                      ++..++ .....+|+|+|||+|..+..+++..|
T Consensus       236 ~~~~l~-~~~g~~VLDlgaG~G~~t~~la~~~~  267 (427)
T PRK10901        236 AATLLA-PQNGERVLDACAAPGGKTAHILELAP  267 (427)
T ss_pred             HHHHcC-CCCCCEEEEeCCCCChHHHHHHHHcC
Confidence            344455 44567999999999999999998876

>PRK11873 arsM arsenite S-adenosylmethyltransferase; Reviewed

Probab=85.29  E-value=0.89  Score=38.07  Aligned_cols=25  Identities=16%  Similarity=0.224  Sum_probs=20.0

Q ss_pred             CCCCCeEEEecCCccHHHHHHHhhC
Q 036971          194 FQNITRLVDVGGGLGITLSDHNFQI  218 (221)
Q Consensus       194 ~~~~~~vvDVGGG~G~~~~~l~~~~  218 (221)
                      .....+|||||||.|..+..+++.+
T Consensus        75 ~~~g~~VLDiG~G~G~~~~~~a~~~   99 (272)
T PRK11873         75 LKPGETVLDLGSGGGFDCFLAARRV   99 (272)
T ss_pred             CCCCCEEEEeCCCCCHHHHHHHHHh
Confidence            4556899999999999887776653

>PRK13255 thiopurine S-methyltransferase; Reviewed

Probab=84.79  E-value=1.6  Score=35.72  Aligned_cols=23  Identities=13%  Similarity=-0.091  Sum_probs=19.4

Q ss_pred             CCCCeEEEecCCccHHHHHHHhh
Q 036971          195 QNITRLVDVGGGLGITLSDHNFQ  217 (221)
Q Consensus       195 ~~~~~vvDVGGG~G~~~~~l~~~  217 (221)
                      ....+|+|+|||.|..+..|+++
T Consensus        36 ~~~~rvL~~gCG~G~da~~LA~~   58 (218)
T PRK13255         36 PAGSRVLVPLCGKSLDMLWLAEQ   58 (218)
T ss_pred             CCCCeEEEeCCCChHhHHHHHhC
Confidence            34579999999999999988764

>PF03141 Methyltransf_29: Putative S-adenosyl-L-methionine-dependent methyltransferase; InterPro: IPR004159 Members of this family of hypothetical plant proteins are putative methyltransferases

Probab=84.34  E-value=0.84  Score=41.70  Aligned_cols=23  Identities=22%  Similarity=0.115  Sum_probs=20.1

Q ss_pred             CCCCeEEEecCCccHHHHHHHhh
Q 036971          195 QNITRLVDVGGGLGITLSDHNFQ  217 (221)
Q Consensus       195 ~~~~~vvDVGGG~G~~~~~l~~~  217 (221)
                      ...++++|||||.|.++..++++
T Consensus       116 g~iR~~LDvGcG~aSF~a~l~~r  138 (506)
T PF03141_consen  116 GGIRTALDVGCGVASFGAYLLER  138 (506)
T ss_pred             CceEEEEeccceeehhHHHHhhC
Confidence            45789999999999999988765

; GO: 0008168 methyltransferase activity

>PRK13509 transcriptional repressor UlaR; Provisional

Probab=84.12  E-value=1.7  Score=36.20  Aligned_cols=45  Identities=11%  Similarity=0.137  Sum_probs=40.1

Q ss_pred             hChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           41 LDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        41 lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      ..|.+.|.+.   +.+++.|||+.+++ .+.    -++|-|+.|...|++.+.
T Consensus         8 ~~Il~~l~~~---~~~~~~ela~~l~v-S~~----TirRdL~~Le~~g~i~r~   52 (251)
T PRK13509          8 QILLELLAQL---GFVTVEKVIERLGI-SPA----TARRDINKLDESGKLKKV   52 (251)
T ss_pred             HHHHHHHHHc---CCcCHHHHHHHHCc-CHH----HHHHHHHHHHHCCCEEEe
Confidence            3477888887   58999999999999 777    899999999999999987

>PF13404 HTH_AsnC-type: AsnC-type helix-turn-helix domain; PDB: 2ZNY_E 2ZNZ_G 1RI7_A 2CYY_A 2E1C_A 2VC1_B 2QZ8_A 2W29_C 2IVM_B 2VBX_B

Probab=84.11  E-value=1  Score=26.81  Aligned_cols=29  Identities=14%  Similarity=0.315  Sum_probs=22.5

Q ss_pred             HhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCc
Q 036971           39 VNLDVLDIINKAGPGAELSASEIASQIPTKNPE   71 (221)
Q Consensus        39 v~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~   71 (221)
                      ++..|.+.|.+.   +..+..+||+.+|+ .+.
T Consensus         4 ~D~~Il~~Lq~d---~r~s~~~la~~lgl-S~~   32 (42)
T PF13404_consen    4 LDRKILRLLQED---GRRSYAELAEELGL-SES   32 (42)
T ss_dssp             HHHHHHHHHHH----TTS-HHHHHHHHTS--HH
T ss_pred             HHHHHHHHHHHc---CCccHHHHHHHHCc-CHH
Confidence            567788899997   59999999999999 665

...

>PLN03075 nicotianamine synthase; Provisional

Probab=83.87  E-value=1.5  Score=37.54  Aligned_cols=25  Identities=20%  Similarity=0.202  Sum_probs=17.7

Q ss_pred             CCCeEEEecCCccHH--HHHHHhhCCC
Q 036971          196 NITRLVDVGGGLGIT--LSDHNFQIPS  220 (221)
Q Consensus       196 ~~~~vvDVGGG~G~~--~~~l~~~~P~  220 (221)
                      ..++|+|||||.|-+  +...++.+|+
T Consensus       123 ~p~~VldIGcGpgpltaiilaa~~~p~  149 (296)
T PLN03075        123 VPTKVAFVGSGPLPLTSIVLAKHHLPT  149 (296)
T ss_pred             CCCEEEEECCCCcHHHHHHHHHhcCCC
Confidence            578999999998844  3334445664

>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=83.51  E-value=1.2  Score=28.78  Aligned_cols=35  Identities=17%  Similarity=0.157  Sum_probs=30.5

Q ss_pred             CCC-CHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           54 AEL-SASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        54 ~~~-t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      ..+ +..+||+..++ +..    .+++.|+.|...|++...
T Consensus        22 ~~lps~~~la~~~~v-sr~----tvr~al~~L~~~g~i~~~   57 (64)
T PF00392_consen   22 DRLPSERELAERYGV-SRT----TVREALRRLEAEGLIERR   57 (64)
T ss_dssp             SBE--HHHHHHHHTS--HH----HHHHHHHHHHHTTSEEEE
T ss_pred             CEeCCHHHHHHHhcc-CCc----HHHHHHHHHHHCCcEEEE
Confidence            467 99999999999 777    899999999999999986

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 ....

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

Probab=83.48  E-value=1.2  Score=40.00  Aligned_cols=25  Identities=24%  Similarity=0.117  Sum_probs=21.1

Q ss_pred             CCCCCeEEEecCCccHHHHHHHhhC
Q 036971          194 FQNITRLVDVGGGLGITLSDHNFQI  218 (221)
Q Consensus       194 ~~~~~~vvDVGGG~G~~~~~l~~~~  218 (221)
                      ..+..+|+|+|||.|.++..+++..
T Consensus       290 ~~~~~~vLDl~cG~G~~sl~la~~~  314 (431)
T TIGR00479       290 LQGEELVVDAYCGVGTFTLPLAKQA  314 (431)
T ss_pred             cCCCCEEEEcCCCcCHHHHHHHHhC
Confidence            4455799999999999999988754

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.

>TIGR01983 UbiG ubiquinone biosynthesis O-methyltransferase

Probab=83.36  E-value=1.1  Score=36.02  Aligned_cols=23  Identities=26%  Similarity=0.172  Sum_probs=19.3

Q ss_pred             CCeEEEecCCccHHHHHHHhhCC
Q 036971          197 ITRLVDVGGGLGITLSDHNFQIP  219 (221)
Q Consensus       197 ~~~vvDVGGG~G~~~~~l~~~~P  219 (221)
                      ..+|+|||||.|.++..+++..+
T Consensus        46 ~~~vLdlG~G~G~~~~~l~~~~~   68 (224)
T TIGR01983        46 GLRVLDVGCGGGLLSEPLARLGA   68 (224)
T ss_pred             CCeEEEECCCCCHHHHHHHhcCC
Confidence            56899999999999988876543

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.

>PF01475 FUR: Ferric uptake regulator family; InterPro: IPR002481 The Ferric uptake regulator (FUR) family includes metal ion uptake regulator proteins

Probab=83.31  E-value=1.3  Score=32.37  Aligned_cols=68  Identities=22%  Similarity=0.302  Sum_probs=47.1

Q ss_pred             HHHhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceeccc
Q 036971           37 AVVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAP  106 (221)
Q Consensus        37 ~av~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~  106 (221)
                      +..+.-|++.|.+.+  ++.|+++|-+.+.-..+..+..-+.|.|+.|...|++.+....++...|....
T Consensus         7 T~~R~~Il~~l~~~~--~~~ta~ei~~~l~~~~~~is~~TVYR~L~~L~e~Gli~~~~~~~~~~~Y~~~~   74 (120)
T PF01475_consen    7 TPQRLAILELLKESP--EHLTAEEIYDKLRKKGPRISLATVYRTLDLLEEAGLIRKIEFGDGESRYELST   74 (120)
T ss_dssp             HHHHHHHHHHHHHHS--SSEEHHHHHHHHHHTTTT--HHHHHHHHHHHHHTTSEEEEEETTSEEEEEESS
T ss_pred             CHHHHHHHHHHHcCC--CCCCHHHHHHHhhhccCCcCHHHHHHHHHHHHHCCeEEEEEcCCCcceEeecC
Confidence            345666888999876  69999999998853123323335899999999999999974321233565554

These are responsible for controlling the intracellular concentration of iron in many bacteria. Although iron is essential for most organisms, high concentrations can be toxic because of the formation of hydroxyl radicals []. FURs can also control zinc homeostasis [] and is the subject of research on the pathogenesis of mycobacteria.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1MZB_A 2RGV_B 2FE3_B 3F8N_B 3EYY_B 2W57_A 2FU4_A 2O03_A 3MWM_B 2XIG_B ....

>COG1733 Predicted transcriptional regulators [Transcription]

Probab=83.27  E-value=3.6  Score=30.38  Aligned_cols=77  Identities=14%  Similarity=0.094  Sum_probs=56.1

Q ss_pred             HHHHHHHHHhhhHHHHHHHHHHhhChhhHHHhcCCCCCCCHHHHHhhCC-CCCCcchhhhHHHHHHHHhcCCceeeeccC
Q 036971           18 VYSHAMVLGSAIVLPAVFQAVVNLDVLDIINKAGPGAELSASEIASQIP-TKNPEGAAKMLDRVLGLLVSFNILCCSFST   96 (221)
Q Consensus        18 ~~~~l~~~~~g~~~~~aL~~av~lglfd~L~~~g~~~~~t~~eLA~~~g-~~~~~~~~~~l~rlLr~L~~~gll~~~~~~   96 (221)
                      +....++++.+=|..-.|+...         .    |+.-..||-..++ + .++    .|.+-|+.|...|++.+..-.
T Consensus        12 ~~~~~l~~ig~kW~~lIl~~L~---------~----g~~RF~eL~r~i~~I-s~k----~Ls~~Lk~Le~~Glv~R~~~~   73 (120)
T COG1733          12 PVEEALEVIGGKWTLLILRDLF---------D----GPKRFNELRRSIGGI-SPK----MLSRRLKELEEDGLVERVVYP   73 (120)
T ss_pred             CHHHHHHHHcCccHHHHHHHHh---------c----CCCcHHHHHHHcccc-CHH----HHHHHHHHHHHCCCEEeeecC
Confidence            3555666666666666665533         3    4899999999998 8 887    999999999999999987210


Q ss_pred             --CCCcceeccccccccc
Q 036971           97 --HGVRLYSLAPVAKYYV  112 (221)
Q Consensus        97 --~~~~~y~lt~~s~~L~  112 (221)
                        ...-.|++|+.++.|.
T Consensus        74 ~~PprveY~LT~~G~~L~   91 (120)
T COG1733          74 EEPPRVEYRLTEKGRDLL   91 (120)
T ss_pred             CCCceeEEEEhhhHHHHH
Confidence              0123588888877665

>PRK01581 speE spermidine synthase; Validated

Probab=83.12  E-value=1.1  Score=39.66  Aligned_cols=24  Identities=25%  Similarity=0.331  Sum_probs=20.4

Q ss_pred             CCCCeEEEecCCccHHHHHHHhhC
Q 036971          195 QNITRLVDVGGGLGITLSDHNFQI  218 (221)
Q Consensus       195 ~~~~~vvDVGGG~G~~~~~l~~~~  218 (221)
                      .+.++|++||||.|..+.++++..
T Consensus       149 ~~PkrVLIIGgGdG~tlrelLk~~  172 (374)
T PRK01581        149 IDPKRVLILGGGDGLALREVLKYE  172 (374)
T ss_pred             CCCCEEEEECCCHHHHHHHHHhcC
Confidence            357899999999999999988743

>PLN02672 methionine S-methyltransferase

Probab=82.71  E-value=1  Score=45.19  Aligned_cols=23  Identities=13%  Similarity=0.088  Sum_probs=21.4

Q ss_pred             CeEEEecCCccHHHHHHHhhCCC
Q 036971          198 TRLVDVGGGLGITLSDHNFQIPS  220 (221)
Q Consensus       198 ~~vvDVGGG~G~~~~~l~~~~P~  220 (221)
                      .+|+|||||+|..+..+++.+|+
T Consensus       120 ~~VLDlG~GSG~Iai~La~~~~~  142 (1082)
T PLN02672        120 KTVAELGCGNGWISIAIAEKWLP  142 (1082)
T ss_pred             CEEEEEecchHHHHHHHHHHCCC
Confidence            58999999999999999999884

>PF12324 HTH_15: Helix-turn-helix domain of alkylmercury lyase; InterPro: IPR024259 Alkylmercury lyase (EC:4

Probab=82.64  E-value=2.2  Score=28.92  Aligned_cols=40  Identities=13%  Similarity=0.182  Sum_probs=24.3

Q ss_pred             hhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           43 VLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        43 lfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      |+..|+..   .|+|+.+||.++|. +.       .++-.+|..+-=.+.+
T Consensus        29 LLr~LA~G---~PVt~~~LA~a~g~-~~-------e~v~~~L~~~p~tEyD   68 (77)
T PF12324_consen   29 LLRLLAKG---QPVTVEQLAAALGW-PV-------EEVRAALAAMPDTEYD   68 (77)
T ss_dssp             HHHHHTTT---S-B-HHHHHHHHT---H-------HHHHHHHHH-TTSEEE
T ss_pred             HHHHHHcC---CCcCHHHHHHHHCC-CH-------HHHHHHHHhCCCceEc
Confidence            56688884   79999999999999 44       4444455444445555

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.

>COG1497 Predicted transcriptional regulator [Transcription]

Probab=82.44  E-value=1.2  Score=36.79  Aligned_cols=85  Identities=15%  Similarity=0.236  Sum_probs=59.0

Q ss_pred             CCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceecccccc-ccccCCCCCChHHHHHHh-cCcc
Q 036971           54 AELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPVAK-YYVSDQNGVSMRPYMNLS-LDKV  131 (221)
Q Consensus        54 ~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~~s~-~L~~~~~~~~~~~~~~~~-~~~~  131 (221)
                      +.+...|||+.+|+ -+.    .+...++-|+..|++++.    +.+.|..|.-+. +|...-  ..++.+.... ..-.
T Consensus        24 p~v~q~eIA~~lgi-T~Q----aVsehiK~Lv~eG~i~~~----gR~~Y~iTkkG~e~l~~~~--~dlr~f~~ev~~~l~   92 (260)
T COG1497          24 PRVKQKEIAKKLGI-TLQ----AVSEHIKELVKEGLIEKE----GRGEYEITKKGAEWLLEQL--SDLRRFSEEVELVLD   92 (260)
T ss_pred             CCCCHHHHHHHcCC-CHH----HHHHHHHHHHhccceeec----CCeeEEEehhHHHHHHHHH--HHHHHHHHHHHHHHh
Confidence            47999999999999 887    999999999999999996    678999999876 444322  1355454433 1111


Q ss_pred             chhhhhhhHH-HHhcCCch
Q 036971          132 MMPGWFQLKD-QILEGELS  149 (221)
Q Consensus       132 ~~~~~~~L~~-~l~~g~~~  149 (221)
                      +...|..+++ -++.|+..
T Consensus        93 ~~~vw~AIA~edI~~Gd~V  111 (260)
T COG1497          93 YVMVWTAIAKEDIKEGDTV  111 (260)
T ss_pred             hHHHHHHhhHhhhccCCEE
Confidence            2345666654 35656543

>PF05584 Sulfolobus_pRN: Sulfolobus plasmid regulatory protein; InterPro: IPR008848 This family consists of several plasmid regulatory proteins from the extreme thermophilic and acidophilic archaea Sulfolobus

Probab=82.26  E-value=2.7  Score=28.09  Aligned_cols=44  Identities=18%  Similarity=0.128  Sum_probs=38.2

Q ss_pred             hChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           41 LDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        41 lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      ..|...++.    +..|.++|-+.+|+ +..    .|-..|--|...|++.+.
T Consensus         8 ~~IL~~ls~----~c~TLeeL~ekTgi-~k~----~LlV~LsrL~k~GiI~Rk   51 (72)
T PF05584_consen    8 QKILIILSK----RCCTLEELEEKTGI-SKN----TLLVYLSRLAKRGIIERK   51 (72)
T ss_pred             HHHHHHHHh----ccCCHHHHHHHHCC-CHH----HHHHHHHHHHHCCCeeee
Confidence            345566777    59999999999999 887    899999999999999985

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

Probab=82.18  E-value=1.1  Score=35.86  Aligned_cols=20  Identities=25%  Similarity=0.421  Sum_probs=16.9

Q ss_pred             CCeEEEecCCccHHHHHHHh
Q 036971          197 ITRLVDVGGGLGITLSDHNF  216 (221)
Q Consensus       197 ~~~vvDVGGG~G~~~~~l~~  216 (221)
                      .++|+|+|||+|.++...+-
T Consensus        46 g~~V~DlG~GTG~La~ga~~   65 (198)
T COG2263          46 GKTVLDLGAGTGILAIGAAL   65 (198)
T ss_pred             CCEEEEcCCCcCHHHHHHHh
Confidence            37899999999999887653

>COG5631 Predicted transcription regulator, contains HTH domain (MarR family) [Transcription]

Probab=82.10  E-value=10  Score=29.52  Aligned_cols=78  Identities=13%  Similarity=0.103  Sum_probs=58.2

Q ss_pred             HHhhhHHHHHHHHHHhhC-------hhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCC
Q 036971           25 LGSAIVLPAVFQAVVNLD-------VLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTH   97 (221)
Q Consensus        25 ~~~g~~~~~aL~~av~lg-------lfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~   97 (221)
                      .+++.|...|+.+|...+       |..++.-.+  .+.++.+|+..++.+|    +..+..-||-|...|++..... +
T Consensus        63 ~Af~rW~vrCmAaag~~~ls~~e~l~lH~irhrd--R~K~laDic~~ln~eD----th~itYslrKL~k~gLit~t~~-g  135 (199)
T COG5631          63 EAFGRWQVRCMAAAGEFSLSGPENLLLHIIRHRD--RPKSLADICQMLNRED----THNITYSLRKLLKGGLITRTGS-G  135 (199)
T ss_pred             HHHHHHHHHHHHHhcCCCCcchHHHHHHHHhhcC--chhhHHHHHHHhcccc----chhHHHHHHHHHhccceecCCC-C
Confidence            345778888888887766       355666665  7999999999998833    3488999999999999998631 1


Q ss_pred             CCcceecccccc
Q 036971           98 GVRLYSLAPVAK  109 (221)
Q Consensus        98 ~~~~y~lt~~s~  109 (221)
                      ..-+|.-|+.+.
T Consensus       136 kevTy~vTa~G~  147 (199)
T COG5631         136 KEVTYEVTALGH  147 (199)
T ss_pred             ceEEEEEecchH
Confidence            234688777764

>PTZ00326 phenylalanyl-tRNA synthetase alpha chain; Provisional

Probab=81.99  E-value=1.8  Score=39.81  Aligned_cols=69  Identities=10%  Similarity=0.144  Sum_probs=54.8

Q ss_pred             HhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceecccccccc-ccCCC
Q 036971           39 VNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPVAKYY-VSDQN  116 (221)
Q Consensus        39 v~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~~s~~L-~~~~~  116 (221)
                      .+..|...|.+.+  +..+.++||+.+|+ ++.    .+.+.+..|.+.|+++-...  ....|.+|+-++.+ ..+.|
T Consensus         7 ~e~~iL~~l~~~~--~~~~~~~la~~~~~-~~~----~v~~~~~~L~~kg~v~~~~~--~~~~~~LT~eG~~~~~~G~P   76 (494)
T PTZ00326          7 EENTILSKLESEN--EIVNSLALAESLNI-DHQ----KVVGAIKSLESANYITTEMK--KSNTWTLTEEGEDYLKNGSP   76 (494)
T ss_pred             HHHHHHHHHHhcC--CCCCHHHHHHHcCC-CHH----HHHHHHHHHHhCCCEEEEEE--EEEEEEECHHHHHHHHcCCH
Confidence            4556677777632  47999999999999 887    99999999999999987632  36789999999854 45565

>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=81.91  E-value=1.6  Score=28.86  Aligned_cols=34  Identities=26%  Similarity=0.322  Sum_probs=31.9

Q ss_pred             CCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           55 ELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        55 ~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      ++|-++||..+|+ ...    .+.|+|+.|...|+++..
T Consensus        28 ~lt~~~iA~~~g~-sr~----tv~r~l~~l~~~g~I~~~   61 (76)
T PF13545_consen   28 PLTQEEIADMLGV-SRE----TVSRILKRLKDEGIIEVK   61 (76)
T ss_dssp             ESSHHHHHHHHTS-CHH----HHHHHHHHHHHTTSEEEE
T ss_pred             cCCHHHHHHHHCC-CHH----HHHHHHHHHHHCCCEEEc
Confidence            6899999999999 887    899999999999999985

...

>TIGR01177 conserved hypothetical protein TIGR01177

Probab=81.89  E-value=2.3  Score=36.86  Aligned_cols=30  Identities=20%  Similarity=0.191  Sum_probs=22.6

Q ss_pred             HHHHhcCCCCCCCeEEEecCCccHHHHHHHh
Q 036971          186 KIVESYKGFQNITRLVDVGGGLGITLSDHNF  216 (221)
Q Consensus       186 ~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~  216 (221)
                      .++.... +....+|+|+|||+|.++.+.+.
T Consensus       173 ~~~~l~~-~~~g~~vLDp~cGtG~~lieaa~  202 (329)
T TIGR01177       173 AMVNLAR-VTEGDRVLDPFCGTGGFLIEAGL  202 (329)
T ss_pred             HHHHHhC-CCCcCEEEECCCCCCHHHHHHHH
Confidence            3444445 66678999999999999887654

This family is found exclusively in the Archaea.

>PRK11727 23S rRNA mA1618 methyltransferase; Provisional

Probab=81.70  E-value=1.6  Score=37.97  Aligned_cols=25  Identities=16%  Similarity=0.147  Sum_probs=20.0

Q ss_pred             CCCeEEEecCCccHHHHHHHhhCCC
Q 036971          196 NITRLVDVGGGLGITLSDHNFQIPS  220 (221)
Q Consensus       196 ~~~~vvDVGGG~G~~~~~l~~~~P~  220 (221)
                      ...++||||+|.|....-++.+.|+
T Consensus       114 ~~~~vLDIGtGag~I~~lLa~~~~~  138 (321)
T PRK11727        114 ANVRVLDIGVGANCIYPLIGVHEYG  138 (321)
T ss_pred             CCceEEEecCCccHHHHHHHhhCCC
Confidence            4579999999999887777776664

>PTZ00146 fibrillarin; Provisional

Probab=81.70  E-value=1.4  Score=37.72  Aligned_cols=25  Identities=16%  Similarity=0.244  Sum_probs=21.4

Q ss_pred             CCCCCeEEEecCCccHHHHHHHhhC
Q 036971          194 FQNITRLVDVGGGLGITLSDHNFQI  218 (221)
Q Consensus       194 ~~~~~~vvDVGGG~G~~~~~l~~~~  218 (221)
                      +....+|||+|||+|.++..++...
T Consensus       130 IkpG~~VLDLGaG~G~~t~~lAdiV  154 (293)
T PTZ00146        130 IKPGSKVLYLGAASGTTVSHVSDLV  154 (293)
T ss_pred             cCCCCEEEEeCCcCCHHHHHHHHHh
Confidence            5566799999999999999988764

>PF05732 RepL: Firmicute plasmid replication protein (RepL); InterPro: IPR008813 This entry consists of proteins thought to be involved in plasmid replication

Probab=81.41  E-value=1.9  Score=33.79  Aligned_cols=45  Identities=20%  Similarity=0.174  Sum_probs=39.4

Q ss_pred             CCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceecccccc
Q 036971           56 LSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPVAK  109 (221)
Q Consensus        56 ~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~~s~  109 (221)
                      +|.++||+.+++ ...    -+.|.+..|...+++.+.    ..|.|..+|--.
T Consensus        76 ~t~~~ia~~l~i-S~~----Tv~r~ik~L~e~~iI~k~----~~G~Y~iNP~~~  120 (165)
T PF05732_consen   76 ATQKEIAEKLGI-SKP----TVSRAIKELEEKNIIKKI----RNGAYMINPNFF  120 (165)
T ss_pred             eeHHHHHHHhCC-CHH----HHHHHHHHHHhCCcEEEc----cCCeEEECcHHh
Confidence            789999999999 776    899999999999999997    578888888543

; GO: 0006260 DNA replication, 0006276 plasmid maintenance

>PRK11886 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional

Probab=80.86  E-value=2.7  Score=36.28  Aligned_cols=56  Identities=14%  Similarity=0.186  Sum_probs=42.8

Q ss_pred             hChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceecccc
Q 036971           41 LDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPV  107 (221)
Q Consensus        41 lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~~  107 (221)
                      ..|.+.|.+.   ...+..+||+++++ ...    .+.+.++.|...|++....   .+..|.+.+-
T Consensus         7 ~~il~~L~~~---~~~s~~~LA~~lgv-sr~----tV~~~l~~L~~~G~~i~~~---~~~Gy~L~~~   62 (319)
T PRK11886          7 LQLLSLLADG---DFHSGEQLGEELGI-SRA----AIWKHIQTLEEWGLDIFSV---KGKGYRLAEP   62 (319)
T ss_pred             HHHHHHHHcC---CCcCHHHHHHHHCC-CHH----HHHHHHHHHHHCCCceEEe---cCCeEEecCc
Confidence            4566777764   58999999999999 887    9999999999999955431   2345776544

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

Probab=80.76  E-value=4  Score=34.39  Aligned_cols=23  Identities=22%  Similarity=0.218  Sum_probs=20.1

Q ss_pred             CCeEEEecCCccHHHHHHHhhCC
Q 036971          197 ITRLVDVGGGLGITLSDHNFQIP  219 (221)
Q Consensus       197 ~~~vvDVGGG~G~~~~~l~~~~P  219 (221)
                      .-++|||+||+|-.+..|++.-+
T Consensus       101 ~m~~lDvaGGTGDiaFril~~v~  123 (296)
T KOG1540|consen  101 GMKVLDVAGGTGDIAFRILRHVK  123 (296)
T ss_pred             CCeEEEecCCcchhHHHHHHhhc
Confidence            47999999999999999988654

>PF00165 HTH_AraC: Bacterial regulatory helix-turn-helix proteins, AraC family; PDB: 1WPK_A 1ZGW_A 1U8B_A

Probab=80.48  E-value=0.92  Score=26.59  Aligned_cols=28  Identities=21%  Similarity=0.321  Sum_probs=21.1

Q ss_pred             CCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhc
Q 036971           54 AELSASEIASQIPTKNPEGAAKMLDRVLGLLVS   86 (221)
Q Consensus        54 ~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~   86 (221)
                      .+.++++||..+|+ ++.    .+.|+.+....
T Consensus         7 ~~~~l~~iA~~~g~-S~~----~f~r~Fk~~~g   34 (42)
T PF00165_consen    7 QKLTLEDIAEQAGF-SPS----YFSRLFKKETG   34 (42)
T ss_dssp             SS--HHHHHHHHTS--HH----HHHHHHHHHTS
T ss_pred             CCCCHHHHHHHHCC-CHH----HHHHHHHHHHC
Confidence            37999999999999 887    99998876544

>TIGR00417 speE spermidine synthase

Probab=80.23  E-value=1.7  Score=36.60  Aligned_cols=24  Identities=25%  Similarity=0.289  Sum_probs=20.1

Q ss_pred             CCCCeEEEecCCccHHHHHHHhhC
Q 036971          195 QNITRLVDVGGGLGITLSDHNFQI  218 (221)
Q Consensus       195 ~~~~~vvDVGGG~G~~~~~l~~~~  218 (221)
                      ++.++|++||||.|..+.++++..
T Consensus        71 ~~p~~VL~iG~G~G~~~~~ll~~~   94 (270)
T TIGR00417        71 PNPKHVLVIGGGDGGVLREVLKHK   94 (270)
T ss_pred             CCCCEEEEEcCCchHHHHHHHhCC
Confidence            345799999999999999887654

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.

>PRK14902 16S rRNA methyltransferase B; Provisional

Probab=80.23  E-value=2.1  Score=38.72  Aligned_cols=31  Identities=6%  Similarity=0.007  Sum_probs=24.1

Q ss_pred             HHHhcCCCCCCCeEEEecCCccHHHHHHHhhC
Q 036971          187 IVESYKGFQNITRLVDVGGGLGITLSDHNFQI  218 (221)
Q Consensus       187 ~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~  218 (221)
                      +...++ .....+|+|+|||+|..+..+++..
T Consensus       242 v~~~l~-~~~g~~VLDlgaG~G~~t~~la~~~  272 (444)
T PRK14902        242 VAPALD-PKGGDTVLDACAAPGGKTTHIAELL  272 (444)
T ss_pred             HHHHhC-CCCCCEEEEeCCCCCHHHHHHHHHh
Confidence            334444 4556799999999999999998875

>PRK03612 spermidine synthase; Provisional

Probab=80.16  E-value=1.7  Score=40.23  Aligned_cols=24  Identities=29%  Similarity=0.492  Sum_probs=20.6

Q ss_pred             CCCCeEEEecCCccHHHHHHHhhCC
Q 036971          195 QNITRLVDVGGGLGITLSDHNFQIP  219 (221)
Q Consensus       195 ~~~~~vvDVGGG~G~~~~~l~~~~P  219 (221)
                      ++.++|+|||||.|..+.++++ +|
T Consensus       296 ~~~~rVL~IG~G~G~~~~~ll~-~~  319 (521)
T PRK03612        296 ARPRRVLVLGGGDGLALREVLK-YP  319 (521)
T ss_pred             CCCCeEEEEcCCccHHHHHHHh-CC
Confidence            3568999999999999999986 44

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

Probab=80.08  E-value=1.8  Score=38.28  Aligned_cols=21  Identities=19%  Similarity=0.031  Sum_probs=18.3

Q ss_pred             CCeEEEecCCccHHHHHHHhh
Q 036971          197 ITRLVDVGGGLGITLSDHNFQ  217 (221)
Q Consensus       197 ~~~vvDVGGG~G~~~~~l~~~  217 (221)
                      ..+|+|++||.|.++..++..
T Consensus       234 ~~~vLDL~cG~G~~~l~la~~  254 (374)
T TIGR02085       234 VTQMWDLFCGVGGFGLHCAGP  254 (374)
T ss_pred             CCEEEEccCCccHHHHHHhhc
Confidence            368999999999999988754

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.

>PRK03522 rumB 23S rRNA methyluridine methyltransferase; Reviewed

Probab=80.03  E-value=1.8  Score=37.23  Aligned_cols=22  Identities=14%  Similarity=-0.145  Sum_probs=19.2

Q ss_pred             CCeEEEecCCccHHHHHHHhhC
Q 036971          197 ITRLVDVGGGLGITLSDHNFQI  218 (221)
Q Consensus       197 ~~~vvDVGGG~G~~~~~l~~~~  218 (221)
                      ..+|+|+|||.|.++..+++..
T Consensus       174 ~~~VLDl~cG~G~~sl~la~~~  195 (315)
T PRK03522        174 PRSMWDLFCGVGGFGLHCATPG  195 (315)
T ss_pred             CCEEEEccCCCCHHHHHHHhcC
Confidence            4799999999999999988743

>PRK11642 exoribonuclease R; Provisional

Probab=80.01  E-value=3.9  Score=40.06  Aligned_cols=58  Identities=21%  Similarity=0.216  Sum_probs=44.2

Q ss_pred             ChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceeccc
Q 036971           42 DVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAP  106 (221)
Q Consensus        42 glfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~  106 (221)
                      .|.+.|...+  .+++..+|++.+++ +.......|.+.|+.|...|.+.+.    ..+.|.+..
T Consensus        23 ~Il~~l~~~~--~~~~~~~L~~~l~l-~~~~~~~~l~~~L~~L~~~g~l~~~----~~~~~~~~~   80 (813)
T PRK11642         23 FILEHLTKRE--KPASREELAVELNI-EGEEQLEALRRRLRAMERDGQLVFT----RRQCYALPE   80 (813)
T ss_pred             HHHHHHHhcC--CCCCHHHHHHHhCC-CChHHHHHHHHHHHHHHHCCCEEEc----CCceEecCC
Confidence            3666776644  69999999999999 6532334699999999999999986    466676553

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	221
1kyw_A	365	Crystal Structure Analysis Of Caffeic Acid5-Hydroxy		2e-50
3reo_A	368	Monolignol O-Methyltransferase (Momt) Length = 368		2e-47
3p9c_A	364	Crystal Structure Of Perennial Ryegrass Lpomt1 Boun		1e-38
1fp1_D	372	Crystal Structure Analysis Of Chalcone O-Methyltran		1e-25
1fpq_A	372	Crystal Structure Analysis Of Selenomethionine Subs		2e-18
1fp2_A	352	Crystal Structure Analysis Of Isoflavone O-Methyltr		1e-06
1fpx_A	352	Crystal Structure Analysis Of Selenomethionine Subs		8e-06
2qyo_A	357	Crystal Structure Of Isoflavone O-Methyltransferase		1e-05
3gwz_A	369	Structure Of The Mitomycin 7-O-Methyltransferase Mm		6e-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 =  195 bits (495), Expect = 2e-50,   Method: Compositional matrix adjust.
 Identities = 103/217 (47%), Positives = 144/217 (66%), Gaps = 6/217 (2%)
Query: 1   MGSSTESKSKVTN-EEEEVYSHAMVLGSAIVLPAVFQAVVNLDVLDIINKAGPGAELSAS 59
           MGS+ E++   T+  +EE    AM L SA VLP + ++ + LD+L+II KAGPGA++S  
Sbjct: 1   MGSTGETQITPTHISDEEANLFAMQLASASVLPMILKSALELDLLEIIAKAGPGAQISPI 60
Query: 60  EIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHG----VRLYSLAPVAKYYVSDQ 115
           EIASQ+PT NP+ A  MLDR+L LL  + IL CS  T       RLY LA VAKY V ++
Sbjct: 61  EIASQLPTTNPD-APVMLDRMLRLLACYIILTCSVRTQQDGKVQRLYGLATVAKYLVKNE 119
Query: 116 NGVSMRPYMNLSLDKVMMPGWFQLKDQILEGELSYNKALGMDFYDYLGTDSRFNEVFNNG 175
           +GVS+     ++ DKV+M  W+ LKD +L+G + +NKA GM  ++Y GTD RFN+VFN G
Sbjct: 120 DGVSISALNLMNQDKVLMESWYHLKDAVLDGGIPFNKAYGMTAFEYHGTDPRFNKVFNKG 179
Query: 176 MIGQTSFVINKIVESYKGFQNITRLVDVGGGLGITLS 212
           M   ++  + KI+E+Y GF+ +  LVDVGGG G  ++
Sbjct: 180 MSDHSTITMKKILETYTGFEGLKSLVDVGGGTGAVIN 216

>pdb|3REO|A Chain A, Monolignol O-Methyltransferase (Momt) Length = 368

Iteration: 1
 Score =  185 bits (469), Expect = 2e-47,   Method: Compositional matrix adjust.
 Identities = 99/220 (45%), Positives = 142/220 (64%), Gaps = 9/220 (4%)
Query: 1   MGSSTESKSKVT---NEEEEVYSHAMVLGSAIVLPAVFQAVVNLDVLDIINKA-GPGAEL 56
           MGS+  ++ ++    + +EE    AM L SA VLP   +A + LDVL+I+ K+  P   +
Sbjct: 1   MGSTGNAEIQIIPTHSSDEEANLFAMQLASAAVLPMALKAAIELDVLEIMAKSVPPSGYI 60
Query: 57  SASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSF----STHGVRLYSLAPVAKYYV 112
           S +EIA+Q+PT NPE A  MLDRVL LL S++++  +     S    RLY LAPV K+  
Sbjct: 61  SPAEIAAQLPTTNPE-APVMLDRVLRLLASYSVVTYTLRELPSGKVERLYGLAPVCKFLT 119
Query: 113 SDQNGVSMRPYMNLSLDKVMMPGWFQLKDQILEGELSYNKALGMDFYDYLGTDSRFNEVF 172
            +++GVS+ P++ L+ DKV++  WF LKD ILEG + +NKA GM+ +DY GTD R N+VF
Sbjct: 120 KNEDGVSLAPFLLLATDKVLLEPWFYLKDAILEGGIPFNKAYGMNIFDYHGTDHRINKVF 179
Query: 173 NNGMIGQTSFVINKIVESYKGFQNITRLVDVGGGLGITLS 212
           N GM   ++  + KI+E Y GF+ +T +VDVGGG G   S
Sbjct: 180 NKGMSSNSTITMKKILEMYNGFEGLTTIVDVGGGTGAVAS 219

>pdb|3P9C|A Chain A, Crystal Structure Of Perennial Ryegrass Lpomt1 Bound To Sah Length = 364

Iteration: 1
 Score =  156 bits (394), Expect = 1e-38,   Method: Compositional matrix adjust.
 Identities = 84/217 (38%), Positives = 132/217 (60%), Gaps = 9/217 (4%)
Query: 1   MGSSTESKSKVTNEEEEVYSHAMVLGSAIVLPAVFQAVVNLDVLDIINKAGPGAELSASE 60
           MGS+    +   +E+  ++  A+ L S+ VLP   +  + L +L+I+  AG G  L+ +E
Sbjct: 5   MGSTAADMAASADEDACMF--ALQLASSSVLPMTLKNAIELGLLEILVAAG-GKSLTPTE 61
Query: 61  IASQIPTK-NPEGAAKMLDRVLGLLVSFNILCCSFSTHG----VRLYSLAPVAKYYVSDQ 115
           +A+++P+  NPE A  M+DR+L LL S+N++ C           R Y  APV K+   ++
Sbjct: 62  VAAKLPSAANPE-APDMVDRILRLLASYNVVTCLVEEGKDGRLSRSYGAAPVCKFLTPNE 120
Query: 116 NGVSMRPYMNLSLDKVMMPGWFQLKDQILEGELSYNKALGMDFYDYLGTDSRFNEVFNNG 175
           +GVSM     ++ DKV+M  W+ LKD +L+G + +NKA GM  ++Y GTD RFN VFN G
Sbjct: 121 DGVSMAALALMNQDKVLMESWYYLKDAVLDGGIPFNKAYGMSAFEYHGTDPRFNRVFNEG 180
Query: 176 MIGQTSFVINKIVESYKGFQNITRLVDVGGGLGITLS 212
           M   +  +  K++E Y GF+ +  LVDVGGG+G T++
Sbjct: 181 MKNHSIIITKKLLELYHGFEGLGTLVDVGGGVGATVA 217

>pdb|1FP1|D Chain D, Crystal Structure Analysis Of Chalcone O-Methyltransferase Length = 372

Iteration: 1
 Score =  113 bits (282), Expect = 1e-25,   Method: Compositional matrix adjust.
 Identities = 66/204 (32%), Positives = 112/204 (54%), Gaps = 7/204 (3%)
Query: 15  EEEVYSHAMVLGSAIVLPAVFQAVVNLDVLDIINKAGP-GAELSASEIASQIPTKNPEG- 72
           E+     AMVL + +V PAV  A ++L++ +II KA P GA +S SEIAS++P       
Sbjct: 21  EDSACLSAMVLTTNLVYPAVLNAAIDLNLFEIIAKATPPGAFMSPSEIASKLPASTQHSD 80
Query: 73  AAKMLDRVLGLLVSFNILCCSFST----HGVRLYSLAPVAKYYVSDQNGVSMRPYMNLSL 128
               LDR+L LL S+++L  +  T       R+Y L+ V KY V D++   +  +     
Sbjct: 81  LPNRLDRMLRLLASYSVLTSTTRTIEDGGAERVYGLSMVGKYLVPDESRGYLASFTTFLC 140
Query: 129 DKVMMPGWFQLKDQILEGELS-YNKALGMDFYDYLGTDSRFNEVFNNGMIGQTSFVINKI 187
              ++  W   K+ +++ ++  +    G+  Y+++G D + N++FN  M+   +  + ++
Sbjct: 141 YPALLQVWMNFKEAVVDEDIDLFKNVHGVTKYEFMGKDKKMNQIFNKSMVDVCATEMKRM 200
Query: 188 VESYKGFQNITRLVDVGGGLGITL 211
           +E Y GF+ I+ LVDVGGG G  L
Sbjct: 201 LEIYTGFEGISTLVDVGGGSGRNL 224

>pdb|1FPQ|A Chain A, Crystal Structure Analysis Of Selenomethionine Substituted Chalcone O- Methyltransferase Length = 372

Iteration: 1
 Score = 89.0 bits (219), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 64/204 (31%), Positives = 105/204 (51%), Gaps = 7/204 (3%)
Query: 15  EEEVYSHAMVLGSAIVLPAVFQAVVNLDVLDIINKAGP-GAELSASEIASQIPTKNPEGA 73
           E+     A VL + +V PAV  A ++L++ +II KA P GA  S SEIAS++P       
Sbjct: 21  EDSACLSAXVLTTNLVYPAVLNAAIDLNLFEIIAKATPPGAFXSPSEIASKLPASTQHSD 80
Query: 74  -AKMLDRVLGLLVSFNILCCSFST----HGVRLYSLAPVAKYYVSDQNGVSMRPYMNLSL 128
               LDR L LL S+++L  +  T       R+Y L+ V KY V D++   +  +     
Sbjct: 81  LPNRLDRXLRLLASYSVLTSTTRTIEDGGAERVYGLSXVGKYLVPDESRGYLASFTTFLC 140
Query: 129 DKVMMPGWFQLKDQILEGELS-YNKALGMDFYDYLGTDSRFNEVFNNGMIGQTSFVINKI 187
              ++  W   K+ +++ ++  +    G+  Y++ G D + N++FN   +   +    + 
Sbjct: 141 YPALLQVWXNFKEAVVDEDIDLFKNVHGVTKYEFXGKDKKXNQIFNKSXVDVCATEXKRX 200
Query: 188 VESYKGFQNITRLVDVGGGLGITL 211
           +E Y GF+ I+ LVDVGGG G  L
Sbjct: 201 LEIYTGFEGISTLVDVGGGSGRNL 224

>pdb|1FP2|A Chain A, Crystal Structure Analysis Of Isoflavone O-Methyltransferase Length = 352

Iteration: 1
 Score = 49.7 bits (117), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 51/213 (23%), Positives = 91/213 (42%), Gaps = 14/213 (6%)
Query: 1   MGSSTESK--SKVTNEEEEVYSHAMVLGSAIVLPAVFQAVVNLDVLDIINKAGPGAELSA 58
           M SS   +  S++   +  +Y H      ++ L    +  V +++ +II   G    LS 
Sbjct: 1   MASSINGRKPSEIFKAQALLYKHIYAFIDSMSL----KWAVEMNIPNIIQNHGKPISLSN 56
Query: 59  SEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPVAKYYVSDQNGV 118
                Q+P+    G  + L R L     F I+     T     Y+L   ++  V   + +
Sbjct: 57  LVSILQVPSSKI-GNVRRLMRYLAHNGFFEII-----TKEEESYALTVASELLVRGSD-L 109
Query: 119 SMRPYMNLSLDKVMMPGWFQLKDQILEGELS-YNKALGMDFYDYLGTDSRFNEVFNNGMI 177
            + P +   LD  +   + +LK  I E +L+ +   LG  F+D+L  +  +N  FN+ M 
Sbjct: 110 CLAPMVECVLDPTLSGSYHELKKWIYEEDLTLFGVTLGSGFWDFLDKNPEYNTSFNDAMA 169
Query: 178 GQTSFVINKIVESYKGFQNITRLVDVGGGLGIT 210
             +  +   + +    F  +  +VDVGGG G T
Sbjct: 170 SDSKLINLALRDCDFVFDGLESIVDVGGGTGTT 202

>pdb|1FPX|A Chain A, Crystal Structure Analysis Of Selenomethionine Substituted Isoflavone O-Methyltransferase Length = 352

Iteration: 1
 Score = 47.0 bits (110), Expect = 8e-06,   Method: Compositional matrix adjust.
 Identities = 43/177 (24%), Positives = 75/177 (42%), Gaps = 8/177 (4%)
Query: 35  FQAVVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSF 94
            +  V  ++ +II   G    LS      Q+P+    G  + L R L     F I+    
Sbjct: 33  LKWAVEXNIPNIIQNHGKPISLSNLVSILQVPSSKI-GNVRRLXRYLAHNGFFEII---- 87
Query: 95  STHGVRLYSLAPVAKYYVSDQNGVSMRPYMNLSLDKVMMPGWFQLKDQILEGELS-YNKA 153
            T     Y+L   ++  V   + + + P +   LD  +   + +LK  I E +L+ +   
Sbjct: 88  -TKEEESYALTVASELLVRGSD-LCLAPXVECVLDPTLSGSYHELKKWIYEEDLTLFGVT 145
Query: 154 LGMDFYDYLGTDSRFNEVFNNGMIGQTSFVINKIVESYKGFQNITRLVDVGGGLGIT 210
           LG  F+D+L  +  +N  FN+     +  +   + +    F  +  +VDVGGG G T
Sbjct: 146 LGSGFWDFLDKNPEYNTSFNDAXASDSKLINLALRDCDFVFDGLESIVDVGGGTGTT 202

>pdb|2QYO|A Chain A, Crystal Structure Of Isoflavone O-Methyltransferase Homolog In Complex With Biochanin A And Sah Length = 357

Iteration: 1
 Score = 46.2 bits (108), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 38/173 (21%), Positives = 78/173 (45%), Gaps = 3/173 (1%)
Query: 39  VNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHG 98
           + +++ +II+  G    LS      QIP+   +   +++ R L     F I+      + 
Sbjct: 37  IEMNIPNIIHNHGKPITLSNLVSILQIPSTKVDNVQRLM-RYLAHNGFFEIITNQELENE 95
Query: 99  VRLYSLAPVAKYYVSDQNGVSMRPYMNLSLDKVMMPGWFQLKDQILEGELS-YNKALGMD 157
              Y+L  VA   +     + + P +   LD  +   +  LK  + E +L+ +   LG D
Sbjct: 96  EEAYALT-VASELLVKGTELCLAPMVECVLDPTLSTSFHNLKKWVYEEDLTLFAVNLGCD 154
Query: 158 FYDYLGTDSRFNEVFNNGMIGQTSFVINKIVESYKGFQNITRLVDVGGGLGIT 210
            +++L  +  +N ++N+ +   +  +   + +    F+ +  +VDVGGG G T
Sbjct: 155 LWEFLNKNPEYNTLYNDALASDSKMINLAMKDCNLVFEGLESIVDVGGGNGTT 207

>pdb|3GWZ|A Chain A, Structure Of The Mitomycin 7-O-Methyltransferase Mmcr Length = 369

Iteration: 1
 Score = 40.8 bits (94), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 23/73 (31%), Positives = 31/73 (42%), Gaps = 1/73 (1%)
Query: 136 WFQLKDQILEGELSYNKALGMDFYDYLGTDSRFNEVFNNGMIGQTSFVINKIVESYKGFQ 195
           W QL   +  GE S++ A G  F+     D +  E+FN    G  S      V +   F 
Sbjct: 143 WEQLTHSVRTGEASFDVANGTSFWQLTHEDPKARELFNRAX-GSVSLTEAGQVAAAYDFS 201
Query: 196 NITRLVDVGGGLG 208
                VD+GGG G
Sbjct: 202 GAATAVDIGGGRG 214

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	221
3reo_A	368	(ISO)eugenol O-methyltransferase; directed evoluti	1e-61
3p9c_A	364	Caffeic acid O-methyltransferase; S-adenosylmethio	2e-59
1fp1_D	372	Isoliquiritigenin 2'-O-methyltransferase; protein-	2e-56
1fp2_A	352	Isoflavone O-methyltransferase; protein-product co	3e-51
1zg3_A	358	Isoflavanone 4'-O-methyltransferase; rossman fold,	3e-48
3gwz_A	369	MMCR; methyltransferase, mitomycin, S-adenosyl met	1e-46
3lst_A	348	CALO1 methyltransferase; calicheamicin, enediyne,	3e-46
1qzz_A	374	RDMB, aclacinomycin-10-hydroxylase; anthracycline,	6e-45
1tw3_A	360	COMT, carminomycin 4-O-methyltransferase; anthracy	2e-44
3i53_A	332	O-methyltransferase; CO-complex, rossmann-like fol	4e-44
2ip2_A	334	Probable phenazine-specific methyltransferase; pyo	6e-40
3dp7_A	363	SAM-dependent methyltransferase; structural genomi	8e-32
2r3s_A	335	Uncharacterized protein; methyltransferase domain,	7e-30
1x19_A	359	CRTF-related protein; methyltransferase, bacterioc	8e-29
3mcz_A	352	O-methyltransferase; adomet_mtases, S-adenosylmeth	1e-27

>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 =  195 bits (498), Expect = 1e-61
 Identities = 98/220 (44%), Positives = 141/220 (64%), Gaps = 9/220 (4%)

Query: 1   MGSSTESKSKVT---NEEEEVYSHAMVLGSAIVLPAVFQAVVNLDVLDIINKAG-PGAEL 56
           MGS+  ++ ++    + +EE    AM L SA VLP   +A + LDVL+I+ K+  P   +
Sbjct: 1   MGSTGNAEIQIIPTHSSDEEANLFAMQLASAAVLPMALKAAIELDVLEIMAKSVPPSGYI 60

Query: 57  SASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFST----HGVRLYSLAPVAKYYV 112
           S +EIA+Q+PT NPE A  MLDRVL LL S++++  +          RLY LAPV K+  
Sbjct: 61  SPAEIAAQLPTTNPE-APVMLDRVLRLLASYSVVTYTLRELPSGKVERLYGLAPVCKFLT 119

Query: 113 SDQNGVSMRPYMNLSLDKVMMPGWFQLKDQILEGELSYNKALGMDFYDYLGTDSRFNEVF 172
            +++GVS+ P++ L+ DKV++  WF LKD ILEG + +NKA GM+ +DY GTD R N+VF
Sbjct: 120 KNEDGVSLAPFLLLATDKVLLEPWFYLKDAILEGGIPFNKAYGMNIFDYHGTDHRINKVF 179

Query: 173 NNGMIGQTSFVINKIVESYKGFQNITRLVDVGGGLGITLS 212
           N GM   ++  + KI+E Y GF+ +T +VDVGGG G   S
Sbjct: 180 NKGMSSNSTITMKKILEMYNGFEGLTTIVDVGGGTGAVAS 219

>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 =  189 bits (482), Expect = 2e-59
 Identities = 81/216 (37%), Positives = 128/216 (59%), Gaps = 7/216 (3%)

Query: 1   MGSSTESKSKVTNEEEEVYSHAMVLGSAIVLPAVFQAVVNLDVLDIINKAGPGAELSASE 60
           MGS+    +   + +E+    A+ L S+ VLP   +  + L +L+I+  AG G  L+ +E
Sbjct: 5   MGSTAADMA--ASADEDACMFALQLASSSVLPMTLKNAIELGLLEILVAAG-GKSLTPTE 61

Query: 61  IASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFST----HGVRLYSLAPVAKYYVSDQN 116
           +A+++P+     A  M+DR+L LL S+N++ C           R Y  APV K+   +++
Sbjct: 62  VAAKLPSAANPEAPDMVDRILRLLASYNVVTCLVEEGKDGRLSRSYGAAPVCKFLTPNED 121

Query: 117 GVSMRPYMNLSLDKVMMPGWFQLKDQILEGELSYNKALGMDFYDYLGTDSRFNEVFNNGM 176
           GVSM     ++ DKV+M  W+ LKD +L+G + +NKA GM  ++Y GTD RFN VFN GM
Sbjct: 122 GVSMAALALMNQDKVLMESWYYLKDAVLDGGIPFNKAYGMSAFEYHGTDPRFNRVFNEGM 181

Query: 177 IGQTSFVINKIVESYKGFQNITRLVDVGGGLGITLS 212
              +  +  K++E Y GF+ +  LVDVGGG+G T++
Sbjct: 182 KNHSIIITKKLLELYHGFEGLGTLVDVGGGVGATVA 217

>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 =  182 bits (463), Expect = 2e-56
 Identities = 70/225 (31%), Positives = 119/225 (52%), Gaps = 13/225 (5%)

Query: 1   MGSSTESK------SKVTNEEEEVYSHAMVLGSAIVLPAVFQAVVNLDVLDIINKAG-PG 53
           MG+S  +K      +     E+     AMVL + +V PAV  A ++L++ +II KA  PG
Sbjct: 1   MGNSYITKEDNQISATSEQTEDSACLSAMVLTTNLVYPAVLNAAIDLNLFEIIAKATPPG 60

Query: 54  AELSASEIASQIPT-KNPEGAAKMLDRVLGLLVSFNILCCSFSTH----GVRLYSLAPVA 108
           A +S SEIAS++P           LDR+L LL S+++L  +  T       R+Y L+ V 
Sbjct: 61  AFMSPSEIASKLPASTQHSDLPNRLDRMLRLLASYSVLTSTTRTIEDGGAERVYGLSMVG 120

Query: 109 KYYVSDQNGVSMRPYMNLSLDKVMMPGWFQLKDQILEGELS-YNKALGMDFYDYLGTDSR 167
           KY V D++   +  +        ++  W   K+ +++ ++  +    G+  Y+++G D +
Sbjct: 121 KYLVPDESRGYLASFTTFLCYPALLQVWMNFKEAVVDEDIDLFKNVHGVTKYEFMGKDKK 180

Query: 168 FNEVFNNGMIGQTSFVINKIVESYKGFQNITRLVDVGGGLGITLS 212
            N++FN  M+   +  + +++E Y GF+ I+ LVDVGGG G  L 
Sbjct: 181 MNQIFNKSMVDVCATEMKRMLEIYTGFEGISTLVDVGGGSGRNLE 225

>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 =  168 bits (427), Expect = 3e-51
 Identities = 45/213 (21%), Positives = 83/213 (38%), Gaps = 10/213 (4%)

Query: 1   MGSSTESKSKVTNEEEEVYSHAMVLGSAIVLPAVFQAVVNLDVLDIINKAGPGAELSASE 60
           M SS   +    +E  +  +       A +     +  V +++ +II   G     S S 
Sbjct: 1   MASSINGRK--PSEIFKAQALLYKHIYAFIDSMSLKWAVEMNIPNIIQNHGKPI--SLSN 56

Query: 61  IASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPVAKYYVSDQNGVSM 120
           + S +    P      + R++  L           T     Y+L   ++  V   +   +
Sbjct: 57  LVSILQV--PSSKIGNVRRLMRYLAHNGFFEII--TKEEESYALTVASELLVRGSDL-CL 111

Query: 121 RPYMNLSLDKVMMPGWFQLKDQILEGELS-YNKALGMDFYDYLGTDSRFNEVFNNGMIGQ 179
            P +   LD  +   + +LK  I E +L+ +   LG  F+D+L  +  +N  FN+ M   
Sbjct: 112 APMVECVLDPTLSGSYHELKKWIYEEDLTLFGVTLGSGFWDFLDKNPEYNTSFNDAMASD 171

Query: 180 TSFVINKIVESYKGFQNITRLVDVGGGLGITLS 212
           +  +   + +    F  +  +VDVGGG G T  
Sbjct: 172 SKLINLALRDCDFVFDGLESIVDVGGGTGTTAK 204

>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 =  160 bits (407), Expect = 3e-48
 Identities = 48/213 (22%), Positives = 80/213 (37%), Gaps = 18/213 (8%)

Query: 13  NEEEEVY---SHAMVLGSAIVLPAVFQAVVNLDVLDIINKAGPGAELSASEIASQIPTKN 69
           +EE E+Y    H        V     ++ + L + D I+  G     + SE+AS +    
Sbjct: 2   SEESELYHAQIHLYKHVYNFVSSMALKSAMELGIADAIHNHGKPM--TLSELASSLKL-- 57

Query: 70  PEGAAKMLDRVLGLLVSFNILCCSFSTHGV------RLYSLAPVAKYYVSDQNGVSMRPY 123
                 +L R L LL        +              YSL P +K  +S +    +   
Sbjct: 58  HPSKVNILHRFLRLLTHNGFFAKTIVKGKEGDEEEEIAYSLTPPSKLLISGKPT-CLSSI 116

Query: 124 MNLSLDKVMMPGWFQLKDQILEGELS--YNKALGMDFYDYLGTDSRFN--EVFNNGMIGQ 179
           +  +L    +  W   K    E +    +  A G  F+D+L  DS  +   +F + M   
Sbjct: 117 VKGALHPSSLDMWSSSKKWFNEDKEQTLFECATGESFWDFLNKDSESSTLSMFQDAMASD 176

Query: 180 TSFVINKIVESYKGFQNITRLVDVGGGLGITLS 212
           +      + E+ + F+ +  LVDVGGG G    
Sbjct: 177 SRMFKLVLQENKRVFEGLESLVDVGGGTGGVTK 209

>3gwz_A MMCR; methyltransferase, mitomycin, S-adenosyl methionine, transferase; HET: MSE SAH; 1.91A {Streptomyces lavendulae} PDB: 3gxo_A* Length = 369

 Score =  157 bits (398), Expect = 1e-46
 Identities = 38/212 (17%), Positives = 71/212 (33%), Gaps = 14/212 (6%)

Query: 1   MGSSTESKSKVTNEEEEVYSHAMVLGSAIVLPAVFQAVVNLDVLDIINKAGPGAELSASE 60
           M      ++  T            +             V L V +++ + GP    +A+ 
Sbjct: 21  MTVEQTPENPGTAARAAAEETVNDILQGAWKARAIHVAVELGVPELL-QEGP---RTATA 76

Query: 61  IASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPVAKYYVSDQNGVSM 120
           +A            + L R+L LL +  +           L++   ++   + D     +
Sbjct: 77  LAEATGAH-----EQTLRRLLRLLATVGVFDDLGHD---DLFAQNALSAVLLPD-PASPV 127

Query: 121 RPYMNLSLDKVMMPGWFQLKDQILEGELSYNKALGMDFYDYLGTDSRFNEVFNNGMIGQT 180
                          W QL   +  GE S++ A G  F+     D +  E+FN  M   +
Sbjct: 128 ATDARFQAAPWHWRAWEQLTHSVRTGEASFDVANGTSFWQLTHEDPKARELFNRAMGSVS 187

Query: 181 SFVINKIVESYKGFQNITRLVDVGGGLGITLS 212
                ++  +Y  F      VD+GGG G  ++
Sbjct: 188 LTEAGQVAAAYD-FSGAATAVDIGGGRGSLMA 218

>3lst_A CALO1 methyltransferase; calicheamicin, enediyne, SAH, STRU genomics, PSI-2, protein structure initiative; HET: SAH; 2.40A {Micromonospora echinospora} Length = 348

 Score =  155 bits (394), Expect = 3e-46
 Identities = 37/212 (17%), Positives = 70/212 (33%), Gaps = 18/212 (8%)

Query: 3   SSTESKSKVTNEEEEVYSHA--MVLGSAIVLPAVFQAVVNLDVLDIINKAGPGAELSASE 60
                 S+   + + + S              A  +A   + V D +   GP    + +E
Sbjct: 5   QRQRPPSRAGGDMDRLQSALALYEEAMGYTYAAALRAAAAVGVADHL-VDGP---RTPAE 60

Query: 61  IASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPVAKYYVSDQNGVSM 120
           +A+   T      A  L RVL LL   +++           ++L        SD + V  
Sbjct: 61  LAAATGTD-----ADALRRVLRLLAVRDVV-----RESDGRFALTDKGAALRSD-SPVPA 109

Query: 121 RPYMNLSLDKVMMPGWFQLKDQILEGELSYNKALGMDFYDYLGTDSRFNEVFNNGMIGQT 180
           R  + +  D +      ++   +     ++    G     Y   D+    ++  GM   +
Sbjct: 110 RAGILMFTDTMFWTMSHRVASALGPERPAFADIFGSSLDAYFDGDAEVEALYYEGMETVS 169

Query: 181 SFVINKIVESYKGFQNITRLVDVGGGLGITLS 212
           +     +  +   F     + DVGGG G  L 
Sbjct: 170 AAEHLILARAG-DFPATGTVADVGGGRGGFLL 200

>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 =  152 bits (386), Expect = 6e-45
 Identities = 36/213 (16%), Positives = 73/213 (34%), Gaps = 16/213 (7%)

Query: 1   MGSSTESKSKVTNEEEEVYSHAMVLGSAIVLPAVFQAVVNLDVLDIINKAGPGAELSASE 60
           M SS+  +       ++     +     +V P   +    L ++D +  AG     + + 
Sbjct: 1   MSSSSPGEP--LEPTDQDLDVLLKNLGNLVTPMALRVAATLRLVDHL-LAGA---DTLAG 54

Query: 61  IASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPVAKYYVSDQNGVSM 120
           +A +  T       + L R++  L    +L         R      +             
Sbjct: 55  LADRTDT-----HPQALSRLVRHLTVVGVLEGG--EKQGRPLRPTRLGMLLADGHPA-QQ 106

Query: 121 RPYMNLSLD-KVMMPGWFQLKDQILEGELSYNKALGMDFYDYLGTDSRFNEVFNNGMIGQ 179
           R +++L+         +  L D +  G  +Y    G  F++ L  D    + F+  M   
Sbjct: 107 RAWLDLNGAVSHADLAFTGLLDVVRTGRPAYAGRYGRPFWEDLSADVALADSFDALMSCD 166

Query: 180 TSFVINKIVESYKGFQNITRLVDVGGGLGITLS 212
                    ++Y  +  +  ++DVGGG G  L+
Sbjct: 167 EDLAYEAPADAYD-WSAVRHVLDVGGGNGGMLA 198

>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 =  150 bits (382), Expect = 2e-44
 Identities = 37/211 (17%), Positives = 78/211 (36%), Gaps = 16/211 (7%)

Query: 3   SSTESKSKVTNEEEEVYSHAMVLGSAIVLPAVFQAVVNLDVLDIINKAGPGAELSASEIA 62
           +ST   +     ++      ++   ++  P V +    L ++D I  AG     +   +A
Sbjct: 4   NSTAEPTVAARPQQIDALRTLIRLGSLHTPMVVRTAATLRLVDHI-LAGA---RTVKALA 59

Query: 63  SQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPVAKYYVSDQNGVSMRP 122
           ++  T+      + L R++  LV+  +            +    V +    D    + R 
Sbjct: 60  ARTDTR-----PEALLRLIRHLVAIGL----LEEDAPGEFVPTEVGELLADDHPA-AQRA 109

Query: 123 YMNLSL-DKVMMPGWFQLKDQILEGELSYNKALGMDFYDYLGTDSRFNEVFNNGMIGQTS 181
           + +L+         + +L D I  G  +Y    G  FY+ L         F++ +     
Sbjct: 110 WHDLTQAVARADISFTRLPDAIRTGRPTYESIYGKPFYEDLAGRPDLRASFDSLLACDQD 169

Query: 182 FVINKIVESYKGFQNITRLVDVGGGLGITLS 212
              +    +Y  + N+  ++DVGGG G   +
Sbjct: 170 VAFDAPAAAY-DWTNVRHVLDVGGGKGGFAA 199

>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 =  149 bits (379), Expect = 4e-44
 Identities = 48/198 (24%), Positives = 79/198 (39%), Gaps = 16/198 (8%)

Query: 16  EEVYSHAMVLGSAIVLPAVFQAVVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAK 75
           +      +   + +  P   +    L V D I  AG     +A+EIAS          A 
Sbjct: 3   KRAAHIGLRALADLATPMAVRVAATLRVADHI-AAGH---RTAAEIASAAGAH-----AD 53

Query: 76  MLDRVLGLLVSFNILCCSFSTHGVRLYSLAPVAKYYVSDQNGVSMRPYMNLSLD-KVMMP 134
            LDR+L  LV+  +    F+  G  +Y L    +    D +    R +++++        
Sbjct: 54  SLDRLLRHLVAVGL----FTRDGQGVYGLTEFGEQLRDD-HAAGKRKWLDMNSAVGRGDL 108

Query: 135 GWFQLKDQILEGELSYNKALGMDFYDYLGTDSRFNEVFNNGMIGQTSFVINKIVESYKGF 194
           G+ +L   I  G+ +Y    G  F++ LG+D   +  F+  M          I   Y  +
Sbjct: 109 GFVELAHSIRTGQPAYPVRYGTSFWEDLGSDPVLSASFDTLMSHHLELDYTGIAAKYD-W 167

Query: 195 QNITRLVDVGGGLGITLS 212
             +  +VDVGGG G  LS
Sbjct: 168 AALGHVVDVGGGSGGLLS 185

>2ip2_A Probable phenazine-specific methyltransferase; pyocyanin, phenazine-1-carboxy PHZM; 1.80A {Pseudomonas aeruginosa} Length = 334

 Score =  138 bits (350), Expect = 6e-40
 Identities = 41/201 (20%), Positives = 71/201 (35%), Gaps = 19/201 (9%)

Query: 12  TNEEEEVYSHAMVLGSAIVLPAVFQAVVNLDVLDIINKAGPGAELSASEIASQIPTKNPE 71
            N       + + + +             L + D+I ++G     S   +A+ + +    
Sbjct: 2   NNSNLAAARNLIQVVTGEWKSRCVYVATRLGLADLI-ESGI---DSDETLAAAVGSD--- 54

Query: 72  GAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPVAKYYVSDQNGVSMRPYMNLSLDKV 131
             A+ + R++ LLV+F I    F       Y+  P +      +   S R  + L   + 
Sbjct: 55  --AERIHRLMRLLVAFEI----FQGDTRDGYANTPTSHLLRDVEG--SFRDMV-LFYGEE 105

Query: 132 MMPGWFQLKDQILEGELSYNKALGMDFYDYLGTDSRFNEVFNNGMIGQTSFVINKIVESY 191
               W    + +L G   +  A G DFY YL         F   M   ++   ++I    
Sbjct: 106 FHAAWTPACEALLSGTPGFELAFGEDFYSYLKRCPDAGRRFLLAM-KASNLAFHEIPRLL 164

Query: 192 KGFQNITRLVDVGGGLGITLS 212
             F+     VDVGGG G    
Sbjct: 165 -DFRG-RSFVDVGGGSGELTK 183

>3dp7_A SAM-dependent methyltransferase; structural genomics, protein structure initiative, NEW YORK structural genomix research; 2.33A {Bacteroides vulgatus} Length = 363

 Score =  117 bits (296), Expect = 8e-32
 Identities = 31/200 (15%), Positives = 58/200 (29%), Gaps = 18/200 (9%)

Query: 14  EEEEVYSHAMVLGSAIVLPAVFQAVVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGA 73
              E    A  +    V+  V + ++   +  +++    G   +  EI+ +         
Sbjct: 11  TAAEAQRLAQEIAFGPVVFQVSRLMLKFGIFQLLSGKREG--YTLQEISGRTGL-TRYA- 66

Query: 74  AKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPVAKYYVSDQNGVSMRPYMNLSLDKVMM 133
                 +L   ++   +           Y LA    + ++D     M          V  
Sbjct: 67  ---AQVLLEASLTIGTI-----LLEEDRYVLAKAGWFLLND----KMARVNMEFNHDVNY 114

Query: 134 PGWFQLKDQILEGELSYNKALGM--DFYDYLGTDSRFNEVFNNGMIGQTSFVINKIVESY 191
            G F L++ +L G     K  G     Y+ L       +    G     S          
Sbjct: 115 QGLFHLEEALLNGRPEGLKVFGEWPTIYEGLSQLPEQVQKSWFGFDHFYSDQSFGKALEI 174

Query: 192 KGFQNITRLVDVGGGLGITL 211
               +  RL+D+GG  G   
Sbjct: 175 VFSHHPKRLLDIGGNTGKWA 194

>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 =  112 bits (281), Expect = 7e-30
 Identities = 28/187 (14%), Positives = 65/187 (34%), Gaps = 19/187 (10%)

Query: 25  LGSAIVLPAVFQAVVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLL 84
             +A    A  +A V L+V   I++ G     S+  +A +  T +  G    +  +   L
Sbjct: 13  TVNAYQRSAAIKAAVELNVFTAISQ-GI---ESSQSLAQKCQT-SERG----MRMLCDYL 63

Query: 85  VSFNILCCSFSTHGVRLYSLAPVAKYYVSDQNGVSMRPYMNLSLDKVMMPGWFQLKDQIL 144
           V    +     T     Y L   +  ++  Q+   +   +   L  ++  G+  L   +L
Sbjct: 64  VIIGFM-----TKQAEGYRLTSDSAMFLDRQSKFYVGDAIEFLLSPMITNGFNDLTAAVL 118

Query: 145 EGELSYNKALGMDFYDYLGTDSRFNEVFNNGMIGQTSFVINKIVESYKGFQNITRLVDVG 204
           +G  + +    +          +F +  +  M      +   + E+        +++D+ 
Sbjct: 119 KGGTAISSEGTLSPEH--PVWVQFAKAMSPMMANPAQLIAQLVNENKIE---PLKVLDIS 173

Query: 205 GGLGITL 211
              G+  
Sbjct: 174 ASHGLFG 180

>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 =  109 bits (275), Expect = 8e-29
 Identities = 33/213 (15%), Positives = 63/213 (29%), Gaps = 26/213 (12%)

Query: 3   SSTESKSKVTNEEEEVYSHAMVL-GSAIVLPAVFQAVVNLDVLDIINKAGPGAELSASEI 61
               S     N+    Y  A  L    ++  +  +A + LD+   +   GP      + +
Sbjct: 15  VPRGSHMMSNNDLLNYYHRANELVFKGLIEFSCMKAAIELDLFSHM-AEGP---KDLATL 70

Query: 62  ASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPVAKYYVSDQNGVSMR 121
           A+   +         L+ +L  L    +     +    + +SL   A Y  S        
Sbjct: 71  AADTGS-----VPPRLEMLLETLRQMRV----INLEDGK-WSLTEFADYMFSP-TPKEPN 119

Query: 122 PYMNLSLDKV---MMPGWFQLKDQILEGELSYNKALGMDFYDYLGTDSRFNEVFNNGMIG 178
            +       +       +  L   +   +             Y       N  F      
Sbjct: 120 LHQTPVAKAMAFLADDFYMGLSQAVRGQKN------FKGQVPYPPVTREDNLYFEEIHRS 173

Query: 179 QTSFVINKIVESYKGFQNITRLVDVGGGLGITL 211
              F I  ++E  K    + +++DVGGG+G   
Sbjct: 174 NAKFAIQLLLEEAK-LDGVKKMIDVGGGIGDIS 205

>3mcz_A O-methyltransferase; adomet_mtases, S-adenosylmethionine-dependent methyltransfer structural genomics, PSI-2; HET: MSE; 1.90A {Burkholderia thailandensis} Length = 352

 Score =  106 bits (267), Expect = 1e-27
 Identities = 32/211 (15%), Positives = 73/211 (34%), Gaps = 25/211 (11%)

Query: 3   SSTESKSKVTNEEEEVYSHAMV--LGSAIVLPAVFQAVVNLDVLDIINKAGPGAELSASE 60
           S+ E+  + T ++  + S   +  L       A+    V   + D+          + +E
Sbjct: 7   SAVETIYESTEDKAALTSVVDLVKLSDQYRQSAILHYAVADKLFDLT--QTG---RTPAE 61

Query: 61  IASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPVAKYYVSDQNGVSM 120
           +A+                +L  L +  +L     T     +    + + Y++  +   +
Sbjct: 62  VAASFGM-VEGK----AAILLHALAALGLL-----TKEGDAFRNTALTERYLTTTSADYI 111

Query: 121 RPYMNLSLDKVMMPGWFQLKDQILEGELSYNKALGMDFYDYLGTDSRFNEVFNNGMIGQT 180
            P   +    +    W +L + +        K L          D+R  + FN+ M+  +
Sbjct: 112 GPI--VEHQYLQWDNWPRLGEILRSE-----KPLAFQQESRFAHDTRARDAFNDAMVRLS 164

Query: 181 SFVINKIVESYKGFQNITRLVDVGGGLGITL 211
             +++ + E    F     ++D+ GG G  L
Sbjct: 165 QPMVDVVSELG-VFARARTVIDLAGGHGTYL 194

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	221
3p9c_A	364	Caffeic acid O-methyltransferase; S-adenosylmethio	100.0
3reo_A	368	(ISO)eugenol O-methyltransferase; directed evoluti	100.0
1fp2_A	352	Isoflavone O-methyltransferase; protein-product co	100.0
4a6d_A	353	Hydroxyindole O-methyltransferase; melatonin, circ	100.0
3lst_A	348	CALO1 methyltransferase; calicheamicin, enediyne,	100.0
1zg3_A	358	Isoflavanone 4'-O-methyltransferase; rossman fold,	100.0
3gwz_A	369	MMCR; methyltransferase, mitomycin, S-adenosyl met	99.98
2ip2_A	334	Probable phenazine-specific methyltransferase; pyo	99.97
3i53_A	332	O-methyltransferase; CO-complex, rossmann-like fol	99.97
1fp1_D	372	Isoliquiritigenin 2'-O-methyltransferase; protein-	99.97
1qzz_A	374	RDMB, aclacinomycin-10-hydroxylase; anthracycline,	99.97
3dp7_A	363	SAM-dependent methyltransferase; structural genomi	99.96
1tw3_A	360	COMT, carminomycin 4-O-methyltransferase; anthracy	99.96
1x19_A	359	CRTF-related protein; methyltransferase, bacterioc	99.95
2r3s_A	335	Uncharacterized protein; methyltransferase domain,	99.95
3mcz_A	352	O-methyltransferase; adomet_mtases, S-adenosylmeth	99.94
2qm3_A	373	Predicted methyltransferase; putative methyltransf	98.22
2heo_A	67	Z-DNA binding protein 1; protein DLM1-Z-DNA comple	97.35
3b73_A	111	PHIH1 repressor-like protein; winged-helix-turn-he	97.23
1y0u_A	96	Arsenical resistance operon repressor, putative; s	97.17
1ve3_A	227	Hypothetical protein PH0226; dimer, riken structur	97.11
1qbj_A	81	Protein (double-stranded RNA specific adenosine D	97.08
3mq0_A	275	Transcriptional repressor of the blcabc operon; he	97.06
1qgp_A	77	Protein (double stranded RNA adenosine deaminase);	96.92
1mkm_A	249	ICLR transcriptional regulator; structural genomic	96.63
3pqk_A	102	Biofilm growth-associated repressor; helix-turn-he	96.59
2xrn_A	241	HTH-type transcriptional regulator TTGV; DNA-bindi	96.52
2oqg_A	114	Possible transcriptional regulator, ARSR family P;	96.47
2y75_A	129	HTH-type transcriptional regulator CYMR; DNA bindi	96.45
3r4k_A	260	Transcriptional regulator, ICLR family; DNA/RNA-bi	96.44
1u2w_A	122	CADC repressor, cadmium efflux system accessory pr	96.34
3jth_A	98	Transcription activator HLYU; transcription factor	96.28
3dli_A	240	Methyltransferase; PSI-II, NYSGXRC, structural gen	96.2
1xmk_A	79	Double-stranded RNA-specific adenosine deaminase;	96.17
3cuo_A	99	Uncharacterized HTH-type transcriptional regulato;	96.15
3dtn_A	234	Putative methyltransferase MM_2633; structural gen	96.13
3f6o_A	118	Probable transcriptional regulator, ARSR family pr	96.1
1r1u_A	106	CZRA, repressor protein; zinc, DNA binding, transc	96.08
2o0y_A	260	Transcriptional regulator; ICLR-family, structural	96.08
2g7u_A	257	Transcriptional regulator; ICLR family, structural	96.07
3t8r_A	143	Staphylococcus aureus CYMR; transcriptional regula	96.06
4a5n_A	131	Uncharacterized HTH-type transcriptional regulato;	96.05
3vc1_A	312	Geranyl diphosphate 2-C-methyltransferase; rossman	96.05
2jt1_A	77	PEFI protein; solution structure, winged helix-tur	96.02
2jsc_A	118	Transcriptional regulator RV1994C/MT2050; cadmium,	96.02
3e05_A	204	Precorrin-6Y C5,15-methyltransferase (decarboxyla;	96.01
3lwf_A	159	LIN1550 protein, putative transcriptional regulato	95.95
2hzt_A	107	Putative HTH-type transcriptional regulator YTCD;	95.88
1oyi_A	82	Double-stranded RNA-binding protein; (alpha+beta)	95.85
1jg1_A	235	PIMT;, protein-L-isoaspartate O-methyltransferase;	95.84
1xn7_A	78	Hypothetical protein YHGG; alpha+beta, GFT structu	95.84
1on2_A	142	Transcriptional regulator MNTR; helix-turn-helix,	95.84
3dlc_A	219	Putative S-adenosyl-L-methionine-dependent methylt	95.82
2htj_A	81	P fimbrial regulatory protein KS71A; winged helix-	95.8
2ia2_A	265	Putative transcriptional regulator; SAD, PSI-2, st	95.79
2kko_A	108	Possible transcriptional regulatory protein (possi	95.78
4gek_A	261	TRNA (CMO5U34)-methyltransferase; structural genom	95.77
3fzg_A	200	16S rRNA methylase; methyltransferase, plasmid, tr	95.75
3hem_A	302	Cyclopropane-fatty-acyl-phospholipid synthase 2; p	95.75
1r7j_A	95	Conserved hypothetical protein SSO10A; winged heli	95.75
2k02_A	87	Ferrous iron transport protein C; FEOC, iron-sulfu	95.75
1vl5_A	260	Unknown conserved protein BH2331; putative methylt	95.74
3bus_A	273	REBM, methyltransferase; rebeccamycin synthesis; H	95.73
1ub9_A	100	Hypothetical protein PH1061; helix-turn-helix moti	95.73
1xtp_A	254	LMAJ004091AAA; SGPP, structural genomics, PSI, pro	95.71
2fca_A	213	TRNA (guanine-N(7)-)-methyltransferase; 2.10A {Bac	95.69
2o57_A	297	Putative sarcosine dimethylglycine methyltransfera	95.67
3f6v_A	151	Possible transcriptional regulator, ARSR family pr	95.66
3ech_A	142	MEXR, multidrug resistance operon repressor; winge	95.66
1yb2_A	275	Hypothetical protein TA0852; structural genomics,	95.65
3g5l_A	253	Putative S-adenosylmethionine dependent methyltran	95.53
1nkv_A	256	Hypothetical protein YJHP; structural genomics, PS	95.52
3ckk_A	235	TRNA (guanine-N(7)-)-methyltransferase; mettl1, S-	95.49
3f4k_A	257	Putative methyltransferase; structural genomics, P	95.46
3mb5_A	255	SAM-dependent methyltransferase; RNA methyltransfe	95.45
3bkx_A	275	SAM-dependent methyltransferase; YP_807781.1, cycl	95.44
1yzh_A	214	TRNA (guanine-N(7)-)-methyltransferase; alpha-beta	95.44
2wte_A	244	CSA3; antiviral protein, viral resistance, winged	95.43
3bkw_A	243	MLL3908 protein, S-adenosylmethionine dependent me	95.41
2fu4_A	83	Ferric uptake regulation protein; DNA binding doma	95.4
1kpg_A	287	CFA synthase;, cyclopropane-fatty-acyl-phospholipi	95.38
3ou2_A	218	SAM-dependent methyltransferase; O-methyltransfera	95.38
3df8_A	111	Possible HXLR family transcriptional factor; APC89	95.3
3dh0_A	219	SAM dependent methyltransferase; cystal structure,	95.25
1ylf_A	149	RRF2 family protein; structural genomics, transcri	95.24
1r1t_A	122	Transcriptional repressor SMTB; zinc, transcriptio	95.21
3iv6_A	261	Putative Zn-dependent alcohol dehydrogenase; alpha	95.21
3k69_A	162	Putative transcription regulator; putative transcr	95.14
3mgg_A	276	Methyltransferase; NYSGXRC, PSI-II, protein struct	95.14
1jsx_A	207	Glucose-inhibited division protein B; methyltransf	95.13
3pfg_A	263	N-methyltransferase; N,N-dimethyltransferase, SAM	95.12
3g07_A	292	7SK snRNA methylphosphate capping enzyme; structur	95.12
1tbx_A	99	ORF F-93, hypothetical 11.0 kDa protein; sulfolobu	95.11
3ujc_A	266	Phosphoethanolamine N-methyltransferase; parasite;	95.08
4e2x_A	416	TCAB9; kijanose, tetronitrose, tetradeoxy sugar, s	95.08
1fbn_A	230	MJ fibrillarin homologue; MJ proteins, ribosomal R	95.05
2qe6_A	274	Uncharacterized protein TFU_2867; putative methylt	95.05
3kp7_A	151	Transcriptional regulator TCAR; multiple drug resi	95.04
3bdd_A	142	Regulatory protein MARR; putative multiple antibio	95.03
4dcm_A	375	Ribosomal RNA large subunit methyltransferase G; 2	94.93
2fsw_A	107	PG_0823 protein; alpha-beta structure, helix-turn-	94.93
3orh_A	236	Guanidinoacetate N-methyltransferase; structura ge	94.93
3fm5_A	150	Transcriptional regulator; MCSG, PF04017, PSI, MAR	94.92
2vdv_E	246	TRNA (guanine-N(7)-)-methyltransferase; S-adenosyl	94.92
3bja_A	139	Transcriptional regulator, MARR family, putative;	94.92
1z7u_A	112	Hypothetical protein EF0647; winged-helix-turn-hel	94.92
3g5t_A	299	Trans-aconitate 3-methyltransferase; structural ge	94.91
3ofk_A	216	Nodulation protein S; NODS, N-methyltransferase, S	94.85
3uzu_A	279	Ribosomal RNA small subunit methyltransferase A; s	94.83
3boq_A	160	Transcriptional regulator, MARR family; MARR famil	94.81
2yqz_A	263	Hypothetical protein TTHA0223; RNA methyltransfera	94.8
2p7i_A	250	Hypothetical protein; putative methyltransferase,	94.8
3cgg_A	195	SAM-dependent methyltransferase; NP_600671.1, meth	94.79
3ggd_A	245	SAM-dependent methyltransferase; YP_325210.1, stru	94.76
3thr_A	293	Glycine N-methyltransferase; GNMT, folate, methylt	94.71
2pwy_A	258	TRNA (adenine-N(1)-)-methyltransferase; mtase, ado	94.71
2pg4_A	95	Uncharacterized protein; structural genomics, join	94.71
1nt2_A	210	Fibrillarin-like PRE-rRNA processing protein; adeM	94.67
2f2e_A	146	PA1607; transcription factor, helix-TRUN-helix, AP	94.64
1dus_A	194	MJ0882; hypothetical protein, methanococcus jannas	94.64
4hg2_A	257	Methyltransferase type 11; structural genomics, PS	94.63
3r0a_A	123	Putative transcriptional regulator; structural gen	94.62
2h09_A	155	Transcriptional regulator MNTR; transcription regu	94.62
1u2z_A	433	Histone-lysine N-methyltransferase, H3 lysine-79 s	94.59
2aot_A	292	HMT, histamine N-methyltransferase; classic methyl	94.59
2yxd_A	183	Probable cobalt-precorrin-6Y C(15)-methyltransfer	94.58
3uwp_A	438	Histone-lysine N-methyltransferase, H3 lysine-79;	94.58
3ntv_A	232	MW1564 protein; rossmann fold, putative methyltran	94.57
3g89_A	249	Ribosomal RNA small subunit methyltransferase G; 1	94.57
2x4h_A	139	Hypothetical protein SSO2273; transcription; 2.30A	94.55
2avd_A	229	Catechol-O-methyltransferase; structural genomics,	94.51
3opn_A	232	Putative hemolysin; structural genomics, PSI-2, pr	94.5
2pjd_A	343	Ribosomal RNA small subunit methyltransferase C; g	94.49
3kkz_A	267	Uncharacterized protein Q5LES9; putative methyltra	94.49
1bja_A	95	Transcription regulatory protein MOTA; activation	94.48
2fk8_A	318	Methoxy mycolic acid synthase 4; S-adenosylmethion	94.47
1yyv_A	131	Putative transcriptional regulator; reductive meth	94.47
2nnn_A	140	Probable transcriptional regulator; structural gen	94.46
2bv6_A	142	MGRA, HTH-type transcriptional regulator MGRA; mul	94.43
2hr3_A	147	Probable transcriptional regulator; MCSG, structur	94.42
3fut_A	271	Dimethyladenosine transferase; methyltransferase,	94.39
1wzn_A	252	SAM-dependent methyltransferase; structural genomi	94.39
3cdh_A	155	Transcriptional regulator, MARR family; helix-turn	94.37
2b3t_A	276	Protein methyltransferase HEMK; translation termin	94.37
3njr_A	204	Precorrin-6Y methylase; methyltransferase, decarbo	94.35
1ws6_A	171	Methyltransferase; structural genomics, riken stru	94.31
1xd7_A	145	YWNA; structural genomics, protein structure initi	94.26
1sfx_A	109	Conserved hypothetical protein AF2008; structural	94.25
1s3j_A	155	YUSO protein; structural genomics, MARR transcript	94.21
2qww_A	154	Transcriptional regulator, MARR family; YP_013417.	94.18
2lkp_A	119	Transcriptional regulator, ARSR family; symmetric	94.16
1i9g_A	280	Hypothetical protein RV2118C; mtase, adoMet, cryst	94.12
3lbf_A	210	Protein-L-isoaspartate O-methyltransferase; modifi	94.1
2yxe_A	215	Protein-L-isoaspartate O-methyltransferase; rossma	94.09
1vbf_A	231	231AA long hypothetical protein-L-isoaspartate O-	94.06
3bj6_A	152	Transcriptional regulator, MARR family; helix-turn	94.05
2lnb_A	80	Z-DNA-binding protein 1; structural genomics, nort	94.04
3bpv_A	138	Transcriptional regulator; MARR, DNA binding, tran	94.04
3nrv_A	148	Putative transcriptional regulator (MARR/EMRR FAM;	94.03
2y1w_A	348	Histone-arginine methyltransferase CARM1; histone	94.02
2zfu_A	215	Nucleomethylin, cerebral protein 1; nucleolar prot	94.02
2fyt_A	340	Protein arginine N-methyltransferase 3; structural	94.0
2ipx_A	233	RRNA 2'-O-methyltransferase fibrillarin; FBL, stru	93.99
2a61_A	145	Transcriptional regulator TM0710; APC4350, MCSG, m	93.99
3k0l_A	162	Repressor protein; helix-turn-helix, structural ge	93.97
3bxo_A	239	N,N-dimethyltransferase; desosamine, sugar, carboh	93.94
2qvo_A	95	Uncharacterized protein AF_1382; PSI, structural g	93.93
3hnr_A	220	Probable methyltransferase BT9727_4108; structural	93.9
1xdz_A	240	Methyltransferase GIDB; MCSG, protein structure in	93.89
2zkz_A	99	Transcriptional repressor PAGR; protein-DNA, HTH m	93.88
3g3z_A	145	NMB1585, transcriptional regulator, MARR family; t	93.86
2fa5_A	162	Transcriptional regulator MARR/EMRR family; multip	93.86
2ozv_A	260	Hypothetical protein ATU0636; structural genomics,	93.78
2h1r_A	299	Dimethyladenosine transferase, putative; SGC toron	93.78
3gru_A	295	Dimethyladenosine transferase; rossman fold, ribos	93.76
3ccf_A	279	Cyclopropane-fatty-acyl-phospholipid synthase; YP_	93.75
2pex_A	153	Transcriptional regulator OHRR; transcription regu	93.72
3g2m_A	299	PCZA361.24; SAM-dependent methyltransferase, glyco	93.71
3e8s_A	227	Putative SAM dependent methyltransferase; NP_74470	93.71
2nyx_A	168	Probable transcriptional regulatory protein, RV14;	93.67
1nv8_A	284	HEMK protein; class I adoMet-dependent methyltrans	93.65
2nxc_A	254	L11 mtase, ribosomal protein L11 methyltransferase	93.64
1dl5_A	317	Protein-L-isoaspartate O-methyltransferase; isoasp	93.62
1o54_A	277	SAM-dependent O-methyltransferase; TM0748, structu	93.62
1jgs_A	138	Multiple antibiotic resistance protein MARR; trans	93.62
2rdp_A	150	Putative transcriptional regulator MARR; PFAM PF01	93.61
3oop_A	143	LIN2960 protein; protein structure initiative, PSI	93.6
3e23_A	211	Uncharacterized protein RPA2492; alpha-beta protei	93.53
2fbi_A	142	Probable transcriptional regulator; MARR, APC5816,	93.51
4htf_A	285	S-adenosylmethionine-dependent methyltransferase;	93.5
3hsr_A	140	HTH-type transcriptional regulator SARZ; helix-tur	93.47
2gxg_A	146	146AA long hypothetical transcriptional regulator;	93.47
1z91_A	147	Organic hydroperoxide resistance transcriptional;	93.47
2fbh_A	146	Transcriptional regulator PA3341; MARR, transcript	93.45
1q1h_A	110	TFE, transcription factor E, TFE; TFIIE, transcrip	93.41
2eth_A	154	Transcriptional regulator, putative, MAR family; M	93.36
3duw_A	223	OMT, O-methyltransferase, putative; alternating of	93.36
3bro_A	141	Transcriptional regulator; helix_TURN_helix, multi	93.36
2fhp_A	187	Methylase, putative; alpha-beta-alpha sandwich, st	93.35
3tr6_A	225	O-methyltransferase; cellular processes; HET: SAH;	93.26
3lpm_A	259	Putative methyltransferase; structural genomics, p	93.25
2yvl_A	248	TRMI protein, hypothetical protein; tRNA, methyltr	93.22
3cjn_A	162	Transcriptional regulator, MARR family; silicibact	93.16
3tma_A	354	Methyltransferase; thump domain; 2.05A {Thermus th	93.16
3u2r_A	168	Regulatory protein MARR; structural genomics, PSI-	93.14
3c3p_A	210	Methyltransferase; NP_951602.1, structural genomic	93.08
2k4b_A	99	Transcriptional regulator; DNA binding protein, wi	93.04
1g6q_1	328	HnRNP arginine N-methyltransferase; SAM-binding do	93.03
2gpy_A	233	O-methyltransferase; structural genomics, PSI, pro	93.03
1lj9_A	144	Transcriptional regulator SLYA; HTH DNA binding pr	93.02
1o9g_A	250	RRNA methyltransferase; antibiotic resistance, Se-	93.02
2qlz_A	232	Transcription factor PF0095; 2.50A {Pyrococcus fur	92.93
1vlm_A	219	SAM-dependent methyltransferase; possible histamin	92.91
3e6m_A	161	MARR family transcriptional regulator; APC88769, s	92.9
3adn_A	294	Spermidine synthase; aminopropyltransferase, polya	92.9
2obp_A	96	Putative DNA-binding protein; structural genomics,	92.87
3c3y_A	237	Pfomt, O-methyltransferase; plant secondary metabo	92.86
1p91_A	269	Ribosomal RNA large subunit methyltransferase A; R	92.83
2h00_A	254	Methyltransferase 10 domain containing protein; st	92.82
2cfx_A	144	HTH-type transcriptional regulator LRPC; transcrip	92.8
1zx0_A	236	Guanidinoacetate N-methyltransferase; structural g	92.79
3f3x_A	144	Transcriptional regulator, MARR family, putative;	92.77
3s2w_A	159	Transcriptional regulator, MARR family; structural	92.76
4hc4_A	376	Protein arginine N-methyltransferase 6; HRMT1L6, S	92.74
3hrs_A	214	Metalloregulator SCAR; DTXR/MNTR family member, tr	92.74
2w25_A	150	Probable transcriptional regulatory protein; trans	92.73
1g8a_A	227	Fibrillarin-like PRE-rRNA processing protein; rRNA	92.72
3gjy_A	317	Spermidine synthase; APC62791, structural genomics	92.72
3deu_A	166	Transcriptional regulator SLYA; MARR, WING-helix,	92.7
3tgn_A	146	ADC operon repressor ADCR; helix-turn-helix, trans	92.7
3tfw_A	248	Putative O-methyltransferase; PSI-biology, nysgrc,	92.7
2p4w_A	202	Transcriptional regulatory protein ARSR family; ar	92.67
1ku9_A	152	Hypothetical protein MJ223; putative transcription	92.61
3b3j_A	480	Histone-arginine methyltransferase CARM1; protein	92.61
3r0q_C	376	Probable protein arginine N-methyltransferase 4.2;	92.6
4aik_A	151	Transcriptional regulator SLYA; transcription, tra	92.56
2fe3_A	145	Peroxide operon regulator; oxidative stress regula	92.54
2pxx_A	215	Uncharacterized protein MGC2408; structural genomi	92.52
3dr5_A	221	Putative O-methyltransferase; Q8NRD3, CGL1119, PF0	92.42
3m70_A	286	Tellurite resistance protein TEHB homolog; structu	92.36
2wa2_A	276	Non-structural protein 5; transferase, S-adenosyl-	92.36
3u81_A	221	Catechol O-methyltransferase; neurotransmitter deg	92.35
3r3h_A	242	O-methyltransferase, SAM-dependent; structural gen	92.34
2oxt_A	265	Nucleoside-2'-O-methyltransferase; flavivirus, vir	92.34
4hbl_A	149	Transcriptional regulator, MARR family; HTH, trans	92.34
2ex4_A	241	Adrenal gland protein AD-003; methyltransferase, s	92.32
1ixk_A	315	Methyltransferase; open beta sheet; 1.90A {Pyrococ	92.32
3grz_A	205	L11 mtase, ribosomal protein L11 methyltransferase	92.3
3eco_A	139	MEPR; mutlidrug efflux pump regulator winged helix	92.28
2gs9_A	211	Hypothetical protein TT1324; methyl transferase, s	92.24
2p5v_A	162	Transcriptional regulator, LRP/ASNC family; NMB057	92.24
2dbb_A	151	Putative HTH-type transcriptional regulator PH006;	92.22
3hp7_A	291	Hemolysin, putative; structural genomics, APC64019	92.21
2pn6_A	150	ST1022, 150AA long hypothetical transcriptional re	92.18
2o03_A	131	Probable zinc uptake regulation protein FURB; DNA-	92.17
3h2b_A	203	SAM-dependent methyltransferase; alpha-beta protei	92.13
2hnk_A	239	SAM-dependent O-methyltransferase; modified rossma	92.12
3m33_A	226	Uncharacterized protein; structural genomics, PSI-	91.98
3l8d_A	242	Methyltransferase; structural genomics, PSI, nysgr	91.94
1sui_A	247	Caffeoyl-COA O-methyltransferase; rossmann fold, p	91.9
1p6r_A	82	Penicillinase repressor; transcription regulation,	91.89
2frh_A	127	SARA, staphylococcal accessory regulator A; winged	91.89
2fbk_A	181	Transcriptional regulator, MARR family; winged-hel	91.82
1wy7_A	207	Hypothetical protein PH1948; seven-stranded beta s	91.8
2fxa_A	207	Protease production regulatory protein HPR; protea	91.75
3bwc_A	304	Spermidine synthase; SAM, SGPP, structura genomics	91.69
2b25_A	336	Hypothetical protein; structural genomics, methyl	91.63
3bzb_A	281	Uncharacterized protein; RED ALGA, protein structu	91.6
2bm8_A	236	Cephalosporin hydroxylase CMCI; cephamycin biosynt	91.59
4df3_A	233	Fibrillarin-like rRNA/TRNA 2'-O-methyltransferase;	91.56
2cg4_A	152	Regulatory protein ASNC; DNA binding, FFRP, LRP fa	91.53
2ia0_A	171	Putative HTH-type transcriptional regulator PF086;	91.51
2ift_A	201	Putative methylase HI0767; NESG, Y767_haein, struc	91.48
3cbg_A	232	O-methyltransferase; cyanobacterium; HET: SAH FER	91.44
2ih2_A	421	Modification methylase TAQI; DNA, DNA methyltransf	91.41
3p9n_A	189	Possible methyltransferase (methylase); RV2966C, a	91.34
3q7e_A	349	Protein arginine N-methyltransferase 1; HET: SAH;	91.33
2p41_A	305	Type II methyltransferase; vizier, viral enzymes i	91.27
3ua3_A	745	Protein arginine N-methyltransferase 5; TIM-barrel	91.25
1uly_A	192	Hypothetical protein PH1932; helix-turn-helix, str	91.24
2dk5_A	91	DNA-directed RNA polymerase III 39 kDa polypeptide	91.19
3ocj_A	305	Putative exported protein; structural genomics, PS	91.18
3fpf_A	298	Mtnas, putative uncharacterized protein; thermonic	91.18
4gqb_A	637	Protein arginine N-methyltransferase 5; TIM barrel	91.16
2d1h_A	109	ST1889, 109AA long hypothetical transcriptional re	91.12
1xj5_A	334	Spermidine synthase 1; structural genomics, protei	91.08
1iy9_A	275	Spermidine synthase; rossmann fold, structural gen	91.02
2pbf_A	227	Protein-L-isoaspartate O-methyltransferase beta-A	90.97
2cyy_A	151	Putative HTH-type transcriptional regulator PH151;	90.96
3lcc_A	235	Putative methyl chloride transferase; halide methy	90.92
2gb4_A	252	Thiopurine S-methyltransferase; 18204406, thiopuri	90.89
1r18_A	227	Protein-L-isoaspartate(D-aspartate)-O-methyltrans;	90.87
1ne2_A	200	Hypothetical protein TA1320; structural genomics,	90.86
2xvc_A	59	ESCRT-III, SSO0910; cell cycle, cell division, cyt	90.8
2fpo_A	202	Methylase YHHF; structural genomics, putative meth	90.76
3a27_A	272	TYW2, uncharacterized protein MJ1557; wybutosine m	90.69
3gdh_A	241	Trimethylguanosine synthase homolog; M7G, CAP, dim	90.67
1sfu_A	75	34L protein; protein/Z-DNA complex, DNA binding pr	90.66
2e1c_A	171	Putative HTH-type transcriptional regulator PH151;	90.64
2avn_A	260	Ubiquinone/menaquinone biosynthesis methyltransfe	90.61
2pt6_A	321	Spermidine synthase; transferase, structural genom	90.61
4azs_A	569	Methyltransferase WBDD; kinase; HET: AMP SAM; 2.15	90.59
1uir_A	314	Polyamine aminopropyltransferase; spermidien synth	90.56
3jw4_A	148	Transcriptional regulator, MARR/EMRR family; DNA-b	90.55
2i7c_A	283	Spermidine synthase; transferase, structural genom	90.52
1inl_A	296	Spermidine synthase; beta-barrel, rossman fold, st	90.5
1ri5_A	298	MRNA capping enzyme; methyltransferase, M7G, messe	90.44
2o07_A	304	Spermidine synthase; structural genomics, structur	90.43
3tm4_A	373	TRNA (guanine N2-)-methyltransferase TRM14; rossma	90.36
1okr_A	123	MECI, methicillin resistance regulatory protein ME	90.32
1i1g_A	141	Transcriptional regulator LRPA; helix-turn-helix,	90.3
3i4p_A	162	Transcriptional regulator, ASNC family; PSI, struc	90.29
3k2z_A	196	LEXA repressor; winged helix-turn-helix, SOS syste	90.28
3evz_A	230	Methyltransferase; NYSGXRC, NEW YORK SGX research	90.26
3gcz_A	282	Polyprotein; flavivirus, RNA capping, methyltransf	90.2
1y8c_A	246	S-adenosylmethionine-dependent methyltransferase;	90.13
3nqo_A	189	MARR-family transcriptional regulator; structural	90.1
4fsd_A	383	Arsenic methyltransferase; rossmann fold; 1.75A {C	90.08
2frn_A	278	Hypothetical protein PH0793; structural genomics,	90.07
3ajd_A	274	Putative methyltransferase MJ0026; tRNA, M5C, ross	89.97
1mjf_A	281	Spermidine synthase; spermidine synthetase, struct	89.91
2b2c_A	314	Spermidine synthase; beta-alpha, transferase; 2.50	89.86
3id6_C	232	Fibrillarin-like rRNA/TRNA 2'-O-methyltransferase;	89.76
2vn2_A	128	DNAD, chromosome replication initiation protein; D	89.63
3u1d_A	151	Uncharacterized protein; GNTR-superfamily, structu	89.62
2xig_A	150	Ferric uptake regulation protein; hpfur, transcrip	89.49
3mwm_A	139	ZUR, putative metal uptake regulation protein; FUR	89.39
3evf_A	277	RNA-directed RNA polymerase NS5; NS5 methyltransfe	89.39
3k0b_A	393	Predicted N6-adenine-specific DNA methylase; methy	89.34
3ldu_A	385	Putative methylase; structural genomics, PSI-2, pr	89.32
1i1n_A	226	Protein-L-isoaspartate O-methyltransferase; S-aden	89.29
2a14_A	263	Indolethylamine N-methyltransferase; SGC,INMT, str	89.23
3frh_A	253	16S rRNA methylase; methyltransferase domain, heli	88.98
2vdw_A	302	Vaccinia virus capping enzyme D1 subunit; nucleoti	88.97
1j5y_A	187	Transcriptional regulator, biotin repressor famil;	88.92
2v79_A	135	DNA replication protein DNAD; primosome, DNA-bindi	88.44
1uwv_A	433	23S rRNA (uracil-5-)-methyltransferase RUMA; RNA m	88.32
1af7_A	274	Chemotaxis receptor methyltransferase CHER; chemot	88.29
2cmg_A	262	Spermidine synthase; transferase, putrescine amino	88.29
2yxl_A	450	PH0851 protein, 450AA long hypothetical FMU protei	87.96
3ldg_A	384	Putative uncharacterized protein SMU.472; YPSC, me	87.92
4b8x_A	147	SCO5413, possible MARR-transcriptional regulator;	87.85
1z6r_A	406	MLC protein; transcriptional repressor, ROK family	87.43
4g6q_A	182	Putative uncharacterized protein; structural genom	87.39
3lcv_B	281	Sisomicin-gentamicin resistance methylase SGM; ant	87.23
1v4r_A	102	Transcriptional repressor; helix-turn-helix, winge	87.19
4fx0_A	148	Probable transcriptional repressor protein; helix-	87.17
1fx7_A	230	Iron-dependent repressor IDER; DTXR, iron-dependen	86.8
3htx_A	950	HEN1; HEN1, small RNA methyltransferase, protein-R	86.65
3cta_A	230	Riboflavin kinase; structural genomics, transferas	86.56
2g9w_A	138	Conserved hypothetical protein; DNA-binding domain	86.4
2esh_A	118	Conserved hypothetical protein TM0937; APC5794, st	86.24
1sqg_A	429	SUN protein, FMU protein; rossmann-fold, mixed bet	86.19
2i62_A	265	Nicotinamide N-methyltransferase; structural genom	85.94
1mzb_A	136	Ferric uptake regulation protein; ferric uptake re	85.9
2pjp_A	121	Selenocysteine-specific elongation factor; SELB, p	85.54
3dmg_A	381	Probable ribosomal RNA small subunit methyltransf;	85.24
2hoe_A	380	N-acetylglucosamine kinase; TM1224, structural gen	85.23
1sd4_A	126	Penicillinase repressor; BLAI, MECI, methicillin,	85.22
2r6z_A	258	UPF0341 protein in RSP 3' region; alpha-beta prote	84.76
1p4x_A	250	Staphylococcal accessory regulator A homologue; wi	84.71
2yu3_A	95	DNA-directed RNA polymerase III 39 kDa polypeptide	84.0
3i71_A	68	Ethanolamine utilization protein EUTK; helix-turn-	83.65
2qfm_A	364	Spermine synthase; spermidine aminopropyltransfera	83.45
2qq9_A	226	Diphtheria toxin repressor; regulator, DTXR, helix	83.41
3maj_A	382	DNA processing chain A; MCSG, PSI-2, structural ge	83.25
1jhg_A	101	Trp operon repressor; complex (regulatory protein-	83.23
1hsj_A	487	Fusion protein consisting of staphylococcus access	83.18
2f8l_A	344	Hypothetical protein LMO1582; structural genomics,	83.1
2okc_A	445	Type I restriction enzyme stysji M protein; NP_813	82.63
4esf_A	117	PADR-like transcriptional regulator; PADR family,	82.59
3m6w_A	464	RRNA methylase; rRNA methyltransferase, 5-methylcy	82.47
2g72_A	289	Phenylethanolamine N-methyltransferase; HET: SAM F	82.43
1cf7_A	76	Protein (transcription factor E2F-4); E2F, winged-	82.31
3lmm_A	583	Uncharacterized protein; multi-domained alpha-beta	81.35
1z05_A	429	Transcriptional regulator, ROK family; structural	81.01
2ek5_A	129	Predicted transcriptional regulators; helix-turn-h	80.98
2o0m_A	345	Transcriptional regulator, SORC family; structural	80.76
2igt_A	332	SAM dependent methyltransferase; alpha-beta sandwi	80.3
3elk_A	117	Putative transcriptional regulator TA0346; structu	80.27

>3p9c_A Caffeic acid O-methyltransferase; S-adenosylmethionine dependent O-methyltransferase; HET: SAH; 1.80A {Lolium perenne} PDB: 3p9i_A* 3p9k_A*

Probab=100.00  E-value=1.5e-35  Score=258.39  Aligned_cols=217  Identities=39%  Similarity=0.752  Sum_probs=182.9

Q ss_pred             CCCcccCCCcCCchhHHHHHHHHHHHhhhHHHHHHHHHHhhChhhHHHhcCCCCCCCHHHHHhhCCC-CCCcchhhhHHH
Q 036971            1 MGSSTESKSKVTNEEEEVYSHAMVLGSAIVLPAVFQAVVNLDVLDIINKAGPGAELSASEIASQIPT-KNPEGAAKMLDR   79 (221)
Q Consensus         1 ~~~~~~~~~~~~~~~~~~~~~l~~~~~g~~~~~aL~~av~lglfd~L~~~g~~~~~t~~eLA~~~g~-~~~~~~~~~l~r   79 (221)
                      |||..++  ++++|..+++..+++++++++.+++|++|++|||||+|++.| ++|+|++|||+++|+ .+|+ ++..|+|
T Consensus         5 ~~~~~~~--~~~~~~~~~~~~~~~l~~~~~~~~~l~~a~~Lgifd~L~~~g-~~~~t~~eLA~~~g~~~~~~-~~~~l~r   80 (364)
T 3p9c_A            5 MGSTAAD--MAASADEDACMFALQLASSSVLPMTLKNAIELGLLEILVAAG-GKSLTPTEVAAKLPSAANPE-APDMVDR   80 (364)
T ss_dssp             ----------CHHHHHHHHHHHHHHTTTTHHHHHHHHHHHHTHHHHHHHTT-TCCBCHHHHHHTTTCTTCTT-HHHHHHH
T ss_pred             CCCCCCC--ccchHHHHHHHHHHHHHHhHHHHHHHHHHHHCChHHHHhhcC-CCCCCHHHHHHhcCCCCCcc-chhhHHH
Confidence            8898888  588889999999999999999999999999999999999964 258999999999994 2333 3448999


Q ss_pred             HHHHHhcCCceeeeccCCC----CcceeccccccccccCCCCCChHHHHHHhcCccchhhhhhhHHHHhcCCchhHhhhC
Q 036971           80 VLGLLVSFNILCCSFSTHG----VRLYSLAPVAKYYVSDQNGVSMRPYMNLSLDKVMMPGWFQLKDQILEGELSYNKALG  155 (221)
Q Consensus        80 lLr~L~~~gll~~~~~~~~----~~~y~lt~~s~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~~g~~~f~~~~g  155 (221)
                      |||+|++.|+|+++..+++    +++|++|+.++.|+.+..+.++++++.+..++.++++|.+|.+++++|+++|+..+|
T Consensus        81 lLr~L~~~g~l~~~~~~~~~g~~~~~y~~t~~s~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~~r~g~~~~~~~~g  160 (364)
T 3p9c_A           81 ILRLLASYNVVTCLVEEGKDGRLSRSYGAAPVCKFLTPNEDGVSMAALALMNQDKVLMESWYYLKDAVLDGGIPFNKAYG  160 (364)
T ss_dssp             HHHHHHHTTSEEEEEEECSSSCEEEEEEECGGGGGSSCCTTSCCTHHHHHHHTSHHHHGGGGGHHHHHHHCSCHHHHHHS
T ss_pred             HHHHHHhCCCEEEeccccCCCCcCCEEecCHHHHHHcCCCCCCCHHHHHHHhcCHHHHHHHhCHHHHHhhCCChHHHhcC
Confidence            9999999999998621101    478999999998876542258999988776667789999999999999999999999


Q ss_pred             CchhhhhccCchHHHHHHHHHhhhhHHHHHHHHHhcCCCCCCCeEEEecCCccHHHHHHHhhCCCC
Q 036971          156 MDFYDYLGTDSRFNEVFNNGMIGQTSFVINKIVESYKGFQNITRLVDVGGGLGITLSDHNFQIPSY  221 (221)
Q Consensus       156 ~~~~~~l~~~p~~~~~F~~aM~~~~~~~~~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l  221 (221)
                      .++|+|+.++|+..+.|+++|...+....+.+++.++.|++..+|||||||+|.++..+++++|++
T Consensus       161 ~~~~~~~~~~~~~~~~f~~~m~~~~~~~~~~~~~~~~~~~~~~~vlDvG~G~G~~~~~l~~~~p~~  226 (364)
T 3p9c_A          161 MSAFEYHGTDPRFNRVFNEGMKNHSIIITKKLLELYHGFEGLGTLVDVGGGVGATVAAIAAHYPTI  226 (364)
T ss_dssp             SCHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHCCTTTTCSEEEEETCTTSHHHHHHHHHCTTC
T ss_pred             CCHHHHHHhCHHHHHHHHHHHHHhhHHHHHHHHHhcccccCCCEEEEeCCCCCHHHHHHHHHCCCC
Confidence            999999999999999999999998888888899999768888999999999999999999999974

>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=6.1e-35  Score=254.84  Aligned_cols=219  Identities=46%  Similarity=0.783  Sum_probs=180.2

Q ss_pred             CCCcccCCC---cCCchhHHHHHHHHHHHhhhHHHHHHHHHHhhChhhHHHhc-CCCCCCCHHHHHhhCC-CCCCcchhh
Q 036971            1 MGSSTESKS---KVTNEEEEVYSHAMVLGSAIVLPAVFQAVVNLDVLDIINKA-GPGAELSASEIASQIP-TKNPEGAAK   75 (221)
Q Consensus         1 ~~~~~~~~~---~~~~~~~~~~~~l~~~~~g~~~~~aL~~av~lglfd~L~~~-g~~~~~t~~eLA~~~g-~~~~~~~~~   75 (221)
                      |||..|++-   .++.+..++...+++++.+++.+++|++|++|||||+|++. |+++++|++|||+++| . +|. ++.
T Consensus         1 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~l~~a~~Lglfd~L~~~~gp~~~~t~~eLA~~~~~~-~~~-~~~   78 (368)
T 3reo_A            1 MGSTGNAEIQIIPTHSSDEEANLFAMQLASAAVLPMALKAAIELDVLEIMAKSVPPSGYISPAEIAAQLPTT-NPE-APV   78 (368)
T ss_dssp             ----------------CHHHHHHHHHHHHTTTHHHHHHHHHHHTTHHHHHHHHCCTTCCBCHHHHHTTSSCC-CTT-HHH
T ss_pred             CCCcccccccccCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHCCchhHHhhcCCCCCCcCHHHHHHhcCcC-CCc-chh
Confidence            788777742   26667888999999999999999999999999999999996 5446899999999998 5 554 455


Q ss_pred             hHHHHHHHHhcCCceeeeccCC-C---CcceeccccccccccCCCCCChHHHHHHhcCccchhhhhhhHHHHhcCCchhH
Q 036971           76 MLDRVLGLLVSFNILCCSFSTH-G---VRLYSLAPVAKYYVSDQNGVSMRPYMNLSLDKVMMPGWFQLKDQILEGELSYN  151 (221)
Q Consensus        76 ~l~rlLr~L~~~gll~~~~~~~-~---~~~y~lt~~s~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~~g~~~f~  151 (221)
                      .|+|+||+|++.|+|+++..++ +   +++|++|+.++.|+.+..+.++++++.+..++.+++.|.+|.+++++|+++|+
T Consensus        79 ~l~rlLr~L~~~gll~~~~~~~~~g~~~~~y~~t~~s~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~r~g~~~~~  158 (368)
T 3reo_A           79 MLDRVLRLLASYSVVTYTLRELPSGKVERLYGLAPVCKFLTKNEDGVSLAPFLLLATDKVLLEPWFYLKDAILEGGIPFN  158 (368)
T ss_dssp             HHHHHHHHHHHTTSEEEEEEECTTSCEEEEEEECTTHHHHSCCTTSCCSHHHHHHHTCHHHHGGGGGHHHHHHHCSCHHH
T ss_pred             hHHHHHHHHHhCCCeEEecccCCCCcccceeCcCHHHHHHhCCCCCCCHHHHHHHhcCHHHHhhhhchHHHHhcCCCHHH
Confidence            8999999999999999852100 1   37899999999887554225899998877666678899999999999999999


Q ss_pred             hhhCCchhhhhccCchHHHHHHHHHhhhhHHHHHHHHHhcCCCCCCCeEEEecCCccHHHHHHHhhCCCC
Q 036971          152 KALGMDFYDYLGTDSRFNEVFNNGMIGQTSFVINKIVESYKGFQNITRLVDVGGGLGITLSDHNFQIPSY  221 (221)
Q Consensus       152 ~~~g~~~~~~l~~~p~~~~~F~~aM~~~~~~~~~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l  221 (221)
                      ..+|.++|+|+.++|+..+.|+++|...+....+.+++.++.|++..+|||||||+|.++..+++++|++
T Consensus       159 ~~~g~~~~~~~~~~~~~~~~f~~~m~~~~~~~~~~~~~~~~~~~~~~~vlDvG~G~G~~~~~l~~~~p~~  228 (368)
T 3reo_A          159 KAYGMNIFDYHGTDHRINKVFNKGMSSNSTITMKKILEMYNGFEGLTTIVDVGGGTGAVASMIVAKYPSI  228 (368)
T ss_dssp             HHSSSCHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHTTCCTTTTCSEEEEETCTTSHHHHHHHHHCTTC
T ss_pred             HHhCCCHHHHHhhCHHHHHHHHHHHHhhhhhHHHHHHHhcccccCCCEEEEeCCCcCHHHHHHHHhCCCC
Confidence            9999999999999999999999999998888888899988767888999999999999999999999974

>1fp2_A Isoflavone O-methyltransferase; protein-product complex; HET: SAH HMO; 1.40A {Medicago sativa} SCOP: a.4.5.29 c.66.1.12 PDB: 1fpx_A* 2qyo_A*

Probab=100.00  E-value=1.9e-34  Score=249.96  Aligned_cols=210  Identities=20%  Similarity=0.324  Sum_probs=181.0

Q ss_pred             CCCcccCCCcCCchhHHHHHHHHHHHhhhHHHHHHHHHHhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHH
Q 036971            1 MGSSTESKSKVTNEEEEVYSHAMVLGSAIVLPAVFQAVVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRV   80 (221)
Q Consensus         1 ~~~~~~~~~~~~~~~~~~~~~l~~~~~g~~~~~aL~~av~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rl   80 (221)
                      |+||||+  ..++|+.++...+++++.+++.+++|++++++|||+.|++.|  +++|++|||+++|+ +|. +++.++|+
T Consensus         1 ~~~~~~~--~~~~~~~~a~~~l~~~~~~~~~~~~l~~a~~lgif~~L~~~~--~~~t~~ela~~~~~-~~~-~~~~l~rl   74 (352)
T 1fp2_A            1 MASSING--RKPSEIFKAQALLYKHIYAFIDSMSLKWAVEMNIPNIIQNHG--KPISLSNLVSILQV-PSS-KIGNVRRL   74 (352)
T ss_dssp             ---------CCSTHHHHHHHHHHHHHTTHHHHHHHHHHHHTTHHHHHHHHT--SCEEHHHHHHHHTC-CGG-GHHHHHHH
T ss_pred             CCccccC--CChHHHhhHHHHHHHHHHHHHHHHHHHHHHHCChhhhhhhcC--CCccHHHHHHHhCc-CCC-ChHHHHHH
Confidence            8999999  557889999999999999999999999999999999999864  59999999999999 865 55699999


Q ss_pred             HHHHhcCCceeeeccCCCCcceeccccccccccCCCCCChHHHHHHhcCccchhhhhhhHHHHh-cCCchhHhhhCCchh
Q 036971           81 LGLLVSFNILCCSFSTHGVRLYSLAPVAKYYVSDQNGVSMRPYMNLSLDKVMMPGWFQLKDQIL-EGELSYNKALGMDFY  159 (221)
Q Consensus        81 Lr~L~~~gll~~~~~~~~~~~y~lt~~s~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~-~g~~~f~~~~g~~~~  159 (221)
                      ||+|++.|+|++..  ++++.|++|+.++.|+.++| .++++++.+..++.+++.|.+|+++++ +|+++|+.++|.++|
T Consensus        75 Lr~L~~~gll~~~~--~~~~~y~~t~~s~~L~~~~~-~~~~~~~~~~~~~~~~~~~~~L~~~l~~~g~~~~~~~~g~~~~  151 (352)
T 1fp2_A           75 MRYLAHNGFFEIIT--KEEESYALTVASELLVRGSD-LCLAPMVECVLDPTLSGSYHELKKWIYEEDLTLFGVTLGSGFW  151 (352)
T ss_dssp             HHHHHHTTSEEEEE--SSSEEEEECHHHHTTSTTSS-SCCHHHHHHHTCHHHHHGGGGHHHHHTCSSCCHHHHHHSSCHH
T ss_pred             HHHHHhCCeEEEec--CCCCeEeCCHHHHHHhCCCC-ccHHHHHHHhcCchHHHHHHHHHHHHHhcCCChHHHHcCCCHH
Confidence            99999999999851  02689999999999988776 578999988766567889999999999 889999999999999


Q ss_pred             hhhccCchHHHHHHHHHhhhhHHHHHHHHHhc--CCCCCCCeEEEecCCccHHHHHHHhhCCCC
Q 036971          160 DYLGTDSRFNEVFNNGMIGQTSFVINKIVESY--KGFQNITRLVDVGGGLGITLSDHNFQIPSY  221 (221)
Q Consensus       160 ~~l~~~p~~~~~F~~aM~~~~~~~~~~~l~~~--~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l  221 (221)
                      +|+.++|+..+.|+.+|...+....+. ++.|  + |++..+|||||||+|.++..+++++|++
T Consensus       152 ~~~~~~~~~~~~f~~~m~~~~~~~~~~-~~~~~~~-~~~~~~vlDvG~G~G~~~~~l~~~~p~~  213 (352)
T 1fp2_A          152 DFLDKNPEYNTSFNDAMASDSKLINLA-LRDCDFV-FDGLESIVDVGGGTGTTAKIICETFPKL  213 (352)
T ss_dssp             HHHHHCHHHHHHHHHHHHHTHHHHHHH-HHTCHHH-HTTCSEEEEETCTTSHHHHHHHHHCTTC
T ss_pred             HHHHhChHHHHHHHHHHHhcchhhhhH-HHhcccc-cccCceEEEeCCCccHHHHHHHHHCCCC
Confidence            999999999999999999988877676 7888  5 7788999999999999999999999974

>4a6d_A Hydroxyindole O-methyltransferase; melatonin, circadian clock; HET: SAM; 2.40A {Homo sapiens} PDB: 4a6e_A*

Probab=100.00  E-value=5.6e-34  Score=247.49  Aligned_cols=194  Identities=16%  Similarity=0.253  Sum_probs=174.1

Q ss_pred             HHHHHHHHHHhhhHHHHHHHHHHhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccC
Q 036971           17 EVYSHAMVLGSAIVLPAVFQAVVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFST   96 (221)
Q Consensus        17 ~~~~~l~~~~~g~~~~~aL~~av~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~   96 (221)
                      ++...|++++.||+.+++|++|++|||||+|++.+  +|+|++|||+++|+ +++    .++|+||+|+++|+|++....
T Consensus         7 ~~~~~L~~l~~Gf~~s~~L~aa~eLglfd~L~~~~--~p~t~~eLA~~~g~-~~~----~l~rlLr~L~~~gll~~~~~~   79 (353)
T 4a6d_A            7 QAYRLLNDYANGFMVSQVLFAACELGVFDLLAEAP--GPLDVAAVAAGVRA-SAH----GTELLLDICVSLKLLKVETRG   79 (353)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHTHHHHHHHSS--SCBCHHHHHHHHTC-CHH----HHHHHHHHHHHTTSEEEEEET
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHcCHHHHHhcCC--CCCCHHHHHHhhCc-CHH----HHHHHHHHHHHCCCEEEeccC
Confidence            67888999999999999999999999999999865  69999999999999 988    999999999999999875321


Q ss_pred             CCCcceeccccccc-cccCCCCCChHHHHHHhcCccchhhhhhhHHHHhcCCchhHhhhC---CchhhhhccCchHHHHH
Q 036971           97 HGVRLYSLAPVAKY-YVSDQNGVSMRPYMNLSLDKVMMPGWFQLKDQILEGELSYNKALG---MDFYDYLGTDSRFNEVF  172 (221)
Q Consensus        97 ~~~~~y~lt~~s~~-L~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~~g~~~f~~~~g---~~~~~~l~~~p~~~~~F  172 (221)
                       ..+.|++|++++. |..++| .++.+++.+.. +..++.|.+|.+++++|+++|...+|   .++|+++.++|+....|
T Consensus        80 -~~~~y~~t~~s~~~l~~~~~-~~~~~~~~~~~-~~~~~~~~~L~~~vr~g~~~~~~~~g~~~~~~~~~~~~~~~~~~~f  156 (353)
T 4a6d_A           80 -GKAFYRNTELSSDYLTTVSP-TSQCSMLKYMG-RTSYRCWGHLADAVREGRNQYLETFGVPAEELFTAIYRSEGERLQF  156 (353)
T ss_dssp             -TEEEEEECHHHHHHHSTTST-TCCHHHHHHHH-HTHHHHHTTHHHHHHHTSCCHHHHHSCCCSSHHHHHTSSHHHHHHH
T ss_pred             -ccceeeCCHHHHHHhhcCCc-hHHHHHHHHhC-HHHHHHHHHHHHHHhcCCChhHHhcCCChHHHHHHHhhCHHHHHHH
Confidence             3568999999985 566666 58888887764 45788999999999999999999887   46899999999999999


Q ss_pred             HHHHhhhhHHHHHHHHHhcCCCCCCCeEEEecCCccHHHHHHHhhCCCC
Q 036971          173 NNGMIGQTSFVINKIVESYKGFQNITRLVDVGGGLGITLSDHNFQIPSY  221 (221)
Q Consensus       173 ~~aM~~~~~~~~~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l  221 (221)
                      +++|...+...++.+++.|+ |++.++|||||||+|.++.+++++||++
T Consensus       157 ~~aM~~~~~~~~~~~~~~~~-~~~~~~v~DvGgG~G~~~~~l~~~~p~~  204 (353)
T 4a6d_A          157 MQALQEVWSVNGRSVLTAFD-LSVFPLMCDLGGGAGALAKECMSLYPGC  204 (353)
T ss_dssp             HHHHHTTHHHHHHHHHHSSC-GGGCSEEEEETCTTSHHHHHHHHHCSSC
T ss_pred             HHHHHHHHHHHHHHHHHhcC-cccCCeEEeeCCCCCHHHHHHHHhCCCc
Confidence            99999998888889999999 9999999999999999999999999985

>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=1.5e-33  Score=244.07  Aligned_cols=192  Identities=18%  Similarity=0.199  Sum_probs=177.0

Q ss_pred             hhHHHHHHHHHHHhhhHHHHHHHHHHhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           14 EEEEVYSHAMVLGSAIVLPAVFQAVVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        14 ~~~~~~~~l~~~~~g~~~~~aL~~av~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      ...++...+++++++++.+++|++|+++||||+|.+    +|+|++|||+++|+ +++    .++||||+|++.|+|++.
T Consensus        18 ~~~~~~~~l~~~~~~~~~~~~l~~a~~lglf~~l~~----g~~t~~elA~~~g~-~~~----~l~rlLr~l~~~g~l~~~   88 (348)
T 3lst_A           18 DRLQSALALYEEAMGYTYAAALRAAAAVGVADHLVD----GPRTPAELAAATGT-DAD----ALRRVLRLLAVRDVVRES   88 (348)
T ss_dssp             CHHHHHHHHHHHHTTHHHHHHHHHHHHHTGGGGGTT----SCBCHHHHHHHHTC-CHH----HHHHHHHHHHHTTSEEEE
T ss_pred             CCchHHHHHHHHHHHHHHHHHHHHHHHcCchhHhhC----CCCCHHHHHHHhCc-CHH----HHHHHHHHHHhCCCEEec
Confidence            345788999999999999999999999999999987    59999999999999 998    999999999999999994


Q ss_pred             ccCCCCcceeccccccccccCCCCCChHHHHHHhcCccchhhhhhhHHHHhcCCchhHhhhCCchhhhhccCchHHHHHH
Q 036971           94 FSTHGVRLYSLAPVAKYYVSDQNGVSMRPYMNLSLDKVMMPGWFQLKDQILEGELSYNKALGMDFYDYLGTDSRFNEVFN  173 (221)
Q Consensus        94 ~~~~~~~~y~lt~~s~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~~g~~~f~~~~g~~~~~~l~~~p~~~~~F~  173 (221)
                           ++.|++|+.++.|.++++ .++.+++.+..++..++.|.+|++++++|+++|+..+|.++|+|+.++|+..+.|+
T Consensus        89 -----~~~y~~t~~s~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~l~~~l~~g~~~~~~~~g~~~~~~~~~~~~~~~~f~  162 (348)
T 3lst_A           89 -----DGRFALTDKGAALRSDSP-VPARAGILMFTDTMFWTMSHRVASALGPERPAFADIFGSSLDAYFDGDAEVEALYY  162 (348)
T ss_dssp             -----TTEEEECTTTGGGSTTSS-SCSHHHHHHHTSHHHHHHHHTHHHHTCTTCCCHHHHHSSCHHHHHTTCHHHHHHHH
T ss_pred             -----CCEEecCHHHHHHhcCCC-ccHHHHHHHhcCHHHHHHHHHHHHHHhcCCChhhHHhCCCHHHHHHhCHHHHHHHH
Confidence                 889999999999987766 47888888766655789999999999999999999999999999999999999999


Q ss_pred             HHHhhhhHHHHHHHHHhcCCCCCCCeEEEecCCccHHHHHHHhhCCCC
Q 036971          174 NGMIGQTSFVINKIVESYKGFQNITRLVDVGGGLGITLSDHNFQIPSY  221 (221)
Q Consensus       174 ~aM~~~~~~~~~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l  221 (221)
                      ++|...+....+.+++.++ |++..+|||||||+|.++..+++++|++
T Consensus       163 ~~m~~~~~~~~~~~~~~~~-~~~~~~vLDvG~G~G~~~~~l~~~~p~~  209 (348)
T 3lst_A          163 EGMETVSAAEHLILARAGD-FPATGTVADVGGGRGGFLLTVLREHPGL  209 (348)
T ss_dssp             HHHHHHHHTTHHHHHHHSC-CCSSEEEEEETCTTSHHHHHHHHHCTTE
T ss_pred             HHHHHhhhhhHHHHHHhCC-ccCCceEEEECCccCHHHHHHHHHCCCC
Confidence            9999998888888999999 9999999999999999999999999973

>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=2.3e-32  Score=237.31  Aligned_cols=202  Identities=23%  Similarity=0.351  Sum_probs=177.1

Q ss_pred             chhHHHHHHHHHHHhhhHHHHHHHHHHhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceee
Q 036971           13 NEEEEVYSHAMVLGSAIVLPAVFQAVVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCC   92 (221)
Q Consensus        13 ~~~~~~~~~l~~~~~g~~~~~aL~~av~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~   92 (221)
                      .|+.++...+++++++++.+++|++|+++|||+.|++.|  +++|++|||+++|+ +|. +++.|+|+||+|++.|+|.+
T Consensus         5 ~~~~~~~~~l~~~~~~~~~~~~l~~a~~lgif~~L~~~~--~~~t~~eLA~~~g~-~~~-~~~~l~rlLr~L~~~gll~~   80 (358)
T 1zg3_A            5 SELYHAQIHLYKHVYNFVSSMALKSAMELGIADAIHNHG--KPMTLSELASSLKL-HPS-KVNILHRFLRLLTHNGFFAK   80 (358)
T ss_dssp             SCCTTHHHHHHHHHTTHHHHHHHHHHHHHTHHHHHHHHT--SCEEHHHHHHHTTC-CTT-THHHHHHHHHHHHHTTSEEE
T ss_pred             HHhhhHHHHHHHHHHHHHHHHHHHHHHHCChHhHHhhcC--CCcCHHHHHHhcCC-CCc-chHHHHHHHHHHhhCCcEEE
Confidence            467788899999999999999999999999999999864  59999999999999 765 55699999999999999998


Q ss_pred             ec----c-CCC-CcceeccccccccccCCCCCChHHHHHHhcCccchhhhhhhHHHHhcC--CchhHhhhCCchhhhhcc
Q 036971           93 SF----S-THG-VRLYSLAPVAKYYVSDQNGVSMRPYMNLSLDKVMMPGWFQLKDQILEG--ELSYNKALGMDFYDYLGT  164 (221)
Q Consensus        93 ~~----~-~~~-~~~y~lt~~s~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~~g--~~~f~~~~g~~~~~~l~~  164 (221)
                      ..    . .+. ++.|++|+.++.|+++++ .++++++.+..++.+++.|.+|++++++|  +++|+.++|.++|+|+.+
T Consensus        81 ~~~~~~~~~g~~~~~y~~t~~s~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~L~~~l~~g~~~~~~~~~~g~~~~~~~~~  159 (358)
T 1zg3_A           81 TIVKGKEGDEEEEIAYSLTPPSKLLISGKP-TCLSSIVKGALHPSSLDMWSSSKKWFNEDKEQTLFECATGESFWDFLNK  159 (358)
T ss_dssp             EEECCSSSSCCCEEEEEECHHHHTTCTTST-TCCHHHHHHHTSHHHHGGGGGHHHHHHCSCCCCHHHHHHSSCHHHHHTS
T ss_pred             ecccccccCCCCCCEEeCCHHHHHHhCCCC-ccHHHHHHHhcCcHHHHHHHHHHHHHhCCCCCChHHHHhCCCHHHHHhc
Confidence            51    0 000 479999999999988776 58899998876666788999999999998  789999999999999999


Q ss_pred             CchHHH--HHHHHHhhhhHHHHHHHHHhc--CCCCCCCeEEEecCCccHHHHHHHhhCCCC
Q 036971          165 DSRFNE--VFNNGMIGQTSFVINKIVESY--KGFQNITRLVDVGGGLGITLSDHNFQIPSY  221 (221)
Q Consensus       165 ~p~~~~--~F~~aM~~~~~~~~~~~l~~~--~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l  221 (221)
                      +|+..+  .|+++|...+.... .+++.|  + |++..+|||||||+|.++..+++++|++
T Consensus       160 ~p~~~~~~~f~~~m~~~~~~~~-~~~~~~~~~-~~~~~~vlDvG~G~G~~~~~l~~~~p~~  218 (358)
T 1zg3_A          160 DSESSTLSMFQDAMASDSRMFK-LVLQENKRV-FEGLESLVDVGGGTGGVTKLIHEIFPHL  218 (358)
T ss_dssp             GGGHHHHHHHHHHHHHHHHTHH-HHHHHTHHH-HHTCSEEEEETCTTSHHHHHHHHHCTTS
T ss_pred             ChhhhhHHHHHHHHhcccHHHH-HHHHhcchh-ccCCCEEEEECCCcCHHHHHHHHHCCCC
Confidence            999999  99999998887766 788888  4 7778899999999999999999999974

>3gwz_A MMCR; methyltransferase, mitomycin, S-adenosyl methionine, transferase; HET: MSE SAH; 1.91A {Streptomyces lavendulae} PDB: 3gxo_A*

Probab=99.98  E-value=4.7e-32  Score=236.53  Aligned_cols=191  Identities=18%  Similarity=0.286  Sum_probs=175.7

Q ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeecc
Q 036971           16 EEVYSHAMVLGSAIVLPAVFQAVVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFS   95 (221)
Q Consensus        16 ~~~~~~l~~~~~g~~~~~aL~~av~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~   95 (221)
                      .+...++++++.+++.+++|++|+++||||.|++    +|+|++|||+++|+ +++    .++||||+|++.|+|+++  
T Consensus        36 ~~~~~~l~~l~~~~~~~~~l~~a~~lglf~~l~~----g~~t~~eLA~~~g~-~~~----~l~rlLr~L~~~g~l~~~--  104 (369)
T 3gwz_A           36 AAAEETVNDILQGAWKARAIHVAVELGVPELLQE----GPRTATALAEATGA-HEQ----TLRRLLRLLATVGVFDDL--  104 (369)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHTTGGGGTT----SCEEHHHHHHHHTC-CHH----HHHHHHHHHHHTTSSEEC--
T ss_pred             ChHHHHHHHHHHHHHHHHHHHHHHHCChhhhhcC----CCCCHHHHHHHHCc-CHH----HHHHHHHHHHhCCCEEEe--
Confidence            4567889999999999999999999999999996    69999999999999 998    999999999999999997  


Q ss_pred             CCCCcc-eeccccccccccCCCCCChHHHHHHhcCccchhhhhhhHHHHhcCCchhHhhhCCchhhhhccCchHHHHHHH
Q 036971           96 THGVRL-YSLAPVAKYYVSDQNGVSMRPYMNLSLDKVMMPGWFQLKDQILEGELSYNKALGMDFYDYLGTDSRFNEVFNN  174 (221)
Q Consensus        96 ~~~~~~-y~lt~~s~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~~g~~~f~~~~g~~~~~~l~~~p~~~~~F~~  174 (221)
                        +++. |++|++++.|.++++ .++.+++.+..++..++.|.+|.+++++|+++|...+|.++|+|+.++|+..+.|++
T Consensus       105 --~~~~~y~~t~~s~~L~~~~~-~~~~~~~~~~~~~~~~~~~~~l~~~l~~g~~~~~~~~g~~~~~~~~~~~~~~~~f~~  181 (369)
T 3gwz_A          105 --GHDDLFAQNALSAVLLPDPA-SPVATDARFQAAPWHWRAWEQLTHSVRTGEASFDVANGTSFWQLTHEDPKARELFNR  181 (369)
T ss_dssp             --SSTTEEECCHHHHTTSCCTT-CHHHHHHHHHHSHHHHHHHHTHHHHHHHSSCSHHHHHSSCHHHHHHHCHHHHHHHHH
T ss_pred             --CCCceEecCHHHHHHhcCCc-hhHHHHHHHcCCHHHHHHHHhHHHHHhCCCChhHhhcCCCHHHHHHhCHHHHHHHHH
Confidence              5788 999999999887766 478888887665446789999999999999999999999999999999999999999


Q ss_pred             HHhhhhHHHHHHHHHhcCCCCCCCeEEEecCCccHHHHHHHhhCCCC
Q 036971          175 GMIGQTSFVINKIVESYKGFQNITRLVDVGGGLGITLSDHNFQIPSY  221 (221)
Q Consensus       175 aM~~~~~~~~~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l  221 (221)
                      +|...+...++.+++.++ |++..+|||||||+|.++..+++++|++
T Consensus       182 ~m~~~~~~~~~~l~~~~~-~~~~~~vlDvG~G~G~~~~~l~~~~p~~  227 (369)
T 3gwz_A          182 AMGSVSLTEAGQVAAAYD-FSGAATAVDIGGGRGSLMAAVLDAFPGL  227 (369)
T ss_dssp             HHHHHHHHHHHHHHHHSC-CTTCSEEEEETCTTSHHHHHHHHHCTTC
T ss_pred             HHHHHHhhhHHHHHHhCC-CccCcEEEEeCCCccHHHHHHHHHCCCC
Confidence            999988888888999999 9999999999999999999999999974

>2ip2_A Probable phenazine-specific methyltransferase; pyocyanin, phenazine-1-carboxy PHZM; 1.80A {Pseudomonas aeruginosa}

Probab=99.97  E-value=2.8e-31  Score=228.01  Aligned_cols=186  Identities=22%  Similarity=0.312  Sum_probs=170.6

Q ss_pred             HHHHHHHHHHhhhHHHHHHHHHHhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccC
Q 036971           17 EVYSHAMVLGSAIVLPAVFQAVVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFST   96 (221)
Q Consensus        17 ~~~~~l~~~~~g~~~~~aL~~av~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~   96 (221)
                      .++..+++++++++.+++|++++++|||+.|.+    +++|++|||+++|+ +++    .++|+||+|++.|+|.+.   
T Consensus         7 ~~~~~l~~~~~~~~~~~~l~~~~~lgi~~~l~~----~~~t~~ela~~~~~-~~~----~l~r~Lr~L~~~g~l~~~---   74 (334)
T 2ip2_A            7 AAARNLIQVVTGEWKSRCVYVATRLGLADLIES----GIDSDETLAAAVGS-DAE----RIHRLMRLLVAFEIFQGD---   74 (334)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHTTHHHHHHT----TCCSHHHHHHHHTC-CHH----HHHHHHHHHHHTTSEEEE---
T ss_pred             ccHHHHHHHHHHHHHHHHHHHHHHcCcHHHHhC----CCCCHHHHHHHhCc-CHH----HHHHHHHHHHhCCceEec---
Confidence            567899999999999999999999999999986    59999999999999 988    999999999999999997   


Q ss_pred             CCCcceeccccccccccCCCCCChHHHHHHhcCccchhhhhhhHHHHhcCCchhHhhhCCchhhhhccCchHHHHHHHHH
Q 036971           97 HGVRLYSLAPVAKYYVSDQNGVSMRPYMNLSLDKVMMPGWFQLKDQILEGELSYNKALGMDFYDYLGTDSRFNEVFNNGM  176 (221)
Q Consensus        97 ~~~~~y~lt~~s~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~~g~~~f~~~~g~~~~~~l~~~p~~~~~F~~aM  176 (221)
                       +++.|++|+.++.|. ++| .++.+++.+..++. ++.|.+|++++++++++|+..+|.++|+++.++|+..+.|+++|
T Consensus        75 -~~~~y~~t~~s~~l~-~~~-~~~~~~~~~~~~~~-~~~~~~l~~~l~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~m  150 (334)
T 2ip2_A           75 -TRDGYANTPTSHLLR-DVE-GSFRDMVLFYGEEF-HAAWTPACEALLSGTPGFELAFGEDFYSYLKRCPDAGRRFLLAM  150 (334)
T ss_dssp             -TTTEEEECHHHHTTS-SST-TCSHHHHHHHTTHH-HHHTTTHHHHHHHCCCHHHHHHSSCHHHHHHHCHHHHHHHHHHH
T ss_pred             -CCCeEecCHHHHHHh-CCC-ccHHHHHHHhcCch-hhHHHHHHHHHhcCCChhhhhcCCCHHHHHhhChHHHHHHHHHH
Confidence             578999999999888 666 47889988776543 48899999999999999999999999999999999999999999


Q ss_pred             hhhhHHHHHHHHHhcCCCCCCCeEEEecCCccHHHHHHHhhCCCC
Q 036971          177 IGQTSFVINKIVESYKGFQNITRLVDVGGGLGITLSDHNFQIPSY  221 (221)
Q Consensus       177 ~~~~~~~~~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l  221 (221)
                       ..+....+.+++.++ |++ .+|||||||+|.++..+++++|++
T Consensus       151 -~~~~~~~~~~~~~~~-~~~-~~vlDvG~G~G~~~~~l~~~~p~~  192 (334)
T 2ip2_A          151 -KASNLAFHEIPRLLD-FRG-RSFVDVGGGSGELTKAILQAEPSA  192 (334)
T ss_dssp             -GGGHHHHHHHHHHSC-CTT-CEEEEETCTTCHHHHHHHHHCTTC
T ss_pred             -HHHHHHHHHHHHhCC-CCC-CEEEEeCCCchHHHHHHHHHCCCC
Confidence             888877888999998 888 999999999999999999999863

>3i53_A O-methyltransferase; CO-complex, rossmann-like fold; HET: SAH; 2.08A {Streptomyces carzinostaticus subsp} PDB: 3i58_A* 3i5u_A* 3i64_A*

Probab=99.97  E-value=4.7e-32  Score=232.94  Aligned_cols=188  Identities=23%  Similarity=0.351  Sum_probs=170.3

Q ss_pred             HHHHHHHHhhhHHHHHHHHHHhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCC
Q 036971           19 YSHAMVLGSAIVLPAVFQAVVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHG   98 (221)
Q Consensus        19 ~~~l~~~~~g~~~~~aL~~av~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~   98 (221)
                      ...+++++.|++.+++|++|+++||||+|.+    +|+|++|||+++|+ +++    .++||||+|++.|++.++    +
T Consensus         6 ~~~l~~~~~g~~~~~~l~~a~~lglf~~l~~----g~~t~~elA~~~~~-~~~----~l~rlLr~l~~~gl~~~~----~   72 (332)
T 3i53_A            6 AHIGLRALADLATPMAVRVAATLRVADHIAA----GHRTAAEIASAAGA-HAD----SLDRLLRHLVAVGLFTRD----G   72 (332)
T ss_dssp             CSSCHHHHTCCHHHHHHHHHHHHTHHHHHHT----TCCBHHHHHHHHTC-CHH----HHHHHHHHHHHTTSEEEC----T
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHcChHHHHhc----CCCCHHHHHHHHCc-CHH----HHHHHHHHHHhCCcEEec----C
Confidence            4567899999999999999999999999987    69999999999999 998    999999999999999997    6


Q ss_pred             CcceeccccccccccCCCCCChHHHHHHhcCccch-hhhhhhHHHHhcCCchhHhhhCCchhhhhccCchHHHHHHHHHh
Q 036971           99 VRLYSLAPVAKYYVSDQNGVSMRPYMNLSLDKVMM-PGWFQLKDQILEGELSYNKALGMDFYDYLGTDSRFNEVFNNGMI  177 (221)
Q Consensus        99 ~~~y~lt~~s~~L~~~~~~~~~~~~~~~~~~~~~~-~~~~~L~~~l~~g~~~f~~~~g~~~~~~l~~~p~~~~~F~~aM~  177 (221)
                      ++.|.+|++++.|..+++ .++.+++.+..+...+ +.|.+|++++++++++|+..+|.++|+|+.++|+..+.|+++|.
T Consensus        73 ~~~y~~t~~s~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~m~  151 (332)
T 3i53_A           73 QGVYGLTEFGEQLRDDHA-AGKRKWLDMNSAVGRGDLGFVELAHSIRTGQPAYPVRYGTSFWEDLGSDPVLSASFDTLMS  151 (332)
T ss_dssp             TSBEEECTTGGGGSTTCT-TCCHHHHCTTSHHHHHGGGGGGHHHHHHHSSCSHHHHHSSCHHHHHHHCHHHHHHHHHHHH
T ss_pred             CCeEEcCHhHHHHhcCCc-hhHHHHHHHcCCHhHHHHHHHHhHHHHhcCCCHHHHhhCCCHHHHHHhCHHHHHHHHHHHH
Confidence            899999999999987765 4788888766433345 78999999999999999999998999999999999999999999


Q ss_pred             hhhHHHHHHHHHhcCCCCCCCeEEEecCCccHHHHHHHhhCCCC
Q 036971          178 GQTSFVINKIVESYKGFQNITRLVDVGGGLGITLSDHNFQIPSY  221 (221)
Q Consensus       178 ~~~~~~~~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l  221 (221)
                      ..+....+.+++.++ |++..+|||||||+|.++..+++++|++
T Consensus       152 ~~~~~~~~~~~~~~~-~~~~~~vlDvG~G~G~~~~~l~~~~p~~  194 (332)
T 3i53_A          152 HHLELDYTGIAAKYD-WAALGHVVDVGGGSGGLLSALLTAHEDL  194 (332)
T ss_dssp             HHHHHHHTTGGGSSC-CGGGSEEEEETCTTSHHHHHHHHHCTTC
T ss_pred             HhHHhhHHHHHHhCC-CCCCCEEEEeCCChhHHHHHHHHHCCCC
Confidence            988877778888999 9888999999999999999999999974

>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=99.97  E-value=2.1e-30  Score=226.12  Aligned_cols=208  Identities=32%  Similarity=0.586  Sum_probs=161.5

Q ss_pred             chhHHHHHHHH--HHHhhhHHHHHHHHHHhhChhhHHHhcC-CCCCCCHHHHHhhCCCC--CCcchhhhHHHHHHHHhcC
Q 036971           13 NEEEEVYSHAM--VLGSAIVLPAVFQAVVNLDVLDIINKAG-PGAELSASEIASQIPTK--NPEGAAKMLDRVLGLLVSF   87 (221)
Q Consensus        13 ~~~~~~~~~l~--~~~~g~~~~~aL~~av~lglfd~L~~~g-~~~~~t~~eLA~~~g~~--~~~~~~~~l~rlLr~L~~~   87 (221)
                      ++..+++..++  +++.+++.+++|++|+++|||+.|++.| +|+++|++|||+++|++  +|. +++.|+|+||+|++.
T Consensus        17 ~~~~~~~~~l~~~~l~~~~~~~~~l~~a~~lgif~~L~~~g~pg~~~t~~eLA~~~~~~~~~~~-~~~~l~rlLr~L~~~   95 (372)
T 1fp1_D           17 SEQTEDSACLSAMVLTTNLVYPAVLNAAIDLNLFEIIAKATPPGAFMSPSEIASKLPASTQHSD-LPNRLDRMLRLLASY   95 (372)
T ss_dssp             --CCHHHHHHHHHHHHHTTHHHHHHHHHHHTTHHHHHHTCSSTTCCBCHHHHHTTSCGGGCCTT-HHHHHHHHHHHHHHT
T ss_pred             hhhhhHHHHHHHHHHHHHHHHHHHHHHHHHCChHHHHHhcCCCCCCcCHHHHHHhcCCCCCCCc-ChHHHHHHHHHHhhC
Confidence            34556788888  9999999999999999999999999853 11229999999999971  222 345899999999999


Q ss_pred             Cceeeecc--CCC--CcceeccccccccccCCCCCChHHHHHHhcCccchhhhhhhHHHHhcC-CchhHhhhCCchhhhh
Q 036971           88 NILCCSFS--THG--VRLYSLAPVAKYYVSDQNGVSMRPYMNLSLDKVMMPGWFQLKDQILEG-ELSYNKALGMDFYDYL  162 (221)
Q Consensus        88 gll~~~~~--~~~--~~~y~lt~~s~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~~g-~~~f~~~~g~~~~~~l  162 (221)
                      |+|++...  .++  ++.|++|+.++.|+.++++.++++++.+..++.+++.|.+|++++++| +++|+..+|.++|+|+
T Consensus        96 gll~~~~~~~~~g~~~~~y~~t~~s~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~~g~~~~~~~~~g~~~~~~~  175 (372)
T 1fp1_D           96 SVLTSTTRTIEDGGAERVYGLSMVGKYLVPDESRGYLASFTTFLCYPALLQVWMNFKEAVVDEDIDLFKNVHGVTKYEFM  175 (372)
T ss_dssp             TSEEEEEEECTTSCEEEEEEECTTGGGGSTTCTTCCCTHHHHHHTCHHHHHHHTTHHHHHHSCC--------------CC
T ss_pred             CceEecccccCCCCcCCeEecCHHHHHHhCCCCCCCHHHHHHHhcCchHHHHHHHHHHHHHcCCCChhHHHhCCCHHHHH
Confidence            99998510  001  469999999998887765236888888776656788999999999999 8999999999999999


Q ss_pred             ccCchHHHHHHHHHhhhhHHHHHHHHHhcCCCCCCCeEEEecCCccHHHHHHHhhCCCC
Q 036971          163 GTDSRFNEVFNNGMIGQTSFVINKIVESYKGFQNITRLVDVGGGLGITLSDHNFQIPSY  221 (221)
Q Consensus       163 ~~~p~~~~~F~~aM~~~~~~~~~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l  221 (221)
                      .++|+..+.|+.+|...+...++.+++.|+.|++..+|||||||+|.++..+++++|++
T Consensus       176 ~~~~~~~~~f~~~m~~~~~~~~~~l~~~~~~~~~~~~vLDvG~G~G~~~~~l~~~~~~~  234 (372)
T 1fp1_D          176 GKDKKMNQIFNKSMVDVCATEMKRMLEIYTGFEGISTLVDVGGGSGRNLELIISKYPLI  234 (372)
T ss_dssp             SSCHHHHHHHHHHHHHHHHHHHHHHHHHCCTTTTCSEEEEETCTTSHHHHHHHHHCTTC
T ss_pred             HhCHHHHHHHHHHHHhhhHHHHHHHHHHhhccCCCCEEEEeCCCCcHHHHHHHHHCCCC
Confidence            99999999999999998888778889998658888999999999999999999999974

>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=99.97  E-value=4.1e-30  Score=223.80  Aligned_cols=192  Identities=17%  Similarity=0.286  Sum_probs=171.2

Q ss_pred             hHHHHHHHHHHHhhhHHHHHHHHHHhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeec
Q 036971           15 EEEVYSHAMVLGSAIVLPAVFQAVVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSF   94 (221)
Q Consensus        15 ~~~~~~~l~~~~~g~~~~~aL~~av~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~   94 (221)
                      ..+....+++++.+++.+++|++++++|||+.|..    +++|++|||+++|+ +++    .+.|+||+|++.|+|.+. 
T Consensus        13 ~~~~~~~l~~~~~~~~~~~~l~~~~~l~i~~~l~~----~~~t~~eLA~~~g~-~~~----~l~r~Lr~L~~~Gll~~~-   82 (374)
T 1qzz_A           13 TDQDLDVLLKNLGNLVTPMALRVAATLRLVDHLLA----GADTLAGLADRTDT-HPQ----ALSRLVRHLTVVGVLEGG-   82 (374)
T ss_dssp             CHHHHHHHHHTTTCCHHHHHHHHHHHTTHHHHHHT----TCCSHHHHHHHHTC-CHH----HHHHHHHHHHHTTSEECC-
T ss_pred             CchHHHHHHHHHHhhHHHHHHHHHHHcChHHHHhC----CCCCHHHHHHHhCc-CHH----HHHHHHHHHhhCCCEEEe-
Confidence            45567789999999999999999999999999965    69999999999999 888    999999999999999986 


Q ss_pred             cCCCCc--ceeccccccccccCCCCCChHHHHHHhcCccch-hhhhhhHHHHhcCCchhHhhhCCchhhhhccCchHHHH
Q 036971           95 STHGVR--LYSLAPVAKYYVSDQNGVSMRPYMNLSLDKVMM-PGWFQLKDQILEGELSYNKALGMDFYDYLGTDSRFNEV  171 (221)
Q Consensus        95 ~~~~~~--~y~lt~~s~~L~~~~~~~~~~~~~~~~~~~~~~-~~~~~L~~~l~~g~~~f~~~~g~~~~~~l~~~p~~~~~  171 (221)
                         +++  .|++|++++.|..+++ .++.+++.+..++..+ +.|.+|.+.+++|+++|+..+|.++|+++.++|+....
T Consensus        83 ---~~~~~~y~~t~~s~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~g~~~~~~~~~~~~~~~~  158 (374)
T 1qzz_A           83 ---EKQGRPLRPTRLGMLLADGHP-AQQRAWLDLNGAVSHADLAFTGLLDVVRTGRPAYAGRYGRPFWEDLSADVALADS  158 (374)
T ss_dssp             ---CC-CCCCEECTTGGGGSTTCT-TCHHHHHCTTSHHHHHHGGGGGHHHHHHHSCCSHHHHHSSCHHHHHHHCHHHHHH
T ss_pred             ---CCCCeEEEEChHHHhhcCCCc-ccHHHHHHHcCChhhHHHHHHHHHHHHhcCCChhhhhhCCCHHHHHhhChHHHHH
Confidence               466  9999999999988776 5788888776433355 88999999999999999999999999999999999999


Q ss_pred             HHHHHhhhhHHHHHHHHHhcCCCCCCCeEEEecCCccHHHHHHHhhCCCC
Q 036971          172 FNNGMIGQTSFVINKIVESYKGFQNITRLVDVGGGLGITLSDHNFQIPSY  221 (221)
Q Consensus       172 F~~aM~~~~~~~~~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l  221 (221)
                      |+++|...+....+.+++.++ ++...+|||||||+|.++..+++.+|++
T Consensus       159 f~~~~~~~~~~~~~~~~~~~~-~~~~~~vlDvG~G~G~~~~~l~~~~~~~  207 (374)
T 1qzz_A          159 FDALMSCDEDLAYEAPADAYD-WSAVRHVLDVGGGNGGMLAAIALRAPHL  207 (374)
T ss_dssp             HHHTCGGGSTTTTHHHHHTSC-CTTCCEEEEETCTTSHHHHHHHHHCTTC
T ss_pred             HHHHHHHhhHhHHHHHHHhCC-CCCCCEEEEECCCcCHHHHHHHHHCCCC
Confidence            999999887766678889998 8888999999999999999999999863

>3dp7_A SAM-dependent methyltransferase; structural genomics, protein structure initiative, NEW YORK structural genomix research; 2.33A {Bacteroides vulgatus}

Probab=99.96  E-value=8.6e-30  Score=221.74  Aligned_cols=191  Identities=17%  Similarity=0.194  Sum_probs=160.0

Q ss_pred             CCchhHHHHHHHHHHHhhhHHHHHHHHHHhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCce
Q 036971           11 VTNEEEEVYSHAMVLGSAIVLPAVFQAVVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNIL   90 (221)
Q Consensus        11 ~~~~~~~~~~~l~~~~~g~~~~~aL~~av~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll   90 (221)
                      .+.++.++...++++++|++.+++|++++++||||+|++.+  +|+|++|||+++|+ +++    .++||||+|++.|+|
T Consensus         8 ~~~~~~~a~~~l~~l~~g~~~~~~l~~a~~lgifd~L~~~~--~~~t~~eLA~~~g~-~~~----~l~rlLr~l~~~g~l   80 (363)
T 3dp7_A            8 EQCTAAEAQRLAQEIAFGPVVFQVSRLMLKFGIFQLLSGKR--EGYTLQEISGRTGL-TRY----AAQVLLEASLTIGTI   80 (363)
T ss_dssp             SCCCSTTHHHHHHHHHHHHHHHHHHHHHHHTTHHHHHHTCT--TCBCHHHHHHHHTC-CHH----HHHHHHHHHHHHTSE
T ss_pred             CchhHHHHHHHHHHHHhhHHHHHHHHHHHHhCHHHHHHhcC--CCCCHHHHHHHhCc-CHH----HHHHHHHHHhhCCCe
Confidence            45667788999999999999999999999999999999854  69999999999999 998    999999999999999


Q ss_pred             eeeccCCCCcceeccccccccccCCCCCChHHHHHHhcCccchhhhhhhHHHHhcCCchhHhhhC--CchhhhhccCchH
Q 036971           91 CCSFSTHGVRLYSLAPVAKYYVSDQNGVSMRPYMNLSLDKVMMPGWFQLKDQILEGELSYNKALG--MDFYDYLGTDSRF  168 (221)
Q Consensus        91 ~~~~~~~~~~~y~lt~~s~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~~g~~~f~~~~g--~~~~~~l~~~p~~  168 (221)
                      +++     +++|++|+.++.|+.+++   ...++.+. .+..+++|.+|++++++|++++...+|  .++|+++.++|+.
T Consensus        81 ~~~-----~~~y~~t~~s~~L~~~~~---~~~~~~~~-~~~~~~~~~~L~~~lr~g~~~~~~~~g~~~~~~~~~~~~~~~  151 (363)
T 3dp7_A           81 LLE-----EDRYVLAKAGWFLLNDKM---ARVNMEFN-HDVNYQGLFHLEEALLNGRPEGLKVFGEWPTIYEGLSQLPEQ  151 (363)
T ss_dssp             EEE-----TTEEEECHHHHHHHHCHH---HHHHHHHH-HHTTHHHHTTHHHHHHHSSCGGGGGTCCCSSHHHHGGGSCHH
T ss_pred             Eec-----CCEEecccchHHhhCCCc---ccchheee-cHHhhhhHHHHHHHHhcCCCccccccCchHhHHHHHhhCHHH
Confidence            885     789999999998887653   22233333 345789999999999999999888888  6899999999998


Q ss_pred             HH----HHHHHHhhhhHHHHHHHHHhcCCCCCCCeEEEecCCccHHHHHHHhhCCCC
Q 036971          169 NE----VFNNGMIGQTSFVINKIVESYKGFQNITRLVDVGGGLGITLSDHNFQIPSY  221 (221)
Q Consensus       169 ~~----~F~~aM~~~~~~~~~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l  221 (221)
                      .+    .|+++|.....   ..+++.+. ..+..+|||||||+|.++..+++++|++
T Consensus       152 ~~~~~~~f~~~~~~~~~---~~~l~~~~-~~~~~~vlDvG~G~G~~~~~l~~~~p~~  204 (363)
T 3dp7_A          152 VQKSWFGFDHFYSDQSF---GKALEIVF-SHHPKRLLDIGGNTGKWATQCVQYNKEV  204 (363)
T ss_dssp             HHHHHHHHHHHTTCCCC---HHHHHHHG-GGCCSEEEEESCTTCHHHHHHHHHSTTC
T ss_pred             HHHHHHHHHHHhhhhhH---HHHHHHhc-ccCCCEEEEeCCCcCHHHHHHHHhCCCC
Confidence            76    47777765432   23344443 3567899999999999999999999974

>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=99.96  E-value=7.2e-29  Score=215.01  Aligned_cols=189  Identities=20%  Similarity=0.315  Sum_probs=170.0

Q ss_pred             HHHHHHHHHhhhHHHHHHHHHHhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCC
Q 036971           18 VYSHAMVLGSAIVLPAVFQAVVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTH   97 (221)
Q Consensus        18 ~~~~l~~~~~g~~~~~aL~~av~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~   97 (221)
                      ...++++++.+++.+++|.+++++|||+.|..    +++|++|||+++|+ +++    .+.|+||+|++.|+|.+.    
T Consensus        19 ~~~~~~~~~~~~~~~~~l~~~~~l~i~~~l~~----~~~t~~ela~~~~~-~~~----~l~r~L~~L~~~g~~~~~----   85 (360)
T 1tw3_A           19 DALRTLIRLGSLHTPMVVRTAATLRLVDHILA----GARTVKALAARTDT-RPE----ALLRLIRHLVAIGLLEED----   85 (360)
T ss_dssp             HHHHHHHHHHCSHHHHHHHHHHHTTHHHHHHT----TCCBHHHHHHHHTC-CHH----HHHHHHHHHHHTTSEEEE----
T ss_pred             chHHHHHHHHhHHHHHHHHHHHHhCHHHHHhC----CCCCHHHHHHHhCc-CHH----HHHHHHHHHHHCCCEEec----
Confidence            36788999999999999999999999999975    69999999999999 888    999999999999999996    


Q ss_pred             CCcceeccccccccccCCCCCChHHHHHHhcCcc-chhhhhhhHHHHhcCCchhHhhhCCchhhhhccCchHHHHHHHHH
Q 036971           98 GVRLYSLAPVAKYYVSDQNGVSMRPYMNLSLDKV-MMPGWFQLKDQILEGELSYNKALGMDFYDYLGTDSRFNEVFNNGM  176 (221)
Q Consensus        98 ~~~~y~lt~~s~~L~~~~~~~~~~~~~~~~~~~~-~~~~~~~L~~~l~~g~~~f~~~~g~~~~~~l~~~p~~~~~F~~aM  176 (221)
                      .++.|++|+.+..|..+++ .++.+++.+...+. .+..|.+|.+.+++|+++|+..+|.++|+++..+|+....|+.+|
T Consensus        86 ~~g~y~~t~~s~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~l~~~l~~g~~~~~~~~g~~~~~~~~~~p~~~~~f~~~~  164 (360)
T 1tw3_A           86 APGEFVPTEVGELLADDHP-AAQRAWHDLTQAVARADISFTRLPDAIRTGRPTYESIYGKPFYEDLAGRPDLRASFDSLL  164 (360)
T ss_dssp             ETTEEEECTTGGGGSTTST-TCHHHHTCTTSHHHHHGGGGGGHHHHHHHCCCCHHHHHSSCHHHHHHTCHHHHHHHHHHH
T ss_pred             CCCeEEeCHHHHHHhcCCc-hhHHHHHHHhcCchhHHHHHHHHHHHHHcCCCHHHHhcCCCHHHHHHhChHHHHHHHHHH
Confidence            5789999999999988776 57888877664332 568899999999999999998899999999999999999999999


Q ss_pred             hhhhHHHHHHHHHhcCCCCCCCeEEEecCCccHHHHHHHhhCCCC
Q 036971          177 IGQTSFVINKIVESYKGFQNITRLVDVGGGLGITLSDHNFQIPSY  221 (221)
Q Consensus       177 ~~~~~~~~~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l  221 (221)
                      ...+....+.+++.++ +....+|||||||+|.++..+++.+|++
T Consensus       165 ~~~~~~~~~~l~~~~~-~~~~~~vLDvG~G~G~~~~~l~~~~~~~  208 (360)
T 1tw3_A          165 ACDQDVAFDAPAAAYD-WTNVRHVLDVGGGKGGFAAAIARRAPHV  208 (360)
T ss_dssp             TTTTTTTTHHHHHHSC-CTTCSEEEEETCTTSHHHHHHHHHCTTC
T ss_pred             HHHHHHhHHHHHHhCC-CccCcEEEEeCCcCcHHHHHHHHhCCCC
Confidence            9887777778889998 8888999999999999999999999864

>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=99.95  E-value=9.7e-28  Score=208.16  Aligned_cols=185  Identities=15%  Similarity=0.230  Sum_probs=161.8

Q ss_pred             CCchhHHHHHHHHHHHh-hhHHHHHHHHHHhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCc
Q 036971           11 VTNEEEEVYSHAMVLGS-AIVLPAVFQAVVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNI   89 (221)
Q Consensus        11 ~~~~~~~~~~~l~~~~~-g~~~~~aL~~av~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gl   89 (221)
                      ..+|+.++..+++++++ +++.+++|++++++|||+.|++    +++|++|||+++|+ +++    .++|+||+|++.|+
T Consensus        23 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~a~~lgif~~L~~----~~~t~~eLA~~~g~-~~~----~l~rlLr~L~~~gl   93 (359)
T 1x19_A           23 SNNDLLNYYHRANELVFKGLIEFSCMKAAIELDLFSHMAE----GPKDLATLAADTGS-VPP----RLEMLLETLRQMRV   93 (359)
T ss_dssp             CCCHHHHHHHHHHHHHTHHHHHHHHHHHHHHHTHHHHHTT----CCBCHHHHHHHHTC-CHH----HHHHHHHHHHHTTS
T ss_pred             CccccCCcchHHHHHHHHHHHHHHHHHHHHHcCcHHHHcC----CCCCHHHHHHHhCc-ChH----HHHHHHHHHHhCCC
Confidence            34677888999999996 8999999999999999999997    59999999999999 888    99999999999999


Q ss_pred             eeeeccCCCCcceeccccc-cccccCCCC--CChHHHHHHhcCccchhhhhhhHHHHhcCCchhHhhhCCchhhhhccCc
Q 036971           90 LCCSFSTHGVRLYSLAPVA-KYYVSDQNG--VSMRPYMNLSLDKVMMPGWFQLKDQILEGELSYNKALGMDFYDYLGTDS  166 (221)
Q Consensus        90 l~~~~~~~~~~~y~lt~~s-~~L~~~~~~--~~~~~~~~~~~~~~~~~~~~~L~~~l~~g~~~f~~~~g~~~~~~l~~~p  166 (221)
                      |+++     ++.|++|+.+ .+|.++++.  .++++++.+.. ...++.|.+|++++++|++          |+++.++|
T Consensus        94 l~~~-----~~~y~~t~~~~~~l~~~~~~~~~~~~~~~~~~~-~~~~~~~~~L~~~l~~g~~----------~~~~~~~p  157 (359)
T 1x19_A           94 INLE-----DGKWSLTEFADYMFSPTPKEPNLHQTPVAKAMA-FLADDFYMGLSQAVRGQKN----------FKGQVPYP  157 (359)
T ss_dssp             EEEE-----TTEEEECHHHHHHSSSSCSBTTBCCHHHHHHHH-HHHHHTGGGHHHHHTTSCC----------CCCSSCSS
T ss_pred             eEee-----CCeEecCHHHHHHhcCCCCCccccHHHHHHHHH-HHHHHHHHHHHHHHhcCCC----------CcccccCc
Confidence            9996     5699999974 467766540  26788887653 4578899999999998764          77888899


Q ss_pred             h---HHHHHHHHHhhhhH-HHHHHHHHhcCCCCCCCeEEEecCCccHHHHHHHhhCCCC
Q 036971          167 R---FNEVFNNGMIGQTS-FVINKIVESYKGFQNITRLVDVGGGLGITLSDHNFQIPSY  221 (221)
Q Consensus       167 ~---~~~~F~~aM~~~~~-~~~~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l  221 (221)
                      +   ..+.|..+|...+. ..++.+++.++ +++..+|||||||+|.++..+++++|++
T Consensus       158 ~~~~~~~~f~~~m~~~~~~~~~~~l~~~~~-~~~~~~vLDvG~G~G~~~~~l~~~~p~~  215 (359)
T 1x19_A          158 PVTREDNLYFEEIHRSNAKFAIQLLLEEAK-LDGVKKMIDVGGGIGDISAAMLKHFPEL  215 (359)
T ss_dssp             CCSHHHHHHHHHHHHTTCHHHHHHHHHHCC-CTTCCEEEEESCTTCHHHHHHHHHCTTC
T ss_pred             hhhHHHHHHHHHHHHhccchhHHHHHHhcC-CCCCCEEEEECCcccHHHHHHHHHCCCC
Confidence            9   99999999998887 77788999999 8888999999999999999999999963

>2r3s_A Uncharacterized protein; methyltransferase domain, structural genomics, joint center structural genomics, JCSG, protein structure initiative; HET: MSE; 2.15A {Nostoc punctiforme}

Probab=99.95  E-value=9e-28  Score=205.77  Aligned_cols=180  Identities=14%  Similarity=0.148  Sum_probs=161.7

Q ss_pred             HHHHHHHhhhHHHHHHHHHHhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCC
Q 036971           20 SHAMVLGSAIVLPAVFQAVVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGV   99 (221)
Q Consensus        20 ~~l~~~~~g~~~~~aL~~av~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~   99 (221)
                      ..+++++.+++.+++|++++++|||+.|++    +++|++|||+++|+ +++    .++|+||+|++.|+|++.     +
T Consensus         8 ~~l~~~~~~~~~~~~l~~~~~l~i~~~l~~----~~~t~~ela~~~~~-~~~----~l~r~L~~L~~~g~l~~~-----~   73 (335)
T 2r3s_A            8 ALFFNTVNAYQRSAAIKAAVELNVFTAISQ----GIESSQSLAQKCQT-SER----GMRMLCDYLVIIGFMTKQ-----A   73 (335)
T ss_dssp             HHHHHHHTTHHHHHHHHHHHHTTHHHHHTT----SEECHHHHHHHHTC-CHH----HHHHHHHHHHHTTSEEEE-----T
T ss_pred             HHHHHHHHHHHHHHHHHHHHHcChHHHHhc----CCCCHHHHHHHhCC-Cch----HHHHHHHHHHhcCCeEec-----C
Confidence            578999999999999999999999999997    59999999999999 888    999999999999999984     7


Q ss_pred             cceeccccc-cccccCCCCCChHHHHHHhcCccchhhhhhhHHHHhcCCchhHhhhCCchhhhhccCchHHHHHHHHHhh
Q 036971          100 RLYSLAPVA-KYYVSDQNGVSMRPYMNLSLDKVMMPGWFQLKDQILEGELSYNKALGMDFYDYLGTDSRFNEVFNNGMIG  178 (221)
Q Consensus       100 ~~y~lt~~s-~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~~g~~~f~~~~g~~~~~~l~~~p~~~~~F~~aM~~  178 (221)
                      +.|++|+.+ ..|.++++ .++++++.+..++..++.|.+|++++++|+++|+     + |+++.++|+..+.|.+.|..
T Consensus        74 ~~y~~t~~~~~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~-----~-~~~~~~~~~~~~~~~~~~~~  146 (335)
T 2r3s_A           74 EGYRLTSDSAMFLDRQSK-FYVGDAIEFLLSPMITNGFNDLTAAVLKGGTAIS-----S-EGTLSPEHPVWVQFAKAMSP  146 (335)
T ss_dssp             TEEEECHHHHHHTCTTST-TCCGGGHHHHTCHHHHGGGTTHHHHHHHTSCCST-----T-TGGGSTTCTHHHHHHHHSGG
T ss_pred             CEEecCHHHHHHhccCCc-HHHHHHHHHhcchhhHHHHHhHHHHHhcCCCCCC-----C-cccccCCHHHHHHHHHHHHH
Confidence            999999999 67887766 5788888887554578899999999999988764     3 88888999999999999999


Q ss_pred             hhHHHHHHHHHhcCCC--CCCCeEEEecCCccHHHHHHHhhCCCC
Q 036971          179 QTSFVINKIVESYKGF--QNITRLVDVGGGLGITLSDHNFQIPSY  221 (221)
Q Consensus       179 ~~~~~~~~~l~~~~~~--~~~~~vvDVGGG~G~~~~~l~~~~P~l  221 (221)
                      .....+..+++.++ +  .+..+|||||||+|.++..+++.+|+.
T Consensus       147 ~~~~~~~~~~~~~~-~~~~~~~~vlDvG~G~G~~~~~l~~~~p~~  190 (335)
T 2r3s_A          147 MMANPAQLIAQLVN-ENKIEPLKVLDISASHGLFGIAVAQHNPNA  190 (335)
T ss_dssp             GGHHHHHHHHHHHT-C--CCCSEEEEETCTTCHHHHHHHHHCTTC
T ss_pred             HHhhhHHHHHHhcc-cccCCCCEEEEECCCcCHHHHHHHHHCCCC
Confidence            88887888899998 7  788999999999999999999999863

>3mcz_A O-methyltransferase; adomet_mtases, S-adenosylmethionine-dependent methyltransfer structural genomics, PSI-2; HET: MSE; 1.90A {Burkholderia thailandensis}

Probab=99.94  E-value=2.8e-26  Score=198.17  Aligned_cols=178  Identities=13%  Similarity=0.218  Sum_probs=149.9

Q ss_pred             HHHHHHHHHhhhHHHHHHHHHHhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCC
Q 036971           18 VYSHAMVLGSAIVLPAVFQAVVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTH   97 (221)
Q Consensus        18 ~~~~l~~~~~g~~~~~aL~~av~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~   97 (221)
                      .+..+++++.+++.+++|++|+++|||++|.+     ++|++|||+++|+ +++    .++|+||+|++.|+|+++    
T Consensus        24 ~p~~l~~~~~~~~~~~~l~~a~~lgif~~l~~-----~~t~~elA~~~~~-~~~----~l~rlLr~L~~~gll~~~----   89 (352)
T 3mcz_A           24 SVVDLVKLSDQYRQSAILHYAVADKLFDLTQT-----GRTPAEVAASFGM-VEG----KAAILLHALAALGLLTKE----   89 (352)
T ss_dssp             SHHHHHHHHHTHHHHHHHHHHHHTTHHHHTTS-----CBCHHHHHHHHTC-CHH----HHHHHHHHHHHTTSEEEE----
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHHCChHHHhCC-----CCCHHHHHHHhCc-ChH----HHHHHHHHHHHCCCeEec----
Confidence            34449999999999999999999999999964     8999999999999 998    999999999999999996    


Q ss_pred             CCcceeccccccc-cccCCCCCChHHHHHHhcCccchhhhhhhHHHHhcCCch-hHhhhCCchhhhhccCchHHHHHHHH
Q 036971           98 GVRLYSLAPVAKY-YVSDQNGVSMRPYMNLSLDKVMMPGWFQLKDQILEGELS-YNKALGMDFYDYLGTDSRFNEVFNNG  175 (221)
Q Consensus        98 ~~~~y~lt~~s~~-L~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~~g~~~-f~~~~g~~~~~~l~~~p~~~~~F~~a  175 (221)
                       ++.|.+|+.++. |.+++| .++++++.+.  ...++.|.+|++++++|++. |+..      .++.++|+..+.|..+
T Consensus        90 -~~~y~~t~~s~~~l~~~~~-~~~~~~~~~~--~~~~~~~~~l~~~l~~g~~~~f~~~------~~~~~~~~~~~~f~~~  159 (352)
T 3mcz_A           90 -GDAFRNTALTERYLTTTSA-DYIGPIVEHQ--YLQWDNWPRLGEILRSEKPLAFQQE------SRFAHDTRARDAFNDA  159 (352)
T ss_dssp             -TTEEEECHHHHHHHSTTCT-TCCHHHHHHH--HTTTTTGGGHHHHHTCSSCCTTSHH------HHTTTCHHHHHHHHHH
T ss_pred             -CCeeecCHHHHhhccCCCh-hhHHHHHHHh--HHHHHHHHHHHHHHhCCCCCCcccc------cccccCHHHHHHHHHH
Confidence             578999999984 556666 5788887664  24688999999999998754 3322      2335789999999999


Q ss_pred             HhhhhHHHHHHHHHhcCCCCC-CCeEEEecCCccHHHHHHHhhCCCC
Q 036971          176 MIGQTSFVINKIVESYKGFQN-ITRLVDVGGGLGITLSDHNFQIPSY  221 (221)
Q Consensus       176 M~~~~~~~~~~~l~~~~~~~~-~~~vvDVGGG~G~~~~~l~~~~P~l  221 (221)
                      |...... +..+++.++ +.+ ..+|||||||+|.++..+++++|++
T Consensus       160 m~~~~~~-~~~~l~~~~-~~~~~~~vlDvG~G~G~~~~~l~~~~p~~  204 (352)
T 3mcz_A          160 MVRLSQP-MVDVVSELG-VFARARTVIDLAGGHGTYLAQVLRRHPQL  204 (352)
T ss_dssp             HHHHHHH-HHHHHHTCG-GGTTCCEEEEETCTTCHHHHHHHHHCTTC
T ss_pred             HHhhhhh-HHHHHHhCC-CcCCCCEEEEeCCCcCHHHHHHHHhCCCC
Confidence            9874332 336888998 877 8999999999999999999999974

>2qm3_A Predicted methyltransferase; putative methyltransferase, structural genomics, pyrococcus PSI-2, protein structure initiative; HET: MSE; 2.05A {Pyrococcus furiosus dsm 3638}

Probab=98.22  E-value=6.1e-07  Score=77.77  Aligned_cols=54  Identities=13%  Similarity=0.057  Sum_probs=46.8

Q ss_pred             ChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceecccccccc
Q 036971           42 DVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPVAKYY  111 (221)
Q Consensus        42 glfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~~s~~L  111 (221)
                      ++|..| .    ++.|+.+||+.+|+ +++    .++++|+.|++.|+++..     ++ |++|+.+..+
T Consensus        47 ~ll~~L-~----~~~t~~eLa~~~g~-~~~----~v~~~L~~l~~~gll~~~-----~~-~~lt~~~~~~  100 (373)
T 2qm3_A           47 NVLSAV-L----ASDDIWRIVDLSEE-PLP----LVVAILESLNELGYVTFE-----DG-VKLTEKGEEL  100 (373)
T ss_dssp             HHHHHH-H----HCSCHHHHHHHHTS-CHH----HHHHHHHHHHHTTSEECS-----SS-SEECHHHHHH
T ss_pred             HHHHHh-c----CCCCHHHHHHHhCC-ChH----HHHHHHHHHhhCCcEEEC-----CC-EEECHHHHHH
Confidence            678888 4    48999999999999 887    999999999999999874     35 9999977643

>2heo_A Z-DNA binding protein 1; protein DLM1-Z-DNA complex, immune system-DNA complex; 1.70A {Mus musculus} PDB: 1j75_A

Probab=97.35  E-value=9.9e-05  Score=48.00  Aligned_cols=55  Identities=13%  Similarity=0.276  Sum_probs=46.5

Q ss_pred             hhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceecc
Q 036971           40 NLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLA  105 (221)
Q Consensus        40 ~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt  105 (221)
                      +..|.+.|.+.+  .+++..|||+.+|+ +..    .+.+.|..|...|++...    ..+.|+++
T Consensus        12 ~~~IL~~L~~~~--~~~s~~eLA~~lgl-sr~----tv~~~l~~L~~~G~I~~~----~~G~y~lg   66 (67)
T 2heo_A           12 EQKILQVLSDDG--GPVAIFQLVKKCQV-PKK----TLNQVLYRLKKEDRVSSP----SPKYWSIG   66 (67)
T ss_dssp             HHHHHHHHHHHC--SCEEHHHHHHHHCS-CHH----HHHHHHHHHHHTTSEEEE----ETTEEEEC
T ss_pred             HHHHHHHHHHcC--CCcCHHHHHHHHCc-CHH----HHHHHHHHHHHCCcEecC----CCceEeeC
Confidence            556888888764  58999999999999 776    999999999999998875    46788764

>3b73_A PHIH1 repressor-like protein; winged-helix-turn-helix, structural genomics, PSI-2, protein structure initiative; 2.12A {Haloarcula marismortui atcc 43049}

Probab=97.23  E-value=0.00022  Score=51.15  Aligned_cols=64  Identities=17%  Similarity=0.241  Sum_probs=54.6

Q ss_pred             HhhChhhHHHhcCCCCCCCHHHHHhhC--CCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceeccccccccccC
Q 036971           39 VNLDVLDIINKAGPGAELSASEIASQI--PTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPVAKYYVSD  114 (221)
Q Consensus        39 v~lglfd~L~~~g~~~~~t~~eLA~~~--g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~~s~~L~~~  114 (221)
                      ++..|++.|.+.   +++|+.+||+.+  ++ .+.    .+.+-|+.|...|+++..    ..+.|++|+.+..+..+
T Consensus        14 ~d~~IL~~L~~~---g~~s~~eLA~~l~~gi-S~~----aVs~rL~~Le~~GLV~~~----~rg~Y~LT~~G~~~l~~   79 (111)
T 3b73_A           14 WDDRILEIIHEE---GNGSPKELEDRDEIRI-SKS----SVSRRLKKLADHDLLQPL----ANGVYVITEEGEAYLNG   79 (111)
T ss_dssp             HHHHHHHHHHHH---SCBCHHHHHTSTTCCS-CHH----HHHHHHHHHHHTTSEEEC----STTCEEECHHHHHHHTT
T ss_pred             HHHHHHHHHHHc---CCCCHHHHHHHHhcCC-CHH----HHHHHHHHHHHCCCEEec----CCceEEECchHHHHHHH
Confidence            356688899876   599999999999  99 776    999999999999999986    45599999999866644

>1y0u_A Arsenical resistance operon repressor, putative; structural genomics, protein structure initiative, PSI; HET: MSE; 1.60A {Archaeoglobus fulgidus} SCOP: a.4.5.5

Probab=97.17  E-value=0.00034  Score=48.43  Aligned_cols=62  Identities=18%  Similarity=0.176  Sum_probs=51.7

Q ss_pred             HHHHHHHhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceecccccc
Q 036971           33 AVFQAVVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPVAK  109 (221)
Q Consensus        33 ~aL~~av~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~~s~  109 (221)
                      .++..-.++.|++.| .    +++++.|||+.+++ ++.    .+.+.|+.|...|++.+.    . +.|++++.+.
T Consensus        26 ~~l~~~~r~~Il~~L-~----~~~~~~eLa~~l~i-s~~----tv~~~L~~L~~~Glv~~~----~-g~y~l~~~g~   87 (96)
T 1y0u_A           26 YAVTNPVRRKILRML-D----KGRSEEEIMQTLSL-SKK----QLDYHLKVLEAGFCIERV----G-ERWVVTDAGK   87 (96)
T ss_dssp             HHHSCHHHHHHHHHH-H----TTCCHHHHHHHHTC-CHH----HHHHHHHHHHHTTSEEEE----T-TEEEECTTTC
T ss_pred             HHhCCHHHHHHHHHH-c----CCCCHHHHHHHHCc-CHH----HHHHHHHHHHHCCCEEEE----C-CEEEECCCch
Confidence            344455667788888 5    58999999999999 776    899999999999999997    4 6898888654

>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=97.11  E-value=0.00038  Score=54.88  Aligned_cols=59  Identities=8%  Similarity=0.027  Sum_probs=37.8

Q ss_pred             hhhhccCchHHHHHHHHHhhhhHHHHHHHHHhcCCCCCCCeEEEecCCccHHHHHHHhhCCC
Q 036971          159 YDYLGTDSRFNEVFNNGMIGQTSFVINKIVESYKGFQNITRLVDVGGGLGITLSDHNFQIPS  220 (221)
Q Consensus       159 ~~~l~~~p~~~~~F~~aM~~~~~~~~~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~  220 (221)
                      ++|....|.+.+.+...+........+.+.+.++   ...+|+|||||.|.++..+++..|+
T Consensus         4 ~~~y~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~---~~~~vLDlG~G~G~~~~~l~~~~~~   62 (227)
T 1ve3_A            4 KEYYRVFPTYTDINSQEYRSRIETLEPLLMKYMK---KRGKVLDLACGVGGFSFLLEDYGFE   62 (227)
T ss_dssp             HHHHHHCSTTTCTTSHHHHHHHHHHHHHHHHSCC---SCCEEEEETCTTSHHHHHHHHTTCE
T ss_pred             hhHHHHhhhhhcccHHHHHHHHHHHHHHHHHhcC---CCCeEEEEeccCCHHHHHHHHcCCE
Confidence            3444444544444444444444444444555544   3679999999999999999988763

>1qbj_A Protein (double-stranded RNA specific adenosine D (ADAR1)); protein-Z-DNA complex, hydrolase-DNA complex; HET: DNA; 2.10A {Homo sapiens} SCOP: a.4.5.19 PDB: 3f21_A* 3f22_A* 3f23_A* 3irr_A* 3irq_D* 2gxb_A 2acj_A 2l54_A

Probab=97.08  E-value=0.0006  Score=46.01  Aligned_cols=67  Identities=18%  Similarity=0.252  Sum_probs=49.8

Q ss_pred             HhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceeccccccccc
Q 036971           39 VNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPVAKYYV  112 (221)
Q Consensus        39 v~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~~s~~L~  112 (221)
                      ++..|.+.|.++++|.++|+.+||+++|+ +..    .+++.|.-|...|+++....  .++.|...+....+.
T Consensus        11 ~~~~IL~~L~~~~pg~~~t~~eLA~~Lgv-sr~----tV~~~L~~Le~~G~I~~~g~--~~~~W~i~~~~~~~~   77 (81)
T 1qbj_A           11 QEQRILKFLEELGEGKATTAHDLSGKLGT-PKK----EINRVLYSLAKKGKLQKEAG--TPPLWKIAVSTQAWN   77 (81)
T ss_dssp             HHHHHHHHHHHHCTTCCBCHHHHHHHHTC-CHH----HHHHHHHHHHHTTSEEEESS--SSCEEEEC-------
T ss_pred             HHHHHHHHHHHcCCCCCcCHHHHHHHHCc-CHH----HHHHHHHHHHHCCCEEecCC--CCCeeEEeCcHHhcc
Confidence            46668889998865558999999999999 777    89999999999999998621  357788777665443

>3mq0_A Transcriptional repressor of the blcabc operon; helix-turn-helix, GAF fold, transcription repressor; 1.79A {Agrobacterium tumefaciens}

Probab=97.06  E-value=0.00035  Score=57.94  Aligned_cols=58  Identities=16%  Similarity=0.315  Sum_probs=48.8

Q ss_pred             hChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceecccccc
Q 036971           41 LDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPVAK  109 (221)
Q Consensus        41 lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~~s~  109 (221)
                      +.|++.|...+  +++|+.|||+++|+ +..    -+.|+|..|+..|++.++    +++.|++++...
T Consensus        33 l~IL~~l~~~~--~~ltl~eia~~lgl-~ks----Tv~RlL~tL~~~G~v~~~----~~~~Y~LG~~~~   90 (275)
T 3mq0_A           33 VRILDLVAGSP--RDLTAAELTRFLDL-PKS----SAHGLLAVMTELDLLARS----ADGTLRIGPHSL   90 (275)
T ss_dssp             HHHHHHHHHCS--SCEEHHHHHHHHTC-C------CHHHHHHHHHHTTSEEEC----TTSEEEECTHHH
T ss_pred             HHHHHHHhhCC--CCCCHHHHHHHHCc-CHH----HHHHHHHHHHHCCCEEEC----CCCcEEehHHHH
Confidence            45888898865  57999999999999 887    999999999999999997    467899998643

>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=96.92  E-value=0.00053  Score=45.79  Aligned_cols=61  Identities=20%  Similarity=0.272  Sum_probs=49.4

Q ss_pred             HhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceeccc
Q 036971           39 VNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAP  106 (221)
Q Consensus        39 v~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~  106 (221)
                      .+..|.+.|..++++.++|+.|||+++|+ +..    .+.+.|.-|...|+++....  .++.|..++
T Consensus        15 ~~~~IL~~L~~~~~~~~~t~~eLA~~Lgv-s~~----tV~~~L~~L~~~G~I~~~g~--~~~~W~i~~   75 (77)
T 1qgp_A           15 QEQRILKFLEELGEGKATTAHDLSGKLGT-PKK----EINRVLYSLAKKGKLQKEAG--TPPLWKIAV   75 (77)
T ss_dssp             HHHHHHHHHHHHCSSSCEEHHHHHHHHCC-CHH----HHHHHHHHHHHHTSEEEECS--SSCEEEECC
T ss_pred             HHHHHHHHHHHcCCCCCcCHHHHHHHHCc-CHH----HHHHHHHHHHHCCCEEecCC--CCCceEecC
Confidence            35678889999864458999999999999 777    89999999999999988621  356777654

>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=96.63  E-value=0.0017  Score=52.76  Aligned_cols=57  Identities=19%  Similarity=0.185  Sum_probs=48.5

Q ss_pred             hChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceeccccc
Q 036971           41 LDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPVA  108 (221)
Q Consensus        41 lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~~s  108 (221)
                      +.|++.|.+.+  +++|+.|||+.+|+ +..    .+.|+|+.|...|+++++    ..+.|++++..
T Consensus        11 l~iL~~l~~~~--~~~~~~ela~~~gl-~~s----tv~r~l~~L~~~G~v~~~----~~~~Y~lg~~~   67 (249)
T 1mkm_A           11 FEILDFIVKNP--GDVSVSEIAEKFNM-SVS----NAYKYMVVLEEKGFVLRK----KDKRYVPGYKL   67 (249)
T ss_dssp             HHHHHHHHHCS--SCBCHHHHHHHTTC-CHH----HHHHHHHHHHHTTSEEEC----TTSCEEECTHH
T ss_pred             HHHHHHHHhCC--CCCCHHHHHHHHCc-CHH----HHHHHHHHHHHCCcEEEC----CCCcEEECHHH
Confidence            45677887753  47999999999999 776    999999999999999996    47889998754

>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=96.59  E-value=0.0031  Score=43.81  Aligned_cols=51  Identities=24%  Similarity=0.287  Sum_probs=42.4

Q ss_pred             HHHHHHhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           34 VFQAVVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        34 aL~~av~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      +|.--.++.|+..|.+    ++.++.|||+.+|+ ++.    .+.+.|+.|...|++...
T Consensus        19 ~l~~~~r~~Il~~L~~----~~~~~~ela~~l~i-s~~----tvs~~L~~L~~~Glv~~~   69 (102)
T 3pqk_A           19 TLSHPVRLMLVCTLVE----GEFSVGELEQQIGI-GQP----TLSQQLGVLRESGIVETR   69 (102)
T ss_dssp             HHCSHHHHHHHHHHHT----CCBCHHHHHHHHTC-CTT----HHHHHHHHHHHTTSEEEE
T ss_pred             HcCCHHHHHHHHHHHh----CCCCHHHHHHHHCc-CHH----HHHHHHHHHHHCCCeEEE
Confidence            3344455667777766    58999999999999 887    999999999999999986

>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=96.52  E-value=0.0015  Score=52.94  Aligned_cols=61  Identities=13%  Similarity=0.118  Sum_probs=49.8

Q ss_pred             hChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceecccccccc
Q 036971           41 LDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPVAKYY  111 (221)
Q Consensus        41 lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~~s~~L  111 (221)
                      +.|++.|.+.+  +++|+.|||+.+|+ +..    -+.|+|+.|...|++.++.   +.+.|++++....|
T Consensus         9 l~iL~~l~~~~--~~~s~~ela~~~gl-~~s----tv~r~l~~L~~~G~v~~~~---~~~~Y~lg~~~~~l   69 (241)
T 2xrn_A            9 ASIMRALGSHP--HGLSLAAIAQLVGL-PRS----TVQRIINALEEEFLVEALG---PAGGFRLGPALGQL   69 (241)
T ss_dssp             HHHHHHHHTCT--TCEEHHHHHHHTTS-CHH----HHHHHHHHHHTTTSEEECG---GGCEEEECSHHHHH
T ss_pred             HHHHHHHHhCC--CCCCHHHHHHHHCc-CHH----HHHHHHHHHHHCCCEEEeC---CCCeEEECHHHHHH
Confidence            45677887754  47999999999999 776    8999999999999999962   24789998865444

>2oqg_A Possible transcriptional regulator, ARSR family P; winged-helix-turn-helix, structural genomics, PSI-2, protein structure initiative; 1.54A {Rhodococcus SP}

Probab=96.47  E-value=0.0021  Score=45.44  Aligned_cols=61  Identities=16%  Similarity=0.229  Sum_probs=45.4

Q ss_pred             HHhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceeccccc
Q 036971           38 VVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPVA  108 (221)
Q Consensus        38 av~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~~s  108 (221)
                      -.++.|+..|..    +++++.+||+.+|+ ++.    .+.+.|+.|...|++..... +....|.+|+.+
T Consensus        21 ~~r~~IL~~L~~----~~~~~~ela~~l~i-s~~----tv~~~l~~L~~~gli~~~~~-gr~~~y~l~~~~   81 (114)
T 2oqg_A           21 ETRWEILTELGR----ADQSASSLATRLPV-SRQ----AIAKHLNALQACGLVESVKV-GREIRYRALGAE   81 (114)
T ss_dssp             HHHHHHHHHHHH----SCBCHHHHHHHSSS-CHH----HHHHHHHHHHHTTSEEEEEE-TTEEEEEECSHH
T ss_pred             hHHHHHHHHHHc----CCCCHHHHHHHHCc-CHH----HHHHHHHHHHHCCCeeEEec-CCEEEEEechHH
Confidence            345667777844    58999999999999 777    89999999999999997620 011236666543

>2y75_A HTH-type transcriptional regulator CYMR; DNA binding protein; 2.00A {Bacillus subtilis}

Probab=96.45  E-value=0.0032  Score=45.79  Aligned_cols=47  Identities=15%  Similarity=0.090  Sum_probs=38.1

Q ss_pred             CCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceecccc
Q 036971           54 AELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPV  107 (221)
Q Consensus        54 ~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~~  107 (221)
                      ++.|.++||+.+++ ++.    .++++|+.|...|++....  |..|.|.++.-
T Consensus        25 ~~~s~~ela~~~~i-~~~----~v~~il~~L~~~Glv~~~~--g~~ggy~L~~~   71 (129)
T 2y75_A           25 GPTSLKSIAQTNNL-SEH----YLEQLVSPLRNAGLVKSIR--GAYGGYVLGSE   71 (129)
T ss_dssp             CCBCHHHHHHHTTS-CHH----HHHHHHHHHHHTTSEEEC------CCEEESSC
T ss_pred             CcCCHHHHHHHHCc-CHH----HHHHHHHHHHHCCceEecC--CCCCceEeCCC
Confidence            58999999999999 888    9999999999999998752  12467777653

>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=96.44  E-value=0.00063  Score=55.89  Aligned_cols=60  Identities=22%  Similarity=0.259  Sum_probs=48.9

Q ss_pred             hChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceeccccccc
Q 036971           41 LDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPVAKY  110 (221)
Q Consensus        41 lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~~s~~  110 (221)
                      +.|++.|...+  +++|+.|||+++|+ +..    -+.|+|..|+..|++.++.   +.+.|++++....
T Consensus         9 l~IL~~l~~~~--~~lsl~eia~~lgl-~ks----T~~RlL~tL~~~G~v~~~~---~~~~Y~lG~~~~~   68 (260)
T 3r4k_A            9 LTLLTYFNHGR--LEIGLSDLTRLSGM-NKA----TVYRLMSELQEAGFVEQVE---GARSYRLGPQVLR   68 (260)
T ss_dssp             HHHHTTCBTTB--SEEEHHHHHHHHCS-CHH----HHHHHHHHHHHTTSEEECS---SSSEEEECTTHHH
T ss_pred             HHHHHHHhhCC--CCCCHHHHHHHHCc-CHH----HHHHHHHHHHHCCCEEEcC---CCCcEEcCHHHHH
Confidence            44677777643  58999999999999 776    8999999999999999972   2389999986543

>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=96.34  E-value=0.0027  Score=45.93  Aligned_cols=54  Identities=11%  Similarity=0.059  Sum_probs=45.6

Q ss_pred             HHHHHHHHhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           32 PAVFQAVVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        32 ~~aL~~av~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      ..+|.--.++.|+..|...   ++.++.+||+.+|+ ++.    .+.+.|+.|...|++...
T Consensus        36 ~~al~~~~rl~IL~~L~~~---~~~s~~eLa~~l~i-s~s----tvs~~L~~L~~~Glv~~~   89 (122)
T 1u2w_A           36 LKAIADENRAKITYALCQD---EELCVCDIANILGV-TIA----NASHHLRTLYKQGVVNFR   89 (122)
T ss_dssp             HHHHHSHHHHHHHHHHHHS---SCEEHHHHHHHHTC-CHH----HHHHHHHHHHHTTSEEEC
T ss_pred             HHHhCCHHHHHHHHHHHHC---CCcCHHHHHHHHCc-CHH----HHHHHHHHHHHCCCeEEE
Confidence            3455555677899999865   58999999999999 777    999999999999999975

>3jth_A Transcription activator HLYU; transcription factor, RTXA, DNA-binding, transcription regulation; 2.00A {Vibrio vulnificus}

Probab=96.28  E-value=0.0021  Score=44.38  Aligned_cols=51  Identities=18%  Similarity=0.287  Sum_probs=43.3

Q ss_pred             HHHHHHhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           34 VFQAVVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        34 aL~~av~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      +|.--.++.|+..|.+    ++.++.|||+.+|+ ++.    .+.+.|+.|...|++...
T Consensus        19 ~l~~~~r~~Il~~L~~----~~~~~~ela~~l~i-s~~----tvs~~L~~L~~~Glv~~~   69 (98)
T 3jth_A           19 AMANERRLQILCMLHN----QELSVGELCAKLQL-SQS----ALSQHLAWLRRDGLVTTR   69 (98)
T ss_dssp             HHCSHHHHHHHHHTTT----SCEEHHHHHHHHTC-CHH----HHHHHHHHHHHTTSEEEE
T ss_pred             HcCCHHHHHHHHHHhc----CCCCHHHHHHHHCc-CHH----HHHHHHHHHHHCCCeEEE
Confidence            4444556777888877    48999999999999 777    999999999999999986

>3dli_A Methyltransferase; PSI-II, NYSGXRC, structural genomics, protein structure initiative; 2.46A {Archaeoglobus fulgidus}

Probab=96.20  E-value=0.006  Score=48.61  Aligned_cols=33  Identities=21%  Similarity=0.192  Sum_probs=24.3

Q ss_pred             HHHhcCCCCCCCeEEEecCCccHHHHHHHhhCC
Q 036971          187 IVESYKGFQNITRLVDVGGGLGITLSDHNFQIP  219 (221)
Q Consensus       187 ~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P  219 (221)
                      +....+.+....+|||||||.|.++..+++...
T Consensus        32 ~~~~l~~~~~~~~vLDiGcG~G~~~~~l~~~~~   64 (240)
T 3dli_A           32 LRRYIPYFKGCRRVLDIGCGRGEFLELCKEEGI   64 (240)
T ss_dssp             HGGGGGGTTTCSCEEEETCTTTHHHHHHHHHTC
T ss_pred             HHHHHhhhcCCCeEEEEeCCCCHHHHHHHhCCC
Confidence            333344244568999999999999999887643

>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=96.17  E-value=0.0031  Score=42.22  Aligned_cols=63  Identities=13%  Similarity=0.097  Sum_probs=49.6

Q ss_pred             HhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceeccccccc
Q 036971           39 VNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPVAKY  110 (221)
Q Consensus        39 v~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~~s~~  110 (221)
                      .+-.|.++|...   ++.|+.+||+.+|+ .+.   +.+++.|..|...|+|+....  ....|.+|+.++.
T Consensus        12 ~~~~IL~~Lk~~---g~~ta~eiA~~Lgi-t~~---~aVr~hL~~Le~eGlV~~~~~--gRP~w~LT~~g~~   74 (79)
T 1xmk_A           12 IKEKICDYLFNV---SDSSALNLAKNIGL-TKA---RDINAVLIDMERQGDVYRQGT--TPPIWHLTDKKRE   74 (79)
T ss_dssp             HHHHHHHHHHHT---CCEEHHHHHHHHCG-GGH---HHHHHHHHHHHHTTSEEEECS--SSCEEEECHHHHT
T ss_pred             HHHHHHHHHHHc---CCcCHHHHHHHcCC-CcH---HHHHHHHHHHHHCCCEEecCC--CCCCeEeCHhHHh
Confidence            455677889998   59999999999999 541   279999999999999986521  2238999987753

>3cuo_A Uncharacterized HTH-type transcriptional regulato; DNA-binding transcriptional regulator, structural genomics, MCSG; 2.00A {Escherichia coli K12}

Probab=96.15  E-value=0.0029  Score=43.39  Aligned_cols=49  Identities=12%  Similarity=0.090  Sum_probs=41.9

Q ss_pred             HHHhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           37 AVVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        37 ~av~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      .-.++.|+..|...   ++.|..|||+.+|+ ++.    .+.+.|+.|...|++...
T Consensus        23 ~~~~~~il~~l~~~---~~~s~~ela~~l~i-s~~----tvs~~l~~L~~~glv~~~   71 (99)
T 3cuo_A           23 HPKRLLILCMLSGS---PGTSAGELTRITGL-SAS----ATSQHLARMRDEGLIDSQ   71 (99)
T ss_dssp             SHHHHHHHHHHTTC---CSEEHHHHHHHHCC-CHH----HHHHHHHHHHHTTSEEEE
T ss_pred             ChHHHHHHHHHHhC---CCcCHHHHHHHHCc-CHH----HHHHHHHHHHHCCCEEEE
Confidence            34566677788764   48999999999999 777    999999999999999986

>3dtn_A Putative methyltransferase MM_2633; structural genomics, unknown function, PSI-2, protein structure initiative; 2.09A {Methanosarcina mazei}

Probab=96.13  E-value=0.0095  Score=47.07  Aligned_cols=35  Identities=17%  Similarity=0.126  Sum_probs=26.9

Q ss_pred             HHHHhcCCCCCCCeEEEecCCccHHHHHHHhhCCC
Q 036971          186 KIVESYKGFQNITRLVDVGGGLGITLSDHNFQIPS  220 (221)
Q Consensus       186 ~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~  220 (221)
                      .+++..+......+|||||||.|.++..+++.+|+
T Consensus        34 ~~~~~~~~~~~~~~vLDiG~G~G~~~~~l~~~~~~   68 (234)
T 3dtn_A           34 VSVSIASVDTENPDILDLGAGTGLLSAFLMEKYPE   68 (234)
T ss_dssp             HHHHTCCCSCSSCEEEEETCTTSHHHHHHHHHCTT
T ss_pred             HHHHHhhcCCCCCeEEEecCCCCHHHHHHHHhCCC
Confidence            34445442234589999999999999999999874

>3f6o_A Probable transcriptional regulator, ARSR family protein; transcriptional regulator,RHA00566,MCSG, structural genomics, PSI-2; 1.90A {Rhodococcus SP}

Probab=96.10  E-value=0.004  Score=44.63  Aligned_cols=64  Identities=13%  Similarity=0.111  Sum_probs=49.1

Q ss_pred             HHHHHHHhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceeccc
Q 036971           33 AVFQAVVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAP  106 (221)
Q Consensus        33 ~aL~~av~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~  106 (221)
                      .+|.--.++.|+..|.+    +++++.+||+.+|+ ++.    .+.+.|+.|...|++..... +..-.|++++
T Consensus        13 ~al~~~~R~~Il~~L~~----~~~~~~eLa~~l~i-s~~----tvs~hL~~L~~~GlV~~~~~-gr~~~y~l~~   76 (118)
T 3f6o_A           13 QALADPTRRAVLGRLSR----GPATVSELAKPFDM-ALP----SFMKHIHFLEDSGWIRTHKQ-GRVRTCAIEK   76 (118)
T ss_dssp             HHHTSHHHHHHHHHHHT----CCEEHHHHHTTCCS-CHH----HHHHHHHHHHHTTSEEEEEE-TTEEEEEECS
T ss_pred             HHhCCHHHHHHHHHHHh----CCCCHHHHHHHhCc-CHH----HHHHHHHHHHHCCCeEEEec-CCEEEEEECH
Confidence            44555567778888885    58999999999999 776    99999999999999987621 1122466655

>1r1u_A CZRA, repressor protein; zinc, DNA binding, transcriptional regulation, winged HTH protein, transcription repressor; 2.00A {Staphylococcus aureus} SCOP: a.4.5.5 PDB: 1r1v_A 2kjb_A 2kjc_A

Probab=96.08  E-value=0.0033  Score=44.11  Aligned_cols=47  Identities=17%  Similarity=0.306  Sum_probs=40.0

Q ss_pred             HHhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           38 VVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        38 av~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      -.++.|+..|..    ++.++.+||+.+|+ ++.    .+.+.|+.|...|++...
T Consensus        26 ~~r~~IL~~L~~----~~~~~~ela~~l~i-s~s----tvs~~L~~L~~~Glv~~~   72 (106)
T 1r1u_A           26 YNRIRIMELLSV----SEASVGHISHQLNL-SQS----NVSHQLKLLKSVHLVKAK   72 (106)
T ss_dssp             HHHHHHHHHHHH----CCBCHHHHHHHHTC-CHH----HHHHHHHHHHHTTSEEEE
T ss_pred             HHHHHHHHHHHh----CCCCHHHHHHHHCc-CHH----HHHHHHHHHHHCCCeEEE
Confidence            345566667775    58999999999999 776    999999999999999986

>2o0y_A Transcriptional regulator; ICLR-family, structural genomics, protein structure initiative, midwest center for structural genomics, MCSG; 2.00A {Rhodococcus SP}

Probab=96.08  E-value=0.002  Score=52.84  Aligned_cols=58  Identities=19%  Similarity=0.284  Sum_probs=46.5

Q ss_pred             hChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceecccccc
Q 036971           41 LDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPVAK  109 (221)
Q Consensus        41 lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~~s~  109 (221)
                      +.|++.|...+  +++++.|||+.+|+ +..    -+.|+|+.|...|++.++    ..+.|++++...
T Consensus        26 l~iL~~l~~~~--~~~~~~eia~~~gl-~ks----tv~r~l~tL~~~G~v~~~----~~~~Y~lg~~~~   83 (260)
T 2o0y_A           26 IDLLELFDAAH--PTRSLKELVEGTKL-PKT----TVVRLVATMCARSVLTSR----ADGSYSLGPEML   83 (260)
T ss_dssp             HHHHTTCBTTB--SSBCHHHHHHHHCC-CHH----HHHHHHHHHHHTTSEEEC----TTSCEEECHHHH
T ss_pred             HHHHHHHhhCC--CCcCHHHHHHHHCc-CHH----HHHHHHHHHHHCCCEEEC----CCCeEEecHHHH
Confidence            34566665432  58999999999999 776    899999999999999997    344899987543

>2g7u_A Transcriptional regulator; ICLR family, structural genomics, PSI, protein structure initiative, midwest center for struc genomics; 2.30A {Rhodococcus SP}

Probab=96.07  E-value=0.0022  Score=52.43  Aligned_cols=60  Identities=18%  Similarity=0.168  Sum_probs=49.5

Q ss_pred             hChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceeccccccccc
Q 036971           41 LDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPVAKYYV  112 (221)
Q Consensus        41 lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~~s~~L~  112 (221)
                      +.|.+.|...+  +++|+.|||+.+|+ +..    -+.|+|..|...|+++++     ++.|++++....|.
T Consensus        17 l~iL~~l~~~~--~~~~~~eia~~~gl-~~s----tv~r~l~~L~~~G~v~~~-----~~~Y~Lg~~~~~l~   76 (257)
T 2g7u_A           17 FAVLLAFDAQR--PNPTLAELATEAGL-SRP----AVRRILLTLQKLGYVAGS-----GGRWSLTPRVLSIG   76 (257)
T ss_dssp             HHHHHTCSSSC--SSCBHHHHHHHHTC-CHH----HHHHHHHHHHHTTSEEEE-----TTEEEECGGGHHHH
T ss_pred             HHHHHHHHhCC--CCCCHHHHHHHHCc-CHH----HHHHHHHHHHHCCCEEeC-----CCEEEEcHHHHHHH
Confidence            34566776543  58999999999999 776    899999999999999996     58999998765554

>3t8r_A Staphylococcus aureus CYMR; transcriptional regulator protein, dimer, sulfenic acid, UNK function; 1.70A {Staphylococcus aureus} PDB: 3t8t_A

Probab=96.06  E-value=0.0055  Score=45.65  Aligned_cols=46  Identities=17%  Similarity=0.148  Sum_probs=39.4

Q ss_pred             CCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceeccc
Q 036971           54 AELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAP  106 (221)
Q Consensus        54 ~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~  106 (221)
                      +++|.++||+.+++ ++.    .++++|..|...|++.-.+  |..|.|.++.
T Consensus        27 ~~~s~~~IA~~~~i-~~~----~l~kil~~L~~aGlv~s~r--G~~GGy~Lar   72 (143)
T 3t8r_A           27 GCISLKSIAEENNL-SDL----YLEQLVGPLRNAGLIRSVR--GAKGGYQLRV   72 (143)
T ss_dssp             CCEEHHHHHHHTTC-CHH----HHHHHHHHHHHTTSEEECS--SSSSEEEESS
T ss_pred             CCcCHHHHHHHHCc-CHH----HHHHHHHHHHHCCEEEecC--CCCCCeeecC
Confidence            58999999999999 888    9999999999999998753  2456788764

>4a5n_A Uncharacterized HTH-type transcriptional regulato; activator, DNA binding, MARR-like; 1.81A {Bacillus subtilis} PDB: 4a5m_A

Probab=96.05  E-value=0.012  Score=43.18  Aligned_cols=78  Identities=13%  Similarity=0.012  Sum_probs=58.4

Q ss_pred             HHHHHHHHHhhhHHHHHHHHHHhhChhhHHHhcCCCCCCCHHHHHhhC-CCCCCcchhhhHHHHHHHHhcCCceeeeccC
Q 036971           18 VYSHAMVLGSAIVLPAVFQAVVNLDVLDIINKAGPGAELSASEIASQI-PTKNPEGAAKMLDRVLGLLVSFNILCCSFST   96 (221)
Q Consensus        18 ~~~~l~~~~~g~~~~~aL~~av~lglfd~L~~~g~~~~~t~~eLA~~~-g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~   96 (221)
                      +...+++++.+-|...+|..         |..    ++.+..||++.+ |+ ++.    .|.+.|+.|...||+++....
T Consensus        15 pi~~~l~~lg~kW~l~IL~~---------L~~----g~~rf~eL~~~l~gI-s~~----~Ls~~L~~Le~~GLV~R~~~~   76 (131)
T 4a5n_A           15 PVEFTLDVIGGKWKGILFYH---------MID----GKKRFNEFRRICPSI-TQR----MLTLQLRELEADGIVHREVYH   76 (131)
T ss_dssp             HHHHHHHHHCSSSHHHHHHH---------HTT----SCBCHHHHHHHCTTS-CHH----HHHHHHHHHHHTTSEEEEEEC
T ss_pred             cHHHHHHHHcCcCHHHHHHH---------Hhc----CCcCHHHHHHHhccc-CHH----HHHHHHHHHHHCCCEEEEecC
Confidence            45666677767776665543         333    599999999999 99 887    999999999999999986321


Q ss_pred             CC--Ccceecccccccccc
Q 036971           97 HG--VRLYSLAPVAKYYVS  113 (221)
Q Consensus        97 ~~--~~~y~lt~~s~~L~~  113 (221)
                      .+  .-.|++|+.++.|..
T Consensus        77 ~d~r~v~y~LT~~G~~l~~   95 (131)
T 4a5n_A           77 QVPPKVEYSLTEFGRTLEP   95 (131)
T ss_dssp             SSSCEEEEEECTTGGGGHH
T ss_pred             CCCCeEEEEECHhHHHHHH
Confidence            01  235999999887763

>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=96.05  E-value=0.016  Score=48.15  Aligned_cols=47  Identities=17%  Similarity=0.130  Sum_probs=32.0

Q ss_pred             HHHHHHhhhhHHHHHHHHHhcCCCCCCCeEEEecCCccHHHHHHHhhC
Q 036971          171 VFNNGMIGQTSFVINKIVESYKGFQNITRLVDVGGGLGITLSDHNFQI  218 (221)
Q Consensus       171 ~F~~aM~~~~~~~~~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~  218 (221)
                      .|.. +..........+++.++.+....+|||||||.|.++..+++.+
T Consensus        93 ~f~~-~~~~~~~~~~~l~~~l~~~~~~~~vLDiGcG~G~~~~~la~~~  139 (312)
T 3vc1_A           93 VIAE-LHRLESAQAEFLMDHLGQAGPDDTLVDAGCGRGGSMVMAHRRF  139 (312)
T ss_dssp             HHHH-HHHHHHHHHHHHHTTSCCCCTTCEEEEESCTTSHHHHHHHHHH
T ss_pred             HHhh-hhhHHHHHHHHHHHHhccCCCCCEEEEecCCCCHHHHHHHHHc
Confidence            3443 3433333445566666535567899999999999999998863

>2jt1_A PEFI protein; solution structure, winged helix-turn-helix, transcripti regulatory protein, structural genomics, PSI-2; NMR {Salmonella typhimurium LT2}

Probab=96.02  E-value=0.0045  Score=41.25  Aligned_cols=44  Identities=18%  Similarity=0.221  Sum_probs=38.3

Q ss_pred             hhhHHHhc-----CCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           43 VLDIINKA-----GPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        43 lfd~L~~~-----g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      |++.|.+.     |  +|.|+.|||+++|+ .+.    .+++-|..|...|++..+
T Consensus         9 IL~~I~~~i~~~~g--~~psv~EIa~~lgv-S~~----TVrr~L~~Le~kG~I~R~   57 (77)
T 2jt1_A            9 IISIVQERQNMDDG--APVKTRDIADAAGL-SIY----QVRLYLEQLHDVGVLEKV   57 (77)
T ss_dssp             HHHHHHHHHHHHTT--SCEEHHHHHHHHTC-CHH----HHHHHHHHHHHTTSEEEE
T ss_pred             HHHHHHHHHhhccC--CCcCHHHHHHHHCC-CHH----HHHHHHHHHHHCCcEEec
Confidence            55666665     5  69999999999999 776    899999999999999997

>3e05_A Precorrin-6Y C5,15-methyltransferase (decarboxyla; porphyrin metabolism, S-adenosyl-methionine; 1.80A {Geobacter metallireducens} SCOP: c.66.1.0

Probab=96.01  E-value=0.01  Score=46.01  Aligned_cols=34  Identities=15%  Similarity=0.255  Sum_probs=28.4

Q ss_pred             HHHHhcCCCCCCCeEEEecCCccHHHHHHHhhCCC
Q 036971          186 KIVESYKGFQNITRLVDVGGGLGITLSDHNFQIPS  220 (221)
Q Consensus       186 ~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~  220 (221)
                      .++..++ .....+|+|||||.|.++..+++.+|+
T Consensus        31 ~~l~~l~-~~~~~~vLDiG~G~G~~~~~la~~~~~   64 (204)
T 3e05_A           31 VTLSKLR-LQDDLVMWDIGAGSASVSIEASNLMPN   64 (204)
T ss_dssp             HHHHHTT-CCTTCEEEEETCTTCHHHHHHHHHCTT
T ss_pred             HHHHHcC-CCCCCEEEEECCCCCHHHHHHHHHCCC
Confidence            4556666 666789999999999999999998874

>3lwf_A LIN1550 protein, putative transcriptional regulator; structural genomics, JOI for structural genomics, JCSG; HET: SO4; 2.06A {Listeria innocua}

Probab=95.95  E-value=0.0072  Score=45.93  Aligned_cols=63  Identities=16%  Similarity=0.071  Sum_probs=46.9

Q ss_pred             HHHHHHHHHhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceeccc
Q 036971           31 LPAVFQAVVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAP  106 (221)
Q Consensus        31 ~~~aL~~av~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~  106 (221)
                      .-.||++.+.+..      ...+++.|.++||+.+++ ++.    .++++|..|...|++.-.+  |..|.|.++.
T Consensus        26 ~~yAlr~L~~LA~------~~~~~~~s~~eIA~~~~i-~~~----~l~kil~~L~~aGlv~s~r--G~~GGy~Lar   88 (159)
T 3lwf_A           26 GRYGLTITLELAK------RIGDGPISLRSIAQDKNL-SEH----YLEQLIGPLRNAGIVKSIR--GAHGGYVLNG   88 (159)
T ss_dssp             HHHHHHHHHHHHH------TTTSCCBCHHHHHHHHTC-CHH----HHHHHHHHHHHTTSEEEEC--STTCEEEECS
T ss_pred             HHHHHHHHHHHHh------cCCCCCcCHHHHHHHHCc-CHH----HHHHHHHHHHHCCeEEEec--CCCCceEecC
Confidence            3346666655432      211258999999999999 888    9999999999999999764  2456787764

>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=95.88  E-value=0.017  Score=40.52  Aligned_cols=54  Identities=15%  Similarity=0.111  Sum_probs=42.5

Q ss_pred             CCCCHHHHHhhC-CCCCCcchhhhHHHHHHHHhcCCceeeeccCCC--Ccceeccccccccc
Q 036971           54 AELSASEIASQI-PTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHG--VRLYSLAPVAKYYV  112 (221)
Q Consensus        54 ~~~t~~eLA~~~-g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~--~~~y~lt~~s~~L~  112 (221)
                      ++++..||++.+ ++ ++.    .+.+.|+.|...|++++.....+  .-.|.+|+.++.+.
T Consensus        26 ~~~~~~eLa~~l~~i-s~~----tls~~L~~Le~~GlI~r~~~~~d~r~~~y~LT~~G~~l~   82 (107)
T 2hzt_A           26 GKKRTSELKRLMPNI-TQK----MLTQQLRELEADGVINRIVYNQVPPKVEYELSEYGRSLE   82 (107)
T ss_dssp             CCBCHHHHHHHCTTS-CHH----HHHHHHHHHHHTTSEEEEEECSSSCEEEEEECTTGGGGH
T ss_pred             CCCCHHHHHHHhcCC-CHH----HHHHHHHHHHHCCCEEEeecCCCCCeEEEEECccHHHHH
Confidence            589999999999 99 877    99999999999999998632101  12488888776544

>1oyi_A Double-stranded RNA-binding protein; (alpha+beta) helix-turn-helix, viral protein; NMR {Vaccinia virus} SCOP: a.4.5.19

Probab=95.85  E-value=0.0053  Score=41.35  Aligned_cols=60  Identities=12%  Similarity=0.091  Sum_probs=47.2

Q ss_pred             HHhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceeccccc
Q 036971           38 VVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPVA  108 (221)
Q Consensus        38 av~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~~s  108 (221)
                      .+...|.+.|.+.    ++|+.|||+++|+ ...    .+++.|..|...|++.....  .+-.|+++...
T Consensus        17 ~~~~~IL~lL~~~----g~sa~eLAk~Lgi-Sk~----aVr~~L~~Le~eG~I~~~~~--~PP~W~~~~~~   76 (82)
T 1oyi_A           17 EIVCEAIKTIGIE----GATAAQLTRQLNM-EKR----EVNKALYDLQRSAMVYSSDD--IPPRWFMTTEA   76 (82)
T ss_dssp             HHHHHHHHHHSSS----TEEHHHHHHHSSS-CHH----HHHHHHHHHHHHTSSEECSS--SSCEEESCC--
T ss_pred             HHHHHHHHHHHHc----CCCHHHHHHHHCc-CHH----HHHHHHHHHHHCCCEEeCCC--CCCcceeccCc
Confidence            3455677788874    4999999999999 877    99999999999999998632  35678777643

>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=95.84  E-value=0.0072  Score=48.16  Aligned_cols=36  Identities=14%  Similarity=0.206  Sum_probs=28.0

Q ss_pred             HHHHHHHhcCCCCCCCeEEEecCCccHHHHHHHhhCC
Q 036971          183 VINKIVESYKGFQNITRLVDVGGGLGITLSDHNFQIP  219 (221)
Q Consensus       183 ~~~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P  219 (221)
                      ....+++.++ .....+|+|||||.|.++..+++..|
T Consensus        79 ~~~~~~~~l~-~~~~~~vLdiG~G~G~~~~~la~~~~  114 (235)
T 1jg1_A           79 MVAIMLEIAN-LKPGMNILEVGTGSGWNAALISEIVK  114 (235)
T ss_dssp             HHHHHHHHHT-CCTTCCEEEECCTTSHHHHHHHHHHC
T ss_pred             HHHHHHHhcC-CCCCCEEEEEeCCcCHHHHHHHHHhC
Confidence            3345566666 66678999999999999999988764

>1xn7_A Hypothetical protein YHGG; alpha+beta, GFT structural genomics, protein structure initiative, PSI, NESG; NMR {Escherichia coli} SCOP: a.4.5.62

Probab=95.84  E-value=0.0086  Score=39.94  Aligned_cols=43  Identities=21%  Similarity=0.284  Sum_probs=39.4

Q ss_pred             hhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           43 VLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        43 lfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      |.+.|.+.   +.++++|||+.+++ ++.    -++|-|..|...|++.+.
T Consensus         7 Il~~L~~~---g~vsv~eLa~~l~V-S~~----TIRrdL~~Le~~G~l~R~   49 (78)
T 1xn7_A            7 VRDLLALR---GRMEAAQISQTLNT-PQP----MINAMLQQLESMGKAVRI   49 (78)
T ss_dssp             HHHHHHHS---CSBCHHHHHHHTTC-CHH----HHHHHHHHHHHHTSEEEE
T ss_pred             HHHHHHHc---CCCcHHHHHHHHCc-CHH----HHHHHHHHHHHCCCEEEe
Confidence            66788887   59999999999999 887    999999999999999987

>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=95.84  E-value=0.0055  Score=45.00  Aligned_cols=55  Identities=18%  Similarity=0.180  Sum_probs=46.1

Q ss_pred             HHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceeccccccccc
Q 036971           46 IINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPVAKYYV  112 (221)
Q Consensus        46 ~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~~s~~L~  112 (221)
                      .+...   ++++..+||+.+++ ++.    .+.+.++.|...|++...    ....|.+|+.+..+.
T Consensus        16 l~~~~---~~~~~~ela~~l~v-s~~----tvs~~l~~Le~~Glv~r~----~~~~~~LT~~g~~~~   70 (142)
T 1on2_A           16 LIEEK---GYARVSDIAEALAV-HPS----SVTKMVQKLDKDEYLIYE----KYRGLVLTSKGKKIG   70 (142)
T ss_dssp             HHHHH---SSCCHHHHHHHHTS-CHH----HHHHHHHHHHHTTSEEEE----TTTEEEECHHHHHHH
T ss_pred             HHhhc---CCCCHHHHHHHhCC-CHH----HHHHHHHHHHHCCCEEEe----eCceEEEchhHHHHH
Confidence            44444   48999999999999 877    999999999999999987    467899998876554

>3dlc_A Putative S-adenosyl-L-methionine-dependent methyltransferase; structural genomics, joint center for structural genomics; HET: MSE SAM; 1.15A {Methanococcus maripaludis}

Probab=95.82  E-value=0.0077  Score=46.71  Aligned_cols=32  Identities=19%  Similarity=0.282  Sum_probs=25.2

Q ss_pred             HHHHHHhcCCCCCCCeEEEecCCccHHHHHHHhh
Q 036971          184 INKIVESYKGFQNITRLVDVGGGLGITLSDHNFQ  217 (221)
Q Consensus       184 ~~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~  217 (221)
                      ...+++.++ .... +|||||||.|.++..+++.
T Consensus        33 ~~~~~~~~~-~~~~-~vLdiG~G~G~~~~~l~~~   64 (219)
T 3dlc_A           33 AENIINRFG-ITAG-TCIDIGSGPGALSIALAKQ   64 (219)
T ss_dssp             HHHHHHHHC-CCEE-EEEEETCTTSHHHHHHHHH
T ss_pred             HHHHHHhcC-CCCC-EEEEECCCCCHHHHHHHHc
Confidence            345566666 5544 9999999999999999887

>2htj_A P fimbrial regulatory protein KS71A; winged helix-turn-helix, PAP PILI, transcription activator; NMR {Escherichia coli} SCOP: a.4.5.73

Probab=95.80  E-value=0.0063  Score=40.51  Aligned_cols=45  Identities=20%  Similarity=0.194  Sum_probs=39.2

Q ss_pred             hChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           41 LDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        41 lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      ..|++.|.+.   +++|..|||+.+|+ ++.    .+++.|..|...|++...
T Consensus         3 ~~Il~~L~~~---~~~s~~eLa~~lgv-s~~----tv~r~L~~L~~~GlI~~~   47 (81)
T 2htj_A            3 NEILEFLNRH---NGGKTAEIAEALAV-TDY----QARYYLLLLEKAGMVQRS   47 (81)
T ss_dssp             HHHHHHHHHS---CCCCHHHHHHHHTS-CHH----HHHHHHHHHHHHTSEEEE
T ss_pred             HHHHHHHHHc---CCCCHHHHHHHHCc-CHH----HHHHHHHHHHHCCCEEEe
Confidence            3477788776   48999999999999 777    899999999999999964

>2ia2_A Putative transcriptional regulator; SAD, PSI-2, structural genomics, structure initiative, midwest center for structural genomic transcription; 2.10A {Rhodococcus SP}

Probab=95.79  E-value=0.0024  Score=52.45  Aligned_cols=58  Identities=17%  Similarity=0.189  Sum_probs=47.9

Q ss_pred             hChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceeccccccc
Q 036971           41 LDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPVAKY  110 (221)
Q Consensus        41 lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~~s~~  110 (221)
                      +.|++.|...+  +++|+.|||+.+|+ +..    -+.|+|..|...|+++++     ++.|++++....
T Consensus        24 l~iL~~l~~~~--~~~~~~eia~~~gl-~~s----tv~r~l~tL~~~G~v~~~-----~~~Y~Lg~~~~~   81 (265)
T 2ia2_A           24 LAVIRCFDHRN--QRRTLSDVARATDL-TRA----TARRFLLTLVELGYVATD-----GSAFWLTPRVLE   81 (265)
T ss_dssp             HHHHHTCCSSC--SSEEHHHHHHHHTC-CHH----HHHHHHHHHHHHTSEEES-----SSEEEECGGGGG
T ss_pred             HHHHHHHHhCC--CCCCHHHHHHHHCc-CHH----HHHHHHHHHHHCCCEEec-----CCEEEEcHHHHH
Confidence            34667776533  58999999999999 776    899999999999999995     689999886543

>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=0.0022  Score=45.37  Aligned_cols=46  Identities=22%  Similarity=0.224  Sum_probs=38.7

Q ss_pred             HhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           39 VNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        39 v~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      .++.|+..|..    +++++.|||+.+|+ ++.    .+.+.|+.|...|++...
T Consensus        26 ~r~~IL~~L~~----~~~s~~eLa~~lgi-s~s----tvs~~L~~L~~~GlV~~~   71 (108)
T 2kko_A           26 RRLQILDLLAQ----GERAVEAIATATGM-NLT----TASANLQALKSGGLVEAR   71 (108)
T ss_dssp             TTHHHHHHHTT----CCEEHHHHHHHHTC-CHH----HHHHHHHHHHHHTSEEEE
T ss_pred             HHHHHHHHHHc----CCcCHHHHHHHHCc-CHH----HHHHHHHHHHHCCCeEEE
Confidence            34455556765    58999999999999 877    999999999999999876

>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=95.77  E-value=0.02  Score=46.71  Aligned_cols=32  Identities=25%  Similarity=0.312  Sum_probs=25.0

Q ss_pred             HHHHhcCCCCCCCeEEEecCCccHHHHHHHhhCC
Q 036971          186 KIVESYKGFQNITRLVDVGGGLGITLSDHNFQIP  219 (221)
Q Consensus       186 ~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P  219 (221)
                      .+++.+  .+...+|+|||||+|.++..+++.++
T Consensus        62 ~l~~~~--~~~~~~vLDlGcGtG~~~~~la~~~~   93 (261)
T 4gek_A           62 MLAERF--VQPGTQVYDLGCSLGAATLSVRRNIH   93 (261)
T ss_dssp             HHHHHH--CCTTCEEEEETCTTTHHHHHHHHTCC
T ss_pred             HHHHHh--CCCCCEEEEEeCCCCHHHHHHHHhcC
Confidence            344444  34568999999999999999998864

>3fzg_A 16S rRNA methylase; methyltransferase, plasmid, transferase; HET: SAM; 2.00A {Escherichia coli}

Probab=95.75  E-value=0.017  Score=45.38  Aligned_cols=27  Identities=11%  Similarity=0.155  Sum_probs=23.5

Q ss_pred             CCCCeEEEecCCccHHHHHHHhhCCCC
Q 036971          195 QNITRLVDVGGGLGITLSDHNFQIPSY  221 (221)
Q Consensus       195 ~~~~~vvDVGGG~G~~~~~l~~~~P~l  221 (221)
                      ....+|+|||||.|.++..++...|+.
T Consensus        48 ~~~~~VLDlGCG~GplAl~l~~~~p~a   74 (200)
T 3fzg_A           48 KHVSSILDFGCGFNPLALYQWNENEKI   74 (200)
T ss_dssp             CCCSEEEEETCTTHHHHHHHHCSSCCC
T ss_pred             CCCCeEEEecCCCCHHHHHHHhcCCCC
Confidence            346899999999999999999888863

>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=95.75  E-value=0.011  Score=48.78  Aligned_cols=34  Identities=18%  Similarity=0.298  Sum_probs=28.4

Q ss_pred             HHHHHhcCCCCCCCeEEEecCCccHHHHHHHhhCC
Q 036971          185 NKIVESYKGFQNITRLVDVGGGLGITLSDHNFQIP  219 (221)
Q Consensus       185 ~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P  219 (221)
                      ..+++.++ .....+|||||||.|.++..+++.+|
T Consensus        62 ~~~~~~~~-~~~~~~vLDiGcG~G~~~~~la~~~~   95 (302)
T 3hem_A           62 KLALDKLN-LEPGMTLLDIGCGWGSTMRHAVAEYD   95 (302)
T ss_dssp             HHHHHTTC-CCTTCEEEEETCTTSHHHHHHHHHHC
T ss_pred             HHHHHHcC-CCCcCEEEEeeccCcHHHHHHHHhCC
Confidence            45667777 67778999999999999999998765

>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=95.75  E-value=0.0057  Score=42.36  Aligned_cols=48  Identities=13%  Similarity=0.166  Sum_probs=44.0

Q ss_pred             CCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceecccccccccc
Q 036971           56 LSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPVAKYYVS  113 (221)
Q Consensus        56 ~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~~s~~L~~  113 (221)
                      ++..+||..+++ +++    .+++.++.|...|+++..     .+.|.+|+.+..+..
T Consensus        21 ~~~t~La~~~~l-s~~----~~~~~l~~L~~~GLI~~~-----~~~~~LT~kG~~~l~   68 (95)
T 1r7j_A           21 SPKTRIMYGANL-SYA----LTGRYIKMLMDLEIIRQE-----GKQYMLTKKGEELLE   68 (95)
T ss_dssp             BCHHHHHHHHTC-CHH----HHHHHHHHHHHTTSEEEE-----TTEEEECHHHHHHHH
T ss_pred             CCHHHHHHHhCc-CHH----HHHHHHHHHHHCCCeEEE-----CCeeEEChhHHHHHH
Confidence            999999999999 988    999999999999999996     567999999987664

>2k02_A Ferrous iron transport protein C; FEOC, iron-sulfur, metal-binding, metal binding protein; NMR {Klebsiella pneumoniae subsp}

Probab=95.75  E-value=0.0083  Score=40.89  Aligned_cols=43  Identities=14%  Similarity=0.302  Sum_probs=39.5

Q ss_pred             hhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           43 VLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        43 lfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      |.+.|.+.   +.+++.|||+.+++ .+.    -++|.|+.|...|++.+.
T Consensus         7 Il~~L~~~---g~vsv~eLA~~l~V-S~~----TIRrDL~~Le~~G~l~R~   49 (87)
T 2k02_A            7 VRDMLALQ---GRMEAKQLSARLQT-PQP----LIDAMLERMEAMGKVVRI   49 (87)
T ss_dssp             HHHHHHHS---CSEEHHHHHHHTTC-CHH----HHHHHHHHHHTTCCSEEE
T ss_pred             HHHHHHHc---CCCcHHHHHHHHCc-CHH----HHHHHHHHHHHCCCEEEE
Confidence            66788887   59999999999999 887    999999999999999997

>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=95.74  E-value=0.0038  Score=50.38  Aligned_cols=34  Identities=15%  Similarity=0.186  Sum_probs=27.1

Q ss_pred             HHHHHhcCCCCCCCeEEEecCCccHHHHHHHhhCC
Q 036971          185 NKIVESYKGFQNITRLVDVGGGLGITLSDHNFQIP  219 (221)
Q Consensus       185 ~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P  219 (221)
                      ..+++.++ .....+|||||||.|.++..+++..+
T Consensus        27 ~~l~~~l~-~~~~~~vLDiGcG~G~~~~~l~~~~~   60 (260)
T 1vl5_A           27 AKLMQIAA-LKGNEEVLDVATGGGHVANAFAPFVK   60 (260)
T ss_dssp             HHHHHHHT-CCSCCEEEEETCTTCHHHHHHGGGSS
T ss_pred             HHHHHHhC-CCCCCEEEEEeCCCCHHHHHHHHhCC
Confidence            34555666 55678999999999999999988765

>3bus_A REBM, methyltransferase; rebeccamycin synthesis; HET: SAH; 2.65A {Lechevalieria aerocolonigenes}

Probab=95.73  E-value=0.016  Score=46.85  Aligned_cols=34  Identities=18%  Similarity=0.299  Sum_probs=28.1

Q ss_pred             HHHHHHhcCCCCCCCeEEEecCCccHHHHHHHhhC
Q 036971          184 INKIVESYKGFQNITRLVDVGGGLGITLSDHNFQI  218 (221)
Q Consensus       184 ~~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~  218 (221)
                      ...+++.++ .....+|||||||.|.++..+++.+
T Consensus        50 ~~~l~~~~~-~~~~~~vLDiGcG~G~~~~~l~~~~   83 (273)
T 3bus_A           50 TDEMIALLD-VRSGDRVLDVGCGIGKPAVRLATAR   83 (273)
T ss_dssp             HHHHHHHSC-CCTTCEEEEESCTTSHHHHHHHHHS
T ss_pred             HHHHHHhcC-CCCCCEEEEeCCCCCHHHHHHHHhc
Confidence            345667777 6677899999999999999998865

>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=95.73  E-value=0.0062  Score=41.65  Aligned_cols=69  Identities=12%  Similarity=0.120  Sum_probs=51.2

Q ss_pred             HHHHHHHhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeecc--CCCCcceecccccc
Q 036971           33 AVFQAVVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFS--THGVRLYSLAPVAK  109 (221)
Q Consensus        33 ~aL~~av~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~--~~~~~~y~lt~~s~  109 (221)
                      .++..-.++.|+..|...   +++|..+||+.+++ ++.    .+.+.|+.|...|++.....  ++....|.+|+.+.
T Consensus        11 ~~l~~~~~~~iL~~L~~~---~~~~~~ela~~l~i-s~~----tvs~~l~~L~~~gli~~~~~~~~~r~~~~~lt~~g~   81 (100)
T 1ub9_A           11 HILGNPVRLGIMIFLLPR---RKAPFSQIQKVLDL-TPG----NLDSHIRVLERNGLVKTYKVIADRPRTVVEITDFGM   81 (100)
T ss_dssp             HHHHSHHHHHHHHHHHHH---SEEEHHHHHHHTTC-CHH----HHHHHHHHHHHTTSEEEEEECSSSCEEEEEECHHHH
T ss_pred             cccCChHHHHHHHHHHhc---CCcCHHHHHHHHCc-CHH----HHHHHHHHHHHCCCEEEEecCCCcceEEEEECHHHH
Confidence            455556677788888755   48999999999999 777    99999999999999996421  00122466666554

>1xtp_A LMAJ004091AAA; SGPP, structural genomics, PSI, protein structure initiative dependent methyltransferase; HET: SAI; 1.94A {Leishmania major} SCOP: c.66.1.42

Probab=95.71  E-value=0.0091  Score=47.68  Aligned_cols=33  Identities=18%  Similarity=0.329  Sum_probs=26.4

Q ss_pred             HHHHHhcCCCCCCCeEEEecCCccHHHHHHHhhC
Q 036971          185 NKIVESYKGFQNITRLVDVGGGLGITLSDHNFQI  218 (221)
Q Consensus       185 ~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~  218 (221)
                      ..+++.++ .....+|||||||.|.++..+++..
T Consensus        83 ~~~l~~l~-~~~~~~vLDiG~G~G~~~~~l~~~~  115 (254)
T 1xtp_A           83 RNFIASLP-GHGTSRALDCGAGIGRITKNLLTKL  115 (254)
T ss_dssp             HHHHHTST-TCCCSEEEEETCTTTHHHHHTHHHH
T ss_pred             HHHHHhhc-ccCCCEEEEECCCcCHHHHHHHHhh
Confidence            45666666 5567899999999999999887753

>2fca_A TRNA (guanine-N(7)-)-methyltransferase; 2.10A {Bacillus subtilis} SCOP: c.66.1.53

Probab=95.69  E-value=0.0074  Score=47.55  Aligned_cols=24  Identities=29%  Similarity=0.319  Sum_probs=22.2

Q ss_pred             CCeEEEecCCccHHHHHHHhhCCC
Q 036971          197 ITRLVDVGGGLGITLSDHNFQIPS  220 (221)
Q Consensus       197 ~~~vvDVGGG~G~~~~~l~~~~P~  220 (221)
                      ..+|||||||.|.++..+++.+|+
T Consensus        39 ~~~vLDiGcG~G~~~~~la~~~p~   62 (213)
T 2fca_A           39 NPIHIEVGTGKGQFISGMAKQNPD   62 (213)
T ss_dssp             CCEEEEECCTTSHHHHHHHHHCTT
T ss_pred             CceEEEEecCCCHHHHHHHHHCCC
Confidence            568999999999999999999986

>2o57_A Putative sarcosine dimethylglycine methyltransferase; structural genomics, protein structure initiative, PSI-2; 1.95A {Galdieria sulphuraria} SCOP: c.66.1.18

Probab=95.67  E-value=0.0085  Score=49.26  Aligned_cols=34  Identities=15%  Similarity=0.112  Sum_probs=27.0

Q ss_pred             HHHHHHhc----CCCCCCCeEEEecCCccHHHHHHHhhC
Q 036971          184 INKIVESY----KGFQNITRLVDVGGGLGITLSDHNFQI  218 (221)
Q Consensus       184 ~~~~l~~~----~~~~~~~~vvDVGGG~G~~~~~l~~~~  218 (221)
                      ...+++.+    + +....+|||||||.|.++..+++.+
T Consensus        67 ~~~l~~~l~~~~~-~~~~~~vLDiGcG~G~~~~~l~~~~  104 (297)
T 2o57_A           67 DEWLASELAMTGV-LQRQAKGLDLGAGYGGAARFLVRKF  104 (297)
T ss_dssp             HHHHHHHHHHTTC-CCTTCEEEEETCTTSHHHHHHHHHH
T ss_pred             HHHHHHHhhhccC-CCCCCEEEEeCCCCCHHHHHHHHHh
Confidence            34455566    4 6667899999999999999998874

>3f6v_A Possible transcriptional regulator, ARSR family protein; probable transcriptional repressor ARSR family, structural genomics, PSI-2; 1.48A {Rhodococcus SP}

Probab=95.66  E-value=0.0058  Score=45.98  Aligned_cols=67  Identities=15%  Similarity=0.268  Sum_probs=52.6

Q ss_pred             HHHHHHHHHhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceecccc
Q 036971           31 LPAVFQAVVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPV  107 (221)
Q Consensus        31 ~~~aL~~av~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~~  107 (221)
                      ...+|.--.++.|+..|..    +++++.+||+.+|+ .+.    .+.+.|+.|...|++..... +..-.|++|+.
T Consensus        51 ~l~aL~~p~R~~IL~~L~~----~~~t~~eLa~~lgl-s~s----tvs~hL~~L~~aGlV~~~~~-Gr~~~y~lt~~  117 (151)
T 3f6v_A           51 QLEVAAEPTRRRLVQLLTS----GEQTVNNLAAHFPA-SRS----AISQHLRVLTEAGLVTPRKD-GRFRYYRLDPQ  117 (151)
T ss_dssp             HHHHHTSHHHHHHHHHGGG----CCEEHHHHHTTSSS-CHH----HHHHHHHHHHHTTSEEEEEE-TTEEEEEECHH
T ss_pred             HHHHhCCHHHHHHHHHHHh----CCCCHHHHHHHHCc-CHH----HHHHHHHHHHHCCCEEEEec-CCEEEEEEChH
Confidence            4567777788999999985    58999999999999 776    99999999999999998620 11224666553

>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=95.66  E-value=0.026  Score=41.09  Aligned_cols=67  Identities=13%  Similarity=0.127  Sum_probs=46.2

Q ss_pred             HHhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCC--CCcceeccccccccc
Q 036971           38 VVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTH--GVRLYSLAPVAKYYV  112 (221)
Q Consensus        38 av~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~--~~~~y~lt~~s~~L~  112 (221)
                      ..++.|+..|...   +++|..+||+.+++ ++.    .+.++++.|...|++++.....  ..-.+.+|+.++.+.
T Consensus        37 ~~~~~vL~~l~~~---~~~t~~eLa~~l~~-~~~----tvs~~l~~L~~~Glv~r~~~~~DrR~~~~~LT~~G~~~~  105 (142)
T 3ech_A           37 PPDVHVLKLIDEQ---RGLNLQDLGRQMCR-DKA----LITRKIRELEGRNLVRRERNPSDQRSFQLFLTDEGLAIH  105 (142)
T ss_dssp             HHHHHHHHHHHHT---TTCCHHHHHHHHC----C----HHHHHHHHHHHTTSEEC----------CCEECHHHHHHH
T ss_pred             HHHHHHHHHHHhC---CCcCHHHHHHHhCC-CHH----HHHHHHHHHHHCCCEeeccCCCCCCeeeeEECHHHHHHH
Confidence            4566688888887   48999999999999 887    9999999999999999862110  011356666665444

>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=95.65  E-value=0.0067  Score=49.67  Aligned_cols=34  Identities=18%  Similarity=0.128  Sum_probs=24.7

Q ss_pred             HHHHhcCCCCCCCeEEEecCCccHHHHHHHhh-CCC
Q 036971          186 KIVESYKGFQNITRLVDVGGGLGITLSDHNFQ-IPS  220 (221)
Q Consensus       186 ~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~-~P~  220 (221)
                      .+++.++ +....+|+|||||.|.++..+++. +|.
T Consensus       101 ~~~~~~~-~~~~~~VLD~G~G~G~~~~~la~~~~~~  135 (275)
T 1yb2_A          101 YIIMRCG-LRPGMDILEVGVGSGNMSSYILYALNGK  135 (275)
T ss_dssp             -----CC-CCTTCEEEEECCTTSHHHHHHHHHHTTS
T ss_pred             HHHHHcC-CCCcCEEEEecCCCCHHHHHHHHHcCCC
Confidence            4555566 667789999999999999999987 553

>3g5l_A Putative S-adenosylmethionine dependent methyltransferase; structural genomics, PSI-2, protein structure initiative; 2.35A {Listeria monocytogenes str}

Probab=95.53  E-value=0.015  Score=46.56  Aligned_cols=33  Identities=15%  Similarity=0.102  Sum_probs=26.0

Q ss_pred             HHHHhcCCCCCCCeEEEecCCccHHHHHHHhhCC
Q 036971          186 KIVESYKGFQNITRLVDVGGGLGITLSDHNFQIP  219 (221)
Q Consensus       186 ~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P  219 (221)
                      .+.+.++ .....+|||||||.|.++..+++..+
T Consensus        35 ~l~~~~~-~~~~~~vLD~GcG~G~~~~~l~~~~~   67 (253)
T 3g5l_A           35 ELKKMLP-DFNQKTVLDLGCGFGWHCIYAAEHGA   67 (253)
T ss_dssp             HHHTTCC-CCTTCEEEEETCTTCHHHHHHHHTTC
T ss_pred             HHHHhhh-ccCCCEEEEECCCCCHHHHHHHHcCC
Confidence            3455555 44568999999999999999998866

>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=95.52  E-value=0.017  Score=46.09  Aligned_cols=33  Identities=21%  Similarity=0.312  Sum_probs=26.8

Q ss_pred             HHHHHhcCCCCCCCeEEEecCCccHHHHHHHhhC
Q 036971          185 NKIVESYKGFQNITRLVDVGGGLGITLSDHNFQI  218 (221)
Q Consensus       185 ~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~  218 (221)
                      ..+++.++ .....+|||||||.|.++..+++.+
T Consensus        26 ~~l~~~~~-~~~~~~VLDiGcG~G~~~~~la~~~   58 (256)
T 1nkv_A           26 ATLGRVLR-MKPGTRILDLGSGSGEMLCTWARDH   58 (256)
T ss_dssp             HHHHHHTC-CCTTCEEEEETCTTCHHHHHHHHHT
T ss_pred             HHHHHhcC-CCCCCEEEEECCCCCHHHHHHHHhc
Confidence            34555666 6667899999999999999998875

>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=95.49  E-value=0.0065  Score=48.86  Aligned_cols=25  Identities=24%  Similarity=0.381  Sum_probs=22.7

Q ss_pred             CCCeEEEecCCccHHHHHHHhhCCC
Q 036971          196 NITRLVDVGGGLGITLSDHNFQIPS  220 (221)
Q Consensus       196 ~~~~vvDVGGG~G~~~~~l~~~~P~  220 (221)
                      ...+|||||||.|.++..+++.+|+
T Consensus        46 ~~~~vLDiGcG~G~~~~~la~~~p~   70 (235)
T 3ckk_A           46 AQVEFADIGCGYGGLLVELSPLFPD   70 (235)
T ss_dssp             CCEEEEEETCTTCHHHHHHGGGSTT
T ss_pred             CCCeEEEEccCCcHHHHHHHHHCCC
Confidence            4568999999999999999999986

>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=95.46  E-value=0.019  Score=45.93  Aligned_cols=34  Identities=18%  Similarity=0.150  Sum_probs=26.9

Q ss_pred             HHHHhcCCCCCCCeEEEecCCccHHHHHHHhhCC
Q 036971          186 KIVESYKGFQNITRLVDVGGGLGITLSDHNFQIP  219 (221)
Q Consensus       186 ~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P  219 (221)
                      .+++.+.......+|||||||.|.++..+++.+|
T Consensus        36 ~~l~~l~~~~~~~~vLDiG~G~G~~~~~l~~~~~   69 (257)
T 3f4k_A           36 KAVSFINELTDDAKIADIGCGTGGQTLFLADYVK   69 (257)
T ss_dssp             HHHTTSCCCCTTCEEEEETCTTSHHHHHHHHHCC
T ss_pred             HHHHHHhcCCCCCeEEEeCCCCCHHHHHHHHhCC
Confidence            3444553355667999999999999999999887

>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=95.45  E-value=0.0084  Score=48.17  Aligned_cols=36  Identities=19%  Similarity=0.013  Sum_probs=28.8

Q ss_pred             HHHHHHhcCCCCCCCeEEEecCCccHHHHHHHhh-CCC
Q 036971          184 INKIVESYKGFQNITRLVDVGGGLGITLSDHNFQ-IPS  220 (221)
Q Consensus       184 ~~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~-~P~  220 (221)
                      +..++...+ .....+|+|||||+|.++..+++. .|.
T Consensus        82 ~~~i~~~~~-~~~~~~vldiG~G~G~~~~~l~~~~~~~  118 (255)
T 3mb5_A           82 AALIVAYAG-ISPGDFIVEAGVGSGALTLFLANIVGPE  118 (255)
T ss_dssp             HHHHHHHTT-CCTTCEEEEECCTTSHHHHHHHHHHCTT
T ss_pred             HHHHHHhhC-CCCCCEEEEecCCchHHHHHHHHHhCCC
Confidence            344566666 667789999999999999999988 553

>3bkx_A SAM-dependent methyltransferase; YP_807781.1, cyclopropane-fatty-acyl-phospholipid synthase-L protein, methyltransferase domain; 1.85A {Lactobacillus casei}

Probab=95.44  E-value=0.019  Score=46.46  Aligned_cols=32  Identities=19%  Similarity=0.309  Sum_probs=26.7

Q ss_pred             HHHHhcCCCCCCCeEEEecCCccHHHHHHHhhC
Q 036971          186 KIVESYKGFQNITRLVDVGGGLGITLSDHNFQI  218 (221)
Q Consensus       186 ~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~  218 (221)
                      .+++.++ .....+|||||||.|.++..+++.+
T Consensus        34 ~l~~~~~-~~~~~~vLDiGcG~G~~~~~l~~~~   65 (275)
T 3bkx_A           34 AIAEAWQ-VKPGEKILEIGCGQGDLSAVLADQV   65 (275)
T ss_dssp             HHHHHHT-CCTTCEEEEESCTTSHHHHHHHHHH
T ss_pred             HHHHHcC-CCCCCEEEEeCCCCCHHHHHHHHHh
Confidence            4556666 6667899999999999999999886

>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=95.44  E-value=0.011  Score=46.36  Aligned_cols=24  Identities=33%  Similarity=0.346  Sum_probs=22.2

Q ss_pred             CCeEEEecCCccHHHHHHHhhCCC
Q 036971          197 ITRLVDVGGGLGITLSDHNFQIPS  220 (221)
Q Consensus       197 ~~~vvDVGGG~G~~~~~l~~~~P~  220 (221)
                      ..+|||||||.|.++..+++.+|+
T Consensus        42 ~~~vLDiGcG~G~~~~~la~~~p~   65 (214)
T 1yzh_A           42 NPIHVEVGSGKGAFVSGMAKQNPD   65 (214)
T ss_dssp             CCEEEEESCTTSHHHHHHHHHCTT
T ss_pred             CCeEEEEccCcCHHHHHHHHHCCC
Confidence            578999999999999999999986

>2wte_A CSA3; antiviral protein, viral resistance, winged helix-turn-helix prnai nucleotide-binding domain; HET: MSE; 1.80A {Sulfolobus solfataricus}

Probab=95.43  E-value=0.0076  Score=49.05  Aligned_cols=62  Identities=16%  Similarity=0.212  Sum_probs=51.3

Q ss_pred             hhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceeccccccccc
Q 036971           40 NLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPVAKYYV  112 (221)
Q Consensus        40 ~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~~s~~L~  112 (221)
                      ++.|...|...   +++|..|||+.+++ ++.    .+.|.|+.|...|++++..   ....|.+|+.+..+.
T Consensus       154 ~~~IL~~L~~~---~~~s~~eLA~~lgl-sks----Tv~r~L~~Le~~GlV~r~~---r~~~~~LT~~G~~l~  215 (244)
T 2wte_A          154 EMKLLNVLYET---KGTGITELAKMLDK-SEK----TLINKIAELKKFGILTQKG---KDRKVELNELGLNVI  215 (244)
T ss_dssp             HHHHHHHHHHH---TCBCHHHHHHHHTC-CHH----HHHHHHHHHHHTTSEEEET---TTTEEEECHHHHHHH
T ss_pred             HHHHHHHHHHc---CCCCHHHHHHHHCc-CHH----HHHHHHHHHHHCCCEEEeC---CccEEEECHHHHHHH
Confidence            44566677665   48999999999999 877    9999999999999999862   456899999888664

>3bkw_A MLL3908 protein, S-adenosylmethionine dependent methyltransferase; NP_104914.1; HET: MSE; 1.60A {Mesorhizobium loti}

Probab=95.41  E-value=0.013  Score=46.43  Aligned_cols=33  Identities=18%  Similarity=0.077  Sum_probs=25.2

Q ss_pred             HHHHhcCCCCCCCeEEEecCCccHHHHHHHhhCC
Q 036971          186 KIVESYKGFQNITRLVDVGGGLGITLSDHNFQIP  219 (221)
Q Consensus       186 ~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P  219 (221)
                      .+.+.++ .....+|+|||||.|.++..+++..+
T Consensus        34 ~l~~~~~-~~~~~~vLdiG~G~G~~~~~l~~~~~   66 (243)
T 3bkw_A           34 ALRAMLP-EVGGLRIVDLGCGFGWFCRWAHEHGA   66 (243)
T ss_dssp             HHHHHSC-CCTTCEEEEETCTTCHHHHHHHHTTC
T ss_pred             HHHHhcc-ccCCCEEEEEcCcCCHHHHHHHHCCC
Confidence            3455555 44568999999999999999987643

>2fu4_A Ferric uptake regulation protein; DNA binding domain, helix-turn-helix, DNA binding protein; 1.80A {Escherichia coli}

Probab=95.40  E-value=0.0084  Score=39.93  Aligned_cols=49  Identities=16%  Similarity=0.280  Sum_probs=39.7

Q ss_pred             hhChhhHHHhcCCCCCCCHHHHHhhC-----CCCCCcchhhhHHHHHHHHhcCCceeeec
Q 036971           40 NLDVLDIINKAGPGAELSASEIASQI-----PTKNPEGAAKMLDRVLGLLVSFNILCCSF   94 (221)
Q Consensus        40 ~lglfd~L~~~g~~~~~t~~eLA~~~-----g~~~~~~~~~~l~rlLr~L~~~gll~~~~   94 (221)
                      +..|++.|.+.+ +++.|++||++.+     ++ +..    -+.|.|+.|+..|++.+..
T Consensus        19 r~~IL~~l~~~~-~~~~s~~el~~~l~~~~~~i-s~~----TVyR~L~~L~~~Glv~~~~   72 (83)
T 2fu4_A           19 RLKILEVLQEPD-NHHVSAEDLYKRLIDMGEEI-GLA----TVYRVLNQFDDAGIVTRHN   72 (83)
T ss_dssp             HHHHHHHHTSGG-GSSBCHHHHHHHHHHTTCCC-CHH----HHHHHHHHHHHHTSEEEEE
T ss_pred             HHHHHHHHHhCC-CCCCCHHHHHHHHHHhCCCC-CHh----hHHHHHHHHHHCCCeEEEe
Confidence            345778887641 0389999999999     78 665    8999999999999999873

>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=95.38  E-value=0.017  Score=47.23  Aligned_cols=34  Identities=24%  Similarity=0.245  Sum_probs=27.1

Q ss_pred             HHHHHhcCCCCCCCeEEEecCCccHHHHHHHhhCC
Q 036971          185 NKIVESYKGFQNITRLVDVGGGLGITLSDHNFQIP  219 (221)
Q Consensus       185 ~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P  219 (221)
                      ..+++.++ .....+|||||||.|.++..+++.++
T Consensus        54 ~~~~~~~~-~~~~~~vLDiGcG~G~~~~~l~~~~~   87 (287)
T 1kpg_A           54 DLALGKLG-LQPGMTLLDVGCGWGATMMRAVEKYD   87 (287)
T ss_dssp             HHHHTTTT-CCTTCEEEEETCTTSHHHHHHHHHHC
T ss_pred             HHHHHHcC-CCCcCEEEEECCcccHHHHHHHHHcC
Confidence            34566666 66678999999999999999986654

>3ou2_A SAM-dependent methyltransferase; O-methyltransferase, SAH; HET: SAH; 1.50A {Streptomyces luridus} PDB: 3ou6_A* 3ou7_A*

Probab=95.38  E-value=0.016  Score=44.97  Aligned_cols=31  Identities=10%  Similarity=0.049  Sum_probs=23.2

Q ss_pred             HHHhcCCCCCCCeEEEecCCccHHHHHHHhh
Q 036971          187 IVESYKGFQNITRLVDVGGGLGITLSDHNFQ  217 (221)
Q Consensus       187 ~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~  217 (221)
                      +++.+.......+|+|||||.|.++..+++.
T Consensus        37 ~~~~l~~~~~~~~vLdiG~G~G~~~~~l~~~   67 (218)
T 3ou2_A           37 ALERLRAGNIRGDVLELASGTGYWTRHLSGL   67 (218)
T ss_dssp             HHHHHTTTTSCSEEEEESCTTSHHHHHHHHH
T ss_pred             HHHHHhcCCCCCeEEEECCCCCHHHHHHHhc
Confidence            3334432445579999999999999999876

>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=95.30  E-value=0.0097  Score=42.23  Aligned_cols=73  Identities=12%  Similarity=0.136  Sum_probs=53.3

Q ss_pred             HHHHHHHhhhHHHHHHHHHHhhChhhHHHhcCCCCCCC--HHHHHhhC-CCCCCcchhhhHHHHHHHHhcCCceeeeccC
Q 036971           20 SHAMVLGSAIVLPAVFQAVVNLDVLDIINKAGPGAELS--ASEIASQI-PTKNPEGAAKMLDRVLGLLVSFNILCCSFST   96 (221)
Q Consensus        20 ~~l~~~~~g~~~~~aL~~av~lglfd~L~~~g~~~~~t--~~eLA~~~-g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~   96 (221)
                      ..+++++.+.|....|         ..|..    ++.+  +.||++.+ |+ .+.    .+.+.|+.|...|++++... 
T Consensus        18 ~~~l~~l~~~wrl~IL---------~~L~~----g~~~~~~~eL~~~l~gi-s~~----~ls~~L~~Le~~GlV~r~~~-   78 (111)
T 3df8_A           18 ESVLHLLGKKYTMLII---------SVLGN----GSTRQNFNDIRSSIPGI-SST----ILSRRIKDLIDSGLVERRSG-   78 (111)
T ss_dssp             SSTHHHHHSTTHHHHH---------HHHTS----SSSCBCHHHHHHTSTTC-CHH----HHHHHHHHHHHTTSEEEEES-
T ss_pred             HHHHHHHcCccHHHHH---------HHHhc----CCCCCCHHHHHHHccCC-CHH----HHHHHHHHHHHCCCEEEeec-
Confidence            3345555555544444         34553    5777  99999999 99 777    99999999999999998621 


Q ss_pred             CCCcceeccccccccc
Q 036971           97 HGVRLYSLAPVAKYYV  112 (221)
Q Consensus        97 ~~~~~y~lt~~s~~L~  112 (221)
                       ....|++|+.++.+.
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             245688888877655

>3dh0_A SAM dependent methyltransferase; cystal structure, PSI-2, NYSGXRC, structural genomics, protein structure initiative; HET: SAM; 2.72A {Aquifex aeolicus}

Probab=95.25  E-value=0.012  Score=45.84  Aligned_cols=32  Identities=22%  Similarity=0.421  Sum_probs=26.7

Q ss_pred             HHHHhcCCCCCCCeEEEecCCccHHHHHHHhhC
Q 036971          186 KIVESYKGFQNITRLVDVGGGLGITLSDHNFQI  218 (221)
Q Consensus       186 ~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~  218 (221)
                      .+++.++ .....+|||||||.|.++..+++..
T Consensus        28 ~~~~~~~-~~~~~~vLDiG~G~G~~~~~l~~~~   59 (219)
T 3dh0_A           28 KVLKEFG-LKEGMTVLDVGTGAGFYLPYLSKMV   59 (219)
T ss_dssp             HHHHHHT-CCTTCEEEESSCTTCTTHHHHHHHH
T ss_pred             HHHHHhC-CCCCCEEEEEecCCCHHHHHHHHHh
Confidence            4556666 6667899999999999999999876

>1ylf_A RRF2 family protein; structural genomics, transcription regulator, P protein structure initiative; 2.50A {Bacillus cereus atcc 14579} SCOP: a.4.5.55

Probab=95.24  E-value=0.012  Score=43.90  Aligned_cols=63  Identities=11%  Similarity=0.090  Sum_probs=46.4

Q ss_pred             HHHHHHHHHHhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceecccc
Q 036971           30 VLPAVFQAVVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPV  107 (221)
Q Consensus        30 ~~~~aL~~av~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~~  107 (221)
                      ....+|++.+.+...    . +  ++.|+++||+.+++ ++.    .++++|..|...|+++..+  | .|.|.++.-
T Consensus        12 ~~~yAl~~L~~La~~----~-~--~~~~~~~iA~~~~i-~~~----~l~kil~~L~~~Glv~s~r--G-~GGy~L~~~   74 (149)
T 1ylf_A           12 RFSIAVHILSILKNN----P-S--SLCTSDYMAESVNT-NPV----VIRKIMSYLKQAGFVYVNR--G-PGGAGLLKD   74 (149)
T ss_dssp             HHHHHHHHHHHHHHS----C-G--GGCCHHHHHHHHTS-CHH----HHHHHHHHHHHTTSEEEC------CCEEESSC
T ss_pred             HHHHHHHHHHHHHhC----C-C--CCcCHHHHHHHHCc-CHH----HHHHHHHHHHHCCcEEEcc--C-CCceEeCCC
Confidence            344567776665331    1 1  58999999999999 888    9999999999999998763  2 566777653

>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=95.21  E-value=0.011  Score=42.63  Aligned_cols=48  Identities=17%  Similarity=0.314  Sum_probs=41.3

Q ss_pred             HHHhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           37 AVVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        37 ~av~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      --.++.|+..|.+    ++.++.+||+.+|+ ++.    .+.+.|+.|...|++...
T Consensus        45 ~~~rl~IL~~L~~----~~~s~~ela~~lgi-s~s----tvs~~L~~Le~~Glv~~~   92 (122)
T 1r1t_A           45 DPNRLRLLSLLAR----SELCVGDLAQAIGV-SES----AVSHQLRSLRNLRLVSYR   92 (122)
T ss_dssp             CHHHHHHHHHHTT----CCBCHHHHHHHHTC-CHH----HHHHHHHHHHHTTSEEEE
T ss_pred             CHHHHHHHHHHHc----CCCCHHHHHHHHCc-CHH----HHHHHHHHHHHCCCeEEE
Confidence            3356677888876    58999999999999 776    999999999999999976

>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=95.21  E-value=0.014  Score=47.98  Aligned_cols=33  Identities=3%  Similarity=-0.115  Sum_probs=26.4

Q ss_pred             HHHHHhcCCCCCCCeEEEecCCccHHHHHHHhhC
Q 036971          185 NKIVESYKGFQNITRLVDVGGGLGITLSDHNFQI  218 (221)
Q Consensus       185 ~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~  218 (221)
                      ..+++..+ .....+|+|||||+|.++..++++.
T Consensus        35 ~~il~~l~-l~~g~~VLDlGcGtG~~a~~La~~g   67 (261)
T 3iv6_A           35 ENDIFLEN-IVPGSTVAVIGASTRFLIEKALERG   67 (261)
T ss_dssp             HHHHHTTT-CCTTCEEEEECTTCHHHHHHHHHTT
T ss_pred             HHHHHhcC-CCCcCEEEEEeCcchHHHHHHHhcC
Confidence            34566666 6667899999999999999998753

>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=95.14  E-value=0.027  Score=42.79  Aligned_cols=47  Identities=21%  Similarity=0.326  Sum_probs=40.2

Q ss_pred             CCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceecccc
Q 036971           54 AELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPV  107 (221)
Q Consensus        54 ~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~~  107 (221)
                      +++|.++||+.+++ ++.    .++++|..|...|+++-.+  |..|.|++..-
T Consensus        27 ~~~s~~~IA~~~~i-s~~----~l~kil~~L~~aGlv~s~r--G~~GGy~Lar~   73 (162)
T 3k69_A           27 SKVASRELAQSLHL-NPV----MIRNILSVLHKHGYLTGTV--GKNGGYQLDLA   73 (162)
T ss_dssp             SCBCHHHHHHHHTS-CGG----GTHHHHHHHHHTTSSEEEC--STTCEEECCSC
T ss_pred             CCcCHHHHHHHHCc-CHH----HHHHHHHHHHHCCCEEeec--CCCCCeEecCC
Confidence            58999999999999 998    9999999999999997763  24567888754

>3mgg_A Methyltransferase; NYSGXRC, PSI-II, protein structure initiative, structural genomics, NEW YORK SGX research center for structural genomics; 1.86A {Methanosarcina mazei}

Probab=95.14  E-value=0.018  Score=46.63  Aligned_cols=27  Identities=15%  Similarity=0.291  Sum_probs=24.4

Q ss_pred             CCCCCeEEEecCCccHHHHHHHhhCCC
Q 036971          194 FQNITRLVDVGGGLGITLSDHNFQIPS  220 (221)
Q Consensus       194 ~~~~~~vvDVGGG~G~~~~~l~~~~P~  220 (221)
                      +....+|||||||.|.++..+++.+|+
T Consensus        35 ~~~~~~vLDiG~G~G~~~~~l~~~~~~   61 (276)
T 3mgg_A           35 YPPGAKVLEAGCGIGAQTVILAKNNPD   61 (276)
T ss_dssp             CCTTCEEEETTCTTSHHHHHHHHHCTT
T ss_pred             CCCCCeEEEecCCCCHHHHHHHHhCCC
Confidence            566789999999999999999999875

>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=95.13  E-value=0.0055  Score=47.50  Aligned_cols=24  Identities=29%  Similarity=0.412  Sum_probs=21.8

Q ss_pred             CCeEEEecCCccHHHHHHHhhCCC
Q 036971          197 ITRLVDVGGGLGITLSDHNFQIPS  220 (221)
Q Consensus       197 ~~~vvDVGGG~G~~~~~l~~~~P~  220 (221)
                      ..+|+|||||.|.++..+++.+|+
T Consensus        66 ~~~vLDiG~G~G~~~~~l~~~~~~   89 (207)
T 1jsx_A           66 GERFIDVGTGPGLPGIPLSIVRPE   89 (207)
T ss_dssp             SSEEEEETCTTTTTHHHHHHHCTT
T ss_pred             CCeEEEECCCCCHHHHHHHHHCCC
Confidence            479999999999999999998875

>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=95.12  E-value=0.026  Score=45.43  Aligned_cols=24  Identities=25%  Similarity=0.335  Sum_probs=21.1

Q ss_pred             CCCeEEEecCCccHHHHHHHhhCC
Q 036971          196 NITRLVDVGGGLGITLSDHNFQIP  219 (221)
Q Consensus       196 ~~~~vvDVGGG~G~~~~~l~~~~P  219 (221)
                      ...+|||||||.|.++..+++..+
T Consensus        50 ~~~~vLDiGcG~G~~~~~l~~~~~   73 (263)
T 3pfg_A           50 KAASLLDVACGTGMHLRHLADSFG   73 (263)
T ss_dssp             TCCEEEEETCTTSHHHHHHTTTSS
T ss_pred             CCCcEEEeCCcCCHHHHHHHHcCC
Confidence            457999999999999999988765

>3g07_A 7SK snRNA methylphosphate capping enzyme; structural genomics consortium (SGC), methyltransferase, phosphoprotein, S-adenosyl-L-methionine; HET: SAM; 2.65A {Homo sapiens}

Probab=95.12  E-value=0.013  Score=48.37  Aligned_cols=25  Identities=12%  Similarity=0.104  Sum_probs=22.6

Q ss_pred             CCCeEEEecCCccHHHHHHHhhCCC
Q 036971          196 NITRLVDVGGGLGITLSDHNFQIPS  220 (221)
Q Consensus       196 ~~~~vvDVGGG~G~~~~~l~~~~P~  220 (221)
                      ...+|||||||.|.++..+++.+|.
T Consensus        46 ~~~~VLDiGCG~G~~~~~la~~~~~   70 (292)
T 3g07_A           46 RGRDVLDLGCNVGHLTLSIACKWGP   70 (292)
T ss_dssp             TTSEEEEESCTTCHHHHHHHHHTCC
T ss_pred             CCCcEEEeCCCCCHHHHHHHHHcCC
Confidence            4689999999999999999999874

>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=95.11  E-value=0.011  Score=40.55  Aligned_cols=64  Identities=11%  Similarity=0.171  Sum_probs=47.6

Q ss_pred             hhChhhHHHhcCCCCCCCHHHH----HhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceeccccccccc
Q 036971           40 NLDVLDIINKAGPGAELSASEI----ASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPVAKYYV  112 (221)
Q Consensus        40 ~lglfd~L~~~g~~~~~t~~eL----A~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~~s~~L~  112 (221)
                      ++.|+..|...   ++++..+|    |+.+++ ++.    .+.++++.|...|++.+.... ....|.+|+.++.+.
T Consensus        10 q~~iL~~l~~~---~~~~~~el~~~la~~l~i-s~~----tvs~~l~~Le~~gli~r~~~~-r~~~~~LT~~G~~~~   77 (99)
T 1tbx_A           10 EAIVLAYLYDN---EGIATYDLYKKVNAEFPM-STA----TFYDAKKFLIQEGFVKERQER-GEKRLYLTEKGKLFA   77 (99)
T ss_dssp             HHHHHHHHTTC---TTCBHHHHHHHHHTTSCC-CHH----HHHHHHHHHHHTTSEEEEEET-TEEEEEECHHHHHHH
T ss_pred             HHHHHHHHHHc---CCcCHHHHHHHHHHHcCC-CHH----HHHHHHHHHHHCCCEEEEecC-CceEEEECHHHHHHH
Confidence            34456667665   48999999    999999 877    999999999999999986210 123466777666554

>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=95.08  E-value=0.015  Score=46.54  Aligned_cols=34  Identities=24%  Similarity=0.376  Sum_probs=27.4

Q ss_pred             HHHHHHhcCCCCCCCeEEEecCCccHHHHHHHhhC
Q 036971          184 INKIVESYKGFQNITRLVDVGGGLGITLSDHNFQI  218 (221)
Q Consensus       184 ~~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~  218 (221)
                      ...+++.++ .....+|||||||.|.++..+++.+
T Consensus        44 ~~~~~~~~~-~~~~~~vLdiG~G~G~~~~~l~~~~   77 (266)
T 3ujc_A           44 TKKILSDIE-LNENSKVLDIGSGLGGGCMYINEKY   77 (266)
T ss_dssp             HHHHTTTCC-CCTTCEEEEETCTTSHHHHHHHHHH
T ss_pred             HHHHHHhcC-CCCCCEEEEECCCCCHHHHHHHHHc
Confidence            345566666 6677899999999999999998864

>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=95.08  E-value=0.014  Score=50.55  Aligned_cols=36  Identities=14%  Similarity=0.082  Sum_probs=28.8

Q ss_pred             HHHHHHHHhcCCCCCCCeEEEecCCccHHHHHHHhhC
Q 036971          182 FVINKIVESYKGFQNITRLVDVGGGLGITLSDHNFQI  218 (221)
Q Consensus       182 ~~~~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~  218 (221)
                      ..+..+++.++ .....+|||||||.|.++..+++..
T Consensus        94 ~~~~~l~~~~~-~~~~~~VLDiGcG~G~~~~~l~~~g  129 (416)
T 4e2x_A           94 MLARDFLATEL-TGPDPFIVEIGCNDGIMLRTIQEAG  129 (416)
T ss_dssp             HHHHHHHHTTT-CSSSCEEEEETCTTTTTHHHHHHTT
T ss_pred             HHHHHHHHHhC-CCCCCEEEEecCCCCHHHHHHHHcC
Confidence            34456677777 6667899999999999999998764

>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=95.05  E-value=0.016  Score=46.02  Aligned_cols=30  Identities=13%  Similarity=0.125  Sum_probs=24.7

Q ss_pred             HhcCCCCCCCeEEEecCCccHHHHHHHhhCC
Q 036971          189 ESYKGFQNITRLVDVGGGLGITLSDHNFQIP  219 (221)
Q Consensus       189 ~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P  219 (221)
                      +.++ +....+|+|||||+|.++..+++.+|
T Consensus        68 ~~~~-~~~~~~VLDlGcG~G~~~~~la~~~~   97 (230)
T 1fbn_A           68 KVMP-IKRDSKILYLGASAGTTPSHVADIAD   97 (230)
T ss_dssp             CCCC-CCTTCEEEEESCCSSHHHHHHHHHTT
T ss_pred             cccC-CCCCCEEEEEcccCCHHHHHHHHHcC
Confidence            3344 55668999999999999999998876

>2qe6_A Uncharacterized protein TFU_2867; putative methyltransferase, structural genomics, joint cente structural genomics, JCSG; HET: NEP SAM; 1.95A {Thermobifida fusca}

Probab=95.05  E-value=0.03  Score=46.01  Aligned_cols=25  Identities=28%  Similarity=0.405  Sum_probs=21.5

Q ss_pred             CCCeEEEecCCc---cHHHHHHHhhCCC
Q 036971          196 NITRLVDVGGGL---GITLSDHNFQIPS  220 (221)
Q Consensus       196 ~~~~vvDVGGG~---G~~~~~l~~~~P~  220 (221)
                      +..+|||||||.   |.+...+.+.+|+
T Consensus        77 ~~~~vLDlGcG~pt~G~~~~~~~~~~p~  104 (274)
T 2qe6_A           77 GISQFLDLGSGLPTVQNTHEVAQSVNPD  104 (274)
T ss_dssp             CCCEEEEETCCSCCSSCHHHHHHHHCTT
T ss_pred             CCCEEEEECCCCCCCChHHHHHHHhCCC
Confidence            457999999999   9988888888875

>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=95.04  E-value=0.087  Score=38.59  Aligned_cols=63  Identities=16%  Similarity=0.270  Sum_probs=45.1

Q ss_pred             hChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeec-cCCCC---cceeccccccccc
Q 036971           41 LDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSF-STHGV---RLYSLAPVAKYYV  112 (221)
Q Consensus        41 lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~-~~~~~---~~y~lt~~s~~L~  112 (221)
                      ..|+..| ..   +++|..+||+.+++ ++.    .+.++++.|...|++.... .+..+   -.+.+|+.+..+.
T Consensus        41 ~~iL~~l-~~---~~~t~~eLa~~l~~-~~~----~vs~~l~~Le~~Glv~r~~~~~~~D~R~~~~~lT~~G~~~~  107 (151)
T 3kp7_A           41 SHVLNML-SI---EALTVGQITEKQGV-NKA----AVSRRVKKLLNAELVKLEKPDSNTDQRLKIIKLSNKGKKYI  107 (151)
T ss_dssp             HHHHHHH-HH---SCBCHHHHHHHHCS-CSS----HHHHHHHHHHHTTSEEC-----------CCBEECHHHHHHH
T ss_pred             HHHHHHH-Hc---CCcCHHHHHHHHCC-CHH----HHHHHHHHHHHCCCEEeeCCCCCCCCCeeEEEECHhHHHHH
Confidence            3467778 54   59999999999999 887    9999999999999999721 00012   2356666665544

>3bdd_A Regulatory protein MARR; putative multiple antibiotic-resistance repressor, structura genomics, joint center for structural genomics, JCSG; 2.20A {Streptococcus suis}

Probab=95.03  E-value=0.025  Score=40.87  Aligned_cols=66  Identities=15%  Similarity=0.120  Sum_probs=50.9

Q ss_pred             HhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccC--CCCcceeccccccccc
Q 036971           39 VNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFST--HGVRLYSLAPVAKYYV  112 (221)
Q Consensus        39 v~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~--~~~~~y~lt~~s~~L~  112 (221)
                      .++.|+..|...   +++|..+||+.+++ ++.    .+.+.++.|...|++......  ...-.|.+|+.+..+.
T Consensus        32 ~~~~iL~~l~~~---~~~~~~ela~~l~i-s~~----~vs~~l~~L~~~gli~~~~~~~d~r~~~~~lT~~G~~~~   99 (142)
T 3bdd_A           32 TRYSILQTLLKD---APLHQLALQERLQI-DRA----AVTRHLKLLEESGYIIRKRNPDNQREVLVWPTEQAREAL   99 (142)
T ss_dssp             HHHHHHHHHHHH---CSBCHHHHHHHHTC-CHH----HHHHHHHHHHHTTSEEEEECSSSTTCEEEEECHHHHHHH
T ss_pred             HHHHHHHHHHhC---CCCCHHHHHHHHCC-CHH----HHHHHHHHHHHCCCEEecCCCCCCCeeEEEECHHHHHHH
Confidence            345578888876   48999999999999 877    999999999999999986321  0122477888777665

>4dcm_A Ribosomal RNA large subunit methyltransferase G; 23S rRNA (guanine1835-N2)-methyltransferase; HET: SAM; 2.30A {Escherichia coli}

Probab=94.93  E-value=0.028  Score=48.42  Aligned_cols=34  Identities=18%  Similarity=0.112  Sum_probs=27.8

Q ss_pred             HHHHhcCCCCCCCeEEEecCCccHHHHHHHhhCCC
Q 036971          186 KIVESYKGFQNITRLVDVGGGLGITLSDHNFQIPS  220 (221)
Q Consensus       186 ~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~  220 (221)
                      .+++.++ .....+|+|||||.|.++..+++.+|+
T Consensus       213 ~ll~~l~-~~~~~~VLDlGcG~G~~s~~la~~~p~  246 (375)
T 4dcm_A          213 FFMQHLP-ENLEGEIVDLGCGNGVIGLTLLDKNPQ  246 (375)
T ss_dssp             HHHHTCC-CSCCSEEEEETCTTCHHHHHHHHHCTT
T ss_pred             HHHHhCc-ccCCCeEEEEeCcchHHHHHHHHHCCC
Confidence            3566666 444489999999999999999999885

>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=94.93  E-value=0.021  Score=39.97  Aligned_cols=77  Identities=17%  Similarity=0.118  Sum_probs=55.6

Q ss_pred             HHHHHHHHHhhhHHHHHHHHHHhhChhhHHHhcCCCCCCCHHHHHhhC-CCCCCcchhhhHHHHHHHHhcCCceeeeccC
Q 036971           18 VYSHAMVLGSAIVLPAVFQAVVNLDVLDIINKAGPGAELSASEIASQI-PTKNPEGAAKMLDRVLGLLVSFNILCCSFST   96 (221)
Q Consensus        18 ~~~~l~~~~~g~~~~~aL~~av~lglfd~L~~~g~~~~~t~~eLA~~~-g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~   96 (221)
                      +...++++..+.+...+|.         .|..    ++++..||++.+ |+ ++.    .+.+.|+.|...|++++....
T Consensus        14 ~~~~~l~~l~~~~~~~IL~---------~L~~----~~~~~~eL~~~l~gi-s~~----~ls~~L~~Le~~GlV~r~~~~   75 (107)
T 2fsw_A           14 PVRKSMQIFAGKWTLLIIF---------QINR----RIIRYGELKRAIPGI-SEK----MLIDELKFLCGKGLIKKKQYP   75 (107)
T ss_dssp             HHHHHHHHHTSSSHHHHHH---------HHTT----SCEEHHHHHHHSTTC-CHH----HHHHHHHHHHHTTSEEEEEEC
T ss_pred             CHHHHHHHHcCccHHHHHH---------HHHh----CCcCHHHHHHHcccC-CHH----HHHHHHHHHHHCCCEEEeecC
Confidence            4566667776666655544         3443    589999999999 49 777    999999999999999986321


Q ss_pred             CC--Ccceeccccccccc
Q 036971           97 HG--VRLYSLAPVAKYYV  112 (221)
Q Consensus        97 ~~--~~~y~lt~~s~~L~  112 (221)
                      .+  .-.|.+|+.++.+.
T Consensus        76 ~d~r~~~y~LT~~G~~l~   93 (107)
T 2fsw_A           76 EVPPRVEYSLTPLGEKVL   93 (107)
T ss_dssp             SSSCEEEEEECHHHHTTH
T ss_pred             CCCCeeEEEECccHHHHH
Confidence            01  12589998876554

>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=94.93  E-value=0.014  Score=46.65  Aligned_cols=24  Identities=25%  Similarity=0.230  Sum_probs=21.0

Q ss_pred             CCCeEEEecCCccHHHHHHHhhCC
Q 036971          196 NITRLVDVGGGLGITLSDHNFQIP  219 (221)
Q Consensus       196 ~~~~vvDVGGG~G~~~~~l~~~~P  219 (221)
                      ...+|||||||.|..+..+++..|
T Consensus        60 ~G~rVLdiG~G~G~~~~~~~~~~~   83 (236)
T 3orh_A           60 KGGRVLEVGFGMAIAASKVQEAPI   83 (236)
T ss_dssp             TCEEEEEECCTTSHHHHHHTTSCE
T ss_pred             CCCeEEEECCCccHHHHHHHHhCC
Confidence            357999999999999999988766

>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=94.92  E-value=0.014  Score=43.03  Aligned_cols=66  Identities=11%  Similarity=0.155  Sum_probs=47.2

Q ss_pred             HhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCc---ceeccccccccc
Q 036971           39 VNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVR---LYSLAPVAKYYV  112 (221)
Q Consensus        39 v~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~---~y~lt~~s~~L~  112 (221)
                      .++.|...|...+  +++|..+||+.+++ ++.    .+.++++.|...|++.+.... .+.   .+.+|+.++.+.
T Consensus        40 ~q~~vL~~l~~~~--~~~t~~eLa~~l~i-~~~----tvs~~l~~Le~~Glv~r~~~~-~D~R~~~~~LT~~G~~~~  108 (150)
T 3fm5_A           40 RSYSVLVLACEQA--EGVNQRGVAATMGL-DPS----QIVGLVDELEERGLVVRTLDP-SDRRNKLIAATEEGRRLR  108 (150)
T ss_dssp             HHHHHHHHHHHST--TCCCSHHHHHHHTC-CHH----HHHHHHHHHHTTTSEEC------------CEECHHHHHHH
T ss_pred             HHHHHHHHHHhCC--CCcCHHHHHHHHCC-CHh----HHHHHHHHHHHCCCEEeeCCc-cccchheeeECHHHHHHH
Confidence            4455677777654  47899999999999 887    999999999999999985210 111   266777766554

>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=94.92  E-value=0.015  Score=46.71  Aligned_cols=26  Identities=23%  Similarity=0.420  Sum_probs=23.1

Q ss_pred             CCCCeEEEecCCccHHHHHHHhhCCC
Q 036971          195 QNITRLVDVGGGLGITLSDHNFQIPS  220 (221)
Q Consensus       195 ~~~~~vvDVGGG~G~~~~~l~~~~P~  220 (221)
                      +...+|||||||.|.++..+++.+|+
T Consensus        48 ~~~~~vLDiGcG~G~~~~~la~~~~~   73 (246)
T 2vdv_E           48 TKKVTIADIGCGFGGLMIDLSPAFPE   73 (246)
T ss_dssp             SCCEEEEEETCTTSHHHHHHHHHSTT
T ss_pred             CCCCEEEEEcCCCCHHHHHHHHhCCC
Confidence            34579999999999999999999885

>3bja_A Transcriptional regulator, MARR family, putative; NP_978771.1, putative MARR-like transcription regulator, MAR structural genomics; 2.38A {Bacillus cereus}

Probab=94.92  E-value=0.021  Score=41.13  Aligned_cols=66  Identities=12%  Similarity=0.170  Sum_probs=48.5

Q ss_pred             HhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCC--CCcceeccccccccc
Q 036971           39 VNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTH--GVRLYSLAPVAKYYV  112 (221)
Q Consensus        39 v~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~--~~~~y~lt~~s~~L~  112 (221)
                      .++.|+..|...   +++|..+||+.+++ ++.    .+.++++.|...|++.......  ..-.+.+|+.++.+.
T Consensus        34 ~~~~iL~~l~~~---~~~~~~ela~~l~~-~~~----tvs~~l~~L~~~gli~r~~~~~d~r~~~~~lT~~G~~~~  101 (139)
T 3bja_A           34 VQFGVIQVLAKS---GKVSMSKLIENMGC-VPS----NMTTMIQRMKRDGYVMTEKNPNDQRETLVYLTKKGEETK  101 (139)
T ss_dssp             HHHHHHHHHHHS---CSEEHHHHHHHCSS-CCT----THHHHHHHHHHTTSEEEEECSSCTTCEEEEECHHHHHHH
T ss_pred             HHHHHHHHHHHc---CCcCHHHHHHHHCC-Chh----HHHHHHHHHHHCCCeeeccCCCCCceeEEEECHHHHHHH
Confidence            345577788776   48999999999999 887    9999999999999999852110  011256666665444

>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=94.92  E-value=0.012  Score=41.60  Aligned_cols=77  Identities=9%  Similarity=-0.010  Sum_probs=54.2

Q ss_pred             HHHHHHHHHhhhHHHHHHHHHHhhChhhHHHhcCCCCCCCHHHHHhhC-CCCCCcchhhhHHHHHHHHhcCCceeeeccC
Q 036971           18 VYSHAMVLGSAIVLPAVFQAVVNLDVLDIINKAGPGAELSASEIASQI-PTKNPEGAAKMLDRVLGLLVSFNILCCSFST   96 (221)
Q Consensus        18 ~~~~l~~~~~g~~~~~aL~~av~lglfd~L~~~g~~~~~t~~eLA~~~-g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~   96 (221)
                      +...++++..+.+...+|.         .|..    ++++..+||+.+ ++ ++.    .+.+.|+.|...|+++.....
T Consensus        11 ~~~~~l~~l~~~~~~~IL~---------~L~~----~~~~~~eLa~~l~~i-s~~----tvs~~L~~Le~~GlI~r~~~~   72 (112)
T 1z7u_A           11 SINLALSTINGKWKLSLMD---------ELFQ----GTKRNGELMRALDGI-TQR----VLTDRLREMEKDGLVHRESFN   72 (112)
T ss_dssp             HHHHHHHTTCSTTHHHHHH---------HHHH----SCBCHHHHHHHSTTC-CHH----HHHHHHHHHHHHTSEEEEEEC
T ss_pred             CHHHHHHHHcCccHHHHHH---------HHHh----CCCCHHHHHHHhccC-CHH----HHHHHHHHHHHCCCEEEeecC
Confidence            3455556555555544443         4444    489999999999 99 877    999999999999999986321


Q ss_pred             CC--Ccceeccccccccc
Q 036971           97 HG--VRLYSLAPVAKYYV  112 (221)
Q Consensus        97 ~~--~~~y~lt~~s~~L~  112 (221)
                      .+  .-.|.+|+.++.+.
T Consensus        73 ~d~r~~~~~LT~~G~~~~   90 (112)
T 1z7u_A           73 ELPPRVEYTLTPEGYALY   90 (112)
T ss_dssp             CSSCEEEEEECHHHHHHH
T ss_pred             CCCCeEEEEECHhHHHHH
Confidence            01  12488888776554

>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=94.91  E-value=0.045  Score=45.01  Aligned_cols=24  Identities=29%  Similarity=0.338  Sum_probs=21.4

Q ss_pred             CCCCeEEEecCCccHHHHHHHhhC
Q 036971          195 QNITRLVDVGGGLGITLSDHNFQI  218 (221)
Q Consensus       195 ~~~~~vvDVGGG~G~~~~~l~~~~  218 (221)
                      ....+|||||||.|.++..+++.+
T Consensus        35 ~~~~~vLDiGcG~G~~~~~la~~~   58 (299)
T 3g5t_A           35 GERKLLVDVGCGPGTATLQMAQEL   58 (299)
T ss_dssp             SCCSEEEEETCTTTHHHHHHHHHS
T ss_pred             CCCCEEEEECCCCCHHHHHHHHhC
Confidence            356899999999999999999876

>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=94.85  E-value=0.0064  Score=47.48  Aligned_cols=25  Identities=8%  Similarity=0.069  Sum_probs=20.9

Q ss_pred             CCCCCeEEEecCCccHHHHHHHhhC
Q 036971          194 FQNITRLVDVGGGLGITLSDHNFQI  218 (221)
Q Consensus       194 ~~~~~~vvDVGGG~G~~~~~l~~~~  218 (221)
                      .....+|||||||.|.++..+++..
T Consensus        49 ~~~~~~vLDiGcG~G~~~~~l~~~~   73 (216)
T 3ofk_A           49 SGAVSNGLEIGCAAGAFTEKLAPHC   73 (216)
T ss_dssp             TSSEEEEEEECCTTSHHHHHHGGGE
T ss_pred             cCCCCcEEEEcCCCCHHHHHHHHcC
Confidence            4456799999999999999987754

>3uzu_A Ribosomal RNA small subunit methyltransferase A; ssgcid, seattle structural genomics center for infectio disease; 1.75A {Burkholderia pseudomallei}

Probab=94.83  E-value=0.018  Score=47.70  Aligned_cols=35  Identities=23%  Similarity=0.383  Sum_probs=27.3

Q ss_pred             HHHHHhcCCCCCCCeEEEecCCccHHHHHHHhhCCC
Q 036971          185 NKIVESYKGFQNITRLVDVGGGLGITLSDHNFQIPS  220 (221)
Q Consensus       185 ~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~  220 (221)
                      ..+++..+ .....+|+|||||.|.++..+++..+.
T Consensus        32 ~~iv~~~~-~~~~~~VLEIG~G~G~lt~~La~~~~~   66 (279)
T 3uzu_A           32 DAIVAAIR-PERGERMVEIGPGLGALTGPVIARLAT   66 (279)
T ss_dssp             HHHHHHHC-CCTTCEEEEECCTTSTTHHHHHHHHCB
T ss_pred             HHHHHhcC-CCCcCEEEEEccccHHHHHHHHHhCCC
Confidence            34555665 556689999999999999999987553

>3boq_A Transcriptional regulator, MARR family; MARR famil structural genomics, PSI-2, protein structure initiative; 2.39A {Silicibacter pomeroyi dss-3}

Probab=94.81  E-value=0.064  Score=39.64  Aligned_cols=65  Identities=9%  Similarity=0.116  Sum_probs=46.5

Q ss_pred             hhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCC---cceeccccccccc
Q 036971           40 NLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGV---RLYSLAPVAKYYV  112 (221)
Q Consensus        40 ~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~---~~y~lt~~s~~L~  112 (221)
                      ++.|+..|...+  +++|..+||+.+++ ++.    .+.++++.|...|++.+.... .+   -.+.+|+.+..+.
T Consensus        49 ~~~iL~~L~~~~--~~~~~~ela~~l~i-~~~----tvs~~l~~Le~~Gli~r~~~~-~d~R~~~~~lT~~G~~~~  116 (160)
T 3boq_A           49 KFDAMAQLARNP--DGLSMGKLSGALKV-TNG----NVSGLVNRLIKDGMVVKAMSA-DDRRSFSAKLTDAGLTTF  116 (160)
T ss_dssp             HHHHHHHHHHCT--TCEEHHHHHHHCSS-CCS----CHHHHHHHHHHHTSEEEC---------CEEEECHHHHHHH
T ss_pred             HHHHHHHHHHcC--CCCCHHHHHHHHCC-Chh----hHHHHHHHHHHCCCEEeecCC-CCCCeEEEEEChhHHHHH
Confidence            445778884322  58999999999999 887    999999999999999985210 11   1256666665444

>2yqz_A Hypothetical protein TTHA0223; RNA methyltransferase, SAM, structural genomics, NPPSFA; HET: SAM; 1.80A {Thermus thermophilus} PDB: 2yr0_A

Probab=94.80  E-value=0.038  Score=44.11  Aligned_cols=24  Identities=13%  Similarity=0.044  Sum_probs=20.9

Q ss_pred             CCCCCeEEEecCCccHHHHHHHhh
Q 036971          194 FQNITRLVDVGGGLGITLSDHNFQ  217 (221)
Q Consensus       194 ~~~~~~vvDVGGG~G~~~~~l~~~  217 (221)
                      .....+|+|||||.|.++..+++.
T Consensus        37 ~~~~~~vLDiG~G~G~~~~~l~~~   60 (263)
T 2yqz_A           37 KGEEPVFLELGVGTGRIALPLIAR   60 (263)
T ss_dssp             SSSCCEEEEETCTTSTTHHHHHTT
T ss_pred             CCCCCEEEEeCCcCCHHHHHHHHC
Confidence            556689999999999999998875

>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=94.80  E-value=0.013  Score=46.22  Aligned_cols=25  Identities=16%  Similarity=0.066  Sum_probs=21.8

Q ss_pred             CCCeEEEecCCccHHHHHHHhhCCC
Q 036971          196 NITRLVDVGGGLGITLSDHNFQIPS  220 (221)
Q Consensus       196 ~~~~vvDVGGG~G~~~~~l~~~~P~  220 (221)
                      ...+|||||||.|.++..+++..|+
T Consensus        42 ~~~~vLDiGcG~G~~~~~l~~~~~~   66 (250)
T 2p7i_A           42 RPGNLLELGSFKGDFTSRLQEHFND   66 (250)
T ss_dssp             CSSCEEEESCTTSHHHHHHTTTCSC
T ss_pred             CCCcEEEECCCCCHHHHHHHHhCCc
Confidence            3568999999999999999988765

>3cgg_A SAM-dependent methyltransferase; NP_600671.1, methyltransferase domain, structural genomics; HET: NHE CIT; 2.00A {Corynebacterium glutamicum atcc 13032}

Probab=94.79  E-value=0.02  Score=43.34  Aligned_cols=29  Identities=17%  Similarity=0.235  Sum_probs=22.4

Q ss_pred             HHHhcCCCCCCCeEEEecCCccHHHHHHHhh
Q 036971          187 IVESYKGFQNITRLVDVGGGLGITLSDHNFQ  217 (221)
Q Consensus       187 ~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~  217 (221)
                      +++.+  .....+|+|||||.|.++..+++.
T Consensus        39 ~l~~~--~~~~~~vLdiG~G~G~~~~~l~~~   67 (195)
T 3cgg_A           39 LIDAM--APRGAKILDAGCGQGRIGGYLSKQ   67 (195)
T ss_dssp             HHHHH--SCTTCEEEEETCTTTHHHHHHHHT
T ss_pred             HHHHh--ccCCCeEEEECCCCCHHHHHHHHC
Confidence            44444  235679999999999999998875

>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=94.76  E-value=0.033  Score=44.22  Aligned_cols=27  Identities=22%  Similarity=0.229  Sum_probs=23.0

Q ss_pred             CCCCCeEEEecCCccHHHHHHHhhCCC
Q 036971          194 FQNITRLVDVGGGLGITLSDHNFQIPS  220 (221)
Q Consensus       194 ~~~~~~vvDVGGG~G~~~~~l~~~~P~  220 (221)
                      .....+|||||||.|.++..+++..++
T Consensus        54 ~~~~~~vLD~GcG~G~~~~~la~~~~~   80 (245)
T 3ggd_A           54 FNPELPLIDFACGNGTQTKFLSQFFPR   80 (245)
T ss_dssp             SCTTSCEEEETCTTSHHHHHHHHHSSC
T ss_pred             cCCCCeEEEEcCCCCHHHHHHHHhCCC
Confidence            345578999999999999999998764

>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=94.71  E-value=0.015  Score=47.59  Aligned_cols=24  Identities=21%  Similarity=0.105  Sum_probs=20.7

Q ss_pred             CCCeEEEecCCccHHHHHHHhhCC
Q 036971          196 NITRLVDVGGGLGITLSDHNFQIP  219 (221)
Q Consensus       196 ~~~~vvDVGGG~G~~~~~l~~~~P  219 (221)
                      ...+|||||||+|.++..+++..+
T Consensus        57 ~~~~vLDiGcG~G~~~~~l~~~~~   80 (293)
T 3thr_A           57 GCHRVLDVACGTGVDSIMLVEEGF   80 (293)
T ss_dssp             TCCEEEETTCTTSHHHHHHHHTTC
T ss_pred             CCCEEEEecCCCCHHHHHHHHCCC
Confidence            357999999999999999988643

>2pwy_A TRNA (adenine-N(1)-)-methyltransferase; mtase, adoMet, TRMI, tRNA-M1A58; HET: SAH; 1.70A {Thermus thermophilus}

Probab=94.71  E-value=0.019  Score=45.94  Aligned_cols=34  Identities=15%  Similarity=0.041  Sum_probs=28.0

Q ss_pred             HHHHHhcCCCCCCCeEEEecCCccHHHHHHHhh-CC
Q 036971          185 NKIVESYKGFQNITRLVDVGGGLGITLSDHNFQ-IP  219 (221)
Q Consensus       185 ~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~-~P  219 (221)
                      ..+++.++ +....+|||||||.|.++..+++. .|
T Consensus        86 ~~~~~~~~-~~~~~~vLdiG~G~G~~~~~l~~~~~~  120 (258)
T 2pwy_A           86 SAMVTLLD-LAPGMRVLEAGTGSGGLTLFLARAVGE  120 (258)
T ss_dssp             HHHHHHTT-CCTTCEEEEECCTTSHHHHHHHHHHCT
T ss_pred             HHHHHHcC-CCCCCEEEEECCCcCHHHHHHHHHhCC
Confidence            45666677 777789999999999999999987 44

>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=94.71  E-value=0.011  Score=40.51  Aligned_cols=63  Identities=16%  Similarity=0.094  Sum_probs=45.6

Q ss_pred             hhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhh-HHHHHHHHhcCCceeeeccCCCCcceeccccccccc
Q 036971           43 VLDIINKAGPGAELSASEIASQIPTKNPEGAAKM-LDRVLGLLVSFNILCCSFSTHGVRLYSLAPVAKYYV  112 (221)
Q Consensus        43 lfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~-l~rlLr~L~~~gll~~~~~~~~~~~y~lt~~s~~L~  112 (221)
                      +...|...+  .++|..+||+.+++ ++.    . +.++++.|...|++..+..+...-.+.+|+.++.+.
T Consensus        20 ~L~~l~~~~--~~~t~~eLa~~l~i-s~~----t~vs~~l~~Le~~Glv~~~~~drR~~~~~LT~~G~~~~   83 (95)
T 2pg4_A           20 TLLEFEKKG--YEPSLAEIVKASGV-SEK----TFFMGLKDRLIRAGLVKEETLSYRVKTLKLTEKGRRLA   83 (95)
T ss_dssp             HHHHHHHTT--CCCCHHHHHHHHCC-CHH----HHHTTHHHHHHHTTSEEEEEEETTEEEEEECHHHHHHH
T ss_pred             HHHHHHhcC--CCCCHHHHHHHHCC-Cch----HHHHHHHHHHHHCCCeecCCCCCCeEEEEECHhHHHHH
Confidence            444566653  37999999999999 877    8 999999999999999542111122467777776554

>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=94.67  E-value=0.026  Score=44.39  Aligned_cols=26  Identities=19%  Similarity=0.252  Sum_probs=22.2

Q ss_pred             CCCCCeEEEecCCccHHHHHHHhhCC
Q 036971          194 FQNITRLVDVGGGLGITLSDHNFQIP  219 (221)
Q Consensus       194 ~~~~~~vvDVGGG~G~~~~~l~~~~P  219 (221)
                      .....+|+|||||+|.++..+++..|
T Consensus        55 ~~~g~~VLDlGcGtG~~~~~la~~~~   80 (210)
T 1nt2_A           55 LRGDERVLYLGAASGTTVSHLADIVD   80 (210)
T ss_dssp             CCSSCEEEEETCTTSHHHHHHHHHTT
T ss_pred             CCCCCEEEEECCcCCHHHHHHHHHcC
Confidence            45567999999999999999988765

>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=94.64  E-value=0.021  Score=42.52  Aligned_cols=74  Identities=9%  Similarity=0.022  Sum_probs=52.2

Q ss_pred             HHHHHHhhhHHHHHHHHHHhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCC-CC
Q 036971           21 HAMVLGSAIVLPAVFQAVVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTH-GV   99 (221)
Q Consensus        21 ~l~~~~~g~~~~~aL~~av~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~-~~   99 (221)
                      .+++++.+.|...+|.         .|..    ++.+..||++.+++ ++.    .+.+.|+.|...|++++..... ..
T Consensus        16 ~~l~~l~~~w~l~IL~---------~L~~----g~~~~~eLa~~lgi-s~~----tls~~L~~Le~~GlI~r~~~~~d~~   77 (146)
T 2f2e_A           16 RPLDVIGDGWSMLIVR---------DAFE----GLTRFGEFQKSLGL-AKN----ILAARLRNLVEHGVMVAVPAESGSH   77 (146)
T ss_dssp             TTHHHHCSSSHHHHHH---------HHHT----TCCSHHHHHHHHCC-CHH----HHHHHHHHHHHTTSEEEEECSSSSC
T ss_pred             HHHHHhCCchHHHHHH---------HHHh----CCCCHHHHHHHhCC-CHH----HHHHHHHHHHHCCCEEEEecCCCCe
Confidence            3455555555544443         3333    58999999999999 877    9999999999999999863210 12


Q ss_pred             cceeccccccccc
Q 036971          100 RLYSLAPVAKYYV  112 (221)
Q Consensus       100 ~~y~lt~~s~~L~  112 (221)
                      -.|.+|+.++.+.
T Consensus        78 ~~y~LT~~G~~l~   90 (146)
T 2f2e_A           78 QEYRLTDKGRALF   90 (146)
T ss_dssp             EEEEECHHHHTTH
T ss_pred             EEEEECchHHHHH
Confidence            3688888776554

>1dus_A MJ0882; hypothetical protein, methanococcus jannaschii, structural genomics, BSGC structure funded by NIH; 1.80A {Methanocaldococcus jannaschii} SCOP: c.66.1.4

Probab=94.64  E-value=0.036  Score=41.84  Aligned_cols=31  Identities=19%  Similarity=0.253  Sum_probs=25.0

Q ss_pred             HHHHhcCCCCCCCeEEEecCCccHHHHHHHhh
Q 036971          186 KIVESYKGFQNITRLVDVGGGLGITLSDHNFQ  217 (221)
Q Consensus       186 ~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~  217 (221)
                      .+++.++ .....+|+|||||.|.++..+++.
T Consensus        43 ~l~~~~~-~~~~~~vLdiG~G~G~~~~~~~~~   73 (194)
T 1dus_A           43 ILVENVV-VDKDDDILDLGCGYGVIGIALADE   73 (194)
T ss_dssp             HHHHHCC-CCTTCEEEEETCTTSHHHHHHGGG
T ss_pred             HHHHHcc-cCCCCeEEEeCCCCCHHHHHHHHc
Confidence            4556666 666789999999999999988765

>4hg2_A Methyltransferase type 11; structural genomics, PSI-biology, midwest center for structu genomics, MCSG; HET: MES; 1.60A {Anaeromyxobacter dehalogenans}

Probab=94.63  E-value=0.015  Score=47.39  Aligned_cols=25  Identities=16%  Similarity=0.044  Sum_probs=21.2

Q ss_pred             CCCeEEEecCCccHHHHHHHhhCCC
Q 036971          196 NITRLVDVGGGLGITLSDHNFQIPS  220 (221)
Q Consensus       196 ~~~~vvDVGGG~G~~~~~l~~~~P~  220 (221)
                      ...+|||||||+|.++..+++.+.+
T Consensus        39 ~~~~vLDvGcGtG~~~~~l~~~~~~   63 (257)
T 4hg2_A           39 ARGDALDCGCGSGQASLGLAEFFER   63 (257)
T ss_dssp             CSSEEEEESCTTTTTHHHHHTTCSE
T ss_pred             CCCCEEEEcCCCCHHHHHHHHhCCE
Confidence            3468999999999999999887653

>3r0a_A Putative transcriptional regulator; structural genomics, PSI-biology, midwest center for structu genomics, MCSG; 2.31A {Methanosarcina mazei}

Probab=94.62  E-value=0.017  Score=41.65  Aligned_cols=47  Identities=15%  Similarity=0.218  Sum_probs=39.9

Q ss_pred             hhChhhHHHhcCCCCC-CCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           40 NLDVLDIINKAGPGAE-LSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        40 ~lglfd~L~~~g~~~~-~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      +..|+..|...+  ++ +|+.|||+.+++ +..    .+.|.|+.|...|++.+.
T Consensus        28 e~~il~~L~~~~--~~~~t~~eLa~~l~~-s~s----TV~r~L~~L~~~GlV~r~   75 (123)
T 3r0a_A           28 DLNVMKSFLNEP--DRWIDTDALSKSLKL-DVS----TVQRSVKKLHEKEILQRS   75 (123)
T ss_dssp             HHHHHHHHHHST--TCCEEHHHHHHHHTS-CHH----HHHHHHHHHHHTTSEEEE
T ss_pred             HHHHHHHHHHCC--CCCcCHHHHHHHHCc-CHH----HHHHHHHHHHHCCCEEee
Confidence            455667777764  46 999999999999 777    999999999999999985

>2h09_A Transcriptional regulator MNTR; transcription regulator, diphtheria toxin, manganese transport, structural genomics, NPPSFA; 2.10A {Escherichia coli}

Probab=94.62  E-value=0.016  Score=43.09  Aligned_cols=58  Identities=14%  Similarity=0.206  Sum_probs=46.0

Q ss_pred             hhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceeccccccccc
Q 036971           43 VLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPVAKYYV  112 (221)
Q Consensus        43 lfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~~s~~L~  112 (221)
                      |...|...   ++.+..+||+.+++ ++.    .+.+.|+.|...|++...    .+..+.+|+.+..+.
T Consensus        45 i~~~l~~~---~~~~~~~la~~l~v-s~~----tvs~~l~~Le~~Glv~r~----~~~~~~lT~~g~~~~  102 (155)
T 2h09_A           45 ISDLIREV---GEARQVDMAARLGV-SQP----TVAKMLKRLATMGLIEMI----PWRGVFLTAEGEKLA  102 (155)
T ss_dssp             HHHHHHHH---SCCCHHHHHHHHTS-CHH----HHHHHHHHHHHTTCEEEE----TTTEEEECHHHHHHH
T ss_pred             HHHHHHhC---CCcCHHHHHHHhCc-CHH----HHHHHHHHHHHCCCEEEe----cCCceEEChhHHHHH
Confidence            33466665   47999999999999 777    999999999999999986    355677777766543

>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=94.59  E-value=0.03  Score=49.25  Aligned_cols=34  Identities=12%  Similarity=0.357  Sum_probs=27.7

Q ss_pred             HHHHHhcCCCCCCCeEEEecCCccHHHHHHHhhCC
Q 036971          185 NKIVESYKGFQNITRLVDVGGGLGITLSDHNFQIP  219 (221)
Q Consensus       185 ~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P  219 (221)
                      ..+++.++ .....+|||||||.|.++..+++.+|
T Consensus       232 ~~ml~~l~-l~~g~~VLDLGCGsG~la~~LA~~~g  265 (433)
T 1u2z_A          232 SDVYQQCQ-LKKGDTFMDLGSGVGNCVVQAALECG  265 (433)
T ss_dssp             HHHHHHTT-CCTTCEEEEESCTTSHHHHHHHHHHC
T ss_pred             HHHHHhcC-CCCCCEEEEeCCCcCHHHHHHHHHCC
Confidence            34566666 66778999999999999999998765

>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=94.59  E-value=0.033  Score=45.80  Aligned_cols=24  Identities=25%  Similarity=0.422  Sum_probs=17.3

Q ss_pred             CCeEEEecCCccHHHH----HHHhhCCC
Q 036971          197 ITRLVDVGGGLGITLS----DHNFQIPS  220 (221)
Q Consensus       197 ~~~vvDVGGG~G~~~~----~l~~~~P~  220 (221)
                      ..+|||||||+|.++.    .++..+|+
T Consensus        53 ~~~VLDiG~GtG~~~~~~l~~l~~~~~~   80 (292)
T 2aot_A           53 EIKILSIGGGAGEIDLQILSKVQAQYPG   80 (292)
T ss_dssp             EEEEEEETCTTSHHHHHHHHHHHHHSTT
T ss_pred             CCeEEEEcCCCCHHHHHHHHHHHhhCCC
Confidence            4689999999997654    44555554

>2yxd_A Probable cobalt-precorrin-6Y C(15)-methyltransfer [decarboxylating]; alpha and beta protein (A/B) class; HET: MES; 2.30A {Methanocaldococcus jannaschii}

Probab=94.58  E-value=0.039  Score=41.28  Aligned_cols=30  Identities=20%  Similarity=0.214  Sum_probs=23.0

Q ss_pred             HHHhcCCCCCCCeEEEecCCccHHHHHHHhh
Q 036971          187 IVESYKGFQNITRLVDVGGGLGITLSDHNFQ  217 (221)
Q Consensus       187 ~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~  217 (221)
                      +++.++ .....+|+|||||.|.++..+++.
T Consensus        27 ~~~~~~-~~~~~~vLdiG~G~G~~~~~l~~~   56 (183)
T 2yxd_A           27 SIGKLN-LNKDDVVVDVGCGSGGMTVEIAKR   56 (183)
T ss_dssp             HHHHHC-CCTTCEEEEESCCCSHHHHHHHTT
T ss_pred             HHHHcC-CCCCCEEEEeCCCCCHHHHHHHhc
Confidence            444455 555679999999999999888753

>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=94.58  E-value=0.036  Score=48.60  Aligned_cols=35  Identities=17%  Similarity=0.377  Sum_probs=28.6

Q ss_pred             HHHHHHhcCCCCCCCeEEEecCCccHHHHHHHhhCC
Q 036971          184 INKIVESYKGFQNITRLVDVGGGLGITLSDHNFQIP  219 (221)
Q Consensus       184 ~~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P  219 (221)
                      +..+++.++ .....+|+|||||.|..+..+++.+|
T Consensus       162 i~~il~~l~-l~~gd~VLDLGCGtG~l~l~lA~~~g  196 (438)
T 3uwp_A          162 VAQMIDEIK-MTDDDLFVDLGSGVGQVVLQVAAATN  196 (438)
T ss_dssp             HHHHHHHHC-CCTTCEEEEESCTTSHHHHHHHHHCC
T ss_pred             HHHHHHhcC-CCCCCEEEEeCCCCCHHHHHHHHHCC
Confidence            345666666 67778999999999999999998765

>3ntv_A MW1564 protein; rossmann fold, putative methyltransferase, transferase; HET: MSE; 1.55A {Staphylococcus aureus}

Probab=94.57  E-value=0.0068  Score=48.34  Aligned_cols=25  Identities=12%  Similarity=0.324  Sum_probs=22.1

Q ss_pred             CCCeEEEecCCccHHHHHHHhhCCC
Q 036971          196 NITRLVDVGGGLGITLSDHNFQIPS  220 (221)
Q Consensus       196 ~~~~vvDVGGG~G~~~~~l~~~~P~  220 (221)
                      ...+|||||||.|..+..+++.+|+
T Consensus        71 ~~~~vLDiG~G~G~~~~~la~~~~~   95 (232)
T 3ntv_A           71 NVKNILEIGTAIGYSSMQFASISDD   95 (232)
T ss_dssp             TCCEEEEECCSSSHHHHHHHTTCTT
T ss_pred             CCCEEEEEeCchhHHHHHHHHhCCC
Confidence            3679999999999999999997764

>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=94.57  E-value=0.026  Score=45.68  Aligned_cols=27  Identities=26%  Similarity=0.406  Sum_probs=23.8

Q ss_pred             CCCCCeEEEecCCccHHHHHHHhhCCC
Q 036971          194 FQNITRLVDVGGGLGITLSDHNFQIPS  220 (221)
Q Consensus       194 ~~~~~~vvDVGGG~G~~~~~l~~~~P~  220 (221)
                      .....+|+|||||+|..+..++..+|+
T Consensus        78 ~~~~~~vLDiG~G~G~~~i~la~~~~~  104 (249)
T 3g89_A           78 WQGPLRVLDLGTGAGFPGLPLKIVRPE  104 (249)
T ss_dssp             CCSSCEEEEETCTTTTTHHHHHHHCTT
T ss_pred             cCCCCEEEEEcCCCCHHHHHHHHHCCC
Confidence            345689999999999999999999886

>2x4h_A Hypothetical protein SSO2273; transcription; 2.30A {Sulfolobus solfataricus}

Probab=94.55  E-value=0.021  Score=41.56  Aligned_cols=48  Identities=8%  Similarity=-0.036  Sum_probs=41.5

Q ss_pred             CCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceecccccccc
Q 036971           54 AELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPVAKYY  111 (221)
Q Consensus        54 ~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~~s~~L  111 (221)
                      ++.|..+||+.+++ ++.    .+.+.++.|...|++...     ...|.+|+.+..+
T Consensus        30 ~~~s~~ela~~l~i-s~~----tv~~~l~~Le~~Gli~r~-----~~~~~Lt~~g~~~   77 (139)
T 2x4h_A           30 EGAKINRIAKDLKI-APS----SVFEEVSHLEEKGLVKKK-----EDGVWITNNGTRS   77 (139)
T ss_dssp             SCBCHHHHHHHHTC-CHH----HHHHHHHHHHHTTSEEEE-----TTEEEECHHHHHH
T ss_pred             CCcCHHHHHHHhCC-ChH----HHHHHHHHHHHCCCEEec-----CCeEEEChhHHHH
Confidence            58999999999999 877    999999999999999986     3667888776544

>2avd_A Catechol-O-methyltransferase; structural genomics, structural genomics consortium, SGC; HET: SAM; 1.70A {Homo sapiens} SCOP: c.66.1.1

Probab=94.51  E-value=0.023  Score=44.67  Aligned_cols=24  Identities=17%  Similarity=0.315  Sum_probs=21.7

Q ss_pred             CCCeEEEecCCccHHHHHHHhhCC
Q 036971          196 NITRLVDVGGGLGITLSDHNFQIP  219 (221)
Q Consensus       196 ~~~~vvDVGGG~G~~~~~l~~~~P  219 (221)
                      ...+|+|||||.|..+..+++.+|
T Consensus        69 ~~~~vLdiG~G~G~~~~~la~~~~   92 (229)
T 2avd_A           69 QAKKALDLGTFTGYSALALALALP   92 (229)
T ss_dssp             TCCEEEEECCTTSHHHHHHHTTSC
T ss_pred             CCCEEEEEcCCccHHHHHHHHhCC
Confidence            357999999999999999999876

>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=94.50  E-value=0.052  Score=43.49  Aligned_cols=32  Identities=16%  Similarity=0.147  Sum_probs=24.2

Q ss_pred             HHHHhcCCCC-CCCeEEEecCCccHHHHHHHhhC
Q 036971          186 KIVESYKGFQ-NITRLVDVGGGLGITLSDHNFQI  218 (221)
Q Consensus       186 ~~l~~~~~~~-~~~~vvDVGGG~G~~~~~l~~~~  218 (221)
                      ..++.++ .. ...+|+|||||+|.++..+++.-
T Consensus        27 ~~L~~~~-~~~~g~~VLDiGcGtG~~t~~la~~g   59 (232)
T 3opn_A           27 KALKEFH-LEINGKTCLDIGSSTGGFTDVMLQNG   59 (232)
T ss_dssp             HHHHHTT-CCCTTCEEEEETCTTSHHHHHHHHTT
T ss_pred             HHHHHcC-CCCCCCEEEEEccCCCHHHHHHHhcC
Confidence            4455665 32 34699999999999999988763

>2pjd_A Ribosomal RNA small subunit methyltransferase C; gene duplication, RNA modification, SAM binding; 2.10A {Escherichia coli}

Probab=94.49  E-value=0.027  Score=47.67  Aligned_cols=35  Identities=17%  Similarity=0.312  Sum_probs=27.8

Q ss_pred             HHHHHhcCCCCCCCeEEEecCCccHHHHHHHhhCCC
Q 036971          185 NKIVESYKGFQNITRLVDVGGGLGITLSDHNFQIPS  220 (221)
Q Consensus       185 ~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~  220 (221)
                      ..+++.++ .....+|+|||||.|.++..+++.+|+
T Consensus       186 ~~ll~~l~-~~~~~~VLDlGcG~G~~~~~la~~~~~  220 (343)
T 2pjd_A          186 QLLLSTLT-PHTKGKVLDVGCGAGVLSVAFARHSPK  220 (343)
T ss_dssp             HHHHHHSC-TTCCSBCCBTTCTTSHHHHHHHHHCTT
T ss_pred             HHHHHhcC-cCCCCeEEEecCccCHHHHHHHHHCCC
Confidence            34566665 334568999999999999999999885

>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=94.49  E-value=0.045  Score=44.17  Aligned_cols=31  Identities=13%  Similarity=0.105  Sum_probs=24.2

Q ss_pred             HHHhcCCCCCCCeEEEecCCccHHHHHHHhh
Q 036971          187 IVESYKGFQNITRLVDVGGGLGITLSDHNFQ  217 (221)
Q Consensus       187 ~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~  217 (221)
                      +++.++......+|||||||.|.++..+++.
T Consensus        37 ~l~~l~~~~~~~~vLDiGcG~G~~~~~la~~   67 (267)
T 3kkz_A           37 ALSFIDNLTEKSLIADIGCGTGGQTMVLAGH   67 (267)
T ss_dssp             HHTTCCCCCTTCEEEEETCTTCHHHHHHHTT
T ss_pred             HHHhcccCCCCCEEEEeCCCCCHHHHHHHhc
Confidence            3444433456789999999999999999887

>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=94.48  E-value=0.033  Score=38.48  Aligned_cols=61  Identities=18%  Similarity=0.224  Sum_probs=49.3

Q ss_pred             hhChhhHHHhcCCCCCCCHHHHHh-hCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceecccccccccc
Q 036971           40 NLDVLDIINKAGPGAELSASEIAS-QIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPVAKYYVS  113 (221)
Q Consensus        40 ~lglfd~L~~~g~~~~~t~~eLA~-~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~~s~~L~~  113 (221)
                      ++.|+-.|...   ++.|..+||+ ..++ +..    .+.|=++.|...|+++.+    ++| ..+|+.++.+..
T Consensus        18 QfsiL~~L~~~---~~~t~~~Lae~~l~~-drs----tvsrnl~~L~r~GlVe~~----~~D-l~LT~~G~~~l~   79 (95)
T 1bja_A           18 TATILITIAKK---DFITAAEVREVHPDL-GNA----VVNSNIGVLIKKGLVEKS----GDG-LIITGEAQDIIS   79 (95)
T ss_dssp             HHHHHHHHHHS---TTBCHHHHHHTCTTS-CHH----HHHHHHHHHHTTTSEEEE----TTE-EEECHHHHHHHH
T ss_pred             HHHHHHHHHHC---CCCCHHHHHHHHhcc-cHH----HHHHHHHHHHHCCCeecC----CCC-eeeCHhHHHHHH
Confidence            44566678887   4999999999 9999 776    899999999999999944    344 888888876653

>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=94.47  E-value=0.048  Score=45.20  Aligned_cols=34  Identities=18%  Similarity=0.328  Sum_probs=27.3

Q ss_pred             HHHHHHhcCCCCCCCeEEEecCCccHHHHHHHhhC
Q 036971          184 INKIVESYKGFQNITRLVDVGGGLGITLSDHNFQI  218 (221)
Q Consensus       184 ~~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~  218 (221)
                      ...+++.++ .....+|||||||.|.++..+++.+
T Consensus        79 ~~~~~~~~~-~~~~~~vLDiGcG~G~~~~~la~~~  112 (318)
T 2fk8_A           79 VDLNLDKLD-LKPGMTLLDIGCGWGTTMRRAVERF  112 (318)
T ss_dssp             HHHHHTTSC-CCTTCEEEEESCTTSHHHHHHHHHH
T ss_pred             HHHHHHhcC-CCCcCEEEEEcccchHHHHHHHHHC
Confidence            345666666 6667899999999999999998764

>1yyv_A Putative transcriptional regulator; reductive methylation, D lysine, structural genomics, PSI; HET: MLY; 2.35A {Salmonella typhimurium} SCOP: a.4.5.69

Probab=94.47  E-value=0.017  Score=42.28  Aligned_cols=76  Identities=13%  Similarity=0.044  Sum_probs=53.3

Q ss_pred             HHHHHHHHhhhHHHHHHHHHHhhChhhHHHhcCCCCCCCHHHHHhhC-CCCCCcchhhhHHHHHHHHhcCCceeeeccCC
Q 036971           19 YSHAMVLGSAIVLPAVFQAVVNLDVLDIINKAGPGAELSASEIASQI-PTKNPEGAAKMLDRVLGLLVSFNILCCSFSTH   97 (221)
Q Consensus        19 ~~~l~~~~~g~~~~~aL~~av~lglfd~L~~~g~~~~~t~~eLA~~~-g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~   97 (221)
                      ...+++++.+.|...+|         ..|..    ++++..||++.+ |+ ++.    .|.+.|+.|...|++.+.....
T Consensus        25 ~~~~l~~l~~~w~l~IL---------~~L~~----g~~~~~eLa~~l~gi-s~~----tls~~L~~Le~~GlV~r~~~~~   86 (131)
T 1yyv_A           25 SREVLKHVTSRWGVLIL---------VALRD----GTHRFSDLRRXMGGV-SEX----MLAQSLQALEQDGFLNRVSYPV   86 (131)
T ss_dssp             HHHHHHHHHSHHHHHHH---------HHGGG----CCEEHHHHHHHSTTC-CHH----HHHHHHHHHHHHTCEEEEEECS
T ss_pred             HHHHHHHHcCCcHHHHH---------HHHHc----CCCCHHHHHHHhccC-CHH----HHHHHHHHHHHCCcEEEEecCC
Confidence            44455555555544333         34444    589999999999 79 777    9999999999999999863210


Q ss_pred             --CCcceeccccccccc
Q 036971           98 --GVRLYSLAPVAKYYV  112 (221)
Q Consensus        98 --~~~~y~lt~~s~~L~  112 (221)
                        ..-.|.+|+.++.+.
T Consensus        87 d~r~~~y~LT~~G~~l~  103 (131)
T 1yyv_A           87 VPPHVEYSLTPLGEQVS  103 (131)
T ss_dssp             SSCEEEEEECHHHHHHH
T ss_pred             CCCeEEEEECccHHHHH
Confidence              112588988876654

>2nnn_A Probable transcriptional regulator; structural genomics, PSI-2, protein structure initiative, M center for structural genomics, MCSG; 2.40A {Pseudomonas aeruginosa}

Probab=94.46  E-value=0.021  Score=41.22  Aligned_cols=65  Identities=12%  Similarity=0.129  Sum_probs=49.2

Q ss_pred             HhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCC---cceeccccccccc
Q 036971           39 VNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGV---RLYSLAPVAKYYV  112 (221)
Q Consensus        39 v~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~---~~y~lt~~s~~L~  112 (221)
                      .++.|+..|...   +++|..+||+.+++ ++.    .+.++++.|...|++...... .+   -.|.+|+.+..+.
T Consensus        39 ~~~~iL~~l~~~---~~~t~~ela~~l~~-~~~----tvs~~l~~L~~~glv~r~~~~-~d~R~~~~~lT~~G~~~~  106 (140)
T 2nnn_A           39 TQWAALVRLGET---GPCPQNQLGRLTAM-DAA----TIKGVVERLDKRGLIQRSADP-DDGRRLLVSLSPAGRAEL  106 (140)
T ss_dssp             HHHHHHHHHHHH---SSBCHHHHHHHTTC-CHH----HHHHHHHHHHHTTCEEEEEET-TEEEEEEEEECHHHHHHH
T ss_pred             HHHHHHHHHHHc---CCCCHHHHHHHHCC-CHH----HHHHHHHHHHHCCCEEeeCCC-CCCCeeeeEECHhHHHHH
Confidence            355678888776   48999999999999 877    999999999999999985210 11   1366776665444

>2bv6_A MGRA, HTH-type transcriptional regulator MGRA; multidrug resistance regulator, virulence determinant, transcriptional factors; 2.8A {Staphylococcus aureus} SCOP: a.4.5.28

Probab=94.43  E-value=0.026  Score=40.98  Aligned_cols=66  Identities=9%  Similarity=0.118  Sum_probs=49.3

Q ss_pred             HhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCC--CCcceeccccccccc
Q 036971           39 VNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTH--GVRLYSLAPVAKYYV  112 (221)
Q Consensus        39 v~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~--~~~~y~lt~~s~~L~  112 (221)
                      .++.|+..|...   +++|..+||+.+++ ++.    .+.+.++.|...|++.......  ..-.+.+|+.+..+.
T Consensus        38 ~~~~iL~~l~~~---~~~~~~ela~~l~~-~~~----tvs~~l~~L~~~gli~r~~~~~d~R~~~~~lT~~G~~~~  105 (142)
T 2bv6_A           38 PQFLVLTILWDE---SPVNVKKVVTELAL-DTG----TVSPLLKRMEQVDLIKRERSEVDQREVFIHLTDKSETIR  105 (142)
T ss_dssp             HHHHHHHHHHHS---SEEEHHHHHHHTTC-CTT----THHHHHHHHHHTTSEEEEECSSSTTCEEEEECHHHHHHH
T ss_pred             HHHHHHHHHHHc---CCcCHHHHHHHHCC-Chh----hHHHHHHHHHHCCCEEeecCCCCcceEEEEEChHHHHHH
Confidence            455577788876   48999999999999 887    9999999999999999863110  011466676666544

>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=94.42  E-value=0.036  Score=40.35  Aligned_cols=67  Identities=18%  Similarity=0.169  Sum_probs=49.4

Q ss_pred             HHhhChhhHHHh-cCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccC--CCCcceeccccccccc
Q 036971           38 VVNLDVLDIINK-AGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFST--HGVRLYSLAPVAKYYV  112 (221)
Q Consensus        38 av~lglfd~L~~-~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~--~~~~~y~lt~~s~~L~  112 (221)
                      ..++.|+..|.. .   +++|..+||+.+++ ++.    .+.++++.|...|++.+....  ...-.+.+|+.+..+.
T Consensus        35 ~~~~~iL~~l~~~~---~~~~~~~la~~l~i-~~~----~vs~~l~~Le~~glv~r~~~~~d~R~~~~~lT~~G~~~~  104 (147)
T 2hr3_A           35 FSQLVVLGAIDRLG---GDVTPSELAAAERM-RSS----NLAALLRELERGGLIVRHADPQDGRRTRVSLSSEGRRNL  104 (147)
T ss_dssp             HHHHHHHHHHHHTT---SCBCHHHHHHHTTC-CHH----HHHHHHHHHHHTTSEEEEC------CCEEEECHHHHHHH
T ss_pred             HHHHHHHHHHHHcC---CCCCHHHHHHHhCC-Chh----hHHHHHHHHHHCCCEeeCCCCCCCCceeeEECHHHHHHH
Confidence            345667888887 5   58999999999999 877    999999999999999986210  0112366676665544

>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=94.39  E-value=0.04  Score=45.40  Aligned_cols=32  Identities=25%  Similarity=0.180  Sum_probs=25.4

Q ss_pred             HHHHHhcCCCCCCCeEEEecCCccHHHHHHHhhC
Q 036971          185 NKIVESYKGFQNITRLVDVGGGLGITLSDHNFQI  218 (221)
Q Consensus       185 ~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~  218 (221)
                      ..+++..+ .... +|+|||||.|.++..+++..
T Consensus        37 ~~Iv~~~~-~~~~-~VLEIG~G~G~lt~~L~~~~   68 (271)
T 3fut_A           37 RRIVEAAR-PFTG-PVFEVGPGLGALTRALLEAG   68 (271)
T ss_dssp             HHHHHHHC-CCCS-CEEEECCTTSHHHHHHHHTT
T ss_pred             HHHHHhcC-CCCC-eEEEEeCchHHHHHHHHHcC
Confidence            34566666 5556 99999999999999998865

>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=94.39  E-value=0.11  Score=41.30  Aligned_cols=31  Identities=19%  Similarity=0.319  Sum_probs=23.9

Q ss_pred             HHHHhcCCCCCCCeEEEecCCccHHHHHHHhh
Q 036971          186 KIVESYKGFQNITRLVDVGGGLGITLSDHNFQ  217 (221)
Q Consensus       186 ~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~  217 (221)
                      .+++... .....+|||||||.|.++..+++.
T Consensus        32 ~~~~~~~-~~~~~~vLDlGcG~G~~~~~l~~~   62 (252)
T 1wzn_A           32 EIFKEDA-KREVRRVLDLACGTGIPTLELAER   62 (252)
T ss_dssp             HHHHHTC-SSCCCEEEEETCTTCHHHHHHHHT
T ss_pred             HHHHHhc-ccCCCEEEEeCCCCCHHHHHHHHC
Confidence            4455554 445679999999999999998875

>3cdh_A Transcriptional regulator, MARR family; helix-turn-hleix, structura genomics, PSI-2, protein structure initiative; 2.69A {Silicibacter pomeroyi dss-3}

Probab=94.37  E-value=0.13  Score=37.79  Aligned_cols=65  Identities=8%  Similarity=0.054  Sum_probs=47.7

Q ss_pred             hhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccC--CCCcceeccccccccc
Q 036971           40 NLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFST--HGVRLYSLAPVAKYYV  112 (221)
Q Consensus        40 ~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~--~~~~~y~lt~~s~~L~  112 (221)
                      ++.|+..|...   +++|..+||+.+++ ++.    .+.++++.|...|++.+....  ...-.+.+|+.++.+.
T Consensus        45 ~~~iL~~l~~~---~~~t~~ela~~l~i-~~~----tvs~~l~~Le~~Glv~r~~~~~d~R~~~~~lT~~G~~~~  111 (155)
T 3cdh_A           45 EWRVLACLVDN---DAMMITRLAKLSLM-EQS----RMTRIVDQMDARGLVTRVADAKDKRRVRVRLTDDGRALA  111 (155)
T ss_dssp             HHHHHHHHSSC---SCBCHHHHHHHTTC-CHH----HHHHHHHHHHHTTSEEECC------CCCEEECHHHHHHH
T ss_pred             HHHHHHHHHHC---CCcCHHHHHHHHCC-CHH----HHHHHHHHHHHCCCEEeccCCCcCCeeEeEECHHHHHHH
Confidence            44567777765   58999999999999 877    999999999999999985210  0012366777666544

>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=94.37  E-value=0.059  Score=43.91  Aligned_cols=34  Identities=18%  Similarity=0.320  Sum_probs=26.3

Q ss_pred             HHHHHhcCCCCCCCeEEEecCCccHHHHHHHhhCCC
Q 036971          185 NKIVESYKGFQNITRLVDVGGGLGITLSDHNFQIPS  220 (221)
Q Consensus       185 ~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~  220 (221)
                      ..+++.++  ....+|+|||||+|.++..+++.+|+
T Consensus       100 ~~~l~~~~--~~~~~vLDlG~GsG~~~~~la~~~~~  133 (276)
T 2b3t_A          100 EQALARLP--EQPCRILDLGTGTGAIALALASERPD  133 (276)
T ss_dssp             HHHHHHSC--SSCCEEEEETCTTSHHHHHHHHHCTT
T ss_pred             HHHHHhcc--cCCCEEEEecCCccHHHHHHHHhCCC
Confidence            34455543  23569999999999999999998875

>3njr_A Precorrin-6Y methylase; methyltransferase, decarboxylase, transferase; HET: SAH PG4; 2.70A {Rhodobacter capsulatus}

Probab=94.35  E-value=0.049  Score=42.44  Aligned_cols=30  Identities=20%  Similarity=0.264  Sum_probs=24.0

Q ss_pred             HHHhcCCCCCCCeEEEecCCccHHHHHHHhh
Q 036971          187 IVESYKGFQNITRLVDVGGGLGITLSDHNFQ  217 (221)
Q Consensus       187 ~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~  217 (221)
                      ++..++ .....+|+|||||.|.++..+++.
T Consensus        47 ~l~~l~-~~~~~~vLDlGcG~G~~~~~la~~   76 (204)
T 3njr_A           47 TLAALA-PRRGELLWDIGGGSGSVSVEWCLA   76 (204)
T ss_dssp             HHHHHC-CCTTCEEEEETCTTCHHHHHHHHT
T ss_pred             HHHhcC-CCCCCEEEEecCCCCHHHHHHHHc
Confidence            444555 556689999999999999998875

>1ws6_A Methyltransferase; structural genomics, riken structural genomics/proteomics initiative, RSGI; 2.50A {Thermus thermophilus} SCOP: c.66.1.46

Probab=94.31  E-value=0.028  Score=41.76  Aligned_cols=25  Identities=16%  Similarity=-0.017  Sum_probs=21.6

Q ss_pred             CCCeEEEecCCccHHHHHHHhhCCC
Q 036971          196 NITRLVDVGGGLGITLSDHNFQIPS  220 (221)
Q Consensus       196 ~~~~vvDVGGG~G~~~~~l~~~~P~  220 (221)
                      ...+|+|+|||.|.++..+++..|+
T Consensus        41 ~~~~vLD~GcG~G~~~~~l~~~~~~   65 (171)
T 1ws6_A           41 RRGRFLDPFAGSGAVGLEAASEGWE   65 (171)
T ss_dssp             TCCEEEEETCSSCHHHHHHHHTTCE
T ss_pred             CCCeEEEeCCCcCHHHHHHHHCCCe
Confidence            3579999999999999999987663

>1xd7_A YWNA; structural genomics, protein structure initiative, winged HE binding, hypothetical protein, PSI; 2.30A {Bacillus subtilis subsp} SCOP: a.4.5.55

Probab=94.26  E-value=0.034  Score=41.25  Aligned_cols=61  Identities=25%  Similarity=0.249  Sum_probs=45.5

Q ss_pred             HHHHHHHHHHhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceecccc
Q 036971           30 VLPAVFQAVVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPV  107 (221)
Q Consensus        30 ~~~~aL~~av~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~~  107 (221)
                      ....||++.+.+      +...  +. |+++||+.+++ ++.    .|+++|..|...||+.-.+  | .|.|.++.-
T Consensus         7 ~~~yAl~~L~~L------a~~~--~~-s~~~IA~~~~i-~~~----~l~kIl~~L~~aGlv~s~r--G-~GGy~Lar~   67 (145)
T 1xd7_A            7 RLAVAIHILSLI------SMDE--KT-SSEIIADSVNT-NPV----VVRRMISLLKKADILTSRA--G-VPGASLKKD   67 (145)
T ss_dssp             HHHHHHHHHHHH------HTCS--CC-CHHHHHHHHTS-CHH----HHHHHHHHHHHTTSEECCS--S-SSSCEESSC
T ss_pred             HHHHHHHHHHHH------HhCC--CC-CHHHHHHHHCc-CHH----HHHHHHHHHHHCCceEeec--C-CCCceecCC
Confidence            344566666543      4332  35 99999999999 888    9999999999999998763  3 566776643

>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=94.25  E-value=0.031  Score=38.35  Aligned_cols=47  Identities=13%  Similarity=0.251  Sum_probs=39.9

Q ss_pred             HhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           39 VNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        39 v~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      .+..|+..|...   +++|..+||+.+++ ++.    .+.+.|+.|...|++...
T Consensus        21 ~~~~il~~l~~~---~~~s~~ela~~l~i-s~~----tv~~~l~~L~~~glv~~~   67 (109)
T 1sfx_A           21 SDVRIYSLLLER---GGMRVSEIARELDL-SAR----FVRDRLKVLLKRGFVRRE   67 (109)
T ss_dssp             HHHHHHHHHHHH---CCBCHHHHHHHHTC-CHH----HHHHHHHHHHHTTSEEEE
T ss_pred             HHHHHHHHHHHc---CCCCHHHHHHHHCC-CHH----HHHHHHHHHHHCCCEEEE
Confidence            345566677665   48999999999999 887    999999999999999986

>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=94.21  E-value=0.072  Score=39.06  Aligned_cols=64  Identities=25%  Similarity=0.256  Sum_probs=47.5

Q ss_pred             hhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCc---ceeccccccccc
Q 036971           40 NLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVR---LYSLAPVAKYYV  112 (221)
Q Consensus        40 ~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~---~y~lt~~s~~L~  112 (221)
                      ++.|+..|...   +++|..+||+.+++ ++.    .+.++++.|...|++.+.... .+.   .+.+|+.+..+.
T Consensus        39 ~~~iL~~l~~~---~~~t~~ela~~l~~-s~~----tvs~~l~~Le~~glv~r~~~~-~d~R~~~~~lT~~G~~~~  105 (155)
T 1s3j_A           39 QLFVLASLKKH---GSLKVSEIAERMEV-KPS----AVTLMADRLEQKNLIARTHNT-KDRRVIDLSLTDEGDIKF  105 (155)
T ss_dssp             HHHHHHHHHHH---SEEEHHHHHHHHTS-CHH----HHHHHHHHHHHTTSEEEEECS-SCTTSEEEEECHHHHHHH
T ss_pred             HHHHHHHHHHc---CCCCHHHHHHHHCC-CHH----HHHHHHHHHHHCCCEeecCCC-CCCceEEEEECHHHHHHH
Confidence            34467788776   48999999999999 877    999999999999999986311 111   356666655443

>2qww_A Transcriptional regulator, MARR family; YP_013417.1, multiple antibiotic-resistance repressor (MARR) structural genomics; HET: MSE; 2.07A {Listeria monocytogenes str}

Probab=94.18  E-value=0.03  Score=41.21  Aligned_cols=65  Identities=9%  Similarity=0.137  Sum_probs=49.2

Q ss_pred             HhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceee--eccCCCCc---ceeccccccccc
Q 036971           39 VNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCC--SFSTHGVR---LYSLAPVAKYYV  112 (221)
Q Consensus        39 v~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~--~~~~~~~~---~y~lt~~s~~L~  112 (221)
                      .++.|+..|...   +++|..+||+.+++ ++.    .+.++++.|...|++.+  .... .+.   .+.+|+.+..+.
T Consensus        42 ~~~~iL~~l~~~---~~~t~~eLa~~l~~-~~~----tvs~~l~~Le~~Glv~r~~~~~~-~d~R~~~~~LT~~G~~~~  111 (154)
T 2qww_A           42 QQLAMINVIYST---PGISVADLTKRLII-TGS----SAAANVDGLISLGLVVKLNKTIP-NDSMDLTLKLSKKGEDLS  111 (154)
T ss_dssp             HHHHHHHHHHHS---TTEEHHHHHHHHTC-CHH----HHHHHHHHHHHTTSEEESCC--C-TTCTTCEEEECHHHHHHH
T ss_pred             HHHHHHHHHHHC---CCCCHHHHHHHHCC-CHH----HHHHHHHHHHHCCCEEecCcCCC-CCCceeEeEECHHHHHHH
Confidence            345577788876   48999999999999 877    99999999999999998  4211 122   477777776544

>2lkp_A Transcriptional regulator, ARSR family; symmetric homodimer, NI(II) binding protein, DNA binding Pro transcription regulator; NMR {Mycobacterium tuberculosis}

Probab=94.16  E-value=0.027  Score=39.96  Aligned_cols=47  Identities=15%  Similarity=0.272  Sum_probs=40.6

Q ss_pred             HHhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           38 VVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        38 av~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      -.++.|+..|.+    ++.++.+||+.+++ ++.    .+.+.|+.|...|++...
T Consensus        32 ~~~~~il~~L~~----~~~s~~ela~~l~i-s~s----tvsr~l~~Le~~Glv~~~   78 (119)
T 2lkp_A           32 PSRLMILTQLRN----GPLPVTDLAEAIGM-EQS----AVSHQLRVLRNLGLVVGD   78 (119)
T ss_dssp             HHHHHHHHHHHH----CCCCHHHHHHHHSS-CHH----HHHHHHHHHHHHCSEEEE
T ss_pred             HHHHHHHHHHHH----CCCCHHHHHHHHCc-CHH----HHHHHHHHHHHCCCEEEE
Confidence            456667777877    38999999999999 777    999999999999999875

>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=94.12  E-value=0.028  Score=45.66  Aligned_cols=33  Identities=18%  Similarity=0.149  Sum_probs=26.9

Q ss_pred             HHHHHHhcCCCCCCCeEEEecCCccHHHHHHHhh
Q 036971          184 INKIVESYKGFQNITRLVDVGGGLGITLSDHNFQ  217 (221)
Q Consensus       184 ~~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~  217 (221)
                      +..++..++ .....+|+|||||.|.++..+++.
T Consensus        88 ~~~i~~~~~-~~~~~~vLdiG~G~G~~~~~l~~~  120 (280)
T 1i9g_A           88 AAQIVHEGD-IFPGARVLEAGAGSGALTLSLLRA  120 (280)
T ss_dssp             HHHHHHHTT-CCTTCEEEEECCTTSHHHHHHHHH
T ss_pred             HHHHHHHcC-CCCCCEEEEEcccccHHHHHHHHH
Confidence            345666677 666789999999999999999885

>3lbf_A Protein-L-isoaspartate O-methyltransferase; modified rossman-type fold, S-adenosyl-L- methionine; HET: SAH; 1.80A {Escherichia coli}

Probab=94.10  E-value=0.068  Score=41.28  Aligned_cols=31  Identities=16%  Similarity=0.332  Sum_probs=25.1

Q ss_pred             HHHHhcCCCCCCCeEEEecCCccHHHHHHHhh
Q 036971          186 KIVESYKGFQNITRLVDVGGGLGITLSDHNFQ  217 (221)
Q Consensus       186 ~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~  217 (221)
                      .+++.++ .....+|+|||||.|.++..+++.
T Consensus        68 ~~~~~l~-~~~~~~vLdiG~G~G~~~~~la~~   98 (210)
T 3lbf_A           68 RMTELLE-LTPQSRVLEIGTGSGYQTAILAHL   98 (210)
T ss_dssp             HHHHHTT-CCTTCEEEEECCTTSHHHHHHHHH
T ss_pred             HHHHhcC-CCCCCEEEEEcCCCCHHHHHHHHh
Confidence            3455566 666789999999999999998875

>2yxe_A Protein-L-isoaspartate O-methyltransferase; rossman-type fold, alpha/beta/alpha sandwich structure, STRU genomics, NPPSFA; 2.00A {Methanocaldococcus jannaschii}

Probab=94.09  E-value=0.054  Score=42.03  Aligned_cols=32  Identities=13%  Similarity=0.237  Sum_probs=25.7

Q ss_pred             HHHHhcCCCCCCCeEEEecCCccHHHHHHHhhC
Q 036971          186 KIVESYKGFQNITRLVDVGGGLGITLSDHNFQI  218 (221)
Q Consensus       186 ~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~  218 (221)
                      .+++.+. .....+|+|||||.|.++..+++..
T Consensus        68 ~~~~~~~-~~~~~~vLdiG~G~G~~~~~l~~~~   99 (215)
T 2yxe_A           68 MMCELLD-LKPGMKVLEIGTGCGYHAAVTAEIV   99 (215)
T ss_dssp             HHHHHTT-CCTTCEEEEECCTTSHHHHHHHHHH
T ss_pred             HHHHhhC-CCCCCEEEEECCCccHHHHHHHHHh
Confidence            4455555 5566899999999999999998876

>1vbf_A 231AA long hypothetical protein-L-isoaspartate O- methyltransferase; trimeric coiled coil assembly; 2.80A {Sulfolobus tokodaii} SCOP: c.66.1.7

Probab=94.06  E-value=0.064  Score=42.10  Aligned_cols=33  Identities=9%  Similarity=0.231  Sum_probs=26.0

Q ss_pred             HHHHHhcCCCCCCCeEEEecCCccHHHHHHHhhC
Q 036971          185 NKIVESYKGFQNITRLVDVGGGLGITLSDHNFQI  218 (221)
Q Consensus       185 ~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~  218 (221)
                      ..+++.+. .....+|+|||||.|.++..+++..
T Consensus        60 ~~~~~~~~-~~~~~~vLdiG~G~G~~~~~l~~~~   92 (231)
T 1vbf_A           60 IFMLDELD-LHKGQKVLEIGTGIGYYTALIAEIV   92 (231)
T ss_dssp             HHHHHHTT-CCTTCEEEEECCTTSHHHHHHHHHS
T ss_pred             HHHHHhcC-CCCCCEEEEEcCCCCHHHHHHHHHc
Confidence            34555666 5667899999999999999988764

>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=94.05  E-value=0.023  Score=41.75  Aligned_cols=65  Identities=11%  Similarity=0.198  Sum_probs=47.7

Q ss_pred             hhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccC--CCCcceeccccccccc
Q 036971           40 NLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFST--HGVRLYSLAPVAKYYV  112 (221)
Q Consensus        40 ~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~--~~~~~y~lt~~s~~L~  112 (221)
                      ++.|+..|...   +++|..+||+.+++ ++.    .+.++++.|...|++.+....  ...-.+.+|+.++.+.
T Consensus        42 ~~~iL~~l~~~---~~~t~~ela~~l~~-~~~----~vs~~l~~Le~~Glv~r~~~~~d~R~~~~~lT~~G~~~~  108 (152)
T 3bj6_A           42 QRAILEGLSLT---PGATAPQLGAALQM-KRQ----YISRILQEVQRAGLIERRTNPEHARSHRYWLTPRGEAII  108 (152)
T ss_dssp             HHHHHHHHHHS---TTEEHHHHHHHHTC-CHH----HHHHHHHHHHHTTSEEEECCSSSTTSCEEEECHHHHHHH
T ss_pred             HHHHHHHHHhC---CCCCHHHHHHHHCC-CHH----HHHHHHHHHHHCCCeeecCCcccccceeeEEChhhHHHH
Confidence            44577788876   48999999999999 877    999999999999999986311  0011355666555443

>2lnb_A Z-DNA-binding protein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, immune system; NMR {Homo sapiens}

Probab=94.04  E-value=0.037  Score=36.50  Aligned_cols=56  Identities=13%  Similarity=0.233  Sum_probs=47.2

Q ss_pred             HhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceecc
Q 036971           39 VNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLA  105 (221)
Q Consensus        39 v~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt  105 (221)
                      .+-.|++.|.++|  .|+...|||+.+|+ +-.    -+.++|..|-..|.+...    ..-.|.++
T Consensus        20 ~eekVLe~LkeaG--~PlkageIae~~Gv-dKK----eVdKaik~LKkEgkI~SP----kRCyw~~~   75 (80)
T 2lnb_A           20 LEQRILQVLTEAG--SPVKLAQLVKECQA-PKR----ELNQVLYRMKKELKVSLT----SPATWCLG   75 (80)
T ss_dssp             HHHHHHHHHHHHT--SCEEHHHHHHHHTS-CHH----HHHHHHHHHHHTTSEEEE----ETTEEEES
T ss_pred             HHHHHHHHHHHcC--CCCCHHHHHHHHCC-CHH----HHHHHHHHHHHcCCccCC----CCceeeCC
Confidence            3456888999998  79999999999999 877    899999999999999876    35556654

>3bpv_A Transcriptional regulator; MARR, DNA binding, transcription factor, winged helix motif, DNA-binding; 1.40A {Methanobacterium thermoautotrophicum} PDB: 3bpx_A*

Probab=94.04  E-value=0.025  Score=40.75  Aligned_cols=64  Identities=13%  Similarity=0.150  Sum_probs=47.4

Q ss_pred             hhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCc---ceeccccccccc
Q 036971           40 NLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVR---LYSLAPVAKYYV  112 (221)
Q Consensus        40 ~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~---~y~lt~~s~~L~  112 (221)
                      ++.|+..|...   +++|..+||+.+++ ++.    .+.++++.|...|++...... .++   .+.+|+.+..+.
T Consensus        31 ~~~iL~~l~~~---~~~~~~ela~~l~~-s~~----tvs~~l~~L~~~glv~~~~~~-~d~R~~~~~lT~~G~~~~   97 (138)
T 3bpv_A           31 QVACLLRIHRE---PGIKQDELATFFHV-DKG----TIARTLRRLEESGFIEREQDP-ENRRRYILEVTRRGEEII   97 (138)
T ss_dssp             HHHHHHHHHHS---TTCBHHHHHHHHTC-CHH----HHHHHHHHHHHTTSEEEEEET-TEEEEEEEEECHHHHHTH
T ss_pred             HHHHHHHHHHc---CCCCHHHHHHHHCC-CHH----HHHHHHHHHHHCCCEEeecCC-CCceeEEeeECHhHHHHH
Confidence            44567777776   48999999999999 877    999999999999999985210 112   256666655443

>3nrv_A Putative transcriptional regulator (MARR/EMRR FAM; PSI-2, protein structure initiati structural genomics; HET: MSE; 2.00A {Acinetobacter SP}

Probab=94.03  E-value=0.026  Score=41.26  Aligned_cols=66  Identities=9%  Similarity=0.145  Sum_probs=47.8

Q ss_pred             HhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccC--CCCcceeccccccccc
Q 036971           39 VNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFST--HGVRLYSLAPVAKYYV  112 (221)
Q Consensus        39 v~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~--~~~~~y~lt~~s~~L~  112 (221)
                      .++.|+..|...   +++|..+||+.+++ ++.    .+.++++.|...|++.+....  ...-.+.+|+.++.+.
T Consensus        41 ~~~~iL~~l~~~---~~~t~~ela~~l~~-~~~----tvs~~l~~Le~~Glv~r~~~~~D~R~~~~~lT~~G~~~~  108 (148)
T 3nrv_A           41 TEWRIISVLSSA---SDCSVQKISDILGL-DKA----AVSRTVKKLEEKKYIEVNGHSEDKRTYAINLTEMGQELY  108 (148)
T ss_dssp             HHHHHHHHHHHS---SSBCHHHHHHHHTC-CHH----HHHHHHHHHHHTTSEEC---------CCBEECHHHHHHH
T ss_pred             HHHHHHHHHHcC---CCCCHHHHHHHHCC-CHH----HHHHHHHHHHHCCCEEeecCCCCcceeEeEECHhHHHHH
Confidence            455677888886   48999999999999 877    999999999999999986211  0123466666665444

>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=94.02  E-value=0.055  Score=45.90  Aligned_cols=31  Identities=23%  Similarity=0.113  Sum_probs=23.4

Q ss_pred             HHHHhcCCCCCCCeEEEecCCccHHHHHHHhh
Q 036971          186 KIVESYKGFQNITRLVDVGGGLGITLSDHNFQ  217 (221)
Q Consensus       186 ~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~  217 (221)
                      .+++.+. .....+|||||||.|.++..+++.
T Consensus        41 ~i~~~l~-~~~~~~VLDiGcGtG~ls~~la~~   71 (348)
T 2y1w_A           41 AILQNHT-DFKDKIVLDVGCGSGILSFFAAQA   71 (348)
T ss_dssp             HHHHTGG-GTTTCEEEEETCTTSHHHHHHHHT
T ss_pred             HHHhccc-cCCcCEEEEcCCCccHHHHHHHhC
Confidence            3444544 334579999999999999988875

>2zfu_A Nucleomethylin, cerebral protein 1; nucleolar protein, SAM-binding protein, protein structure, N phosphoprotein, nuclear protein; HET: SAH; 2.00A {Homo sapiens}

Probab=94.02  E-value=0.031  Score=43.44  Aligned_cols=20  Identities=20%  Similarity=0.034  Sum_probs=16.9

Q ss_pred             CCCCeEEEecCCccHHHHHH
Q 036971          195 QNITRLVDVGGGLGITLSDH  214 (221)
Q Consensus       195 ~~~~~vvDVGGG~G~~~~~l  214 (221)
                      ....+|+|||||.|.++..+
T Consensus        66 ~~~~~vLDiG~G~G~~~~~l   85 (215)
T 2zfu_A           66 PASLVVADFGCGDCRLASSI   85 (215)
T ss_dssp             CTTSCEEEETCTTCHHHHHC
T ss_pred             CCCCeEEEECCcCCHHHHHh
Confidence            34579999999999998765

>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=94.00  E-value=0.071  Score=45.14  Aligned_cols=30  Identities=23%  Similarity=0.166  Sum_probs=22.7

Q ss_pred             HHHhcCCCCCCCeEEEecCCccHHHHHHHhh
Q 036971          187 IVESYKGFQNITRLVDVGGGLGITLSDHNFQ  217 (221)
Q Consensus       187 ~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~  217 (221)
                      +.+... .....+|+|||||+|.++..+++.
T Consensus        56 i~~~~~-~~~~~~VLDiGcGtG~ls~~la~~   85 (340)
T 2fyt_A           56 IYQNPH-IFKDKVVLDVGCGTGILSMFAAKA   85 (340)
T ss_dssp             HHHCGG-GTTTCEEEEETCTTSHHHHHHHHT
T ss_pred             HHhhhh-hcCCCEEEEeeccCcHHHHHHHHc
Confidence            333333 444679999999999999988876

>2ipx_A RRNA 2'-O-methyltransferase fibrillarin; FBL, structural genomics, structural genomics consortium, SGC; HET: MTA; 1.82A {Homo sapiens}

Probab=93.99  E-value=0.021  Score=45.24  Aligned_cols=28  Identities=14%  Similarity=0.205  Sum_probs=23.3

Q ss_pred             hcCCCCCCCeEEEecCCccHHHHHHHhhC
Q 036971          190 SYKGFQNITRLVDVGGGLGITLSDHNFQI  218 (221)
Q Consensus       190 ~~~~~~~~~~vvDVGGG~G~~~~~l~~~~  218 (221)
                      .++ +....+|+|||||+|.++..+++.+
T Consensus        72 ~~~-~~~~~~vLDlG~G~G~~~~~la~~~   99 (233)
T 2ipx_A           72 QIH-IKPGAKVLYLGAASGTTVSHVSDIV   99 (233)
T ss_dssp             CCC-CCTTCEEEEECCTTSHHHHHHHHHH
T ss_pred             eec-CCCCCEEEEEcccCCHHHHHHHHHh
Confidence            344 5566899999999999999999875

>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=93.99  E-value=0.022  Score=41.38  Aligned_cols=65  Identities=11%  Similarity=0.105  Sum_probs=48.7

Q ss_pred             HhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCc---ceeccccccccc
Q 036971           39 VNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVR---LYSLAPVAKYYV  112 (221)
Q Consensus        39 v~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~---~y~lt~~s~~L~  112 (221)
                      .++.|+..|...   +++|..+||+.+++ ++.    .+.++++.|...|++...... .+.   .|.+|+.++.+.
T Consensus        34 ~~~~iL~~l~~~---~~~~~~~la~~l~~-s~~----tvs~~l~~L~~~glv~r~~~~-~d~r~~~~~lT~~G~~~~  101 (145)
T 2a61_A           34 AQFDILQKIYFE---GPKRPGELSVLLGV-AKS----TVTGLVKRLEADGYLTRTPDP-ADRRAYFLVITRKGEEVI  101 (145)
T ss_dssp             HHHHHHHHHHHH---CCBCHHHHHHHHTC-CHH----HHHHHHHHHHHTTSEEEEEET-TEEEEEEEEECHHHHHHH
T ss_pred             HHHHHHHHHHHc---CCCCHHHHHHHHCC-Cch----hHHHHHHHHHHCCCeeecCCC-CCCceEEEEECHHHHHHH
Confidence            455677788776   48999999999999 877    999999999999999986210 111   366666665444

>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=93.97  E-value=0.05  Score=40.56  Aligned_cols=65  Identities=14%  Similarity=0.190  Sum_probs=49.7

Q ss_pred             hhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCC--Ccceeccccccccc
Q 036971           40 NLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHG--VRLYSLAPVAKYYV  112 (221)
Q Consensus        40 ~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~--~~~y~lt~~s~~L~  112 (221)
                      +..|...|...   +++|..+||+.+++ ++.    .+.++++.|...|++.+.....+  .-.+.+|+.++.+.
T Consensus        48 q~~iL~~l~~~---~~~t~~eLa~~l~~-~~~----tvs~~l~~Le~~Glv~r~~~~~DrR~~~l~LT~~G~~~~  114 (162)
T 3k0l_A           48 QFTALSVLAAK---PNLSNAKLAERSFI-KPQ----SANKILQDLLANGWIEKAPDPTHGRRILVTVTPSGLDKL  114 (162)
T ss_dssp             HHHHHHHHHHC---TTCCHHHHHHHHTS-CGG----GHHHHHHHHHHTTSEEEEECCSSSCCEEEEECHHHHHHH
T ss_pred             HHHHHHHHHHC---CCCCHHHHHHHHCC-CHH----HHHHHHHHHHHCcCeEecCCCCcCCeeEeEECHhHHHHH
Confidence            44577788886   48999999999999 887    99999999999999998632100  12367777766554

>3bxo_A N,N-dimethyltransferase; desosamine, sugar, carbohydrate, antibiotic, SAM, adoMet; HET: SAM UPP; 2.00A {Streptomyces venezuelae}

Probab=93.94  E-value=0.097  Score=41.04  Aligned_cols=24  Identities=25%  Similarity=0.385  Sum_probs=21.2

Q ss_pred             CCCeEEEecCCccHHHHHHHhhCC
Q 036971          196 NITRLVDVGGGLGITLSDHNFQIP  219 (221)
Q Consensus       196 ~~~~vvDVGGG~G~~~~~l~~~~P  219 (221)
                      ...+|+|||||.|.++..+++.++
T Consensus        40 ~~~~vLdiG~G~G~~~~~l~~~~~   63 (239)
T 3bxo_A           40 EASSLLDVACGTGTHLEHFTKEFG   63 (239)
T ss_dssp             TCCEEEEETCTTSHHHHHHHHHHS
T ss_pred             CCCeEEEecccCCHHHHHHHHhCC
Confidence            457999999999999999988765

>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=93.93  E-value=0.022  Score=38.91  Aligned_cols=49  Identities=10%  Similarity=0.112  Sum_probs=40.1

Q ss_pred             CCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCc---ceeccccccccc
Q 036971           55 ELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVR---LYSLAPVAKYYV  112 (221)
Q Consensus        55 ~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~---~y~lt~~s~~L~  112 (221)
                      ++|..+||+.+++ ++.    .+.++++.|...|++...    .++   .|.+|+.+..+.
T Consensus        30 ~~t~~eLa~~l~i-~~~----tvs~~l~~Le~~Glv~~~----~d~R~~~v~LT~~G~~~~   81 (95)
T 2qvo_A           30 DVYIQYIASKVNS-PHS----YVWLIIKKFEEAKMVECE----LEGRTKIIRLTDKGQKIA   81 (95)
T ss_dssp             CEEHHHHHHHSSS-CHH----HHHHHHHHHHHTTSEEEE----EETTEEEEEECHHHHHHH
T ss_pred             CcCHHHHHHHHCc-CHH----HHHHHHHHHHHCcCccCC----CCCCeEEEEEChhHHHHH
Confidence            4999999999999 877    999999999999999433    233   488888877654

>3hnr_A Probable methyltransferase BT9727_4108; structural genomics, PSI-2, protein structure initiative; 2.80A {Bacillus thuringiensis serovarkonkukian}

Probab=93.90  E-value=0.032  Score=43.47  Aligned_cols=22  Identities=14%  Similarity=0.238  Sum_probs=19.6

Q ss_pred             CCCeEEEecCCccHHHHHHHhh
Q 036971          196 NITRLVDVGGGLGITLSDHNFQ  217 (221)
Q Consensus       196 ~~~~vvDVGGG~G~~~~~l~~~  217 (221)
                      ...+|||||||.|.++..+++.
T Consensus        45 ~~~~vLDiGcG~G~~~~~l~~~   66 (220)
T 3hnr_A           45 SFGNVLEFGVGTGNLTNKLLLA   66 (220)
T ss_dssp             CCSEEEEECCTTSHHHHHHHHT
T ss_pred             CCCeEEEeCCCCCHHHHHHHhC
Confidence            4679999999999999999875

>1xdz_A Methyltransferase GIDB; MCSG, protein structure initiative, structural genomics, methyltransferase fold, PSI; 1.60A {Bacillus subtilis} SCOP: c.66.1.20

Probab=93.89  E-value=0.027  Score=44.96  Aligned_cols=27  Identities=26%  Similarity=0.539  Sum_probs=23.0

Q ss_pred             CCCCCeEEEecCCccHHHHHHHhhCCC
Q 036971          194 FQNITRLVDVGGGLGITLSDHNFQIPS  220 (221)
Q Consensus       194 ~~~~~~vvDVGGG~G~~~~~l~~~~P~  220 (221)
                      +....+|+|||||.|..+..+++..|+
T Consensus        68 ~~~~~~vLDiG~G~G~~~~~la~~~~~   94 (240)
T 1xdz_A           68 FNQVNTICDVGAGAGFPSLPIKICFPH   94 (240)
T ss_dssp             GGGCCEEEEECSSSCTTHHHHHHHCTT
T ss_pred             cCCCCEEEEecCCCCHHHHHHHHhCCC
Confidence            345689999999999999999987775

>2zkz_A Transcriptional repressor PAGR; protein-DNA, HTH motif, dimer, DN binding, transcription regulation; 2.00A {Bacillus anthracis}

Probab=93.88  E-value=0.026  Score=39.00  Aligned_cols=48  Identities=13%  Similarity=0.164  Sum_probs=37.9

Q ss_pred             HHHhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           37 AVVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        37 ~av~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      --.++.|+..|...   ++.++.|||+.+|+ ++.    .+.+.|+.|... ++...
T Consensus        26 ~~~Rl~IL~~l~~~---~~~~~~ela~~l~i-s~s----tvs~hL~~L~~~-lv~~~   73 (99)
T 2zkz_A           26 HPMRLKIVNELYKH---KALNVTQIIQILKL-PQS----TVSQHLCKMRGK-VLKRN   73 (99)
T ss_dssp             SHHHHHHHHHHHHH---SCEEHHHHHHHHTC-CHH----HHHHHHHHHBTT-TBEEE
T ss_pred             CHHHHHHHHHHHHC---CCcCHHHHHHHHCc-CHH----HHHHHHHHHHHH-hhhhe
Confidence            34555666444433   58999999999999 776    999999999999 98865

>3g3z_A NMB1585, transcriptional regulator, MARR family; transcription factor, structur genomics, oxford protein production facility; 2.10A {Neisseria meningitidis serogroup B}

Probab=93.86  E-value=0.032  Score=40.69  Aligned_cols=66  Identities=17%  Similarity=0.157  Sum_probs=49.5

Q ss_pred             HhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCC--CCcceeccccccccc
Q 036971           39 VNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTH--GVRLYSLAPVAKYYV  112 (221)
Q Consensus        39 v~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~--~~~~y~lt~~s~~L~  112 (221)
                      .+..|+..|...   +++|..+||+.+++ ++.    .+.++++.|...|++.+.....  ..-.+.+|+.++.+.
T Consensus        32 ~q~~iL~~l~~~---~~~t~~eLa~~l~~-~~~----tvs~~l~~Le~~Glv~r~~~~~D~R~~~~~LT~~G~~~~   99 (145)
T 3g3z_A           32 NLFAVLYTLATE---GSRTQKHIGEKWSL-PKQ----TVSGVCKTLAGQGLIEWQEGEQDRRKRLLSLTETGKAYA   99 (145)
T ss_dssp             HHHHHHHHHHHH---CSBCHHHHHHHHTC-CHH----HHHHHHHHHHHTTSEEECCCSSCGGGSCEEECHHHHHHH
T ss_pred             HHHHHHHHHHHC---CCCCHHHHHHHHCC-CHH----HHHHHHHHHHHCCCEeeccCCCCCceeeeeEChhHHHHH
Confidence            445577788776   47999999999999 877    9999999999999999852110  012367777766554

>2fa5_A Transcriptional regulator MARR/EMRR family; multiple antibiotics resistance repressor, XCC structural genomics, X-RAY diffraction; 1.80A {Xanthomonas campestris}

Probab=93.86  E-value=0.029  Score=41.67  Aligned_cols=65  Identities=15%  Similarity=0.208  Sum_probs=46.7

Q ss_pred             hhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccC--CCCcceeccccccccc
Q 036971           40 NLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFST--HGVRLYSLAPVAKYYV  112 (221)
Q Consensus        40 ~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~--~~~~~y~lt~~s~~L~  112 (221)
                      ++.|+..|...   +++|..+||+.+++ ++.    .+.++++.|...|++.+....  ...-.|.+|+.++.+.
T Consensus        51 ~~~iL~~l~~~---~~~t~~ela~~l~i-s~~----tvs~~l~~Le~~glv~r~~~~~d~R~~~~~lT~~G~~~~  117 (162)
T 2fa5_A           51 EWRVITILALY---PGSSASEVSDRTAM-DKV----AVSRAVARLLERGFIRRETHGDDRRRSMLALSPAGRQVY  117 (162)
T ss_dssp             HHHHHHHHHHS---TTCCHHHHHHHHTC-CHH----HHHHHHHHHHHTTSEEC---------CCCEECHHHHHHH
T ss_pred             HHHHHHHHHhC---CCCCHHHHHHHHCC-CHH----HHHHHHHHHHHCCCEeeecCCCCCCeeEEEECHHHHHHH
Confidence            45577888875   58999999999999 877    999999999999999985210  0012366666665443

>2ozv_A Hypothetical protein ATU0636; structural genomics, predicted transferase, predicted O-methyltransferase, PFAM PF05175; HET: MSE; 1.70A {Agrobacterium tumefaciens str}

Probab=93.78  E-value=0.051  Score=44.07  Aligned_cols=27  Identities=19%  Similarity=0.268  Sum_probs=23.5

Q ss_pred             CCCCCeEEEecCCccHHHHHHHhhCCC
Q 036971          194 FQNITRLVDVGGGLGITLSDHNFQIPS  220 (221)
Q Consensus       194 ~~~~~~vvDVGGG~G~~~~~l~~~~P~  220 (221)
                      .....+|||||||.|.++..+++++|+
T Consensus        34 ~~~~~~VLDlG~G~G~~~l~la~~~~~   60 (260)
T 2ozv_A           34 DDRACRIADLGAGAGAAGMAVAARLEK   60 (260)
T ss_dssp             CCSCEEEEECCSSSSHHHHHHHHHCTT
T ss_pred             ccCCCEEEEeCChHhHHHHHHHHhCCC
Confidence            445679999999999999999999874

>2h1r_A Dimethyladenosine transferase, putative; SGC toronto dimethyladenosine transferase, structural genomics, structural genomics consortium; 1.89A {Plasmodium falciparum}

Probab=93.78  E-value=0.028  Score=46.78  Aligned_cols=33  Identities=18%  Similarity=0.204  Sum_probs=25.8

Q ss_pred             HHHHHhcCCCCCCCeEEEecCCccHHHHHHHhhC
Q 036971          185 NKIVESYKGFQNITRLVDVGGGLGITLSDHNFQI  218 (221)
Q Consensus       185 ~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~  218 (221)
                      ..+++..+ .....+|+|||||.|.++..+++..
T Consensus        32 ~~i~~~~~-~~~~~~VLDiG~G~G~lt~~La~~~   64 (299)
T 2h1r_A           32 DKIIYAAK-IKSSDIVLEIGCGTGNLTVKLLPLA   64 (299)
T ss_dssp             HHHHHHHC-CCTTCEEEEECCTTSTTHHHHTTTS
T ss_pred             HHHHHhcC-CCCcCEEEEEcCcCcHHHHHHHhcC
Confidence            44555566 5566899999999999999988753

>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=93.76  E-value=0.077  Score=44.21  Aligned_cols=33  Identities=27%  Similarity=0.368  Sum_probs=26.5

Q ss_pred             HHHHHHhcCCCCCCCeEEEecCCccHHHHHHHhh
Q 036971          184 INKIVESYKGFQNITRLVDVGGGLGITLSDHNFQ  217 (221)
Q Consensus       184 ~~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~  217 (221)
                      +..+++..+ .....+|+|||||.|.++..+++.
T Consensus        39 ~~~Iv~~l~-~~~~~~VLEIG~G~G~lT~~La~~   71 (295)
T 3gru_A           39 VNKAVESAN-LTKDDVVLEIGLGKGILTEELAKN   71 (295)
T ss_dssp             HHHHHHHTT-CCTTCEEEEECCTTSHHHHHHHHH
T ss_pred             HHHHHHhcC-CCCcCEEEEECCCchHHHHHHHhc
Confidence            345666666 666689999999999999999876

>3ccf_A Cyclopropane-fatty-acyl-phospholipid synthase; YP_321342.1, putative methyltransferase; 1.90A {Anabaena variabilis atcc 29413}

Probab=93.75  E-value=0.056  Score=43.90  Aligned_cols=29  Identities=17%  Similarity=0.162  Sum_probs=23.3

Q ss_pred             HHHhcCCCCCCCeEEEecCCccHHHHHHHh
Q 036971          187 IVESYKGFQNITRLVDVGGGLGITLSDHNF  216 (221)
Q Consensus       187 ~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~  216 (221)
                      +++.++ .....+|||||||.|.++..+++
T Consensus        49 l~~~l~-~~~~~~vLDiGcG~G~~~~~l~~   77 (279)
T 3ccf_A           49 LLQLLN-PQPGEFILDLGCGTGQLTEKIAQ   77 (279)
T ss_dssp             HHHHHC-CCTTCEEEEETCTTSHHHHHHHH
T ss_pred             HHHHhC-CCCCCEEEEecCCCCHHHHHHHh
Confidence            444555 55568999999999999999887

>2pex_A Transcriptional regulator OHRR; transcription regulator; 1.90A {Xanthomonas campestris} PDB: 2pfb_A

Probab=93.72  E-value=0.034  Score=40.89  Aligned_cols=68  Identities=16%  Similarity=0.154  Sum_probs=50.5

Q ss_pred             HhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccC--CCCcceeccccccccccC
Q 036971           39 VNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFST--HGVRLYSLAPVAKYYVSD  114 (221)
Q Consensus        39 v~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~--~~~~~y~lt~~s~~L~~~  114 (221)
                      .++.|+..|...   +++|..+||+.+++ ++.    .+.++++.|...|++.+....  ...-.+.+|+.++.+...
T Consensus        48 ~~~~iL~~l~~~---~~~t~~ela~~l~~-s~~----tvs~~l~~Le~~glv~r~~~~~d~R~~~~~lT~~G~~~~~~  117 (153)
T 2pex_A           48 PQYLVMLVLWET---DERSVSEIGERLYL-DSA----TLTPLLKRLQAAGLVTRTRAASDERQVIIALTETGRALRSK  117 (153)
T ss_dssp             HHHHHHHHHHHS---CSEEHHHHHHHHTC-CHH----HHHHHHHHHHHTTSEEEEC-------CEEEECHHHHHGGGG
T ss_pred             HHHHHHHHHHhC---CCcCHHHHHHHhCC-Ccc----cHHHHHHHHHHCCCEeecCCcccCCeeEeeECHHHHHHHHH
Confidence            345577788876   48999999999999 777    999999999999999986210  001247788877766543

>3g2m_A PCZA361.24; SAM-dependent methyltransferase, glycopeptide antibiotics biosynthesis, structural genomics; 2.00A {Amycolatopsis orientalis} PDB: 3g2o_A* 3g2p_A* 3g2q_A*

Probab=93.71  E-value=0.05  Score=44.76  Aligned_cols=34  Identities=6%  Similarity=-0.065  Sum_probs=25.1

Q ss_pred             HHHHHHHhcCCCCCCCeEEEecCCccHHHHHHHhhC
Q 036971          183 VINKIVESYKGFQNITRLVDVGGGLGITLSDHNFQI  218 (221)
Q Consensus       183 ~~~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~  218 (221)
                      ....+++.++ ... .+|||||||.|.++..+++..
T Consensus        71 ~~~~~~~~~~-~~~-~~vLDlGcG~G~~~~~l~~~~  104 (299)
T 3g2m_A           71 EAREFATRTG-PVS-GPVLELAAGMGRLTFPFLDLG  104 (299)
T ss_dssp             HHHHHHHHHC-CCC-SCEEEETCTTTTTHHHHHTTT
T ss_pred             HHHHHHHhhC-CCC-CcEEEEeccCCHHHHHHHHcC
Confidence            3445566665 333 499999999999999998763

>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=93.71  E-value=0.04  Score=42.73  Aligned_cols=30  Identities=23%  Similarity=0.231  Sum_probs=22.5

Q ss_pred             HHHhcCCCCCCCeEEEecCCccHHHHHHHhh
Q 036971          187 IVESYKGFQNITRLVDVGGGLGITLSDHNFQ  217 (221)
Q Consensus       187 ~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~  217 (221)
                      +++.+. .....+|||||||.|.++..+++.
T Consensus        44 ~~~~~~-~~~~~~vLdiG~G~G~~~~~l~~~   73 (227)
T 3e8s_A           44 ILLAIL-GRQPERVLDLGCGEGWLLRALADR   73 (227)
T ss_dssp             HHHHHH-HTCCSEEEEETCTTCHHHHHHHTT
T ss_pred             HHHHhh-cCCCCEEEEeCCCCCHHHHHHHHC
Confidence            344443 333589999999999999998875

>2nyx_A Probable transcriptional regulatory protein, RV14; alpha/beta, structural genomics, PSI-2; 2.30A {Mycobacterium tuberculosis}

Probab=93.67  E-value=0.13  Score=38.45  Aligned_cols=66  Identities=15%  Similarity=0.177  Sum_probs=49.7

Q ss_pred             HhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCC--CCcceeccccccccc
Q 036971           39 VNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTH--GVRLYSLAPVAKYYV  112 (221)
Q Consensus        39 v~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~--~~~~y~lt~~s~~L~  112 (221)
                      .++.|+..|...   +++|..+||+.+++ ++.    .+.++++.|...|++.+.....  ..-.+.+|+.++.+.
T Consensus        46 ~~~~iL~~L~~~---~~~t~~eLa~~l~i-s~~----tvs~~l~~Le~~GlV~r~~~~~DrR~~~~~LT~~G~~~~  113 (168)
T 2nyx_A           46 PQFRTLVILSNH---GPINLATLATLLGV-QPS----ATGRMVDRLVGAELIDRLPHPTSRRELLAALTKRGRDVV  113 (168)
T ss_dssp             HHHHHHHHHHHH---CSEEHHHHHHHHTS-CHH----HHHHHHHHHHHTTSEEEEECSSCSSCEEEEECHHHHHHH
T ss_pred             HHHHHHHHHHHc---CCCCHHHHHHHhCC-CHH----HHHHHHHHHHHCCCEEeccCCCCCCeeEEEECHHHHHHH
Confidence            345578888876   48999999999999 777    9999999999999999863110  112367777776554

>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=93.65  E-value=0.04  Score=45.53  Aligned_cols=23  Identities=22%  Similarity=0.242  Sum_probs=20.7

Q ss_pred             CCeEEEecCCccHHHHHHHhhCCC
Q 036971          197 ITRLVDVGGGLGITLSDHNFQIPS  220 (221)
Q Consensus       197 ~~~vvDVGGG~G~~~~~l~~~~P~  220 (221)
                      ..+|+|||||+|.++..+++. |+
T Consensus       124 ~~~vLDlG~GsG~~~~~la~~-~~  146 (284)
T 1nv8_A          124 IKTVADIGTGSGAIGVSVAKF-SD  146 (284)
T ss_dssp             CCEEEEESCTTSHHHHHHHHH-SS
T ss_pred             CCEEEEEeCchhHHHHHHHHC-CC
Confidence            468999999999999999988 64

>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=93.64  E-value=0.072  Score=43.02  Aligned_cols=46  Identities=15%  Similarity=0.236  Sum_probs=27.0

Q ss_pred             HHHHHHhhhhHHHHHHHHHhcCCCCCCCeEEEecCCccHHHHHHHhhCC
Q 036971          171 VFNNGMIGQTSFVINKIVESYKGFQNITRLVDVGGGLGITLSDHNFQIP  219 (221)
Q Consensus       171 ~F~~aM~~~~~~~~~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P  219 (221)
                      .|.......++..... ++.+  .....+|+|||||+|.++..+++..+
T Consensus        98 ~fgtg~~~tt~~~~~~-l~~~--~~~~~~VLDiGcG~G~l~~~la~~g~  143 (254)
T 2nxc_A           98 AFGTGHHETTRLALKA-LARH--LRPGDKVLDLGTGSGVLAIAAEKLGG  143 (254)
T ss_dssp             ----CCSHHHHHHHHH-HHHH--CCTTCEEEEETCTTSHHHHHHHHTTC
T ss_pred             cccCCCCHHHHHHHHH-HHHh--cCCCCEEEEecCCCcHHHHHHHHhCC
Confidence            3444443333443333 3333  23457999999999999999887654

>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=93.62  E-value=0.068  Score=44.60  Aligned_cols=34  Identities=18%  Similarity=0.294  Sum_probs=27.0

Q ss_pred             HHHHhcCCCCCCCeEEEecCCccHHHHHHHhhCCC
Q 036971          186 KIVESYKGFQNITRLVDVGGGLGITLSDHNFQIPS  220 (221)
Q Consensus       186 ~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~  220 (221)
                      .+++..+ .....+|+|||||.|.++..+++..+.
T Consensus        66 ~l~~~l~-~~~~~~VLDiGcG~G~~~~~la~~~~~   99 (317)
T 1dl5_A           66 LFMEWVG-LDKGMRVLEIGGGTGYNAAVMSRVVGE   99 (317)
T ss_dssp             HHHHHTT-CCTTCEEEEECCTTSHHHHHHHHHHCT
T ss_pred             HHHHhcC-CCCcCEEEEecCCchHHHHHHHHhcCC
Confidence            4555565 566789999999999999999887653

>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=93.62  E-value=0.086  Score=42.88  Aligned_cols=35  Identities=17%  Similarity=0.100  Sum_probs=28.4

Q ss_pred             HHHHHHhcCCCCCCCeEEEecCCccHHHHHHHhh-CC
Q 036971          184 INKIVESYKGFQNITRLVDVGGGLGITLSDHNFQ-IP  219 (221)
Q Consensus       184 ~~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~-~P  219 (221)
                      +..++..++ +....+|||||||+|.++..+++. .|
T Consensus       101 ~~~i~~~~~-~~~~~~VLDiG~G~G~~~~~la~~~~~  136 (277)
T 1o54_A          101 SSFIAMMLD-VKEGDRIIDTGVGSGAMCAVLARAVGS  136 (277)
T ss_dssp             HHHHHHHTT-CCTTCEEEEECCTTSHHHHHHHHHTTT
T ss_pred             HHHHHHHhC-CCCCCEEEEECCcCCHHHHHHHHHhCC
Confidence            345666677 666789999999999999999988 45

>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=93.62  E-value=0.033  Score=40.14  Aligned_cols=64  Identities=20%  Similarity=0.144  Sum_probs=48.1

Q ss_pred             hhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCc---ceeccccccccc
Q 036971           40 NLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVR---LYSLAPVAKYYV  112 (221)
Q Consensus        40 ~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~---~y~lt~~s~~L~  112 (221)
                      ++.++..|...   +++|..+||+.+++ ++.    .+.++++.|...|++...... .+.   .+.+|+.++.+.
T Consensus        36 ~~~iL~~l~~~---~~~~~~~la~~l~~-~~~----tvs~~l~~L~~~gli~r~~~~-~d~R~~~~~lT~~G~~~~  102 (138)
T 1jgs_A           36 QFKVLCSIRCA---ACITPVELKKVLSV-DLG----ALTRMLDRLVCKGWVERLPNP-NDKRGVLVKLTTGGAAIC  102 (138)
T ss_dssp             HHHHHHHHHHH---SSBCHHHHHHHHTC-CHH----HHHHHHHHHHHTTSEEEEECT-TCSSCEEEEECHHHHHHH
T ss_pred             HHHHHHHHHhc---CCCCHHHHHHHHCC-ChH----HHHHHHHHHHHCCCEEecCCc-ccCceeEeEEChhHHHHH
Confidence            44566777775   48999999999999 877    999999999999999986311 122   366777666544

>2rdp_A Putative transcriptional regulator MARR; PFAM PF01047, winged-helix binding motif, structural genomics, PSI-2; 2.30A {Geobacillus stearothermophilus}

Probab=93.61  E-value=0.038  Score=40.37  Aligned_cols=65  Identities=8%  Similarity=0.080  Sum_probs=47.9

Q ss_pred             hhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccC--CCCcceeccccccccc
Q 036971           40 NLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFST--HGVRLYSLAPVAKYYV  112 (221)
Q Consensus        40 ~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~--~~~~~y~lt~~s~~L~  112 (221)
                      ++.|+..|...   +++|..+||+.+++ ++.    .+.++++.|...|++......  ...-.+.+|+.++.+.
T Consensus        44 ~~~iL~~l~~~---~~~t~~ela~~l~~-~~~----tvs~~l~~Le~~Glv~r~~~~~d~R~~~~~lT~~G~~~~  110 (150)
T 2rdp_A           44 QFVALQWLLEE---GDLTVGELSNKMYL-ACS----TTTDLVDRMERNGLVARVRDEHDRRVVRIRLLEKGERII  110 (150)
T ss_dssp             HHHHHHHHHHH---CSBCHHHHHHHHTC-CHH----HHHHHHHHHHHTTSEEEEECCC---CEEEEECHHHHHHH
T ss_pred             HHHHHHHHHHc---CCCCHHHHHHHHCC-Cch----hHHHHHHHHHHCCCeeecCCCCCcceeEeEECHhHHHHH
Confidence            44567788876   48999999999999 777    999999999999999986211  0012366666665444

>3oop_A LIN2960 protein; protein structure initiative, PSI-2, structural genomics, MI center for structural genomics, MCSG, unknown function; 1.78A {Listeria innocua}

Probab=93.60  E-value=0.029  Score=40.81  Aligned_cols=66  Identities=21%  Similarity=0.281  Sum_probs=49.0

Q ss_pred             HhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccC--CCCcceeccccccccc
Q 036971           39 VNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFST--HGVRLYSLAPVAKYYV  112 (221)
Q Consensus        39 v~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~--~~~~~y~lt~~s~~L~  112 (221)
                      .+..|+..|...   +++|..+||+.+++ ++.    .+.++++.|...|++++....  ...-.+.+|+.++.+.
T Consensus        38 ~~~~iL~~l~~~---~~~t~~eLa~~l~~-~~~----~vs~~l~~L~~~Glv~r~~~~~D~R~~~~~LT~~G~~~~  105 (143)
T 3oop_A           38 EQWSVLEGIEAN---EPISQKEIALWTKK-DTP----TVNRIVDVLLRKELIVREISTEDRRISLLSLTDKGRKET  105 (143)
T ss_dssp             HHHHHHHHHHHH---SSEEHHHHHHHHTC-CHH----HHHHHHHHHHHTTSEEEEC----CCSCEEEECHHHHHHH
T ss_pred             HHHHHHHHHHHc---CCcCHHHHHHHHCC-CHh----hHHHHHHHHHHCCCeeccCCCccCceeeeeECHHHHHHH
Confidence            445567778776   48999999999999 887    999999999999999986211  0112366777666544

>3e23_A Uncharacterized protein RPA2492; alpha-beta protein, structural genomics, PSI-2, protein structure initiative; HET: SAM; 1.60A {Rhodopseudomonas palustris}

Probab=93.53  E-value=0.065  Score=41.43  Aligned_cols=23  Identities=13%  Similarity=0.222  Sum_probs=20.1

Q ss_pred             CCCCeEEEecCCccHHHHHHHhh
Q 036971          195 QNITRLVDVGGGLGITLSDHNFQ  217 (221)
Q Consensus       195 ~~~~~vvDVGGG~G~~~~~l~~~  217 (221)
                      ....+|||||||.|.++..+++.
T Consensus        42 ~~~~~vLDiGcG~G~~~~~l~~~   64 (211)
T 3e23_A           42 PAGAKILELGCGAGYQAEAMLAA   64 (211)
T ss_dssp             CTTCEEEESSCTTSHHHHHHHHT
T ss_pred             CCCCcEEEECCCCCHHHHHHHHc
Confidence            34679999999999999999875

>2fbi_A Probable transcriptional regulator; MARR, APC5816, structural genomic protein structure initiative; 2.10A {Pseudomonas aeruginosa} SCOP: a.4.5.28

Probab=93.51  E-value=0.031  Score=40.39  Aligned_cols=65  Identities=15%  Similarity=0.104  Sum_probs=48.5

Q ss_pred             HhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCc---ceeccccccccc
Q 036971           39 VNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVR---LYSLAPVAKYYV  112 (221)
Q Consensus        39 v~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~---~y~lt~~s~~L~  112 (221)
                      .++.|+..|...   +++|..+||+.+++ ++.    .+.++++.|...|++...... .+.   .+.+|+.+..+.
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---GEMESYQLANQACI-LRP----SMTGVLARLERDGIVRRWKAP-KDQRRVYVNLTEKGQQCF  104 (142)
T ss_dssp             HHHHHHHHHHHH---CSEEHHHHHHHTTC-CHH----HHHHHHHHHHHTTSEEEEEET-TEEEEEEEEECHHHHHHH
T ss_pred             HHHHHHHHHHHc---CCCCHHHHHHHHCC-CHh----HHHHHHHHHHHCCCEEeecCC-CCCCeeEEEECHHHHHHH
Confidence            455577788876   48999999999999 877    999999999999999986210 111   256666655443

>4htf_A S-adenosylmethionine-dependent methyltransferase; structural genomics, PSI-biology, midwest center for structu genomics, MCSG; HET: MSE SAM; 1.60A {Escherichia coli}

Probab=93.50  E-value=0.054  Score=44.11  Aligned_cols=30  Identities=27%  Similarity=0.366  Sum_probs=23.6

Q ss_pred             HHHHhcCCCCCCCeEEEecCCccHHHHHHHhh
Q 036971          186 KIVESYKGFQNITRLVDVGGGLGITLSDHNFQ  217 (221)
Q Consensus       186 ~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~  217 (221)
                      .+++.++ .. ..+|||||||.|.++..+++.
T Consensus        60 ~~l~~~~-~~-~~~vLDiGcG~G~~~~~l~~~   89 (285)
T 4htf_A           60 RVLAEMG-PQ-KLRVLDAGGGEGQTAIKMAER   89 (285)
T ss_dssp             HHHHHTC-SS-CCEEEEETCTTCHHHHHHHHT
T ss_pred             HHHHhcC-CC-CCEEEEeCCcchHHHHHHHHC
Confidence            4555555 33 479999999999999999876

>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=93.47  E-value=0.18  Score=36.37  Aligned_cols=64  Identities=16%  Similarity=0.089  Sum_probs=46.8

Q ss_pred             hChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccC--CCCcceeccccccccc
Q 036971           41 LDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFST--HGVRLYSLAPVAKYYV  112 (221)
Q Consensus        41 lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~--~~~~~y~lt~~s~~L~  112 (221)
                      +.|...|...   +++|..+||+.+++ ++.    .+.++++.|...|++++....  ...-.+.+|+.++.+.
T Consensus        39 ~~vL~~l~~~---~~~t~~eLa~~l~~-~~~----tvs~~l~~L~~~Glv~r~~~~~D~R~~~~~LT~~G~~~~  104 (140)
T 3hsr_A           39 YIVLMAIEND---EKLNIKKLGERVFL-DSG----TLTPLLKKLEKKDYVVRTREEKDERNLQISLTEQGKAIK  104 (140)
T ss_dssp             HHHHHHSCTT---CEEEHHHHHHHHTC-CHH----HHHHHHHHHHHTTSEEEEC-------CEEEECHHHHHTH
T ss_pred             HHHHHHHHHc---CCcCHHHHHHHHCC-Chh----hHHHHHHHHHHCCCeEecCCCCCcceeeeeEChHHHHHH
Confidence            3355666654   58999999999999 887    999999999999999986311  0112467777776554

>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=93.47  E-value=0.048  Score=39.59  Aligned_cols=65  Identities=8%  Similarity=0.033  Sum_probs=47.4

Q ss_pred             HhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCC--CCcceeccccccccc
Q 036971           39 VNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTH--GVRLYSLAPVAKYYV  112 (221)
Q Consensus        39 v~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~--~~~~y~lt~~s~~L~  112 (221)
                      .++.|+..|. .   +++|..+||+.+++ ++.    .+.++++.|...|++.......  ..-.+.+|+.+..+.
T Consensus        38 ~~~~iL~~l~-~---~~~~~~ela~~l~~-s~~----tvs~~l~~Le~~glv~r~~~~~d~r~~~~~lT~~G~~~~  104 (146)
T 2gxg_A           38 LDFLVLRATS-D---GPKTMAYLANRYFV-TQS----AITASVDKLEEMGLVVRVRDREDRRKILIEITEKGLETF  104 (146)
T ss_dssp             HHHHHHHHHT-T---SCBCHHHHHHHTTC-CHH----HHHHHHHHHHHTTSEEEEECSSCTTCEEEEECHHHHHHH
T ss_pred             HHHHHHHHHh-c---CCcCHHHHHHHhCC-Cch----hHHHHHHHHHHCCCEEeecCCCCCceEEEEECHHHHHHH
Confidence            3455677777 4   58999999999999 877    9999999999999999863110  011356666665444

>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=93.47  E-value=0.071  Score=38.73  Aligned_cols=68  Identities=13%  Similarity=0.091  Sum_probs=51.5

Q ss_pred             HhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccC--CCCcceeccccccccccC
Q 036971           39 VNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFST--HGVRLYSLAPVAKYYVSD  114 (221)
Q Consensus        39 v~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~--~~~~~y~lt~~s~~L~~~  114 (221)
                      .++.|+..|...   +++|..+||+.+++ ++.    .+.++++.|...|+++.....  ...-.+.+|+.+..+...
T Consensus        41 ~~~~iL~~l~~~---~~~~~~~la~~l~~-~~~----tvs~~l~~L~~~glv~r~~~~~d~R~~~~~LT~~G~~~~~~  110 (147)
T 1z91_A           41 PQYLALLLLWEH---ETLTVKKMGEQLYL-DSG----TLTPMLKRMEQQGLITRKRSEEDERSVLISLTEDGALLKEK  110 (147)
T ss_dssp             HHHHHHHHHHHH---SEEEHHHHHHTTTC-CHH----HHHHHHHHHHHHTSEECCBCSSCTTSBEEEECHHHHSGGGG
T ss_pred             HHHHHHHHHHHC---CCCCHHHHHHHHCC-CcC----cHHHHHHHHHHCCCEEeccCCCCCCeeEEEECHhHHHHHHH
Confidence            345577778776   48999999999999 877    999999999999999986311  011237788888766544

>2fbh_A Transcriptional regulator PA3341; MARR, transcription regulator, APC5857, structural genomics, protein structure initiative; 1.80A {Pseudomonas aeruginosa} SCOP: a.4.5.28

Probab=93.45  E-value=0.044  Score=39.72  Aligned_cols=45  Identities=20%  Similarity=0.130  Sum_probs=38.6

Q ss_pred             hChhhHH-HhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           41 LDVLDII-NKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        41 lglfd~L-~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      +.|+..| ...   +++|..+||+.+++ ++.    .+.++++.|...|++...
T Consensus        40 ~~iL~~l~~~~---~~~t~~~la~~l~~-s~~----~vs~~l~~L~~~glv~r~   85 (146)
T 2fbh_A           40 WLVLLHLARHR---DSPTQRELAQSVGV-EGP----TLARLLDGLESQGLVRRL   85 (146)
T ss_dssp             HHHHHHHHHCS---SCCBHHHHHHHHTC-CHH----HHHHHHHHHHHTTSEEEE
T ss_pred             HHHHHHHHHcC---CCCCHHHHHHHhCC-Chh----hHHHHHHHHHHCCCeeec
Confidence            4466777 543   58999999999999 877    999999999999999986

>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=93.41  E-value=0.049  Score=38.10  Aligned_cols=47  Identities=28%  Similarity=0.400  Sum_probs=38.6

Q ss_pred             hhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           40 NLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        40 ~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      ++.|+..+...|  .++|..+||+.+|+ +..    .+++.|..|...|++...
T Consensus        20 ~l~Il~~l~~~g--~~~s~~eLa~~lgv-s~~----tV~~~L~~L~~~GlV~~~   66 (110)
T 1q1h_A           20 VIDVLRILLDKG--TEMTDEEIANQLNI-KVN----DVRKKLNLLEEQGFVSYR   66 (110)
T ss_dssp             THHHHHHHHHHC--SCBCHHHHHHTTTS-CHH----HHHHHHHHHHHHTSCEEE
T ss_pred             HHHHHHHHHHcC--CCCCHHHHHHHHCc-CHH----HHHHHHHHHHHCCCEEEE
Confidence            345666665443  37999999999999 777    999999999999999875

>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=93.36  E-value=0.05  Score=40.15  Aligned_cols=67  Identities=13%  Similarity=0.064  Sum_probs=49.3

Q ss_pred             HHhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccC--CCCcceeccccccccc
Q 036971           38 VVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFST--HGVRLYSLAPVAKYYV  112 (221)
Q Consensus        38 av~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~--~~~~~y~lt~~s~~L~  112 (221)
                      ..++.|+..|...   +++|..+||+.+++ ++.    .+.++++.|...|++.+....  ...-.+.+|+.++.+.
T Consensus        44 ~~~~~iL~~l~~~---~~~t~~ela~~l~i-s~~----tvs~~l~~Le~~Gli~r~~~~~d~R~~~~~lT~~G~~~~  112 (154)
T 2eth_A           44 TTELYAFLYVALF---GPKKMKEIAEFLST-TKS----NVTNVVDSLEKRGLVVREMDPVDRRTYRVVLTEKGKEIF  112 (154)
T ss_dssp             HHHHHHHHHHHHH---CCBCHHHHHHHTTS-CHH----HHHHHHHHHHHTTSEEEEECTTTSSCEEEEECHHHHHHH
T ss_pred             HHHHHHHHHHHHc---CCCCHHHHHHHHCC-CHH----HHHHHHHHHHHCCCEEeeCCCCCcceeEEEECHHHHHHH
Confidence            3456678888876   48999999999999 777    999999999999999986311  0011356666655443

>3duw_A OMT, O-methyltransferase, putative; alternating of alpha and beta with complex SAH; HET: SAH; 1.20A {Bacillus cereus} PDB: 3dul_A*

Probab=93.36  E-value=0.051  Score=42.52  Aligned_cols=23  Identities=9%  Similarity=0.036  Sum_probs=21.7

Q ss_pred             CCeEEEecCCccHHHHHHHhhCC
Q 036971          197 ITRLVDVGGGLGITLSDHNFQIP  219 (221)
Q Consensus       197 ~~~vvDVGGG~G~~~~~l~~~~P  219 (221)
                      ..+|+|||||.|..+..+++.+|
T Consensus        59 ~~~vLdiG~G~G~~~~~la~~~~   81 (223)
T 3duw_A           59 ARNILEIGTLGGYSTIWLARGLS   81 (223)
T ss_dssp             CSEEEEECCTTSHHHHHHHTTCC
T ss_pred             CCEEEEecCCccHHHHHHHHhCC
Confidence            57999999999999999999987

>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=93.36  E-value=0.043  Score=39.61  Aligned_cols=66  Identities=12%  Similarity=0.145  Sum_probs=47.7

Q ss_pred             hhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCc---ceeccccccccc
Q 036971           40 NLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVR---LYSLAPVAKYYV  112 (221)
Q Consensus        40 ~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~---~y~lt~~s~~L~  112 (221)
                      +..|+..|...+. +++|..+||+.+++ ++.    .+.++++.|...|++...... .+.   .+.+|+.+..+.
T Consensus        36 ~~~iL~~l~~~~~-~~~~~~ela~~l~~-~~~----tvs~~l~~Le~~Gli~r~~~~-~d~R~~~i~lT~~G~~~~  104 (141)
T 3bro_A           36 QMTIIDYLSRNKN-KEVLQRDLESEFSI-KSS----TATVLLQRMEIKKLLYRKVSG-KDSRQKCLKLTKKANKLE  104 (141)
T ss_dssp             HHHHHHHHHHTTT-SCCBHHHHHHHHTC-CHH----HHHHHHHHHHHTTSEEEEECS-SCTTSEEEEECHHHHTTH
T ss_pred             HHHHHHHHHHCCC-CCcCHHHHHHHHCC-Ccc----hHHHHHHHHHHCCCEEeeCCC-cCCCeeeeEECHHHHHHH
Confidence            4446777877631 27999999999999 877    999999999999999986311 111   355666655443

>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=93.35  E-value=0.091  Score=39.51  Aligned_cols=23  Identities=13%  Similarity=-0.048  Sum_probs=19.5

Q ss_pred             CCCCeEEEecCCccHHHHHHHhh
Q 036971          195 QNITRLVDVGGGLGITLSDHNFQ  217 (221)
Q Consensus       195 ~~~~~vvDVGGG~G~~~~~l~~~  217 (221)
                      ....+|+|||||.|.++..+++.
T Consensus        43 ~~~~~vLD~GcG~G~~~~~~~~~   65 (187)
T 2fhp_A           43 FDGGMALDLYSGSGGLAIEAVSR   65 (187)
T ss_dssp             CSSCEEEETTCTTCHHHHHHHHT
T ss_pred             cCCCCEEEeCCccCHHHHHHHHc
Confidence            34579999999999999988763

>3tr6_A O-methyltransferase; cellular processes; HET: SAH; 2.70A {Coxiella burnetii} SCOP: c.66.1.0

Probab=93.26  E-value=0.053  Score=42.39  Aligned_cols=23  Identities=17%  Similarity=0.423  Sum_probs=21.4

Q ss_pred             CCeEEEecCCccHHHHHHHhhCC
Q 036971          197 ITRLVDVGGGLGITLSDHNFQIP  219 (221)
Q Consensus       197 ~~~vvDVGGG~G~~~~~l~~~~P  219 (221)
                      ..+|||||||.|..+..+++.+|
T Consensus        65 ~~~vLdiG~G~G~~~~~la~~~~   87 (225)
T 3tr6_A           65 AKKVIDIGTFTGYSAIAMGLALP   87 (225)
T ss_dssp             CSEEEEECCTTSHHHHHHHTTCC
T ss_pred             CCEEEEeCCcchHHHHHHHHhCC
Confidence            57999999999999999999887

>3lpm_A Putative methyltransferase; structural genomics, protein structure initiative, NEW YORK structural genomix research consortium, nysgxrc; 2.40A {Listeria monocytogenes}

Probab=93.25  E-value=0.074  Score=42.88  Aligned_cols=26  Identities=15%  Similarity=0.190  Sum_probs=23.0

Q ss_pred             CC-CCCeEEEecCCccHHHHHHHhhCC
Q 036971          194 FQ-NITRLVDVGGGLGITLSDHNFQIP  219 (221)
Q Consensus       194 ~~-~~~~vvDVGGG~G~~~~~l~~~~P  219 (221)
                      .. ...+|||||||.|.++..+++..|
T Consensus        46 ~~~~~~~vLDlG~G~G~~~~~la~~~~   72 (259)
T 3lpm_A           46 LPIRKGKIIDLCSGNGIIPLLLSTRTK   72 (259)
T ss_dssp             CCSSCCEEEETTCTTTHHHHHHHTTCC
T ss_pred             CCCCCCEEEEcCCchhHHHHHHHHhcC
Confidence            55 578999999999999999998876

>2yvl_A TRMI protein, hypothetical protein; tRNA, methyltransferase, S-adenosylmethionine, structural GE NPPSFA; HET: SAM; 2.20A {Aquifex aeolicus}

Probab=93.22  E-value=0.13  Score=40.63  Aligned_cols=31  Identities=19%  Similarity=0.243  Sum_probs=25.3

Q ss_pred             HHHHhcCCCCCCCeEEEecCCccHHHHHHHhh
Q 036971          186 KIVESYKGFQNITRLVDVGGGLGITLSDHNFQ  217 (221)
Q Consensus       186 ~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~  217 (221)
                      .++...+ .....+|+|||||.|.++..+++.
T Consensus        82 ~~~~~~~-~~~~~~vldiG~G~G~~~~~l~~~  112 (248)
T 2yvl_A           82 YIALKLN-LNKEKRVLEFGTGSGALLAVLSEV  112 (248)
T ss_dssp             HHHHHTT-CCTTCEEEEECCTTSHHHHHHHHH
T ss_pred             HHHHhcC-CCCCCEEEEeCCCccHHHHHHHHh
Confidence            4555666 666789999999999999998875

>3cjn_A Transcriptional regulator, MARR family; silicibacter pomeroy structural genomics, PSI-2, protein structure initiative; 1.95A {Silicibacter pomeroyi dss-3}

Probab=93.16  E-value=0.033  Score=41.38  Aligned_cols=66  Identities=14%  Similarity=0.151  Sum_probs=48.6

Q ss_pred             HhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccC--CCCcceeccccccccc
Q 036971           39 VNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFST--HGVRLYSLAPVAKYYV  112 (221)
Q Consensus        39 v~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~--~~~~~y~lt~~s~~L~  112 (221)
                      .++.|+..|...   +++|..+||+.+++ ++.    .+.++++.|...|++.+....  ...-.+.+|+.++.+.
T Consensus        53 ~~~~iL~~l~~~---~~~t~~ela~~l~i-s~~----tvs~~l~~Le~~Gli~r~~~~~d~R~~~~~lT~~G~~~~  120 (162)
T 3cjn_A           53 AKMRALAILSAK---DGLPIGTLGIFAVV-EQS----TLSRALDGLQADGLVRREVDSDDQRSSRVYLTPAGRAVY  120 (162)
T ss_dssp             HHHHHHHHHHHS---CSEEHHHHHHHHTC-CHH----HHHHHHHHHHHTTSEEEEEC--CCSSEEEEECHHHHHHH
T ss_pred             HHHHHHHHHHHC---CCCCHHHHHHHHCC-Chh----HHHHHHHHHHHCCCEEecCCCCCCCeeEEEECHHHHHHH
Confidence            345578888876   48999999999999 777    999999999999999986210  0112356666655443

>3tma_A Methyltransferase; thump domain; 2.05A {Thermus thermophilus}

Probab=93.16  E-value=0.082  Score=44.80  Aligned_cols=35  Identities=11%  Similarity=0.086  Sum_probs=28.8

Q ss_pred             HHHHHHHhcCCCCCCCeEEEecCCccHHHHHHHhhC
Q 036971          183 VINKIVESYKGFQNITRLVDVGGGLGITLSDHNFQI  218 (221)
Q Consensus       183 ~~~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~  218 (221)
                      .+..++.... |....+|+|+|||+|.++.+++...
T Consensus       191 la~~l~~~~~-~~~~~~vLD~gcGsG~~~ie~a~~~  225 (354)
T 3tma_A          191 LAQALLRLAD-ARPGMRVLDPFTGSGTIALEAASTL  225 (354)
T ss_dssp             HHHHHHHHTT-CCTTCCEEESSCTTSHHHHHHHHHH
T ss_pred             HHHHHHHHhC-CCCCCEEEeCCCCcCHHHHHHHHhh
Confidence            4455666667 8778899999999999999998865

>3u2r_A Regulatory protein MARR; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, helix-turn-helix; 2.20A {Planctomyces limnophilus}

Probab=93.14  E-value=0.23  Score=37.02  Aligned_cols=67  Identities=12%  Similarity=0.186  Sum_probs=46.9

Q ss_pred             HhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCc---ceeccccccccc
Q 036971           39 VNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVR---LYSLAPVAKYYV  112 (221)
Q Consensus        39 v~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~---~y~lt~~s~~L~  112 (221)
                      .++.|...|...|. +++|..+||+.+++ ++.    .+.++++.|...|++.+.... .+.   .+.+|+.++.+.
T Consensus        47 ~q~~vL~~l~~~~~-~~~t~~eLa~~l~~-~~~----tvs~~l~~Le~~Glv~r~~~~-~DrR~~~l~LT~~G~~~~  116 (168)
T 3u2r_A           47 QQYNTLRLLRSVHP-EGMATLQIADRLIS-RAP----DITRLIDRLDDRGLVLRTRKP-ENRRVVEVALTDAGLKLL  116 (168)
T ss_dssp             HHHHHHHHHHHHTT-SCEEHHHHHHHC----CT----HHHHHHHHHHHTTSEEEEEET-TEEEEEEEEECHHHHHHH
T ss_pred             HHHHHHHHHHhcCC-CCcCHHHHHHHHCC-Chh----hHHHHHHHHHHCCCEeecCCC-CCCCeeEeEECHHHHHHH
Confidence            34556777777521 48999999999999 887    999999999999999986311 122   366777766554

>3c3p_A Methyltransferase; NP_951602.1, structural genomics, joint for structural genomics, JCSG, protein structure initiative transferase; 1.90A {Geobacter sulfurreducens pca}

Probab=93.08  E-value=0.056  Score=41.95  Aligned_cols=23  Identities=26%  Similarity=0.134  Sum_probs=21.3

Q ss_pred             CCeEEEecCCccHHHHHHHhhCC
Q 036971          197 ITRLVDVGGGLGITLSDHNFQIP  219 (221)
Q Consensus       197 ~~~vvDVGGG~G~~~~~l~~~~P  219 (221)
                      ..+|||||||.|..+..+++.+|
T Consensus        57 ~~~vLdiG~G~G~~~~~la~~~~   79 (210)
T 3c3p_A           57 PQLVVVPGDGLGCASWWFARAIS   79 (210)
T ss_dssp             CSEEEEESCGGGHHHHHHHTTSC
T ss_pred             CCEEEEEcCCccHHHHHHHHhCC
Confidence            57999999999999999999887

>2k4b_A Transcriptional regulator; DNA binding protein, winged helix; NMR {Lactococcus lactis subsp}

Probab=93.04  E-value=0.051  Score=37.80  Aligned_cols=50  Identities=30%  Similarity=0.363  Sum_probs=39.0

Q ss_pred             hhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           40 NLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        40 ~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      +..|...|.+.   +++|+.||++.++. ++.-+..-+.++|+-|...|++.+.
T Consensus        37 e~~VL~~L~~~---~~~t~~eL~~~l~~-~~~~s~sTVt~~L~rLe~KGlV~R~   86 (99)
T 2k4b_A           37 ELIVMRVIWSL---GEARVDEIYAQIPQ-ELEWSLATVKTLLGRLVKKEMLSTE   86 (99)
T ss_dssp             CSHHHHHHHHH---SCEEHHHHHHTCCG-GGCCCHHHHHHHHHHHHHTTSCEEE
T ss_pred             HHHHHHHHHhC---CCCCHHHHHHHHhc-ccCCCHhhHHHHHHHHHHCCCEEEE
Confidence            34567777775   48999999999986 4211233799999999999999987

>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=93.03  E-value=0.12  Score=43.31  Aligned_cols=21  Identities=29%  Similarity=0.218  Sum_probs=18.8

Q ss_pred             CCeEEEecCCccHHHHHHHhh
Q 036971          197 ITRLVDVGGGLGITLSDHNFQ  217 (221)
Q Consensus       197 ~~~vvDVGGG~G~~~~~l~~~  217 (221)
                      ..+|+|||||+|.++..++++
T Consensus        39 ~~~VLDiGcGtG~ls~~la~~   59 (328)
T 1g6q_1           39 DKIVLDVGCGTGILSMFAAKH   59 (328)
T ss_dssp             TCEEEEETCTTSHHHHHHHHT
T ss_pred             CCEEEEecCccHHHHHHHHHC
Confidence            479999999999999988875

>2gpy_A O-methyltransferase; structural genomics, PSI, protein structure initiative, NEW research center for structural genomics, nysgxrc; HET: MSE; 1.90A {Bacillus halodurans}

Probab=93.03  E-value=0.069  Score=42.13  Aligned_cols=24  Identities=17%  Similarity=0.448  Sum_probs=21.9

Q ss_pred             CCeEEEecCCccHHHHHHHhhCCC
Q 036971          197 ITRLVDVGGGLGITLSDHNFQIPS  220 (221)
Q Consensus       197 ~~~vvDVGGG~G~~~~~l~~~~P~  220 (221)
                      ..+|||||||.|..+..+++.+|+
T Consensus        55 ~~~vLdiG~G~G~~~~~la~~~~~   78 (233)
T 2gpy_A           55 PARILEIGTAIGYSAIRMAQALPE   78 (233)
T ss_dssp             CSEEEEECCTTSHHHHHHHHHCTT
T ss_pred             CCEEEEecCCCcHHHHHHHHHCCC
Confidence            579999999999999999999874

>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=93.02  E-value=0.039  Score=40.06  Aligned_cols=64  Identities=11%  Similarity=0.013  Sum_probs=47.7

Q ss_pred             hhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCc---ceeccccccccc
Q 036971           40 NLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVR---LYSLAPVAKYYV  112 (221)
Q Consensus        40 ~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~---~y~lt~~s~~L~  112 (221)
                      ++.++..|...   +++|..+||+.+++ ++.    .+.++++.|...|++...... .+.   .+.+|+.+..+.
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---PGIIQEKIAELIKV-DRT----TAARAIKRLEEQGFIYRQEDA-SNKKIKRIYATEKGKNVY   97 (144)
T ss_dssp             HHHHHHHHHHS---TTEEHHHHHHHHTC-CHH----HHHHHHHHHHHTTSEEEEECS-SCTTCEEEEECHHHHHHH
T ss_pred             HHHHHHHHHHC---cCcCHHHHHHHHCC-CHh----HHHHHHHHHHHCCCEEeecCC-CCCceeeeEEChhHHHHH
Confidence            34467777776   48999999999999 877    999999999999999986311 111   266666665444

>1o9g_A RRNA methyltransferase; antibiotic resistance, Se-MAD; 1.5A {Streptomyces viridochromogenes} SCOP: c.66.1.29 PDB: 1o9h_A

Probab=93.02  E-value=0.086  Score=42.16  Aligned_cols=31  Identities=16%  Similarity=0.079  Sum_probs=23.2

Q ss_pred             HHHHhcCCCCCCCeEEEecCCccHHHHHHHhh
Q 036971          186 KIVESYKGFQNITRLVDVGGGLGITLSDHNFQ  217 (221)
Q Consensus       186 ~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~  217 (221)
                      .+++.++ -....+|+|+|||+|.++..+++.
T Consensus        42 ~~l~~~~-~~~~~~vLD~gcGsG~~~~~la~~   72 (250)
T 1o9g_A           42 RALARLP-GDGPVTLWDPCCGSGYLLTVLGLL   72 (250)
T ss_dssp             HHHHTSS-CCSCEEEEETTCTTSHHHHHHHHH
T ss_pred             HHHHhcc-cCCCCeEEECCCCCCHHHHHHHHH
Confidence            3444444 234579999999999999999886

>2qlz_A Transcription factor PF0095; 2.50A {Pyrococcus furiosus} PDB: 2quf_A

Probab=92.93  E-value=0.033  Score=44.86  Aligned_cols=68  Identities=13%  Similarity=0.142  Sum_probs=50.9

Q ss_pred             HHHHHHHHhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCC-----Ccceeccc
Q 036971           32 PAVFQAVVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHG-----VRLYSLAP  106 (221)
Q Consensus        32 ~~aL~~av~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~-----~~~y~lt~  106 (221)
                      ..+|.--.++.|+..|..    +++++.+||+.+|+ .+.    .+.+.|+.|...|++......+.     .-.|++++
T Consensus         6 lkaL~~~~R~~IL~~L~~----g~~s~~ELa~~lgl-S~s----tVs~hL~~Le~aGLV~~~~~~gr~~GRp~~~Y~Lt~   76 (232)
T 2qlz_A            6 FYILGNKVRRDLLSHLTC----MECYFSLLSSKVSV-SST----AVAKHLKIMEREGVLQSYEKEERFIGPTKKYYKISI   76 (232)
T ss_dssp             HHHHTSHHHHHHHHHHTT----TTTCSSSSCTTCCC-CHH----HHHHHHHHHHHTTSEEEEEECC-----CEEEEEECC
T ss_pred             HHHhCCHHHHHHHHHHHh----CCCCHHHHHHHHCc-CHH----HHHHHHHHHHHCCCEEEeeecCCCCCCccEEEEEcc
Confidence            345555567778888886    59999999999999 776    99999999999999998211111     12488777


Q ss_pred             cc
Q 036971          107 VA  108 (221)
Q Consensus       107 ~s  108 (221)
                      ..
T Consensus        77 ~~   78 (232)
T 2qlz_A           77 AK   78 (232)
T ss_dssp             CE
T ss_pred             ch
Confidence            54

>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=92.91  E-value=0.11  Score=40.53  Aligned_cols=20  Identities=25%  Similarity=0.224  Sum_probs=17.3

Q ss_pred             CCeEEEecCCccHHHHHHHh
Q 036971          197 ITRLVDVGGGLGITLSDHNF  216 (221)
Q Consensus       197 ~~~vvDVGGG~G~~~~~l~~  216 (221)
                      ..+|+|||||.|.++..+++
T Consensus        48 ~~~vLDiG~G~G~~~~~l~~   67 (219)
T 1vlm_A           48 EGRGVEIGVGTGRFAVPLKI   67 (219)
T ss_dssp             SSCEEEETCTTSTTHHHHTC
T ss_pred             CCcEEEeCCCCCHHHHHHHH
Confidence            57999999999999887754

>3e6m_A MARR family transcriptional regulator; APC88769, silicibacter pomeroyi DSS, structural genomics, PSI-2, protein structure initiative; 2.20A {Silicibacter pomeroyi}

Probab=92.90  E-value=0.04  Score=41.04  Aligned_cols=65  Identities=20%  Similarity=0.194  Sum_probs=48.5

Q ss_pred             hhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccC--CCCcceeccccccccc
Q 036971           40 NLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFST--HGVRLYSLAPVAKYYV  112 (221)
Q Consensus        40 ~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~--~~~~~y~lt~~s~~L~  112 (221)
                      ++.|...|...   +++|..+||+.+++ ++.    .+.++++.|...|++.+....  ...-.+.+|+.++.+.
T Consensus        55 q~~vL~~l~~~---~~~t~~eLa~~l~~-~~~----~vs~~l~~Le~~Glv~r~~~~~DrR~~~~~LT~~G~~~~  121 (161)
T 3e6m_A           55 KLRLLSSLSAY---GELTVGQLATLGVM-EQS----TTSRTVDQLVDEGLAARSISDADQRKRTVVLTRKGKKKL  121 (161)
T ss_dssp             HHHHHHHHHHH---SEEEHHHHHHHTTC-CHH----HHHHHHHHHHHTTSEEECC---CCCSCEEEECHHHHHHH
T ss_pred             HHHHHHHHHhC---CCCCHHHHHHHHCC-CHH----HHHHHHHHHHHCCCEEeeCCcccCCeeEeeECHHHHHHH
Confidence            44577788776   48999999999999 877    999999999999999986311  0112366776666544

>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=92.87  E-value=0.064  Score=37.11  Aligned_cols=53  Identities=23%  Similarity=0.159  Sum_probs=41.0

Q ss_pred             CCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceecccccccc
Q 036971           54 AELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPVAKYY  111 (221)
Q Consensus        54 ~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~~s~~L  111 (221)
                      ++.+..+||+.+++ +..    .|.|+|..|...|++......+.-+...+|+.++.+
T Consensus        35 ~~~s~~eLa~~l~l-~~s----tLsR~l~rLe~~GLV~r~~~~D~R~~v~LT~~G~~~   87 (96)
T 2obp_A           35 TPWSLPKIAKRAQL-PMS----VLRRVLTQLQAAGLADVSVEADGRGHASLTQEGAAL   87 (96)
T ss_dssp             CCCBHHHHHHHHTC-CHH----HHHHHHHHHHHTTSEEEEECTTSCEEEEECHHHHHH
T ss_pred             CCcCHHHHHHHhCC-chh----hHHHHHHHHHHCCCEEeecCCCCceeEEECHHHHHH
Confidence            58999999999999 776    999999999999999986432122345666666543

>3c3y_A Pfomt, O-methyltransferase; plant secondary metabolism; HET: SAH; 1.37A {Mesembryanthemum crystallinum}

Probab=92.86  E-value=0.16  Score=40.44  Aligned_cols=24  Identities=29%  Similarity=0.404  Sum_probs=22.0

Q ss_pred             CCCeEEEecCCccHHHHHHHhhCC
Q 036971          196 NITRLVDVGGGLGITLSDHNFQIP  219 (221)
Q Consensus       196 ~~~~vvDVGGG~G~~~~~l~~~~P  219 (221)
                      +.++|||||||.|..+..+++..|
T Consensus        70 ~~~~VLeiG~G~G~~~~~la~~~~   93 (237)
T 3c3y_A           70 NAKKTIEVGVFTGYSLLLTALSIP   93 (237)
T ss_dssp             TCCEEEEECCTTSHHHHHHHHHSC
T ss_pred             CCCEEEEeCCCCCHHHHHHHHhCC
Confidence            367999999999999999999887

>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=92.83  E-value=0.14  Score=41.15  Aligned_cols=25  Identities=24%  Similarity=0.393  Sum_probs=21.9

Q ss_pred             CCCeEEEecCCccHHHHHHHhhCCC
Q 036971          196 NITRLVDVGGGLGITLSDHNFQIPS  220 (221)
Q Consensus       196 ~~~~vvDVGGG~G~~~~~l~~~~P~  220 (221)
                      ...+|+|||||.|.++..+++.+|+
T Consensus        85 ~~~~vLdiG~G~G~~~~~l~~~~~~  109 (269)
T 1p91_A           85 KATAVLDIGCGEGYYTHAFADALPE  109 (269)
T ss_dssp             TCCEEEEETCTTSTTHHHHHHTCTT
T ss_pred             CCCEEEEECCCCCHHHHHHHHhCCC
Confidence            4579999999999999999998764

>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=92.82  E-value=0.044  Score=43.90  Aligned_cols=25  Identities=16%  Similarity=0.252  Sum_probs=21.2

Q ss_pred             CCCeEEEecCCccHHHHHHHhhCCC
Q 036971          196 NITRLVDVGGGLGITLSDHNFQIPS  220 (221)
Q Consensus       196 ~~~~vvDVGGG~G~~~~~l~~~~P~  220 (221)
                      ...+|+|||||+|.++..+++++|+
T Consensus        65 ~~~~vLDlG~G~G~~~~~la~~~~~   89 (254)
T 2h00_A           65 TLRRGIDIGTGASCIYPLLGATLNG   89 (254)
T ss_dssp             CCCEEEEESCTTTTHHHHHHHHHHC
T ss_pred             CCCEEEEeCCChhHHHHHHHHhCCC
Confidence            3579999999999999999887653

>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=92.80  E-value=0.078  Score=39.00  Aligned_cols=47  Identities=23%  Similarity=0.415  Sum_probs=41.1

Q ss_pred             HhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           39 VNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        39 v~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      .+..|.+.|.+.   +++|..+||+.+|+ ++.    .+.+.++.|...|++...
T Consensus         6 ~d~~il~~L~~~---~~~s~~ela~~lg~-s~~----tv~~~l~~L~~~G~i~~~   52 (144)
T 2cfx_A            6 IDLNIIEELKKD---SRLSMRELGRKIKL-SPP----SVTERVRQLESFGIIKQY   52 (144)
T ss_dssp             HHHHHHHHHHHC---SCCCHHHHHHHHTC-CHH----HHHHHHHHHHHTTSEEEE
T ss_pred             HHHHHHHHHHHc---CCCCHHHHHHHHCc-CHH----HHHHHHHHHHHCCCeEEE
Confidence            355678888886   58999999999999 877    999999999999999874

>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=92.79  E-value=0.079  Score=41.93  Aligned_cols=23  Identities=26%  Similarity=0.277  Sum_probs=19.3

Q ss_pred             CCCeEEEecCCccHHHHHHHhhC
Q 036971          196 NITRLVDVGGGLGITLSDHNFQI  218 (221)
Q Consensus       196 ~~~~vvDVGGG~G~~~~~l~~~~  218 (221)
                      ...+|||||||+|.++..+++..
T Consensus        60 ~~~~vLDiGcGtG~~~~~l~~~~   82 (236)
T 1zx0_A           60 KGGRVLEVGFGMAIAASKVQEAP   82 (236)
T ss_dssp             TCEEEEEECCTTSHHHHHHHTSC
T ss_pred             CCCeEEEEeccCCHHHHHHHhcC
Confidence            35799999999999999987643

>3f3x_A Transcriptional regulator, MARR family, putative; DNA binding protein, DNA-binding, transcription regulation; 1.90A {Sulfolobus solfataricus}

Probab=92.77  E-value=0.19  Score=36.32  Aligned_cols=64  Identities=9%  Similarity=0.148  Sum_probs=49.4

Q ss_pred             HhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCc---ceeccccccccc
Q 036971           39 VNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVR---LYSLAPVAKYYV  112 (221)
Q Consensus        39 v~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~---~y~lt~~s~~L~  112 (221)
                      .++.|+..|...+   + |..+||+.+++ ++.    .+.++++.|...|++.+.... .+.   .+.+|+.++.+.
T Consensus        38 ~~~~iL~~l~~~~---~-~~~~la~~l~~-~~~----tvs~~l~~Le~~Glv~r~~~~-~D~R~~~~~LT~~G~~~~  104 (144)
T 3f3x_A           38 LDFSILKATSEEP---R-SMVYLANRYFV-TQS----AITAAVDKLEAKGLVRRIRDS-KDRRIVIVEITPKGRQVL  104 (144)
T ss_dssp             HHHHHHHHHHHSC---E-EHHHHHHHHTC-CHH----HHHHHHHHHHHTTSEEEEEET-TEEEEEEEEECHHHHHHH
T ss_pred             HHHHHHHHHHHCC---C-CHHHHHHHHCC-Chh----HHHHHHHHHHHCCCEEeccCC-CCCceEEEEECHHHHHHH
Confidence            3456788888863   5 99999999999 887    999999999999999986311 111   477888777554

>3s2w_A Transcriptional regulator, MARR family; structural genomics, PSI-biology, protein structure initiati midwest center for structural genomics; 2.45A {Methanosarcina mazei}

Probab=92.76  E-value=0.04  Score=40.92  Aligned_cols=64  Identities=9%  Similarity=0.045  Sum_probs=47.4

Q ss_pred             hChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCC--Ccceeccccccccc
Q 036971           41 LDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHG--VRLYSLAPVAKYYV  112 (221)
Q Consensus        41 lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~--~~~y~lt~~s~~L~  112 (221)
                      ..|...|...   +++|..+||+.+++ ++.    .+.++++.|...|++.+.....+  .-.+.+|+.++.+.
T Consensus        53 ~~vL~~l~~~---~~~t~~eLa~~l~~-~~~----tvs~~l~~Le~~Glv~r~~~~~DrR~~~l~LT~~G~~~~  118 (159)
T 3s2w_A           53 FPFLMRLYRE---DGINQESLSDYLKI-DKG----TTARAIQKLVDEGYVFRQRDEKDRRSYRVFLTEKGKKLE  118 (159)
T ss_dssp             HHHHHHHHHS---CSEEHHHHHHHHTC-CHH----HHHHHHHHHHHTTSEEEEECC---CCEEEEECHHHHHHH
T ss_pred             HHHHHHHHHC---CCCCHHHHHHHHCC-CHH----HHHHHHHHHHHCCCEEEecCCCCCCeeEEEECHHHHHHH
Confidence            3457777776   58999999999999 887    99999999999999998631100  11366676666544

>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=92.74  E-value=0.12  Score=44.67  Aligned_cols=42  Identities=19%  Similarity=0.275  Sum_probs=27.0

Q ss_pred             cCchHHHHHHHHHhhhhHHHHHHHHHhcCCCCCCCeEEEecCCccHHHHHHHhh
Q 036971          164 TDSRFNEVFNNGMIGQTSFVINKIVESYKGFQNITRLVDVGGGLGITLSDHNFQ  217 (221)
Q Consensus       164 ~~p~~~~~F~~aM~~~~~~~~~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~  217 (221)
                      ++..+...|.+|+...        ...+.    .++|||||||+|.++.-.+++
T Consensus        63 ~D~~Rt~aY~~Ai~~~--------~~~~~----~k~VLDvG~GtGiLs~~Aa~a  104 (376)
T 4hc4_A           63 ADRVRTDAYRLGILRN--------WAALR----GKTVLDVGAGTGILSIFCAQA  104 (376)
T ss_dssp             HCHHHHHHHHHHHHTT--------HHHHT----TCEEEEETCTTSHHHHHHHHT
T ss_pred             CCHHHHHHHHHHHHhC--------HHhcC----CCEEEEeCCCccHHHHHHHHh
Confidence            3555566666665321        11223    478999999999998766654

>3hrs_A Metalloregulator SCAR; DTXR/MNTR family member, transcription; 2.70A {Streptococcus gordonii} PDB: 3hrt_A 3hru_A

Probab=92.74  E-value=0.045  Score=43.36  Aligned_cols=50  Identities=18%  Similarity=0.250  Sum_probs=44.6

Q ss_pred             CCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceeccccccccc
Q 036971           54 AELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPVAKYYV  112 (221)
Q Consensus        54 ~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~~s~~L~  112 (221)
                      ++++..+||+.+++ ++.    .+.+.++-|...|++.+.    ....+.+|+.++.+.
T Consensus        19 ~~~~~~~lA~~l~v-s~~----tvs~~l~~Le~~GlV~r~----~~~~i~LT~~G~~~~   68 (214)
T 3hrs_A           19 NKITNKEIAQLMQV-SPP----AVTEMMKKLLAEELLIKD----KKAGYLLTDLGLKLV   68 (214)
T ss_dssp             SCCCHHHHHHHHTC-CHH----HHHHHHHHHHHTTSEEEE----TTTEEEECHHHHHHH
T ss_pred             CCcCHHHHHHHHCC-Chh----HHHHHHHHHHHCCCEEEe----cCCCeEECHHHHHHH
Confidence            68999999999999 777    999999999999999997    467899999887554

>2w25_A Probable transcriptional regulatory protein; transcription regulation, mutant, RV3291C, Glu104Ala, DNA-binding; 2.15A {Mycobacterium tuberculosis} PDB: 2vbw_A* 2vbx_A* 2vby_A* 2vbz_A* 2vc0_A 2vc1_A 2w24_A 2ivm_A 2w29_A 2qz8_A

Probab=92.73  E-value=0.079  Score=39.18  Aligned_cols=47  Identities=11%  Similarity=0.072  Sum_probs=40.8

Q ss_pred             HhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           39 VNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        39 v~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      .+..|...|...   +++|..+||+.+|+ ++.    .+.+.++.|...|++...
T Consensus         8 ~~~~iL~~L~~~---~~~s~~ela~~lg~-s~~----tv~~~l~~L~~~G~i~~~   54 (150)
T 2w25_A            8 IDRILVRELAAD---GRATLSELATRAGL-SVS----AVQSRVRRLESRGVVQGY   54 (150)
T ss_dssp             HHHHHHHHHHHC---TTCCHHHHHHHHTS-CHH----HHHHHHHHHHHTTSEEEE
T ss_pred             HHHHHHHHHHHc---CCCCHHHHHHHHCc-CHH----HHHHHHHHHHHCCCEEEE
Confidence            355677888876   58999999999999 877    999999999999999865

>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=92.72  E-value=0.068  Score=41.95  Aligned_cols=25  Identities=16%  Similarity=0.077  Sum_probs=21.7

Q ss_pred             CCCCCeEEEecCCccHHHHHHHhhC
Q 036971          194 FQNITRLVDVGGGLGITLSDHNFQI  218 (221)
Q Consensus       194 ~~~~~~vvDVGGG~G~~~~~l~~~~  218 (221)
                      +....+|+|||||.|.++..+++.+
T Consensus        71 ~~~~~~vLDlG~G~G~~~~~la~~~   95 (227)
T 1g8a_A           71 IKPGKSVLYLGIASGTTASHVSDIV   95 (227)
T ss_dssp             CCTTCEEEEETTTSTTHHHHHHHHH
T ss_pred             CCCCCEEEEEeccCCHHHHHHHHHh
Confidence            5556799999999999999998874

>3gjy_A Spermidine synthase; APC62791, structural genomics, PSI-2, protein structure initiative; HET: MSE; 1.47A {Corynebacterium glutamicum atcc 13032}

Probab=92.72  E-value=0.066  Score=45.16  Aligned_cols=24  Identities=21%  Similarity=0.257  Sum_probs=21.9

Q ss_pred             CeEEEecCCccHHHHHHHhhCCCC
Q 036971          198 TRLVDVGGGLGITLSDHNFQIPSY  221 (221)
Q Consensus       198 ~~vvDVGGG~G~~~~~l~~~~P~l  221 (221)
                      .+|||||||.|.++..+++.+|+.
T Consensus        91 ~rVLdIG~G~G~la~~la~~~p~~  114 (317)
T 3gjy_A           91 LRITHLGGGACTMARYFADVYPQS  114 (317)
T ss_dssp             CEEEEESCGGGHHHHHHHHHSTTC
T ss_pred             CEEEEEECCcCHHHHHHHHHCCCc
Confidence            499999999999999999999863

>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=92.70  E-value=0.059  Score=40.55  Aligned_cols=67  Identities=16%  Similarity=0.141  Sum_probs=48.3

Q ss_pred             HhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccC--CCCcceeccccccccc
Q 036971           39 VNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFST--HGVRLYSLAPVAKYYV  112 (221)
Q Consensus        39 v~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~--~~~~~y~lt~~s~~L~  112 (221)
                      .++.|+..|...+  +++|..+||+.+++ ++.    .+.++++.|...|++.+....  ...-.+.+|+.++.+.
T Consensus        54 ~q~~vL~~L~~~~--~~~t~~eLa~~l~i-~~~----tvs~~l~~Le~~GlV~r~~~~~DrR~~~l~LT~~G~~~~  122 (166)
T 3deu_A           54 THWVTLHNIHQLP--PDQSQIQLAKAIGI-EQP----SLVRTLDQLEDKGLISRQTCASDRRAKRIKLTEKAEPLI  122 (166)
T ss_dssp             HHHHHHHHHHHSC--SSEEHHHHHHHHTS-CHH----HHHHHHHHHHHTTSEEEC--------CEEEECGGGHHHH
T ss_pred             HHHHHHHHHHHcC--CCCCHHHHHHHHCC-CHh----hHHHHHHHHHHCCCEEeeCCCCCCCeeEEEECHHHHHHH
Confidence            3455677787733  57999999999999 877    999999999999999986211  0012366777666544

>3tgn_A ADC operon repressor ADCR; helix-turn-helix, transcriptional regulator, transcription; 2.00A {Streptococcus pneumoniae}

Probab=92.70  E-value=0.072  Score=38.64  Aligned_cols=65  Identities=20%  Similarity=0.304  Sum_probs=45.5

Q ss_pred             HhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccC--CCCcceeccccccccc
Q 036971           39 VNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFST--HGVRLYSLAPVAKYYV  112 (221)
Q Consensus        39 v~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~--~~~~~y~lt~~s~~L~  112 (221)
                      .+..|...|...   + +|..+||+.+++ ++.    .+.++++.|...|++.+....  ...-.+.+|+.+..+.
T Consensus        39 ~~~~iL~~l~~~---~-~t~~eLa~~l~~-s~~----tvs~~l~~L~~~Glv~r~~~~~d~R~~~~~lT~~g~~~~  105 (146)
T 3tgn_A           39 TQEHILMLLSEE---S-LTNSELARRLNV-SQA----AVTKAIKSLVKEGMLETSKDSKDARVIFYQLTDLARPIA  105 (146)
T ss_dssp             HHHHHHHHHTTC---C-CCHHHHHHHHTC-CHH----HHHHHHHHHHHTTSEEC----------CCEECGGGHHHH
T ss_pred             HHHHHHHHHHhC---C-CCHHHHHHHHCC-CHH----HHHHHHHHHHHCCCeEeccCCCCCceeEEEECHhHHHHH
Confidence            445566777774   4 999999999999 877    999999999999999986210  0112466666655443

>3tfw_A Putative O-methyltransferase; PSI-biology, nysgrc, structural genomics, NEW YORK structura genomics research consortium; 1.88A {Klebsiella pneumoniae subsp}

Probab=92.70  E-value=0.069  Score=42.88  Aligned_cols=24  Identities=17%  Similarity=0.254  Sum_probs=22.1

Q ss_pred             CCCeEEEecCCccHHHHHHHhhCC
Q 036971          196 NITRLVDVGGGLGITLSDHNFQIP  219 (221)
Q Consensus       196 ~~~~vvDVGGG~G~~~~~l~~~~P  219 (221)
                      ...+|||||||.|..+..+++.+|
T Consensus        63 ~~~~VLdiG~G~G~~~~~la~~~~   86 (248)
T 3tfw_A           63 QAKRILEIGTLGGYSTIWMARELP   86 (248)
T ss_dssp             TCSEEEEECCTTSHHHHHHHTTSC
T ss_pred             CCCEEEEecCCchHHHHHHHHhCC
Confidence            368999999999999999999987

>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=92.67  E-value=0.1  Score=41.05  Aligned_cols=67  Identities=12%  Similarity=0.149  Sum_probs=49.4

Q ss_pred             HHHHHHHhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccC----CCCcceeccccc
Q 036971           33 AVFQAVVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFST----HGVRLYSLAPVA  108 (221)
Q Consensus        33 ~aL~~av~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~----~~~~~y~lt~~s  108 (221)
                      .+|..-.++.|...|..    +++++.+||+.+++ ++.    .+.+.|+.|...|++......    +..-.|++|+-.
T Consensus        10 kaL~~~~rl~IL~~L~~----~~~s~~eLa~~l~i-s~s----tvs~hLk~Le~~GLV~~~~~~~~~g~~~~~Y~Lt~~~   80 (202)
T 2p4w_A           10 DVLGNETRRRILFLLTK----RPYFVSELSRELGV-GQK----AVLEHLRILEEAGLIESRVEKIPRGRPRKYYMIKKGL   80 (202)
T ss_dssp             HHHHSHHHHHHHHHHHH----SCEEHHHHHHHHTC-CHH----HHHHHHHHHHHTTSEEEEECCBTTBCCCEEEEECTTE
T ss_pred             HHhCCHHHHHHHHHHHh----CCCCHHHHHHHHCc-CHH----HHHHHHHHHHHCCceEEEeeccCCCCceEEEEEChHH
Confidence            34444556667777765    59999999999999 777    999999999999999986321    112247766644

>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=92.61  E-value=0.088  Score=38.16  Aligned_cols=44  Identities=16%  Similarity=0.171  Sum_probs=36.5

Q ss_pred             hhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           43 VLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        43 lfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      ++..|....  +++|..+||+.+|+ ++.    .+.++++.|...|++...
T Consensus        31 il~~L~~~~--~~~t~~ela~~l~~-~~s----tvs~~l~~L~~~G~v~r~   74 (152)
T 1ku9_A           31 VYAILYLSD--KPLTISDIMEELKI-SKG----NVSMSLKKLEELGFVRKV   74 (152)
T ss_dssp             HHHHHHHCS--SCEEHHHHHHHHTC-CHH----HHHHHHHHHHHTTSEEEE
T ss_pred             HHHHHHHcC--CCCCHHHHHHHHCc-CHH----HHHHHHHHHHHCCCEEEE
Confidence            455554222  58999999999999 777    999999999999999986

>3b3j_A Histone-arginine methyltransferase CARM1; protein arginine methyltransferase 4, APO catalytic domain, regulator, mRNA processing; 2.55A {Rattus norvegicus}

Probab=92.61  E-value=0.18  Score=44.84  Aligned_cols=32  Identities=22%  Similarity=0.113  Sum_probs=24.3

Q ss_pred             HHHHHhcCCCCCCCeEEEecCCccHHHHHHHhh
Q 036971          185 NKIVESYKGFQNITRLVDVGGGLGITLSDHNFQ  217 (221)
Q Consensus       185 ~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~  217 (221)
                      ..+++.++ .....+|+|||||.|.++..+++.
T Consensus       148 ~~il~~l~-~~~~~~VLDiGcGtG~la~~la~~  179 (480)
T 3b3j_A          148 RAILQNHT-DFKDKIVLDVGCGSGILSFFAAQA  179 (480)
T ss_dssp             HHHHHTGG-GTTTCEEEEESCSTTHHHHHHHHT
T ss_pred             HHHHHhhh-hcCCCEEEEecCcccHHHHHHHHc
Confidence            44555555 445579999999999999988763

>3r0q_C Probable protein arginine N-methyltransferase 4.2; arginine methyltransferase, methylation; HET: SAH; 2.61A {Arabidopsis thaliana}

Probab=92.60  E-value=0.14  Score=43.82  Aligned_cols=25  Identities=24%  Similarity=0.117  Sum_probs=21.2

Q ss_pred             CCCCCeEEEecCCccHHHHHHHhhC
Q 036971          194 FQNITRLVDVGGGLGITLSDHNFQI  218 (221)
Q Consensus       194 ~~~~~~vvDVGGG~G~~~~~l~~~~  218 (221)
                      .....+|||||||+|.++..++++.
T Consensus        61 ~~~~~~VLDlGcGtG~ls~~la~~g   85 (376)
T 3r0q_C           61 HFEGKTVLDVGTGSGILAIWSAQAG   85 (376)
T ss_dssp             TTTTCEEEEESCTTTHHHHHHHHTT
T ss_pred             cCCCCEEEEeccCcCHHHHHHHhcC
Confidence            4456899999999999999998763

>4aik_A Transcriptional regulator SLYA; transcription, transcription factor; 1.85A {Yersinia pseudotuberculosis} PDB: 4aih_A 4aij_A 3qpt_A* 3q5f_A*

Probab=92.56  E-value=0.12  Score=38.22  Aligned_cols=64  Identities=22%  Similarity=0.137  Sum_probs=47.5

Q ss_pred             hChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCc---ceeccccccccc
Q 036971           41 LDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVR---LYSLAPVAKYYV  112 (221)
Q Consensus        41 lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~---~y~lt~~s~~L~  112 (221)
                      +.+.-.|...+  ++.+..+||+.+++ ++.    .+.++++.|...|++.+.... .+.   ...+|+.++.+.
T Consensus        34 ~~vL~~L~~~~--~~~~~~eLa~~l~~-~~~----tvs~~v~~Le~~GlV~R~~~~-~DrR~~~l~LT~~G~~~~  100 (151)
T 4aik_A           34 WVTLYNINRLP--PEQSQIQLAKAIGI-EQP----SLVRTLDQLEEKGLITRHTSA-NDRRAKRIKLTEQSSPII  100 (151)
T ss_dssp             HHHHHHHHHSC--TTSCHHHHHHHHTS-CHH----HHHHHHHHHHHTTSEEEEECS-SCTTCEEEEECGGGHHHH
T ss_pred             HHHHHHHHHcC--CCCcHHHHHHHHCc-CHH----HHHHHHHHHHhCCCeEeecCC-CCCcchhhhcCHHHHHHH
Confidence            33555666654  46888999999999 887    999999999999999986321 122   367777776555

>2fe3_A Peroxide operon regulator; oxidative stress regulator, DNA binding protein; 1.75A {Bacillus subtilis} PDB: 3f8n_A 2rgv_A*

Probab=92.54  E-value=0.14  Score=37.88  Aligned_cols=65  Identities=11%  Similarity=0.089  Sum_probs=44.2

Q ss_pred             HhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceecc
Q 036971           39 VNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLA  105 (221)
Q Consensus        39 v~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt  105 (221)
                      .+.-|++.|...+  ++.|++||.+.+.-..|..+..-+.|.|+.|+..|++.+....++..+|..+
T Consensus        23 qR~~Il~~L~~~~--~~~sa~ei~~~l~~~~~~is~aTVYR~L~~L~e~Glv~~~~~~~~~~~Y~~~   87 (145)
T 2fe3_A           23 QRHAILEYLVNSM--AHPTADDIYKALEGKFPNMSVATVYNNLRVFRESGLVKELTYGDASSRFDFV   87 (145)
T ss_dssp             HHHHHHHHHHHCS--SCCCHHHHHHHHGGGCTTCCHHHHHHHHHHHHHTTSEEEECCTTSCCEEEEC
T ss_pred             HHHHHHHHHHhCC--CCCCHHHHHHHHHHhCCCCChhhHHHHHHHHHHCCCEEEEeeCCCceEEECC
Confidence            4455788888754  6899999999983211111223799999999999999987422123347654

>2pxx_A Uncharacterized protein MGC2408; structural genomics consortium, SGC, methyltransferase, LOC84291, transferase; HET: SAH; 1.30A {Homo sapiens}

Probab=92.52  E-value=0.075  Score=40.85  Aligned_cols=25  Identities=12%  Similarity=-0.011  Sum_probs=21.5

Q ss_pred             CCCCeEEEecCCccHHHHHHHhhCC
Q 036971          195 QNITRLVDVGGGLGITLSDHNFQIP  219 (221)
Q Consensus       195 ~~~~~vvDVGGG~G~~~~~l~~~~P  219 (221)
                      ....+|+|||||.|.++..+++..+
T Consensus        41 ~~~~~vLdiGcG~G~~~~~l~~~~~   65 (215)
T 2pxx_A           41 RPEDRILVLGCGNSALSYELFLGGF   65 (215)
T ss_dssp             CTTCCEEEETCTTCSHHHHHHHTTC
T ss_pred             CCCCeEEEECCCCcHHHHHHHHcCC
Confidence            3457999999999999999988765

>3dr5_A Putative O-methyltransferase; Q8NRD3, CGL1119, PF01596, CGR117, NESG, structural genomics, PSI-2, protein structure initiative; 2.25A {Corynebacterium glutamicum}

Probab=92.42  E-value=0.16  Score=40.20  Aligned_cols=22  Identities=9%  Similarity=-0.047  Sum_probs=20.3

Q ss_pred             CeEEEecCCccHHHHHHHhhCC
Q 036971          198 TRLVDVGGGLGITLSDHNFQIP  219 (221)
Q Consensus       198 ~~vvDVGGG~G~~~~~l~~~~P  219 (221)
                      .+|||||||.|..+..+++.+|
T Consensus        58 ~~vLdiG~G~G~~~~~la~~~~   79 (221)
T 3dr5_A           58 TGAIAITPAAGLVGLYILNGLA   79 (221)
T ss_dssp             CEEEEESTTHHHHHHHHHHHSC
T ss_pred             CCEEEEcCCchHHHHHHHHhCC
Confidence            4999999999999999999876

>3m70_A Tellurite resistance protein TEHB homolog; structural genomics, PSI-2, protein ST initiative; 1.95A {Haemophilus influenzae}

Probab=92.36  E-value=0.067  Score=43.58  Aligned_cols=22  Identities=18%  Similarity=0.264  Sum_probs=19.6

Q ss_pred             CCCeEEEecCCccHHHHHHHhh
Q 036971          196 NITRLVDVGGGLGITLSDHNFQ  217 (221)
Q Consensus       196 ~~~~vvDVGGG~G~~~~~l~~~  217 (221)
                      ...+|||||||.|.++..+++.
T Consensus       120 ~~~~vLD~GcG~G~~~~~l~~~  141 (286)
T 3m70_A          120 SPCKVLDLGCGQGRNSLYLSLL  141 (286)
T ss_dssp             CSCEEEEESCTTCHHHHHHHHT
T ss_pred             CCCcEEEECCCCCHHHHHHHHC
Confidence            4679999999999999998876

>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=92.36  E-value=0.13  Score=42.38  Aligned_cols=31  Identities=26%  Similarity=0.059  Sum_probs=23.2

Q ss_pred             HHHHhcCCCCCCCeEEEecCCccHHHHHHHhh
Q 036971          186 KIVESYKGFQNITRLVDVGGGLGITLSDHNFQ  217 (221)
Q Consensus       186 ~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~  217 (221)
                      .+.+... +....+|||||||+|.++..+++.
T Consensus        73 ~i~~~~~-~~~g~~VLDlGcGtG~~s~~la~~  103 (276)
T 2wa2_A           73 WIDERGG-VELKGTVVDLGCGRGSWSYYAASQ  103 (276)
T ss_dssp             HHHHTTS-CCCCEEEEEESCTTCHHHHHHHTS
T ss_pred             HHHHcCC-CCCCCEEEEeccCCCHHHHHHHHc
Confidence            3444422 555679999999999999888764

>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=92.35  E-value=0.084  Score=41.37  Aligned_cols=23  Identities=9%  Similarity=0.111  Sum_probs=21.0

Q ss_pred             CCeEEEecCCccHHHHHHHhhCC
Q 036971          197 ITRLVDVGGGLGITLSDHNFQIP  219 (221)
Q Consensus       197 ~~~vvDVGGG~G~~~~~l~~~~P  219 (221)
                      ..+|||||||.|..+..+++.+|
T Consensus        59 ~~~vLdiG~G~G~~~~~la~~~~   81 (221)
T 3u81_A           59 PSLVLELGAYCGYSAVRMARLLQ   81 (221)
T ss_dssp             CSEEEEECCTTSHHHHHHHTTSC
T ss_pred             CCEEEEECCCCCHHHHHHHHhCC
Confidence            57999999999999999999765

>3r3h_A O-methyltransferase, SAM-dependent; structural genomics, PSI-biology, NEW YORK structural genomi research consortium, nysgrc; 2.65A {Legionella pneumophila subsp}

Probab=92.34  E-value=0.08  Score=42.48  Aligned_cols=23  Identities=13%  Similarity=0.359  Sum_probs=21.4

Q ss_pred             CCeEEEecCCccHHHHHHHhhCC
Q 036971          197 ITRLVDVGGGLGITLSDHNFQIP  219 (221)
Q Consensus       197 ~~~vvDVGGG~G~~~~~l~~~~P  219 (221)
                      .++|||||||.|..+..+++.+|
T Consensus        61 ~~~VLDiG~G~G~~t~~la~~~~   83 (242)
T 3r3h_A           61 AKKVLELGTFTGYSALAMSLALP   83 (242)
T ss_dssp             CSEEEEEESCCSHHHHHHHHTSC
T ss_pred             cCEEEEeeCCcCHHHHHHHHhCC
Confidence            57999999999999999999886

>2oxt_A Nucleoside-2'-O-methyltransferase; flavivirus, viral enzyme, RNA capping, S-adenosyl-L-methionine, viral protein; HET: SAM; 2.90A {Meaban virus}

Probab=92.34  E-value=0.13  Score=42.04  Aligned_cols=24  Identities=25%  Similarity=0.167  Sum_probs=20.3

Q ss_pred             CCCCCeEEEecCCccHHHHHHHhh
Q 036971          194 FQNITRLVDVGGGLGITLSDHNFQ  217 (221)
Q Consensus       194 ~~~~~~vvDVGGG~G~~~~~l~~~  217 (221)
                      +....+|||||||+|.++..+++.
T Consensus        72 ~~~g~~VLDlGcGtG~~s~~la~~   95 (265)
T 2oxt_A           72 VELTGRVVDLGCGRGGWSYYAASR   95 (265)
T ss_dssp             CCCCEEEEEESCTTSHHHHHHHTS
T ss_pred             CCCCCEEEEeCcCCCHHHHHHHHc
Confidence            555679999999999999888764

>4hbl_A Transcriptional regulator, MARR family; HTH, transcription factor, DNA binding; 2.50A {Staphylococcus epidermidis}

Probab=92.34  E-value=0.039  Score=40.57  Aligned_cols=66  Identities=9%  Similarity=0.005  Sum_probs=47.7

Q ss_pred             HhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccC--CCCcceeccccccccc
Q 036971           39 VNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFST--HGVRLYSLAPVAKYYV  112 (221)
Q Consensus        39 v~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~--~~~~~y~lt~~s~~L~  112 (221)
                      .++.|...|...   +++|..+||+.+++ ++.    .+.++++.|...|++++....  ...-.+.+|+.++.+.
T Consensus        42 ~q~~iL~~l~~~---~~~~~~eLa~~l~~-~~~----~vs~~l~~L~~~Glv~r~~~~~D~R~~~~~LT~~G~~~~  109 (149)
T 4hbl_A           42 SQYLVMLTLWEE---NPQTLNSIGRHLDL-SSN----TLTPMLKRLEQSGWVKRERQQSDKRQLIITLTDNGQQQQ  109 (149)
T ss_dssp             HHHHHHHHHHHS---SSEEHHHHHHHHTC-CHH----HHHHHHHHHHHHTSEEC---------CEEEECSHHHHHH
T ss_pred             HHHHHHHHHHHC---CCCCHHHHHHHHCC-CHH----HHHHHHHHHHHCCCEeeCCCCCCcceeeeeECHHHHHHH
Confidence            345567788776   58999999999999 877    999999999999999986211  0112366777666544

>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=92.32  E-value=0.067  Score=42.40  Aligned_cols=23  Identities=17%  Similarity=0.330  Sum_probs=20.0

Q ss_pred             CCCeEEEecCCccHHHHHHHhhC
Q 036971          196 NITRLVDVGGGLGITLSDHNFQI  218 (221)
Q Consensus       196 ~~~~vvDVGGG~G~~~~~l~~~~  218 (221)
                      ...+|||||||.|.++..+++..
T Consensus        79 ~~~~vLDiGcG~G~~~~~l~~~~  101 (241)
T 2ex4_A           79 GTSCALDCGAGIGRITKRLLLPL  101 (241)
T ss_dssp             CCSEEEEETCTTTHHHHHTTTTT
T ss_pred             CCCEEEEECCCCCHHHHHHHHhc
Confidence            46799999999999999987764

>1ixk_A Methyltransferase; open beta sheet; 1.90A {Pyrococcus horikoshii} SCOP: c.66.1.38

Probab=92.32  E-value=0.12  Score=43.19  Aligned_cols=30  Identities=10%  Similarity=-0.082  Sum_probs=24.4

Q ss_pred             HhcCCCCCCCeEEEecCCccHHHHHHHhhCC
Q 036971          189 ESYKGFQNITRLVDVGGGLGITLSDHNFQIP  219 (221)
Q Consensus       189 ~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P  219 (221)
                      ..++ .....+|+|+|||.|..+..+++.++
T Consensus       112 ~~l~-~~~g~~VLDlg~G~G~~t~~la~~~~  141 (315)
T 1ixk_A          112 VALD-PKPGEIVADMAAAPGGKTSYLAQLMR  141 (315)
T ss_dssp             HHHC-CCTTCEEEECCSSCSHHHHHHHHHTT
T ss_pred             HHhC-CCCCCEEEEeCCCCCHHHHHHHHHhC
Confidence            3444 55567999999999999999998765

>3grz_A L11 mtase, ribosomal protein L11 methyltransferase; methylase, SAM-binding domain, PSI-2, nysgxrc; 2.00A {Lactobacillus delbrueckii subsp}

Probab=92.30  E-value=0.14  Score=39.28  Aligned_cols=22  Identities=27%  Similarity=0.277  Sum_probs=19.0

Q ss_pred             CCCeEEEecCCccHHHHHHHhh
Q 036971          196 NITRLVDVGGGLGITLSDHNFQ  217 (221)
Q Consensus       196 ~~~~vvDVGGG~G~~~~~l~~~  217 (221)
                      ...+|+|||||.|.++..+++.
T Consensus        60 ~~~~vLDiG~G~G~~~~~l~~~   81 (205)
T 3grz_A           60 KPLTVADVGTGSGILAIAAHKL   81 (205)
T ss_dssp             SCCEEEEETCTTSHHHHHHHHT
T ss_pred             CCCEEEEECCCCCHHHHHHHHC
Confidence            4579999999999999997763

>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=92.28  E-value=0.06  Score=38.79  Aligned_cols=68  Identities=12%  Similarity=0.093  Sum_probs=49.1

Q ss_pred             HhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCC--CCcceeccccccccc
Q 036971           39 VNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTH--GVRLYSLAPVAKYYV  112 (221)
Q Consensus        39 v~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~--~~~~y~lt~~s~~L~  112 (221)
                      .+..++..|...++ +++|..+||+.+++ ++.    .+.++++.|...|++.+.....  ..-.+.+|+.++.+.
T Consensus        32 ~~~~vL~~l~~~~~-~~~t~~ela~~l~~-~~~----tvs~~l~~Le~~Gli~r~~~~~D~R~~~~~LT~~G~~~~  101 (139)
T 3eco_A           32 EQGHTLGYLYAHQQ-DGLTQNDIAKALQR-TGP----TVSNLLRNLERKKLIYRYVDAQDTRRKNIGLTTSGIKLV  101 (139)
T ss_dssp             HHHHHHHHHHHSTT-TCEEHHHHHHHHTC-CHH----HHHHHHHHHHHTTSEEEEECCC--CCEEEEECHHHHHHH
T ss_pred             HHHHHHHHHHhcCC-CCcCHHHHHHHhCC-Ccc----cHHHHHHHHHHCCCEeecCCCCCCCeeeeEECHHHHHHH
Confidence            34556777777532 38999999999999 877    9999999999999999863110  012356666666544

>2gs9_A Hypothetical protein TT1324; methyl transferase, structural genomics, NPPSFA, national PR protein structural and functional analyses; HET: SAH; 2.60A {Thermus thermophilus}

Probab=92.24  E-value=0.12  Score=39.91  Aligned_cols=26  Identities=23%  Similarity=0.295  Sum_probs=19.1

Q ss_pred             HHHhcCCCCCCCeEEEecCCccHHHHHH
Q 036971          187 IVESYKGFQNITRLVDVGGGLGITLSDH  214 (221)
Q Consensus       187 ~l~~~~~~~~~~~vvDVGGG~G~~~~~l  214 (221)
                      +++.+.  ....+|+|||||.|.++..+
T Consensus        29 ~l~~~~--~~~~~vLdiG~G~G~~~~~l   54 (211)
T 2gs9_A           29 ALKGLL--PPGESLLEVGAGTGYWLRRL   54 (211)
T ss_dssp             HHHTTC--CCCSEEEEETCTTCHHHHHC
T ss_pred             HHHHhc--CCCCeEEEECCCCCHhHHhC
Confidence            455544  25679999999999987654

>2p5v_A Transcriptional regulator, LRP/ASNC family; NMB0573, structu genomics; 1.99A {Neisseria meningitidis} PDB: 2p6s_A 2p6t_A

Probab=92.24  E-value=0.099  Score=39.22  Aligned_cols=47  Identities=17%  Similarity=0.301  Sum_probs=40.9

Q ss_pred             HhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           39 VNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        39 v~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      .+..|.+.|.+.   +++|..|||+++|+ ++.    .+.+.++.|...|++...
T Consensus        11 ~~~~il~~L~~~---~~~s~~ela~~lg~-s~~----tv~~~l~~L~~~G~i~~~   57 (162)
T 2p5v_A           11 TDIKILQVLQEN---GRLTNVELSERVAL-SPS----PCLRRLKQLEDAGIVRQY   57 (162)
T ss_dssp             HHHHHHHHHHHC---TTCCHHHHHHHHTS-CHH----HHHHHHHHHHHTTSEEEE
T ss_pred             HHHHHHHHHHHc---CCCCHHHHHHHHCc-CHH----HHHHHHHHHHHCCCEeee
Confidence            345678888886   58999999999999 877    899999999999999974

>2dbb_A Putative HTH-type transcriptional regulator PH006; ASNC family, helix-turn-helix (HTH) domain, structural genom NPPSFA; 2.00A {Pyrococcus horikoshii}

Probab=92.22  E-value=0.11  Score=38.49  Aligned_cols=47  Identities=19%  Similarity=0.340  Sum_probs=41.1

Q ss_pred             HhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           39 VNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        39 v~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      .+..|...|.+.   +++|..+||+.+|+ ++.    .+.+.++.|...|++...
T Consensus        10 ~d~~il~~L~~~---~~~s~~ela~~lg~-s~~----tv~~~l~~L~~~G~i~~~   56 (151)
T 2dbb_A           10 VDMQLVKILSEN---SRLTYRELADILNT-TRQ----RIARRIDKLKKLGIIRKF   56 (151)
T ss_dssp             HHHHHHHHHHHC---TTCCHHHHHHHTTS-CHH----HHHHHHHHHHHHTSEEEE
T ss_pred             HHHHHHHHHHHc---CCCCHHHHHHHHCc-CHH----HHHHHHHHHHHCCCEEEE
Confidence            455688888886   58999999999999 877    899999999999999864

>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=92.21  E-value=0.2  Score=41.70  Aligned_cols=32  Identities=13%  Similarity=0.128  Sum_probs=24.4

Q ss_pred             HHHHHhcCCCC-CCCeEEEecCCccHHHHHHHhh
Q 036971          185 NKIVESYKGFQ-NITRLVDVGGGLGITLSDHNFQ  217 (221)
Q Consensus       185 ~~~l~~~~~~~-~~~~vvDVGGG~G~~~~~l~~~  217 (221)
                      ..+++.+. .. ...+++|||||+|.++..+++.
T Consensus        74 ~~~l~~~~-~~~~g~~vLDiGcGTG~~t~~L~~~  106 (291)
T 3hp7_A           74 EKALAVFN-LSVEDMITIDIGASTGGFTDVMLQN  106 (291)
T ss_dssp             HHHHHHTT-CCCTTCEEEEETCTTSHHHHHHHHT
T ss_pred             HHHHHhcC-CCccccEEEecCCCccHHHHHHHhC
Confidence            34566666 43 3479999999999999888775

>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=92.18  E-value=0.068  Score=39.46  Aligned_cols=47  Identities=23%  Similarity=0.259  Sum_probs=41.3

Q ss_pred             HhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           39 VNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        39 v~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      .+..|...|.+.   ++++..+||+.+|+ ++.    .+.+.++.|...|++...
T Consensus         4 ~~~~il~~L~~~---~~~~~~ela~~lg~-s~~----tv~~~l~~L~~~G~i~~~   50 (150)
T 2pn6_A            4 IDLRILKILQYN---AKYSLDEIAREIRI-PKA----TLSYRIKKLEKDGVIKGY   50 (150)
T ss_dssp             HHHHHHHHHTTC---TTSCHHHHHHHHTS-CHH----HHHHHHHHHHHTTSSCCC
T ss_pred             HHHHHHHHHHHc---CCCCHHHHHHHHCc-CHH----HHHHHHHHHHHCCcEEEE
Confidence            456788888876   58999999999999 887    999999999999999874

>2o03_A Probable zinc uptake regulation protein FURB; DNA-binding, helix-turn-helix, zinc binding, GE regulation; 2.70A {Mycobacterium tuberculosis}

Probab=92.17  E-value=0.16  Score=36.82  Aligned_cols=61  Identities=13%  Similarity=0.145  Sum_probs=45.3

Q ss_pred             HHHhhChhhHHHhcCCCCCCCHHHHHhhC-----CCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceec
Q 036971           37 AVVNLDVLDIINKAGPGAELSASEIASQI-----PTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSL  104 (221)
Q Consensus        37 ~av~lglfd~L~~~g~~~~~t~~eLA~~~-----g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~l  104 (221)
                      +--+.-|++.|...+  ++.|++||.+.+     ++ +..    -+.|.|+.|+..|++.+....++..+|..
T Consensus        10 T~qR~~Il~~l~~~~--~~~sa~ei~~~l~~~~~~i-s~~----TVYR~L~~L~e~Glv~~~~~~~~~~~y~~   75 (131)
T 2o03_A           10 TRQRAAISTLLETLD--DFRSAQELHDELRRRGENI-GLT----TVYRTLQSMASSGLVDTLHTDTGESVYRR   75 (131)
T ss_dssp             HHHHHHHHHHHHHCC--SCEEHHHHHHHHHHTTCCC-CHH----HHHHHHHHHHTTTSEEEEECTTSCEEEEE
T ss_pred             CHHHHHHHHHHHhCC--CCCCHHHHHHHHHHhCCCC-CHh----hHHHHHHHHHHCCCEEEEEeCCCceEEEe
Confidence            445667888888764  689999999998     55 444    79999999999999998743212335654

>3h2b_A SAM-dependent methyltransferase; alpha-beta protein, structural genomics, PSI-2, protein structure initiative; HET: SAH; 2.00A {Corynebacterium glutamicum atcc 13032}

Probab=92.13  E-value=0.08  Score=40.60  Aligned_cols=22  Identities=23%  Similarity=0.111  Sum_probs=19.3

Q ss_pred             CCeEEEecCCccHHHHHHHhhC
Q 036971          197 ITRLVDVGGGLGITLSDHNFQI  218 (221)
Q Consensus       197 ~~~vvDVGGG~G~~~~~l~~~~  218 (221)
                      ..+|||||||.|.++..+++..
T Consensus        42 ~~~vLDiGcG~G~~~~~l~~~~   63 (203)
T 3h2b_A           42 DGVILDVGSGTGRWTGHLASLG   63 (203)
T ss_dssp             CSCEEEETCTTCHHHHHHHHTT
T ss_pred             CCeEEEecCCCCHHHHHHHhcC
Confidence            4689999999999999998763

>2hnk_A SAM-dependent O-methyltransferase; modified rossman fold; HET: SAH; 2.30A {Leptospira interrogans}

Probab=92.12  E-value=0.1  Score=41.45  Aligned_cols=23  Identities=17%  Similarity=0.316  Sum_probs=21.3

Q ss_pred             CCeEEEecCCccHHHHHHHhhCC
Q 036971          197 ITRLVDVGGGLGITLSDHNFQIP  219 (221)
Q Consensus       197 ~~~vvDVGGG~G~~~~~l~~~~P  219 (221)
                      ..+|||||||.|..+..+++.+|
T Consensus        61 ~~~VLdiG~G~G~~~~~la~~~~   83 (239)
T 2hnk_A           61 AKRIIEIGTFTGYSSLCFASALP   83 (239)
T ss_dssp             CSEEEEECCTTCHHHHHHHHHSC
T ss_pred             cCEEEEEeCCCCHHHHHHHHhCC
Confidence            57999999999999999999876

>3m33_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, MCSG, midwest center for structural genomics; 2.19A {Deinococcus radiodurans}

Probab=91.98  E-value=0.089  Score=41.36  Aligned_cols=22  Identities=27%  Similarity=0.348  Sum_probs=19.4

Q ss_pred             CCCeEEEecCCccHHHHHHHhh
Q 036971          196 NITRLVDVGGGLGITLSDHNFQ  217 (221)
Q Consensus       196 ~~~~vvDVGGG~G~~~~~l~~~  217 (221)
                      ...+|||||||.|.++..+++.
T Consensus        48 ~~~~vLDiGcG~G~~~~~l~~~   69 (226)
T 3m33_A           48 PQTRVLEAGCGHGPDAARFGPQ   69 (226)
T ss_dssp             TTCEEEEESCTTSHHHHHHGGG
T ss_pred             CCCeEEEeCCCCCHHHHHHHHc
Confidence            4579999999999999998875

>3l8d_A Methyltransferase; structural genomics, PSI, nysgrc, protein structure initiative, NEW YORK SGX research center for STRU genomics; 1.70A {Bacillus thuringiensis}

Probab=91.94  E-value=0.11  Score=40.96  Aligned_cols=22  Identities=23%  Similarity=0.243  Sum_probs=19.7

Q ss_pred             CCCeEEEecCCccHHHHHHHhh
Q 036971          196 NITRLVDVGGGLGITLSDHNFQ  217 (221)
Q Consensus       196 ~~~~vvDVGGG~G~~~~~l~~~  217 (221)
                      ...+|||||||.|.++..+++.
T Consensus        53 ~~~~vLDiG~G~G~~~~~l~~~   74 (242)
T 3l8d_A           53 KEAEVLDVGCGDGYGTYKLSRT   74 (242)
T ss_dssp             TTCEEEEETCTTSHHHHHHHHT
T ss_pred             CCCeEEEEcCCCCHHHHHHHHc
Confidence            4579999999999999999876

>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=91.90  E-value=0.1  Score=41.93  Aligned_cols=23  Identities=22%  Similarity=0.371  Sum_probs=21.6

Q ss_pred             CCeEEEecCCccHHHHHHHhhCC
Q 036971          197 ITRLVDVGGGLGITLSDHNFQIP  219 (221)
Q Consensus       197 ~~~vvDVGGG~G~~~~~l~~~~P  219 (221)
                      .++|||||||.|..+..+++.+|
T Consensus        80 ~~~VLeiG~G~G~~~~~la~~~~  102 (247)
T 1sui_A           80 AKNTMEIGVYTGYSLLATALAIP  102 (247)
T ss_dssp             CCEEEEECCGGGHHHHHHHHHSC
T ss_pred             cCEEEEeCCCcCHHHHHHHHhCC
Confidence            57999999999999999999987

>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=91.89  E-value=0.066  Score=35.35  Aligned_cols=50  Identities=18%  Similarity=0.303  Sum_probs=37.9

Q ss_pred             hhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           40 NLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        40 ~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      +..|.+.|...   +++|+.||++.++. ++.-+..-+.++|+.|...|++.+.
T Consensus        11 e~~vL~~L~~~---~~~t~~ei~~~l~~-~~~~s~~Tv~~~l~rL~~kGlv~r~   60 (82)
T 1p6r_A           11 ELEVMKVIWKH---SSINTNEVIKELSK-TSTWSPKTIQTMLLRLIKKGALNHH   60 (82)
T ss_dssp             HHHHHHHHHTS---SSEEHHHHHHHHHH-HSCCCHHHHHHHHHHHHHTTSEEEE
T ss_pred             HHHHHHHHHcC---CCCCHHHHHHHHhh-cCCccHHHHHHHHHHHHHCCCeEEE
Confidence            45566777764   58999999999974 2111123899999999999999987

>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=91.89  E-value=0.054  Score=38.91  Aligned_cols=67  Identities=10%  Similarity=0.106  Sum_probs=47.8

Q ss_pred             hhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccC--CCCcceeccccccccc
Q 036971           40 NLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFST--HGVRLYSLAPVAKYYV  112 (221)
Q Consensus        40 ~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~--~~~~~y~lt~~s~~L~  112 (221)
                      +..+...|....+ +++|..+||+.+++ ++.    .+.++++.|...|++.+....  ...-.+.+|+.++.+.
T Consensus        39 q~~vL~~l~~~~~-~~~t~~eLa~~l~~-~~~----tvs~~l~~Le~~Glv~r~~~~~D~R~~~i~LT~~G~~~~  107 (127)
T 2frh_A           39 EFAVLTYISENKE-KEYYLKDIINHLNY-KQP----QVVKAVKILSQEDYFDKKRNEHDERTVLILVNAQQRKKI  107 (127)
T ss_dssp             HHHHHHHHHHTCC-SEEEHHHHHHHSSS-HHH----HHHHHHHHHHHTTSSCCBCCSSSSCCCEEECCSHHHHHH
T ss_pred             HHHHHHHHHhccC-CCcCHHHHHHHHCC-CHH----HHHHHHHHHHHCCCEEecCCCCCCCeeEEEECHHHHHHH
Confidence            3446666766521 37999999999999 776    999999999999999985211  0122366777766554

>2fbk_A Transcriptional regulator, MARR family; winged-helix-turn-helix; 2.30A {Deinococcus radiodurans} SCOP: a.4.5.28

Probab=91.82  E-value=0.066  Score=40.75  Aligned_cols=68  Identities=13%  Similarity=0.150  Sum_probs=47.6

Q ss_pred             hhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccC--CCCcceeccccccccc
Q 036971           40 NLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFST--HGVRLYSLAPVAKYYV  112 (221)
Q Consensus        40 ~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~--~~~~~y~lt~~s~~L~  112 (221)
                      ++.|+..|...++.+++|..+||+.+++ ++.    .+.++++.|...|++.+....  ...-.+.+|+.++.+.
T Consensus        71 ~~~iL~~L~~~~~~~~~t~~eLa~~l~i-s~~----tvs~~l~~Le~~GlV~r~~~~~DrR~~~~~LT~~G~~~~  140 (181)
T 2fbk_A           71 GWDLLLTLYRSAPPEGLRPTELSALAAI-SGP----STSNRIVRLLEKGLIERREDERDRRSASIRLTPQGRALV  140 (181)
T ss_dssp             HHHHHHHHHHHCCSSCBCHHHHHHHCSC-CSG----GGSSHHHHHHHHTSEECCC-------CCBEECHHHHHHH
T ss_pred             HHHHHHHHHHcCCCCCCCHHHHHHHHCC-CHH----HHHHHHHHHHHCcCEEecCCCCCCCeeEEEECHHHHHHH
Confidence            4557888887641013999999999999 887    999999999999999985210  0011366666665444

>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=91.80  E-value=0.19  Score=38.58  Aligned_cols=23  Identities=17%  Similarity=0.174  Sum_probs=20.0

Q ss_pred             CCCeEEEecCCccHHHHHHHhhC
Q 036971          196 NITRLVDVGGGLGITLSDHNFQI  218 (221)
Q Consensus       196 ~~~~vvDVGGG~G~~~~~l~~~~  218 (221)
                      ...+|+|||||.|.++..+++..
T Consensus        49 ~~~~vlD~g~G~G~~~~~l~~~~   71 (207)
T 1wy7_A           49 EGKVVADLGAGTGVLSYGALLLG   71 (207)
T ss_dssp             TTCEEEEETCTTCHHHHHHHHTT
T ss_pred             CcCEEEEeeCCCCHHHHHHHHcC
Confidence            45799999999999999998764

>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=91.75  E-value=0.065  Score=42.04  Aligned_cols=65  Identities=17%  Similarity=-0.067  Sum_probs=49.0

Q ss_pred             hhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccC--CCCcceeccccccccc
Q 036971           40 NLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFST--HGVRLYSLAPVAKYYV  112 (221)
Q Consensus        40 ~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~--~~~~~y~lt~~s~~L~  112 (221)
                      +..|...|...   +++|..+||+.+++ ++.    .+.++++.|...|++.+....  ...-.+.+|+.++.+.
T Consensus        50 q~~iL~~L~~~---~~~t~~eLa~~l~i-~~s----tvs~~l~~Le~~GlV~r~~~~~DrR~~~l~LT~~G~~~~  116 (207)
T 2fxa_A           50 EHHILWIAYQL---NGASISEIAKFGVM-HVS----TAFNFSKKLEERGYLRFSKRLNDKRNTYVQLTEEGTEVF  116 (207)
T ss_dssp             HHHHHHHHHHH---TSEEHHHHHHHTTC-CHH----HHHHHHHHHHHHTSEEEECC------CEEEECHHHHHHH
T ss_pred             HHHHHHHHHHC---CCcCHHHHHHHHCC-CHH----HHHHHHHHHHHCCCEEEecCCCCCceEEEEECHHHHHHH
Confidence            34467777776   48999999999999 877    999999999999999986311  0012577888877554

>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=91.69  E-value=0.1  Score=43.40  Aligned_cols=25  Identities=24%  Similarity=0.248  Sum_probs=21.7

Q ss_pred             CCCCeEEEecCCccHHHHHHHhhCC
Q 036971          195 QNITRLVDVGGGLGITLSDHNFQIP  219 (221)
Q Consensus       195 ~~~~~vvDVGGG~G~~~~~l~~~~P  219 (221)
                      ....+|+|||||.|..+..+++..|
T Consensus        94 ~~~~~VLdiG~G~G~~~~~l~~~~~  118 (304)
T 3bwc_A           94 PKPERVLIIGGGDGGVLREVLRHGT  118 (304)
T ss_dssp             SSCCEEEEEECTTSHHHHHHHTCTT
T ss_pred             CCCCeEEEEcCCCCHHHHHHHhCCC
Confidence            3468999999999999999998755

>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=91.63  E-value=0.19  Score=42.04  Aligned_cols=33  Identities=15%  Similarity=0.130  Sum_probs=26.0

Q ss_pred             HHHHHhcCCCCCCCeEEEecCCccHHHHHHHhhC
Q 036971          185 NKIVESYKGFQNITRLVDVGGGLGITLSDHNFQI  218 (221)
Q Consensus       185 ~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~  218 (221)
                      ..++..++ .....+|||||||+|.++..+++..
T Consensus        95 ~~~l~~l~-~~~g~~VLDiG~G~G~~~~~la~~~  127 (336)
T 2b25_A           95 NMILSMMD-INPGDTVLEAGSGSGGMSLFLSKAV  127 (336)
T ss_dssp             HHHHHHHT-CCTTCEEEEECCTTSHHHHHHHHHH
T ss_pred             HHHHHhcC-CCCCCEEEEeCCCcCHHHHHHHHHh
Confidence            34555555 5567899999999999999999873

>3bzb_A Uncharacterized protein; RED ALGA, protein structure initiat center for eukaryotic structural genomics, CESG, structural genomics; 2.79A {Cyanidioschyzon merolae}

Probab=91.60  E-value=0.16  Score=41.64  Aligned_cols=23  Identities=13%  Similarity=0.146  Sum_probs=19.5

Q ss_pred             CCCeEEEecCCccHHHHHHHhhC
Q 036971          196 NITRLVDVGGGLGITLSDHNFQI  218 (221)
Q Consensus       196 ~~~~vvDVGGG~G~~~~~l~~~~  218 (221)
                      ...+|+|||||+|.++..+++..
T Consensus        79 ~~~~vLDlG~G~G~~~~~~a~~~  101 (281)
T 3bzb_A           79 AGKTVCELGAGAGLVSIVAFLAG  101 (281)
T ss_dssp             TTCEEEETTCTTSHHHHHHHHTT
T ss_pred             CCCeEEEecccccHHHHHHHHcC
Confidence            45799999999999999887753

>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=91.59  E-value=0.13  Score=40.98  Aligned_cols=21  Identities=19%  Similarity=0.028  Sum_probs=19.2

Q ss_pred             CCeEEEecCCccHHHHHHHhh
Q 036971          197 ITRLVDVGGGLGITLSDHNFQ  217 (221)
Q Consensus       197 ~~~vvDVGGG~G~~~~~l~~~  217 (221)
                      ..+|||||||+|..+..+++.
T Consensus        82 ~~~VLDiG~GtG~~t~~la~~  102 (236)
T 2bm8_A           82 PRTIVELGVYNGGSLAWFRDL  102 (236)
T ss_dssp             CSEEEEECCTTSHHHHHHHHH
T ss_pred             CCEEEEEeCCCCHHHHHHHHh
Confidence            469999999999999999886

>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=91.56  E-value=0.097  Score=42.13  Aligned_cols=31  Identities=16%  Similarity=0.144  Sum_probs=24.4

Q ss_pred             HHHhcCC--CCCCCeEEEecCCccHHHHHHHhh
Q 036971          187 IVESYKG--FQNITRLVDVGGGLGITLSDHNFQ  217 (221)
Q Consensus       187 ~l~~~~~--~~~~~~vvDVGGG~G~~~~~l~~~  217 (221)
                      +++.++.  .+...+|+|||||+|.++..+++.
T Consensus        66 i~~gl~~l~ikpG~~VldlG~G~G~~~~~la~~   98 (233)
T 4df3_A           66 LLKGLIELPVKEGDRILYLGIASGTTASHMSDI   98 (233)
T ss_dssp             HHTTCSCCCCCTTCEEEEETCTTSHHHHHHHHH
T ss_pred             HHhchhhcCCCCCCEEEEecCcCCHHHHHHHHH
Confidence            4444432  677789999999999999999875

>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=91.53  E-value=0.11  Score=38.55  Aligned_cols=47  Identities=17%  Similarity=0.264  Sum_probs=41.0

Q ss_pred             HhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           39 VNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        39 v~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      .+..|...|.+.   +++|..+||+++|+ ++.    .+.+.++.|...|++...
T Consensus         9 ~d~~il~~L~~~---~~~s~~ela~~lg~-s~~----tv~~~l~~L~~~G~i~~~   55 (152)
T 2cg4_A            9 LDRGILEALMGN---ARTAYAELAKQFGV-SPE----TIHVRVEKMKQAGIITGA   55 (152)
T ss_dssp             HHHHHHHHHHHC---TTSCHHHHHHHHTS-CHH----HHHHHHHHHHHHTSEEEE
T ss_pred             HHHHHHHHHHHc---CCCCHHHHHHHHCc-CHH----HHHHHHHHHHHcCCcceE
Confidence            355678888886   58999999999999 887    999999999999999974

>2ia0_A Putative HTH-type transcriptional regulator PF086; ASNC, PSI, structural genomics, southeast collaboratory for structural genomics; 2.37A {Pyrococcus furiosus}

Probab=91.51  E-value=0.13  Score=39.12  Aligned_cols=47  Identities=17%  Similarity=0.264  Sum_probs=41.1

Q ss_pred             HhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           39 VNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        39 v~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      .+..|...|..+   +++|..+||+.+|+ ++.    .+.+.++.|...|++...
T Consensus        18 ~d~~IL~~L~~~---~~~s~~eLA~~lgl-S~~----tv~~~l~~L~~~G~I~~~   64 (171)
T 2ia0_A           18 LDRNILRLLKKD---ARLTISELSEQLKK-PES----TIHFRIKKLQERGVIERY   64 (171)
T ss_dssp             HHHHHHHHHHHC---TTCCHHHHHHHHTS-CHH----HHHHHHHHHHHTTSEEEE
T ss_pred             HHHHHHHHHHHc---CCCCHHHHHHHHCc-CHH----HHHHHHHHHHHCCCEEee
Confidence            455678889886   58999999999999 877    999999999999999864

>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=91.48  E-value=0.12  Score=39.99  Aligned_cols=22  Identities=14%  Similarity=-0.096  Sum_probs=18.8

Q ss_pred             CCeEEEecCCccHHHHHHHhhC
Q 036971          197 ITRLVDVGGGLGITLSDHNFQI  218 (221)
Q Consensus       197 ~~~vvDVGGG~G~~~~~l~~~~  218 (221)
                      ..+|||+|||+|.++..+++..
T Consensus        54 ~~~vLDlGcGtG~~~~~~~~~~   75 (201)
T 2ift_A           54 QSECLDGFAGSGSLGFEALSRQ   75 (201)
T ss_dssp             TCEEEETTCTTCHHHHHHHHTT
T ss_pred             CCeEEEcCCccCHHHHHHHHcc
Confidence            4689999999999999877654

>3cbg_A O-methyltransferase; cyanobacterium; HET: SAH FER 4FE; 2.00A {Synechocystis SP}

Probab=91.44  E-value=0.12  Score=40.90  Aligned_cols=23  Identities=17%  Similarity=0.340  Sum_probs=21.3

Q ss_pred             CCeEEEecCCccHHHHHHHhhCC
Q 036971          197 ITRLVDVGGGLGITLSDHNFQIP  219 (221)
Q Consensus       197 ~~~vvDVGGG~G~~~~~l~~~~P  219 (221)
                      ..+|||||||.|..+..+++.+|
T Consensus        73 ~~~vLdiG~G~G~~~~~la~~~~   95 (232)
T 3cbg_A           73 AKQVLEIGVFRGYSALAMALQLP   95 (232)
T ss_dssp             CCEEEEECCTTSHHHHHHHTTSC
T ss_pred             CCEEEEecCCCCHHHHHHHHhCC
Confidence            57999999999999999999887

>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=91.41  E-value=0.21  Score=42.89  Aligned_cols=32  Identities=13%  Similarity=-0.024  Sum_probs=24.2

Q ss_pred             HHHHhcCCCCCCCeEEEecCCccHHHHHHHhhC
Q 036971          186 KIVESYKGFQNITRLVDVGGGLGITLSDHNFQI  218 (221)
Q Consensus       186 ~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~  218 (221)
                      .+++.++ .....+|+|+|||+|.++..+++++
T Consensus        30 ~~~~~~~-~~~~~~vLD~gcGtG~~~~~~~~~~   61 (421)
T 2ih2_A           30 FMVSLAE-APRGGRVLEPACAHGPFLRAFREAH   61 (421)
T ss_dssp             HHHHHCC-CCTTCEEEEETCTTCHHHHHHHHHH
T ss_pred             HHHHhhc-cCCCCEEEECCCCChHHHHHHHHHh
Confidence            3444554 3345699999999999999999865

>3p9n_A Possible methyltransferase (methylase); RV2966C, adoMet binding, RNA methylase, RSMD, SAM-fold, RNA methyltransferase; 1.90A {Mycobacterium tuberculosis}

Probab=91.34  E-value=0.13  Score=39.17  Aligned_cols=21  Identities=14%  Similarity=0.007  Sum_probs=18.3

Q ss_pred             CCeEEEecCCccHHHHHHHhh
Q 036971          197 ITRLVDVGGGLGITLSDHNFQ  217 (221)
Q Consensus       197 ~~~vvDVGGG~G~~~~~l~~~  217 (221)
                      ..+|+|+|||+|.++..+++.
T Consensus        45 ~~~vLDlgcG~G~~~~~~~~~   65 (189)
T 3p9n_A           45 GLAVLDLYAGSGALGLEALSR   65 (189)
T ss_dssp             TCEEEEETCTTCHHHHHHHHT
T ss_pred             CCEEEEeCCCcCHHHHHHHHC
Confidence            579999999999999987764

>3q7e_A Protein arginine N-methyltransferase 1; HET: SAH; 2.20A {Rattus norvegicus} PDB: 1orh_A* 1ori_A* 1or8_A*

Probab=91.33  E-value=0.12  Score=43.76  Aligned_cols=21  Identities=29%  Similarity=0.249  Sum_probs=19.2

Q ss_pred             CCeEEEecCCccHHHHHHHhh
Q 036971          197 ITRLVDVGGGLGITLSDHNFQ  217 (221)
Q Consensus       197 ~~~vvDVGGG~G~~~~~l~~~  217 (221)
                      ..+|||||||.|.++..++++
T Consensus        67 ~~~VLDvGcG~G~~~~~la~~   87 (349)
T 3q7e_A           67 DKVVLDVGSGTGILCMFAAKA   87 (349)
T ss_dssp             TCEEEEESCTTSHHHHHHHHT
T ss_pred             CCEEEEEeccchHHHHHHHHC
Confidence            579999999999999998876

>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=91.27  E-value=0.099  Score=43.66  Aligned_cols=24  Identities=21%  Similarity=0.043  Sum_probs=20.6

Q ss_pred             CCCCCeEEEecCCccHHHHHHHhh
Q 036971          194 FQNITRLVDVGGGLGITLSDHNFQ  217 (221)
Q Consensus       194 ~~~~~~vvDVGGG~G~~~~~l~~~  217 (221)
                      +....+|||||||+|.++..+++.
T Consensus        80 ~~~g~~VLDlGcG~G~~s~~la~~  103 (305)
T 2p41_A           80 VTPEGKVVDLGCGRGGWSYYCGGL  103 (305)
T ss_dssp             SCCCEEEEEETCTTSHHHHHHHTS
T ss_pred             CCCCCEEEEEcCCCCHHHHHHHhc
Confidence            455679999999999999988875

>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=91.25  E-value=0.2  Score=46.66  Aligned_cols=49  Identities=16%  Similarity=0.283  Sum_probs=32.6

Q ss_pred             hhhhhccCchHHHHHHHHHhhhhHHHHHHHHHhcCCCCCCCeEEEecCCccHHHHH
Q 036971          158 FYDYLGTDSRFNEVFNNGMIGQTSFVINKIVESYKGFQNITRLVDVGGGLGITLSD  213 (221)
Q Consensus       158 ~~~~l~~~p~~~~~F~~aM~~~~~~~~~~~l~~~~~~~~~~~vvDVGGG~G~~~~~  213 (221)
                      .||.+.+++-+.+.|.+|+...       +.+.++.-...+.|+|||||+|.++..
T Consensus       378 tYe~fekD~vRy~~Y~~AI~~a-------l~d~~~~~~~~~VVldVGaGtGpLs~~  426 (745)
T 3ua3_A          378 VYNTFEQDQIKYDVYGEAVVGA-------LKDLGADGRKTVVIYLLGGGRGPIGTK  426 (745)
T ss_dssp             HHHHHHHCHHHHHHHHHHHHHH-------HHHHHTTCCSEEEEEEESCTTCHHHHH
T ss_pred             HHHHHcCChhhHHHHHHHHHHH-------HHHhhcccCCCcEEEEECCCCCHHHHH
Confidence            5777778888888888887542       111222011246899999999999754

>1uly_A Hypothetical protein PH1932; helix-turn-helix, structural genomics, DNA binding protein; 2.50A {Pyrococcus horikoshii} SCOP: a.4.5.58 PDB: 2cwe_A

Probab=91.24  E-value=0.16  Score=39.51  Aligned_cols=51  Identities=12%  Similarity=0.247  Sum_probs=43.2

Q ss_pred             HHHHHHhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           34 VFQAVVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        34 aL~~av~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      ++....+..|...|.+    +++|..+||+.+|+ ++.    .+.+.++.|...|++...
T Consensus        16 ~l~d~~~~~IL~~L~~----~~~s~~eLA~~lgl-S~s----tv~~~l~~Le~~GlI~~~   66 (192)
T 1uly_A           16 VMLEDTRRKILKLLRN----KEMTISQLSEILGK-TPQ----TIYHHIEKLKEAGLVEVK   66 (192)
T ss_dssp             HHHSHHHHHHHHHHTT----CCBCHHHHHHHHTC-CHH----HHHHHHHHHHHTTSEEEE
T ss_pred             HhCCHHHHHHHHHHHc----CCCCHHHHHHHHCc-CHH----HHHHHHHHHHHCCCEEEE
Confidence            3344566778888884    58999999999999 877    999999999999999986

>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=91.19  E-value=0.16  Score=34.68  Aligned_cols=47  Identities=17%  Similarity=0.181  Sum_probs=38.4

Q ss_pred             hChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           41 LDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        41 lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      +.|+..|..+|. .+++..+||+++++ +..    -+.++|+.|...|++.+.
T Consensus        23 ~~Vl~~I~~~g~-~gi~qkeLa~~~~l-~~~----tvt~iLk~LE~kglIkr~   69 (91)
T 2dk5_A           23 KLVYQIIEDAGN-KGIWSRDVRYKSNL-PLT----EINKILKNLESKKLIKAV   69 (91)
T ss_dssp             HHHHHHHHHHCT-TCEEHHHHHHHTTC-CHH----HHHHHHHHHHHTTSEEEE
T ss_pred             HHHHHHHHHcCC-CCcCHHHHHHHHCC-CHH----HHHHHHHHHHHCCCEEEe
Confidence            345556666432 37999999999999 877    899999999999999965

>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=91.18  E-value=0.07  Score=44.07  Aligned_cols=27  Identities=15%  Similarity=0.053  Sum_probs=21.6

Q ss_pred             CCCCCeEEEecCCccHHHHHHH-hhCCC
Q 036971          194 FQNITRLVDVGGGLGITLSDHN-FQIPS  220 (221)
Q Consensus       194 ~~~~~~vvDVGGG~G~~~~~l~-~~~P~  220 (221)
                      .....+|+|||||.|.++..++ +.+|+
T Consensus       116 l~~~~~vLDiGcG~G~~~~~la~~~~~~  143 (305)
T 3ocj_A          116 LRPGCVVASVPCGWMSELLALDYSACPG  143 (305)
T ss_dssp             CCTTCEEEETTCTTCHHHHTSCCTTCTT
T ss_pred             CCCCCEEEEecCCCCHHHHHHHHhcCCC
Confidence            3456899999999999999885 55654

>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=91.18  E-value=0.46  Score=39.57  Aligned_cols=27  Identities=22%  Similarity=0.102  Sum_probs=20.8

Q ss_pred             CCCCCeEEEecCCccHHHHHHHhhCCC
Q 036971          194 FQNITRLVDVGGGLGITLSDHNFQIPS  220 (221)
Q Consensus       194 ~~~~~~vvDVGGG~G~~~~~l~~~~P~  220 (221)
                      .....+|+|||||.|.++..++.+.|+
T Consensus       120 l~~g~rVLDIGcG~G~~ta~~lA~~~g  146 (298)
T 3fpf_A          120 FRRGERAVFIGGGPLPLTGILLSHVYG  146 (298)
T ss_dssp             CCTTCEEEEECCCSSCHHHHHHHHTTC
T ss_pred             CCCcCEEEEECCCccHHHHHHHHHccC
Confidence            566789999999999877666555553

>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=91.16  E-value=0.19  Score=46.37  Aligned_cols=51  Identities=14%  Similarity=0.217  Sum_probs=34.1

Q ss_pred             hhhhhccCchHHHHHHHHHhhhhHHHHHHHHHhcCC---CCCCCeEEEecCCccHHHHHHH
Q 036971          158 FYDYLGTDSRFNEVFNNGMIGQTSFVINKIVESYKG---FQNITRLVDVGGGLGITLSDHN  215 (221)
Q Consensus       158 ~~~~l~~~p~~~~~F~~aM~~~~~~~~~~~l~~~~~---~~~~~~vvDVGGG~G~~~~~l~  215 (221)
                      .||.++++|-+.+.|.+|+..       .+.+..+.   -.....|+|||+|+|.+....+
T Consensus       323 tYevFEkD~vKy~~Ye~AI~~-------Al~d~~~~~~~~~~~~vVldVGaGrGpLv~~al  376 (637)
T 4gqb_A          323 TYEVFEKDPIKYSQYQQAIYK-------CLLDRVPEEEKDTNVQVLMVLGAGRGPLVNASL  376 (637)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH-------HHHHHSCGGGTTTCEEEEEEESCTTSHHHHHHH
T ss_pred             hhhhhcCChhhHHHHHHHHHH-------HHHHhhhhccccCCCcEEEEECCCCcHHHHHHH
Confidence            578888888888888888753       12222210   2234689999999999854443

>2d1h_A ST1889, 109AA long hypothetical transcriptional regulator; helix-turn-helix, intermolecular and intramolecular S-S bond structural genomics; 2.05A {Sulfolobus tokodaii} SCOP: a.4.5.50

Probab=91.12  E-value=0.14  Score=35.00  Aligned_cols=35  Identities=11%  Similarity=0.278  Sum_probs=32.9

Q ss_pred             CCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           54 AELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        54 ~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      +++|..|||+.+|+ ++.    .+.+.|+.|...|++...
T Consensus        35 ~~~t~~ela~~l~i-s~~----tv~~~l~~L~~~g~v~~~   69 (109)
T 2d1h_A           35 KPITSEELADIFKL-SKT----TVENSLKKLIELGLVVRT   69 (109)
T ss_dssp             SCEEHHHHHHHHTC-CHH----HHHHHHHHHHHTTSEEEE
T ss_pred             CCCCHHHHHHHHCc-CHH----HHHHHHHHHHHCCCeEee
Confidence            58999999999999 777    899999999999999986

>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=91.08  E-value=0.12  Score=43.88  Aligned_cols=26  Identities=23%  Similarity=0.328  Sum_probs=22.3

Q ss_pred             CCCCeEEEecCCccHHHHHHHhhCCC
Q 036971          195 QNITRLVDVGGGLGITLSDHNFQIPS  220 (221)
Q Consensus       195 ~~~~~vvDVGGG~G~~~~~l~~~~P~  220 (221)
                      ...++|+|||||.|..+..+++..|.
T Consensus       119 ~~~~~VLdIG~G~G~~a~~la~~~~~  144 (334)
T 1xj5_A          119 PNPKKVLVIGGGDGGVLREVARHASI  144 (334)
T ss_dssp             SCCCEEEEETCSSSHHHHHHTTCTTC
T ss_pred             CCCCEEEEECCCccHHHHHHHHcCCC
Confidence            35689999999999999999987653

>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=91.02  E-value=0.11  Score=42.56  Aligned_cols=24  Identities=25%  Similarity=0.273  Sum_probs=21.1

Q ss_pred             CCCeEEEecCCccHHHHHHHhhCC
Q 036971          196 NITRLVDVGGGLGITLSDHNFQIP  219 (221)
Q Consensus       196 ~~~~vvDVGGG~G~~~~~l~~~~P  219 (221)
                      ..++|+|||||.|..+.++++.+|
T Consensus        75 ~~~~VLdiG~G~G~~~~~l~~~~~   98 (275)
T 1iy9_A           75 NPEHVLVVGGGDGGVIREILKHPS   98 (275)
T ss_dssp             SCCEEEEESCTTCHHHHHHTTCTT
T ss_pred             CCCEEEEECCchHHHHHHHHhCCC
Confidence            368999999999999999988755

>2pbf_A Protein-L-isoaspartate O-methyltransferase beta-A methyltransferase; protein repair, isoaspartyl formation, P. falciparum; HET: SAH; 2.00A {Plasmodium falciparum}

Probab=90.97  E-value=0.27  Score=38.36  Aligned_cols=25  Identities=24%  Similarity=0.378  Sum_probs=21.5

Q ss_pred             CCCCCeEEEecCCccHHHHHHHhhC
Q 036971          194 FQNITRLVDVGGGLGITLSDHNFQI  218 (221)
Q Consensus       194 ~~~~~~vvDVGGG~G~~~~~l~~~~  218 (221)
                      .....+|+|||||.|.++..+++..
T Consensus        78 ~~~~~~VLdiG~G~G~~~~~la~~~  102 (227)
T 2pbf_A           78 LKPGSRAIDVGSGSGYLTVCMAIKM  102 (227)
T ss_dssp             SCTTCEEEEESCTTSHHHHHHHHHT
T ss_pred             CCCCCEEEEECCCCCHHHHHHHHHh
Confidence            4456799999999999999999876

>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=90.96  E-value=0.097  Score=38.78  Aligned_cols=47  Identities=9%  Similarity=0.133  Sum_probs=40.9

Q ss_pred             HhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           39 VNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        39 v~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      .+..|.+.|.+.   ++.|..+||+.+|+ ++.    .+.+.++.|...|++...
T Consensus         8 ~~~~il~~L~~~---~~~s~~ela~~lg~-s~~----tv~~~l~~L~~~G~i~~~   54 (151)
T 2cyy_A            8 IDKKIIKILQND---GKAPLREISKITGL-AES----TIHERIRKLRESGVIKKF   54 (151)
T ss_dssp             HHHHHHHHHHHC---TTCCHHHHHHHHCS-CHH----HHHHHHHHHHHHTSSCCC
T ss_pred             HHHHHHHHHHHc---CCCCHHHHHHHHCc-CHH----HHHHHHHHHHHCCCeEEE
Confidence            355678888886   58999999999999 877    999999999999999874

>3lcc_A Putative methyl chloride transferase; halide methyltransferase; HET: SAH; 1.80A {Arabidopsis thaliana}

Probab=90.92  E-value=0.13  Score=40.38  Aligned_cols=28  Identities=18%  Similarity=0.171  Sum_probs=20.9

Q ss_pred             HHHhcCCCCCCCeEEEecCCccHHHHHHHh
Q 036971          187 IVESYKGFQNITRLVDVGGGLGITLSDHNF  216 (221)
Q Consensus       187 ~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~  216 (221)
                      ++.... ++. .+|||||||.|.++..+++
T Consensus        59 ~~~~~~-~~~-~~vLDiGcG~G~~~~~l~~   86 (235)
T 3lcc_A           59 LVDTSS-LPL-GRALVPGCGGGHDVVAMAS   86 (235)
T ss_dssp             HHHTTC-SCC-EEEEEETCTTCHHHHHHCB
T ss_pred             HHHhcC-CCC-CCEEEeCCCCCHHHHHHHh
Confidence            344444 444 5999999999999998865

>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=90.89  E-value=0.13  Score=41.70  Aligned_cols=22  Identities=14%  Similarity=-0.115  Sum_probs=19.3

Q ss_pred             CCCeEEEecCCccHHHHHHHhh
Q 036971          196 NITRLVDVGGGLGITLSDHNFQ  217 (221)
Q Consensus       196 ~~~~vvDVGGG~G~~~~~l~~~  217 (221)
                      ...+|+|||||.|..+..|++.
T Consensus        68 ~~~~vLD~GCG~G~~~~~La~~   89 (252)
T 2gb4_A           68 SGLRVFFPLCGKAIEMKWFADR   89 (252)
T ss_dssp             CSCEEEETTCTTCTHHHHHHHT
T ss_pred             CCCeEEEeCCCCcHHHHHHHHC
Confidence            4579999999999999998875

>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=90.87  E-value=0.19  Score=39.42  Aligned_cols=25  Identities=28%  Similarity=0.353  Sum_probs=20.8

Q ss_pred             CCCCCeEEEecCCccHHHHHHHhhC
Q 036971          194 FQNITRLVDVGGGLGITLSDHNFQI  218 (221)
Q Consensus       194 ~~~~~~vvDVGGG~G~~~~~l~~~~  218 (221)
                      .....+|+|||||.|.++..+++..
T Consensus        82 ~~~~~~VLdiG~G~G~~~~~la~~~  106 (227)
T 1r18_A           82 LKPGARILDVGSGSGYLTACFYRYI  106 (227)
T ss_dssp             CCTTCEEEEESCTTSHHHHHHHHHH
T ss_pred             CCCCCEEEEECCCccHHHHHHHHhc
Confidence            4455799999999999999988754

>1ne2_A Hypothetical protein TA1320; structural genomics, conserved hypothetical protein, PSI, protein structure initiative; 1.75A {Thermoplasma acidophilum} SCOP: c.66.1.32

Probab=90.86  E-value=0.13  Score=39.39  Aligned_cols=22  Identities=23%  Similarity=0.326  Sum_probs=19.5

Q ss_pred             CCCeEEEecCCccHHHHHHHhh
Q 036971          196 NITRLVDVGGGLGITLSDHNFQ  217 (221)
Q Consensus       196 ~~~~vvDVGGG~G~~~~~l~~~  217 (221)
                      ...+|+|||||.|.++..+++.
T Consensus        51 ~~~~vlD~gcG~G~~~~~l~~~   72 (200)
T 1ne2_A           51 GGRSVIDAGTGNGILACGSYLL   72 (200)
T ss_dssp             BTSEEEEETCTTCHHHHHHHHT
T ss_pred             CCCEEEEEeCCccHHHHHHHHc
Confidence            4579999999999999998875

>2xvc_A ESCRT-III, SSO0910; cell cycle, cell division, cytokinesis, winged-helix; 2.15A {Sulfolobus solfataricus}

Probab=90.80  E-value=0.12  Score=31.95  Aligned_cols=46  Identities=15%  Similarity=0.228  Sum_probs=41.3

Q ss_pred             hhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceee
Q 036971           40 NLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCC   92 (221)
Q Consensus        40 ~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~   92 (221)
                      +-.|.+.|..+|  |-+.++.+|+..|+ +.+    -+..+|+-|...|++.-
T Consensus        12 e~~lL~yIr~sG--GildI~~~a~kygV-~kd----eV~~~LrrLe~KGLI~l   57 (59)
T 2xvc_A           12 ERELLDYIVNNG--GFLDIEHFSKVYGV-EKQ----EVVKLLEALKNKGLIAV   57 (59)
T ss_dssp             HHHHHHHHHHTT--SEEEHHHHHHHHCC-CHH----HHHHHHHHHHHTTSEEE
T ss_pred             HHHHHHHHHHcC--CEEeHHHHHHHhCC-CHH----HHHHHHHHHHHCCCeec
Confidence            456889999987  88999999999999 887    89999999999999875

>2fpo_A Methylase YHHF; structural genomics, putative methyltransferase, PSI, protei structure initiative; HET: MSE; 2.05A {Escherichia coli} SCOP: c.66.1.46

Probab=90.76  E-value=0.16  Score=39.27  Aligned_cols=22  Identities=14%  Similarity=-0.028  Sum_probs=18.9

Q ss_pred             CCeEEEecCCccHHHHHHHhhC
Q 036971          197 ITRLVDVGGGLGITLSDHNFQI  218 (221)
Q Consensus       197 ~~~vvDVGGG~G~~~~~l~~~~  218 (221)
                      ..+|+|+|||+|.++..++++.
T Consensus        55 ~~~vLDlgcG~G~~~~~l~~~~   76 (202)
T 2fpo_A           55 DAQCLDCFAGSGALGLEALSRY   76 (202)
T ss_dssp             TCEEEETTCTTCHHHHHHHHTT
T ss_pred             CCeEEEeCCCcCHHHHHHHhcC
Confidence            4789999999999999877654

>3a27_A TYW2, uncharacterized protein MJ1557; wybutosine modification, transferase; HET: SAM; 2.00A {Methanocaldococcus jannaschii}

Probab=90.69  E-value=0.15  Score=41.65  Aligned_cols=26  Identities=15%  Similarity=0.008  Sum_probs=22.8

Q ss_pred             CCCCCeEEEecCCccHHHHHHHhhCC
Q 036971          194 FQNITRLVDVGGGLGITLSDHNFQIP  219 (221)
Q Consensus       194 ~~~~~~vvDVGGG~G~~~~~l~~~~P  219 (221)
                      +....+|+|+|||.|.++..+++.+|
T Consensus       117 ~~~~~~VLDlgcG~G~~s~~la~~~~  142 (272)
T 3a27_A          117 SNENEVVVDMFAGIGYFTIPLAKYSK  142 (272)
T ss_dssp             CCTTCEEEETTCTTTTTHHHHHHHTC
T ss_pred             cCCCCEEEEecCcCCHHHHHHHHhCC
Confidence            44568999999999999999999876

>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=90.67  E-value=0.14  Score=40.42  Aligned_cols=22  Identities=18%  Similarity=0.087  Sum_probs=19.6

Q ss_pred             CCeEEEecCCccHHHHHHHhhC
Q 036971          197 ITRLVDVGGGLGITLSDHNFQI  218 (221)
Q Consensus       197 ~~~vvDVGGG~G~~~~~l~~~~  218 (221)
                      ..+|+|||||.|.++..+++..
T Consensus        79 ~~~vLD~gcG~G~~~~~la~~~  100 (241)
T 3gdh_A           79 CDVVVDAFCGVGGNTIQFALTG  100 (241)
T ss_dssp             CSEEEETTCTTSHHHHHHHHTT
T ss_pred             CCEEEECccccCHHHHHHHHcC
Confidence            5799999999999999998753

>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=90.66  E-value=0.48  Score=31.04  Aligned_cols=50  Identities=12%  Similarity=0.047  Sum_probs=38.8

Q ss_pred             HHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceecc
Q 036971           46 IINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLA  105 (221)
Q Consensus        46 ~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt  105 (221)
                      .|.+.   +..|+.+||+++|+ +-.    .+.|+|--|...|.|.....  .+-.|..+
T Consensus        23 ~L~~~---~~~Ta~~IAkkLg~-sK~----~vNr~LY~L~kkG~V~~~~~--~PP~W~~~   72 (75)
T 1sfu_A           23 SLNTN---DYTTAISLSNRLKI-NKK----KINQQLYKLQKEDTVKMVPS--NPPKWFKN   72 (75)
T ss_dssp             TSCTT---CEECHHHHHHHTTC-CHH----HHHHHHHHHHHTTSEEEECC--SSCEEEEC
T ss_pred             hCCCC---cchHHHHHHHHHCC-CHH----HHHHHHHHHHHCCCEecCCC--CCCCccCC
Confidence            55553   46999999999999 776    89999999999999988732  24455544

>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=90.61  E-value=0.15  Score=40.98  Aligned_cols=22  Identities=32%  Similarity=0.345  Sum_probs=19.5

Q ss_pred             CCCeEEEecCCccHHHHHHHhh
Q 036971          196 NITRLVDVGGGLGITLSDHNFQ  217 (221)
Q Consensus       196 ~~~~vvDVGGG~G~~~~~l~~~  217 (221)
                      ...+|||||||.|.++..+++.
T Consensus        54 ~~~~vLDiGcG~G~~~~~l~~~   75 (260)
T 2avn_A           54 NPCRVLDLGGGTGKWSLFLQER   75 (260)
T ss_dssp             SCCEEEEETCTTCHHHHHHHTT
T ss_pred             CCCeEEEeCCCcCHHHHHHHHc
Confidence            4579999999999999998875

>2pt6_A Spermidine synthase; transferase, structural genomics consor SGC,dcadoMet complex; HET: S4M 1PG; 2.00A {Plasmodium falciparum} PDB: 2pss_A* 2pt9_A*

Probab=90.61  E-value=0.12  Score=43.34  Aligned_cols=25  Identities=20%  Similarity=0.189  Sum_probs=21.4

Q ss_pred             CCCeEEEecCCccHHHHHHHhhCCC
Q 036971          196 NITRLVDVGGGLGITLSDHNFQIPS  220 (221)
Q Consensus       196 ~~~~vvDVGGG~G~~~~~l~~~~P~  220 (221)
                      ...+|+|||||.|..+.++++..|.
T Consensus       116 ~~~~VLdiG~G~G~~~~~l~~~~~~  140 (321)
T 2pt6_A          116 EPKNVLVVGGGDGGIIRELCKYKSV  140 (321)
T ss_dssp             SCCEEEEEECTTCHHHHHHTTCTTC
T ss_pred             CCCEEEEEcCCccHHHHHHHHcCCC
Confidence            3579999999999999999987653

>4azs_A Methyltransferase WBDD; kinase; HET: AMP SAM; 2.15A {Escherichia coli} PDB: 4azt_A* 4azv_A* 4azw_A*

Probab=90.59  E-value=0.15  Score=46.30  Aligned_cols=22  Identities=14%  Similarity=0.131  Sum_probs=19.1

Q ss_pred             CCCeEEEecCCccHHHHHHHhh
Q 036971          196 NITRLVDVGGGLGITLSDHNFQ  217 (221)
Q Consensus       196 ~~~~vvDVGGG~G~~~~~l~~~  217 (221)
                      ...+|||||||.|.++..+++.
T Consensus        66 ~~~~vLDvGCG~G~~~~~la~~   87 (569)
T 4azs_A           66 RPLNVLDLGCAQGFFSLSLASK   87 (569)
T ss_dssp             SCCEEEEETCTTSHHHHHHHHT
T ss_pred             CCCeEEEECCCCcHHHHHHHhC
Confidence            3568999999999999998875

>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=90.56  E-value=0.13  Score=42.99  Aligned_cols=25  Identities=32%  Similarity=0.368  Sum_probs=21.5

Q ss_pred             CCCeEEEecCCccHHHHHHHhhCCC
Q 036971          196 NITRLVDVGGGLGITLSDHNFQIPS  220 (221)
Q Consensus       196 ~~~~vvDVGGG~G~~~~~l~~~~P~  220 (221)
                      ...+|+|||||.|..+..+++..|.
T Consensus        77 ~~~~VLdiG~G~G~~~~~l~~~~~~  101 (314)
T 1uir_A           77 EPKRVLIVGGGEGATLREVLKHPTV  101 (314)
T ss_dssp             CCCEEEEEECTTSHHHHHHTTSTTC
T ss_pred             CCCeEEEEcCCcCHHHHHHHhcCCC
Confidence            3579999999999999999987653

>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=90.55  E-value=0.48  Score=34.33  Aligned_cols=67  Identities=9%  Similarity=0.036  Sum_probs=41.8

Q ss_pred             hhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccC--CCCcceeccccccccc
Q 036971           40 NLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFST--HGVRLYSLAPVAKYYV  112 (221)
Q Consensus        40 ~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~--~~~~~y~lt~~s~~L~  112 (221)
                      +..+...|...++ +++|..+||+.+++ ++.    .+.++++.|...|++.+....  ...-.+.+|+.++.+.
T Consensus        43 q~~vL~~l~~~~~-~~~t~~eLa~~l~~-~~~----~vs~~l~~L~~~Glv~r~~~~~DrR~~~~~LT~~G~~~~  111 (148)
T 3jw4_A           43 QGRMIGYIYENQE-SGIIQKDLAQFFGR-RGA----SITSMLQGLEKKGYIERRIPENNARQKNIYVLPKGAALV  111 (148)
T ss_dssp             HHHHHHHHHHHTT-TCCCHHHHHHC-----------CHHHHHHHHHHTTSBCCC--------CCCCBCHHHHHHH
T ss_pred             HHHHHHHHHhCCC-CCCCHHHHHHHHCC-Chh----HHHHHHHHHHHCCCEEeeCCCCCchhheeeECHHHHHHH
Confidence            3446777777521 48999999999999 887    999999999999999986210  0012356666666544

>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=90.52  E-value=0.13  Score=42.31  Aligned_cols=25  Identities=20%  Similarity=0.222  Sum_probs=21.6

Q ss_pred             CCCCeEEEecCCccHHHHHHHhhCC
Q 036971          195 QNITRLVDVGGGLGITLSDHNFQIP  219 (221)
Q Consensus       195 ~~~~~vvDVGGG~G~~~~~l~~~~P  219 (221)
                      ...++|+|||||.|..+.++++..|
T Consensus        77 ~~~~~VLdiG~G~G~~~~~l~~~~~  101 (283)
T 2i7c_A           77 KEPKNVLVVGGGDGGIIRELCKYKS  101 (283)
T ss_dssp             SSCCEEEEEECTTSHHHHHHTTCTT
T ss_pred             CCCCeEEEEeCCcCHHHHHHHHcCC
Confidence            3468999999999999999988765

>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=90.50  E-value=0.13  Score=42.59  Aligned_cols=23  Identities=26%  Similarity=0.284  Sum_probs=20.7

Q ss_pred             CCeEEEecCCccHHHHHHHhhCC
Q 036971          197 ITRLVDVGGGLGITLSDHNFQIP  219 (221)
Q Consensus       197 ~~~vvDVGGG~G~~~~~l~~~~P  219 (221)
                      ..+|+|||||.|..+.++++..|
T Consensus        91 ~~~VLdiG~G~G~~~~~l~~~~~  113 (296)
T 1inl_A           91 PKKVLIIGGGDGGTLREVLKHDS  113 (296)
T ss_dssp             CCEEEEEECTTCHHHHHHTTSTT
T ss_pred             CCEEEEEcCCcCHHHHHHHhcCC
Confidence            57999999999999999998765

>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=90.44  E-value=0.29  Score=39.59  Aligned_cols=23  Identities=22%  Similarity=0.235  Sum_probs=19.4

Q ss_pred             CCCCeEEEecCCccHHHHHHHhh
Q 036971          195 QNITRLVDVGGGLGITLSDHNFQ  217 (221)
Q Consensus       195 ~~~~~vvDVGGG~G~~~~~l~~~  217 (221)
                      ....+|||||||.|.++..+++.
T Consensus        63 ~~~~~vLDiGcG~G~~~~~l~~~   85 (298)
T 1ri5_A           63 KRGDSVLDLGCGKGGDLLKYERA   85 (298)
T ss_dssp             CTTCEEEEETCTTTTTHHHHHHH
T ss_pred             CCCCeEEEECCCCCHHHHHHHHC
Confidence            34579999999999999887765

>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=90.43  E-value=0.13  Score=42.83  Aligned_cols=25  Identities=24%  Similarity=0.299  Sum_probs=21.9

Q ss_pred             CCCCeEEEecCCccHHHHHHHhhCC
Q 036971          195 QNITRLVDVGGGLGITLSDHNFQIP  219 (221)
Q Consensus       195 ~~~~~vvDVGGG~G~~~~~l~~~~P  219 (221)
                      ...++|+|||||.|..+.++++..|
T Consensus        94 ~~~~~VLdiG~G~G~~~~~l~~~~~  118 (304)
T 2o07_A           94 PNPRKVLIIGGGDGGVLREVVKHPS  118 (304)
T ss_dssp             SSCCEEEEEECTTSHHHHHHTTCTT
T ss_pred             CCCCEEEEECCCchHHHHHHHHcCC
Confidence            3568999999999999999998765

>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=90.36  E-value=0.26  Score=42.16  Aligned_cols=26  Identities=15%  Similarity=0.034  Sum_probs=22.7

Q ss_pred             CCCCCeEEEecCCccHHHHHHHhhCC
Q 036971          194 FQNITRLVDVGGGLGITLSDHNFQIP  219 (221)
Q Consensus       194 ~~~~~~vvDVGGG~G~~~~~l~~~~P  219 (221)
                      |....+|+|+|||+|.++.++++..+
T Consensus       215 ~~~~~~vLD~gCGsG~~~i~~a~~~~  240 (373)
T 3tm4_A          215 ELDGGSVLDPMCGSGTILIELALRRY  240 (373)
T ss_dssp             TCCSCCEEETTCTTCHHHHHHHHTTC
T ss_pred             cCCCCEEEEccCcCcHHHHHHHHhCC
Confidence            44568999999999999999998776

>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=90.32  E-value=0.058  Score=38.24  Aligned_cols=45  Identities=20%  Similarity=0.237  Sum_probs=36.7

Q ss_pred             hChhhHHHhcCCCCCCCHHHHHhhCC----CCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           41 LDVLDIINKAGPGAELSASEIASQIP----TKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        41 lglfd~L~~~g~~~~~t~~eLA~~~g----~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      ..|...|...   +++|..+||+.++    + .+.    .+.++|+-|...|++.+.
T Consensus        13 ~~vL~~l~~~---~~~t~~ela~~l~~~~~~-s~~----tv~~~l~~L~~~Glv~r~   61 (123)
T 1okr_A           13 WEVMNIIWMK---KYASANNIIEEIQMQKDW-SPK----TIRTLITRLYKKGFIDRK   61 (123)
T ss_dssp             HHHHHHHHHH---SSEEHHHHHHHHHHHCCC-CHH----HHHHHHHHHHHHTSEEEE
T ss_pred             HHHHHHHHhC---CCcCHHHHHHHHhccCCC-cHh----hHHHHHHHHHHCCCeEEE
Confidence            3455566654   5899999999999    4 454    899999999999999986

>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=90.30  E-value=0.12  Score=37.57  Aligned_cols=46  Identities=20%  Similarity=0.224  Sum_probs=39.6

Q ss_pred             hhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           40 NLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        40 ~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      +..|...|...   ++++..+||+.+|+ ++.    .+.+.++.|...|++...
T Consensus         6 ~~~il~~L~~~---~~~~~~ela~~lg~-s~~----tv~~~l~~L~~~G~i~~~   51 (141)
T 1i1g_A            6 DKIILEILEKD---ARTPFTEIAKKLGI-SET----AVRKRVKALEEKGIIEGY   51 (141)
T ss_dssp             HHHHHHHHHHC---TTCCHHHHHHHHTS-CHH----HHHHHHHHHHHHTSSCCC
T ss_pred             HHHHHHHHHHc---CCCCHHHHHHHHCc-CHH----HHHHHHHHHHHCCCEecc
Confidence            45577788775   48999999999999 887    999999999999999864

>3i4p_A Transcriptional regulator, ASNC family; PSI, structural genom protein structure initiative, midwest center for structural genomics; 2.30A {Agrobacterium tumefaciens str}

Probab=90.29  E-value=0.14  Score=38.56  Aligned_cols=47  Identities=11%  Similarity=0.193  Sum_probs=41.5

Q ss_pred             HhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           39 VNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        39 v~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      .+..|.+.|.++   +++|..+||+.+|+ .+.    .+++-++.|...|++...
T Consensus         4 ~d~~il~~L~~~---~~~s~~~la~~lg~-s~~----tv~~rl~~L~~~g~i~~~   50 (162)
T 3i4p_A            4 LDRKILRILQED---STLAVADLAKKVGL-STT----PCWRRIQKMEEDGVIRRR   50 (162)
T ss_dssp             HHHHHHHHHTTC---SCSCHHHHHHHHTC-CHH----HHHHHHHHHHHTTSSCCC
T ss_pred             HHHHHHHHHHHC---CCCCHHHHHHHHCc-CHH----HHHHHHHHHHHCCCeeec
Confidence            456788899887   59999999999999 887    999999999999999864

>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=90.28  E-value=0.17  Score=39.31  Aligned_cols=42  Identities=24%  Similarity=0.131  Sum_probs=36.1

Q ss_pred             hHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           45 DIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        45 d~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      +.+.+.|  .|.|..|||+++|+ ...    .+.+.|+.|...|++...
T Consensus        16 ~~~~~~g--~~~s~~eia~~lgl-~~~----tv~~~l~~Le~~G~i~~~   57 (196)
T 3k2z_A           16 EFIEKNG--YPPSVREIARRFRI-TPR----GALLHLIALEKKGYIERK   57 (196)
T ss_dssp             HHHHHHS--SCCCHHHHHHHHTS-CHH----HHHHHHHHHHHTTSEECC
T ss_pred             HHHHHhC--CCCCHHHHHHHcCC-CcH----HHHHHHHHHHHCCCEEec
Confidence            3556655  58999999999999 765    899999999999999986

>3evz_A Methyltransferase; NYSGXRC, NEW YORK SGX research CE structural genomics, protein structure initiative, pyrococc furiosus, PSI-2; 2.20A {Pyrococcus furiosus}

Probab=90.26  E-value=0.2  Score=39.14  Aligned_cols=24  Identities=8%  Similarity=0.069  Sum_probs=20.7

Q ss_pred             CCCCCeEEEecCC-ccHHHHHHHhh
Q 036971          194 FQNITRLVDVGGG-LGITLSDHNFQ  217 (221)
Q Consensus       194 ~~~~~~vvDVGGG-~G~~~~~l~~~  217 (221)
                      .....+|+||||| .|.++..+++.
T Consensus        53 ~~~~~~vLDlG~G~~G~~~~~la~~   77 (230)
T 3evz_A           53 LRGGEVALEIGTGHTAMMALMAEKF   77 (230)
T ss_dssp             CCSSCEEEEECCTTTCHHHHHHHHH
T ss_pred             cCCCCEEEEcCCCHHHHHHHHHHHh
Confidence            3456899999999 99999998876

>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=90.20  E-value=0.32  Score=40.17  Aligned_cols=36  Identities=17%  Similarity=-0.044  Sum_probs=27.4

Q ss_pred             HHHHHHHHhcCCCCCCCeEEEecCCccHHHHHHHhhC
Q 036971          182 FVINKIVESYKGFQNITRLVDVGGGLGITLSDHNFQI  218 (221)
Q Consensus       182 ~~~~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~  218 (221)
                      .-...+.+.|. +....+|||+|||.|.++.-.++..
T Consensus        77 fKL~ei~eK~~-Lk~~~~VLDLGaAPGGWsQvAa~~~  112 (282)
T 3gcz_A           77 AKLRWMEERGY-VKPTGIVVDLGCGRGGWSYYAASLK  112 (282)
T ss_dssp             HHHHHHHHTTS-CCCCEEEEEETCTTCHHHHHHHTST
T ss_pred             HHHHHHHHhcC-CCCCCEEEEeCCCCCHHHHHHHHhc
Confidence            33445666775 7777899999999999999776543

>1y8c_A S-adenosylmethionine-dependent methyltransferase; structural genomics, protein structure initiative, PSI; 2.50A {Clostridium acetobutylicum} SCOP: c.66.1.43

Probab=90.13  E-value=0.12  Score=40.61  Aligned_cols=23  Identities=13%  Similarity=0.135  Sum_probs=19.8

Q ss_pred             CCCeEEEecCCccHHHHHHHhhC
Q 036971          196 NITRLVDVGGGLGITLSDHNFQI  218 (221)
Q Consensus       196 ~~~~vvDVGGG~G~~~~~l~~~~  218 (221)
                      ...+|+|||||.|.++..+++..
T Consensus        37 ~~~~vLdiG~G~G~~~~~l~~~~   59 (246)
T 1y8c_A           37 VFDDYLDLACGTGNLTENLCPKF   59 (246)
T ss_dssp             CTTEEEEETCTTSTTHHHHGGGS
T ss_pred             CCCeEEEeCCCCCHHHHHHHHCC
Confidence            35799999999999999988764

>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=90.10  E-value=0.14  Score=39.37  Aligned_cols=71  Identities=14%  Similarity=0.068  Sum_probs=52.4

Q ss_pred             HHHhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCC--CCcceecccccccccc
Q 036971           37 AVVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTH--GVRLYSLAPVAKYYVS  113 (221)
Q Consensus        37 ~av~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~--~~~~y~lt~~s~~L~~  113 (221)
                      ...+..|...|..... +++|..+||+.+++ ++.    .+.++++.|...|++.+.....  ..-.+.+|+.++.+..
T Consensus        40 t~~q~~vL~~L~~~~~-~~~t~~eLa~~l~i-s~~----tvs~~l~~Le~~GlV~r~~~~~DrR~~~l~LT~~G~~~~~  112 (189)
T 3nqo_A           40 TSRQYMTILSILHLPE-EETTLNNIARKMGT-SKQ----NINRLVANLEKNGYVDVIPSPHDKRAINVKVTDLGKKVMV  112 (189)
T ss_dssp             CHHHHHHHHHHHHSCG-GGCCHHHHHHHHTS-CHH----HHHHHHHHHHHTTSEEEEECSSCSSCEEEEECHHHHHHHH
T ss_pred             CHHHHHHHHHHHhccC-CCcCHHHHHHHHCC-CHH----HHHHHHHHHHHCCCEEeccCCCCCCeeEEEECHHHHHHHH
Confidence            3445667777875211 58999999999999 877    9999999999999999863210  1134788888876654

>4fsd_A Arsenic methyltransferase; rossmann fold; 1.75A {Cyanidioschyzon SP} PDB: 4fr0_A* 4fs8_A 3p7e_A 3qnh_A 3qhu_A

Probab=90.08  E-value=0.16  Score=43.56  Aligned_cols=23  Identities=17%  Similarity=0.222  Sum_probs=20.5

Q ss_pred             CCCeEEEecCCccHHHHHHHhhC
Q 036971          196 NITRLVDVGGGLGITLSDHNFQI  218 (221)
Q Consensus       196 ~~~~vvDVGGG~G~~~~~l~~~~  218 (221)
                      ...+|||||||.|.++..+++.+
T Consensus        83 ~~~~VLDlGcG~G~~~~~la~~~  105 (383)
T 4fsd_A           83 EGATVLDLGCGTGRDVYLASKLV  105 (383)
T ss_dssp             TTCEEEEESCTTSHHHHHHHHHH
T ss_pred             CCCEEEEecCccCHHHHHHHHHh
Confidence            35799999999999999998876

>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=90.07  E-value=0.19  Score=41.09  Aligned_cols=26  Identities=15%  Similarity=0.013  Sum_probs=22.0

Q ss_pred             CCCCeEEEecCCccHHHHHHHhhCCC
Q 036971          195 QNITRLVDVGGGLGITLSDHNFQIPS  220 (221)
Q Consensus       195 ~~~~~vvDVGGG~G~~~~~l~~~~P~  220 (221)
                      ....+|+|+|||+|.++..+++..+.
T Consensus       124 ~~~~~VLDlgcG~G~~~~~la~~~~~  149 (278)
T 2frn_A          124 KPDELVVDMFAGIGHLSLPIAVYGKA  149 (278)
T ss_dssp             CTTCEEEETTCTTTTTHHHHHHHTCC
T ss_pred             CCCCEEEEecccCCHHHHHHHHhCCC
Confidence            34679999999999999999987653

>3ajd_A Putative methyltransferase MJ0026; tRNA, M5C, rossmann fold, structural genomics, riken structu genomics/proteomics initiative; 1.27A {Methanocaldococcus jannaschii} PDB: 3a4t_A

Probab=89.97  E-value=0.15  Score=41.59  Aligned_cols=27  Identities=7%  Similarity=-0.017  Sum_probs=22.8

Q ss_pred             CCCCCeEEEecCCccHHHHHHHhhCCC
Q 036971          194 FQNITRLVDVGGGLGITLSDHNFQIPS  220 (221)
Q Consensus       194 ~~~~~~vvDVGGG~G~~~~~l~~~~P~  220 (221)
                      .....+|+|+|||.|..+..+++..++
T Consensus        81 ~~~g~~VLDlgaG~G~~t~~la~~~~~  107 (274)
T 3ajd_A           81 PREDDFILDMCAAPGGKTTHLAQLMKN  107 (274)
T ss_dssp             CCTTCEEEETTCTTCHHHHHHHHHTTT
T ss_pred             CCCcCEEEEeCCCccHHHHHHHHHcCC
Confidence            445679999999999999999987654

>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=89.91  E-value=0.16  Score=41.75  Aligned_cols=23  Identities=26%  Similarity=0.355  Sum_probs=20.3

Q ss_pred             CCCeEEEecCCccHHHHHHHhhCC
Q 036971          196 NITRLVDVGGGLGITLSDHNFQIP  219 (221)
Q Consensus       196 ~~~~vvDVGGG~G~~~~~l~~~~P  219 (221)
                      ...+|+|||||.|..+.++++. |
T Consensus        75 ~~~~VLdiG~G~G~~~~~l~~~-~   97 (281)
T 1mjf_A           75 KPKRVLVIGGGDGGTVREVLQH-D   97 (281)
T ss_dssp             CCCEEEEEECTTSHHHHHHTTS-C
T ss_pred             CCCeEEEEcCCcCHHHHHHHhC-C
Confidence            3579999999999999999886 5

>2b2c_A Spermidine synthase; beta-alpha, transferase; 2.50A {Caenorhabditis elegans} SCOP: c.66.1.17

Probab=89.86  E-value=0.17  Score=42.45  Aligned_cols=25  Identities=24%  Similarity=0.278  Sum_probs=21.6

Q ss_pred             CCCeEEEecCCccHHHHHHHhhCCC
Q 036971          196 NITRLVDVGGGLGITLSDHNFQIPS  220 (221)
Q Consensus       196 ~~~~vvDVGGG~G~~~~~l~~~~P~  220 (221)
                      ..++|+|||||.|..+..+++..|.
T Consensus       108 ~~~~VLdIG~G~G~~~~~l~~~~~~  132 (314)
T 2b2c_A          108 DPKRVLIIGGGDGGILREVLKHESV  132 (314)
T ss_dssp             SCCEEEEESCTTSHHHHHHTTCTTC
T ss_pred             CCCEEEEEcCCcCHHHHHHHHcCCC
Confidence            3579999999999999999987653

>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=89.76  E-value=0.25  Score=39.56  Aligned_cols=24  Identities=21%  Similarity=0.259  Sum_probs=20.9

Q ss_pred             CCCCCeEEEecCCccHHHHHHHhh
Q 036971          194 FQNITRLVDVGGGLGITLSDHNFQ  217 (221)
Q Consensus       194 ~~~~~~vvDVGGG~G~~~~~l~~~  217 (221)
                      +....+|+|||||+|.++..+++.
T Consensus        74 l~~g~~VLDlG~GtG~~t~~la~~   97 (232)
T 3id6_C           74 IRKGTKVLYLGAASGTTISHVSDI   97 (232)
T ss_dssp             CCTTCEEEEETCTTSHHHHHHHHH
T ss_pred             CCCCCEEEEEeecCCHHHHHHHHH
Confidence            566789999999999999988765

>2vn2_A DNAD, chromosome replication initiation protein; DNA replication, primosome; 2.3A {Geobacillus kaustophilus HTA426}

Probab=89.63  E-value=0.21  Score=36.08  Aligned_cols=34  Identities=9%  Similarity=0.130  Sum_probs=31.8

Q ss_pred             CCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           55 ELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        55 ~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      ..|..+||+.+++ ++.    .+.+.++.|...|++...
T Consensus        51 ~ps~~~LA~~l~~-s~~----~V~~~l~~Le~kGlI~~~   84 (128)
T 2vn2_A           51 FPTPAELAERMTV-SAA----ECMEMVRRLLQKGMIAIE   84 (128)
T ss_dssp             SCCHHHHHHTSSS-CHH----HHHHHHHHHHHTTSSEEC
T ss_pred             CCCHHHHHHHHCc-CHH----HHHHHHHHHHHCCCEEEE
Confidence            4799999999999 887    999999999999999986

>3u1d_A Uncharacterized protein; GNTR-superfamily, structural genomics, PSI-biology, midwest for structural genomics, MCSG; 1.80A {Halomicrobium mukohataei}

Probab=89.62  E-value=0.32  Score=36.42  Aligned_cols=88  Identities=18%  Similarity=0.130  Sum_probs=57.3

Q ss_pred             HhhChhhHHHhcCCCCCCCHHHHHhhCC-CCCCcchhhhHHHHHHHHhcCCceeeeccCC---CCc----ceeccccccc
Q 036971           39 VNLDVLDIINKAGPGAELSASEIASQIP-TKNPEGAAKMLDRVLGLLVSFNILCCSFSTH---GVR----LYSLAPVAKY  110 (221)
Q Consensus        39 v~lglfd~L~~~g~~~~~t~~eLA~~~g-~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~---~~~----~y~lt~~s~~  110 (221)
                      .++.|+..|-... .+..|+++|++.++ + ...    -+.|.|+.|+..|++++....+   ..|    .|.+|+.++.
T Consensus        30 tR~~IL~~Ll~~p-~~~~ta~eL~~~l~~l-S~a----TVyrhL~~L~eaGLV~~~~~~~~~~~rGrP~k~Y~LT~~Gr~  103 (151)
T 3u1d_A           30 TRLDVLHQILAQP-DGVLSVEELLYRNPDE-TEA----NLRYHVDELVDRGIVEKIPVPRAKSVDDPPTTFYAVTGEGIA  103 (151)
T ss_dssp             HHHHHHHHHHHST-TSCBCHHHHHHHCTTS-CHH----HHHHHHHHHHHTTSEEEEECCCCTTSSSCCCEEEEECHHHHH
T ss_pred             HHHHHHHHHHcCC-CCCCCHHHHHHhcCCC-CHH----HHHHHHHHHHHCCCeEEeecCcCcccCCCCceEEEECHHHHH
Confidence            4455555665532 14689999999998 8 665    8999999999999999752210   012    5888888875


Q ss_pred             cccCCCCCChHHHHHHhcCccchhhhhhhHHHHh
Q 036971          111 YVSDQNGVSMRPYMNLSLDKVMMPGWFQLKDQIL  144 (221)
Q Consensus       111 L~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~  144 (221)
                      +.....  .+.          ..+.|..|.+.++
T Consensus       104 ~l~~y~--~la----------~~~alr~l~~~v~  125 (151)
T 3u1d_A          104 LLRAVS--MYE----------EAAVWRSVYEQME  125 (151)
T ss_dssp             HHHHTT--CST----------HHHHTHHHHHHSC
T ss_pred             HHHHhH--HHh----------HHHHHHHHHHHhh
Confidence            543321  111          1245777777773

>2xig_A Ferric uptake regulation protein; hpfur, transcription, homeostasis; HET: CIT; 1.85A {Helicobacter pylori}

Probab=89.49  E-value=0.38  Score=35.73  Aligned_cols=62  Identities=24%  Similarity=0.361  Sum_probs=45.5

Q ss_pred             HHHhhChhhHHHhcCCCCCCCHHHHHhhC-----CCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceecc
Q 036971           37 AVVNLDVLDIINKAGPGAELSASEIASQI-----PTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLA  105 (221)
Q Consensus        37 ~av~lglfd~L~~~g~~~~~t~~eLA~~~-----g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt  105 (221)
                      +.-+.-|++.|...+  ++.|++||.+.+     ++ +..    -+.|.|+.|+..|++.+....++..+|..+
T Consensus        26 T~qR~~IL~~l~~~~--~~~sa~ei~~~l~~~~~~i-s~a----TVYR~L~~L~e~Glv~~~~~~~~~~~Y~~~   92 (150)
T 2xig_A           26 SKQREEVVSVLYRSG--THLSPEEITHSIRQKDKNT-SIS----SVYRILNFLEKENFISVLETSKSGRRYEIA   92 (150)
T ss_dssp             HHHHHHHHHHHHHCS--SCBCHHHHHHHHHHHSTTC-CHH----HHHHHHHHHHHTTSEEEEEETTTEEEEEES
T ss_pred             CHHHHHHHHHHHhCC--CCCCHHHHHHHHHHhCCCC-CHh----hHHHHHHHHHHCCcEEEEEeCCCceEEEec
Confidence            445566888898764  699999999998     45 444    799999999999999987421122346653

>3mwm_A ZUR, putative metal uptake regulation protein; FUR, regulatory metal, graded transcription regulation, transcription; 2.40A {Streptomyces coelicolor}

Probab=89.39  E-value=0.31  Score=35.75  Aligned_cols=67  Identities=15%  Similarity=0.086  Sum_probs=45.8

Q ss_pred             HHHhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceecc
Q 036971           37 AVVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLA  105 (221)
Q Consensus        37 ~av~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt  105 (221)
                      +..+.-|++.|...+  ++.|++||.+.+.-+.|..+..-+.|.|+.|+..|++.+....++..+|...
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 TRQRAAVSAALQEVE--EFRSAQELHDMLKHKGDAVGLTTVYRTLQSLADAGEVDVLRTAEGESVYRRC   79 (139)
T ss_dssp             HHHHHHHHHHHTTCS--SCEEHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTSSEEEECTTSCEEEECC
T ss_pred             CHHHHHHHHHHHhCC--CCCCHHHHHHHHHHhCCCCCHHHHHHHHHHHHHCCCEEEEEcCCCceEEEEC
Confidence            345666788888765  6899999998883211221233789999999999999987421123456654

>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=89.39  E-value=0.4  Score=39.52  Aligned_cols=33  Identities=21%  Similarity=0.029  Sum_probs=24.8

Q ss_pred             HHHHHhcCCCCCCCeEEEecCCccHHHHHHHhhC
Q 036971          185 NKIVESYKGFQNITRLVDVGGGLGITLSDHNFQI  218 (221)
Q Consensus       185 ~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~  218 (221)
                      ..+.+.+. +....+|||+|||.|.++.-+++..
T Consensus        64 ~ei~ek~~-l~~~~~VLDLGaAPGGWSQvAa~~~   96 (277)
T 3evf_A           64 RWFHERGY-VKLEGRVIDLGCGRGGWCYYAAAQK   96 (277)
T ss_dssp             HHHHHTTS-SCCCEEEEEETCTTCHHHHHHHTST
T ss_pred             HHHHHhCC-CCCCCEEEEecCCCCHHHHHHHHhc
Confidence            34555544 6667799999999999999776553

>3k0b_A Predicted N6-adenine-specific DNA methylase; methylase,PF01170, putative RNA methylase, PSI,MCSG, structu genomics; 1.50A {Listeria monocytogenes str}

Probab=89.34  E-value=0.36  Score=41.73  Aligned_cols=35  Identities=11%  Similarity=0.004  Sum_probs=28.0

Q ss_pred             HHHHHHHhcCCCCCCCeEEEecCCccHHHHHHHhhC
Q 036971          183 VINKIVESYKGFQNITRLVDVGGGLGITLSDHNFQI  218 (221)
Q Consensus       183 ~~~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~  218 (221)
                      .+..++.... |.....|+|.+||+|.++++.+...
T Consensus       189 lAa~ll~l~~-~~~~~~vlDp~CGSGt~~ieaa~~~  223 (393)
T 3k0b_A          189 MAAALVLLTS-WHPDRPFYDPVCGSGTIPIEAALIG  223 (393)
T ss_dssp             HHHHHHHHSC-CCTTSCEEETTCTTSHHHHHHHHHH
T ss_pred             HHHHHHHHhC-CCCCCeEEEcCCCCCHHHHHHHHHh
Confidence            4455677777 8888899999999999998887643

>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=89.32  E-value=0.36  Score=41.58  Aligned_cols=34  Identities=18%  Similarity=0.144  Sum_probs=27.7

Q ss_pred             HHHHHHHhcCCCCCCCeEEEecCCccHHHHHHHhh
Q 036971          183 VINKIVESYKGFQNITRLVDVGGGLGITLSDHNFQ  217 (221)
Q Consensus       183 ~~~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~  217 (221)
                      .+..++.... |.....|+|++||+|.++++.+..
T Consensus       183 lAa~ll~~~~-~~~~~~vlDp~CGSGt~lieaa~~  216 (385)
T 3ldu_A          183 LAAGLIYLTP-WKAGRVLVDPMCGSGTILIEAAMI  216 (385)
T ss_dssp             HHHHHHHTSC-CCTTSCEEETTCTTCHHHHHHHHH
T ss_pred             HHHHHHHhhC-CCCCCeEEEcCCCCCHHHHHHHHH
Confidence            4455666777 887889999999999999988765

>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=89.29  E-value=0.26  Score=38.36  Aligned_cols=24  Identities=25%  Similarity=0.355  Sum_probs=20.6

Q ss_pred             CCCCeEEEecCCccHHHHHHHhhC
Q 036971          195 QNITRLVDVGGGLGITLSDHNFQI  218 (221)
Q Consensus       195 ~~~~~vvDVGGG~G~~~~~l~~~~  218 (221)
                      ....+|+|||||.|..+..+++.+
T Consensus        76 ~~~~~vLDiG~G~G~~~~~la~~~   99 (226)
T 1i1n_A           76 HEGAKALDVGSGSGILTACFARMV   99 (226)
T ss_dssp             CTTCEEEEETCTTSHHHHHHHHHH
T ss_pred             CCCCEEEEEcCCcCHHHHHHHHHh
Confidence            445799999999999999998764

>2a14_A Indolethylamine N-methyltransferase; SGC,INMT, structural genomics, structural genomics consortium; HET: SAH; 1.70A {Homo sapiens} SCOP: c.66.1.15

Probab=89.23  E-value=0.11  Score=41.94  Aligned_cols=19  Identities=26%  Similarity=0.279  Sum_probs=14.9

Q ss_pred             CCCeEEEecCCccHHHHHH
Q 036971          196 NITRLVDVGGGLGITLSDH  214 (221)
Q Consensus       196 ~~~~vvDVGGG~G~~~~~l  214 (221)
                      ...+|||||||.|.+...+
T Consensus        55 ~g~~vLDiGCG~G~~~~~~   73 (263)
T 2a14_A           55 QGDTLIDIGSGPTIYQVLA   73 (263)
T ss_dssp             CEEEEEESSCTTCCGGGTT
T ss_pred             CCceEEEeCCCccHHHHHH
Confidence            3478999999999776543

>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=88.98  E-value=0.18  Score=41.00  Aligned_cols=22  Identities=18%  Similarity=0.205  Sum_probs=18.5

Q ss_pred             CCCCCeEEEecCCccHHHHHHH
Q 036971          194 FQNITRLVDVGGGLGITLSDHN  215 (221)
Q Consensus       194 ~~~~~~vvDVGGG~G~~~~~l~  215 (221)
                      +....+|+|||||.|.++..+.
T Consensus       103 ~~~p~~VLDlGCG~gpLal~~~  124 (253)
T 3frh_A          103 AETPRRVLDIACGLNPLALYER  124 (253)
T ss_dssp             SCCCSEEEEETCTTTHHHHHHT
T ss_pred             CCCCCeEEEecCCccHHHHHhc
Confidence            4457899999999999988765

>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=88.97  E-value=0.2  Score=41.63  Aligned_cols=21  Identities=14%  Similarity=0.233  Sum_probs=17.0

Q ss_pred             CCeEEEecCCccHHHHHHHhh
Q 036971          197 ITRLVDVGGGLGITLSDHNFQ  217 (221)
Q Consensus       197 ~~~vvDVGGG~G~~~~~l~~~  217 (221)
                      ..+|||||||.|..+..+++.
T Consensus        49 ~~~VLDlGCG~G~~l~~~~~~   69 (302)
T 2vdw_A           49 KRKVLAIDFGNGADLEKYFYG   69 (302)
T ss_dssp             CCEEEETTCTTTTTHHHHHHT
T ss_pred             CCeEEEEecCCcHhHHHHHhc
Confidence            579999999999877766553

>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=88.92  E-value=0.27  Score=37.86  Aligned_cols=58  Identities=16%  Similarity=0.276  Sum_probs=45.6

Q ss_pred             HhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCc-eeeeccCCCCcceeccccc
Q 036971           39 VNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNI-LCCSFSTHGVRLYSLAPVA  108 (221)
Q Consensus        39 v~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gl-l~~~~~~~~~~~y~lt~~s  108 (221)
                      -...|.+.|.+.+  +++|..+||+.+|+ ..+    .++|-++.|...|+ +...     .+.|.+.+..
T Consensus        22 R~~~Il~~L~~~~--~~~s~~eLa~~l~v-S~~----Ti~rdi~~L~~~G~~I~~~-----~~Gy~l~~~~   80 (187)
T 1j5y_A           22 RLKSIVRILERSK--EPVSGAQLAEELSV-SRQ----VIVQDIAYLRSLGYNIVAT-----PRGYVLAGGK   80 (187)
T ss_dssp             HHHHHHHHHHHCS--SCBCHHHHHHHHTS-CHH----HHHHHHHHHHHHTCCCEEE-----TTEEECCTTT
T ss_pred             HHHHHHHHHHHcC--CCcCHHHHHHHHCc-CHH----HHHHHHHHHHHCCCeEEEE-----CCEEEECCcc
Confidence            4456788888653  47999999999999 887    89999999999999 6653     4567766543

>2v79_A DNA replication protein DNAD; primosome, DNA-binding protein; HET: DNA; 2.00A {Bacillus subtilis}

Probab=88.44  E-value=0.25  Score=36.23  Aligned_cols=35  Identities=9%  Similarity=0.089  Sum_probs=32.3

Q ss_pred             CCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           54 AELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        54 ~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      ...|.++||+++|+ ++.    -+.++|+.|...|++...
T Consensus        50 ~~ps~~~LA~~~~~-s~~----~v~~~L~~L~~KGlI~i~   84 (135)
T 2v79_A           50 YFPTPNQLQEGMSI-SVE----ECTNRLRMFIQKGFLFIE   84 (135)
T ss_dssp             CSCCHHHHHTTSSS-CHH----HHHHHHHHHHHHTSCEEE
T ss_pred             CCCCHHHHHHHHCc-CHH----HHHHHHHHHHHCCCEEEE
Confidence            35899999999999 888    999999999999999985

>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=88.32  E-value=0.24  Score=43.30  Aligned_cols=31  Identities=23%  Similarity=0.179  Sum_probs=23.9

Q ss_pred             HHHHhcCCCCCCCeEEEecCCccHHHHHHHhh
Q 036971          186 KIVESYKGFQNITRLVDVGGGLGITLSDHNFQ  217 (221)
Q Consensus       186 ~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~  217 (221)
                      .+++..+ .....+|+|+|||.|.++..+++.
T Consensus       277 ~~~~~l~-~~~~~~VLDlgcG~G~~~~~la~~  307 (433)
T 1uwv_A          277 RALEWLD-VQPEDRVLDLFCGMGNFTLPLATQ  307 (433)
T ss_dssp             HHHHHHT-CCTTCEEEEESCTTTTTHHHHHTT
T ss_pred             HHHHhhc-CCCCCEEEECCCCCCHHHHHHHhh
Confidence            3444444 455679999999999999999875

>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=88.29  E-value=0.58  Score=38.37  Aligned_cols=23  Identities=9%  Similarity=-0.075  Sum_probs=17.6

Q ss_pred             CCeEEEecCCccH----HHHHHHhhCC
Q 036971          197 ITRLVDVGGGLGI----TLSDHNFQIP  219 (221)
Q Consensus       197 ~~~vvDVGGG~G~----~~~~l~~~~P  219 (221)
                      ..+|+|+|||+|.    +++.+++.+|
T Consensus       106 ~~rIld~GCgTGee~ysiAi~L~e~~~  132 (274)
T 1af7_A          106 EYRVWSAAASTGEEPYSIAITLADALG  132 (274)
T ss_dssp             CEEEEESCCTTTHHHHHHHHHHHHHHC
T ss_pred             CcEEEEeeccCChhHHHHHHHHHHhcc
Confidence            4689999999998    5556666544

>2cmg_A Spermidine synthase; transferase, putrescine aminopropyltransferase, spermidine biosynthesis, polyamine biosynthesis, SPEE; 2.0A {Helicobacter pylori} PDB: 2cmh_A

Probab=88.29  E-value=0.22  Score=40.59  Aligned_cols=22  Identities=9%  Similarity=-0.209  Sum_probs=19.6

Q ss_pred             CCCeEEEecCCccHHHHHHHhh
Q 036971          196 NITRLVDVGGGLGITLSDHNFQ  217 (221)
Q Consensus       196 ~~~~vvDVGGG~G~~~~~l~~~  217 (221)
                      ..++|+|||||.|..+.++++.
T Consensus        72 ~~~~VL~iG~G~G~~~~~ll~~   93 (262)
T 2cmg_A           72 ELKEVLIVDGFDLELAHQLFKY   93 (262)
T ss_dssp             CCCEEEEESSCCHHHHHHHTTS
T ss_pred             CCCEEEEEeCCcCHHHHHHHhC
Confidence            4579999999999999998875

>2yxl_A PH0851 protein, 450AA long hypothetical FMU protein; FMU-homolog, methyltransferase, structural genomics, NPPSFA; HET: SFG; 2.55A {Pyrococcus horikoshii}

Probab=87.96  E-value=0.38  Score=42.23  Aligned_cols=51  Identities=14%  Similarity=0.032  Sum_probs=32.2

Q ss_pred             HHHHHHHHhhhhHHHHHHHHHhcCCCCCCCeEEEecCCccHHHHHHHhhCCC
Q 036971          169 NEVFNNGMIGQTSFVINKIVESYKGFQNITRLVDVGGGLGITLSDHNFQIPS  220 (221)
Q Consensus       169 ~~~F~~aM~~~~~~~~~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~  220 (221)
                      ...|..............+....+ .....+|+|+|||.|..+..+++..|+
T Consensus       233 ~~~~~~G~~~~qd~~s~l~~~~l~-~~~g~~VLDlgaG~G~~t~~la~~~~~  283 (450)
T 2yxl_A          233 SSAFNEGKIIVQEEASAVASIVLD-PKPGETVVDLAAAPGGKTTHLAELMKN  283 (450)
T ss_dssp             CHHHHTTSEEECCHHHHHHHHHHC-CCTTCEEEESSCTTCHHHHHHHHHTTT
T ss_pred             CchhhCceEEecCchhHHHHHhcC-CCCcCEEEEeCCCccHHHHHHHHHcCC
Confidence            345555443222222222333444 455679999999999999999988764

>3ldg_A Putative uncharacterized protein SMU.472; YPSC, methyltransferase, transferase; HET: SAH; 1.96A {Streptococcus mutans}

Probab=87.92  E-value=0.51  Score=40.69  Aligned_cols=35  Identities=14%  Similarity=0.051  Sum_probs=27.9

Q ss_pred             HHHHHHHHhcCCCCCCCeEEEecCCccHHHHHHHhh
Q 036971          182 FVINKIVESYKGFQNITRLVDVGGGLGITLSDHNFQ  217 (221)
Q Consensus       182 ~~~~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~  217 (221)
                      ..+..++.... |.....|+|.+||+|+++++.+..
T Consensus       181 ~LAaall~l~~-~~~~~~llDp~CGSGt~lIEAa~~  215 (384)
T 3ldg_A          181 NMAAAIILLSN-WFPDKPFVDPTCGSGTFCIEAAMI  215 (384)
T ss_dssp             HHHHHHHHHTT-CCTTSCEEETTCTTSHHHHHHHHH
T ss_pred             HHHHHHHHHhC-CCCCCeEEEeCCcCCHHHHHHHHH
Confidence            34455666777 888889999999999999888754

>4b8x_A SCO5413, possible MARR-transcriptional regulator; winged helix motif; HET: CME; 1.25A {Streptomyces coelicolor}

Probab=87.85  E-value=0.11  Score=38.25  Aligned_cols=53  Identities=17%  Similarity=0.219  Sum_probs=41.1

Q ss_pred             CCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCc---ceeccccccccc
Q 036971           54 AELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVR---LYSLAPVAKYYV  112 (221)
Q Consensus        54 ~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~---~y~lt~~s~~L~  112 (221)
                      +++|..+||+.+++ ++.    .+.++++-|...|++++.... .+.   ...+|+.++.+.
T Consensus        50 ~~~t~~eLa~~l~~-~~~----tvs~~v~~Le~~Glv~r~~~~-~DrR~~~l~LT~~G~~~~  105 (147)
T 4b8x_A           50 GELPMSKIGERLMV-HPT----SVTNTVDRLVRSGLVAKRPNP-NDGRGTLATITDKGREVV  105 (147)
T ss_dssp             GEEEHHHHHHHHTC-CHH----HHHHHHHHHHHTTSEEEEECC-----CEEEEECHHHHHHH
T ss_pred             CCcCHHHHHHHHCC-CHH----HHHHHHHHHHhCCCEEEeecC-CcCceeEEEECHHHHHHH
Confidence            57999999999999 887    999999999999999986321 122   366777776554

>1z6r_A MLC protein; transcriptional repressor, ROK family protein, DNA binding P helix-turn-helix, phosphotransferase system; 2.70A {Escherichia coli} SCOP: a.4.5.63 c.55.1.10 c.55.1.10 PDB: 3bp8_A

Probab=87.43  E-value=0.47  Score=40.83  Aligned_cols=51  Identities=8%  Similarity=0.162  Sum_probs=43.3

Q ss_pred             HHHHHhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           35 FQAVVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        35 L~~av~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      ++..-+..|++.|.+.   +++|..|||+.+|+ .+.    -+.++++.|...|++.+.
T Consensus        13 ~r~~n~~~il~~l~~~---~~~sr~~la~~~~l-s~~----tv~~~v~~L~~~g~i~~~   63 (406)
T 1z6r_A           13 IKQTNAGAVYRLIDQL---GPVSRIDLSRLAQL-APA----SITKIVHEMLEAHLVQEL   63 (406)
T ss_dssp             HHHHHHHHHHHHHHSS---CSCCHHHHHHHTTC-CHH----HHHHHHHHHHHHTSEEEC
T ss_pred             HHHhHHHHHHHHHHHc---CCcCHHHHHHHHCC-CHH----HHHHHHHHHHHCCcEEee
Confidence            3444455678899887   59999999999999 776    899999999999999985

>4g6q_A Putative uncharacterized protein; structural genomics, PSI-biology, protein structure initiati midwest center for structural genomics, MCSG; 2.08A {Kribbella flavida}

Probab=87.39  E-value=0.2  Score=38.55  Aligned_cols=68  Identities=21%  Similarity=0.294  Sum_probs=48.5

Q ss_pred             HHHHHhhChhhHHHhcCCCCCCCHHHHHhhCC-CCCCcchhhhHHHHHHHHhcCCceeeeccC---C-CCcceecccccc
Q 036971           35 FQAVVNLDVLDIINKAGPGAELSASEIASQIP-TKNPEGAAKMLDRVLGLLVSFNILCCSFST---H-GVRLYSLAPVAK  109 (221)
Q Consensus        35 L~~av~lglfd~L~~~g~~~~~t~~eLA~~~g-~~~~~~~~~~l~rlLr~L~~~gll~~~~~~---~-~~~~y~lt~~s~  109 (221)
                      |.-=+++.|+..|.+    ++.++.+||+.++ + +..    .+.+.|+.|...||++.....   + ....|++++...
T Consensus        20 La~P~Rl~il~~L~~----~~~~~~~l~~~l~~~-~~~----~~s~Hl~~L~~aglv~~~~e~~~~g~~er~y~~~~~~~   90 (182)
T 4g6q_A           20 LHHPLRWRITQLLIG----RSLTTRELAELLPDV-ATT----TLYRQVGILVKAGVLMVTAEHQVRGAVERTYTLNTQAG   90 (182)
T ss_dssp             TTSHHHHHHHHHTTT----SCEEHHHHHHHCTTB-CHH----HHHHHHHHHHHHTSEEEEEEEEETTEEEEEEEECTTTT
T ss_pred             hCCHHHHHHHHHHHh----CCCCHHHHHHHhcCC-CHH----HHHHHHHHHHHCCCeEEEEeecccCcceeEEEeccccc
Confidence            333467778888876    6999999999996 7 554    799999999999999865210   0 012477776554


Q ss_pred             cc
Q 036971          110 YY  111 (221)
Q Consensus       110 ~L  111 (221)
                      .+
T Consensus        91 ~~   92 (182)
T 4g6q_A           91 DA   92 (182)
T ss_dssp             TS
T ss_pred             cC
Confidence            44

>3lcv_B Sisomicin-gentamicin resistance methylase SGM; antibiotic resistance, methyltransferase, transferase; HET: SAM; 2.00A {Micromonospora zionensis} PDB: 3lcu_A*

Probab=87.23  E-value=0.11  Score=42.79  Aligned_cols=26  Identities=15%  Similarity=-0.008  Sum_probs=21.8

Q ss_pred             CCCCeEEEecCCccHHHHHHHhhCCC
Q 036971          195 QNITRLVDVGGGLGITLSDHNFQIPS  220 (221)
Q Consensus       195 ~~~~~vvDVGGG~G~~~~~l~~~~P~  220 (221)
                      ....+|+|||||.|-++..+...+|+
T Consensus       131 ~~p~~VLDLGCG~GpLAl~~~~~~p~  156 (281)
T 3lcv_B          131 PRPNTLRDLACGLNPLAAPWMGLPAE  156 (281)
T ss_dssp             CCCSEEEETTCTTGGGCCTTTTCCTT
T ss_pred             CCCceeeeeccCccHHHHHHHhhCCC
Confidence            34789999999999999888777664

>1v4r_A Transcriptional repressor; helix-turn-helix, winged-helix, gene regulation; NMR {Streptomyces} SCOP: a.4.5.6

Probab=87.19  E-value=0.55  Score=32.15  Aligned_cols=52  Identities=15%  Similarity=0.180  Sum_probs=39.4

Q ss_pred             HHHHHHhhChhh-HHHhcCCCCCC-CHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           34 VFQAVVNLDVLD-IINKAGPGAEL-SASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        34 aL~~av~lglfd-~L~~~g~~~~~-t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      .+.-.++..|.+ .+...   ..+ |..+||+.+|+ ...    .+++.|+.|...|++...
T Consensus        15 ~l~~~i~~~I~~~~l~~g---~~lps~~eLa~~~~v-Sr~----tvr~al~~L~~~Gli~~~   68 (102)
T 1v4r_A           15 DVATHFRTLIKSGELAPG---DTLPSVADIRAQFGV-AAK----TVSRALAVLKSEGLVSSR   68 (102)
T ss_dssp             HHHHHHHHHTTTTSCCTT---SBCCCHHHHHHHSSS-CTT----HHHHHTTTTTTSSCCEEE
T ss_pred             HHHHHHHHHHHhCCCCCc---CCCcCHHHHHHHHCc-CHH----HHHHHHHHHHHCCCEEEe
Confidence            344444555555 33332   456 99999999999 887    899999999999999986

>4fx0_A Probable transcriptional repressor protein; helix-turn-helix, DNA binding, transcription regulator; 2.70A {Mycobacterium tuberculosis} PDB: 4fx4_A*

Probab=87.17  E-value=0.18  Score=37.21  Aligned_cols=64  Identities=19%  Similarity=0.234  Sum_probs=38.6

Q ss_pred             ChhhHHHhcC--CCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCc---ceeccccccccc
Q 036971           42 DVLDIINKAG--PGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVR---LYSLAPVAKYYV  112 (221)
Q Consensus        42 glfd~L~~~g--~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~---~y~lt~~s~~L~  112 (221)
                      .+...|...+  .++++|..+||+.+++ ++.    .+.++++.|...|++.....  .+.   ...+|+.++.+.
T Consensus        37 ~vL~~l~~~~~~~~~~~t~~eLa~~l~~-~~~----tvsr~v~~Le~~glVr~~~~--~DrR~~~v~LT~~G~~~~  105 (148)
T 4fx0_A           37 STLAVISLSEGSAGIDLTMSELAARIGV-ERT----TLTRNLEVMRRDGLVRVMAG--ADARCKRIELTAKGRAAL  105 (148)
T ss_dssp             HHHHHHHC---------CHHHHHHHHTC-CHH----HHHHHHHHHHHTTSBC-------------CCBCHHHHHHH
T ss_pred             HHHHHHHHhcCCCCCCcCHHHHHHHHCC-Chh----hHHHHHHHHHHCCCEEeeCC--CCCCeeEEEECHHHHHHH
Confidence            3445555432  0146999999999999 887    99999999999999955311  111   355666655443

>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=86.80  E-value=0.25  Score=39.34  Aligned_cols=47  Identities=13%  Similarity=0.169  Sum_probs=40.6

Q ss_pred             CHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceeccccccccc
Q 036971           57 SASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPVAKYYV  112 (221)
Q Consensus        57 t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~~s~~L~  112 (221)
                      +..+||+.+++ ++.    .+.++++.|...|++++.    .+..+.+|+.++.+.
T Consensus        26 ~~~~La~~l~v-s~~----tvs~~l~~Le~~GlV~r~----~~~~v~LT~~G~~~~   72 (230)
T 1fx7_A           26 LRARIAERLDQ-SGP----TVSQTVSRMERDGLLRVA----GDRHLELTEKGRALA   72 (230)
T ss_dssp             CHHHHHHHHTC-CHH----HHHHHHHHHHHTTSEEEC----TTSCEEECHHHHHHH
T ss_pred             cHHHHHHHHCc-CHH----HHHHHHHHHHHCCCEEEe----CCccEEECHHHHHHH
Confidence            44999999999 777    899999999999999997    456789999887654

>3htx_A HEN1; HEN1, small RNA methyltransferase, protein-RNA complex; HET: SAH; 3.10A {Arabidopsis thaliana}

Probab=86.65  E-value=0.33  Score=46.22  Aligned_cols=24  Identities=29%  Similarity=0.246  Sum_probs=21.3

Q ss_pred             CCCeEEEecCCccHHHHHHHhhCC
Q 036971          196 NITRLVDVGGGLGITLSDHNFQIP  219 (221)
Q Consensus       196 ~~~~vvDVGGG~G~~~~~l~~~~P  219 (221)
                      ...+|||||||.|.++..+++..|
T Consensus       721 ~g~rVLDVGCGTG~lai~LAr~g~  744 (950)
T 3htx_A          721 SASTLVDFGCGSGSLLDSLLDYPT  744 (950)
T ss_dssp             CCSEEEEETCSSSHHHHHHTSSCC
T ss_pred             CCCEEEEECCCCCHHHHHHHHhCC
Confidence            367999999999999999998873

>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=86.56  E-value=0.25  Score=39.22  Aligned_cols=54  Identities=11%  Similarity=0.101  Sum_probs=43.3

Q ss_pred             CCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceecccccccccc
Q 036971           54 AELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPVAKYYVS  113 (221)
Q Consensus        54 ~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~~s~~L~~  113 (221)
                      +++|..++|+.+++ .+.    .+.+.++.|...|+|++.... ....+.+|+.++.+..
T Consensus        26 ~~~s~s~aA~~L~i-sq~----avSr~I~~LE~~~L~~R~~~~-R~~~v~LT~~G~~l~~   79 (230)
T 3cta_A           26 AYLTSSKLADMLGI-SQQ----SASRIIIDLEKNGYITRTVTK-RGQILNITEKGLDVLY   79 (230)
T ss_dssp             EECCHHHHHHHHTS-CHH----HHHHHHHHHHHTTSEEEEEET-TEEEEEECHHHHHHHH
T ss_pred             CCcCHHHHHHHHCC-CHH----HHHHHHHHHHHCCCEEEEEcC-CeEEEEECHHHHHHHH
Confidence            36899999999999 776    999999999999999985210 1456888888876653

>2g9w_A Conserved hypothetical protein; DNA-binding domain, bacterial transcription repressor, DNA B protein; 1.80A {Mycobacterium tuberculosis} SCOP: a.4.5.39

Probab=86.40  E-value=0.38  Score=34.94  Aligned_cols=48  Identities=13%  Similarity=0.097  Sum_probs=38.6

Q ss_pred             HhhChhhHHHhcCCCCCCCHHHHHhhCC----CCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           39 VNLDVLDIINKAGPGAELSASEIASQIP----TKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        39 v~lglfd~L~~~g~~~~~t~~eLA~~~g----~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      .+..|...|....  +++|..+|++.++    + ++.    -+.++|+-|...|++.+.
T Consensus        10 ~e~~vL~~L~~~~--~~~t~~el~~~l~~~~~~-~~~----Tvt~~l~rLe~kGlv~r~   61 (138)
T 2g9w_A           10 LERAVMDHLWSRT--EPQTVRQVHEALSARRDL-AYT----TVMAVLQRLAKKNLVLQI   61 (138)
T ss_dssp             HHHHHHHHHHTCS--SCEEHHHHHHHHTTTCCC-CHH----HHHHHHHHHHHTTSEEEE
T ss_pred             HHHHHHHHHHhcC--CCCCHHHHHHHHhccCCC-CHH----HHHHHHHHHHHCCCEEEE
Confidence            3455666777631  4899999999998    5 444    899999999999999987

>2esh_A Conserved hypothetical protein TM0937; APC5794, structural genomics, PSI, protein structure initiative; 2.30A {Thermotoga maritima} SCOP: a.4.5.61

Probab=86.24  E-value=1.2  Score=31.47  Aligned_cols=69  Identities=19%  Similarity=0.270  Sum_probs=50.4

Q ss_pred             HHHHHhhChhhHHHhcCCCCCCCHHHHHhhCC--------CCCC-cchhhhHHHHHHHHhcCCceeeeccC--C-CCcce
Q 036971           35 FQAVVNLDVLDIINKAGPGAELSASEIASQIP--------TKNP-EGAAKMLDRVLGLLVSFNILCCSFST--H-GVRLY  102 (221)
Q Consensus        35 L~~av~lglfd~L~~~g~~~~~t~~eLA~~~g--------~~~~-~~~~~~l~rlLr~L~~~gll~~~~~~--~-~~~~y  102 (221)
                      +.-.+++-|...|..    +|.+.-+|++.+.        + ++ .    .+.+.|+-|...|+++.....  + ..-.|
T Consensus        10 ~~~~~~~~IL~~L~~----~~~~gyel~~~l~~~g~~~~~i-s~~~----tly~~L~~Le~~GlI~~~~~~~~~~~r~~Y   80 (118)
T 2esh_A           10 RGWWLASTILLLVAE----KPSHGYELAERLAEFGIEIPGI-GHMG----NIYRVLADLEESGFLSTEWDTTVSPPRKIY   80 (118)
T ss_dssp             HHHHHHHHHHHHHHH----SCBCHHHHHHHHHTTCCSSTTC-CCCC----CHHHHHHHHHHTTSEEEEEECSSSSCEEEE
T ss_pred             ccchHHHHHHHHHHc----CCCCHHHHHHHHHHhCCcccCC-CCcc----hHHHHHHHHHHCCCeEEEeecCCCCCceEE
Confidence            344456667777877    5899999999883        6 66 6    899999999999999876321  0 11248


Q ss_pred             eccccccccc
Q 036971          103 SLAPVAKYYV  112 (221)
Q Consensus       103 ~lt~~s~~L~  112 (221)
                      ++|+.++.+.
T Consensus        81 ~LT~~G~~~l   90 (118)
T 2esh_A           81 RITPQGKLYL   90 (118)
T ss_dssp             EECHHHHHHH
T ss_pred             EEChHHHHHH
Confidence            8888887554

>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=86.19  E-value=0.42  Score=41.64  Aligned_cols=32  Identities=16%  Similarity=0.039  Sum_probs=25.3

Q ss_pred             HHhcCCCCCCCeEEEecCCccHHHHHHHhhCCC
Q 036971          188 VESYKGFQNITRLVDVGGGLGITLSDHNFQIPS  220 (221)
Q Consensus       188 l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~  220 (221)
                      ....+ .....+|+|+|||.|..+..+++..|+
T Consensus       239 ~~~l~-~~~g~~VLDlgaG~G~~t~~la~~~~~  270 (429)
T 1sqg_A          239 MTWLA-PQNGEHILDLCAAPGGKTTHILEVAPE  270 (429)
T ss_dssp             HHHHC-CCTTCEEEEESCTTCHHHHHHHHHCTT
T ss_pred             HHHcC-CCCcCeEEEECCCchHHHHHHHHHcCC
Confidence            33444 445679999999999999999998774

>2i62_A Nicotinamide N-methyltransferase; structural genomics, structural genomics consortium, SGC; HET: SAH; 1.80A {Mus musculus} PDB: 2iip_A* 3rod_A*

Probab=85.94  E-value=0.14  Score=40.83  Aligned_cols=24  Identities=21%  Similarity=0.117  Sum_probs=19.5

Q ss_pred             CCCeEEEecCCccHHHHHHHhhCC
Q 036971          196 NITRLVDVGGGLGITLSDHNFQIP  219 (221)
Q Consensus       196 ~~~~vvDVGGG~G~~~~~l~~~~P  219 (221)
                      ...+|||||||.|.++..+++..+
T Consensus        56 ~~~~vLDlGcG~G~~~~~l~~~~~   79 (265)
T 2i62_A           56 KGELLIDIGSGPTIYQLLSACESF   79 (265)
T ss_dssp             CEEEEEEESCTTCCGGGTTGGGTE
T ss_pred             CCCEEEEECCCccHHHHHHhhccc
Confidence            357999999999999888776544

>1mzb_A Ferric uptake regulation protein; ferric uptake regulator, iron, DTXR, gene regulation; 1.80A {Pseudomonas aeruginosa} SCOP: a.4.5.42

Probab=85.90  E-value=0.67  Score=33.64  Aligned_cols=65  Identities=14%  Similarity=0.223  Sum_probs=42.5

Q ss_pred             HhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceec
Q 036971           39 VNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSL  104 (221)
Q Consensus        39 v~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~l  104 (221)
                      .+.-|++.|...+ +++.|++||.+.+.-..|..+..-+.|.|+.|+..|++.+....++..+|..
T Consensus        19 qR~~Il~~L~~~~-~~~~sa~ei~~~l~~~~~~is~aTVYR~L~~L~e~Glv~~~~~~~~~~~Y~~   83 (136)
T 1mzb_A           19 PRVKILQMLDSAE-QRHMSAEDVYKALMEAGEDVGLATVYRVLTQFEAAGLVVRHNFDGGHAVFEL   83 (136)
T ss_dssp             HHHHHHHHHHCC--CCSBCHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTSEEEECSSSSSCEEEE
T ss_pred             HHHHHHHHHHhCC-CCCCCHHHHHHHHHhhCCCCCHHHHHHHHHHHHHCCcEEEEEeCCCceEEEe
Confidence            3455788887642 1389999999998210111122379999999999999998732112245764

>2pjp_A Selenocysteine-specific elongation factor; SELB, protein-RNA complex, elongation factor, winged- helix, bulge, translation/RNA complex; 2.30A {Escherichia coli}

Probab=85.54  E-value=0.36  Score=34.44  Aligned_cols=43  Identities=12%  Similarity=0.056  Sum_probs=36.5

Q ss_pred             CCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceeccc
Q 036971           55 ELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAP  106 (221)
Q Consensus        55 ~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~  106 (221)
                      |.++.+||+.+++ ++.    .+..+|+.|+..|.+.+.    ..+.|-++.
T Consensus        20 p~~~~~la~~~~~-~~~----~~~~~l~~l~~~G~l~~i----~~~~~~~~~   62 (121)
T 2pjp_A           20 PWWVRDLAKETGT-DEQ----AMRLTLRQAAQQGIITAI----VKDRYYRND   62 (121)
T ss_dssp             CEEHHHHHHHTTC-CHH----HHHHHHHHHHHTTSEEEE----ETTEEEEHH
T ss_pred             CCCHHHHHHHhCC-CHH----HHHHHHHHHHHCCCEEEe----cCCceECHH
Confidence            7799999999999 887    899999999999999987    466555544

>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=85.24  E-value=0.44  Score=41.00  Aligned_cols=21  Identities=19%  Similarity=0.233  Sum_probs=19.0

Q ss_pred             CCeEEEecCCccHHHHHHHhh
Q 036971          197 ITRLVDVGGGLGITLSDHNFQ  217 (221)
Q Consensus       197 ~~~vvDVGGG~G~~~~~l~~~  217 (221)
                      ..+|+|||||.|.++..+++.
T Consensus       234 ~~~VLDlGcG~G~~~~~la~~  254 (381)
T 3dmg_A          234 GRQVLDLGAGYGALTLPLARM  254 (381)
T ss_dssp             TCEEEEETCTTSTTHHHHHHT
T ss_pred             CCEEEEEeeeCCHHHHHHHHc
Confidence            469999999999999999875

>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=85.23  E-value=0.37  Score=41.16  Aligned_cols=55  Identities=15%  Similarity=0.190  Sum_probs=41.8

Q ss_pred             HHHHHHHHHHhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           30 VLPAVFQAVVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        30 ~~~~aL~~av~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      .-+.+++...+..|++.|. .   +++|..|||+.+|+ .+.    -+.++++-|...|++.+.
T Consensus        12 ~~~~~~~~~~~~~il~~l~-~---~~~sr~~la~~~gl-s~~----tv~~~v~~L~~~gli~~~   66 (380)
T 2hoe_A           12 HMPKSVRAENISRILKRIM-K---SPVSRVELAEELGL-TKT----TVGEIAKIFLEKGIVVEE   66 (380)
T ss_dssp             ----------CCCSHHHHH-H---SCBCHHHHHHHHTC-CHH----HHHHHHHHHHHHTSEEEE
T ss_pred             cCchhHHHHHHHHHHHHHH-c---CCcCHHHHHHHHCc-CHH----HHHHHHHHHHHCCCEEee
Confidence            3456777888888999999 7   59999999999999 776    899999999999999986

>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=85.22  E-value=0.31  Score=34.46  Aligned_cols=50  Identities=26%  Similarity=0.288  Sum_probs=38.3

Q ss_pred             hhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           40 NLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        40 ~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      +..|...|.+.   +++|..|||+.++. +..-+.+-+.++|+-|...|++.+.
T Consensus        12 q~~vL~~L~~~---~~~t~~el~~~l~~-~~~~~~~Tvt~~l~rLe~kGlv~R~   61 (126)
T 1sd4_A           12 EWDVMNIIWDK---KSVSANEIVVEIQK-YKEVSDKTIRTLITRLYKKEIIKRY   61 (126)
T ss_dssp             HHHHHHHHHHS---SSEEHHHHHHHHHT-TSCCCHHHHHHHHHHHHHTTSEEEE
T ss_pred             HHHHHHHHHhc---CCCCHHHHHHHHhh-cCCCChhhHHHHHHHHHHCCceEEE
Confidence            44566677776   48999999999974 3111223899999999999999987

>2r6z_A UPF0341 protein in RSP 3' region; alpha-beta protein, structural genomics, PSI-2, protein structure initiative; 1.80A {Neisseria gonorrhoeae}

Probab=84.76  E-value=0.54  Score=38.11  Aligned_cols=22  Identities=18%  Similarity=0.021  Sum_probs=19.2

Q ss_pred             CCCeEEEecCCccHHHHHHHhh
Q 036971          196 NITRLVDVGGGLGITLSDHNFQ  217 (221)
Q Consensus       196 ~~~~vvDVGGG~G~~~~~l~~~  217 (221)
                      ...+|||+|||.|.++..+++.
T Consensus        83 ~~~~VLDlgcG~G~~a~~lA~~  104 (258)
T 2r6z_A           83 AHPTVWDATAGLGRDSFVLASL  104 (258)
T ss_dssp             GCCCEEETTCTTCHHHHHHHHT
T ss_pred             CcCeEEEeeCccCHHHHHHHHh
Confidence            3578999999999999998875

>1p4x_A Staphylococcal accessory regulator A homologue; winged-helix protein, transcription; 2.20A {Staphylococcus aureus} SCOP: a.4.5.28 a.4.5.28

Probab=84.71  E-value=0.45  Score=38.49  Aligned_cols=67  Identities=16%  Similarity=0.096  Sum_probs=49.5

Q ss_pred             hhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCc---ceecccccccccc
Q 036971           40 NLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVR---LYSLAPVAKYYVS  113 (221)
Q Consensus        40 ~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~---~y~lt~~s~~L~~  113 (221)
                      +..|...|...++ +++|..+||+.+++ ++.    .+.++++-|...|++.+.... .+.   ...+|+.++.+..
T Consensus       160 q~~vL~~L~~~~~-~~~t~~eLa~~l~i-~~~----tvt~~v~rLe~~GlV~R~~~~-~DrR~~~i~LT~~G~~~~~  229 (250)
T 1p4x_A          160 EFTILAIITSQNK-NIVLLKDLIETIHH-KYP----QTVRALNNLKKQGYLIKERST-EDERKILIHMDDAQQDHAE  229 (250)
T ss_dssp             HHHHHHHHHTTTT-CCEEHHHHHHHSSS-CHH----HHHHHHHHHHHHTSSEEEECS-SSTTCEEEECCHHHHHHHH
T ss_pred             HHHHHHHHHhCCC-CCcCHHHHHHHHCC-Chh----hHHHHHHHHHHCCCEEeeCCC-CCCCeEEEEECHHHHHHHH
Confidence            3446777777531 25999999999999 877    999999999999999987321 122   3667777766553

>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=84.00  E-value=0.55  Score=32.28  Aligned_cols=49  Identities=16%  Similarity=0.169  Sum_probs=41.7

Q ss_pred             HhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           39 VNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        39 v~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      -+.-|+..|.++|. .++...+|..++++ +..    -+.++|+.|...+++...
T Consensus        38 ~E~lVy~~I~~aGn-~GIw~kdL~~~tnL-~~~----~vtkiLK~LE~k~lIK~V   86 (95)
T 2yu3_A           38 QEKLVYQIIEDAGN-KGIWSRDVRYKSNL-PLT----EINKILKNLESKKLIKAV   86 (95)
T ss_dssp             HHHHHHHHHHHHTT-SCEEHHHHHHHHTC-CHH----HHHHHHHHHHHHTSEEEE
T ss_pred             HHHHHHHHHHHhCC-CCCCHHHHHHHhCC-CHH----HHHHHHHHHHhCCCEEEe
Confidence            34556778888653 47999999999999 887    899999999999999987

>3i71_A Ethanolamine utilization protein EUTK; helix-turn-helix, unknown function; HET: FLC; 2.10A {Escherichia coli}

Probab=83.65  E-value=2  Score=26.48  Aligned_cols=43  Identities=26%  Similarity=0.241  Sum_probs=37.8

Q ss_pred             CCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceeccc
Q 036971           54 AELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAP  106 (221)
Q Consensus        54 ~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~  106 (221)
                      +++|+-|+|...+. +-+    ..+..|..|.+.|-+.+.     ..+|++.|
T Consensus        17 QGMTaGEVAA~f~w-~Le----~ar~aLeqLf~~G~LRKR-----sSRYrlkp   59 (68)
T 3i71_A           17 QGMTAGEVAAHFGW-PLE----KARNALEQLFSAGTLRKR-----SSRYRLKP   59 (68)
T ss_dssp             TCBCHHHHHHHHTC-CHH----HHHHHHHHHHHTTSEEEE-----CCEEEECC
T ss_pred             ccccHHHHHHHhCC-cHH----HHHHHHHHHHhcchhhhh-----ccccccCc
Confidence            58999999999999 766    788899999999999995     88888766

>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=83.41  E-value=0.64  Score=36.80  Aligned_cols=50  Identities=8%  Similarity=0.171  Sum_probs=42.2

Q ss_pred             CCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceecccccccccc
Q 036971           55 ELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPVAKYYVS  113 (221)
Q Consensus        55 ~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~~s~~L~~  113 (221)
                      ..+..+||+.+++ ++.    .+.++++-|...|++.+.    ....+.+|+.++.+..
T Consensus        24 ~~~~~~la~~l~v-s~~----tvs~~l~~Le~~GlV~r~----~~~~v~LT~~G~~~~~   73 (226)
T 2qq9_A           24 TPLRARIAERLEQ-SGP----TVSQTVARMERDGLVVVA----SDRSLQMTPTGRTLAT   73 (226)
T ss_dssp             CCBHHHHHHHHTC-CHH----HHHHHHHHHHHTTSEEEC----TTSBEEECHHHHHHHH
T ss_pred             CccHHHHHHHHCC-CHH----HHHHHHHHHHHCCCEEEe----CCCCeEECHHHHHHHH
Confidence            3456999999999 777    899999999999999996    4567999999876543

>3maj_A DNA processing chain A; MCSG, PSI-2, structural genomics, protein structure initiati midwest center for structural genomics; HET: DNA; 2.05A {Rhodopseudomonas palustris}

Probab=83.25  E-value=0.47  Score=40.92  Aligned_cols=53  Identities=17%  Similarity=0.198  Sum_probs=44.1

Q ss_pred             hhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceecc
Q 036971           40 NLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLA  105 (221)
Q Consensus        40 ~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt  105 (221)
                      +..|++.|..    +++++++|++++|+ +..    .+...|-.|.-.|++...    .++.|+++
T Consensus       330 ~~~vl~~l~~----~~~~~D~l~~~~gl-~~~----~v~~~L~~LEl~G~v~~~----~Gg~~~~~  382 (382)
T 3maj_A          330 RTRILALLGP----SPVGIDDLIRLSGI-SPA----VVRTILLELELAGRLERH----GGSLVSLS  382 (382)
T ss_dssp             HHHHHHHCCS----SCEEHHHHHHHHCC-CHH----HHHHHHHHHHHTTCCEEC----TTSEEEC-
T ss_pred             HHHHHHhhCC----CCCCHHHHHHHHCc-CHH----HHHHHHHHHHhCCcEEeC----CCceEecC
Confidence            3457888875    59999999999999 777    899999999999999997    67788764

>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=83.23  E-value=0.85  Score=31.69  Aligned_cols=41  Identities=12%  Similarity=0.201  Sum_probs=33.3

Q ss_pred             HHHHhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHh
Q 036971           36 QAVVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLV   85 (221)
Q Consensus        36 ~~av~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~   85 (221)
                      ..+.++||+..|..    +..|..|||+.+|+ ...    .+.|+=|.|.
T Consensus        43 ~l~~R~~l~~~L~~----ge~TQREIA~~lGi-S~s----tISRi~r~L~   83 (101)
T 1jhg_A           43 ALGTRVRIIEELLR----GEMSQRELKNELGA-GIA----TITRGSNSLK   83 (101)
T ss_dssp             HHHHHHHHHHHHHH----CCSCHHHHHHHHCC-CHH----HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc----CCcCHHHHHHHHCC-Chh----hhhHHHHHHH
Confidence            35667899999998    68999999999999 665    7777766654

>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=83.18  E-value=0.53  Score=41.25  Aligned_cols=66  Identities=21%  Similarity=0.240  Sum_probs=47.6

Q ss_pred             hChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCC--CCcceeccccccccc
Q 036971           41 LDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTH--GVRLYSLAPVAKYYV  112 (221)
Q Consensus        41 lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~--~~~~y~lt~~s~~L~  112 (221)
                      ..|...|.+..+ +++|..+||+.+++ ++.    .+.|+++-|...|++++.+...  ..-...+|+.++.+.
T Consensus       407 ~~vl~~l~~~~~-~~~~~~~l~~~~~~-~~~----~~t~~~~~le~~g~v~r~~~~~D~R~~~i~lT~~g~~~~  474 (487)
T 1hsj_A          407 IYILNHILRSES-NEISSKEIAKCSEF-KPY----YLTKALQKLKDLKLLSKKRSLQDERTVIVYVTDTQKANI  474 (487)
T ss_dssp             HHHHHHHHTCSC-SEEEHHHHHHSSCC-CHH----HHHHHHHHHHTTTTSCCEECCSSSSCCEEECCSSHHHHH
T ss_pred             HHHHHHHHhCCC-CCcCHHHHHHHHCC-CHH----HHHHHHHHHHHCCCEeecCCCCCCCeEEEEECHHHHHHH
Confidence            345667776511 37999999999999 877    9999999999999999863210  112366676666544

>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=83.10  E-value=0.41  Score=40.28  Aligned_cols=24  Identities=17%  Similarity=0.115  Sum_probs=20.6

Q ss_pred             CCCeEEEecCCccHHHHHHHhhCC
Q 036971          196 NITRLVDVGGGLGITLSDHNFQIP  219 (221)
Q Consensus       196 ~~~~vvDVGGG~G~~~~~l~~~~P  219 (221)
                      ...+|+|+|||+|.++..+++..|
T Consensus       130 ~~~~VlDp~cGsG~~l~~~~~~~~  153 (344)
T 2f8l_A          130 KNVSILDPACGTANLLTTVINQLE  153 (344)
T ss_dssp             SEEEEEETTCTTSHHHHHHHHHHH
T ss_pred             CCCEEEeCCCCccHHHHHHHHHHH
Confidence            357999999999999999987654

>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=82.63  E-value=1.3  Score=38.70  Aligned_cols=32  Identities=19%  Similarity=0.033  Sum_probs=23.3

Q ss_pred             HHHHHhcCCCCCCCeEEEecCCccHHHHHHHhh
Q 036971          185 NKIVESYKGFQNITRLVDVGGGLGITLSDHNFQ  217 (221)
Q Consensus       185 ~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~  217 (221)
                      ..+++... .....+|+|+|||+|.++..+.+.
T Consensus       161 ~~mv~~l~-~~~~~~VlDpacGsG~fl~~~~~~  192 (445)
T 2okc_A          161 QAMVDCIN-PQMGETVCDPACGTGGFLLTAYDY  192 (445)
T ss_dssp             HHHHHHHC-CCTTCCEEETTCTTCHHHHHHHHH
T ss_pred             HHHHHHhC-CCCCCEEeccCCCcchHHHHHHHH
Confidence            34444444 344568999999999999888764

>4esf_A PADR-like transcriptional regulator; PADR family, DNA binding protein, HTH fold; 2.20A {Bacillus cereus}

Probab=82.59  E-value=1.4  Score=31.16  Aligned_cols=70  Identities=19%  Similarity=0.230  Sum_probs=50.0

Q ss_pred             HHHHHHhhChhhHHHhcCCCCCCCHHHHHhhC------CCCCCcchhhhHHHHHHHHhcCCceeeeccC--CC--Cccee
Q 036971           34 VFQAVVNLDVLDIINKAGPGAELSASEIASQI------PTKNPEGAAKMLDRVLGLLVSFNILCCSFST--HG--VRLYS  103 (221)
Q Consensus        34 aL~~av~lglfd~L~~~g~~~~~t~~eLA~~~------g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~--~~--~~~y~  103 (221)
                      .++-.+++=|...|.+    +|.+--+|++.+      ++ ++.    .+...|+-|...|++......  ++  .-.|+
T Consensus         7 l~~g~l~~~IL~lL~~----~p~~Gyei~~~l~~~g~~~i-s~g----tlY~~L~rLe~~GlI~~~~~~~~~g~~rk~Y~   77 (117)
T 4esf_A            7 MLKGSLEGCVLEIISR----RETYGYEITRHLNDLGFTEV-VEG----TVYTILVRLEKKKLVNIEKKPSDMGPPRKFYS   77 (117)
T ss_dssp             HHHHHHHHHHHHHHHH----SCBCHHHHHHHHHHHTCTTC-CHH----HHHHHHHHHHHTTCEEEEEEC-----CEEEEE
T ss_pred             HHHChHHHHHHHHHHc----CCCCHHHHHHHHHHcCCCCC-Ccc----HHHHHHHHHHHCCCEEEEeecCCCCCCceEEE
Confidence            3444455556667777    599999999987      67 666    899999999999999976311  01  12488


Q ss_pred             ccccccccc
Q 036971          104 LAPVAKYYV  112 (221)
Q Consensus       104 lt~~s~~L~  112 (221)
                      +|+.++...
T Consensus        78 LT~~G~~~l   86 (117)
T 4esf_A           78 LNEAGRQEL   86 (117)
T ss_dssp             ECHHHHHHH
T ss_pred             ECHHHHHHH
Confidence            888887554

>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=82.47  E-value=0.65  Score=41.13  Aligned_cols=27  Identities=11%  Similarity=0.092  Sum_probs=22.9

Q ss_pred             CCCCCeEEEecCCccHHHHHHHhhCCC
Q 036971          194 FQNITRLVDVGGGLGITLSDHNFQIPS  220 (221)
Q Consensus       194 ~~~~~~vvDVGGG~G~~~~~l~~~~P~  220 (221)
                      .....+|+|+|||.|..+..+++..++
T Consensus        99 ~~~g~~VLDlgaGpG~kt~~LA~~~~~  125 (464)
T 3m6w_A           99 PKPGERVLDLAAAPGGKTTHLAARMGG  125 (464)
T ss_dssp             CCTTCEEEESSCTTCHHHHHHHHHTTT
T ss_pred             cCCCCEEEEEcCCcCHHHHHHHHhCCC
Confidence            445679999999999999999988764

>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=82.43  E-value=0.73  Score=37.38  Aligned_cols=16  Identities=25%  Similarity=0.432  Sum_probs=13.3

Q ss_pred             CCCeEEEecCCccHHH
Q 036971          196 NITRLVDVGGGLGITL  211 (221)
Q Consensus       196 ~~~~vvDVGGG~G~~~  211 (221)
                      ...+|||||||+|...
T Consensus        71 ~~~~vLDiGcG~G~~~   86 (289)
T 2g72_A           71 SGRTLIDIGSGPTVYQ   86 (289)
T ss_dssp             CCSEEEEETCTTCCGG
T ss_pred             CCCeEEEECCCcChHH
Confidence            3579999999999954

>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=82.31  E-value=1.2  Score=29.27  Aligned_cols=36  Identities=8%  Similarity=0.134  Sum_probs=32.1

Q ss_pred             CCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           54 AELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        54 ~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      +.++++++|+.++. ..+   +.+..++..|.++|++++.
T Consensus        29 ~~i~l~~aa~~L~v-~~k---RRiYDI~NVLe~igli~K~   64 (76)
T 1cf7_A           29 GVLDLKLAADTLAV-RQK---RRIYDITNVLEGIGLIEKK   64 (76)
T ss_dssp             TEEEHHHHHHHTTT-CCT---HHHHHHHHHHHHHTSEEEE
T ss_pred             CcCcHHHHHHHhCC-ccc---eehhhHHHHHhHhcceeec
Confidence            58999999999999 444   3899999999999999996

>3lmm_A Uncharacterized protein; multi-domained alpha-beta protein, structural genomics, PSI- 2, protein structure initiative; 3.00A {Corynebacterium diphtheriae}

Probab=81.35  E-value=1  Score=41.00  Aligned_cols=60  Identities=10%  Similarity=0.083  Sum_probs=50.0

Q ss_pred             hhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhc-----CCceeeeccCCCCcceeccccccccc
Q 036971           40 NLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVS-----FNILCCSFSTHGVRLYSLAPVAKYYV  112 (221)
Q Consensus        40 ~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~-----~gll~~~~~~~~~~~y~lt~~s~~L~  112 (221)
                      +.-|.+.|.+.   +.+|..+||+.+++ ++.    .+++.|+.|+.     .|+++..     ++.|.+++......
T Consensus       432 ~~~iL~~l~~~---~~it~~~la~~l~~-s~~----~~~~~L~~L~~~~~~~~glie~~-----g~~y~L~~~~~~~~  496 (583)
T 3lmm_A          432 IAIVLYLLFQR---PFITIDVVARGLQS-GKE----AARNALEAARQTTVAGAPLIIAH-----DGVWLLGNACREIL  496 (583)
T ss_dssp             HHHHHHHHHHS---SSBCHHHHHHHHTS-CHH----HHHHHHHHHHTCEETTEESEEEE-----TTEEEECHHHHHHH
T ss_pred             HHHHHHHHHHC---CCcCHHHHHHHhCc-CHH----HHHHHHHHHHhhhccccceEEEe-----CCEEEECHHHHHHh
Confidence            34577788887   58999999999999 887    89999999999     8999996     57899998655433

>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=81.01  E-value=1.2  Score=38.69  Aligned_cols=52  Identities=10%  Similarity=0.234  Sum_probs=45.2

Q ss_pred             HHHHHHhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           34 VFQAVVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        34 aL~~av~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      .++..-+..|++.|...   +++|..|||+.+|+ .+.    -+.++++-|...|++.+.
T Consensus        35 ~~r~~n~~~il~~l~~~---~~~sr~ela~~~gl-s~~----tv~~~v~~L~~~gli~~~   86 (429)
T 1z05_A           35 HIKQINAGRVYKLIDQK---GPISRIDLSKESEL-APA----SITKITRELIDAHLIHET   86 (429)
T ss_dssp             HHHHHHHHHHHHHHHHH---CSBCHHHHHHHHTC-CHH----HHHHHHHHHHHTTSEEEE
T ss_pred             HHHHHHHHHHHHHHHHc---CCcCHHHHHHHHCC-CHH----HHHHHHHHHHHCCCEEec
Confidence            35555666789999987   59999999999999 776    899999999999999986

>2ek5_A Predicted transcriptional regulators; helix-turn-helix, interwined alpha helices; 2.20A {Corynebacterium glutamicum atcc 13032} PDB: 2du9_A

Probab=80.98  E-value=1.8  Score=31.15  Aligned_cols=35  Identities=31%  Similarity=0.316  Sum_probs=31.9

Q ss_pred             CCC-CHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           54 AEL-SASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        54 ~~~-t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      ..+ |..+||+.+|+ +..    .+++.|+.|...|+++..
T Consensus        26 ~~LPse~~La~~~gv-Sr~----tVr~Al~~L~~~Gli~~~   61 (129)
T 2ek5_A           26 QRVPSTNELAAFHRI-NPA----TARNGLTLLVEAGILYKK   61 (129)
T ss_dssp             SCBCCHHHHHHHTTC-CHH----HHHHHHHHHHTTTSEEEE
T ss_pred             CcCcCHHHHHHHHCc-CHH----HHHHHHHHHHHCCcEEEe
Confidence            456 89999999999 877    899999999999999986

>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=80.76  E-value=0.32  Score=41.18  Aligned_cols=60  Identities=12%  Similarity=0.095  Sum_probs=0.0

Q ss_pred             hhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceeccccccccc
Q 036971           40 NLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPVAKYYV  112 (221)
Q Consensus        40 ~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~~s~~L~  112 (221)
                      +..|...|...   +++|..+||+.+++ ++.    -++|.|+.|...|+++..     .....+|+.++.+.
T Consensus        22 ~~~iL~~l~~~---~~~t~~eLa~~l~v-s~~----Tv~r~l~~Le~~Glv~~~-----~~gi~LT~~G~~~~   81 (345)
T 2o0m_A           22 RFQILRNIYWM---QPIGRRSLSETMGI-TER----VLRTETDVLKQLNLIEPS-----KSGMTLTERGLEVY   81 (345)
T ss_dssp             -------------------------------------------------------------------------
T ss_pred             HHHHHHHHHHc---CCCCHHHHHHHHCc-CHH----HHHHHHHHHHHCCCEEEE-----ecceEEcHHHHHHH
Confidence            34567777776   58999999999999 887    999999999999999853     23355666555433

>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=80.30  E-value=1.1  Score=37.73  Aligned_cols=22  Identities=9%  Similarity=-0.034  Sum_probs=19.3

Q ss_pred             CCeEEEecCCccHHHHHHHhhC
Q 036971          197 ITRLVDVGGGLGITLSDHNFQI  218 (221)
Q Consensus       197 ~~~vvDVGGG~G~~~~~l~~~~  218 (221)
                      ..+|||+|||+|.++..+++..
T Consensus       154 ~~~VLDlgcGtG~~sl~la~~g  175 (332)
T 2igt_A          154 PLKVLNLFGYTGVASLVAAAAG  175 (332)
T ss_dssp             CCEEEEETCTTCHHHHHHHHTT
T ss_pred             CCcEEEcccccCHHHHHHHHcC
Confidence            4699999999999999998753

>3elk_A Putative transcriptional regulator TA0346; structural genomics, PSI-2, prote structure initiative; 1.70A {Thermoplasma acidophilum}

Probab=80.27  E-value=1.1  Score=31.65  Aligned_cols=71  Identities=13%  Similarity=0.251  Sum_probs=51.8

Q ss_pred             HHHHHHHhhChhhHHHhcCCCCCCCHHHHHhhCC------CCCCcchhhhHHHHHHHHhcCCceeeecc-C-CC--Ccce
Q 036971           33 AVFQAVVNLDVLDIINKAGPGAELSASEIASQIP------TKNPEGAAKMLDRVLGLLVSFNILCCSFS-T-HG--VRLY  102 (221)
Q Consensus        33 ~aL~~av~lglfd~L~~~g~~~~~t~~eLA~~~g------~~~~~~~~~~l~rlLr~L~~~gll~~~~~-~-~~--~~~y  102 (221)
                      +.++-.+++-|...|.+    +|.+.-+|++.+.      + ++.    .+.+.|+-|...|++..... . ++  .-.|
T Consensus         9 ~l~~g~l~~~IL~lL~~----~p~~gyel~~~l~~~~~~~i-~~g----tly~~L~~Le~~GlI~~~~~~~~~~~~rk~Y   79 (117)
T 3elk_A            9 RILHGLITLYILKELVK----RPMHGYELQKSMFETTGQAL-PQG----SIYILLKTMKERGFVISESSVNEKGQQLTVY   79 (117)
T ss_dssp             HHHHHHHHHHHHHHHHH----SCEEHHHHHHHHHHHHSCCC-CTT----HHHHHHHHHHHHTSEEEEEEEC-CCCEEEEE
T ss_pred             HHHhhHHHHHHHHHHHc----CCCCHHHHHHHHHHHhCCCC-Ccc----hHHHHHHHHHHCCCEEEEeeecCCCCCceEE
Confidence            34455556666777877    5999999998886      6 666    89999999999999997532 0 01  1258


Q ss_pred             eccccccccc
Q 036971          103 SLAPVAKYYV  112 (221)
Q Consensus       103 ~lt~~s~~L~  112 (221)
                      ++|+.++...
T Consensus        80 ~lT~~G~~~l   89 (117)
T 3elk_A           80 HITDAGKKFL   89 (117)
T ss_dssp             EECHHHHHHH
T ss_pred             EECHHHHHHH
Confidence            8999888544

---

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	221
d1kyza1	107	a.4.5.29 (A:13-119) Caffeic acid/5-hydroxyferulic	3e-30
d1fp1d1	110	a.4.5.29 (D:19-128) Chalcone O-methyltransferase {	3e-29
d1kyza2	243	c.66.1.12 (A:120-362) Caffeic acid/5-hydroxyferuli	2e-26
d1fp2a2	244	c.66.1.12 (A:109-352) Isoflavone O-methyltransfera	3e-25
d1fp1d2	244	c.66.1.12 (D:129-372) Chalcone O-methyltransferase	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	6e-18
d1fp2a1	101	a.4.5.29 (A:8-108) Isoflavone O-methyltransferase	2e-14
d1tw3a1	85	a.4.5.29 (A:14-98) Carminomycin 4-O-methyltransfer	1e-07
d1qzza1	92	a.4.5.29 (A:10-101) Aclacinomycin-10-hydroxylase R	0.001

>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 =  105 bits (264), Expect = 3e-30
 Identities = 54/106 (50%), Positives = 69/106 (65%), Gaps = 5/106 (4%)

Query: 14  EEEEVYSHAMVLGSAIVLPAVFQAVVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGA 73
            +EE    AM L SA VLP + ++ + LD+L+II KAGPGA++S  EIASQ+PT NP+ A
Sbjct: 3   SDEEANLFAMQLASASVLPMILKSALELDLLEIIAKAGPGAQISPIEIASQLPTTNPD-A 61

Query: 74  AKMLDRVLGLLVSFNILCCSFSTH----GVRLYSLAPVAKYYVSDQ 115
             MLDR+L LL  + IL CS  T       RLY LA VAKY V ++
Sbjct: 62  PVMLDRMLRLLACYIILTCSVRTQQDGKVQRLYGLATVAKYLVKNE 107

>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 =  103 bits (258), Expect = 3e-29
 Identities = 43/110 (39%), Positives = 66/110 (60%), Gaps = 8/110 (7%)

Query: 14  EEEEVYSHAMVLGSAIVLPAVFQAVVNLDVLDIINKAG-PGAELSASEIASQIP--TKNP 70
            E+     AMVL + +V PAV  A ++L++ +II KA  PGA +S SEIAS++P  T++ 
Sbjct: 2   TEDSACLSAMVLTTNLVYPAVLNAAIDLNLFEIIAKATPPGAFMSPSEIASKLPASTQHS 61

Query: 71  EGAAKMLDRVLGLLVSFNILCCSFSTH----GVRLYSLAPVAKYYVSDQN 116
           +     LDR+L LL S+++L  +  T       R+Y L+ V KY V D++
Sbjct: 62  D-LPNRLDRMLRLLASYSVLTSTTRTIEDGGAERVYGLSMVGKYLVPDES 110

>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 = 99.9 bits (248), Expect = 2e-26
 Identities = 44/93 (47%), Positives = 64/93 (68%)

Query: 116 NGVSMRPYMNLSLDKVMMPGWFQLKDQILEGELSYNKALGMDFYDYLGTDSRFNEVFNNG 175
           +GVS+     ++ DKV+M  W+ LKD +L+G + +NKA GM  ++Y GTD RFN+VFN G
Sbjct: 1   DGVSISALNLMNQDKVLMESWYHLKDAVLDGGIPFNKAYGMTAFEYHGTDPRFNKVFNKG 60

Query: 176 MIGQTSFVINKIVESYKGFQNITRLVDVGGGLG 208
           M   ++  + KI+E+Y GF+ +  LVDVGGG G
Sbjct: 61  MSDHSTITMKKILETYTGFEGLKSLVDVGGGTG 93

>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 = 96.7 bits (240), Expect = 3e-25
 Identities = 26/96 (27%), Positives = 46/96 (47%), Gaps = 1/96 (1%)

Query: 118 VSMRPYMNLSLDKVMMPGWFQLKDQILEGELS-YNKALGMDFYDYLGTDSRFNEVFNNGM 176
           + + P +   LD  +   + +LK  I E +L+ +   LG  F+D+L  +  +N  FN+ M
Sbjct: 1   LCLAPMVECVLDPTLSGSYHELKKWIYEEDLTLFGVTLGSGFWDFLDKNPEYNTSFNDAM 60

Query: 177 IGQTSFVINKIVESYKGFQNITRLVDVGGGLGITLS 212
              +  +   + +    F  +  +VDVGGG G T  
Sbjct: 61  ASDSKLINLALRDCDFVFDGLESIVDVGGGTGTTAK 96

>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 = 93.6 bits (232), Expect = 5e-24
 Identities = 24/95 (25%), Positives = 50/95 (52%), Gaps = 1/95 (1%)

Query: 119 SMRPYMNLSLDKVMMPGWFQLKDQILEGELS-YNKALGMDFYDYLGTDSRFNEVFNNGMI 177
            +  +        ++  W   K+ +++ ++  +    G+  Y+++G D + N++FN  M+
Sbjct: 3   YLASFTTFLCYPALLQVWMNFKEAVVDEDIDLFKNVHGVTKYEFMGKDKKMNQIFNKSMV 62

Query: 178 GQTSFVINKIVESYKGFQNITRLVDVGGGLGITLS 212
              +  + +++E Y GF+ I+ LVDVGGG G  L 
Sbjct: 63  DVCATEMKRMLEIYTGFEGISTLVDVGGGSGRNLE 97

>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 = 81.2 bits (199), Expect = 3e-19
 Identities = 19/91 (20%), Positives = 36/91 (39%), Gaps = 2/91 (2%)

Query: 119 SMRPYMNLSLDKVMMP-GWFQLKDQILEGELSYNKALGMDFYDYLGTDSRFNEVFNNGMI 177
             R +++L+         +  L D +  G  +Y    G  F++ L  D    + F+  M 
Sbjct: 4   QQRAWLDLNGAVSHADLAFTGLLDVVRTGRPAYAGRYGRPFWEDLSADVALADSFDALMS 63

Query: 178 GQTSFVINKIVESYKGFQNITRLVDVGGGLG 208
                      ++Y  +  +  ++DVGGG G
Sbjct: 64  CDEDLAYEAPADAYD-WSAVRHVLDVGGGNG 93

>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 = 77.4 bits (189), Expect = 6e-18
 Identities = 20/93 (21%), Positives = 37/93 (39%), Gaps = 2/93 (2%)

Query: 118 VSMRPYMNLSLD-KVMMPGWFQLKDQILEGELSYNKALGMDFYDYLGTDSRFNEVFNNGM 176
            + R + +L+         + +L D I  G  +Y    G  FY+ L         F++ +
Sbjct: 2   AAQRAWHDLTQAVARADISFTRLPDAIRTGRPTYESIYGKPFYEDLAGRPDLRASFDSLL 61

Query: 177 IGQTSFVINKIVESYKGFQNITRLVDVGGGLGI 209
                   +    +Y  + N+  ++DVGGG G 
Sbjct: 62  ACDQDVAFDAPAAAYD-WTNVRHVLDVGGGKGG 93

>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 = 64.9 bits (158), Expect = 2e-14
 Identities = 15/100 (15%), Positives = 33/100 (33%), Gaps = 10/100 (10%)

Query: 17  EVYSHAMVLGSAIVLPAVFQAVVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKM 76
            +Y H      A +     +  V +++ +II   G    +S S + S +   +       
Sbjct: 12  LLYKHIY----AFIDSMSLKWAVEMNIPNIIQNHGKP--ISLSNLVSILQVPSS--KIGN 63

Query: 77  LDRVLGLLVSFNILCCSFSTHGVRLYSLAPVAKYYVSDQN 116
           + R++  L                 Y+L   ++  V   +
Sbjct: 64  VRRLMRYLAHNGFFEIITKEEES--YALTVASELLVRGSD 101

>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 = 46.0 bits (109), Expect = 1e-07
 Identities = 13/94 (13%), Positives = 32/94 (34%), Gaps = 13/94 (13%)

Query: 21  HAMVLGSAIVLPAVFQAVVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRV 80
             ++   ++  P V +    L ++D I         +   +A++  T+      + L R+
Sbjct: 4   RTLIRLGSLHTPMVVRTAATLRLVDHI----LAGARTVKALAARTDTR-----PEALLRL 54

Query: 81  LGLLVSFNILCCSFSTHGVRLYSLAPVAKYYVSD 114
           +  LV+  +            +    V +    D
Sbjct: 55  IRHLVAIGL----LEEDAPGEFVPTEVGELLADD 84

>d1qzza1 a.4.5.29 (A:10-101) Aclacinomycin-10-hydroxylase RdmB {Streptomyces purpurascens [TaxId: 1924]} Length = 92

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Plant O-methyltransferase, N-terminal domain
domain: Aclacinomycin-10-hydroxylase RdmB
species: Streptomyces purpurascens [TaxId: 1924]

 Score = 35.1 bits (81), Expect = 0.001
 Identities = 13/80 (16%), Positives = 28/80 (35%), Gaps = 11/80 (13%)

Query: 30  VLPAVFQAVVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNI 89
           V P   +    L ++D +  AG     + + +A +  T +P+  +    R++  L    +
Sbjct: 19  VTPMALRVAATLRLVDHL-LAGA---DTLAGLADRTDT-HPQALS----RLVRHLTVVGV 69

Query: 90  LCCSFSTHGVRLYSLAPVAK 109
           L         R      +  
Sbjct: 70  L--EGGEKQGRPLRPTRLGM 87

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	221
d1fp2a1	101	Isoflavone O-methyltransferase {Alfalfa (Medicago	99.85
d1kyza2	243	Caffeic acid/5-hydroxyferulic acid 3/5-O-methyltra	99.85
d1fp1d2	244	Chalcone O-methyltransferase {Alfalfa (Medicago sa	99.82
d1fp2a2	244	Isoflavone O-methyltransferase {Alfalfa (Medicago	99.75
d1qzza2	256	Aclacinomycin-10-hydroxylase RdmB {Streptomyces pu	99.74
d1tw3a1	85	Carminomycin 4-O-methyltransferase {Streptomyces p	99.74
d1kyza1	107	Caffeic acid/5-hydroxyferulic acid 3/5-O-methyltra	99.71
d1tw3a2	253	Carminomycin 4-O-methyltransferase {Streptomyces p	99.68
d1qzza1	92	Aclacinomycin-10-hydroxylase RdmB {Streptomyces pu	99.68
d1fp1d1	110	Chalcone O-methyltransferase {Alfalfa (Medicago sa	99.66
d1mkma1	75	Transcriptional regulator IclR, N-terminal domain	98.16
d2o57a1	282	Putative sarcosine dimethylglycine methyltransfera	97.08
d1wzna1	251	Hypothetical methyltransferase PH1305 {Archaeon Py	96.47
d1dusa_	194	Hypothetical protein MJ0882 {Archaeon Methanococcu	96.25
d1z05a1	71	Transcriptional regulator VC2007 N-terminal domain	96.14
d1r1ua_	94	Metal-sensing transcriptional repressor CzrA {Stap	96.1
d1kpia_	291	CmaA2 {Mycobacterium tuberculosis [TaxId: 1773]}	96.09
d1lvaa3	64	C-terminal fragment of elongation factor SelB {Moo	96.01
d1ub9a_	100	Hypothetical protein PH1061 {Archaeon Pyrococcus h	95.99
d1xd7a_	127	Hypothetical protein ywnA {Bacillus subtilis [TaxI	95.95
d1biaa1	63	Biotin repressor, N-terminal domain {Escherichia c	95.94
d2fk8a1	280	Methoxy mycolic acid synthase 4, Mma4 {Mycobacteri	95.91
d1r1ta_	98	SmtB repressor {Cyanobacteria (Synechococcus), pcc	95.86
d1p91a_	268	rRNA methyltransferase RlmA {Escherichia coli [Tax	95.83
d1kpga_	285	CmaA1 {Mycobacterium tuberculosis [TaxId: 1773]}	95.81
d1ve3a1	226	Hypothetical protein PH0226 {Archaeon Pyrococcus h	95.77
d1u2za_	406	Catalytic, N-terminal domain of histone methyltran	95.64
d1u2wa1	108	Cadmium efflux system accessory protein CadC {Stap	95.61
d1g8sa_	230	Fibrillarin homologue {Archaeon Methanococcus jann	95.55
d1im8a_	225	Hypothetical protein HI0319 (YecO) {Haemophilus in	95.5
d2hoea1	62	N-acetylglucosamine kinase {Thermotoga maritima [T	95.48
d1xtpa_	254	Hypothetical protein Lmaj004091aaa (LmjF30.0810) {	95.42
d1zx0a1	229	Guanidinoacetate methyltransferase {Human (Homo sa	95.39
d1z6ra1	70	Mlc protein N-terminal domain {Escherichia coli [T	95.36
d1jqea_	280	Histamine methyltransferase {Human (Homo sapiens)	95.25
d1ulya_	190	Hypothetical protein PH1932 {Pyrococcus horikoshii	95.22
d1s3ja_	143	Putative transcriptional regulator YusO {Bacillus	95.15
d1y8ca_	246	Putative methyltransferase CAC2371 {Clostridium ac	95.14
d1nw3a_	328	Catalytic, N-terminal domain of histone methyltran	95.08
d1j5ya1	65	Putative transcriptional regulator TM1602, N-termi	95.08
d1ylfa1	138	Hypothetical protein BC1842 {Bacillus cereus [TaxI	95.08
d2ex4a1	222	Adrenal gland protein AD-003 (C9orf32) {Human (Hom	95.03
d2d1ha1	109	Hypothetical transcriptional regulator ST1889 {Sul	95.03
d1dpua_	69	C-terminal domain of RPA32 {Human (Homo sapiens) [	95.01
d2fyta1	311	Protein arginine N-methyltransferase 3, PRMT3 {Hum	94.99
d2p4wa1	194	Transcriptional regulatory protein PF1790 {Pyrococ	94.82
d1nt2a_	209	Fibrillarin homologue {Archaeon Archaeoglobus fulg	94.81
d1vlma_	208	Possible histamine N-methyltransferase TM1293 {The	94.79
d1sfxa_	109	Hypothetical protein AF2008 {Archaeoglobus fulgidu	94.62
d2etha1	140	Putative transcriptional regulator TM0816 {Thermot	94.59
d2gxba1	59	Z-alpha domain of dsRNA-specific adenosine deamina	94.57
d1r7ja_	90	Sso10a (SSO10449) {Archaeon Sulfolobus solfataricu	94.56
d2avna1	246	Hypothetical methyltransferase TM1389 {Thermotoga	94.51
d3ctaa1	85	Ta1064 (RFK), N-terminal domain {Thermoplasma acid	94.38
d2nxca1	254	PrmA-like protein TTHA0656 (TT0836) {Thermus therm	94.27
d3broa1	135	Transcriptional regulator OEOE1854 {Oenococcus oen	94.23
d2b3ta1	274	N5-glutamine methyltransferase, HemK {Escherichia	94.17
d1dl5a1	213	Protein-L-isoaspartyl O-methyltransferase {Thermot	94.14
d1lnwa_	141	MexR repressor {Pseudomonas aeruginosa [TaxId: 287	94.12
d1ku9a_	151	DNA-binding protein Mj223 {Archaeon Methanococcus	94.06
d2hzta1	95	Putative transcriptional regulator YtcD {Bacillus	94.05
d1g6q1_	328	Arginine methyltransferase, HMT1 {Baker's yeast (S	93.97
d1xvaa_	292	Glycine N-methyltransferase {Rat (Rattus norvegicu	93.83
d2cfxa1	63	Transcriptional regulator LrpC {Bacillus subtilis	93.65
d2fswa1	102	Hypothetical protein PG0823 {Porphyromonas gingiva	93.58
d2bv6a1	136	Transcriptional regulator MgrA {Staphylococcus aur	93.53
d1i1ga1	60	LprA {Archaeon Pyrococcus furiosus [TaxId: 2261]}	93.48
d1jhfa1	71	LexA repressor, N-terminal DNA-binding domain {Esc	93.38
d1z7ua1	108	Hypothetical protein EF0647 {Enterococcus faecalis	93.3
d2cg4a1	63	Regulatory protein AsnC {Escherichia coli [TaxId:	93.21
d1yb2a1	250	Hypothetical protein Ta0852 {Thermoplasma acidophi	93.08
d2cyya1	60	Putative transcriptional regulator PH1519 {Archaeo	93.06
d1o54a_	266	Hypothetical protein TM0748 {Thermotoga maritima [	93.03
d2a61a1	139	Transcriptional regulator TM0710 {Thermotoga marit	93.02
d2hr3a1	145	Probable transcriptional regulator PA3067 {Pseudom	93.0
d1i9ga_	264	Probable methyltransferase Rv2118c {Mycobacterium	92.83
d1j75a_	57	Dlm-1 {Mouse (Mus musculus) [TaxId: 10090]}	92.61
d2bzga1	229	Thiopurine S-methyltransferase {Human (Homo sapien	92.59
d1ne2a_	197	Hypothetical protein Ta1320 {Archaeon Thermoplasma	92.54
d2fbha1	137	Transcriptional regulator PA3341 {Pseudomonas aeru	92.32
d1yyva1	114	Putative transcriptional regulator YtfH {Salmonell	92.25
d2ev0a1	61	Manganese transport regulator MntR {Bacillus subti	92.03
d1vbfa_	224	Protein-L-isoaspartyl O-methyltransferase {Sulfolo	91.87
d2isya1	63	Iron-dependent regulator IdeR {Mycobacterium tuber	91.77
d1z91a1	137	Organic hydroperoxide resistance transcriptional r	91.57
d2b25a1	324	Hypothetical protein FLJ20628 {Human (Homo sapiens	91.43
d1wy7a1	201	Hypothetical protein PH1948 {Archaeon Pyrococcus h	91.22
d3deua1	140	Transcriptional regulator SlyA {Salmonella typhimu	91.0
d1jgsa_	138	Multiple antibiotic resistance repressor, MarR {Es	90.93
d1q1ha_	88	Transcription factor E/IIe-alpha, N-terminal domai	90.7
d1lj9a_	144	Transcriptional regulator SlyA {Enterococcus faeca	90.54
d2obpa1	81	Putative DNA-binding protein ReutB4095 {Ralstonia	90.24
d2f2ea1	142	Hypothetical protein PA1607 {Pseudomonas aeruginos	90.19
d1i1na_	224	Protein-L-isoaspartyl O-methyltransferase {Human (	89.96
d2h00a1	250	Methyltransferase 10 domain containing protein MET	89.92
d1hsja1	115	Staphylococcal accessory regulator A homolog, SarR	89.64
d1g8aa_	227	Fibrillarin homologue {Archaeon Pyrococcus horikos	89.49
d2fbia1	136	Probable transcriptional regulator PA4135 {Pseudom	89.35
d1p4xa2	125	Staphylococcal accessory regulator A homolog, SarS	89.21
d1xmka1	73	Z-alpha domain of dsRNA-specific adenosine deamina	88.83
d2a14a1	257	Indolethylamine N-methyltransferase, INMT {Human (	88.54
d2fbka1	172	Transcriptional regulator DR1159 {Deinococcus radi	87.67
d2frha1	115	Pleiotropic regulator of virulence genes, SarA {St	87.56
d1p4xa1	125	Staphylococcal accessory regulator A homolog, SarS	87.52
d1jg1a_	215	Protein-L-isoaspartyl O-methyltransferase {Archaeo	86.87
d2p41a1	257	An RNA cap (nucleoside-2'-O-)-methyltransferase do	86.69
d1ws6a1	171	Methyltransferase TTHA0928 {Thermus thermophilus [	86.67
d1r18a_	223	Protein-L-isoaspartyl O-methyltransferase {Fruit f	86.38
d2hs5a1	69	Putative transcriptional regulator RHA1_ro03477 {R	85.38
d3bwga1	78	Transcriptional regulator YydK {Bacillus subtilis	84.97
d1zyba1	73	Probable transcription regulator BT4300, C-termina	83.92
d1stza1	87	Heat-inducible transcription repressor HrcA, N-ter	83.91
d2dk5a1	78	DNA-directed RNA polymerase III subunit RPC6, RPO3	83.82
d1sfua_	70	34L {Yaba-like disease virus, YLDV [TaxId: 132475]	83.63
d1bl0a1	54	MarA {Escherichia coli [TaxId: 562]}	83.13
d2fxaa1	162	Protease production regulatory protein Hpr {Bacill	82.98
d1hw1a1	74	Fatty acid responsive transcription factor FadR, N	82.55
d2gaua1	81	Transcriptional regulator PG0396, C-terminal domai	81.93
d1cf7a_	67	Cell cycle transcription factor E2F-4 {Human (Homo	80.66
d2g9wa1	122	Hypothetical protein Rv1846c {Mycobacterium tuberc	80.1
d2zcwa1	82	Transcriptional regulator TTHA1359, C-terminal dom	80.09

>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=99.85  E-value=5.8e-22  Score=140.11  Aligned_cols=100  Identities=14%  Similarity=0.140  Sum_probs=89.6

Q ss_pred             cCCchhHHHHHHHHHHHhhhHHHHHHHHHHhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCc
Q 036971           10 KVTNEEEEVYSHAMVLGSAIVLPAVFQAVVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNI   89 (221)
Q Consensus        10 ~~~~~~~~~~~~l~~~~~g~~~~~aL~~av~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gl   89 (221)
                      |+..|..+++..||++++||+.+++|++|+++||||+|+++|  +|+|++|||+++++ ++. +++.|.|+||+|++.|+
T Consensus         1 ~~~~e~~qaq~~l~~~~~gf~~s~aL~~aveLgi~d~l~~~~--~p~t~~eLa~~~~~-~~~-~~~~L~RlLR~L~~~gi   76 (101)
T d1fp2a1           1 RKPSEIFKAQALLYKHIYAFIDSMSLKWAVEMNIPNIIQNHG--KPISLSNLVSILQV-PSS-KIGNVRRLMRYLAHNGF   76 (101)
T ss_dssp             CCSTHHHHHHHHHHHHHTTHHHHHHHHHHHHTTHHHHHHHHT--SCEEHHHHHHHHTC-CGG-GHHHHHHHHHHHHHTTS
T ss_pred             CChHHHHHHHHHHHHHHHhHHHHHHHHHHHHcCcHHHHHHcC--CCCCHHHHHHHcCC-CCc-cchHHHHHHHHHHhCCc
Confidence            567888999999999999999999999999999999999876  79999999999999 775 55579999999999999


Q ss_pred             eeeeccCCCCcceeccccccccccCC
Q 036971           90 LCCSFSTHGVRLYSLAPVAKYYVSDQ  115 (221)
Q Consensus        90 l~~~~~~~~~~~y~lt~~s~~L~~~~  115 (221)
                      |.++..  ++++|.||++|++|++++
T Consensus        77 ~~~~~~--~~~~Y~lt~~s~~Lv~~~  100 (101)
T d1fp2a1          77 FEIITK--EEESYALTVASELLVRGS  100 (101)
T ss_dssp             EEEEES--SSEEEEECHHHHTTSTTS
T ss_pred             eeeecC--CCCeEecCHHHHHhhcCC
Confidence            987532  467999999999998775

>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=99.85  E-value=2.9e-21  Score=157.43  Aligned_cols=104  Identities=42%  Similarity=0.835  Sum_probs=97.3

Q ss_pred             CChHHHHHHhcCccchhhhhhhHHHHhcCCchhHhhhCCchhhhhccCchHHHHHHHHHhhhhHHHHHHHHHhcCCCCCC
Q 036971          118 VSMRPYMNLSLDKVMMPGWFQLKDQILEGELSYNKALGMDFYDYLGTDSRFNEVFNNGMIGQTSFVINKIVESYKGFQNI  197 (221)
Q Consensus       118 ~~~~~~~~~~~~~~~~~~~~~L~~~l~~g~~~f~~~~g~~~~~~l~~~p~~~~~F~~aM~~~~~~~~~~~l~~~~~~~~~  197 (221)
                      .++++++.+..++.++++|.+|++++|+|+++|+.++|.++|+|+.++|+..+.|+++|...+...++.+++.|+.+++.
T Consensus         3 ~s~~~~~~~~~~~~~~~~W~~L~~avrtG~~~f~~~~G~~~~~~~~~~p~~~~~F~~aM~~~~~~~~~~~~~~~~~~~~~   82 (243)
T d1kyza2           3 VSISALNLMNQDKVLMESWYHLKDAVLDGGIPFNKAYGMTAFEYHGTDPRFNKVFNKGMSDHSTITMKKILETYTGFEGL   82 (243)
T ss_dssp             CCTHHHHHHHTSHHHHGGGGGHHHHHHHCSCHHHHHHSSCHHHHGGGCHHHHHHHHHHHHHHHHHHHHHHHHHCCTTSSC
T ss_pred             CcHHHHHHHhcCHHHHHHHHHHHHHHhhCCCHHHhhcCCCHHHHHHhCHHHHHHHHHHHhHhhhhHHHHHHHhcccccCC
Confidence            47999999988888899999999999999999999999999999999999999999999999888888999999944668


Q ss_pred             CeEEEecCCccHHHHHHHhhCCCC
Q 036971          198 TRLVDVGGGLGITLSDHNFQIPSY  221 (221)
Q Consensus       198 ~~vvDVGGG~G~~~~~l~~~~P~l  221 (221)
                      ++|||||||+|.++++|+++||++
T Consensus        83 ~~vvDvGGG~G~~~~~l~~~~P~l  106 (243)
T d1kyza2          83 KSLVDVGGGTGAVINTIVSKYPTI  106 (243)
T ss_dssp             SEEEEETCTTSHHHHHHHHHCTTS
T ss_pred             cEEEEecCCCcHHHHHHHHHCCCC
Confidence            999999999999999999999986

>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=99.82  E-value=1.3e-20  Score=153.63  Aligned_cols=103  Identities=24%  Similarity=0.565  Sum_probs=84.9

Q ss_pred             ChHHHHHHhcCccchhhhhhhHHHHhcCC-chhHhhhCCchhhhhccCchHHHHHHHHHhhhhHHHHHHHHHhcCCCCCC
Q 036971          119 SMRPYMNLSLDKVMMPGWFQLKDQILEGE-LSYNKALGMDFYDYLGTDSRFNEVFNNGMIGQTSFVINKIVESYKGFQNI  197 (221)
Q Consensus       119 ~~~~~~~~~~~~~~~~~~~~L~~~l~~g~-~~f~~~~g~~~~~~l~~~p~~~~~F~~aM~~~~~~~~~~~l~~~~~~~~~  197 (221)
                      ++++++.+++.+.++++|.+|++++++|+ ++|+.+||.++|||+.++|+..+.|+++|...+...++.+++.|+.|++.
T Consensus         3 ~l~~~~~~~~~p~~~~~w~~l~~~v~~g~~~~f~~~~G~~~~e~l~~~p~~~~~F~~aM~~~s~~~~~~l~~~~~~f~~~   82 (244)
T d1fp1d2           3 YLASFTTFLCYPALLQVWMNFKEAVVDEDIDLFKNVHGVTKYEFMGKDKKMNQIFNKSMVDVCATEMKRMLEIYTGFEGI   82 (244)
T ss_dssp             CCTHHHHHHTCHHHHHHHTTHHHHHHSCC--------------CCSSCHHHHHHHHHHHHHHHHHHHHHHHHHCCTTTTC
T ss_pred             cHHHHHHHHhCHHHHHHHHHHHHHHhcCCCCHhHHhcCCCHHHHHhhCHHHHHHHHHHHHHHHHHHHHHHHHhcccccCC
Confidence            78899999888889999999999999876 67999999999999999999999999999999999999999999978999


Q ss_pred             CeEEEecCCccHHHHHHHhhCCCC
Q 036971          198 TRLVDVGGGLGITLSDHNFQIPSY  221 (221)
Q Consensus       198 ~~vvDVGGG~G~~~~~l~~~~P~l  221 (221)
                      ++|||||||+|.++.+|+++||++
T Consensus        83 ~~vlDiGGG~G~~~~~l~~~~P~l  106 (244)
T d1fp1d2          83 STLVDVGGGSGRNLELIISKYPLI  106 (244)
T ss_dssp             SEEEEETCTTSHHHHHHHHHCTTC
T ss_pred             cEEEEecCCCcHHHHHHHHHCCCC
Confidence            999999999999999999999986

>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=99.75  E-value=7.4e-19  Score=143.08  Aligned_cols=102  Identities=25%  Similarity=0.518  Sum_probs=91.7

Q ss_pred             ChHHHHHHhcCccchhhhhhhHHHHhcCC-chhHhhhCCchhhhhccCchHHHHHHHHHhhhhHHHHHHHHHh-cCCCCC
Q 036971          119 SMRPYMNLSLDKVMMPGWFQLKDQILEGE-LSYNKALGMDFYDYLGTDSRFNEVFNNGMIGQTSFVINKIVES-YKGFQN  196 (221)
Q Consensus       119 ~~~~~~~~~~~~~~~~~~~~L~~~l~~g~-~~f~~~~g~~~~~~l~~~p~~~~~F~~aM~~~~~~~~~~~l~~-~~~~~~  196 (221)
                      ++++++++++++.++.+|..|+++++++. ++|+.++|.++|+|+.++|++.+.|+++|...+......+.+. ++ |++
T Consensus         2 s~ap~~~~~~~p~~~~~w~~l~~~~~~~~~~~f~~a~G~~~~e~l~~~pe~~~~F~~aM~~~s~~~~~~~~~~~~~-~~~   80 (244)
T d1fp2a2           2 CLAPMVECVLDPTLSGSYHELKKWIYEEDLTLFGVTLGSGFWDFLDKNPEYNTSFNDAMASDSKLINLALRDCDFV-FDG   80 (244)
T ss_dssp             CCHHHHHHHTCHHHHHGGGGHHHHHTCSSCCHHHHHHSSCHHHHHHHCHHHHHHHHHHHHHTHHHHHHHHHTCHHH-HTT
T ss_pred             ChHHHHHHHhCHHHHHHHHHHHHHHhcCCCCHHHHhhCCCHHHHHHhCHHHHHHHHHHhhhhhhhhhhhHhhhccc-ccC
Confidence            67899999998889999999999999885 6899999999999999999999999999999888766655543 34 788


Q ss_pred             CCeEEEecCCccHHHHHHHhhCCCC
Q 036971          197 ITRLVDVGGGLGITLSDHNFQIPSY  221 (221)
Q Consensus       197 ~~~vvDVGGG~G~~~~~l~~~~P~l  221 (221)
                      .++|||||||+|+++.+++++||++
T Consensus        81 ~~~vvDvGGG~G~~~~~l~~~~P~l  105 (244)
T d1fp2a2          81 LESIVDVGGGTGTTAKIICETFPKL  105 (244)
T ss_dssp             CSEEEEETCTTSHHHHHHHHHCTTC
T ss_pred             ceEEEEecCCccHHHHHHHHhCCCC
Confidence            9999999999999999999999986

>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=99.74  E-value=9.5e-19  Score=143.35  Aligned_cols=103  Identities=20%  Similarity=0.377  Sum_probs=92.5

Q ss_pred             CChHHHHHHhcCc-cchhhhhhhHHHHhcCCchhHhhhCCchhhhhccCchHHHHHHHHHhhhhHHHHHHHHHhcCCCCC
Q 036971          118 VSMRPYMNLSLDK-VMMPGWFQLKDQILEGELSYNKALGMDFYDYLGTDSRFNEVFNNGMIGQTSFVINKIVESYKGFQN  196 (221)
Q Consensus       118 ~~~~~~~~~~~~~-~~~~~~~~L~~~l~~g~~~f~~~~g~~~~~~l~~~p~~~~~F~~aM~~~~~~~~~~~l~~~~~~~~  196 (221)
                      .++++|+.+.... ....+|.+|.+++|+|+++|+..+|.++|+|+.++|+..+.|+++|...+...++.+++.|| |++
T Consensus         3 ~~~~~~~~l~~~~~~~~~~~~~L~~~~rtG~~~~~~~~G~~~~e~~~~~p~~~~~f~~~m~~~~~~~~~~~~~~~d-~~~   81 (256)
T d1qzza2           3 AQQRAWLDLNGAVSHADLAFTGLLDVVRTGRPAYAGRYGRPFWEDLSADVALADSFDALMSCDEDLAYEAPADAYD-WSA   81 (256)
T ss_dssp             TCHHHHHCTTSHHHHHHGGGGGHHHHHHHSCCSHHHHHSSCHHHHHHHCHHHHHHHHHTCGGGSTTTTHHHHHTSC-CTT
T ss_pred             HHHHHHHhhcCchhhhHhhHHHHHHHHHhCCchhhhhhCCCHHHHHHhCHHHHHHHHHHHHhhHHHHHHHHHhcCC-Ccc
Confidence            4788888765322 22347999999999999999999999999999999999999999999998888889999999 999


Q ss_pred             CCeEEEecCCccHHHHHHHhhCCCC
Q 036971          197 ITRLVDVGGGLGITLSDHNFQIPSY  221 (221)
Q Consensus       197 ~~~vvDVGGG~G~~~~~l~~~~P~l  221 (221)
                      .++|||||||.|.++.+|+++||++
T Consensus        82 ~~~vlDvG~G~G~~~~~l~~~~P~~  106 (256)
T d1qzza2          82 VRHVLDVGGGNGGMLAAIALRAPHL  106 (256)
T ss_dssp             CCEEEEETCTTSHHHHHHHHHCTTC
T ss_pred             CCEEEEECCCCCHHHHHHHHhhcCc
Confidence            9999999999999999999999985

>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=99.74  E-value=2.1e-18  Score=118.05  Aligned_cols=80  Identities=20%  Similarity=0.292  Sum_probs=73.6

Q ss_pred             HHHHhhhHHHHHHHHHHhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcce
Q 036971           23 MVLGSAIVLPAVFQAVVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLY  102 (221)
Q Consensus        23 ~~~~~g~~~~~aL~~av~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y  102 (221)
                      +..+.+++.+.+|++|+++||||+|.+    ||+|++|||+++|+ ++.    .+.|+||+|+++|+|+++    +++.|
T Consensus         6 l~~l~~~~~~~aL~~av~L~ifd~l~~----gp~s~~eLA~~~g~-~~~----~l~rlLr~l~a~gl~~e~----~~~~y   72 (85)
T d1tw3a1           6 LIRLGSLHTPMVVRTAATLRLVDHILA----GARTVKALAARTDT-RPE----ALLRLIRHLVAIGLLEED----APGEF   72 (85)
T ss_dssp             HHHHHCSHHHHHHHHHHHTTHHHHHHT----TCCBHHHHHHHHTC-CHH----HHHHHHHHHHHTTSEEEE----ETTEE
T ss_pred             HHHHHchHHHHHHHHHHHcCcHHHhcc----CCCCHHHHHHHhCc-Chh----HHHHHHHHHHHCCCeEec----CCCeE
Confidence            445578899999999999999999987    69999999999999 888    999999999999999997    68999


Q ss_pred             eccccccccccCC
Q 036971          103 SLAPVAKYYVSDQ  115 (221)
Q Consensus       103 ~lt~~s~~L~~~~  115 (221)
                      .+|+.|+.|.+||
T Consensus        73 ~lt~~s~~L~~Dh   85 (85)
T d1tw3a1          73 VPTEVGELLADDH   85 (85)
T ss_dssp             EECTTGGGGSTTS
T ss_pred             ecCHHHHHhhcCC
Confidence            9999999998774

>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=99.71  E-value=2.9e-17  Score=116.13  Aligned_cols=100  Identities=54%  Similarity=0.818  Sum_probs=83.1

Q ss_pred             hhHHHHHHHHHHHhhhHHHHHHHHHHhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           14 EEEEVYSHAMVLGSAIVLPAVFQAVVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        14 ~~~~~~~~l~~~~~g~~~~~aL~~av~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      +.+++....++++++++.+.+|++|++|||||+|+..|+++++|..|||.++..++|+ ++..|.|+||+|++.|+|.+.
T Consensus         3 ~dee~~l~a~~L~~~~v~pmaLk~AieLgI~DiI~~~G~~~~ls~~eia~~l~~~~p~-~~~~L~RilR~Las~~vf~~~   81 (107)
T d1kyza1           3 SDEEANLFAMQLASASVLPMILKSALELDLLEIIAKAGPGAQISPIEIASQLPTTNPD-APVMLDRMLRLLACYIILTCS   81 (107)
T ss_dssp             CHHHHHHHHHHHHTTTHHHHHHHHHHHTTHHHHHHTTCTTCCBCHHHHHHTSSCCCTT-HHHHHHHHHHHHHHTTSEEEE
T ss_pred             ccHHHHHHHHHHHHhhHHHHHHHHHHHcCCHHHHHHcCCCCCCCHHHHHHhcCCCCCc-chHHHHHHHHHHHhcCceEEe
Confidence            3456677888999999999999999999999999998866789999999999984444 556799999999999999875


Q ss_pred             ccCCCC----cceeccccccccccC
Q 036971           94 FSTHGV----RLYSLAPVAKYYVSD  114 (221)
Q Consensus        94 ~~~~~~----~~y~lt~~s~~L~~~  114 (221)
                      ....++    .+|.+||.+++|+++
T Consensus        82 ~~~~~dg~~~~~Y~LTpvsk~Lv~d  106 (107)
T d1kyza1          82 VRTQQDGKVQRLYGLATVAKYLVKN  106 (107)
T ss_dssp             EEECTTSCEEEEEEECHHHHHHSCC
T ss_pred             eecCCCCCeeeEEecchhHHhhcCC
Confidence            321122    369999999999875

>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=99.68  E-value=2.8e-17  Score=134.02  Aligned_cols=88  Identities=22%  Similarity=0.392  Sum_probs=83.6

Q ss_pred             hhhhhhhHHHHhcCCchhHhhhCCchhhhhccCchHHHHHHHHHhhhhHHHHHHHHHhcCCCCCCCeEEEecCCccHHHH
Q 036971          133 MPGWFQLKDQILEGELSYNKALGMDFYDYLGTDSRFNEVFNNGMIGQTSFVINKIVESYKGFQNITRLVDVGGGLGITLS  212 (221)
Q Consensus       133 ~~~~~~L~~~l~~g~~~f~~~~g~~~~~~l~~~p~~~~~F~~aM~~~~~~~~~~~l~~~~~~~~~~~vvDVGGG~G~~~~  212 (221)
                      ..+|.+|+++||+|+++|..++|.++|+|+.++|+..+.|+.+|...+...++.+++.|| |++.++|||||||+|.++.
T Consensus        18 ~~~~~~L~~~vr~G~~~~~~~~G~~~~~~~~~~~~~~~~f~~~m~~~~~~~~~~~~~~~d-~~~~~~VLDvGcG~G~~~~   96 (253)
T d1tw3a2          18 DISFTRLPDAIRTGRPTYESIYGKPFYEDLAGRPDLRASFDSLLACDQDVAFDAPAAAYD-WTNVRHVLDVGGGKGGFAA   96 (253)
T ss_dssp             GGGGGGHHHHHHHCCCCHHHHHSSCHHHHHHTCHHHHHHHHHHHTTTTTTTTHHHHHHSC-CTTCSEEEEETCTTSHHHH
T ss_pred             cccHHHHHHHHHhCCchhhhccCCCHHHHHhhCHHHHHHHHHHHHHhHHHHHHHHHhhcC-CccCCEEEEeCCCCCHHHH
Confidence            457999999999999999999999999999999999999999999988888889999999 9999999999999999999


Q ss_pred             HHHhhCCCC
Q 036971          213 DHNFQIPSY  221 (221)
Q Consensus       213 ~l~~~~P~l  221 (221)
                      .+++++|++
T Consensus        97 ~la~~~p~~  105 (253)
T d1tw3a2          97 AIARRAPHV  105 (253)
T ss_dssp             HHHHHCTTC
T ss_pred             HHHHhccee
Confidence            999999985

>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=99.68  E-value=3.1e-17  Score=113.62  Aligned_cols=87  Identities=14%  Similarity=0.154  Sum_probs=77.5

Q ss_pred             HHHHHHHHHHhhhHHHHHHHHHHhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccC
Q 036971           17 EVYSHAMVLGSAIVLPAVFQAVVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFST   96 (221)
Q Consensus        17 ~~~~~l~~~~~g~~~~~aL~~av~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~   96 (221)
                      .....+++++.+++.+++|++|+++||||+|+.    ||+|++|||+++|+ +++    .+.|+||+|+++|+|+++.. 
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----GADTLAGLADRTDT-HPQ----ALSRLVRHLTVVGVLEGGEK-   75 (92)
T ss_dssp             HHHHHHHHTTTCCHHHHHHHHHHHTTHHHHHHT----TCCSHHHHHHHHTC-CHH----HHHHHHHHHHHTTSEECCCC-
T ss_pred             hhHHHHHHHHHchHHHHHHHHHHHcCchHHHhC----CCCCHHHHHHHHCc-Cch----HHHHHHHHHHHCCCeeeecC-
Confidence            457889999999999999999999999999987    69999999999999 998    99999999999999999721 


Q ss_pred             CCCcceeccccccccccC
Q 036971           97 HGVRLYSLAPVAKYYVSD  114 (221)
Q Consensus        97 ~~~~~y~lt~~s~~L~~~  114 (221)
                       +.+.|++|+.+..|.++
T Consensus        76 -~~~~~~~t~~g~lL~dg   92 (92)
T d1qzza1          76 -QGRPLRPTRLGMLLADG   92 (92)
T ss_dssp             --CCCCEECTTGGGGSTT
T ss_pred             -CCceecccHHHHhccCC
Confidence             24478999999988753

>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=99.66  E-value=2.7e-16  Score=111.46  Aligned_cols=101  Identities=42%  Similarity=0.664  Sum_probs=82.0

Q ss_pred             hhHHHHHHHHHHHhhhHHHHHHHHHHhhChhhHHHhcC-CCCCCCHHHHHhhCCC--CCCcchhhhHHHHHHHHhcCCce
Q 036971           14 EEEEVYSHAMVLGSAIVLPAVFQAVVNLDVLDIINKAG-PGAELSASEIASQIPT--KNPEGAAKMLDRVLGLLVSFNIL   90 (221)
Q Consensus        14 ~~~~~~~~l~~~~~g~~~~~aL~~av~lglfd~L~~~g-~~~~~t~~eLA~~~g~--~~~~~~~~~l~rlLr~L~~~gll   90 (221)
                      +.+++....++++++++.+.+|++|++|||||+|+..| +++++|++|||.++..  ++|. .+..|.|+||.|++.++|
T Consensus         2 ~~~~~~l~a~~L~~~~v~pMaLk~AieLgI~diI~~~G~~~~~ls~~ela~~lp~~~~~p~-~~~~L~RiLRlLas~~vf   80 (110)
T d1fp1d1           2 TEDSACLSAMVLTTNLVYPAVLNAAIDLNLFEIIAKATPPGAFMSPSEIASKLPASTQHSD-LPNRLDRMLRLLASYSVL   80 (110)
T ss_dssp             CHHHHHHHHHHHHHTTHHHHHHHHHHHTTHHHHHHTCSSTTCCBCHHHHHTTSCGGGCCTT-HHHHHHHHHHHHHHTTSE
T ss_pred             chHHHHHHHHHHHHhhHHHHHHHHHHHcCCHHHHHHcCCCCCCCCHHHHHHhCCCCCCCcc-HHHHHHHHHHHHHHcCcc
Confidence            45677889999999999999999999999999999987 3456999999999875  1333 344699999999999999


Q ss_pred             eeeccCCCC----cceeccccccccccCC
Q 036971           91 CCSFSTHGV----RLYSLAPVAKYYVSDQ  115 (221)
Q Consensus        91 ~~~~~~~~~----~~y~lt~~s~~L~~~~  115 (221)
                      .+....+++    ..|.+||.+++|+++.
T Consensus        81 ~~~~~~~~~g~~e~~Y~Ltpvsk~Lv~de  109 (110)
T d1fp1d1          81 TSTTRTIEDGGAERVYGLSMVGKYLVPDE  109 (110)
T ss_dssp             EEEEEECTTSCEEEEEEECTTGGGGSTTC
T ss_pred             ccccccCCCCCeeeEEecchhhHhhcCCC
Confidence            865322122    2699999999999764

>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=98.16  E-value=9.4e-07  Score=57.54  Aligned_cols=57  Identities=19%  Similarity=0.185  Sum_probs=50.2

Q ss_pred             hChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceeccccc
Q 036971           41 LDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPVA  108 (221)
Q Consensus        41 lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~~s  108 (221)
                      +.|.+.+...+  +++++.|||+.+|+ ++.    -+.|+|..|+..|+++++    ++++|.+++-.
T Consensus         8 l~IL~~~a~~~--~~~s~~eia~~~~~-~~s----t~~rll~tL~~~g~l~~~----~~g~y~lG~~l   64 (75)
T d1mkma1           8 FEILDFIVKNP--GDVSVSEIAEKFNM-SVS----NAYKYMVVLEEKGFVLRK----KDKRYVPGYKL   64 (75)
T ss_dssp             HHHHHHHHHCS--SCBCHHHHHHHTTC-CHH----HHHHHHHHHHHTTSEEEC----TTSCEEECTHH
T ss_pred             HHHHHHHHhCC--CCCCHHHHHHHHCc-CHH----HHHHHHHHHHHCCCEEEC----CCCCEeecHHH
Confidence            45788898876  68999999999999 877    999999999999999997    57889998743

>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=97.08  E-value=0.00027  Score=56.39  Aligned_cols=47  Identities=11%  Similarity=0.150  Sum_probs=34.3

Q ss_pred             HHHHHHhhhhHHHHHHHHHhcCCCCCCCeEEEecCCccHHHHHHHhhC
Q 036971          171 VFNNGMIGQTSFVINKIVESYKGFQNITRLVDVGGGLGITLSDHNFQI  218 (221)
Q Consensus       171 ~F~~aM~~~~~~~~~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~  218 (221)
                      .+..++.......+..+.+..+ ++...+|||||||.|.++..+++++
T Consensus        43 ~~~~a~~~~~~~~~~~l~~~~~-l~~~~~vLDiGcG~G~~~~~la~~~   89 (282)
T d2o57a1          43 EIREASLRTDEWLASELAMTGV-LQRQAKGLDLGAGYGGAARFLVRKF   89 (282)
T ss_dssp             CHHHHHHHHHHHHHHHHHHTTC-CCTTCEEEEETCTTSHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHHHhcC-CCCCCEEEEeCCCCcHHHhhhhccC
Confidence            3444444444444555666666 8888999999999999999998865

>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=96.47  E-value=0.0021  Score=49.56  Aligned_cols=34  Identities=18%  Similarity=0.225  Sum_probs=27.0

Q ss_pred             HHHHHhcCCCCCCCeEEEecCCccHHHHHHHhhCC
Q 036971          185 NKIVESYKGFQNITRLVDVGGGLGITLSDHNFQIP  219 (221)
Q Consensus       185 ~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P  219 (221)
                      ..+++.+. ....++|||||||+|..+..++++..
T Consensus        31 ~~~~~~~~-~~~~~~iLDiGcGtG~~~~~l~~~~~   64 (251)
T d1wzna1          31 EEIFKEDA-KREVRRVLDLACGTGIPTLELAERGY   64 (251)
T ss_dssp             HHHHHHTC-SSCCCEEEEETCTTCHHHHHHHHTTC
T ss_pred             HHHHHHhc-CCCCCEEEEeCCCCCccchhhcccce
Confidence            34555666 66678999999999999999988754

>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=96.25  E-value=0.0016  Score=48.95  Aligned_cols=33  Identities=21%  Similarity=0.307  Sum_probs=27.2

Q ss_pred             HHHhcCCCCCCCeEEEecCCccHHHHHHHhhCCC
Q 036971          187 IVESYKGFQNITRLVDVGGGLGITLSDHNFQIPS  220 (221)
Q Consensus       187 ~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~  220 (221)
                      +++.++ -....+|||||||.|.++..+++..|+
T Consensus        44 Li~~l~-~~~~~~VLDiGcG~G~~~~~la~~~~~   76 (194)
T d1dusa_          44 LVENVV-VDKDDDILDLGCGYGVIGIALADEVKS   76 (194)
T ss_dssp             HHHHCC-CCTTCEEEEETCTTSHHHHHHGGGSSE
T ss_pred             HHHhCC-cCCCCeEEEEeecCChhHHHHHhhccc
Confidence            455666 556789999999999999999988875

>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=0.0025  Score=40.02  Aligned_cols=47  Identities=11%  Similarity=0.235  Sum_probs=41.5

Q ss_pred             HhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           39 VNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        39 v~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      -...|+..|...   +++|..|||+.+|+ .+.    .+.++++.|...|++.+.
T Consensus         7 N~~~Il~~l~~~---g~~sr~eLa~~~gl-S~~----Tv~~~l~~L~~~Glv~e~   53 (71)
T d1z05a1           7 NAGRVYKLIDQK---GPISRIDLSKESEL-APA----SITKITRELIDAHLIHET   53 (71)
T ss_dssp             HHHHHHHHHHHH---CSBCHHHHHHHHTC-CHH----HHHHHHHHHHHTTSEEEE
T ss_pred             HHHHHHHHHHHc---CCcCHHHHHHHHCC-CHH----HHHHHHHHHHHCCCEEEe
Confidence            344688889887   59999999999999 877    999999999999999875

>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=96.10  E-value=0.0015  Score=43.65  Aligned_cols=52  Identities=15%  Similarity=0.279  Sum_probs=45.5

Q ss_pred             HHHHHHHhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           33 AVFQAVVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        33 ~aL~~av~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      .+|.--.++.|+..|..    ++.++.||++.+|+ ...    .+.+-|+.|...|++...
T Consensus        13 kaL~d~~Rl~Il~~L~~----~~~~v~el~~~l~~-s~~----~vS~HL~~L~~~glv~~~   64 (94)
T d1r1ua_          13 KALGDYNRIRIMELLSV----SEASVGHISHQLNL-SQS----NVSHQLKLLKSVHLVKAK   64 (94)
T ss_dssp             HHTCSHHHHHHHHHHHH----CCBCHHHHHHHHTC-CHH----HHHHHHHHHHHTTSEEEE
T ss_pred             HHhCCHHHHHHHHHHHc----CCccHHHHHHHHCC-CHH----HHHHHHHHHHHCCceEEE
Confidence            45556677888889987    69999999999999 776    999999999999999986

>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=96.09  E-value=0.0028  Score=50.97  Aligned_cols=35  Identities=17%  Similarity=0.266  Sum_probs=30.3

Q ss_pred             HHHHHHhcCCCCCCCeEEEecCCccHHHHHHHhhCC
Q 036971          184 INKIVESYKGFQNITRLVDVGGGLGITLSDHNFQIP  219 (221)
Q Consensus       184 ~~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P  219 (221)
                      ...+++... .+...+|||||||.|.++..++++++
T Consensus        50 ~~~~~~~l~-l~~G~~VLDiGCG~G~~~~~~a~~~g   84 (291)
T d1kpia_          50 RKLALDKLN-LEPGMTLLDIGCGWGSTMRHAVAEYD   84 (291)
T ss_dssp             HHHHHHTTC-CCTTCEEEEETCTTSHHHHHHHHHHC
T ss_pred             HHHHHHhcC-CCCCCEEEEecCcchHHHHHHHHhcC
Confidence            345778888 88889999999999999999998876

>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=96.01  E-value=0.0048  Score=38.00  Aligned_cols=52  Identities=23%  Similarity=0.225  Sum_probs=43.1

Q ss_pred             ChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCccee
Q 036971           42 DVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYS  103 (221)
Q Consensus        42 glfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~  103 (221)
                      .|-+.+.++|= .|-++.|||+.+|+ ++.    .++.+|+.|+..|.+.+.    ..+.|-
T Consensus        11 ~I~~~~~~~g~-~PP~vrdl~~~l~~-~e~----~~~~lL~~l~~~G~lvkI----~~d~yf   62 (64)
T d1lvaa3          11 DLEDKYRVSRW-QPPSFKEVAGSFNL-DPS----ELEELLHYLVREGVLVKI----NDEFYW   62 (64)
T ss_dssp             HHHHHHHHHTT-SCCBHHHHHHHTTC-CHH----HHHHHHHHHHHTTSEEES----SSSBEE
T ss_pred             HHHHHHHHcCC-CCCcHHHHHHHhCC-CHH----HHHHHHHHHHHCCCEEEe----cccccc
Confidence            34556666543 58999999999999 888    999999999999999998    577764

>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=95.99  E-value=0.0018  Score=43.37  Aligned_cols=66  Identities=12%  Similarity=0.082  Sum_probs=51.3

Q ss_pred             HHHhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCC---cceecccccccc
Q 036971           37 AVVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGV---RLYSLAPVAKYY  111 (221)
Q Consensus        37 ~av~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~---~~y~lt~~s~~L  111 (221)
                      .-.++.|...|...   +++|+.|||+.+++ .+.    .+.+.|+.|...|+++..... .+   -.|++|+.++..
T Consensus        15 ~p~r~~IL~~L~~~---~~~~~~eLa~~l~i-s~~----~vs~~l~~L~~~glV~~~~~~-~d~r~~~~~LT~~G~~~   83 (100)
T d1ub9a_          15 NPVRLGIMIFLLPR---RKAPFSQIQKVLDL-TPG----NLDSHIRVLERNGLVKTYKVI-ADRPRTVVEITDFGMEE   83 (100)
T ss_dssp             SHHHHHHHHHHHHH---SEEEHHHHHHHTTC-CHH----HHHHHHHHHHHTTSEEEEEEC-SSSCEEEEEECHHHHHH
T ss_pred             CHHHHHHHHHhccC---CCeeHHHHHHHHhh-ccc----cccHHHHHHhhhceeEEEEcC-cCCccccccCCHHHHHH
Confidence            34467788889776   48999999999999 777    999999999999999875321 11   248888877543

>d1xd7a_ a.4.5.55 (A:) Hypothetical protein ywnA {Bacillus subtilis [TaxId: 1423]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Transcriptional regulator Rrf2
domain: Hypothetical protein ywnA
species: Bacillus subtilis [TaxId: 1423]

Probab=95.95  E-value=0.0037  Score=43.76  Aligned_cols=43  Identities=30%  Similarity=0.439  Sum_probs=36.9

Q ss_pred             hhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeec
Q 036971           44 LDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSF   94 (221)
Q Consensus        44 fd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~   94 (221)
                      .-.|+.+   +++|.++||+.+++ +|.    .++++|+.|...|+++-.+
T Consensus        10 L~~la~~---~~~ss~~IA~~~~~-~~~----~v~kIl~~L~~aglV~s~r   52 (127)
T d1xd7a_          10 LSLISMD---EKTSSEIIADSVNT-NPV----VVRRMISLLKKADILTSRA   52 (127)
T ss_dssp             HHHHHTC---SCCCHHHHHHHHTS-CHH----HHHHHHHHHHHTTSEECCS
T ss_pred             HHHHhcC---CCCCHHHHHHHhCc-CHH----HHHHHHHHHHHhCcccccC
Confidence            3455654   58999999999999 888    9999999999999999764

>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=95.94  E-value=0.0033  Score=38.59  Aligned_cols=56  Identities=13%  Similarity=0.242  Sum_probs=44.1

Q ss_pred             HhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceecc
Q 036971           39 VNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLA  105 (221)
Q Consensus        39 v~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt  105 (221)
                      .++.|...|.+.   +.+|.+|||+.+|+ ...    .+++-+..|...|+.....   .+..|++.
T Consensus         6 ~~~~iL~~L~~~---~~~s~~eLa~~l~v-S~~----ti~r~i~~L~~~G~~I~~~---~g~GY~L~   61 (63)
T d1biaa1           6 VPLKLIALLANG---EFHSGEQLGETLGM-SRA----AINKHIQTLRDWGVDVFTV---PGKGYSLP   61 (63)
T ss_dssp             HHHHHHHHHTTS---SCBCHHHHHHHHTS-CHH----HHHHHHHHHHHTTCCCEEE---TTTEEECS
T ss_pred             HHHHHHHHHHHC---CcCCHHHHHHHHCc-CHH----HHHHHHHHHHHCCCcEEEe---CCCeEEeC
Confidence            356678888775   58999999999999 887    9999999999999855441   23358765

>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=95.91  E-value=0.0034  Score=50.07  Aligned_cols=35  Identities=17%  Similarity=0.312  Sum_probs=29.4

Q ss_pred             HHHHHHhcCCCCCCCeEEEecCCccHHHHHHHhhCC
Q 036971          184 INKIVESYKGFQNITRLVDVGGGLGITLSDHNFQIP  219 (221)
Q Consensus       184 ~~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P  219 (221)
                      ...+++... .++..+|||||||.|.++..+++.++
T Consensus        41 ~~~~~~~l~-l~~g~~VLDiGCG~G~~a~~~a~~~g   75 (280)
T d2fk8a1          41 VDLNLDKLD-LKPGMTLLDIGCGWGTTMRRAVERFD   75 (280)
T ss_dssp             HHHHHTTSC-CCTTCEEEEESCTTSHHHHHHHHHHC
T ss_pred             HHHHHHHcC-CCCCCEEEEecCCchHHHHHHHHhCc
Confidence            345777887 88889999999999999998887764

>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=95.86  E-value=0.0022  Score=43.06  Aligned_cols=52  Identities=19%  Similarity=0.339  Sum_probs=45.2

Q ss_pred             HHHHHHHhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           33 AVFQAVVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        33 ~aL~~av~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      .+|.--.++.|...|..    ++.++.|||+.+|+ +..    .+.+-|+.|...|++...
T Consensus        18 kaL~~p~Rl~Il~~L~~----~~~~v~ela~~l~i-s~s----tvS~HL~~L~~aglV~~~   69 (98)
T d1r1ta_          18 AVLADPNRLRLLSLLAR----SELCVGDLAQAIGV-SES----AVSHQLRSLRNLRLVSYR   69 (98)
T ss_dssp             HHHCCHHHHHHHHHHTT----CCBCHHHHHHHHTC-CHH----HHHHHHHHHHHTTSEEEE
T ss_pred             HHhCCHHHHHHHHHHHc----CCcCHHHHHHHHCc-CHH----HHHHHHHHHHHCCceEEE
Confidence            45566677788888876    68999999999999 776    999999999999999986

>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=95.83  E-value=0.005  Score=48.55  Aligned_cols=32  Identities=22%  Similarity=0.366  Sum_probs=25.9

Q ss_pred             HHHhcCCCCCCCeEEEecCCccHHHHHHHhhCCC
Q 036971          187 IVESYKGFQNITRLVDVGGGLGITLSDHNFQIPS  220 (221)
Q Consensus       187 ~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~  220 (221)
                      +.+..+  ....+|||||||.|.++..+++.+|+
T Consensus        77 l~~~~~--~~~~~iLDiGcG~G~~~~~l~~~~~~  108 (268)
T d1p91a_          77 LRERLD--DKATAVLDIGCGEGYYTHAFADALPE  108 (268)
T ss_dssp             HHHHSC--TTCCEEEEETCTTSTTHHHHHHTCTT
T ss_pred             HHHhcC--CCCCEEEEeCCCCcHHHHHHHHHCCC
Confidence            344444  34579999999999999999999986

>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=95.81  E-value=0.0039  Score=49.91  Aligned_cols=35  Identities=26%  Similarity=0.276  Sum_probs=29.8

Q ss_pred             HHHHHHhcCCCCCCCeEEEecCCccHHHHHHHhhCC
Q 036971          184 INKIVESYKGFQNITRLVDVGGGLGITLSDHNFQIP  219 (221)
Q Consensus       184 ~~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P  219 (221)
                      ...+++... .++..+|||||||.|..+..+++.++
T Consensus        51 ~~~~~~~l~-l~~G~~VLDiGCG~G~~a~~~a~~~g   85 (285)
T d1kpga_          51 IDLALGKLG-LQPGMTLLDVGCGWGATMMRAVEKYD   85 (285)
T ss_dssp             HHHHHTTTT-CCTTCEEEEETCTTSHHHHHHHHHHC
T ss_pred             HHHHHHHcC-CCCCCEEEEecCcchHHHHHHHhcCC
Confidence            356777787 88889999999999999999988764

>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=95.77  E-value=0.0049  Score=46.34  Aligned_cols=31  Identities=13%  Similarity=0.102  Sum_probs=23.5

Q ss_pred             HHHHhcCCCCCCCeEEEecCCccHHHHHHHhhC
Q 036971          186 KIVESYKGFQNITRLVDVGGGLGITLSDHNFQI  218 (221)
Q Consensus       186 ~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~  218 (221)
                      .++..+  .+...+|||||||+|.++..+++..
T Consensus        29 ~~~~~~--l~~~~~ILDiGcG~G~~~~~la~~~   59 (226)
T d1ve3a1          29 PLLMKY--MKKRGKVLDLACGVGGFSFLLEDYG   59 (226)
T ss_dssp             HHHHHS--CCSCCEEEEETCTTSHHHHHHHHTT
T ss_pred             HHHHHh--cCCCCEEEEECCCcchhhhhHhhhh
Confidence            345444  2345799999999999999998754

>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=95.64  E-value=0.0044  Score=52.11  Aligned_cols=35  Identities=11%  Similarity=0.374  Sum_probs=29.8

Q ss_pred             HHHHHHhcCCCCCCCeEEEecCCccHHHHHHHhhCC
Q 036971          184 INKIVESYKGFQNITRLVDVGGGLGITLSDHNFQIP  219 (221)
Q Consensus       184 ~~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P  219 (221)
                      +..+++..+ .....+|||||||.|..+..+++.+|
T Consensus       205 i~~Il~~l~-Lkpgd~fLDLGCG~G~~vl~aA~~~g  239 (406)
T d1u2za_         205 LSDVYQQCQ-LKKGDTFMDLGSGVGNCVVQAALECG  239 (406)
T ss_dssp             HHHHHHHTT-CCTTCEEEEESCTTSHHHHHHHHHHC
T ss_pred             HHHHHHHhC-CCCCCEEEeCCCCCcHHHHHHHHHcC
Confidence            345677777 77788999999999999999998876

>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=95.61  E-value=0.0035  Score=42.82  Aligned_cols=55  Identities=11%  Similarity=0.075  Sum_probs=48.4

Q ss_pred             HHHHHHHHHhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           31 LPAVFQAVVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        31 ~~~aL~~av~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      .+.||.--.++.|+..|...   +++++.|||+.+|+ .+.    .+.+-|+.|...|++...
T Consensus        24 ~~kaLadp~Rl~Il~~L~~~---~~~~v~ela~~l~~-s~s----~vS~HL~~L~~aGlv~~~   78 (108)
T d1u2wa1          24 ILKAIADENRAKITYALCQD---EELCVCDIANILGV-TIA----NASHHLRTLYKQGVVNFR   78 (108)
T ss_dssp             HHHHHHSHHHHHHHHHHHHS---SCEEHHHHHHHHTC-CHH----HHHHHHHHHHHTTSEEEC
T ss_pred             HHHHhCCHHHHHHHHHHHhC---CCccHHHHHHHHcc-Chh----HHHHHHHHHHHCCeeEEE
Confidence            45677778889999998765   58999999999999 776    999999999999999986

>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=95.55  E-value=0.0033  Score=48.73  Aligned_cols=30  Identities=13%  Similarity=0.113  Sum_probs=26.0

Q ss_pred             hcCCCCCCCeEEEecCCccHHHHHHHhhCCC
Q 036971          190 SYKGFQNITRLVDVGGGLGITLSDHNFQIPS  220 (221)
Q Consensus       190 ~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~  220 (221)
                      .++ .....+|+|||||+|..+..+++..|+
T Consensus        69 ~l~-ikpG~~VLDlGcGsG~~~~~la~~~~~   98 (230)
T d1g8sa_          69 VMP-IKRDSKILYLGASAGTTPSHVADIADK   98 (230)
T ss_dssp             CCC-CCTTCEEEEESCCSSHHHHHHHHHTTT
T ss_pred             hCC-CCCCCEEEEeCEEcCHHHHHHHHhCCC
Confidence            445 677789999999999999999998875

>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=95.50  E-value=0.0048  Score=46.99  Aligned_cols=30  Identities=17%  Similarity=0.265  Sum_probs=23.4

Q ss_pred             HHHhcCCCCCCCeEEEecCCccHHHHHHHhhC
Q 036971          187 IVESYKGFQNITRLVDVGGGLGITLSDHNFQI  218 (221)
Q Consensus       187 ~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~  218 (221)
                      +++.+  .....+|||||||+|..+..+++..
T Consensus        32 ~~~~~--~~~~~~vLDlGCGtG~~~~~l~~~~   61 (225)
T d1im8a_          32 LAERF--VTADSNVYDLGCSRGAATLSARRNI   61 (225)
T ss_dssp             HHHHH--CCTTCEEEEESCTTCHHHHHHHHTC
T ss_pred             HHHHh--cCCCCEEEEeccchhhHHHHHHHhh
Confidence            44444  3345799999999999999999864

>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=95.48  E-value=0.0043  Score=37.94  Aligned_cols=43  Identities=16%  Similarity=0.255  Sum_probs=38.9

Q ss_pred             ChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           42 DVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        42 glfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      .|+..|.+    +|+|-.|||+.+|+ ...    .+.++++-|...|++.+.
T Consensus         3 ~Il~~i~~----~pisr~eLa~~~gl-s~~----TVs~~v~~L~~~GlV~e~   45 (62)
T d2hoea1           3 RILKRIMK----SPVSRVELAEELGL-TKT----TVGEIAKIFLEKGIVVEE   45 (62)
T ss_dssp             CSHHHHHH----SCBCHHHHHHHHTC-CHH----HHHHHHHHHHHHTSEEEE
T ss_pred             HHHHHHHH----CCcCHHHHHHHHCc-CHH----HHHHHHHHHHHCCCEEEC
Confidence            47788887    59999999999999 776    899999999999999986

>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=95.42  E-value=0.0049  Score=48.24  Aligned_cols=34  Identities=18%  Similarity=0.289  Sum_probs=27.8

Q ss_pred             HHHHHhcCCCCCCCeEEEecCCccHHHHHHHhhCC
Q 036971          185 NKIVESYKGFQNITRLVDVGGGLGITLSDHNFQIP  219 (221)
Q Consensus       185 ~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P  219 (221)
                      ..+++.++ ..+..+|||||||.|.++..++..++
T Consensus        83 ~~fl~~l~-~~~~~~vLD~GcG~G~~t~~ll~~~~  116 (254)
T d1xtpa_          83 RNFIASLP-GHGTSRALDCGAGIGRITKNLLTKLY  116 (254)
T ss_dssp             HHHHHTST-TCCCSEEEEETCTTTHHHHHTHHHHC
T ss_pred             HHHHhhCC-CCCCCeEEEecccCChhhHHHHhhcC
Confidence            45677777 66778999999999999999887654

>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=95.39  E-value=0.005  Score=47.29  Aligned_cols=23  Identities=26%  Similarity=0.228  Sum_probs=20.3

Q ss_pred             CCeEEEecCCccHHHHHHHhhCC
Q 036971          197 ITRLVDVGGGLGITLSDHNFQIP  219 (221)
Q Consensus       197 ~~~vvDVGGG~G~~~~~l~~~~P  219 (221)
                      ..+|||||||.|..+..+++..|
T Consensus        54 g~~VLdIGcG~G~~a~~~a~~~~   76 (229)
T d1zx0a1          54 GGRVLEVGFGMAIAASKVQEAPI   76 (229)
T ss_dssp             CEEEEEECCTTSHHHHHHHTSCE
T ss_pred             CCeEEEeeccchHHHHHHHHcCC
Confidence            47899999999999999988655

>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=95.36  E-value=0.0087  Score=37.36  Aligned_cols=46  Identities=9%  Similarity=0.179  Sum_probs=41.0

Q ss_pred             hhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           40 NLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        40 ~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      ...|+..|...   +++|-.|||+.+|+ .+.    .+.++++.|...|++.+.
T Consensus         7 ~~~Il~~i~~~---g~~sr~eLa~~~gL-S~~----Tvs~iv~~L~~~glv~e~   52 (70)
T d1z6ra1           7 AGAVYRLIDQL---GPVSRIDLSRLAQL-APA----SITKIVHEMLEAHLVQEL   52 (70)
T ss_dssp             HHHHHHHHHSS---CSCCHHHHHHHTTC-CHH----HHHHHHHHHHHHTSEEEC
T ss_pred             HHHHHHHHHHc---CCcCHHHHHHHHCc-CHH----HHHHHHHHHHHCCCEEee
Confidence            34588899987   59999999999999 776    899999999999999875

>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=95.25  E-value=0.0064  Score=47.83  Aligned_cols=33  Identities=15%  Similarity=0.208  Sum_probs=21.0

Q ss_pred             HHHHHhcCCCCCCCeEEEecCCccHHHHHHHhh
Q 036971          185 NKIVESYKGFQNITRLVDVGGGLGITLSDHNFQ  217 (221)
Q Consensus       185 ~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~  217 (221)
                      +.++..+...+...+|||||||+|.++..|+++
T Consensus        29 ~~~l~~l~~~~~~~~VLDiGcG~G~~~~~ll~~   61 (280)
T d1jqea_          29 PGIIGRIGDTKSEIKILSIGGGAGEIDLQILSK   61 (280)
T ss_dssp             HHHTTTTTTTCSEEEEEEETCTTSHHHHHHHHH
T ss_pred             HHHHHHhccCCCCCeEEEEcCCCCHHHHHHHHH
Confidence            444444321233347999999999987766543

>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=95.22  E-value=0.0064  Score=45.35  Aligned_cols=70  Identities=10%  Similarity=0.156  Sum_probs=52.9

Q ss_pred             HHHHHHHHHhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCC----cceeccc
Q 036971           31 LPAVFQAVVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGV----RLYSLAP  106 (221)
Q Consensus        31 ~~~aL~~av~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~----~~y~lt~  106 (221)
                      ...+|.--.+..|+..|..    +|+|+.|||+.+|+ ++.    .+.+.|+.|...|++.........    -.|++|+
T Consensus        12 ~~~~l~~p~R~~Il~~L~~----~~~s~~ela~~lg~-s~~----~v~~hl~~L~~~glv~~~~~~~~~g~~~k~y~~~~   82 (190)
T d1ulya_          12 VIKVMLEDTRRKILKLLRN----KEMTISQLSEILGK-TPQ----TIYHHIEKLKEAGLVEVKRTEMKGNLVEKYYGRTA   82 (190)
T ss_dssp             HHHHHHSHHHHHHHHHHTT----CCBCHHHHHHHHTC-CHH----HHHHHHHHHHHTTSEEEEEEEEETTEEEEEEEESS
T ss_pred             HHHHhCCHHHHHHHHHHHh----CCCCHHHHHHHHCc-CHH----HHHHHHHHHHHCCCeEEEEeeccCCcceEEEEEcc
Confidence            3456666678889999976    69999999999999 877    999999999999999754210011    2477776


Q ss_pred             ccc
Q 036971          107 VAK  109 (221)
Q Consensus       107 ~s~  109 (221)
                      .+.
T Consensus        83 ~~~   85 (190)
T d1ulya_          83 DVF   85 (190)
T ss_dssp             SEE
T ss_pred             cce
Confidence            543

>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=95.15  E-value=0.017  Score=40.81  Aligned_cols=66  Identities=24%  Similarity=0.250  Sum_probs=50.4

Q ss_pred             HhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCc---ceecccccccccc
Q 036971           39 VNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVR---LYSLAPVAKYYVS  113 (221)
Q Consensus        39 v~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~---~y~lt~~s~~L~~  113 (221)
                      .+..+...|...   +++|+.+||+.+++ ++.    .+.+++..|...|++.+.... .+.   .+.+|+.++.+..
T Consensus        36 ~q~~iL~~l~~~---~~~t~~~la~~~~i-~~~----~vs~~l~~L~~~glv~r~~~~-~D~R~~~v~lT~~G~~~~~  104 (143)
T d1s3ja_          36 AQLFVLASLKKH---GSLKVSEIAERMEV-KPS----AVTLMADRLEQKNLIARTHNT-KDRRVIDLSLTDEGDIKFE  104 (143)
T ss_dssp             HHHHHHHHHHHH---SEEEHHHHHHHHTS-CHH----HHHHHHHHHHHTTSEEEEECS-SCTTSEEEEECHHHHHHHH
T ss_pred             HHHHHHHHHHHC---CCCCHHHHHHHHCc-CHH----HHHHHHHHHHHhhhheeeeec-CCCCceEEEECHHHHHHHH
Confidence            334467777776   48999999999999 887    999999999999999976321 122   3777877776553

>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=95.14  E-value=0.0035  Score=48.39  Aligned_cols=24  Identities=13%  Similarity=0.165  Sum_probs=21.2

Q ss_pred             CCeEEEecCCccHHHHHHHhhCCC
Q 036971          197 ITRLVDVGGGLGITLSDHNFQIPS  220 (221)
Q Consensus       197 ~~~vvDVGGG~G~~~~~l~~~~P~  220 (221)
                      .++|||||||+|.++..+++..++
T Consensus        38 ~~~vLDiGCG~G~~~~~l~~~g~~   61 (246)
T d1y8ca_          38 FDDYLDLACGTGNLTENLCPKFKN   61 (246)
T ss_dssp             TTEEEEETCTTSTTHHHHGGGSSE
T ss_pred             CCeEEEEeCcCCHHHHHHHHhCCc
Confidence            478999999999999999987654

>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=95.08  E-value=0.012  Score=47.84  Aligned_cols=35  Identities=17%  Similarity=0.348  Sum_probs=30.0

Q ss_pred             HHHHHhcCCCCCCCeEEEecCCccHHHHHHHhhCCC
Q 036971          185 NKIVESYKGFQNITRLVDVGGGLGITLSDHNFQIPS  220 (221)
Q Consensus       185 ~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~  220 (221)
                      ..+++.+. .....+|+|||||.|.++..+++.+|.
T Consensus       141 ~~~~~~~~-l~~~~~vlD~GcG~G~~~~~~a~~~~~  175 (328)
T d1nw3a_         141 AQMIDEIK-MTDDDLFVDLGSGVGQVVLQVAAATNC  175 (328)
T ss_dssp             HHHHHHSC-CCTTCEEEEETCTTSHHHHHHHHHCCC
T ss_pred             HHHHHHcC-CCCCCEEEEcCCCCCHHHHHHHHHhCC
Confidence            45677787 777889999999999999999988774

>d1j5ya1 a.4.5.1 (A:3-67) Putative transcriptional regulator TM1602, N-terminal domain {Thermotoga maritima [TaxId: 2336]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Biotin repressor-like
domain: Putative transcriptional regulator TM1602, N-terminal domain
species: Thermotoga maritima [TaxId: 2336]

Probab=95.08  E-value=0.011  Score=36.29  Aligned_cols=55  Identities=16%  Similarity=0.325  Sum_probs=43.6

Q ss_pred             hhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCc-eeeeccCCCCcceeccc
Q 036971           40 NLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNI-LCCSFSTHGVRLYSLAP  106 (221)
Q Consensus        40 ~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gl-l~~~~~~~~~~~y~lt~  106 (221)
                      ...|.+.|.+..  +++|.++||+.+++ ..+    -++|-+..|...|+ +...     .+.|.+.+
T Consensus         9 ~~~Il~~L~~~~--~~vs~~~La~~l~V-S~~----TI~rdi~~L~~~G~~I~~~-----~gGY~L~~   64 (65)
T d1j5ya1           9 LKSIVRILERSK--EPVSGAQLAEELSV-SRQ----VIVQDIAYLRSLGYNIVAT-----PRGYVLAG   64 (65)
T ss_dssp             HHHHHHHHHHCS--SCBCHHHHHHHHTS-CHH----HHHHHHHHHHHHTCCCEEE-----TTEEECCT
T ss_pred             HHHHHHHHHHcC--CCCcHHHHHHHHCC-CHH----HHHHHHHHHHHCCCeEEEe-----CCCEEeCC
Confidence            356778887753  57999999999999 887    89999999999997 4443     55787753

>d1ylfa1 a.4.5.55 (A:5-142) Hypothetical protein BC1842 {Bacillus cereus [TaxId: 1396]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Transcriptional regulator Rrf2
domain: Hypothetical protein BC1842
species: Bacillus cereus [TaxId: 1396]

Probab=95.08  E-value=0.0089  Score=42.31  Aligned_cols=45  Identities=16%  Similarity=0.225  Sum_probs=37.3

Q ss_pred             CCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceeccc
Q 036971           54 AELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAP  106 (221)
Q Consensus        54 ~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~  106 (221)
                      .++|.++||+.+++ ++.    .|+++|..|...|++.-.+   +.|.|.+..
T Consensus        22 ~~vss~~IA~~~~i-~~~----~l~kil~~L~~aGlv~S~r---G~GG~~L~~   66 (138)
T d1ylfa1          22 SLCTSDYMAESVNT-NPV----VIRKIMSYLKQAGFVYVNR---GPGGAGLLK   66 (138)
T ss_dssp             GGCCHHHHHHHHTS-CHH----HHHHHHHHHHHTTSEEEC------CCEEESS
T ss_pred             CcCcHHHHHHHHCc-CHH----HHHHHHHHHHHCCCeEeec---CCCCceecC
Confidence            58999999999999 888    9999999999999998764   246676653

>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=95.03  E-value=0.0062  Score=46.31  Aligned_cols=26  Identities=15%  Similarity=0.202  Sum_probs=21.6

Q ss_pred             CCCCCeEEEecCCccHHHHHHHhhCC
Q 036971          194 FQNITRLVDVGGGLGITLSDHNFQIP  219 (221)
Q Consensus       194 ~~~~~~vvDVGGG~G~~~~~l~~~~P  219 (221)
                      ..+..+|||||||.|.++..+++.++
T Consensus        58 ~~~~~~vLDiGcG~G~~~~~l~~~~~   83 (222)
T d2ex4a1          58 KTGTSCALDCGAGIGRITKRLLLPLF   83 (222)
T ss_dssp             CCCCSEEEEETCTTTHHHHHTTTTTC
T ss_pred             CCCCCEEEEeccCCCHhhHHHHHhcC
Confidence            34567999999999999999877665

>d2d1ha1 a.4.5.50 (A:1-109) Hypothetical transcriptional regulator ST1889 {Sulfolobus tokodaii [TaxId: 111955]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: TrmB-like
domain: Hypothetical transcriptional regulator ST1889
species: Sulfolobus tokodaii [TaxId: 111955]

Probab=95.03  E-value=0.0053  Score=41.62  Aligned_cols=35  Identities=11%  Similarity=0.278  Sum_probs=32.9

Q ss_pred             CCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           54 AELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        54 ~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      +++|+.+||+.+++ ++.    .+.++|+-|...|++.+.
T Consensus        35 ~~~t~~eLa~~~~i-~~~----tvs~~l~~L~~~GlV~r~   69 (109)
T d2d1ha1          35 KPITSEELADIFKL-SKT----TVENSLKKLIELGLVVRT   69 (109)
T ss_dssp             SCEEHHHHHHHHTC-CHH----HHHHHHHHHHHTTSEEEE
T ss_pred             CCCCHHHHHHHHCc-cHh----HHHHHHHHHHHCCCEEEe
Confidence            58999999999999 887    999999999999999986

>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=95.01  E-value=0.016  Score=36.06  Aligned_cols=59  Identities=10%  Similarity=0.174  Sum_probs=46.3

Q ss_pred             hhChhhHHHhcCCCCCCCHHHHHhhC-CCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceeccc
Q 036971           40 NLDVLDIINKAGPGAELSASEIASQI-PTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAP  106 (221)
Q Consensus        40 ~lglfd~L~~~g~~~~~t~~eLA~~~-g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~  106 (221)
                      ...||++|.....+.++++++|++++ ++ +..    .+...++.|+..|++--.-   +++.|+.|.
T Consensus         8 q~~V~~~i~s~~~~eGi~~~el~~~l~~~-~~~----~i~~aid~L~~eG~IYsTi---DddHfkstd   67 (69)
T d1dpua_           8 QNQVLNLIKACPRPEGLNFQDLKNQLKHM-SVS----SIKQAVDFLSNEGHIYSTV---DDDHFKSTD   67 (69)
T ss_dssp             HHHHHHHHHHCCCTTTEEHHHHHHHSTTS-CHH----HHHHHHHHHHHTTSEEECS---STTEEEESS
T ss_pred             HHHHHHHHHhCCCccCcCHHHHHHHccCC-CHH----HHHHHHHHHHhCCceeccc---ccchhcccC
Confidence            34456666655444679999999998 78 777    8999999999999998753   678888764

>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=94.99  E-value=0.014  Score=46.83  Aligned_cols=24  Identities=25%  Similarity=0.130  Sum_probs=20.6

Q ss_pred             CCCeEEEecCCccHHHHHHHhhCC
Q 036971          196 NITRLVDVGGGLGITLSDHNFQIP  219 (221)
Q Consensus       196 ~~~~vvDVGGG~G~~~~~l~~~~P  219 (221)
                      ..++|+|||||+|.++..++++.+
T Consensus        35 ~~~~VLDiGcG~G~lsl~aa~~Ga   58 (311)
T d2fyta1          35 KDKVVLDVGCGTGILSMFAAKAGA   58 (311)
T ss_dssp             TTCEEEEETCTTSHHHHHHHHTTC
T ss_pred             CcCEEEEECCCCCHHHHHHHHcCC
Confidence            357999999999999998888754

>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=94.82  E-value=0.012  Score=44.10  Aligned_cols=67  Identities=12%  Similarity=0.157  Sum_probs=50.1

Q ss_pred             HHHHHHhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccC---CC-Ccceecccccc
Q 036971           34 VFQAVVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFST---HG-VRLYSLAPVAK  109 (221)
Q Consensus        34 aL~~av~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~---~~-~~~y~lt~~s~  109 (221)
                      +|.-=.+..|...|..    +|+|+.|||+.+|+ ++.    .+.+.|+.|...|++......   |. ...|+++..+.
T Consensus        11 ~l~~~~R~~Il~~L~~----~~~~~~ela~~l~~-s~~----~v~~HL~~L~~~Glv~~~~~~~~~G~~~~~y~l~~~~~   81 (194)
T d2p4wa1          11 VLGNETRRRILFLLTK----RPYFVSELSRELGV-GQK----AVLEHLRILEEAGLIESRVEKIPRGRPRKYYMIKKGLR   81 (194)
T ss_dssp             HHHSHHHHHHHHHHHH----SCEEHHHHHHHHTC-CHH----HHHHHHHHHHHTTSEEEEECCBTTBCCCEEEEECTTEE
T ss_pred             HhCCHHHHHHHHHHHh----CCCCHHHHHHHHCc-CHH----HHHHHHHHHHHCCCeEEEEeecCCCCceEEEEecccce
Confidence            3444456677788877    69999999999999 887    999999999999999865221   11 12578777654

>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=94.81  E-value=0.011  Score=44.84  Aligned_cols=29  Identities=21%  Similarity=0.265  Sum_probs=25.5

Q ss_pred             cCCCCCCCeEEEecCCccHHHHHHHhhCCC
Q 036971          191 YKGFQNITRLVDVGGGLGITLSDHNFQIPS  220 (221)
Q Consensus       191 ~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~  220 (221)
                      ++ ++...+|||||||+|..+..+++..|+
T Consensus        52 l~-lkpg~~VLDlGcG~G~~~~~la~~v~~   80 (209)
T d1nt2a_          52 LK-LRGDERVLYLGAASGTTVSHLADIVDE   80 (209)
T ss_dssp             CC-CCSSCEEEEETCTTSHHHHHHHHHTTT
T ss_pred             CC-CCCCCEEEEeCCcCCHHHHHHHHhccC
Confidence            55 777789999999999999999988875

>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=94.79  E-value=0.0088  Score=44.66  Aligned_cols=20  Identities=25%  Similarity=0.224  Sum_probs=16.7

Q ss_pred             CCeEEEecCCccHHHHHHHh
Q 036971          197 ITRLVDVGGGLGITLSDHNF  216 (221)
Q Consensus       197 ~~~vvDVGGG~G~~~~~l~~  216 (221)
                      ..+|||||||+|.++..+.+
T Consensus        37 ~~~vLDiGcG~G~~~~~~~~   56 (208)
T d1vlma_          37 EGRGVEIGVGTGRFAVPLKI   56 (208)
T ss_dssp             SSCEEEETCTTSTTHHHHTC
T ss_pred             CCeEEEECCCCcccccccce
Confidence            35899999999999887754

>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=94.62  E-value=0.01  Score=40.29  Aligned_cols=43  Identities=14%  Similarity=0.254  Sum_probs=37.0

Q ss_pred             hhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           43 VLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        43 lfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      |+-.|...   +++|+.+||+.+|+ +..    .+.++|+-|...|++.+.
T Consensus        25 v~~~L~~~---g~~t~~eia~~~~i-~~~----~v~~~l~~L~~~GlV~r~   67 (109)
T d1sfxa_          25 IYSLLLER---GGMRVSEIARELDL-SAR----FVRDRLKVLLKRGFVRRE   67 (109)
T ss_dssp             HHHHHHHH---CCBCHHHHHHHHTC-CHH----HHHHHHHHHHHTTSEEEE
T ss_pred             HHHHHHhc---CCCCHHHHHHHhCC-Ccc----hHHHHHHHHHhCCCEEEE
Confidence            44555555   59999999999999 877    999999999999999875

>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=94.59  E-value=0.0098  Score=41.90  Aligned_cols=65  Identities=14%  Similarity=0.036  Sum_probs=51.1

Q ss_pred             HhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCC---cceeccccccccc
Q 036971           39 VNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGV---RLYSLAPVAKYYV  112 (221)
Q Consensus        39 v~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~---~~y~lt~~s~~L~  112 (221)
                      .+.-++..|...   +++|+.+||+.+++ ++.    .+.++++.|...|++.+.... .+   -..++|+.+..+.
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---GPKKMKEIAEFLST-TKS----NVTNVVDSLEKRGLVVREMDP-VDRRTYRVVLTEKGKEIF  100 (140)
T ss_dssp             HHHHHHHHHHHH---CCBCHHHHHHHTTS-CHH----HHHHHHHHHHHTTSEEEEECT-TTSSCEEEEECHHHHHHH
T ss_pred             HHHHHHHHHHHc---CCcCHHHHHHHHCc-CHH----HHHHHHHHHHHCCCeeeeecc-cccchhhhhcCHHHHHHH
Confidence            455577888887   48999999999999 887    999999999999999987421 12   2477777776554

>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=94.57  E-value=0.024  Score=33.66  Aligned_cols=55  Identities=20%  Similarity=0.313  Sum_probs=42.2

Q ss_pred             hhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceec
Q 036971           43 VLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSL  104 (221)
Q Consensus        43 lfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~l  104 (221)
                      |...|...|++...|+.+||.++++ +.+    -+.|+|-.|...|.+.+...  .+-.|+.
T Consensus         4 vl~~l~~lg~~~~~tA~~LA~kl~v-pKk----~iNr~LYsL~~kgkl~k~~g--tPPlWr~   58 (59)
T d2gxba1           4 ILKFLEELGEGKATTAHDLSGKLGT-PKK----EINRVLYSLAKKGKLQKEAG--TPPLWKI   58 (59)
T ss_dssp             HHHHHHHHCTTCCBCHHHHHHHHTC-CHH----HHHHHHHHHHHTTSEEEECS--SSCEEEE
T ss_pred             HHHHHHhcCCccchhHHHHHHHhCC-cHH----HHHHHHHHHHHccchhhcCC--CCCCccc
Confidence            3444555554578999999999999 777    89999999999999999732  2445554

>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=94.56  E-value=0.012  Score=38.74  Aligned_cols=49  Identities=12%  Similarity=0.157  Sum_probs=44.0

Q ss_pred             CCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceecccccccccc
Q 036971           55 ELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPVAKYYVS  113 (221)
Q Consensus        55 ~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~~s~~L~~  113 (221)
                      +.+...|...+++ +..    .+.+.|..|...|++++.     ++.|.+|+.+..+..
T Consensus        18 g~~kT~i~~~aNL-s~~----~~~kyl~~L~~~GLI~~~-----~~~Y~iT~kG~~~L~   66 (90)
T d1r7ja_          18 GSPKTRIMYGANL-SYA----LTGRYIKMLMDLEIIRQE-----GKQYMLTKKGEELLE   66 (90)
T ss_dssp             CBCHHHHHHHHTC-CHH----HHHHHHHHHHHTTSEEEE-----TTEEEECHHHHHHHH
T ss_pred             CCCccHHHHHcCC-CHH----HHHHHHHHHHHCCCeeec-----CCEEEECccHHHHHH
Confidence            4678999999999 888    999999999999999985     889999999987664

>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=94.51  E-value=0.011  Score=45.02  Aligned_cols=23  Identities=30%  Similarity=0.265  Sum_probs=19.9

Q ss_pred             CCCeEEEecCCccHHHHHHHhhC
Q 036971          196 NITRLVDVGGGLGITLSDHNFQI  218 (221)
Q Consensus       196 ~~~~vvDVGGG~G~~~~~l~~~~  218 (221)
                      +..+|||||||.|.++..+++..
T Consensus        42 ~~~~vLDiGcG~G~~~~~l~~~~   64 (246)
T d2avna1          42 NPCRVLDLGGGTGKWSLFLQERG   64 (246)
T ss_dssp             SCCEEEEETCTTCHHHHHHHTTT
T ss_pred             CCCEEEEECCCCchhcccccccc
Confidence            45789999999999999998753

>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=94.38  E-value=0.0053  Score=39.94  Aligned_cols=53  Identities=13%  Similarity=0.124  Sum_probs=41.5

Q ss_pred             CCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceeccccccccc
Q 036971           54 AELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPVAKYYV  112 (221)
Q Consensus        54 ~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~~s~~L~  112 (221)
                      +++|..+||+.+++ ++.    .+.++|+-|...|++.... ++..-.|.+|+.+..+.
T Consensus        20 ~~lt~~eLa~~l~i-~~~----~vs~~l~~Le~~GlV~r~~-D~R~~~i~LT~~G~~~l   72 (85)
T d3ctaa1          20 AYLTSSKLADMLGI-SQQ----SASRIIIDLEKNGYITRTV-TKRGQILNITEKGLDVL   72 (85)
T ss_dssp             EECCHHHHHHHHTS-CHH----HHHHHHHHHHHTTSEEEEE-ETTEEEEEECHHHHHHH
T ss_pred             CCCCHHHHHHHHCC-CHH----HHHHHHHHHHHCCCeeeec-ccccccceECHHHHHHH
Confidence            58999999999999 777    9999999999999999862 11122367777776544

>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=94.27  E-value=0.017  Score=45.29  Aligned_cols=45  Identities=16%  Similarity=0.196  Sum_probs=27.5

Q ss_pred             HHHHHHhhhhHHHHHHHHHhcCCCCCCCeEEEecCCccHHHHHHHhhC
Q 036971          171 VFNNGMIGQTSFVINKIVESYKGFQNITRLVDVGGGLGITLSDHNFQI  218 (221)
Q Consensus       171 ~F~~aM~~~~~~~~~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~  218 (221)
                      .|-..--..+++....+ ..+. . ...+|+|||||+|.+++.+++.-
T Consensus        98 aFGTG~H~TT~l~l~~l-~~~~-~-~g~~VLDiGcGsG~l~i~aa~~g  142 (254)
T d2nxca1          98 AFGTGHHETTRLALKAL-ARHL-R-PGDKVLDLGTGSGVLAIAAEKLG  142 (254)
T ss_dssp             ----CCSHHHHHHHHHH-HHHC-C-TTCEEEEETCTTSHHHHHHHHTT
T ss_pred             ccCccccchhhHHHHHH-Hhhc-C-ccCEEEEcccchhHHHHHHHhcC
Confidence            35444444455555443 3443 2 45799999999999998887643

>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=94.23  E-value=0.017  Score=40.20  Aligned_cols=69  Identities=12%  Similarity=0.172  Sum_probs=50.7

Q ss_pred             HhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccC--CCCcceecccccccccc
Q 036971           39 VNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFST--HGVRLYSLAPVAKYYVS  113 (221)
Q Consensus        39 v~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~--~~~~~y~lt~~s~~L~~  113 (221)
                      .++.++..|...+ ++++|..+||+.+++ +..    .+.++++.|...|++.+....  ...-.+.+|+.++.+..
T Consensus        30 ~q~~vL~~l~~~~-~~~it~~ela~~~~~-~~~----~vs~~l~~L~~~g~v~r~~~~~D~R~~~i~lT~~G~~~~~  100 (135)
T d3broa1          30 TQMTIIDYLSRNK-NKEVLQRDLESEFSI-KSS----TATVLLQRMEIKKLLYRKVSGKDSRQKCLKLTKKANKLET  100 (135)
T ss_dssp             HHHHHHHHHHHTT-TSCCBHHHHHHHHTC-CHH----HHHHHHHHHHHTTSEEEEECSSCTTSEEEEECHHHHTTHH
T ss_pred             HHHHHHHHHHHcC-CCCCCHHHHHHHHCc-CHh----HHHHHHHHHHHHHHHHHHhhhhhhhhhhhcccHHHHHHHH
Confidence            3444566677653 257999999999999 877    999999999999999886421  01225888887776553

>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=94.17  E-value=0.034  Score=43.97  Aligned_cols=34  Identities=18%  Similarity=0.306  Sum_probs=26.6

Q ss_pred             HHHHhcCCCCCCCeEEEecCCccHHHHHHHhhCCCC
Q 036971          186 KIVESYKGFQNITRLVDVGGGLGITLSDHNFQIPSY  221 (221)
Q Consensus       186 ~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l  221 (221)
                      ..+....  ....+|+|+|||+|..+..++..+|+.
T Consensus       100 ~~l~~~~--~~~~~vlDlGtGSG~I~i~la~~~p~~  133 (274)
T d2b3ta1         100 QALARLP--EQPCRILDLGTGTGAIALALASERPDC  133 (274)
T ss_dssp             HHHHHSC--SSCCEEEEETCTTSHHHHHHHHHCTTS
T ss_pred             hHhhhhc--ccccceeeeehhhhHHHHHHHhhCCcc
Confidence            3444443  345689999999999999999999974

>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=94.14  E-value=0.026  Score=42.74  Aligned_cols=32  Identities=19%  Similarity=0.326  Sum_probs=26.9

Q ss_pred             HHHHhcCCCCCCCeEEEecCCccHHHHHHHhhC
Q 036971          186 KIVESYKGFQNITRLVDVGGGLGITLSDHNFQI  218 (221)
Q Consensus       186 ~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~  218 (221)
                      .+++..+ .+...+|+|||||+|..+..+++..
T Consensus        66 ~~l~~l~-l~~g~~VLdiG~GtG~~s~~la~~~   97 (213)
T d1dl5a1          66 LFMEWVG-LDKGMRVLEIGGGTGYNAAVMSRVV   97 (213)
T ss_dssp             HHHHHTT-CCTTCEEEEECCTTSHHHHHHHHHH
T ss_pred             HHHHhhh-ccccceEEEecCccchhHHHHHHHh
Confidence            4566777 7788899999999999999888764

>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=94.12  E-value=0.062  Score=37.61  Aligned_cols=65  Identities=14%  Similarity=0.155  Sum_probs=47.4

Q ss_pred             hhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCC--Ccceeccccccccc
Q 036971           40 NLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHG--VRLYSLAPVAKYYV  112 (221)
Q Consensus        40 ~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~--~~~y~lt~~s~~L~  112 (221)
                      +..+...|...   +++|..+||+.+++ ++.    .+.|+++.|+..|++++....++  .-.+.+|+.+..+.
T Consensus        38 q~~vL~~l~~~---~~~t~~~la~~l~~-~~~----~vsr~l~~L~~~G~v~r~~~~~D~R~~~l~lT~~G~~~~  104 (141)
T d1lnwa_          38 DVHVLKLIDEQ---RGLNLQDLGRQMCR-DKA----LITRKIRELEGRNLVRRERNPSDQRSFQLFLTDEGLAIH  104 (141)
T ss_dssp             HHHHHHHHHSS---TTCBHHHHHHHTTC-CHH----HHHHHHHHHHHTTSEEEEECSSSSSSEEEEECHHHHHHH
T ss_pred             HHHHHHHHHHC---CCCCHHHHHHHHCc-cHh----HHHHHHHHHHHhhceeeeccCCCCcchhhccCHHHHHHH
Confidence            44456677765   47999999999999 887    99999999999999998742111  12356666665443

>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=94.06  E-value=0.021  Score=40.46  Aligned_cols=46  Identities=15%  Similarity=0.130  Sum_probs=39.0

Q ss_pred             hChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           41 LDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        41 lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      ..|+..|...+  +|+|+.|||+.+|+ +..    .+.+.++.|...|++.+.
T Consensus        29 ~~i~~~L~~~~--~plt~~ela~~l~v-sk~----~vs~~l~~L~~~GlV~r~   74 (151)
T d1ku9a_          29 GAVYAILYLSD--KPLTISDIMEELKI-SKG----NVSMSLKKLEELGFVRKV   74 (151)
T ss_dssp             HHHHHHHHHCS--SCEEHHHHHHHHTC-CHH----HHHHHHHHHHHTTSEEEE
T ss_pred             HHHHHHHHhCC--CCcCHHHHHHHhCC-Ccc----hHHHHHHHHHHCCCEEEE
Confidence            34555666554  68999999999999 887    999999999999999976

>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=94.05  E-value=0.056  Score=35.58  Aligned_cols=54  Identities=15%  Similarity=0.110  Sum_probs=43.4

Q ss_pred             CCCCHHHHHhhC-CCCCCcchhhhHHHHHHHHhcCCceeeeccCCCC--cceeccccccccc
Q 036971           54 AELSASEIASQI-PTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGV--RLYSLAPVAKYYV  112 (221)
Q Consensus        54 ~~~t~~eLA~~~-g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~--~~y~lt~~s~~L~  112 (221)
                      |+....||.+.+ |+ .++    .|.+=|+.|...|++++......+  -.|++|+.+..|.
T Consensus        23 g~~rF~el~~~l~gi-s~~----~Ls~rLk~Le~~glv~r~~~~~~p~~veY~LT~~G~~L~   79 (95)
T d2hzta1          23 GKKRTSELKRLMPNI-TQK----MLTQQLRELEADGVINRIVYNQVPPKVEYELSEYGRSLE   79 (95)
T ss_dssp             CCBCHHHHHHHCTTS-CHH----HHHHHHHHHHHTTSEEEEEECSSSCEEEEEECTTGGGGH
T ss_pred             CCCCHHHHHHHhhcC-Chh----HHHHHHHHHHHhHHHhheeccccccchhhhhhhhHHHHH
Confidence            689999999998 89 887    999999999999999976321011  2399999988776

>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=93.97  E-value=0.036  Score=44.65  Aligned_cols=22  Identities=27%  Similarity=0.140  Sum_probs=19.0

Q ss_pred             CCeEEEecCCccHHHHHHHhhC
Q 036971          197 ITRLVDVGGGLGITLSDHNFQI  218 (221)
Q Consensus       197 ~~~vvDVGGG~G~~~~~l~~~~  218 (221)
                      .++|||||||+|.++..++++.
T Consensus        39 ~~~VLDlGcGtG~ls~~aa~~G   60 (328)
T d1g6q1_          39 DKIVLDVGCGTGILSMFAAKHG   60 (328)
T ss_dssp             TCEEEEETCTTSHHHHHHHHTC
T ss_pred             cCEEEEeCCCCCHHHHHHHHhC
Confidence            4799999999999998887764

>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=93.83  E-value=0.021  Score=45.06  Aligned_cols=22  Identities=23%  Similarity=0.240  Sum_probs=19.6

Q ss_pred             CCCeEEEecCCccHHHHHHHhh
Q 036971          196 NITRLVDVGGGLGITLSDHNFQ  217 (221)
Q Consensus       196 ~~~~vvDVGGG~G~~~~~l~~~  217 (221)
                      +.++|||||||+|.++..|+++
T Consensus        56 ~~~~vLD~GcG~G~~~~~la~~   77 (292)
T d1xvaa_          56 GCHRVLDVACGTGVDSIMLVEE   77 (292)
T ss_dssp             TCCEEEESSCTTSHHHHHHHHT
T ss_pred             CCCEEEEecCCCcHHHHHHHHc
Confidence            3579999999999999999875

>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=93.65  E-value=0.028  Score=34.12  Aligned_cols=47  Identities=23%  Similarity=0.415  Sum_probs=41.4

Q ss_pred             HhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           39 VNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        39 v~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      .+..|.+.|..+   +.++..+||+.+|+ .+.    .+.+=++-|...|++...
T Consensus         6 ~D~~IL~~L~~n---~r~s~~~iA~~lgi-s~~----tv~~Ri~~L~~~giI~~~   52 (63)
T d2cfxa1           6 IDLNIIEELKKD---SRLSMRELGRKIKL-SPP----SVTERVRQLESFGIIKQY   52 (63)
T ss_dssp             HHHHHHHHHHHC---SCCCHHHHHHHHTC-CHH----HHHHHHHHHHHTTSEEEE
T ss_pred             HHHHHHHHHHHc---CCCCHHHHHHHHCc-CHH----HHHHHHHHHHHCCCeeeE
Confidence            466788899987   59999999999999 877    899999999999999864

>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=93.58  E-value=0.034  Score=37.25  Aligned_cols=77  Identities=17%  Similarity=0.126  Sum_probs=57.8

Q ss_pred             HHHHHHHHHhhhHHHHHHHHHHhhChhhHHHhcCCCCCCCHHHHHhhC-CCCCCcchhhhHHHHHHHHhcCCceeeeccC
Q 036971           18 VYSHAMVLGSAIVLPAVFQAVVNLDVLDIINKAGPGAELSASEIASQI-PTKNPEGAAKMLDRVLGLLVSFNILCCSFST   96 (221)
Q Consensus        18 ~~~~l~~~~~g~~~~~aL~~av~lglfd~L~~~g~~~~~t~~eLA~~~-g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~   96 (221)
                      +....++++.+=|....|..         |..    |+....||.+.+ |+ .++    .|.+=|+-|...|++.+..-.
T Consensus         9 pv~~~l~ilg~kW~l~Il~~---------L~~----g~~rF~el~~~l~gI-s~~----~Ls~rLkeL~~~glv~r~~~~   70 (102)
T d2fswa1           9 PVRKSMQIFAGKWTLLIIFQ---------INR----RIIRYGELKRAIPGI-SEK----MLIDELKFLCGKGLIKKKQYP   70 (102)
T ss_dssp             HHHHHHHHHTSSSHHHHHHH---------HTT----SCEEHHHHHHHSTTC-CHH----HHHHHHHHHHHTTSEEEEEEC
T ss_pred             CHHHHHHHHcCCCHHHHHHH---------Hcc----CCCCHHHHHhhCccc-chh----HHHHHHHHHHHCCceeecccC
Confidence            56677788877777666554         333    589999999998 89 887    899999999999999986211


Q ss_pred             CCC--cceeccccccccc
Q 036971           97 HGV--RLYSLAPVAKYYV  112 (221)
Q Consensus        97 ~~~--~~y~lt~~s~~L~  112 (221)
                      +.+  -.|++|+.+..|.
T Consensus        71 ~~p~~veY~LT~~G~~L~   88 (102)
T d2fswa1          71 EVPPRVEYSLTPLGEKVL   88 (102)
T ss_dssp             SSSCEEEEEECHHHHTTH
T ss_pred             CCCCeehhhhhHhHHHHH
Confidence            011  2499999988776

>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=93.53  E-value=0.03  Score=39.06  Aligned_cols=64  Identities=9%  Similarity=0.142  Sum_probs=49.3

Q ss_pred             hhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCc---ceeccccccccc
Q 036971           40 NLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVR---LYSLAPVAKYYV  112 (221)
Q Consensus        40 ~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~---~y~lt~~s~~L~  112 (221)
                      +..+...|...   +++|..+||+.+++ ++.    .+.++++-|+..|++++.... .+.   ...+|+.+..+.
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---SPVNVKKVVTELAL-DTG----TVSPLLKRMEQVDLIKRERSE-VDQREVFIHLTDKSETIR  102 (136)
T ss_dssp             HHHHHHHHHHS---SEEEHHHHHHHTTC-CTT----THHHHHHHHHHTTSEEEEECS-SSTTCEEEEECHHHHHHH
T ss_pred             HHHHHHHHHcC---CCCCHHHHHHHHCC-CHh----HHHHHHHHHHHCCCEEEeecC-CcccchhhccCHHHHHHH
Confidence            34466778776   48999999999999 887    999999999999999986321 122   467777776554

>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=93.48  E-value=0.017  Score=34.86  Aligned_cols=47  Identities=19%  Similarity=0.205  Sum_probs=40.6

Q ss_pred             HhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           39 VNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        39 v~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      ++..|...|.++   +.+|..+||+++|+ ++.    .+.+=++.|...|++...
T Consensus         4 ~D~kIl~~L~~n---~r~s~~~lA~~~gl-s~~----~v~~Ri~~L~~~giI~~~   50 (60)
T d1i1ga1           4 RDKIILEILEKD---ARTPFTEIAKKLGI-SET----AVRKRVKALEEKGIIEGY   50 (60)
T ss_dssp             HHHHHHHHHHHC---TTCCHHHHHHHHTS-CHH----HHHHHHHHHHHHTSSCCC
T ss_pred             HHHHHHHHHHHc---CCCCHHHHHHHHCc-CHH----HHHHHHHHHHHCCCeEeE
Confidence            456788889987   58999999999999 887    899999999999998753

>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=93.38  E-value=0.052  Score=33.74  Aligned_cols=42  Identities=19%  Similarity=0.283  Sum_probs=35.7

Q ss_pred             HHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           46 IINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        46 ~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      .+.++|  -|-|+.|||+.+|++.+.    .+.+.|..|...|++.+.
T Consensus        17 ~~~~~G--~~Ps~rei~~~~g~~S~s----tv~~~l~~Le~kG~I~r~   58 (71)
T d1jhfa1          17 HISQTG--MPPTRAEIAQRLGFRSPN----AAEEHLKALARKGVIEIV   58 (71)
T ss_dssp             HHHHHS--SCCCHHHHHHHTTCSSHH----HHHHHHHHHHHTTSEEEC
T ss_pred             HHHHhC--CCCCHHHHHHHcCCCCHH----HHHHHHHHHHHCcCeecC
Confidence            566666  689999999999993333    799999999999999996

>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=93.30  E-value=0.044  Score=37.03  Aligned_cols=79  Identities=9%  Similarity=0.010  Sum_probs=57.4

Q ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHhhChhhHHHhcCCCCCCCHHHHHhhC-CCCCCcchhhhHHHHHHHHhcCCceeeec
Q 036971           16 EEVYSHAMVLGSAIVLPAVFQAVVNLDVLDIINKAGPGAELSASEIASQI-PTKNPEGAAKMLDRVLGLLVSFNILCCSF   94 (221)
Q Consensus        16 ~~~~~~l~~~~~g~~~~~aL~~av~lglfd~L~~~g~~~~~t~~eLA~~~-g~~~~~~~~~~l~rlLr~L~~~gll~~~~   94 (221)
                      .-+....++++.+-|....|..         |..    |+....||.+.+ |+ .++    .|.+=|+.|...|++.+..
T Consensus         6 ~c~i~~al~iig~kW~~~Il~~---------L~~----g~~RF~el~~~l~gI-S~~----~Ls~rLk~L~~~glv~R~~   67 (108)
T d1z7ua1           6 QTSINLALSTINGKWKLSLMDE---------LFQ----GTKRNGELMRALDGI-TQR----VLTDRLREMEKDGLVHRES   67 (108)
T ss_dssp             HHHHHHHHHTTCSTTHHHHHHH---------HHH----SCBCHHHHHHHSTTC-CHH----HHHHHHHHHHHHTSEEEEE
T ss_pred             CCcHHHHHHHHcCCCHHHHHHH---------HHc----CCCCHHHHHHHCcCC-Chh----HHHHHHHHHHHCCcceeec
Confidence            3445566666666666665554         444    589999999998 79 887    9999999999999999852


Q ss_pred             cCCCC--cceeccccccccc
Q 036971           95 STHGV--RLYSLAPVAKYYV  112 (221)
Q Consensus        95 ~~~~~--~~y~lt~~s~~L~  112 (221)
                      -.+.+  -.|.+|+.++.|.
T Consensus        68 ~~~~p~~veY~LT~~G~~L~   87 (108)
T d1z7ua1          68 FNELPPRVEYTLTPEGYALY   87 (108)
T ss_dssp             ECCSSCEEEEEECHHHHHHH
T ss_pred             cCCCcceehhhhchhHHHHH
Confidence            11011  1399999998776

>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=93.21  E-value=0.028  Score=34.13  Aligned_cols=47  Identities=17%  Similarity=0.264  Sum_probs=41.3

Q ss_pred             HhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           39 VNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        39 v~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      ++..|...|.++   +.+|..+||+++|+ ++.    .+.+=++.|...|++...
T Consensus         6 ~D~~IL~~L~~~---~r~s~~eiA~~l~l-s~~----~v~~Ri~rL~~~GiI~~~   52 (63)
T d2cg4a1           6 LDRGILEALMGN---ARTAYAELAKQFGV-SPE----TIHVRVEKMKQAGIITGA   52 (63)
T ss_dssp             HHHHHHHHHHHC---TTSCHHHHHHHHTS-CHH----HHHHHHHHHHHHTSEEEE
T ss_pred             HHHHHHHHHHHc---CCCCHHHHHHHHCc-CHH----HHHHHHHHHHHCCCeEeE
Confidence            466788899997   58999999999999 877    899999999999999864

>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=93.08  E-value=0.038  Score=43.07  Aligned_cols=45  Identities=18%  Similarity=0.211  Sum_probs=25.7

Q ss_pred             HHHHHhhhhHHH----HHHHHHhcCCCCCCCeEEEecCCccHHHHHHHhh
Q 036971          172 FNNGMIGQTSFV----INKIVESYKGFQNITRLVDVGGGLGITLSDHNFQ  217 (221)
Q Consensus       172 F~~aM~~~~~~~----~~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~  217 (221)
                      |...|...++-.    +..++...+ .....+|+|+|||+|.++..+++.
T Consensus        58 ~~~~~~r~~qiiypkD~~~Ii~~l~-i~pG~rVLEiG~GsG~lt~~la~~  106 (250)
T d1yb2a1          58 FGRVIRRNTQIISEIDASYIIMRCG-LRPGMDILEVGVGSGNMSSYILYA  106 (250)
T ss_dssp             HHHHC------------------CC-CCTTCEEEEECCTTSHHHHHHHHH
T ss_pred             HHhhCCCCCcccCHHHHHHHHHHcC-CCCcCEEEEeeeeCcHHHHHHHHH
Confidence            555565444432    223455556 667789999999999999999876

>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=93.06  E-value=0.023  Score=34.12  Aligned_cols=47  Identities=9%  Similarity=0.133  Sum_probs=41.1

Q ss_pred             HhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           39 VNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        39 v~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      ++..|.+.|.++   +.+|..+||+++|+ ++.    .+.+=++.|...|++...
T Consensus         4 ~D~~Il~~L~~n---~r~s~~eiA~~l~l-s~~----~v~~Ri~~L~~~giI~~~   50 (60)
T d2cyya1           4 IDKKIIKILQND---GKAPLREISKITGL-AES----TIHERIRKLRESGVIKKF   50 (60)
T ss_dssp             HHHHHHHHHHHC---TTCCHHHHHHHHCS-CHH----HHHHHHHHHHHHTSSCCC
T ss_pred             HHHHHHHHHHHc---CCCCHHHHHHHHCc-CHH----HHHHHHHHHHHCCCeEeE
Confidence            567788999997   58999999999999 887    899999999999988753

>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=93.03  E-value=0.058  Score=42.31  Aligned_cols=34  Identities=18%  Similarity=0.174  Sum_probs=28.8

Q ss_pred             HHHHHHhcCCCCCCCeEEEecCCccHHHHHHHhhC
Q 036971          184 INKIVESYKGFQNITRLVDVGGGLGITLSDHNFQI  218 (221)
Q Consensus       184 ~~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~  218 (221)
                      +..++...+ .....+|+|+|||+|.++..+++..
T Consensus        92 ~~~Ii~~l~-i~pG~~VLDiG~GsG~lt~~lA~~~  125 (266)
T d1o54a_          92 SSFIAMMLD-VKEGDRIIDTGVGSGAMCAVLARAV  125 (266)
T ss_dssp             HHHHHHHTT-CCTTCEEEEECCTTSHHHHHHHHHT
T ss_pred             HHHHHHhhC-CCCCCEEEECCCCCCHHHHHHHHHh
Confidence            345677787 7888999999999999999998875

>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=93.02  E-value=0.025  Score=39.63  Aligned_cols=65  Identities=9%  Similarity=0.073  Sum_probs=49.0

Q ss_pred             hChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCC--CCcceecccccccccc
Q 036971           41 LDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTH--GVRLYSLAPVAKYYVS  113 (221)
Q Consensus        41 lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~--~~~~y~lt~~s~~L~~  113 (221)
                      .-+...|...   +++|+.+||+.+++ ++.    .+.+++.-|...|++.+....+  ..-.+.+|+.+..++.
T Consensus        33 ~~iL~~i~~~---~~~t~~~la~~l~i-~~~----tvs~~l~~L~~~gli~r~~~~~D~R~~~i~LT~~G~~~~~   99 (139)
T d2a61a1          33 FDILQKIYFE---GPKRPGELSVLLGV-AKS----TVTGLVKRLEADGYLTRTPDPADRRAYFLVITRKGEEVIE   99 (139)
T ss_dssp             HHHHHHHHHH---CCBCHHHHHHHHTC-CHH----HHHHHHHHHHHTTSEEEEEETTEEEEEEEEECHHHHHHHH
T ss_pred             HHHHHHHHHc---CCCCHHHHHHHhCC-Ccc----cchHHHHHHHhcCeeeeeeccCCCCeEEEEECHHHHHHHH
Confidence            3455667666   48999999999999 887    9999999999999999863210  0234777877776553

>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=93.00  E-value=0.055  Score=38.04  Aligned_cols=67  Identities=19%  Similarity=0.193  Sum_probs=49.5

Q ss_pred             HhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccC--CCCcceeccccccccc
Q 036971           39 VNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFST--HGVRLYSLAPVAKYYV  112 (221)
Q Consensus        39 v~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~--~~~~~y~lt~~s~~L~  112 (221)
                      .++.+...|...+  +++|+.+||+.+++ ++.    .+.++++-|...|++++....  ...-.+.+|+.++.+.
T Consensus        35 ~q~~vL~~L~~~~--g~~t~~~La~~~~~-~~~----~vs~~i~~L~~~glv~r~~~~~DrR~~~i~LT~~G~~~~  103 (145)
T d2hr3a1          35 SQLVVLGAIDRLG--GDVTPSELAAAERM-RSS----NLAALLRELERGGLIVRHADPQDGRRTRVSLSSEGRRNL  103 (145)
T ss_dssp             HHHHHHHHHHHTT--SCBCHHHHHHHTTC-CHH----HHHHHHHHHHHTTSEEEEC------CCEEEECHHHHHHH
T ss_pred             HHHHHHHHHHHcC--CCCCHHHHHHHHCC-CHH----HHHHHHHHHHHcCCeEeeeCccchhHHHhccCHHHHHHH
Confidence            4555666776654  58999999999999 887    999999999999999986321  0112477777776554

>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=92.83  E-value=0.065  Score=42.00  Aligned_cols=45  Identities=16%  Similarity=0.072  Sum_probs=33.2

Q ss_pred             HHHHHhhhhH----HHHHHHHHhcCCCCCCCeEEEecCCccHHHHHHHhh
Q 036971          172 FNNGMIGQTS----FVINKIVESYKGFQNITRLVDVGGGLGITLSDHNFQ  217 (221)
Q Consensus       172 F~~aM~~~~~----~~~~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~  217 (221)
                      |...|...++    ..+..++...+ .+...+|||+|||+|.++..|++.
T Consensus        69 ~~~~~~r~tqiiypkD~s~Ii~~l~-i~PG~~VLE~G~GsG~lt~~La~~  117 (264)
T d1i9ga_          69 YVMSMPRGPQVIYPKDAAQIVHEGD-IFPGARVLEAGAGSGALTLSLLRA  117 (264)
T ss_dssp             HHTTSCSCSCCCCHHHHHHHHHHTT-CCTTCEEEEECCTTSHHHHHHHHH
T ss_pred             HHhhccCCccccchHHHHHHHHHhC-CCCCCEEEecCcCCcHHHHHHHHh
Confidence            4445554443    23445677777 777899999999999999999886

>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=92.61  E-value=0.038  Score=32.04  Aligned_cols=54  Identities=13%  Similarity=0.255  Sum_probs=45.7

Q ss_pred             hhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceec
Q 036971           40 NLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSL  104 (221)
Q Consensus        40 ~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~l  104 (221)
                      +-.|...|.++|  +|+...+|++++++ +..    .|.++|..|-..+-+...    ++..|.+
T Consensus         3 EQkILQVL~dag--spvk~~ql~k~cqV-pkk----~lNqVL~rlkke~kVsl~----~patW~l   56 (57)
T d1j75a_           3 EQKILQVLSDDG--GPVKIGQLVKKCQV-PKK----TLNQVLYRLKKEDRVSSP----EPATWSI   56 (57)
T ss_dssp             HHHHHHHHHHHC--SCEEHHHHHHHHCS-CHH----HHHHHHHHHHHTTSEEEE----ETTEEEE
T ss_pred             HHHHHHHHHhcC--CchHHHHHHHHHCC-CHH----HHHHHHHHHHhccccccC----CCccccC
Confidence            456788899988  79999999999999 777    899999999988888876    5777764

>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=92.59  E-value=0.053  Score=41.06  Aligned_cols=24  Identities=8%  Similarity=-0.169  Sum_probs=20.5

Q ss_pred             CCCCCeEEEecCCccHHHHHHHhh
Q 036971          194 FQNITRLVDVGGGLGITLSDHNFQ  217 (221)
Q Consensus       194 ~~~~~~vvDVGGG~G~~~~~l~~~  217 (221)
                      .....+|||+|||.|..+..|++.
T Consensus        43 ~~~~~rvLd~GCG~G~~a~~LA~~   66 (229)
T d2bzga1          43 GKSGLRVFFPLCGKAVEMKWFADR   66 (229)
T ss_dssp             TCCSCEEEETTCTTCTHHHHHHHT
T ss_pred             CCCCCEEEEeCCCCcHHHHHHHhC
Confidence            445679999999999999998874

>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=92.54  E-value=0.033  Score=41.82  Aligned_cols=25  Identities=20%  Similarity=0.291  Sum_probs=19.9

Q ss_pred             CCCCCeEEEecCCccHHHHHHHhhCC
Q 036971          194 FQNITRLVDVGGGLGITLSDHNFQIP  219 (221)
Q Consensus       194 ~~~~~~vvDVGGG~G~~~~~l~~~~P  219 (221)
                      +++ ++|+|+|||+|.++.+++..-+
T Consensus        47 l~G-k~VLDlGcGtG~l~i~a~~~ga   71 (197)
T d1ne2a_          47 IGG-RSVIDAGTGNGILACGSYLLGA   71 (197)
T ss_dssp             SBT-SEEEEETCTTCHHHHHHHHTTB
T ss_pred             CCC-CEEEEeCCCCcHHHHHHHHcCC
Confidence            544 8999999999999887766543

>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=92.32  E-value=0.04  Score=38.30  Aligned_cols=62  Identities=19%  Similarity=0.165  Sum_probs=44.6

Q ss_pred             hhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCC---cceeccccccccc
Q 036971           43 VLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGV---RLYSLAPVAKYYV  112 (221)
Q Consensus        43 lfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~---~~y~lt~~s~~L~  112 (221)
                      +.-.|...+  +++|..+||+.+++ ++.    .+.++++-|+..|++.+.... .+   -...+|+.++.+.
T Consensus        33 iL~~l~~~~--~~~t~~~la~~~~~-~~~----~vs~~v~~L~~~gli~r~~~~-~D~R~~~i~lT~~G~~~~   97 (137)
T d2fbha1          33 VLLHLARHR--DSPTQRELAQSVGV-EGP----TLARLLDGLESQGLVRRLAVA-EDRRAKHIVLTPKADVLI   97 (137)
T ss_dssp             HHHHHHHCS--SCCBHHHHHHHHTC-CHH----HHHHHHHHHHHTTSEEEECCB-TTBCSCEEEECTTHHHHH
T ss_pred             HHHHHHHcC--CCCcHHHHHHHHCC-CHH----HHHHHHHHHHHcCCccccCCC-CCCCchhhhcCHHHHHHH
Confidence            344555543  36899999999999 887    999999999999999986311 11   1356666665444

>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=92.25  E-value=0.055  Score=36.91  Aligned_cols=77  Identities=14%  Similarity=0.059  Sum_probs=57.6

Q ss_pred             HHHHHHHHHhhhHHHHHHHHHHhhChhhHHHhcCCCCCCCHHHHHhhC-CCCCCcchhhhHHHHHHHHhcCCceeeeccC
Q 036971           18 VYSHAMVLGSAIVLPAVFQAVVNLDVLDIINKAGPGAELSASEIASQI-PTKNPEGAAKMLDRVLGLLVSFNILCCSFST   96 (221)
Q Consensus        18 ~~~~l~~~~~g~~~~~aL~~av~lglfd~L~~~g~~~~~t~~eLA~~~-g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~   96 (221)
                      +....++++.+-|....|..         |..    |+....||.+.+ |+ .++    .|.+=|+.|...|++.+....
T Consensus        13 pv~~~l~~ig~kW~l~Il~~---------L~~----g~~RF~el~~~l~gi-s~~----~Ls~rL~~Le~~glv~R~~~~   74 (114)
T d1yyva1          13 PSREVLKHVTSRWGVLILVA---------LRD----GTHRFSDLRRKMGGV-SEK----MLAQSLQALEQDGFLNRVSYP   74 (114)
T ss_dssp             THHHHHHHHHSHHHHHHHHH---------GGG----CCEEHHHHHHHSTTC-CHH----HHHHHHHHHHHHTCEEEEEEC
T ss_pred             CHHHHHHHHcCCCHHHHHHH---------Hhc----CCCCHHHHHHHcccc-chh----HHHHHHHHHHHHHHHhhcccC
Confidence            35666777777776666554         334    589999999999 78 777    899999999999999986311


Q ss_pred             CCC--cceeccccccccc
Q 036971           97 HGV--RLYSLAPVAKYYV  112 (221)
Q Consensus        97 ~~~--~~y~lt~~s~~L~  112 (221)
                      ..+  -.|.+|+.++.|.
T Consensus        75 ~~p~~veY~LT~~G~~L~   92 (114)
T d1yyva1          75 VVPPHVEYSLTPLGEQVS   92 (114)
T ss_dssp             SSSCEEEEEECHHHHHHH
T ss_pred             CCCchhHhHhhHhHHHHH
Confidence            011  2499999998776

>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=92.03  E-value=0.065  Score=32.26  Aligned_cols=43  Identities=16%  Similarity=0.245  Sum_probs=35.4

Q ss_pred             hhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           43 VLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        43 lfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      ||....+.   ++++..+||+.+|+ .+.    .+...++-|...|+++..
T Consensus        12 I~~l~~~~---~~v~~~~iA~~L~v-s~~----SVs~mikrL~~~GlV~~~   54 (61)
T d2ev0a1          12 IYMLIEEK---GYARVSDIAEALAV-HPS----SVTKMVQKLDKDEYLIYE   54 (61)
T ss_dssp             HHHHHHHH---SSCCHHHHHHHHTC-CHH----HHHHHHHHHHHTTSEEC-
T ss_pred             HHHHHhcC---CCccHHHHHHHhCC-Cch----hHHHHHHHHHHCCCEEEc
Confidence            34444444   58999999999999 776    899999999999999985

>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=91.87  E-value=0.071  Score=40.70  Aligned_cols=31  Identities=10%  Similarity=0.243  Sum_probs=25.0

Q ss_pred             HHHHhcCCCCCCCeEEEecCCccHHHHHHHhh
Q 036971          186 KIVESYKGFQNITRLVDVGGGLGITLSDHNFQ  217 (221)
Q Consensus       186 ~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~  217 (221)
                      .+++..+ .....+|+|||||+|..+..+++.
T Consensus        61 ~ml~~L~-l~~g~~VLdIG~GsGy~ta~La~l   91 (224)
T d1vbfa_          61 FMLDELD-LHKGQKVLEIGTGIGYYTALIAEI   91 (224)
T ss_dssp             HHHHHTT-CCTTCEEEEECCTTSHHHHHHHHH
T ss_pred             HHHHHhh-hcccceEEEecCCCCHHHHHHHHH
Confidence            3566777 788889999999999988776653

>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=91.77  E-value=0.11  Score=31.38  Aligned_cols=35  Identities=9%  Similarity=0.107  Sum_probs=32.5

Q ss_pred             CCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           54 AELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        54 ~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      ++.+..+||+.+|+ .+.    -+.+.++-|...|++...
T Consensus        22 ~~v~~~~iA~~L~v-s~~----SVt~mvkrL~~~Glv~~~   56 (63)
T d2isya1          22 VTPLRARIAERLDQ-SGP----TVSQTVSRMERDGLLRVA   56 (63)
T ss_dssp             CCCCHHHHHHHHTC-CHH----HHHHHHHHHHHTTSEEEC
T ss_pred             CCCcHHHHHHHhCC-Cch----hHHHHHHHHHHCCCEEEc
Confidence            68999999999999 776    899999999999999986

>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=91.57  E-value=0.041  Score=38.38  Aligned_cols=63  Identities=14%  Similarity=0.114  Sum_probs=49.0

Q ss_pred             hhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCC---cceeccccccccccC
Q 036971           43 VLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGV---RLYSLAPVAKYYVSD  114 (221)
Q Consensus        43 lfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~---~~y~lt~~s~~L~~~  114 (221)
                      +...|...   +++|..+||+.+++ ++.    .+.+++.-|+..|++.+.... .+   -...+|+.+..+...
T Consensus        38 vL~~l~~~---~~~t~~~La~~~~i-~~~----~vsr~i~~L~~~glv~r~~~~-~D~R~~~i~lT~~G~~~~~~  103 (137)
T d1z91a1          38 ALLLLWEH---ETLTVKKMGEQLYL-DSG----TLTPMLKRMEQQGLITRKRSE-EDERSVLISLTEDGALLKEK  103 (137)
T ss_dssp             HHHHHHHH---SEEEHHHHHHTTTC-CHH----HHHHHHHHHHHHTSEECCBCS-SCTTSBEEEECHHHHSGGGG
T ss_pred             HHHHHHcC---CCCCHHHHHHHHCc-CHH----HHHHHHHHHhhccceEEeecC-CCCCeEEEEECHHHHHHHHH
Confidence            45566665   48999999999999 887    999999999999999987421 12   237888888766544

>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=91.43  E-value=0.086  Score=42.53  Aligned_cols=45  Identities=18%  Similarity=0.058  Sum_probs=33.3

Q ss_pred             HHHHHhhhhH----HHHHHHHHhcCCCCCCCeEEEecCCccHHHHHHHhh
Q 036971          172 FNNGMIGQTS----FVINKIVESYKGFQNITRLVDVGGGLGITLSDHNFQ  217 (221)
Q Consensus       172 F~~aM~~~~~----~~~~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~  217 (221)
                      |...|...++    ..+..++...+ .....+|+|+|||+|.++..|++.
T Consensus        71 ~~~~~~r~tqiiypkD~~~Il~~l~-i~pG~rVLE~GtGsG~lt~~LAr~  119 (324)
T d2b25a1          71 YVVLMKRGTAITFPKDINMILSMMD-INPGDTVLEAGSGSGGMSLFLSKA  119 (324)
T ss_dssp             HHHHSCCSSCCCCHHHHHHHHHHHT-CCTTCEEEEECCTTSHHHHHHHHH
T ss_pred             HhhccCCCCcccccccHHHHHHHhC-CCCCCEEEEecccccHHHHHHHHH
Confidence            5555654433    23445677777 777899999999999999999876

>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=91.22  E-value=0.071  Score=39.85  Aligned_cols=24  Identities=17%  Similarity=0.260  Sum_probs=19.7

Q ss_pred             CCCCCeEEEecCCccHHHHHHHhhC
Q 036971          194 FQNITRLVDVGGGLGITLSDHNFQI  218 (221)
Q Consensus       194 ~~~~~~vvDVGGG~G~~~~~l~~~~  218 (221)
                      +++ .+|||+|||+|.++.+++..-
T Consensus        45 l~g-~~vLDlg~GtG~l~i~a~~~g   68 (201)
T d1wy7a1          45 IEG-KVVADLGAGTGVLSYGALLLG   68 (201)
T ss_dssp             STT-CEEEEETCTTCHHHHHHHHTT
T ss_pred             CCC-CEEEECcCcchHHHHHHHHcC
Confidence            444 799999999999998877653

>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=91.00  E-value=0.059  Score=37.54  Aligned_cols=64  Identities=17%  Similarity=0.139  Sum_probs=46.5

Q ss_pred             ChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCC---cceecccccccccc
Q 036971           42 DVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGV---RLYSLAPVAKYYVS  113 (221)
Q Consensus        42 glfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~---~~y~lt~~s~~L~~  113 (221)
                      .+.-.|...+  +++|..+||+.+++ +..    .+.++++.|...|++.+.... .+   -.+.+|+.++.+..
T Consensus        35 ~~L~~l~~~~--~~~t~~~la~~l~i-~~~----~vs~~l~~L~~~glI~~~~~~-~D~R~~~l~lT~~G~~~~~  101 (140)
T d3deua1          35 VTLHNIHQLP--PDQSQIQLAKAIGI-EQP----SLVRTLDQLEDKGLISRQTCA-SDRRAKRIKLTEKAEPLIA  101 (140)
T ss_dssp             HHHHHHHHSC--SSEEHHHHHHHHTS-CHH----HHHHHHHHHHHTTSEEEC---------CEEEECGGGHHHHH
T ss_pred             HHHHHHHHcC--CCccHHHHHHHHCC-CHh----HHHHHHHHHHhCCCEEecccC-CCCCceeeEECHHHHHHHH
Confidence            3455565543  47999999999999 877    999999999999999976311 11   24778887775553

>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=90.93  E-value=0.076  Score=37.01  Aligned_cols=64  Identities=20%  Similarity=0.144  Sum_probs=48.5

Q ss_pred             hhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCc---ceeccccccccc
Q 036971           40 NLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVR---LYSLAPVAKYYV  112 (221)
Q Consensus        40 ~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~---~y~lt~~s~~L~  112 (221)
                      +..+...|...   +++|..+||+.+++ ++.    .+.+++..|...|++++.... .++   .+++|+.++.+.
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---ACITPVELKKVLSV-DLG----ALTRMLDRLVCKGWVERLPNP-NDKRGVLVKLTTGGAAIC  102 (138)
T ss_dssp             HHHHHHHHHHH---SSBCHHHHHHHHTC-CHH----HHHHHHHHHHHTTSEEEEECT-TCSSCEEEEECHHHHHHH
T ss_pred             HHHHHHhHHhC---cCCCHHHHHHHHCC-CHh----HHHHHHHHHhhCCCEEEeecc-CCCCeeEEEECHHHHHHH
Confidence            34455566666   48999999999999 887    999999999999999976321 122   577777777654

>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=90.70  E-value=0.069  Score=34.56  Aligned_cols=45  Identities=29%  Similarity=0.414  Sum_probs=38.6

Q ss_pred             ChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           42 DVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        42 glfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      .|++.|.+.+  +.+|=++||+.+|+ ...    -++++|..|...||+...
T Consensus        22 ~v~~~L~~~~--~evtDe~iA~~tgi-~in----~VRk~Ly~L~~~~L~~y~   66 (88)
T d1q1ha_          22 DVLRILLDKG--TEMTDEEIANQLNI-KVN----DVRKKLNLLEEQGFVSYR   66 (88)
T ss_dssp             HHHHHHHHHC--SCBCHHHHHHTTTS-CHH----HHHHHHHHHHHHTSCEEE
T ss_pred             HHHHHHHhcc--CcCCHHHHHHHhCC-cHH----HHHHHHHHHHhCCceEEE
Confidence            4777776543  47999999999999 887    899999999999999765

>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=90.54  E-value=0.059  Score=37.95  Aligned_cols=61  Identities=11%  Similarity=0.031  Sum_probs=45.2

Q ss_pred             hhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCc---ceeccccccccc
Q 036971           43 VLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVR---LYSLAPVAKYYV  112 (221)
Q Consensus        43 lfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~---~y~lt~~s~~L~  112 (221)
                      +...|...   +++|..+||+.+++ ++.    .+.++++-|...|++.+.... .+.   ...+|+.+..+.
T Consensus        34 iL~~i~~~---~~~t~~~la~~l~i-~~~----tvs~~l~~L~~~glI~r~~~~-~D~R~~~l~LT~~G~~~~   97 (144)
T d1lj9a_          34 YLVRVCEN---PGIIQEKIAELIKV-DRT----TAARAIKRLEEQGFIYRQEDA-SNKKIKRIYATEKGKNVY   97 (144)
T ss_dssp             HHHHHHHS---TTEEHHHHHHHHTC-CHH----HHHHHHHHHHHTTSEEEEECS-SCTTCEEEEECHHHHHHH
T ss_pred             HHHHHHhC---CCCCHHHHHHHHCc-cHh----hHHHHHHHHHhhhcccccCCC-CCCCccccccCHHHHHHH
Confidence            34456665   47999999999999 887    999999999999999987321 122   355666665444

>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=90.24  E-value=0.13  Score=32.09  Aligned_cols=63  Identities=21%  Similarity=0.146  Sum_probs=47.3

Q ss_pred             hhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceecccccccc
Q 036971           43 VLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPVAKYY  111 (221)
Q Consensus        43 lfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~~s~~L  111 (221)
                      ++++-.+.+ |++-|+..|+++.++ +=.    .|+|.|..|.+-|+++-...+++.|.=++|+.++.|
T Consensus        13 L~eA~~e~~-g~~WSLaklsKra~~-PMS----~LRR~LTqL~~aGl~~t~~~edG~G~A~Lt~~G~~l   75 (81)
T d2obpa1          13 LREAGIENG-ATPWSLPKIAKRAQL-PMS----VLRRVLTQLQAAGLADVSVEADGRGHASLTQEGAAL   75 (81)
T ss_dssp             HHHHTSSTT-CCCCBHHHHHHHHTC-CHH----HHHHHHHHHHHTTSEEEEECTTSCEEEEECHHHHHH
T ss_pred             HHHHhccCC-CCCccHHHHHhhcCC-cHH----HHHHHHHHHhhcCceeeeeccCCcceeeccHHHHHH
Confidence            444544433 368999999999999 655    899999999999999976443345667777776654

>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=90.19  E-value=0.098  Score=37.03  Aligned_cols=74  Identities=9%  Similarity=0.042  Sum_probs=53.7

Q ss_pred             HHHHHHhhhHHHHHHHHHHhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCC-CC
Q 036971           21 HAMVLGSAIVLPAVFQAVVNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTH-GV   99 (221)
Q Consensus        21 ~l~~~~~g~~~~~aL~~av~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~-~~   99 (221)
                      ..++++..-|....|+.+         ..    |+....||.+.+|+ .++    .|.+=|+.|...|++++..... ..
T Consensus        12 ~~l~ilg~kW~l~Il~~l---------~~----G~~rf~el~~~lgi-s~~----vLs~rL~~L~~~gLv~r~~~~~p~r   73 (142)
T d2f2ea1          12 RPLDVIGDGWSMLIVRDA---------FE----GLTRFGEFQKSLGL-AKN----ILAARLRNLVEHGVMVAVPAESGSH   73 (142)
T ss_dssp             TTHHHHCSSSHHHHHHHH---------HT----TCCSHHHHHHHHCC-CHH----HHHHHHHHHHHTTSEEEEECSSSSC
T ss_pred             HHHHHHcCCCHHHHHHHH---------Hc----CCCCHHHHHHHhhc-cHH----HHHHHHHHHHHhcceeeecCCCCCe
Confidence            345566556666666553         23    69999999999999 887    8999999999999999752211 12


Q ss_pred             cceeccccccccc
Q 036971          100 RLYSLAPVAKYYV  112 (221)
Q Consensus       100 ~~y~lt~~s~~L~  112 (221)
                      -.|++|+.+..|.
T Consensus        74 ~~Y~LT~~G~~L~   86 (142)
T d2f2ea1          74 QEYRLTDKGRALF   86 (142)
T ss_dssp             EEEEECHHHHTTH
T ss_pred             eEEecCcCcchHH
Confidence            3488888887665

>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=89.96  E-value=0.19  Score=38.11  Aligned_cols=31  Identities=23%  Similarity=0.233  Sum_probs=22.2

Q ss_pred             HHHHhcC-CCCCCCeEEEecCCccHHHHHHHh
Q 036971          186 KIVESYK-GFQNITRLVDVGGGLGITLSDHNF  216 (221)
Q Consensus       186 ~~l~~~~-~~~~~~~vvDVGGG~G~~~~~l~~  216 (221)
                      .+++.+. ..+...+|||||||+|..+.-+++
T Consensus        65 ~~le~L~~~l~~g~~VLdiG~GsGy~ta~la~   96 (224)
T d1i1na_          65 YALELLFDQLHEGAKALDVGSGSGILTACFAR   96 (224)
T ss_dssp             HHHHHTTTTSCTTCEEEEETCTTSHHHHHHHH
T ss_pred             HHHHHHhhccCCCCeEEEecCCCCHHHHHHHH
Confidence            3455442 155668999999999988777665

>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=89.92  E-value=0.067  Score=41.48  Aligned_cols=26  Identities=15%  Similarity=0.295  Sum_probs=23.0

Q ss_pred             CCCeEEEecCCccHHHHHHHhhCCCC
Q 036971          196 NITRLVDVGGGLGITLSDHNFQIPSY  221 (221)
Q Consensus       196 ~~~~vvDVGGG~G~~~~~l~~~~P~l  221 (221)
                      ...+++|||+|+|..+..|+.++|++
T Consensus        61 ~~~~~LDiGtGsg~I~~~l~~~~~~~   86 (250)
T d2h00a1          61 TLRRGIDIGTGASCIYPLLGATLNGW   86 (250)
T ss_dssp             CCCEEEEESCTTTTHHHHHHHHHHCC
T ss_pred             ccceEEEeCCCchHHHHHHHHhCCCc
Confidence            45699999999999999999998864

>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=89.64  E-value=0.075  Score=36.04  Aligned_cols=64  Identities=22%  Similarity=0.253  Sum_probs=44.9

Q ss_pred             hhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCC--Ccceeccccccccc
Q 036971           43 VLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHG--VRLYSLAPVAKYYV  112 (221)
Q Consensus        43 lfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~--~~~y~lt~~s~~L~  112 (221)
                      +...|.... ++++|..+||+.+++ ++.    .+.+++..|...|++.+.....+  .-...+|+.++.+.
T Consensus        37 vL~~l~~~~-~~~~t~~ela~~l~~-~~~----~vs~~i~~Le~~gli~r~~~~~D~R~~~i~LT~~G~~~~  102 (115)
T d1hsja1          37 ILNHILRSE-SNEISSKEIAKCSEF-KPY----YLTKALQKLKDLKLLSKKRSLQDERTVIVYVTDTQKANI  102 (115)
T ss_dssp             HHHHHHTCS-CSEEEHHHHHHSSCC-CHH----HHHHHHHHHHTTTTSCCEECCSSSSCCEEECCSSHHHHH
T ss_pred             HHHHHHccC-CCCcCHHHHHHHHCC-Chh----hHHHHHHHHHHcCCeEEEeecCCCceEEEEECHHHHHHH
Confidence            344454321 158999999999999 877    99999999999999998642111  12366666665443

>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=89.49  E-value=0.08  Score=40.47  Aligned_cols=25  Identities=16%  Similarity=0.077  Sum_probs=21.9

Q ss_pred             CCCCCeEEEecCCccHHHHHHHhhC
Q 036971          194 FQNITRLVDVGGGLGITLSDHNFQI  218 (221)
Q Consensus       194 ~~~~~~vvDVGGG~G~~~~~l~~~~  218 (221)
                      .....+|+|+|||+|.....+++..
T Consensus        71 i~pG~~VLDlGaGsG~~t~~la~~V   95 (227)
T d1g8aa_          71 IKPGKSVLYLGIASGTTASHVSDIV   95 (227)
T ss_dssp             CCTTCEEEEETTTSTTHHHHHHHHH
T ss_pred             cCCCCEEEEeccCCCHHHHHHHHHh
Confidence            6677899999999999999998753

>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=89.35  E-value=0.11  Score=35.97  Aligned_cols=64  Identities=16%  Similarity=0.095  Sum_probs=48.3

Q ss_pred             hhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCC---cceeccccccccc
Q 036971           40 NLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGV---RLYSLAPVAKYYV  112 (221)
Q Consensus        40 ~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~---~~y~lt~~s~~L~  112 (221)
                      +..+...|...   +++|..+||+.+++ ++.    .+.++++-|...|++++.... .+   -.+.+|+.+..+.
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---GEMESYQLANQACI-LRP----SMTGVLARLERDGIVRRWKAP-KDQRRVYVNLTEKGQQCF   98 (136)
T ss_dssp             HHHHHHHHHHH---CSEEHHHHHHHTTC-CHH----HHHHHHHHHHHTTSEEEEEET-TEEEEEEEEECHHHHHHH
T ss_pred             HHHHHHHHHHc---CCCCHHHHHHHHCC-CHH----HHHHHHHHHHHCCCEEEeecC-ccCchhhhccCHHHHHHH
Confidence            34456667776   48999999999999 887    999999999999999986321 12   2367777766554

>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=89.21  E-value=0.099  Score=36.01  Aligned_cols=66  Identities=17%  Similarity=0.090  Sum_probs=47.7

Q ss_pred             hChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCC--Ccceeccccccccc
Q 036971           41 LDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHG--VRLYSLAPVAKYYV  112 (221)
Q Consensus        41 lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~--~~~y~lt~~s~~L~  112 (221)
                      ..+...|...++ ++++..+||+.+++ ++.    .+.++++-|...|++.+....++  .-...+|+.++.+.
T Consensus        36 ~~vL~~l~~~~~-~~~~~~~ia~~l~~-~~~----~vs~~v~~L~~~glV~r~~~~~D~R~v~i~LT~~G~~~~  103 (125)
T d1p4xa2          36 FTILAIITSQNK-NIVLLKDLIETIHH-KYP----QTVRALNNLKKQGYLIKERSTEDERKILIHMDDAQQDHA  103 (125)
T ss_dssp             HHHHHHHHTTTT-CCEEHHHHHHHSSS-CHH----HHHHHHHHHHHHTSSEEEECSSSTTCEEEECCHHHHHHH
T ss_pred             HHHHHHHHHccC-CCccHHHHHHHHCC-Ccc----hHHHHHHHHHhccCEeeeecCCCCCeEEEEECHHHHHHH
Confidence            335666755432 47899999999999 777    99999999999999998632111  12367777776544

>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=88.83  E-value=0.16  Score=31.52  Aligned_cols=61  Identities=13%  Similarity=0.100  Sum_probs=48.0

Q ss_pred             HhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceeccccc
Q 036971           39 VNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAPVA  108 (221)
Q Consensus        39 v~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~~s  108 (221)
                      .+..|.+.|...   ++.++-+||+.+|+ +-.   .-+.++|-.|...|.+.+...  .+..|.++.-.
T Consensus         6 ~eekI~~~L~~~---g~~~Al~iak~lGl-~ka---keVN~~LY~L~k~g~v~k~~~--tPP~W~L~~~~   66 (73)
T d1xmka1           6 IKEKICDYLFNV---SDSSALNLAKNIGL-TKA---RDINAVLIDMERQGDVYRQGT--TPPIWHLTDKK   66 (73)
T ss_dssp             HHHHHHHHHHHT---CCEEHHHHHHHHCG-GGH---HHHHHHHHHHHHTTSEEEECS--SSCEEEECHHH
T ss_pred             HHHHHHHHHHHc---CCchHHHHHHHhCC-CcH---HHHhHHHHHHHHCCCeecCCC--CCCceeeecch
Confidence            456788999998   48999999999999 652   149999999999999998621  25678887643

>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=88.54  E-value=0.078  Score=40.37  Aligned_cols=21  Identities=24%  Similarity=0.235  Sum_probs=16.1

Q ss_pred             CCCeEEEecCCccHHHHHHHh
Q 036971          196 NITRLVDVGGGLGITLSDHNF  216 (221)
Q Consensus       196 ~~~~vvDVGGG~G~~~~~l~~  216 (221)
                      ...+|||||||.|.++..++.
T Consensus        51 ~g~~vLDlGcG~G~~~~~~~~   71 (257)
T d2a14a1          51 QGDTLIDIGSGPTIYQVLAAC   71 (257)
T ss_dssp             CEEEEEESSCTTCCGGGTTGG
T ss_pred             CCCEEEEECCCCCHhHHHHhc
Confidence            357899999999988655443

>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=87.67  E-value=0.14  Score=37.14  Aligned_cols=66  Identities=14%  Similarity=0.156  Sum_probs=46.1

Q ss_pred             ChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccC--CCCcceeccccccccc
Q 036971           42 DVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFST--HGVRLYSLAPVAKYYV  112 (221)
Q Consensus        42 glfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~--~~~~~y~lt~~s~~L~  112 (221)
                      .|.-.|...|++.++|..+||+.+++ ++.    .+.++++-|...|++++....  ...-...+|+.++.+.
T Consensus        66 ~vL~~L~~~~~~~~lt~~eLa~~l~i-~~~----tvsr~l~~Le~~GlV~r~~~~~DrR~~~i~LT~~G~~l~  133 (172)
T d2fbka1          66 DLLLTLYRSAPPEGLRPTELSALAAI-SGP----STSNRIVRLLEKGLIERREDERDRRSASIRLTPQGRALV  133 (172)
T ss_dssp             HHHHHHHHHCCSSCBCHHHHHHHCSC-CSG----GGSSHHHHHHHHTSEECCC-------CCBEECHHHHHHH
T ss_pred             HHHHHHHhhCCCCCcCHHHHHHHHCc-CHh----HHHHHHHHHHhCCCeeeeccccchhhHHhhcCHHHHHHH
Confidence            34555665543345999999999999 887    999999999999999986311  0012366666666544

>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=87.56  E-value=0.11  Score=35.14  Aligned_cols=64  Identities=13%  Similarity=0.130  Sum_probs=45.9

Q ss_pred             hhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCC--Ccceeccccccccc
Q 036971           43 VLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHG--VRLYSLAPVAKYYV  112 (221)
Q Consensus        43 lfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~--~~~y~lt~~s~~L~  112 (221)
                      +...|.... ++++|..+||+.+++ ++.    .+.++++.|...|++.+.....+  .-.+.+|+.++.+.
T Consensus        38 vL~~l~~~~-~~~~t~~~la~~l~~-~~~----tvs~~i~~Le~~gli~r~~~~~D~R~~~i~LT~~G~~~~  103 (115)
T d2frha1          38 VLTYISENK-EKEYYLKDIINHLNY-KQP----QVVKAVKILSQEDYFDKKRNEHDERTVLILVNAQQRKKI  103 (115)
T ss_dssp             HHHHHHHTC-CSEEEHHHHHHHSSS-HHH----HHHHHHHHHHHTTSSCCBCCSSSSCCCEEECCSHHHHHH
T ss_pred             HHHHHHcCC-CCCCCHHHHHHHHCC-CHh----HHHHHHHHHHhhhhheeeecccCCceEEEEECHHHHHHH
Confidence            344565542 257999999999999 776    99999999999999998732101  12367777776443

>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=87.52  E-value=0.16  Score=34.76  Aligned_cols=66  Identities=14%  Similarity=0.076  Sum_probs=46.7

Q ss_pred             hhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCC--Ccceecccccccc
Q 036971           40 NLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHG--VRLYSLAPVAKYY  111 (221)
Q Consensus        40 ~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~--~~~y~lt~~s~~L  111 (221)
                      ++.|...|...++ +++|..+||+.+++ .+.    .+.++++.|...|++.+.....+  .-...+|+.++.+
T Consensus        36 q~~iL~~l~~~~~-~~~t~~eia~~~~~-~~~----~vs~~l~~L~~~g~v~r~~~~~D~R~~~i~lT~~G~~~  103 (125)
T d1p4xa1          36 EFILLTYLFHQQE-NTLPFKKIVSDLCY-KQS----DLVQHIKVLVKHSYISKVRSKIDERNTYISISEEQREK  103 (125)
T ss_dssp             HHHHHHHHHSCSC-SEEEHHHHHHHSSS-CGG----GTHHHHHHHHHTTSCEEEECSSSTTSEEEECCHHHHHH
T ss_pred             HHHHHHHHHHhcc-CCcCHHHHHHHhCC-Ccc----hHHHHHHHHHHCCCceeecccCCCCeEEEEECHHHHHH
Confidence            3445556655432 57999999999999 887    99999999999999998743101  1135566655543

>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=86.87  E-value=0.34  Score=36.44  Aligned_cols=30  Identities=17%  Similarity=0.192  Sum_probs=24.2

Q ss_pred             HHHHhcCCCCCCCeEEEecCCccHHHHHHHh
Q 036971          186 KIVESYKGFQNITRLVDVGGGLGITLSDHNF  216 (221)
Q Consensus       186 ~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~  216 (221)
                      .+++..+ .+...+|+|||+|+|..+.-+++
T Consensus        69 ~ml~~L~-l~~g~~VLeIGsGsGY~taila~   98 (215)
T d1jg1a_          69 IMLEIAN-LKPGMNILEVGTGSGWNAALISE   98 (215)
T ss_dssp             HHHHHHT-CCTTCCEEEECCTTSHHHHHHHH
T ss_pred             HHHHhhc-cCccceEEEecCCCChhHHHHHH
Confidence            4566677 77778999999999999876664

>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=86.69  E-value=0.36  Score=37.26  Aligned_cols=33  Identities=21%  Similarity=0.022  Sum_probs=25.8

Q ss_pred             HHHHHhcCCCCCCCeEEEecCCccHHHHHHHhhC
Q 036971          185 NKIVESYKGFQNITRLVDVGGGLGITLSDHNFQI  218 (221)
Q Consensus       185 ~~~l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~  218 (221)
                      ..+.+.+- +....+|||+|||.|.++.-+++..
T Consensus        56 ~~~~~~~~-~~~~~~vvDlG~~pGgws~~~a~~~   88 (257)
T d2p41a1          56 RWFVERNL-VTPEGKVVDLGCGRGGWSYYCGGLK   88 (257)
T ss_dssp             HHHHHTTS-SCCCEEEEEETCTTSHHHHHHHTST
T ss_pred             HHHHHhcC-ccCCCeEEEecCCCChHHHHHHhhc
Confidence            34556665 7777799999999999998887653

>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=86.67  E-value=0.24  Score=35.74  Aligned_cols=22  Identities=18%  Similarity=0.120  Sum_probs=18.8

Q ss_pred             CCCeEEEecCCccHHHHHHHhh
Q 036971          196 NITRLVDVGGGLGITLSDHNFQ  217 (221)
Q Consensus       196 ~~~~vvDVGGG~G~~~~~l~~~  217 (221)
                      ...+|+|+|||+|.++.+.+.+
T Consensus        41 ~g~~vLDl~~G~G~~~i~a~~~   62 (171)
T d1ws6a1          41 RRGRFLDPFAGSGAVGLEAASE   62 (171)
T ss_dssp             TCCEEEEETCSSCHHHHHHHHT
T ss_pred             CCCeEEEeccccchhhhhhhhc
Confidence            4579999999999999987665

>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=86.38  E-value=0.44  Score=35.91  Aligned_cols=30  Identities=23%  Similarity=0.269  Sum_probs=22.5

Q ss_pred             HHHHhc--CCCCCCCeEEEecCCccHHHHHHHh
Q 036971          186 KIVESY--KGFQNITRLVDVGGGLGITLSDHNF  216 (221)
Q Consensus       186 ~~l~~~--~~~~~~~~vvDVGGG~G~~~~~l~~  216 (221)
                      .++..+  + .....+|+|||||+|..+.-+++
T Consensus        69 ~~l~~L~~~-l~~g~~VLeIGtGsGY~ta~la~  100 (223)
T d1r18a_          69 FALEYLRDH-LKPGARILDVGSGSGYLTACFYR  100 (223)
T ss_dssp             HHHHHTTTT-CCTTCEEEEESCTTSHHHHHHHH
T ss_pred             HHHHHHhhc-cCCCCeEEEecCCCCHHHHHHHH
Confidence            345554  4 66678999999999998766654

>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=85.38  E-value=0.32  Score=29.63  Aligned_cols=42  Identities=12%  Similarity=0.304  Sum_probs=35.4

Q ss_pred             CCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCccee
Q 036971           54 AELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYS  103 (221)
Q Consensus        54 ~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~  103 (221)
                      ..++..+||+..|+ +..    .+++-|+.|...|+++...   ..|.|-
T Consensus        24 ~~l~~~~La~~~~v-Sr~----tvr~Al~~L~~~Gli~~~~---~~G~~V   65 (69)
T d2hs5a1          24 ARLSEPDICAALDV-SRN----TVREAFQILIEDRLVAHEL---NRGVFV   65 (69)
T ss_dssp             CEECHHHHHHHHTC-CHH----HHHHHHHHHHHTTSEEEET---TTEEEE
T ss_pred             CccCHHHHHHHHCC-CHH----HHHHHHHHHHHCCcEEEEc---CCEEEe
Confidence            46789999999999 877    8999999999999999873   345554

>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=84.97  E-value=0.52  Score=29.26  Aligned_cols=44  Identities=14%  Similarity=0.181  Sum_probs=36.5

Q ss_pred             CCC-CHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceecc
Q 036971           54 AEL-SASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLA  105 (221)
Q Consensus        54 ~~~-t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt  105 (221)
                      ..+ |..+||+..++ +..    -+++.|+.|...|++....   ..|.|-..
T Consensus        20 ~~LPse~~La~~~~v-Sr~----tvr~Al~~L~~~Gli~~~~---g~G~~V~~   64 (78)
T d3bwga1          20 DKLPVLETLMAQFEV-SKS----TITKSLELLEQKGAIFQVR---GSGIFVRK   64 (78)
T ss_dssp             CBCCCHHHHHHHTTC-CHH----HHHHHHHHHHHTTSEEEET---TTEEEECC
T ss_pred             CCCcCHHHHHHHHCC-CHH----HHHHHHHHHHHCCcEEEEc---CcEEEEcc
Confidence            467 89999999999 877    8999999999999999973   35555543

>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=83.92  E-value=0.39  Score=29.56  Aligned_cols=42  Identities=7%  Similarity=0.091  Sum_probs=35.6

Q ss_pred             CCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcceeccc
Q 036971           55 ELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYSLAP  106 (221)
Q Consensus        55 ~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~lt~  106 (221)
                      ++|-+|||.-+|+ ...    .+.|.|..|...|+++..     .+.+....
T Consensus        27 ~lt~~elA~~lg~-sr~----tvsr~l~~l~~~g~I~~~-----~~~i~I~d   68 (73)
T d1zyba1          27 KVKMDDLARCLDD-TRL----NISKTLNELQDNGLIELH-----RKEILIPD   68 (73)
T ss_dssp             ECCHHHHHHHHTS-CHH----HHHHHHHHHHHTTSCEEE-----TTEEEESC
T ss_pred             ecCHHHHHHHHCC-CHH----HHHHHHHHHHHCCCEEec-----CCEEEEcc
Confidence            4799999999999 777    999999999999999975     55555443

>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=83.91  E-value=0.71  Score=29.51  Aligned_cols=37  Identities=5%  Similarity=0.013  Sum_probs=31.4

Q ss_pred             CCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           54 AELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        54 ~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      .|.+..+|++..++ +-.  +.-++..|..|...|++.+.
T Consensus        22 ~Pv~s~~i~~~~~l-~~S--~aTIRn~m~~LE~~G~l~~~   58 (87)
T d1stza1          22 KPVSSQRVLEVSNI-EFS--SATIRNDMKKLEYLGYIYQP   58 (87)
T ss_dssp             SCBCHHHHHHHSCC-CSC--HHHHHHHHHHHHHTTSEECC
T ss_pred             CccCHHHHHHHhCC-CCC--HHHHHHHHHHHHHCCcccCC
Confidence            69999999999887 521  22789999999999999986

>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=83.82  E-value=0.52  Score=29.53  Aligned_cols=46  Identities=17%  Similarity=0.205  Sum_probs=40.6

Q ss_pred             hhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeec
Q 036971           43 VLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSF   94 (221)
Q Consensus        43 lfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~   94 (221)
                      |+++|..+|. .++...+|-.++++ +..    .+.++|..|.+.+++..+.
T Consensus        18 VY~~I~~ag~-~GIW~~dir~ktnL-~~~----~l~K~LK~Lesk~lIK~Vk   63 (78)
T d2dk5a1          18 VYQIIEDAGN-KGIWSRDVRYKSNL-PLT----EINKILKNLESKKLIKAVK   63 (78)
T ss_dssp             HHHHHHHHCT-TCEEHHHHHHHTTC-CHH----HHHHHHHHHHHTTSEEEEC
T ss_pred             HHHHHHHccc-cceeHHHHHHHcCC-CHH----HHHHHHHHHHhcCCceeec
Confidence            6777888764 58999999999999 887    9999999999999999973

>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=83.63  E-value=0.86  Score=27.77  Aligned_cols=36  Identities=11%  Similarity=0.091  Sum_probs=32.8

Q ss_pred             CCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           53 GAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        53 ~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      +..+|+.+||+.+|+ +.+    -+-|.|-.|...|.+.+.
T Consensus        22 ~~~~tA~~LAk~Lg~-~Kk----~VNr~LY~L~~~G~v~~~   57 (70)
T d1sfua_          22 NDYTTAISLSNRLKI-NKK----KINQQLYKLQKEDTVKMV   57 (70)
T ss_dssp             TCEECHHHHHHHTTC-CHH----HHHHHHHHHHHTTSEEEE
T ss_pred             CCCchHHHHHHHhCC-CHH----HHHHHHHHHHHCCCeecC
Confidence            368999999999999 776    899999999999999997

>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=83.13  E-value=0.54  Score=26.82  Aligned_cols=40  Identities=18%  Similarity=0.174  Sum_probs=31.2

Q ss_pred             hhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCc
Q 036971           44 LDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNI   89 (221)
Q Consensus        44 fd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gl   89 (221)
                      .+.|.++=. .++|+++||+.+|+ +++    .+.|+.+....+.+
T Consensus         9 ~~yI~~~~~-~~~tl~~lA~~~~~-s~~----~l~r~Fk~~~g~tp   48 (54)
T d1bl0a1           9 LDWIEDNLE-SPLSLEKVSERSGY-SKW----HLQRMFKKETGHSL   48 (54)
T ss_dssp             HHHHHTTTT-SCCCCHHHHHHSSS-CHH----HHHHHHHHHHSSCH
T ss_pred             HHHHHhccC-CCCCHHHHHHHHCc-CHH----HHHHHHHHHHCcCH
Confidence            345555533 48999999999999 888    99999988776554

>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=82.98  E-value=0.28  Score=35.15  Aligned_cols=62  Identities=18%  Similarity=-0.068  Sum_probs=47.3

Q ss_pred             hhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccC--CCCcceeccccccccc
Q 036971           43 VLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFST--HGVRLYSLAPVAKYYV  112 (221)
Q Consensus        43 lfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~--~~~~~y~lt~~s~~L~  112 (221)
                      |...|...   +++|+.+||+.+++ +..    .+.+++.-|...|++.+....  ...-...+|+.+..+.
T Consensus        46 vL~~l~~~---~~~t~~~la~~~~l-~~~----tvs~~i~rL~~~gli~r~~~~~D~R~~~l~lT~~G~~~~  109 (162)
T d2fxaa1          46 ILWIAYQL---NGASISEIAKFGVM-HVS----TAFNFSKKLEERGYLRFSKRLNDKRNTYVQLTEEGTEVF  109 (162)
T ss_dssp             HHHHHHHH---TSEEHHHHHHHTTC-CHH----HHHHHHHHHHHHTSEEEECC------CEEEECHHHHHHH
T ss_pred             HHhhhccC---CCcCHHHHHHHHcC-Cch----hhHHHHHHHHHCCCceeecccccCeeeeeccCHhHHHHH
Confidence            56677776   48999999999999 777    999999999999999986321  0112477788777554

>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=82.55  E-value=0.48  Score=29.27  Aligned_cols=42  Identities=21%  Similarity=0.150  Sum_probs=35.2

Q ss_pred             CCC-CHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCccee
Q 036971           54 AEL-SASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLYS  103 (221)
Q Consensus        54 ~~~-t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y~  103 (221)
                      ..+ +..+||+.+++ +..    -+++-++.|+..|++....   ..|.|-
T Consensus        25 ~~LPs~~eLa~~~~v-Sr~----tvr~Al~~L~~~G~i~~~~---g~G~~V   67 (74)
T d1hw1a1          25 TILPAERELSELIGV-TRT----TLREVLQRLARDGWLTIQH---GKPTKV   67 (74)
T ss_dssp             SBCCCHHHHHHHHTC-CHH----HHHHHHHHHHHTTSEEEET---TEEEEE
T ss_pred             CCCccHHHHHHHHCC-CHH----HHHHHHHHHHHCCcEEEEe---CceEEE
Confidence            467 79999999999 887    8999999999999999973   344443

>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=81.93  E-value=0.73  Score=28.50  Aligned_cols=34  Identities=26%  Similarity=0.178  Sum_probs=31.9

Q ss_pred             CCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           55 ELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        55 ~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      ++|-+|||..+|+ .+.    .+.|+|..|...|+++..
T Consensus        29 ~lt~~eLA~~~G~-sre----tvsr~L~~l~~~glI~~~   62 (81)
T d2gaua1          29 YLSREELATLSNM-TVS----NAIRTLSTFVSERMLALD   62 (81)
T ss_dssp             CCCHHHHHHHTTS-CHH----HHHHHHHHHHHTTSEEEE
T ss_pred             cCCHHHHHHHHCC-CHH----HHHHHHHHHHHCCCEEec
Confidence            6899999999999 887    999999999999999985

>d1cf7a_ a.4.5.17 (A:) Cell cycle transcription factor E2F-4 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Cell cycle transcription factor e2f-dp
domain: Cell cycle transcription factor E2F-4
species: Human (Homo sapiens) [TaxId: 9606]

Probab=80.66  E-value=0.72  Score=27.98  Aligned_cols=50  Identities=8%  Similarity=0.146  Sum_probs=38.0

Q ss_pred             hhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeeeccCCCCcce
Q 036971           44 LDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCSFSTHGVRLY  102 (221)
Q Consensus        44 fd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~~~~~~~~~y  102 (221)
                      ...+..+. ++.+++++.|..++. .++   +.+..+...|.++|++++.    ..+.|
T Consensus        15 l~l~~~~~-~~~~~L~~aa~~L~v-~~k---RRiYDI~NVLe~igli~K~----~Kn~~   64 (67)
T d1cf7a_          15 VSLLQEAK-DGVLDLKLAADTLAV-RQK---RRIYDITNVLEGIGLIEKK----SKNSI   64 (67)
T ss_dssp             HHHHHHSS-TTEEEHHHHHHHTTT-CCT---HHHHHHHHHHHHHTSEEEE----ETTEE
T ss_pred             HHHHhhCC-CCeeeHHHHHHHhcC-cch---hhHHHHHHHHhhhhhhhcc----cCCcc
Confidence            34445442 257899999999999 643   2899999999999999997    45554

>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=80.10  E-value=0.87  Score=30.73  Aligned_cols=52  Identities=13%  Similarity=0.111  Sum_probs=40.6

Q ss_pred             HhhChhhHHHhcCCCCCCCHHHHHhhCCCCCCcchhhhHHHHHHHHhcCCceeee
Q 036971           39 VNLDVLDIINKAGPGAELSASEIASQIPTKNPEGAAKMLDRVLGLLVSFNILCCS   93 (221)
Q Consensus        39 v~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlLr~L~~~gll~~~   93 (221)
                      .++.|.+.|-+.|  +|+|+.||.+.+.- +..-...-+..+|+-|+..|++...
T Consensus         8 ~E~~IM~~lW~~g--~~~t~~eI~~~l~~-~~~~~~sTV~T~L~rL~~Kg~l~~~   59 (122)
T d2g9wa1           8 LERAVMDHLWSRT--EPQTVRQVHEALSA-RRDLAYTTVMAVLQRLAKKNLVLQI   59 (122)
T ss_dssp             HHHHHHHHHHTCS--SCEEHHHHHHHHTT-TCCCCHHHHHHHHHHHHHTTSEEEE
T ss_pred             HHHHHHHHHHcCC--CCccHHHHHHHHhc-cCCCcHHHHHHHHHHHHHCCCEEEe
Confidence            4667888888875  58999999999865 2211233789999999999999987