Citrus Sinensis ID: 036188

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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
Protein Sequence
MDSIVDGERDQSFAYADQLATGVVLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSVSKYYVPNKDGVLLGPLIQIIQDKVILESWSQLKDAILEGGIPFNRAHGVHIFEYAGLNPRFNKHFNAAMYNYTSLVMSNILESYKGFDNIKQLVDVGGSLGVTLQAITT
Secondary Structure (PSIPRED)
ccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHcHHHHHHHccccccccHHHHHHHHcccccccccHHHHHHHHHHHHccEEEEccccccccccccHHHHcccccccccccHHHHHHHHcccHHHHHHHHHHHHHHccccccHHcccccHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHcccccccccEEEEcccHHHHHHHHcc
Secondary Structure Prediction (SSPRO)
cccccccHHccHHHHHHHHHcccHHHHHHHHHHHccHHHHHHcccccccEcHHHHHcccccccccHHHHHHHHHHHHHHcccEEEEEcccccEEEEEEcHHHccccccEccEccHHHHHHHccHHHHHHHccHHHHHHHcccHHHHHHcccHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccEEEEccccccHHHHHHc
Coil and Loop (DISEMBL)
mdsivdgerdqsfaYADQLATGVVLPMAIQAVYELGIFEIldkagpgtklsASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECsldasgarrlyslnsvskyyvpnkdgvllgpliQIIQDKVILESWSQLKDAILeggipfnrahgvhifeyaglnprfnKHFNAAMYNYTSLVMSNILesykgfdnIKQLVDVGGSLGVTLQAITT
Flexible Loop (DISEMBL)
mdsivdgerdqSFAYADQLATGVVLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSVSKYYVPNKDGVLLGPLIQIIQDKVILESWSQLKDAILEGGIPFNRAHGVHIFEYAGLNPRFNKHFNAAMYNYTSLVMSNILESYKGFDNIKQLVDVGGSLGVTLQAITT
Low Complexity Region (SEG)
MDSIVDGERDQSFAYADQLATGVVLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSVSKYYVPNKDGVLLGPLIQIIQDKVILESWSQLKDAILEGGIPFNRAHGVHIFEYAGLNPRFNKHFNAAMYNYTSLVMSNILESYKGFDNIKQLVDVGGSLGVTLQAITT
Disordered region (IsUnstruct)
************FAYADQLATGVVLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSVSKYYVPNKDGVLLGPLIQIIQDKVILESWSQLKDAILEGGIPFNRAHGVHIFEYAGLNPRFNKHFNAAMYNYTSLVMSNILESYKGFDNIKQLVDVGGSLGVTLQ****
Disordered Region (DISOPRED)
**********QSFAYADQLATGVVLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSVSKYYVPNKDGVLLGPLIQIIQDKVILESWSQLKDAILEGGIPFNRAHGVHIFEYAGLNPRFNKHFNAAMYNYTSLVMSNILESYKGFDNIKQLVDVGGSLGVTLQAITT
Disordered Region (DISEMBL)
********RDQSFAYADQLATGVVLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSVSKYYVPNKDGVLLGPLIQIIQDKVILESWSQLKDAILEGGIPFNRAHGVHIFEYAGLNPRFNKHFNAAMYNYTSLVMSNILESYKGFDNIKQLVDVGGSLGVTLQAITT
Disordered Region (DISPRO)
*********DQSFAYADQLATGVVLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSVSKYYVPNKDGVLLGPLIQIIQDKVILESWSQLKDAILEGGIPFNRAHGVHIFEYAGLNPRFNKHFNAAMYNYTSLVMSNILESYKGFDNIKQLVDVGGSLGVTLQAITT
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MDSIVDGERDQSFAYADQLATGVVLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSVSKYYVPNKDGVLLGPLIQIIQDKVILESWSQLKDAILEGGIPFNRAHGVHIFEYAGLNPRFNKHFNAAMYNYTSLVMSNILESYKGFDNIKQLVDVGGSLGVTLQAITT
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	210	2.2.26 [Sep-21-2011]
A9X7L0	364	Anthranilate N-methyltran	N/A	no	0.942	0.543	0.527	1e-58
Q43047	364	Caffeic acid 3-O-methyltr	N/A	no	0.957	0.552	0.539	4e-57
Q9XGV9	361	Caffeic acid 3-O-methyltr	N/A	no	0.980	0.570	0.492	1e-56
Q8W013	363	Caffeic acid 3-O-methyltr	N/A	no	0.966	0.559	0.514	1e-56
Q43046	365	Caffeic acid 3-O-methyltr	N/A	no	0.957	0.550	0.524	1e-56
Q9FQY8	359	Caffeic acid 3-O-methyltr	N/A	no	0.961	0.562	0.502	2e-56
Q8LL87	350	Caffeic acid 3-O-methyltr	N/A	no	0.961	0.577	0.502	2e-56
O81646	359	Caffeic acid 3-O-methyltr	N/A	no	0.961	0.562	0.497	3e-56
Q00763	365	Caffeic acid 3-O-methyltr	N/A	no	0.957	0.550	0.519	5e-56
Q43609	365	Caffeic acid 3-O-methyltr	N/A	no	0.933	0.536	0.542	1e-55

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

 Score =  226 bits (575), Expect = 1e-58,   Method: Compositional matrix adjust.
 Identities = 105/199 (52%), Positives = 146/199 (73%), Gaps = 1/199 (0%)

Query: 12  SFAYADQLATGVVLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLD 71
           S++ A QL+  +VLPMA Q+  +LG+FEI+ KA PG +LSAS+IA  L  +N  AP+MLD
Sbjct: 24  SYSRAMQLSMAIVLPMATQSAIQLGVFEIIAKA-PGGRLSASEIATILQAQNPKAPVMLD 82

Query: 72  RILRLLASYSVVECSLDASGARRLYSLNSVSKYYVPNKDGVLLGPLIQIIQDKVILESWS 131
           R+LRLL S+ V++CS+      RLY L SVSKY+VP++DG  LG  + +  DKV +ESW 
Sbjct: 83  RMLRLLVSHRVLDCSVSGPAGERLYGLTSVSKYFVPDQDGASLGNFMALPLDKVFMESWM 142

Query: 132 QLKDAILEGGIPFNRAHGVHIFEYAGLNPRFNKHFNAAMYNYTSLVMSNILESYKGFDNI 191
            +K A++EGGIPFNR HG+HIFEYA  N +F+  ++ AM+N++++ +  ILE YKGF+N+
Sbjct: 143 GVKGAVMEGGIPFNRVHGMHIFEYASSNSKFSDTYHRAMFNHSTIALKRILEHYKGFENV 202

Query: 192 KQLVDVGGSLGVTLQAITT 210
            +LVDVGG LGVTL  I +
Sbjct: 203 TKLVDVGGGLGVTLSMIAS 221

Involved in the biosynthesis of acridine alkaloids. N-methyltransferase with a strict substrate specificity for anthranilate. No activity with anthranilic acid methyl ester, anthraniloyl CoA, 3- or 4-amino-benzoic acid, salicylic acid, catechol, eugenol, caffeic acid, quercetin, theobromin, theophyllin, putrescine and nicotinic acid among others.
Ruta graveolens (taxid: 37565)
EC: 2EC: .EC: 1EC: .EC: 1EC: .EC: 1EC: 1EC: 1

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

 Score =  221 bits (562), Expect = 4e-57,   Method: Compositional matrix adjust.
 Identities = 110/204 (53%), Positives = 139/204 (68%), Gaps = 3/204 (1%)

Query: 10  DQSFAYADQLATGVVLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMM 69
           D+   +A QL +  VLPM ++   EL + EI+ KAGPG  LS SDIA+ L TKN DAP+M
Sbjct: 16  DEEANFAMQLISSSVLPMVLKTAIELDLLEIMAKAGPGALLSPSDIASHLPTKNPDAPVM 75

Query: 70  LDRILRLLASYSVVECSL---DASGARRLYSLNSVSKYYVPNKDGVLLGPLIQIIQDKVI 126
           LDRILRLLASYS++ CSL         RLY L SV K+   N+DGV + PL  + QDKV+
Sbjct: 76  LDRILRLLASYSILICSLRDLPDGKVERLYGLASVCKFLTKNEDGVSVSPLCLMNQDKVL 135

Query: 127 LESWSQLKDAILEGGIPFNRAHGVHIFEYAGLNPRFNKHFNAAMYNYTSLVMSNILESYK 186
           +ESW  LKDAILEGGIPFN+A+G+  FEY G +PRFNK FN  M +++ + M  ILESYK
Sbjct: 136 MESWYHLKDAILEGGIPFNKAYGMTAFEYHGTDPRFNKVFNKGMSDHSKMAMKKILESYK 195

Query: 187 GFDNIKQLVDVGGSLGVTLQAITT 210
           GF+ +  LVDVGG  G  +  I +
Sbjct: 196 GFEGLASLVDVGGGTGAVVSTIVS 219

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

 Score =  219 bits (558), Expect = 1e-56,   Method: Compositional matrix adjust.
 Identities = 103/209 (49%), Positives = 147/209 (70%), Gaps = 3/209 (1%)

Query: 5   VDGERDQSFAYADQLATGVVLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNK 64
           ++ + +++F +A QLA+  VLPM +++  EL + E++ KAG G  +S +++AAQLLT N 
Sbjct: 10  INSDEEENFLFAMQLASASVLPMVLKSAIELDLLELIKKAGAGAFVSPAELAAQLLTTNA 69

Query: 65  DAPMMLDRILRLLASYSVVECSLDA---SGARRLYSLNSVSKYYVPNKDGVLLGPLIQII 121
           +A +MLDRILRLL SY+++EC L      G +RLY L  V K+   N+DGV + PL  + 
Sbjct: 70  EAHVMLDRILRLLTSYAILECRLKTLPDGGVQRLYGLAPVCKFLTKNEDGVSMAPLALMN 129

Query: 122 QDKVILESWSQLKDAILEGGIPFNRAHGVHIFEYAGLNPRFNKHFNAAMYNYTSLVMSNI 181
           QDKV++ESW  LKDA+L+GGIPFN+A+G+  FEY G +PRFNK FN  M N++++ M  I
Sbjct: 130 QDKVLMESWYHLKDAVLDGGIPFNKAYGMTAFEYHGTDPRFNKVFNQGMSNHSTITMKKI 189

Query: 182 LESYKGFDNIKQLVDVGGSLGVTLQAITT 210
           LE+Y GFD +K +VDVGG  G TL  I +
Sbjct: 190 LETYTGFDGLKTVVDVGGGTGATLNMIIS 218

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

Ocimum basilicum (taxid: 39350)

EC: 2

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 6

EC: 8

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

 Score =  219 bits (557), Expect = 1e-56,   Method: Compositional matrix adjust.
 Identities = 106/206 (51%), Positives = 146/206 (70%), Gaps = 3/206 (1%)

Query: 8   ERDQSFAYADQLATGVVLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAP 67
           E +++   A +LA+  VLPM +++  EL + E++ K+GPG  +S S++AAQL T+N DAP
Sbjct: 15  EEEEACLSAMRLASASVLPMVLKSAIELDLLELIKKSGPGAYVSPSELAAQLPTQNPDAP 74

Query: 68  MMLDRILRLLASYSVVECSLDA---SGARRLYSLNSVSKYYVPNKDGVLLGPLIQIIQDK 124
           +MLDRILRLLASYSV+ C+L      G  RLYSL  V K+   N+DGV +  L+ + QDK
Sbjct: 75  VMLDRILRLLASYSVLNCTLKDLPDGGIERLYSLAPVCKFLTKNEDGVSMAALLLMNQDK 134

Query: 125 VILESWSQLKDAILEGGIPFNRAHGVHIFEYAGLNPRFNKHFNAAMYNYTSLVMSNILES 184
           V++ESW  LKDA+LEGGIPFN+A+G+  FEY G +PRFNK FN  M N+++++M  ILE 
Sbjct: 135 VLMESWYHLKDAVLEGGIPFNKAYGMTAFEYHGKDPRFNKVFNQGMSNHSTIIMKKILEI 194

Query: 185 YKGFDNIKQLVDVGGSLGVTLQAITT 210
           Y+GF  +K +VDVGG  G TL  I +
Sbjct: 195 YQGFQGLKTVVDVGGGTGATLNMIVS 220

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

 Score =  219 bits (557), Expect = 1e-56,   Method: Compositional matrix adjust.
 Identities = 107/204 (52%), Positives = 141/204 (69%), Gaps = 3/204 (1%)

Query: 10  DQSFAYADQLATGVVLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMM 69
           +++  +A QLA+  VLPM ++   EL + EI+ KAGPG  LS S+IA+ L TKN DAP+M
Sbjct: 17  EEAHLFAMQLASASVLPMILKTAIELDLLEIMAKAGPGAFLSTSEIASHLPTKNPDAPVM 76

Query: 70  LDRILRLLASYSVVECSLDA---SGARRLYSLNSVSKYYVPNKDGVLLGPLIQIIQDKVI 126
           LDRILRLLASYS++ CSL         RLY L  V K+   N+DGV + PL  + QDKV+
Sbjct: 77  LDRILRLLASYSILTCSLKDLPDGKVERLYGLAPVCKFLTKNEDGVSVSPLCLMNQDKVL 136

Query: 127 LESWSQLKDAILEGGIPFNRAHGVHIFEYAGLNPRFNKHFNAAMYNYTSLVMSNILESYK 186
           +ESW  LKDAILEGGIPFN+A+G+  FEY G +PRFNK FN  M +++++ M  ILE+YK
Sbjct: 137 MESWYYLKDAILEGGIPFNKAYGMTAFEYHGTDPRFNKVFNKGMSDHSTITMKKILETYK 196

Query: 187 GFDNIKQLVDVGGSLGVTLQAITT 210
           GF+ +  LVDVGG  G  +  I +
Sbjct: 197 GFEGLTSLVDVGGGTGAVVNTIVS 220

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

Populus kitakamiensis (taxid: 34292)

EC: 2

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 6

EC: 8

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

 Score =  218 bits (556), Expect = 2e-56,   Method: Compositional matrix adjust.
 Identities = 103/205 (50%), Positives = 143/205 (69%), Gaps = 3/205 (1%)

Query: 9   RDQSFAYADQLATGVVLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPM 68
            D++F +A QLA+  VLPM +++  EL + EI+ KAGPG  +S S++AAQL TKN +AP+
Sbjct: 12  EDEAFLFAMQLASASVLPMVLKSALELDLLEIMAKAGPGAAISPSELAAQLPTKNPEAPV 71

Query: 69  MLDRILRLLASYSVVECSLDA---SGARRLYSLNSVSKYYVPNKDGVLLGPLIQIIQDKV 125
           MLDR+LRLLA+YSV+ C+L         RLYSL  V K    N DGV + PL+ + QDKV
Sbjct: 72  MLDRMLRLLATYSVLNCTLRTLPDGRVERLYSLAPVCKLLTKNADGVSVAPLLLMNQDKV 131

Query: 126 ILESWSQLKDAILEGGIPFNRAHGVHIFEYAGLNPRFNKHFNAAMYNYTSLVMSNILESY 185
           ++ESW  L DA+L+GG+PFN+A+G+  FEY G +PRFNK FN  M +++++ M  ILE Y
Sbjct: 132 LMESWYHLTDAVLDGGVPFNKAYGMTAFEYHGTDPRFNKVFNRGMSDHSTMTMKKILEDY 191

Query: 186 KGFDNIKQLVDVGGSLGVTLQAITT 210
           KGF+ +  +VDVGG  G T+  I +
Sbjct: 192 KGFEGLNSIVDVGGGTGATVNMIVS 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.

Capsicum annuum (taxid: 4072)

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 =  218 bits (555), Expect = 2e-56,   Method: Compositional matrix adjust.
 Identities = 103/205 (50%), Positives = 144/205 (70%), Gaps = 3/205 (1%)

Query: 9   RDQSFAYADQLATGVVLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPM 68
            +++  +A  LA+  VLPM +++  EL + E++ KAGPG  +S S++AAQL T N +AP+
Sbjct: 3   EEEACLFAMSLASASVLPMVLKSAIELDLLELIAKAGPGAYVSPSELAAQLPTHNPEAPI 62

Query: 69  MLDRILRLLASYSVVECSLDA---SGARRLYSLNSVSKYYVPNKDGVLLGPLIQIIQDKV 125
           MLDRILRLLA+YSV++C L+     G  RLY L  V K+   N DGV + PL+ + QDKV
Sbjct: 63  MLDRILRLLATYSVLDCKLNNLADGGVERLYGLAPVCKFLTKNADGVSMAPLLLMNQDKV 122

Query: 126 ILESWSQLKDAILEGGIPFNRAHGVHIFEYAGLNPRFNKHFNAAMYNYTSLVMSNILESY 185
           ++ESW  LKDA+L+GGIPFN+A+G+  FEY G +PRFNK FN  M N++++ M  ILE Y
Sbjct: 123 LMESWYHLKDAVLDGGIPFNKAYGMTAFEYHGTDPRFNKVFNQGMSNHSTITMKKILEVY 182

Query: 186 KGFDNIKQLVDVGGSLGVTLQAITT 210
           +GF+ +K +VDVGG  G TL  I +
Sbjct: 183 RGFEGLKTVVDVGGGTGATLNMIIS 207

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

 Score =  218 bits (554), Expect = 3e-56,   Method: Compositional matrix adjust.
 Identities = 102/205 (49%), Positives = 142/205 (69%), Gaps = 3/205 (1%)

Query: 9   RDQSFAYADQLATGVVLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPM 68
            D++F +A QLA+  VLPM ++A  EL + EI+ K+GPG  +S S++AAQL TKN +AP+
Sbjct: 12  EDEAFVFAMQLASASVLPMVLKATVELDLLEIMAKSGPGAFISPSELAAQLPTKNPEAPV 71

Query: 69  MLDRILRLLASYSVVECSLDA---SGARRLYSLNSVSKYYVPNKDGVLLGPLIQIIQDKV 125
           MLDR+ RLLA+YSV+ C+L         RLYSL  V K+   N DGV + P++ + QDKV
Sbjct: 72  MLDRMFRLLATYSVLNCTLRTLPDGRVERLYSLAPVCKFLTKNGDGVSIAPILLMNQDKV 131

Query: 126 ILESWSQLKDAILEGGIPFNRAHGVHIFEYAGLNPRFNKHFNAAMYNYTSLVMSNILESY 185
           ++ESW  L DA+L+GG+PFN+A+G+  FEY G +PRFNK FN  M ++T+L M  ILE Y
Sbjct: 132 LMESWYHLTDAVLDGGVPFNKAYGMTTFEYHGTDPRFNKVFNCGMSDHTTLSMKKILEDY 191

Query: 186 KGFDNIKQLVDVGGSLGVTLQAITT 210
            GF+ +  +VDVGG  G T+  I +
Sbjct: 192 TGFEGLNSIVDVGGGTGATVNMIVS 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.

Capsicum chinense (taxid: 80379)

EC: 2

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 6

EC: 8

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

 Score =  217 bits (552), Expect = 5e-56,   Method: Compositional matrix adjust.
 Identities = 106/204 (51%), Positives = 141/204 (69%), Gaps = 3/204 (1%)

Query: 10  DQSFAYADQLATGVVLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMM 69
           +++  +A QLA+  VLPM ++   EL + EI+ KAGPG  LS S+IA+ L TKN DAP+M
Sbjct: 17  EEAHLFAMQLASASVLPMILKTAIELDLLEIMAKAGPGAFLSTSEIASHLPTKNPDAPVM 76

Query: 70  LDRILRLLASYSVVECSLDA---SGARRLYSLNSVSKYYVPNKDGVLLGPLIQIIQDKVI 126
           LDRILRLLASYS++ CSL         RLY L  V K+   N+DGV + PL  + QDKV+
Sbjct: 77  LDRILRLLASYSILTCSLKDLPDGKVERLYGLAPVCKFLTKNEDGVSVSPLCLMNQDKVL 136

Query: 127 LESWSQLKDAILEGGIPFNRAHGVHIFEYAGLNPRFNKHFNAAMYNYTSLVMSNILESYK 186
           +ESW  LKDAIL+GGIPFN+A+G+  FEY G +PRFNK FN  M +++++ M  ILE+YK
Sbjct: 137 MESWYYLKDAILDGGIPFNKAYGMTAFEYHGTDPRFNKVFNKGMSDHSTITMKKILETYK 196

Query: 187 GFDNIKQLVDVGGSLGVTLQAITT 210
           GF+ +  LVDVGG  G  +  I +
Sbjct: 197 GFEGLTSLVDVGGGTGAVVNTIVS 220

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

Populus tremuloides (taxid: 3693)

EC: 2

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 6

EC: 8

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

 Score =  216 bits (549), Expect = 1e-55,   Method: Compositional matrix adjust.
 Identities = 108/199 (54%), Positives = 141/199 (70%), Gaps = 3/199 (1%)

Query: 15  YADQLATGVVLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRIL 74
           +A QLA+  VLPM ++A  EL + EI+ KAGPG  LS +DIA+QL TKN DAP+MLDR+L
Sbjct: 22  FAMQLASASVLPMVLKAAIELDLLEIMAKAGPGVFLSPTDIASQLPTKNPDAPVMLDRML 81

Query: 75  RLLASYSVVECSLD--ASG-ARRLYSLNSVSKYYVPNKDGVLLGPLIQIIQDKVILESWS 131
           RLLASYS++  SL   A G   RLY L  V K+   N++GV + PL  + QDKV+LESW 
Sbjct: 82  RLLASYSILTYSLRTLADGKVERLYGLGPVCKFLTKNEEGVSIAPLCLMNQDKVLLESWY 141

Query: 132 QLKDAILEGGIPFNRAHGVHIFEYAGLNPRFNKHFNAAMYNYTSLVMSNILESYKGFDNI 191
            LKDA+LEGGIPFN+A+G+  FEY G +PRFNK FN  M +++++ M  ILE+YKGF+ +
Sbjct: 142 HLKDAVLEGGIPFNKAYGMTAFEYHGTDPRFNKVFNRGMADHSTITMKKILETYKGFEGL 201

Query: 192 KQLVDVGGSLGVTLQAITT 210
             +VDVGG  G  L  I +
Sbjct: 202 TSVVDVGGGTGAVLNMIVS 220

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

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	210
145695037	353	O-methyltransferase [Citrus sinensis x C	1.0	0.594	0.919	1e-110
224128073	358	catechol o-methyltransferase related [Po	0.971	0.569	0.631	4e-71
255548061	359	o-methyltransferase, putative [Ricinus c	0.971	0.568	0.589	1e-66
224068173	359	catechol o-methyltransferase [Populus tr	0.980	0.573	0.591	5e-66
449461110	370	PREDICTED: caffeic acid 3-O-methyltransf	0.990	0.562	0.589	5e-63
449524438	266	PREDICTED: caffeic acid 3-O-methyltransf	0.990	0.781	0.589	7e-63
268528131	356	caffeic acid O-methyltransferase 3 [Goss	1.0	0.589	0.553	3e-62
357512657	362	Caffeic acid 3-O-methyltransferase [Medi	0.966	0.560	0.557	7e-62
388494808	362	unknown [Medicago truncatula]	0.966	0.560	0.557	7e-62
449524436	361	PREDICTED: caffeic acid 3-O-methyltransf	0.966	0.562	0.623	7e-61

>gi|145695037|gb|ABP94018.1| O-methyltransferase [Citrus sinensis x Citrus reticulata]

 Score =  402 bits (1033), Expect = e-110,   Method: Compositional matrix adjust.
 Identities = 193/210 (91%), Positives = 201/210 (95%)

Query: 1   MDSIVDGERDQSFAYADQLATGVVLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLL 60
           MDSIVDGERDQSFAYA+QLA G +LPMAIQ VYELGIFEILDK GPG KL ASDIAAQLL
Sbjct: 1   MDSIVDGERDQSFAYANQLAMGTMLPMAIQTVYELGIFEILDKVGPGAKLCASDIAAQLL 60

Query: 61  TKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSVSKYYVPNKDGVLLGPLIQI 120
           TKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSVSKYYVPNKDGVLLGPLIQI
Sbjct: 61  TKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSVSKYYVPNKDGVLLGPLIQI 120

Query: 121 IQDKVILESWSQLKDAILEGGIPFNRAHGVHIFEYAGLNPRFNKHFNAAMYNYTSLVMSN 180
           +QDKV L+SWSQLKDAILEGGIPFNRAHGVH+FEY GL+P+FNKHFN AMYNYTSLVMSN
Sbjct: 121 VQDKVFLKSWSQLKDAILEGGIPFNRAHGVHVFEYTGLDPKFNKHFNTAMYNYTSLVMSN 180

Query: 181 ILESYKGFDNIKQLVDVGGSLGVTLQAITT 210
           ILESYKGFDNIKQLVDVGGSLG+TLQAITT
Sbjct: 181 ILESYKGFDNIKQLVDVGGSLGITLQAITT 210

Source: Citrus sinensis x Citrus reticulata

Species: Citrus sinensis x Citrus reticulata

Genus: Citrus

Family: Rutaceae

Order: Sapindales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  273 bits (697), Expect = 4e-71,   Method: Compositional matrix adjust.
 Identities = 130/206 (63%), Positives = 163/206 (79%), Gaps = 2/206 (0%)

Query: 5   VDGERDQSFAYADQLATGVVLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNK 64
           VD  +D++F YA QLA   VLPM + +  +LGIFEI+ KAGP  KLSASD+AAQL TKN 
Sbjct: 12  VDEAKDENFGYAMQLALSSVLPMTMYSAIQLGIFEIIAKAGPDAKLSASDVAAQLPTKNP 71

Query: 65  DAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSVSKYYVPNKDGVLLGPLIQIIQDK 124
           DAPMMLDRILRLLAS+ V+ CS+D  G+ RLYSL  VSK+YV NKDGV LGP + +IQD 
Sbjct: 72  DAPMMLDRILRLLASHDVLGCSVD--GSERLYSLAPVSKHYVRNKDGVSLGPFMALIQDN 129

Query: 125 VILESWSQLKDAILEGGIPFNRAHGVHIFEYAGLNPRFNKHFNAAMYNYTSLVMSNILES 184
           V L+SWSQLKDA+LEGG+ F+R HG H FEY GL+PRFN+ FN AMYN T++V+ N+LE+
Sbjct: 130 VFLQSWSQLKDAVLEGGVAFDRVHGAHAFEYPGLDPRFNQVFNTAMYNQTTVVLENMLEA 189

Query: 185 YKGFDNIKQLVDVGGSLGVTLQAITT 210
           Y GF N+KQLV++GG +G T++AI +
Sbjct: 190 YTGFKNLKQLVEIGGGMGHTIKAIIS 215

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  258 bits (659), Expect = 1e-66,   Method: Compositional matrix adjust.
 Identities = 122/207 (58%), Positives = 163/207 (78%), Gaps = 3/207 (1%)

Query: 5   VDGERDQSFAYADQLATGVVLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLL-TKN 63
           +D E D++F YA QLA G  LPM++ A  ELG+FEI+ KAGP +KLSAS+I A++   +N
Sbjct: 12  IDEEHDENFGYAMQLALGSALPMSLHAAIELGVFEIIAKAGPESKLSASEITAEIPDVQN 71

Query: 64  KDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSVSKYYVPNKDGVLLGPLIQIIQD 123
            DA + LDR+LRLLAS++V+ CSL+  G  RLYSLN VSKY+VPN+DG+ LGP + +IQD
Sbjct: 72  PDAAITLDRVLRLLASHNVLGCSLN--GLERLYSLNPVSKYFVPNQDGISLGPFMALIQD 129

Query: 124 KVILESWSQLKDAILEGGIPFNRAHGVHIFEYAGLNPRFNKHFNAAMYNYTSLVMSNILE 183
           KV L+SW++LKDA+LEGG PFN+ HG H F Y+GL+ RFN  FN AM+++T+LV++ ILE
Sbjct: 130 KVFLDSWTKLKDAVLEGGSPFNKFHGTHCFGYSGLDSRFNHVFNTAMFHHTNLVITKILE 189

Query: 184 SYKGFDNIKQLVDVGGSLGVTLQAITT 210
           +YKGF  +KQL+DVGG LG TL+AI +
Sbjct: 190 TYKGFKQLKQLIDVGGGLGHTLKAIIS 216

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224068173|ref|XP_002302676.1| catechol o-methyltransferase [Populus trichocarpa] gi|222844402|gb|EEE81949.1| catechol o-methyltransferase [Populus trichocarpa]

 Score =  256 bits (653), Expect = 5e-66,   Method: Compositional matrix adjust.
 Identities = 123/208 (59%), Positives = 156/208 (75%), Gaps = 2/208 (0%)

Query: 3   SIVDGERDQSFAYADQLATGVVLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTK 62
           S VD  +D++F YA QLA   VLPM +    +LGIFEI+ KAGP  KLSA+DIAA+L T 
Sbjct: 10  SQVDEAKDENFGYAMQLALSSVLPMTLHTAIQLGIFEIIAKAGPDVKLSAADIAAKLPTD 69

Query: 63  NKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSVSKYYVPNKDGVLLGPLIQIIQ 122
           N D P MLDRILRLLAS+ V+ C +D  G+ R YSL  VS Y+V N++GV L P + +I 
Sbjct: 70  NPDTPKMLDRILRLLASHQVLCCFVD--GSERFYSLAPVSMYFVRNQNGVSLAPFMALIH 127

Query: 123 DKVILESWSQLKDAILEGGIPFNRAHGVHIFEYAGLNPRFNKHFNAAMYNYTSLVMSNIL 182
           + VIL+SWSQLKDA+LEGG+ F+R HGVH FEY GL+PRFN+ FN AMYN T++V  N+L
Sbjct: 128 ENVILQSWSQLKDAVLEGGVAFHRVHGVHAFEYNGLDPRFNQVFNTAMYNQTTVVNGNML 187

Query: 183 ESYKGFDNIKQLVDVGGSLGVTLQAITT 210
           E Y GF N+KQLVD+GG LG T++A+T+
Sbjct: 188 EKYNGFKNLKQLVDIGGGLGHTMKAVTS 215

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449461110|ref|XP_004148286.1| PREDICTED: caffeic acid 3-O-methyltransferase-like [Cucumis sativus]

 Score =  246 bits (628), Expect = 5e-63,   Method: Compositional matrix adjust.
 Identities = 125/212 (58%), Positives = 161/212 (75%), Gaps = 4/212 (1%)

Query: 2   DSIVDGERDQSFAYADQLATGVVLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLT 61
           D + D E+ Q++AYA QL T  VLPM +QAV+EL +F+I+ KAG G +LSA+ IA ++  
Sbjct: 11  DVVTDDEQ-QNYAYAGQLITLTVLPMTLQAVFELDVFDIIAKAGDGAELSATQIANEITH 69

Query: 62  KNKDAPMMLDRILRLLASYSVVECSL--DASGA-RRLYSLNSVSKYYVPNKDGVLLGPLI 118
           KN DA  M+DR+LRLLAS+SVV CS+  D  G  +RLYSLN +SKYYV NKDGV     +
Sbjct: 70  KNPDAVSMIDRMLRLLASHSVVGCSVGFDEDGKMQRLYSLNPISKYYVRNKDGVSDAFNL 129

Query: 119 QIIQDKVILESWSQLKDAILEGGIPFNRAHGVHIFEYAGLNPRFNKHFNAAMYNYTSLVM 178
             IQDKV L SWS+LK+A++EGG+PF RAHGV+ FEY GL+PRFN+  NAAM N+++  +
Sbjct: 130 SFIQDKVFLHSWSELKNAVMEGGVPFKRAHGVYCFEYCGLDPRFNQILNAAMKNHSTKFI 189

Query: 179 SNILESYKGFDNIKQLVDVGGSLGVTLQAITT 210
           + I++SYKGF NIKQLVDVGG LGV LQ IT+
Sbjct: 190 NEIVKSYKGFANIKQLVDVGGGLGVCLQIITS 221

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449524438|ref|XP_004169230.1| PREDICTED: caffeic acid 3-O-methyltransferase-like, partial [Cucumis sativus]

 Score =  245 bits (626), Expect = 7e-63,   Method: Compositional matrix adjust.
 Identities = 125/212 (58%), Positives = 161/212 (75%), Gaps = 4/212 (1%)

Query: 2   DSIVDGERDQSFAYADQLATGVVLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLT 61
           D + D E+ Q++AYA QL T  VLPM +QAV+EL +F+I+ KAG G +LSA+ IA ++  
Sbjct: 11  DVVTDDEQ-QNYAYAGQLITLTVLPMTLQAVFELDVFDIIAKAGDGAELSATQIANEITH 69

Query: 62  KNKDAPMMLDRILRLLASYSVVECSL--DASGA-RRLYSLNSVSKYYVPNKDGVLLGPLI 118
           KN DA  M+DR+LRLLAS+SVV CS+  D  G  +RLYSLN +SKYYV NKDGV     +
Sbjct: 70  KNPDAVSMIDRMLRLLASHSVVGCSVGFDEDGKMQRLYSLNPISKYYVRNKDGVSDAFNL 129

Query: 119 QIIQDKVILESWSQLKDAILEGGIPFNRAHGVHIFEYAGLNPRFNKHFNAAMYNYTSLVM 178
             IQDKV L SWS+LK+A++EGG+PF RAHGV+ FEY GL+PRFN+  NAAM N+++  +
Sbjct: 130 SFIQDKVFLHSWSELKNAVMEGGVPFKRAHGVYCFEYCGLDPRFNQILNAAMKNHSTKFI 189

Query: 179 SNILESYKGFDNIKQLVDVGGSLGVTLQAITT 210
           + I++SYKGF NIKQLVDVGG LGV LQ IT+
Sbjct: 190 NEIVKSYKGFANIKQLVDVGGGLGVCLQIITS 221

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|268528131|gb|ACZ06242.1| caffeic acid O-methyltransferase 3 [Gossypium hirsutum]

 Score =  243 bits (620), Expect = 3e-62,   Method: Compositional matrix adjust.
 Identities = 118/213 (55%), Positives = 155/213 (72%), Gaps = 3/213 (1%)

Query: 1   MDSIVDGERDQSFAYADQLATGVVLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLL 60
           M + +D   ++SF+YA Q+ T  VLPM++ A  +L IF I+ K GP  KLSA +IAAQL 
Sbjct: 1   MATQIDCNNEESFSYALQIVTSSVLPMSMHAAVQLDIFGIMAKCGPDAKLSAKEIAAQLA 60

Query: 61  TKNKDAPMMLDRILRLLASYSVVECSL---DASGARRLYSLNSVSKYYVPNKDGVLLGPL 117
           T N +A  MLDRIL LLAS+ +V CS+   +    R+LYSL  VSK++V N+DGV LGPL
Sbjct: 61  TNNSEAASMLDRILLLLASHGIVGCSVVDEEKGNPRKLYSLTPVSKFFVRNEDGVSLGPL 120

Query: 118 IQIIQDKVILESWSQLKDAILEGGIPFNRAHGVHIFEYAGLNPRFNKHFNAAMYNYTSLV 177
           + ++QDKV ++SWSQLKDAI+EGG+PF+R HG + FEY G +PRFN+ FN AM N+TSLV
Sbjct: 121 MALLQDKVFIDSWSQLKDAIIEGGVPFDRVHGSNTFEYPGKDPRFNQIFNTAMINHTSLV 180

Query: 178 MSNILESYKGFDNIKQLVDVGGSLGVTLQAITT 210
           +  IL +YKGF  +  LVDVGG LG+TL  IT+
Sbjct: 181 LKEILHNYKGFQQLSSLVDVGGGLGITLNLITS 213

Source: Gossypium hirsutum

Species: Gossypium hirsutum

Genus: Gossypium

Family: Malvaceae

Order: Malvales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357512657|ref|XP_003626617.1| Caffeic acid 3-O-methyltransferase [Medicago truncatula] gi|87240860|gb|ABD32718.1| O-methyltransferase, family 2; Dimerisation [Medicago truncatula] gi|355501632|gb|AES82835.1| Caffeic acid 3-O-methyltransferase [Medicago truncatula]

 Score =  242 bits (617), Expect = 7e-62,   Method: Compositional matrix adjust.
 Identities = 116/208 (55%), Positives = 158/208 (75%), Gaps = 5/208 (2%)

Query: 8   ERDQSFAYADQLATGVVLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAP 67
           E ++SF+YA QL+  +VL MA+Q+  ELG+FE+L KAG  T LS+ +IA++L   N DAP
Sbjct: 12  EDEESFSYAVQLSNSIVLSMALQSAIELGVFEVLQKAGRDTPLSSDEIASRLSCTNPDAP 71

Query: 68  MMLDRILRLLASYSVVECSL-----DASGARRLYSLNSVSKYYVPNKDGVLLGPLIQIIQ 122
            MLDRIL LLAS+SV+ CS+     +     RLY++ SV+K++ PN DGV LGPLI + Q
Sbjct: 72  KMLDRILALLASHSVLNCSVHPDQHNLGSFHRLYAMTSVAKFFAPNSDGVSLGPLIALHQ 131

Query: 123 DKVILESWSQLKDAILEGGIPFNRAHGVHIFEYAGLNPRFNKHFNAAMYNYTSLVMSNIL 182
           DK+ L+SWSQLKDAI EGGIPFNR +G + FEYA ++ RFN+ FN AM N+T++VM+ +L
Sbjct: 132 DKIYLQSWSQLKDAIREGGIPFNRVYGTNDFEYASIDSRFNQVFNTAMINHTTIVMNKVL 191

Query: 183 ESYKGFDNIKQLVDVGGSLGVTLQAITT 210
           +SYKGF+++K+LVDVGG LGV +  IT+
Sbjct: 192 QSYKGFEDVKRLVDVGGGLGVNINLITS 219

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388494808|gb|AFK35470.1| unknown [Medicago truncatula]

 Score =  242 bits (617), Expect = 7e-62,   Method: Compositional matrix adjust.
 Identities = 116/208 (55%), Positives = 158/208 (75%), Gaps = 5/208 (2%)

Query: 8   ERDQSFAYADQLATGVVLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAP 67
           E ++SF+YA QL+  +VL MA+Q+  ELG+FE+L KAG  T LS+ +IA++L   N DAP
Sbjct: 12  EDEESFSYAVQLSNSIVLSMALQSAIELGVFEVLQKAGRDTPLSSDEIASRLSCTNPDAP 71

Query: 68  MMLDRILRLLASYSVVECSL-----DASGARRLYSLNSVSKYYVPNKDGVLLGPLIQIIQ 122
            MLDRIL LLAS+SV+ CS+     +     RLY++ SV+K++ PN DGV LGPLI + Q
Sbjct: 72  KMLDRILALLASHSVLNCSVHPDQHNLGSFHRLYAMTSVAKFFAPNSDGVSLGPLIALHQ 131

Query: 123 DKVILESWSQLKDAILEGGIPFNRAHGVHIFEYAGLNPRFNKHFNAAMYNYTSLVMSNIL 182
           DK+ L+SWSQLKDAI EGGIPFNR +G + FEYA ++ RFN+ FN AM N+T++VM+ +L
Sbjct: 132 DKIYLQSWSQLKDAIREGGIPFNRVYGTNDFEYASIDSRFNQVFNTAMINHTTIVMNKVL 191

Query: 183 ESYKGFDNIKQLVDVGGSLGVTLQAITT 210
           +SYKGF+++K+LVDVGG LGV +  IT+
Sbjct: 192 QSYKGFEDVKRLVDVGGGLGVNVNLITS 219

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449524436|ref|XP_004169229.1| PREDICTED: caffeic acid 3-O-methyltransferase-like [Cucumis sativus]

 Score =  239 bits (609), Expect = 7e-61,   Method: Compositional matrix adjust.
 Identities = 129/207 (62%), Positives = 163/207 (78%), Gaps = 4/207 (1%)

Query: 8   ERDQSFAYADQLATGVVLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAP 67
           E+ Q +AYA QL T  VLPM +QAV+ELG+FEIL KAG G  LS ++IAA++ T N DA 
Sbjct: 11  EQQQHYAYAAQLVTLSVLPMTLQAVFELGVFEILAKAGDGANLSPAEIAAEITTTNPDAA 70

Query: 68  MMLDRILRLLASYSVVECSL--DASG-ARRLYSLNSVSKYYVPNKDGVLLGPLIQIIQDK 124
           +MLDR+LRLLA +SVV CS+  D  G  +RLYSL  +SKYYV N+DGV LGP++ +IQDK
Sbjct: 71  LMLDRMLRLLACHSVVGCSIASDKDGNVQRLYSLTPISKYYVRNEDGVSLGPMLSLIQDK 130

Query: 125 VILESWSQLKDAILEGGIPFNRAH-GVHIFEYAGLNPRFNKHFNAAMYNYTSLVMSNILE 183
           V L+SWS+LK+A+ EGG+PF+RAH GV+ FEY  L+PRFN+ FN AM N+T++ +  I+E
Sbjct: 131 VFLQSWSELKNAVTEGGVPFDRAHGGVNAFEYPKLDPRFNQVFNIAMVNHTTMSIKKIVE 190

Query: 184 SYKGFDNIKQLVDVGGSLGVTLQAITT 210
           SYKGF NIKQLVDVGG LGVTLQ IT+
Sbjct: 191 SYKGFANIKQLVDVGGGLGVTLQIITS 217

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

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	210
TAIR|locus:2153423	363	OMT1 "AT5G54160" [Arabidopsis	0.947	0.548	0.514	1.7e-50
UNIPROTKB|Q84N28	360	OMT1 "Flavone O-methyltransfer	0.947	0.552	0.460	4.5e-43
UNIPROTKB|Q6ZD89	368	ROMT-9 "Flavone 3'-O-methyltra	0.957	0.546	0.436	6.8e-40
TAIR|locus:2204695	381	AT1G77530 [Arabidopsis thalian	0.928	0.511	0.390	4e-35
TAIR|locus:2199607	373	IGMT1 "indole glucosinolate O-	0.961	0.541	0.414	1.3e-34
TAIR|locus:2038026	352	AT1G33030 [Arabidopsis thalian	0.942	0.562	0.388	1.3e-34
TAIR|locus:2204680	381	AT1G77520 [Arabidopsis thalian	0.928	0.511	0.380	2.2e-34
TAIR|locus:2199582	373	IGMT4 "indole glucosinolate O-	0.961	0.541	0.396	1.5e-33
TAIR|locus:2199597	373	IGMT3 "indole glucosinolate O-	0.966	0.544	0.402	5.2e-33
TAIR|locus:2199587	373	IGMT2 "indole glucosinolate O-	0.966	0.544	0.402	5.2e-33

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

 Score = 525 (189.9 bits), Expect = 1.7e-50, P = 1.7e-50
 Identities = 105/204 (51%), Positives = 144/204 (70%)

Query:    10 DQSFAYADQLATGVVLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMM 69
             D++  +A QLA+  VLPMA+++  EL + EI+ K G  + +S ++IA++L TKN +AP+M
Sbjct:    17 DEAALFAMQLASASVLPMALKSALELDLLEIMAKNG--SPMSPTEIASKLPTKNPEAPVM 74

Query:    70 LDRILRLLASYSVVECS---LDASGARRLYSLNSVSKYYVPNKDGVLLGPLIQIIQDKVI 126
             LDRILRLL SYSV+ CS   L   G  R+Y L  V KY   N+DGV +  L  + QDKV+
Sbjct:    75 LDRILRLLTSYSVLTCSNRKLSGDGVERIYGLGPVCKYLTKNEDGVSIAALCLMNQDKVL 134

Query:   127 LESWSQLKDAILEGGIPFNRAHGVHIFEYAGLNPRFNKHFNAAMYNYTSLVMSNILESYK 186
             +ESW  LKDAIL+GGIPFN+A+G+  FEY G +PRFNK FN  M N++++ M  ILE+YK
Sbjct:   135 MESWYHLKDAILDGGIPFNKAYGMSAFEYHGTDPRFNKVFNNGMSNHSTITMKKILETYK 194

Query:   187 GFDNIKQLVDVGGSLGVTLQAITT 210
             GF+ +  LVDVGG +G TL+ I +
Sbjct:   195 GFEGLTSLVDVGGGIGATLKMIVS 218

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 = 455 (165.2 bits), Expect = 4.5e-43, P = 4.5e-43
 Identities = 94/204 (46%), Positives = 136/204 (66%)

Query:    10 DQSFAYADQLATGVVLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQL-LTKNKDAPM 68
             +++  YA QL +  +LPM ++   ELG+ E L  AG G  L+ +++AA+L  T N  A  
Sbjct:    14 EEACMYALQLVSSSILPMTLKNAIELGLLETLVAAG-GKLLTPAEVAAKLPSTANPAAAD 72

Query:    69 MLDRILRLLASYSVVECSLDASGARRL---YSLNSVSKYYVPNKDGVLLGPLIQIIQDKV 125
             M+DR+LRLLASY+VV C+++     RL   Y    V K+  PN+DGV +  L  + QDKV
Sbjct:    73 MVDRMLRLLASYNVVSCTMEEGKDGRLSRRYRAAPVCKFLTPNEDGVSMAALALMNQDKV 132

Query:   126 ILESWSQLKDAILEGGIPFNRAHGVHIFEYAGLNPRFNKHFNAAMYNYTSLVMSNILESY 185
             ++ESW  LKDA+L+GGIPFN+A+G+  FEY G +PRFN+ FN  M N++ ++   +LE Y
Sbjct:   133 LMESWYYLKDAVLDGGIPFNKAYGMSAFEYHGTDPRFNRVFNEGMKNHSIIITKKLLEVY 192

Query:   186 KGFDNIKQLVDVGGSLGVTLQAIT 209
             KGF+ +  +VDVGG +G T+ AIT
Sbjct:   193 KGFEGLGTIVDVGGGVGATVGAIT 216

GO:0009611 "response to wounding" evidence=IDA

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

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

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

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

 Score = 425 (154.7 bits), Expect = 6.8e-40, P = 6.8e-40
 Identities = 92/211 (43%), Positives = 136/211 (64%)

Query:    10 DQSFAYADQLATGVVLPMAIQAVYELGIFEILDKA---GPGTK---LSASDIAAQLLTK- 62
             +++  YA QLA+  +LPM ++   ELG+ E L  A   G G K   L+ +++A +L +K 
Sbjct:    14 EEACMYALQLASSSILPMTLKNAIELGLLETLQSAAVAGGGGKAALLTPAEVADKLPSKA 73

Query:    63 NKDAPMMLDRILRLLASYSVVECSLD--ASGA-RRLYSLNSVSKYYVPNKDGVLLGPLIQ 119
             N  A  M+DR+LRLLASY+VV C ++  A G   R Y+   V K+  PN+DGV +  L  
Sbjct:    74 NPAAADMVDRMLRLLASYNVVRCEMEEGADGKLSRRYAAAPVCKWLTPNEDGVSMAALAL 133

Query:   120 IIQDKVILESWSQLKDAILEGGIPFNRAHGVHIFEYAGLNPRFNKHFNAAMYNYTSLVMS 179
             + QDKV++ESW  LKDA+L+GGIPFN+A+G+  FEY G + RFN+ FN  M N++ ++  
Sbjct:   134 MNQDKVLMESWYYLKDAVLDGGIPFNKAYGMTAFEYHGTDARFNRVFNEGMKNHSVIITK 193

Query:   180 NILESYKGFDNIKQLVDVGGSLGVTLQAITT 210
              +L+ Y GFD    +VDVGG +G T+ A+ +
Sbjct:   194 KLLDLYTGFDAASTVVDVGGGVGATVAAVVS 224

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

GO:0032259 "methylation" evidence=IDA

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

 Score = 380 (138.8 bits), Expect = 4.0e-35, P = 4.0e-35
 Identities = 80/205 (39%), Positives = 127/205 (61%)

Query:    16 ADQLATGVVLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTK--NKDAPMMLDRI 73
             A+ +   V  PM ++A  ELG+ + +  A  GT LS S+IA  L  K  N +AP++LDR+
Sbjct:    33 AESIVNAVAFPMVLKAALELGVIDTIAAASNGTWLSPSEIAVSLPNKPTNPEAPVLLDRM 92

Query:    74 LRLLASYSVVECSLDAS------GA-RRLYSLNSVSKYYVPNKDGV-LLGPLIQIIQDKV 125
             LRLL S+S+++C +  S      G   R+Y+   + KY++ + DG   L  L+ ++  +V
Sbjct:    93 LRLLVSHSILKCCMVESRENGQTGKIERVYAAEPICKYFLKDSDGSGSLSSLLLLLHSQV 152

Query:   126 ILESWSQLKDAILEGGIPFNRAHGVHIFEYAGLNPRFNKHFNAAMYNYTSLVMSNILESY 185
             IL++W+ LKD ILEG   F+ AH + +FEY   + +F+K F+ AM   +++VM  +LE Y
Sbjct:   153 ILKTWTNLKDVILEGKDAFSSAHDMRLFEYISSDDQFSKLFHRAMSESSTMVMKKVLEEY 212

Query:   186 KGFDNIKQLVDVGGSLGVTLQAITT 210
             +GF+++  LVDVGG +G  L  IT+
Sbjct:   213 RGFEDVNTLVDVGGGIGTILGLITS 237

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

 Score = 375 (137.1 bits), Expect = 1.3e-34, P = 1.3e-34
 Identities = 90/217 (41%), Positives = 132/217 (60%)

Query:     4 IVDGERDQSFAYADQLATGVVLPMAIQAVYELGIFEILDKAGPGTK--LSASDIAAQLLT 61
             +VD + +     A +LA     PM ++A  ELG+F+ L  A   T   LS  +IA++L T
Sbjct:    18 VVDDDNELGLM-AVRLANAAAFPMVLKAALELGVFDTLYAAASRTDSFLSPYEIASKLPT 76

Query:    62 --KNKDAPMMLDRILRLLASYSVVECSLDASG-ARRLYSLNSVSKYYVPNKDGVL-LGPL 117
               +N +AP++LDR+LRLLASYS+V+C    SG   R+Y    + ++++  KD +  +G L
Sbjct:    77 TPRNPEAPVLLDRMLRLLASYSMVKCGKALSGKGERVYRAEPICRFFL--KDNIQDIGSL 134

Query:   118 I-QIIQ--DKVILESWSQLKDAILEGGIPFNRAHG-VHIFEYAGLNPRFNKHFNAAMYNY 173
               Q+I   D V L +W+QLKD +LEGG  F RAHG + +F+Y G + RF+K FN     +
Sbjct:   135 ASQVIVNFDSVFLNTWAQLKDVVLEGGDAFGRAHGGMKLFDYMGTDERFSKLFNQT--GF 192

Query:   174 TSLVMSNILESYKGFDNIKQLVDVGGSLGVTLQAITT 210
             T  V+   LE Y+GF  +K LVDVGG +G TL  +T+
Sbjct:   193 TIAVVKKALEVYEGFKGVKVLVDVGGGVGNTLGVVTS 229

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:2038026 AT1G33030 [Arabidopsis thaliana (taxid:3702)]

 Score = 375 (137.1 bits), Expect = 1.3e-34, P = 1.3e-34
 Identities = 80/206 (38%), Positives = 120/206 (58%)

Query:     8 ERDQSFAYADQLATGVVLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLL--TKNKD 65
             E     +YA  L++  VLPM ++   +LG+F+IL ++GP    SAS I + L   TK   
Sbjct:     2 EEQNLSSYAMILSSSSVLPMVLKTAIDLGLFDILAESGPS---SASQIFSLLSNETKKHH 58

Query:    66 APMMLDRILRLLASYSVVECSLDASGAR--RLYSLNSVSKYYVPNKDGV-LLGPLIQIIQ 122
                +++RILR LASYS++ CS+         +Y L  V+KY+  N++G   L P++ + Q
Sbjct:    59 DSSLVNRILRFLASYSILTCSVSTEHGEPFAIYGLAPVAKYFTKNQNGGGSLAPMVNLFQ 118

Query:   123 DKVILESWSQLKDAILEGGIPFNRAHGVHIFEYAGLNPRFNKHFNAAMYNYTSLVMSNIL 182
             DKV+ + W  LKD++LEGG+PFN  HG    E  G + RF + F ++M  +  + +   L
Sbjct:   119 DKVVTDMWYNLKDSVLEGGLPFNNTHGSSAVELVGSDSRFREVFQSSMKGFNEVFIEEFL 178

Query:   183 ESYKGFDNIKQLVDVGGSLGVTLQAI 208
             ++Y GFD +K LVDVGG  G  L  I
Sbjct:   179 KNYNGFDGVKSLVDVGGGDGSLLSRI 204

GO:0008168 "methyltransferase activity" evidence=IEA

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

GO:0046983 "protein dimerization activity" evidence=IEA

GO:0005829 "cytosol" evidence=IDA;TAS

GO:0009809 "lignin biosynthetic process" evidence=ISS

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

 Score = 373 (136.4 bits), Expect = 2.2e-34, P = 2.2e-34
 Identities = 78/205 (38%), Positives = 123/205 (60%)

Query:    16 ADQLATGVVLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTK--NKDAPMMLDRI 73
             A+ +   V  PM ++A +ELG+ + +  AG  T LS  +IA  L TK  N +AP++LDR+
Sbjct:    33 AESIVNTVAFPMVLKAAFELGVIDTIAAAGNDTWLSPCEIACSLPTKPTNPEAPVLLDRM 92

Query:    74 LRLLASYSVVECSLDASGAR-------RLYSLNSVSKYYVPNKDGV-LLGPLIQIIQDKV 125
             L LL S+S+++C +  +G         R+Y+   V KY++ + DG   L PL  ++  +V
Sbjct:    93 LSLLVSHSILKCRMIETGENGRTGKIERVYAAEPVCKYFLRDSDGTGSLVPLFMLLHTQV 152

Query:   126 ILESWSQLKDAILEGGIPFNRAHGVHIFEYAGLNPRFNKHFNAAMYNYTSLVMSNILESY 185
               ++W+ LKD ILEG   FN AHG+ IFEY   +  F + FN AM   ++++M  +L+ Y
Sbjct:   153 FFKTWTNLKDVILEGRDAFNSAHGMKIFEYINSDQPFAELFNRAMSEPSTMIMKKVLDVY 212

Query:   186 KGFDNIKQLVDVGGSLGVTLQAITT 210
             +GF+++  LVDVGG  G  L  +T+
Sbjct:   213 RGFEDVNTLVDVGGGNGTVLGLVTS 237

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 = 365 (133.5 bits), Expect = 1.5e-33, P = 1.5e-33
 Identities = 86/217 (39%), Positives = 132/217 (60%)

Query:     4 IVDGERDQSFAYADQLATGVVLPMAIQAVYELGIFEIL--DKAGPGTKLSASDIAAQLLT 61
             ++D + +     A +LA     PM ++A  ELG+F+ L  + +   + LS S+IA++L T
Sbjct:    18 VIDDDNELGLM-AVRLANAAAFPMVLKAALELGVFDTLYAEASRSDSFLSPSEIASKLPT 76

Query:    62 --KNKDAPMMLDRILRLLASYSVVECSLDASG-ARRLYSLNSVSKYYVPNKDGVL-LGPL 117
               +N +AP++LDR+LRLLASYSVV+C   + G   R+Y    + ++++  KD +  +G L
Sbjct:    77 TPRNPEAPVLLDRMLRLLASYSVVKCGKVSEGKGERVYRAEPICRFFL--KDNIQDIGSL 134

Query:   118 I-QIIQ--DKVILESWSQLKDAILEGGIPFNRAHG-VHIFEYAGLNPRFNKHFNAAMYNY 173
               Q+I   D V L +W+QLKD +LEGG  F RAHG + +F+Y G + RF+K FN     +
Sbjct:   135 ASQVIVNFDSVFLNTWAQLKDVVLEGGDAFGRAHGGMKLFDYMGTDERFSKLFNQT--GF 192

Query:   174 TSLVMSNILESYKGFDNIKQLVDVGGSLGVTLQAITT 210
             T  V+   LE Y+GF  +  LVDVGG +G TL  + +
Sbjct:   193 TIAVVKKALEVYQGFKGVNVLVDVGGGVGNTLGVVAS 229

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:2199597 IGMT3 "indole glucosinolate O-methyltransferase 3" [Arabidopsis thaliana (taxid:3702)]

 Score = 360 (131.8 bits), Expect = 5.2e-33, P = 5.2e-33
 Identities = 87/216 (40%), Positives = 130/216 (60%)

Query:     4 IVDGERDQSFAYADQLATGVVLPMAIQAVYELGIFEILDKAGPGTK--LSASDIAAQLLT 61
             +VD + +     A +LA     PM ++A  ELG+F+ L      T   LS S+IA++L T
Sbjct:    18 VVDDDNELGLM-AVRLANAAAFPMVLKASLELGVFDTLYAEASRTDSFLSPSEIASKLPT 76

Query:    62 --KNKDAPMMLDRILRLLASYSVVECSLDASGA-RRLYSLNSVSKYYVPN--KD-GVLLG 115
               +N  AP++LDR+LRLLASYS+V+C   + G  +R+Y    + ++++ N  +D G L  
Sbjct:    77 TPRNPGAPVLLDRMLRLLASYSMVKCEKVSVGKEQRVYRAEPICRFFLKNNIQDIGSLAS 136

Query:   116 PLIQIIQDKVILESWSQLKDAILEGGIPFNRAHG-VHIFEYAGLNPRFNKHFNAAMYNYT 174
              +I +  D V L +W+QLKD +LEGG  F RAHG + +F+Y G + RF+K FN     +T
Sbjct:   137 QVI-VNFDSVFLNTWAQLKDVVLEGGDAFGRAHGGMKLFDYMGTDERFSKLFNQT--GFT 193

Query:   175 SLVMSNILESYKGFDNIKQLVDVGGSLGVTLQAITT 210
               V+   LE Y+GF  +  LVDVGG +G TL  +T+
Sbjct:   194 IAVVKKALEVYQGFKGVNVLVDVGGGVGNTLGVVTS 229

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

 Score = 360 (131.8 bits), Expect = 5.2e-33, P = 5.2e-33
 Identities = 87/216 (40%), Positives = 129/216 (59%)

Query:     4 IVDGERDQSFAYADQLATGVVLPMAIQAVYELGIFEILDKAGPGTK--LSASDIAAQLLT 61
             +VD + +     A +LA     PM ++A  ELG+F+ L      T   LS S+IA++L T
Sbjct:    18 VVDDDNELGLM-AVRLANAAAFPMVLKASLELGVFDTLYAEASRTDSFLSPSEIASKLPT 76

Query:    62 --KNKDAPMMLDRILRLLASYSVVECSLDASG-ARRLYSLNSVSKYYVPN--KD-GVLLG 115
               +N  AP++LDR+LRLLASYS+V+C   + G   R+Y    + ++++ N  +D G L  
Sbjct:    77 TPRNPGAPVLLDRMLRLLASYSMVKCEKVSVGKGERVYRAEPICRFFLKNNIQDIGSLAS 136

Query:   116 PLIQIIQDKVILESWSQLKDAILEGGIPFNRAHG-VHIFEYAGLNPRFNKHFNAAMYNYT 174
              +I +  D V L +W+QLKD +LEGG  F RAHG + +F+Y G + RF+K FN     +T
Sbjct:   137 QVI-VNFDSVFLNTWAQLKDVVLEGGDAFGRAHGGMKLFDYMGTDERFSKLFNQT--GFT 193

Query:   175 SLVMSNILESYKGFDNIKQLVDVGGSLGVTLQAITT 210
               V+   LE Y+GF  +  LVDVGG +G TL  +T+
Sbjct:   194 IAVVKKALEVYQGFKGVNVLVDVGGGVGNTLGVVTS 229

GO:0005634 "nucleus" evidence=ISM

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

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

GO:0046983 "protein dimerization activity" evidence=IEA

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

GO:0005829 "cytosol" evidence=TAS

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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	0.766

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: COMT4 SubName- Full=Putative uncharacterized protein; (358 aa) (Populus trichocarpa)

Predicted Functional Partners:

Sorry, there are no predicted associations at the current settings.

---

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	210
pfam00891	239	pfam00891, Methyltransf_2, O-methyltransferase	2e-36
pfam08100	50	pfam08100, Dimerisation, Dimerisation domain	3e-14

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

 Score =  127 bits (321), Expect = 2e-36
 Identities = 53/117 (45%), Positives = 66/117 (56%)

Query: 93  RRLYSLNSVSKYYVPNKDGVLLGPLIQIIQDKVILESWSQLKDAILEGGIPFNRAHGVHI 152
              Y L   SK  V  +D   L PL+ +  D  +LESW+ LKDA+ EGG PF RA G+  
Sbjct: 4   GEDYGLTPASKLLVKGEDSPSLAPLLLMYADPTLLESWAHLKDAVREGGPPFERAFGMPF 63

Query: 153 FEYAGLNPRFNKHFNAAMYNYTSLVMSNILESYKGFDNIKQLVDVGGSLGVTLQAIT 209
           FEY G +P FN+ FN AM  ++ LVM  ILE+   F  +  LVDVGG  G    AI 
Sbjct: 64  FEYLGADPEFNRVFNRAMAAHSRLVMKKILETAFDFSGLSSLVDVGGGTGALAAAIV 120

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

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

 Score = 63.8 bits (156), Expect = 3e-14
 Identities = 26/52 (50%), Positives = 37/52 (71%), Gaps = 2/52 (3%)

Query: 27 MAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLA 78
          M ++   ELGI +I+ K G    LS S++A++L T N +AP+MLDR+LRLLA
Sbjct: 1  MVLKCAIELGIPDIIAKHG--KPLSPSELASKLPTVNPEAPVMLDRLLRLLA 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	210
KOG3178	342	consensus Hydroxyindole-O-methyltransferase and re	99.91
TIGR02716	306	C20_methyl_CrtF C-20 methyltransferase BchU. Membe	99.9
PF00891	241	Methyltransf_2: O-methyltransferase; InterPro: IPR	99.8
PF08100	51	Dimerisation: Dimerisation domain; InterPro: IPR01	99.2
PF09339	52	HTH_IclR: IclR helix-turn-helix domain; InterPro:	97.7
smart00346	91	HTH_ICLR helix_turn_helix isocitrate lyase regulat	97.53
smart00550	68	Zalpha Z-DNA-binding domain in adenosine deaminase	97.34
COG1414	246	IclR Transcriptional regulator [Transcription]	97.24
PF02082	83	Rrf2: Transcriptional regulator; InterPro: IPR0009	97.15
PF12840	61	HTH_20: Helix-turn-helix domain; PDB: 1ULY_A 2CWE_	97.08
TIGR02431	248	pcaR_pcaU beta-ketoadipate pathway transcriptional	97.07
PRK11569	274	transcriptional repressor IclR; Provisional	97.05
PRK10163	271	DNA-binding transcriptional repressor AllR; Provis	97.04
PF01022	47	HTH_5: Bacterial regulatory protein, arsR family;	96.99
PRK09834	263	DNA-binding transcriptional activator MhpR; Provis	96.97
PF13412	48	HTH_24: Winged helix-turn-helix DNA-binding; PDB:	96.92
PRK15090	257	DNA-binding transcriptional regulator KdgR; Provis	96.91
PRK10857	164	DNA-binding transcriptional regulator IscR; Provis	96.71
PF04703	62	FaeA: FaeA-like protein; PDB: 2JT1_A 2HTJ_A.	96.68
cd00092	67	HTH_CRP helix_turn_helix, cAMP Regulatory protein	96.65
PRK10141	117	DNA-binding transcriptional repressor ArsR; Provis	96.63
smart00419	48	HTH_CRP helix_turn_helix, cAMP Regulatory protein.	96.61
PF01978	68	TrmB: Sugar-specific transcriptional regulator Trm	96.58
PRK06922	677	hypothetical protein; Provisional	96.5
COG1959	150	Predicted transcriptional regulator [Transcription	96.41
TIGR02010	135	IscR iron-sulfur cluster assembly transcription fa	96.41
PF09012	69	FeoC: FeoC like transcriptional regulator; InterPr	96.34
PF14947	77	HTH_45: Winged helix-turn-helix; PDB: 1XSX_B 1R7J_	96.32
TIGR00738	132	rrf2_super rrf2 family protein (putative transcrip	96.22
PF13463	68	HTH_27: Winged helix DNA-binding domain; PDB: 3GFL	96.2
PF12802	62	MarR_2: MarR family; PDB: 3ECO_B 2QWW_B 3KP6_B 3KP	96.02
TIGR02021	219	BchM-ChlM magnesium protoporphyrin O-methyltransfe	95.99
TIGR02944	130	suf_reg_Xantho FeS assembly SUF system regulator,	95.99
smart00347	101	HTH_MARR helix_turn_helix multiple antibiotic resi	95.96
PRK11920	153	rirA iron-responsive transcriptional regulator; Re	95.76
smart00420	53	HTH_DEOR helix_turn_helix, Deoxyribose operon repr	95.74
PRK03902	142	manganese transport transcriptional regulator; Pro	95.71
PF08220	57	HTH_DeoR: DeoR-like helix-turn-helix domain; Inter	95.69
PF01047	59	MarR: MarR family; InterPro: IPR000835 The MarR-ty	95.64
PHA00738	108	putative HTH transcription regulator	95.64
TIGR00122	69	birA_repr_reg BirA biotin operon repressor domain.	95.61
COG4742	260	Predicted transcriptional regulator [Transcription	95.59
PRK11014	141	transcriptional repressor NsrR; Provisional	95.55
PF13601	80	HTH_34: Winged helix DNA-binding domain; PDB: 1UB9	95.46
PF08461	66	HTH_12: Ribonuclease R winged-helix domain; InterP	95.44
TIGR02702	203	SufR_cyano iron-sulfur cluster biosynthesis transc	95.37
TIGR02337	118	HpaR homoprotocatechuate degradation operon regula	95.36
PRK06266	178	transcription initiation factor E subunit alpha; V	95.28
PRK11050	152	manganese transport regulator MntR; Provisional	95.22
smart00418	66	HTH_ARSR helix_turn_helix, Arsenical Resistance Op	95.15
PF01726	65	LexA_DNA_bind: LexA DNA binding domain; InterPro:	95.06
TIGR01884	203	cas_HTH CRISPR locus-related DNA-binding protein.	94.98
COG3355	126	Predicted transcriptional regulator [Transcription	94.9
cd00090	78	HTH_ARSR Arsenical Resistance Operon Repressor and	94.75
smart00344	108	HTH_ASNC helix_turn_helix ASNC type. AsnC: an auto	94.69
PF08279	55	HTH_11: HTH domain; InterPro: IPR013196 Winged hel	94.68
COG1321	154	TroR Mn-dependent transcriptional regulator [Trans	94.58
PF06163	127	DUF977: Bacterial protein of unknown function (DUF	94.57
smart00345	60	HTH_GNTR helix_turn_helix gluconate operon transcr	94.54
COG4190	144	Predicted transcriptional regulator [Transcription	94.34
PF01638	90	HxlR: HxlR-like helix-turn-helix; InterPro: IPR002	94.24
COG2264	300	PrmA Ribosomal protein L11 methylase [Translation,	94.23
PRK10258	251	biotin biosynthesis protein BioC; Provisional	94.22
PF07381	90	DUF1495: Winged helix DNA-binding domain (DUF1495)	94.17
COG2345	218	Predicted transcriptional regulator [Transcription	94.05
TIGR00373	158	conserved hypothetical protein TIGR00373. This fam	94.0
COG4189	308	Predicted transcriptional regulator [Transcription	93.94
smart00529	96	HTH_DTXR Helix-turn-helix diphteria tox regulatory	93.91
PRK06474	178	hypothetical protein; Provisional	93.9
cd07377	66	WHTH_GntR Winged helix-turn-helix (WHTH) DNA-bindi	93.86
PF04967	53	HTH_10: HTH DNA binding domain; InterPro: IPR00705	93.85
cd07153	116	Fur_like Ferric uptake regulator(Fur) and related	93.84
PF00325	32	Crp: Bacterial regulatory proteins, crp family; In	93.82
PRK06202	232	hypothetical protein; Provisional	93.75
PRK15431	78	ferrous iron transport protein FeoC; Provisional	93.67
PF07757	112	AdoMet_MTase: Predicted AdoMet-dependent methyltra	93.6
COG2230	283	Cfa Cyclopropane fatty acid synthase and related m	93.44
PF14394	171	DUF4423: Domain of unknown function (DUF4423)	93.35
PRK00274	272	ksgA 16S ribosomal RNA methyltransferase KsgA/Dim1	93.31
PRK07580	230	Mg-protoporphyrin IX methyl transferase; Validated	93.26
PF04182	75	B-block_TFIIIC: B-block binding subunit of TFIIIC;	93.15
TIGR01610	95	phage_O_Nterm phage replication protein O, N-termi	93.1
PF01325	60	Fe_dep_repress: Iron dependent repressor, N-termin	93.09
PHA02943	165	hypothetical protein; Provisional	93.05
TIGR02752	231	MenG_heptapren 2-heptaprenyl-1,4-naphthoquinone me	93.03
PF02353	273	CMAS: Mycolic acid cyclopropane synthetase; InterP	92.85
PRK15068	322	tRNA mo(5)U34 methyltransferase; Provisional	92.79
PRK11188	209	rrmJ 23S rRNA methyltransferase J; Provisional	92.66
PF06325	295	PrmA: Ribosomal protein L11 methyltransferase (Prm	92.64
PRK11512	144	DNA-binding transcriptional repressor MarR; Provis	92.55
PRK04214	412	rbn ribonuclease BN/unknown domain fusion protein;	92.5
PF00392	64	GntR: Bacterial regulatory proteins, gntR family;	92.45
PRK11036	255	putative S-adenosyl-L-methionine-dependent methylt	92.17
PF02002	105	TFIIE_alpha: TFIIE alpha subunit; InterPro: IPR024	92.05
TIGR00080	215	pimt protein-L-isoaspartate(D-aspartate) O-methylt	91.94
COG2813	300	RsmC 16S RNA G1207 methylase RsmC [Translation, ri	91.88
COG4976	287	Predicted methyltransferase (contains TPR repeat)	91.88
PRK03573	144	transcriptional regulator SlyA; Provisional	91.86
PRK11179	153	DNA-binding transcriptional regulator AsnC; Provis	91.79
TIGR00452	314	methyltransferase, putative. Known examples to dat	91.78
PF08784	102	RPA_C: Replication protein A C terminal; InterPro:	91.75
PTZ00098	263	phosphoethanolamine N-methyltransferase; Provision	91.57
PF05148	219	Methyltransf_8: Hypothetical methyltransferase; In	91.52
PRK11169	164	leucine-responsive transcriptional regulator; Prov	91.5
PRK15001	378	SAM-dependent 23S ribosomal RNA mG1835 methyltrans	91.41
TIGR01889	109	Staph_reg_Sar staphylococcal accessory regulator f	91.4
COG1733	120	Predicted transcriptional regulators [Transcriptio	91.26
PRK07402	196	precorrin-6B methylase; Provisional	91.25
COG3432	95	Predicted transcriptional regulator [Transcription	91.2
PF13545	76	HTH_Crp_2: Crp-like helix-turn-helix domain; PDB:	91.13
PRK13944	205	protein-L-isoaspartate O-methyltransferase; Provis	91.12
PRK00107	187	gidB 16S rRNA methyltransferase GidB; Reviewed	91.07
PLN02244	340	tocopherol O-methyltransferase	91.06
PF07789	155	DUF1627: Protein of unknown function (DUF1627); In	91.02
PRK14165	217	winged helix-turn-helix domain-containing protein/	90.98
PF10007	92	DUF2250: Uncharacterized protein conserved in arch	90.84
TIGR00498	199	lexA SOS regulatory protein LexA. LexA acts as a h	90.77
COG1522	154	Lrp Transcriptional regulators [Transcription]	90.72
PRK11705	383	cyclopropane fatty acyl phospholipid synthase; Pro	90.58
KOG1271	227	consensus Methyltransferases [General function pre	90.57
PRK13942	212	protein-L-isoaspartate O-methyltransferase; Provis	90.53
PRK12335	287	tellurite resistance protein TehB; Provisional	90.48
TIGR03587	204	Pse_Me-ase pseudaminic acid biosynthesis-associate	90.44
PRK00121	202	trmB tRNA (guanine-N(7)-)-methyltransferase; Revie	90.29
PF03444	78	HrcA_DNA-bdg: Winged helix-turn-helix transcriptio	90.16
PRK11639	169	zinc uptake transcriptional repressor; Provisional	90.0
COG2512	258	Predicted membrane-associated trancriptional regul	89.84
TIGR02147	271	Fsuc_second hypothetical protein, TIGR02147. This	89.63
PF09929	118	DUF2161: Uncharacterized conserved protein (DUF216	89.63
PRK13509	251	transcriptional repressor UlaR; Provisional	89.57
TIGR00740	239	methyltransferase, putative. A simple BLAST search	89.57
COG1378	247	Predicted transcriptional regulators [Transcriptio	89.48
PF05732	165	RepL: Firmicute plasmid replication protein (RepL)	89.42
COG4565	224	CitB Response regulator of citrate/malate metaboli	89.33
PRK11088	272	rrmA 23S rRNA methyltransferase A; Provisional	89.31
COG2227	243	UbiG 2-polyprenyl-3-methyl-5-hydroxy-6-metoxy-1,4-	89.31
PLN02336	475	phosphoethanolamine N-methyltransferase	89.22
PF12793	115	SgrR_N: Sugar transport-related sRNA regulator N-t	89.18
TIGR00406	288	prmA ribosomal protein L11 methyltransferase. Ribo	89.11
KOG1541	270	consensus Predicted protein carboxyl methylase [Ge	89.02
PF00165	42	HTH_AraC: Bacterial regulatory helix-turn-helix pr	88.91
PRK04172	489	pheS phenylalanyl-tRNA synthetase subunit alpha; P	88.91
TIGR00138	181	gidB 16S rRNA methyltransferase GidB. GidB (glucos	88.77
PRK05785	226	hypothetical protein; Provisional	88.64
PRK05638	442	threonine synthase; Validated	88.51
PRK09489	342	rsmC 16S ribosomal RNA m2G1207 methyltransferase;	88.43
KOG2899	288	consensus Predicted methyltransferase [General fun	88.37
PRK15451	247	tRNA cmo(5)U34 methyltransferase; Provisional	88.26
PLN02233	261	ubiquinone biosynthesis methyltransferase	88.22
smart00138	264	MeTrc Methyltransferase, chemotaxis proteins. Meth	88.2
PF08003	315	Methyltransf_9: Protein of unknown function (DUF16	88.2
PF13404	42	HTH_AsnC-type: AsnC-type helix-turn-helix domain;	88.17
COG1497	260	Predicted transcriptional regulator [Transcription	88.16
PF13730	55	HTH_36: Helix-turn-helix domain	88.09
PRK00216	239	ubiE ubiquinone/menaquinone biosynthesis methyltra	88.08
COG5631	199	Predicted transcription regulator, contains HTH do	87.99
PF02796	45	HTH_7: Helix-turn-helix domain of resolvase; Inter	87.84
TIGR03438	301	probable methyltransferase. This model represents	87.75
TIGR00478	228	tly hemolysin TlyA family protein. Hemolysins are	87.71
PRK04266	226	fibrillarin; Provisional	87.62
PRK00377	198	cbiT cobalt-precorrin-6Y C(15)-methyltransferase;	87.59
TIGR03534	251	RF_mod_PrmC protein-(glutamine-N5) methyltransfera	87.58
PRK00517	250	prmA ribosomal protein L11 methyltransferase; Revi	87.37
COG2226	238	UbiE Methylase involved in ubiquinone/menaquinone	87.36
PRK05134	233	bifunctional 3-demethylubiquinone-9 3-methyltransf	87.01
PRK00312	212	pcm protein-L-isoaspartate O-methyltransferase; Re	86.96
PLN02396	322	hexaprenyldihydroxybenzoate methyltransferase	86.94
PRK14121	390	tRNA (guanine-N(7)-)-methyltransferase; Provisiona	86.86
PRK10411	240	DNA-binding transcriptional activator FucR; Provis	86.86
PF13384	50	HTH_23: Homeodomain-like domain; PDB: 2X48_C.	86.81
PRK09328	275	N5-glutamine S-adenosyl-L-methionine-dependent met	86.81
PRK00215	205	LexA repressor; Validated	86.32
PLN02585	315	magnesium protoporphyrin IX methyltransferase	86.15
COG2890	280	HemK Methylase of polypeptide chain release factor	86.07
PRK10906	252	DNA-binding transcriptional repressor GlpR; Provis	86.06
PRK09802	269	DNA-binding transcriptional regulator AgaR; Provis	85.99
TIGR03704	251	PrmC_rel_meth putative protein-(glutamine-N5) meth	85.97
COG4123	248	Predicted O-methyltransferase [General function pr	85.92
PRK11886	319	bifunctional biotin--[acetyl-CoA-carboxylase] synt	85.85
PRK10434	256	srlR DNA-bindng transcriptional repressor SrlR; Pr	85.69
PF12324	77	HTH_15: Helix-turn-helix domain of alkylmercury ly	85.67
PF05584	72	Sulfolobus_pRN: Sulfolobus plasmid regulatory prot	85.66
PRK10870	176	transcriptional repressor MprA; Provisional	85.59
PF01209	233	Ubie_methyltran: ubiE/COQ5 methyltransferase famil	85.42
PF08221	62	HTH_9: RNA polymerase III subunit RPC82 helix-turn	85.38
COG1846	126	MarR Transcriptional regulators [Transcription]	85.14
PF02319	71	E2F_TDP: E2F/DP family winged-helix DNA-binding do	85.09
PRK00811	283	spermidine synthase; Provisional	85.03
PF01475	120	FUR: Ferric uptake regulator family; InterPro: IPR	84.81
PRK10046	225	dpiA two-component response regulator DpiA; Provis	84.58
PLN02366	308	spermidine synthase	84.54
PF01135	209	PCMT: Protein-L-isoaspartate(D-aspartate) O-methyl	84.51
PLN02853	492	Probable phenylalanyl-tRNA synthetase alpha chain	84.32
PRK13943	322	protein-L-isoaspartate O-methyltransferase; Provis	83.97
PHA02701	183	ORF020 dsRNA-binding PKR inhibitor; Provisional	83.93
COG1349	253	GlpR Transcriptional regulators of sugar metabolis	83.91
PF05185	448	PRMT5: PRMT5 arginine-N-methyltransferase; InterPr	83.83
PF13518	52	HTH_28: Helix-turn-helix domain	83.67
PRK13168	443	rumA 23S rRNA m(5)U1939 methyltransferase; Reviewe	83.58
PRK11534	224	DNA-binding transcriptional regulator CsiR; Provis	83.48
KOG1270	282	consensus Methyltransferases [Coenzyme transport a	83.44
COG2263	198	Predicted RNA methylase [Translation, ribosomal st	83.22
KOG3115	249	consensus Methyltransferase-like protein [General	82.91
TIGR03533	284	L3_gln_methyl protein-(glutamine-N5) methyltransfe	82.8
TIGR02787	251	codY_Gpos GTP-sensing transcriptional pleiotropic	82.72
COG3413	215	Predicted DNA binding protein [General function pr	82.71
COG1802	230	GntR Transcriptional regulators [Transcription]	82.57
smart00531	147	TFIIE Transcription initiation factor IIE.	82.46
PF03141	506	Methyltransf_29: Putative S-adenosyl-L-methionine-	82.45
TIGR00536	284	hemK_fam HemK family putative methylases. The gene	82.35
PRK13777	185	transcriptional regulator Hpr; Provisional	82.12
PF08123	205	DOT1: Histone methylation protein DOT1 ; InterPro:	82.05
PRK09775	442	putative DNA-binding transcriptional regulator; Pr	81.84
PTZ00326	494	phenylalanyl-tRNA synthetase alpha chain; Provisio	81.82
PF09904	90	HTH_43: Winged helix-turn helix; InterPro: IPR0171	81.71
COG1510	177	Predicted transcriptional regulators [Transcriptio	81.71
KOG2904	328	consensus Predicted methyltransferase [General fun	81.58
PF02295	66	z-alpha: Adenosine deaminase z-alpha domain; Inter	81.39
PHA02591	83	hypothetical protein; Provisional	81.25
TIGR03338	212	phnR_burk phosphonate utilization associated trans	81.23
PLN02490	340	MPBQ/MSBQ methyltransferase	81.19
COG2518	209	Pcm Protein-L-isoaspartate carboxylmethyltransfera	80.95
COG1675	176	TFA1 Transcription initiation factor IIE, alpha su	80.89
PRK12423	202	LexA repressor; Provisional	80.88
TIGR01321	94	TrpR trp operon repressor, proteobacterial. This m	80.7
PRK11642	813	exoribonuclease R; Provisional	80.37
PRK10909	199	rsmD 16S rRNA m(2)G966-methyltransferase; Provisio	80.18

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

Probab=99.91  E-value=1.3e-23  Score=176.20  Aligned_cols=191  Identities=46%  Similarity=0.792  Sum_probs=169.1

Q ss_pred             chHHHHHHHHHhhchHHHHHHHHHhhChhhHHhhcCCCCCCCHHHHHHHhcC-CCCCCcccHHHHHHHHhcccceeeecc
Q 036188           10 DQSFAYADQLATGVVLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLT-KNKDAPMMLDRILRLLASYSVVECSLD   88 (210)
Q Consensus        10 ~~~~~~l~~~~~~~~~~~al~~a~~lglfd~L~~~g~~~~~t~~eLA~~~~~-~~~~~~~~l~rlLr~L~~~gl~~~~~~   88 (210)
                      .++..++++++.++..++++.+|+||||||+|+.++   +  ..|||..+-. +++.+|..++|+||.|++.+++++.. 
T Consensus         4 ~~~~l~~~~l~~~~~~~~~lk~A~eL~v~d~l~~~~---~--p~~ia~~l~~~~~~~~p~ll~r~lr~L~s~~i~k~~~-   77 (342)
T KOG3178|consen    4 NEASLRAMRLANGFALPMVLKAACELGVFDILANAG---S--PSEIASLLPTPKNPEAPVLLDRILRLLVSYSILKCRL-   77 (342)
T ss_pred             hHHHHHHHHHHhhhhhHHHHHHHHHcChHHHHHhCC---C--HHHHHHhccCCCCCCChhHHHHHHHHHHHhhhceeee-
Confidence            456678999999999999999999999999999964   2  8888888773 46668999999999999999999873 


Q ss_pred             CCCccc--ceeccccccccccCCCCCChHHHHHHhcChhHHHHHhhHHHHHhcCCchhhhhhCCchhHhhccCchHHHHH
Q 036188           89 ASGARR--LYSLNSVSKYYVPNKDGVLLGPLIQIIQDKVILESWSQLKDAILEGGIPFNRAHGVHIFEYAGLNPRFNKHF  166 (210)
Q Consensus        89 ~~~~~~--~y~~t~~s~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~~g~~~f~~~~g~~~fe~l~~~p~~~~~f  166 (210)
                          .+  .|.++|.++++.++....++.+++...+.+..++.|.++.++++.+..+|..++|...|+|...++.....|
T Consensus        78 ----~~~~~Y~~~~~~~~~l~~~~~~S~a~~~~~~~~~v~~~~w~~l~dai~eg~~~~~~~~G~~l~~~~~~~~~~~~~~  153 (342)
T KOG3178|consen   78 ----VGGEVYSATPVCKYFLKDSGGGSLAPLVLLNTSKVIMNTWQFLKDAILEGGDAFATAHGMMLGGYGGADERFSKDF  153 (342)
T ss_pred             ----ecceeeeccchhhhheecCCCCchhHHHHHhcccchhhhHHHHHHHHHhcccCCccccchhhhhhcccccccHHHH
Confidence                33  899999999776444346899999888888899999999999999999999999988999999999999999


Q ss_pred             HHHHhhhhhhhHHHHHHhCCCCCCCCeEEEecCCccHHHHhhhC
Q 036188          167 NAAMYNYTSLVMSNILESYKGFDNIKQLVDVGGSLGVTLQAITT  210 (210)
Q Consensus       167 ~~~M~~~~~~~~~~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~~  210 (210)
                      +++|...+....+.+++.|.+|++...+||||||.|..+..+++
T Consensus       154 ~~sm~~l~~~~~~~il~~~~Gf~~v~~avDvGgGiG~v~k~ll~  197 (342)
T KOG3178|consen  154 NGSMSFLSTLVMKKILEVYTGFKGVNVAVDVGGGIGRVLKNLLS  197 (342)
T ss_pred             HHHHHHHHHHHHHhhhhhhcccccCceEEEcCCcHhHHHHHHHH
Confidence            99999999998889999998899999999999999999988763

>TIGR02716 C20_methyl_CrtF C-20 methyltransferase BchU

Probab=99.90  E-value=2.1e-23  Score=176.54  Aligned_cols=165  Identities=20%  Similarity=0.301  Sum_probs=120.7

Q ss_pred             hHHHHHHHHHhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceecccccc
Q 036188           24 VLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSVSK  103 (210)
Q Consensus        24 ~~~~al~~a~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~~s~  103 (210)
                      +..++|++|++|||||.|++    +|.|++|||+++++    +++.++||||+|+++|++++.      +++|++|+.+.
T Consensus         2 ~~~~~l~aa~~Lglfd~L~~----gp~t~~eLA~~~~~----~~~~~~~lL~~L~~lgll~~~------~~~y~~t~~~~   67 (306)
T TIGR02716         2 IEFSCMKAAIELDLFSHMAE----GPKDLATLAADTGS----VPPRLEMLLETLRQMRVINLE------DGKWSLTEFAD   67 (306)
T ss_pred             chHHHHHHHHHcCcHHHHhc----CCCCHHHHHHHcCC----ChHHHHHHHHHHHhCCCeEec------CCcEecchhHH
Confidence            45789999999999999987    69999999999999    999999999999999999986      68999999998


Q ss_pred             ccccCCCCC---ChHHHHHHhcChhHHHHHhhHHHHHhcCCchhhhhhCCchhHhhccCchHHHHHHHHHhhhhhhhHHH
Q 036188          104 YYVPNKDGV---LLGPLIQIIQDKVILESWSQLKDAILEGGIPFNRAHGVHIFEYAGLNPRFNKHFNAAMYNYTSLVMSN  180 (210)
Q Consensus       104 ~l~~~~~~~---~~~~~~~~~~~~~~~~~~~~L~~~l~~g~~~f~~~~g~~~fe~l~~~p~~~~~f~~~M~~~~~~~~~~  180 (210)
                      .+..++++.   ++.++..+.. ......|.+|+++++ ++++|...     +++....++....|...+........+.
T Consensus        68 ~~l~~~~~~~~~~~~~~~~~~~-~~~~~~~~~l~~~~r-~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~  140 (306)
T TIGR02716        68 YMFSPTPKEPNLHQTPVAKAMA-FLADDFYMGLSQAVR-GQKNFKGQ-----VPYPPVTREDNLYFEEIHRSNAKFAIQL  140 (306)
T ss_pred             hhccCCccchhhhcCchHHHHH-HHHHHHHHhHHHHhc-CCcccccc-----cCCCCCCHHHHHhHHHHHHhcchhHHHH
Confidence            655444321   1223443331 123357999999997 44455432     2232233333334444433444444566


Q ss_pred             HHHhCCCCCCCCeEEEecCCccHHHHhhhC
Q 036188          181 ILESYKGFDNIKQLVDVGGSLGVTLQAITT  210 (210)
Q Consensus       181 ~l~~~~~~~~~~~vvDiGGg~G~~~~~l~~  210 (210)
                      +++.++ +++..+|||||||+|.+++.+++
T Consensus       141 l~~~~~-~~~~~~vlDiG~G~G~~~~~~~~  169 (306)
T TIGR02716       141 LLEEAK-LDGVKKMIDVGGGIGDISAAMLK  169 (306)
T ss_pred             HHHHcC-CCCCCEEEEeCCchhHHHHHHHH
Confidence            777777 99999999999999999998863

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=99.80  E-value=3e-19  Score=146.18  Aligned_cols=118  Identities=30%  Similarity=0.545  Sum_probs=102.1

Q ss_pred             cccceeccccccccccCCCCCChHHHHHHhcChhHHHHHhhHHHHHhcCCchhhhhhCCchhHhhccCchHHHHHHHHHh
Q 036188           92 ARRLYSLNSVSKYYVPNKDGVLLGPLIQIIQDKVILESWSQLKDAILEGGIPFNRAHGVHIFEYAGLNPRFNKHFNAAMY  171 (210)
Q Consensus        92 ~~~~y~~t~~s~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~~g~~~f~~~~g~~~fe~l~~~p~~~~~f~~~M~  171 (210)
                      +++.|+||+.|+.|+.+++..++..++.++..+..++.|.+|++++++|+++|+.++|.++|+|+.++|+..+.|+.+|.
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            37899999999987766643467888877667888999999999999999999999999999999999999999999999


Q ss_pred             hhhhhhH-HHHHHhCCCCCCCCeEEEecCCccHHHHhhhC
Q 036188          172 NYTSLVM-SNILESYKGFDNIKQLVDVGGSLGVTLQAITT  210 (210)
Q Consensus       172 ~~~~~~~-~~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~~  210 (210)
                      ..+.... +.++..++ |++.++|||||||+|++++++++
T Consensus        82 ~~~~~~~~~~~~~~~d-~~~~~~vvDvGGG~G~~~~~l~~  120 (241)
T PF00891_consen   82 EYSRLNAFDILLEAFD-FSGFKTVVDVGGGSGHFAIALAR  120 (241)
T ss_dssp             HHHHHHHHHHHHHHST-TTTSSEEEEET-TTSHHHHHHHH
T ss_pred             hhhhcchhhhhhcccc-ccCccEEEeccCcchHHHHHHHH
Confidence            9998887 78888898 99999999999999999999873

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=99.20  E-value=1.8e-11  Score=75.80  Aligned_cols=51  Identities=57%  Similarity=0.801  Sum_probs=43.3

Q ss_pred             HHHHHHHhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHh
Q 036188           27 MAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLA   78 (210)
Q Consensus        27 ~al~~a~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~   78 (210)
                      ++|++|++|||||.|+..| |+++|++||+.++...+|.++..|+|+||+|+
T Consensus         1 MaLk~aveLgI~dii~~~g-~~~ls~~eia~~l~~~~p~~~~~L~RimR~L~   51 (51)
T PF08100_consen    1 MALKCAVELGIPDIIHNAG-GGPLSLSEIAARLPTSNPSAPPMLDRIMRLLV   51 (51)
T ss_dssp             HHHHHHHHTTHHHHHHHHT-TS-BEHHHHHHTSTCT-TTHHHHHHHHHHHHH
T ss_pred             CcHHHHHHcCcHHHHHHcC-CCCCCHHHHHHHcCCCCcchHHHHHHHHHHhC
Confidence            5899999999999999986 47999999999999436667889999999985

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=97.70  E-value=2.2e-05  Score=48.76  Aligned_cols=46  Identities=33%  Similarity=0.390  Sum_probs=40.6

Q ss_pred             hChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           35 LGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        35 lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      +.|.+.|.+.+  +++|+.|||+++|+    +..-+.|+|..|+..|++.++
T Consensus         6 l~iL~~l~~~~--~~~t~~eia~~~gl----~~stv~r~L~tL~~~g~v~~d   51 (52)
T PF09339_consen    6 LRILEALAESG--GPLTLSEIARALGL----PKSTVHRLLQTLVEEGYVERD   51 (52)
T ss_dssp             HHHHHCHHCTB--SCEEHHHHHHHHTS-----HHHHHHHHHHHHHTTSEEEC
T ss_pred             HHHHHHHHcCC--CCCCHHHHHHHHCc----CHHHHHHHHHHHHHCcCeecC
Confidence            45788888875  67899999999999    999999999999999999875

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

>smart00346 HTH_ICLR helix_turn_helix isocitrate lyase regulation

Probab=97.53  E-value=0.00015  Score=49.92  Aligned_cols=58  Identities=21%  Similarity=0.245  Sum_probs=48.6

Q ss_pred             hhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceecccc
Q 036188           34 ELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSV  101 (210)
Q Consensus        34 ~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~~  101 (210)
                      -+.|.+.|.+.+  ++.|+.|||+++++    +...+.|+|+.|...|++.+..    ..+.|.+++.
T Consensus         7 ~~~Il~~l~~~~--~~~t~~~ia~~l~i----~~~tv~r~l~~L~~~g~l~~~~----~~~~y~l~~~   64 (91)
T smart00346        7 GLAVLRALAEEP--GGLTLAELAERLGL----SKSTAHRLLNTLQELGYVEQDG----QNGRYRLGPK   64 (91)
T ss_pred             HHHHHHHHHhCC--CCcCHHHHHHHhCC----CHHHHHHHHHHHHHCCCeeecC----CCCceeecHH
Confidence            356788888753  58999999999999    9999999999999999998752    3567888764

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

Probab=97.34  E-value=0.00056  Score=44.93  Aligned_cols=60  Identities=25%  Similarity=0.279  Sum_probs=48.7

Q ss_pred             HHhhChhhHHhhcCCCC-CCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceeccc
Q 036188           32 VYELGIFEILDKAGPGT-KLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNS  100 (210)
Q Consensus        32 a~~lglfd~L~~~g~~~-~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~  100 (210)
                      ..+-.|.++|.+.|  + ++|+.|||+++|+    +...++|+|.-|...|+++...   ..++.|..+.
T Consensus         6 ~~~~~IL~~L~~~g--~~~~ta~eLa~~lgl----~~~~v~r~L~~L~~~G~V~~~~---~~~~~W~i~~   66 (68)
T smart00550        6 SLEEKILEFLENSG--DETSTALQLAKNLGL----PKKEVNRVLYSLEKKGKVCKQG---GTPPLWKLTD   66 (68)
T ss_pred             HHHHHHHHHHHHCC--CCCcCHHHHHHHHCC----CHHHHHHHHHHHHHCCCEEecC---CCCCceEeec
Confidence            34567888898875  3 3999999999999    9999999999999999998752   1246777664

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

>COG1414 IclR Transcriptional regulator [Transcription]

Probab=97.24  E-value=0.0004  Score=57.15  Aligned_cols=60  Identities=23%  Similarity=0.276  Sum_probs=50.8

Q ss_pred             hChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceeccccccc
Q 036188           35 LGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSVSKY  104 (210)
Q Consensus        35 lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~~s~~  104 (210)
                      +.|.++|++.+  .++++.|||+++|+    ++.-+.|+|..|+..|+++++.    ..++|.+++....
T Consensus         7 l~iL~~l~~~~--~~l~l~ela~~~gl----pksT~~RlL~tL~~~G~v~~d~----~~g~Y~Lg~~~~~   66 (246)
T COG1414           7 LAILDLLAEGP--GGLSLAELAERLGL----PKSTVHRLLQTLVELGYVEQDP----EDGRYRLGPRLLE   66 (246)
T ss_pred             HHHHHHHHhCC--CCCCHHHHHHHhCc----CHHHHHHHHHHHHHCCCEEEcC----CCCcEeehHHHHH
Confidence            56788898843  45779999999999    9999999999999999999983    3578999986543

>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=97.15  E-value=0.0007  Score=46.14  Aligned_cols=55  Identities=29%  Similarity=0.395  Sum_probs=41.1

Q ss_pred             HhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceeccccc
Q 036188           41 LDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSVS  102 (210)
Q Consensus        41 L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~~s  102 (210)
                      |+..+.+++.|.+|||+++++    ++..+++++..|...|+++...   +..|.|.++.-.
T Consensus        17 la~~~~~~~~s~~eiA~~~~i----~~~~l~kil~~L~~~Gli~s~~---G~~GGy~L~~~~   71 (83)
T PF02082_consen   17 LARHPDGKPVSSKEIAERLGI----SPSYLRKILQKLKKAGLIESSR---GRGGGYRLARPP   71 (83)
T ss_dssp             HHCTTTSC-BEHHHHHHHHTS-----HHHHHHHHHHHHHTTSEEEET---STTSEEEESS-C
T ss_pred             HHhCCCCCCCCHHHHHHHHCc----CHHHHHHHHHHHhhCCeeEecC---CCCCceeecCCH
Confidence            344332256999999999999    9999999999999999998763   235778877643

(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.

>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=97.08  E-value=0.00067  Score=43.43  Aligned_cols=54  Identities=19%  Similarity=0.241  Sum_probs=45.3

Q ss_pred             HHHHHHHHhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           26 PMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        26 ~~al~~a~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      +.+|.--.++.|+..|...   +|+|+.|||+.+|+    ++..+.+-|+.|...|+++..
T Consensus         4 ~~aL~~p~R~~Il~~L~~~---~~~t~~ela~~l~~----~~~t~s~hL~~L~~aGli~~~   57 (61)
T PF12840_consen    4 FKALSDPTRLRILRLLASN---GPMTVSELAEELGI----SQSTVSYHLKKLEEAGLIEVE   57 (61)
T ss_dssp             HHHHTSHHHHHHHHHHHHC---STBEHHHHHHHHTS-----HHHHHHHHHHHHHTTSEEEE
T ss_pred             HHHhCCHHHHHHHHHHhcC---CCCCHHHHHHHHCC----CHHHHHHHHHHHHHCCCeEEe
Confidence            3455556778888889543   69999999999999    999999999999999999876

...

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

Probab=97.07  E-value=0.00067  Score=55.73  Aligned_cols=59  Identities=20%  Similarity=0.237  Sum_probs=50.4

Q ss_pred             hChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceecccccccc
Q 036188           35 LGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSVSKYY  105 (210)
Q Consensus        35 lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~~s~~l  105 (210)
                      +.|.+.|+..+  .++|+.|||+++|+    +..-+.|+|..|+..|+++++      .+.|.+.+....|
T Consensus        12 l~IL~~l~~~~--~~~~l~eia~~lgl----pksT~~RlL~tL~~~G~l~~~------~~~Y~lG~~~~~l   70 (248)
T TIGR02431        12 LAVIEAFGAER--PRLTLTDVAEATGL----TRAAARRFLLTLVELGYVTSD------GRLFWLTPRVLRL   70 (248)
T ss_pred             HHHHHHHhcCC--CCCCHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEeC------CCEEEecHHHHHH
Confidence            56788887654  68999999999999    999999999999999999875      5789999865433

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=97.05  E-value=0.00083  Score=56.11  Aligned_cols=59  Identities=12%  Similarity=0.142  Sum_probs=50.4

Q ss_pred             hChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceecccccc
Q 036188           35 LGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSVSK  103 (210)
Q Consensus        35 lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~~s~  103 (210)
                      +.|.+.|++.+  +++|+.|||+++|+    +..-+.|+|..|+..|++.++.    ..++|.+.+...
T Consensus        31 l~IL~~l~~~~--~~~~lseia~~lgl----pksTv~RlL~tL~~~G~l~~~~----~~~~Y~lG~~l~   89 (274)
T PRK11569         31 LKLLEWIAESN--GSVALTELAQQAGL----PNSTTHRLLTTMQQQGFVRQVG----ELGHWAIGAHAF   89 (274)
T ss_pred             HHHHHHHHhCC--CCcCHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEEcC----CCCeEecCHHHH
Confidence            56778887754  68999999999999    9999999999999999998762    468899987654

>PRK10163 DNA-binding transcriptional repressor AllR; Provisional

Probab=97.04  E-value=0.00086  Score=55.92  Aligned_cols=60  Identities=22%  Similarity=0.199  Sum_probs=50.8

Q ss_pred             hChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceeccccccc
Q 036188           35 LGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSVSKY  104 (210)
Q Consensus        35 lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~~s~~  104 (210)
                      +.|.+.|++.+  +++|+.|||+++|+    +..-+.|+|..|+..|++.++.    ..++|.+++....
T Consensus        28 l~IL~~~~~~~--~~~tl~eIa~~lgl----pkStv~RlL~tL~~~G~l~~~~----~~~~Y~lG~~l~~   87 (271)
T PRK10163         28 IAILQYLEKSG--GSSSVSDISLNLDL----PLSTTFRLLKVLQAADFVYQDS----QLGWWHIGLGVFN   87 (271)
T ss_pred             HHHHHHHHhCC--CCcCHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEEcC----CCCeEEecHHHHH
Confidence            66788888764  58999999999999    9999999999999999998862    4678999875443

>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=96.99  E-value=0.00076  Score=40.86  Aligned_cols=44  Identities=25%  Similarity=0.343  Sum_probs=38.8

Q ss_pred             hhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceee
Q 036188           34 ELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVEC   85 (210)
Q Consensus        34 ~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~   85 (210)
                      ++.|...|.+    +|.++.|||+.+++    ++..+.+-|+.|...|++++
T Consensus         4 R~~Il~~L~~----~~~~~~el~~~l~~----s~~~vs~hL~~L~~~glV~~   47 (47)
T PF01022_consen    4 RLRILKLLSE----GPLTVSELAEELGL----SQSTVSHHLKKLREAGLVEK   47 (47)
T ss_dssp             HHHHHHHHTT----SSEEHHHHHHHHTS-----HHHHHHHHHHHHHTTSEEE
T ss_pred             HHHHHHHHHh----CCCchhhHHHhccc----cchHHHHHHHHHHHCcCeeC
Confidence            5667778887    69999999999999    99999999999999999863

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 ....

>PRK09834 DNA-binding transcriptional activator MhpR; Provisional

Probab=96.97  E-value=0.0012  Score=54.73  Aligned_cols=61  Identities=15%  Similarity=0.115  Sum_probs=51.3

Q ss_pred             hChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceecccccccc
Q 036188           35 LGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSVSKYY  105 (210)
Q Consensus        35 lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~~s~~l  105 (210)
                      +.|.+.|...+  +++|+.|||+++|+    +..-+.|+|..|+..|+++++.    ..+.|.+++....|
T Consensus        14 l~iL~~l~~~~--~~ls~~eia~~lgl----~kstv~RlL~tL~~~g~v~~~~----~~~~Y~Lg~~~~~l   74 (263)
T PRK09834         14 LMVLRALNRLD--GGATVGLLAELTGL----HRTTVRRLLETLQEEGYVRRSA----SDDSFRLTLKVRQL   74 (263)
T ss_pred             HHHHHHHHhcC--CCCCHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEEec----CCCcEEEcHHHHHH
Confidence            56777887654  57999999999999    9999999999999999999863    46789999865544

>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=96.92  E-value=0.0015  Score=39.51  Aligned_cols=45  Identities=18%  Similarity=0.331  Sum_probs=38.4

Q ss_pred             HhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhccccee
Q 036188           33 YELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVE   84 (210)
Q Consensus        33 ~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~   84 (210)
                      .+..|+..|.++   +++|..|||+.+|+    +...+.+.++-|...|+++
T Consensus         4 ~~~~Il~~l~~~---~~~t~~ela~~~~i----s~~tv~~~l~~L~~~g~I~   48 (48)
T PF13412_consen    4 TQRKILNYLREN---PRITQKELAEKLGI----SRSTVNRYLKKLEEKGLIE   48 (48)
T ss_dssp             HHHHHHHHHHHC---TTS-HHHHHHHHTS-----HHHHHHHHHHHHHTTSEE
T ss_pred             HHHHHHHHHHHc---CCCCHHHHHHHhCC----CHHHHHHHHHHHHHCcCcC
Confidence            456788899986   47999999999999    9999999999999999974

...

>PRK15090 DNA-binding transcriptional regulator KdgR; Provisional

Probab=96.91  E-value=0.0012  Score=54.46  Aligned_cols=60  Identities=15%  Similarity=0.256  Sum_probs=49.7

Q ss_pred             hChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceecccccccc
Q 036188           35 LGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSVSKYY  105 (210)
Q Consensus        35 lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~~s~~l  105 (210)
                      +.|.+.|.+.   +++|+.|||+++|+    +..-+.|+|+.|+..|++.++.    ..+.|.+.+....|
T Consensus        17 l~IL~~l~~~---~~l~l~eia~~lgl----~kstv~Rll~tL~~~G~l~~~~----~~~~Y~lG~~~~~l   76 (257)
T PRK15090         17 FGILQALGEE---REIGITELSQRVMM----SKSTVYRFLQTMKTLGYVAQEG----ESEKYSLTLKLFEL   76 (257)
T ss_pred             HHHHHHhhcC---CCCCHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEEcC----CCCcEEecHHHHHH
Confidence            4566777664   58999999999999    9999999999999999999862    46889999865433

>PRK10857 DNA-binding transcriptional regulator IscR; Provisional

Probab=96.71  E-value=0.0037  Score=48.29  Aligned_cols=61  Identities=18%  Similarity=0.272  Sum_probs=45.9

Q ss_pred             HHHHHHHhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceeccc
Q 036188           27 MAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNS  100 (210)
Q Consensus        27 ~al~~a~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~  100 (210)
                      .||++.+.+.    ....  +++.|+++||+++++    ++++++++|..|...|++....   +..|.|.+..
T Consensus         9 yAl~~l~~lA----~~~~--~~~vs~~eIA~~~~i----p~~~l~kIl~~L~~aGLv~s~r---G~~GGy~Lar   69 (164)
T PRK10857          9 YAVTAMLDVA----LNSE--AGPVPLADISERQGI----SLSYLEQLFSRLRKNGLVSSVR---GPGGGYLLGK   69 (164)
T ss_pred             HHHHHHHHHH----hCCC--CCcCcHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEeCC---CCCCCeeccC
Confidence            4555555554    1121  258999999999999    9999999999999999999652   1456777654

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

Probab=96.68  E-value=0.0039  Score=40.13  Aligned_cols=45  Identities=24%  Similarity=0.186  Sum_probs=37.9

Q ss_pred             ChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           36 GIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        36 glfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      .|.++|.+..  +|.+..|||+.+|+    +...++++|..|...|.+.+.
T Consensus         4 ~Il~~i~~~~--~p~~T~eiA~~~gl----s~~~aR~yL~~Le~eG~V~~~   48 (62)
T PF04703_consen    4 KILEYIKEQN--GPLKTREIADALGL----SIYQARYYLEKLEKEGKVERS   48 (62)
T ss_dssp             CHHHHHHHHT--S-EEHHHHHHHHTS-----HHHHHHHHHHHHHCTSEEEE
T ss_pred             HHHHHHHHcC--CCCCHHHHHHHhCC----CHHHHHHHHHHHHHCCCEEEe
Confidence            4677777733  69999999999999    999999999999999999875

>cd00092 HTH_CRP helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family

Probab=96.65  E-value=0.0035  Score=40.35  Aligned_cols=44  Identities=23%  Similarity=0.277  Sum_probs=39.3

Q ss_pred             CCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceeccc
Q 036188           48 TKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNS  100 (210)
Q Consensus        48 ~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~  100 (210)
                      .++|..|||+.+|+    ++..+.|.|+.|...|++...     ..+.|.++|
T Consensus        24 ~~~s~~ela~~~g~----s~~tv~r~l~~L~~~g~i~~~-----~~~~~~l~~   67 (67)
T cd00092          24 LPLTRQEIADYLGL----TRETVSRTLKELEEEGLISRR-----GRGKYRVNP   67 (67)
T ss_pred             CCcCHHHHHHHHCC----CHHHHHHHHHHHHHCCCEEec-----CCCeEEeCC
Confidence            58999999999999    999999999999999999986     347787764

>PRK10141 DNA-binding transcriptional repressor ArsR; Provisional

Probab=96.63  E-value=0.0038  Score=45.46  Aligned_cols=65  Identities=22%  Similarity=0.258  Sum_probs=53.7

Q ss_pred             hHHHHHHHHHhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccc---eeccc
Q 036188           24 VLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRL---YSLNS  100 (210)
Q Consensus        24 ~~~~al~~a~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~---y~~t~  100 (210)
                      ..+.+|.--.++.|+..|...   ++.++.||++.+++    .+..+.+-|+.|...|+++..     ..|+   |++++
T Consensus         8 ~~fkaLadptRl~IL~~L~~~---~~~~v~ela~~l~l----sqstvS~HL~~L~~AGLV~~~-----r~Gr~~~Y~l~~   75 (117)
T PRK10141          8 QLFKILSDETRLGIVLLLRES---GELCVCDLCTALDQ----SQPKISRHLALLRESGLLLDR-----KQGKWVHYRLSP   75 (117)
T ss_pred             HHHHHhCCHHHHHHHHHHHHc---CCcCHHHHHHHHCc----CHHHHHHHHHHHHHCCceEEE-----EEcCEEEEEECc
Confidence            345677777889999999764   58999999999999    999999999999999999866     3554   66544

>smart00419 HTH_CRP helix_turn_helix, cAMP Regulatory protein

Probab=96.61  E-value=0.0037  Score=37.42  Aligned_cols=40  Identities=18%  Similarity=0.169  Sum_probs=36.1

Q ss_pred             CCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceec
Q 036188           49 KLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSL   98 (210)
Q Consensus        49 ~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~   98 (210)
                      ++|..|||+.+++    ++..+.+.|+.|...|++...      .+.|..
T Consensus         8 ~~s~~~la~~l~~----s~~tv~~~l~~L~~~g~l~~~------~~~~~i   47 (48)
T smart00419        8 PLTRQEIAELLGL----TRETVSRTLKRLEKEGLISRE------GGRIVI   47 (48)
T ss_pred             ccCHHHHHHHHCC----CHHHHHHHHHHHHHCCCEEEe------CCEEEE
Confidence            7899999999999    999999999999999999876      466654

>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=96.58  E-value=0.0019  Score=42.22  Aligned_cols=47  Identities=26%  Similarity=0.239  Sum_probs=40.4

Q ss_pred             HhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           33 YELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        33 ~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      .+..|+..|-..   ++.|+.|||+.+|+    +...+.+.|+-|...|++++.
T Consensus         9 ~E~~vy~~Ll~~---~~~t~~eIa~~l~i----~~~~v~~~L~~L~~~GlV~~~   55 (68)
T PF01978_consen    9 NEAKVYLALLKN---GPATAEEIAEELGI----SRSTVYRALKSLEEKGLVERE   55 (68)
T ss_dssp             HHHHHHHHHHHH---CHEEHHHHHHHHTS----SHHHHHHHHHHHHHTTSEEEE
T ss_pred             HHHHHHHHHHHc---CCCCHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEEE
Confidence            344566666544   69999999999999    999999999999999999987

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.

>PRK06922 hypothetical protein; Provisional

Probab=96.50  E-value=0.0046  Score=57.30  Aligned_cols=59  Identities=22%  Similarity=0.310  Sum_probs=42.9

Q ss_pred             CchhHhhccCchHHHHHHHHHhhhhhhh--HHHHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          150 VHIFEYAGLNPRFNKHFNAAMYNYTSLV--MSNILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       150 ~~~fe~l~~~p~~~~~f~~~M~~~~~~~--~~~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ..+|+++..+++..++|...|.......  .......++ +.+..+|||||||.|.++..++
T Consensus       377 ~~~fd~fg~r~D~~dRf~~~~~yle~m~~~~~~k~~i~d-~~~g~rVLDIGCGTG~ls~~LA  437 (677)
T PRK06922        377 VLLFDFFGLRKDAYDRFHNEEVYLEHMNSSADDKRIILD-YIKGDTIVDVGAGGGVMLDMIE  437 (677)
T ss_pred             hHHHHHhccChhhHhHHHhHHHHHHhccccHHHHHHHhh-hcCCCEEEEeCCCCCHHHHHHH
Confidence            5789999999998888888776543331  112233455 6678899999999999887664

>COG1959 Predicted transcriptional regulator [Transcription]

Probab=96.41  E-value=0.0063  Score=46.31  Aligned_cols=55  Identities=25%  Similarity=0.292  Sum_probs=44.0

Q ss_pred             HHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceecccc
Q 036188           40 ILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSV  101 (210)
Q Consensus        40 ~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~~  101 (210)
                      .|+..+.+++.|+++||+..++    +|.+|+++|..|...|+++...   +..|.|.++.-
T Consensus        16 ~LA~~~~~~~~s~~~IA~~~~i----s~~~L~kil~~L~kaGlV~S~r---G~~GGy~Lar~   70 (150)
T COG1959          16 YLALLPGGGPVSSAEIAERQGI----SPSYLEKILSKLRKAGLVKSVR---GKGGGYRLARP   70 (150)
T ss_pred             HHHhCCCCCcccHHHHHHHhCc----CHHHHHHHHHHHHHcCCEEeec---CCCCCccCCCC
Confidence            3554432248999999999999    9999999999999999998763   23678887753

>TIGR02010 IscR iron-sulfur cluster assembly transcription factor IscR

Probab=96.41  E-value=0.0067  Score=45.20  Aligned_cols=46  Identities=17%  Similarity=0.229  Sum_probs=38.9

Q ss_pred             CCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceeccc
Q 036188           48 TKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNS  100 (210)
Q Consensus        48 ~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~  100 (210)
                      ++.|+++||+++++    ++..++++|+.|...|++....   +..|.|.++.
T Consensus        24 ~~~s~~~ia~~~~i----p~~~l~kil~~L~~~glv~s~~---G~~Ggy~l~~   69 (135)
T TIGR02010        24 GPVTLADISERQGI----SLSYLEQLFAKLRKAGLVKSVR---GPGGGYQLGR   69 (135)
T ss_pred             CcCcHHHHHHHHCc----CHHHHHHHHHHHHHCCceEEEe---CCCCCEeccC
Confidence            58999999999999    9999999999999999998642   1356677664

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

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

Probab=96.34  E-value=0.0048  Score=40.48  Aligned_cols=44  Identities=16%  Similarity=0.227  Sum_probs=37.4

Q ss_pred             hhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeec
Q 036188           37 IFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSL   87 (210)
Q Consensus        37 lfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~   87 (210)
                      |-++|.+.   +.+|..|||.++++    ++..++.+|..|+..|.+.+..
T Consensus         5 i~~~l~~~---~~~S~~eLa~~~~~----s~~~ve~mL~~l~~kG~I~~~~   48 (69)
T PF09012_consen    5 IRDYLRER---GRVSLAELAREFGI----SPEAVEAMLEQLIRKGYIRKVD   48 (69)
T ss_dssp             HHHHHHHS----SEEHHHHHHHTT------HHHHHHHHHHHHCCTSCEEEE
T ss_pred             HHHHHHHc---CCcCHHHHHHHHCc----CHHHHHHHHHHHHHCCcEEEec
Confidence            56778775   59999999999999    9999999999999999999873

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

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

Probab=96.32  E-value=0.0036  Score=42.09  Aligned_cols=49  Identities=14%  Similarity=0.162  Sum_probs=40.0

Q ss_pred             CCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceeccccccccc
Q 036188           48 TKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSVSKYYV  106 (210)
Q Consensus        48 ~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~~s~~l~  106 (210)
                      ++.+..+|+..+++    +...+.+.|..|...|+++..      .+.|.+|+.+.-+.
T Consensus        18 ~~~~~t~i~~~~~L----~~~~~~~yL~~L~~~gLI~~~------~~~Y~lTekG~~~l   66 (77)
T PF14947_consen   18 GGAKKTEIMYKANL----NYSTLKKYLKELEEKGLIKKK------DGKYRLTEKGKEFL   66 (77)
T ss_dssp             T-B-HHHHHTTST------HHHHHHHHHHHHHTTSEEEE------TTEEEE-HHHHHHH
T ss_pred             CCCCHHHHHHHhCc----CHHHHHHHHHHHHHCcCeeCC------CCEEEECccHHHHH
Confidence            69999999999999    999999999999999999764      89999999987544

>TIGR00738 rrf2_super rrf2 family protein (putative transcriptional regulator)

Probab=96.22  E-value=0.0092  Score=44.01  Aligned_cols=46  Identities=28%  Similarity=0.325  Sum_probs=38.2

Q ss_pred             CCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceeccc
Q 036188           48 TKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNS  100 (210)
Q Consensus        48 ~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~  100 (210)
                      ++.|.++||+.+++    ++..++++|+.|...|++....   +..|.|.++.
T Consensus        24 ~~~s~~eia~~~~i----~~~~v~~il~~L~~~gli~~~~---g~~ggy~l~~   69 (132)
T TIGR00738        24 GPVSVKEIAERQGI----SRSYLEKILRTLRRAGLVESVR---GPGGGYRLAR   69 (132)
T ss_pred             CcCcHHHHHHHHCc----CHHHHHHHHHHHHHCCcEEecc---CCCCCccCCC
Confidence            48999999999999    9999999999999999998642   1245666644

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.

>PF13463 HTH_27: Winged helix DNA-binding domain; PDB: 3GFL_A 2YR2_B 3GFM_A 3GFJ_A 3GF2_A 3GEZ_A 2GXG_A 3GFI_A 2EB7_A

Probab=96.20  E-value=0.0069  Score=39.15  Aligned_cols=50  Identities=24%  Similarity=0.342  Sum_probs=36.7

Q ss_pred             CCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccC-CCcccceecccc
Q 036188           48 TKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDA-SGARRLYSLNSV  101 (210)
Q Consensus        48 ~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~-~~~~~~y~~t~~  101 (210)
                      ++++..+||+.+++    +...+.+.++-|...|++++..+. ......|++|+.
T Consensus        17 ~~~t~~~l~~~~~~----~~~~vs~~i~~L~~~glv~~~~~~~d~R~~~~~LT~~   67 (68)
T PF13463_consen   17 GPMTQSDLAERLGI----SKSTVSRIIKKLEEKGLVEKERDPHDKRSKRYRLTPA   67 (68)
T ss_dssp             S-BEHHHHHHHTT------HHHHHHHHHHHHHTTSEEEEEESSCTTSEEEEE-HH
T ss_pred             CCcCHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEecCCCCcCCeeEEEeCCC
Confidence            69999999999999    999999999999999999766321 112245888875

>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=96.02  E-value=0.0082  Score=38.05  Aligned_cols=48  Identities=21%  Similarity=0.317  Sum_probs=38.9

Q ss_pred             hhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           34 ELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        34 ~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      +..|.-.|...++ .++|+.|||+.+++    ++..+.++++.|...|++++.
T Consensus         7 q~~vL~~l~~~~~-~~~t~~~la~~l~~----~~~~vs~~v~~L~~~Glv~r~   54 (62)
T PF12802_consen    7 QFRVLMALARHPG-EELTQSELAERLGI----SKSTVSRIVKRLEKKGLVERE   54 (62)
T ss_dssp             HHHHHHHHHHSTT-SGEEHHHHHHHHTS-----HHHHHHHHHHHHHTTSEEEE
T ss_pred             HHHHHHHHHHCCC-CCcCHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEEe
Confidence            4455666777541 12899999999999    999999999999999999976

...

>TIGR02021 BchM-ChlM magnesium protoporphyrin O-methyltransferase

Probab=95.99  E-value=0.017  Score=46.34  Aligned_cols=58  Identities=9%  Similarity=-0.010  Sum_probs=35.0

Q ss_pred             hhHhhccCchHHHHHHHHHhhhhhhhHHHHHHhCCC-CCCCCeEEEecCCccHHHHhhh
Q 036188          152 IFEYAGLNPRFNKHFNAAMYNYTSLVMSNILESYKG-FDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       152 ~fe~l~~~p~~~~~f~~~M~~~~~~~~~~~l~~~~~-~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      .|+.+...+.....+...|..........+++..+. .....+|+|||||.|.++..++
T Consensus        16 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~vLDiGcG~G~~~~~la   74 (219)
T TIGR02021        16 RWARIYGSGDPVSRVRQTVREGRAAMRRKLLDWLPKDPLKGKRVLDAGCGTGLLSIELA   74 (219)
T ss_pred             HHHHhhCCchhhHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEeCCCCHHHHHHH
Confidence            345555545555556665543333333444443331 3457899999999999988775

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.

>TIGR02944 suf_reg_Xantho FeS assembly SUF system regulator, gammaproteobacterial

Probab=95.99  E-value=0.011  Score=43.66  Aligned_cols=46  Identities=26%  Similarity=0.299  Sum_probs=38.4

Q ss_pred             CCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceeccc
Q 036188           48 TKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNS  100 (210)
Q Consensus        48 ~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~  100 (210)
                      ++.|+.|||+++++    ++..+.++|+.|...|++....   +..|.|.+..
T Consensus        24 ~~~s~~eia~~l~i----s~~~v~~~l~~L~~~Gli~~~~---g~~ggy~l~~   69 (130)
T TIGR02944        24 QPYSAAEIAEQTGL----NAPTVSKILKQLSLAGIVTSKR---GVEGGYTLAR   69 (130)
T ss_pred             CCccHHHHHHHHCc----CHHHHHHHHHHHHHCCcEEecC---CCCCChhhcC
Confidence            68999999999999    9999999999999999997641   1245676644

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.

>smart00347 HTH_MARR helix_turn_helix multiple antibiotic resistance protein

Probab=95.96  E-value=0.014  Score=40.21  Aligned_cols=46  Identities=24%  Similarity=0.348  Sum_probs=40.8

Q ss_pred             hhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           34 ELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        34 ~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      ++.|+..|...   ++.|..+||+.+++    ++..+.+.++-|...|++++.
T Consensus        12 ~~~il~~l~~~---~~~~~~~la~~~~~----s~~~i~~~l~~L~~~g~v~~~   57 (101)
T smart00347       12 QFLVLRILYEE---GPLSVSELAKRLGV----SPSTVTRVLDRLEKKGLIRRL   57 (101)
T ss_pred             HHHHHHHHHHc---CCcCHHHHHHHHCC----CchhHHHHHHHHHHCCCeEec
Confidence            56677788775   47999999999999    999999999999999999875

>PRK11920 rirA iron-responsive transcriptional regulator; Reviewed

Probab=95.76  E-value=0.021  Score=43.55  Aligned_cols=61  Identities=21%  Similarity=0.188  Sum_probs=46.4

Q ss_pred             HHHHHHHhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceecccc
Q 036188           27 MAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSV  101 (210)
Q Consensus        27 ~al~~a~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~~  101 (210)
                      .|+++.+.+-      ..+ +++.|+++||++.++    ++.+|+++|..|...|+++...   +..|.|.++.-
T Consensus         9 YAlr~L~~LA------~~~-~~~~s~~eIA~~~~i----s~~~L~kIl~~L~~aGlv~S~r---G~~GGy~La~~   69 (153)
T PRK11920          9 YAIRMLMYCA------AND-GKLSRIPEIARAYGV----SELFLFKILQPLVEAGLVETVR---GRNGGVRLGRP   69 (153)
T ss_pred             HHHHHHHHHH------hCC-CCcCcHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEeec---CCCCCeeecCC
Confidence            4666665443      221 257899999999999    9999999999999999998763   23577877643

>smart00420 HTH_DEOR helix_turn_helix, Deoxyribose operon repressor

Probab=95.74  E-value=0.026  Score=34.09  Aligned_cols=43  Identities=26%  Similarity=0.333  Sum_probs=38.0

Q ss_pred             hhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           37 IFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        37 lfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      |.+.|.+.   ++.|+.+|++.+++    ++..+.+.|..|...|++.+.
T Consensus         5 il~~l~~~---~~~s~~~l~~~l~~----s~~tv~~~l~~L~~~g~i~~~   47 (53)
T smart00420        5 ILELLAQQ---GKVSVEELAELLGV----SEMTIRRDLNKLEEQGLLTRV   47 (53)
T ss_pred             HHHHHHHc---CCcCHHHHHHHHCC----CHHHHHHHHHHHHHCCCEEEe
Confidence            55666664   47999999999999    999999999999999999876

>PRK03902 manganese transport transcriptional regulator; Provisional

Probab=95.71  E-value=0.019  Score=43.11  Aligned_cols=50  Identities=20%  Similarity=0.131  Sum_probs=43.9

Q ss_pred             CCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceeccccccccc
Q 036188           48 TKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSVSKYYV  106 (210)
Q Consensus        48 ~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~~s~~l~  106 (210)
                      ++.++.+||+.+++    ++..+.+.++.|...|++...     ..+.|.+|+.++.+.
T Consensus        21 ~~~~~~ela~~l~v----s~~svs~~l~~L~~~Gli~~~-----~~~~i~LT~~G~~~a   70 (142)
T PRK03902         21 GYARVSDIAEALSV----HPSSVTKMVQKLDKDEYLIYE-----KYRGLVLTPKGKKIG   70 (142)
T ss_pred             CCcCHHHHHHHhCC----ChhHHHHHHHHHHHCCCEEEe-----cCceEEECHHHHHHH
Confidence            68999999999999    999999999999999999865     357799998886543

>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=95.69  E-value=0.026  Score=35.59  Aligned_cols=44  Identities=23%  Similarity=0.367  Sum_probs=40.1

Q ss_pred             ChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           36 GIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        36 glfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      .|.++|.+.   +.+|++|||+.+++    ++.-++|=|..|...|++.+.
T Consensus         4 ~Il~~l~~~---~~~s~~ela~~~~V----S~~TiRRDl~~L~~~g~i~r~   47 (57)
T PF08220_consen    4 QILELLKEK---GKVSVKELAEEFGV----SEMTIRRDLNKLEKQGLIKRT   47 (57)
T ss_pred             HHHHHHHHc---CCEEHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEEE
Confidence            367778776   59999999999999    999999999999999999987

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

>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=95.64  E-value=0.013  Score=36.81  Aligned_cols=46  Identities=22%  Similarity=0.354  Sum_probs=38.7

Q ss_pred             hhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           34 ELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        34 ~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      ++.+...|.+.   +++|..+||+.+++    ++..+.++++-|...|++++.
T Consensus         5 q~~iL~~l~~~---~~~~~~~la~~~~~----~~~~~t~~i~~L~~~g~I~r~   50 (59)
T PF01047_consen    5 QFRILRILYEN---GGITQSELAEKLGI----SRSTVTRIIKRLEKKGLIERE   50 (59)
T ss_dssp             HHHHHHHHHHH---SSEEHHHHHHHHTS-----HHHHHHHHHHHHHTTSEEEE
T ss_pred             HHHHHHHHHHc---CCCCHHHHHHHHCC----ChhHHHHHHHHHHHCCCEEec
Confidence            34455567676   48999999999999    999999999999999999876

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 ....

>PHA00738 putative HTH transcription regulator

Probab=95.64  E-value=0.024  Score=40.35  Aligned_cols=47  Identities=28%  Similarity=0.272  Sum_probs=42.4

Q ss_pred             HhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           33 YELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        33 ~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      .++.|++.|...   ++.++.||++.+++    ....+.+-|+.|...|+++..
T Consensus        13 tRr~IL~lL~~~---e~~~V~eLae~l~l----SQptVS~HLKvLreAGLV~sr   59 (108)
T PHA00738         13 LRRKILELIAEN---YILSASLISHTLLL----SYTTVLRHLKILNEQGYIELY   59 (108)
T ss_pred             HHHHHHHHHHHc---CCccHHHHHHhhCC----CHHHHHHHHHHHHHCCceEEE
Confidence            567889999873   37999999999999    999999999999999999876

>TIGR00122 birA_repr_reg BirA biotin operon repressor domain

Probab=95.61  E-value=0.024  Score=36.95  Aligned_cols=56  Identities=14%  Similarity=0.238  Sum_probs=44.1

Q ss_pred             hhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceeccccc
Q 036188           34 ELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSVS  102 (210)
Q Consensus        34 ~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~~s  102 (210)
                      ++.|...|.+    ++.|.++||+++++    ....+.+-++.|...|+....     ....|...+..
T Consensus         2 ~~~il~~L~~----~~~~~~eLa~~l~v----S~~tv~~~l~~L~~~g~~i~~-----~~~g~~l~~~~   57 (69)
T TIGR00122         2 PLRLLALLAD----NPFSGEKLGEALGM----SRTAVNKHIQTLREWGVDVLT-----VGKGYRLPPPI   57 (69)
T ss_pred             hHHHHHHHHc----CCcCHHHHHHHHCC----CHHHHHHHHHHHHHCCCeEEe-----cCCceEecCcc
Confidence            4557777876    68899999999999    999999999999999997654     23455554433

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.

>COG4742 Predicted transcriptional regulator [Transcription]

Probab=95.59  E-value=0.018  Score=47.51  Aligned_cols=67  Identities=16%  Similarity=0.169  Sum_probs=59.6

Q ss_pred             HHHHHHhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceecccccccccc
Q 036188           28 AIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSVSKYYVP  107 (210)
Q Consensus        28 al~~a~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~~s~~l~~  107 (210)
                      .+...-+.+|.=+|.+    ||.|.+||-..+++    ++..+..-++-|...|++.+.      ++.|++|..++.++.
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----SSSAILPQIKKLKDKGLVVQE------GDRYSLSSLGKIIVE   74 (260)
T ss_pred             HHccHHHHHHHHHHHh----CCCCHHHHHHHhCC----CcHHHHHHHHHHhhCCCEEec------CCEEEecchHHHHHH
Confidence            4455667888888888    79999999999999    999999999999999999996      899999999998875


Q ss_pred             C
Q 036188          108 N  108 (210)
Q Consensus       108 ~  108 (210)
                      .
T Consensus        75 k   75 (260)
T COG4742          75 K   75 (260)
T ss_pred             H
Confidence            4

>PRK11014 transcriptional repressor NsrR; Provisional

Probab=95.55  E-value=0.028  Score=42.16  Aligned_cols=61  Identities=15%  Similarity=0.130  Sum_probs=45.5

Q ss_pred             HHHHHHHhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceeccc
Q 036188           27 MAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNS  100 (210)
Q Consensus        27 ~al~~a~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~  100 (210)
                      .|+++.+.++.      ..+|.+.|..+||+++++    ++..++++|+.|...|+++...   +..|.|.+..
T Consensus         9 YAl~~~i~la~------~~~g~~~s~~~ia~~~~i----s~~~vrk~l~~L~~~Glv~s~~---G~~GG~~l~~   69 (141)
T PRK11014          9 YGLRALIYMAS------LPEGRMTSISEVTEVYGV----SRNHMVKIINQLSRAGYVTAVR---GKNGGIRLGK   69 (141)
T ss_pred             HHHHHHHHHhc------CCCCCccCHHHHHHHHCc----CHHHHHHHHHHHHhCCEEEEec---CCCCCeeecC
Confidence            35555555443      122257899999999999    9999999999999999998763   1245677653

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

Probab=95.46  E-value=0.012  Score=39.94  Aligned_cols=64  Identities=23%  Similarity=0.296  Sum_probs=46.9

Q ss_pred             HhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCc--ccceecccccc
Q 036188           33 YELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGA--RRLYSLNSVSK  103 (210)
Q Consensus        33 ~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~--~~~y~~t~~s~  103 (210)
                      +++.|...|...   +.++..+|.+.+++    +...+.+-|+.|...|+++......+.  .-.|++|+.++
T Consensus         1 vRl~Il~~L~~~---~~~~f~~L~~~l~l----t~g~Ls~hL~~Le~~GyV~~~k~~~~~~p~t~~~lT~~Gr   66 (80)
T PF13601_consen    1 VRLAILALLYAN---EEATFSELKEELGL----TDGNLSKHLKKLEEAGYVEVEKEFEGRRPRTWYSLTDKGR   66 (80)
T ss_dssp             HHHHHHHHHHHH---SEEEHHHHHHHTT------HHHHHHHHHHHHHTTSEEEEEE-SSS--EEEEEE-HHHH
T ss_pred             CHHHHHHHHhhc---CCCCHHHHHHHhCc----CHHHHHHHHHHHHHCCCEEEEEeccCCCCeEEEEECHHHH
Confidence            467888888886   59999999999999    999999999999999999865311001  12377777665

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

Probab=95.44  E-value=0.027  Score=36.65  Aligned_cols=60  Identities=17%  Similarity=0.197  Sum_probs=44.7

Q ss_pred             hhhHHhhcCCCCCCCHHHHHHHhcCCCC-CCcccHHHHHHHHhcccceeeeccCCCcccceecccccc
Q 036188           37 IFEILDKAGPGTKLSASDIAAQLLTKNK-DAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSVSK  103 (210)
Q Consensus        37 lfd~L~~~g~~~~~t~~eLA~~~~~~~~-~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~~s~  103 (210)
                      |.++|.+.+  +|++..+|++.+..+.- +.++.++|.|++|...|++.+.     ..+.+.+|+.+.
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--KPLGRKQLAEELKLRGEELSEEAVRRRLRAMERDGLTRKV-----GRQGRIITEKGL   63 (66)
T ss_pred             HHHHHHHcC--CCCCHHHHHHHHHhcChhhhHHHHHHHHHHHHHCCCcccc-----CCcccccCHHHH
Confidence            567788876  89999999999964100 1358899999999999977765     455567777653

>TIGR02702 SufR_cyano iron-sulfur cluster biosynthesis transcriptional regulator SufR

Probab=95.37  E-value=0.035  Score=44.20  Aligned_cols=65  Identities=22%  Similarity=0.267  Sum_probs=49.8

Q ss_pred             hChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCccc----ceecccccccccc
Q 036188           35 LGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARR----LYSLNSVSKYYVP  107 (210)
Q Consensus        35 lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~----~y~~t~~s~~l~~  107 (210)
                      ..|...|...   ++.|+.|||+.+++    ++..+.+.|+.|...|++++..... +.|    .|.+|+.+..+..
T Consensus         4 ~~IL~~L~~~---~~~t~~eLA~~lgi----s~~tV~~~L~~Le~~GlV~r~~~~~-~~gRp~~~y~LT~~G~~~~~   72 (203)
T TIGR02702         4 EDILSYLLKQ---GQATAAALAEALAI----SPQAVRRHLKDLETEGLIEYEAVVQ-GMGRPQYHYQLSRQGREQFP   72 (203)
T ss_pred             HHHHHHHHHc---CCCCHHHHHHHHCc----CHHHHHHHHHHHHHCCCeEEeeccc-CCCCCceEEEECcchhhhcc
Confidence            4567777665   58999999999999    9999999999999999998752100 122    3788888875443

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.

>TIGR02337 HpaR homoprotocatechuate degradation operon regulator, HpaR

Probab=95.36  E-value=0.036  Score=40.04  Aligned_cols=66  Identities=20%  Similarity=0.154  Sum_probs=49.4

Q ss_pred             hhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCC-Ccccceeccccccccc
Q 036188           34 ELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDAS-GARRLYSLNSVSKYYV  106 (210)
Q Consensus        34 ~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~-~~~~~y~~t~~s~~l~  106 (210)
                      +..|+..|...   ++.|..|||+.+++    ++..+.++++-|...|++++..+.. ...-.+.+|+.++.+.
T Consensus        30 q~~iL~~l~~~---~~~t~~ela~~~~~----~~~tvs~~l~~Le~~GlI~r~~~~~D~R~~~v~LT~~G~~~~   96 (118)
T TIGR02337        30 QWRILRILAEQ---GSMEFTQLANQACI----LRPSLTGILARLERDGLVTRLKASNDQRRVYISLTPKGQALY   96 (118)
T ss_pred             HHHHHHHHHHc---CCcCHHHHHHHhCC----CchhHHHHHHHHHHCCCEEeccCCCCCCeeEEEECHhHHHHH
Confidence            34466667665   58999999999999    9999999999999999999753110 0122477777776544

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.

>PRK06266 transcription initiation factor E subunit alpha; Validated

Probab=95.28  E-value=0.06  Score=42.15  Aligned_cols=45  Identities=18%  Similarity=0.190  Sum_probs=40.0

Q ss_pred             hChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           35 LGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        35 lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      ..|++.|...   +++|.+|||+.+|+    ....++++|..|...|++...
T Consensus        25 ~~Vl~~L~~~---g~~tdeeLA~~Lgi----~~~~VRk~L~~L~e~gLv~~~   69 (178)
T PRK06266         25 FEVLKALIKK---GEVTDEEIAEQTGI----KLNTVRKILYKLYDARLADYK   69 (178)
T ss_pred             hHHHHHHHHc---CCcCHHHHHHHHCC----CHHHHHHHHHHHHHCCCeEEe
Confidence            3478888775   59999999999999    999999999999999999843

>PRK11050 manganese transport regulator MntR; Provisional

Probab=95.22  E-value=0.034  Score=42.35  Aligned_cols=57  Identities=23%  Similarity=0.242  Sum_probs=46.1

Q ss_pred             hhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceecccccccc
Q 036188           37 IFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSVSKYY  105 (210)
Q Consensus        37 lfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~~s~~l  105 (210)
                      |..++...   ++.+..|||+.+++    ++..+.+.++.|...|++...     ....+.+|+.+..+
T Consensus        42 I~~~l~~~---~~~t~~eLA~~l~i----s~stVsr~l~~Le~~GlI~r~-----~~~~v~LT~~G~~l   98 (152)
T PRK11050         42 IADLIAEV---GEARQVDIAARLGV----SQPTVAKMLKRLARDGLVEMR-----PYRGVFLTPEGEKL   98 (152)
T ss_pred             HHHHHHhc---CCCCHHHHHHHHCC----CHHHHHHHHHHHHHCCCEEEe-----cCCceEECchHHHH
Confidence            55566653   58999999999999    999999999999999999876     34567777766544

>smart00418 HTH_ARSR helix_turn_helix, Arsenical Resistance Operon Repressor

Probab=95.15  E-value=0.052  Score=33.92  Aligned_cols=42  Identities=21%  Similarity=0.305  Sum_probs=36.6

Q ss_pred             hhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           37 IFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        37 lfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      |+..|..    ++.|..+|++.+++    ++..+.+.++.|...|++...
T Consensus         2 il~~l~~----~~~~~~~i~~~l~i----s~~~v~~~l~~L~~~g~i~~~   43 (66)
T smart00418        2 ILKLLAE----GELCVCELAEILGL----SQSTVSHHLKKLREAGLVESR   43 (66)
T ss_pred             HHHHhhc----CCccHHHHHHHHCC----CHHHHHHHHHHHHHCCCeeee
Confidence            4455653    68999999999999    999999999999999999865

>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=95.06  E-value=0.044  Score=35.59  Aligned_cols=42  Identities=19%  Similarity=0.256  Sum_probs=33.3

Q ss_pred             HHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           40 ILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        40 ~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      ++.+.|  -|-|+.|||+.+|++   ++..+.+.|+.|...|++.+.
T Consensus        18 ~~~~~G--~~Pt~rEIa~~~g~~---S~~tv~~~L~~Le~kG~I~r~   59 (65)
T PF01726_consen   18 YIEENG--YPPTVREIAEALGLK---STSTVQRHLKALERKGYIRRD   59 (65)
T ss_dssp             HHHHHS--S---HHHHHHHHTSS---SHHHHHHHHHHHHHTTSEEEG
T ss_pred             HHHHcC--CCCCHHHHHHHhCCC---ChHHHHHHHHHHHHCcCccCC
Confidence            344555  577999999999993   499999999999999999986

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.

>TIGR01884 cas_HTH CRISPR locus-related DNA-binding protein

Probab=94.98  E-value=0.049  Score=43.38  Aligned_cols=58  Identities=29%  Similarity=0.349  Sum_probs=46.6

Q ss_pred             hhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceecccc
Q 036188           34 ELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSV  101 (210)
Q Consensus        34 ~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~~  101 (210)
                      ++.|...|.+.   ++.+..|||+.+++    ++..+.|.+..|...|++++...   ....|.+|+.
T Consensus       145 ~~~IL~~l~~~---g~~s~~eia~~l~i----s~stv~r~L~~Le~~GlI~r~~~---r~~~~~lT~~  202 (203)
T TIGR01884       145 ELKVLEVLKAE---GEKSVKNIAKKLGK----SLSTISRHLRELEKKGLVEQKGR---KGKRYSLTKL  202 (203)
T ss_pred             HHHHHHHHHHc---CCcCHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEEEcC---CccEEEeCCC
Confidence            45567777765   48999999999999    99999999999999999998720   2345777764

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.

>COG3355 Predicted transcriptional regulator [Transcription]

Probab=94.90  E-value=0.061  Score=39.55  Aligned_cols=47  Identities=19%  Similarity=0.235  Sum_probs=39.0

Q ss_pred             hhChhhHHh-hcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeec
Q 036188           34 ELGIFEILD-KAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSL   87 (210)
Q Consensus        34 ~lglfd~L~-~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~   87 (210)
                      +..++-+|- .+   +|.|++|||+.++.    +..-+.|-|+-|...|++.+..
T Consensus        29 Dv~v~~~LL~~~---~~~tvdelae~lnr----~rStv~rsl~~L~~~GlV~Rek   76 (126)
T COG3355          29 DVEVYKALLEEN---GPLTVDELAEILNR----SRSTVYRSLQNLLEAGLVEREK   76 (126)
T ss_pred             HHHHHHHHHhhc---CCcCHHHHHHHHCc----cHHHHHHHHHHHHHcCCeeeee
Confidence            344444444 44   69999999999999    9999999999999999998763

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

Probab=94.75  E-value=0.075  Score=34.22  Aligned_cols=45  Identities=27%  Similarity=0.350  Sum_probs=38.2

Q ss_pred             hhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           34 ELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        34 ~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      +..|...+..    ++.+..||++.+++    +...+.+.++.|...|++...
T Consensus         9 ~~~il~~l~~----~~~~~~ei~~~~~i----~~~~i~~~l~~L~~~g~i~~~   53 (78)
T cd00090           9 RLRILRLLLE----GPLTVSELAERLGL----SQSTVSRHLKKLEEAGLVESR   53 (78)
T ss_pred             HHHHHHHHHH----CCcCHHHHHHHHCc----CHhHHHHHHHHHHHCCCeEEE
Confidence            3445666666    35999999999999    999999999999999999875

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.

>smart00344 HTH_ASNC helix_turn_helix ASNC type

Probab=94.69  E-value=0.051  Score=38.51  Aligned_cols=46  Identities=20%  Similarity=0.316  Sum_probs=41.5

Q ss_pred             HhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceee
Q 036188           33 YELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVEC   85 (210)
Q Consensus        33 ~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~   85 (210)
                      .+..|...|.++   +++|..+||+++|+    ++..+.+.++.|...|++..
T Consensus         4 ~D~~il~~L~~~---~~~~~~~la~~l~~----s~~tv~~~l~~L~~~g~i~~   49 (108)
T smart00344        4 IDRKILEELQKD---ARISLAELAKKVGL----SPSTVHNRVKRLEEEGVIKG   49 (108)
T ss_pred             HHHHHHHHHHHh---CCCCHHHHHHHHCc----CHHHHHHHHHHHHHCCCeec
Confidence            467788888886   58999999999999    99999999999999999984

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

>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=94.68  E-value=0.052  Score=33.57  Aligned_cols=42  Identities=17%  Similarity=0.310  Sum_probs=33.9

Q ss_pred             ChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccce
Q 036188           36 GIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVV   83 (210)
Q Consensus        36 glfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~   83 (210)
                      .|...|.+++  +++|+++||+.+++    +.+-+.+-+..|...|+.
T Consensus         4 ~il~~L~~~~--~~it~~eLa~~l~v----S~rTi~~~i~~L~~~~~~   45 (55)
T PF08279_consen    4 QILKLLLESK--EPITAKELAEELGV----SRRTIRRDIKELREWGIP   45 (55)
T ss_dssp             HHHHHHHHTT--TSBEHHHHHHHCTS-----HHHHHHHHHHHHHTT-E
T ss_pred             HHHHHHHHcC--CCcCHHHHHHHhCC----CHHHHHHHHHHHHHCCCe
Confidence            4566675443  57999999999999    999999999999999943

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 ....

>COG1321 TroR Mn-dependent transcriptional regulator [Transcription]

Probab=94.58  E-value=0.069  Score=40.80  Aligned_cols=50  Identities=20%  Similarity=0.209  Sum_probs=45.9

Q ss_pred             CCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceeccccccccc
Q 036188           48 TKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSVSKYYV  106 (210)
Q Consensus        48 ~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~~s~~l~  106 (210)
                      +++...+||+.+++    .|.-+...++-|...|+++..     ..+.+.+|+.++-..
T Consensus        23 ~~~~~~diA~~L~V----sp~sVt~ml~rL~~~GlV~~~-----~y~gi~LT~~G~~~a   72 (154)
T COG1321          23 GFARTKDIAERLKV----SPPSVTEMLKRLERLGLVEYE-----PYGGVTLTEKGREKA   72 (154)
T ss_pred             CcccHHHHHHHhCC----CcHHHHHHHHHHHHCCCeEEe-----cCCCeEEChhhHHHH
Confidence            69999999999999    999999999999999999997     588999999887554

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

Probab=94.57  E-value=0.084  Score=38.64  Aligned_cols=50  Identities=14%  Similarity=0.175  Sum_probs=45.0

Q ss_pred             HHHHhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           30 QAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        30 ~~a~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      +..+...|.+++.++   |.+|+.|++..+|+    +-..+.++++.|++.|-+-..
T Consensus        10 r~eLk~rIvElVRe~---GRiTi~ql~~~TGa----sR~Tvk~~lreLVa~G~l~~~   59 (127)
T PF06163_consen   10 REELKARIVELVREH---GRITIKQLVAKTGA----SRNTVKRYLRELVARGDLYRH   59 (127)
T ss_pred             HHHHHHHHHHHHHHc---CCccHHHHHHHHCC----CHHHHHHHHHHHHHcCCeEeC
Confidence            455778899999987   59999999999999    999999999999999988876

>smart00345 HTH_GNTR helix_turn_helix gluconate operon transcriptional repressor

Probab=94.54  E-value=0.085  Score=32.67  Aligned_cols=35  Identities=29%  Similarity=0.295  Sum_probs=32.4

Q ss_pred             CCC-CHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           48 TKL-SASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        48 ~~~-t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      ..+ |..|||+.+++    +...+++.++.|...|++...
T Consensus        18 ~~l~s~~~la~~~~v----s~~tv~~~l~~L~~~g~i~~~   53 (60)
T smart00345       18 DKLPSERELAAQLGV----SRTTVREALSRLEAEGLVQRR   53 (60)
T ss_pred             CcCcCHHHHHHHHCC----CHHHHHHHHHHHHHCCCEEEe
Confidence            456 89999999999    999999999999999999876

>COG4190 Predicted transcriptional regulator [Transcription]

Probab=94.34  E-value=0.098  Score=38.60  Aligned_cols=53  Identities=15%  Similarity=0.201  Sum_probs=45.9

Q ss_pred             HHHHHHHhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           27 MAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        27 ~al~~a~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      ..+.+=-.+.|.+.|++.   +|.|+.|+|+.+|-    +...+.|=|+.|.-.|++...
T Consensus        59 a~vLsp~nleLl~~Ia~~---~P~Si~ElAe~vgR----dv~nvhr~Ls~l~~~GlI~fe  111 (144)
T COG4190          59 ARVLSPRNLELLELIAQE---EPASINELAELVGR----DVKNVHRTLSTLADLGLIFFE  111 (144)
T ss_pred             HHHhChhHHHHHHHHHhc---CcccHHHHHHHhCc----chHHHHHHHHHHHhcCeEEEe
Confidence            344444567788999886   69999999999999    999999999999999999865

>PF01638 HxlR: HxlR-like helix-turn-helix; InterPro: IPR002577 The hxlR-type HTH domain is a domain of ~90-100 amino acids present in putative transcription regulators with a winged helix-turn-helix (wHTH) structure

Probab=94.24  E-value=0.03  Score=38.65  Aligned_cols=62  Identities=24%  Similarity=0.270  Sum_probs=45.7

Q ss_pred             hhhHHhhcCCCCCCCHHHHHHHh-cCCCCCCcccHHHHHHHHhcccceeeeccCCC-cccceeccccccccc
Q 036188           37 IFEILDKAGPGTKLSASDIAAQL-LTKNKDAPMMLDRILRLLASYSVVECSLDASG-ARRLYSLNSVSKYYV  106 (210)
Q Consensus        37 lfd~L~~~g~~~~~t~~eLA~~~-~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~-~~~~y~~t~~s~~l~  106 (210)
                      |...|..    ++....||.+.+ ++    ++..|.+-|+.|...|++++...... ..-.|++|+.++.|.
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----SPKVLSQRLKELEEAGLVERRVYPEVPPRVEYSLTEKGKELL   73 (90)
T ss_dssp             HHHHHTT----SSEEHHHHHHHSTTS-----HHHHHHHHHHHHHTTSEEEEEESSSSSEEEEEE-HHHHHHH
T ss_pred             HHHHHHh----CCCcHHHHHHhcchh----HHHHHHHHHHHHHHcchhhcccccCCCCCCccCCCcCHHHHH
Confidence            3444555    699999999999 89    99999999999999999988632110 112488888887665

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.

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

Probab=94.23  E-value=0.037  Score=46.77  Aligned_cols=43  Identities=28%  Similarity=0.323  Sum_probs=28.9

Q ss_pred             HHHHHHhhhhhhhHHHHHHhCCCCCCCCeEEEecCCccHHHHhhhC
Q 036188          165 HFNAAMYNYTSLVMSNILESYKGFDNIKQLVDVGGSLGVTLQAITT  210 (210)
Q Consensus       165 ~f~~~M~~~~~~~~~~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~~  210 (210)
                      .|-.+-...+.... .+++.+.  .+..+++|+|||+|.++++.++
T Consensus       140 AFGTG~HpTT~lcL-~~Le~~~--~~g~~vlDvGcGSGILaIAa~k  182 (300)
T COG2264         140 AFGTGTHPTTSLCL-EALEKLL--KKGKTVLDVGCGSGILAIAAAK  182 (300)
T ss_pred             ccCCCCChhHHHHH-HHHHHhh--cCCCEEEEecCChhHHHHHHHH
Confidence            34433333333333 4566665  5889999999999999998753

>PRK10258 biotin biosynthesis protein BioC; Provisional

Probab=94.22  E-value=0.092  Score=42.90  Aligned_cols=32  Identities=13%  Similarity=0.140  Sum_probs=23.5

Q ss_pred             hHHHHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          177 VMSNILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       177 ~~~~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      .+..+++.++ -....+|+|||||+|.++..+.
T Consensus        30 ~a~~l~~~l~-~~~~~~vLDiGcG~G~~~~~l~   61 (251)
T PRK10258         30 SADALLAMLP-QRKFTHVLDAGCGPGWMSRYWR   61 (251)
T ss_pred             HHHHHHHhcC-ccCCCeEEEeeCCCCHHHHHHH
Confidence            3445566665 4567899999999999877653

>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=94.17  E-value=0.096  Score=36.27  Aligned_cols=68  Identities=21%  Similarity=0.154  Sum_probs=50.9

Q ss_pred             HHHhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHH----------HHHhcccce-eeeccCCCcccceecc
Q 036188           31 AVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRIL----------RLLASYSVV-ECSLDASGARRLYSLN   99 (210)
Q Consensus        31 ~a~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlL----------r~L~~~gl~-~~~~~~~~~~~~y~~t   99 (210)
                      .=++..|+..|...-| .+.++.|||+.+++    ++..+.--|          +-|+.+|++ ++...  ++.-.|++|
T Consensus         8 S~~R~~vl~~L~~~yp-~~~~~~eIar~v~~----~~snV~GaL~G~g~rY~~e~SLv~lGLV~~~~~~--~g~k~Y~lT   80 (90)
T PF07381_consen    8 SKVRKKVLEYLCSIYP-EPAYPSEIARSVGS----DYSNVLGALRGDGKRYNKEDSLVGLGLVEEEEEK--GGFKYYRLT   80 (90)
T ss_pred             HHHHHHHHHHHHHcCC-CcCCHHHHHHHHCC----CHHHHHHHHhcCCCCcCcchhHHHcCCeeEeeec--CCeeEEEeC
Confidence            4567789999998732 79999999999999    999887777          458999999 43311  123369998


Q ss_pred             cccccc
Q 036188          100 SVSKYY  105 (210)
Q Consensus       100 ~~s~~l  105 (210)
                      +.+..+
T Consensus        81 ~~G~~~   86 (90)
T PF07381_consen   81 EKGKRI   86 (90)
T ss_pred             hhhhhH
Confidence            877543

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

>COG2345 Predicted transcriptional regulator [Transcription]

Probab=94.05  E-value=0.07  Score=43.01  Aligned_cols=64  Identities=31%  Similarity=0.474  Sum_probs=48.7

Q ss_pred             hhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCC--Cc-ccceecccccccccc
Q 036188           37 IFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDAS--GA-RRLYSLNSVSKYYVP  107 (210)
Q Consensus        37 lfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~--~~-~~~y~~t~~s~~l~~  107 (210)
                      |...|.+.   +|+|+.|||+++|+    ++..++|-|..|.+.|++......+  +. .-.|++|..+.-...
T Consensus        16 il~lL~~~---g~~sa~elA~~Lgi----s~~avR~HL~~Le~~Glv~~~~~~~g~GRP~~~y~Lt~~g~~~f~   82 (218)
T COG2345          16 ILELLKKS---GPVSADELAEELGI----SPMAVRRHLDDLEAEGLVEVERQQGGRGRPAKLYRLTEKGREQFP   82 (218)
T ss_pred             HHHHHhcc---CCccHHHHHHHhCC----CHHHHHHHHHHHHhCcceeeeeccCCCCCCceeeeecccchhhcc
Confidence            45567665   69999999999999    9999999999999999997552111  01 123999998775443

>TIGR00373 conserved hypothetical protein TIGR00373

Probab=94.00  E-value=0.1  Score=40.00  Aligned_cols=45  Identities=11%  Similarity=0.041  Sum_probs=38.9

Q ss_pred             hChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           35 LGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        35 lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      ..|+++|-..   +.+|-+|||+.+|+    +..-++++|..|...||+...
T Consensus        17 v~Vl~aL~~~---~~~tdEeLa~~Lgi----~~~~VRk~L~~L~e~~Lv~~~   61 (158)
T TIGR00373        17 GLVLFSLGIK---GEFTDEEISLELGI----KLNEVRKALYALYDAGLADYK   61 (158)
T ss_pred             HHHHHHHhcc---CCCCHHHHHHHHCC----CHHHHHHHHHHHHHCCCceee
Confidence            3467777754   58999999999999    999999999999999999643

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.

>COG4189 Predicted transcriptional regulator [Transcription]

Probab=93.94  E-value=0.11  Score=42.09  Aligned_cols=55  Identities=15%  Similarity=0.276  Sum_probs=49.4

Q ss_pred             HHHHHHHHHhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           25 LPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        25 ~~~al~~a~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      .-+||...+++.|...|++.   +|+.+.|||+++|+    +..-+..=+..|...|+++-.
T Consensus        16 v~kalaS~vRv~Il~lL~~k---~plNvneiAe~lgL----pqst~s~~ik~Le~aGlirT~   70 (308)
T COG4189          16 VLKALASKVRVAILQLLHRK---GPLNVNEIAEALGL----PQSTMSANIKVLEKAGLIRTE   70 (308)
T ss_pred             HHHHHHHHHHHHHHHHHHHh---CCCCHHHHHHHhCC----chhhhhhhHHHHHhcCceeee
Confidence            34688899999999999997   59999999999999    999999999999999999743

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

Probab=93.91  E-value=0.079  Score=36.61  Aligned_cols=46  Identities=24%  Similarity=0.325  Sum_probs=38.7

Q ss_pred             HHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceeccccccccc
Q 036188           52 ASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSVSKYYV  106 (210)
Q Consensus        52 ~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~~s~~l~  106 (210)
                      +.+||+.+++    ++..+.+.++.|...|++.+.     ....|.+|+.+..+.
T Consensus         2 ~~ela~~l~i----s~stvs~~l~~L~~~glI~r~-----~~~~~~lT~~g~~~~   47 (96)
T smart00529        2 TSEIAERLNV----SPPTVTQMLKKLEKDGLVEYE-----PYRGITLTEKGRRLA   47 (96)
T ss_pred             HHHHHHHhCC----ChHHHHHHHHHHHHCCCEEEc-----CCCceEechhHHHHH
Confidence            4689999999    999999999999999999987     345677777766543

iron dependent repressor

>PRK06474 hypothetical protein; Provisional

Probab=93.90  E-value=0.14  Score=40.06  Aligned_cols=73  Identities=14%  Similarity=0.188  Sum_probs=55.0

Q ss_pred             HHHHHHHhhChhhHHhhcCCCCCCCHHHHHHHh-cCCCCCCcccHHHHHHHHhcccceeeeccC---CCcccceeccccc
Q 036188           27 MAIQAVYELGIFEILDKAGPGTKLSASDIAAQL-LTKNKDAPMMLDRILRLLASYSVVECSLDA---SGARRLYSLNSVS  102 (210)
Q Consensus        27 ~al~~a~~lglfd~L~~~g~~~~~t~~eLA~~~-~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~---~~~~~~y~~t~~s  102 (210)
                      .+|..-.++.|++.|...+  .++|+.||++.+ ++    +..-+.|-|+.|...|+++.....   +...-.|+.++.+
T Consensus         6 ~~La~p~R~~Il~~L~~~~--~~~ta~el~~~l~~i----s~aTvYrhL~~L~e~GLI~~~~~~~~~~~~ek~y~~~~~~   79 (178)
T PRK06474          6 EILMHPVRMKICQVLMRNK--EGLTPLELVKILKDV----PQATLYRHLQTMVDSGILHVVKEKKVRSVSEKYYAINEED   79 (178)
T ss_pred             HhhCCHHHHHHHHHHHhCC--CCCCHHHHHHHhcCC----CHHHHHHHHHHHHHCCCEEEeecccccCceeEEEEeccce
Confidence            4566677888999998754  359999999999 57    888899999999999999976311   1122358788766


Q ss_pred             ccc
Q 036188          103 KYY  105 (210)
Q Consensus       103 ~~l  105 (210)
                      ..+
T Consensus        80 ~~~   82 (178)
T PRK06474         80 AKI   82 (178)
T ss_pred             eee
Confidence            544

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

Probab=93.86  E-value=0.17  Score=31.92  Aligned_cols=33  Identities=24%  Similarity=0.245  Sum_probs=30.6

Q ss_pred             CCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           50 LSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        50 ~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      .|..+||+.+++    +...+.+.+..|...|+++..
T Consensus        26 ~~~~~la~~~~i----s~~~v~~~l~~L~~~G~i~~~   58 (66)
T cd07377          26 PSERELAEELGV----SRTTVREALRELEAEGLVERR   58 (66)
T ss_pred             CCHHHHHHHHCC----CHHHHHHHHHHHHHCCCEEec
Confidence            459999999999    999999999999999999865

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

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

Probab=93.85  E-value=0.1  Score=32.40  Aligned_cols=43  Identities=23%  Similarity=0.404  Sum_probs=35.2

Q ss_pred             HHHHHHHHHhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHH
Q 036188           25 LPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLL   77 (210)
Q Consensus        25 ~~~al~~a~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L   77 (210)
                      +-.+|.+|+++|-||.=      ...|..|||+.+|+    .+..+..-||-.
T Consensus         5 Q~e~L~~A~~~GYfd~P------R~~tl~elA~~lgi----s~st~~~~LRra   47 (53)
T PF04967_consen    5 QREILKAAYELGYFDVP------RRITLEELAEELGI----SKSTVSEHLRRA   47 (53)
T ss_pred             HHHHHHHHHHcCCCCCC------CcCCHHHHHHHhCC----CHHHHHHHHHHH
Confidence            45689999999999742      47899999999999    888777777654

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

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

Probab=93.84  E-value=0.12  Score=37.08  Aligned_cols=63  Identities=27%  Similarity=0.302  Sum_probs=45.0

Q ss_pred             hhChhhHHhhcCCCCCCCHHHHHHHhcCC-CCCCcccHHHHHHHHhcccceeeeccCCCcccceecc
Q 036188           34 ELGIFEILDKAGPGTKLSASDIAAQLLTK-NKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLN   99 (210)
Q Consensus        34 ~lglfd~L~~~g~~~~~t~~eLA~~~~~~-~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t   99 (210)
                      +..|++.|.+.+  ++.|++||.+++.-. ++++..-+.|.|+.|+..|++.+....+ +...|..+
T Consensus         3 R~~Il~~l~~~~--~~~sa~ei~~~l~~~~~~i~~~TVYR~L~~L~~~Gli~~~~~~~-~~~~y~~~   66 (116)
T cd07153           3 RLAILEVLLESD--GHLTAEEIYERLRKKGPSISLATVYRTLELLEEAGLVREIELGD-GKARYELN   66 (116)
T ss_pred             HHHHHHHHHhCC--CCCCHHHHHHHHHhcCCCCCHHHHHHHHHHHHhCCCEEEEEeCC-CceEEEeC
Confidence            345788887754  699999999999421 1128889999999999999999874211 12356553

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.

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

Probab=93.82  E-value=0.067  Score=29.63  Aligned_cols=31  Identities=26%  Similarity=0.333  Sum_probs=26.1

Q ss_pred             CCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccce
Q 036188           49 KLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVV   83 (210)
Q Consensus        49 ~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~   83 (210)
                      |+|-+|||..+|+    .++-+.|+|..|...|++
T Consensus         2 ~mtr~diA~~lG~----t~ETVSR~l~~l~~~glI   32 (32)
T PF00325_consen    2 PMTRQDIADYLGL----TRETVSRILKKLERQGLI   32 (32)
T ss_dssp             E--HHHHHHHHTS-----HHHHHHHHHHHHHTTSE
T ss_pred             CcCHHHHHHHhCC----cHHHHHHHHHHHHHcCCC
Confidence            6789999999999    999999999999998875

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 ....

>PRK06202 hypothetical protein; Provisional

Probab=93.75  E-value=0.1  Score=42.14  Aligned_cols=21  Identities=24%  Similarity=0.270  Sum_probs=17.6

Q ss_pred             CCCCeEEEecCCccHHHHhhh
Q 036188          189 DNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       189 ~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      .+..+|+|||||.|.++..|+
T Consensus        59 ~~~~~iLDlGcG~G~~~~~L~   79 (232)
T PRK06202         59 DRPLTLLDIGCGGGDLAIDLA   79 (232)
T ss_pred             CCCcEEEEeccCCCHHHHHHH
Confidence            466899999999999877664

>PRK15431 ferrous iron transport protein FeoC; Provisional

Probab=93.67  E-value=0.13  Score=34.54  Aligned_cols=43  Identities=21%  Similarity=0.277  Sum_probs=39.6

Q ss_pred             hhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           37 IFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        37 lfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      |=|+|+..   |.+++.+||.+++.    ++..++-.|..++.+|-+++.
T Consensus         7 lRd~l~~~---gr~s~~~Ls~~~~~----p~~~VeaMLe~l~~kGkverv   49 (78)
T PRK15431          7 VRDLLALR---GRMEAAQISQTLNT----PQPMINAMLQQLESMGKAVRI   49 (78)
T ss_pred             HHHHHHHc---CcccHHHHHHHHCc----CHHHHHHHHHHHHHCCCeEee
Confidence            45788886   59999999999999    999999999999999999987

>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=93.60  E-value=0.16  Score=36.30  Aligned_cols=35  Identities=14%  Similarity=0.277  Sum_probs=23.7

Q ss_pred             hhhhhHHHHHHhCCCCCCCCeEEEecCCccHHHHhh
Q 036188          173 YTSLVMSNILESYKGFDNIKQLVDVGGSLGVTLQAI  208 (210)
Q Consensus       173 ~~~~~~~~~l~~~~~~~~~~~vvDiGGg~G~~~~~l  208 (210)
                      .+...+.-|-..|. -.....+||||||.|.+.--|
T Consensus        42 IAAyLi~LW~~~~~-~~~~~~FVDlGCGNGLLV~IL   76 (112)
T PF07757_consen   42 IAAYLIELWRDMYG-EQKFQGFVDLGCGNGLLVYIL   76 (112)
T ss_pred             HHHHHHHHHhcccC-CCCCCceEEccCCchHHHHHH
Confidence            34444455555655 356789999999999876443

; GO: 0008168 methyltransferase activity

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

Probab=93.44  E-value=0.1  Score=43.71  Aligned_cols=31  Identities=23%  Similarity=0.228  Sum_probs=26.5

Q ss_pred             HHHHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          178 MSNILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       178 ~~~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      .+.+++.+. +++..+|||||||-|.+++..+
T Consensus        61 ~~~~~~kl~-L~~G~~lLDiGCGWG~l~~~aA   91 (283)
T COG2230          61 LDLILEKLG-LKPGMTLLDIGCGWGGLAIYAA   91 (283)
T ss_pred             HHHHHHhcC-CCCCCEEEEeCCChhHHHHHHH
Confidence            356678887 9999999999999999998765

>PF14394 DUF4423: Domain of unknown function (DUF4423)

Probab=93.35  E-value=0.17  Score=39.37  Aligned_cols=64  Identities=16%  Similarity=0.067  Sum_probs=50.2

Q ss_pred             hchHHHHHHHHHhhChhhHHhhcCCCCCCCHHHHHHHh--cCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceecc
Q 036188           22 GVVLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQL--LTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLN   99 (210)
Q Consensus        22 ~~~~~~al~~a~~lglfd~L~~~g~~~~~t~~eLA~~~--~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t   99 (210)
                      ..|...+++..+.+.        +  +..+..+||++|  ++    ...-++.-|..|..+|+++++     ++|.|..|
T Consensus        22 ~~W~~~~ir~l~~l~--------~--~~~d~~~iak~l~p~i----s~~ev~~sL~~L~~~gli~k~-----~~g~y~~t   82 (171)
T PF14394_consen   22 SSWYHPAIRELLPLM--------P--FAPDPEWIAKRLRPKI----SAEEVRDSLEFLEKLGLIKKD-----GDGKYVQT   82 (171)
T ss_pred             hhhHHHHHHHHhhcC--------C--CCCCHHHHHHHhcCCC----CHHHHHHHHHHHHHCCCeEEC-----CCCcEEEe
Confidence            445555666544332        1  233899999999  99    999999999999999999998     67899999


Q ss_pred             ccccc
Q 036188          100 SVSKY  104 (210)
Q Consensus       100 ~~s~~  104 (210)
                      ..+-.
T Consensus        83 ~~~l~   87 (171)
T PF14394_consen   83 DKSLT   87 (171)
T ss_pred             cceee
Confidence            87655

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

Probab=93.31  E-value=0.099  Score=43.59  Aligned_cols=30  Identities=13%  Similarity=0.300  Sum_probs=23.9

Q ss_pred             HHHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          179 SNILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       179 ~~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ..+++.++ .....+|+|||||.|.++..++
T Consensus        32 ~~i~~~l~-~~~~~~VLEiG~G~G~lt~~L~   61 (272)
T PRK00274         32 DKIVDAAG-PQPGDNVLEIGPGLGALTEPLL   61 (272)
T ss_pred             HHHHHhcC-CCCcCeEEEeCCCccHHHHHHH
Confidence            45566665 6677899999999999998875

>PRK07580 Mg-protoporphyrin IX methyl transferase; Validated

Probab=93.26  E-value=0.15  Score=40.89  Aligned_cols=22  Identities=14%  Similarity=0.110  Sum_probs=18.5

Q ss_pred             CCCCCeEEEecCCccHHHHhhh
Q 036188          188 FDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       188 ~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      .....+|||||||.|.++..++
T Consensus        61 ~~~~~~vLDvGcG~G~~~~~l~   82 (230)
T PRK07580         61 DLTGLRILDAGCGVGSLSIPLA   82 (230)
T ss_pred             CCCCCEEEEEeCCCCHHHHHHH
Confidence            4456799999999999988775

>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=93.15  E-value=0.14  Score=34.09  Aligned_cols=49  Identities=14%  Similarity=0.167  Sum_probs=42.1

Q ss_pred             HhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           33 YELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        33 ~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      .+..+.+.|+.+.. .+.+..||++.++.    |++.+...++.|...|++.+.
T Consensus         3 ~~~~~Le~I~rsR~-~Gi~q~~L~~~~~~----D~r~i~~~~k~L~~~gLI~k~   51 (75)
T PF04182_consen    3 IQYCLLERIARSRY-NGITQSDLSKLLGI----DPRSIFYRLKKLEKKGLIVKQ   51 (75)
T ss_pred             hHHHHHHHHHhcCC-CCEehhHHHHHhCC----CchHHHHHHHHHHHCCCEEEE
Confidence            45567777877542 68899999999999    999999999999999999986

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.

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

Probab=93.10  E-value=0.17  Score=35.26  Aligned_cols=44  Identities=14%  Similarity=0.094  Sum_probs=38.1

Q ss_pred             CCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceecc
Q 036188           48 TKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLN   99 (210)
Q Consensus        48 ~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t   99 (210)
                      .++|..|||+.+|+    ++..+.|.|..|...|++....    ..+.|..|
T Consensus        46 ~~is~~eLa~~~g~----sr~tVsr~L~~Le~~GlI~r~~----~~~~~~~n   89 (95)
T TIGR01610        46 DRVTATVIAELTGL----SRTHVSDAIKSLARRRIIFRQG----MMGIVGVN   89 (95)
T ss_pred             CccCHHHHHHHHCc----CHHHHHHHHHHHHHCCCeeeec----CCceeecC
Confidence            48999999999999    9999999999999999999762    34666665

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

>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=93.09  E-value=0.18  Score=32.09  Aligned_cols=35  Identities=29%  Similarity=0.393  Sum_probs=32.7

Q ss_pred             CCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           48 TKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        48 ~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      ++.+..+||+.+++    .+.-+...++-|...|+++..
T Consensus        21 ~~v~~~~iA~~L~v----s~~tvt~ml~~L~~~GlV~~~   55 (60)
T PF01325_consen   21 GPVRTKDIAERLGV----SPPTVTEMLKRLAEKGLVEYE   55 (60)
T ss_dssp             SSBBHHHHHHHHTS-----HHHHHHHHHHHHHTTSEEEE
T ss_pred             CCccHHHHHHHHCC----ChHHHHHHHHHHHHCCCEEec
Confidence            79999999999999    999999999999999999875

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 ....

>PHA02943 hypothetical protein; Provisional

Probab=93.05  E-value=0.19  Score=38.01  Aligned_cols=105  Identities=14%  Similarity=0.142  Sum_probs=65.0

Q ss_pred             ChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceeccccccccccCCCCCChH
Q 036188           36 GIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSVSKYYVPNKDGVLLG  115 (210)
Q Consensus        36 glfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~~s~~l~~~~~~~~~~  115 (210)
                      .|.+.|..    |+.|..|||+++|+    +-..++-.|..|...|.+.+.     .-|..     +-..+.+..  + .
T Consensus        15 eILE~Lk~----G~~TtseIAkaLGl----S~~qa~~~LyvLErEG~VkrV-----~~G~~-----tyw~l~~da--y-~   73 (165)
T PHA02943         15 KTLRLLAD----GCKTTSRIANKLGV----SHSMARNALYQLAKEGMVLKV-----EIGRA-----AIWCLDEDA--Y-T   73 (165)
T ss_pred             HHHHHHhc----CCccHHHHHHHHCC----CHHHHHHHHHHHHHcCceEEE-----eecce-----EEEEEChHH--H-H
Confidence            46677733    68999999999999    999999999999999999987     33321     112222221  2 2


Q ss_pred             HHHHHhcChhHHHHHhhHHHHHhcCCchhhhhhCCchhHhhccCchHHHHHHHHHh
Q 036188          116 PLIQIIQDKVILESWSQLKDAILEGGIPFNRAHGVHIFEYAGLNPRFNKHFNAAMY  171 (210)
Q Consensus       116 ~~~~~~~~~~~~~~~~~L~~~l~~g~~~f~~~~g~~~fe~l~~~p~~~~~f~~~M~  171 (210)
                      ..+.    ..+...|.-    +++.+--|  .....++.-+.+|++..+.|....-
T Consensus        74 ~~v~----~~~Relwrl----v~s~~~kf--i~p~~l~~li~kd~~a~~~~ak~v~  119 (165)
T PHA02943         74 NLVF----EIKRELWRL----VCNSRLKF--ITPSRLLRLIAKDTEAHNIFAKYVP  119 (165)
T ss_pred             HHHH----HHHHHHHHH----HHhccccc--cChHHHHHHHHhCHHHHHHHHHhcC
Confidence            2211    112223433    33222111  1224567778888988888877654

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

Probab=93.03  E-value=0.1  Score=42.00  Aligned_cols=29  Identities=10%  Similarity=0.028  Sum_probs=22.6

Q ss_pred             HHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          180 NILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       180 ~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      .++...+ .....+|||||||+|.++..++
T Consensus        36 ~~l~~l~-~~~~~~vLDiGcG~G~~~~~la   64 (231)
T TIGR02752        36 DTMKRMN-VQAGTSALDVCCGTADWSIALA   64 (231)
T ss_pred             HHHHhcC-CCCCCEEEEeCCCcCHHHHHHH
Confidence            4455555 6667899999999999987764

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.

>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=92.85  E-value=0.099  Score=43.72  Aligned_cols=30  Identities=13%  Similarity=0.143  Sum_probs=22.3

Q ss_pred             HHHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          179 SNILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       179 ~~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ..+++... .+...+|||||||-|.+++.++
T Consensus        52 ~~~~~~~~-l~~G~~vLDiGcGwG~~~~~~a   81 (273)
T PF02353_consen   52 DLLCEKLG-LKPGDRVLDIGCGWGGLAIYAA   81 (273)
T ss_dssp             HHHHTTTT---TT-EEEEES-TTSHHHHHHH
T ss_pred             HHHHHHhC-CCCCCEEEEeCCCccHHHHHHH
Confidence            46677777 8889999999999999998875

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 ....

>PRK15068 tRNA mo(5)U34 methyltransferase; Provisional

Probab=92.79  E-value=0.11  Score=44.42  Aligned_cols=27  Identities=19%  Similarity=0.278  Sum_probs=20.2

Q ss_pred             HHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          182 LESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       182 l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      +..++.. ..++|+|||||.|.++..++
T Consensus       115 ~~~l~~l-~g~~VLDIGCG~G~~~~~la  141 (322)
T PRK15068        115 LPHLSPL-KGRTVLDVGCGNGYHMWRML  141 (322)
T ss_pred             HHhhCCC-CCCEEEEeccCCcHHHHHHH
Confidence            4454413 35899999999999988775

>PRK11188 rrmJ 23S rRNA methyltransferase J; Provisional

Probab=92.66  E-value=0.15  Score=40.79  Aligned_cols=29  Identities=31%  Similarity=0.209  Sum_probs=21.1

Q ss_pred             HHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          181 ILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       181 ~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      +...|..+....+|||||||+|.++..++
T Consensus        42 ~~~~~~~~~~~~~VLDlG~GtG~~t~~l~   70 (209)
T PRK11188         42 IQQSDKLFKPGMTVVDLGAAPGGWSQYAV   70 (209)
T ss_pred             HHHHhccCCCCCEEEEEcccCCHHHHHHH
Confidence            34444424567799999999999887664

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

Probab=92.64  E-value=0.085  Score=44.64  Aligned_cols=42  Identities=29%  Similarity=0.397  Sum_probs=26.4

Q ss_pred             HHHHHHhhhhhhhHHHHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          165 HFNAAMYNYTSLVMSNILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       165 ~f~~~M~~~~~~~~~~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      .|-.+-...++... .+++.+.  ....+|+|||||+|.++++-+
T Consensus       139 AFGTG~H~TT~lcl-~~l~~~~--~~g~~vLDvG~GSGILaiaA~  180 (295)
T PF06325_consen  139 AFGTGHHPTTRLCL-ELLEKYV--KPGKRVLDVGCGSGILAIAAA  180 (295)
T ss_dssp             SS-SSHCHHHHHHH-HHHHHHS--STTSEEEEES-TTSHHHHHHH
T ss_pred             cccCCCCHHHHHHH-HHHHHhc--cCCCEEEEeCCcHHHHHHHHH
Confidence            35544444455444 4456665  344799999999999998754

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 ....

>PRK11512 DNA-binding transcriptional repressor MarR; Provisional

Probab=92.55  E-value=0.24  Score=37.06  Aligned_cols=44  Identities=18%  Similarity=0.126  Sum_probs=38.2

Q ss_pred             ChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           36 GIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        36 glfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      .|.-.|...   +++|..|||+.+++    ++..+.++++-|...|++.+.
T Consensus        44 ~vL~~l~~~---~~~t~~eLa~~l~i----~~~tvsr~l~~Le~~GlI~R~   87 (144)
T PRK11512         44 KVLCSIRCA---ACITPVELKKVLSV----DLGALTRMLDRLVCKGWVERL   87 (144)
T ss_pred             HHHHHHHHc---CCCCHHHHHHHHCC----CHHHHHHHHHHHHHCCCEEec
Confidence            345556554   58999999999999    999999999999999999976

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

Probab=92.50  E-value=0.17  Score=44.73  Aligned_cols=43  Identities=19%  Similarity=0.147  Sum_probs=37.7

Q ss_pred             CCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceecc
Q 036188           48 TKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLN   99 (210)
Q Consensus        48 ~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t   99 (210)
                      +|.|.+||++++++    +++.++++++.|...|++.+.     ++|.|.+.
T Consensus       309 ~~~t~~~La~~l~~----~~~~v~~iL~~L~~agLI~~~-----~~g~~~l~  351 (412)
T PRK04214        309 KALDVDEIRRLEPM----GYDELGELLCELARIGLLRRG-----ERGQWVLA  351 (412)
T ss_pred             CCCCHHHHHHHhCC----CHHHHHHHHHHHHhCCCeEec-----CCCceEec
Confidence            69999999999999    999999999999999999976     45656443

>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=92.45  E-value=0.2  Score=32.03  Aligned_cols=35  Identities=20%  Similarity=0.280  Sum_probs=31.1

Q ss_pred             CCC-CHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           48 TKL-SASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        48 ~~~-t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      ..+ |..+||++.++    +...+++-|+.|...|+++..
T Consensus        22 ~~lps~~~la~~~~v----sr~tvr~al~~L~~~g~i~~~   57 (64)
T PF00392_consen   22 DRLPSERELAERYGV----SRTTVREALRRLEAEGLIERR   57 (64)
T ss_dssp             SBE--HHHHHHHHTS-----HHHHHHHHHHHHHTTSEEEE
T ss_pred             CEeCCHHHHHHHhcc----CCcHHHHHHHHHHHCCcEEEE
Confidence            578 99999999999    999999999999999999876

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 ....

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

Probab=92.17  E-value=0.17  Score=41.61  Aligned_cols=28  Identities=21%  Similarity=0.356  Sum_probs=21.8

Q ss_pred             HHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          180 NILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       180 ~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      .+++.++  ++..+|+|||||.|.++..++
T Consensus        36 ~~l~~l~--~~~~~vLDiGcG~G~~a~~la   63 (255)
T PRK11036         36 RLLAELP--PRPLRVLDAGGGEGQTAIKLA   63 (255)
T ss_pred             HHHHhcC--CCCCEEEEeCCCchHHHHHHH
Confidence            4455554  456799999999999998875

>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=92.05  E-value=0.15  Score=36.17  Aligned_cols=43  Identities=26%  Similarity=0.322  Sum_probs=33.3

Q ss_pred             hhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           37 IFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        37 lfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      |++.|...   +.++-+|||+.+++    ++.-++++|..|...||+...
T Consensus        18 Il~~L~~~---~~l~de~la~~~~l----~~~~vRkiL~~L~~~~lv~~~   60 (105)
T PF02002_consen   18 ILDALLRK---GELTDEDLAKKLGL----KPKEVRKILYKLYEDGLVSYR   60 (105)
T ss_dssp             HHHHHHHH-----B-HHHHHHTT-S-----HHHHHHHHHHHHHHSS-EEE
T ss_pred             HHHHHHHc---CCcCHHHHHHHhCC----CHHHHHHHHHHHHHCCCeEEE
Confidence            67888765   58999999999999    999999999999999999654

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.

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

Probab=91.94  E-value=0.2  Score=40.05  Aligned_cols=29  Identities=10%  Similarity=0.228  Sum_probs=23.0

Q ss_pred             HHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          180 NILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       180 ~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      .+++.++ .....+|+|||||+|.++..++
T Consensus        68 ~~~~~l~-~~~~~~VLDiG~GsG~~a~~la   96 (215)
T TIGR00080        68 MMTELLE-LKPGMKVLEIGTGSGYQAAVLA   96 (215)
T ss_pred             HHHHHhC-CCCcCEEEEECCCccHHHHHHH
Confidence            4455555 6677899999999999998765

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

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

Probab=91.88  E-value=0.17  Score=42.73  Aligned_cols=31  Identities=23%  Similarity=0.252  Sum_probs=23.8

Q ss_pred             HHHHHhCCCCCCCCeEEEecCCccHHHHhhhC
Q 036188          179 SNILESYKGFDNIKQLVDVGGSLGVTLQAITT  210 (210)
Q Consensus       179 ~~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~~  210 (210)
                      +-+++.++ .....+|+|+|||.|.+++.+++
T Consensus       148 ~lLl~~l~-~~~~~~vlDlGCG~Gvlg~~la~  178 (300)
T COG2813         148 RLLLETLP-PDLGGKVLDLGCGYGVLGLVLAK  178 (300)
T ss_pred             HHHHHhCC-ccCCCcEEEeCCCccHHHHHHHH
Confidence            35567777 44344999999999999998764

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

Probab=91.88  E-value=0.22  Score=40.61  Aligned_cols=46  Identities=13%  Similarity=0.398  Sum_probs=28.5

Q ss_pred             HHHHHHHHHhhhhhhhHHHH----HHhCCCCCCCCeEEEecCCccHHHHhh
Q 036188          162 FNKHFNAAMYNYTSLVMSNI----LESYKGFDNIKQLVDVGGSLGVTLQAI  208 (210)
Q Consensus       162 ~~~~f~~~M~~~~~~~~~~~----l~~~~~~~~~~~vvDiGGg~G~~~~~l  208 (210)
                      ++..|....-.--....+..    +...+ ...+++++|+|||+|..+.+|
T Consensus        94 ~Ae~Fd~~LVdkL~Y~vP~~l~emI~~~~-~g~F~~~lDLGCGTGL~G~~l  143 (287)
T COG4976          94 YAERFDHILVDKLGYSVPELLAEMIGKAD-LGPFRRMLDLGCGTGLTGEAL  143 (287)
T ss_pred             HHHHHHHHHHHHhcCccHHHHHHHHHhcc-CCccceeeecccCcCcccHhH
Confidence            34567666543222222332    33344 445899999999999988765

>PRK03573 transcriptional regulator SlyA; Provisional

Probab=91.86  E-value=0.34  Score=36.08  Aligned_cols=44  Identities=14%  Similarity=0.101  Sum_probs=37.2

Q ss_pred             hhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           37 IFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        37 lfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      +...|...+  ++.|..|||+.+++    ++..+.+++.-|...|++++.
T Consensus        36 vL~~l~~~~--~~~t~~eLa~~l~~----~~~tvt~~v~~Le~~GlV~r~   79 (144)
T PRK03573         36 TLHNIHQLP--PEQSQIQLAKAIGI----EQPSLVRTLDQLEEKGLISRQ   79 (144)
T ss_pred             HHHHHHHcC--CCCCHHHHHHHhCC----ChhhHHHHHHHHHHCCCEeee
Confidence            344555443  46899999999999    999999999999999999986

>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional

Probab=91.79  E-value=0.27  Score=37.28  Aligned_cols=47  Identities=15%  Similarity=0.263  Sum_probs=42.6

Q ss_pred             HhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           33 YELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        33 ~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      .+..|.+.|.++   +..|..+||+++|+    ++..+.+=++-|...|++...
T Consensus        10 ~D~~Il~~Lq~d---~R~s~~eiA~~lgl----S~~tV~~Ri~rL~~~GvI~~~   56 (153)
T PRK11179         10 LDRGILEALMEN---ARTPYAELAKQFGV----SPGTIHVRVEKMKQAGIITGT   56 (153)
T ss_pred             HHHHHHHHHHHc---CCCCHHHHHHHHCc----CHHHHHHHHHHHHHCCCeeeE
Confidence            577889999886   59999999999999    999999999999999999743

>TIGR00452 methyltransferase, putative

Probab=91.78  E-value=0.23  Score=42.44  Aligned_cols=29  Identities=17%  Similarity=0.226  Sum_probs=21.1

Q ss_pred             HHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          180 NILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       180 ~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      .++..+. ....++|+|||||+|.++..++
T Consensus       112 ~~l~~l~-~~~g~~VLDvGCG~G~~~~~~~  140 (314)
T TIGR00452       112 RVLPHLS-PLKGRTILDVGCGSGYHMWRML  140 (314)
T ss_pred             HHHHhcC-CCCCCEEEEeccCCcHHHHHHH
Confidence            3455544 3445899999999999887664

Known examples to date are restricted to the proteobacteria.

>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=91.75  E-value=0.16  Score=35.79  Aligned_cols=51  Identities=12%  Similarity=0.183  Sum_probs=39.5

Q ss_pred             HHhhChhhHHhh-cCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           32 VYELGIFEILDK-AGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        32 a~~lglfd~L~~-~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      -++-.|+++|.. ...+.++++.+|++++++    +...++..++.|+..|++=..
T Consensus        47 ~~~~~Vl~~i~~~~~~~~Gv~v~~I~~~l~~----~~~~v~~al~~L~~eG~IYsT   98 (102)
T PF08784_consen   47 PLQDKVLNFIKQQPNSEEGVHVDEIAQQLGM----SENEVRKALDFLSNEGHIYST   98 (102)
T ss_dssp             HHHHHHHHHHHC----TTTEEHHHHHHHSTS-----HHHHHHHHHHHHHTTSEEES
T ss_pred             HHHHHHHHHHHhcCCCCCcccHHHHHHHhCc----CHHHHHHHHHHHHhCCeEecc
Confidence            345567888876 222368999999999999    999999999999999988543

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.

>PTZ00098 phosphoethanolamine N-methyltransferase; Provisional

Probab=91.57  E-value=0.22  Score=41.30  Aligned_cols=30  Identities=23%  Similarity=0.475  Sum_probs=24.3

Q ss_pred             HHHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          179 SNILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       179 ~~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ..+++.+. .....+|||||||.|..+..++
T Consensus        42 ~~~l~~l~-l~~~~~VLDiGcG~G~~a~~la   71 (263)
T PTZ00098         42 TKILSDIE-LNENSKVLDIGSGLGGGCKYIN   71 (263)
T ss_pred             HHHHHhCC-CCCCCEEEEEcCCCChhhHHHH
Confidence            45677776 7788899999999999877664

>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=91.52  E-value=0.39  Score=38.59  Aligned_cols=72  Identities=13%  Similarity=0.138  Sum_probs=37.7

Q ss_pred             HhhHHHHHhcCCchhhhhhCCchhHhhccCchHHH----HHHHHHhhhhhhhHHHHHHhCCCCCCCCeEEEecCCccHHH
Q 036188          130 WSQLKDAILEGGIPFNRAHGVHIFEYAGLNPRFNK----HFNAAMYNYTSLVMSNILESYKGFDNIKQLVDVGGSLGVTL  205 (210)
Q Consensus       130 ~~~L~~~l~~g~~~f~~~~g~~~fe~l~~~p~~~~----~f~~~M~~~~~~~~~~~l~~~~~~~~~~~vvDiGGg~G~~~  205 (210)
                      ++.|-|.+-+..+       .+-++.+.++|+.-.    .|.+.+..+...+.+.+++.+..-++...|.|.|||.+.++
T Consensus        15 FR~lNE~LYT~~s-------~~A~~lf~~dP~~F~~YH~Gfr~Qv~~WP~nPvd~iI~~l~~~~~~~viaD~GCGdA~la   87 (219)
T PF05148_consen   15 FRWLNEQLYTTSS-------EEALKLFQEDPELFDIYHEGFRQQVKKWPVNPVDVIIEWLKKRPKSLVIADFGCGDAKLA   87 (219)
T ss_dssp             HHHHHHHHHHS-H-------HHHHHHHHH-HHHHHHHHHHHHHHHCTSSS-HHHHHHHHHCTS-TTS-EEEES-TT-HHH
T ss_pred             hHHHHHhHhcCCH-------HHHHHHHHhCHHHHHHHHHHHHHHHhcCCCCcHHHHHHHHHhcCCCEEEEECCCchHHHH
Confidence            4455565544332       222455566776544    44444444444556666665542345679999999999999


Q ss_pred             Hhh
Q 036188          206 QAI  208 (210)
Q Consensus       206 ~~l  208 (210)
                      .++
T Consensus        88 ~~~   90 (219)
T PF05148_consen   88 KAV   90 (219)
T ss_dssp             HH-
T ss_pred             Hhc
Confidence            765

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

>PRK11169 leucine-responsive transcriptional regulator; Provisional

Probab=91.50  E-value=0.26  Score=37.86  Aligned_cols=47  Identities=15%  Similarity=0.195  Sum_probs=42.9

Q ss_pred             HHhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceee
Q 036188           32 VYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVEC   85 (210)
Q Consensus        32 a~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~   85 (210)
                      .++..|...|.++   +.+|..|||+++|+    ++..+.+=++-|...|++..
T Consensus        14 ~~D~~IL~~Lq~d---~R~s~~eiA~~lgl----S~~tv~~Ri~rL~~~GvI~~   60 (164)
T PRK11169         14 RIDRNILNELQKD---GRISNVELSKRVGL----SPTPCLERVRRLERQGFIQG   60 (164)
T ss_pred             HHHHHHHHHhccC---CCCCHHHHHHHHCc----CHHHHHHHHHHHHHCCCeEE
Confidence            3678899999886   59999999999999    99999999999999999974

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

Probab=91.41  E-value=0.2  Score=43.92  Aligned_cols=29  Identities=17%  Similarity=0.174  Sum_probs=21.9

Q ss_pred             HHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          180 NILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       180 ~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      -+++.++ .....+|+|+|||+|.+++.++
T Consensus       219 llL~~lp-~~~~~~VLDLGCGtGvi~i~la  247 (378)
T PRK15001        219 FFMQHLP-ENLEGEIVDLGCGNGVIGLTLL  247 (378)
T ss_pred             HHHHhCC-cccCCeEEEEeccccHHHHHHH
Confidence            4456666 3334699999999999998875

>TIGR01889 Staph_reg_Sar staphylococcal accessory regulator family

Probab=91.40  E-value=0.31  Score=34.72  Aligned_cols=66  Identities=20%  Similarity=0.248  Sum_probs=45.3

Q ss_pred             hhChhhHHh--hcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCC-Ccccceeccccccc
Q 036188           34 ELGIFEILD--KAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDAS-GARRLYSLNSVSKY  104 (210)
Q Consensus        34 ~lglfd~L~--~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~-~~~~~y~~t~~s~~  104 (210)
                      ++.+...|.  .+. +++.|..+||+.+++    ++..+.++++.|...|++.+..+.. ...-.+.+|+.+..
T Consensus        27 q~~vL~~l~~~~~~-~~~~t~~eL~~~l~~----~~stvs~~i~~Le~kg~I~r~~~~~D~R~~~i~lT~~G~~   95 (109)
T TIGR01889        27 ELLILYYLGKLENN-EGKLTLKEIIKEILI----KQSALVKIIKKLSKKGYLSKERSEDDERKVIISINKEQRS   95 (109)
T ss_pred             HHHHHHHHHhhhcc-CCcCcHHHHHHHHCC----CHHHHHHHHHHHHHCCCEeccCCcccCCeEEEEECHHHHH
Confidence            344555555  221 158999999999999    9999999999999999999753110 01122556665543

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.

>COG1733 Predicted transcriptional regulators [Transcription]

Probab=91.26  E-value=0.77  Score=33.53  Aligned_cols=86  Identities=17%  Similarity=0.118  Sum_probs=61.0

Q ss_pred             ccchhcchHHHHHHHHHhhchHHHHHHHHHhhChhhHHhhcCCCCCCCHHHHHHHhc-CCCCCCcccHHHHHHHHhcccc
Q 036188            4 IVDGERDQSFAYADQLATGVVLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLL-TKNKDAPMMLDRILRLLASYSV   82 (210)
Q Consensus         4 ~~~~~~~~~~~~l~~~~~~~~~~~al~~a~~lglfd~L~~~g~~~~~t~~eLA~~~~-~~~~~~~~~l~rlLr~L~~~gl   82 (210)
                      ..+....-+.....+++.+-|..-.|+.         |..    |+.-..||-..++ +    .+..|.+=|+.|...|+
T Consensus         4 ~~~~~~~c~~~~~l~~ig~kW~~lIl~~---------L~~----g~~RF~eL~r~i~~I----s~k~Ls~~Lk~Le~~Gl   66 (120)
T COG1733           4 EDLEEPPCPVEEALEVIGGKWTLLILRD---------LFD----GPKRFNELRRSIGGI----SPKMLSRRLKELEEDGL   66 (120)
T ss_pred             cccCCCCCCHHHHHHHHcCccHHHHHHH---------Hhc----CCCcHHHHHHHcccc----CHHHHHHHHHHHHHCCC
Confidence            3333334456677777777777666655         333    4889999999998 8    99999999999999999


Q ss_pred             eeeeccCCC-cccceeccccccccc
Q 036188           83 VECSLDASG-ARRLYSLNSVSKYYV  106 (210)
Q Consensus        83 ~~~~~~~~~-~~~~y~~t~~s~~l~  106 (210)
                      +++...... ..-.|++|+.++-|.
T Consensus        67 v~R~~~~~~PprveY~LT~~G~~L~   91 (120)
T COG1733          67 VERVVYPEEPPRVEYRLTEKGRDLL   91 (120)
T ss_pred             EEeeecCCCCceeEEEEhhhHHHHH
Confidence            998731110 123488887776554

>PRK07402 precorrin-6B methylase; Provisional

Probab=91.25  E-value=0.22  Score=39.21  Aligned_cols=28  Identities=14%  Similarity=0.275  Sum_probs=21.6

Q ss_pred             HHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          181 ILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       181 ~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ++..++ .....+|+|||||+|.++..++
T Consensus        32 l~~~l~-~~~~~~VLDiG~G~G~~~~~la   59 (196)
T PRK07402         32 LISQLR-LEPDSVLWDIGAGTGTIPVEAG   59 (196)
T ss_pred             HHHhcC-CCCCCEEEEeCCCCCHHHHHHH
Confidence            345554 5667899999999999988764

>COG3432 Predicted transcriptional regulator [Transcription]

Probab=91.20  E-value=0.1  Score=36.47  Aligned_cols=62  Identities=18%  Similarity=0.278  Sum_probs=47.4

Q ss_pred             hhhHHh-hcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceeccccccccc
Q 036188           37 IFEILD-KAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSVSKYYV  106 (210)
Q Consensus        37 lfd~L~-~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~~s~~l~  106 (210)
                      +||+|. .++  ++...--|.-.+++    +-+...++++.|+..|++...+  ++....|.+|+.+.-|.
T Consensus        20 i~dIL~~~~~--~~~~~Tri~y~aNl----ny~~~~~yi~~L~~~Gli~~~~--~~~~~~y~lT~KG~~fl   82 (95)
T COG3432          20 IFDILKAISE--GGIGITRIIYGANL----NYKRAQKYIEMLVEKGLIIKQD--NGRRKVYELTEKGKRFL   82 (95)
T ss_pred             HHHHHHHhcC--CCCCceeeeeecCc----CHHHHHHHHHHHHhCCCEEecc--CCccceEEEChhHHHHH
Confidence            467776 333  67888889999999    9999999999999999777662  01122699999987654

>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=91.13  E-value=0.27  Score=32.29  Aligned_cols=35  Identities=26%  Similarity=0.342  Sum_probs=33.0

Q ss_pred             CCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           48 TKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        48 ~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      -+.|-++||..+|+    ....+.|+|+.|...|++...
T Consensus        27 ~~lt~~~iA~~~g~----sr~tv~r~l~~l~~~g~I~~~   61 (76)
T PF13545_consen   27 LPLTQEEIADMLGV----SRETVSRILKRLKDEGIIEVK   61 (76)
T ss_dssp             EESSHHHHHHHHTS----CHHHHHHHHHHHHHTTSEEEE
T ss_pred             ecCCHHHHHHHHCC----CHHHHHHHHHHHHHCCCEEEc
Confidence            37899999999999    999999999999999999976

...

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

Probab=91.12  E-value=0.29  Score=38.95  Aligned_cols=29  Identities=14%  Similarity=0.112  Sum_probs=21.4

Q ss_pred             HHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          180 NILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       180 ~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      .+++.+. .....+|+|||||+|..+..++
T Consensus        63 ~~~~~l~-~~~~~~VLDiG~GsG~~~~~la   91 (205)
T PRK13944         63 MMCELIE-PRPGMKILEVGTGSGYQAAVCA   91 (205)
T ss_pred             HHHHhcC-CCCCCEEEEECcCccHHHHHHH
Confidence            3445554 5566899999999999886654

>PRK00107 gidB 16S rRNA methyltransferase GidB; Reviewed

Probab=91.07  E-value=0.36  Score=38.02  Aligned_cols=21  Identities=19%  Similarity=0.319  Sum_probs=17.4

Q ss_pred             CCCCeEEEecCCccHHHHhhh
Q 036188          189 DNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       189 ~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      +...+|+|||||+|..+..++
T Consensus        44 ~~g~~VLDiGcGtG~~al~la   64 (187)
T PRK00107         44 PGGERVLDVGSGAGFPGIPLA   64 (187)
T ss_pred             CCCCeEEEEcCCCCHHHHHHH
Confidence            346899999999999888664

>PLN02244 tocopherol O-methyltransferase

Probab=91.06  E-value=0.27  Score=42.38  Aligned_cols=21  Identities=29%  Similarity=0.484  Sum_probs=18.0

Q ss_pred             CCCCeEEEecCCccHHHHhhh
Q 036188          189 DNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       189 ~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ....+|||||||.|.++..++
T Consensus       117 ~~~~~VLDiGCG~G~~~~~La  137 (340)
T PLN02244        117 KRPKRIVDVGCGIGGSSRYLA  137 (340)
T ss_pred             CCCCeEEEecCCCCHHHHHHH
Confidence            567899999999999988765

>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=91.02  E-value=0.41  Score=36.04  Aligned_cols=35  Identities=9%  Similarity=0.082  Sum_probs=33.6

Q ss_pred             CCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           48 TKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        48 ~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      |++|++|||.+.|+    ..|.+..-|-++++.|-+.+.
T Consensus         5 Ga~T~eELA~~FGv----ttRkvaStLa~~ta~Grl~Rv   39 (155)
T PF07789_consen    5 GAKTAEELAGKFGV----TTRKVASTLAMVTATGRLIRV   39 (155)
T ss_pred             CcccHHHHHHHhCc----chhhhHHHHHHHHhcceeEEe
Confidence            69999999999999    999999999999999999887

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

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

Probab=90.98  E-value=0.37  Score=38.91  Aligned_cols=53  Identities=19%  Similarity=0.212  Sum_probs=42.5

Q ss_pred             CCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceeccccccccc
Q 036188           48 TKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSVSKYYV  106 (210)
Q Consensus        48 ~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~~s~~l~  106 (210)
                      ..+|..|||+.+++    ++..+.|.++.|...|++++....  ....+.+|+.++.+.
T Consensus        20 ~~IS~~eLA~~L~i----S~~Tvsr~Lk~LEe~GlI~R~~~~--r~~~v~LTekG~~ll   72 (217)
T PRK14165         20 VKISSSEFANHTGT----SSKTAARILKQLEDEGYITRTIVP--RGQLITITEKGLDVL   72 (217)
T ss_pred             CCcCHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEEEEcC--CceEEEECHHHHHHH
Confidence            46899999999999    999999999999999999886311  244577777766443

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

Probab=90.84  E-value=0.48  Score=32.96  Aligned_cols=46  Identities=26%  Similarity=0.226  Sum_probs=41.3

Q ss_pred             hhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           34 ELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        34 ~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      ++.|..+|...   +|=.+.-||..+++    +...+.++++-|..+|++++.
T Consensus         9 ~~~IL~hl~~~---~~Dy~k~ia~~l~~----~~~~v~~~l~~Le~~GLler~   54 (92)
T PF10007_consen    9 DLKILQHLKKA---GPDYAKSIARRLKI----PLEEVREALEKLEEMGLLERV   54 (92)
T ss_pred             HHHHHHHHHHH---CCCcHHHHHHHHCC----CHHHHHHHHHHHHHCCCeEEe
Confidence            45677788887   48888999999999    999999999999999999998

>TIGR00498 lexA SOS regulatory protein LexA

Probab=90.77  E-value=0.46  Score=37.50  Aligned_cols=48  Identities=17%  Similarity=0.240  Sum_probs=38.8

Q ss_pred             HhhChhhHHhh----cCCCCCCCHHHHHHHhcCCCCCC-cccHHHHHHHHhcccceeee
Q 036188           33 YELGIFEILDK----AGPGTKLSASDIAAQLLTKNKDA-PMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        33 ~~lglfd~L~~----~g~~~~~t~~eLA~~~~~~~~~~-~~~l~rlLr~L~~~gl~~~~   86 (210)
                      .+..|++.|.+    .+  -+.|+.|||+++++    + +..+.+.|+.|...|+++..
T Consensus         7 ~q~~iL~~l~~~~~~~~--~~~~~~ela~~~~~----~s~~tv~~~l~~L~~~g~i~~~   59 (199)
T TIGR00498         7 RQQEVLDLIRAHIESTG--YPPSIREIARAVGL----RSPSAAEEHLKALERKGYIERD   59 (199)
T ss_pred             HHHHHHHHHHHHHHhcC--CCCcHHHHHHHhCC----CChHHHHHHHHHHHHCCCEecC
Confidence            34445555553    22  57899999999999    8 89999999999999999986

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=90.72  E-value=0.42  Score=35.86  Aligned_cols=47  Identities=17%  Similarity=0.315  Sum_probs=42.5

Q ss_pred             HhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           33 YELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        33 ~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      ++..|...|.++   ++.|..+||+++|+    ++..+.+-++-|...|++...
T Consensus         9 ~D~~IL~~L~~d---~r~~~~eia~~lgl----S~~~v~~Ri~~L~~~GiI~~~   55 (154)
T COG1522           9 IDRRILRLLQED---ARISNAELAERVGL----SPSTVLRRIKRLEEEGVIKGY   55 (154)
T ss_pred             HHHHHHHHHHHh---CCCCHHHHHHHHCC----CHHHHHHHHHHHHHCCceeeE
Confidence            567788889886   58999999999999    999999999999999999865

>PRK11705 cyclopropane fatty acyl phospholipid synthase; Provisional

Probab=90.58  E-value=0.35  Score=42.42  Aligned_cols=30  Identities=13%  Similarity=0.166  Sum_probs=23.8

Q ss_pred             HHHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          179 SNILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       179 ~~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ..+++.++ .+...+|||||||.|.++..++
T Consensus       157 ~~l~~~l~-l~~g~rVLDIGcG~G~~a~~la  186 (383)
T PRK11705        157 DLICRKLQ-LKPGMRVLDIGCGWGGLARYAA  186 (383)
T ss_pred             HHHHHHhC-CCCCCEEEEeCCCccHHHHHHH
Confidence            34556665 6777899999999999998765

>KOG1271 consensus Methyltransferases [General function prediction only]

Probab=90.57  E-value=0.27  Score=38.71  Aligned_cols=21  Identities=19%  Similarity=0.365  Sum_probs=18.0

Q ss_pred             CCCeEEEecCCccHHHHhhhC
Q 036188          190 NIKQLVDVGGSLGVTLQAITT  210 (210)
Q Consensus       190 ~~~~vvDiGGg~G~~~~~l~~  210 (210)
                      +..+|||+|||.|+++.+|++
T Consensus        67 ~A~~VlDLGtGNG~~L~~L~~   87 (227)
T KOG1271|consen   67 QADRVLDLGTGNGHLLFQLAK   87 (227)
T ss_pred             cccceeeccCCchHHHHHHHH
Confidence            445999999999999998864

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

Probab=90.53  E-value=0.33  Score=38.87  Aligned_cols=30  Identities=10%  Similarity=0.236  Sum_probs=23.3

Q ss_pred             HHHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          179 SNILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       179 ~~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ..+++.++ .+...+|+|||||+|.++..++
T Consensus        66 ~~~~~~l~-~~~g~~VLdIG~GsG~~t~~la   95 (212)
T PRK13942         66 AIMCELLD-LKEGMKVLEIGTGSGYHAAVVA   95 (212)
T ss_pred             HHHHHHcC-CCCcCEEEEECCcccHHHHHHH
Confidence            34556666 7778899999999999986653

>PRK12335 tellurite resistance protein TehB; Provisional

Probab=90.48  E-value=0.24  Score=41.49  Aligned_cols=28  Identities=18%  Similarity=0.226  Sum_probs=20.2

Q ss_pred             HHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          181 ILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       181 ~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ++..++ .....+|||||||.|..+..++
T Consensus       112 ~~~~~~-~~~~~~vLDlGcG~G~~~~~la  139 (287)
T PRK12335        112 VLEAVQ-TVKPGKALDLGCGQGRNSLYLA  139 (287)
T ss_pred             HHHHhh-ccCCCCEEEeCCCCCHHHHHHH
Confidence            344333 3345699999999999988775

>TIGR03587 Pse_Me-ase pseudaminic acid biosynthesis-associated methylase

Probab=90.44  E-value=0.23  Score=39.66  Aligned_cols=21  Identities=24%  Similarity=0.661  Sum_probs=17.7

Q ss_pred             CCCCeEEEecCCccHHHHhhh
Q 036188          189 DNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       189 ~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ....+|||||||+|..+..+.
T Consensus        42 ~~~~~VLDiGCG~G~~~~~L~   62 (204)
T TIGR03587        42 PKIASILELGANIGMNLAALK   62 (204)
T ss_pred             CCCCcEEEEecCCCHHHHHHH
Confidence            456789999999999988764

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

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

Probab=90.29  E-value=0.27  Score=39.01  Aligned_cols=28  Identities=14%  Similarity=0.232  Sum_probs=21.4

Q ss_pred             HHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          180 NILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       180 ~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      .|.+.++  ....+|||||||.|.++..++
T Consensus        32 ~~~~~~~--~~~~~VLDiGcGtG~~~~~la   59 (202)
T PRK00121         32 DWAELFG--NDAPIHLEIGFGKGEFLVEMA   59 (202)
T ss_pred             CHHHHcC--CCCCeEEEEccCCCHHHHHHH
Confidence            4455555  256899999999999988775

>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=90.16  E-value=0.65  Score=31.19  Aligned_cols=48  Identities=15%  Similarity=0.107  Sum_probs=39.6

Q ss_pred             CCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceeccccc
Q 036188           48 TKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSVS  102 (210)
Q Consensus        48 ~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~~s  102 (210)
                      .|+...+||++++.    ++--++-.|..|..+||++...   ...+.|..|..+
T Consensus        22 ~PVgSk~ia~~l~~----s~aTIRN~M~~Le~lGlve~~p---~~s~GriPT~~a   69 (78)
T PF03444_consen   22 EPVGSKTIAEELGR----SPATIRNEMADLEELGLVESQP---HPSGGRIPTDKA   69 (78)
T ss_pred             CCcCHHHHHHHHCC----ChHHHHHHHHHHHHCCCccCCC---CCCCCCCcCHHH
Confidence            69999999999999    9999999999999999998421   024667766655

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

>PRK11639 zinc uptake transcriptional repressor; Provisional

Probab=90.00  E-value=0.86  Score=35.26  Aligned_cols=79  Identities=16%  Similarity=0.095  Sum_probs=53.2

Q ss_pred             CCcccchhcchHHHHHHHHHhhchHHHHHHHHHhhChhhHHhhcCCCCCCCHHHHHHHhcCC-CCCCcccHHHHHHHHhc
Q 036188            1 MDSIVDGERDQSFAYADQLATGVVLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTK-NKDAPMMLDRILRLLAS   79 (210)
Q Consensus         1 ~~~~~~~~~~~~~~~l~~~~~~~~~~~al~~a~~lglfd~L~~~g~~~~~t~~eLA~~~~~~-~~~~~~~l~rlLr~L~~   79 (210)
                      |+.+.++++.+....+.+-. |..     .+--+.-|++.|...+  ++.|++||.+++.-. ++++..-+.|.|+.|+.
T Consensus         1 ~~~~~~~~~~~~~~~~L~~~-GlR-----~T~qR~~IL~~l~~~~--~hlSa~eI~~~L~~~~~~is~aTVYRtL~~L~e   72 (169)
T PRK11639          1 MEKTTTQELLAQAEKLCAQR-NVR-----LTPQRLEVLRLMSLQP--GAISAYDLLDLLREAEPQAKPPTVYRALDFLLE   72 (169)
T ss_pred             CCCccHHHHHHHHHHHHHHc-CCC-----CCHHHHHHHHHHHhcC--CCCCHHHHHHHHHhhCCCCCcchHHHHHHHHHH
Confidence            66666666666554443322 111     1234455777777654  699999999998641 22367789999999999


Q ss_pred             ccceeeec
Q 036188           80 YSVVECSL   87 (210)
Q Consensus        80 ~gl~~~~~   87 (210)
                      .|++.+..
T Consensus        73 ~Glv~~~~   80 (169)
T PRK11639         73 QGFVHKVE   80 (169)
T ss_pred             CCCEEEEe
Confidence            99999873

>COG2512 Predicted membrane-associated trancriptional regulator [Transcription]

Probab=89.84  E-value=0.42  Score=39.66  Aligned_cols=47  Identities=21%  Similarity=0.402  Sum_probs=42.1

Q ss_pred             hhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           34 ELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        34 ~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      +..+.++|.+.|  |..+=+||.+++|+    +..-+.|.|+-|..+|++++.
T Consensus       197 e~~il~~i~~~G--Gri~Q~eL~r~lgl----sktTvsR~L~~LEk~GlIe~~  243 (258)
T COG2512         197 EKEILDLIRERG--GRITQAELRRALGL----SKTTVSRILRRLEKRGLIEKE  243 (258)
T ss_pred             HHHHHHHHHHhC--CEEeHHHHHHhhCC----ChHHHHHHHHHHHhCCceEEE
Confidence            345788888876  78999999999999    999999999999999999876

>TIGR02147 Fsuc_second hypothetical protein, TIGR02147

Probab=89.63  E-value=0.63  Score=38.91  Aligned_cols=47  Identities=11%  Similarity=0.177  Sum_probs=41.2

Q ss_pred             CCCHHHHHHHhc--CCCCCCcccHHHHHHHHhcccceeeeccCCCcccceeccccccc
Q 036188           49 KLSASDIAAQLL--TKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSVSKY  104 (210)
Q Consensus        49 ~~t~~eLA~~~~--~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~~s~~  104 (210)
                      ..++++||++|+  +    ...-++.-|..|..+||++++     ++|.|..|..+..
T Consensus       137 ~~~~~~ia~~l~p~i----s~~ev~~sL~~L~~~glikk~-----~~g~y~~t~~~l~  185 (271)
T TIGR02147       137 ADDPEELAKRCFPKI----SAEQVKESLDLLERLGLIKKN-----EDGFYKQTDKAVS  185 (271)
T ss_pred             CCCHHHHHHHhCCCC----CHHHHHHHHHHHHHCCCeeEC-----CCCcEEeecceee
Confidence            447889999999  6    889999999999999999998     6899999987544

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.

>PF09929 DUF2161: Uncharacterized conserved protein (DUF2161); InterPro: IPR018679 This family of various hypothetical prokaryotic proteins has no known function

Probab=89.63  E-value=0.75  Score=33.34  Aligned_cols=52  Identities=19%  Similarity=0.208  Sum_probs=40.2

Q ss_pred             hhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceecccccc
Q 036188           37 IFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSVSK  103 (210)
Q Consensus        37 lfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~~s~  103 (210)
                      +..+|.+.   ||.+..+|++.++.    +  ...++|+. --.|+|++.     +.|.|.+|+.++
T Consensus        64 ~A~~L~~~---Gp~~~~~l~~~~~~----~--~A~~IL~~-N~YGWFeRv-----~rGvY~LT~~G~  115 (118)
T PF09929_consen   64 CAAALAEH---GPSRPADLRKATGV----P--KATSILRD-NHYGWFERV-----ERGVYALTPAGR  115 (118)
T ss_pred             HHHHHHHc---CCCCHHHHHHhcCC----C--hHHHHHHh-Ccccceeee-----ccceEecCcchh
Confidence            34568876   69999999999998    4  34445543 457899998     799999999875

>PRK13509 transcriptional repressor UlaR; Provisional

Probab=89.57  E-value=0.68  Score=38.15  Aligned_cols=45  Identities=13%  Similarity=0.145  Sum_probs=40.9

Q ss_pred             hChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           35 LGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        35 lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      ..|.+.|.+.   +..+++|||+.+++    .+.-++|-|+.|...|++.+.
T Consensus         8 ~~Il~~l~~~---~~~~~~ela~~l~v----S~~TirRdL~~Le~~g~i~r~   52 (251)
T PRK13509          8 QILLELLAQL---GFVTVEKVIERLGI----SPATARRDINKLDESGKLKKV   52 (251)
T ss_pred             HHHHHHHHHc---CCcCHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEEe
Confidence            4478888885   58999999999999    999999999999999999886

>TIGR00740 methyltransferase, putative

Probab=89.57  E-value=0.24  Score=40.21  Aligned_cols=21  Identities=19%  Similarity=0.199  Sum_probs=17.6

Q ss_pred             CCCCeEEEecCCccHHHHhhh
Q 036188          189 DNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       189 ~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ....+|||||||.|..+..++
T Consensus        52 ~~~~~iLDlGcG~G~~~~~l~   72 (239)
T TIGR00740        52 TPDSNVYDLGCSRGAATLSAR   72 (239)
T ss_pred             CCCCEEEEecCCCCHHHHHHH
Confidence            456799999999999987664

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.

>COG1378 Predicted transcriptional regulators [Transcription]

Probab=89.48  E-value=0.84  Score=37.63  Aligned_cols=59  Identities=17%  Similarity=0.140  Sum_probs=46.7

Q ss_pred             hhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceecccccccc
Q 036188           37 IFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSVSKYY  105 (210)
Q Consensus        37 lfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~~s~~l  105 (210)
                      +.-.|-..   |++|+.|||+.+|+    +...+..+|+-|...|+++...   +.+-.|+.-+-..++
T Consensus        21 vY~aLl~~---g~~tA~eis~~sgv----P~~kvY~vl~sLe~kG~v~~~~---g~P~~y~av~p~~~i   79 (247)
T COG1378          21 VYLALLCL---GEATAKEISEASGV----PRPKVYDVLRSLEKKGLVEVIE---GRPKKYRAVPPEELI   79 (247)
T ss_pred             HHHHHHHh---CCccHHHHHHHcCC----CchhHHHHHHHHHHCCCEEeeC---CCCceEEeCCHHHHH
Confidence            44445444   69999999999999    9999999999999999999762   246778776655544

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

Probab=89.42  E-value=0.47  Score=36.67  Aligned_cols=45  Identities=16%  Similarity=0.184  Sum_probs=40.7

Q ss_pred             CCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceecccccc
Q 036188           50 LSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSVSK  103 (210)
Q Consensus        50 ~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~~s~  103 (210)
                      .|..+||+.+++    +..-+.|.+..|...+++.+.     ..|.|..||.-.
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----SKPTVSRAIKELEEKNIIKKI-----RNGAYMINPNFF  120 (165)
T ss_pred             eeHHHHHHHhCC----CHHHHHHHHHHHHhCCcEEEc-----cCCeEEECcHHh
Confidence            688999999999    999999999999999999987     578999998643

; GO: 0006260 DNA replication, 0006276 plasmid maintenance

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

Probab=89.33  E-value=0.5  Score=37.94  Aligned_cols=44  Identities=25%  Similarity=0.359  Sum_probs=36.9

Q ss_pred             hhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           37 IFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        37 lfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      |.+.|...  +.+.|++|+|+++|+    +.--.+|.|.+|++.|+++..
T Consensus       163 i~~~~~~~--~~~~Taeela~~~gi----SRvTaRRYLeyl~~~~~l~a~  206 (224)
T COG4565         163 VREALKEP--DQELTAEELAQALGI----SRVTARRYLEYLVSNGILEAE  206 (224)
T ss_pred             HHHHHhCc--CCccCHHHHHHHhCc----cHHHHHHHHHHHHhcCeeeEE
Confidence            44555532  269999999999999    999999999999999999865

>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional

Probab=89.31  E-value=0.46  Score=39.46  Aligned_cols=20  Identities=25%  Similarity=0.418  Sum_probs=16.9

Q ss_pred             CCCeEEEecCCccHHHHhhh
Q 036188          190 NIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       190 ~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ...+|||||||+|.++..++
T Consensus        85 ~~~~vLDiGcG~G~~~~~l~  104 (272)
T PRK11088         85 KATALLDIGCGEGYYTHALA  104 (272)
T ss_pred             CCCeEEEECCcCCHHHHHHH
Confidence            45789999999999988764

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

Probab=89.31  E-value=0.22  Score=40.66  Aligned_cols=19  Identities=21%  Similarity=0.333  Sum_probs=17.0

Q ss_pred             CCeEEEecCCccHHHHhhh
Q 036188          191 IKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       191 ~~~vvDiGGg~G~~~~~l~  209 (210)
                      ..+|||||||-|.++..++
T Consensus        60 g~~vLDvGCGgG~Lse~mA   78 (243)
T COG2227          60 GLRVLDVGCGGGILSEPLA   78 (243)
T ss_pred             CCeEEEecCCccHhhHHHH
Confidence            5799999999999998775

>PLN02336 phosphoethanolamine N-methyltransferase

Probab=89.22  E-value=0.37  Score=43.26  Aligned_cols=30  Identities=13%  Similarity=0.260  Sum_probs=22.9

Q ss_pred             HHHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          179 SNILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       179 ~~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ..+++.++ .+...+|||||||.|..++.++
T Consensus       256 e~l~~~~~-~~~~~~vLDiGcG~G~~~~~la  285 (475)
T PLN02336        256 KEFVDKLD-LKPGQKVLDVGCGIGGGDFYMA  285 (475)
T ss_pred             HHHHHhcC-CCCCCEEEEEeccCCHHHHHHH
Confidence            34556665 6677899999999998877664

>PF12793 SgrR_N: Sugar transport-related sRNA regulator N-term

Probab=89.18  E-value=0.54  Score=34.09  Aligned_cols=35  Identities=9%  Similarity=0.171  Sum_probs=33.2

Q ss_pred             CCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           48 TKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        48 ~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      .+.|++|||+.+.+    .++.++.+|+-|...|.++-.
T Consensus        18 ~~vtl~elA~~l~c----S~Rn~r~lLkkm~~~gWi~W~   52 (115)
T PF12793_consen   18 VEVTLDELAELLFC----SRRNARTLLKKMQEEGWITWQ   52 (115)
T ss_pred             cceeHHHHHHHhCC----CHHHHHHHHHHHHHCCCeeee
Confidence            46899999999999    999999999999999999976

>TIGR00406 prmA ribosomal protein L11 methyltransferase

Probab=89.11  E-value=0.47  Score=39.86  Aligned_cols=27  Identities=30%  Similarity=0.375  Sum_probs=20.3

Q ss_pred             HHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          181 ILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       181 ~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      +++.+. . ...+|+|||||+|.+++.++
T Consensus       152 ~l~~~~-~-~g~~VLDvGcGsG~lai~aa  178 (288)
T TIGR00406       152 WLEDLD-L-KDKNVIDVGCGSGILSIAAL  178 (288)
T ss_pred             HHHhhc-C-CCCEEEEeCCChhHHHHHHH
Confidence            355554 3 45899999999999987764

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.

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

Probab=89.02  E-value=0.22  Score=40.41  Aligned_cols=29  Identities=17%  Similarity=0.299  Sum_probs=20.6

Q ss_pred             HHHHHhCCCCCC--CCeEEEecCCccHHHHhh
Q 036188          179 SNILESYKGFDN--IKQLVDVGGSLGVTLQAI  208 (210)
Q Consensus       179 ~~~l~~~~~~~~--~~~vvDiGGg~G~~~~~l  208 (210)
                      ..-++..+ +++  ...|+|||||+|.-+..|
T Consensus        38 eRaLELLa-lp~~~~~~iLDIGCGsGLSg~vL   68 (270)
T KOG1541|consen   38 ERALELLA-LPGPKSGLILDIGCGSGLSGSVL   68 (270)
T ss_pred             HHHHHHhh-CCCCCCcEEEEeccCCCcchhee
Confidence            34455544 554  889999999999876554

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

Probab=88.91  E-value=0.42  Score=27.75  Aligned_cols=29  Identities=28%  Similarity=0.362  Sum_probs=22.4

Q ss_pred             CCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcc
Q 036188           48 TKLSASDIAAQLLTKNKDAPMMLDRILRLLASY   80 (210)
Q Consensus        48 ~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~   80 (210)
                      .+.+++|||..+|+    ++..+.|+.+....+
T Consensus         7 ~~~~l~~iA~~~g~----S~~~f~r~Fk~~~g~   35 (42)
T PF00165_consen    7 QKLTLEDIAEQAGF----SPSYFSRLFKKETGM   35 (42)
T ss_dssp             SS--HHHHHHHHTS-----HHHHHHHHHHHTSS
T ss_pred             CCCCHHHHHHHHCC----CHHHHHHHHHHHHCc
Confidence            48999999999999    999999998876543

>PRK04172 pheS phenylalanyl-tRNA synthetase subunit alpha; Provisional

Probab=88.91  E-value=0.44  Score=43.19  Aligned_cols=66  Identities=18%  Similarity=0.263  Sum_probs=52.2

Q ss_pred             HhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceeccccccccccC
Q 036188           33 YELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSVSKYYVPN  108 (210)
Q Consensus        33 ~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~~s~~l~~~  108 (210)
                      .+..|...|...   ++.|..+||+++++    ++..+.+.++-|.+.|+++....   ....|.+|+.++.+..+
T Consensus         7 ~e~~vL~~L~~~---~~~s~~eLA~~l~l----~~~tVt~~i~~Le~kGlV~~~~~---~~~~i~LTeeG~~~~~~   72 (489)
T PRK04172          7 NEKKVLKALKEL---KEATLEELAEKLGL----PPEAVMRAAEWLEEKGLVKVEER---VEEVYVLTEEGKKYAEE   72 (489)
T ss_pred             HHHHHHHHHHhC---CCCCHHHHHHHhCc----CHHHHHHHHHHHHhCCCEEEEee---eEEEEEECHHHHHHHHh
Confidence            344555666654   58999999999999    99999999999999999987620   24579999999865543

>TIGR00138 gidB 16S rRNA methyltransferase GidB

Probab=88.77  E-value=0.27  Score=38.46  Aligned_cols=19  Identities=21%  Similarity=0.410  Sum_probs=16.1

Q ss_pred             CCeEEEecCCccHHHHhhh
Q 036188          191 IKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       191 ~~~vvDiGGg~G~~~~~l~  209 (210)
                      ..+|+|||||+|.++..++
T Consensus        43 ~~~vLDiGcGtG~~s~~la   61 (181)
T TIGR00138        43 GKKVIDIGSGAGFPGIPLA   61 (181)
T ss_pred             CCeEEEecCCCCccHHHHH
Confidence            5799999999999877653

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.

>PRK05785 hypothetical protein; Provisional

Probab=88.64  E-value=0.29  Score=39.65  Aligned_cols=19  Identities=21%  Similarity=0.230  Sum_probs=16.7

Q ss_pred             CCeEEEecCCccHHHHhhh
Q 036188          191 IKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       191 ~~~vvDiGGg~G~~~~~l~  209 (210)
                      ..+|+|||||+|.++..+.
T Consensus        52 ~~~VLDlGcGtG~~~~~l~   70 (226)
T PRK05785         52 PKKVLDVAAGKGELSYHFK   70 (226)
T ss_pred             CCeEEEEcCCCCHHHHHHH
Confidence            6799999999999988764

>PRK05638 threonine synthase; Validated

Probab=88.51  E-value=0.63  Score=41.59  Aligned_cols=60  Identities=18%  Similarity=0.254  Sum_probs=44.9

Q ss_pred             hhhHHhhcCCCCCCCHHHHHHHhc--CCCCCCcccHHHHHHHHhcccceeeeccCCCcccceecccccccc
Q 036188           37 IFEILDKAGPGTKLSASDIAAQLL--TKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSVSKYY  105 (210)
Q Consensus        37 lfd~L~~~g~~~~~t~~eLA~~~~--~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~~s~~l  105 (210)
                      |...|.+    ++++..||+++++  +    .+..+.+.|+.|...|+++..... +..-.|++|+.++.+
T Consensus       376 IL~~L~~----~~~~~~el~~~l~~~~----s~~~v~~hL~~Le~~GLV~~~~~~-g~~~~Y~Lt~~g~~~  437 (442)
T PRK05638        376 ILKILSE----REMYGYEIWKALGKPL----KYQAVYQHIKELEELGLIEEAYRK-GRRVYYKLTEKGRRL  437 (442)
T ss_pred             HHHHHhh----CCccHHHHHHHHcccC----CcchHHHHHHHHHHCCCEEEeecC-CCcEEEEECcHHHHH
Confidence            4555655    6899999999998  7    899999999999999999753100 112348888877643

>PRK09489 rsmC 16S ribosomal RNA m2G1207 methyltransferase; Provisional

Probab=88.43  E-value=0.5  Score=40.81  Aligned_cols=28  Identities=21%  Similarity=0.351  Sum_probs=20.2

Q ss_pred             HHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          181 ILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       181 ~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      +++.++ -....+|+|+|||.|.+++.++
T Consensus       188 Ll~~l~-~~~~g~VLDlGCG~G~ls~~la  215 (342)
T PRK09489        188 LLSTLT-PHTKGKVLDVGCGAGVLSAVLA  215 (342)
T ss_pred             HHHhcc-ccCCCeEEEeccCcCHHHHHHH
Confidence            344444 2334589999999999998775

>KOG2899 consensus Predicted methyltransferase [General function prediction only]

Probab=88.37  E-value=0.33  Score=39.93  Aligned_cols=31  Identities=23%  Similarity=0.277  Sum_probs=24.1

Q ss_pred             HHHHhCC-CCCCCCeEEEecCCccHHHHhhhC
Q 036188          180 NILESYK-GFDNIKQLVDVGGSLGVTLQAITT  210 (210)
Q Consensus       180 ~~l~~~~-~~~~~~~vvDiGGg~G~~~~~l~~  210 (210)
                      ..+..++ .|-....++||||+.|.+.+.|+|
T Consensus        47 ~rLk~L~~~~f~~~~~LDIGCNsG~lt~~iak   78 (288)
T KOG2899|consen   47 PRLKVLEKDWFEPKQALDIGCNSGFLTLSIAK   78 (288)
T ss_pred             hhhhhccccccCcceeEeccCCcchhHHHHHH
Confidence            4444443 277889999999999999998864

>PRK15451 tRNA cmo(5)U34 methyltransferase; Provisional

Probab=88.26  E-value=0.34  Score=39.63  Aligned_cols=21  Identities=29%  Similarity=0.393  Sum_probs=17.4

Q ss_pred             CCCCeEEEecCCccHHHHhhh
Q 036188          189 DNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       189 ~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ....+|+|||||+|..+..++
T Consensus        55 ~~~~~vLDlGcGtG~~~~~l~   75 (247)
T PRK15451         55 QPGTQVYDLGCSLGAATLSVR   75 (247)
T ss_pred             CCCCEEEEEcccCCHHHHHHH
Confidence            456799999999999887654

>PLN02233 ubiquinone biosynthesis methyltransferase

Probab=88.22  E-value=0.84  Score=37.76  Aligned_cols=22  Identities=9%  Similarity=-0.003  Sum_probs=17.9

Q ss_pred             CCCCCeEEEecCCccHHHHhhh
Q 036188          188 FDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       188 ~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      .....+|+|||||+|.++..++
T Consensus        71 ~~~~~~VLDlGcGtG~~~~~la   92 (261)
T PLN02233         71 AKMGDRVLDLCCGSGDLAFLLS   92 (261)
T ss_pred             CCCCCEEEEECCcCCHHHHHHH
Confidence            4557899999999999877654

>smart00138 MeTrc Methyltransferase, chemotaxis proteins

Probab=88.20  E-value=2.6  Score=34.94  Aligned_cols=24  Identities=17%  Similarity=0.207  Sum_probs=16.6

Q ss_pred             HHHHHhCCCCCCCCeEEEecCCccH
Q 036188          179 SNILESYKGFDNIKQLVDVGGSLGV  203 (210)
Q Consensus       179 ~~~l~~~~~~~~~~~vvDiGGg~G~  203 (210)
                      +.+++.-+ ..+..+|+|+|||+|.
T Consensus        89 p~l~~~~~-~~~~~ri~d~GCgtGe  112 (264)
T smart00138       89 PLLIASRR-HGRRVRIWSAGCSTGE  112 (264)
T ss_pred             HHHHHhcC-CCCCEEEEeccccCCh
Confidence            34444333 4456799999999996

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

>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=88.20  E-value=0.37  Score=40.86  Aligned_cols=29  Identities=17%  Similarity=0.258  Sum_probs=20.9

Q ss_pred             HHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          180 NILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       180 ~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      .+...++++ ..++|+|||||.|.++.+++
T Consensus       106 rl~p~l~~L-~gk~VLDIGC~nGY~~frM~  134 (315)
T PF08003_consen  106 RLLPHLPDL-KGKRVLDIGCNNGYYSFRML  134 (315)
T ss_pred             HHHhhhCCc-CCCEEEEecCCCcHHHHHHh
Confidence            344454324 35799999999999987764

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

>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=88.17  E-value=0.8  Score=26.87  Aligned_cols=37  Identities=19%  Similarity=0.276  Sum_probs=26.6

Q ss_pred             HhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHH
Q 036188           33 YELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRL   76 (210)
Q Consensus        33 ~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~   76 (210)
                      ++..|...|.++   +..|..+||+++|+    ++..+.+=++.
T Consensus         4 ~D~~Il~~Lq~d---~r~s~~~la~~lgl----S~~~v~~Ri~r   40 (42)
T PF13404_consen    4 LDRKILRLLQED---GRRSYAELAEELGL----SESTVRRRIRR   40 (42)
T ss_dssp             HHHHHHHHHHH----TTS-HHHHHHHHTS-----HHHHHHHHHH
T ss_pred             HHHHHHHHHHHc---CCccHHHHHHHHCc----CHHHHHHHHHH
Confidence            456788888886   59999999999999    88766554443

...

>COG1497 Predicted transcriptional regulator [Transcription]

Probab=88.16  E-value=0.77  Score=37.51  Aligned_cols=94  Identities=14%  Similarity=0.214  Sum_probs=62.3

Q ss_pred             ChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceecccccc-ccccCCCCCCh
Q 036188           36 GIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSVSK-YYVPNKDGVLL  114 (210)
Q Consensus        36 glfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~~s~-~l~~~~~~~~~  114 (210)
                      .|.-.|....  ....-.|||+++|+    .+..+...++-|+..|++++.     +.++|..|..+. .+...-.  .+
T Consensus        14 qIL~ei~~~q--p~v~q~eIA~~lgi----T~QaVsehiK~Lv~eG~i~~~-----gR~~Y~iTkkG~e~l~~~~~--dl   80 (260)
T COG1497          14 QILSEIAVRQ--PRVKQKEIAKKLGI----TLQAVSEHIKELVKEGLIEKE-----GRGEYEITKKGAEWLLEQLS--DL   80 (260)
T ss_pred             HHHHHHHHhC--CCCCHHHHHHHcCC----CHHHHHHHHHHHHhccceeec-----CCeeEEEehhHHHHHHHHHH--HH
Confidence            3344444432  36889999999999    999999999999999999997     678999999886 4443221  24


Q ss_pred             HHHHHHhcC-hhHHHHHhhHHHH-HhcCCc
Q 036188          115 GPLIQIIQD-KVILESWSQLKDA-ILEGGI  142 (210)
Q Consensus       115 ~~~~~~~~~-~~~~~~~~~L~~~-l~~g~~  142 (210)
                      +.++..... -.+...|..+++. ++.|..
T Consensus        81 r~f~~ev~~~l~~~~vw~AIA~edI~~Gd~  110 (260)
T COG1497          81 RRFSEEVELVLDYVMVWTAIAKEDIKEGDT  110 (260)
T ss_pred             HHHHHHHHHHHhhHHHHHHhhHhhhccCCE
Confidence            444433211 1123467666543 555544

>PF13730 HTH_36: Helix-turn-helix domain

Probab=88.09  E-value=0.55  Score=28.82  Aligned_cols=30  Identities=17%  Similarity=0.222  Sum_probs=28.0

Q ss_pred             CCHHHHHHHhcCCCCCCcccHHHHHHHHhcccce
Q 036188           50 LSASDIAAQLLTKNKDAPMMLDRILRLLASYSVV   83 (210)
Q Consensus        50 ~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~   83 (210)
                      -|.+.||+.+|+    ..+-+.|.++.|...|++
T Consensus        26 pS~~~la~~~g~----s~~Tv~~~i~~L~~~G~I   55 (55)
T PF13730_consen   26 PSQETLAKDLGV----SRRTVQRAIKELEEKGLI   55 (55)
T ss_pred             cCHHHHHHHHCc----CHHHHHHHHHHHHHCcCC
Confidence            389999999999    999999999999999975

>PRK00216 ubiE ubiquinone/menaquinone biosynthesis methyltransferase; Reviewed

Probab=88.08  E-value=0.56  Score=37.45  Aligned_cols=29  Identities=10%  Similarity=0.106  Sum_probs=21.4

Q ss_pred             HHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          180 NILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       180 ~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      .++..+. .....+|+|||||.|.++..++
T Consensus        42 ~~~~~~~-~~~~~~vldiG~G~G~~~~~l~   70 (239)
T PRK00216         42 KTIKWLG-VRPGDKVLDLACGTGDLAIALA   70 (239)
T ss_pred             HHHHHhC-CCCCCeEEEeCCCCCHHHHHHH
Confidence            3444444 4456899999999999988764

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

Probab=87.99  E-value=1.9  Score=33.11  Aligned_cols=77  Identities=18%  Similarity=0.197  Sum_probs=55.9

Q ss_pred             HhhchHHHHHHHHHhhCh-------hhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCc
Q 036188           20 ATGVVLPMAIQAVYELGI-------FEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGA   92 (210)
Q Consensus        20 ~~~~~~~~al~~a~~lgl-------fd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~   92 (210)
                      .++.|...|+.+|.+.++       .-++...+  .|.++.||+..++..   |-..+..-||-|...|+++... + +.
T Consensus        64 Af~rW~vrCmAaag~~~ls~~e~l~lH~irhrd--R~K~laDic~~ln~e---Dth~itYslrKL~k~gLit~t~-~-gk  136 (199)
T COG5631          64 AFGRWQVRCMAAAGEFSLSGPENLLLHIIRHRD--RPKSLADICQMLNRE---DTHNITYSLRKLLKGGLITRTG-S-GK  136 (199)
T ss_pred             HHHHHHHHHHHHhcCCCCcchHHHHHHHHhhcC--chhhHHHHHHHhccc---cchhHHHHHHHHHhccceecCC-C-Cc
Confidence            456778888888887664       23333333  799999999999993   6668888999999999999762 1 12


Q ss_pred             ccceecccccc
Q 036188           93 RRLYSLNSVSK  103 (210)
Q Consensus        93 ~~~y~~t~~s~  103 (210)
                      +-.|..|+.+.
T Consensus       137 evTy~vTa~G~  147 (199)
T COG5631         137 EVTYEVTALGH  147 (199)
T ss_pred             eEEEEEecchH
Confidence            23477777654

>PF02796 HTH_7: Helix-turn-helix domain of resolvase; InterPro: IPR006120 Site-specific recombination plays an important role in DNA rearrangement in prokaryotic organisms

Probab=87.84  E-value=0.44  Score=28.31  Aligned_cols=30  Identities=27%  Similarity=0.298  Sum_probs=20.8

Q ss_pred             hhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHH
Q 036188           37 IFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILR   75 (210)
Q Consensus        37 lfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr   75 (210)
                      +..++.+     +.|+.+||+.+|+    ...-+.|+++
T Consensus        14 i~~l~~~-----G~si~~IA~~~gv----sr~TvyR~l~   43 (45)
T PF02796_consen   14 IKELYAE-----GMSIAEIAKQFGV----SRSTVYRYLN   43 (45)
T ss_dssp             HHHHHHT-----T--HHHHHHHTTS-----HHHHHHHHC
T ss_pred             HHHHHHC-----CCCHHHHHHHHCc----CHHHHHHHHh
Confidence            3444554     5999999999999    8888888764

Two types of site-specific recombination are known to occur: Recombination between inverted repeats resulting in the reversal of a DNA segment. Recombination between repeat sequences on two DNA molecules resulting in their cointegration, or between repeats on one DNA molecule resulting in the excision of a DNA fragment. Site-specific recombination is characterised by a strand exchange mechanism that requires no DNA synthesis or high energy cofactor; the phosphodiester bond energy is conserved in a phospho-protein linkage during strand cleavage and re-ligation. Two unrelated families of recombinases are currently known []. The first, called the 'phage integrase' family, groups a number of bacterial phage and yeast plasmid enzymes. The second [], called the 'resolvase' family, groups enzymes which share the following structural characteristics: an N-terminal catalytic and dimerization domain that contains a conserved serine residue involved in the transient covalent attachment to DNA IPR006119 from INTERPRO, and a C-terminal helix-turn-helix DNA-binding domain. ; GO: 0000150 recombinase activity, 0003677 DNA binding, 0006310 DNA recombination; PDB: 1ZR2_A 2GM4_B 1RES_A 1ZR4_A 1RET_A 1GDT_B 2R0Q_C 1JKP_C 1IJW_C 1JJ6_C ....

>TIGR03438 probable methyltransferase

Probab=87.75  E-value=0.68  Score=39.14  Aligned_cols=20  Identities=15%  Similarity=0.174  Sum_probs=16.8

Q ss_pred             CCCeEEEecCCccHHHHhhh
Q 036188          190 NIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       190 ~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ...+|||+|||+|.....|+
T Consensus        63 ~~~~iLELGcGtG~~t~~Ll   82 (301)
T TIGR03438        63 AGCELVELGSGSSRKTRLLL   82 (301)
T ss_pred             CCCeEEecCCCcchhHHHHH
Confidence            34689999999999887765

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

>TIGR00478 tly hemolysin TlyA family protein

Probab=87.71  E-value=0.85  Score=37.13  Aligned_cols=30  Identities=27%  Similarity=0.335  Sum_probs=22.7

Q ss_pred             HHHHHhCCCC-CCCCeEEEecCCccHHHHhhh
Q 036188          179 SNILESYKGF-DNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       179 ~~~l~~~~~~-~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ..+++.++ . -...+++|||||+|.++..++
T Consensus        64 ~~~l~~~~-~~~~~~~vlDiG~gtG~~t~~l~   94 (228)
T TIGR00478        64 KEALEEFN-IDVKNKIVLDVGSSTGGFTDCAL   94 (228)
T ss_pred             HHHHHhcC-CCCCCCEEEEcccCCCHHHHHHH
Confidence            45566665 3 356799999999999988775

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).

>PRK04266 fibrillarin; Provisional

Probab=87.62  E-value=0.67  Score=37.61  Aligned_cols=25  Identities=12%  Similarity=0.380  Sum_probs=20.7

Q ss_pred             hCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          184 SYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       184 ~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      .++ .....+|+|+|||+|.++..++
T Consensus        67 ~l~-i~~g~~VlD~G~G~G~~~~~la   91 (226)
T PRK04266         67 NFP-IKKGSKVLYLGAASGTTVSHVS   91 (226)
T ss_pred             hCC-CCCCCEEEEEccCCCHHHHHHH
Confidence            355 6777899999999999988765

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

Probab=87.59  E-value=0.55  Score=37.02  Aligned_cols=27  Identities=15%  Similarity=0.299  Sum_probs=21.1

Q ss_pred             HHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          182 LESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       182 l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      +...+ .....+|+|+|+|+|.++..++
T Consensus        33 l~~l~-~~~~~~vlDlG~GtG~~s~~~a   59 (198)
T PRK00377         33 LSKLR-LRKGDMILDIGCGTGSVTVEAS   59 (198)
T ss_pred             HHHcC-CCCcCEEEEeCCcCCHHHHHHH
Confidence            34445 6677899999999999988754

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

Probab=87.58  E-value=0.64  Score=37.63  Aligned_cols=20  Identities=20%  Similarity=0.338  Sum_probs=17.2

Q ss_pred             CCCeEEEecCCccHHHHhhh
Q 036188          190 NIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       190 ~~~~vvDiGGg~G~~~~~l~  209 (210)
                      +..+|+|+|||+|.++..++
T Consensus        87 ~~~~ilDig~G~G~~~~~l~  106 (251)
T TIGR03534        87 GPLRVLDLGTGSGAIALALA  106 (251)
T ss_pred             CCCeEEEEeCcHhHHHHHHH
Confidence            45689999999999988775

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.

>PRK00517 prmA ribosomal protein L11 methyltransferase; Reviewed

Probab=87.37  E-value=0.39  Score=39.43  Aligned_cols=21  Identities=29%  Similarity=0.254  Sum_probs=17.6

Q ss_pred             CCCCeEEEecCCccHHHHhhh
Q 036188          189 DNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       189 ~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ....+|+|||||+|.+++.+.
T Consensus       118 ~~~~~VLDiGcGsG~l~i~~~  138 (250)
T PRK00517        118 LPGKTVLDVGCGSGILAIAAA  138 (250)
T ss_pred             CCCCEEEEeCCcHHHHHHHHH
Confidence            456899999999999887654

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

Probab=87.36  E-value=0.63  Score=38.15  Aligned_cols=21  Identities=14%  Similarity=0.137  Sum_probs=18.6

Q ss_pred             CCCeEEEecCCccHHHHhhhC
Q 036188          190 NIKQLVDVGGSLGVTLQAITT  210 (210)
Q Consensus       190 ~~~~vvDiGGg~G~~~~~l~~  210 (210)
                      ...+|||||||+|.++..+.+
T Consensus        51 ~g~~vLDva~GTGd~a~~~~k   71 (238)
T COG2226          51 PGDKVLDVACGTGDMALLLAK   71 (238)
T ss_pred             CCCEEEEecCCccHHHHHHHH
Confidence            578999999999999998763

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

Probab=87.01  E-value=0.94  Score=36.40  Aligned_cols=20  Identities=25%  Similarity=0.361  Sum_probs=16.9

Q ss_pred             CCCeEEEecCCccHHHHhhh
Q 036188          190 NIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       190 ~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ...+|||||||.|.++..++
T Consensus        48 ~~~~vLdiG~G~G~~~~~l~   67 (233)
T PRK05134         48 FGKRVLDVGCGGGILSESMA   67 (233)
T ss_pred             CCCeEEEeCCCCCHHHHHHH
Confidence            56789999999999887664

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

Probab=86.96  E-value=0.84  Score=36.25  Aligned_cols=28  Identities=11%  Similarity=0.281  Sum_probs=21.1

Q ss_pred             HHHHhCCCCCCCCeEEEecCCccHHHHhh
Q 036188          180 NILESYKGFDNIKQLVDVGGSLGVTLQAI  208 (210)
Q Consensus       180 ~~l~~~~~~~~~~~vvDiGGg~G~~~~~l  208 (210)
                      .++..+. .....+|+|||||+|..+..+
T Consensus        69 ~l~~~l~-~~~~~~VLeiG~GsG~~t~~l   96 (212)
T PRK00312         69 RMTELLE-LKPGDRVLEIGTGSGYQAAVL   96 (212)
T ss_pred             HHHHhcC-CCCCCEEEEECCCccHHHHHH
Confidence            4445555 667789999999999987644

>PLN02396 hexaprenyldihydroxybenzoate methyltransferase

Probab=86.94  E-value=0.43  Score=40.87  Aligned_cols=20  Identities=15%  Similarity=0.330  Sum_probs=16.9

Q ss_pred             CCCeEEEecCCccHHHHhhh
Q 036188          190 NIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       190 ~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ...+|||||||.|.++..++
T Consensus       131 ~g~~ILDIGCG~G~~s~~La  150 (322)
T PLN02396        131 EGLKFIDIGCGGGLLSEPLA  150 (322)
T ss_pred             CCCEEEEeeCCCCHHHHHHH
Confidence            44689999999999988764

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

Probab=86.86  E-value=0.72  Score=40.57  Aligned_cols=29  Identities=24%  Similarity=0.256  Sum_probs=21.5

Q ss_pred             HHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          180 NILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       180 ~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      .+++.+. -.....+||||||.|.++..++
T Consensus       113 ~~~~~~~-~~~~p~vLEIGcGsG~~ll~lA  141 (390)
T PRK14121        113 NFLDFIS-KNQEKILIEIGFGSGRHLLYQA  141 (390)
T ss_pred             HHHHHhc-CCCCCeEEEEcCcccHHHHHHH
Confidence            3444443 3456799999999999998876

>PRK10411 DNA-binding transcriptional activator FucR; Provisional

Probab=86.86  E-value=1.2  Score=36.43  Aligned_cols=46  Identities=22%  Similarity=0.232  Sum_probs=40.6

Q ss_pred             hhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           34 ELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        34 ~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      +..|.+.|.+.   +..+++|||+.+++    +++-++|-|..|...|++.+.
T Consensus         6 ~~~Il~~l~~~---~~~~~~eLa~~l~V----S~~TiRRdL~~L~~~~~l~r~   51 (240)
T PRK10411          6 QQAIVDLLLNH---TSLTTEALAEQLNV----SKETIRRDLNELQTQGKILRN   51 (240)
T ss_pred             HHHHHHHHHHc---CCCcHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEEe
Confidence            34577888775   59999999999999    999999999999999999876

>PF13384 HTH_23: Homeodomain-like domain; PDB: 2X48_C

Probab=86.81  E-value=0.63  Score=27.91  Aligned_cols=40  Identities=18%  Similarity=0.194  Sum_probs=23.5

Q ss_pred             hhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccc
Q 036188           34 ELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSV   82 (210)
Q Consensus        34 ~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl   82 (210)
                      +..+...+.+     +.|..+||+.+|+    ++.-+.++++--...|+
T Consensus         7 R~~ii~l~~~-----G~s~~~ia~~lgv----s~~Tv~~w~kr~~~~G~   46 (50)
T PF13384_consen    7 RAQIIRLLRE-----GWSIREIAKRLGV----SRSTVYRWIKRYREEGL   46 (50)
T ss_dssp             ---HHHHHHH-----T--HHHHHHHHTS-----HHHHHHHHT-------
T ss_pred             HHHHHHHHHC-----CCCHHHHHHHHCc----CHHHHHHHHHHcccccc
Confidence            3455555655     7899999999999    99999999988776664

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

Probab=86.81  E-value=0.74  Score=37.92  Aligned_cols=22  Identities=18%  Similarity=0.353  Sum_probs=18.4

Q ss_pred             CCCCCeEEEecCCccHHHHhhh
Q 036188          188 FDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       188 ~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ..+..+|+|+|||+|.++..++
T Consensus       106 ~~~~~~vLDiG~GsG~~~~~la  127 (275)
T PRK09328        106 LKEPLRVLDLGTGSGAIALALA  127 (275)
T ss_pred             ccCCCEEEEEcCcHHHHHHHHH
Confidence            4456799999999999988775

>PRK00215 LexA repressor; Validated

Probab=86.32  E-value=1.4  Score=34.93  Aligned_cols=36  Identities=19%  Similarity=0.212  Sum_probs=32.9

Q ss_pred             CCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           48 TKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        48 ~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      .+.|..|||+++|++   +...+.|+|+.|...|++++.
T Consensus        22 ~~~s~~ela~~~~~~---~~~tv~~~l~~L~~~g~i~~~   57 (205)
T PRK00215         22 YPPSRREIADALGLR---SPSAVHEHLKALERKGFIRRD   57 (205)
T ss_pred             CCCCHHHHHHHhCCC---ChHHHHHHHHHHHHCCCEEeC
Confidence            588999999999984   678999999999999999886

>PLN02585 magnesium protoporphyrin IX methyltransferase

Probab=86.15  E-value=0.52  Score=40.26  Aligned_cols=20  Identities=15%  Similarity=0.147  Sum_probs=17.3

Q ss_pred             CCCeEEEecCCccHHHHhhh
Q 036188          190 NIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       190 ~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ...+|||||||+|.+++.++
T Consensus       144 ~~~~VLDlGcGtG~~a~~la  163 (315)
T PLN02585        144 AGVTVCDAGCGTGSLAIPLA  163 (315)
T ss_pred             CCCEEEEecCCCCHHHHHHH
Confidence            35799999999999988775

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

Probab=86.07  E-value=0.78  Score=38.50  Aligned_cols=18  Identities=22%  Similarity=0.470  Sum_probs=16.5

Q ss_pred             eEEEecCCccHHHHhhhC
Q 036188          193 QLVDVGGSLGVTLQAITT  210 (210)
Q Consensus       193 ~vvDiGGg~G~~~~~l~~  210 (210)
                      +|+|||+|+|..++++++
T Consensus       113 ~ilDlGTGSG~iai~la~  130 (280)
T COG2890         113 RILDLGTGSGAIAIALAK  130 (280)
T ss_pred             cEEEecCChHHHHHHHHh
Confidence            899999999999998864

>PRK10906 DNA-binding transcriptional repressor GlpR; Provisional

Probab=86.06  E-value=1.1  Score=36.96  Aligned_cols=46  Identities=17%  Similarity=0.241  Sum_probs=41.3

Q ss_pred             hhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           34 ELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        34 ~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      +..|.+.|.+.   +.+++.|||+.+++    ++.-++|-|..|...|++.+.
T Consensus         7 ~~~Il~~l~~~---~~~~~~ela~~l~v----S~~TiRRdL~~Le~~g~l~r~   52 (252)
T PRK10906          7 HDAIIELVKQQ---GYVSTEELVEHFSV----SPQTIRRDLNDLAEQNKILRH   52 (252)
T ss_pred             HHHHHHHHHHc---CCEeHHHHHHHhCC----CHHHHHHHHHHHHHCCCEEEe
Confidence            44577888875   58999999999999    999999999999999999887

>PRK09802 DNA-binding transcriptional regulator AgaR; Provisional

Probab=85.99  E-value=1.2  Score=37.14  Aligned_cols=47  Identities=13%  Similarity=0.149  Sum_probs=42.4

Q ss_pred             HhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           33 YELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        33 ~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      ....|.+.|.+.   +.+++.|||+.+++    +++-++|=|..|...|++.+.
T Consensus        18 R~~~Il~~L~~~---~~vtv~eLa~~l~V----S~~TIRRDL~~Le~~G~l~r~   64 (269)
T PRK09802         18 RREQIIQRLRQQ---GSVQVNDLSALYGV----STVTIRNDLAFLEKQGIAVRA   64 (269)
T ss_pred             HHHHHHHHHHHc---CCEeHHHHHHHHCC----CHHHHHHHHHHHHhCCCeEEE
Confidence            445688889886   48999999999999    999999999999999999987

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

Probab=85.97  E-value=0.92  Score=37.36  Aligned_cols=20  Identities=20%  Similarity=0.170  Sum_probs=16.9

Q ss_pred             CCCeEEEecCCccHHHHhhh
Q 036188          190 NIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       190 ~~~~vvDiGGg~G~~~~~l~  209 (210)
                      +..+++|+|||+|.++..++
T Consensus        86 ~~~~vLDlg~GsG~i~l~la  105 (251)
T TIGR03704        86 GTLVVVDLCCGSGAVGAALA  105 (251)
T ss_pred             CCCEEEEecCchHHHHHHHH
Confidence            34589999999999998765

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.

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

Probab=85.92  E-value=0.82  Score=37.67  Aligned_cols=30  Identities=13%  Similarity=0.298  Sum_probs=22.4

Q ss_pred             HHHhCCCCCCCCeEEEecCCccHHHHhhhC
Q 036188          181 ILESYKGFDNIKQLVDVGGSLGVTLQAITT  210 (210)
Q Consensus       181 ~l~~~~~~~~~~~vvDiGGg~G~~~~~l~~  210 (210)
                      ++..+.......+|+|+|+|.|.++..+++
T Consensus        35 LL~~~~~~~~~~~IlDlGaG~G~l~L~la~   64 (248)
T COG4123          35 LLAAFAPVPKKGRILDLGAGNGALGLLLAQ   64 (248)
T ss_pred             HHHhhcccccCCeEEEecCCcCHHHHHHhc
Confidence            344443244589999999999999988764

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

Probab=85.85  E-value=1.5  Score=37.35  Aligned_cols=57  Identities=14%  Similarity=0.181  Sum_probs=43.3

Q ss_pred             hChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceeccccc
Q 036188           35 LGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSVS  102 (210)
Q Consensus        35 lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~~s  102 (210)
                      ..|.+.|.+.   .+.+.++||+++++    +...+.+.++.|...|++....    ....|.+.+..
T Consensus         7 ~~il~~L~~~---~~~s~~~LA~~lgv----sr~tV~~~l~~L~~~G~~i~~~----~~~Gy~L~~~~   63 (319)
T PRK11886          7 LQLLSLLADG---DFHSGEQLGEELGI----SRAAIWKHIQTLEEWGLDIFSV----KGKGYRLAEPL   63 (319)
T ss_pred             HHHHHHHHcC---CCcCHHHHHHHHCC----CHHHHHHHHHHHHHCCCceEEe----cCCeEEecCcc
Confidence            4566777663   58999999999999    9999999999999999944331    22357765443

>PRK10434 srlR DNA-bindng transcriptional repressor SrlR; Provisional

Probab=85.69  E-value=1.1  Score=37.05  Aligned_cols=46  Identities=24%  Similarity=0.245  Sum_probs=41.8

Q ss_pred             hhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           34 ELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        34 ~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      +..|.+.|.+.   +.+++.|||+.+++    ++.-++|=|+.|...|++.+.
T Consensus         7 ~~~Il~~L~~~---~~v~v~eLa~~l~V----S~~TIRRDL~~Le~~g~l~r~   52 (256)
T PRK10434          7 QAAILEYLQKQ---GKTSVEELAQYFDT----TGTTIRKDLVILEHAGTVIRT   52 (256)
T ss_pred             HHHHHHHHHHc---CCEEHHHHHHHHCC----CHHHHHHHHHHHHHCCCEEEE
Confidence            45578889886   58999999999999    999999999999999999887

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

Probab=85.67  E-value=0.89  Score=30.44  Aligned_cols=35  Identities=20%  Similarity=0.276  Sum_probs=24.8

Q ss_pred             hhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHh
Q 036188           37 IFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLA   78 (210)
Q Consensus        37 lfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~   78 (210)
                      |+..|+. |  +|.|+++||+++|+    +.+.++..|..+-
T Consensus        29 LLr~LA~-G--~PVt~~~LA~a~g~----~~e~v~~~L~~~p   63 (77)
T PF12324_consen   29 LLRLLAK-G--QPVTVEQLAAALGW----PVEEVRAALAAMP   63 (77)
T ss_dssp             HHHHHTT-T--S-B-HHHHHHHHT------HHHHHHHHHH-T
T ss_pred             HHHHHHc-C--CCcCHHHHHHHHCC----CHHHHHHHHHhCC
Confidence            6778887 3  79999999999999    8888777777664

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.

>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=85.66  E-value=2.1  Score=28.28  Aligned_cols=42  Identities=21%  Similarity=0.169  Sum_probs=37.4

Q ss_pred             hhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           37 IFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        37 lfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      |...|+.    +..|.+||-+.||+    +...+-..|.-|...|++.+.
T Consensus        10 IL~~ls~----~c~TLeeL~ekTgi----~k~~LlV~LsrL~k~GiI~Rk   51 (72)
T PF05584_consen   10 ILIILSK----RCCTLEELEEKTGI----SKNTLLVYLSRLAKRGIIERK   51 (72)
T ss_pred             HHHHHHh----ccCCHHHHHHHHCC----CHHHHHHHHHHHHHCCCeeee
Confidence            4556666    59999999999999    999999999999999999875

>PRK10870 transcriptional repressor MprA; Provisional

Probab=85.59  E-value=1.1  Score=34.77  Aligned_cols=55  Identities=13%  Similarity=0.106  Sum_probs=41.7

Q ss_pred             CCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCC-Ccccceeccccccccc
Q 036188           48 TKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDAS-GARRLYSLNSVSKYYV  106 (210)
Q Consensus        48 ~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~-~~~~~y~~t~~s~~l~  106 (210)
                      +++|..|||+.+++    ++..+.+++.-|...|++++..... ...-...+|+.++.+.
T Consensus        70 ~~it~~eLa~~l~l----~~~tvsr~v~rLe~kGlV~R~~~~~DrR~~~v~LT~~G~~~~  125 (176)
T PRK10870         70 HSIQPSELSCALGS----SRTNATRIADELEKRGWIERRESDNDRRCLHLQLTEKGHEFL  125 (176)
T ss_pred             CCcCHHHHHHHHCC----CHHHHHHHHHHHHHCCCEEecCCCCCCCeeEEEECHHHHHHH
Confidence            57999999999999    9999999999999999999763110 0112366666666444

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

Probab=85.42  E-value=0.7  Score=37.69  Aligned_cols=22  Identities=14%  Similarity=0.228  Sum_probs=15.3

Q ss_pred             CCCCCeEEEecCCccHHHHhhh
Q 036188          188 FDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       188 ~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      .....+|+|||||+|.++..++
T Consensus        45 ~~~g~~vLDv~~GtG~~~~~l~   66 (233)
T PF01209_consen   45 LRPGDRVLDVACGTGDVTRELA   66 (233)
T ss_dssp             --S--EEEEET-TTSHHHHHHG
T ss_pred             CCCCCEEEEeCCChHHHHHHHH
Confidence            4556799999999999998775

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.

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

Probab=85.38  E-value=1.2  Score=28.53  Aligned_cols=43  Identities=19%  Similarity=0.238  Sum_probs=35.1

Q ss_pred             hhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           37 IFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        37 lfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      |++.|-..   |+.|+.+|.+.+++    +++.++.-|-.|.-.|++...
T Consensus        18 V~~~Ll~~---G~ltl~~i~~~t~l----~~~~Vk~~L~~LiQh~~v~y~   60 (62)
T PF08221_consen   18 VGEVLLSR---GRLTLREIVRRTGL----SPKQVKKALVVLIQHNLVQYF   60 (62)
T ss_dssp             HHHHHHHC----SEEHHHHHHHHT------HHHHHHHHHHHHHTTSEEEE
T ss_pred             HHHHHHHc---CCcCHHHHHHHhCC----CHHHHHHHHHHHHHcCCeeee
Confidence            56667665   59999999999999    999999999999999998754

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.

>COG1846 MarR Transcriptional regulators [Transcription]

Probab=85.14  E-value=1.5  Score=30.93  Aligned_cols=68  Identities=18%  Similarity=0.218  Sum_probs=47.7

Q ss_pred             HHhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCC-Ccccceeccccccccc
Q 036188           32 VYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDAS-GARRLYSLNSVSKYYV  106 (210)
Q Consensus        32 a~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~-~~~~~y~~t~~s~~l~  106 (210)
                      ..+..+...|...+   +.+..+||+++++    ++..+.++++-|...|++.+..+.. ...-.+.+|+.++-+.
T Consensus        22 ~~q~~~L~~l~~~~---~~~~~~la~~l~i----~~~~vt~~l~~Le~~glv~r~~~~~DrR~~~l~lT~~G~~~~   90 (126)
T COG1846          22 PPQYQVLLALYEAG---GITVKELAERLGL----DRSTVTRLLKRLEDKGLIERLRDPEDRRAVLVRLTEKGRELL   90 (126)
T ss_pred             HHHHHHHHHHHHhC---CCcHHHHHHHHCC----CHHHHHHHHHHHHHCCCeeecCCccccceeeEEECccHHHHH
Confidence            34555666677653   4444999999999    9999999999999999998764211 0122467777666443

>PF02319 E2F_TDP: E2F/DP family winged-helix DNA-binding domain; InterPro: IPR003316 The mammalian transcription factor E2F plays an important role in regulating the expression of genes that are required for passage through the cell cycle

Probab=85.09  E-value=0.38  Score=31.67  Aligned_cols=37  Identities=24%  Similarity=0.327  Sum_probs=32.0

Q ss_pred             CCCCHHHHHHHh---cCCCCCCcccHHHHHHHHhcccceeee
Q 036188           48 TKLSASDIAAQL---LTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        48 ~~~t~~eLA~~~---~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      +.+++.++|+++   +.+  ...|++.-++..|.++|++++.
T Consensus        23 ~~i~l~~ia~~l~~~~~k--~~~RRlYDI~NVLealgli~K~   62 (71)
T PF02319_consen   23 KSISLNEIADKLISENVK--TQRRRLYDIINVLEALGLIEKQ   62 (71)
T ss_dssp             TEEEHHHHHHHCHHHCCH--HHCHHHHHHHHHHHHCTSEEEE
T ss_pred             CcccHHHHHHHHcccccc--cccchhhHHHHHHHHhCceeec
Confidence            689999999999   551  0678999999999999999986

Multiple E2F family members have been identified that bind to DNA as heterodimers, interacting with proteins known as DP - the dimerisation partners [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005667 transcription factor complex; PDB: 1CF7_B.

>PRK00811 spermidine synthase; Provisional

Probab=85.03  E-value=0.7  Score=38.75  Aligned_cols=22  Identities=32%  Similarity=0.469  Sum_probs=19.1

Q ss_pred             CCCCeEEEecCCccHHHHhhhC
Q 036188          189 DNIKQLVDVGGSLGVTLQAITT  210 (210)
Q Consensus       189 ~~~~~vvDiGGg~G~~~~~l~~  210 (210)
                      ++.++|+|||||.|..+.++++
T Consensus        75 ~~p~~VL~iG~G~G~~~~~~l~   96 (283)
T PRK00811         75 PNPKRVLIIGGGDGGTLREVLK   96 (283)
T ss_pred             CCCCEEEEEecCchHHHHHHHc
Confidence            4678999999999999988764

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

Probab=84.81  E-value=1.2  Score=32.12  Aligned_cols=66  Identities=23%  Similarity=0.274  Sum_probs=47.0

Q ss_pred             HHhhChhhHHhhcCCCCCCCHHHHHHHhcCC-CCCCcccHHHHHHHHhcccceeeeccCCCcccceeccc
Q 036188           32 VYELGIFEILDKAGPGTKLSASDIAAQLLTK-NKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNS  100 (210)
Q Consensus        32 a~~lglfd~L~~~g~~~~~t~~eLA~~~~~~-~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~  100 (210)
                      .-+.-|++.|.+.+  ++.|++||-+.+.-+ +.++..-+.|-|+.|...|++.+.... .+...|..+.
T Consensus         8 ~~R~~Il~~l~~~~--~~~ta~ei~~~l~~~~~~is~~TVYR~L~~L~e~Gli~~~~~~-~~~~~Y~~~~   74 (120)
T PF01475_consen    8 PQRLAILELLKESP--EHLTAEEIYDKLRKKGPRISLATVYRTLDLLEEAGLIRKIEFG-DGESRYELST   74 (120)
T ss_dssp             HHHHHHHHHHHHHS--SSEEHHHHHHHHHHTTTT--HHHHHHHHHHHHHTTSEEEEEET-TSEEEEEESS
T ss_pred             HHHHHHHHHHHcCC--CCCCHHHHHHHhhhccCCcCHHHHHHHHHHHHHCCeEEEEEcC-CCcceEeecC
Confidence            34566888998876  699999999999641 122556799999999999999987422 1234566654

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 ....

>PRK10046 dpiA two-component response regulator DpiA; Provisional

Probab=84.58  E-value=1.5  Score=35.00  Aligned_cols=45  Identities=18%  Similarity=0.267  Sum_probs=38.0

Q ss_pred             ChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           36 GIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        36 glfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      .|.+.+++..  .+.|.+|||+++++    .++-+++.+.+|+.+|++...
T Consensus       166 ~Vl~~~~~g~--~g~s~~eIa~~l~i----S~~Tv~~~~~~~~~~~~~~~~  210 (225)
T PRK10046        166 AVRKLFKEPG--VQHTAETVAQALTI----SRTTARRYLEYCASRHLIIAE  210 (225)
T ss_pred             HHHHHHHcCC--CCcCHHHHHHHhCc----cHHHHHHHHHHHHhCCeEEEE
Confidence            4566676521  26899999999999    999999999999999999876

>PLN02366 spermidine synthase

Probab=84.54  E-value=0.73  Score=39.24  Aligned_cols=23  Identities=35%  Similarity=0.481  Sum_probs=19.7

Q ss_pred             CCCCCeEEEecCCccHHHHhhhC
Q 036188          188 FDNIKQLVDVGGSLGVTLQAITT  210 (210)
Q Consensus       188 ~~~~~~vvDiGGg~G~~~~~l~~  210 (210)
                      .++.++||+||||.|..+.++++
T Consensus        89 ~~~pkrVLiIGgG~G~~~rellk  111 (308)
T PLN02366         89 IPNPKKVLVVGGGDGGVLREIAR  111 (308)
T ss_pred             CCCCCeEEEEcCCccHHHHHHHh
Confidence            35688999999999999988864

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

Probab=84.51  E-value=1.2  Score=35.79  Aligned_cols=30  Identities=13%  Similarity=0.354  Sum_probs=21.7

Q ss_pred             HHHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          179 SNILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       179 ~~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ..+++.++ .+...+|+|||+|+|..+.-++
T Consensus        62 a~~l~~L~-l~pg~~VLeIGtGsGY~aAlla   91 (209)
T PF01135_consen   62 ARMLEALD-LKPGDRVLEIGTGSGYQAALLA   91 (209)
T ss_dssp             HHHHHHTT-C-TT-EEEEES-TTSHHHHHHH
T ss_pred             HHHHHHHh-cCCCCEEEEecCCCcHHHHHHH
Confidence            35567776 8888999999999999987664

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 ....

>PLN02853 Probable phenylalanyl-tRNA synthetase alpha chain

Probab=84.32  E-value=1.1  Score=40.55  Aligned_cols=69  Identities=13%  Similarity=0.107  Sum_probs=55.0

Q ss_pred             HHhhChhhHHhhcCCCCC-CCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceeccccccc-cccCC
Q 036188           32 VYELGIFEILDKAGPGTK-LSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSVSKY-YVPNK  109 (210)
Q Consensus        32 a~~lglfd~L~~~g~~~~-~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~~s~~-l~~~~  109 (210)
                      +.+..|...|...   ++ .+..+||+.+|+    ++..+.+.+..|.+.|+++-..   .....|.+|+.++. +..+.
T Consensus         3 ~~e~~iL~~l~~~---~~~~~~~~la~~~g~----~~~~v~~~~~~L~~kg~v~~~~---~~~~~~~LT~eG~~~l~~G~   72 (492)
T PLN02853          3 MAEEALLGALSNN---EEISDSGQFAASHGL----DHNEVVGVIKSLHGFRYVDAQD---IKRETWVLTEEGKKYAAEGS   72 (492)
T ss_pred             hHHHHHHHHHHhc---CCCCCHHHHHHHcCC----CHHHHHHHHHHHHhCCCEEEEE---EEEEEEEECHHHHHHHHcCC
Confidence            4567778888774   34 899999999999    9999999999999999987432   13678999999984 55555


Q ss_pred             C
Q 036188          110 D  110 (210)
Q Consensus       110 ~  110 (210)
                      |
T Consensus        73 P   73 (492)
T PLN02853         73 P   73 (492)
T ss_pred             H
Confidence            4

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

Probab=83.97  E-value=1.2  Score=38.11  Aligned_cols=29  Identities=17%  Similarity=0.374  Sum_probs=22.1

Q ss_pred             HHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          180 NILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       180 ~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      .+++..+ .+...+|+|||||+|.++..++
T Consensus        71 ~ll~~L~-i~~g~~VLDIG~GtG~~a~~LA   99 (322)
T PRK13943         71 LFMEWVG-LDKGMRVLEIGGGTGYNAAVMS   99 (322)
T ss_pred             HHHHhcC-CCCCCEEEEEeCCccHHHHHHH
Confidence            3445554 6667899999999999987765

>PHA02701 ORF020 dsRNA-binding PKR inhibitor; Provisional

Probab=83.93  E-value=1.8  Score=33.93  Aligned_cols=48  Identities=29%  Similarity=0.344  Sum_probs=41.8

Q ss_pred             HhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           33 YELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        33 ~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      .+..|.|+|...|  .+.|+-+||+++|+    +..-+.|-|--|...|.|...
T Consensus         5 ~~~~i~~~l~~~~--~~~~a~~i~k~l~i----~k~~vNr~LY~L~~~~~v~~~   52 (183)
T PHA02701          5 CASLILTLLSSSG--DKLPAKRIAKELGI----SKHEANRCLYRLLESDAVSCE   52 (183)
T ss_pred             HHHHHHHHHHhcC--CCCcHHHHHHHhCc----cHHHHHHHHHHHhhcCcEecC
Confidence            5677999999875  36999999999999    999999999999999988654

>COG1349 GlpR Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]

Probab=83.91  E-value=1.6  Score=35.98  Aligned_cols=45  Identities=22%  Similarity=0.261  Sum_probs=41.6

Q ss_pred             hChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           35 LGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        35 lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      -.|.++|.+.   |.++++|||+.+++    .+.-++|=|+.|...|++.+.
T Consensus         8 ~~Il~~l~~~---g~v~v~eLa~~~~V----S~~TIRRDL~~Le~~g~l~R~   52 (253)
T COG1349           8 QKILELLKEK---GKVSVEELAELFGV----SEMTIRRDLNELEEQGLLLRV   52 (253)
T ss_pred             HHHHHHHHHc---CcEEHHHHHHHhCC----CHHHHHHhHHHHHHCCcEEEE
Confidence            4578889886   59999999999999    999999999999999999997

>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=83.83  E-value=1.8  Score=38.79  Aligned_cols=52  Identities=15%  Similarity=0.188  Sum_probs=32.2

Q ss_pred             CchhHhhccCchHHHHHHHHHhhhhhhhHHHHHHhCCCC---CCCCeEEEecCCccHHHHhh
Q 036188          150 VHIFEYAGLNPRFNKHFNAAMYNYTSLVMSNILESYKGF---DNIKQLVDVGGSLGVTLQAI  208 (210)
Q Consensus       150 ~~~fe~l~~~p~~~~~f~~~M~~~~~~~~~~~l~~~~~~---~~~~~vvDiGGg~G~~~~~l  208 (210)
                      ..-||.+++||..=+.|.+++..       .+.+....-   .+...|+|||+|+|-++...
T Consensus       150 s~tYe~fE~D~vKY~~Ye~AI~~-------al~D~~~~~~~~~~~~vVldVGAGrGpL~~~a  204 (448)
T PF05185_consen  150 SQTYEVFEKDPVKYDQYERAIEE-------ALKDRVRKNSYSSKDKVVLDVGAGRGPLSMFA  204 (448)
T ss_dssp             HHHHHHHCC-HHHHHHHHHHHHH-------HHHHHHTTS-SEETT-EEEEES-TTSHHHHHH
T ss_pred             cccHhhHhcCHHHHHHHHHHHHH-------HHHhhhhhccccccceEEEEeCCCccHHHHHH
Confidence            35688899999887778877642       222222101   14678999999999997543

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 ....

>PF13518 HTH_28: Helix-turn-helix domain

Probab=83.67  E-value=1.8  Score=25.92  Aligned_cols=29  Identities=14%  Similarity=0.106  Sum_probs=26.8

Q ss_pred             CCHHHHHHHhcCCCCCCcccHHHHHHHHhcccc
Q 036188           50 LSASDIAAQLLTKNKDAPMMLDRILRLLASYSV   82 (210)
Q Consensus        50 ~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl   82 (210)
                      .|+.++|+++|+    ++..+.+|++.....|+
T Consensus        13 ~s~~~~a~~~gi----s~~tv~~w~~~y~~~G~   41 (52)
T PF13518_consen   13 ESVREIAREFGI----SRSTVYRWIKRYREGGI   41 (52)
T ss_pred             CCHHHHHHHHCC----CHhHHHHHHHHHHhcCH
Confidence            499999999999    99999999999988875

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

Probab=83.58  E-value=0.7  Score=41.27  Aligned_cols=29  Identities=17%  Similarity=0.098  Sum_probs=21.7

Q ss_pred             HHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          180 NILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       180 ~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      .+++.++ .....+|+|+|||+|.+++.++
T Consensus       288 ~vl~~l~-~~~~~~VLDlgcGtG~~sl~la  316 (443)
T PRK13168        288 RALEWLD-PQPGDRVLDLFCGLGNFTLPLA  316 (443)
T ss_pred             HHHHHhc-CCCCCEEEEEeccCCHHHHHHH
Confidence            4444444 4456799999999999998875

>PRK11534 DNA-binding transcriptional regulator CsiR; Provisional

Probab=83.48  E-value=2.2  Score=34.09  Aligned_cols=37  Identities=22%  Similarity=0.185  Sum_probs=34.1

Q ss_pred             CCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           46 PGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        46 ~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      ||..++..+||+++|+    +...++.-|+.|...|+++..
T Consensus        27 pG~~L~e~eLae~lgV----SRtpVREAL~~L~~eGlv~~~   63 (224)
T PRK11534         27 PDEKLRMSLLTSRYAL----GVGPLREALSQLVAERLVTVV   63 (224)
T ss_pred             CCCcCCHHHHHHHHCC----ChHHHHHHHHHHHHCCCEEEe
Confidence            3468899999999999    999999999999999999876

>KOG1270 consensus Methyltransferases [Coenzyme transport and metabolism]

Probab=83.44  E-value=0.56  Score=38.94  Aligned_cols=18  Identities=22%  Similarity=0.442  Sum_probs=15.9

Q ss_pred             CeEEEecCCccHHHHhhh
Q 036188          192 KQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       192 ~~vvDiGGg~G~~~~~l~  209 (210)
                      .+|||||||.|.+++-|+
T Consensus        91 ~~ilDvGCGgGLLSepLA  108 (282)
T KOG1270|consen   91 MKILDVGCGGGLLSEPLA  108 (282)
T ss_pred             ceEEEeccCccccchhhH
Confidence            679999999999988765

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

Probab=83.22  E-value=0.94  Score=35.82  Aligned_cols=20  Identities=20%  Similarity=0.360  Sum_probs=17.1

Q ss_pred             CCCeEEEecCCccHHHHhhh
Q 036188          190 NIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       190 ~~~~vvDiGGg~G~~~~~l~  209 (210)
                      +.++|+|+|||+|.++++.+
T Consensus        45 ~g~~V~DlG~GTG~La~ga~   64 (198)
T COG2263          45 EGKTVLDLGAGTGILAIGAA   64 (198)
T ss_pred             CCCEEEEcCCCcCHHHHHHH
Confidence            56789999999999998753

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

Probab=82.91  E-value=0.72  Score=36.98  Aligned_cols=20  Identities=20%  Similarity=0.361  Sum_probs=16.7

Q ss_pred             CCCeEEEecCCccHHHHhhh
Q 036188          190 NIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       190 ~~~~vvDiGGg~G~~~~~l~  209 (210)
                      .-..++|||||-|-+++.|.
T Consensus        60 ~kvefaDIGCGyGGLlv~Ls   79 (249)
T KOG3115|consen   60 KKVEFADIGCGYGGLLMKLA   79 (249)
T ss_pred             ccceEEeeccCccchhhhcc
Confidence            34789999999999988764

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

Probab=82.80  E-value=0.8  Score=38.44  Aligned_cols=20  Identities=20%  Similarity=0.302  Sum_probs=17.3

Q ss_pred             CCCeEEEecCCccHHHHhhh
Q 036188          190 NIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       190 ~~~~vvDiGGg~G~~~~~l~  209 (210)
                      +..+|+|+|||+|.+++.++
T Consensus       121 ~~~~vLDlG~GsG~i~~~la  140 (284)
T TIGR03533       121 PVKRILDLCTGSGCIAIACA  140 (284)
T ss_pred             CCCEEEEEeCchhHHHHHHH
Confidence            45689999999999998875

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.

>TIGR02787 codY_Gpos GTP-sensing transcriptional pleiotropic repressor CodY

Probab=82.72  E-value=2.4  Score=34.78  Aligned_cols=45  Identities=36%  Similarity=0.347  Sum_probs=39.4

Q ss_pred             ChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           36 GIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        36 glfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      .|++.|....  +-++..+||+++|+    .+..+++=+|.|...|+++..
T Consensus       187 ~IL~~L~~~e--grlse~eLAerlGV----SRs~ireAlrkLE~aGvIe~r  231 (251)
T TIGR02787       187 HIFEELDGNE--GLLVASKIADRVGI----TRSVIVNALRKLESAGVIESR  231 (251)
T ss_pred             HHHHHhcccc--ccccHHHHHHHHCC----CHHHHHHHHHHHHHCCCEEec
Confidence            3677776632  68999999999999    999999999999999999876

This model represents the full length of CodY, a pleiotropic repressor in Bacillus subtilis and other Firmicutes (low-GC Gram-positive bacteria) that responds to intracellular levels of GTP and branched chain amino acids. The C-terminal helix-turn-helix DNA-binding region is modeled by pfam08222 in Pfam.

>COG3413 Predicted DNA binding protein [General function prediction only]

Probab=82.71  E-value=1.7  Score=34.82  Aligned_cols=45  Identities=22%  Similarity=0.290  Sum_probs=35.7

Q ss_pred             chHHHHHHHHHhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHH
Q 036188           23 VVLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLL   77 (210)
Q Consensus        23 ~~~~~al~~a~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L   77 (210)
                      ..+-.+|+.|.++|-||.=      ...+..|||+.+|+    .+..+...||-.
T Consensus       158 drQ~~vL~~A~~~GYFd~P------R~~~l~dLA~~lGI----Skst~~ehLRrA  202 (215)
T COG3413         158 DRQLEVLRLAYKMGYFDYP------RRVSLKDLAKELGI----SKSTLSEHLRRA  202 (215)
T ss_pred             HHHHHHHHHHHHcCCCCCC------ccCCHHHHHHHhCC----CHHHHHHHHHHH
Confidence            3466799999999999752      47899999999999    777666666543

>COG1802 GntR Transcriptional regulators [Transcription]

Probab=82.57  E-value=2.8  Score=33.74  Aligned_cols=37  Identities=30%  Similarity=0.433  Sum_probs=34.8

Q ss_pred             CCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           46 PGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        46 ~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      ||.+++-.+||+++|+    +...++.-|.-|...|+++..
T Consensus        36 pG~~l~e~~La~~~gv----SrtPVReAL~rL~~eGlv~~~   72 (230)
T COG1802          36 PGERLSEEELAEELGV----SRTPVREALRRLEAEGLVEIE   72 (230)
T ss_pred             CCCCccHHHHHHHhCC----CCccHHHHHHHHHHCCCeEec
Confidence            4579999999999999    999999999999999999976

>smart00531 TFIIE Transcription initiation factor IIE

Probab=82.46  E-value=1.6  Score=32.87  Aligned_cols=41  Identities=22%  Similarity=0.254  Sum_probs=35.1

Q ss_pred             ChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccce
Q 036188           36 GIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVV   83 (210)
Q Consensus        36 glfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~   83 (210)
                      -|+|.|-..   +.+|-+|||+.+|+    +...++++|..|..-+++
T Consensus         5 ~v~d~L~~~---~~~~dedLa~~l~i----~~n~vRkiL~~L~ed~~~   45 (147)
T smart00531        5 LVLDALMRN---GCVTEEDLAELLGI----KQKQLRKILYLLYDEKLI   45 (147)
T ss_pred             eehHHHHhc---CCcCHHHHHHHhCC----CHHHHHHHHHHHHhhhcc
Confidence            467777765   58999999999999    999999999999994443

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

Probab=82.45  E-value=0.99  Score=40.74  Aligned_cols=22  Identities=18%  Similarity=0.223  Sum_probs=19.2

Q ss_pred             CCCCeEEEecCCccHHHHhhhC
Q 036188          189 DNIKQLVDVGGSLGVTLQAITT  210 (210)
Q Consensus       189 ~~~~~vvDiGGg~G~~~~~l~~  210 (210)
                      ...++++|||||.|.++..+++
T Consensus       116 g~iR~~LDvGcG~aSF~a~l~~  137 (506)
T PF03141_consen  116 GGIRTALDVGCGVASFGAYLLE  137 (506)
T ss_pred             CceEEEEeccceeehhHHHHhh
Confidence            4679999999999999998764

; GO: 0008168 methyltransferase activity

>TIGR00536 hemK_fam HemK family putative methylases

Probab=82.35  E-value=1.4  Score=36.90  Aligned_cols=18  Identities=22%  Similarity=0.427  Sum_probs=16.3

Q ss_pred             CeEEEecCCccHHHHhhh
Q 036188          192 KQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       192 ~~vvDiGGg~G~~~~~l~  209 (210)
                      .+|+|+|||+|.++..++
T Consensus       116 ~~vLDlG~GsG~i~l~la  133 (284)
T TIGR00536       116 LHILDLGTGSGCIALALA  133 (284)
T ss_pred             CEEEEEeccHhHHHHHHH
Confidence            689999999999988875

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.

>PRK13777 transcriptional regulator Hpr; Provisional

Probab=82.12  E-value=2.5  Score=33.23  Aligned_cols=63  Identities=14%  Similarity=0.004  Sum_probs=44.7

Q ss_pred             hhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCC-Ccccceeccccccccc
Q 036188           37 IFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDAS-GARRLYSLNSVSKYYV  106 (210)
Q Consensus        37 lfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~-~~~~~y~~t~~s~~l~  106 (210)
                      |.-.|...   +++|..+||+.+++    ++..+.+++.-|...|++.+..... ...-...+|+.++.+.
T Consensus        50 iL~~L~~~---~~itq~eLa~~l~l----~~sTvtr~l~rLE~kGlI~R~~~~~DrR~~~I~LTekG~~l~  113 (185)
T PRK13777         50 ILWIAYHL---KGASISEIAKFGVM----HVSTAFNFSKKLEERGYLTFSKKEDDKRNTYIELTEKGEELL  113 (185)
T ss_pred             HHHHHHhC---CCcCHHHHHHHHCC----CHhhHHHHHHHHHHCCCEEecCCCCCCCeeEEEECHHHHHHH
Confidence            45556554   58999999999999    9999999999999999999752110 0112255666655443

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

Probab=82.05  E-value=2.3  Score=34.00  Aligned_cols=28  Identities=18%  Similarity=0.335  Sum_probs=19.1

Q ss_pred             HHHHhCCCCCCCCeEEEecCCccHHHHhh
Q 036188          180 NILESYKGFDNIKQLVDVGGSLGVTLQAI  208 (210)
Q Consensus       180 ~~l~~~~~~~~~~~vvDiGGg~G~~~~~l  208 (210)
                      .+++.+. ......++|||+|.|....+.
T Consensus        33 ~il~~~~-l~~~dvF~DlGSG~G~~v~~a   60 (205)
T PF08123_consen   33 KILDELN-LTPDDVFYDLGSGVGNVVFQA   60 (205)
T ss_dssp             HHHHHTT---TT-EEEEES-TTSHHHHHH
T ss_pred             HHHHHhC-CCCCCEEEECCCCCCHHHHHH
Confidence            5566666 777889999999999987654

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 ....

>PRK09775 putative DNA-binding transcriptional regulator; Provisional

Probab=81.84  E-value=2.4  Score=37.99  Aligned_cols=40  Identities=30%  Similarity=0.281  Sum_probs=34.2

Q ss_pred             hhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           37 IFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        37 lfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      |-..|.+    +|.|+.||++.+++    +...+.|.|+.|  .|+|...
T Consensus         5 ~~~~L~~----g~~~~~eL~~~l~~----sq~~~s~~L~~L--~~~V~~~   44 (442)
T PRK09775          5 LTTLLLQ----GPLSAAELAARLGV----SQATLSRLLAAL--GDQVVRF   44 (442)
T ss_pred             HHHHHhc----CCCCHHHHHHHhCC----CHHHHHHHHHHh--hcceeEe
Confidence            4456666    79999999999999    999999999999  8887654

>PTZ00326 phenylalanyl-tRNA synthetase alpha chain; Provisional

Probab=81.82  E-value=1.8  Score=39.23  Aligned_cols=70  Identities=13%  Similarity=0.160  Sum_probs=54.4

Q ss_pred             HHhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceecccccc-ccccCCC
Q 036188           32 VYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSVSK-YYVPNKD  110 (210)
Q Consensus        32 a~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~~s~-~l~~~~~  110 (210)
                      ..+..|...|...+  +..+..+||+.+|+    +...+.+.+.-|.+.|+++-..   .....|.+|+.++ ++..+.|
T Consensus         6 ~~e~~iL~~l~~~~--~~~~~~~la~~~~~----~~~~v~~~~~~L~~kg~v~~~~---~~~~~~~LT~eG~~~~~~G~P   76 (494)
T PTZ00326          6 LEENTILSKLESEN--EIVNSLALAESLNI----DHQKVVGAIKSLESANYITTEM---KKSNTWTLTEEGEDYLKNGSP   76 (494)
T ss_pred             HHHHHHHHHHHhcC--CCCCHHHHHHHcCC----CHHHHHHHHHHHHhCCCEEEEE---EEEEEEEECHHHHHHHHcCCH
Confidence            34556777777632  47999999999999    9999999999999999997442   1367899999998 4555554

>PF09904 HTH_43: Winged helix-turn helix; InterPro: IPR017162 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function

Probab=81.71  E-value=2.2  Score=29.44  Aligned_cols=59  Identities=7%  Similarity=0.103  Sum_probs=35.5

Q ss_pred             hhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCC--Ccccceeccc
Q 036188           34 ELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDAS--GARRLYSLNS  100 (210)
Q Consensus        34 ~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~--~~~~~y~~t~  100 (210)
                      +|=|.-++..    +..++..|-+.||+    +.+-+...+.+|..+|+..+-.-+|  ...|.|+++.
T Consensus        10 rlyla~li~~----~~~nvp~L~~~TGm----PrRT~Qd~i~aL~~~~I~~~Fvq~G~R~~~GyY~i~~   70 (90)
T PF09904_consen   10 RLYLAYLIDS----GERNVPALMEATGM----PRRTIQDTIKALPELGIECEFVQDGERNNAGYYRISD   70 (90)
T ss_dssp             HHHHHHHHHH----S-B-HHHHHHHH-------HHHHHHHHHGGGGGT-EEEEE--TTS-S--EEEEEE
T ss_pred             HHHHHHHHhc----CCccHHHHHHHhCC----CHhHHHHHHHHhhcCCeEEEEEecCccCCCCcEEeee
Confidence            3444455666    35599999999999    9999999999999999876521111  1356676653

; PDB: 3KE2_B.

>COG1510 Predicted transcriptional regulators [Transcription]

Probab=81.71  E-value=1.4  Score=34.12  Aligned_cols=35  Identities=20%  Similarity=0.209  Sum_probs=33.4

Q ss_pred             CCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           48 TKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        48 ~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      +|+|++||+++||.    +...+..-|+-|...+++.+.
T Consensus        40 ~Pmtl~Ei~E~lg~----Sks~vS~~lkkL~~~~lV~~~   74 (177)
T COG1510          40 KPLTLDEIAEALGM----SKSNVSMGLKKLQDWNLVKKV   74 (177)
T ss_pred             CCccHHHHHHHHCC----CcchHHHHHHHHHhcchHHhh
Confidence            79999999999999    999999999999999999865

>KOG2904 consensus Predicted methyltransferase [General function prediction only]

Probab=81.58  E-value=1.7  Score=36.48  Aligned_cols=23  Identities=13%  Similarity=0.290  Sum_probs=19.3

Q ss_pred             CCCCCeEEEecCCccHHHHhhhC
Q 036188          188 FDNIKQLVDVGGSLGVTLQAITT  210 (210)
Q Consensus       188 ~~~~~~vvDiGGg~G~~~~~l~~  210 (210)
                      +.+...++|+|||+|.++..+++
T Consensus       146 ~~~~~~ildlgtGSGaIslsll~  168 (328)
T KOG2904|consen  146 HSKHTHILDLGTGSGAISLSLLH  168 (328)
T ss_pred             hcccceEEEecCCccHHHHHHHh
Confidence            45667999999999999988763

>PF02295 z-alpha: Adenosine deaminase z-alpha domain; InterPro: IPR000607 Double-stranded RNA-specific adenosine deaminase (3

Probab=81.39  E-value=2.7  Score=27.22  Aligned_cols=60  Identities=25%  Similarity=0.227  Sum_probs=40.4

Q ss_pred             HhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceeccc
Q 036188           33 YELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNS  100 (210)
Q Consensus        33 ~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~  100 (210)
                      .+-.|.++|...|   +.++-.||...|+.  .+..-+.+.|.-|...|.+.+..   +.+-.|.+++
T Consensus         5 ~ee~Il~~L~~~g---~~~a~~ia~~~~L~--~~kk~VN~~LY~L~k~g~v~k~~---~~PP~W~l~~   64 (66)
T PF02295_consen    5 LEEKILDFLKELG---GSTATAIAKALGLS--VPKKEVNRVLYRLEKQGKVCKEG---GTPPKWSLTE   64 (66)
T ss_dssp             HHHHHHHHHHHHT---SSEEEHHHHHHHHT--S-HHHHHHHHHHHHHTTSEEEEC---SSSTEEEE-H
T ss_pred             HHHHHHHHHHhcC---CccHHHHHHHhCcc--hhHHHHHHHHHHHHHCCCEeeCC---CCCCceEecc
Confidence            4566888998874   55555566655550  05789999999999999998762   1355565543

5 from EC) converts multiple adenosines to inosines and creates I/U mismatched base pairs in double-helical RNA substrates without apparent sequence specificity. DRADA has been found to modify adenosines in AU-rich regions more frequently, probably due to the relative ease of melting A/U base pairs compared to G/C base pairs. The protein functions to modify viral RNA genomes, and may be responsible for hypermutation of certain negative-stranded viruses. DRADA edits the mRNAs for the glutamate receptor subunits by site-selective adenosine deamination. The DRADA repeat is also found in viral E3 proteins, which contain a double-stranded RNA-binding domain.; GO: 0003723 RNA binding, 0003726 double-stranded RNA adenosine deaminase activity; PDB: 1OYI_A 3EYI_A 2L4M_A 2HEO_D 1J75_A 1SFU_B 3IRR_B 2ACJ_C 3F22_B 2L54_A ....

>PHA02591 hypothetical protein; Provisional

Probab=81.25  E-value=1.8  Score=28.95  Aligned_cols=31  Identities=19%  Similarity=0.216  Sum_probs=26.3

Q ss_pred             hhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHH
Q 036188           37 IFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILR   75 (210)
Q Consensus        37 lfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr   75 (210)
                      +...|.+    .+.|.++||+.+|+    +.+.+++.++
T Consensus        51 vA~eL~e----qGlSqeqIA~~LGV----sqetVrKYL~   81 (83)
T PHA02591         51 VTHELAR----KGFTVEKIASLLGV----SVRKVRRYLE   81 (83)
T ss_pred             HHHHHHH----cCCCHHHHHHHhCC----CHHHHHHHHh
Confidence            4556777    59999999999999    9999988876

>TIGR03338 phnR_burk phosphonate utilization associated transcriptional regulator

Probab=81.23  E-value=2.7  Score=33.22  Aligned_cols=36  Identities=33%  Similarity=0.366  Sum_probs=33.6

Q ss_pred             CCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           47 GTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        47 ~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      |..++-.+||+.+|+    +...++.-|+.|...|+++..
T Consensus        32 G~~L~e~~La~~lgV----SRtpVReAL~~L~~eGlv~~~   67 (212)
T TIGR03338        32 GAKLNESDIAARLGV----SRGPVREAFRALEEAGLVRNE   67 (212)
T ss_pred             CCEecHHHHHHHhCC----ChHHHHHHHHHHHHCCCEEEe
Confidence            468899999999999    999999999999999999876

This family of proteins are members of the GntR family (pfam00392) containing an N-terminal helix-turn-helix (HTH) motif. This clade is found adjacent to or inside of operons for the degradation of 2-aminoethylphosphonate (AEP) in Polaromonas, Burkholderia, Ralstonia and Verminephrobacter.

>PLN02490 MPBQ/MSBQ methyltransferase

Probab=81.19  E-value=2  Score=37.17  Aligned_cols=28  Identities=36%  Similarity=0.493  Sum_probs=20.2

Q ss_pred             HHHhCCCCC-CCCeEEEecCCccHHHHhhh
Q 036188          181 ILESYKGFD-NIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       181 ~l~~~~~~~-~~~~vvDiGGg~G~~~~~l~  209 (210)
                      +++... +. ...+|||||||+|.++..++
T Consensus       104 ~l~~~~-l~~~~~~VLDLGcGtG~~~l~La  132 (340)
T PLN02490        104 ALEPAD-LSDRNLKVVDVGGGTGFTTLGIV  132 (340)
T ss_pred             HHhhcc-cCCCCCEEEEEecCCcHHHHHHH
Confidence            344444 43 45799999999999887664

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

Probab=80.95  E-value=2  Score=34.49  Aligned_cols=30  Identities=10%  Similarity=0.319  Sum_probs=24.2

Q ss_pred             HHHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          179 SNILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       179 ~~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ..+++... .+...+|++||+|+|..+.-++
T Consensus        62 A~m~~~L~-~~~g~~VLEIGtGsGY~aAvla   91 (209)
T COG2518          62 ARMLQLLE-LKPGDRVLEIGTGSGYQAAVLA   91 (209)
T ss_pred             HHHHHHhC-CCCCCeEEEECCCchHHHHHHH
Confidence            35566666 7888999999999999887664

>COG1675 TFA1 Transcription initiation factor IIE, alpha subunit [Transcription]

Probab=80.89  E-value=2.5  Score=33.04  Aligned_cols=45  Identities=18%  Similarity=0.180  Sum_probs=38.8

Q ss_pred             hChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           35 LGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        35 lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      ..|++.|.+.   |-+|-+|||..+|+    ...-++|+|..|...|++...
T Consensus        21 ~~v~~~l~~k---ge~tDeela~~l~i----~~~~vrriL~~L~e~~li~~~   65 (176)
T COG1675          21 VLVVDALLEK---GELTDEELAELLGI----KKNEVRRILYALYEDGLISYR   65 (176)
T ss_pred             hHHHHHHHhc---CCcChHHHHHHhCc----cHHHHHHHHHHHHhCCceEEE
Confidence            3467777774   37999999999999    999999999999999999844

>PRK12423 LexA repressor; Provisional

Probab=80.88  E-value=3.1  Score=33.04  Aligned_cols=35  Identities=17%  Similarity=0.161  Sum_probs=31.0

Q ss_pred             CCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           49 KLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        49 ~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      +-|..|||+++|++   .+..+++.|+.|...|+++..
T Consensus        25 ~Ps~~eia~~~g~~---s~~~v~~~l~~L~~~G~l~~~   59 (202)
T PRK12423         25 PPSLAEIAQAFGFA---SRSVARKHVQALAEAGLIEVV   59 (202)
T ss_pred             CCCHHHHHHHhCCC---ChHHHHHHHHHHHHCCCEEec
Confidence            56999999999952   677899999999999999976

>TIGR01321 TrpR trp operon repressor, proteobacterial

Probab=80.70  E-value=2.4  Score=29.55  Aligned_cols=40  Identities=20%  Similarity=0.107  Sum_probs=33.7

Q ss_pred             HHHhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHh
Q 036188           31 AVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLA   78 (210)
Q Consensus        31 ~a~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~   78 (210)
                      .+.+.+|+..|-+    +++|-.|||+++|+    ....+.|.=+.|.
T Consensus        41 l~~R~~i~~~Ll~----~~~tQrEIa~~lGi----S~atIsR~sn~lk   80 (94)
T TIGR01321        41 LGDRIRIVNELLN----GNMSQREIASKLGV----SIATITRGSNNLK   80 (94)
T ss_pred             HHHHHHHHHHHHh----CCCCHHHHHHHhCC----ChhhhhHHHhhcc
Confidence            4567899998877    69999999999999    8888888776665

This model represents TrpR, the repressor of the trp operon. It is found so far only in the gamma subdivision of the proteobacteria and in Chlamydia trachomatis. All members belong to species capable of tryptophan biosynthesis.

>PRK11642 exoribonuclease R; Provisional

Probab=80.37  E-value=2.7  Score=40.59  Aligned_cols=57  Identities=25%  Similarity=0.310  Sum_probs=42.3

Q ss_pred             hhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceeccc
Q 036188           37 IFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNS  100 (210)
Q Consensus        37 lfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~  100 (210)
                      |.++|...+  +|++..+|++++++....+...|.+.|+.|...|.+.+.     ..+.|.+..
T Consensus        24 Il~~l~~~~--~~~~~~~L~~~l~l~~~~~~~~l~~~L~~L~~~g~l~~~-----~~~~~~~~~   80 (813)
T PRK11642         24 ILEHLTKRE--KPASREELAVELNIEGEEQLEALRRRLRAMERDGQLVFT-----RRQCYALPE   80 (813)
T ss_pred             HHHHHHhcC--CCCCHHHHHHHhCCCChHHHHHHHHHHHHHHHCCCEEEc-----CCceEecCC
Confidence            667776544  799999999999992111234699999999999999876     456665553

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

Probab=80.18  E-value=1.8  Score=34.48  Aligned_cols=19  Identities=11%  Similarity=-0.132  Sum_probs=16.2

Q ss_pred             CCCeEEEecCCccHHHHhh
Q 036188          190 NIKQLVDVGGSLGVTLQAI  208 (210)
Q Consensus       190 ~~~~vvDiGGg~G~~~~~l  208 (210)
                      ...+++|+|+|+|.++++.
T Consensus        53 ~~~~vLDl~~GsG~l~l~~   71 (199)
T PRK10909         53 VDARCLDCFAGSGALGLEA   71 (199)
T ss_pred             CCCEEEEcCCCccHHHHHH
Confidence            3569999999999999864

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	210
1kyw_A	365	Crystal Structure Analysis Of Caffeic Acid5-Hydroxy		2e-54
3reo_A	368	Monolignol O-Methyltransferase (Momt) Length = 368		1e-48
3p9c_A	364	Crystal Structure Of Perennial Ryegrass Lpomt1 Boun		2e-47
1fp1_D	372	Crystal Structure Analysis Of Chalcone O-Methyltran		5e-30
1fpq_A	372	Crystal Structure Analysis Of Selenomethionine Subs		4e-23
1fp2_A	352	Crystal Structure Analysis Of Isoflavone O-Methyltr		2e-07
1fpx_A	352	Crystal Structure Analysis Of Selenomethionine Subs		5e-06
2qyo_A	357	Crystal Structure Of Isoflavone O-Methyltransferase		6e-06

>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 =  208 bits (529), Expect = 2e-54,   Method: Compositional matrix adjust.
 Identities = 100/204 (49%), Positives = 143/204 (70%), Gaps = 3/204 (1%)
Query: 10  DQSFAYADQLATGVVLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMM 69
           +++  +A QLA+  VLPM +++  EL + EI+ KAGPG ++S  +IA+QL T N DAP+M
Sbjct: 17  EEANLFAMQLASASVLPMILKSALELDLLEIIAKAGPGAQISPIEIASQLPTTNPDAPVM 76
Query: 70  LDRILRLLASYSVVECSLDAS---GARRLYSLNSVSKYYVPNKDGVLLGPLIQIIQDKVI 126
           LDR+LRLLA Y ++ CS+        +RLY L +V+KY V N+DGV +  L  + QDKV+
Sbjct: 77  LDRMLRLLACYIILTCSVRTQQDGKVQRLYGLATVAKYLVKNEDGVSISALNLMNQDKVL 136
Query: 127 LESWSQLKDAILEGGIPFNRAHGVHIFEYAGLNPRFNKHFNAAMYNYTSLVMSNILESYK 186
           +ESW  LKDA+L+GGIPFN+A+G+  FEY G +PRFNK FN  M +++++ M  ILE+Y 
Sbjct: 137 MESWYHLKDAVLDGGIPFNKAYGMTAFEYHGTDPRFNKVFNKGMSDHSTITMKKILETYT 196
Query: 187 GFDNIKQLVDVGGSLGVTLQAITT 210
           GF+ +K LVDVGG  G  +  I +
Sbjct: 197 GFEGLKSLVDVGGGTGAVINTIVS 220

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

Iteration: 1
 Score =  189 bits (479), Expect = 1e-48,   Method: Compositional matrix adjust.
 Identities = 98/198 (49%), Positives = 132/198 (66%), Gaps = 4/198 (2%)
Query: 15  YADQLATGVVLPMAIQAVYELGIFEILDKAGPGTK-LSASDIAAQLLTKNKDAPMMLDRI 73
           +A QLA+  VLPMA++A  EL + EI+ K+ P +  +S ++IAAQL T N +AP+MLDR+
Sbjct: 24  FAMQLASAAVLPMALKAAIELDVLEIMAKSVPPSGYISPAEIAAQLPTTNPEAPVMLDRV 83
Query: 74  LRLLASYSVVECSL---DASGARRLYSLNSVSKYYVPNKDGVLLGPLIQIIQDKVILESW 130
           LRLLASYSVV  +L    +    RLY L  V K+   N+DGV L P + +  DKV+LE W
Sbjct: 84  LRLLASYSVVTYTLRELPSGKVERLYGLAPVCKFLTKNEDGVSLAPFLLLATDKVLLEPW 143
Query: 131 SQLKDAILEGGIPFNRAHGVHIFEYAGLNPRFNKHFNAAMYNYTSLVMSNILESYKGFDN 190
             LKDAILEGGIPFN+A+G++IF+Y G + R NK FN  M + +++ M  ILE Y GF+ 
Sbjct: 144 FYLKDAILEGGIPFNKAYGMNIFDYHGTDHRINKVFNKGMSSNSTITMKKILEMYNGFEG 203
Query: 191 IKQLVDVGGSLGVTLQAI 208
           +  +VDVGG  G     I
Sbjct: 204 LTTIVDVGGGTGAVASMI 221

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

Iteration: 1
 Score =  185 bits (469), Expect = 2e-47,   Method: Compositional matrix adjust.
 Identities = 96/198 (48%), Positives = 134/198 (67%), Gaps = 5/198 (2%)
Query: 15  YADQLATGVVLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTK-NKDAPMMLDRI 73
           +A QLA+  VLPM ++   ELG+ EIL  AG G  L+ +++AA+L +  N +AP M+DRI
Sbjct: 23  FALQLASSSVLPMTLKNAIELGLLEILVAAG-GKSLTPTEVAAKLPSAANPEAPDMVDRI 81
Query: 74  LRLLASYSVVECSLDASGARRL---YSLNSVSKYYVPNKDGVLLGPLIQIIQDKVILESW 130
           LRLLASY+VV C ++     RL   Y    V K+  PN+DGV +  L  + QDKV++ESW
Sbjct: 82  LRLLASYNVVTCLVEEGKDGRLSRSYGAAPVCKFLTPNEDGVSMAALALMNQDKVLMESW 141
Query: 131 SQLKDAILEGGIPFNRAHGVHIFEYAGLNPRFNKHFNAAMYNYTSLVMSNILESYKGFDN 190
             LKDA+L+GGIPFN+A+G+  FEY G +PRFN+ FN  M N++ ++   +LE Y GF+ 
Sbjct: 142 YYLKDAVLDGGIPFNKAYGMSAFEYHGTDPRFNRVFNEGMKNHSIIITKKLLELYHGFEG 201
Query: 191 IKQLVDVGGSLGVTLQAI 208
           +  LVDVGG +G T+ AI
Sbjct: 202 LGTLVDVGGGVGATVAAI 219

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

Iteration: 1
 Score =  127 bits (318), Expect = 5e-30,   Method: Compositional matrix adjust.
 Identities = 77/209 (36%), Positives = 117/209 (55%), Gaps = 7/209 (3%)
Query: 9   RDQSFAYADQLATGVVLPMAIQAVYELGIFEILDKAGP-GTKLSASDIAAQLL--TKNKD 65
            D +   A  L T +V P  + A  +L +FEI+ KA P G  +S S+IA++L   T++ D
Sbjct: 21  EDSACLSAMVLTTNLVYPAVLNAAIDLNLFEIIAKATPPGAFMSPSEIASKLPASTQHSD 80
Query: 66  APMMLDRILRLLASYSVVECS---LDASGARRLYSLNSVSKYYVPNKDGVLLGPLIQIIQ 122
            P  LDR+LRLLASYSV+  +   ++  GA R+Y L+ V KY VP++    L      + 
Sbjct: 81  LPNRLDRMLRLLASYSVLTSTTRTIEDGGAERVYGLSMVGKYLVPDESRGYLASFTTFLC 140
Query: 123 DKVILESWSQLKDAILEGGIP-FNRAHGVHIFEYAGLNPRFNKHFNAAMYNYTSLVMSNI 181
              +L+ W   K+A+++  I  F   HGV  +E+ G + + N+ FN +M +  +  M  +
Sbjct: 141 YPALLQVWMNFKEAVVDEDIDLFKNVHGVTKYEFMGKDKKMNQIFNKSMVDVCATEMKRM 200
Query: 182 LESYKGFDNIKQLVDVGGSLGVTLQAITT 210
           LE Y GF+ I  LVDVGG  G  L+ I +
Sbjct: 201 LEIYTGFEGISTLVDVGGGSGRNLELIIS 229

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

Iteration: 1
 Score =  104 bits (259), Expect = 4e-23,   Method: Compositional matrix adjust.
 Identities = 75/207 (36%), Positives = 111/207 (53%), Gaps = 7/207 (3%)
Query: 9   RDQSFAYADQLATGVVLPMAIQAVYELGIFEILDKAGP-GTKLSASDIAAQLL--TKNKD 65
            D +   A  L T +V P  + A  +L +FEI+ KA P G   S S+IA++L   T++ D
Sbjct: 21  EDSACLSAXVLTTNLVYPAVLNAAIDLNLFEIIAKATPPGAFXSPSEIASKLPASTQHSD 80
Query: 66  APMMLDRILRLLASYSVVECS---LDASGARRLYSLNSVSKYYVPNKDGVLLGPLIQIIQ 122
            P  LDR LRLLASYSV+  +   ++  GA R+Y L+ V KY VP++    L      + 
Sbjct: 81  LPNRLDRXLRLLASYSVLTSTTRTIEDGGAERVYGLSXVGKYLVPDESRGYLASFTTFLC 140
Query: 123 DKVILESWSQLKDAILEGGIP-FNRAHGVHIFEYAGLNPRFNKHFNAAMYNYTSLVMSNI 181
              +L+ W   K+A+++  I  F   HGV  +E+ G + + N+ FN +  +  +      
Sbjct: 141 YPALLQVWXNFKEAVVDEDIDLFKNVHGVTKYEFXGKDKKXNQIFNKSXVDVCATEXKRX 200
Query: 182 LESYKGFDNIKQLVDVGGSLGVTLQAI 208
           LE Y GF+ I  LVDVGG  G  L+ I
Sbjct: 201 LEIYTGFEGISTLVDVGGGSGRNLELI 227

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

Iteration: 1
 Score = 52.8 bits (125), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 38/139 (27%), Positives = 65/139 (46%), Gaps = 5/139 (3%)
Query: 72  RILRLLASYSVVECSLDASGARRLYSLNSVSKYYVPNKDGVLLGPLIQIIQDKVILESWS 131
           R++R LA     E     +     Y+L   S+  V   D + L P+++ + D  +  S+ 
Sbjct: 73  RLMRYLAHNGFFEI---ITKEEESYALTVASELLVRGSD-LCLAPMVECVLDPTLSGSYH 128
Query: 132 QLKDAILEGGIP-FNRAHGVHIFEYAGLNPRFNKHFNAAMYNYTSLVMSNILESYKGFDN 190
           +LK  I E  +  F    G   +++   NP +N  FN AM + + L+   + +    FD 
Sbjct: 129 ELKKWIYEEDLTLFGVTLGSGFWDFLDKNPEYNTSFNDAMASDSKLINLALRDCDFVFDG 188
Query: 191 IKQLVDVGGSLGVTLQAIT 209
           ++ +VDVGG  G T + I 
Sbjct: 189 LESIVDVGGGTGTTAKIIC 207

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

Iteration: 1
 Score = 47.4 bits (111), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 37/139 (26%), Positives = 62/139 (44%), Gaps = 5/139 (3%)
Query: 72  RILRLLASYSVVECSLDASGARRLYSLNSVSKYYVPNKDGVLLGPLIQIIQDKVILESWS 131
           R+ R LA     E     +     Y+L   S+  V   D + L P ++ + D  +  S+ 
Sbjct: 73  RLXRYLAHNGFFEI---ITKEEESYALTVASELLVRGSD-LCLAPXVECVLDPTLSGSYH 128
Query: 132 QLKDAILEGGIP-FNRAHGVHIFEYAGLNPRFNKHFNAAMYNYTSLVMSNILESYKGFDN 190
           +LK  I E  +  F    G   +++   NP +N  FN A  + + L+   + +    FD 
Sbjct: 129 ELKKWIYEEDLTLFGVTLGSGFWDFLDKNPEYNTSFNDAXASDSKLINLALRDCDFVFDG 188
Query: 191 IKQLVDVGGSLGVTLQAIT 209
           ++ +VDVGG  G T + I 
Sbjct: 189 LESIVDVGGGTGTTAKIIC 207

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

Iteration: 1
 Score = 47.4 bits (111), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 46/204 (22%), Positives = 90/204 (44%), Gaps = 9/204 (4%)
Query: 9   RDQSFAYADQLATGVVLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPM 68
           + Q+  Y +  A   V  M+++   E+ I  I+   G    LS      Q+ +   D   
Sbjct: 15  KAQALLYKNMYA--FVDSMSLKWSIEMNIPNIIHNHGKPITLSNLVSILQIPSTKVDN-- 70
Query: 69  MLDRILRLLASYSVVE--CSLDASGARRLYSLNSVSKYYVPNKDGVLLGPLIQIIQDKVI 126
            + R++R LA     E   + +       Y+L   S+  V   + + L P+++ + D  +
Sbjct: 71  -VQRLMRYLAHNGFFEIITNQELENEEEAYALTVASELLVKGTE-LCLAPMVECVLDPTL 128
Query: 127 LESWSQLKDAILEGGIP-FNRAHGVHIFEYAGLNPRFNKHFNAAMYNYTSLVMSNILESY 185
             S+  LK  + E  +  F    G  ++E+   NP +N  +N A+ + + ++   + +  
Sbjct: 129 STSFHNLKKWVYEEDLTLFAVNLGCDLWEFLNKNPEYNTLYNDALASDSKMINLAMKDCN 188
Query: 186 KGFDNIKQLVDVGGSLGVTLQAIT 209
             F+ ++ +VDVGG  G T + I 
Sbjct: 189 LVFEGLESIVDVGGGNGTTGKIIC 212

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	210
3reo_A	368	(ISO)eugenol O-methyltransferase; directed evoluti	2e-67
1fp1_D	372	Isoliquiritigenin 2'-O-methyltransferase; protein-	6e-64
3p9c_A	364	Caffeic acid O-methyltransferase; S-adenosylmethio	1e-62
1fp2_A	352	Isoflavone O-methyltransferase; protein-product co	5e-57
1zg3_A	358	Isoflavanone 4'-O-methyltransferase; rossman fold,	5e-55
1qzz_A	374	RDMB, aclacinomycin-10-hydroxylase; anthracycline,	5e-53
3lst_A	348	CALO1 methyltransferase; calicheamicin, enediyne,	1e-52
3gwz_A	369	MMCR; methyltransferase, mitomycin, S-adenosyl met	2e-52
3i53_A	332	O-methyltransferase; CO-complex, rossmann-like fol	4e-51
1tw3_A	360	COMT, carminomycin 4-O-methyltransferase; anthracy	1e-50
2ip2_A	334	Probable phenazine-specific methyltransferase; pyo	1e-44
2r3s_A	335	Uncharacterized protein; methyltransferase domain,	5e-35
1x19_A	359	CRTF-related protein; methyltransferase, bacterioc	5e-33
3dp7_A	363	SAM-dependent methyltransferase; structural genomi	2e-32
3mcz_A	352	O-methyltransferase; adomet_mtases, S-adenosylmeth	4e-31

>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 =  210 bits (536), Expect = 2e-67
 Identities = 98/207 (47%), Positives = 134/207 (64%), Gaps = 4/207 (1%)

Query: 6   DGERDQSFAYADQLATGVVLPMAIQAVYELGIFEILDKAG-PGTKLSASDIAAQLLTKNK 64
               +++  +A QLA+  VLPMA++A  EL + EI+ K+  P   +S ++IAAQL T N 
Sbjct: 15  HSSDEEANLFAMQLASAAVLPMALKAAIELDVLEIMAKSVPPSGYISPAEIAAQLPTTNP 74

Query: 65  DAPMMLDRILRLLASYSVVECSL---DASGARRLYSLNSVSKYYVPNKDGVLLGPLIQII 121
           +AP+MLDR+LRLLASYSVV  +L    +    RLY L  V K+   N+DGV L P + + 
Sbjct: 75  EAPVMLDRVLRLLASYSVVTYTLRELPSGKVERLYGLAPVCKFLTKNEDGVSLAPFLLLA 134

Query: 122 QDKVILESWSQLKDAILEGGIPFNRAHGVHIFEYAGLNPRFNKHFNAAMYNYTSLVMSNI 181
            DKV+LE W  LKDAILEGGIPFN+A+G++IF+Y G + R NK FN  M + +++ M  I
Sbjct: 135 TDKVLLEPWFYLKDAILEGGIPFNKAYGMNIFDYHGTDHRINKVFNKGMSSNSTITMKKI 194

Query: 182 LESYKGFDNIKQLVDVGGSLGVTLQAI 208
           LE Y GF+ +  +VDVGG  G     I
Sbjct: 195 LEMYNGFEGLTTIVDVGGGTGAVASMI 221

>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 =  201 bits (513), Expect = 6e-64
 Identities = 77/215 (35%), Positives = 117/215 (54%), Gaps = 7/215 (3%)

Query: 1   MDSIVDGERDQSFAYADQLATGVVLPMAIQAVYELGIFEILDKAG-PGTKLSASDIAAQL 59
           + +  +   D +   A  L T +V P  + A  +L +FEI+ KA  PG  +S S+IA++L
Sbjct: 13  ISATSEQTEDSACLSAMVLTTNLVYPAVLNAAIDLNLFEIIAKATPPGAFMSPSEIASKL 72

Query: 60  --LTKNKDAPMMLDRILRLLASYSVVECSLDAS---GARRLYSLNSVSKYYVPNKDGVLL 114
              T++ D P  LDR+LRLLASYSV+  +       GA R+Y L+ V KY VP++    L
Sbjct: 73  PASTQHSDLPNRLDRMLRLLASYSVLTSTTRTIEDGGAERVYGLSMVGKYLVPDESRGYL 132

Query: 115 GPLIQIIQDKVILESWSQLKDAILEGGI-PFNRAHGVHIFEYAGLNPRFNKHFNAAMYNY 173
                 +    +L+ W   K+A+++  I  F   HGV  +E+ G + + N+ FN +M + 
Sbjct: 133 ASFTTFLCYPALLQVWMNFKEAVVDEDIDLFKNVHGVTKYEFMGKDKKMNQIFNKSMVDV 192

Query: 174 TSLVMSNILESYKGFDNIKQLVDVGGSLGVTLQAI 208
            +  M  +LE Y GF+ I  LVDVGG  G  L+ I
Sbjct: 193 CATEMKRMLEIYTGFEGISTLVDVGGGSGRNLELI 227

>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 =  197 bits (503), Expect = 1e-62
 Identities = 95/205 (46%), Positives = 134/205 (65%), Gaps = 5/205 (2%)

Query: 8   ERDQSFAYADQLATGVVLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLT-KNKDA 66
             + +  +A QLA+  VLPM ++   ELG+ EIL  AG G  L+ +++AA+L +  N +A
Sbjct: 16  ADEDACMFALQLASSSVLPMTLKNAIELGLLEILVAAG-GKSLTPTEVAAKLPSAANPEA 74

Query: 67  PMMLDRILRLLASYSVVECSL---DASGARRLYSLNSVSKYYVPNKDGVLLGPLIQIIQD 123
           P M+DRILRLLASY+VV C +         R Y    V K+  PN+DGV +  L  + QD
Sbjct: 75  PDMVDRILRLLASYNVVTCLVEEGKDGRLSRSYGAAPVCKFLTPNEDGVSMAALALMNQD 134

Query: 124 KVILESWSQLKDAILEGGIPFNRAHGVHIFEYAGLNPRFNKHFNAAMYNYTSLVMSNILE 183
           KV++ESW  LKDA+L+GGIPFN+A+G+  FEY G +PRFN+ FN  M N++ ++   +LE
Sbjct: 135 KVLMESWYYLKDAVLDGGIPFNKAYGMSAFEYHGTDPRFNRVFNEGMKNHSIIITKKLLE 194

Query: 184 SYKGFDNIKQLVDVGGSLGVTLQAI 208
            Y GF+ +  LVDVGG +G T+ AI
Sbjct: 195 LYHGFEGLGTLVDVGGGVGATVAAI 219

>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 =  183 bits (465), Expect = 5e-57
 Identities = 50/213 (23%), Positives = 93/213 (43%), Gaps = 12/213 (5%)

Query: 1   MDSIVDGERD----QSFAYADQLATGVVLPMAIQAVYELGIFEILDKAGPGTKLSASDIA 56
           M S ++G +     ++ A   +     +  M+++   E+ I  I+   G     S S++ 
Sbjct: 1   MASSINGRKPSEIFKAQALLYKHIYAFIDSMSLKWAVEMNIPNIIQNHGKPI--SLSNLV 58

Query: 57  AQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSVSKYYVPNKDGVLLGP 116
           + L   +      + R++R LA     E     +     Y+L   S+  V   D  L  P
Sbjct: 59  SILQVPSSKIGN-VRRLMRYLAHNGFFEII---TKEEESYALTVASELLVRGSDLCL-AP 113

Query: 117 LIQIIQDKVILESWSQLKDAILEGGI-PFNRAHGVHIFEYAGLNPRFNKHFNAAMYNYTS 175
           +++ + D  +  S+ +LK  I E  +  F    G   +++   NP +N  FN AM + + 
Sbjct: 114 MVECVLDPTLSGSYHELKKWIYEEDLTLFGVTLGSGFWDFLDKNPEYNTSFNDAMASDSK 173

Query: 176 LVMSNILESYKGFDNIKQLVDVGGSLGVTLQAI 208
           L+   + +    FD ++ +VDVGG  G T + I
Sbjct: 174 LINLALRDCDFVFDGLESIVDVGGGTGTTAKII 206

>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 =  178 bits (452), Expect = 5e-55
 Identities = 46/212 (21%), Positives = 84/212 (39%), Gaps = 13/212 (6%)

Query: 6   DGERDQSFAYADQLATGVVLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKD 65
           + E   +  +  +     V  MA+++  ELGI + +   G    ++ S++A+ L   +  
Sbjct: 4   ESELYHAQIHLYKHVYNFVSSMALKSAMELGIADAIHNHGKP--MTLSELASSLKL-HPS 60

Query: 66  APMMLDRILRLLASYSVVECSLDASG-----ARRLYSLNSVSKYYVPNKDGVLLGPLIQI 120
              +L R LRLL        ++             YSL   SK  +  K    L  +++ 
Sbjct: 61  KVNILHRFLRLLTHNGFFAKTIVKGKEGDEEEEIAYSLTPPSKLLISGKPT-CLSSIVKG 119

Query: 121 IQDKVILESWSQLKDAILEGG--IPFNRAHGVHIFEYAGLNPRFN--KHFNAAMYNYTSL 176
                 L+ WS  K    E      F  A G   +++   +   +    F  AM + + +
Sbjct: 120 ALHPSSLDMWSSSKKWFNEDKEQTLFECATGESFWDFLNKDSESSTLSMFQDAMASDSRM 179

Query: 177 VMSNILESYKGFDNIKQLVDVGGSLGVTLQAI 208
               + E+ + F+ ++ LVDVGG  G   + I
Sbjct: 180 FKLVLQENKRVFEGLESLVDVGGGTGGVTKLI 211

>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 =  173 bits (440), Expect = 5e-53
 Identities = 43/212 (20%), Positives = 73/212 (34%), Gaps = 16/212 (7%)

Query: 1   MDSIVDGER----DQSFAYADQLATGVVLPMAIQAVYELGIFEILDKAGPGTKLSASDIA 56
           M S   GE     DQ      +    +V PMA++    L + + L  AG     + + +A
Sbjct: 1   MSSSSPGEPLEPTDQDLDVLLKNLGNLVTPMALRVAATLRLVDHL-LAGA---DTLAGLA 56

Query: 57  AQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSVSKYYVPNKDGVLLGP 116
            +  T     P  L R++R L    V+E         R      +               
Sbjct: 57  DRTDT----HPQALSRLVRHLTVVGVLEGGEKQ---GRPLRPTRLGMLLADGHPAQQRAW 109

Query: 117 LIQIIQDKVILESWSQLKDAILEGGIPFNRAHGVHIFEYAGLNPRFNKHFNAAMYNYTSL 176
           L           +++ L D +  G   +   +G   +E    +      F+A M     L
Sbjct: 110 LDLNGAVSHADLAFTGLLDVVRTGRPAYAGRYGRPFWEDLSADVALADSFDALMSCDEDL 169

Query: 177 VMSNILESYKGFDNIKQLVDVGGSLGVTLQAI 208
                 ++Y  +  ++ ++DVGG  G  L AI
Sbjct: 170 AYEAPADAYD-WSAVRHVLDVGGGNGGMLAAI 200

>3lst_A CALO1 methyltransferase; calicheamicin, enediyne, SAH, STRU genomics, PSI-2, protein structure initiative; HET: SAH; 2.40A {Micromonospora echinospora} Length = 348

 Score =  171 bits (435), Expect = 1e-52
 Identities = 41/203 (20%), Positives = 70/203 (34%), Gaps = 16/203 (7%)

Query: 6   DGERDQSFAYADQLATGVVLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKD 65
           D +R QS     + A G     A++A   +G+ + L   GP    + +++AA   T    
Sbjct: 16  DMDRLQSALALYEEAMGYTYAAALRAAAAVGVADHL-VDGP---RTPAELAAATGTD--- 68

Query: 66  APMMLDRILRLLASYSVVECSLDASGARRLYSLNSVSKYYVPNKDGVLLGPLIQIIQDKV 125
               L R+LRLLA   VV  S         ++L         +   V     I +  D +
Sbjct: 69  -ADALRRVLRLLAVRDVVRES------DGRFALTDKGAALRSD-SPVPARAGILMFTDTM 120

Query: 126 ILESWSQLKDAILEGGIPFNRAHGVHIFEYAGLNPRFNKHFNAAMYNYTSLVMSNILESY 185
                 ++  A+      F    G  +  Y   +      +   M   ++     +  + 
Sbjct: 121 FWTMSHRVASALGPERPAFADIFGSSLDAYFDGDAEVEALYYEGMETVSAAEHLILARAG 180

Query: 186 KGFDNIKQLVDVGGSLGVTLQAI 208
             F     + DVGG  G  L  +
Sbjct: 181 -DFPATGTVADVGGGRGGFLLTV 202

>3gwz_A MMCR; methyltransferase, mitomycin, S-adenosyl methionine, transferase; HET: MSE SAH; 1.91A {Streptomyces lavendulae} PDB: 3gxo_A* Length = 369

 Score =  171 bits (435), Expect = 2e-52
 Identities = 46/201 (22%), Positives = 83/201 (41%), Gaps = 14/201 (6%)

Query: 8   ERDQSFAYADQLATGVVLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAP 67
            R  +    + +  G     AI    ELG+ E+L + GP    +A+ +A           
Sbjct: 34  ARAAAEETVNDILQGAWKARAIHVAVELGVPELLQE-GP---RTATALAEATGAH----E 85

Query: 68  MMLDRILRLLASYSVVECSLDASGARRLYSLNSVSKYYVPNKDGVLLGPLIQIIQDKVIL 127
             L R+LRLLA+  V +      G   L++ N++S   +P+     +    +        
Sbjct: 86  QTLRRLLRLLATVGVFDDL----GHDDLFAQNALSAVLLPD-PASPVATDARFQAAPWHW 140

Query: 128 ESWSQLKDAILEGGIPFNRAHGVHIFEYAGLNPRFNKHFNAAMYNYTSLVMSNILESYKG 187
            +W QL  ++  G   F+ A+G   ++    +P+  + FN AM + +      +  +Y  
Sbjct: 141 RAWEQLTHSVRTGEASFDVANGTSFWQLTHEDPKARELFNRAMGSVSLTEAGQVAAAYD- 199

Query: 188 FDNIKQLVDVGGSLGVTLQAI 208
           F      VD+GG  G  + A+
Sbjct: 200 FSGAATAVDIGGGRGSLMAAV 220

>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 =  167 bits (424), Expect = 4e-51
 Identities = 40/202 (19%), Positives = 75/202 (37%), Gaps = 16/202 (7%)

Query: 7   GERDQSFAYADQLATGVVLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDA 66
           G+R        +    +  PMA++    L + + +  AG     +A++IA+         
Sbjct: 2   GKRAAHIGL--RALADLATPMAVRVAATLRVADHI-AAGH---RTAAEIASAAGAH---- 51

Query: 67  PMMLDRILRLLASYSVVECSLDASGARRLYSLNSVSKYYVPNKDGVLLGPLIQIIQDKVI 126
              LDR+LR L +  +          + +Y L    +    +        L         
Sbjct: 52  ADSLDRLLRHLVAVGLFTRD-----GQGVYGLTEFGEQLRDDHAAGKRKWLDMNSAVGRG 106

Query: 127 LESWSQLKDAILEGGIPFNRAHGVHIFEYAGLNPRFNKHFNAAMYNYTSLVMSNILESYK 186
              + +L  +I  G   +   +G   +E  G +P  +  F+  M ++  L  + I   Y 
Sbjct: 107 DLGFVELAHSIRTGQPAYPVRYGTSFWEDLGSDPVLSASFDTLMSHHLELDYTGIAAKYD 166

Query: 187 GFDNIKQLVDVGGSLGVTLQAI 208
            +  +  +VDVGG  G  L A+
Sbjct: 167 -WAALGHVVDVGGGSGGLLSAL 187

>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 =  166 bits (423), Expect = 1e-50
 Identities = 34/191 (17%), Positives = 68/191 (35%), Gaps = 14/191 (7%)

Query: 18  QLATGVVLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLL 77
                +  PM ++    L + + +  AG     +   +AA+  T+    P  L R++R L
Sbjct: 25  IRLGSLHTPMVVRTAATLRLVDHIL-AGA---RTVKALAARTDTR----PEALLRLIRHL 76

Query: 78  ASYSVVECSLDASGARRLYSLNSVSKYYVPNKDGVLLGPLIQIIQDKVILESWSQLKDAI 137
            +  ++E           +    V +    +                    S+++L DAI
Sbjct: 77  VAIGLLEEDAP-----GEFVPTEVGELLADDHPAAQRAWHDLTQAVARADISFTRLPDAI 131

Query: 138 LEGGIPFNRAHGVHIFEYAGLNPRFNKHFNAAMYNYTSLVMSNILESYKGFDNIKQLVDV 197
             G   +   +G   +E     P     F++ +     +       +Y  + N++ ++DV
Sbjct: 132 RTGRPTYESIYGKPFYEDLAGRPDLRASFDSLLACDQDVAFDAPAAAY-DWTNVRHVLDV 190

Query: 198 GGSLGVTLQAI 208
           GG  G    AI
Sbjct: 191 GGGKGGFAAAI 201

>2ip2_A Probable phenazine-specific methyltransferase; pyocyanin, phenazine-1-carboxy PHZM; 1.80A {Pseudomonas aeruginosa} Length = 334

 Score =  150 bits (381), Expect = 1e-44
 Identities = 39/191 (20%), Positives = 72/191 (37%), Gaps = 19/191 (9%)

Query: 18  QLATGVVLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLL 77
           Q+ TG      +     LG+ ++++  G     S   +AA + +        + R++RLL
Sbjct: 14  QVVTGEWKSRCVYVATRLGLADLIES-GI---DSDETLAAAVGSD----AERIHRLMRLL 65

Query: 78  ASYSVVECSLDASGARRLYSLNSVSKYYVPNKDGVLLGPLIQIIQDKVILESWSQLKDAI 137
            ++ + +        R  Y+    S      +       ++    ++    +W+   +A+
Sbjct: 66  VAFEIFQGD-----TRDGYANTPTSHLLRDVEGS--FRDMVLFYGEEF-HAAWTPACEAL 117

Query: 138 LEGGIPFNRAHGVHIFEYAGLNPRFNKHFNAAMYNYTSLVMSNILESYKGFDNIKQLVDV 197
           L G   F  A G   + Y    P   + F  AM   ++L    I      F   +  VDV
Sbjct: 118 LSGTPGFELAFGEDFYSYLKRCPDAGRRFLLAM-KASNLAFHEIPRLL-DFRG-RSFVDV 174

Query: 198 GGSLGVTLQAI 208
           GG  G   +AI
Sbjct: 175 GGGSGELTKAI 185

>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 =  125 bits (316), Expect = 5e-35
 Identities = 33/191 (17%), Positives = 71/191 (37%), Gaps = 19/191 (9%)

Query: 18  QLATGVVLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLL 77
                     AI+A  EL +F  + + G     S+  +A +     + +   +  +   L
Sbjct: 12  NTVNAYQRSAAIKAAVELNVFTAISQ-GI---ESSQSLAQKC----QTSERGMRMLCDYL 63

Query: 78  ASYSVVECSLDASGARRLYSLNSVSKYYVPNKDGVLLGPLIQIIQDKVILESWSQLKDAI 137
                +            Y L S S  ++  +    +G  I+ +   +I   ++ L  A+
Sbjct: 64  VIIGFMTKQ------AEGYRLTSDSAMFLDRQSKFYVGDAIEFLLSPMITNGFNDLTAAV 117

Query: 138 LEGGIPFNRAHGVHIFEYAGLNPRFNKHFNAAMYNYTSLVMSNILESYKGFDNIKQLVDV 197
           L+GG   +      +     +  +F K  +  M N   L+   + E+    + +K ++D+
Sbjct: 118 LKGGTAISSEGT--LSPEHPVWVQFAKAMSPMMANPAQLIAQLVNEN--KIEPLK-VLDI 172

Query: 198 GGSLGVTLQAI 208
             S G+   A+
Sbjct: 173 SASHGLFGIAV 183

>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 =  120 bits (303), Expect = 5e-33
 Identities = 37/195 (18%), Positives = 74/195 (37%), Gaps = 25/195 (12%)

Query: 17  DQLATGVVLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRL 76
           + +  G++    ++A  EL +F  + + GP      + +AA   +     P  L+ +L  
Sbjct: 36  ELVFKGLIEFSCMKAAIELDLFSHMAE-GP---KDLATLAADTGS----VPPRLEMLLET 87

Query: 77  LASYSVVECSLDASGARRLYSLNSVSKYYV---PNKDGVLLGPLIQIIQDKVILESWSQL 133
           L    V+            +SL   + Y     P +  +   P+ + +   +  + +  L
Sbjct: 88  LRQMRVINLE------DGKWSLTEFADYMFSPTPKEPNLHQTPVAKAMAF-LADDFYMGL 140

Query: 134 KDAILEGGIPFNRAHGVHIFEYAGLNPRFNKHFNAAMYNYTSLVMSNILESYKGFDNIKQ 193
             A + G   F          Y  +    N +F     +     +  +LE  K  D +K+
Sbjct: 141 SQA-VRGQKNFK-----GQVPYPPVTREDNLYFEEIHRSNAKFAIQLLLEEAK-LDGVKK 193

Query: 194 LVDVGGSLGVTLQAI 208
           ++DVGG +G    A+
Sbjct: 194 MIDVGGGIGDISAAM 208

>3dp7_A SAM-dependent methyltransferase; structural genomics, protein structure initiative, NEW YORK structural genomix research; 2.33A {Bacteroides vulgatus} Length = 363

 Score =  119 bits (299), Expect = 2e-32
 Identities = 30/201 (14%), Positives = 66/201 (32%), Gaps = 18/201 (8%)

Query: 10  DQSFAYADQLATGVVLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMM 69
            ++   A ++A G V+    + + + GIF++L     G   +  +I+ +           
Sbjct: 13  AEAQRLAQEIAFGPVVFQVSRLMLKFGIFQLLSGKREG--YTLQEISGRTGL----TRYA 66

Query: 70  LDRILRLLASYSVVECSLDASGARRLYSLNSVSKYYVPNKDGVLLGPLIQIIQDKVILES 129
              +L    +   +            Y L     + + +K    +  +       V  + 
Sbjct: 67  AQVLLEASLTIGTILLE------EDRYVLAKAGWFLLNDK----MARVNMEFNHDVNYQG 116

Query: 130 WSQLKDAILEGGIPFNRAHGVH--IFEYAGLNPRFNKHFNAAMYNYTSLVMSNILESYKG 187
              L++A+L G     +  G    I+E     P   +       ++ S            
Sbjct: 117 LFHLEEALLNGRPEGLKVFGEWPTIYEGLSQLPEQVQKSWFGFDHFYSDQSFGKALEIVF 176

Query: 188 FDNIKQLVDVGGSLGVTLQAI 208
             + K+L+D+GG+ G      
Sbjct: 177 SHHPKRLLDIGGNTGKWATQC 197

>3mcz_A O-methyltransferase; adomet_mtases, S-adenosylmethionine-dependent methyltransfer structural genomics, PSI-2; HET: MSE; 1.90A {Burkholderia thailandensis} Length = 352

 Score =  115 bits (290), Expect = 4e-31
 Identities = 26/207 (12%), Positives = 68/207 (32%), Gaps = 23/207 (11%)

Query: 2   DSIVDGERDQSFAYADQLATGVVLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLT 61
           +S  D     S     +L+        +       +F++          + +++AA    
Sbjct: 14  ESTEDKAALTSVVDLVKLSDQYRQSAILHYAVADKLFDLTQTG-----RTPAEVAASFGM 68

Query: 62  KNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSVSKYYVPNKDGVLLGPLIQII 121
                      +L  LA+  ++            +   ++++ Y+       +GP+++  
Sbjct: 69  ----VEGKAAILLHALAALGLLTKE------GDAFRNTALTERYLTTTSADYIGPIVEH- 117

Query: 122 QDKVILESWSQLKDAILEGGIPFNRAHGVHIFEYAGLNPRFNKHFNAAMYNYTSLVMSNI 181
              +  ++W +L + +        +            + R    FN AM   +  ++  +
Sbjct: 118 -QYLQWDNWPRLGEILRSE-----KPLAFQQESRFAHDTRARDAFNDAMVRLSQPMVDVV 171

Query: 182 LESYKGFDNIKQLVDVGGSLGVTLQAI 208
            E    F   + ++D+ G  G  L  +
Sbjct: 172 SELG-VFARARTVIDLAGGHGTYLAQV 197

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	210
3p9c_A	364	Caffeic acid O-methyltransferase; S-adenosylmethio	100.0
3reo_A	368	(ISO)eugenol O-methyltransferase; directed evoluti	100.0
3lst_A	348	CALO1 methyltransferase; calicheamicin, enediyne,	100.0
4a6d_A	353	Hydroxyindole O-methyltransferase; melatonin, circ	100.0
3gwz_A	369	MMCR; methyltransferase, mitomycin, S-adenosyl met	99.98
1zg3_A	358	Isoflavanone 4'-O-methyltransferase; rossman fold,	99.97
1fp2_A	352	Isoflavone O-methyltransferase; protein-product co	99.97
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,	99.96
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	98.21
2heo_A	67	Z-DNA binding protein 1; protein DLM1-Z-DNA comple	97.78
1qbj_A	81	Protein (double-stranded RNA specific adenosine D	97.68
1y0u_A	96	Arsenical resistance operon repressor, putative; s	97.6
1qgp_A	77	Protein (double stranded RNA adenosine deaminase);	97.49
3b73_A	111	PHIH1 repressor-like protein; winged-helix-turn-he	97.43
3mq0_A	275	Transcriptional repressor of the blcabc operon; he	97.3
1xmk_A	79	Double-stranded RNA-specific adenosine deaminase;	97.28
3pqk_A	102	Biofilm growth-associated repressor; helix-turn-he	97.02
2y75_A	129	HTH-type transcriptional regulator CYMR; DNA bindi	96.99
3jth_A	98	Transcription activator HLYU; transcription factor	96.95
2oqg_A	114	Possible transcriptional regulator, ARSR family P;	96.94
1mkm_A	249	ICLR transcriptional regulator; structural genomic	96.94
2xrn_A	241	HTH-type transcriptional regulator TTGV; DNA-bindi	96.92
2htj_A	81	P fimbrial regulatory protein KS71A; winged helix-	96.91
1u2w_A	122	CADC repressor, cadmium efflux system accessory pr	96.91
3r4k_A	260	Transcriptional regulator, ICLR family; DNA/RNA-bi	96.9
1r1u_A	106	CZRA, repressor protein; zinc, DNA binding, transc	96.82
3cuo_A	99	Uncharacterized HTH-type transcriptional regulato;	96.73
3ech_A	142	MEXR, multidrug resistance operon repressor; winge	96.73
3f6o_A	118	Probable transcriptional regulator, ARSR family pr	96.7
2kko_A	108	Possible transcriptional regulatory protein (possi	96.68
2jsc_A	118	Transcriptional regulator RV1994C/MT2050; cadmium,	96.67
2o0y_A	260	Transcriptional regulator; ICLR-family, structural	96.67
2g7u_A	257	Transcriptional regulator; ICLR family, structural	96.66
2jt1_A	77	PEFI protein; solution structure, winged helix-tur	96.65
4a5n_A	131	Uncharacterized HTH-type transcriptional regulato;	96.62
1xn7_A	78	Hypothetical protein YHGG; alpha+beta, GFT structu	96.53
2ia2_A	265	Putative transcriptional regulator; SAD, PSI-2, st	96.53
2hzt_A	107	Putative HTH-type transcriptional regulator YTCD;	96.53
3lwf_A	159	LIN1550 protein, putative transcriptional regulato	96.5
1ub9_A	100	Hypothetical protein PH1061; helix-turn-helix moti	96.48
1ylf_A	149	RRF2 family protein; structural genomics, transcri	96.46
3t8r_A	143	Staphylococcus aureus CYMR; transcriptional regula	96.44
1on2_A	142	Transcriptional regulator MNTR; helix-turn-helix,	96.43
2k02_A	87	Ferrous iron transport protein C; FEOC, iron-sulfu	96.43
3f6v_A	151	Possible transcriptional regulator, ARSR family pr	96.34
1r1t_A	122	Transcriptional repressor SMTB; zinc, transcriptio	96.33
1r7j_A	95	Conserved hypothetical protein SSO10A; winged heli	96.32
1oyi_A	82	Double-stranded RNA-binding protein; (alpha+beta)	96.31
2wte_A	244	CSA3; antiviral protein, viral resistance, winged	96.16
2lnb_A	80	Z-DNA-binding protein 1; structural genomics, nort	96.08
3k69_A	162	Putative transcription regulator; putative transcr	96.06
3df8_A	111	Possible HXLR family transcriptional factor; APC89	96.05
3r0a_A	123	Putative transcriptional regulator; structural gen	96.03
3fm5_A	150	Transcriptional regulator; MCSG, PF04017, PSI, MAR	95.98
2hr3_A	147	Probable transcriptional regulator; MCSG, structur	95.97
1xd7_A	145	YWNA; structural genomics, protein structure initi	95.94
2fu4_A	83	Ferric uptake regulation protein; DNA binding doma	95.83
1z7u_A	112	Hypothetical protein EF0647; winged-helix-turn-hel	95.81
2fsw_A	107	PG_0823 protein; alpha-beta structure, helix-turn-	95.8
2h09_A	155	Transcriptional regulator MNTR; transcription regu	95.78
2lkp_A	119	Transcriptional regulator, ARSR family; symmetric	95.75
2x4h_A	139	Hypothetical protein SSO2273; transcription; 2.30A	95.75
2f2e_A	146	PA1607; transcription factor, helix-TRUN-helix, AP	95.73
3vc1_A	312	Geranyl diphosphate 2-C-methyltransferase; rossman	95.7
3bdd_A	142	Regulatory protein MARR; putative multiple antibio	95.59
1sfx_A	109	Conserved hypothetical protein AF2008; structural	95.58
3k0l_A	162	Repressor protein; helix-turn-helix, structural ge	95.51
3bja_A	139	Transcriptional regulator, MARR family, putative;	95.51
2zkz_A	99	Transcriptional repressor PAGR; protein-DNA, HTH m	95.5
1tbx_A	99	ORF F-93, hypothetical 11.0 kDa protein; sulfolobu	95.49
1jg1_A	235	PIMT;, protein-L-isoaspartate O-methyltransferase;	95.47
3g3z_A	145	NMB1585, transcriptional regulator, MARR family; t	95.41
1yyv_A	131	Putative transcriptional regulator; reductive meth	95.38
3dli_A	240	Methyltransferase; PSI-II, NYSGXRC, structural gen	95.38
3hsr_A	140	HTH-type transcriptional regulator SARZ; helix-tur	95.35
3bpv_A	138	Transcriptional regulator; MARR, DNA binding, tran	95.33
3bro_A	141	Transcriptional regulator; helix_TURN_helix, multi	95.33
2nnn_A	140	Probable transcriptional regulator; structural gen	95.3
3nrv_A	148	Putative transcriptional regulator (MARR/EMRR FAM;	95.28
2a61_A	145	Transcriptional regulator TM0710; APC4350, MCSG, m	95.27
1s3j_A	155	YUSO protein; structural genomics, MARR transcript	95.26
2bv6_A	142	MGRA, HTH-type transcriptional regulator MGRA; mul	95.24
3oop_A	143	LIN2960 protein; protein structure initiative, PSI	95.23
3bj6_A	152	Transcriptional regulator, MARR family; helix-turn	95.22
2qvo_A	95	Uncharacterized protein AF_1382; PSI, structural g	95.17
1jgs_A	138	Multiple antibiotic resistance protein MARR; trans	95.14
3bkw_A	243	MLL3908 protein, S-adenosylmethionine dependent me	95.12
2fa5_A	162	Transcriptional regulator MARR/EMRR family; multip	95.11
1q1h_A	110	TFE, transcription factor E, TFE; TFIIE, transcrip	95.11
3ou2_A	218	SAM-dependent methyltransferase; O-methyltransfera	95.11
2rdp_A	150	Putative transcriptional regulator MARR; PFAM PF01	95.09
2pg4_A	95	Uncharacterized protein; structural genomics, join	95.07
1xtp_A	254	LMAJ004091AAA; SGPP, structural genomics, PSI, pro	95.07
2pex_A	153	Transcriptional regulator OHRR; transcription regu	95.04
3boq_A	160	Transcriptional regulator, MARR family; MARR famil	94.94
3cdh_A	155	Transcriptional regulator, MARR family; helix-turn	94.94
2fbh_A	146	Transcriptional regulator PA3341; MARR, transcript	94.93
2nyx_A	168	Probable transcriptional regulatory protein, RV14;	94.84
1bja_A	95	Transcription regulatory protein MOTA; activation	94.83
3bus_A	273	REBM, methyltransferase; rebeccamycin synthesis; H	94.81
3tgn_A	146	ADC operon repressor ADCR; helix-turn-helix, trans	94.8
3deu_A	166	Transcriptional regulator SLYA; MARR, WING-helix,	94.79
3f3x_A	144	Transcriptional regulator, MARR family, putative;	94.77
2obp_A	96	Putative DNA-binding protein; structural genomics,	94.76
2cfx_A	144	HTH-type transcriptional regulator LRPC; transcrip	94.74
2eth_A	154	Transcriptional regulator, putative, MAR family; M	94.73
1lj9_A	144	Transcriptional regulator SLYA; HTH DNA binding pr	94.72
3s2w_A	159	Transcriptional regulator, MARR family; structural	94.71
2gxg_A	146	146AA long hypothetical transcriptional regulator;	94.71
3e6m_A	161	MARR family transcriptional regulator; APC88769, s	94.7
2qww_A	154	Transcriptional regulator, MARR family; YP_013417.	94.68
2w25_A	150	Probable transcriptional regulatory protein; trans	94.67
2fbi_A	142	Probable transcriptional regulator; MARR, APC5816,	94.63
1z91_A	147	Organic hydroperoxide resistance transcriptional;	94.62
3cjn_A	162	Transcriptional regulator, MARR family; silicibact	94.6
4hbl_A	149	Transcriptional regulator, MARR family; HTH, trans	94.58
4g6q_A	182	Putative uncharacterized protein; structural genom	94.57
3eco_A	139	MEPR; mutlidrug efflux pump regulator winged helix	94.56
3hrs_A	214	Metalloregulator SCAR; DTXR/MNTR family member, tr	94.55
2p4w_A	202	Transcriptional regulatory protein ARSR family; ar	94.52
3kp7_A	151	Transcriptional regulator TCAR; multiple drug resi	94.5
1p6r_A	82	Penicillinase repressor; transcription regulation,	94.49
3dlc_A	219	Putative S-adenosyl-L-methionine-dependent methylt	94.48
3g5l_A	253	Putative S-adenosylmethionine dependent methyltran	94.47
2zfu_A	215	Nucleomethylin, cerebral protein 1; nucleolar prot	94.47
3iv6_A	261	Putative Zn-dependent alcohol dehydrogenase; alpha	94.44
2p5v_A	162	Transcriptional regulator, LRP/ASNC family; NMB057	94.43
2pn6_A	150	ST1022, 150AA long hypothetical transcriptional re	94.42
3ofk_A	216	Nodulation protein S; NODS, N-methyltransferase, S	94.4
4gek_A	261	TRNA (CMO5U34)-methyltransferase; structural genom	94.37
4aik_A	151	Transcriptional regulator SLYA; transcription, tra	94.36
3hem_A	302	Cyclopropane-fatty-acyl-phospholipid synthase 2; p	94.34
3cgg_A	195	SAM-dependent methyltransferase; NP_600671.1, meth	94.27
2o57_A	297	Putative sarcosine dimethylglycine methyltransfera	94.26
1dus_A	194	MJ0882; hypothetical protein, methanococcus jannas	94.21
3bkx_A	275	SAM-dependent methyltransferase; YP_807781.1, cycl	94.19
2d1h_A	109	ST1889, 109AA long hypothetical transcriptional re	94.18
3ujc_A	266	Phosphoethanolamine N-methyltransferase; parasite;	94.12
2dbb_A	151	Putative HTH-type transcriptional regulator PH006;	94.1
3u2r_A	168	Regulatory protein MARR; structural genomics, PSI-	94.08
2cg4_A	152	Regulatory protein ASNC; DNA binding, FFRP, LRP fa	94.07
3pfg_A	263	N-methyltransferase; N,N-dimethyltransferase, SAM	94.02
1yb2_A	275	Hypothetical protein TA0852; structural genomics,	93.98
1uly_A	192	Hypothetical protein PH1932; helix-turn-helix, str	93.96
2qlz_A	232	Transcription factor PF0095; 2.50A {Pyrococcus fur	93.94
4e2x_A	416	TCAB9; kijanose, tetronitrose, tetradeoxy sugar, s	93.94
2cyy_A	151	Putative HTH-type transcriptional regulator PH151;	93.93
2frh_A	127	SARA, staphylococcal accessory regulator A; winged	93.91
2ia0_A	171	Putative HTH-type transcriptional regulator PF086;	93.89
4htf_A	285	S-adenosylmethionine-dependent methyltransferase;	93.88
1ku9_A	152	Hypothetical protein MJ223; putative transcription	93.84
3e05_A	204	Precorrin-6Y C5,15-methyltransferase (decarboxyla;	93.83
1j5y_A	187	Transcriptional regulator, biotin repressor famil;	93.82
1kpg_A	287	CFA synthase;, cyclopropane-fatty-acyl-phospholipi	93.81
1okr_A	123	MECI, methicillin resistance regulatory protein ME	93.8
2fk8_A	318	Methoxy mycolic acid synthase 4; S-adenosylmethion	93.7
3dtn_A	234	Putative methyltransferase MM_2633; structural gen	93.68
1i9g_A	280	Hypothetical protein RV2118C; mtase, adoMet, cryst	93.64
2o03_A	131	Probable zinc uptake regulation protein FURB; DNA-	93.63
1i1g_A	141	Transcriptional regulator LRPA; helix-turn-helix,	93.62
2fxa_A	207	Protease production regulatory protein HPR; protea	93.6
2y1w_A	348	Histone-arginine methyltransferase CARM1; histone	93.6
4fx0_A	148	Probable transcriptional repressor protein; helix-	93.56
2fbk_A	181	Transcriptional regulator, MARR family; winged-hel	93.54
2e1c_A	171	Putative HTH-type transcriptional regulator PH151;	93.54
3k2z_A	196	LEXA repressor; winged helix-turn-helix, SOS syste	93.53
2dk5_A	91	DNA-directed RNA polymerase III 39 kDa polypeptide	93.5
3jw4_A	148	Transcriptional regulator, MARR/EMRR family; DNA-b	93.46
2k4b_A	99	Transcriptional regulator; DNA binding protein, wi	93.46
3b3j_A	480	Histone-arginine methyltransferase CARM1; protein	93.46
3i4p_A	162	Transcriptional regulator, ASNC family; PSI, struc	93.42
3kkz_A	267	Uncharacterized protein Q5LES9; putative methyltra	93.35
3e8s_A	227	Putative SAM dependent methyltransferase; NP_74470	93.33
1sfu_A	75	34L protein; protein/Z-DNA complex, DNA binding pr	93.31
1jsx_A	207	Glucose-inhibited division protein B; methyltransf	93.26
3nqo_A	189	MARR-family transcriptional regulator; structural	93.17
3njr_A	204	Precorrin-6Y methylase; methyltransferase, decarbo	93.14
3lbf_A	210	Protein-L-isoaspartate O-methyltransferase; modifi	93.12
3f4k_A	257	Putative methyltransferase; structural genomics, P	93.09
3g2m_A	299	PCZA361.24; SAM-dependent methyltransferase, glyco	93.07
2fe3_A	145	Peroxide operon regulator; oxidative stress regula	93.06
2aot_A	292	HMT, histamine N-methyltransferase; classic methyl	92.97
3uzu_A	279	Ribosomal RNA small subunit methyltransferase A; s	92.95
2avd_A	229	Catechol-O-methyltransferase; structural genomics,	92.93
1vbf_A	231	231AA long hypothetical protein-L-isoaspartate O-	92.85
3u1d_A	151	Uncharacterized protein; GNTR-superfamily, structu	92.79
2fyt_A	340	Protein arginine N-methyltransferase 3; structural	92.79
3hnr_A	220	Probable methyltransferase BT9727_4108; structural	92.75
3e23_A	211	Uncharacterized protein RPA2492; alpha-beta protei	92.71
1wzn_A	252	SAM-dependent methyltransferase; structural genomi	92.7
3thr_A	293	Glycine N-methyltransferase; GNMT, folate, methylt	92.7
1u2z_A	433	Histone-lysine N-methyltransferase, H3 lysine-79 s	92.66
3fut_A	271	Dimethyladenosine transferase; methyltransferase,	92.63
3orh_A	236	Guanidinoacetate N-methyltransferase; structura ge	92.54
3fzg_A	200	16S rRNA methylase; methyltransferase, plasmid, tr	92.49
3ccf_A	279	Cyclopropane-fatty-acyl-phospholipid synthase; YP_	92.46
1fbn_A	230	MJ fibrillarin homologue; MJ proteins, ribosomal R	92.46
2yxe_A	215	Protein-L-isoaspartate O-methyltransferase; rossma	92.43
3mb5_A	255	SAM-dependent methyltransferase; RNA methyltransfe	92.43
2hoe_A	380	N-acetylglucosamine kinase; TM1224, structural gen	92.42
2ex4_A	241	Adrenal gland protein AD-003; methyltransferase, s	92.42
2h1r_A	299	Dimethyladenosine transferase, putative; SGC toron	92.4
2vn2_A	128	DNAD, chromosome replication initiation protein; D	92.4
2esh_A	118	Conserved hypothetical protein TM0937; APC5794, st	92.39
3gru_A	295	Dimethyladenosine transferase; rossman fold, ribos	92.36
2fhp_A	187	Methylase, putative; alpha-beta-alpha sandwich, st	92.35
2xvc_A	59	ESCRT-III, SSO0910; cell cycle, cell division, cyt	92.21
1nt2_A	210	Fibrillarin-like PRE-rRNA processing protein; adeM	92.09
3uwp_A	438	Histone-lysine N-methyltransferase, H3 lysine-79;	91.95
2p7i_A	250	Hypothetical protein; putative methyltransferase,	91.92
2pwy_A	258	TRNA (adenine-N(1)-)-methyltransferase; mtase, ado	91.91
1vlm_A	219	SAM-dependent methyltransferase; possible histamin	91.91
1yzh_A	214	TRNA (guanine-N(7)-)-methyltransferase; alpha-beta	91.8
1zx0_A	236	Guanidinoacetate N-methyltransferase; structural g	91.79
2yvl_A	248	TRMI protein, hypothetical protein; tRNA, methyltr	91.77
2g9w_A	138	Conserved hypothetical protein; DNA-binding domain	91.61
2xig_A	150	Ferric uptake regulation protein; hpfur, transcrip	91.52
1v4r_A	102	Transcriptional repressor; helix-turn-helix, winge	91.5
1sd4_A	126	Penicillinase repressor; BLAI, MECI, methicillin,	91.47
3m33_A	226	Uncharacterized protein; structural genomics, PSI-	91.46
3tfw_A	248	Putative O-methyltransferase; PSI-biology, nysgrc,	91.45
3ckk_A	235	TRNA (guanine-N(7)-)-methyltransferase; mettl1, S-	91.33
2oxt_A	265	Nucleoside-2'-O-methyltransferase; flavivirus, vir	91.29
1g8a_A	227	Fibrillarin-like PRE-rRNA processing protein; rRNA	91.29
2ipx_A	233	RRNA 2'-O-methyltransferase fibrillarin; FBL, stru	91.24
2wa2_A	276	Non-structural protein 5; transferase, S-adenosyl-	91.22
3g07_A	292	7SK snRNA methylphosphate capping enzyme; structur	91.17
2yu3_A	95	DNA-directed RNA polymerase III 39 kDa polypeptide	91.13
3lcc_A	235	Putative methyl chloride transferase; halide methy	91.11
1o9g_A	250	RRNA methyltransferase; antibiotic resistance, Se-	91.05
1ws6_A	171	Methyltransferase; structural genomics, riken stru	91.05
1dl5_A	317	Protein-L-isoaspartate O-methyltransferase; isoasp	91.02
3cta_A	230	Riboflavin kinase; structural genomics, transferas	90.96
1o54_A	277	SAM-dependent O-methyltransferase; TM0748, structu	90.88
1jhg_A	101	Trp operon repressor; complex (regulatory protein-	90.87
3ggd_A	245	SAM-dependent methyltransferase; YP_325210.1, stru	90.82
4b8x_A	147	SCO5413, possible MARR-transcriptional regulator;	90.64
3tma_A	354	Methyltransferase; thump domain; 2.05A {Thermus th	90.59
3lpm_A	259	Putative methyltransferase; structural genomics, p	90.59
1z6r_A	406	MLC protein; transcriptional repressor, ROK family	90.59
3m70_A	286	Tellurite resistance protein TEHB homolog; structu	90.55
2qe6_A	274	Uncharacterized protein TFU_2867; putative methylt	90.49
1fx7_A	230	Iron-dependent repressor IDER; DTXR, iron-dependen	90.39
3i71_A	68	Ethanolamine utilization protein EUTK; helix-turn-	90.36
2nxc_A	254	L11 mtase, ribosomal protein L11 methyltransferase	90.31
3adn_A	294	Spermidine synthase; aminopropyltransferase, polya	90.3
2vdv_E	246	TRNA (guanine-N(7)-)-methyltransferase; S-adenosyl	90.16
3p9n_A	189	Possible methyltransferase (methylase); RV2966C, a	90.14
3tqn_A	113	Transcriptional regulator, GNTR family; regulatory	90.13
3mwm_A	139	ZUR, putative metal uptake regulation protein; FUR	90.08
3q7e_A	349	Protein arginine N-methyltransferase 1; HET: SAH;	90.03
3hp7_A	291	Hemolysin, putative; structural genomics, APC64019	90.02
4dcm_A	375	Ribosomal RNA large subunit methyltransferase G; 2	90.02
1nv8_A	284	HEMK protein; class I adoMet-dependent methyltrans	90.0
2pjp_A	121	Selenocysteine-specific elongation factor; SELB, p	89.99
3l8d_A	242	Methyltransferase; structural genomics, PSI, nysgr	89.92
1cf7_A	76	Protein (transcription factor E2F-4); E2F, winged-	89.91
3bzb_A	281	Uncharacterized protein; RED ALGA, protein structu	89.87
2a14_A	263	Indolethylamine N-methyltransferase; SGC,INMT, str	89.85
3grz_A	205	L11 mtase, ribosomal protein L11 methyltransferase	89.75
3r0q_C	376	Probable protein arginine N-methyltransferase 4.2;	89.73
3h2b_A	203	SAM-dependent methyltransferase; alpha-beta protei	89.68
2p41_A	305	Type II methyltransferase; vizier, viral enzymes i	89.66
2qlz_A	232	Transcription factor PF0095; 2.50A {Pyrococcus fur	89.51
2avn_A	260	Ubiquinone/menaquinone biosynthesis methyltransfe	89.42
2b25_A	336	Hypothetical protein; structural genomics, methyl	89.39
3c3p_A	210	Methyltransferase; NP_951602.1, structural genomic	89.3
2ek5_A	129	Predicted transcriptional regulators; helix-turn-h	89.28
2pxx_A	215	Uncharacterized protein MGC2408; structural genomi	89.19
2vxz_A	165	Pyrsv_GP04; viral protein, SSPF, ORF165A; 1.7A {Py	89.16
2b3t_A	276	Protein methyltransferase HEMK; translation termin	89.12
1wy7_A	207	Hypothetical protein PH1948; seven-stranded beta s	89.09
2ift_A	201	Putative methylase HI0767; NESG, Y767_haein, struc	89.08
2pjd_A	343	Ribosomal RNA small subunit methyltransferase C; g	89.03
4df3_A	233	Fibrillarin-like rRNA/TRNA 2'-O-methyltransferase;	89.03
3tr6_A	225	O-methyltransferase; cellular processes; HET: SAH;	89.0
2qq9_A	226	Diphtheria toxin repressor; regulator, DTXR, helix	88.97
1xdz_A	240	Methyltransferase GIDB; MCSG, protein structure in	88.94
3duw_A	223	OMT, O-methyltransferase, putative; alternating of	88.93
3ntv_A	232	MW1564 protein; rossmann fold, putative methyltran	88.92
3bxo_A	239	N,N-dimethyltransferase; desosamine, sugar, carboh	88.92
4esf_A	117	PADR-like transcriptional regulator; PADR family,	88.89
1bia_A	321	BIRA bifunctional protein; transcription regulatio	88.77
3u81_A	221	Catechol O-methyltransferase; neurotransmitter deg	88.77
1ne2_A	200	Hypothetical protein TA1320; structural genomics,	88.71
3neu_A	125	LIN1836 protein; structural genomics, PSI-2, prote	88.69
3g89_A	249	Ribosomal RNA small subunit methyltransferase G; 1	88.62
2gb4_A	252	Thiopurine S-methyltransferase; 18204406, thiopuri	88.61
3gdh_A	241	Trimethylguanosine synthase homolog; M7G, CAP, dim	88.6
3by6_A	126	Predicted transcriptional regulator; structural ge	88.57
1ri5_A	298	MRNA capping enzyme; methyltransferase, M7G, messe	88.5
1iy9_A	275	Spermidine synthase; rossmann fold, structural gen	88.49
1r18_A	227	Protein-L-isoaspartate(D-aspartate)-O-methyltrans;	88.42
2fpo_A	202	Methylase YHHF; structural genomics, putative meth	88.18
2p8t_A	200	Hypothetical protein PH0730; pyrococcus horikoshii	88.12
3f8b_A	116	Transcriptional regulator, PADR-like family; winge	88.09
1xma_A	145	Predicted transcriptional regulator; southea colla	87.95
3elk_A	117	Putative transcriptional regulator TA0346; structu	87.93
2v79_A	135	DNA replication protein DNAD; primosome, DNA-bindi	87.88
3bwc_A	304	Spermidine synthase; SAM, SGPP, structura genomics	87.83
2b0l_A	102	GTP-sensing transcriptional pleiotropic repressor;	87.77
2bm8_A	236	Cephalosporin hydroxylase CMCI; cephamycin biosynt	87.77
3evz_A	230	Methyltransferase; NYSGXRC, NEW YORK SGX research	87.65
2pbf_A	227	Protein-L-isoaspartate O-methyltransferase beta-A	87.63
2h00_A	254	Methyltransferase 10 domain containing protein; st	87.52
1mjf_A	281	Spermidine synthase; spermidine synthetase, struct	87.52
1uwv_A	433	23S rRNA (uracil-5-)-methyltransferase RUMA; RNA m	87.38
3c3y_A	237	Pfomt, O-methyltransferase; plant secondary metabo	87.3
1p4x_A	250	Staphylococcal accessory regulator A homologue; wi	87.29
1z05_A	429	Transcriptional regulator, ROK family; structural	87.29
1ixk_A	315	Methyltransferase; open beta sheet; 1.90A {Pyrococ	87.16
1xj5_A	334	Spermidine synthase 1; structural genomics, protei	87.09
3ldu_A	385	Putative methylase; structural genomics, PSI-2, pr	87.0
4azs_A	569	Methyltransferase WBDD; kinase; HET: AMP SAM; 2.15	86.97
4ham_A	134	LMO2241 protein; structural genomics, PSI-biology,	86.93
2i62_A	265	Nicotinamide N-methyltransferase; structural genom	86.93
1inl_A	296	Spermidine synthase; beta-barrel, rossman fold, st	86.8
1mzb_A	136	Ferric uptake regulation protein; ferric uptake re	86.76
1hsj_A	487	Fusion protein consisting of staphylococcus access	86.75
2cmg_A	262	Spermidine synthase; transferase, putrescine amino	86.74
3lmm_A	583	Uncharacterized protein; multi-domained alpha-beta	86.71
3ocj_A	305	Putative exported protein; structural genomics, PS	86.67
3rkx_A	323	Biotin-[acetyl-COA-carboxylase] ligase; biotin pro	86.64
2o0m_A	345	Transcriptional regulator, SORC family; structural	86.61
2pt6_A	321	Spermidine synthase; transferase, structural genom	86.58
3dr5_A	221	Putative O-methyltransferase; Q8NRD3, CGL1119, PF0	86.47
1i1n_A	226	Protein-L-isoaspartate O-methyltransferase; S-aden	86.45
3k0b_A	393	Predicted N6-adenine-specific DNA methylase; methy	86.43
3id6_C	232	Fibrillarin-like rRNA/TRNA 2'-O-methyltransferase;	86.41
1uir_A	314	Polyamine aminopropyltransferase; spermidien synth	86.4
1yg2_A	179	Gene activator APHA; virulence factor, winged heli	86.39
2i7c_A	283	Spermidine synthase; transferase, structural genom	86.31
3maj_A	382	DNA processing chain A; MCSG, PSI-2, structural ge	86.28
2o07_A	304	Spermidine synthase; structural genomics, structur	86.22
2hnk_A	239	SAM-dependent O-methyltransferase; modified rossma	86.2
3cbg_A	232	O-methyltransferase; cyanobacterium; HET: SAH FER	86.06
3r3h_A	242	O-methyltransferase, SAM-dependent; structural gen	86.01
2gpy_A	233	O-methyltransferase; structural genomics, PSI, pro	85.99
4hc4_A	376	Protein arginine N-methyltransferase 6; HRMT1L6, S	85.96
3l7w_A	108	Putative uncharacterized protein SMU.1704; PADR, t	85.68
3gcz_A	282	Polyprotein; flavivirus, RNA capping, methyltransf	85.38
3c7j_A	237	Transcriptional regulator, GNTR family; structural	85.3
1p91_A	269	Ribosomal RNA large subunit methyltransferase A; R	85.16
2b2c_A	314	Spermidine synthase; beta-alpha, transferase; 2.50	85.12
3eyi_A	72	Z-DNA-binding protein 1; alternative splicing, DNA	84.91
1sui_A	247	Caffeoyl-COA O-methyltransferase; rossmann fold, p	84.79
3ldg_A	384	Putative uncharacterized protein SMU.472; YPSC, me	84.35
2vdw_A	302	Vaccinia virus capping enzyme D1 subunit; nucleoti	84.09
3tm4_A	373	TRNA (guanine N2-)-methyltransferase TRM14; rossma	84.08
4gqb_A	637	Protein arginine N-methyltransferase 5; TIM barrel	84.08
3evf_A	277	RNA-directed RNA polymerase NS5; NS5 methyltransfe	83.98
2frn_A	278	Hypothetical protein PH0793; structural genomics,	83.97
4fsd_A	383	Arsenic methyltransferase; rossmann fold; 1.75A {C	83.96
3a27_A	272	TYW2, uncharacterized protein MJ1557; wybutosine m	83.69
3hhh_A	116	Transcriptional regulator, PADR family; PF03551, s	83.46
1tc3_C	51	Protein (TC3 transposase); DNA binding, helix-turn	83.37
2g72_A	289	Phenylethanolamine N-methyltransferase; HET: SAM F	83.12
3eyy_A	145	Putative iron uptake regulatory protein; NUR, nick	83.11
2w48_A	315	Sorbitol operon regulator; SORC, activator, repres	83.07
3htx_A	950	HEN1; HEN1, small RNA methyltransferase, protein-R	82.93
2w57_A	150	Ferric uptake regulation protein; gene regulation,	82.46
3sxy_A	218	Transcriptional regulator, GNTR family; transcript	82.33
3ua3_A	745	Protein arginine N-methyltransferase 5; TIM-barrel	82.19
3ajd_A	274	Putative methyltransferase MJ0026; tRNA, M5C, ross	82.17
3frh_A	253	16S rRNA methylase; methyltransferase domain, heli	82.08
3dmg_A	381	Probable ribosomal RNA small subunit methyltransf;	81.57
1hw1_A	239	FADR, fatty acid metabolism regulator protein; hel	81.44
2r6z_A	258	UPF0341 protein in RSP 3' region; alpha-beta prote	81.2
3ic7_A	126	Putative transcriptional regulator; helix-turn-hel	80.93
3kor_A	119	Possible Trp repressor; putative DNA-binding Trp r	80.82
3dv8_A	220	Transcriptional regulator, CRP/FNR family; cyclic	80.73
2oz6_A	207	Virulence factor regulator; winged helix, helix-tu	80.64
4ets_A	162	Ferric uptake regulation protein; metal binding pr	80.54
3fpf_A	298	Mtnas, putative uncharacterized protein; thermonic	80.43
2zcw_A	202	TTHA1359, transcriptional regulator, FNR/CRP famil	80.21

>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=8.4e-34  Score=243.95  Aligned_cols=201  Identities=46%  Similarity=0.811  Sum_probs=176.6

Q ss_pred             cchhcchHHHHHHHHHhhchHHHHHHHHHhhChhhHHhhcCCCCCCCHHHHHHHhcC-CCCCCcc---cHHHHHHHHhcc
Q 036188            5 VDGERDQSFAYADQLATGVVLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLT-KNKDAPM---MLDRILRLLASY   80 (210)
Q Consensus         5 ~~~~~~~~~~~l~~~~~~~~~~~al~~a~~lglfd~L~~~g~~~~~t~~eLA~~~~~-~~~~~~~---~l~rlLr~L~~~   80 (210)
                      +..+..+++..+++++++++.+++|++|++|||||.|++.| ++|+|++|||+++++ +   +|+   .|+||||+|++.
T Consensus        13 ~~~~~~~~~~~~~~l~~~~~~~~~l~~a~~Lgifd~L~~~g-~~~~t~~eLA~~~g~~~---~~~~~~~l~rlLr~L~~~   88 (364)
T 3p9c_A           13 AASADEDACMFALQLASSSVLPMTLKNAIELGLLEILVAAG-GKSLTPTEVAAKLPSAA---NPEAPDMVDRILRLLASY   88 (364)
T ss_dssp             CHHHHHHHHHHHHHHTTTTHHHHHHHHHHHHTHHHHHHHTT-TCCBCHHHHHHTTTCTT---CTTHHHHHHHHHHHHHHT
T ss_pred             cchHHHHHHHHHHHHHHhHHHHHHHHHHHHCChHHHHhhcC-CCCCCHHHHHHhcCCCC---CccchhhHHHHHHHHHhC
Confidence            66778899999999999999999999999999999999853 259999999999994 3   555   999999999999


Q ss_pred             cceeeecc---CCCcccceeccccccccccCCCCCChHHHHHHhcChhHHHHHhhHHHHHhcCCchhhhhhCCchhHhhc
Q 036188           81 SVVECSLD---ASGARRLYSLNSVSKYYVPNKDGVLLGPLIQIIQDKVILESWSQLKDAILEGGIPFNRAHGVHIFEYAG  157 (210)
Q Consensus        81 gl~~~~~~---~~~~~~~y~~t~~s~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~~g~~~f~~~~g~~~fe~l~  157 (210)
                      |+|++...   ++..++.|++|+.++.|+.+..+.++++++.+...+.+++.|.+|++++++|.+||+.++|.++|+|+.
T Consensus        89 g~l~~~~~~~~~g~~~~~y~~t~~s~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~~r~g~~~~~~~~g~~~~~~~~  168 (364)
T 3p9c_A           89 NVVTCLVEEGKDGRLSRSYGAAPVCKFLTPNEDGVSMAALALMNQDKVLMESWYYLKDAVLDGGIPFNKAYGMSAFEYHG  168 (364)
T ss_dssp             TSEEEEEEECSSSCEEEEEEECGGGGGSSCCTTSCCTHHHHHHHTSHHHHGGGGGHHHHHHHCSCHHHHHHSSCHHHHHT
T ss_pred             CCEEEeccccCCCCcCCEEecCHHHHHHcCCCCCCCHHHHHHHhcCHHHHHHHhCHHHHHhhCCChHHHhcCCCHHHHHH
Confidence            99998620   000147899999999887665335899998887777888999999999999999999999999999999


Q ss_pred             cCchHHHHHHHHHhhhhhhhHHHHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          158 LNPRFNKHFNAAMYNYTSLVMSNILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       158 ~~p~~~~~f~~~M~~~~~~~~~~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ++|+..+.|+++|...+......+++.+++|++..+|||||||+|.++..++
T Consensus       169 ~~~~~~~~f~~~m~~~~~~~~~~~~~~~~~~~~~~~vlDvG~G~G~~~~~l~  220 (364)
T 3p9c_A          169 TDPRFNRVFNEGMKNHSIIITKKLLELYHGFEGLGTLVDVGGGVGATVAAIA  220 (364)
T ss_dssp             TCHHHHHHHHHHHHHHHHHHHHHHHHHCCTTTTCSEEEEETCTTSHHHHHHH
T ss_pred             hCHHHHHHHHHHHHHhhHHHHHHHHHhcccccCCCEEEEeCCCCCHHHHHHH
Confidence            9999999999999998888888899998768889999999999999999886

>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=1.2e-33  Score=243.28  Aligned_cols=205  Identities=48%  Similarity=0.798  Sum_probs=173.9

Q ss_pred             cchhcchHHHHHHHHHhhchHHHHHHHHHhhChhhHHhhc-CCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccce
Q 036188            5 VDGERDQSFAYADQLATGVVLPMAIQAVYELGIFEILDKA-GPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVV   83 (210)
Q Consensus         5 ~~~~~~~~~~~l~~~~~~~~~~~al~~a~~lglfd~L~~~-g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~   83 (210)
                      ++.+..+++..+++++.+++.+++|++|++|||||.|++. |+++|+|++|||++++..++.+++.|+|+||+|++.|+|
T Consensus        14 ~~~~~~~~~~~~~~l~~~~~~~~~l~~a~~Lglfd~L~~~~gp~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gll   93 (368)
T 3reo_A           14 THSSDEEANLFAMQLASAAVLPMALKAAIELDVLEIMAKSVPPSGYISPAEIAAQLPTTNPEAPVMLDRVLRLLASYSVV   93 (368)
T ss_dssp             ---CHHHHHHHHHHHHTTTHHHHHHHHHHHTTHHHHHHHHCCTTCCBCHHHHHTTSSCCCTTHHHHHHHHHHHHHHTTSE
T ss_pred             CchHHHHHHHHHHHHHHHHHHHHHHHHHHHCCchhHHhhcCCCCCCcCHHHHHHhcCcCCCcchhhHHHHHHHHHhCCCe
Confidence            4456788999999999999999999999999999999986 545689999999999832121234999999999999999


Q ss_pred             eeecc---CCCcccceeccccccccccCCCCCChHHHHHHhcChhHHHHHhhHHHHHhcCCchhhhhhCCchhHhhccCc
Q 036188           84 ECSLD---ASGARRLYSLNSVSKYYVPNKDGVLLGPLIQIIQDKVILESWSQLKDAILEGGIPFNRAHGVHIFEYAGLNP  160 (210)
Q Consensus        84 ~~~~~---~~~~~~~y~~t~~s~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~~g~~~f~~~~g~~~fe~l~~~p  160 (210)
                      ++...   ++..++.|++|+.++.|+.+..+.++++++.+..++.+++.|.+|++++++|.++|+.++|.++|+|+.++|
T Consensus        94 ~~~~~~~~~g~~~~~y~~t~~s~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~r~g~~~~~~~~g~~~~~~~~~~~  173 (368)
T 3reo_A           94 TYTLRELPSGKVERLYGLAPVCKFLTKNEDGVSLAPFLLLATDKVLLEPWFYLKDAILEGGIPFNKAYGMNIFDYHGTDH  173 (368)
T ss_dssp             EEEEEECTTSCEEEEEEECTTHHHHSCCTTSCCSHHHHHHHTCHHHHGGGGGHHHHHHHCSCHHHHHSSSCHHHHHTTCH
T ss_pred             EEecccCCCCcccceeCcCHHHHHHhCCCCCCCHHHHHHHhcCHHHHhhhhchHHHHhcCCCHHHHHhCCCHHHHHhhCH
Confidence            98510   000147899999999887654335899998887777888999999999999999999999999999999999


Q ss_pred             hHHHHHHHHHhhhhhhhHHHHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          161 RFNKHFNAAMYNYTSLVMSNILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       161 ~~~~~f~~~M~~~~~~~~~~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      +..+.|+++|...+....+.+++.+++|++..+|||||||+|.++..++
T Consensus       174 ~~~~~f~~~m~~~~~~~~~~~~~~~~~~~~~~~vlDvG~G~G~~~~~l~  222 (368)
T 3reo_A          174 RINKVFNKGMSSNSTITMKKILEMYNGFEGLTTIVDVGGGTGAVASMIV  222 (368)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHTTCCTTTTCSEEEEETCTTSHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhhHHHHHHHhcccccCCCEEEEeCCCcCHHHHHHH
Confidence            9999999999999888888889988768889999999999999999886

>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=7.7e-33  Score=236.30  Aligned_cols=185  Identities=21%  Similarity=0.190  Sum_probs=171.4

Q ss_pred             cchHHHHHHHHHhhchHHHHHHHHHhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeecc
Q 036188            9 RDQSFAYADQLATGVVLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLD   88 (210)
Q Consensus         9 ~~~~~~~l~~~~~~~~~~~al~~a~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~   88 (210)
                      ..++...+++++.+++.+++|++|+++||||.|++    +|+|++|||+++|+    +++.++||||+|++.|+|++.  
T Consensus        19 ~~~~~~~l~~~~~~~~~~~~l~~a~~lglf~~l~~----g~~t~~elA~~~g~----~~~~l~rlLr~l~~~g~l~~~--   88 (348)
T 3lst_A           19 RLQSALALYEEAMGYTYAAALRAAAAVGVADHLVD----GPRTPAELAAATGT----DADALRRVLRLLAVRDVVRES--   88 (348)
T ss_dssp             HHHHHHHHHHHHTTHHHHHHHHHHHHHTGGGGGTT----SCBCHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEEE--
T ss_pred             CchHHHHHHHHHHHHHHHHHHHHHHHcCchhHhhC----CCCCHHHHHHHhCc----CHHHHHHHHHHHHhCCCEEec--
Confidence            45778889999999999999999999999999986    69999999999999    999999999999999999985  


Q ss_pred             CCCcccceeccccccccccCCCCCChHHHHHHhcChhHHHHHhhHHHHHhcCCchhhhhhCCchhHhhccCchHHHHHHH
Q 036188           89 ASGARRLYSLNSVSKYYVPNKDGVLLGPLIQIIQDKVILESWSQLKDAILEGGIPFNRAHGVHIFEYAGLNPRFNKHFNA  168 (210)
Q Consensus        89 ~~~~~~~y~~t~~s~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~~g~~~f~~~~g~~~fe~l~~~p~~~~~f~~  168 (210)
                          ++.|++|+.|+.|.++++ .++.+++.+..++.+++.|.+|++++++|+++|+..+|.++|+|+.++|+..+.|++
T Consensus        89 ----~~~y~~t~~s~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~l~~~l~~g~~~~~~~~g~~~~~~~~~~~~~~~~f~~  163 (348)
T 3lst_A           89 ----DGRFALTDKGAALRSDSP-VPARAGILMFTDTMFWTMSHRVASALGPERPAFADIFGSSLDAYFDGDAEVEALYYE  163 (348)
T ss_dssp             ----TTEEEECTTTGGGSTTSS-SCSHHHHHHHTSHHHHHHHHTHHHHTCTTCCCHHHHHSSCHHHHHTTCHHHHHHHHH
T ss_pred             ----CCEEecCHHHHHHhcCCC-ccHHHHHHHhcCHHHHHHHHHHHHHHhcCCChhhHHhCCCHHHHHHhCHHHHHHHHH
Confidence                789999999998877665 478998887766667899999999999999999999999999999999999999999


Q ss_pred             HHhhhhhhhHHHHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          169 AMYNYTSLVMSNILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       169 ~M~~~~~~~~~~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      +|...+....+.+++.++ |++..+|||||||+|.++..++
T Consensus       164 ~m~~~~~~~~~~~~~~~~-~~~~~~vLDvG~G~G~~~~~l~  203 (348)
T 3lst_A          164 GMETVSAAEHLILARAGD-FPATGTVADVGGGRGGFLLTVL  203 (348)
T ss_dssp             HHHHHHHTTHHHHHHHSC-CCSSEEEEEETCTTSHHHHHHH
T ss_pred             HHHHhhhhhHHHHHHhCC-ccCCceEEEECCccCHHHHHHH
Confidence            999999888889999998 9999999999999999998875

>4a6d_A Hydroxyindole O-methyltransferase; melatonin, circadian clock; HET: SAM; 2.40A {Homo sapiens} PDB: 4a6e_A*

Probab=100.00  E-value=1.8e-32  Score=234.79  Aligned_cols=189  Identities=19%  Similarity=0.338  Sum_probs=168.2

Q ss_pred             hHHHHHHHHHhhchHHHHHHHHHhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCC
Q 036188           11 QSFAYADQLATGVVLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDAS   90 (210)
Q Consensus        11 ~~~~~l~~~~~~~~~~~al~~a~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~   90 (210)
                      ++...|++++.||+.+++|++|++|||||.|++.+  +|+|++|||+++|+    +++.++|+||+|++.|+|++...  
T Consensus         7 ~~~~~L~~l~~Gf~~s~~L~aa~eLglfd~L~~~~--~p~t~~eLA~~~g~----~~~~l~rlLr~L~~~gll~~~~~--   78 (353)
T 4a6d_A            7 QAYRLLNDYANGFMVSQVLFAACELGVFDLLAEAP--GPLDVAAVAAGVRA----SAHGTELLLDICVSLKLLKVETR--   78 (353)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHTHHHHHHHSS--SCBCHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEEEEE--
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHcCHHHHHhcCC--CCCCHHHHHHhhCc----CHHHHHHHHHHHHHCCCEEEecc--
Confidence            67778999999999999999999999999999865  79999999999999    99999999999999999986421  


Q ss_pred             Ccccceecccccc-ccccCCCCCChHHHHHHhcChhHHHHHhhHHHHHhcCCchhhhhhC---CchhHhhccCchHHHHH
Q 036188           91 GARRLYSLNSVSK-YYVPNKDGVLLGPLIQIIQDKVILESWSQLKDAILEGGIPFNRAHG---VHIFEYAGLNPRFNKHF  166 (210)
Q Consensus        91 ~~~~~y~~t~~s~-~l~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~~g~~~f~~~~g---~~~fe~l~~~p~~~~~f  166 (210)
                      ...+.|++|+.+. +|.++++ .++.+++.+.. +..++.|.+|++++++|+++|..++|   .++|+++.++|+....|
T Consensus        79 ~~~~~y~~t~~s~~~l~~~~~-~~~~~~~~~~~-~~~~~~~~~L~~~vr~g~~~~~~~~g~~~~~~~~~~~~~~~~~~~f  156 (353)
T 4a6d_A           79 GGKAFYRNTELSSDYLTTVSP-TSQCSMLKYMG-RTSYRCWGHLADAVREGRNQYLETFGVPAEELFTAIYRSEGERLQF  156 (353)
T ss_dssp             TTEEEEEECHHHHHHHSTTST-TCCHHHHHHHH-HTHHHHHTTHHHHHHHTSCCHHHHHSCCCSSHHHHHTSSHHHHHHH
T ss_pred             CccceeeCCHHHHHHhhcCCc-hHHHHHHHHhC-HHHHHHHHHHHHHHhcCCChhHHhcCCChHHHHHHHhhCHHHHHHH
Confidence            1356899999987 5666666 58888887763 56788999999999999999999888   47999999999999999


Q ss_pred             HHHHhhhhhhhHHHHHHhCCCCCCCCeEEEecCCccHHHHhhhC
Q 036188          167 NAAMYNYTSLVMSNILESYKGFDNIKQLVDVGGSLGVTLQAITT  210 (210)
Q Consensus       167 ~~~M~~~~~~~~~~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~~  210 (210)
                      +++|...+....+.+++.++ |++..+|||||||+|.++++|++
T Consensus       157 ~~aM~~~~~~~~~~~~~~~~-~~~~~~v~DvGgG~G~~~~~l~~  199 (353)
T 4a6d_A          157 MQALQEVWSVNGRSVLTAFD-LSVFPLMCDLGGGAGALAKECMS  199 (353)
T ss_dssp             HHHHHTTHHHHHHHHHHSSC-GGGCSEEEEETCTTSHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhcC-cccCCeEEeeCCCCCHHHHHHHH
Confidence            99999999888899999998 99999999999999999998863

>3gwz_A MMCR; methyltransferase, mitomycin, S-adenosyl methionine, transferase; HET: MSE SAH; 1.91A {Streptomyces lavendulae} PDB: 3gxo_A*

Probab=99.98  E-value=8.6e-32  Score=231.65  Aligned_cols=185  Identities=22%  Similarity=0.345  Sum_probs=170.5

Q ss_pred             chHHHHHHHHHhhchHHHHHHHHHhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccC
Q 036188           10 DQSFAYADQLATGVVLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDA   89 (210)
Q Consensus        10 ~~~~~~l~~~~~~~~~~~al~~a~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~   89 (210)
                      .+...++++++.+++.+++|++++++||||.|++    +|+|++|||+++|+    +++.++||||+|++.|+|++.   
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----HEQTLRRLLRLLATVGVFDDL---  104 (369)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHTTGGGGTT----SCEEHHHHHHHHTC----CHHHHHHHHHHHHHTTSSEEC---
T ss_pred             ChHHHHHHHHHHHHHHHHHHHHHHHCChhhhhcC----CCCCHHHHHHHHCc----CHHHHHHHHHHHHhCCCEEEe---
Confidence            4667789999999999999999999999999986    69999999999999    999999999999999999997   


Q ss_pred             CCcccc-eeccccccccccCCCCCChHHHHHHhcChhHHHHHhhHHHHHhcCCchhhhhhCCchhHhhccCchHHHHHHH
Q 036188           90 SGARRL-YSLNSVSKYYVPNKDGVLLGPLIQIIQDKVILESWSQLKDAILEGGIPFNRAHGVHIFEYAGLNPRFNKHFNA  168 (210)
Q Consensus        90 ~~~~~~-y~~t~~s~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~~g~~~f~~~~g~~~fe~l~~~p~~~~~f~~  168 (210)
                        +++. |.+|+.++.|.++.+ .++.+++.+...+.+++.|.+|++++++|.++|...+|.++|+|+.++|+..+.|++
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 999999998877665 478888888766667889999999999999999999999999999999999999999


Q ss_pred             HHhhhhhhhHHHHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          169 AMYNYTSLVMSNILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       169 ~M~~~~~~~~~~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      +|...+....+.+++.++ |++..+|||||||+|.++..++
T Consensus       182 ~m~~~~~~~~~~l~~~~~-~~~~~~vlDvG~G~G~~~~~l~  221 (369)
T 3gwz_A          182 AMGSVSLTEAGQVAAAYD-FSGAATAVDIGGGRGSLMAAVL  221 (369)
T ss_dssp             HHHHHHHHHHHHHHHHSC-CTTCSEEEEETCTTSHHHHHHH
T ss_pred             HHHHHHhhhHHHHHHhCC-CccCcEEEEeCCCccHHHHHHH
Confidence            999998888889999998 9999999999999999998876

>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=99.97  E-value=1.5e-31  Score=228.99  Aligned_cols=199  Identities=24%  Similarity=0.344  Sum_probs=172.6

Q ss_pred             chhcchHHHHHHHHHhhchHHHHHHHHHhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceee
Q 036188            6 DGERDQSFAYADQLATGVVLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVEC   85 (210)
Q Consensus         6 ~~~~~~~~~~l~~~~~~~~~~~al~~a~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~   85 (210)
                      ..++.++...+++++.+++.+++|++++++||||.|++.+  +|+|++|||+++|+ ++.+++.++|+||+|++.|+|++
T Consensus         4 ~~~~~~~~~~l~~~~~~~~~~~~l~~a~~lgif~~L~~~~--~~~t~~eLA~~~g~-~~~~~~~l~rlLr~L~~~gll~~   80 (358)
T 1zg3_A            4 ESELYHAQIHLYKHVYNFVSSMALKSAMELGIADAIHNHG--KPMTLSELASSLKL-HPSKVNILHRFLRLLTHNGFFAK   80 (358)
T ss_dssp             TSCCTTHHHHHHHHHTTHHHHHHHHHHHHHTHHHHHHHHT--SCEEHHHHHHHTTC-CTTTHHHHHHHHHHHHHTTSEEE
T ss_pred             hHHhhhHHHHHHHHHHHHHHHHHHHHHHHCChHhHHhhcC--CCcCHHHHHHhcCC-CCcchHHHHHHHHHHhhCCcEEE
Confidence            3678899999999999999999999999999999999853  59999999999999 33347799999999999999988


Q ss_pred             ec----c-CCCcccceeccccccccccCCCCCChHHHHHHhcChhHHHHHhhHHHHHhcC--CchhhhhhCCchhHhhcc
Q 036188           86 SL----D-ASGARRLYSLNSVSKYYVPNKDGVLLGPLIQIIQDKVILESWSQLKDAILEG--GIPFNRAHGVHIFEYAGL  158 (210)
Q Consensus        86 ~~----~-~~~~~~~y~~t~~s~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~~g--~~~f~~~~g~~~fe~l~~  158 (210)
                      ..    . ++..++.|++|+.++.|+++++ .++++++.+..++.+++.|.+|++++++|  .++|+.++|.++|+|+.+
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            61    0 0001479999999998887776 58999998876677788999999999998  788999999999999999


Q ss_pred             CchHHH--HHHHHHhhhhhhhHHHHHHhCC-CCCCCCeEEEecCCccHHHHhhh
Q 036188          159 NPRFNK--HFNAAMYNYTSLVMSNILESYK-GFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       159 ~p~~~~--~f~~~M~~~~~~~~~~~l~~~~-~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      +|+..+  .|+++|...+.... .+++.|+ +|++..+|||||||+|.++..++
T Consensus       160 ~p~~~~~~~f~~~m~~~~~~~~-~~~~~~~~~~~~~~~vlDvG~G~G~~~~~l~  212 (358)
T 1zg3_A          160 DSESSTLSMFQDAMASDSRMFK-LVLQENKRVFEGLESLVDVGGGTGGVTKLIH  212 (358)
T ss_dssp             GGGHHHHHHHHHHHHHHHHTHH-HHHHHTHHHHHTCSEEEEETCTTSHHHHHHH
T ss_pred             ChhhhhHHHHHHHHhcccHHHH-HHHHhcchhccCCCEEEEECCCcCHHHHHHH
Confidence            999999  99999999887766 8888882 27888999999999999998875

>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=99.97  E-value=2.1e-31  Score=227.67  Aligned_cols=198  Identities=25%  Similarity=0.356  Sum_probs=173.8

Q ss_pred             cccchhcchHHHHHHHHHhhchHHHHHHHHHhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccc
Q 036188            3 SIVDGERDQSFAYADQLATGVVLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSV   82 (210)
Q Consensus         3 ~~~~~~~~~~~~~l~~~~~~~~~~~al~~a~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl   82 (210)
                      +..++++.++...+++++.+++.+++|++++++|||+.|++.+  +|+|++|||+++++ +|.+++.++|+||+|++.|+
T Consensus         7 ~~~~~~~~~a~~~l~~~~~~~~~~~~l~~a~~lgif~~L~~~~--~~~t~~ela~~~~~-~~~~~~~l~rlLr~L~~~gl   83 (352)
T 1fp2_A            7 GRKPSEIFKAQALLYKHIYAFIDSMSLKWAVEMNIPNIIQNHG--KPISLSNLVSILQV-PSSKIGNVRRLMRYLAHNGF   83 (352)
T ss_dssp             -CCSTHHHHHHHHHHHHHTTHHHHHHHHHHHHTTHHHHHHHHT--SCEEHHHHHHHHTC-CGGGHHHHHHHHHHHHHTTS
T ss_pred             CCChHHHhhHHHHHHHHHHHHHHHHHHHHHHHCChhhhhhhcC--CCccHHHHHHHhCc-CCCChHHHHHHHHHHHhCCe
Confidence            3456789999999999999999999999999999999999854  59999999999999 22236789999999999999


Q ss_pred             eeeeccCCCcccceeccccccccccCCCCCChHHHHHHhcChhHHHHHhhHHHHHh-cCCchhhhhhCCchhHhhccCch
Q 036188           83 VECSLDASGARRLYSLNSVSKYYVPNKDGVLLGPLIQIIQDKVILESWSQLKDAIL-EGGIPFNRAHGVHIFEYAGLNPR  161 (210)
Q Consensus        83 ~~~~~~~~~~~~~y~~t~~s~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~-~g~~~f~~~~g~~~fe~l~~~p~  161 (210)
                      |++..   .+++.|++|+.++.|+++++ .++++++.+..++.+++.|.+|+++++ +|+++|+.++|.++|+|+.++|+
T Consensus        84 l~~~~---~~~~~y~~t~~s~~L~~~~~-~~~~~~~~~~~~~~~~~~~~~L~~~l~~~g~~~~~~~~g~~~~~~~~~~~~  159 (352)
T 1fp2_A           84 FEIIT---KEEESYALTVASELLVRGSD-LCLAPMVECVLDPTLSGSYHELKKWIYEEDLTLFGVTLGSGFWDFLDKNPE  159 (352)
T ss_dssp             EEEEE---SSSEEEEECHHHHTTSTTSS-SCCHHHHHHHTCHHHHHGGGGHHHHHTCSSCCHHHHHHSSCHHHHHHHCHH
T ss_pred             EEEec---CCCCeEeCCHHHHHHhCCCC-ccHHHHHHHhcCchHHHHHHHHHHHHHhcCCChHHHHcCCCHHHHHHhChH
Confidence            99861   01589999999999987776 589999988767777889999999999 88999999999999999999999


Q ss_pred             HHHHHHHHHhhhhhhhHHHHHHhC--CCCCCCCeEEEecCCccHHHHhhh
Q 036188          162 FNKHFNAAMYNYTSLVMSNILESY--KGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       162 ~~~~f~~~M~~~~~~~~~~~l~~~--~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ..+.|+++|...+....+. ++.|  + |++..+|||||||+|.++..++
T Consensus       160 ~~~~f~~~m~~~~~~~~~~-~~~~~~~-~~~~~~vlDvG~G~G~~~~~l~  207 (352)
T 1fp2_A          160 YNTSFNDAMASDSKLINLA-LRDCDFV-FDGLESIVDVGGGTGTTAKIIC  207 (352)
T ss_dssp             HHHHHHHHHHHTHHHHHHH-HHTCHHH-HTTCSEEEEETCTTSHHHHHHH
T ss_pred             HHHHHHHHHHhcchhhhhH-HHhcccc-cccCceEEEeCCCccHHHHHHH
Confidence            9999999999988877667 8888  5 8888999999999999998875

>2ip2_A Probable phenazine-specific methyltransferase; pyocyanin, phenazine-1-carboxy PHZM; 1.80A {Pseudomonas aeruginosa}

Probab=99.97  E-value=5.3e-31  Score=223.21  Aligned_cols=180  Identities=21%  Similarity=0.339  Sum_probs=165.1

Q ss_pred             hHHHHHHHHHhhchHHHHHHHHHhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCC
Q 036188           11 QSFAYADQLATGVVLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDAS   90 (210)
Q Consensus        11 ~~~~~l~~~~~~~~~~~al~~a~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~   90 (210)
                      .+...+++++.+++.+++|++++++||||.|.+    +|.|++|||+++|+    +++.++|+||+|++.|+|++.    
T Consensus         7 ~~~~~l~~~~~~~~~~~~l~~~~~lgi~~~l~~----~~~t~~ela~~~~~----~~~~l~r~Lr~L~~~g~l~~~----   74 (334)
T 2ip2_A            7 AAARNLIQVVTGEWKSRCVYVATRLGLADLIES----GIDSDETLAAAVGS----DAERIHRLMRLLVAFEIFQGD----   74 (334)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHTTHHHHHHT----TCCSHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEEE----
T ss_pred             ccHHHHHHHHHHHHHHHHHHHHHHcCcHHHHhC----CCCCHHHHHHHhCc----CHHHHHHHHHHHHhCCceEec----
Confidence            577889999999999999999999999999976    69999999999999    999999999999999999997    


Q ss_pred             CcccceeccccccccccCCCCCChHHHHHHhcChhHHHHHhhHHHHHhcCCchhhhhhCCchhHhhccCchHHHHHHHHH
Q 036188           91 GARRLYSLNSVSKYYVPNKDGVLLGPLIQIIQDKVILESWSQLKDAILEGGIPFNRAHGVHIFEYAGLNPRFNKHFNAAM  170 (210)
Q Consensus        91 ~~~~~y~~t~~s~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~~g~~~f~~~~g~~~fe~l~~~p~~~~~f~~~M  170 (210)
                       +++.|++|+.++.|. +++ .++++++.+..++.+ +.|.+|++++++|+++|+..+|.++|+++.++|+..+.|+++|
T Consensus        75 -~~~~y~~t~~s~~l~-~~~-~~~~~~~~~~~~~~~-~~~~~l~~~l~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~m  150 (334)
T 2ip2_A           75 -TRDGYANTPTSHLLR-DVE-GSFRDMVLFYGEEFH-AAWTPACEALLSGTPGFELAFGEDFYSYLKRCPDAGRRFLLAM  150 (334)
T ss_dssp             -TTTEEEECHHHHTTS-SST-TCSHHHHHHHTTHHH-HHTTTHHHHHHHCCCHHHHHHSSCHHHHHHHCHHHHHHHHHHH
T ss_pred             -CCCeEecCHHHHHHh-CCC-ccHHHHHHHhcCchh-hHHHHHHHHHhcCCChhhhhcCCCHHHHHhhChHHHHHHHHHH
Confidence             578999999999888 655 478999888766544 8999999999999999999999999999999999999999999


Q ss_pred             hhhhhhhHHHHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          171 YNYTSLVMSNILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       171 ~~~~~~~~~~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                       ..+....+.+++.++ |++ .+|||||||+|.++..++
T Consensus       151 -~~~~~~~~~~~~~~~-~~~-~~vlDvG~G~G~~~~~l~  186 (334)
T 2ip2_A          151 -KASNLAFHEIPRLLD-FRG-RSFVDVGGGSGELTKAIL  186 (334)
T ss_dssp             -GGGHHHHHHHHHHSC-CTT-CEEEEETCTTCHHHHHHH
T ss_pred             -HHHHHHHHHHHHhCC-CCC-CEEEEeCCCchHHHHHHH
Confidence             888877888999998 988 999999999999998875

>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=1.4e-31  Score=226.89  Aligned_cols=182  Identities=19%  Similarity=0.267  Sum_probs=164.2

Q ss_pred             HHHHHHHHhhchHHHHHHHHHhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCc
Q 036188           13 FAYADQLATGVVLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGA   92 (210)
Q Consensus        13 ~~~l~~~~~~~~~~~al~~a~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~   92 (210)
                      ...+++++.+++.+++|++|+++||||.|++    +|+|++|||+++|+    +++.++||||+|++.|++++.     +
T Consensus         6 ~~~l~~~~~g~~~~~~l~~a~~lglf~~l~~----g~~t~~elA~~~~~----~~~~l~rlLr~l~~~gl~~~~-----~   72 (332)
T 3i53_A            6 AHIGLRALADLATPMAVRVAATLRVADHIAA----GHRTAAEIASAAGA----HADSLDRLLRHLVAVGLFTRD-----G   72 (332)
T ss_dssp             CSSCHHHHTCCHHHHHHHHHHHHTHHHHHHT----TCCBHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEEC-----T
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHcChHHHHhc----CCCCHHHHHHHHCc----CHHHHHHHHHHHHhCCcEEec-----C
Confidence            3457899999999999999999999999986    69999999999999    999999999999999999997     5


Q ss_pred             ccceeccccccccccCCCCCChHHHHHHhcChhHH-HHHhhHHHHHhcCCchhhhhhCCchhHhhccCchHHHHHHHHHh
Q 036188           93 RRLYSLNSVSKYYVPNKDGVLLGPLIQIIQDKVIL-ESWSQLKDAILEGGIPFNRAHGVHIFEYAGLNPRFNKHFNAAMY  171 (210)
Q Consensus        93 ~~~y~~t~~s~~l~~~~~~~~~~~~~~~~~~~~~~-~~~~~L~~~l~~g~~~f~~~~g~~~fe~l~~~p~~~~~f~~~M~  171 (210)
                      ++.|.+|+.++.|..+++ .++.+++.+...+..+ +.|.+|++++++|+++|+..+|.++|+|+.++|+..+.|+++|.
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            899999999998876665 4788888765444455 78999999999999999999998999999999999999999999


Q ss_pred             hhhhhhHHHHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          172 NYTSLVMSNILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       172 ~~~~~~~~~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ..+....+.+++.++ |++..+|||||||+|.++..++
T Consensus       152 ~~~~~~~~~~~~~~~-~~~~~~vlDvG~G~G~~~~~l~  188 (332)
T 3i53_A          152 HHLELDYTGIAAKYD-WAALGHVVDVGGGSGGLLSALL  188 (332)
T ss_dssp             HHHHHHHTTGGGSSC-CGGGSEEEEETCTTSHHHHHHH
T ss_pred             HhHHhhHHHHHHhCC-CCCCCEEEEeCCChhHHHHHHH
Confidence            988877778888888 9999999999999999998875

>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=1.8e-30  Score=223.55  Aligned_cols=204  Identities=36%  Similarity=0.613  Sum_probs=158.5

Q ss_pred             chhcchHHHHHH--HHHhhchHHHHHHHHHhhChhhHHhhcC-CCCCCCHHHHHHHhcC--CCCCCcccHHHHHHHHhcc
Q 036188            6 DGERDQSFAYAD--QLATGVVLPMAIQAVYELGIFEILDKAG-PGTKLSASDIAAQLLT--KNKDAPMMLDRILRLLASY   80 (210)
Q Consensus         6 ~~~~~~~~~~l~--~~~~~~~~~~al~~a~~lglfd~L~~~g-~~~~~t~~eLA~~~~~--~~~~~~~~l~rlLr~L~~~   80 (210)
                      .++..++...++  +++.+++.+++|++|+++||||.|++.| +|+++|++|||+++++  ++|.+++.++|+||+|++.
T Consensus        16 ~~~~~~~~~~l~~~~l~~~~~~~~~l~~a~~lgif~~L~~~g~pg~~~t~~eLA~~~~~~~~~~~~~~~l~rlLr~L~~~   95 (372)
T 1fp1_D           16 TSEQTEDSACLSAMVLTTNLVYPAVLNAAIDLNLFEIIAKATPPGAFMSPSEIASKLPASTQHSDLPNRLDRMLRLLASY   95 (372)
T ss_dssp             ---CCHHHHHHHHHHHHHTTHHHHHHHHHHHTTHHHHHHTCSSTTCCBCHHHHHTTSCGGGCCTTHHHHHHHHHHHHHHT
T ss_pred             hhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHCChHHHHHhcCCCCCCcCHHHHHHhcCCCCCCCcChHHHHHHHHHHhhC
Confidence            345778888888  9999999999999999999999999753 1122999999999998  2333678999999999999


Q ss_pred             cceeeeccCC-Cc--ccceeccccccccccCCCCCChHHHHHHhcChhHHHHHhhHHHHHhcC-CchhhhhhCCchhHhh
Q 036188           81 SVVECSLDAS-GA--RRLYSLNSVSKYYVPNKDGVLLGPLIQIIQDKVILESWSQLKDAILEG-GIPFNRAHGVHIFEYA  156 (210)
Q Consensus        81 gl~~~~~~~~-~~--~~~y~~t~~s~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~~g-~~~f~~~~g~~~fe~l  156 (210)
                      |+|++....+ .+  ++.|++|+.++.|+++++..++++++.+..++.+++.|.+|++++++| ++||+.++|.++|+|+
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            9999861000 01  469999999998887765237889988876777788999999999998 8899999999999999


Q ss_pred             ccCchHHHHHHHHHhhhhhhhHHHHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          157 GLNPRFNKHFNAAMYNYTSLVMSNILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       157 ~~~p~~~~~f~~~M~~~~~~~~~~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      .++|+..+.|+++|...+....+.+++.++.|++..+|||||||+|.++..++
T Consensus       176 ~~~~~~~~~f~~~m~~~~~~~~~~l~~~~~~~~~~~~vLDvG~G~G~~~~~l~  228 (372)
T 1fp1_D          176 GKDKKMNQIFNKSMVDVCATEMKRMLEIYTGFEGISTLVDVGGGSGRNLELII  228 (372)
T ss_dssp             SSCHHHHHHHHHHHHHHHHHHHHHHHHHCCTTTTCSEEEEETCTTSHHHHHHH
T ss_pred             HhCHHHHHHHHHHHHhhhHHHHHHHHHHhhccCCCCEEEEeCCCCcHHHHHHH
Confidence            99999999999999998888788889998658889999999999999998875

>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=99.96  E-value=2.7e-29  Score=215.59  Aligned_cols=185  Identities=19%  Similarity=0.254  Sum_probs=165.2

Q ss_pred             chHHHHHHHHHhhchHHHHHHHHHhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccC
Q 036188           10 DQSFAYADQLATGVVLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDA   89 (210)
Q Consensus        10 ~~~~~~l~~~~~~~~~~~al~~a~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~   89 (210)
                      .+....+++++.+++.+++|++++++|||+.|..    +|+|++|||+++|+    +++.++|+||+|++.|+|++.   
T Consensus        14 ~~~~~~l~~~~~~~~~~~~l~~~~~l~i~~~l~~----~~~t~~eLA~~~g~----~~~~l~r~Lr~L~~~Gll~~~---   82 (374)
T 1qzz_A           14 DQDLDVLLKNLGNLVTPMALRVAATLRLVDHLLA----GADTLAGLADRTDT----HPQALSRLVRHLTVVGVLEGG---   82 (374)
T ss_dssp             HHHHHHHHHTTTCCHHHHHHHHHHHTTHHHHHHT----TCCSHHHHHHHHTC----CHHHHHHHHHHHHHTTSEECC---
T ss_pred             chHHHHHHHHHHhhHHHHHHHHHHHcChHHHHhC----CCCCHHHHHHHhCc----CHHHHHHHHHHHhhCCCEEEe---
Confidence            4556679999999999999999999999999965    69999999999999    999999999999999999986   


Q ss_pred             CCccc--ceeccccccccccCCCCCChHHHHHHhcChhHH-HHHhhHHHHHhcCCchhhhhhCCchhHhhccCchHHHHH
Q 036188           90 SGARR--LYSLNSVSKYYVPNKDGVLLGPLIQIIQDKVIL-ESWSQLKDAILEGGIPFNRAHGVHIFEYAGLNPRFNKHF  166 (210)
Q Consensus        90 ~~~~~--~y~~t~~s~~l~~~~~~~~~~~~~~~~~~~~~~-~~~~~L~~~l~~g~~~f~~~~g~~~fe~l~~~p~~~~~f  166 (210)
                        .++  .|.+|+.++.|..+++ .++++++.+...+..+ ..|.+|.+.+++|.++|...+|.++|+++..+|+..+.|
T Consensus        83 --~~~~~~y~~t~~s~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~g~~~~~~~~~~~~~~~~f  159 (374)
T 1qzz_A           83 --EKQGRPLRPTRLGMLLADGHP-AQQRAWLDLNGAVSHADLAFTGLLDVVRTGRPAYAGRYGRPFWEDLSADVALADSF  159 (374)
T ss_dssp             --CC-CCCCEECTTGGGGSTTCT-TCHHHHHCTTSHHHHHHGGGGGHHHHHHHSCCSHHHHHSSCHHHHHHHCHHHHHHH
T ss_pred             --CCCCeEEEEChHHHhhcCCCc-ccHHHHHHHcCChhhHHHHHHHHHHHHhcCCChhhhhhCCCHHHHHhhChHHHHHH
Confidence              467  9999999999987766 4788888766444456 789999999999999999999999999999999999999


Q ss_pred             HHHHhhhhhhhHHHHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          167 NAAMYNYTSLVMSNILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       167 ~~~M~~~~~~~~~~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      +.+|...+....+.+++.++ +++..+|||||||+|.++..++
T Consensus       160 ~~~~~~~~~~~~~~~~~~~~-~~~~~~vlDvG~G~G~~~~~l~  201 (374)
T 1qzz_A          160 DALMSCDEDLAYEAPADAYD-WSAVRHVLDVGGGNGGMLAAIA  201 (374)
T ss_dssp             HHTCGGGSTTTTHHHHHTSC-CTTCCEEEEETCTTSHHHHHHH
T ss_pred             HHHHHHhhHhHHHHHHHhCC-CCCCCEEEEECCCcCHHHHHHH
Confidence            99999888777788899998 8889999999999999998875

>3dp7_A SAM-dependent methyltransferase; structural genomics, protein structure initiative, NEW YORK structural genomix research; 2.33A {Bacteroides vulgatus}

Probab=99.96  E-value=2.1e-29  Score=216.34  Aligned_cols=185  Identities=17%  Similarity=0.199  Sum_probs=155.9

Q ss_pred             cchhcchHHHHHHHHHhhchHHHHHHHHHhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhccccee
Q 036188            5 VDGERDQSFAYADQLATGVVLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVE   84 (210)
Q Consensus         5 ~~~~~~~~~~~l~~~~~~~~~~~al~~a~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~   84 (210)
                      .|.++.++..++++++++++.+++|++++++||||.|++.+  +|+|++|||+++|+    +++.++||||+|++.|+|+
T Consensus         8 ~~~~~~~a~~~l~~l~~g~~~~~~l~~a~~lgifd~L~~~~--~~~t~~eLA~~~g~----~~~~l~rlLr~l~~~g~l~   81 (363)
T 3dp7_A            8 EQCTAAEAQRLAQEIAFGPVVFQVSRLMLKFGIFQLLSGKR--EGYTLQEISGRTGL----TRYAAQVLLEASLTIGTIL   81 (363)
T ss_dssp             SCCCSTTHHHHHHHHHHHHHHHHHHHHHHHTTHHHHHHTCT--TCBCHHHHHHHHTC----CHHHHHHHHHHHHHHTSEE
T ss_pred             CchhHHHHHHHHHHHHhhHHHHHHHHHHHHhCHHHHHHhcC--CCCCHHHHHHHhCc----CHHHHHHHHHHHhhCCCeE
Confidence            46678899999999999999999999999999999999844  69999999999999    9999999999999999998


Q ss_pred             eeccCCCcccceeccccccccccCCCCCChHHHHHHhcChhHHHHHhhHHHHHhcCCchhhhhhC--CchhHhhccCchH
Q 036188           85 CSLDASGARRLYSLNSVSKYYVPNKDGVLLGPLIQIIQDKVILESWSQLKDAILEGGIPFNRAHG--VHIFEYAGLNPRF  162 (210)
Q Consensus        85 ~~~~~~~~~~~y~~t~~s~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~~g~~~f~~~~g--~~~fe~l~~~p~~  162 (210)
                      +.      +++|++|+.|++|+.+++   ...++.+ ..+.+++.|.+|++++++|++++..++|  .++|+++.++|+.
T Consensus        82 ~~------~~~y~~t~~s~~L~~~~~---~~~~~~~-~~~~~~~~~~~L~~~lr~g~~~~~~~~g~~~~~~~~~~~~~~~  151 (363)
T 3dp7_A           82 LE------EDRYVLAKAGWFLLNDKM---ARVNMEF-NHDVNYQGLFHLEEALLNGRPEGLKVFGEWPTIYEGLSQLPEQ  151 (363)
T ss_dssp             EE------TTEEEECHHHHHHHHCHH---HHHHHHH-HHHTTHHHHTTHHHHHHHSSCGGGGGTCCCSSHHHHGGGSCHH
T ss_pred             ec------CCEEecccchHHhhCCCc---ccchhee-ecHHhhhhHHHHHHHHhcCCCccccccCchHhHHHHHhhCHHH
Confidence            85      789999999998887654   2223333 2356789999999999999999988888  6999999999998


Q ss_pred             HH----HHHHHHhhhhhhhHHHHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          163 NK----HFNAAMYNYTSLVMSNILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       163 ~~----~f~~~M~~~~~~~~~~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      .+    .|+.+|.....   ..+++.+. ..+..+|||||||+|.++..++
T Consensus       152 ~~~~~~~f~~~~~~~~~---~~~l~~~~-~~~~~~vlDvG~G~G~~~~~l~  198 (363)
T 3dp7_A          152 VQKSWFGFDHFYSDQSF---GKALEIVF-SHHPKRLLDIGGNTGKWATQCV  198 (363)
T ss_dssp             HHHHHHHHHHHTTCCCC---HHHHHHHG-GGCCSEEEEESCTTCHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhhH---HHHHHHhc-ccCCCEEEEeCCCcCHHHHHHH
Confidence            76    47777765432   23455544 4678999999999999998876

>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=1.6e-28  Score=209.95  Aligned_cols=182  Identities=19%  Similarity=0.244  Sum_probs=163.9

Q ss_pred             HHHHHHHHhhchHHHHHHHHHhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCc
Q 036188           13 FAYADQLATGVVLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGA   92 (210)
Q Consensus        13 ~~~l~~~~~~~~~~~al~~a~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~   92 (210)
                      ..++++++.+++.+++|++++++|||+.|..    +|+|++|||+++++    +++.+.|+||+|++.|+|++.     .
T Consensus        20 ~~~~~~~~~~~~~~~~l~~~~~l~i~~~l~~----~~~t~~ela~~~~~----~~~~l~r~L~~L~~~g~~~~~-----~   86 (360)
T 1tw3_A           20 ALRTLIRLGSLHTPMVVRTAATLRLVDHILA----GARTVKALAARTDT----RPEALLRLIRHLVAIGLLEED-----A   86 (360)
T ss_dssp             HHHHHHHHHCSHHHHHHHHHHHTTHHHHHHT----TCCBHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEEE-----E
T ss_pred             hHHHHHHHHhHHHHHHHHHHHHhCHHHHHhC----CCCCHHHHHHHhCc----CHHHHHHHHHHHHHCCCEEec-----C
Confidence            5678999999999999999999999999965    69999999999999    999999999999999999986     4


Q ss_pred             ccceeccccccccccCCCCCChHHHHHHhcChh-HHHHHhhHHHHHhcCCchhhhhhCCchhHhhccCchHHHHHHHHHh
Q 036188           93 RRLYSLNSVSKYYVPNKDGVLLGPLIQIIQDKV-ILESWSQLKDAILEGGIPFNRAHGVHIFEYAGLNPRFNKHFNAAMY  171 (210)
Q Consensus        93 ~~~y~~t~~s~~l~~~~~~~~~~~~~~~~~~~~-~~~~~~~L~~~l~~g~~~f~~~~g~~~fe~l~~~p~~~~~f~~~M~  171 (210)
                      +|.|++|+.++.|+.+.+ .++.+++.+...+. .+..|.+|.+.+++|.++|+..+|.++|+++..+|+....|+..|.
T Consensus        87 ~g~y~~t~~s~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~l~~~l~~g~~~~~~~~g~~~~~~~~~~p~~~~~f~~~~~  165 (360)
T 1tw3_A           87 PGEFVPTEVGELLADDHP-AAQRAWHDLTQAVARADISFTRLPDAIRTGRPTYESIYGKPFYEDLAGRPDLRASFDSLLA  165 (360)
T ss_dssp             TTEEEECTTGGGGSTTST-TCHHHHTCTTSHHHHHGGGGGGHHHHHHHCCCCHHHHHSSCHHHHHHTCHHHHHHHHHHHT
T ss_pred             CCeEEeCHHHHHHhcCCc-hhHHHHHHHhcCchhHHHHHHHHHHHHHcCCCHHHHhcCCCHHHHHHhChHHHHHHHHHHH
Confidence            789999999999987776 57888876654332 5678999999999999999999999999999999999999999999


Q ss_pred             hhhhhhHHHHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          172 NYTSLVMSNILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       172 ~~~~~~~~~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ..+....+.+++.++ +++..+|||||||+|.++..++
T Consensus       166 ~~~~~~~~~l~~~~~-~~~~~~vLDvG~G~G~~~~~l~  202 (360)
T 1tw3_A          166 CDQDVAFDAPAAAYD-WTNVRHVLDVGGGKGGFAAAIA  202 (360)
T ss_dssp             TTTTTTTHHHHHHSC-CTTCSEEEEETCTTSHHHHHHH
T ss_pred             HHHHHhHHHHHHhCC-CccCcEEEEeCCcCcHHHHHHH
Confidence            888877788899998 9889999999999999998875

>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=1.2e-27  Score=204.68  Aligned_cols=181  Identities=18%  Similarity=0.282  Sum_probs=159.4

Q ss_pred             cccchhcchHHHHHHHHHh-hchHHHHHHHHHhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhccc
Q 036188            3 SIVDGERDQSFAYADQLAT-GVVLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYS   81 (210)
Q Consensus         3 ~~~~~~~~~~~~~l~~~~~-~~~~~~al~~a~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~g   81 (210)
                      +..++++.++..++++++. +++.+++|++++++||||.|++    +|.|++|||+++|+    +++.++|+||+|++.|
T Consensus        21 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~a~~lgif~~L~~----~~~t~~eLA~~~g~----~~~~l~rlLr~L~~~g   92 (359)
T 1x19_A           21 MMSNNDLLNYYHRANELVFKGLIEFSCMKAAIELDLFSHMAE----GPKDLATLAADTGS----VPPRLEMLLETLRQMR   92 (359)
T ss_dssp             EECCCHHHHHHHHHHHHHTHHHHHHHHHHHHHHHTHHHHHTT----CCBCHHHHHHHHTC----CHHHHHHHHHHHHHTT
T ss_pred             cCCccccCCcchHHHHHHHHHHHHHHHHHHHHHcCcHHHHcC----CCCCHHHHHHHhCc----ChHHHHHHHHHHHhCC
Confidence            4567788899999999997 8999999999999999999987    69999999999999    9999999999999999


Q ss_pred             ceeeeccCCCcccceecccc-ccccccCCCC--CChHHHHHHhcChhHHHHHhhHHHHHhcCCchhhhhhCCchhHhhcc
Q 036188           82 VVECSLDASGARRLYSLNSV-SKYYVPNKDG--VLLGPLIQIIQDKVILESWSQLKDAILEGGIPFNRAHGVHIFEYAGL  158 (210)
Q Consensus        82 l~~~~~~~~~~~~~y~~t~~-s~~l~~~~~~--~~~~~~~~~~~~~~~~~~~~~L~~~l~~g~~~f~~~~g~~~fe~l~~  158 (210)
                      +|++.      ++.|++|+. +.+|.++++.  .++++++.+. .+.+++.|.+|++++++|.+          |+++.+
T Consensus        93 ll~~~------~~~y~~t~~~~~~l~~~~~~~~~~~~~~~~~~-~~~~~~~~~~L~~~l~~g~~----------~~~~~~  155 (359)
T 1x19_A           93 VINLE------DGKWSLTEFADYMFSPTPKEPNLHQTPVAKAM-AFLADDFYMGLSQAVRGQKN----------FKGQVP  155 (359)
T ss_dssp             SEEEE------TTEEEECHHHHHHSSSSCSBTTBCCHHHHHHH-HHHHHHTGGGHHHHHTTSCC----------CCCSSC
T ss_pred             CeEee------CCeEecCHHHHHHhcCCCCCccccHHHHHHHH-HHHHHHHHHHHHHHHhcCCC----------Cccccc
Confidence            99997      579999996 5577766541  3788888775 35678899999999988764          778888


Q ss_pred             Cch---HHHHHHHHHhhhhh-hhHHHHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          159 NPR---FNKHFNAAMYNYTS-LVMSNILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       159 ~p~---~~~~f~~~M~~~~~-~~~~~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      +|+   ..+.|+.+|...+. ...+.+++.++ +++..+|||||||+|.++..++
T Consensus       156 ~p~~~~~~~~f~~~m~~~~~~~~~~~l~~~~~-~~~~~~vLDvG~G~G~~~~~l~  209 (359)
T 1x19_A          156 YPPVTREDNLYFEEIHRSNAKFAIQLLLEEAK-LDGVKKMIDVGGGIGDISAAML  209 (359)
T ss_dssp             SSCCSHHHHHHHHHHHHTTCHHHHHHHHHHCC-CTTCCEEEEESCTTCHHHHHHH
T ss_pred             CchhhHHHHHHHHHHHHhccchhHHHHHHhcC-CCCCCEEEEECCcccHHHHHHH
Confidence            999   99999999999888 77788999998 9999999999999999998875

>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=1.6e-27  Score=201.52  Aligned_cols=174  Identities=18%  Similarity=0.169  Sum_probs=156.9

Q ss_pred             HHHHHHHhhchHHHHHHHHHhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcc
Q 036188           14 AYADQLATGVVLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGAR   93 (210)
Q Consensus        14 ~~l~~~~~~~~~~~al~~a~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~   93 (210)
                      ..+++++.+++.+++|++++++||||.|++    +|.|++|||+++|+    +++.++|+||+|++.|+|++.      +
T Consensus         8 ~~l~~~~~~~~~~~~l~~~~~l~i~~~l~~----~~~t~~ela~~~~~----~~~~l~r~L~~L~~~g~l~~~------~   73 (335)
T 2r3s_A            8 ALFFNTVNAYQRSAAIKAAVELNVFTAISQ----GIESSQSLAQKCQT----SERGMRMLCDYLVIIGFMTKQ------A   73 (335)
T ss_dssp             HHHHHHHTTHHHHHHHHHHHHTTHHHHHTT----SEECHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEEE------T
T ss_pred             HHHHHHHHHHHHHHHHHHHHHcChHHHHhc----CCCCHHHHHHHhCC----CchHHHHHHHHHHhcCCeEec------C
Confidence            678999999999999999999999999997    69999999999999    999999999999999999875      7


Q ss_pred             cceeccccc-cccccCCCCCChHHHHHHhcChhHHHHHhhHHHHHhcCCchhhhhhCCchhHhhccCchHHHHHHHHHhh
Q 036188           94 RLYSLNSVS-KYYVPNKDGVLLGPLIQIIQDKVILESWSQLKDAILEGGIPFNRAHGVHIFEYAGLNPRFNKHFNAAMYN  172 (210)
Q Consensus        94 ~~y~~t~~s-~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~~g~~~f~~~~g~~~fe~l~~~p~~~~~f~~~M~~  172 (210)
                      +.|++|+.+ ++|.++++ .++++++.+...+.+++.|.+|++++++|.++|+     + |+++.++|+..+.|...|..
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 68887666 5788888887665678899999999999888765     3 88889999999999999999


Q ss_pred             hhhhhHHHHHHhCCCC--CCCCeEEEecCCccHHHHhhh
Q 036188          173 YTSLVMSNILESYKGF--DNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       173 ~~~~~~~~~l~~~~~~--~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ........+++.++ +  .+..+|||||||+|.++..++
T Consensus       147 ~~~~~~~~~~~~~~-~~~~~~~~vlDvG~G~G~~~~~l~  184 (335)
T 2r3s_A          147 MMANPAQLIAQLVN-ENKIEPLKVLDISASHGLFGIAVA  184 (335)
T ss_dssp             GGHHHHHHHHHHHT-C--CCCSEEEEETCTTCHHHHHHH
T ss_pred             HHhhhHHHHHHhcc-cccCCCCEEEEECCCcCHHHHHHH
Confidence            88887888899998 8  888999999999999998875

>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=1.4e-26  Score=197.25  Aligned_cols=182  Identities=14%  Similarity=0.232  Sum_probs=153.2

Q ss_pred             CcccchhcchHHHHHHHHHhhchHHHHHHHHHhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhccc
Q 036188            2 DSIVDGERDQSFAYADQLATGVVLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYS   81 (210)
Q Consensus         2 ~~~~~~~~~~~~~~l~~~~~~~~~~~al~~a~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~g   81 (210)
                      .+++|++..+.+..+++++.+++.+++|++++++||||.|++     |+|++|||+++|+    +++.++||||+|++.|
T Consensus        14 ~~~~~~~~l~~p~~l~~~~~~~~~~~~l~~a~~lgif~~l~~-----~~t~~elA~~~~~----~~~~l~rlLr~L~~~g   84 (352)
T 3mcz_A           14 ESTEDKAALTSVVDLVKLSDQYRQSAILHYAVADKLFDLTQT-----GRTPAEVAASFGM----VEGKAAILLHALAALG   84 (352)
T ss_dssp             SCCCSCCCCCSHHHHHHHHHTHHHHHHHHHHHHTTHHHHTTS-----CBCHHHHHHHHTC----CHHHHHHHHHHHHHTT
T ss_pred             HhccCCCCCCCHHHHHHHHHHHHHHHHHHHHHHCChHHHhCC-----CCCHHHHHHHhCc----ChHHHHHHHHHHHHCC
Confidence            357888888888889999999999999999999999999954     9999999999999    9999999999999999


Q ss_pred             ceeeeccCCCcccceecccccc-ccccCCCCCChHHHHHHhcChhHHHHHhhHHHHHhcCCch-hhhhhCCchhHhhccC
Q 036188           82 VVECSLDASGARRLYSLNSVSK-YYVPNKDGVLLGPLIQIIQDKVILESWSQLKDAILEGGIP-FNRAHGVHIFEYAGLN  159 (210)
Q Consensus        82 l~~~~~~~~~~~~~y~~t~~s~-~l~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~~g~~~-f~~~~g~~~fe~l~~~  159 (210)
                      +|++.      ++.|.+|+.++ ++.++.+ .+++.++.+.  ..+++.|.+|++++++|.+. |+..      .++..+
T Consensus        85 ll~~~------~~~y~~t~~s~~~l~~~~~-~~~~~~~~~~--~~~~~~~~~l~~~l~~g~~~~f~~~------~~~~~~  149 (352)
T 3mcz_A           85 LLTKE------GDAFRNTALTERYLTTTSA-DYIGPIVEHQ--YLQWDNWPRLGEILRSEKPLAFQQE------SRFAHD  149 (352)
T ss_dssp             SEEEE------TTEEEECHHHHHHHSTTCT-TCCHHHHHHH--HTTTTTGGGHHHHHTCSSCCTTSHH------HHTTTC
T ss_pred             CeEec------CCeeecCHHHHhhccCCCh-hhHHHHHHHh--HHHHHHHHHHHHHHhCCCCCCcccc------cccccC
Confidence            99997      57899999997 5666555 5788887654  34678899999999998754 3321      234678


Q ss_pred             chHHHHHHHHHhhhhhhhHHHHHHhCCCCCC-CCeEEEecCCccHHHHhhh
Q 036188          160 PRFNKHFNAAMYNYTSLVMSNILESYKGFDN-IKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       160 p~~~~~f~~~M~~~~~~~~~~~l~~~~~~~~-~~~vvDiGGg~G~~~~~l~  209 (210)
                      |+..+.|+.+|...... ...+++.++ +.+ ..+|||||||+|.++..++
T Consensus       150 ~~~~~~f~~~m~~~~~~-~~~~l~~~~-~~~~~~~vlDvG~G~G~~~~~l~  198 (352)
T 3mcz_A          150 TRARDAFNDAMVRLSQP-MVDVVSELG-VFARARTVIDLAGGHGTYLAQVL  198 (352)
T ss_dssp             HHHHHHHHHHHHHHHHH-HHHHHHTCG-GGTTCCEEEEETCTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhhh-HHHHHHhCC-CcCCCCEEEEeCCCcCHHHHHHH
Confidence            99999999999974332 347888888 877 9999999999999998875

>2qm3_A Predicted methyltransferase; putative methyltransferase, structural genomics, pyrococcus PSI-2, protein structure initiative; HET: MSE; 2.05A {Pyrococcus furiosus dsm 3638}

Probab=98.21  E-value=1.8e-06  Score=73.80  Aligned_cols=55  Identities=11%  Similarity=0.031  Sum_probs=47.6

Q ss_pred             ChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceecccccc-ccc
Q 036188           36 GIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSVSK-YYV  106 (210)
Q Consensus        36 glfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~~s~-~l~  106 (210)
                      +||..| .    +|.|+.|||.++++    +++.++++|+.|.+.|+++..      .+ |.+|+.+. ++.
T Consensus        47 ~ll~~L-~----~~~t~~eLa~~~g~----~~~~v~~~L~~l~~~gll~~~------~~-~~lt~~~~~~l~  102 (373)
T 2qm3_A           47 NVLSAV-L----ASDDIWRIVDLSEE----PLPLVVAILESLNELGYVTFE------DG-VKLTEKGEELVA  102 (373)
T ss_dssp             HHHHHH-H----HCSCHHHHHHHHTS----CHHHHHHHHHHHHHTTSEECS------SS-SEECHHHHHHHH
T ss_pred             HHHHHh-c----CCCCHHHHHHHhCC----ChHHHHHHHHHHhhCCcEEEC------CC-EEECHHHHHHHH
Confidence            778888 5    59999999999999    999999999999999999875      35 99998765 443

>2heo_A Z-DNA binding protein 1; protein DLM1-Z-DNA complex, immune system-DNA complex; 1.70A {Mus musculus} PDB: 1j75_A

Probab=97.78  E-value=2e-05  Score=50.75  Aligned_cols=55  Identities=16%  Similarity=0.286  Sum_probs=47.4

Q ss_pred             hhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceecc
Q 036188           34 ELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLN   99 (210)
Q Consensus        34 ~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t   99 (210)
                      +..|.++|.+++  .++|..|||+++|+    +...+.+++..|...|++...     ..|+|.++
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----PKKTLNQVLYRLKKEDRVSSP-----SPKYWSIG   66 (67)
T ss_dssp             HHHHHHHHHHHC--SCEEHHHHHHHHCS----CHHHHHHHHHHHHHTTSEEEE-----ETTEEEEC
T ss_pred             HHHHHHHHHHcC--CCcCHHHHHHHHCc----CHHHHHHHHHHHHHCCcEecC-----CCceEeeC
Confidence            556888898754  58999999999999    999999999999999999775     46888764

>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=97.68  E-value=7e-05  Score=50.04  Aligned_cols=70  Identities=21%  Similarity=0.314  Sum_probs=52.3

Q ss_pred             HHHHhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceeccccccccc
Q 036188           30 QAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSVSKYYV  106 (210)
Q Consensus        30 ~~a~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~~s~~l~  106 (210)
                      ..-.+..|.++|.++++|.++|+.|||+++|+    +...+++.|.-|...|++....   ..++.|...+......
T Consensus         8 ~~~~~~~IL~~L~~~~pg~~~t~~eLA~~Lgv----sr~tV~~~L~~Le~~G~I~~~g---~~~~~W~i~~~~~~~~   77 (81)
T 1qbj_A            8 YQDQEQRILKFLEELGEGKATTAHDLSGKLGT----PKKEINRVLYSLAKKGKLQKEA---GTPPLWKIAVSTQAWN   77 (81)
T ss_dssp             HHHHHHHHHHHHHHHCTTCCBCHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEEES---SSSCEEEEC-------
T ss_pred             chHHHHHHHHHHHHcCCCCCcCHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEecC---CCCCeeEEeCcHHhcc
Confidence            33456678889988766668999999999999    9999999999999999998752   2457888777665443

>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=97.60  E-value=7.8e-05  Score=51.07  Aligned_cols=63  Identities=19%  Similarity=0.208  Sum_probs=53.5

Q ss_pred             HHHHHHHhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceeccccccc
Q 036188           27 MAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSVSKY  104 (210)
Q Consensus        27 ~al~~a~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~~s~~  104 (210)
                      .++..-.++.|+..| .    ++.|+.|||+++++    ++..+.+.|+.|...|++.+.     . |.|.+++.+..
T Consensus        26 ~~l~~~~r~~Il~~L-~----~~~~~~eLa~~l~i----s~~tv~~~L~~L~~~Glv~~~-----~-g~y~l~~~g~~   88 (96)
T 1y0u_A           26 YAVTNPVRRKILRML-D----KGRSEEEIMQTLSL----SKKQLDYHLKVLEAGFCIERV-----G-ERWVVTDAGKI   88 (96)
T ss_dssp             HHHSCHHHHHHHHHH-H----TTCCHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEEE-----T-TEEEECTTTCC
T ss_pred             HHhCCHHHHHHHHHH-c----CCCCHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEEE-----C-CEEEECCCchH
Confidence            344455667788889 5    58999999999999    999999999999999999987     4 78999987654

>1qgp_A Protein (double stranded RNA adenosine deaminase); Z-alpha-Z-DNA binding domain, RNA-editing, Z-DNA recognition, ADAR1, helix- turn-helix; NMR {Homo sapiens} SCOP: a.4.5.19

Probab=97.49  E-value=0.00011  Score=48.66  Aligned_cols=61  Identities=25%  Similarity=0.377  Sum_probs=49.9

Q ss_pred             HhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceeccc
Q 036188           33 YELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNS  100 (210)
Q Consensus        33 ~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~  100 (210)
                      .+..|.++|.+++++.++|+.|||+++|+    +...+.+.|.-|...|++....   ..++.|..++
T Consensus        15 ~~~~IL~~L~~~~~~~~~t~~eLA~~Lgv----s~~tV~~~L~~L~~~G~I~~~g---~~~~~W~i~~   75 (77)
T 1qgp_A           15 QEQRILKFLEELGEGKATTAHDLSGKLGT----PKKEINRVLYSLAKKGKLQKEA---GTPPLWKIAV   75 (77)
T ss_dssp             HHHHHHHHHHHHCSSSCEEHHHHHHHHCC----CHHHHHHHHHHHHHHTSEEEEC---SSSCEEEECC
T ss_pred             HHHHHHHHHHHcCCCCCcCHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEecC---CCCCceEecC
Confidence            35678888988754458999999999999    9999999999999999998762   1356777654

>3b73_A PHIH1 repressor-like protein; winged-helix-turn-helix, structural genomics, PSI-2, protein structure initiative; 2.12A {Haloarcula marismortui atcc 43049}

Probab=97.43  E-value=6.8e-05  Score=53.15  Aligned_cols=63  Identities=17%  Similarity=0.265  Sum_probs=54.4

Q ss_pred             HhhChhhHHhhcCCCCCCCHHHHHHHh--cCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceecccccccccc
Q 036188           33 YELGIFEILDKAGPGTKLSASDIAAQL--LTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSVSKYYVP  107 (210)
Q Consensus        33 ~~lglfd~L~~~g~~~~~t~~eLA~~~--~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~~s~~l~~  107 (210)
                      ++..|.+.|.+.   +++|+.+||+.+  ++    .+..+.+-|+.|...|+++..     ..+.|++|+.++.+..
T Consensus        14 ~d~~IL~~L~~~---g~~s~~eLA~~l~~gi----S~~aVs~rL~~Le~~GLV~~~-----~rg~Y~LT~~G~~~l~   78 (111)
T 3b73_A           14 WDDRILEIIHEE---GNGSPKELEDRDEIRI----SKSSVSRRLKKLADHDLLQPL-----ANGVYVITEEGEAYLN   78 (111)
T ss_dssp             HHHHHHHHHHHH---SCBCHHHHHTSTTCCS----CHHHHHHHHHHHHHTTSEEEC-----STTCEEECHHHHHHHT
T ss_pred             HHHHHHHHHHHc---CCCCHHHHHHHHhcCC----CHHHHHHHHHHHHHCCCEEec-----CCceEEECchHHHHHH
Confidence            356688889776   599999999999  99    999999999999999999986     4569999999975543

>3mq0_A Transcriptional repressor of the blcabc operon; helix-turn-helix, GAF fold, transcription repressor; 1.79A {Agrobacterium tumefaciens}

Probab=97.30  E-value=0.00018  Score=58.87  Aligned_cols=59  Identities=14%  Similarity=0.191  Sum_probs=49.6

Q ss_pred             hChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceeccccccc
Q 036188           35 LGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSVSKY  104 (210)
Q Consensus        35 lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~~s~~  104 (210)
                      +.|.+.|++.+  +++|+.|||+++|+    +..-+.|+|+.|+..|++.++     .++.|.+++....
T Consensus        33 l~IL~~l~~~~--~~ltl~eia~~lgl----~ksTv~RlL~tL~~~G~v~~~-----~~~~Y~LG~~~~~   91 (275)
T 3mq0_A           33 VRILDLVAGSP--RDLTAAELTRFLDL----PKSSAHGLLAVMTELDLLARS-----ADGTLRIGPHSLR   91 (275)
T ss_dssp             HHHHHHHHHCS--SCEEHHHHHHHHTC----C--CHHHHHHHHHHTTSEEEC-----TTSEEEECTHHHH
T ss_pred             HHHHHHHhhCC--CCCCHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEEC-----CCCcEEehHHHHH
Confidence            56888898865  58999999999999    999999999999999999997     4578999986443

>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=97.28  E-value=0.00022  Score=47.31  Aligned_cols=61  Identities=13%  Similarity=0.079  Sum_probs=50.1

Q ss_pred             HhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcc-cHHHHHHHHhcccceeeeccCCCcccceecccccc
Q 036188           33 YELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPM-MLDRILRLLASYSVVECSLDASGARRLYSLNSVSK  103 (210)
Q Consensus        33 ~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~-~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~~s~  103 (210)
                      .+-.|.++|...   +|.|+.+||+.+|+    .+. .+++.|..|...|+++...   .+.-.|.+|+.++
T Consensus        12 ~~~~IL~~Lk~~---g~~ta~eiA~~Lgi----t~~~aVr~hL~~Le~eGlV~~~~---~gRP~w~LT~~g~   73 (79)
T 1xmk_A           12 IKEKICDYLFNV---SDSSALNLAKNIGL----TKARDINAVLIDMERQGDVYRQG---TTPPIWHLTDKKR   73 (79)
T ss_dssp             HHHHHHHHHHHT---CCEEHHHHHHHHCG----GGHHHHHHHHHHHHHTTSEEEEC---SSSCEEEECHHHH
T ss_pred             HHHHHHHHHHHc---CCcCHHHHHHHcCC----CcHHHHHHHHHHHHHCCCEEecC---CCCCCeEeCHhHH
Confidence            355677888886   59999999999999    998 9999999999999998652   1223799998765

>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=97.02  E-value=0.001  Score=45.74  Aligned_cols=51  Identities=18%  Similarity=0.202  Sum_probs=43.2

Q ss_pred             HHHHHHhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           28 AIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        28 al~~a~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      +|.--.++.|...|..    ++.++.|||+.+|+    ++..+.+.|+.|...|++...
T Consensus        19 ~l~~~~r~~Il~~L~~----~~~~~~ela~~l~i----s~~tvs~~L~~L~~~Glv~~~   69 (102)
T 3pqk_A           19 TLSHPVRLMLVCTLVE----GEFSVGELEQQIGI----GQPTLSQQLGVLRESGIVETR   69 (102)
T ss_dssp             HHCSHHHHHHHHHHHT----CCBCHHHHHHHHTC----CTTHHHHHHHHHHHTTSEEEE
T ss_pred             HcCCHHHHHHHHHHHh----CCCCHHHHHHHHCc----CHHHHHHHHHHHHHCCCeEEE
Confidence            3444455667777865    68999999999999    999999999999999999876

>2y75_A HTH-type transcriptional regulator CYMR; DNA binding protein; 2.00A {Bacillus subtilis}

Probab=96.99  E-value=0.00086  Score=48.31  Aligned_cols=47  Identities=23%  Similarity=0.181  Sum_probs=38.6

Q ss_pred             CCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceecccc
Q 036188           48 TKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSV  101 (210)
Q Consensus        48 ~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~~  101 (210)
                      ++.|+.|||+++++    ++..++++|+.|...|+++...   +..|.|.++.-
T Consensus        25 ~~~s~~ela~~~~i----~~~~v~~il~~L~~~Glv~~~~---g~~ggy~L~~~   71 (129)
T 2y75_A           25 GPTSLKSIAQTNNL----SEHYLEQLVSPLRNAGLVKSIR---GAYGGYVLGSE   71 (129)
T ss_dssp             CCBCHHHHHHHTTS----CHHHHHHHHHHHHHTTSEEEC-------CCEEESSC
T ss_pred             CcCCHHHHHHHHCc----CHHHHHHHHHHHHHCCceEecC---CCCCceEeCCC
Confidence            68999999999999    9999999999999999998752   12467877653

>3jth_A Transcription activator HLYU; transcription factor, RTXA, DNA-binding, transcription regulation; 2.00A {Vibrio vulnificus}

Probab=96.95  E-value=0.00057  Score=46.68  Aligned_cols=51  Identities=24%  Similarity=0.290  Sum_probs=44.2

Q ss_pred             HHHHHHhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           28 AIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        28 al~~a~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      ++.--.++.|...|.+    ++.|+.|||+.+|+    ++..+.+.|+.|...|++...
T Consensus        19 ~l~~~~r~~Il~~L~~----~~~~~~ela~~l~i----s~~tvs~~L~~L~~~Glv~~~   69 (98)
T 3jth_A           19 AMANERRLQILCMLHN----QELSVGELCAKLQL----SQSALSQHLAWLRRDGLVTTR   69 (98)
T ss_dssp             HHCSHHHHHHHHHTTT----SCEEHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEEE
T ss_pred             HcCCHHHHHHHHHHhc----CCCCHHHHHHHHCc----CHHHHHHHHHHHHHCCCeEEE
Confidence            4444556778888877    59999999999999    999999999999999999876

>2oqg_A Possible transcriptional regulator, ARSR family P; winged-helix-turn-helix, structural genomics, PSI-2, protein structure initiative; 1.54A {Rhodococcus SP}

Probab=96.94  E-value=0.0007  Score=47.35  Aligned_cols=58  Identities=21%  Similarity=0.213  Sum_probs=46.2

Q ss_pred             HHhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccc---eeccccc
Q 036188           32 VYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRL---YSLNSVS  102 (210)
Q Consensus        32 a~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~---y~~t~~s  102 (210)
                      -.++.|...|..    ++.|+.|||+.+++    ++..+.+.|+.|...|++...     ..++   |.+|+.+
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----SRQAIAKHLNALQACGLVESV-----KVGREIRYRALGAE   81 (114)
T ss_dssp             HHHHHHHHHHHH----SCBCHHHHHHHSSS----CHHHHHHHHHHHHHTTSEEEE-----EETTEEEEEECSHH
T ss_pred             hHHHHHHHHHHc----CCCCHHHHHHHHCc----CHHHHHHHHHHHHHCCCeeEE-----ecCCEEEEEechHH
Confidence            345667777844    58999999999999    999999999999999999875     2333   6666543

>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=96.94  E-value=0.00078  Score=54.13  Aligned_cols=57  Identities=16%  Similarity=0.138  Sum_probs=49.1

Q ss_pred             hChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceeccccc
Q 036188           35 LGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSVS  102 (210)
Q Consensus        35 lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~~s  102 (210)
                      +.|.+.|.+.+  +++|+.|||+++|+    +...+.|+|+.|...|++++.     ..+.|.+++..
T Consensus        11 l~iL~~l~~~~--~~~~~~ela~~~gl----~~stv~r~l~~L~~~G~v~~~-----~~~~Y~lg~~~   67 (249)
T 1mkm_A           11 FEILDFIVKNP--GDVSVSEIAEKFNM----SVSNAYKYMVVLEEKGFVLRK-----KDKRYVPGYKL   67 (249)
T ss_dssp             HHHHHHHHHCS--SCBCHHHHHHHTTC----CHHHHHHHHHHHHHTTSEEEC-----TTSCEEECTHH
T ss_pred             HHHHHHHHhCC--CCCCHHHHHHHHCc----CHHHHHHHHHHHHHCCcEEEC-----CCCcEEECHHH
Confidence            45677887753  58999999999999    999999999999999999986     46889998754

>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=96.92  E-value=0.00062  Score=54.53  Aligned_cols=61  Identities=20%  Similarity=0.126  Sum_probs=50.5

Q ss_pred             hChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceecccccccc
Q 036188           35 LGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSVSKYY  105 (210)
Q Consensus        35 lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~~s~~l  105 (210)
                      +.|.+.|.+.+  +++|+.|||+++|+    +..-+.|+|+.|...|++++..    ..++|.+++....|
T Consensus         9 l~iL~~l~~~~--~~~s~~ela~~~gl----~~stv~r~l~~L~~~G~v~~~~----~~~~Y~lg~~~~~l   69 (241)
T 2xrn_A            9 ASIMRALGSHP--HGLSLAAIAQLVGL----PRSTVQRIINALEEEFLVEALG----PAGGFRLGPALGQL   69 (241)
T ss_dssp             HHHHHHHHTCT--TCEEHHHHHHHTTS----CHHHHHHHHHHHHTTTSEEECG----GGCEEEECSHHHHH
T ss_pred             HHHHHHHHhCC--CCCCHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEEeC----CCCeEEECHHHHHH
Confidence            45677787654  58999999999999    9999999999999999999862    24789998865444

>2htj_A P fimbrial regulatory protein KS71A; winged helix-turn-helix, PAP PILI, transcription activator; NMR {Escherichia coli} SCOP: a.4.5.73

Probab=96.91  E-value=0.0014  Score=43.21  Aligned_cols=45  Identities=24%  Similarity=0.245  Sum_probs=39.6

Q ss_pred             hChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           35 LGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        35 lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      ..|.+.|.+.   ++.|+.|||+.+|+    ++..+.+.|+.|...|++...
T Consensus         3 ~~Il~~L~~~---~~~s~~eLa~~lgv----s~~tv~r~L~~L~~~GlI~~~   47 (81)
T 2htj_A            3 NEILEFLNRH---NGGKTAEIAEALAV----TDYQARYYLLLLEKAGMVQRS   47 (81)
T ss_dssp             HHHHHHHHHS---CCCCHHHHHHHHTS----CHHHHHHHHHHHHHHTSEEEE
T ss_pred             HHHHHHHHHc---CCCCHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEEe
Confidence            3467778775   58999999999999    999999999999999999854

>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=96.91  E-value=0.00088  Score=47.90  Aligned_cols=54  Identities=26%  Similarity=0.118  Sum_probs=46.2

Q ss_pred             HHHHHHHHhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           26 PMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        26 ~~al~~a~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      ..+|.--.++.|+..|...   ++.|+.|||+.+|+    ++..+.+.|+.|...|++...
T Consensus        36 ~~al~~~~rl~IL~~L~~~---~~~s~~eLa~~l~i----s~stvs~~L~~L~~~Glv~~~   89 (122)
T 1u2w_A           36 LKAIADENRAKITYALCQD---EELCVCDIANILGV----TIANASHHLRTLYKQGVVNFR   89 (122)
T ss_dssp             HHHHHSHHHHHHHHHHHHS---SCEEHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEEC
T ss_pred             HHHhCCHHHHHHHHHHHHC---CCcCHHHHHHHHCc----CHHHHHHHHHHHHHCCCeEEE
Confidence            3445555677899999854   58999999999999    999999999999999999875

>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=96.90  E-value=0.00031  Score=56.97  Aligned_cols=61  Identities=16%  Similarity=0.165  Sum_probs=50.4

Q ss_pred             hChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceecccccccc
Q 036188           35 LGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSVSKYY  105 (210)
Q Consensus        35 lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~~s~~l  105 (210)
                      +.|.+.|.+.+  +++|+.|||+++|+    +..-+.|+|+.|+..|++.++.    ..++|.+++....|
T Consensus         9 l~IL~~l~~~~--~~lsl~eia~~lgl----~ksT~~RlL~tL~~~G~v~~~~----~~~~Y~lG~~~~~l   69 (260)
T 3r4k_A            9 LTLLTYFNHGR--LEIGLSDLTRLSGM----NKATVYRLMSELQEAGFVEQVE----GARSYRLGPQVLRL   69 (260)
T ss_dssp             HHHHTTCBTTB--SEEEHHHHHHHHCS----CHHHHHHHHHHHHHTTSEEECS----SSSEEEECTTHHHH
T ss_pred             HHHHHHHhhCC--CCCCHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEEcC----CCCcEEcCHHHHHH
Confidence            45677777643  68999999999999    9999999999999999999872    23899998865433

>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=96.82  E-value=0.00098  Score=46.32  Aligned_cols=50  Identities=24%  Similarity=0.320  Sum_probs=42.6

Q ss_pred             HHHHHhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           29 IQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        29 l~~a~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      +.--.++.|+..|..    ++.|+.|||+.+|+    ++..+.+.|+.|...|++...
T Consensus        23 l~~~~r~~IL~~L~~----~~~~~~ela~~l~i----s~stvs~~L~~L~~~Glv~~~   72 (106)
T 1r1u_A           23 LGDYNRIRIMELLSV----SEASVGHISHQLNL----SQSNVSHQLKLLKSVHLVKAK   72 (106)
T ss_dssp             TCSHHHHHHHHHHHH----CCBCHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEEE
T ss_pred             hCCHHHHHHHHHHHh----CCCCHHHHHHHHCc----CHHHHHHHHHHHHHCCCeEEE
Confidence            333455677777875    58999999999999    999999999999999999876

>3cuo_A Uncharacterized HTH-type transcriptional regulato; DNA-binding transcriptional regulator, structural genomics, MCSG; 2.00A {Escherichia coli K12}

Probab=96.73  E-value=0.0012  Score=44.86  Aligned_cols=51  Identities=12%  Similarity=0.098  Sum_probs=43.4

Q ss_pred             HHHHHhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           29 IQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        29 l~~a~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      +..-.++.|+..|...   ++.|..|||+.+++    ++..+.+.|+.|...|++...
T Consensus        21 l~~~~~~~il~~l~~~---~~~s~~ela~~l~i----s~~tvs~~l~~L~~~glv~~~   71 (99)
T 3cuo_A           21 MSHPKRLLILCMLSGS---PGTSAGELTRITGL----SASATSQHLARMRDEGLIDSQ   71 (99)
T ss_dssp             HCSHHHHHHHHHHTTC---CSEEHHHHHHHHCC----CHHHHHHHHHHHHHTTSEEEE
T ss_pred             hCChHHHHHHHHHHhC---CCcCHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEEE
Confidence            3334566778888763   58999999999999    999999999999999999876

>3ech_A MEXR, multidrug resistance operon repressor; winged helix, helix-turn-helix, protein-peptide complex; 1.80A {Pseudomonas aeruginosa} SCOP: a.4.5.28 PDB: 1lnw_A 3mex_A

Probab=96.73  E-value=0.0051  Score=44.40  Aligned_cols=79  Identities=14%  Similarity=0.161  Sum_probs=55.3

Q ss_pred             CCcccchhcchHHHHHHHHHhhchHHHHHH-----HHHhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHH
Q 036188            1 MDSIVDGERDQSFAYADQLATGVVLPMAIQ-----AVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILR   75 (210)
Q Consensus         1 ~~~~~~~~~~~~~~~l~~~~~~~~~~~al~-----~a~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr   75 (210)
                      |+.-.+.++...+..+.+..........-.     ...++.|...|...   ++.|..|||+.+++    ++..+.++++
T Consensus         1 M~~~~~~~l~~~l~~~~~~~~~~~~~~l~~~~~~lt~~~~~vL~~l~~~---~~~t~~eLa~~l~~----~~~tvs~~l~   73 (142)
T 3ech_A            1 MNYPVNPDLMPALMAVFQHVRTRIQSELDCQRLDLTPPDVHVLKLIDEQ---RGLNLQDLGRQMCR----DKALITRKIR   73 (142)
T ss_dssp             CCCCCCTTHHHHHHHHHHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHT---TTCCHHHHHHHHC-------CHHHHHHH
T ss_pred             CCcchHHHHHHHHHHHHHHHHHHHHHHHhhccCCCCHHHHHHHHHHHhC---CCcCHHHHHHHhCC----CHHHHHHHHH
Confidence            455556666666666666655443332222     24556678888876   58999999999999    9999999999


Q ss_pred             HHhcccceeee
Q 036188           76 LLASYSVVECS   86 (210)
Q Consensus        76 ~L~~~gl~~~~   86 (210)
                      .|...|++++.
T Consensus        74 ~L~~~Glv~r~   84 (142)
T 3ech_A           74 ELEGRNLVRRE   84 (142)
T ss_dssp             HHHHTTSEEC-
T ss_pred             HHHHCCCEeec
Confidence            99999999975

>3f6o_A Probable transcriptional regulator, ARSR family protein; transcriptional regulator,RHA00566,MCSG, structural genomics, PSI-2; 1.90A {Rhodococcus SP}

Probab=96.70  E-value=0.00084  Score=47.66  Aligned_cols=52  Identities=12%  Similarity=0.116  Sum_probs=45.2

Q ss_pred             HHHHHHHhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           27 MAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        27 ~al~~a~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      .+|.--.++.|...|..    +|.|+.|||+.+|+    ++..+.+.|+.|...|++...
T Consensus        13 ~al~~~~R~~Il~~L~~----~~~~~~eLa~~l~i----s~~tvs~hL~~L~~~GlV~~~   64 (118)
T 3f6o_A           13 QALADPTRRAVLGRLSR----GPATVSELAKPFDM----ALPSFMKHIHFLEDSGWIRTH   64 (118)
T ss_dssp             HHHTSHHHHHHHHHHHT----CCEEHHHHHTTCCS----CHHHHHHHHHHHHHTTSEEEE
T ss_pred             HHhCCHHHHHHHHHHHh----CCCCHHHHHHHhCc----CHHHHHHHHHHHHHCCCeEEE
Confidence            45555567788888875    69999999999999    999999999999999999875

>2kko_A Possible transcriptional regulatory protein (possibly ARSR-family); NESG, DNA-binding, transcription regulation, WHTH, homodimer; NMR {Mycobacterium bovis} PDB: 3gw2_A

Probab=96.68  E-value=0.00064  Score=47.55  Aligned_cols=46  Identities=22%  Similarity=0.187  Sum_probs=39.6

Q ss_pred             HhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           33 YELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        33 ~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      .++.|+..|..    ++.|+.|||+.+|+    ++..+.+.|+.|...|++...
T Consensus        26 ~r~~IL~~L~~----~~~s~~eLa~~lgi----s~stvs~~L~~L~~~GlV~~~   71 (108)
T 2kko_A           26 RRLQILDLLAQ----GERAVEAIATATGM----NLTTASANLQALKSGGLVEAR   71 (108)
T ss_dssp             TTHHHHHHHTT----CCEEHHHHHHHHTC----CHHHHHHHHHHHHHHTSEEEE
T ss_pred             HHHHHHHHHHc----CCcCHHHHHHHHCc----CHHHHHHHHHHHHHCCCeEEE
Confidence            34556666765    58999999999999    999999999999999999875

>2o0y_A Transcriptional regulator; ICLR-family, structural genomics, protein structure initiative, midwest center for structural genomics, MCSG; 2.00A {Rhodococcus SP}

Probab=96.67  E-value=0.00092  Score=54.11  Aligned_cols=58  Identities=19%  Similarity=0.251  Sum_probs=47.8

Q ss_pred             hChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceecccccc
Q 036188           35 LGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSVSK  103 (210)
Q Consensus        35 lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~~s~  103 (210)
                      +.|.+.|...+  +++|+.|||+++|+    +..-+.|+|+.|...|++.+.     ..+.|.+++...
T Consensus        26 l~iL~~l~~~~--~~~~~~eia~~~gl----~kstv~r~l~tL~~~G~v~~~-----~~~~Y~lg~~~~   83 (260)
T 2o0y_A           26 IDLLELFDAAH--PTRSLKELVEGTKL----PKTTVVRLVATMCARSVLTSR-----ADGSYSLGPEML   83 (260)
T ss_dssp             HHHHTTCBTTB--SSBCHHHHHHHHCC----CHHHHHHHHHHHHHTTSEEEC-----TTSCEEECHHHH
T ss_pred             HHHHHHHhhCC--CCcCHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEEC-----CCCeEEecHHHH
Confidence            45666776433  58999999999999    999999999999999999987     344899987543

>2g7u_A Transcriptional regulator; ICLR family, structural genomics, PSI, protein structure initiative, midwest center for struc genomics; 2.30A {Rhodococcus SP}

Probab=96.66  E-value=0.001  Score=53.74  Aligned_cols=60  Identities=17%  Similarity=0.130  Sum_probs=50.5

Q ss_pred             hChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceeccccccccc
Q 036188           35 LGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSVSKYYV  106 (210)
Q Consensus        35 lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~~s~~l~  106 (210)
                      +.|.+.|...+  +++|+.|||+++|+    ++.-+.|+|+.|...|+++++      ++.|.+++....|.
T Consensus        17 l~iL~~l~~~~--~~~~~~eia~~~gl----~~stv~r~l~~L~~~G~v~~~------~~~Y~Lg~~~~~l~   76 (257)
T 2g7u_A           17 FAVLLAFDAQR--PNPTLAELATEAGL----SRPAVRRILLTLQKLGYVAGS------GGRWSLTPRVLSIG   76 (257)
T ss_dssp             HHHHHTCSSSC--SSCBHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEEE------TTEEEECGGGHHHH
T ss_pred             HHHHHHHHhCC--CCCCHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEeC------CCEEEEcHHHHHHH
Confidence            45667776543  58999999999999    999999999999999999986      58999998765444

>2jt1_A PEFI protein; solution structure, winged helix-turn-helix, transcripti regulatory protein, structural genomics, PSI-2; NMR {Salmonella typhimurium LT2}

Probab=96.65  E-value=0.0019  Score=42.53  Aligned_cols=44  Identities=23%  Similarity=0.243  Sum_probs=39.1

Q ss_pred             hhhHHhhc-----CCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           37 IFEILDKA-----GPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        37 lfd~L~~~-----g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      |.++|.+.     |  +|.|+.|||+.+|+    .+..+++-|..|...|++.+.
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----SIYQVRLYLEQLHDVGVLEKV   57 (77)
T ss_dssp             HHHHHHHHHHHHTT--SCEEHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEEE
T ss_pred             HHHHHHHHHhhccC--CCcCHHHHHHHHCC----CHHHHHHHHHHHHHCCcEEec
Confidence            56666654     5  69999999999999    999999999999999999987

>4a5n_A Uncharacterized HTH-type transcriptional regulato; activator, DNA binding, MARR-like; 1.81A {Bacillus subtilis} PDB: 4a5m_A

Probab=96.62  E-value=0.0051  Score=44.67  Aligned_cols=78  Identities=14%  Similarity=0.086  Sum_probs=58.2

Q ss_pred             HHHHHHHHHhhchHHHHHHHHHhhChhhHHhhcCCCCCCCHHHHHHHh-cCCCCCCcccHHHHHHHHhcccceeeeccCC
Q 036188           12 SFAYADQLATGVVLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQL-LTKNKDAPMMLDRILRLLASYSVVECSLDAS   90 (210)
Q Consensus        12 ~~~~l~~~~~~~~~~~al~~a~~lglfd~L~~~g~~~~~t~~eLA~~~-~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~   90 (210)
                      +...+++++.+.|....|..         |..    ++.+..||++.+ ++    ++..|.+.|+.|...|++++.....
T Consensus        15 pi~~~l~~lg~kW~l~IL~~---------L~~----g~~rf~eL~~~l~gI----s~~~Ls~~L~~Le~~GLV~R~~~~~   77 (131)
T 4a5n_A           15 PVEFTLDVIGGKWKGILFYH---------MID----GKKRFNEFRRICPSI----TQRMLTLQLRELEADGIVHREVYHQ   77 (131)
T ss_dssp             HHHHHHHHHCSSSHHHHHHH---------HTT----SCBCHHHHHHHCTTS----CHHHHHHHHHHHHHTTSEEEEEECS
T ss_pred             cHHHHHHHHcCcCHHHHHHH---------Hhc----CCcCHHHHHHHhccc----CHHHHHHHHHHHHHCCCEEEEecCC
Confidence            45556666667666555543         433    699999999999 99    9999999999999999999763111


Q ss_pred             C-cccceeccccccccc
Q 036188           91 G-ARRLYSLNSVSKYYV  106 (210)
Q Consensus        91 ~-~~~~y~~t~~s~~l~  106 (210)
                      . ..-.|.+|+.++.|.
T Consensus        78 d~r~v~y~LT~~G~~l~   94 (131)
T 4a5n_A           78 VPPKVEYSLTEFGRTLE   94 (131)
T ss_dssp             SSCEEEEEECTTGGGGH
T ss_pred             CCCeEEEEECHhHHHHH
Confidence            0 123599999988765

>1xn7_A Hypothetical protein YHGG; alpha+beta, GFT structural genomics, protein structure initiative, PSI, NESG; NMR {Escherichia coli} SCOP: a.4.5.62

Probab=96.53  E-value=0.0028  Score=41.79  Aligned_cols=43  Identities=21%  Similarity=0.277  Sum_probs=39.8

Q ss_pred             hhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           37 IFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        37 lfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      |.++|.+.   +.++++|||+++++    ++.-++|-|..|...|++.+.
T Consensus         7 Il~~L~~~---g~vsv~eLa~~l~V----S~~TIRrdL~~Le~~G~l~R~   49 (78)
T 1xn7_A            7 VRDLLALR---GRMEAAQISQTLNT----PQPMINAMLQQLESMGKAVRI   49 (78)
T ss_dssp             HHHHHHHS---CSBCHHHHHHHTTC----CHHHHHHHHHHHHHHTSEEEE
T ss_pred             HHHHHHHc---CCCcHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEEe
Confidence            66788876   59999999999999    999999999999999999887

>2ia2_A Putative transcriptional regulator; SAD, PSI-2, structural genomics, structure initiative, midwest center for structural genomic transcription; 2.10A {Rhodococcus SP}

Probab=96.53  E-value=0.001  Score=54.03  Aligned_cols=59  Identities=17%  Similarity=0.157  Sum_probs=49.6

Q ss_pred             hChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceecccccccc
Q 036188           35 LGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSVSKYY  105 (210)
Q Consensus        35 lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~~s~~l  105 (210)
                      +.|.+.|...+  +++|+.|||+++|+    +..-+.|+|+.|...|++.++      ++.|.+++....|
T Consensus        24 l~iL~~l~~~~--~~~~~~eia~~~gl----~~stv~r~l~tL~~~G~v~~~------~~~Y~Lg~~~~~l   82 (265)
T 2ia2_A           24 LAVIRCFDHRN--QRRTLSDVARATDL----TRATARRFLLTLVELGYVATD------GSAFWLTPRVLEL   82 (265)
T ss_dssp             HHHHHTCCSSC--SSEEHHHHHHHHTC----CHHHHHHHHHHHHHHTSEEES------SSEEEECGGGGGT
T ss_pred             HHHHHHHHhCC--CCCCHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEec------CCEEEEcHHHHHH
Confidence            45677776543  58999999999999    999999999999999999986      5899998865444

>2hzt_A Putative HTH-type transcriptional regulator YTCD; DNA-binding protein, HTH-type transcription regulators, structural genomics, PSI-2; HET: CSU MSE; 2.00A {Bacillus subtilis} SCOP: a.4.5.69

Probab=96.53  E-value=0.0091  Score=41.40  Aligned_cols=77  Identities=16%  Similarity=0.148  Sum_probs=53.7

Q ss_pred             HHHHHHHHhhchHHHHHHHHHhhChhhHHhhcCCCCCCCHHHHHHHh-cCCCCCCcccHHHHHHHHhcccceeeeccCC-
Q 036188           13 FAYADQLATGVVLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQL-LTKNKDAPMMLDRILRLLASYSVVECSLDAS-   90 (210)
Q Consensus        13 ~~~l~~~~~~~~~~~al~~a~~lglfd~L~~~g~~~~~t~~eLA~~~-~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~-   90 (210)
                      ...+++++.+.+....|.         .|..    ++.+..|||+.+ ++    ++..+.+.|+.|...|++++..... 
T Consensus         4 ~~~~l~~l~~~~~~~IL~---------~L~~----~~~~~~eLa~~l~~i----s~~tls~~L~~Le~~GlI~r~~~~~d   66 (107)
T 2hzt_A            4 VEATLEVIGGKWKXVILX---------HLTH----GKKRTSELKRLMPNI----TQKMLTQQLRELEADGVINRIVYNQV   66 (107)
T ss_dssp             HHHHHHHHCSTTHHHHHH---------HHTT----CCBCHHHHHHHCTTS----CHHHHHHHHHHHHHTTSEEEEEECSS
T ss_pred             HHHHHHHHcCccHHHHHH---------HHHh----CCCCHHHHHHHhcCC----CHHHHHHHHHHHHHCCCEEEeecCCC
Confidence            344555555555544443         3443    589999999999 99    9999999999999999998763110 


Q ss_pred             Ccccceeccccccccc
Q 036188           91 GARRLYSLNSVSKYYV  106 (210)
Q Consensus        91 ~~~~~y~~t~~s~~l~  106 (210)
                      ...-.|.+|+.++.+.
T Consensus        67 ~r~~~y~LT~~G~~l~   82 (107)
T 2hzt_A           67 PPKVEYELSEYGRSLE   82 (107)
T ss_dssp             SCEEEEEECTTGGGGH
T ss_pred             CCeEEEEECccHHHHH
Confidence            0123488888775443

>3lwf_A LIN1550 protein, putative transcriptional regulator; structural genomics, JOI for structural genomics, JCSG; HET: SO4; 2.06A {Listeria innocua}

Probab=96.50  E-value=0.0035  Score=47.08  Aligned_cols=63  Identities=21%  Similarity=0.185  Sum_probs=46.8

Q ss_pred             HHHHHHHHHhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceeccc
Q 036188           25 LPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNS  100 (210)
Q Consensus        25 ~~~al~~a~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~  100 (210)
                      ...||++.+.+..      ...+++.|+++||+++++    ++..++++|..|...|++....   +..|.|.++.
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----SEHYLEQLIGPLRNAGIVKSIR---GAHGGYVLNG   88 (159)
T ss_dssp             HHHHHHHHHHHHH------TTTSCCBCHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEEEC---STTCEEEECS
T ss_pred             HHHHHHHHHHHHh------cCCCCCcCHHHHHHHHCc----CHHHHHHHHHHHHHCCeEEEec---CCCCceEecC
Confidence            3446666655432      211268999999999999    9999999999999999998763   1346677654

>1ub9_A Hypothetical protein PH1061; helix-turn-helix motif, winged helix motif, structural genom transcription; 2.05A {Pyrococcus horikoshii} SCOP: a.4.5.28

Probab=96.48  E-value=0.0019  Score=43.73  Aligned_cols=70  Identities=21%  Similarity=0.197  Sum_probs=51.6

Q ss_pred             HHHHHHHhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccC-CCcccceecccccc
Q 036188           27 MAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDA-SGARRLYSLNSVSK  103 (210)
Q Consensus        27 ~al~~a~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~-~~~~~~y~~t~~s~  103 (210)
                      .++..-.++.|+..|...   ++.|..|||+.+++    ++..+.+.|+.|...|++.+.... ......|.+|+.+.
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----TPGNLDSHIRVLERNGLVKTYKVIADRPRTVVEITDFGM   81 (100)
T ss_dssp             HHHHSHHHHHHHHHHHHH---SEEEHHHHHHHTTC----CHHHHHHHHHHHHHTTSEEEEEECSSSCEEEEEECHHHH
T ss_pred             cccCChHHHHHHHHHHhc---CCcCHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEEEecCCCcceEEEEECHHHH
Confidence            455556677888888754   58999999999999    999999999999999999864200 00122466665543

>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=96.46  E-value=0.003  Score=46.71  Aligned_cols=75  Identities=13%  Similarity=0.113  Sum_probs=52.6

Q ss_pred             HHHHHHHHHhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceeccccccc
Q 036188           25 LPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSVSKY  104 (210)
Q Consensus        25 ~~~al~~a~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~~s~~  104 (210)
                      ...||++.+.+...    . +  ++.|+.+||+++++    ++..++++|..|...|+++...    +.|.|.++.-..-
T Consensus        13 ~~yAl~~L~~La~~----~-~--~~~~~~~iA~~~~i----~~~~l~kil~~L~~~Glv~s~r----G~GGy~L~~~p~~   77 (149)
T 1ylf_A           13 FSIAVHILSILKNN----P-S--SLCTSDYMAESVNT----NPVVIRKIMSYLKQAGFVYVNR----GPGGAGLLKDLHE   77 (149)
T ss_dssp             HHHHHHHHHHHHHS----C-G--GGCCHHHHHHHHTS----CHHHHHHHHHHHHHTTSEEEC-------CCEEESSCGGG
T ss_pred             HHHHHHHHHHHHhC----C-C--CCcCHHHHHHHHCc----CHHHHHHHHHHHHHCCcEEEcc----CCCceEeCCChhh
Confidence            34577776665431    1 1  58999999999999    9999999999999999998752    2566776654221


Q ss_pred             cccCCCCCChHHHHHHh
Q 036188          105 YVPNKDGVLLGPLIQII  121 (210)
Q Consensus       105 l~~~~~~~~~~~~~~~~  121 (210)
                             -++++.+...
T Consensus        78 -------Itl~dVi~a~   87 (149)
T 1ylf_A           78 -------ITLLDVYHAV   87 (149)
T ss_dssp             -------CBHHHHHHHH
T ss_pred             -------CcHHHHHHHH
Confidence                   2456666554

>3t8r_A Staphylococcus aureus CYMR; transcriptional regulator protein, dimer, sulfenic acid, UNK function; 1.70A {Staphylococcus aureus} PDB: 3t8t_A

Probab=96.44  E-value=0.0026  Score=46.81  Aligned_cols=46  Identities=20%  Similarity=0.263  Sum_probs=39.2

Q ss_pred             CCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceeccc
Q 036188           48 TKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNS  100 (210)
Q Consensus        48 ~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~  100 (210)
                      ++.|+++||+++++    ++..++++|..|...|++....   +..|.|.++.
T Consensus        27 ~~~s~~~IA~~~~i----~~~~l~kil~~L~~aGlv~s~r---G~~GGy~Lar   72 (143)
T 3t8r_A           27 GCISLKSIAEENNL----SDLYLEQLVGPLRNAGLIRSVR---GAKGGYQLRV   72 (143)
T ss_dssp             CCEEHHHHHHHTTC----CHHHHHHHHHHHHHTTSEEECS---SSSSEEEESS
T ss_pred             CCcCHHHHHHHHCc----CHHHHHHHHHHHHHCCEEEecC---CCCCCeeecC
Confidence            58999999999999    9999999999999999998653   1346787654

>1on2_A Transcriptional regulator MNTR; helix-turn-helix, DNA-binding protein, metalloregulatory protein; 1.61A {Bacillus subtilis} SCOP: a.4.5.24 a.76.1.1 PDB: 2ev0_A 1on1_A 2ev5_A 2ev6_A* 2f5c_A 2f5d_A 2f5e_A 2f5f_A 2hyf_A* 2hyg_D 3r60_A* 3r61_A*

Probab=96.43  E-value=0.0031  Score=45.81  Aligned_cols=50  Identities=22%  Similarity=0.149  Sum_probs=44.1

Q ss_pred             CCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceeccccccccc
Q 036188           48 TKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSVSKYYV  106 (210)
Q Consensus        48 ~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~~s~~l~  106 (210)
                      ++.|..+||+.+++    ++..+.+.++.|...|++.+.     ..+.|.+|+.+..+.
T Consensus        21 ~~~~~~ela~~l~v----s~~tvs~~l~~Le~~Glv~r~-----~~~~~~LT~~g~~~~   70 (142)
T 1on2_A           21 GYARVSDIAEALAV----HPSSVTKMVQKLDKDEYLIYE-----KYRGLVLTSKGKKIG   70 (142)
T ss_dssp             SSCCHHHHHHHHTS----CHHHHHHHHHHHHHTTSEEEE-----TTTEEEECHHHHHHH
T ss_pred             CCCCHHHHHHHhCC----CHHHHHHHHHHHHHCCCEEEe-----eCceEEEchhHHHHH
Confidence            58999999999999    999999999999999999987     456788888876543

>2k02_A Ferrous iron transport protein C; FEOC, iron-sulfur, metal-binding, metal binding protein; NMR {Klebsiella pneumoniae subsp}

Probab=96.43  E-value=0.0029  Score=42.66  Aligned_cols=43  Identities=19%  Similarity=0.305  Sum_probs=39.8

Q ss_pred             hhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           37 IFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        37 lfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      |.++|.+.   +.+|++|||+.+++    ++.-++|-|..|...|++.+.
T Consensus         7 Il~~L~~~---g~vsv~eLA~~l~V----S~~TIRrDL~~Le~~G~l~R~   49 (87)
T 2k02_A            7 VRDMLALQ---GRMEAKQLSARLQT----PQPLIDAMLERMEAMGKVVRI   49 (87)
T ss_dssp             HHHHHHHS---CSEEHHHHHHHTTC----CHHHHHHHHHHHHTTCCSEEE
T ss_pred             HHHHHHHc---CCCcHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEEE
Confidence            66788876   59999999999999    999999999999999999987

>3f6v_A Possible transcriptional regulator, ARSR family protein; probable transcriptional repressor ARSR family, structural genomics, PSI-2; 1.48A {Rhodococcus SP}

Probab=96.34  E-value=0.0018  Score=48.17  Aligned_cols=55  Identities=13%  Similarity=0.145  Sum_probs=48.8

Q ss_pred             hHHHHHHHHHhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           24 VLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        24 ~~~~al~~a~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      -...+|.--.++.|...|..    +++|+.|||+.+++    ++..+.+.|+.|...|+++..
T Consensus        50 ~~l~aL~~p~R~~IL~~L~~----~~~t~~eLa~~lgl----s~stvs~hL~~L~~aGlV~~~  104 (151)
T 3f6v_A           50 DQLEVAAEPTRRRLVQLLTS----GEQTVNNLAAHFPA----SRSAISQHLRVLTEAGLVTPR  104 (151)
T ss_dssp             CHHHHHTSHHHHHHHHHGGG----CCEEHHHHHTTSSS----CHHHHHHHHHHHHHTTSEEEE
T ss_pred             HHHHHhCCHHHHHHHHHHHh----CCCCHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEEE
Confidence            34567777788999999985    69999999999999    999999999999999999876

>1r1t_A Transcriptional repressor SMTB; zinc, transcriptional regulation, winged HTH protein, DNA binding, transcription repressor; 1.70A {Synechococcus elongatus pcc 7942} SCOP: a.4.5.5 PDB: 1r23_A 1smt_A 1r22_A

Probab=96.33  E-value=0.0033  Score=44.97  Aligned_cols=51  Identities=18%  Similarity=0.308  Sum_probs=43.5

Q ss_pred             HHHHHHhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           28 AIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        28 al~~a~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      +|.--.++.|+..|.+    ++.++.|||+.+|+    ++..+.+.|+.|...|++...
T Consensus        42 aL~~~~rl~IL~~L~~----~~~s~~ela~~lgi----s~stvs~~L~~Le~~Glv~~~   92 (122)
T 1r1t_A           42 VLADPNRLRLLSLLAR----SELCVGDLAQAIGV----SESAVSHQLRSLRNLRLVSYR   92 (122)
T ss_dssp             HHCCHHHHHHHHHHTT----CCBCHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEEE
T ss_pred             HhCCHHHHHHHHHHHc----CCCCHHHHHHHHCc----CHHHHHHHHHHHHHCCCeEEE
Confidence            3333456778888875    58999999999999    999999999999999999875

>1r7j_A Conserved hypothetical protein SSO10A; winged helix-turn-helix, two-stranded antiparallel coiled CO structural genomics, PSI; 1.47A {Sulfolobus solfataricus} SCOP: a.4.5.49 PDB: 1xsx_A

Probab=96.32  E-value=0.0037  Score=42.74  Aligned_cols=47  Identities=11%  Similarity=0.168  Sum_probs=43.5

Q ss_pred             CCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceeccccccccc
Q 036188           50 LSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSVSKYYV  106 (210)
Q Consensus        50 ~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~~s~~l~  106 (210)
                      ++..+||..+++    +++.+++.++.|...|++++.      .+.|.+|+.+..+.
T Consensus        21 ~~~t~La~~~~l----s~~~~~~~l~~L~~~GLI~~~------~~~~~LT~kG~~~l   67 (95)
T 1r7j_A           21 SPKTRIMYGANL----SYALTGRYIKMLMDLEIIRQE------GKQYMLTKKGEELL   67 (95)
T ss_dssp             BCHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEEE------TTEEEECHHHHHHH
T ss_pred             CCHHHHHHHhCc----CHHHHHHHHHHHHHCCCeEEE------CCeeEEChhHHHHH
Confidence            899999999999    999999999999999999997      56799999998654

>1oyi_A Double-stranded RNA-binding protein; (alpha+beta) helix-turn-helix, viral protein; NMR {Vaccinia virus} SCOP: a.4.5.19

Probab=96.31  E-value=0.0032  Score=41.89  Aligned_cols=59  Identities=12%  Similarity=0.059  Sum_probs=45.9

Q ss_pred             HhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceeccccc
Q 036188           33 YELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSVS  102 (210)
Q Consensus        33 ~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~~s  102 (210)
                      ....|.++|.++    ++|+.|||+++|+    +...+++.|..|...|++....   +.+-.|.++..+
T Consensus        18 ~~~~IL~lL~~~----g~sa~eLAk~Lgi----Sk~aVr~~L~~Le~eG~I~~~~---~~PP~W~~~~~~   76 (82)
T 1oyi_A           18 IVCEAIKTIGIE----GATAAQLTRQLNM----EKREVNKALYDLQRSAMVYSSD---DIPPRWFMTTEA   76 (82)
T ss_dssp             HHHHHHHHHSSS----TEEHHHHHHHSSS----CHHHHHHHHHHHHHHTSSEECS---SSSCEEESCC--
T ss_pred             HHHHHHHHHHHc----CCCHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEeCC---CCCCcceeccCc
Confidence            445677788863    4999999999999    9999999999999999998762   235566666543

>2wte_A CSA3; antiviral protein, viral resistance, winged helix-turn-helix prnai nucleotide-binding domain; HET: MSE; 1.80A {Sulfolobus solfataricus}

Probab=96.16  E-value=0.0036  Score=50.32  Aligned_cols=63  Identities=14%  Similarity=0.178  Sum_probs=51.7

Q ss_pred             HhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceeccccccccc
Q 036188           33 YELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSVSKYYV  106 (210)
Q Consensus        33 ~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~~s~~l~  106 (210)
                      .++.|...|.+.   +++|..|||+++++    ++..+.|.++.|...|++++..    ....|.+|+.+..+.
T Consensus       153 ~~~~IL~~L~~~---~~~s~~eLA~~lgl----sksTv~r~L~~Le~~GlV~r~~----r~~~~~LT~~G~~l~  215 (244)
T 2wte_A          153 EEMKLLNVLYET---KGTGITELAKMLDK----SEKTLINKIAELKKFGILTQKG----KDRKVELNELGLNVI  215 (244)
T ss_dssp             HHHHHHHHHHHH---TCBCHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEEET----TTTEEEECHHHHHHH
T ss_pred             HHHHHHHHHHHc---CCCCHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEEeC----CccEEEECHHHHHHH
Confidence            345566677665   58999999999999    9999999999999999999862    356799998887553

>2lnb_A Z-DNA-binding protein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, immune system; NMR {Homo sapiens}

Probab=96.08  E-value=0.0068  Score=39.49  Aligned_cols=55  Identities=16%  Similarity=0.272  Sum_probs=47.9

Q ss_pred             hhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceecc
Q 036188           34 ELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLN   99 (210)
Q Consensus        34 ~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t   99 (210)
                      +-.|++.|.++|  .|++..|||+++|+    +..-+.+.|..|-..|.+...     ..-.|+++
T Consensus        21 eekVLe~LkeaG--~PlkageIae~~Gv----dKKeVdKaik~LKkEgkI~SP-----kRCyw~~~   75 (80)
T 2lnb_A           21 EQRILQVLTEAG--SPVKLAQLVKECQA----PKRELNQVLYRMKKELKVSLT-----SPATWCLG   75 (80)
T ss_dssp             HHHHHHHHHHHT--SCEEHHHHHHHHTS----CHHHHHHHHHHHHHTTSEEEE-----ETTEEEES
T ss_pred             HHHHHHHHHHcC--CCCCHHHHHHHHCC----CHHHHHHHHHHHHHcCCccCC-----CCceeeCC
Confidence            455788899887  89999999999999    999999999999999999876     45667765

>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=96.06  E-value=0.012  Score=44.13  Aligned_cols=62  Identities=21%  Similarity=0.385  Sum_probs=46.5

Q ss_pred             HHHHHHHHhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceecccc
Q 036188           26 PMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSV  101 (210)
Q Consensus        26 ~~al~~a~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~~  101 (210)
                      ..||++.+.+..      .+ +++.|.++||+++++    ++.+++++|..|...|+++...   +..|.|.+..-
T Consensus        12 ~yAlr~l~~La~------~~-~~~~s~~~IA~~~~i----s~~~l~kil~~L~~aGlv~s~r---G~~GGy~Lar~   73 (162)
T 3k69_A           12 SVAVHSILYLDA------HR-DSKVASRELAQSLHL----NPVMIRNILSVLHKHGYLTGTV---GKNGGYQLDLA   73 (162)
T ss_dssp             HHHHHHHHHHHT------TT-TSCBCHHHHHHHHTS----CGGGTHHHHHHHHHTTSSEEEC---STTCEEECCSC
T ss_pred             HHHHHHHHHHHh------CC-CCCcCHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEeec---CCCCCeEecCC
Confidence            346666554432      21 268999999999999    9999999999999999997653   13466887653

>3df8_A Possible HXLR family transcriptional factor; APC89000, structural genomics, midwest center for structural genomics, MCSG; 1.65A {Thermoplasma volcanium} SCOP: a.4.5.0

Probab=96.05  E-value=0.0026  Score=44.72  Aligned_cols=75  Identities=16%  Similarity=0.114  Sum_probs=54.9

Q ss_pred             HHHHHHHHHhhchHHHHHHHHHhhChhhHHhhcCCCCCCC--HHHHHHHh-cCCCCCCcccHHHHHHHHhcccceeeecc
Q 036188           12 SFAYADQLATGVVLPMAIQAVYELGIFEILDKAGPGTKLS--ASDIAAQL-LTKNKDAPMMLDRILRLLASYSVVECSLD   88 (210)
Q Consensus        12 ~~~~l~~~~~~~~~~~al~~a~~lglfd~L~~~g~~~~~t--~~eLA~~~-~~~~~~~~~~l~rlLr~L~~~gl~~~~~~   88 (210)
                      +...+++.+.+.|....|.         .|..    ++.+  +.||++.+ |+    ++..+.+.|+.|...|++++...
T Consensus        16 ~~~~~l~~l~~~wrl~IL~---------~L~~----g~~~~~~~eL~~~l~gi----s~~~ls~~L~~Le~~GlV~r~~~   78 (111)
T 3df8_A           16 PSESVLHLLGKKYTMLIIS---------VLGN----GSTRQNFNDIRSSIPGI----SSTILSRRIKDLIDSGLVERRSG   78 (111)
T ss_dssp             TTSSTHHHHHSTTHHHHHH---------HHTS----SSSCBCHHHHHHTSTTC----CHHHHHHHHHHHHHTTSEEEEES
T ss_pred             HHHHHHHHHcCccHHHHHH---------HHhc----CCCCCCHHHHHHHccCC----CHHHHHHHHHHHHHCCCEEEeec
Confidence            3444566666666544443         4554    5777  99999999 99    99999999999999999998621


Q ss_pred             CCCcccceeccccccccc
Q 036188           89 ASGARRLYSLNSVSKYYV  106 (210)
Q Consensus        89 ~~~~~~~y~~t~~s~~l~  106 (210)
                         ..-.|.+|+.++.+.
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               134688888776554

>3r0a_A Putative transcriptional regulator; structural genomics, PSI-biology, midwest center for structu genomics, MCSG; 2.31A {Methanosarcina mazei}

Probab=96.03  E-value=0.0052  Score=43.91  Aligned_cols=47  Identities=11%  Similarity=0.225  Sum_probs=40.7

Q ss_pred             hhChhhHHhhcCCCCC-CCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           34 ELGIFEILDKAGPGTK-LSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        34 ~lglfd~L~~~g~~~~-~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      +..|+..|.+.+  +| +|+.|||+++++    +...+.|.|+.|...|++.+.
T Consensus        28 e~~il~~L~~~~--~~~~t~~eLa~~l~~----s~sTV~r~L~~L~~~GlV~r~   75 (123)
T 3r0a_A           28 DLNVMKSFLNEP--DRWIDTDALSKSLKL----DVSTVQRSVKKLHEKEILQRS   75 (123)
T ss_dssp             HHHHHHHHHHST--TCCEEHHHHHHHHTS----CHHHHHHHHHHHHHTTSEEEE
T ss_pred             HHHHHHHHHHCC--CCCcCHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEee
Confidence            455677777654  46 999999999999    999999999999999999875

>3fm5_A Transcriptional regulator; MCSG, PF04017, PSI, MARR, structu genomics, protein structure initiative, midwest center for structural genomics; HET: GOL; 2.00A {Rhodococcus jostii}

Probab=95.98  E-value=0.021  Score=41.50  Aligned_cols=47  Identities=11%  Similarity=0.148  Sum_probs=39.4

Q ss_pred             hhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           34 ELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        34 ~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      ++.|...|...+  +++|..|||+.+++    ++..+.++++-|...|++++.
T Consensus        41 q~~vL~~l~~~~--~~~t~~eLa~~l~i----~~~tvs~~l~~Le~~Glv~r~   87 (150)
T 3fm5_A           41 SYSVLVLACEQA--EGVNQRGVAATMGL----DPSQIVGLVDELEERGLVVRT   87 (150)
T ss_dssp             HHHHHHHHHHST--TCCCSHHHHHHHTC----CHHHHHHHHHHHHTTTSEEC-
T ss_pred             HHHHHHHHHhCC--CCcCHHHHHHHHCC----CHhHHHHHHHHHHHCCCEEee
Confidence            344566676544  57899999999999    999999999999999999875

>2hr3_A Probable transcriptional regulator; MCSG, structural genomics, PSI-2, protein structure initiati midwest center for structural genomics; 2.40A {Pseudomonas aeruginosa} SCOP: a.4.5.28

Probab=95.97  E-value=0.011  Score=42.59  Aligned_cols=67  Identities=22%  Similarity=0.259  Sum_probs=48.5

Q ss_pred             HHhhChhhHHhh-cCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCC-Ccccceecccccccc
Q 036188           32 VYELGIFEILDK-AGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDAS-GARRLYSLNSVSKYY  105 (210)
Q Consensus        32 a~~lglfd~L~~-~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~-~~~~~y~~t~~s~~l  105 (210)
                      ..++.|+..|.. .   ++.|..+||+.+++    ++..+.++++.|...|++++..... ...-.+.+|+.++.+
T Consensus        35 ~~~~~iL~~l~~~~---~~~~~~~la~~l~i----~~~~vs~~l~~Le~~glv~r~~~~~d~R~~~~~lT~~G~~~  103 (147)
T 2hr3_A           35 FSQLVVLGAIDRLG---GDVTPSELAAAERM----RSSNLAALLRELERGGLIVRHADPQDGRRTRVSLSSEGRRN  103 (147)
T ss_dssp             HHHHHHHHHHHHTT---SCBCHHHHHHHTTC----CHHHHHHHHHHHHHTTSEEEEC------CCEEEECHHHHHH
T ss_pred             HHHHHHHHHHHHcC---CCCCHHHHHHHhCC----ChhhHHHHHHHHHHCCCEeeCCCCCCCCceeeEECHHHHHH
Confidence            345667777876 4   59999999999999    9999999999999999998762100 011125666655543

>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=95.94  E-value=0.0076  Score=44.31  Aligned_cols=73  Identities=19%  Similarity=0.215  Sum_probs=51.2

Q ss_pred             HHHHHHHHHhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceeccccccc
Q 036188           25 LPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSVSKY  104 (210)
Q Consensus        25 ~~~al~~a~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~~s~~  104 (210)
                      ...||++.+.+      +..+  ++ |+++||+++++    ++.+|+++|..|...|++....    +.|.|.++.-..-
T Consensus         8 ~~yAl~~L~~L------a~~~--~~-s~~~IA~~~~i----~~~~l~kIl~~L~~aGlv~s~r----G~GGy~Lar~p~~   70 (145)
T 1xd7_A            8 LAVAIHILSLI------SMDE--KT-SSEIIADSVNT----NPVVVRRMISLLKKADILTSRA----GVPGASLKKDPAD   70 (145)
T ss_dssp             HHHHHHHHHHH------HTCS--CC-CHHHHHHHHTS----CHHHHHHHHHHHHHTTSEECCS----SSSSCEESSCGGG
T ss_pred             HHHHHHHHHHH------HhCC--CC-CHHHHHHHHCc----CHHHHHHHHHHHHHCCceEeec----CCCCceecCCHHH
Confidence            34566666544      3332  35 99999999999    9999999999999999998762    2566766543321


Q ss_pred             cccCCCCCChHHHHHHh
Q 036188          105 YVPNKDGVLLGPLIQII  121 (210)
Q Consensus       105 l~~~~~~~~~~~~~~~~  121 (210)
                             -++.+.+...
T Consensus        71 -------Itl~dVi~av   80 (145)
T 1xd7_A           71 -------ISLLEVYRAV   80 (145)
T ss_dssp             -------CBHHHHHHHH
T ss_pred             -------CCHHHHHHHH
Confidence                   2456666554

>2fu4_A Ferric uptake regulation protein; DNA binding domain, helix-turn-helix, DNA binding protein; 1.80A {Escherichia coli}

Probab=95.83  E-value=0.0078  Score=39.59  Aligned_cols=49  Identities=22%  Similarity=0.305  Sum_probs=40.7

Q ss_pred             hhChhhHHhhcCCCCCCCHHHHHHHh-----cCCCCCCcccHHHHHHHHhcccceeeec
Q 036188           34 ELGIFEILDKAGPGTKLSASDIAAQL-----LTKNKDAPMMLDRILRLLASYSVVECSL   87 (210)
Q Consensus        34 ~lglfd~L~~~g~~~~~t~~eLA~~~-----~~~~~~~~~~l~rlLr~L~~~gl~~~~~   87 (210)
                      +..|.+.|.+.+ +++.|++||++.+     ++    +..-+.|.|+.|+..|++.+..
T Consensus        19 r~~IL~~l~~~~-~~~~s~~el~~~l~~~~~~i----s~~TVyR~L~~L~~~Glv~~~~   72 (83)
T 2fu4_A           19 RLKILEVLQEPD-NHHVSAEDLYKRLIDMGEEI----GLATVYRVLNQFDDAGIVTRHN   72 (83)
T ss_dssp             HHHHHHHHTSGG-GSSBCHHHHHHHHHHTTCCC----CHHHHHHHHHHHHHHTSEEEEE
T ss_pred             HHHHHHHHHhCC-CCCCCHHHHHHHHHHhCCCC----CHhhHHHHHHHHHHCCCeEEEe
Confidence            345778887641 0389999999999     88    9999999999999999998763

>1z7u_A Hypothetical protein EF0647; winged-helix-turn-helix, MARR, structural genomics, PSI, Pro structure initiative; 2.20A {Enterococcus faecalis} SCOP: a.4.5.69

Probab=95.81  E-value=0.0064  Score=42.56  Aligned_cols=77  Identities=14%  Similarity=0.029  Sum_probs=52.8

Q ss_pred             HHHHHHHHhhchHHHHHHHHHhhChhhHHhhcCCCCCCCHHHHHHHh-cCCCCCCcccHHHHHHHHhcccceeeeccCC-
Q 036188           13 FAYADQLATGVVLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQL-LTKNKDAPMMLDRILRLLASYSVVECSLDAS-   90 (210)
Q Consensus        13 ~~~l~~~~~~~~~~~al~~a~~lglfd~L~~~g~~~~~t~~eLA~~~-~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~-   90 (210)
                      ...++++..+.+....         ...|..    ++.+..|||+.+ ++    ++..+.+.|+.|...|++++..... 
T Consensus        12 ~~~~l~~l~~~~~~~I---------L~~L~~----~~~~~~eLa~~l~~i----s~~tvs~~L~~Le~~GlI~r~~~~~d   74 (112)
T 1z7u_A           12 INLALSTINGKWKLSL---------MDELFQ----GTKRNGELMRALDGI----TQRVLTDRLREMEKDGLVHRESFNEL   74 (112)
T ss_dssp             HHHHHHTTCSTTHHHH---------HHHHHH----SCBCHHHHHHHSTTC----CHHHHHHHHHHHHHHTSEEEEEECCS
T ss_pred             HHHHHHHHcCccHHHH---------HHHHHh----CCCCHHHHHHHhccC----CHHHHHHHHHHHHHCCCEEEeecCCC
Confidence            3444454445554433         334555    589999999999 99    9999999999999999998763110 


Q ss_pred             Ccccceeccccccccc
Q 036188           91 GARRLYSLNSVSKYYV  106 (210)
Q Consensus        91 ~~~~~y~~t~~s~~l~  106 (210)
                      ...-.|.+|+.++.+.
T Consensus        75 ~r~~~~~LT~~G~~~~   90 (112)
T 1z7u_A           75 PPRVEYTLTPEGYALY   90 (112)
T ss_dssp             SCEEEEEECHHHHHHH
T ss_pred             CCeEEEEECHhHHHHH
Confidence            0112488888776443

>2fsw_A PG_0823 protein; alpha-beta structure, helix-turn-helix, winged-helix-turn-HE structural genomics, PSI, protein structure initiative; HET: MSE; 2.16A {Porphyromonas gingivalis} SCOP: a.4.5.69

Probab=95.80  E-value=0.015  Score=40.17  Aligned_cols=78  Identities=14%  Similarity=0.155  Sum_probs=55.4

Q ss_pred             HHHHHHHHHhhchHHHHHHHHHhhChhhHHhhcCCCCCCCHHHHHHHh-cCCCCCCcccHHHHHHHHhcccceeeeccCC
Q 036188           12 SFAYADQLATGVVLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQL-LTKNKDAPMMLDRILRLLASYSVVECSLDAS   90 (210)
Q Consensus        12 ~~~~l~~~~~~~~~~~al~~a~~lglfd~L~~~g~~~~~t~~eLA~~~-~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~   90 (210)
                      +...++++..+.+....|.         .|..    ++.+..||++.+ |+    ++..+.+.|+.|...|++++.....
T Consensus        14 ~~~~~l~~l~~~~~~~IL~---------~L~~----~~~~~~eL~~~l~gi----s~~~ls~~L~~Le~~GlV~r~~~~~   76 (107)
T 2fsw_A           14 PVRKSMQIFAGKWTLLIIF---------QINR----RIIRYGELKRAIPGI----SEKMLIDELKFLCGKGLIKKKQYPE   76 (107)
T ss_dssp             HHHHHHHHHTSSSHHHHHH---------HHTT----SCEEHHHHHHHSTTC----CHHHHHHHHHHHHHTTSEEEEEECS
T ss_pred             CHHHHHHHHcCccHHHHHH---------HHHh----CCcCHHHHHHHcccC----CHHHHHHHHHHHHHCCCEEEeecCC
Confidence            4455666666666554443         3443    589999999999 49    9999999999999999998763110


Q ss_pred             -Ccccceeccccccccc
Q 036188           91 -GARRLYSLNSVSKYYV  106 (210)
Q Consensus        91 -~~~~~y~~t~~s~~l~  106 (210)
                       ...-.|.+|+.++.+.
T Consensus        77 d~r~~~y~LT~~G~~l~   93 (107)
T 2fsw_A           77 VPPRVEYSLTPLGEKVL   93 (107)
T ss_dssp             SSCEEEEEECHHHHTTH
T ss_pred             CCCeeEEEECccHHHHH
Confidence             0123489998876544

>2h09_A Transcriptional regulator MNTR; transcription regulator, diphtheria toxin, manganese transport, structural genomics, NPPSFA; 2.10A {Escherichia coli}

Probab=95.78  E-value=0.0082  Score=44.20  Aligned_cols=57  Identities=19%  Similarity=0.250  Sum_probs=45.2

Q ss_pred             hhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceecccccccc
Q 036188           37 IFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSVSKYY  105 (210)
Q Consensus        37 lfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~~s~~l  105 (210)
                      |...|...   ++.|..+||+.+++    ++..+.+.++.|...|++...     ....+.+|+.+..+
T Consensus        45 i~~~l~~~---~~~~~~~la~~l~v----s~~tvs~~l~~Le~~Glv~r~-----~~~~~~lT~~g~~~  101 (155)
T 2h09_A           45 ISDLIREV---GEARQVDMAARLGV----SQPTVAKMLKRLATMGLIEMI-----PWRGVFLTAEGEKL  101 (155)
T ss_dssp             HHHHHHHH---SCCCHHHHHHHHTS----CHHHHHHHHHHHHHTTCEEEE-----TTTEEEECHHHHHH
T ss_pred             HHHHHHhC---CCcCHHHHHHHhCc----CHHHHHHHHHHHHHCCCEEEe-----cCCceEEChhHHHH
Confidence            33366654   58999999999999    999999999999999999886     34556677666543

>2lkp_A Transcriptional regulator, ARSR family; symmetric homodimer, NI(II) binding protein, DNA binding Pro transcription regulator; NMR {Mycobacterium tuberculosis}

Probab=95.75  E-value=0.0095  Score=41.89  Aligned_cols=48  Identities=21%  Similarity=0.236  Sum_probs=42.2

Q ss_pred             HHHhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           31 AVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        31 ~a~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      .-.++.|+..|.+    ++.|+.|||+.+++    ++..+.|.|+.|...|++...
T Consensus        31 ~~~~~~il~~L~~----~~~s~~ela~~l~i----s~stvsr~l~~Le~~Glv~~~   78 (119)
T 2lkp_A           31 TPSRLMILTQLRN----GPLPVTDLAEAIGM----EQSAVSHQLRVLRNLGLVVGD   78 (119)
T ss_dssp             CHHHHHHHHHHHH----CCCCHHHHHHHHSS----CHHHHHHHHHHHHHHCSEEEE
T ss_pred             CHHHHHHHHHHHH----CCCCHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEEE
Confidence            3456778888887    48999999999999    999999999999999999865

>2x4h_A Hypothetical protein SSO2273; transcription; 2.30A {Sulfolobus solfataricus}

Probab=95.75  E-value=0.0085  Score=43.17  Aligned_cols=48  Identities=15%  Similarity=0.029  Sum_probs=41.8

Q ss_pred             CCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceecccccccc
Q 036188           48 TKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSVSKYY  105 (210)
Q Consensus        48 ~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~~s~~l  105 (210)
                      ++.|..+||+++++    ++..+.+.++.|...|++.+.      ...|.+|+.+..+
T Consensus        30 ~~~s~~ela~~l~i----s~~tv~~~l~~Le~~Gli~r~------~~~~~Lt~~g~~~   77 (139)
T 2x4h_A           30 EGAKINRIAKDLKI----APSSVFEEVSHLEEKGLVKKK------EDGVWITNNGTRS   77 (139)
T ss_dssp             SCBCHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEEE------TTEEEECHHHHHH
T ss_pred             CCcCHHHHHHHhCC----ChHHHHHHHHHHHHCCCEEec------CCeEEEChhHHHH
Confidence            68999999999999    999999999999999999987      3667777766543

>2f2e_A PA1607; transcription factor, helix-TRUN-helix, APC5613, structural genomics, PSI, protein structure initiative; HET: GLC; 1.85A {Pseudomonas aeruginosa} SCOP: a.4.5.69

Probab=95.73  E-value=0.0097  Score=43.80  Aligned_cols=55  Identities=20%  Similarity=0.166  Sum_probs=43.4

Q ss_pred             CCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceeccccccccc
Q 036188           48 TKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSVSKYYV  106 (210)
Q Consensus        48 ~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~~s~~l~  106 (210)
                      ++.+..||++.+++    ++..+.+.|+.|...|++++........-.|.+|+.++.+.
T Consensus        36 g~~~~~eLa~~lgi----s~~tls~~L~~Le~~GlI~r~~~~~d~~~~y~LT~~G~~l~   90 (146)
T 2f2e_A           36 GLTRFGEFQKSLGL----AKNILAARLRNLVEHGVMVAVPAESGSHQEYRLTDKGRALF   90 (146)
T ss_dssp             TCCSHHHHHHHHCC----CHHHHHHHHHHHHHTTSEEEEECSSSSCEEEEECHHHHTTH
T ss_pred             CCCCHHHHHHHhCC----CHHHHHHHHHHHHHCCCEEEEecCCCCeEEEEECchHHHHH
Confidence            58999999999999    99999999999999999997631100123688888776543

>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=95.70  E-value=0.019  Score=47.07  Aligned_cols=59  Identities=14%  Similarity=0.016  Sum_probs=36.9

Q ss_pred             CchhHhhcc-C-c-hHHHHHHHHHhhhhhhhHHHHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          150 VHIFEYAGL-N-P-RFNKHFNAAMYNYTSLVMSNILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       150 ~~~fe~l~~-~-p-~~~~~f~~~M~~~~~~~~~~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ..+++++.. . . -....|.. +..........+++.++.+....+|||||||.|.++..++
T Consensus        75 ~~~~~~~~~~~~~~y~~~~f~~-~~~~~~~~~~~l~~~l~~~~~~~~vLDiGcG~G~~~~~la  136 (312)
T 3vc1_A           75 PVDRAALGDPEHSEYEKKVIAE-LHRLESAQAEFLMDHLGQAGPDDTLVDAGCGRGGSMVMAH  136 (312)
T ss_dssp             CCCHHHHCCTTSTTHHHHHHHH-HHHHHHHHHHHHHTTSCCCCTTCEEEEESCTTSHHHHHHH
T ss_pred             hhHHHhhcCCCccccchHHHhh-hhhHHHHHHHHHHHHhccCCCCCEEEEecCCCCHHHHHHH
Confidence            345665543 1 1 12334444 4444444455666666536678899999999999998775

>3bdd_A Regulatory protein MARR; putative multiple antibiotic-resistance repressor, structura genomics, joint center for structural genomics, JCSG; 2.20A {Streptococcus suis}

Probab=95.59  E-value=0.02  Score=40.92  Aligned_cols=66  Identities=15%  Similarity=0.128  Sum_probs=50.3

Q ss_pred             hhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCC-Ccccceeccccccccc
Q 036188           34 ELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDAS-GARRLYSLNSVSKYYV  106 (210)
Q Consensus        34 ~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~-~~~~~y~~t~~s~~l~  106 (210)
                      ++.|+..|...   ++.|..+||+.+++    ++..+.+.++.|...|++++..... ...-.|.+|+.++.+.
T Consensus        33 ~~~iL~~l~~~---~~~~~~ela~~l~i----s~~~vs~~l~~L~~~gli~~~~~~~d~r~~~~~lT~~G~~~~   99 (142)
T 3bdd_A           33 RYSILQTLLKD---APLHQLALQERLQI----DRAAVTRHLKLLEESGYIIRKRNPDNQREVLVWPTEQAREAL   99 (142)
T ss_dssp             HHHHHHHHHHH---CSBCHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEEEECSSSTTCEEEEECHHHHHHH
T ss_pred             HHHHHHHHHhC---CCCCHHHHHHHHCC----CHHHHHHHHHHHHHCCCEEecCCCCCCCeeEEEECHHHHHHH
Confidence            44577778775   58999999999999    9999999999999999998763110 1122477787776554

>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=95.58  E-value=0.013  Score=39.88  Aligned_cols=47  Identities=19%  Similarity=0.270  Sum_probs=40.6

Q ss_pred             HhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           33 YELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        33 ~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      .++.|...|...   ++.|..|||+.+++    ++..+.+.++.|...|++.+.
T Consensus        21 ~~~~il~~l~~~---~~~s~~ela~~l~i----s~~tv~~~l~~L~~~glv~~~   67 (109)
T 1sfx_A           21 SDVRIYSLLLER---GGMRVSEIARELDL----SARFVRDRLKVLLKRGFVRRE   67 (109)
T ss_dssp             HHHHHHHHHHHH---CCBCHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEEE
T ss_pred             HHHHHHHHHHHc---CCCCHHHHHHHHCC----CHHHHHHHHHHHHHCCCEEEE
Confidence            345566677664   58999999999999    999999999999999999876

>3k0l_A Repressor protein; helix-turn-helix, structural genomics, PSI-2, protein structure initiative, midwest center for structural genomics, MCSG; 2.35A {Acinetobacter SP}

Probab=95.51  E-value=0.021  Score=42.13  Aligned_cols=64  Identities=20%  Similarity=0.283  Sum_probs=47.4

Q ss_pred             hChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCC-Ccccceecccccccc
Q 036188           35 LGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDAS-GARRLYSLNSVSKYY  105 (210)
Q Consensus        35 lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~-~~~~~y~~t~~s~~l  105 (210)
                      +.|...|...   +++|..|||+.+++    ++..+.++++.|...|++++..+.. ...-.+.+|+.++.+
T Consensus        49 ~~iL~~l~~~---~~~t~~eLa~~l~~----~~~tvs~~l~~Le~~Glv~r~~~~~DrR~~~l~LT~~G~~~  113 (162)
T 3k0l_A           49 FTALSVLAAK---PNLSNAKLAERSFI----KPQSANKILQDLLANGWIEKAPDPTHGRRILVTVTPSGLDK  113 (162)
T ss_dssp             HHHHHHHHHC---TTCCHHHHHHHHTS----CGGGHHHHHHHHHHTTSEEEEECCSSSCCEEEEECHHHHHH
T ss_pred             HHHHHHHHHC---CCCCHHHHHHHHCC----CHHHHHHHHHHHHHCcCeEecCCCCcCCeeEeEECHhHHHH
Confidence            4466777775   58999999999999    9999999999999999999763110 011236666665543

>3bja_A Transcriptional regulator, MARR family, putative; NP_978771.1, putative MARR-like transcription regulator, MAR structural genomics; 2.38A {Bacillus cereus}

Probab=95.51  E-value=0.013  Score=41.82  Aligned_cols=47  Identities=17%  Similarity=0.327  Sum_probs=40.7

Q ss_pred             HhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           33 YELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        33 ~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      .++.|+..|...   ++.|..+||+.+++    ++..+.+.++.|...|++.+.
T Consensus        34 ~~~~iL~~l~~~---~~~~~~ela~~l~~----~~~tvs~~l~~L~~~gli~r~   80 (139)
T 3bja_A           34 VQFGVIQVLAKS---GKVSMSKLIENMGC----VPSNMTTMIQRMKRDGYVMTE   80 (139)
T ss_dssp             HHHHHHHHHHHS---CSEEHHHHHHHCSS----CCTTHHHHHHHHHHTTSEEEE
T ss_pred             HHHHHHHHHHHc---CCcCHHHHHHHHCC----ChhHHHHHHHHHHHCCCeeec
Confidence            344567777765   58999999999999    999999999999999999875

>2zkz_A Transcriptional repressor PAGR; protein-DNA, HTH motif, dimer, DN binding, transcription regulation; 2.00A {Bacillus anthracis}

Probab=95.50  E-value=0.037  Score=37.69  Aligned_cols=50  Identities=18%  Similarity=0.152  Sum_probs=39.7

Q ss_pred             HHHHHhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           29 IQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        29 l~~a~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      |.--.++.|+..|...   ++.|+.|||+++|+    ++..+.+.|+.|... ++...
T Consensus        24 L~~~~Rl~IL~~l~~~---~~~~~~ela~~l~i----s~stvs~hL~~L~~~-lv~~~   73 (99)
T 2zkz_A           24 MAHPMRLKIVNELYKH---KALNVTQIIQILKL----PQSTVSQHLCKMRGK-VLKRN   73 (99)
T ss_dssp             HCSHHHHHHHHHHHHH---SCEEHHHHHHHHTC----CHHHHHHHHHHHBTT-TBEEE
T ss_pred             hCCHHHHHHHHHHHHC---CCcCHHHHHHHHCc----CHHHHHHHHHHHHHH-hhhhe
Confidence            3334556666444433   58999999999999    999999999999999 99765

>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=95.49  E-value=0.0071  Score=41.08  Aligned_cols=64  Identities=13%  Similarity=0.161  Sum_probs=47.0

Q ss_pred             hhChhhHHhhcCCCCCCCHHHH----HHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceeccccccccc
Q 036188           34 ELGIFEILDKAGPGTKLSASDI----AAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSVSKYYV  106 (210)
Q Consensus        34 ~lglfd~L~~~g~~~~~t~~eL----A~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~~s~~l~  106 (210)
                      ++.|+..|...   ++.|..||    |+.+++    ++..+.++++.|...|++++..+.  ....|.+|+.++.+.
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----STATFYDAKKFLIQEGFVKERQER--GEKRLYLTEKGKLFA   77 (99)
T ss_dssp             HHHHHHHHTTC---TTCBHHHHHHHHHTTSCC----CHHHHHHHHHHHHHTTSEEEEEET--TEEEEEECHHHHHHH
T ss_pred             HHHHHHHHHHc---CCcCHHHHHHHHHHHcCC----CHHHHHHHHHHHHHCCCEEEEecC--CceEEEECHHHHHHH
Confidence            34466667664   58999999    899999    999999999999999999875210  123466666665443

>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=95.47  E-value=0.0068  Score=47.66  Aligned_cols=31  Identities=19%  Similarity=0.272  Sum_probs=24.3

Q ss_pred             HHHHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          178 MSNILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       178 ~~~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ...+++.++ .....+|||||||.|.++..++
T Consensus        80 ~~~~~~~l~-~~~~~~vLdiG~G~G~~~~~la  110 (235)
T 1jg1_A           80 VAIMLEIAN-LKPGMNILEVGTGSGWNAALIS  110 (235)
T ss_dssp             HHHHHHHHT-CCTTCCEEEECCTTSHHHHHHH
T ss_pred             HHHHHHhcC-CCCCCEEEEEeCCcCHHHHHHH
Confidence            345556665 6777899999999999988775

>3g3z_A NMB1585, transcriptional regulator, MARR family; transcription factor, structur genomics, oxford protein production facility; 2.10A {Neisseria meningitidis serogroup B}

Probab=95.41  E-value=0.015  Score=42.00  Aligned_cols=66  Identities=17%  Similarity=0.221  Sum_probs=48.8

Q ss_pred             HhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCC-Ccccceecccccccc
Q 036188           33 YELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDAS-GARRLYSLNSVSKYY  105 (210)
Q Consensus        33 ~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~-~~~~~y~~t~~s~~l  105 (210)
                      .++.|...|...   ++.|..|||+.+++    ++..+.++++.|...|++++..+.. ...-.+.+|+.++.+
T Consensus        32 ~q~~iL~~l~~~---~~~t~~eLa~~l~~----~~~tvs~~l~~Le~~Glv~r~~~~~D~R~~~~~LT~~G~~~   98 (145)
T 3g3z_A           32 NLFAVLYTLATE---GSRTQKHIGEKWSL----PKQTVSGVCKTLAGQGLIEWQEGEQDRRKRLLSLTETGKAY   98 (145)
T ss_dssp             HHHHHHHHHHHH---CSBCHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEECCCSSCGGGSCEEECHHHHHH
T ss_pred             HHHHHHHHHHHC---CCCCHHHHHHHHCC----CHHHHHHHHHHHHHCCCEeeccCCCCCceeeeeEChhHHHH
Confidence            345567777766   48999999999999    9999999999999999999753110 011236677666544

>1yyv_A Putative transcriptional regulator; reductive methylation, D lysine, structural genomics, PSI; HET: MLY; 2.35A {Salmonella typhimurium} SCOP: a.4.5.69

Probab=95.38  E-value=0.0082  Score=43.43  Aligned_cols=55  Identities=16%  Similarity=0.103  Sum_probs=43.0

Q ss_pred             CCCCHHHHHHHh-cCCCCCCcccHHHHHHHHhcccceeeeccCC-Ccccceeccccccccc
Q 036188           48 TKLSASDIAAQL-LTKNKDAPMMLDRILRLLASYSVVECSLDAS-GARRLYSLNSVSKYYV  106 (210)
Q Consensus        48 ~~~t~~eLA~~~-~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~-~~~~~y~~t~~s~~l~  106 (210)
                      ++++..||++.+ |+    ++..+.+.|+.|...|++++..... ...-.|.+|+.++.+.
T Consensus        47 g~~~~~eLa~~l~gi----s~~tls~~L~~Le~~GlV~r~~~~~d~r~~~y~LT~~G~~l~  103 (131)
T 1yyv_A           47 GTHRFSDLRRXMGGV----SEXMLAQSLQALEQDGFLNRVSYPVVPPHVEYSLTPLGEQVS  103 (131)
T ss_dssp             CCEEHHHHHHHSTTC----CHHHHHHHHHHHHHHTCEEEEEECSSSCEEEEEECHHHHHHH
T ss_pred             CCCCHHHHHHHhccC----CHHHHHHHHHHHHHCCcEEEEecCCCCCeEEEEECccHHHHH
Confidence            599999999999 79    9999999999999999998763110 0112588888776543

>3dli_A Methyltransferase; PSI-II, NYSGXRC, structural genomics, protein structure initiative; 2.46A {Archaeoglobus fulgidus}

Probab=95.38  E-value=0.013  Score=46.08  Aligned_cols=31  Identities=16%  Similarity=0.285  Sum_probs=22.3

Q ss_pred             HHHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          179 SNILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       179 ~~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ..+....+.++...+|||||||.|.++..++
T Consensus        30 ~~~~~~l~~~~~~~~vLDiGcG~G~~~~~l~   60 (240)
T 3dli_A           30 ARLRRYIPYFKGCRRVLDIGCGRGEFLELCK   60 (240)
T ss_dssp             HHHGGGGGGTTTCSCEEEETCTTTHHHHHHH
T ss_pred             HHHHHHHhhhcCCCeEEEEeCCCCHHHHHHH
Confidence            3334444435567899999999999988764

>3hsr_A HTH-type transcriptional regulator SARZ; helix-turn-helix, cysteine disulfide, MARR-family transcript regulator, DNA-binding; 1.90A {Staphylococcus aureus subsp} PDB: 3hse_A 3hrm_A 4gxo_A

Probab=95.35  E-value=0.038  Score=39.64  Aligned_cols=63  Identities=14%  Similarity=0.169  Sum_probs=45.2

Q ss_pred             hhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCC-Ccccceeccccccccc
Q 036188           37 IFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDAS-GARRLYSLNSVSKYYV  106 (210)
Q Consensus        37 lfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~-~~~~~y~~t~~s~~l~  106 (210)
                      |...|...   ++.|..|||+.+++    ++..+.++++.|...|++++..+.. ...-.+.+|+.++.+.
T Consensus        41 vL~~l~~~---~~~t~~eLa~~l~~----~~~tvs~~l~~L~~~Glv~r~~~~~D~R~~~~~LT~~G~~~~  104 (140)
T 3hsr_A           41 VLMAIEND---EKLNIKKLGERVFL----DSGTLTPLLKKLEKKDYVVRTREEKDERNLQISLTEQGKAIK  104 (140)
T ss_dssp             HHHHSCTT---CEEEHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEEEC-------CEEEECHHHHHTH
T ss_pred             HHHHHHHc---CCcCHHHHHHHHCC----ChhhHHHHHHHHHHCCCeEecCCCCCcceeeeeEChHHHHHH
Confidence            45555553   59999999999999    9999999999999999999763110 0112366666665443

>3bpv_A Transcriptional regulator; MARR, DNA binding, transcription factor, winged helix motif, DNA-binding; 1.40A {Methanobacterium thermoautotrophicum} PDB: 3bpx_A*

Probab=95.33  E-value=0.013  Score=41.76  Aligned_cols=46  Identities=13%  Similarity=0.215  Sum_probs=40.1

Q ss_pred             hhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           34 ELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        34 ~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      ++.|...|...   ++.|..|||+.+++    ++..+.++++.|...|++++.
T Consensus        31 ~~~iL~~l~~~---~~~~~~ela~~l~~----s~~tvs~~l~~L~~~glv~~~   76 (138)
T 3bpv_A           31 QVACLLRIHRE---PGIKQDELATFFHV----DKGTIARTLRRLEESGFIERE   76 (138)
T ss_dssp             HHHHHHHHHHS---TTCBHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEEE
T ss_pred             HHHHHHHHHHc---CCCCHHHHHHHHCC----CHHHHHHHHHHHHHCCCEEee
Confidence            44466677765   58999999999999    999999999999999999875

>3bro_A Transcriptional regulator; helix_TURN_helix, multiple antibiotic resistance protein (MA structural genomics, PSI-2, protein structure initiative; HET: MSE; 2.04A {Oenococcus oeni} SCOP: a.4.5.28

Probab=95.33  E-value=0.015  Score=41.53  Aligned_cols=67  Identities=7%  Similarity=0.170  Sum_probs=47.3

Q ss_pred             hhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCC-Ccccceecccccccc
Q 036188           34 ELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDAS-GARRLYSLNSVSKYY  105 (210)
Q Consensus        34 ~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~-~~~~~y~~t~~s~~l  105 (210)
                      +..|...|...+ +++.|..+||+.+++    ++..+.++++.|...|++++..+.. ...-.+.+|+.++.+
T Consensus        36 ~~~iL~~l~~~~-~~~~~~~ela~~l~~----~~~tvs~~l~~Le~~Gli~r~~~~~d~R~~~i~lT~~G~~~  103 (141)
T 3bro_A           36 QMTIIDYLSRNK-NKEVLQRDLESEFSI----KSSTATVLLQRMEIKKLLYRKVSGKDSRQKCLKLTKKANKL  103 (141)
T ss_dssp             HHHHHHHHHHTT-TSCCBHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEEEECSSCTTSEEEEECHHHHTT
T ss_pred             HHHHHHHHHHCC-CCCcCHHHHHHHHCC----CcchHHHHHHHHHHCCCEEeeCCCcCCCeeeeEECHHHHHH
Confidence            344566777653 128999999999999    9999999999999999998763110 011235566666543

>2nnn_A Probable transcriptional regulator; structural genomics, PSI-2, protein structure initiative, M center for structural genomics, MCSG; 2.40A {Pseudomonas aeruginosa}

Probab=95.30  E-value=0.014  Score=41.67  Aligned_cols=47  Identities=6%  Similarity=0.089  Sum_probs=41.4

Q ss_pred             HhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           33 YELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        33 ~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      .++.|+..|...   ++.|..|||+.+++    ++..+.++++.|...|++++.
T Consensus        39 ~~~~iL~~l~~~---~~~t~~ela~~l~~----~~~tvs~~l~~L~~~glv~r~   85 (140)
T 2nnn_A           39 TQWAALVRLGET---GPCPQNQLGRLTAM----DAATIKGVVERLDKRGLIQRS   85 (140)
T ss_dssp             HHHHHHHHHHHH---SSBCHHHHHHHTTC----CHHHHHHHHHHHHHTTCEEEE
T ss_pred             HHHHHHHHHHHc---CCCCHHHHHHHHCC----CHHHHHHHHHHHHHCCCEEee
Confidence            355677788765   59999999999999    999999999999999999875

>3nrv_A Putative transcriptional regulator (MARR/EMRR FAM; PSI-2, protein structure initiati structural genomics; HET: MSE; 2.00A {Acinetobacter SP}

Probab=95.28  E-value=0.014  Score=42.17  Aligned_cols=47  Identities=21%  Similarity=0.251  Sum_probs=40.6

Q ss_pred             HhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           33 YELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        33 ~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      .++.|+..|...   +++|..|||+.+++    ++..+.++++.|...|++++.
T Consensus        41 ~~~~iL~~l~~~---~~~t~~ela~~l~~----~~~tvs~~l~~Le~~Glv~r~   87 (148)
T 3nrv_A           41 TEWRIISVLSSA---SDCSVQKISDILGL----DKAAVSRTVKKLEEKKYIEVN   87 (148)
T ss_dssp             HHHHHHHHHHHS---SSBCHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEC-
T ss_pred             HHHHHHHHHHcC---CCCCHHHHHHHHCC----CHHHHHHHHHHHHHCCCEEee
Confidence            445567777775   59999999999999    999999999999999999875

>2a61_A Transcriptional regulator TM0710; APC4350, MCSG, midwest center for structural genomics, PSI, protein structure initiative, MARR; 1.80A {Thermotoga maritima} SCOP: a.4.5.28

Probab=95.27  E-value=0.014  Score=42.01  Aligned_cols=66  Identities=8%  Similarity=0.071  Sum_probs=47.9

Q ss_pred             HhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCC-Ccccceecccccccc
Q 036188           33 YELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDAS-GARRLYSLNSVSKYY  105 (210)
Q Consensus        33 ~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~-~~~~~y~~t~~s~~l  105 (210)
                      .++.|+..|...   ++.|..+||+.+++    ++..+.++++.|...|++++..+.. ...-.|.+|+.++.+
T Consensus        34 ~~~~iL~~l~~~---~~~~~~~la~~l~~----s~~tvs~~l~~L~~~glv~r~~~~~d~r~~~~~lT~~G~~~  100 (145)
T 2a61_A           34 AQFDILQKIYFE---GPKRPGELSVLLGV----AKSTVTGLVKRLEADGYLTRTPDPADRRAYFLVITRKGEEV  100 (145)
T ss_dssp             HHHHHHHHHHHH---CCBCHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEEEEETTEEEEEEEEECHHHHHH
T ss_pred             HHHHHHHHHHHc---CCCCHHHHHHHHCC----CchhHHHHHHHHHHCCCeeecCCCCCCceEEEEECHHHHHH
Confidence            345567777765   58999999999999    9999999999999999998752110 001135666665543

>1s3j_A YUSO protein; structural genomics, MARR transcriptional regulator family, PSI, protein structure initiative; HET: MSE; 2.25A {Bacillus subtilis} SCOP: a.4.5.28

Probab=95.26  E-value=0.033  Score=40.41  Aligned_cols=45  Identities=20%  Similarity=0.266  Sum_probs=39.7

Q ss_pred             hChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           35 LGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        35 lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      +.|+..|...   ++.|..+||+.+++    ++..+.++++.|...|++++.
T Consensus        40 ~~iL~~l~~~---~~~t~~ela~~l~~----s~~tvs~~l~~Le~~glv~r~   84 (155)
T 1s3j_A           40 LFVLASLKKH---GSLKVSEIAERMEV----KPSAVTLMADRLEQKNLIART   84 (155)
T ss_dssp             HHHHHHHHHH---SEEEHHHHHHHHTS----CHHHHHHHHHHHHHTTSEEEE
T ss_pred             HHHHHHHHHc---CCCCHHHHHHHHCC----CHHHHHHHHHHHHHCCCEeec
Confidence            4467777765   58999999999999    999999999999999999876

>2bv6_A MGRA, HTH-type transcriptional regulator MGRA; multidrug resistance regulator, virulence determinant, transcriptional factors; 2.8A {Staphylococcus aureus} SCOP: a.4.5.28

Probab=95.24  E-value=0.014  Score=41.96  Aligned_cols=46  Identities=9%  Similarity=0.218  Sum_probs=40.3

Q ss_pred             hhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           34 ELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        34 ~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      ++.|...|...   ++.|..+||+.+++    ++..+.+.++.|...|++++.
T Consensus        39 ~~~iL~~l~~~---~~~~~~ela~~l~~----~~~tvs~~l~~L~~~gli~r~   84 (142)
T 2bv6_A           39 QFLVLTILWDE---SPVNVKKVVTELAL----DTGTVSPLLKRMEQVDLIKRE   84 (142)
T ss_dssp             HHHHHHHHHHS---SEEEHHHHHHHTTC----CTTTHHHHHHHHHHTTSEEEE
T ss_pred             HHHHHHHHHHc---CCcCHHHHHHHHCC----ChhhHHHHHHHHHHCCCEEee
Confidence            45567777765   48999999999999    999999999999999999876

>3oop_A LIN2960 protein; protein structure initiative, PSI-2, structural genomics, MI center for structural genomics, MCSG, unknown function; 1.78A {Listeria innocua}

Probab=95.23  E-value=0.013  Score=42.27  Aligned_cols=66  Identities=15%  Similarity=0.184  Sum_probs=47.4

Q ss_pred             HhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCC-Ccccceecccccccc
Q 036188           33 YELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDAS-GARRLYSLNSVSKYY  105 (210)
Q Consensus        33 ~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~-~~~~~y~~t~~s~~l  105 (210)
                      .+..|...|...   ++.|..|||+.+++    ++..+.++++.|...|++++..+.. ...-.+.+|+.++.+
T Consensus        38 ~~~~iL~~l~~~---~~~t~~eLa~~l~~----~~~~vs~~l~~L~~~Glv~r~~~~~D~R~~~~~LT~~G~~~  104 (143)
T 3oop_A           38 EQWSVLEGIEAN---EPISQKEIALWTKK----DTPTVNRIVDVLLRKELIVREISTEDRRISLLSLTDKGRKE  104 (143)
T ss_dssp             HHHHHHHHHHHH---SSEEHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEEEC----CCSCEEEECHHHHHH
T ss_pred             HHHHHHHHHHHc---CCcCHHHHHHHHCC----CHhhHHHHHHHHHHCCCeeccCCCccCceeeeeECHHHHHH
Confidence            344566777765   59999999999999    9999999999999999998763110 011235566655533

>3bj6_A Transcriptional regulator, MARR family; helix-turn-helix, trasnscription regulator, STR genomics, PSI-2, protein structure initiative; 2.01A {Silicibacter pomeroyi dss-3}

Probab=95.22  E-value=0.013  Score=42.50  Aligned_cols=46  Identities=22%  Similarity=0.265  Sum_probs=40.2

Q ss_pred             hhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           34 ELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        34 ~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      ++.|...|...   ++.|..+||+.+++    ++..+.++++-|...|++.+.
T Consensus        42 ~~~iL~~l~~~---~~~t~~ela~~l~~----~~~~vs~~l~~Le~~Glv~r~   87 (152)
T 3bj6_A           42 QRAILEGLSLT---PGATAPQLGAALQM----KRQYISRILQEVQRAGLIERR   87 (152)
T ss_dssp             HHHHHHHHHHS---TTEEHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEEE
T ss_pred             HHHHHHHHHhC---CCCCHHHHHHHHCC----CHHHHHHHHHHHHHCCCeeec
Confidence            34467777765   58999999999999    999999999999999999986

>2qvo_A Uncharacterized protein AF_1382; PSI, structural genomics, southeast collaboratory for structural genomics; 1.85A {Archaeoglobus fulgidus dsm 4304} PDB: 3o3k_A 3ov8_A

Probab=95.17  E-value=0.0086  Score=40.53  Aligned_cols=49  Identities=14%  Similarity=0.197  Sum_probs=40.4

Q ss_pred             CCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCccc---ceeccccccccc
Q 036188           49 KLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARR---LYSLNSVSKYYV  106 (210)
Q Consensus        49 ~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~---~y~~t~~s~~l~  106 (210)
                      ++|..|||+.+++    ++..+.++++.|...|++...     .++   .|.+|+.++.+.
T Consensus        30 ~~t~~eLa~~l~i----~~~tvs~~l~~Le~~Glv~~~-----~d~R~~~v~LT~~G~~~~   81 (95)
T 2qvo_A           30 DVYIQYIASKVNS----PHSYVWLIIKKFEEAKMVECE-----LEGRTKIIRLTDKGQKIA   81 (95)
T ss_dssp             CEEHHHHHHHSSS----CHHHHHHHHHHHHHTTSEEEE-----EETTEEEEEECHHHHHHH
T ss_pred             CcCHHHHHHHHCc----CHHHHHHHHHHHHHCcCccCC-----CCCCeEEEEEChhHHHHH
Confidence            4999999999999    999999999999999999433     233   488888776543

>1jgs_A Multiple antibiotic resistance protein MARR; transcription regulation, DNA-binding, repressor, transcription; HET: SAL; 2.30A {Escherichia coli} SCOP: a.4.5.28

Probab=95.14  E-value=0.017  Score=41.11  Aligned_cols=65  Identities=15%  Similarity=0.101  Sum_probs=46.8

Q ss_pred             hhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCC-Ccccceecccccccc
Q 036188           34 ELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDAS-GARRLYSLNSVSKYY  105 (210)
Q Consensus        34 ~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~-~~~~~y~~t~~s~~l  105 (210)
                      ++.|...|...   ++.|..+||+.+++    ++..+.++++.|...|++++..... ...-.+.+|+.++.+
T Consensus        36 ~~~iL~~l~~~---~~~~~~~la~~l~~----~~~tvs~~l~~L~~~gli~r~~~~~d~R~~~~~lT~~G~~~  101 (138)
T 1jgs_A           36 QFKVLCSIRCA---ACITPVELKKVLSV----DLGALTRMLDRLVCKGWVERLPNPNDKRGVLVKLTTGGAAI  101 (138)
T ss_dssp             HHHHHHHHHHH---SSBCHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEEEECTTCSSCEEEEECHHHHHH
T ss_pred             HHHHHHHHHhc---CCCCHHHHHHHHCC----ChHHHHHHHHHHHHCCCEEecCCcccCceeEeEEChhHHHH
Confidence            34456667665   48999999999999    9999999999999999998753110 011125666655533

>3bkw_A MLL3908 protein, S-adenosylmethionine dependent methyltransferase; NP_104914.1; HET: MSE; 1.60A {Mesorhizobium loti}

Probab=95.12  E-value=0.015  Score=45.43  Aligned_cols=29  Identities=14%  Similarity=0.044  Sum_probs=22.6

Q ss_pred             HHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          180 NILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       180 ~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      .+...++ .....+|||||||.|.++..++
T Consensus        34 ~l~~~~~-~~~~~~vLdiG~G~G~~~~~l~   62 (243)
T 3bkw_A           34 ALRAMLP-EVGGLRIVDLGCGFGWFCRWAH   62 (243)
T ss_dssp             HHHHHSC-CCTTCEEEEETCTTCHHHHHHH
T ss_pred             HHHHhcc-ccCCCEEEEEcCcCCHHHHHHH
Confidence            4555555 5567899999999999988765

>2fa5_A Transcriptional regulator MARR/EMRR family; multiple antibiotics resistance repressor, XCC structural genomics, X-RAY diffraction; 1.80A {Xanthomonas campestris}

Probab=95.11  E-value=0.017  Score=42.44  Aligned_cols=46  Identities=17%  Similarity=0.193  Sum_probs=39.6

Q ss_pred             hhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           34 ELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        34 ~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      ++.|...|...   ++.|..|||+.+++    ++..+.++++.|...|++++.
T Consensus        51 ~~~iL~~l~~~---~~~t~~ela~~l~i----s~~tvs~~l~~Le~~glv~r~   96 (162)
T 2fa5_A           51 EWRVITILALY---PGSSASEVSDRTAM----DKVAVSRAVARLLERGFIRRE   96 (162)
T ss_dssp             HHHHHHHHHHS---TTCCHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEC-
T ss_pred             HHHHHHHHHhC---CCCCHHHHHHHHCC----CHHHHHHHHHHHHHCCCEeee
Confidence            34467777764   59999999999999    999999999999999999875

>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=95.11  E-value=0.016  Score=40.21  Aligned_cols=46  Identities=26%  Similarity=0.348  Sum_probs=38.6

Q ss_pred             hChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           35 LGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        35 lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      +.|...+...|  .+.|..+||+.+|+    +...+++.|..|...|++...
T Consensus        21 l~Il~~l~~~g--~~~s~~eLa~~lgv----s~~tV~~~L~~L~~~GlV~~~   66 (110)
T 1q1h_A           21 IDVLRILLDKG--TEMTDEEIANQLNI----KVNDVRKKLNLLEEQGFVSYR   66 (110)
T ss_dssp             HHHHHHHHHHC--SCBCHHHHHHTTTS----CHHHHHHHHHHHHHHTSCEEE
T ss_pred             HHHHHHHHHcC--CCCCHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEEE
Confidence            45666664433  48999999999999    999999999999999999764

>3ou2_A SAM-dependent methyltransferase; O-methyltransferase, SAH; HET: SAH; 1.50A {Streptomyces luridus} PDB: 3ou6_A* 3ou7_A*

Probab=95.11  E-value=0.019  Score=43.92  Aligned_cols=31  Identities=10%  Similarity=0.167  Sum_probs=22.5

Q ss_pred             HHHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          179 SNILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       179 ~~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ..+++.+.......+|||||||.|.++..++
T Consensus        35 ~~~~~~l~~~~~~~~vLdiG~G~G~~~~~l~   65 (218)
T 3ou2_A           35 PAALERLRAGNIRGDVLELASGTGYWTRHLS   65 (218)
T ss_dssp             HHHHHHHTTTTSCSEEEEESCTTSHHHHHHH
T ss_pred             HHHHHHHhcCCCCCeEEEECCCCCHHHHHHH
Confidence            3444444335556799999999999998775

>2rdp_A Putative transcriptional regulator MARR; PFAM PF01047, winged-helix binding motif, structural genomics, PSI-2; 2.30A {Geobacillus stearothermophilus}

Probab=95.09  E-value=0.083  Score=38.01  Aligned_cols=46  Identities=9%  Similarity=0.138  Sum_probs=40.1

Q ss_pred             hhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           34 ELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        34 ~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      ++.|+..|...   ++.|..+||+.+++    ++..+.++++.|...|++.+.
T Consensus        44 ~~~iL~~l~~~---~~~t~~ela~~l~~----~~~tvs~~l~~Le~~Glv~r~   89 (150)
T 2rdp_A           44 QFVALQWLLEE---GDLTVGELSNKMYL----ACSTTTDLVDRMERNGLVARV   89 (150)
T ss_dssp             HHHHHHHHHHH---CSBCHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEEE
T ss_pred             HHHHHHHHHHc---CCCCHHHHHHHHCC----CchhHHHHHHHHHHCCCeeec
Confidence            34466777765   58999999999999    999999999999999999875

>2pg4_A Uncharacterized protein; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2, DNA binding protein; HET: MSE CIT; 2.21A {Aeropyrum pernix} SCOP: a.4.5.48

Probab=95.07  E-value=0.01  Score=40.12  Aligned_cols=63  Identities=11%  Similarity=0.021  Sum_probs=45.0

Q ss_pred             hhhHHhhcCCCCCCCHHHHHHHhcCCCCCCccc-HHHHHHHHhcccceeeeccCCCcccceeccccccccc
Q 036188           37 IFEILDKAGPGTKLSASDIAAQLLTKNKDAPMM-LDRILRLLASYSVVECSLDASGARRLYSLNSVSKYYV  106 (210)
Q Consensus        37 lfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~-l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~~s~~l~  106 (210)
                      +...|...+  .+.|..|||+.+++    ++.. +.++++.|...|++..+..+ ...-.+.+|+.++.+.
T Consensus        20 ~L~~l~~~~--~~~t~~eLa~~l~i----s~~t~vs~~l~~Le~~Glv~~~~~d-rR~~~~~LT~~G~~~~   83 (95)
T 2pg4_A           20 TLLEFEKKG--YEPSLAEIVKASGV----SEKTFFMGLKDRLIRAGLVKEETLS-YRVKTLKLTEKGRRLA   83 (95)
T ss_dssp             HHHHHHHTT--CCCCHHHHHHHHCC----CHHHHHTTHHHHHHHTTSEEEEEEE-TTEEEEEECHHHHHHH
T ss_pred             HHHHHHhcC--CCCCHHHHHHHHCC----CchHHHHHHHHHHHHCCCeecCCCC-CCeEEEEECHhHHHHH
Confidence            444555542  37999999999999    9999 99999999999999843100 0122366777665443

>1xtp_A LMAJ004091AAA; SGPP, structural genomics, PSI, protein structure initiative dependent methyltransferase; HET: SAI; 1.94A {Leishmania major} SCOP: c.66.1.42

Probab=95.07  E-value=0.011  Score=46.54  Aligned_cols=30  Identities=17%  Similarity=0.297  Sum_probs=24.1

Q ss_pred             HHHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          179 SNILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       179 ~~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ..++..++ .....+|||||||.|.++..++
T Consensus        83 ~~~l~~l~-~~~~~~vLDiG~G~G~~~~~l~  112 (254)
T 1xtp_A           83 RNFIASLP-GHGTSRALDCGAGIGRITKNLL  112 (254)
T ss_dssp             HHHHHTST-TCCCSEEEEETCTTTHHHHHTH
T ss_pred             HHHHHhhc-ccCCCEEEEECCCcCHHHHHHH
Confidence            45566666 6678899999999999998765

>2pex_A Transcriptional regulator OHRR; transcription regulator; 1.90A {Xanthomonas campestris} PDB: 2pfb_A

Probab=95.04  E-value=0.015  Score=42.38  Aligned_cols=67  Identities=18%  Similarity=0.210  Sum_probs=49.7

Q ss_pred             hhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCC-Ccccceecccccccccc
Q 036188           34 ELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDAS-GARRLYSLNSVSKYYVP  107 (210)
Q Consensus        34 ~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~-~~~~~y~~t~~s~~l~~  107 (210)
                      ++.|...|...   ++.|..+||+.+++    ++..+.++++.|...|++++..... ...-.+.+|+.++.+..
T Consensus        49 ~~~iL~~l~~~---~~~t~~ela~~l~~----s~~tvs~~l~~Le~~glv~r~~~~~d~R~~~~~lT~~G~~~~~  116 (153)
T 2pex_A           49 QYLVMLVLWET---DERSVSEIGERLYL----DSATLTPLLKRLQAAGLVTRTRAASDERQVIIALTETGRALRS  116 (153)
T ss_dssp             HHHHHHHHHHS---CSEEHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEEEC-------CEEEECHHHHHGGG
T ss_pred             HHHHHHHHHhC---CCcCHHHHHHHhCC----CcccHHHHHHHHHHCCCEeecCCcccCCeeEeeECHHHHHHHH
Confidence            44567777765   58999999999999    9999999999999999998762100 01124778888775543

>3boq_A Transcriptional regulator, MARR family; MARR famil structural genomics, PSI-2, protein structure initiative; 2.39A {Silicibacter pomeroyi dss-3}

Probab=94.94  E-value=0.018  Score=42.17  Aligned_cols=47  Identities=13%  Similarity=0.133  Sum_probs=39.7

Q ss_pred             hhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           34 ELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        34 ~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      ++.|...|...+  ++.|..+||+.+++    ++..+.++++.|...|++++.
T Consensus        49 ~~~iL~~L~~~~--~~~~~~ela~~l~i----~~~tvs~~l~~Le~~Gli~r~   95 (160)
T 3boq_A           49 KFDAMAQLARNP--DGLSMGKLSGALKV----TNGNVSGLVNRLIKDGMVVKA   95 (160)
T ss_dssp             HHHHHHHHHHCT--TCEEHHHHHHHCSS----CCSCHHHHHHHHHHHTSEEEC
T ss_pred             HHHHHHHHHHcC--CCCCHHHHHHHHCC----ChhhHHHHHHHHHHCCCEEee
Confidence            344677774322  68999999999999    999999999999999999875

>3cdh_A Transcriptional regulator, MARR family; helix-turn-hleix, structura genomics, PSI-2, protein structure initiative; 2.69A {Silicibacter pomeroyi dss-3}

Probab=94.94  E-value=0.089  Score=38.16  Aligned_cols=64  Identities=16%  Similarity=0.151  Sum_probs=45.8

Q ss_pred             hChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccC-CCcccceecccccccc
Q 036188           35 LGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDA-SGARRLYSLNSVSKYY  105 (210)
Q Consensus        35 lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~-~~~~~~y~~t~~s~~l  105 (210)
                      +.|+..|...   ++.|..+||+.+++    ++..+.++++.|...|++++.... +...-.+.+|+.++.+
T Consensus        46 ~~iL~~l~~~---~~~t~~ela~~l~i----~~~tvs~~l~~Le~~Glv~r~~~~~d~R~~~~~lT~~G~~~  110 (155)
T 3cdh_A           46 WRVLACLVDN---DAMMITRLAKLSLM----EQSRMTRIVDQMDARGLVTRVADAKDKRRVRVRLTDDGRAL  110 (155)
T ss_dssp             HHHHHHHSSC---SCBCHHHHHHHTTC----CHHHHHHHHHHHHHTTSEEECC------CCCEEECHHHHHH
T ss_pred             HHHHHHHHHC---CCcCHHHHHHHHCC----CHHHHHHHHHHHHHCCCEEeccCCCcCCeeEeEECHHHHHH
Confidence            4456666654   58999999999999    999999999999999999875210 0011236666665543

>2fbh_A Transcriptional regulator PA3341; MARR, transcription regulator, APC5857, structural genomics, protein structure initiative; 1.80A {Pseudomonas aeruginosa} SCOP: a.4.5.28

Probab=94.93  E-value=0.024  Score=40.66  Aligned_cols=45  Identities=18%  Similarity=0.113  Sum_probs=38.8

Q ss_pred             hChhhHH-hhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           35 LGIFEIL-DKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        35 lglfd~L-~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      +.|...| ...   ++.|..+||+.+++    ++..+.++++-|...|++++.
T Consensus        40 ~~iL~~l~~~~---~~~t~~~la~~l~~----s~~~vs~~l~~L~~~glv~r~   85 (146)
T 2fbh_A           40 WLVLLHLARHR---DSPTQRELAQSVGV----EGPTLARLLDGLESQGLVRRL   85 (146)
T ss_dssp             HHHHHHHHHCS---SCCBHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEEE
T ss_pred             HHHHHHHHHcC---CCCCHHHHHHHhCC----ChhhHHHHHHHHHHCCCeeec
Confidence            3456667 443   68999999999999    999999999999999999876

>2nyx_A Probable transcriptional regulatory protein, RV14; alpha/beta, structural genomics, PSI-2; 2.30A {Mycobacterium tuberculosis}

Probab=94.84  E-value=0.074  Score=39.41  Aligned_cols=66  Identities=15%  Similarity=0.191  Sum_probs=48.7

Q ss_pred             hhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCC-Ccccceeccccccccc
Q 036188           34 ELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDAS-GARRLYSLNSVSKYYV  106 (210)
Q Consensus        34 ~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~-~~~~~y~~t~~s~~l~  106 (210)
                      ++.|...|...   +++|..|||+.+++    ++..+.++++.|...|++++..+.. ...-.+.+|+.++.+.
T Consensus        47 ~~~iL~~L~~~---~~~t~~eLa~~l~i----s~~tvs~~l~~Le~~GlV~r~~~~~DrR~~~~~LT~~G~~~~  113 (168)
T 2nyx_A           47 QFRTLVILSNH---GPINLATLATLLGV----QPSATGRMVDRLVGAELIDRLPHPTSRRELLAALTKRGRDVV  113 (168)
T ss_dssp             HHHHHHHHHHH---CSEEHHHHHHHHTS----CHHHHHHHHHHHHHTTSEEEEECSSCSSCEEEEECHHHHHHH
T ss_pred             HHHHHHHHHHc---CCCCHHHHHHHhCC----CHHHHHHHHHHHHHCCCEEeccCCCCCCeeEEEECHHHHHHH
Confidence            44567777765   58999999999999    9999999999999999998753110 0112366777665443

>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=94.83  E-value=0.029  Score=38.27  Aligned_cols=60  Identities=12%  Similarity=0.142  Sum_probs=48.0

Q ss_pred             hhChhhHHhhcCCCCCCCHHHHHH-HhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceeccccccccc
Q 036188           34 ELGIFEILDKAGPGTKLSASDIAA-QLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSVSKYYV  106 (210)
Q Consensus        34 ~lglfd~L~~~g~~~~~t~~eLA~-~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~~s~~l~  106 (210)
                      ++.|.-.|+.+   ++.|+.+||+ ..++    +...+.|=++.|...|+++.+     +++ +.+|+.++.+.
T Consensus        18 QfsiL~~L~~~---~~~t~~~Lae~~l~~----drstvsrnl~~L~r~GlVe~~-----~~D-l~LT~~G~~~l   78 (95)
T 1bja_A           18 TATILITIAKK---DFITAAEVREVHPDL----GNAVVNSNIGVLIKKGLVEKS-----GDG-LIITGEAQDII   78 (95)
T ss_dssp             HHHHHHHHHHS---TTBCHHHHHHTCTTS----CHHHHHHHHHHHHTTTSEEEE-----TTE-EEECHHHHHHH
T ss_pred             HHHHHHHHHHC---CCCCHHHHHHHHhcc----cHHHHHHHHHHHHHCCCeecC-----CCC-eeeCHhHHHHH
Confidence            34455667775   4999999999 9999    999999999999999999943     344 77887776543

>3bus_A REBM, methyltransferase; rebeccamycin synthesis; HET: SAH; 2.65A {Lechevalieria aerocolonigenes}

Probab=94.81  E-value=0.027  Score=44.85  Aligned_cols=30  Identities=13%  Similarity=0.312  Sum_probs=24.9

Q ss_pred             HHHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          179 SNILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       179 ~~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ..+++.++ .....+|||||||.|.++..++
T Consensus        51 ~~l~~~~~-~~~~~~vLDiGcG~G~~~~~l~   80 (273)
T 3bus_A           51 DEMIALLD-VRSGDRVLDVGCGIGKPAVRLA   80 (273)
T ss_dssp             HHHHHHSC-CCTTCEEEEESCTTSHHHHHHH
T ss_pred             HHHHHhcC-CCCCCEEEEeCCCCCHHHHHHH
Confidence            46677776 7778899999999999988765

>3tgn_A ADC operon repressor ADCR; helix-turn-helix, transcriptional regulator, transcription; 2.00A {Streptococcus pneumoniae}

Probab=94.80  E-value=0.029  Score=40.35  Aligned_cols=65  Identities=18%  Similarity=0.304  Sum_probs=44.7

Q ss_pred             HhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccC-CCcccceecccccccc
Q 036188           33 YELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDA-SGARRLYSLNSVSKYY  105 (210)
Q Consensus        33 ~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~-~~~~~~y~~t~~s~~l  105 (210)
                      .++.|...|..    ++.|..|||+.+++    ++..+.++++.|...|++++..+. +...-.+.+|+.+..+
T Consensus        39 ~~~~iL~~l~~----~~~t~~eLa~~l~~----s~~tvs~~l~~L~~~Glv~r~~~~~d~R~~~~~lT~~g~~~  104 (146)
T 3tgn_A           39 TQEHILMLLSE----ESLTNSELARRLNV----SQAAVTKAIKSLVKEGMLETSKDSKDARVIFYQLTDLARPI  104 (146)
T ss_dssp             HHHHHHHHHTT----CCCCHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEC----------CCEECGGGHHH
T ss_pred             HHHHHHHHHHh----CCCCHHHHHHHHCC----CHHHHHHHHHHHHHCCCeEeccCCCCCceeEEEECHhHHHH
Confidence            44556667766    34999999999999    999999999999999999875210 0012236666655433

>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=94.79  E-value=0.024  Score=42.20  Aligned_cols=66  Identities=14%  Similarity=0.048  Sum_probs=46.6

Q ss_pred             hhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCC-Ccccceecccccccc
Q 036188           34 ELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDAS-GARRLYSLNSVSKYY  105 (210)
Q Consensus        34 ~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~-~~~~~y~~t~~s~~l  105 (210)
                      ++.|...|...+  +++|..|||+.+++    ++..+.++++-|...|++++..+.. ...-.+.+|+.++.+
T Consensus        55 q~~vL~~L~~~~--~~~t~~eLa~~l~i----~~~tvs~~l~~Le~~GlV~r~~~~~DrR~~~l~LT~~G~~~  121 (166)
T 3deu_A           55 HWVTLHNIHQLP--PDQSQIQLAKAIGI----EQPSLVRTLDQLEDKGLISRQTCASDRRAKRIKLTEKAEPL  121 (166)
T ss_dssp             HHHHHHHHHHSC--SSEEHHHHHHHHTS----CHHHHHHHHHHHHHTTSEEEC--------CEEEECGGGHHH
T ss_pred             HHHHHHHHHHcC--CCCCHHHHHHHHCC----CHhhHHHHHHHHHHCCCEEeeCCCCCCCeeEEEECHHHHHH
Confidence            444666776633  58999999999999    9999999999999999999763110 011236666665543

>3f3x_A Transcriptional regulator, MARR family, putative; DNA binding protein, DNA-binding, transcription regulation; 1.90A {Sulfolobus solfataricus}

Probab=94.77  E-value=0.018  Score=41.47  Aligned_cols=64  Identities=11%  Similarity=0.194  Sum_probs=47.9

Q ss_pred             HhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCccc---ceeccccccccc
Q 036188           33 YELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARR---LYSLNSVSKYYV  106 (210)
Q Consensus        33 ~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~---~y~~t~~s~~l~  106 (210)
                      .++.|+..|...+   + |..+||+.+++    ++..+.++++.|...|++++....  .+.   .+.+|+.++.+.
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----TQSAITAAVDKLEAKGLVRRIRDS--KDRRIVIVEITPKGRQVL  104 (144)
T ss_dssp             HHHHHHHHHHHSC---E-EHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEEEEET--TEEEEEEEEECHHHHHHH
T ss_pred             HHHHHHHHHHHCC---C-CHHHHHHHHCC----ChhHHHHHHHHHHHCCCEEeccCC--CCCceEEEEECHHHHHHH
Confidence            3455777787753   5 99999999999    999999999999999999876311  111   367777665443

>2obp_A Putative DNA-binding protein; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2; HET: MSE; 1.70A {Ralstonia eutropha} SCOP: a.4.5.71

Probab=94.76  E-value=0.024  Score=38.79  Aligned_cols=53  Identities=25%  Similarity=0.241  Sum_probs=42.2

Q ss_pred             CCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceecccccccc
Q 036188           48 TKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSVSKYY  105 (210)
Q Consensus        48 ~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~~s~~l  105 (210)
                      ++.+..+||+.+++    +...|.|++.-|...||++....+ ..-+...+|+.++.+
T Consensus        35 ~~~s~~eLa~~l~l----~~stLsR~l~rLe~~GLV~r~~~~-D~R~~v~LT~~G~~~   87 (96)
T 2obp_A           35 TPWSLPKIAKRAQL----PMSVLRRVLTQLQAAGLADVSVEA-DGRGHASLTQEGAAL   87 (96)
T ss_dssp             CCCBHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEEEECT-TSCEEEEECHHHHHH
T ss_pred             CCcCHHHHHHHhCC----chhhHHHHHHHHHHCCCEEeecCC-CCceeEEECHHHHHH
Confidence            68999999999999    999999999999999999875321 123446777766543

>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=94.74  E-value=0.031  Score=40.69  Aligned_cols=47  Identities=23%  Similarity=0.426  Sum_probs=41.4

Q ss_pred             HhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           33 YELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        33 ~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      .+..|.+.|.++   ++.|..|||+++|+    ++..+.+.++.|...|++.+.
T Consensus         6 ~d~~il~~L~~~---~~~s~~ela~~lg~----s~~tv~~~l~~L~~~G~i~~~   52 (144)
T 2cfx_A            6 IDLNIIEELKKD---SRLSMRELGRKIKL----SPPSVTERVRQLESFGIIKQY   52 (144)
T ss_dssp             HHHHHHHHHHHC---SCCCHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEEE
T ss_pred             HHHHHHHHHHHc---CCCCHHHHHHHHCc----CHHHHHHHHHHHHHCCCeEEE
Confidence            345678888775   58999999999999    999999999999999999864

>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=94.73  E-value=0.032  Score=40.68  Aligned_cols=47  Identities=19%  Similarity=0.095  Sum_probs=41.5

Q ss_pred             HhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           33 YELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        33 ~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      .++.|+..|...   ++.|..|||+.+++    ++..+.++++.|...|++++.
T Consensus        45 ~~~~iL~~l~~~---~~~t~~ela~~l~i----s~~tvs~~l~~Le~~Gli~r~   91 (154)
T 2eth_A           45 TELYAFLYVALF---GPKKMKEIAEFLST----TKSNVTNVVDSLEKRGLVVRE   91 (154)
T ss_dssp             HHHHHHHHHHHH---CCBCHHHHHHHTTS----CHHHHHHHHHHHHHTTSEEEE
T ss_pred             HHHHHHHHHHHc---CCCCHHHHHHHHCC----CHHHHHHHHHHHHHCCCEEee
Confidence            456677778775   48999999999999    999999999999999999875

>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=94.72  E-value=0.021  Score=41.03  Aligned_cols=45  Identities=9%  Similarity=0.023  Sum_probs=39.5

Q ss_pred             hChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           35 LGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        35 lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      +.|+..|...   ++.|..+||+.+++    ++..+.++++.|...|++.+.
T Consensus        32 ~~iL~~l~~~---~~~t~~~la~~l~~----s~~~vs~~l~~Le~~gli~r~   76 (144)
T 1lj9_A           32 YLYLVRVCEN---PGIIQEKIAELIKV----DRTTAARAIKRLEEQGFIYRQ   76 (144)
T ss_dssp             HHHHHHHHHS---TTEEHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEEE
T ss_pred             HHHHHHHHHC---cCcCHHHHHHHHCC----CHhHHHHHHHHHHHCCCEEee
Confidence            3456677765   48999999999999    999999999999999999876

>3s2w_A Transcriptional regulator, MARR family; structural genomics, PSI-biology, protein structure initiati midwest center for structural genomics; 2.45A {Methanosarcina mazei}

Probab=94.71  E-value=0.021  Score=41.90  Aligned_cols=63  Identities=13%  Similarity=0.017  Sum_probs=45.7

Q ss_pred             ChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCC-Ccccceecccccccc
Q 036188           36 GIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDAS-GARRLYSLNSVSKYY  105 (210)
Q Consensus        36 glfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~-~~~~~y~~t~~s~~l  105 (210)
                      .|...|...   ++.|..|||+.+++    ++..+.++++.|...|++++..+.. ...-.+.+|+.++.+
T Consensus        54 ~vL~~l~~~---~~~t~~eLa~~l~~----~~~tvs~~l~~Le~~Glv~r~~~~~DrR~~~l~LT~~G~~~  117 (159)
T 3s2w_A           54 PFLMRLYRE---DGINQESLSDYLKI----DKGTTARAIQKLVDEGYVFRQRDEKDRRSYRVFLTEKGKKL  117 (159)
T ss_dssp             HHHHHHHHS---CSEEHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEEEECC---CCEEEEECHHHHHH
T ss_pred             HHHHHHHHC---CCCCHHHHHHHHCC----CHHHHHHHHHHHHHCCCEEEecCCCCCCeeEEEECHHHHHH
Confidence            356666665   58999999999999    9999999999999999998763110 011235566655543

>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=94.71  E-value=0.031  Score=40.09  Aligned_cols=45  Identities=7%  Similarity=0.078  Sum_probs=39.1

Q ss_pred             hhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           34 ELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        34 ~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      ++.|...|. .   ++.|..|||+.+++    ++..+.++++.|...|++++.
T Consensus        39 ~~~iL~~l~-~---~~~~~~ela~~l~~----s~~tvs~~l~~Le~~glv~r~   83 (146)
T 2gxg_A           39 DFLVLRATS-D---GPKTMAYLANRYFV----TQSAITASVDKLEEMGLVVRV   83 (146)
T ss_dssp             HHHHHHHHT-T---SCBCHHHHHHHTTC----CHHHHHHHHHHHHHTTSEEEE
T ss_pred             HHHHHHHHh-c---CCcCHHHHHHHhCC----CchhHHHHHHHHHHCCCEEee
Confidence            344566676 3   69999999999999    999999999999999999875

>3e6m_A MARR family transcriptional regulator; APC88769, silicibacter pomeroyi DSS, structural genomics, PSI-2, protein structure initiative; 2.20A {Silicibacter pomeroyi}

Probab=94.70  E-value=0.068  Score=39.21  Aligned_cols=65  Identities=15%  Similarity=0.161  Sum_probs=47.0

Q ss_pred             hhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCC-Ccccceecccccccc
Q 036188           34 ELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDAS-GARRLYSLNSVSKYY  105 (210)
Q Consensus        34 ~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~-~~~~~y~~t~~s~~l  105 (210)
                      ++.|...|...   ++.|..|||+.+++    ++..+.++++.|...|++++..+.. ...-.+.+|+.++.+
T Consensus        55 q~~vL~~l~~~---~~~t~~eLa~~l~~----~~~~vs~~l~~Le~~Glv~r~~~~~DrR~~~~~LT~~G~~~  120 (161)
T 3e6m_A           55 KLRLLSSLSAY---GELTVGQLATLGVM----EQSTTSRTVDQLVDEGLAARSISDADQRKRTVVLTRKGKKK  120 (161)
T ss_dssp             HHHHHHHHHHH---SEEEHHHHHHHTTC----CHHHHHHHHHHHHHTTSEEECC---CCCSCEEEECHHHHHH
T ss_pred             HHHHHHHHHhC---CCCCHHHHHHHHCC----CHHHHHHHHHHHHHCCCEEeeCCcccCCeeEeeECHHHHHH
Confidence            34466777765   48999999999999    9999999999999999999763110 011235666655543

>2qww_A Transcriptional regulator, MARR family; YP_013417.1, multiple antibiotic-resistance repressor (MARR) structural genomics; HET: MSE; 2.07A {Listeria monocytogenes str}

Probab=94.68  E-value=0.12  Score=37.28  Aligned_cols=65  Identities=12%  Similarity=0.125  Sum_probs=47.2

Q ss_pred             hhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceee--eccCC-Ccccceecccccccc
Q 036188           34 ELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVEC--SLDAS-GARRLYSLNSVSKYY  105 (210)
Q Consensus        34 ~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~--~~~~~-~~~~~y~~t~~s~~l  105 (210)
                      ++.|...|...   +++|..+||+.+++    ++..+.++++-|...|++++  ..+.. ...-.+.+|+.++.+
T Consensus        43 ~~~iL~~l~~~---~~~t~~eLa~~l~~----~~~tvs~~l~~Le~~Glv~r~~~~~~~d~R~~~~~LT~~G~~~  110 (154)
T 2qww_A           43 QLAMINVIYST---PGISVADLTKRLII----TGSSAAANVDGLISLGLVVKLNKTIPNDSMDLTLKLSKKGEDL  110 (154)
T ss_dssp             HHHHHHHHHHS---TTEEHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEESCC--CTTCTTCEEEECHHHHHH
T ss_pred             HHHHHHHHHHC---CCCCHHHHHHHHCC----CHHHHHHHHHHHHHCCCEEecCcCCCCCCceeEeEECHHHHHH
Confidence            34566777765   58999999999999    99999999999999999998  42110 011236666666543

>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=94.67  E-value=0.033  Score=40.74  Aligned_cols=47  Identities=17%  Similarity=0.115  Sum_probs=41.2

Q ss_pred             HhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           33 YELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        33 ~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      .+..|...|..+   ++.|..|||+++|+    ++..+.+.++.|...|++.+.
T Consensus         8 ~~~~iL~~L~~~---~~~s~~ela~~lg~----s~~tv~~~l~~L~~~G~i~~~   54 (150)
T 2w25_A            8 IDRILVRELAAD---GRATLSELATRAGL----SVSAVQSRVRRLESRGVVQGY   54 (150)
T ss_dssp             HHHHHHHHHHHC---TTCCHHHHHHHHTS----CHHHHHHHHHHHHHTTSEEEE
T ss_pred             HHHHHHHHHHHc---CCCCHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEEE
Confidence            355677788775   58999999999999    999999999999999999764

>2fbi_A Probable transcriptional regulator; MARR, APC5816, structural genomic protein structure initiative; 2.10A {Pseudomonas aeruginosa} SCOP: a.4.5.28

Probab=94.63  E-value=0.019  Score=40.94  Aligned_cols=47  Identities=15%  Similarity=0.160  Sum_probs=40.8

Q ss_pred             HhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           33 YELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        33 ~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      .++.|+..|...   ++.|..+||+.+++    ++..+.++++.|...|++++.
T Consensus        37 ~~~~iL~~l~~~---~~~t~~ela~~l~~----s~~~vs~~l~~Le~~glv~r~   83 (142)
T 2fbi_A           37 QQWRVIRILRQQ---GEMESYQLANQACI----LRPSMTGVLARLERDGIVRRW   83 (142)
T ss_dssp             HHHHHHHHHHHH---CSEEHHHHHHHTTC----CHHHHHHHHHHHHHTTSEEEE
T ss_pred             HHHHHHHHHHHc---CCCCHHHHHHHHCC----CHhHHHHHHHHHHHCCCEEee
Confidence            345567777775   48999999999999    999999999999999999875

>1z91_A Organic hydroperoxide resistance transcriptional; OHRR, MARR family, bacterial transcription factor, DNA bindi protein; 2.50A {Bacillus subtilis} SCOP: a.4.5.28 PDB: 1z9c_A*

Probab=94.62  E-value=0.013  Score=42.20  Aligned_cols=68  Identities=13%  Similarity=0.099  Sum_probs=51.1

Q ss_pred             HhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCC-Ccccceecccccccccc
Q 036188           33 YELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDAS-GARRLYSLNSVSKYYVP  107 (210)
Q Consensus        33 ~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~-~~~~~y~~t~~s~~l~~  107 (210)
                      .++.|+..|...   ++.|..+||+.+++    ++..+.++++.|...|++++..... ...-.+.+|+.++.+..
T Consensus        41 ~~~~iL~~l~~~---~~~~~~~la~~l~~----~~~tvs~~l~~L~~~glv~r~~~~~d~R~~~~~LT~~G~~~~~  109 (147)
T 1z91_A           41 PQYLALLLLWEH---ETLTVKKMGEQLYL----DSGTLTPMLKRMEQQGLITRKRSEEDERSVLISLTEDGALLKE  109 (147)
T ss_dssp             HHHHHHHHHHHH---SEEEHHHHHHTTTC----CHHHHHHHHHHHHHHTSEECCBCSSCTTSBEEEECHHHHSGGG
T ss_pred             HHHHHHHHHHHC---CCCCHHHHHHHHCC----CcCcHHHHHHHHHHCCCEEeccCCCCCCeeEEEECHhHHHHHH
Confidence            345567777765   48999999999999    9999999999999999998753110 11223778888876554

>3cjn_A Transcriptional regulator, MARR family; silicibacter pomeroy structural genomics, PSI-2, protein structure initiative; 1.95A {Silicibacter pomeroyi dss-3}

Probab=94.60  E-value=0.022  Score=41.87  Aligned_cols=46  Identities=17%  Similarity=0.197  Sum_probs=40.6

Q ss_pred             hhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           34 ELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        34 ~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      ++.|+..|...   ++.|..+||+.+++    ++..+.++++.|...|++++.
T Consensus        54 ~~~iL~~l~~~---~~~t~~ela~~l~i----s~~tvs~~l~~Le~~Gli~r~   99 (162)
T 3cjn_A           54 KMRALAILSAK---DGLPIGTLGIFAVV----EQSTLSRALDGLQADGLVRRE   99 (162)
T ss_dssp             HHHHHHHHHHS---CSEEHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEEE
T ss_pred             HHHHHHHHHHC---CCCCHHHHHHHHCC----ChhHHHHHHHHHHHCCCEEec
Confidence            45567777765   58999999999999    999999999999999999875

>4hbl_A Transcriptional regulator, MARR family; HTH, transcription factor, DNA binding; 2.50A {Staphylococcus epidermidis}

Probab=94.58  E-value=0.018  Score=41.87  Aligned_cols=65  Identities=14%  Similarity=0.090  Sum_probs=45.4

Q ss_pred             hhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCC-Ccccceecccccccc
Q 036188           34 ELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDAS-GARRLYSLNSVSKYY  105 (210)
Q Consensus        34 ~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~-~~~~~y~~t~~s~~l  105 (210)
                      ++.|...|...   ++.|..|||+.+++    ++..+.++++.|...|++++..+.. ...-.+.+|+.++.+
T Consensus        43 q~~iL~~l~~~---~~~~~~eLa~~l~~----~~~~vs~~l~~L~~~Glv~r~~~~~D~R~~~~~LT~~G~~~  108 (149)
T 4hbl_A           43 QYLVMLTLWEE---NPQTLNSIGRHLDL----SSNTLTPMLKRLEQSGWVKRERQQSDKRQLIITLTDNGQQQ  108 (149)
T ss_dssp             HHHHHHHHHHS---SSEEHHHHHHHHTC----CHHHHHHHHHHHHHHTSEEC---------CEEEECSHHHHH
T ss_pred             HHHHHHHHHHC---CCCCHHHHHHHHCC----CHHHHHHHHHHHHHCCCEeeCCCCCCcceeeeeECHHHHHH
Confidence            34456677665   59999999999999    9999999999999999998752110 011235566655433

>4g6q_A Putative uncharacterized protein; structural genomics, PSI-biology, protein structure initiati midwest center for structural genomics, MCSG; 2.08A {Kribbella flavida}

Probab=94.57  E-value=0.1  Score=39.68  Aligned_cols=72  Identities=19%  Similarity=0.189  Sum_probs=52.4

Q ss_pred             HHHHHHHhhChhhHHhhcCCCCCCCHHHHHHHhc-CCCCCCcccHHHHHHHHhcccceeeec---cCCCcccceeccccc
Q 036188           27 MAIQAVYELGIFEILDKAGPGTKLSASDIAAQLL-TKNKDAPMMLDRILRLLASYSVVECSL---DASGARRLYSLNSVS  102 (210)
Q Consensus        27 ~al~~a~~lglfd~L~~~g~~~~~t~~eLA~~~~-~~~~~~~~~l~rlLr~L~~~gl~~~~~---~~~~~~~~y~~t~~s  102 (210)
                      .+|.-=+++.|...|.+    ++.|+.|||+.++ +    +...+.+-|+.|...||++...   ..+...-.|.+++.+
T Consensus        18 ~~La~P~Rl~il~~L~~----~~~~~~~l~~~l~~~----~~~~~s~Hl~~L~~aglv~~~~e~~~~g~~er~y~~~~~~   89 (182)
T 4g6q_A           18 DLLHHPLRWRITQLLIG----RSLTTRELAELLPDV----ATTTLYRQVGILVKAGVLMVTAEHQVRGAVERTYTLNTQA   89 (182)
T ss_dssp             HHTTSHHHHHHHHHTTT----SCEEHHHHHHHCTTB----CHHHHHHHHHHHHHHTSEEEEEEEEETTEEEEEEEECTTT
T ss_pred             HHhCCHHHHHHHHHHHh----CCCCHHHHHHHhcCC----CHHHHHHHHHHHHHCCCeEEEEeecccCcceeEEEecccc
Confidence            34444567888888976    6999999999996 8    8889999999999999997431   011112348777766


Q ss_pred             cccc
Q 036188          103 KYYV  106 (210)
Q Consensus       103 ~~l~  106 (210)
                      ..+.
T Consensus        90 ~~~~   93 (182)
T 4g6q_A           90 GDAD   93 (182)
T ss_dssp             TTSS
T ss_pred             ccCC
Confidence            5443

>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=94.56  E-value=0.028  Score=40.09  Aligned_cols=67  Identities=19%  Similarity=0.158  Sum_probs=47.3

Q ss_pred             hhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCC-Ccccceecccccccc
Q 036188           34 ELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDAS-GARRLYSLNSVSKYY  105 (210)
Q Consensus        34 ~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~-~~~~~y~~t~~s~~l  105 (210)
                      ++.|...|...+ +++.|..|||+.+++    ++..+.++++-|...|++++..+.. ...-.+.+|+.++.+
T Consensus        33 ~~~vL~~l~~~~-~~~~t~~ela~~l~~----~~~tvs~~l~~Le~~Gli~r~~~~~D~R~~~~~LT~~G~~~  100 (139)
T 3eco_A           33 QGHTLGYLYAHQ-QDGLTQNDIAKALQR----TGPTVSNLLRNLERKKLIYRYVDAQDTRRKNIGLTTSGIKL  100 (139)
T ss_dssp             HHHHHHHHHHST-TTCEEHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEEEECCC--CCEEEEECHHHHHH
T ss_pred             HHHHHHHHHhcC-CCCcCHHHHHHHhCC----CcccHHHHHHHHHHCCCEeecCCCCCCCeeeeEECHHHHHH
Confidence            445666776642 148999999999999    9999999999999999998763110 011235555555543

>3hrs_A Metalloregulator SCAR; DTXR/MNTR family member, transcription; 2.70A {Streptococcus gordonii} PDB: 3hrt_A 3hru_A

Probab=94.55  E-value=0.029  Score=43.92  Aligned_cols=50  Identities=16%  Similarity=0.264  Sum_probs=45.1

Q ss_pred             CCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceeccccccccc
Q 036188           48 TKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSVSKYYV  106 (210)
Q Consensus        48 ~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~~s~~l~  106 (210)
                      ++.+..+||+.+++    ++..+.+.++-|...|++++.     ....+.+|+.++.+.
T Consensus        19 ~~~~~~~lA~~l~v----s~~tvs~~l~~Le~~GlV~r~-----~~~~i~LT~~G~~~~   68 (214)
T 3hrs_A           19 NKITNKEIAQLMQV----SPPAVTEMMKKLLAEELLIKD-----KKAGYLLTDLGLKLV   68 (214)
T ss_dssp             SCCCHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEEE-----TTTEEEECHHHHHHH
T ss_pred             CCcCHHHHHHHHCC----ChhHHHHHHHHHHHCCCEEEe-----cCCCeEECHHHHHHH
Confidence            69999999999999    999999999999999999987     457789999887554

>2p4w_A Transcriptional regulatory protein ARSR family; archaea, PHR, heat shock, transcriptional regulation, winged DNA binding; 2.60A {Pyrococcus furiosus} SCOP: a.4.5.64

Probab=94.52  E-value=0.036  Score=43.10  Aligned_cols=52  Identities=17%  Similarity=0.172  Sum_probs=43.6

Q ss_pred             HHHHHHHhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           27 MAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        27 ~al~~a~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      .+|..-.++.|...|..    +|+|+.|||+.+++    ++..+.+.|+.|...|++...
T Consensus        10 kaL~~~~rl~IL~~L~~----~~~s~~eLa~~l~i----s~stvs~hLk~Le~~GLV~~~   61 (202)
T 2p4w_A           10 DVLGNETRRRILFLLTK----RPYFVSELSRELGV----GQKAVLEHLRILEEAGLIESR   61 (202)
T ss_dssp             HHHHSHHHHHHHHHHHH----SCEEHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEEE
T ss_pred             HHhCCHHHHHHHHHHHh----CCCCHHHHHHHHCc----CHHHHHHHHHHHHHCCceEEE
Confidence            34444556667777865    69999999999999    999999999999999999875

>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=94.50  E-value=0.19  Score=36.21  Aligned_cols=43  Identities=14%  Similarity=0.204  Sum_probs=38.3

Q ss_pred             hChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceee
Q 036188           35 LGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVEC   85 (210)
Q Consensus        35 lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~   85 (210)
                      ..|...| ..   ++.|..|||+.+++    ++..+.++++.|...|++++
T Consensus        41 ~~iL~~l-~~---~~~t~~eLa~~l~~----~~~~vs~~l~~Le~~Glv~r   83 (151)
T 3kp7_A           41 SHVLNML-SI---EALTVGQITEKQGV----NKAAVSRRVKKLLNAELVKL   83 (151)
T ss_dssp             HHHHHHH-HH---SCBCHHHHHHHHCS----CSSHHHHHHHHHHHTTSEEC
T ss_pred             HHHHHHH-Hc---CCcCHHHHHHHHCC----CHHHHHHHHHHHHHCCCEEe
Confidence            3367777 54   69999999999999    99999999999999999996

>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=94.49  E-value=0.024  Score=37.08  Aligned_cols=50  Identities=14%  Similarity=0.282  Sum_probs=39.2

Q ss_pred             hhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           34 ELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        34 ~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      +..|...|...   ++.|+.||++.++.....++.-+.++|+.|...|++.+.
T Consensus        11 e~~vL~~L~~~---~~~t~~ei~~~l~~~~~~s~~Tv~~~l~rL~~kGlv~r~   60 (82)
T 1p6r_A           11 ELEVMKVIWKH---SSINTNEVIKELSKTSTWSPKTIQTMLLRLIKKGALNHH   60 (82)
T ss_dssp             HHHHHHHHHTS---SSEEHHHHHHHHHHHSCCCHHHHHHHHHHHHHTTSEEEE
T ss_pred             HHHHHHHHHcC---CCCCHHHHHHHHhhcCCccHHHHHHHHHHHHHCCCeEEE
Confidence            45566677664   599999999999730001788999999999999999976

>3dlc_A Putative S-adenosyl-L-methionine-dependent methyltransferase; structural genomics, joint center for structural genomics; HET: MSE SAM; 1.15A {Methanococcus maripaludis}

Probab=94.48  E-value=0.019  Score=43.84  Aligned_cols=29  Identities=21%  Similarity=0.385  Sum_probs=22.0

Q ss_pred             HHHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          179 SNILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       179 ~~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ..+++.++ .+.. +|||||||.|.++..++
T Consensus        34 ~~~~~~~~-~~~~-~vLdiG~G~G~~~~~l~   62 (219)
T 3dlc_A           34 ENIINRFG-ITAG-TCIDIGSGPGALSIALA   62 (219)
T ss_dssp             HHHHHHHC-CCEE-EEEEETCTTSHHHHHHH
T ss_pred             HHHHHhcC-CCCC-EEEEECCCCCHHHHHHH
Confidence            44555555 5544 99999999999988775

>3g5l_A Putative S-adenosylmethionine dependent methyltransferase; structural genomics, PSI-2, protein structure initiative; 2.35A {Listeria monocytogenes str}

Probab=94.47  E-value=0.029  Score=44.21  Aligned_cols=29  Identities=17%  Similarity=0.139  Sum_probs=22.5

Q ss_pred             HHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          180 NILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       180 ~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      .+.+.++ .....+|||||||.|.++..++
T Consensus        35 ~l~~~~~-~~~~~~vLD~GcG~G~~~~~l~   63 (253)
T 3g5l_A           35 ELKKMLP-DFNQKTVLDLGCGFGWHCIYAA   63 (253)
T ss_dssp             HHHTTCC-CCTTCEEEEETCTTCHHHHHHH
T ss_pred             HHHHhhh-ccCCCEEEEECCCCCHHHHHHH
Confidence            4455555 4567899999999999988775

>2zfu_A Nucleomethylin, cerebral protein 1; nucleolar protein, SAM-binding protein, protein structure, N phosphoprotein, nuclear protein; HET: SAH; 2.00A {Homo sapiens}

Probab=94.47  E-value=0.034  Score=42.67  Aligned_cols=29  Identities=14%  Similarity=0.032  Sum_probs=20.5

Q ss_pred             HHHHhCCCCCCCCeEEEecCCccHHHHhh
Q 036188          180 NILESYKGFDNIKQLVDVGGSLGVTLQAI  208 (210)
Q Consensus       180 ~~l~~~~~~~~~~~vvDiGGg~G~~~~~l  208 (210)
                      .+++.+.......+|||||||.|.++..+
T Consensus        57 ~~~~~l~~~~~~~~vLDiG~G~G~~~~~l   85 (215)
T 2zfu_A           57 RIARDLRQRPASLVVADFGCGDCRLASSI   85 (215)
T ss_dssp             HHHHHHHTSCTTSCEEEETCTTCHHHHHC
T ss_pred             HHHHHHhccCCCCeEEEECCcCCHHHHHh
Confidence            34444322445679999999999998765

>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=94.44  E-value=0.021  Score=46.19  Aligned_cols=31  Identities=10%  Similarity=-0.039  Sum_probs=24.8

Q ss_pred             HHHHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          178 MSNILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       178 ~~~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ...+++..+ .....+|||||||+|.++..++
T Consensus        34 ~~~il~~l~-l~~g~~VLDlGcGtG~~a~~La   64 (261)
T 3iv6_A           34 RENDIFLEN-IVPGSTVAVIGASTRFLIEKAL   64 (261)
T ss_dssp             HHHHHHTTT-CCTTCEEEEECTTCHHHHHHHH
T ss_pred             HHHHHHhcC-CCCcCEEEEEeCcchHHHHHHH
Confidence            345566666 7778899999999999998775

>2p5v_A Transcriptional regulator, LRP/ASNC family; NMB0573, structu genomics; 1.99A {Neisseria meningitidis} PDB: 2p6s_A 2p6t_A

Probab=94.43  E-value=0.04  Score=40.89  Aligned_cols=47  Identities=17%  Similarity=0.316  Sum_probs=41.4

Q ss_pred             HhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           33 YELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        33 ~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      .+..|...|.++   +++|..|||+++|+    ++..+.+.++.|...|++.+.
T Consensus        11 ~~~~il~~L~~~---~~~s~~ela~~lg~----s~~tv~~~l~~L~~~G~i~~~   57 (162)
T 2p5v_A           11 TDIKILQVLQEN---GRLTNVELSERVAL----SPSPCLRRLKQLEDAGIVRQY   57 (162)
T ss_dssp             HHHHHHHHHHHC---TTCCHHHHHHHHTS----CHHHHHHHHHHHHHTTSEEEE
T ss_pred             HHHHHHHHHHHc---CCCCHHHHHHHHCc----CHHHHHHHHHHHHHCCCEeee
Confidence            345677888775   58999999999999    999999999999999999864

>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=94.42  E-value=0.029  Score=40.98  Aligned_cols=47  Identities=23%  Similarity=0.298  Sum_probs=41.4

Q ss_pred             HhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           33 YELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        33 ~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      .+..|...|.++   ++.|..|||+++|+    ++..+.+.++.|...|++.+.
T Consensus         4 ~~~~il~~L~~~---~~~~~~ela~~lg~----s~~tv~~~l~~L~~~G~i~~~   50 (150)
T 2pn6_A            4 IDLRILKILQYN---AKYSLDEIAREIRI----PKATLSYRIKKLEKDGVIKGY   50 (150)
T ss_dssp             HHHHHHHHHTTC---TTSCHHHHHHHHTS----CHHHHHHHHHHHHHTTSSCCC
T ss_pred             HHHHHHHHHHHc---CCCCHHHHHHHHCc----CHHHHHHHHHHHHHCCcEEEE
Confidence            356678888775   58999999999999    999999999999999999864

>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=94.40  E-value=0.0057  Score=47.11  Aligned_cols=22  Identities=9%  Similarity=0.252  Sum_probs=18.9

Q ss_pred             CCCCCeEEEecCCccHHHHhhh
Q 036188          188 FDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       188 ~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      .....+|||||||.|.++..++
T Consensus        49 ~~~~~~vLDiGcG~G~~~~~l~   70 (216)
T 3ofk_A           49 SGAVSNGLEIGCAAGAFTEKLA   70 (216)
T ss_dssp             TSSEEEEEEECCTTSHHHHHHG
T ss_pred             cCCCCcEEEEcCCCCHHHHHHH
Confidence            4567899999999999998875

>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=94.37  E-value=0.055  Score=43.53  Aligned_cols=28  Identities=25%  Similarity=0.391  Sum_probs=21.3

Q ss_pred             HHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          180 NILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       180 ~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      .+++.+  .+...+|+|||||+|.++..++
T Consensus        62 ~l~~~~--~~~~~~vLDlGcGtG~~~~~la   89 (261)
T 4gek_A           62 MLAERF--VQPGTQVYDLGCSLGAATLSVR   89 (261)
T ss_dssp             HHHHHH--CCTTCEEEEETCTTTHHHHHHH
T ss_pred             HHHHHh--CCCCCEEEEEeCCCCHHHHHHH
Confidence            344444  3667899999999999887765

>4aik_A Transcriptional regulator SLYA; transcription, transcription factor; 1.85A {Yersinia pseudotuberculosis} PDB: 4aih_A 4aij_A 3qpt_A* 3q5f_A*

Probab=94.36  E-value=0.069  Score=39.12  Aligned_cols=65  Identities=14%  Similarity=0.074  Sum_probs=46.2

Q ss_pred             ChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCC-Ccccceeccccccccc
Q 036188           36 GIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDAS-GARRLYSLNSVSKYYV  106 (210)
Q Consensus        36 glfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~-~~~~~y~~t~~s~~l~  106 (210)
                      .+.-.|...+  ++.+..|||+.+++    ++..+.++++-|...|++++..+.. ...-...+|+.++.+.
T Consensus        35 ~vL~~L~~~~--~~~~~~eLa~~l~~----~~~tvs~~v~~Le~~GlV~R~~~~~DrR~~~l~LT~~G~~~~  100 (151)
T 4aik_A           35 VTLYNINRLP--PEQSQIQLAKAIGI----EQPSLVRTLDQLEEKGLITRHTSANDRRAKRIKLTEQSSPII  100 (151)
T ss_dssp             HHHHHHHHSC--TTSCHHHHHHHHTS----CHHHHHHHHHHHHHTTSEEEEECSSCTTCEEEEECGGGHHHH
T ss_pred             HHHHHHHHcC--CCCcHHHHHHHHCc----CHHHHHHHHHHHHhCCCeEeecCCCCCcchhhhcCHHHHHHH
Confidence            3445566544  47888999999999    9999999999999999998763110 0112366677665443

>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=94.34  E-value=0.037  Score=44.98  Aligned_cols=30  Identities=20%  Similarity=0.340  Sum_probs=24.7

Q ss_pred             HHHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          179 SNILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       179 ~~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ..+++.++ .....+|||||||.|.++..++
T Consensus        62 ~~~~~~~~-~~~~~~vLDiGcG~G~~~~~la   91 (302)
T 3hem_A           62 KLALDKLN-LEPGMTLLDIGCGWGSTMRHAV   91 (302)
T ss_dssp             HHHHHTTC-CCTTCEEEEETCTTSHHHHHHH
T ss_pred             HHHHHHcC-CCCcCEEEEeeccCcHHHHHHH
Confidence            45667776 7778899999999999998775

>3cgg_A SAM-dependent methyltransferase; NP_600671.1, methyltransferase domain, structural genomics; HET: NHE CIT; 2.00A {Corynebacterium glutamicum atcc 13032}

Probab=94.27  E-value=0.022  Score=42.54  Aligned_cols=28  Identities=11%  Similarity=0.203  Sum_probs=21.4

Q ss_pred             HHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          180 NILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       180 ~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      .++..+  .....+|+|||||.|.++..++
T Consensus        38 ~~l~~~--~~~~~~vLdiG~G~G~~~~~l~   65 (195)
T 3cgg_A           38 RLIDAM--APRGAKILDAGCGQGRIGGYLS   65 (195)
T ss_dssp             HHHHHH--SCTTCEEEEETCTTTHHHHHHH
T ss_pred             HHHHHh--ccCCCeEEEECCCCCHHHHHHH
Confidence            445554  3567799999999999988765

>2o57_A Putative sarcosine dimethylglycine methyltransferase; structural genomics, protein structure initiative, PSI-2; 1.95A {Galdieria sulphuraria} SCOP: c.66.1.18

Probab=94.26  E-value=0.035  Score=44.88  Aligned_cols=30  Identities=10%  Similarity=0.173  Sum_probs=23.7

Q ss_pred             HHHHHhC----CCCCCCCeEEEecCCccHHHHhhh
Q 036188          179 SNILESY----KGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       179 ~~~l~~~----~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ..+++.+    . +....+|||||||.|.++..++
T Consensus        68 ~~l~~~l~~~~~-~~~~~~vLDiGcG~G~~~~~l~  101 (297)
T 2o57_A           68 EWLASELAMTGV-LQRQAKGLDLGAGYGGAARFLV  101 (297)
T ss_dssp             HHHHHHHHHTTC-CCTTCEEEEETCTTSHHHHHHH
T ss_pred             HHHHHHhhhccC-CCCCCEEEEeCCCCCHHHHHHH
Confidence            4455555    4 6778899999999999998775

>1dus_A MJ0882; hypothetical protein, methanococcus jannaschii, structural genomics, BSGC structure funded by NIH; 1.80A {Methanocaldococcus jannaschii} SCOP: c.66.1.4

Probab=94.21  E-value=0.044  Score=40.77  Aligned_cols=30  Identities=23%  Similarity=0.355  Sum_probs=23.8

Q ss_pred             HHHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          179 SNILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       179 ~~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ..+++.+. .....+|+|||||.|.++..++
T Consensus        42 ~~l~~~~~-~~~~~~vLdiG~G~G~~~~~~~   71 (194)
T 1dus_A           42 KILVENVV-VDKDDDILDLGCGYGVIGIALA   71 (194)
T ss_dssp             HHHHHHCC-CCTTCEEEEETCTTSHHHHHHG
T ss_pred             HHHHHHcc-cCCCCeEEEeCCCCCHHHHHHH
Confidence            34566665 6677899999999999998775

>3bkx_A SAM-dependent methyltransferase; YP_807781.1, cyclopropane-fatty-acyl-phospholipid synthase-L protein, methyltransferase domain; 1.85A {Lactobacillus casei}

Probab=94.19  E-value=0.046  Score=43.55  Aligned_cols=29  Identities=14%  Similarity=0.324  Sum_probs=23.8

Q ss_pred             HHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          180 NILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       180 ~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      .+++.++ .....+|||||||.|.++..++
T Consensus        34 ~l~~~~~-~~~~~~vLDiGcG~G~~~~~l~   62 (275)
T 3bkx_A           34 AIAEAWQ-VKPGEKILEIGCGQGDLSAVLA   62 (275)
T ss_dssp             HHHHHHT-CCTTCEEEEESCTTSHHHHHHH
T ss_pred             HHHHHcC-CCCCCEEEEeCCCCCHHHHHHH
Confidence            5566666 7778899999999999988765

>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=94.18  E-value=0.035  Score=37.66  Aligned_cols=35  Identities=11%  Similarity=0.218  Sum_probs=33.6

Q ss_pred             CCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           48 TKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        48 ~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      ++.|..|||+.+|+    ++..+.|.++.|...|++.+.
T Consensus        35 ~~~t~~ela~~l~i----s~~tv~~~l~~L~~~g~v~~~   69 (109)
T 2d1h_A           35 KPITSEELADIFKL----SKTTVENSLKKLIELGLVVRT   69 (109)
T ss_dssp             SCEEHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEEE
T ss_pred             CCCCHHHHHHHHCc----CHHHHHHHHHHHHHCCCeEee
Confidence            58999999999999    999999999999999999986

>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=94.12  E-value=0.026  Score=44.54  Aligned_cols=30  Identities=23%  Similarity=0.432  Sum_probs=24.3

Q ss_pred             HHHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          179 SNILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       179 ~~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ..+++.++ .....+|||||||.|.++..++
T Consensus        45 ~~~~~~~~-~~~~~~vLdiG~G~G~~~~~l~   74 (266)
T 3ujc_A           45 KKILSDIE-LNENSKVLDIGSGLGGGCMYIN   74 (266)
T ss_dssp             HHHTTTCC-CCTTCEEEEETCTTSHHHHHHH
T ss_pred             HHHHHhcC-CCCCCEEEEECCCCCHHHHHHH
Confidence            45566666 7778899999999999998775

>2dbb_A Putative HTH-type transcriptional regulator PH006; ASNC family, helix-turn-helix (HTH) domain, structural genom NPPSFA; 2.00A {Pyrococcus horikoshii}

Probab=94.10  E-value=0.045  Score=40.03  Aligned_cols=47  Identities=17%  Similarity=0.290  Sum_probs=41.5

Q ss_pred             HhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           33 YELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        33 ~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      .+..|...|.++   ++.|..|||+++|+    ++..+.+.++.|...|++.+.
T Consensus        10 ~d~~il~~L~~~---~~~s~~ela~~lg~----s~~tv~~~l~~L~~~G~i~~~   56 (151)
T 2dbb_A           10 VDMQLVKILSEN---SRLTYRELADILNT----TRQRIARRIDKLKKLGIIRKF   56 (151)
T ss_dssp             HHHHHHHHHHHC---TTCCHHHHHHHTTS----CHHHHHHHHHHHHHHTSEEEE
T ss_pred             HHHHHHHHHHHc---CCCCHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEEE
Confidence            455678888875   58999999999999    999999999999999999864

>3u2r_A Regulatory protein MARR; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, helix-turn-helix; 2.20A {Planctomyces limnophilus}

Probab=94.08  E-value=0.031  Score=41.47  Aligned_cols=66  Identities=14%  Similarity=0.198  Sum_probs=45.6

Q ss_pred             hhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCccc---ceeccccccccc
Q 036188           34 ELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARR---LYSLNSVSKYYV  106 (210)
Q Consensus        34 ~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~---~y~~t~~s~~l~  106 (210)
                      ++.|...|...+ ++++|..|||+.+++    ++..+.++++.|...|++++..+.  .+.   .+.+|+.++.+.
T Consensus        48 q~~vL~~l~~~~-~~~~t~~eLa~~l~~----~~~tvs~~l~~Le~~Glv~r~~~~--~DrR~~~l~LT~~G~~~~  116 (168)
T 3u2r_A           48 QYNTLRLLRSVH-PEGMATLQIADRLIS----RAPDITRLIDRLDDRGLVLRTRKP--ENRRVVEVALTDAGLKLL  116 (168)
T ss_dssp             HHHHHHHHHHHT-TSCEEHHHHHHHC-------CTHHHHHHHHHHHTTSEEEEEET--TEEEEEEEEECHHHHHHH
T ss_pred             HHHHHHHHHhcC-CCCcCHHHHHHHHCC----ChhhHHHHHHHHHHCCCEeecCCC--CCCCeeEeEECHHHHHHH
Confidence            344566676642 158999999999999    999999999999999999876311  112   366777666444

>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=94.07  E-value=0.047  Score=40.04  Aligned_cols=47  Identities=15%  Similarity=0.259  Sum_probs=41.3

Q ss_pred             HhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           33 YELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        33 ~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      .+..|...|.++   ++.|..|||+++|+    ++..+.+.++.|...|++...
T Consensus         9 ~d~~il~~L~~~---~~~s~~ela~~lg~----s~~tv~~~l~~L~~~G~i~~~   55 (152)
T 2cg4_A            9 LDRGILEALMGN---ARTAYAELAKQFGV----SPETIHVRVEKMKQAGIITGA   55 (152)
T ss_dssp             HHHHHHHHHHHC---TTSCHHHHHHHHTS----CHHHHHHHHHHHHHHTSEEEE
T ss_pred             HHHHHHHHHHHc---CCCCHHHHHHHHCc----CHHHHHHHHHHHHHcCCcceE
Confidence            345677888775   58999999999999    999999999999999999864

>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=94.02  E-value=0.052  Score=43.01  Aligned_cols=22  Identities=23%  Similarity=0.404  Sum_probs=18.7

Q ss_pred             CCCCeEEEecCCccHHHHhhhC
Q 036188          189 DNIKQLVDVGGSLGVTLQAITT  210 (210)
Q Consensus       189 ~~~~~vvDiGGg~G~~~~~l~~  210 (210)
                      .+..+|||||||.|.++..+++
T Consensus        49 ~~~~~vLDiGcG~G~~~~~l~~   70 (263)
T 3pfg_A           49 PKAASLLDVACGTGMHLRHLAD   70 (263)
T ss_dssp             TTCCEEEEETCTTSHHHHHHTT
T ss_pred             CCCCcEEEeCCcCCHHHHHHHH
Confidence            4568999999999999988763

>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=93.98  E-value=0.019  Score=46.31  Aligned_cols=29  Identities=17%  Similarity=0.141  Sum_probs=20.6

Q ss_pred             HHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          180 NILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       180 ~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      .++..++ +....+|+|+|||.|.++..++
T Consensus       101 ~~~~~~~-~~~~~~VLD~G~G~G~~~~~la  129 (275)
T 1yb2_A          101 YIIMRCG-LRPGMDILEVGVGSGNMSSYIL  129 (275)
T ss_dssp             -----CC-CCTTCEEEEECCTTSHHHHHHH
T ss_pred             HHHHHcC-CCCcCEEEEecCCCCHHHHHHH
Confidence            4455555 7778899999999999988765

>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=93.96  E-value=0.065  Score=41.23  Aligned_cols=51  Identities=16%  Similarity=0.227  Sum_probs=43.8

Q ss_pred             HHHHHHhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           28 AIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        28 al~~a~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      ++....+..|...|..    +++|..|||+++|+    ++..+.+.++.|...|++...
T Consensus        16 ~l~d~~~~~IL~~L~~----~~~s~~eLA~~lgl----S~stv~~~l~~Le~~GlI~~~   66 (192)
T 1uly_A           16 VMLEDTRRKILKLLRN----KEMTISQLSEILGK----TPQTIYHHIEKLKEAGLVEVK   66 (192)
T ss_dssp             HHHSHHHHHHHHHHTT----CCBCHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEEE
T ss_pred             HhCCHHHHHHHHHHHc----CCCCHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEEE
Confidence            3444566778888874    59999999999999    999999999999999999875

>2qlz_A Transcription factor PF0095; 2.50A {Pyrococcus furiosus} PDB: 2quf_A

Probab=93.94  E-value=0.011  Score=47.09  Aligned_cols=52  Identities=8%  Similarity=0.095  Sum_probs=45.1

Q ss_pred             HHHHHHHHhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceee
Q 036188           26 PMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVEC   85 (210)
Q Consensus        26 ~~al~~a~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~   85 (210)
                      ..+|.--.++.|+..|..    +|+|+.|||+.+|+    ++..+.+.|+.|...|++..
T Consensus         6 lkaL~~~~R~~IL~~L~~----g~~s~~ELa~~lgl----S~stVs~hL~~Le~aGLV~~   57 (232)
T 2qlz_A            6 FYILGNKVRRDLLSHLTC----MECYFSLLSSKVSV----SSTAVAKHLKIMEREGVLQS   57 (232)
T ss_dssp             HHHHTSHHHHHHHHHHTT----TTTCSSSSCTTCCC----CHHHHHHHHHHHHHTTSEEE
T ss_pred             HHHhCCHHHHHHHHHHHh----CCCCHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEE
Confidence            345555567778888876    69999999999999    99999999999999999987

>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=93.94  E-value=0.025  Score=48.35  Aligned_cols=32  Identities=19%  Similarity=0.288  Sum_probs=25.8

Q ss_pred             hHHHHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          177 VMSNILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       177 ~~~~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      .+..+++.++ .....+|||||||.|.++..++
T Consensus        95 ~~~~l~~~~~-~~~~~~VLDiGcG~G~~~~~l~  126 (416)
T 4e2x_A           95 LARDFLATEL-TGPDPFIVEIGCNDGIMLRTIQ  126 (416)
T ss_dssp             HHHHHHHTTT-CSSSCEEEEETCTTTTTHHHHH
T ss_pred             HHHHHHHHhC-CCCCCEEEEecCCCCHHHHHHH
Confidence            4456677776 7778899999999999988775

>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=93.93  E-value=0.04  Score=40.38  Aligned_cols=47  Identities=19%  Similarity=0.169  Sum_probs=41.3

Q ss_pred             HhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           33 YELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        33 ~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      .+..|...|.++   ++.|..|||+++|+    ++..+.+.++.|...|++...
T Consensus         8 ~~~~il~~L~~~---~~~s~~ela~~lg~----s~~tv~~~l~~L~~~G~i~~~   54 (151)
T 2cyy_A            8 IDKKIIKILQND---GKAPLREISKITGL----AESTIHERIRKLRESGVIKKF   54 (151)
T ss_dssp             HHHHHHHHHHHC---TTCCHHHHHHHHCS----CHHHHHHHHHHHHHHTSSCCC
T ss_pred             HHHHHHHHHHHc---CCCCHHHHHHHHCc----CHHHHHHHHHHHHHCCCeEEE
Confidence            355678888775   58999999999999    999999999999999999864

>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=93.91  E-value=0.027  Score=40.06  Aligned_cols=67  Identities=9%  Similarity=0.131  Sum_probs=47.0

Q ss_pred             hChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCC-Ccccceeccccccccc
Q 036188           35 LGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDAS-GARRLYSLNSVSKYYV  106 (210)
Q Consensus        35 lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~-~~~~~y~~t~~s~~l~  106 (210)
                      ..|...|...+ +++.|..|||+.+++    ++..+.++++-|...|++++..+.. ...-.+.+|+.++.+.
T Consensus        40 ~~vL~~l~~~~-~~~~t~~eLa~~l~~----~~~tvs~~l~~Le~~Glv~r~~~~~D~R~~~i~LT~~G~~~~  107 (127)
T 2frh_A           40 FAVLTYISENK-EKEYYLKDIINHLNY----KQPQVVKAVKILSQEDYFDKKRNEHDERTVLILVNAQQRKKI  107 (127)
T ss_dssp             HHHHHHHHHTC-CSEEEHHHHHHHSSS----HHHHHHHHHHHHHHTTSSCCBCCSSSSCCCEEECCSHHHHHH
T ss_pred             HHHHHHHHhcc-CCCcCHHHHHHHHCC----CHHHHHHHHHHHHHCCCEEecCCCCCCCeeEEEECHHHHHHH
Confidence            33556666541 148999999999999    9999999999999999998752110 1122356666665443

>2ia0_A Putative HTH-type transcriptional regulator PF086; ASNC, PSI, structural genomics, southeast collaboratory for structural genomics; 2.37A {Pyrococcus furiosus}

Probab=93.89  E-value=0.059  Score=40.56  Aligned_cols=47  Identities=21%  Similarity=0.330  Sum_probs=41.4

Q ss_pred             HhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           33 YELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        33 ~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      ++..|...|.++   +++|..|||+++|+    ++..+.+.++.|...|++...
T Consensus        18 ~d~~IL~~L~~~---~~~s~~eLA~~lgl----S~~tv~~~l~~L~~~G~I~~~   64 (171)
T 2ia0_A           18 LDRNILRLLKKD---ARLTISELSEQLKK----PESTIHFRIKKLQERGVIERY   64 (171)
T ss_dssp             HHHHHHHHHHHC---TTCCHHHHHHHHTS----CHHHHHHHHHHHHHTTSEEEE
T ss_pred             HHHHHHHHHHHc---CCCCHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEee
Confidence            455678888875   58999999999999    999999999999999999754

>4htf_A S-adenosylmethionine-dependent methyltransferase; structural genomics, PSI-biology, midwest center for structu genomics, MCSG; HET: MSE SAM; 1.60A {Escherichia coli}

Probab=93.88  E-value=0.036  Score=44.59  Aligned_cols=28  Identities=21%  Similarity=0.322  Sum_probs=21.7

Q ss_pred             HHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          180 NILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       180 ~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      .++..++ . +..+|||||||.|.++..++
T Consensus        60 ~~l~~~~-~-~~~~vLDiGcG~G~~~~~l~   87 (285)
T 4htf_A           60 RVLAEMG-P-QKLRVLDAGGGEGQTAIKMA   87 (285)
T ss_dssp             HHHHHTC-S-SCCEEEEETCTTCHHHHHHH
T ss_pred             HHHHhcC-C-CCCEEEEeCCcchHHHHHHH
Confidence            4566655 3 36799999999999998775

>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=93.84  E-value=0.045  Score=39.26  Aligned_cols=44  Identities=23%  Similarity=0.250  Sum_probs=37.2

Q ss_pred             hhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           37 IFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        37 lfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      +...|....  +++|..|||+++++    ++..+.++++.|...|++++.
T Consensus        31 il~~L~~~~--~~~t~~ela~~l~~----~~stvs~~l~~L~~~G~v~r~   74 (152)
T 1ku9_A           31 VYAILYLSD--KPLTISDIMEELKI----SKGNVSMSLKKLEELGFVRKV   74 (152)
T ss_dssp             HHHHHHHCS--SCEEHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEEE
T ss_pred             HHHHHHHcC--CCCCHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEEE
Confidence            455554222  58999999999999    999999999999999999875

>3e05_A Precorrin-6Y C5,15-methyltransferase (decarboxyla; porphyrin metabolism, S-adenosyl-methionine; 1.80A {Geobacter metallireducens} SCOP: c.66.1.0

Probab=93.83  E-value=0.046  Score=41.64  Aligned_cols=29  Identities=10%  Similarity=0.134  Sum_probs=23.5

Q ss_pred             HHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          180 NILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       180 ~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      .++..++ .....+|||||||+|.++..++
T Consensus        31 ~~l~~l~-~~~~~~vLDiG~G~G~~~~~la   59 (204)
T 3e05_A           31 VTLSKLR-LQDDLVMWDIGAGSASVSIEAS   59 (204)
T ss_dssp             HHHHHTT-CCTTCEEEEETCTTCHHHHHHH
T ss_pred             HHHHHcC-CCCCCEEEEECCCCCHHHHHHH
Confidence            4456665 6778899999999999998775

>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=93.82  E-value=0.079  Score=40.38  Aligned_cols=59  Identities=19%  Similarity=0.228  Sum_probs=47.5

Q ss_pred             HHhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccc-eeeeccCCCcccceeccccc
Q 036188           32 VYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSV-VECSLDASGARRLYSLNSVS  102 (210)
Q Consensus        32 a~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl-~~~~~~~~~~~~~y~~t~~s  102 (210)
                      -....|.+.|.+++  +++|+.|||+++++    +.+-++|-++.|...|+ +...      .+.|.+.+..
T Consensus        21 ~R~~~Il~~L~~~~--~~~s~~eLa~~l~v----S~~Ti~rdi~~L~~~G~~I~~~------~~Gy~l~~~~   80 (187)
T 1j5y_A           21 ERLKSIVRILERSK--EPVSGAQLAEELSV----SRQVIVQDIAYLRSLGYNIVAT------PRGYVLAGGK   80 (187)
T ss_dssp             HHHHHHHHHHHHCS--SCBCHHHHHHHHTS----CHHHHHHHHHHHHHHTCCCEEE------TTEEECCTTT
T ss_pred             HHHHHHHHHHHHcC--CCcCHHHHHHHHCc----CHHHHHHHHHHHHHCCCeEEEE------CCEEEECCcc
Confidence            34566888887653  57999999999999    99999999999999999 7654      4567776543

>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=93.81  E-value=0.063  Score=43.10  Aligned_cols=30  Identities=23%  Similarity=0.255  Sum_probs=24.1

Q ss_pred             HHHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          179 SNILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       179 ~~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ..+++.++ .....+|||||||.|.++..++
T Consensus        54 ~~~~~~~~-~~~~~~vLDiGcG~G~~~~~l~   83 (287)
T 1kpg_A           54 DLALGKLG-LQPGMTLLDVGCGWGATMMRAV   83 (287)
T ss_dssp             HHHHTTTT-CCTTCEEEEETCTTSHHHHHHH
T ss_pred             HHHHHHcC-CCCcCEEEEECCcccHHHHHHH
Confidence            35566666 6777899999999999988775

>1okr_A MECI, methicillin resistance regulatory protein MECI; bacterial antibiotic resistance, MECI protein, transcriptional regulatory element; 2.4A {Staphylococcus aureus} SCOP: a.4.5.39 PDB: 1sax_A 1sd7_A 2d45_A 1sd6_A

Probab=93.80  E-value=0.026  Score=39.65  Aligned_cols=46  Identities=15%  Similarity=0.225  Sum_probs=38.6

Q ss_pred             hhChhhHHhhcCCCCCCCHHHHHHHhc----CCCCCCcccHHHHHHHHhcccceeee
Q 036188           34 ELGIFEILDKAGPGTKLSASDIAAQLL----TKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        34 ~lglfd~L~~~g~~~~~t~~eLA~~~~----~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      +..|...|...   ++.|..|||+.++    +    .+..+.++++-|...|++.+.
T Consensus        12 ~~~vL~~l~~~---~~~t~~ela~~l~~~~~~----s~~tv~~~l~~L~~~Glv~r~   61 (123)
T 1okr_A           12 EWEVMNIIWMK---KYASANNIIEEIQMQKDW----SPKTIRTLITRLYKKGFIDRK   61 (123)
T ss_dssp             HHHHHHHHHHH---SSEEHHHHHHHHHHHCCC----CHHHHHHHHHHHHHHTSEEEE
T ss_pred             HHHHHHHHHhC---CCcCHHHHHHHHhccCCC----cHhhHHHHHHHHHHCCCeEEE
Confidence            34455566654   5999999999999    6    799999999999999999986

>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=93.70  E-value=0.055  Score=44.26  Aligned_cols=30  Identities=20%  Similarity=0.308  Sum_probs=24.3

Q ss_pred             HHHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          179 SNILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       179 ~~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ..+++.++ .....+|||||||.|.++..++
T Consensus        80 ~~~~~~~~-~~~~~~vLDiGcG~G~~~~~la  109 (318)
T 2fk8_A           80 DLNLDKLD-LKPGMTLLDIGCGWGTTMRRAV  109 (318)
T ss_dssp             HHHHTTSC-CCTTCEEEEESCTTSHHHHHHH
T ss_pred             HHHHHhcC-CCCcCEEEEEcccchHHHHHHH
Confidence            45566666 6777899999999999988765

>3dtn_A Putative methyltransferase MM_2633; structural genomics, unknown function, PSI-2, protein structure initiative; 2.09A {Methanosarcina mazei}

Probab=93.68  E-value=0.06  Score=41.75  Aligned_cols=30  Identities=10%  Similarity=0.077  Sum_probs=22.0

Q ss_pred             HHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          180 NILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       180 ~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      .++...+......+|||||||.|.++..++
T Consensus        34 ~~~~~~~~~~~~~~vLDiG~G~G~~~~~l~   63 (234)
T 3dtn_A           34 VSVSIASVDTENPDILDLGAGTGLLSAFLM   63 (234)
T ss_dssp             HHHHTCCCSCSSCEEEEETCTTSHHHHHHH
T ss_pred             HHHHHhhcCCCCCeEEEecCCCCHHHHHHH
Confidence            444444423456899999999999998775

>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=93.64  E-value=0.026  Score=45.27  Aligned_cols=30  Identities=10%  Similarity=0.155  Sum_probs=24.4

Q ss_pred             HHHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          179 SNILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       179 ~~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ..++..++ .....+|||||||+|.++..++
T Consensus        89 ~~i~~~~~-~~~~~~vLdiG~G~G~~~~~l~  118 (280)
T 1i9g_A           89 AQIVHEGD-IFPGARVLEAGAGSGALTLSLL  118 (280)
T ss_dssp             HHHHHHTT-CCTTCEEEEECCTTSHHHHHHH
T ss_pred             HHHHHHcC-CCCCCEEEEEcccccHHHHHHH
Confidence            35566666 7778899999999999988775

>2o03_A Probable zinc uptake regulation protein FURB; DNA-binding, helix-turn-helix, zinc binding, GE regulation; 2.70A {Mycobacterium tuberculosis}

Probab=93.63  E-value=0.074  Score=38.17  Aligned_cols=60  Identities=18%  Similarity=0.187  Sum_probs=46.3

Q ss_pred             HHhhChhhHHhhcCCCCCCCHHHHHHHh-----cCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceec
Q 036188           32 VYELGIFEILDKAGPGTKLSASDIAAQL-----LTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSL   98 (210)
Q Consensus        32 a~~lglfd~L~~~g~~~~~t~~eLA~~~-----~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~   98 (210)
                      --+.-|.+.|...+  ++.|++||.+.+     ++    +..-+.|.|+.|+..|++.+....+ +..+|..
T Consensus        11 ~qR~~Il~~l~~~~--~~~sa~ei~~~l~~~~~~i----s~~TVYR~L~~L~e~Glv~~~~~~~-~~~~y~~   75 (131)
T 2o03_A           11 RQRAAISTLLETLD--DFRSAQELHDELRRRGENI----GLTTVYRTLQSMASSGLVDTLHTDT-GESVYRR   75 (131)
T ss_dssp             HHHHHHHHHHHHCC--SCEEHHHHHHHHHHTTCCC----CHHHHHHHHHHHHTTTSEEEEECTT-SCEEEEE
T ss_pred             HHHHHHHHHHHhCC--CCCCHHHHHHHHHHhCCCC----CHhhHHHHHHHHHHCCCEEEEEeCC-CceEEEe
Confidence            34566788887654  699999999999     67    8899999999999999999874211 2345654

>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=93.62  E-value=0.05  Score=39.17  Aligned_cols=46  Identities=22%  Similarity=0.312  Sum_probs=40.0

Q ss_pred             hhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           34 ELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        34 ~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      +..|...|...   ++.|..|||+++|+    ++..+.+.++.|...|++.+.
T Consensus         6 ~~~il~~L~~~---~~~~~~ela~~lg~----s~~tv~~~l~~L~~~G~i~~~   51 (141)
T 1i1g_A            6 DKIILEILEKD---ARTPFTEIAKKLGI----SETAVRKRVKALEEKGIIEGY   51 (141)
T ss_dssp             HHHHHHHHHHC---TTCCHHHHHHHHTS----CHHHHHHHHHHHHHHTSSCCC
T ss_pred             HHHHHHHHHHc---CCCCHHHHHHHHCc----CHHHHHHHHHHHHHCCCEecc
Confidence            45567778764   58999999999999    999999999999999999754

>2fxa_A Protease production regulatory protein HPR; protease porduction, regulation, STR genomics, PSI, protein structure initiative; HET: PGE P6G 1PE; 2.40A {Bacillus subtilis} SCOP: a.4.5.28

Probab=93.60  E-value=0.036  Score=43.01  Aligned_cols=65  Identities=14%  Similarity=-0.035  Sum_probs=48.2

Q ss_pred             hChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCC-Ccccceeccccccccc
Q 036188           35 LGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDAS-GARRLYSLNSVSKYYV  106 (210)
Q Consensus        35 lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~-~~~~~y~~t~~s~~l~  106 (210)
                      +.|...|...   +++|..+||+.+++    ++..+.++++.|...|++++..+.. ...-.+.+|+.++.+.
T Consensus        51 ~~iL~~L~~~---~~~t~~eLa~~l~i----~~stvs~~l~~Le~~GlV~r~~~~~DrR~~~l~LT~~G~~~~  116 (207)
T 2fxa_A           51 HHILWIAYQL---NGASISEIAKFGVM----HVSTAFNFSKKLEERGYLRFSKRLNDKRNTYVQLTEEGTEVF  116 (207)
T ss_dssp             HHHHHHHHHH---TSEEHHHHHHHTTC----CHHHHHHHHHHHHHHTSEEEECC------CEEEECHHHHHHH
T ss_pred             HHHHHHHHHC---CCcCHHHHHHHHCC----CHHHHHHHHHHHHHCCCEEEecCCCCCceEEEEECHHHHHHH
Confidence            4456667665   48999999999999    9999999999999999998763110 0112477888776544

>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=93.60  E-value=0.041  Score=46.07  Aligned_cols=29  Identities=24%  Similarity=0.155  Sum_probs=21.7

Q ss_pred             HHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          180 NILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       180 ~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      .+++.+. .....+|||||||.|.++..++
T Consensus        41 ~i~~~l~-~~~~~~VLDiGcGtG~ls~~la   69 (348)
T 2y1w_A           41 AILQNHT-DFKDKIVLDVGCGSGILSFFAA   69 (348)
T ss_dssp             HHHHTGG-GTTTCEEEEETCTTSHHHHHHH
T ss_pred             HHHhccc-cCCcCEEEEcCCCccHHHHHHH
Confidence            4455544 4456799999999999988764

>4fx0_A Probable transcriptional repressor protein; helix-turn-helix, DNA binding, transcription regulator; 2.70A {Mycobacterium tuberculosis} PDB: 4fx4_A*

Probab=93.56  E-value=0.035  Score=40.59  Aligned_cols=35  Identities=23%  Similarity=0.296  Sum_probs=29.3

Q ss_pred             CCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           48 TKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        48 ~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      +++|..|||+.+++    ++..+.++++-|...|++...
T Consensus        51 ~~~t~~eLa~~l~~----~~~tvsr~v~~Le~~glVr~~   85 (148)
T 4fx0_A           51 IDLTMSELAARIGV----ERTTLTRNLEVMRRDGLVRVM   85 (148)
T ss_dssp             ---CHHHHHHHHTC----CHHHHHHHHHHHHHTTSBC--
T ss_pred             CCcCHHHHHHHHCC----ChhhHHHHHHHHHHCCCEEee
Confidence            47999999999999    999999999999999999543

>2fbk_A Transcriptional regulator, MARR family; winged-helix-turn-helix; 2.30A {Deinococcus radiodurans} SCOP: a.4.5.28

Probab=93.54  E-value=0.032  Score=42.00  Aligned_cols=49  Identities=12%  Similarity=0.132  Sum_probs=40.1

Q ss_pred             hhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           34 ELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        34 ~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      ++.|...|...++.+++|..|||+.+++    ++..+.++++.|...|++++.
T Consensus        71 ~~~iL~~L~~~~~~~~~t~~eLa~~l~i----s~~tvs~~l~~Le~~GlV~r~  119 (181)
T 2fbk_A           71 GWDLLLTLYRSAPPEGLRPTELSALAAI----SGPSTSNRIVRLLEKGLIERR  119 (181)
T ss_dssp             HHHHHHHHHHHCCSSCBCHHHHHHHCSC----CSGGGSSHHHHHHHHTSEECC
T ss_pred             HHHHHHHHHHcCCCCCCCHHHHHHHHCC----CHHHHHHHHHHHHHCcCEEec
Confidence            3446777776541013999999999999    999999999999999999875

>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=93.53  E-value=0.07  Score=40.97  Aligned_cols=42  Identities=24%  Similarity=0.207  Sum_probs=36.2

Q ss_pred             hHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           39 EILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        39 d~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      +.+.+.|  .|.|..|||+++|+    ++..+.+.|+.|...|++.+.
T Consensus        16 ~~~~~~g--~~~s~~eia~~lgl----~~~tv~~~l~~Le~~G~i~~~   57 (196)
T 3k2z_A           16 EFIEKNG--YPPSVREIARRFRI----TPRGALLHLIALEKKGYIERK   57 (196)
T ss_dssp             HHHHHHS--SCCCHHHHHHHHTS----CHHHHHHHHHHHHHTTSEECC
T ss_pred             HHHHHhC--CCCCHHHHHHHcCC----CcHHHHHHHHHHHHCCCEEec
Confidence            3455554  58999999999999    888999999999999999876

>2dk5_A DNA-directed RNA polymerase III 39 kDa polypeptide; structural genomics, winged helix domain, NPPSFA; NMR {Homo sapiens} SCOP: a.4.5.85

Probab=93.50  E-value=0.062  Score=36.28  Aligned_cols=48  Identities=19%  Similarity=0.315  Sum_probs=40.3

Q ss_pred             hhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           34 ELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        34 ~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      ++.|+..|.++|. .+++..|||+++++    +..-+.++|+.|...|++.+.
T Consensus        22 q~~Vl~~I~~~g~-~gi~qkeLa~~~~l----~~~tvt~iLk~LE~kglIkr~   69 (91)
T 2dk5_A           22 EKLVYQIIEDAGN-KGIWSRDVRYKSNL----PLTEINKILKNLESKKLIKAV   69 (91)
T ss_dssp             HHHHHHHHHHHCT-TCEEHHHHHHHTTC----CHHHHHHHHHHHHHTTSEEEE
T ss_pred             HHHHHHHHHHcCC-CCcCHHHHHHHHCC----CHHHHHHHHHHHHHCCCEEEe
Confidence            3446677776431 48999999999999    999999999999999999854

>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=93.46  E-value=0.21  Score=35.89  Aligned_cols=47  Identities=11%  Similarity=0.066  Sum_probs=33.5

Q ss_pred             hChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           35 LGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        35 lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      ..|...|...+ +++.|..|||+.+++    ++..+.++++.|...|++++.
T Consensus        44 ~~vL~~l~~~~-~~~~t~~eLa~~l~~----~~~~vs~~l~~L~~~Glv~r~   90 (148)
T 3jw4_A           44 GRMIGYIYENQ-ESGIIQKDLAQFFGR----RGASITSMLQGLEKKGYIERR   90 (148)
T ss_dssp             HHHHHHHHHHT-TTCCCHHHHHHC----------CHHHHHHHHHHTTSBCCC
T ss_pred             HHHHHHHHhCC-CCCCCHHHHHHHHCC----ChhHHHHHHHHHHHCCCEEee
Confidence            34566666642 148999999999999    999999999999999999875

>2k4b_A Transcriptional regulator; DNA binding protein, winged helix; NMR {Lactococcus lactis subsp}

Probab=93.46  E-value=0.034  Score=38.23  Aligned_cols=50  Identities=14%  Similarity=0.137  Sum_probs=39.1

Q ss_pred             hhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           34 ELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        34 ~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      +..|...|.+.   ++.|+.||+++++.....++.-+.++|+-|+..|++.+.
T Consensus        37 e~~VL~~L~~~---~~~t~~eL~~~l~~~~~~s~sTVt~~L~rLe~KGlV~R~   86 (99)
T 2k4b_A           37 ELIVMRVIWSL---GEARVDEIYAQIPQELEWSLATVKTLLGRLVKKEMLSTE   86 (99)
T ss_dssp             CSHHHHHHHHH---SCEEHHHHHHTCCGGGCCCHHHHHHHHHHHHHTTSCEEE
T ss_pred             HHHHHHHHHhC---CCCCHHHHHHHHhcccCCCHhhHHHHHHHHHHCCCEEEE
Confidence            34466777664   589999999999851111578899999999999999986

>3b3j_A Histone-arginine methyltransferase CARM1; protein arginine methyltransferase 4, APO catalytic domain, regulator, mRNA processing; 2.55A {Rattus norvegicus}

Probab=93.46  E-value=0.042  Score=48.30  Aligned_cols=31  Identities=23%  Similarity=0.132  Sum_probs=23.4

Q ss_pred             HHHHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          178 MSNILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       178 ~~~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ...+++.++ .....+|+|||||.|.+++.++
T Consensus       147 ~~~il~~l~-~~~~~~VLDiGcGtG~la~~la  177 (480)
T 3b3j_A          147 QRAILQNHT-DFKDKIVLDVGCGSGILSFFAA  177 (480)
T ss_dssp             HHHHHHTGG-GTTTCEEEEESCSTTHHHHHHH
T ss_pred             HHHHHHhhh-hcCCCEEEEecCcccHHHHHHH
Confidence            345566555 4566899999999999988764

>3i4p_A Transcriptional regulator, ASNC family; PSI, structural genom protein structure initiative, midwest center for structural genomics; 2.30A {Agrobacterium tumefaciens str}

Probab=93.42  E-value=0.057  Score=40.20  Aligned_cols=47  Identities=17%  Similarity=0.227  Sum_probs=41.7

Q ss_pred             HhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           33 YELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        33 ~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      .+..|.+.|.++   +++|..|||+++|+    ++..+.+-++.|...|++...
T Consensus         4 ~d~~il~~L~~~---~~~s~~~la~~lg~----s~~tv~~rl~~L~~~g~i~~~   50 (162)
T 3i4p_A            4 LDRKILRILQED---STLAVADLAKKVGL----STTPCWRRIQKMEEDGVIRRR   50 (162)
T ss_dssp             HHHHHHHHHTTC---SCSCHHHHHHHHTC----CHHHHHHHHHHHHHTTSSCCC
T ss_pred             HHHHHHHHHHHC---CCCCHHHHHHHHCc----CHHHHHHHHHHHHHCCCeeec
Confidence            456688888875   59999999999999    999999999999999999854

>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=93.35  E-value=0.073  Score=42.29  Aligned_cols=30  Identities=13%  Similarity=0.201  Sum_probs=22.7

Q ss_pred             HHHhCCCCCCCCeEEEecCCccHHHHhhhC
Q 036188          181 ILESYKGFDNIKQLVDVGGSLGVTLQAITT  210 (210)
Q Consensus       181 ~l~~~~~~~~~~~vvDiGGg~G~~~~~l~~  210 (210)
                      ++..++......+|||||||.|.++..+++
T Consensus        37 ~l~~l~~~~~~~~vLDiGcG~G~~~~~la~   66 (267)
T 3kkz_A           37 ALSFIDNLTEKSLIADIGCGTGGQTMVLAG   66 (267)
T ss_dssp             HHTTCCCCCTTCEEEEETCTTCHHHHHHHT
T ss_pred             HHHhcccCCCCCEEEEeCCCCCHHHHHHHh
Confidence            344443356778999999999999988763

>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=93.33  E-value=0.086  Score=40.28  Aligned_cols=30  Identities=23%  Similarity=0.277  Sum_probs=21.8

Q ss_pred             HHHHhCCCCCCCCeEEEecCCccHHHHhhhC
Q 036188          180 NILESYKGFDNIKQLVDVGGSLGVTLQAITT  210 (210)
Q Consensus       180 ~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~~  210 (210)
                      .+++.+. .....+|||||||.|.++..+++
T Consensus        43 ~~~~~~~-~~~~~~vLdiG~G~G~~~~~l~~   72 (227)
T 3e8s_A           43 AILLAIL-GRQPERVLDLGCGEGWLLRALAD   72 (227)
T ss_dssp             HHHHHHH-HTCCSEEEEETCTTCHHHHHHHT
T ss_pred             HHHHHhh-cCCCCEEEEeCCCCCHHHHHHHH
Confidence            3444443 34458999999999999988753

>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=93.31  E-value=0.18  Score=32.66  Aligned_cols=42  Identities=14%  Similarity=0.101  Sum_probs=35.8

Q ss_pred             hhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           38 FEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        38 fd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      .+.|.+.   +..|+.+||+++|+    +..-+.|+|--|...|.+...
T Consensus        21 i~~L~~~---~~~Ta~~IAkkLg~----sK~~vNr~LY~L~kkG~V~~~   62 (75)
T 1sfu_A           21 VLSLNTN---DYTTAISLSNRLKI----NKKKINQQLYKLQKEDTVKMV   62 (75)
T ss_dssp             HHTSCTT---CEECHHHHHHHTTC----CHHHHHHHHHHHHHTTSEEEE
T ss_pred             HHhCCCC---cchHHHHHHHHHCC----CHHHHHHHHHHHHHCCCEecC
Confidence            3355552   46999999999999    999999999999999999876

>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=93.26  E-value=0.02  Score=43.63  Aligned_cols=19  Identities=21%  Similarity=0.384  Sum_probs=16.7

Q ss_pred             CCeEEEecCCccHHHHhhh
Q 036188          191 IKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       191 ~~~vvDiGGg~G~~~~~l~  209 (210)
                      ..+|+|||||.|.++..++
T Consensus        66 ~~~vLDiG~G~G~~~~~l~   84 (207)
T 1jsx_A           66 GERFIDVGTGPGLPGIPLS   84 (207)
T ss_dssp             SSEEEEETCTTTTTHHHHH
T ss_pred             CCeEEEECCCCCHHHHHHH
Confidence            5799999999999988765

>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=93.17  E-value=0.085  Score=40.05  Aligned_cols=70  Identities=10%  Similarity=0.045  Sum_probs=51.7

Q ss_pred             HHhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCC-Ccccceeccccccccc
Q 036188           32 VYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDAS-GARRLYSLNSVSKYYV  106 (210)
Q Consensus        32 a~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~-~~~~~y~~t~~s~~l~  106 (210)
                      ..++.|...|...+ ++++|..+||+.+++    ++..+.++++.|...|++++..... ...-.+.+|+.++.+.
T Consensus        41 ~~q~~vL~~L~~~~-~~~~t~~eLa~~l~i----s~~tvs~~l~~Le~~GlV~r~~~~~DrR~~~l~LT~~G~~~~  111 (189)
T 3nqo_A           41 SRQYMTILSILHLP-EEETTLNNIARKMGT----SKQNINRLVANLEKNGYVDVIPSPHDKRAINVKVTDLGKKVM  111 (189)
T ss_dssp             HHHHHHHHHHHHSC-GGGCCHHHHHHHHTS----CHHHHHHHHHHHHHTTSEEEEECSSCSSCEEEEECHHHHHHH
T ss_pred             HHHHHHHHHHHhcc-CCCcCHHHHHHHHCC----CHHHHHHHHHHHHHCCCEEeccCCCCCCeeEEEECHHHHHHH
Confidence            34555677776521 158999999999999    9999999999999999998763110 1123478888887554

>3njr_A Precorrin-6Y methylase; methyltransferase, decarboxylase, transferase; HET: SAH PG4; 2.70A {Rhodobacter capsulatus}

Probab=93.14  E-value=0.066  Score=41.16  Aligned_cols=28  Identities=21%  Similarity=0.190  Sum_probs=22.1

Q ss_pred             HHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          181 ILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       181 ~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ++..++ .....+|+|||||.|.++..++
T Consensus        47 ~l~~l~-~~~~~~vLDlGcG~G~~~~~la   74 (204)
T 3njr_A           47 TLAALA-PRRGELLWDIGGGSGSVSVEWC   74 (204)
T ss_dssp             HHHHHC-CCTTCEEEEETCTTCHHHHHHH
T ss_pred             HHHhcC-CCCCCEEEEecCCCCHHHHHHH
Confidence            344555 6677899999999999998775

>3lbf_A Protein-L-isoaspartate O-methyltransferase; modified rossman-type fold, S-adenosyl-L- methionine; HET: SAH; 1.80A {Escherichia coli}

Probab=93.12  E-value=0.075  Score=40.50  Aligned_cols=29  Identities=10%  Similarity=0.287  Sum_probs=23.3

Q ss_pred             HHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          180 NILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       180 ~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      .+++.++ .....+|+|||||.|.++..++
T Consensus        68 ~~~~~l~-~~~~~~vLdiG~G~G~~~~~la   96 (210)
T 3lbf_A           68 RMTELLE-LTPQSRVLEIGTGSGYQTAILA   96 (210)
T ss_dssp             HHHHHTT-CCTTCEEEEECCTTSHHHHHHH
T ss_pred             HHHHhcC-CCCCCEEEEEcCCCCHHHHHHH
Confidence            4455555 6778899999999999998775

>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=93.09  E-value=0.066  Score=42.09  Aligned_cols=30  Identities=10%  Similarity=0.179  Sum_probs=22.8

Q ss_pred             HHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          180 NILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       180 ~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      .++..+.......+|||||||.|.++..++
T Consensus        36 ~~l~~l~~~~~~~~vLDiG~G~G~~~~~l~   65 (257)
T 3f4k_A           36 KAVSFINELTDDAKIADIGCGTGGQTLFLA   65 (257)
T ss_dssp             HHHTTSCCCCTTCEEEEETCTTSHHHHHHH
T ss_pred             HHHHHHhcCCCCCeEEEeCCCCCHHHHHHH
Confidence            345555336667899999999999998775

>3g2m_A PCZA361.24; SAM-dependent methyltransferase, glycopeptide antibiotics biosynthesis, structural genomics; 2.00A {Amycolatopsis orientalis} PDB: 3g2o_A* 3g2p_A* 3g2q_A*

Probab=93.07  E-value=0.059  Score=43.70  Aligned_cols=31  Identities=3%  Similarity=-0.007  Sum_probs=22.7

Q ss_pred             HHHHHHhCCCCCCCCeEEEecCCccHHHHhhhC
Q 036188          178 MSNILESYKGFDNIKQLVDVGGSLGVTLQAITT  210 (210)
Q Consensus       178 ~~~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~~  210 (210)
                      ...+++.++ . ...+|||||||.|.++..+++
T Consensus        72 ~~~~~~~~~-~-~~~~vLDlGcG~G~~~~~l~~  102 (299)
T 3g2m_A           72 AREFATRTG-P-VSGPVLELAAGMGRLTFPFLD  102 (299)
T ss_dssp             HHHHHHHHC-C-CCSCEEEETCTTTTTHHHHHT
T ss_pred             HHHHHHhhC-C-CCCcEEEEeccCCHHHHHHHH
Confidence            445566655 3 334999999999999988763

>2fe3_A Peroxide operon regulator; oxidative stress regulator, DNA binding protein; 1.75A {Bacillus subtilis} PDB: 3f8n_A 2rgv_A*

Probab=93.06  E-value=0.097  Score=38.24  Aligned_cols=59  Identities=19%  Similarity=0.144  Sum_probs=45.2

Q ss_pred             hhChhhHHhhcCCCCCCCHHHHHHHh-----cCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceecc
Q 036188           34 ELGIFEILDKAGPGTKLSASDIAAQL-----LTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLN   99 (210)
Q Consensus        34 ~lglfd~L~~~g~~~~~t~~eLA~~~-----~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t   99 (210)
                      +.-|++.|...+  ++.|++||.+.+     ++    +..-+.|.|+.|+..|++.+.... ++..+|..+
T Consensus        24 R~~Il~~L~~~~--~~~sa~ei~~~l~~~~~~i----s~aTVYR~L~~L~e~Glv~~~~~~-~~~~~Y~~~   87 (145)
T 2fe3_A           24 RHAILEYLVNSM--AHPTADDIYKALEGKFPNM----SVATVYNNLRVFRESGLVKELTYG-DASSRFDFV   87 (145)
T ss_dssp             HHHHHHHHHHCS--SCCCHHHHHHHHGGGCTTC----CHHHHHHHHHHHHHTTSEEEECCT-TSCCEEEEC
T ss_pred             HHHHHHHHHhCC--CCCCHHHHHHHHHHhCCCC----ChhhHHHHHHHHHHCCCEEEEeeC-CCceEEECC
Confidence            345788887654  699999999999     56    888999999999999999987421 123347654

>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=92.97  E-value=0.052  Score=43.99  Aligned_cols=18  Identities=17%  Similarity=0.307  Sum_probs=14.3

Q ss_pred             CCCeEEEecCCccHHHHh
Q 036188          190 NIKQLVDVGGSLGVTLQA  207 (210)
Q Consensus       190 ~~~~vvDiGGg~G~~~~~  207 (210)
                      ...+|||||||+|.++..
T Consensus        52 ~~~~VLDiG~GtG~~~~~   69 (292)
T 2aot_A           52 SEIKILSIGGGAGEIDLQ   69 (292)
T ss_dssp             SEEEEEEETCTTSHHHHH
T ss_pred             CCCeEEEEcCCCCHHHHH
Confidence            456899999999976543

>3uzu_A Ribosomal RNA small subunit methyltransferase A; ssgcid, seattle structural genomics center for infectio disease; 1.75A {Burkholderia pseudomallei}

Probab=92.95  E-value=0.055  Score=44.13  Aligned_cols=29  Identities=17%  Similarity=0.384  Sum_probs=23.1

Q ss_pred             HHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          180 NILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       180 ~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      .+++..+ .....+|+|||||.|.++..|+
T Consensus        33 ~iv~~~~-~~~~~~VLEIG~G~G~lt~~La   61 (279)
T 3uzu_A           33 AIVAAIR-PERGERMVEIGPGLGALTGPVI   61 (279)
T ss_dssp             HHHHHHC-CCTTCEEEEECCTTSTTHHHHH
T ss_pred             HHHHhcC-CCCcCEEEEEccccHHHHHHHH
Confidence            4455555 6667899999999999998875

>2avd_A Catechol-O-methyltransferase; structural genomics, structural genomics consortium, SGC; HET: SAM; 1.70A {Homo sapiens} SCOP: c.66.1.1

Probab=92.93  E-value=0.051  Score=42.07  Aligned_cols=23  Identities=22%  Similarity=0.291  Sum_probs=19.0

Q ss_pred             CCCCCeEEEecCCccHHHHhhhC
Q 036188          188 FDNIKQLVDVGGSLGVTLQAITT  210 (210)
Q Consensus       188 ~~~~~~vvDiGGg~G~~~~~l~~  210 (210)
                      ..+..+|||||||.|..+..+++
T Consensus        67 ~~~~~~vLdiG~G~G~~~~~la~   89 (229)
T 2avd_A           67 LIQAKKALDLGTFTGYSALALAL   89 (229)
T ss_dssp             HTTCCEEEEECCTTSHHHHHHHT
T ss_pred             hcCCCEEEEEcCCccHHHHHHHH
Confidence            34567999999999999988763

>1vbf_A 231AA long hypothetical protein-L-isoaspartate O- methyltransferase; trimeric coiled coil assembly; 2.80A {Sulfolobus tokodaii} SCOP: c.66.1.7

Probab=92.85  E-value=0.08  Score=40.98  Aligned_cols=30  Identities=13%  Similarity=0.338  Sum_probs=23.4

Q ss_pred             HHHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          179 SNILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       179 ~~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ..+++.+. .....+|+|||||.|.++..++
T Consensus        60 ~~~~~~~~-~~~~~~vLdiG~G~G~~~~~l~   89 (231)
T 1vbf_A           60 IFMLDELD-LHKGQKVLEIGTGIGYYTALIA   89 (231)
T ss_dssp             HHHHHHTT-CCTTCEEEEECCTTSHHHHHHH
T ss_pred             HHHHHhcC-CCCCCEEEEEcCCCCHHHHHHH
Confidence            34555555 6677899999999999988765

>3u1d_A Uncharacterized protein; GNTR-superfamily, structural genomics, PSI-biology, midwest for structural genomics, MCSG; 1.80A {Halomicrobium mukohataei}

Probab=92.79  E-value=0.12  Score=38.32  Aligned_cols=69  Identities=12%  Similarity=0.060  Sum_probs=49.5

Q ss_pred             HhhChhhHHhhcCCCCCCCHHHHHHHhc-CCCCCCcccHHHHHHHHhcccceeeeccCC-C-ccc----ceecccccccc
Q 036188           33 YELGIFEILDKAGPGTKLSASDIAAQLL-TKNKDAPMMLDRILRLLASYSVVECSLDAS-G-ARR----LYSLNSVSKYY  105 (210)
Q Consensus        33 ~~lglfd~L~~~g~~~~~t~~eLA~~~~-~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~-~-~~~----~y~~t~~s~~l  105 (210)
                      .++.|+..|-..+ .+..|+.||++.++ +    +..-+.|-|+.|+..|++++..... . ..|    .|.+|+.++.+
T Consensus        30 tR~~IL~~Ll~~p-~~~~ta~eL~~~l~~l----S~aTVyrhL~~L~eaGLV~~~~~~~~~~~rGrP~k~Y~LT~~Gr~~  104 (151)
T 3u1d_A           30 TRLDVLHQILAQP-DGVLSVEELLYRNPDE----TEANLRYHVDELVDRGIVEKIPVPRAKSVDDPPTTFYAVTGEGIAL  104 (151)
T ss_dssp             HHHHHHHHHHHST-TSCBCHHHHHHHCTTS----CHHHHHHHHHHHHHTTSEEEEECCCCTTSSSCCCEEEEECHHHHHH
T ss_pred             HHHHHHHHHHcCC-CCCCCHHHHHHhcCCC----CHHHHHHHHHHHHHCCCeEEeecCcCcccCCCCceEEEECHHHHHH
Confidence            4455666665532 14689999999999 8    9999999999999999998653111 0 112    58888887744


Q ss_pred             c
Q 036188          106 V  106 (210)
Q Consensus       106 ~  106 (210)
                      .
T Consensus       105 l  105 (151)
T 3u1d_A          105 L  105 (151)
T ss_dssp             H
T ss_pred             H
Confidence            3

>2fyt_A Protein arginine N-methyltransferase 3; structural genomics, structural genomics consortium, SGC; HET: SAH; 2.00A {Homo sapiens} SCOP: c.66.1.6 PDB: 3smq_A* 1f3l_A*

Probab=92.79  E-value=0.091  Score=43.86  Aligned_cols=29  Identities=21%  Similarity=0.167  Sum_probs=21.2

Q ss_pred             HHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          180 NILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       180 ~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      .+.+... .....+|+|||||+|.++..++
T Consensus        55 ~i~~~~~-~~~~~~VLDiGcGtG~ls~~la   83 (340)
T 2fyt_A           55 FIYQNPH-IFKDKVVLDVGCGTGILSMFAA   83 (340)
T ss_dssp             HHHHCGG-GTTTCEEEEETCTTSHHHHHHH
T ss_pred             HHHhhhh-hcCCCEEEEeeccCcHHHHHHH
Confidence            3334333 4567899999999999988765

>3hnr_A Probable methyltransferase BT9727_4108; structural genomics, PSI-2, protein structure initiative; 2.80A {Bacillus thuringiensis serovarkonkukian}

Probab=92.75  E-value=0.04  Score=42.30  Aligned_cols=22  Identities=9%  Similarity=0.173  Sum_probs=18.5

Q ss_pred             CCCCCeEEEecCCccHHHHhhh
Q 036188          188 FDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       188 ~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      .....+|||||||.|.++..++
T Consensus        43 ~~~~~~vLDiGcG~G~~~~~l~   64 (220)
T 3hnr_A           43 NKSFGNVLEFGVGTGNLTNKLL   64 (220)
T ss_dssp             HTCCSEEEEECCTTSHHHHHHH
T ss_pred             ccCCCeEEEeCCCCCHHHHHHH
Confidence            3457799999999999998775

>3e23_A Uncharacterized protein RPA2492; alpha-beta protein, structural genomics, PSI-2, protein structure initiative; HET: SAM; 1.60A {Rhodopseudomonas palustris}

Probab=92.71  E-value=0.074  Score=40.58  Aligned_cols=22  Identities=14%  Similarity=0.306  Sum_probs=18.6

Q ss_pred             CCCCCeEEEecCCccHHHHhhh
Q 036188          188 FDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       188 ~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      +....+|||||||.|.++..++
T Consensus        41 ~~~~~~vLDiGcG~G~~~~~l~   62 (211)
T 3e23_A           41 LPAGAKILELGCGAGYQAEAML   62 (211)
T ss_dssp             SCTTCEEEESSCTTSHHHHHHH
T ss_pred             cCCCCcEEEECCCCCHHHHHHH
Confidence            4456799999999999998775

>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=92.70  E-value=0.087  Score=41.31  Aligned_cols=30  Identities=10%  Similarity=0.312  Sum_probs=22.9

Q ss_pred             HHHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          179 SNILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       179 ~~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ..++.... .....+|||||||+|.++..++
T Consensus        31 ~~~~~~~~-~~~~~~vLDlGcG~G~~~~~l~   60 (252)
T 1wzn_A           31 EEIFKEDA-KREVRRVLDLACGTGIPTLELA   60 (252)
T ss_dssp             HHHHHHTC-SSCCCEEEEETCTTCHHHHHHH
T ss_pred             HHHHHHhc-ccCCCEEEEeCCCCCHHHHHHH
Confidence            34455554 4566899999999999998775

>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=92.70  E-value=0.031  Score=45.04  Aligned_cols=21  Identities=19%  Similarity=0.306  Sum_probs=18.1

Q ss_pred             CCCCeEEEecCCccHHHHhhh
Q 036188          189 DNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       189 ~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      .+..+|||||||+|.++..++
T Consensus        56 ~~~~~vLDiGcG~G~~~~~l~   76 (293)
T 3thr_A           56 HGCHRVLDVACGTGVDSIMLV   76 (293)
T ss_dssp             TTCCEEEETTCTTSHHHHHHH
T ss_pred             cCCCEEEEecCCCCHHHHHHH
Confidence            456799999999999998775

>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=92.66  E-value=0.082  Score=45.89  Aligned_cols=30  Identities=13%  Similarity=0.366  Sum_probs=24.0

Q ss_pred             HHHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          179 SNILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       179 ~~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ..+++.+. .....+|||||||.|.++..++
T Consensus       232 ~~ml~~l~-l~~g~~VLDLGCGsG~la~~LA  261 (433)
T 1u2z_A          232 SDVYQQCQ-LKKGDTFMDLGSGVGNCVVQAA  261 (433)
T ss_dssp             HHHHHHTT-CCTTCEEEEESCTTSHHHHHHH
T ss_pred             HHHHHhcC-CCCCCEEEEeCCCcCHHHHHHH
Confidence            34556665 7778899999999999998775

>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=92.63  E-value=0.068  Score=43.42  Aligned_cols=28  Identities=25%  Similarity=0.307  Sum_probs=21.9

Q ss_pred             HHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          180 NILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       180 ~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      .+++..+ .... +|+|||||.|.++..++
T Consensus        38 ~Iv~~~~-~~~~-~VLEIG~G~G~lt~~L~   65 (271)
T 3fut_A           38 RIVEAAR-PFTG-PVFEVGPGLGALTRALL   65 (271)
T ss_dssp             HHHHHHC-CCCS-CEEEECCTTSHHHHHHH
T ss_pred             HHHHhcC-CCCC-eEEEEeCchHHHHHHHH
Confidence            4555555 5556 99999999999998875

>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=92.54  E-value=0.08  Score=41.64  Aligned_cols=22  Identities=9%  Similarity=0.264  Sum_probs=18.4

Q ss_pred             CCCCeEEEecCCccHHHHhhhC
Q 036188          189 DNIKQLVDVGGSLGVTLQAITT  210 (210)
Q Consensus       189 ~~~~~vvDiGGg~G~~~~~l~~  210 (210)
                      ....+|||||||.|..+..+++
T Consensus        59 ~~G~rVLdiG~G~G~~~~~~~~   80 (236)
T 3orh_A           59 SKGGRVLEVGFGMAIAASKVQE   80 (236)
T ss_dssp             TTCEEEEEECCTTSHHHHHHTT
T ss_pred             cCCCeEEEECCCccHHHHHHHH
Confidence            3467999999999999988753

>3fzg_A 16S rRNA methylase; methyltransferase, plasmid, transferase; HET: SAM; 2.00A {Escherichia coli}

Probab=92.49  E-value=0.065  Score=41.51  Aligned_cols=21  Identities=10%  Similarity=0.136  Sum_probs=18.1

Q ss_pred             CCCCeEEEecCCccHHHHhhh
Q 036188          189 DNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       189 ~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ....+|+|||||.|.++..+.
T Consensus        48 ~~~~~VLDlGCG~GplAl~l~   68 (200)
T 3fzg_A           48 KHVSSILDFGCGFNPLALYQW   68 (200)
T ss_dssp             CCCSEEEEETCTTHHHHHHHH
T ss_pred             CCCCeEEEecCCCCHHHHHHH
Confidence            457899999999999998773

>3ccf_A Cyclopropane-fatty-acyl-phospholipid synthase; YP_321342.1, putative methyltransferase; 1.90A {Anabaena variabilis atcc 29413}

Probab=92.46  E-value=0.069  Score=42.79  Aligned_cols=30  Identities=17%  Similarity=0.258  Sum_probs=23.4

Q ss_pred             HHHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          179 SNILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       179 ~~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ..+++.++ .....+|||||||.|.++..++
T Consensus        47 ~~l~~~l~-~~~~~~vLDiGcG~G~~~~~l~   76 (279)
T 3ccf_A           47 EDLLQLLN-PQPGEFILDLGCGTGQLTEKIA   76 (279)
T ss_dssp             CHHHHHHC-CCTTCEEEEETCTTSHHHHHHH
T ss_pred             HHHHHHhC-CCCCCEEEEecCCCCHHHHHHH
Confidence            34555555 5667899999999999998775

>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=92.46  E-value=0.052  Score=42.35  Aligned_cols=26  Identities=15%  Similarity=0.266  Sum_probs=20.7

Q ss_pred             HhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          183 ESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       183 ~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      +.++ +....+|+|||||+|.++..++
T Consensus        68 ~~~~-~~~~~~VLDlGcG~G~~~~~la   93 (230)
T 1fbn_A           68 KVMP-IKRDSKILYLGASAGTTPSHVA   93 (230)
T ss_dssp             CCCC-CCTTCEEEEESCCSSHHHHHHH
T ss_pred             cccC-CCCCCEEEEEcccCCHHHHHHH
Confidence            3344 5677899999999999988765

>2yxe_A Protein-L-isoaspartate O-methyltransferase; rossman-type fold, alpha/beta/alpha sandwich structure, STRU genomics, NPPSFA; 2.00A {Methanocaldococcus jannaschii}

Probab=92.43  E-value=0.1  Score=39.87  Aligned_cols=29  Identities=10%  Similarity=0.182  Sum_probs=22.8

Q ss_pred             HHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          180 NILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       180 ~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      .+++.+. .....+|||||||.|.++..++
T Consensus        68 ~~~~~~~-~~~~~~vLdiG~G~G~~~~~l~   96 (215)
T 2yxe_A           68 MMCELLD-LKPGMKVLEIGTGCGYHAAVTA   96 (215)
T ss_dssp             HHHHHTT-CCTTCEEEEECCTTSHHHHHHH
T ss_pred             HHHHhhC-CCCCCEEEEECCCccHHHHHHH
Confidence            4455555 6677899999999999988775

>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=92.43  E-value=0.096  Score=41.22  Aligned_cols=30  Identities=13%  Similarity=0.079  Sum_probs=24.3

Q ss_pred             HHHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          179 SNILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       179 ~~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ..++...+ .....+|+|+|||+|.++..++
T Consensus        83 ~~i~~~~~-~~~~~~vldiG~G~G~~~~~l~  112 (255)
T 3mb5_A           83 ALIVAYAG-ISPGDFIVEAGVGSGALTLFLA  112 (255)
T ss_dssp             HHHHHHTT-CCTTCEEEEECCTTSHHHHHHH
T ss_pred             HHHHHhhC-CCCCCEEEEecCCchHHHHHHH
Confidence            35566666 7778899999999999998875

>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=92.42  E-value=0.12  Score=43.67  Aligned_cols=55  Identities=15%  Similarity=0.195  Sum_probs=42.7

Q ss_pred             HHHHHHHHHhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeec
Q 036188           25 LPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSL   87 (210)
Q Consensus        25 ~~~al~~a~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~   87 (210)
                      ...+++..-+..|++.|. .   +++|..|||+++|+    .+.-+.++++-|...|++.+..
T Consensus        13 ~~~~~~~~~~~~il~~l~-~---~~~sr~~la~~~gl----s~~tv~~~v~~L~~~gli~~~~   67 (380)
T 2hoe_A           13 MPKSVRAENISRILKRIM-K---SPVSRVELAEELGL----TKTTVGEIAKIFLEKGIVVEEK   67 (380)
T ss_dssp             ---------CCCSHHHHH-H---SCBCHHHHHHHHTC----CHHHHHHHHHHHHHHTSEEEEE
T ss_pred             CchhHHHHHHHHHHHHHH-c---CCcCHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEeec
Confidence            345677777788999998 6   59999999999999    9999999999999999998863

>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=92.42  E-value=0.088  Score=41.14  Aligned_cols=21  Identities=14%  Similarity=0.270  Sum_probs=18.3

Q ss_pred             CCCeEEEecCCccHHHHhhhC
Q 036188          190 NIKQLVDVGGSLGVTLQAITT  210 (210)
Q Consensus       190 ~~~~vvDiGGg~G~~~~~l~~  210 (210)
                      ...+|||||||.|.++..+++
T Consensus        79 ~~~~vLDiGcG~G~~~~~l~~   99 (241)
T 2ex4_A           79 GTSCALDCGAGIGRITKRLLL   99 (241)
T ss_dssp             CCSEEEEETCTTTHHHHHTTT
T ss_pred             CCCEEEEECCCCCHHHHHHHH
Confidence            578999999999999988753

>2h1r_A Dimethyladenosine transferase, putative; SGC toronto dimethyladenosine transferase, structural genomics, structural genomics consortium; 1.89A {Plasmodium falciparum}

Probab=92.40  E-value=0.095  Score=42.96  Aligned_cols=31  Identities=13%  Similarity=0.231  Sum_probs=24.2

Q ss_pred             HHHHHhCCCCCCCCeEEEecCCccHHHHhhhC
Q 036188          179 SNILESYKGFDNIKQLVDVGGSLGVTLQAITT  210 (210)
Q Consensus       179 ~~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~~  210 (210)
                      ..+++..+ .....+|||||||.|.++..+++
T Consensus        32 ~~i~~~~~-~~~~~~VLDiG~G~G~lt~~La~   62 (299)
T 2h1r_A           32 DKIIYAAK-IKSSDIVLEIGCGTGNLTVKLLP   62 (299)
T ss_dssp             HHHHHHHC-CCTTCEEEEECCTTSTTHHHHTT
T ss_pred             HHHHHhcC-CCCcCEEEEEcCcCcHHHHHHHh
Confidence            44555555 66778999999999999988763

>2vn2_A DNAD, chromosome replication initiation protein; DNA replication, primosome; 2.3A {Geobacillus kaustophilus HTA426}

Probab=92.40  E-value=0.091  Score=37.60  Aligned_cols=34  Identities=9%  Similarity=0.146  Sum_probs=32.3

Q ss_pred             CCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           49 KLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        49 ~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      ..|.++||+++++    ++..+.+.++.|...|+++..
T Consensus        51 ~ps~~~LA~~l~~----s~~~V~~~l~~Le~kGlI~~~   84 (128)
T 2vn2_A           51 FPTPAELAERMTV----SAAECMEMVRRLLQKGMIAIE   84 (128)
T ss_dssp             SCCHHHHHHTSSS----CHHHHHHHHHHHHHTTSSEEC
T ss_pred             CCCHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEEE
Confidence            4799999999999    999999999999999999885

>2esh_A Conserved hypothetical protein TM0937; APC5794, structural genomics, PSI, protein structure initiative; 2.30A {Thermotoga maritima} SCOP: a.4.5.61

Probab=92.39  E-value=0.28  Score=34.35  Aligned_cols=70  Identities=16%  Similarity=0.212  Sum_probs=51.2

Q ss_pred             HHHHHhhChhhHHhhcCCCCCCCHHHHHHHhc--------CCCCCCc-ccHHHHHHHHhcccceeeeccC-C-Cccccee
Q 036188           29 IQAVYELGIFEILDKAGPGTKLSASDIAAQLL--------TKNKDAP-MMLDRILRLLASYSVVECSLDA-S-GARRLYS   97 (210)
Q Consensus        29 l~~a~~lglfd~L~~~g~~~~~t~~eLA~~~~--------~~~~~~~-~~l~rlLr~L~~~gl~~~~~~~-~-~~~~~y~   97 (210)
                      +.-..++-|...|..    +|.+..||++.+.        +    ++ ..+.+.|+-|...|+++..... . -..-.|+
T Consensus        10 ~~~~~~~~IL~~L~~----~~~~gyel~~~l~~~g~~~~~i----s~~~tly~~L~~Le~~GlI~~~~~~~~~~~r~~Y~   81 (118)
T 2esh_A           10 RGWWLASTILLLVAE----KPSHGYELAERLAEFGIEIPGI----GHMGNIYRVLADLEESGFLSTEWDTTVSPPRKIYR   81 (118)
T ss_dssp             HHHHHHHHHHHHHHH----SCBCHHHHHHHHHTTCCSSTTC----CCCCCHHHHHHHHHHTTSEEEEEECSSSSCEEEEE
T ss_pred             ccchHHHHHHHHHHc----CCCCHHHHHHHHHHhCCcccCC----CCcchHHHHHHHHHHCCCeEEEeecCCCCCceEEE
Confidence            344456667777877    6999999999994        6    89 9999999999999999875311 0 0112488


Q ss_pred             ccccccccc
Q 036188           98 LNSVSKYYV  106 (210)
Q Consensus        98 ~t~~s~~l~  106 (210)
                      +|+.++.+.
T Consensus        82 LT~~G~~~l   90 (118)
T 2esh_A           82 ITPQGKLYL   90 (118)
T ss_dssp             ECHHHHHHH
T ss_pred             EChHHHHHH
Confidence            888776443

>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=92.36  E-value=0.1  Score=42.93  Aligned_cols=31  Identities=13%  Similarity=0.311  Sum_probs=24.7

Q ss_pred             HHHHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          178 MSNILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       178 ~~~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ...+++..+ .....+|||||||.|.++..++
T Consensus        39 ~~~Iv~~l~-~~~~~~VLEIG~G~G~lT~~La   69 (295)
T 3gru_A           39 VNKAVESAN-LTKDDVVLEIGLGKGILTEELA   69 (295)
T ss_dssp             HHHHHHHTT-CCTTCEEEEECCTTSHHHHHHH
T ss_pred             HHHHHHhcC-CCCcCEEEEECCCchHHHHHHH
Confidence            345566666 6677899999999999998875

>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=92.35  E-value=0.088  Score=39.07  Aligned_cols=22  Identities=9%  Similarity=-0.056  Sum_probs=18.2

Q ss_pred             CCCCCeEEEecCCccHHHHhhh
Q 036188          188 FDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       188 ~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      .....+|+|+|||.|.++..++
T Consensus        42 ~~~~~~vLD~GcG~G~~~~~~~   63 (187)
T 2fhp_A           42 YFDGGMALDLYSGSGGLAIEAV   63 (187)
T ss_dssp             CCSSCEEEETTCTTCHHHHHHH
T ss_pred             hcCCCCEEEeCCccCHHHHHHH
Confidence            4456799999999999988764

>2xvc_A ESCRT-III, SSO0910; cell cycle, cell division, cytokinesis, winged-helix; 2.15A {Sulfolobus solfataricus}

Probab=92.21  E-value=0.11  Score=31.71  Aligned_cols=46  Identities=11%  Similarity=0.160  Sum_probs=41.1

Q ss_pred             hhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceee
Q 036188           34 ELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVEC   85 (210)
Q Consensus        34 ~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~   85 (210)
                      +-.|.+.|..+|  |-+.++..|++.|+    +++-+..+||-|...|++.-
T Consensus        12 e~~lL~yIr~sG--GildI~~~a~kygV----~kdeV~~~LrrLe~KGLI~l   57 (59)
T 2xvc_A           12 ERELLDYIVNNG--GFLDIEHFSKVYGV----EKQEVVKLLEALKNKGLIAV   57 (59)
T ss_dssp             HHHHHHHHHHTT--SEEEHHHHHHHHCC----CHHHHHHHHHHHHHTTSEEE
T ss_pred             HHHHHHHHHHcC--CEEeHHHHHHHhCC----CHHHHHHHHHHHHHCCCeec
Confidence            445788888876  78999999999999    99999999999999999864

>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=92.09  E-value=0.074  Score=41.18  Aligned_cols=22  Identities=14%  Similarity=0.356  Sum_probs=18.4

Q ss_pred             CCCCCeEEEecCCccHHHHhhh
Q 036188          188 FDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       188 ~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      .....+|||||||+|.++..++
T Consensus        55 ~~~g~~VLDlGcGtG~~~~~la   76 (210)
T 1nt2_A           55 LRGDERVLYLGAASGTTVSHLA   76 (210)
T ss_dssp             CCSSCEEEEETCTTSHHHHHHH
T ss_pred             CCCCCEEEEECCcCCHHHHHHH
Confidence            5667899999999999887654

>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=91.95  E-value=0.15  Score=44.10  Aligned_cols=30  Identities=17%  Similarity=0.460  Sum_probs=24.4

Q ss_pred             HHHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          179 SNILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       179 ~~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ..+++.+. .....+|+|||||.|.+++.++
T Consensus       163 ~~il~~l~-l~~gd~VLDLGCGtG~l~l~lA  192 (438)
T 3uwp_A          163 AQMIDEIK-MTDDDLFVDLGSGVGQVVLQVA  192 (438)
T ss_dssp             HHHHHHHC-CCTTCEEEEESCTTSHHHHHHH
T ss_pred             HHHHHhcC-CCCCCEEEEeCCCCCHHHHHHH
Confidence            45566666 7788899999999999998775

>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=91.92  E-value=0.084  Score=40.90  Aligned_cols=21  Identities=14%  Similarity=0.196  Sum_probs=17.7

Q ss_pred             CCCeEEEecCCccHHHHhhhC
Q 036188          190 NIKQLVDVGGSLGVTLQAITT  210 (210)
Q Consensus       190 ~~~~vvDiGGg~G~~~~~l~~  210 (210)
                      ...+|||||||.|.++..+++
T Consensus        42 ~~~~vLDiGcG~G~~~~~l~~   62 (250)
T 2p7i_A           42 RPGNLLELGSFKGDFTSRLQE   62 (250)
T ss_dssp             CSSCEEEESCTTSHHHHHHTT
T ss_pred             CCCcEEEECCCCCHHHHHHHH
Confidence            456899999999999988753

>2pwy_A TRNA (adenine-N(1)-)-methyltransferase; mtase, adoMet, TRMI, tRNA-M1A58; HET: SAH; 1.70A {Thermus thermophilus}

Probab=91.91  E-value=0.12  Score=40.55  Aligned_cols=30  Identities=10%  Similarity=0.128  Sum_probs=24.6

Q ss_pred             HHHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          179 SNILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       179 ~~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ..++..++ +....+|||+|||.|.++..++
T Consensus        86 ~~~~~~~~-~~~~~~vLdiG~G~G~~~~~l~  115 (258)
T 2pwy_A           86 SAMVTLLD-LAPGMRVLEAGTGSGGLTLFLA  115 (258)
T ss_dssp             HHHHHHTT-CCTTCEEEEECCTTSHHHHHHH
T ss_pred             HHHHHHcC-CCCCCEEEEECCCcCHHHHHHH
Confidence            35666666 7788899999999999988775

>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=91.91  E-value=0.22  Score=38.27  Aligned_cols=20  Identities=15%  Similarity=0.122  Sum_probs=17.4

Q ss_pred             CCeEEEecCCccHHHHhhhC
Q 036188          191 IKQLVDVGGSLGVTLQAITT  210 (210)
Q Consensus       191 ~~~vvDiGGg~G~~~~~l~~  210 (210)
                      ..+|||||||.|.++..+++
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            67999999999999887753

>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=91.80  E-value=0.084  Score=40.56  Aligned_cols=20  Identities=20%  Similarity=0.333  Sum_probs=17.4

Q ss_pred             CCCeEEEecCCccHHHHhhh
Q 036188          190 NIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       190 ~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ...+|||||||.|.++..++
T Consensus        41 ~~~~vLDiGcG~G~~~~~la   60 (214)
T 1yzh_A           41 DNPIHVEVGSGKGAFVSGMA   60 (214)
T ss_dssp             CCCEEEEESCTTSHHHHHHH
T ss_pred             CCCeEEEEccCcCHHHHHHH
Confidence            46789999999999998775

>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=91.79  E-value=0.11  Score=40.50  Aligned_cols=21  Identities=10%  Similarity=0.278  Sum_probs=17.8

Q ss_pred             CCCCeEEEecCCccHHHHhhh
Q 036188          189 DNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       189 ~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ....+|||||||+|.++..+.
T Consensus        59 ~~~~~vLDiGcGtG~~~~~l~   79 (236)
T 1zx0_A           59 SKGGRVLEVGFGMAIAASKVQ   79 (236)
T ss_dssp             TTCEEEEEECCTTSHHHHHHH
T ss_pred             CCCCeEEEEeccCCHHHHHHH
Confidence            446799999999999998775

>2yvl_A TRMI protein, hypothetical protein; tRNA, methyltransferase, S-adenosylmethionine, structural GE NPPSFA; HET: SAM; 2.20A {Aquifex aeolicus}

Probab=91.77  E-value=0.13  Score=40.11  Aligned_cols=29  Identities=17%  Similarity=0.350  Sum_probs=23.3

Q ss_pred             HHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          180 NILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       180 ~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      .++...+ .....+|+|||||.|.++..++
T Consensus        82 ~~~~~~~-~~~~~~vldiG~G~G~~~~~l~  110 (248)
T 2yvl_A           82 YIALKLN-LNKEKRVLEFGTGSGALLAVLS  110 (248)
T ss_dssp             HHHHHTT-CCTTCEEEEECCTTSHHHHHHH
T ss_pred             HHHHhcC-CCCCCEEEEeCCCccHHHHHHH
Confidence            4455565 6777899999999999998775

>2g9w_A Conserved hypothetical protein; DNA-binding domain, bacterial transcription repressor, DNA B protein; 1.80A {Mycobacterium tuberculosis} SCOP: a.4.5.39

Probab=91.61  E-value=0.14  Score=36.84  Aligned_cols=48  Identities=17%  Similarity=0.094  Sum_probs=39.9

Q ss_pred             HhhChhhHHhhcCCCCCCCHHHHHHHhc----CCCCCCcccHHHHHHHHhcccceeee
Q 036188           33 YELGIFEILDKAGPGTKLSASDIAAQLL----TKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        33 ~~lglfd~L~~~g~~~~~t~~eLA~~~~----~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      .+..|...|....  ++.|+.||++.++    +    ++.-+.++|+-|...|++.+.
T Consensus        10 ~e~~vL~~L~~~~--~~~t~~el~~~l~~~~~~----~~~Tvt~~l~rLe~kGlv~r~   61 (138)
T 2g9w_A           10 LERAVMDHLWSRT--EPQTVRQVHEALSARRDL----AYTTVMAVLQRLAKKNLVLQI   61 (138)
T ss_dssp             HHHHHHHHHHTCS--SCEEHHHHHHHHTTTCCC----CHHHHHHHHHHHHHTTSEEEE
T ss_pred             HHHHHHHHHHhcC--CCCCHHHHHHHHhccCCC----CHHHHHHHHHHHHHCCCEEEE
Confidence            3455666676522  5999999999998    7    899999999999999999986

>2xig_A Ferric uptake regulation protein; hpfur, transcription, homeostasis; HET: CIT; 1.85A {Helicobacter pylori}

Probab=91.52  E-value=0.23  Score=36.42  Aligned_cols=62  Identities=21%  Similarity=0.304  Sum_probs=46.8

Q ss_pred             HHHhhChhhHHhhcCCCCCCCHHHHHHHh-----cCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceecc
Q 036188           31 AVYELGIFEILDKAGPGTKLSASDIAAQL-----LTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLN   99 (210)
Q Consensus        31 ~a~~lglfd~L~~~g~~~~~t~~eLA~~~-----~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t   99 (210)
                      +--+.-|++.|...+  ++.|++||.+.+     ++    +..-+.|.|+.|+..|++.+....+ +..+|..+
T Consensus        26 T~qR~~IL~~l~~~~--~~~sa~ei~~~l~~~~~~i----s~aTVYR~L~~L~e~Glv~~~~~~~-~~~~Y~~~   92 (150)
T 2xig_A           26 SKQREEVVSVLYRSG--THLSPEEITHSIRQKDKNT----SISSVYRILNFLEKENFISVLETSK-SGRRYEIA   92 (150)
T ss_dssp             HHHHHHHHHHHHHCS--SCBCHHHHHHHHHHHSTTC----CHHHHHHHHHHHHHTTSEEEEEETT-TEEEEEES
T ss_pred             CHHHHHHHHHHHhCC--CCCCHHHHHHHHHHhCCCC----CHhhHHHHHHHHHHCCcEEEEEeCC-CceEEEec
Confidence            334455788887754  699999999999     56    8889999999999999999864211 23357653

>1v4r_A Transcriptional repressor; helix-turn-helix, winged-helix, gene regulation; NMR {Streptomyces} SCOP: a.4.5.6

Probab=91.50  E-value=0.14  Score=34.78  Aligned_cols=52  Identities=29%  Similarity=0.310  Sum_probs=40.5

Q ss_pred             HHHHHHhhChhh-HHhhcCCCCCC-CHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           28 AIQAVYELGIFE-ILDKAGPGTKL-SASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        28 al~~a~~lglfd-~L~~~g~~~~~-t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      .+.-.++..|.+ .+.. |  ..+ |..+||+++++    +...+++-|+.|...|++...
T Consensus        15 ~l~~~i~~~I~~~~l~~-g--~~lps~~eLa~~~~v----Sr~tvr~al~~L~~~Gli~~~   68 (102)
T 1v4r_A           15 DVATHFRTLIKSGELAP-G--DTLPSVADIRAQFGV----AAKTVSRALAVLKSEGLVSSR   68 (102)
T ss_dssp             HHHHHHHHHTTTTSCCT-T--SBCCCHHHHHHHSSS----CTTHHHHHTTTTTTSSCCEEE
T ss_pred             HHHHHHHHHHHhCCCCC-c--CCCcCHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEEe
Confidence            444455555555 3333 2  466 99999999999    999999999999999999876

>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=91.47  E-value=0.12  Score=36.18  Aligned_cols=51  Identities=12%  Similarity=0.196  Sum_probs=39.6

Q ss_pred             HhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           33 YELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        33 ~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      .+..|...|.+.   +|.|..|||+.++.....++.-+.++++-|...|++.+.
T Consensus        11 ~q~~vL~~L~~~---~~~t~~el~~~l~~~~~~~~~Tvt~~l~rLe~kGlv~R~   61 (126)
T 1sd4_A           11 AEWDVMNIIWDK---KSVSANEIVVEIQKYKEVSDKTIRTLITRLYKKEIIKRY   61 (126)
T ss_dssp             HHHHHHHHHHHS---SSEEHHHHHHHHHTTSCCCHHHHHHHHHHHHHTTSEEEE
T ss_pred             HHHHHHHHHHhc---CCCCHHHHHHHHhhcCCCChhhHHHHHHHHHHCCceEEE
Confidence            345566667665   589999999999730011788999999999999999986

>3m33_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, MCSG, midwest center for structural genomics; 2.19A {Deinococcus radiodurans}

Probab=91.46  E-value=0.15  Score=39.43  Aligned_cols=21  Identities=10%  Similarity=0.177  Sum_probs=18.1

Q ss_pred             CCCCeEEEecCCccHHHHhhh
Q 036188          189 DNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       189 ~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ....+|||||||+|.++..++
T Consensus        47 ~~~~~vLDiGcG~G~~~~~l~   67 (226)
T 3m33_A           47 TPQTRVLEAGCGHGPDAARFG   67 (226)
T ss_dssp             CTTCEEEEESCTTSHHHHHHG
T ss_pred             CCCCeEEEeCCCCCHHHHHHH
Confidence            456799999999999998876

>3tfw_A Putative O-methyltransferase; PSI-biology, nysgrc, structural genomics, NEW YORK structura genomics research consortium; 1.88A {Klebsiella pneumoniae subsp}

Probab=91.45  E-value=0.027  Score=44.73  Aligned_cols=22  Identities=14%  Similarity=0.261  Sum_probs=18.8

Q ss_pred             CCCCeEEEecCCccHHHHhhhC
Q 036188          189 DNIKQLVDVGGSLGVTLQAITT  210 (210)
Q Consensus       189 ~~~~~vvDiGGg~G~~~~~l~~  210 (210)
                      .+..+|||||||.|..+..+++
T Consensus        62 ~~~~~VLdiG~G~G~~~~~la~   83 (248)
T 3tfw_A           62 TQAKRILEIGTLGGYSTIWMAR   83 (248)
T ss_dssp             HTCSEEEEECCTTSHHHHHHHT
T ss_pred             cCCCEEEEecCCchHHHHHHHH
Confidence            4578999999999999988763

>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=91.33  E-value=0.082  Score=41.75  Aligned_cols=21  Identities=19%  Similarity=0.357  Sum_probs=17.8

Q ss_pred             CCCCeEEEecCCccHHHHhhh
Q 036188          189 DNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       189 ~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      .+..+|||||||.|.++..++
T Consensus        45 ~~~~~vLDiGcG~G~~~~~la   65 (235)
T 3ckk_A           45 QAQVEFADIGCGYGGLLVELS   65 (235)
T ss_dssp             -CCEEEEEETCTTCHHHHHHG
T ss_pred             CCCCeEEEEccCCcHHHHHHH
Confidence            456789999999999998876

>2oxt_A Nucleoside-2'-O-methyltransferase; flavivirus, viral enzyme, RNA capping, S-adenosyl-L-methionine, viral protein; HET: SAM; 2.90A {Meaban virus}

Probab=91.29  E-value=0.19  Score=40.47  Aligned_cols=30  Identities=17%  Similarity=0.031  Sum_probs=22.3

Q ss_pred             HHHHhCCCCCCCCeEEEecCCccHHHHhhhC
Q 036188          180 NILESYKGFDNIKQLVDVGGSLGVTLQAITT  210 (210)
Q Consensus       180 ~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~~  210 (210)
                      .+.+... +....+|||||||+|.++..+++
T Consensus        65 ~i~~~~~-~~~g~~VLDlGcGtG~~s~~la~   94 (265)
T 2oxt_A           65 WMEERGY-VELTGRVVDLGCGRGGWSYYAAS   94 (265)
T ss_dssp             HHHHHTS-CCCCEEEEEESCTTSHHHHHHHT
T ss_pred             HHHHcCC-CCCCCEEEEeCcCCCHHHHHHHH
Confidence            3444432 56678999999999999887753

>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=91.29  E-value=0.083  Score=40.89  Aligned_cols=22  Identities=18%  Similarity=0.231  Sum_probs=18.9

Q ss_pred             CCCCCeEEEecCCccHHHHhhh
Q 036188          188 FDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       188 ~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      +....+|+|+|||+|.++..++
T Consensus        71 ~~~~~~vLDlG~G~G~~~~~la   92 (227)
T 1g8a_A           71 IKPGKSVLYLGIASGTTASHVS   92 (227)
T ss_dssp             CCTTCEEEEETTTSTTHHHHHH
T ss_pred             CCCCCEEEEEeccCCHHHHHHH
Confidence            5667899999999999988765

>2ipx_A RRNA 2'-O-methyltransferase fibrillarin; FBL, structural genomics, structural genomics consortium, SGC; HET: MTA; 1.82A {Homo sapiens}

Probab=91.24  E-value=0.062  Score=41.92  Aligned_cols=22  Identities=14%  Similarity=0.317  Sum_probs=19.1

Q ss_pred             CCCCCeEEEecCCccHHHHhhh
Q 036188          188 FDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       188 ~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      +....+|+|||||+|.++..++
T Consensus        75 ~~~~~~vLDlG~G~G~~~~~la   96 (233)
T 2ipx_A           75 IKPGAKVLYLGAASGTTVSHVS   96 (233)
T ss_dssp             CCTTCEEEEECCTTSHHHHHHH
T ss_pred             CCCCCEEEEEcccCCHHHHHHH
Confidence            5667899999999999988775

>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=91.22  E-value=0.18  Score=40.84  Aligned_cols=30  Identities=20%  Similarity=0.038  Sum_probs=22.3

Q ss_pred             HHHHhCCCCCCCCeEEEecCCccHHHHhhhC
Q 036188          180 NILESYKGFDNIKQLVDVGGSLGVTLQAITT  210 (210)
Q Consensus       180 ~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~~  210 (210)
                      .+.+... +....+|||||||+|.++..+++
T Consensus        73 ~i~~~~~-~~~g~~VLDlGcGtG~~s~~la~  102 (276)
T 2wa2_A           73 WIDERGG-VELKGTVVDLGCGRGSWSYYAAS  102 (276)
T ss_dssp             HHHHTTS-CCCCEEEEEESCTTCHHHHHHHT
T ss_pred             HHHHcCC-CCCCCEEEEeccCCCHHHHHHHH
Confidence            3344422 56678999999999999987753

>3g07_A 7SK snRNA methylphosphate capping enzyme; structural genomics consortium (SGC), methyltransferase, phosphoprotein, S-adenosyl-L-methionine; HET: SAM; 2.65A {Homo sapiens}

Probab=91.17  E-value=0.081  Score=42.98  Aligned_cols=22  Identities=18%  Similarity=0.335  Sum_probs=18.7

Q ss_pred             CCCCCeEEEecCCccHHHHhhh
Q 036188          188 FDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       188 ~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      +....+|||||||.|.++..++
T Consensus        44 ~~~~~~VLDiGCG~G~~~~~la   65 (292)
T 3g07_A           44 WFRGRDVLDLGCNVGHLTLSIA   65 (292)
T ss_dssp             GTTTSEEEEESCTTCHHHHHHH
T ss_pred             hcCCCcEEEeCCCCCHHHHHHH
Confidence            3457899999999999998875

>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=91.13  E-value=0.16  Score=34.62  Aligned_cols=49  Identities=18%  Similarity=0.306  Sum_probs=43.0

Q ss_pred             HhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           33 YELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        33 ~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      -|.-|+.+|.++| +.+++..||+.++++    +...+.++|+.|...+++.+.
T Consensus        38 ~E~lVy~~I~~aG-n~GIw~kdL~~~tnL----~~~~vtkiLK~LE~k~lIK~V   86 (95)
T 2yu3_A           38 QEKLVYQIIEDAG-NKGIWSRDVRYKSNL----PLTEINKILKNLESKKLIKAV   86 (95)
T ss_dssp             HHHHHHHHHHHHT-TSCEEHHHHHHHHTC----CHHHHHHHHHHHHHHTSEEEE
T ss_pred             HHHHHHHHHHHhC-CCCCCHHHHHHHhCC----CHHHHHHHHHHHHhCCCEEEe
Confidence            4555788888866 268999999999999    999999999999999999876

>3lcc_A Putative methyl chloride transferase; halide methyltransferase; HET: SAH; 1.80A {Arabidopsis thaliana}

Probab=91.11  E-value=0.15  Score=39.64  Aligned_cols=27  Identities=11%  Similarity=0.158  Sum_probs=19.8

Q ss_pred             HHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          181 ILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       181 ~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ++.... +++ .+|||||||.|.++..++
T Consensus        59 ~~~~~~-~~~-~~vLDiGcG~G~~~~~l~   85 (235)
T 3lcc_A           59 LVDTSS-LPL-GRALVPGCGGGHDVVAMA   85 (235)
T ss_dssp             HHHTTC-SCC-EEEEEETCTTCHHHHHHC
T ss_pred             HHHhcC-CCC-CCEEEeCCCCCHHHHHHH
Confidence            344443 443 499999999999998775

>1o9g_A RRNA methyltransferase; antibiotic resistance, Se-MAD; 1.5A {Streptomyces viridochromogenes} SCOP: c.66.1.29 PDB: 1o9h_A

Probab=91.05  E-value=0.14  Score=40.32  Aligned_cols=29  Identities=21%  Similarity=0.082  Sum_probs=21.2

Q ss_pred             HHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          180 NILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       180 ~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      .+++.++ -....+|+|+|||+|.++..++
T Consensus        42 ~~l~~~~-~~~~~~vLD~gcGsG~~~~~la   70 (250)
T 1o9g_A           42 RALARLP-GDGPVTLWDPCCGSGYLLTVLG   70 (250)
T ss_dssp             HHHHTSS-CCSCEEEEETTCTTSHHHHHHH
T ss_pred             HHHHhcc-cCCCCeEEECCCCCCHHHHHHH
Confidence            3344443 3356799999999999988775

>1ws6_A Methyltransferase; structural genomics, riken structural genomics/proteomics initiative, RSGI; 2.50A {Thermus thermophilus} SCOP: c.66.1.46

Probab=91.05  E-value=0.1  Score=38.09  Aligned_cols=20  Identities=10%  Similarity=-0.012  Sum_probs=17.4

Q ss_pred             CCCeEEEecCCccHHHHhhh
Q 036188          190 NIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       190 ~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ...+|+|+|||.|.++..++
T Consensus        41 ~~~~vLD~GcG~G~~~~~l~   60 (171)
T 1ws6_A           41 RRGRFLDPFAGSGAVGLEAA   60 (171)
T ss_dssp             TCCEEEEETCSSCHHHHHHH
T ss_pred             CCCeEEEeCCCcCHHHHHHH
Confidence            46799999999999988765

>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=91.02  E-value=0.16  Score=41.69  Aligned_cols=29  Identities=17%  Similarity=0.374  Sum_probs=23.0

Q ss_pred             HHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          180 NILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       180 ~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      .+++... .....+|+|||||.|.++..++
T Consensus        66 ~l~~~l~-~~~~~~VLDiGcG~G~~~~~la   94 (317)
T 1dl5_A           66 LFMEWVG-LDKGMRVLEIGGGTGYNAAVMS   94 (317)
T ss_dssp             HHHHHTT-CCTTCEEEEECCTTSHHHHHHH
T ss_pred             HHHHhcC-CCCcCEEEEecCCchHHHHHHH
Confidence            4455555 6677899999999999988765

>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=90.96  E-value=0.13  Score=40.34  Aligned_cols=53  Identities=13%  Similarity=0.134  Sum_probs=43.0

Q ss_pred             CCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceeccccccccc
Q 036188           48 TKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSVSKYYV  106 (210)
Q Consensus        48 ~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~~s~~l~  106 (210)
                      ++.|..++|+++++    ++..+.|.++.|...|+|.+..+.  ....+.+|+.++.+.
T Consensus        26 ~~~s~s~aA~~L~i----sq~avSr~I~~LE~~~L~~R~~~~--R~~~v~LT~~G~~l~   78 (230)
T 3cta_A           26 AYLTSSKLADMLGI----SQQSASRIIIDLEKNGYITRTVTK--RGQILNITEKGLDVL   78 (230)
T ss_dssp             EECCHHHHHHHHTS----CHHHHHHHHHHHHHTTSEEEEEET--TEEEEEECHHHHHHH
T ss_pred             CCcCHHHHHHHHCC----CHHHHHHHHHHHHHCCCEEEEEcC--CeEEEEECHHHHHHH
Confidence            47899999999999    999999999999999999986210  145577888777554

>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=90.88  E-value=0.18  Score=40.45  Aligned_cols=30  Identities=17%  Similarity=0.203  Sum_probs=24.3

Q ss_pred             HHHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          179 SNILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       179 ~~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ..++..++ +....+|||+|||+|.++..++
T Consensus       102 ~~i~~~~~-~~~~~~VLDiG~G~G~~~~~la  131 (277)
T 1o54_A          102 SFIAMMLD-VKEGDRIIDTGVGSGAMCAVLA  131 (277)
T ss_dssp             HHHHHHTT-CCTTCEEEEECCTTSHHHHHHH
T ss_pred             HHHHHHhC-CCCCCEEEEECCcCCHHHHHHH
Confidence            35566666 7778899999999999988775

>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=90.87  E-value=0.25  Score=33.98  Aligned_cols=41  Identities=17%  Similarity=0.126  Sum_probs=35.3

Q ss_pred             HHHhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhc
Q 036188           31 AVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLAS   79 (210)
Q Consensus        31 ~a~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~   79 (210)
                      .+.++||+..|..    +++|-.|||+.+|+    +...+.|+=|.|..
T Consensus        44 l~~R~~l~~~L~~----ge~TQREIA~~lGi----S~stISRi~r~L~~   84 (101)
T 1jhg_A           44 LGTRVRIIEELLR----GEMSQRELKNELGA----GIATITRGSNSLKA   84 (101)
T ss_dssp             HHHHHHHHHHHHH----CCSCHHHHHHHHCC----CHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHc----CCcCHHHHHHHHCC----ChhhhhHHHHHHHH
Confidence            4566899999988    68999999999999    99999999877754

>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=90.82  E-value=0.17  Score=39.40  Aligned_cols=22  Identities=18%  Similarity=0.303  Sum_probs=18.6

Q ss_pred             CCCCCeEEEecCCccHHHHhhh
Q 036188          188 FDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       188 ~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      .....+|||||||.|.++..++
T Consensus        54 ~~~~~~vLD~GcG~G~~~~~la   75 (245)
T 3ggd_A           54 FNPELPLIDFACGNGTQTKFLS   75 (245)
T ss_dssp             SCTTSCEEEETCTTSHHHHHHH
T ss_pred             cCCCCeEEEEcCCCCHHHHHHH
Confidence            4566789999999999998775

>4b8x_A SCO5413, possible MARR-transcriptional regulator; winged helix motif; HET: CME; 1.25A {Streptomyces coelicolor}

Probab=90.64  E-value=0.11  Score=37.76  Aligned_cols=36  Identities=19%  Similarity=0.254  Sum_probs=33.8

Q ss_pred             CCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeec
Q 036188           48 TKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSL   87 (210)
Q Consensus        48 ~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~   87 (210)
                      +++|..|||+.+++    ++..+.++++-|...|++++..
T Consensus        50 ~~~t~~eLa~~l~~----~~~tvs~~v~~Le~~Glv~r~~   85 (147)
T 4b8x_A           50 GELPMSKIGERLMV----HPTSVTNTVDRLVRSGLVAKRP   85 (147)
T ss_dssp             GEEEHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEEEE
T ss_pred             CCcCHHHHHHHHCC----CHHHHHHHHHHHHhCCCEEEee
Confidence            58999999999999    9999999999999999999763

>3tma_A Methyltransferase; thump domain; 2.05A {Thermus thermophilus}

Probab=90.59  E-value=0.2  Score=41.81  Aligned_cols=31  Identities=10%  Similarity=-0.038  Sum_probs=25.1

Q ss_pred             HHHHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          178 MSNILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       178 ~~~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      +..++.... |....+|+|+|||+|.++++++
T Consensus       192 a~~l~~~~~-~~~~~~vLD~gcGsG~~~ie~a  222 (354)
T 3tma_A          192 AQALLRLAD-ARPGMRVLDPFTGSGTIALEAA  222 (354)
T ss_dssp             HHHHHHHTT-CCTTCCEEESSCTTSHHHHHHH
T ss_pred             HHHHHHHhC-CCCCCEEEeCCCCcCHHHHHHH
Confidence            445566666 8888999999999999998875

>3lpm_A Putative methyltransferase; structural genomics, protein structure initiative, NEW YORK structural genomix research consortium, nysgxrc; 2.40A {Listeria monocytogenes}

Probab=90.59  E-value=0.2  Score=39.79  Aligned_cols=23  Identities=13%  Similarity=0.276  Sum_probs=19.8

Q ss_pred             CC-CCCeEEEecCCccHHHHhhhC
Q 036188          188 FD-NIKQLVDVGGSLGVTLQAITT  210 (210)
Q Consensus       188 ~~-~~~~vvDiGGg~G~~~~~l~~  210 (210)
                      .. ...+|||||||+|.++..+++
T Consensus        46 ~~~~~~~vLDlG~G~G~~~~~la~   69 (259)
T 3lpm_A           46 LPIRKGKIIDLCSGNGIIPLLLST   69 (259)
T ss_dssp             CCSSCCEEEETTCTTTHHHHHHHT
T ss_pred             CCCCCCEEEEcCCchhHHHHHHHH
Confidence            66 678999999999999988753

>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=90.59  E-value=0.22  Score=42.39  Aligned_cols=51  Identities=16%  Similarity=0.260  Sum_probs=43.5

Q ss_pred             HHHHHhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           29 IQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        29 l~~a~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      ++..-+..|++.|.+.   +++|..|||+++++    ++.-+.++++-|...|++.+.
T Consensus        13 ~r~~n~~~il~~l~~~---~~~sr~~la~~~~l----s~~tv~~~v~~L~~~g~i~~~   63 (406)
T 1z6r_A           13 IKQTNAGAVYRLIDQL---GPVSRIDLSRLAQL----APASITKIVHEMLEAHLVQEL   63 (406)
T ss_dssp             HHHHHHHHHHHHHHSS---CSCCHHHHHHHTTC----CHHHHHHHHHHHHHHTSEEEC
T ss_pred             HHHhHHHHHHHHHHHc---CCcCHHHHHHHHCC----CHHHHHHHHHHHHHCCcEEee
Confidence            3334445578888876   59999999999999    999999999999999999885

>3m70_A Tellurite resistance protein TEHB homolog; structural genomics, PSI-2, protein ST initiative; 1.95A {Haemophilus influenzae}

Probab=90.55  E-value=0.088  Score=42.28  Aligned_cols=21  Identities=14%  Similarity=0.164  Sum_probs=18.1

Q ss_pred             CCCCeEEEecCCccHHHHhhh
Q 036188          189 DNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       189 ~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ....+|||||||.|.++..++
T Consensus       119 ~~~~~vLD~GcG~G~~~~~l~  139 (286)
T 3m70_A          119 ISPCKVLDLGCGQGRNSLYLS  139 (286)
T ss_dssp             SCSCEEEEESCTTCHHHHHHH
T ss_pred             cCCCcEEEECCCCCHHHHHHH
Confidence            357899999999999998775

>2qe6_A Uncharacterized protein TFU_2867; putative methyltransferase, structural genomics, joint cente structural genomics, JCSG; HET: NEP SAM; 1.95A {Thermobifida fusca}

Probab=90.49  E-value=0.2  Score=40.38  Aligned_cols=20  Identities=30%  Similarity=0.451  Sum_probs=15.7

Q ss_pred             CCCCeEEEecCCc---cHHHHhh
Q 036188          189 DNIKQLVDVGGSL---GVTLQAI  208 (210)
Q Consensus       189 ~~~~~vvDiGGg~---G~~~~~l  208 (210)
                      .+..+|||||||.   |.+...+
T Consensus        76 ~~~~~vLDlGcG~pt~G~~~~~~   98 (274)
T 2qe6_A           76 AGISQFLDLGSGLPTVQNTHEVA   98 (274)
T ss_dssp             TCCCEEEEETCCSCCSSCHHHHH
T ss_pred             cCCCEEEEECCCCCCCChHHHHH
Confidence            3568999999999   9876543

>1fx7_A Iron-dependent repressor IDER; DTXR, iron-dependent regulator, signaling protein; 2.00A {Mycobacterium tuberculosis} SCOP: a.4.5.24 a.76.1.1 b.34.1.2 PDB: 1u8r_A

Probab=90.39  E-value=0.14  Score=40.30  Aligned_cols=48  Identities=10%  Similarity=0.108  Sum_probs=41.5

Q ss_pred             CCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceeccccccccc
Q 036188           50 LSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSVSKYYV  106 (210)
Q Consensus        50 ~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~~s~~l~  106 (210)
                      .+..+||+++++    ++..+.+.++-|...|++++.     ....+.+|+.++.+.
T Consensus        25 ~~~~~La~~l~v----s~~tvs~~l~~Le~~GlV~r~-----~~~~v~LT~~G~~~~   72 (230)
T 1fx7_A           25 PLRARIAERLDQ----SGPTVSQTVSRMERDGLLRVA-----GDRHLELTEKGRALA   72 (230)
T ss_dssp             CCHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEEC-----TTSCEEECHHHHHHH
T ss_pred             CcHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEEe-----CCccEEECHHHHHHH
Confidence            345999999999    999999999999999999987     356788999887554

>3i71_A Ethanolamine utilization protein EUTK; helix-turn-helix, unknown function; HET: FLC; 2.10A {Escherichia coli}

Probab=90.36  E-value=0.77  Score=28.03  Aligned_cols=50  Identities=18%  Similarity=0.154  Sum_probs=41.2

Q ss_pred             HHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceecccc
Q 036188           40 ILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSV  101 (210)
Q Consensus        40 ~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~~  101 (210)
                      .|+.-.  .++|+.|+|+..++    +-+..+.-|.-|-..|-+.+.      .-+|++-|.
T Consensus        11 ll~s~~--QGMTaGEVAA~f~w----~Le~ar~aLeqLf~~G~LRKR------sSRYrlkph   60 (68)
T 3i71_A           11 LLTSVR--QGMTAGEVAAHFGW----PLEKARNALEQLFSAGTLRKR------SSRYRLKPH   60 (68)
T ss_dssp             HHHHCT--TCBCHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEEE------CCEEEECC-
T ss_pred             HHHHHh--ccccHHHHHHHhCC----cHHHHHHHHHHHHhcchhhhh------ccccccCcc
Confidence            444433  69999999999999    999999999999999999986      677876653

>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=90.31  E-value=0.15  Score=40.50  Aligned_cols=21  Identities=24%  Similarity=0.276  Sum_probs=18.0

Q ss_pred             CCCCeEEEecCCccHHHHhhh
Q 036188          189 DNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       189 ~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ....+|+|||||+|.+++.++
T Consensus       119 ~~~~~VLDiGcG~G~l~~~la  139 (254)
T 2nxc_A          119 RPGDKVLDLGTGSGVLAIAAE  139 (254)
T ss_dssp             CTTCEEEEETCTTSHHHHHHH
T ss_pred             CCCCEEEEecCCCcHHHHHHH
Confidence            456799999999999988765

>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=90.16  E-value=0.1  Score=41.10  Aligned_cols=22  Identities=14%  Similarity=0.353  Sum_probs=18.7

Q ss_pred             CCCCCeEEEecCCccHHHHhhh
Q 036188          188 FDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       188 ~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      .....+|||||||.|.++..++
T Consensus        47 ~~~~~~vLDiGcG~G~~~~~la   68 (246)
T 2vdv_E           47 MTKKVTIADIGCGFGGLMIDLS   68 (246)
T ss_dssp             BSCCEEEEEETCTTSHHHHHHH
T ss_pred             CCCCCEEEEEcCCCCHHHHHHH
Confidence            3566899999999999998775

>3p9n_A Possible methyltransferase (methylase); RV2966C, adoMet binding, RNA methylase, RSMD, SAM-fold, RNA methyltransferase; 1.90A {Mycobacterium tuberculosis}

Probab=90.14  E-value=0.12  Score=38.70  Aligned_cols=20  Identities=10%  Similarity=-0.066  Sum_probs=17.0

Q ss_pred             CCCeEEEecCCccHHHHhhh
Q 036188          190 NIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       190 ~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ...+|+|+|||+|.++..++
T Consensus        44 ~~~~vLDlgcG~G~~~~~~~   63 (189)
T 3p9n_A           44 TGLAVLDLYAGSGALGLEAL   63 (189)
T ss_dssp             TTCEEEEETCTTCHHHHHHH
T ss_pred             CCCEEEEeCCCcCHHHHHHH
Confidence            46799999999999988654

>3tqn_A Transcriptional regulator, GNTR family; regulatory functions; 2.80A {Coxiella burnetii}

Probab=90.13  E-value=0.3  Score=33.92  Aligned_cols=35  Identities=17%  Similarity=0.285  Sum_probs=32.5

Q ss_pred             CCC-CHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           48 TKL-SASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        48 ~~~-t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      ..+ |..+||+++|+    +...+++-++.|...|+++..
T Consensus        31 ~~lPs~~~La~~~~v----Sr~tvr~al~~L~~~Gli~~~   66 (113)
T 3tqn_A           31 EMIPSIRKISTEYQI----NPLTVSKAYQSLLDDNVIEKR   66 (113)
T ss_dssp             CEECCHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEEE
T ss_pred             CcCcCHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEEe
Confidence            456 89999999999    999999999999999999876

>3mwm_A ZUR, putative metal uptake regulation protein; FUR, regulatory metal, graded transcription regulation, transcription; 2.40A {Streptomyces coelicolor}

Probab=90.08  E-value=0.24  Score=35.82  Aligned_cols=65  Identities=18%  Similarity=0.122  Sum_probs=46.6

Q ss_pred             HHhhChhhHHhhcCCCCCCCHHHHHHHhcCC-CCCCcccHHHHHHHHhcccceeeeccCCCcccceecc
Q 036188           32 VYELGIFEILDKAGPGTKLSASDIAAQLLTK-NKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLN   99 (210)
Q Consensus        32 a~~lglfd~L~~~g~~~~~t~~eLA~~~~~~-~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t   99 (210)
                      .-+.-|++.|...+  ++.|++||.+.+.-+ +.++..-+.|-|+.|+..|++.+.... ++..+|..+
T Consensus        14 ~qR~~Il~~L~~~~--~h~sa~eI~~~l~~~~~~is~aTVYR~L~~L~e~Glv~~~~~~-~g~~~Y~~~   79 (139)
T 3mwm_A           14 RQRAAVSAALQEVE--EFRSAQELHDMLKHKGDAVGLTTVYRTLQSLADAGEVDVLRTA-EGESVYRRC   79 (139)
T ss_dssp             HHHHHHHHHHTTCS--SCEEHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTSSEEEECT-TSCEEEECC
T ss_pred             HHHHHHHHHHHhCC--CCCCHHHHHHHHHHhCCCCCHHHHHHHHHHHHHCCCEEEEEcC-CCceEEEEC
Confidence            34566788887754  699999999998410 112888999999999999999987421 123457654

>3q7e_A Protein arginine N-methyltransferase 1; HET: SAH; 2.20A {Rattus norvegicus} PDB: 1orh_A* 1ori_A* 1or8_A*

Probab=90.03  E-value=0.11  Score=43.46  Aligned_cols=20  Identities=25%  Similarity=0.333  Sum_probs=17.4

Q ss_pred             CCCeEEEecCCccHHHHhhh
Q 036188          190 NIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       190 ~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ...+|||||||.|.++..++
T Consensus        66 ~~~~VLDvGcG~G~~~~~la   85 (349)
T 3q7e_A           66 KDKVVLDVGSGTGILCMFAA   85 (349)
T ss_dssp             TTCEEEEESCTTSHHHHHHH
T ss_pred             CCCEEEEEeccchHHHHHHH
Confidence            46799999999999988765

>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=90.02  E-value=0.26  Score=40.44  Aligned_cols=30  Identities=17%  Similarity=0.279  Sum_probs=22.6

Q ss_pred             HHHHHhCCCCC-CCCeEEEecCCccHHHHhhh
Q 036188          179 SNILESYKGFD-NIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       179 ~~~l~~~~~~~-~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ..+++.+. .. ...+++|||||+|.++..++
T Consensus        74 ~~~l~~~~-~~~~g~~vLDiGcGTG~~t~~L~  104 (291)
T 3hp7_A           74 EKALAVFN-LSVEDMITIDIGASTGGFTDVML  104 (291)
T ss_dssp             HHHHHHTT-CCCTTCEEEEETCTTSHHHHHHH
T ss_pred             HHHHHhcC-CCccccEEEecCCCccHHHHHHH
Confidence            34566665 44 45799999999999997764

>4dcm_A Ribosomal RNA large subunit methyltransferase G; 23S rRNA (guanine1835-N2)-methyltransferase; HET: SAM; 2.30A {Escherichia coli}

Probab=90.02  E-value=0.21  Score=42.34  Aligned_cols=29  Identities=17%  Similarity=0.174  Sum_probs=22.5

Q ss_pred             HHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          180 NILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       180 ~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      .+++.++ .....+|+|||||.|.+++.++
T Consensus       213 ~ll~~l~-~~~~~~VLDlGcG~G~~s~~la  241 (375)
T 4dcm_A          213 FFMQHLP-ENLEGEIVDLGCGNGVIGLTLL  241 (375)
T ss_dssp             HHHHTCC-CSCCSEEEEETCTTCHHHHHHH
T ss_pred             HHHHhCc-ccCCCeEEEEeCcchHHHHHHH
Confidence            3466665 4445899999999999998875

>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=90.00  E-value=0.099  Score=42.51  Aligned_cols=20  Identities=25%  Similarity=0.436  Sum_probs=17.3

Q ss_pred             CCCeEEEecCCccHHHHhhh
Q 036188          190 NIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       190 ~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ...+|+|||||+|.+++.++
T Consensus       123 ~~~~vLDlG~GsG~~~~~la  142 (284)
T 1nv8_A          123 GIKTVADIGTGSGAIGVSVA  142 (284)
T ss_dssp             TCCEEEEESCTTSHHHHHHH
T ss_pred             CCCEEEEEeCchhHHHHHHH
Confidence            35699999999999998875

>2pjp_A Selenocysteine-specific elongation factor; SELB, protein-RNA complex, elongation factor, winged- helix, bulge, translation/RNA complex; 2.30A {Escherichia coli}

Probab=89.99  E-value=0.18  Score=35.61  Aligned_cols=51  Identities=16%  Similarity=0.128  Sum_probs=40.1

Q ss_pred             ChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceecc
Q 036188           36 GIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLN   99 (210)
Q Consensus        36 glfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t   99 (210)
                      .|...+..    .|.++.|||+.+++    ++..+..+|+.|+..|.+.+.     ..+.|-++
T Consensus        11 ~i~~~~~~----~p~~~~~la~~~~~----~~~~~~~~l~~l~~~G~l~~i-----~~~~~~~~   61 (121)
T 2pjp_A           11 KAEPLFGD----EPWWVRDLAKETGT----DEQAMRLTLRQAAQQGIITAI-----VKDRYYRN   61 (121)
T ss_dssp             HHGGGCSS----SCEEHHHHHHHTTC----CHHHHHHHHHHHHHTTSEEEE-----ETTEEEEH
T ss_pred             HHHHHHHh----CCCCHHHHHHHhCC----CHHHHHHHHHHHHHCCCEEEe-----cCCceECH
Confidence            34455543    37799999999999    999999999999999999887     35555443

>3l8d_A Methyltransferase; structural genomics, PSI, nysgrc, protein structure initiative, NEW YORK SGX research center for STRU genomics; 1.70A {Bacillus thuringiensis}

Probab=89.92  E-value=0.14  Score=39.67  Aligned_cols=21  Identities=19%  Similarity=0.286  Sum_probs=18.0

Q ss_pred             CCCCeEEEecCCccHHHHhhh
Q 036188          189 DNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       189 ~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ....+|||||||.|.++..++
T Consensus        52 ~~~~~vLDiG~G~G~~~~~l~   72 (242)
T 3l8d_A           52 KKEAEVLDVGCGDGYGTYKLS   72 (242)
T ss_dssp             CTTCEEEEETCTTSHHHHHHH
T ss_pred             CCCCeEEEEcCCCCHHHHHHH
Confidence            456799999999999988775

>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=89.91  E-value=0.26  Score=32.08  Aligned_cols=36  Identities=17%  Similarity=0.128  Sum_probs=33.1

Q ss_pred             CCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           48 TKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        48 ~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      +.+++.++|++++++   ..|++..++.+|.++|++++.
T Consensus        29 ~~i~l~~aa~~L~v~---~kRRiYDI~NVLe~igli~K~   64 (76)
T 1cf7_A           29 GVLDLKLAADTLAVR---QKRRIYDITNVLEGIGLIEKK   64 (76)
T ss_dssp             TEEEHHHHHHHTTTC---CTHHHHHHHHHHHHHTSEEEE
T ss_pred             CcCcHHHHHHHhCCc---cceehhhHHHHHhHhcceeec
Confidence            689999999999994   578999999999999999987

>3bzb_A Uncharacterized protein; RED ALGA, protein structure initiat center for eukaryotic structural genomics, CESG, structural genomics; 2.79A {Cyanidioschyzon merolae}

Probab=89.87  E-value=0.17  Score=40.88  Aligned_cols=21  Identities=14%  Similarity=0.140  Sum_probs=17.7

Q ss_pred             CCCCeEEEecCCccHHHHhhh
Q 036188          189 DNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       189 ~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ....+|+|||||+|.+++.++
T Consensus        78 ~~~~~vLDlG~G~G~~~~~~a   98 (281)
T 3bzb_A           78 IAGKTVCELGAGAGLVSIVAF   98 (281)
T ss_dssp             TTTCEEEETTCTTSHHHHHHH
T ss_pred             cCCCeEEEecccccHHHHHHH
Confidence            456799999999999988764

>2a14_A Indolethylamine N-methyltransferase; SGC,INMT, structural genomics, structural genomics consortium; HET: SAH; 1.70A {Homo sapiens} SCOP: c.66.1.15

Probab=89.85  E-value=0.11  Score=41.31  Aligned_cols=20  Identities=15%  Similarity=0.131  Sum_probs=15.6

Q ss_pred             CCCCeEEEecCCccHHHHhh
Q 036188          189 DNIKQLVDVGGSLGVTLQAI  208 (210)
Q Consensus       189 ~~~~~vvDiGGg~G~~~~~l  208 (210)
                      ....+|||||||+|.++..+
T Consensus        54 ~~g~~vLDiGCG~G~~~~~~   73 (263)
T 2a14_A           54 LQGDTLIDIGSGPTIYQVLA   73 (263)
T ss_dssp             CCEEEEEESSCTTCCGGGTT
T ss_pred             CCCceEEEeCCCccHHHHHH
Confidence            45678999999999776543

>3grz_A L11 mtase, ribosomal protein L11 methyltransferase; methylase, SAM-binding domain, PSI-2, nysgxrc; 2.00A {Lactobacillus delbrueckii subsp}

Probab=89.75  E-value=0.15  Score=38.64  Aligned_cols=21  Identities=24%  Similarity=0.218  Sum_probs=17.8

Q ss_pred             CCCCeEEEecCCccHHHHhhh
Q 036188          189 DNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       189 ~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ....+|||||||.|.++..++
T Consensus        59 ~~~~~vLDiG~G~G~~~~~l~   79 (205)
T 3grz_A           59 VKPLTVADVGTGSGILAIAAH   79 (205)
T ss_dssp             SSCCEEEEETCTTSHHHHHHH
T ss_pred             cCCCEEEEECCCCCHHHHHHH
Confidence            456799999999999988764

>3r0q_C Probable protein arginine N-methyltransferase 4.2; arginine methyltransferase, methylation; HET: SAH; 2.61A {Arabidopsis thaliana}

Probab=89.73  E-value=0.37  Score=40.64  Aligned_cols=22  Identities=23%  Similarity=0.169  Sum_probs=18.9

Q ss_pred             CCCCCeEEEecCCccHHHHhhh
Q 036188          188 FDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       188 ~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      .....+|||||||+|.++..++
T Consensus        61 ~~~~~~VLDlGcGtG~ls~~la   82 (376)
T 3r0q_C           61 HFEGKTVLDVGTGSGILAIWSA   82 (376)
T ss_dssp             TTTTCEEEEESCTTTHHHHHHH
T ss_pred             cCCCCEEEEeccCcCHHHHHHH
Confidence            5567899999999999988765

>3h2b_A SAM-dependent methyltransferase; alpha-beta protein, structural genomics, PSI-2, protein structure initiative; HET: SAH; 2.00A {Corynebacterium glutamicum atcc 13032}

Probab=89.68  E-value=0.12  Score=38.96  Aligned_cols=19  Identities=21%  Similarity=0.244  Sum_probs=16.8

Q ss_pred             CCeEEEecCCccHHHHhhh
Q 036188          191 IKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       191 ~~~vvDiGGg~G~~~~~l~  209 (210)
                      ..+|||||||.|.++..++
T Consensus        42 ~~~vLDiGcG~G~~~~~l~   60 (203)
T 3h2b_A           42 DGVILDVGSGTGRWTGHLA   60 (203)
T ss_dssp             CSCEEEETCTTCHHHHHHH
T ss_pred             CCeEEEecCCCCHHHHHHH
Confidence            5699999999999988775

>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=89.66  E-value=0.16  Score=41.78  Aligned_cols=23  Identities=17%  Similarity=0.030  Sum_probs=19.4

Q ss_pred             CCCCCeEEEecCCccHHHHhhhC
Q 036188          188 FDNIKQLVDVGGSLGVTLQAITT  210 (210)
Q Consensus       188 ~~~~~~vvDiGGg~G~~~~~l~~  210 (210)
                      +....+|||||||+|.++..+++
T Consensus        80 ~~~g~~VLDlGcG~G~~s~~la~  102 (305)
T 2p41_A           80 VTPEGKVVDLGCGRGGWSYYCGG  102 (305)
T ss_dssp             SCCCEEEEEETCTTSHHHHHHHT
T ss_pred             CCCCCEEEEEcCCCCHHHHHHHh
Confidence            55668999999999999887763

>2qlz_A Transcription factor PF0095; 2.50A {Pyrococcus furiosus} PDB: 2quf_A

Probab=89.51  E-value=0.55  Score=37.17  Aligned_cols=52  Identities=10%  Similarity=0.093  Sum_probs=42.6

Q ss_pred             hChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceecc
Q 036188           35 LGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLN   99 (210)
Q Consensus        35 lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t   99 (210)
                      .-|.-.|..    ++.|+++||+.+|+    +++-+...|.-|...|++++.     .+|+....
T Consensus       168 ~~l~~~l~~----~~~t~~~la~~~~l----~~~~V~~~l~~L~~~~~v~~~-----~~~~~~~~  219 (232)
T 2qlz_A          168 AILHYLLLN----GRATVEELSDRLNL----KEREVREKISEMARFVPVKII-----NDNTVVLD  219 (232)
T ss_dssp             HHHHHHHHS----SEEEHHHHHHHHTC----CHHHHHHHHHHHTTTSCEEEE-----TTTEEEEC
T ss_pred             HHHHHHHhc----CCCCHHHHHHHhCc----CHHHHHHHHHHHHhcCCeEEe-----cCCeEEec
Confidence            334445655    69999999999999    999999999999999999866     46666554

>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=89.42  E-value=0.19  Score=39.71  Aligned_cols=21  Identities=24%  Similarity=0.325  Sum_probs=18.1

Q ss_pred             CCCeEEEecCCccHHHHhhhC
Q 036188          190 NIKQLVDVGGSLGVTLQAITT  210 (210)
Q Consensus       190 ~~~~vvDiGGg~G~~~~~l~~  210 (210)
                      ...+|||||||.|.++..+++
T Consensus        54 ~~~~vLDiGcG~G~~~~~l~~   74 (260)
T 2avn_A           54 NPCRVLDLGGGTGKWSLFLQE   74 (260)
T ss_dssp             SCCEEEEETCTTCHHHHHHHT
T ss_pred             CCCeEEEeCCCcCHHHHHHHH
Confidence            567999999999999987753

>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=89.39  E-value=0.23  Score=41.07  Aligned_cols=29  Identities=14%  Similarity=0.185  Sum_probs=23.0

Q ss_pred             HHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          180 NILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       180 ~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      .++..++ .....+|||||||+|.++..++
T Consensus        96 ~~l~~l~-~~~g~~VLDiG~G~G~~~~~la  124 (336)
T 2b25_A           96 MILSMMD-INPGDTVLEAGSGSGGMSLFLS  124 (336)
T ss_dssp             HHHHHHT-CCTTCEEEEECCTTSHHHHHHH
T ss_pred             HHHHhcC-CCCCCEEEEeCCCcCHHHHHHH
Confidence            4455555 6677899999999999988775

>3c3p_A Methyltransferase; NP_951602.1, structural genomics, joint for structural genomics, JCSG, protein structure initiative transferase; 1.90A {Geobacter sulfurreducens pca}

Probab=89.30  E-value=0.2  Score=38.15  Aligned_cols=21  Identities=19%  Similarity=0.158  Sum_probs=17.9

Q ss_pred             CCCeEEEecCCccHHHHhhhC
Q 036188          190 NIKQLVDVGGSLGVTLQAITT  210 (210)
Q Consensus       190 ~~~~vvDiGGg~G~~~~~l~~  210 (210)
                      +..+|||||||.|..+..+++
T Consensus        56 ~~~~vLdiG~G~G~~~~~la~   76 (210)
T 3c3p_A           56 QPQLVVVPGDGLGCASWWFAR   76 (210)
T ss_dssp             CCSEEEEESCGGGHHHHHHHT
T ss_pred             CCCEEEEEcCCccHHHHHHHH
Confidence            457999999999999988763

>2ek5_A Predicted transcriptional regulators; helix-turn-helix, interwined alpha helices; 2.20A {Corynebacterium glutamicum atcc 13032} PDB: 2du9_A

Probab=89.28  E-value=0.53  Score=33.60  Aligned_cols=35  Identities=20%  Similarity=0.205  Sum_probs=32.7

Q ss_pred             CCC-CHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           48 TKL-SASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        48 ~~~-t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      ..+ |..+||+.+|+    +...+++-++.|...|++...
T Consensus        26 ~~LPse~~La~~~gv----Sr~tVr~Al~~L~~~Gli~~~   61 (129)
T 2ek5_A           26 QRVPSTNELAAFHRI----NPATARNGLTLLVEAGILYKK   61 (129)
T ss_dssp             SCBCCHHHHHHHTTC----CHHHHHHHHHHHHTTTSEEEE
T ss_pred             CcCcCHHHHHHHHCc----CHHHHHHHHHHHHHCCcEEEe
Confidence            566 89999999999    999999999999999999876

>2pxx_A Uncharacterized protein MGC2408; structural genomics consortium, SGC, methyltransferase, LOC84291, transferase; HET: SAH; 1.30A {Homo sapiens}

Probab=89.19  E-value=0.14  Score=38.79  Aligned_cols=21  Identities=5%  Similarity=-0.004  Sum_probs=18.0

Q ss_pred             CCCCeEEEecCCccHHHHhhh
Q 036188          189 DNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       189 ~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ....+|||||||.|.++..++
T Consensus        41 ~~~~~vLdiGcG~G~~~~~l~   61 (215)
T 2pxx_A           41 RPEDRILVLGCGNSALSYELF   61 (215)
T ss_dssp             CTTCCEEEETCTTCSHHHHHH
T ss_pred             CCCCeEEEECCCCcHHHHHHH
Confidence            456799999999999988765

>2vxz_A Pyrsv_GP04; viral protein, SSPF, ORF165A; 1.7A {Pyrobaculum spherical virus}

Probab=89.16  E-value=0.3  Score=35.94  Aligned_cols=45  Identities=16%  Similarity=0.038  Sum_probs=40.3

Q ss_pred             hhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           34 ELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        34 ~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      +-.|.++|.+    |+.|..+||+++|+    +-..+.-.|..|...|++.+.
T Consensus        13 k~~ILE~Lk~----G~~~t~~Iak~LGl----Shg~aq~~Ly~LeREG~V~~V   57 (165)
T 2vxz_A           13 LRDILALLAD----GCKTTSLIQQRLGL----SHGRAKALIYVLEKEGRVTRV   57 (165)
T ss_dssp             HHHHHHHHTT----CCEEHHHHHHHHTC----CHHHHHHHHHHHHHTTSCEEE
T ss_pred             HHHHHHHHHh----CCccHHHHHHHhCC----cHHHHHHHHHHHHhcCceEEE
Confidence            3457788884    79999999999999    999999999999999999887

>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=89.12  E-value=0.4  Score=38.31  Aligned_cols=28  Identities=18%  Similarity=0.328  Sum_probs=21.0

Q ss_pred             HHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          180 NILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       180 ~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      .+++.++  ....+|+|||||+|.++..++
T Consensus       101 ~~l~~~~--~~~~~vLDlG~GsG~~~~~la  128 (276)
T 2b3t_A          101 QALARLP--EQPCRILDLGTGTGAIALALA  128 (276)
T ss_dssp             HHHHHSC--SSCCEEEEETCTTSHHHHHHH
T ss_pred             HHHHhcc--cCCCEEEEecCCccHHHHHHH
Confidence            4445443  345799999999999998775

>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=89.09  E-value=0.16  Score=38.44  Aligned_cols=21  Identities=24%  Similarity=0.196  Sum_probs=17.9

Q ss_pred             CCCCeEEEecCCccHHHHhhh
Q 036188          189 DNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       189 ~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ....+|+|+|||.|.++..++
T Consensus        48 ~~~~~vlD~g~G~G~~~~~l~   68 (207)
T 1wy7_A           48 IEGKVVADLGAGTGVLSYGAL   68 (207)
T ss_dssp             STTCEEEEETCTTCHHHHHHH
T ss_pred             CCcCEEEEeeCCCCHHHHHHH
Confidence            456799999999999988765

>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=89.08  E-value=0.15  Score=38.90  Aligned_cols=19  Identities=11%  Similarity=-0.165  Sum_probs=16.2

Q ss_pred             CCeEEEecCCccHHHHhhh
Q 036188          191 IKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       191 ~~~vvDiGGg~G~~~~~l~  209 (210)
                      ..+|||+|||+|.++..++
T Consensus        54 ~~~vLDlGcGtG~~~~~~~   72 (201)
T 2ift_A           54 QSECLDGFAGSGSLGFEAL   72 (201)
T ss_dssp             TCEEEETTCTTCHHHHHHH
T ss_pred             CCeEEEcCCccCHHHHHHH
Confidence            4699999999999988653

>2pjd_A Ribosomal RNA small subunit methyltransferase C; gene duplication, RNA modification, SAM binding; 2.10A {Escherichia coli}

Probab=89.03  E-value=0.17  Score=42.09  Aligned_cols=30  Identities=23%  Similarity=0.288  Sum_probs=22.8

Q ss_pred             HHHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          179 SNILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       179 ~~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ..+++.++ .....+|+|||||.|.++..++
T Consensus       186 ~~ll~~l~-~~~~~~VLDlGcG~G~~~~~la  215 (343)
T 2pjd_A          186 QLLLSTLT-PHTKGKVLDVGCGAGVLSVAFA  215 (343)
T ss_dssp             HHHHHHSC-TTCCSBCCBTTCTTSHHHHHHH
T ss_pred             HHHHHhcC-cCCCCeEEEecCccCHHHHHHH
Confidence            45566664 4445799999999999998775

>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=89.03  E-value=0.14  Score=40.66  Aligned_cols=25  Identities=12%  Similarity=0.197  Sum_probs=21.1

Q ss_pred             hCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          184 SYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       184 ~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      .++ .+...+|+|||||+|.++..++
T Consensus        72 ~l~-ikpG~~VldlG~G~G~~~~~la   96 (233)
T 4df3_A           72 ELP-VKEGDRILYLGIASGTTASHMS   96 (233)
T ss_dssp             CCC-CCTTCEEEEETCTTSHHHHHHH
T ss_pred             hcC-CCCCCEEEEecCcCCHHHHHHH
Confidence            344 7788999999999999988775

>3tr6_A O-methyltransferase; cellular processes; HET: SAH; 2.70A {Coxiella burnetii} SCOP: c.66.1.0

Probab=89.00  E-value=0.22  Score=38.26  Aligned_cols=21  Identities=24%  Similarity=0.400  Sum_probs=18.0

Q ss_pred             CCCeEEEecCCccHHHHhhhC
Q 036188          190 NIKQLVDVGGSLGVTLQAITT  210 (210)
Q Consensus       190 ~~~~vvDiGGg~G~~~~~l~~  210 (210)
                      +..+|||||||.|..+..+++
T Consensus        64 ~~~~vLdiG~G~G~~~~~la~   84 (225)
T 3tr6_A           64 QAKKVIDIGTFTGYSAIAMGL   84 (225)
T ss_dssp             TCSEEEEECCTTSHHHHHHHT
T ss_pred             CCCEEEEeCCcchHHHHHHHH
Confidence            467999999999999988763

>2qq9_A Diphtheria toxin repressor; regulator, DTXR, helix-turn-helix, metal ION, ACT DNA-binding, ferrous iron, transcription; 1.71A {Corynebacterium diphtheriae} PDB: 2tdx_A 1ddn_A 1g3t_A 1g3s_A 1g3w_A 2qqa_A 2qqb_A 2dtr_A 1bi0_A 1bi2_A 1bi3_A 1dpr_A 1bi1_A 1fwz_A 1g3y_A 1c0w_A* 3glx_A 1p92_A 1xcv_A 1f5t_A ...

Probab=88.97  E-value=0.32  Score=38.13  Aligned_cols=49  Identities=10%  Similarity=0.117  Sum_probs=42.6

Q ss_pred             CCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceeccccccccc
Q 036188           49 KLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSVSKYYV  106 (210)
Q Consensus        49 ~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~~s~~l~  106 (210)
                      +.+..+||+++++    ++..+.+.++-|...|++++.     ....+.+|+.++.+.
T Consensus        24 ~~~~~~la~~l~v----s~~tvs~~l~~Le~~GlV~r~-----~~~~v~LT~~G~~~~   72 (226)
T 2qq9_A           24 TPLRARIAERLEQ----SGPTVSQTVARMERDGLVVVA-----SDRSLQMTPTGRTLA   72 (226)
T ss_dssp             CCBHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEEC-----TTSBEEECHHHHHHH
T ss_pred             CccHHHHHHHHCC----CHHHHHHHHHHHHHCCCEEEe-----CCCCeEECHHHHHHH
Confidence            4466999999999    999999999999999999987     456789999887654

>1xdz_A Methyltransferase GIDB; MCSG, protein structure initiative, structural genomics, methyltransferase fold, PSI; 1.60A {Bacillus subtilis} SCOP: c.66.1.20

Probab=88.94  E-value=0.14  Score=40.17  Aligned_cols=22  Identities=27%  Similarity=0.584  Sum_probs=18.3

Q ss_pred             CCCCCeEEEecCCccHHHHhhh
Q 036188          188 FDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       188 ~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      +....+|+|||||+|..+..++
T Consensus        68 ~~~~~~vLDiG~G~G~~~~~la   89 (240)
T 1xdz_A           68 FNQVNTICDVGAGAGFPSLPIK   89 (240)
T ss_dssp             GGGCCEEEEECSSSCTTHHHHH
T ss_pred             cCCCCEEEEecCCCCHHHHHHH
Confidence            4567899999999999887764

>3duw_A OMT, O-methyltransferase, putative; alternating of alpha and beta with complex SAH; HET: SAH; 1.20A {Bacillus cereus} PDB: 3dul_A*

Probab=88.93  E-value=0.22  Score=38.21  Aligned_cols=22  Identities=9%  Similarity=0.255  Sum_probs=18.6

Q ss_pred             CCCCeEEEecCCccHHHHhhhC
Q 036188          189 DNIKQLVDVGGSLGVTLQAITT  210 (210)
Q Consensus       189 ~~~~~vvDiGGg~G~~~~~l~~  210 (210)
                      .+..+|||||||.|..+..+++
T Consensus        57 ~~~~~vLdiG~G~G~~~~~la~   78 (223)
T 3duw_A           57 QGARNILEIGTLGGYSTIWLAR   78 (223)
T ss_dssp             HTCSEEEEECCTTSHHHHHHHT
T ss_pred             hCCCEEEEecCCccHHHHHHHH
Confidence            3568999999999999988763

>3ntv_A MW1564 protein; rossmann fold, putative methyltransferase, transferase; HET: MSE; 1.55A {Staphylococcus aureus}

Probab=88.92  E-value=0.23  Score=38.73  Aligned_cols=22  Identities=18%  Similarity=0.600  Sum_probs=18.7

Q ss_pred             CCCCeEEEecCCccHHHHhhhC
Q 036188          189 DNIKQLVDVGGSLGVTLQAITT  210 (210)
Q Consensus       189 ~~~~~vvDiGGg~G~~~~~l~~  210 (210)
                      .+..+|||||||.|..+..+++
T Consensus        70 ~~~~~vLDiG~G~G~~~~~la~   91 (232)
T 3ntv_A           70 NNVKNILEIGTAIGYSSMQFAS   91 (232)
T ss_dssp             HTCCEEEEECCSSSHHHHHHHT
T ss_pred             cCCCEEEEEeCchhHHHHHHHH
Confidence            3567999999999999988763

>3bxo_A N,N-dimethyltransferase; desosamine, sugar, carbohydrate, antibiotic, SAM, adoMet; HET: SAM UPP; 2.00A {Streptomyces venezuelae}

Probab=88.92  E-value=0.18  Score=38.92  Aligned_cols=21  Identities=29%  Similarity=0.412  Sum_probs=17.8

Q ss_pred             CCCCeEEEecCCccHHHHhhh
Q 036188          189 DNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       189 ~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ....+|||||||.|.++..++
T Consensus        39 ~~~~~vLdiG~G~G~~~~~l~   59 (239)
T 3bxo_A           39 PEASSLLDVACGTGTHLEHFT   59 (239)
T ss_dssp             TTCCEEEEETCTTSHHHHHHH
T ss_pred             CCCCeEEEecccCCHHHHHHH
Confidence            446799999999999998775

>4esf_A PADR-like transcriptional regulator; PADR family, DNA binding protein, HTH fold; 2.20A {Bacillus cereus}

Probab=88.89  E-value=0.72  Score=32.30  Aligned_cols=70  Identities=20%  Similarity=0.259  Sum_probs=49.6

Q ss_pred             HHHHHHhhChhhHHhhcCCCCCCCHHHHHHHh------cCCCCCCcccHHHHHHHHhcccceeeeccC-C--Ccccceec
Q 036188           28 AIQAVYELGIFEILDKAGPGTKLSASDIAAQL------LTKNKDAPMMLDRILRLLASYSVVECSLDA-S--GARRLYSL   98 (210)
Q Consensus        28 al~~a~~lglfd~L~~~g~~~~~t~~eLA~~~------~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~-~--~~~~~y~~   98 (210)
                      .++-.+++=|.-.|.+    +|.+--||++.+      ++    ++..+...|+-|...|+++..... +  -..-.|++
T Consensus         7 l~~g~l~~~IL~lL~~----~p~~Gyei~~~l~~~g~~~i----s~gtlY~~L~rLe~~GlI~~~~~~~~~g~~rk~Y~L   78 (117)
T 4esf_A            7 MLKGSLEGCVLEIISR----RETYGYEITRHLNDLGFTEV----VEGTVYTILVRLEKKKLVNIEKKPSDMGPPRKFYSL   78 (117)
T ss_dssp             HHHHHHHHHHHHHHHH----SCBCHHHHHHHHHHHTCTTC----CHHHHHHHHHHHHHTTCEEEEEEC-----CEEEEEE
T ss_pred             HHHChHHHHHHHHHHc----CCCCHHHHHHHHHHcCCCCC----CccHHHHHHHHHHHCCCEEEEeecCCCCCCceEEEE
Confidence            3344445555666777    699999999998      67    999999999999999999875210 0  01123778


Q ss_pred             ccccccc
Q 036188           99 NSVSKYY  105 (210)
Q Consensus        99 t~~s~~l  105 (210)
                      |+.++..
T Consensus        79 T~~G~~~   85 (117)
T 4esf_A           79 NEAGRQE   85 (117)
T ss_dssp             CHHHHHH
T ss_pred             CHHHHHH
Confidence            7777643

>1bia_A BIRA bifunctional protein; transcription regulation; 2.30A {Escherichia coli} SCOP: a.4.5.1 b.34.1.1 d.104.1.2 PDB: 1bib_A* 1hxd_A* 2ewn_A*

Probab=88.77  E-value=0.48  Score=39.23  Aligned_cols=56  Identities=16%  Similarity=0.255  Sum_probs=43.9

Q ss_pred             hhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceeccc
Q 036188           34 ELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNS  100 (210)
Q Consensus        34 ~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~  100 (210)
                      +..|.+.|.+.   +++|.+|||+++++    +++.++|-++.|...|++.+..    ....|.+.+
T Consensus         7 ~~~Il~~L~~~---~~~s~~eLa~~l~v----S~~ti~r~l~~L~~~G~~i~~~----~g~GY~l~~   62 (321)
T 1bia_A            7 PLKLIALLANG---EFHSGEQLGETLGM----SRAAINKHIQTLRDWGVDVFTV----PGKGYSLPE   62 (321)
T ss_dssp             HHHHHHHHTTS---SCBCHHHHHHHHTS----CHHHHHHHHHHHHHTTCCCEEE----TTTEEECSS
T ss_pred             HHHHHHHHHcC---CCcCHHHHHHHHCC----CHHHHHHHHHHHHhCCCcEEEe----cCCCcEEee
Confidence            34567778653   58999999999999    9999999999999999986541    233576654

>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=88.77  E-value=0.23  Score=38.22  Aligned_cols=21  Identities=10%  Similarity=0.243  Sum_probs=18.2

Q ss_pred             CCCeEEEecCCccHHHHhhhC
Q 036188          190 NIKQLVDVGGSLGVTLQAITT  210 (210)
Q Consensus       190 ~~~~vvDiGGg~G~~~~~l~~  210 (210)
                      +..+|||||||.|..+..+++
T Consensus        58 ~~~~vLdiG~G~G~~~~~la~   78 (221)
T 3u81_A           58 SPSLVLELGAYCGYSAVRMAR   78 (221)
T ss_dssp             CCSEEEEECCTTSHHHHHHHT
T ss_pred             CCCEEEEECCCCCHHHHHHHH
Confidence            467999999999999988763

>1ne2_A Hypothetical protein TA1320; structural genomics, conserved hypothetical protein, PSI, protein structure initiative; 1.75A {Thermoplasma acidophilum} SCOP: c.66.1.32

Probab=88.71  E-value=0.16  Score=38.36  Aligned_cols=22  Identities=14%  Similarity=0.095  Sum_probs=18.3

Q ss_pred             CCCCCeEEEecCCccHHHHhhh
Q 036188          188 FDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       188 ~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      .....+|+|||||.|.++..++
T Consensus        49 ~~~~~~vlD~gcG~G~~~~~l~   70 (200)
T 1ne2_A           49 NIGGRSVIDAGTGNGILACGSY   70 (200)
T ss_dssp             SSBTSEEEEETCTTCHHHHHHH
T ss_pred             CCCCCEEEEEeCCccHHHHHHH
Confidence            3456799999999999988764

>3neu_A LIN1836 protein; structural genomics, PSI-2, protein structure initiative, MI center for structural genomics, MCSG, unknown function; 1.58A {Listeria innocua}

Probab=88.69  E-value=0.59  Score=33.05  Aligned_cols=43  Identities=16%  Similarity=0.211  Sum_probs=36.0

Q ss_pred             CCC-CHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceec
Q 036188           48 TKL-SASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSL   98 (210)
Q Consensus        48 ~~~-t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~   98 (210)
                      ..+ |..+||+++|+    +..-+++-++.|...|++....    +.|.|..
T Consensus        35 ~~Lps~~~La~~~~v----Sr~tvr~Al~~L~~~G~i~~~~----g~G~~V~   78 (125)
T 3neu_A           35 DKLPSVREMGVKLAV----NPNTVSRAYQELERAGYIYAKR----GMGSFVT   78 (125)
T ss_dssp             CBCCCHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEEET----TTEEEEC
T ss_pred             CCCCCHHHHHHHHCc----CHHHHHHHHHHHHHCCeEEEec----CCEEEEe
Confidence            456 69999999999    9999999999999999998763    3455543

>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=88.62  E-value=0.21  Score=39.66  Aligned_cols=22  Identities=14%  Similarity=0.312  Sum_probs=18.3

Q ss_pred             CCCCCeEEEecCCccHHHHhhh
Q 036188          188 FDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       188 ~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      .....+|+|||||+|..++.++
T Consensus        78 ~~~~~~vLDiG~G~G~~~i~la   99 (249)
T 3g89_A           78 WQGPLRVLDLGTGAGFPGLPLK   99 (249)
T ss_dssp             CCSSCEEEEETCTTTTTHHHHH
T ss_pred             cCCCCEEEEEcCCCCHHHHHHH
Confidence            4567899999999999887664

>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=88.61  E-value=0.16  Score=40.50  Aligned_cols=21  Identities=0%  Similarity=-0.156  Sum_probs=18.0

Q ss_pred             CCCCeEEEecCCccHHHHhhh
Q 036188          189 DNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       189 ~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ....+|||||||.|..+..|+
T Consensus        67 ~~~~~vLD~GCG~G~~~~~La   87 (252)
T 2gb4_A           67 QSGLRVFFPLCGKAIEMKWFA   87 (252)
T ss_dssp             CCSCEEEETTCTTCTHHHHHH
T ss_pred             CCCCeEEEeCCCCcHHHHHHH
Confidence            356799999999999998775

>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=88.60  E-value=0.17  Score=39.45  Aligned_cols=20  Identities=15%  Similarity=0.097  Sum_probs=17.6

Q ss_pred             CCCeEEEecCCccHHHHhhh
Q 036188          190 NIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       190 ~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ...+|+|||||+|.++..++
T Consensus        78 ~~~~vLD~gcG~G~~~~~la   97 (241)
T 3gdh_A           78 KCDVVVDAFCGVGGNTIQFA   97 (241)
T ss_dssp             CCSEEEETTCTTSHHHHHHH
T ss_pred             CCCEEEECccccCHHHHHHH
Confidence            46799999999999998875

>3by6_A Predicted transcriptional regulator; structural genomics, PSI-2, MCSG, structure initiative, midwest center for structural genomic binding; 2.20A {Oenococcus oeni}

Probab=88.57  E-value=0.39  Score=34.13  Aligned_cols=35  Identities=20%  Similarity=0.230  Sum_probs=32.8

Q ss_pred             CCC-CHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           48 TKL-SASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        48 ~~~-t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      ..+ |..+||+++|+    +...+++-++.|...|++...
T Consensus        33 ~~lPse~~La~~~~v----Sr~tvr~Al~~L~~~Gli~~~   68 (126)
T 3by6_A           33 DQLPSVRETALQEKI----NPNTVAKAYKELEAQKVIRTI   68 (126)
T ss_dssp             CEECCHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEEE
T ss_pred             CcCcCHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEEe
Confidence            567 99999999999    999999999999999999876

>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=88.50  E-value=0.31  Score=38.90  Aligned_cols=21  Identities=19%  Similarity=0.232  Sum_probs=17.4

Q ss_pred             CCCCeEEEecCCccHHHHhhh
Q 036188          189 DNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       189 ~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ....+|||||||.|.++..++
T Consensus        63 ~~~~~vLDiGcG~G~~~~~l~   83 (298)
T 1ri5_A           63 KRGDSVLDLGCGKGGDLLKYE   83 (298)
T ss_dssp             CTTCEEEEETCTTTTTHHHHH
T ss_pred             CCCCeEEEECCCCCHHHHHHH
Confidence            456799999999998887654

>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=88.49  E-value=0.25  Score=39.93  Aligned_cols=21  Identities=29%  Similarity=0.441  Sum_probs=18.4

Q ss_pred             CCCeEEEecCCccHHHHhhhC
Q 036188          190 NIKQLVDVGGSLGVTLQAITT  210 (210)
Q Consensus       190 ~~~~vvDiGGg~G~~~~~l~~  210 (210)
                      +..+|+|||||.|.++.++++
T Consensus        75 ~~~~VLdiG~G~G~~~~~l~~   95 (275)
T 1iy9_A           75 NPEHVLVVGGGDGGVIREILK   95 (275)
T ss_dssp             SCCEEEEESCTTCHHHHHHTT
T ss_pred             CCCEEEEECCchHHHHHHHHh
Confidence            468999999999999998864

>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=88.42  E-value=0.38  Score=37.11  Aligned_cols=22  Identities=18%  Similarity=0.282  Sum_probs=18.5

Q ss_pred             CCCCCeEEEecCCccHHHHhhh
Q 036188          188 FDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       188 ~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      .....+|+|||||.|.++..++
T Consensus        82 ~~~~~~VLdiG~G~G~~~~~la  103 (227)
T 1r18_A           82 LKPGARILDVGSGSGYLTACFY  103 (227)
T ss_dssp             CCTTCEEEEESCTTSHHHHHHH
T ss_pred             CCCCCEEEEECCCccHHHHHHH
Confidence            4556799999999999988765

>2fpo_A Methylase YHHF; structural genomics, putative methyltransferase, PSI, protei structure initiative; HET: MSE; 2.05A {Escherichia coli} SCOP: c.66.1.46

Probab=88.18  E-value=0.19  Score=38.38  Aligned_cols=19  Identities=16%  Similarity=-0.095  Sum_probs=16.4

Q ss_pred             CCeEEEecCCccHHHHhhh
Q 036188          191 IKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       191 ~~~vvDiGGg~G~~~~~l~  209 (210)
                      ..+|||+|||+|.++..++
T Consensus        55 ~~~vLDlgcG~G~~~~~l~   73 (202)
T 2fpo_A           55 DAQCLDCFAGSGALGLEAL   73 (202)
T ss_dssp             TCEEEETTCTTCHHHHHHH
T ss_pred             CCeEEEeCCCcCHHHHHHH
Confidence            4699999999999988754

>2p8t_A Hypothetical protein PH0730; pyrococcus horikoshii OT3, STR genomics, PSI, protein structure initiative; 1.80A {Pyrococcus horikoshii} SCOP: a.4.5.72 d.74.4.2

Probab=88.12  E-value=0.3  Score=37.84  Aligned_cols=47  Identities=19%  Similarity=0.193  Sum_probs=41.4

Q ss_pred             CCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceeccccccc
Q 036188           48 TKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSVSKY  104 (210)
Q Consensus        48 ~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~~s~~  104 (210)
                      +|++..+||+++++    .+.-++..++.|...|+++..      .+...+|+.++.
T Consensus        29 ~~V~~~~LA~~Lgv----S~~SV~~~lkkL~e~GLV~~~------~~Gv~LTe~G~~   75 (200)
T 2p8t_A           29 EPLGRKQISERLEL----GEGSVRTLLRKLSHLDIIRSK------QRGHFLTLKGKE   75 (200)
T ss_dssp             SCBCHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEEC--------CEEECHHHHH
T ss_pred             CCccHHHHHHHhCC----CHHHHHHHHHHHHHCCCEEEe------CCCeEECHHHHH
Confidence            48999999999999    999999999999999999986      478888888763

>3f8b_A Transcriptional regulator, PADR-like family; winged helix turn helix, transcription regulator; 2.00A {Lactococcus lactis subsp} SCOP: a.4.5.0 PDB: 3f8c_A* 3f8f_A*

Probab=88.09  E-value=0.95  Score=31.54  Aligned_cols=71  Identities=15%  Similarity=0.220  Sum_probs=50.0

Q ss_pred             HHHHHHHhhChhhHHhhcCCCCCCCHHHHHHHh--------cCCCCCCcccHHHHHHHHhcccceeeeccC---CCcccc
Q 036188           27 MAIQAVYELGIFEILDKAGPGTKLSASDIAAQL--------LTKNKDAPMMLDRILRLLASYSVVECSLDA---SGARRL   95 (210)
Q Consensus        27 ~al~~a~~lglfd~L~~~g~~~~~t~~eLA~~~--------~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~---~~~~~~   95 (210)
                      +.++-..++=|...|.+    +|.+--||++.+        ++    ++..+.+.|+-|...|+++.....   +-..-.
T Consensus         7 ~~~~g~l~~~IL~~L~~----~~~~Gyei~~~l~~~~~~~~~i----~~gtly~~L~rLe~~GlI~~~~~~~~~~~~rk~   78 (116)
T 3f8b_A            7 EMLRAQTNVILLNVLKQ----GDNYVYGIIKQVKEASNGEMEL----NEATLYTIFKRLEKDGIISSYWGDESQGGRRKY   78 (116)
T ss_dssp             HHHHHHHHHHHHHHHHH----CCBCHHHHHHHHHHHTTTCCCC----CHHHHHHHHHHHHHTTSEEEEEEC----CCEEE
T ss_pred             HHHhchHHHHHHHHHHh----CCCCHHHHHHHHHHHhCCCCCC----CcchHHHHHHHHHHCCCEEEEeeccCCCCCceE
Confidence            34444455556667877    699999999988        56    899999999999999999865210   001123


Q ss_pred             eecccccccc
Q 036188           96 YSLNSVSKYY  105 (210)
Q Consensus        96 y~~t~~s~~l  105 (210)
                      |++|+.++..
T Consensus        79 Y~LT~~G~~~   88 (116)
T 3f8b_A           79 YRLTEIGHEN   88 (116)
T ss_dssp             EEECHHHHHH
T ss_pred             EEECHHHHHH
Confidence            7777777643

>1xma_A Predicted transcriptional regulator; southea collaboratory for structural genomics, secsg, protein struc initiative, PSI; 2.30A {Clostridium thermocellum} SCOP: a.4.5.61

Probab=87.95  E-value=0.34  Score=35.44  Aligned_cols=66  Identities=12%  Similarity=0.152  Sum_probs=47.4

Q ss_pred             HHhhChhhHHhhcCCCCCCCHHHHHHHh--------cCCCCCCcccHHHHHHHHhcccceeeeccC---CCcccceeccc
Q 036188           32 VYELGIFEILDKAGPGTKLSASDIAAQL--------LTKNKDAPMMLDRILRLLASYSVVECSLDA---SGARRLYSLNS  100 (210)
Q Consensus        32 a~~lglfd~L~~~g~~~~~t~~eLA~~~--------~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~---~~~~~~y~~t~  100 (210)
                      -.++-|...|.+    +|++..||++.+        ++    ++..|.+.|+-|...|+++.....   +-..-.|.+|+
T Consensus        41 ~~~~~IL~~L~~----~~~~gyeI~~~l~~~~~~~~~i----s~gtLy~~L~rLE~~GlI~~~~~~~~~~~~rk~Y~LT~  112 (145)
T 1xma_A           41 YVDTIILSLLIE----GDSYGYEISKNIRIKTDELYVI----KETTLYSAFARLEKNGYIKSYYGEETQGKRRTYYRITP  112 (145)
T ss_dssp             THHHHHHHHHHH----CCEEHHHHHHHHHHHHTTSCCC----CHHHHHHHHHHHHHTTSEEEEEEEEC--CEEEEEEECH
T ss_pred             cHHHHHHHHHHh----CCCCHHHHHHHHHHhhCCccCc----ChhHHHHHHHHHHHCCCEEEEEeccCCCCCeEEEEECH
Confidence            345566667776    599999999988        47    999999999999999999865210   00112477777


Q ss_pred             ccccc
Q 036188          101 VSKYY  105 (210)
Q Consensus       101 ~s~~l  105 (210)
                      .++.+
T Consensus       113 ~G~~~  117 (145)
T 1xma_A          113 EGIKY  117 (145)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            76643

>3elk_A Putative transcriptional regulator TA0346; structural genomics, PSI-2, prote structure initiative; 1.70A {Thermoplasma acidophilum}

Probab=87.93  E-value=0.59  Score=32.77  Aligned_cols=71  Identities=11%  Similarity=0.200  Sum_probs=51.7

Q ss_pred             HHHHHHhhChhhHHhhcCCCCCCCHHHHHHHhc------CCCCCCcccHHHHHHHHhcccceeeecc-CC--Ccccceec
Q 036188           28 AIQAVYELGIFEILDKAGPGTKLSASDIAAQLL------TKNKDAPMMLDRILRLLASYSVVECSLD-AS--GARRLYSL   98 (210)
Q Consensus        28 al~~a~~lglfd~L~~~g~~~~~t~~eLA~~~~------~~~~~~~~~l~rlLr~L~~~gl~~~~~~-~~--~~~~~y~~   98 (210)
                      .+.-..++-|...|.+    +|.+.-||++.+.      +    ++..+.+.|+-|...|+++.... .+  ...-.|++
T Consensus        10 l~~g~l~~~IL~lL~~----~p~~gyel~~~l~~~~~~~i----~~gtly~~L~~Le~~GlI~~~~~~~~~~~~rk~Y~l   81 (117)
T 3elk_A           10 ILHGLITLYILKELVK----RPMHGYELQKSMFETTGQAL----PQGSIYILLKTMKERGFVISESSVNEKGQQLTVYHI   81 (117)
T ss_dssp             HHHHHHHHHHHHHHHH----SCEEHHHHHHHHHHHHSCCC----CTTHHHHHHHHHHHHTSEEEEEEEC-CCCEEEEEEE
T ss_pred             HHhhHHHHHHHHHHHc----CCCCHHHHHHHHHHHhCCCC----CcchHHHHHHHHHHCCCEEEEeeecCCCCCceEEEE
Confidence            4444556666777877    6999999999987      7    88999999999999999986521 00  01124888


Q ss_pred             cccccccc
Q 036188           99 NSVSKYYV  106 (210)
Q Consensus        99 t~~s~~l~  106 (210)
                      |+.++...
T Consensus        82 T~~G~~~l   89 (117)
T 3elk_A           82 TDAGKKFL   89 (117)
T ss_dssp             CHHHHHHH
T ss_pred             CHHHHHHH
Confidence            88887443

>2v79_A DNA replication protein DNAD; primosome, DNA-binding protein; HET: DNA; 2.00A {Bacillus subtilis}

Probab=87.88  E-value=0.3  Score=35.35  Aligned_cols=35  Identities=6%  Similarity=-0.018  Sum_probs=32.6

Q ss_pred             CCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           48 TKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        48 ~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      ...|.++||+++++    ++.-+.+++..|...|++...
T Consensus        50 ~~ps~~~LA~~~~~----s~~~v~~~L~~L~~KGlI~i~   84 (135)
T 2v79_A           50 YFPTPNQLQEGMSI----SVEECTNRLRMFIQKGFLFIE   84 (135)
T ss_dssp             CSCCHHHHHTTSSS----CHHHHHHHHHHHHHHTSCEEE
T ss_pred             CCCCHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEEE
Confidence            35799999999999    999999999999999999874

>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=87.83  E-value=0.27  Score=40.30  Aligned_cols=22  Identities=18%  Similarity=0.351  Sum_probs=19.0

Q ss_pred             CCCCeEEEecCCccHHHHhhhC
Q 036188          189 DNIKQLVDVGGSLGVTLQAITT  210 (210)
Q Consensus       189 ~~~~~vvDiGGg~G~~~~~l~~  210 (210)
                      .+..+|||||||.|.++..+++
T Consensus        94 ~~~~~VLdiG~G~G~~~~~l~~  115 (304)
T 3bwc_A           94 PKPERVLIIGGGDGGVLREVLR  115 (304)
T ss_dssp             SSCCEEEEEECTTSHHHHHHHT
T ss_pred             CCCCeEEEEcCCCCHHHHHHHh
Confidence            4568999999999999998764

>2b0l_A GTP-sensing transcriptional pleiotropic repressor; CODY, DNA-binding, nucleotide-binding, transcript regulation, winged HTH motif.; 2.90A {Bacillus subtilis} SCOP: a.4.5.66

Probab=87.77  E-value=0.41  Score=32.75  Aligned_cols=35  Identities=31%  Similarity=0.303  Sum_probs=32.5

Q ss_pred             CCC-CHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           48 TKL-SASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        48 ~~~-t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      +.+ |..+||+++++    +...+++-|+.|...|++...
T Consensus        41 ~~lps~~eLa~~lgV----Sr~tVr~al~~L~~~GlI~~~   76 (102)
T 2b0l_A           41 EGLLVASKIADRVGI----TRSVIVNALRKLESAGVIESR   76 (102)
T ss_dssp             EEEECHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEEE
T ss_pred             CcCCCHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEEE
Confidence            455 99999999999    999999999999999999876

>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=87.77  E-value=0.22  Score=39.13  Aligned_cols=19  Identities=21%  Similarity=0.265  Sum_probs=16.6

Q ss_pred             CCeEEEecCCccHHHHhhh
Q 036188          191 IKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       191 ~~~vvDiGGg~G~~~~~l~  209 (210)
                      ..+|||||||+|..+..++
T Consensus        82 ~~~VLDiG~GtG~~t~~la  100 (236)
T 2bm8_A           82 PRTIVELGVYNGGSLAWFR  100 (236)
T ss_dssp             CSEEEEECCTTSHHHHHHH
T ss_pred             CCEEEEEeCCCCHHHHHHH
Confidence            4699999999999988765

>3evz_A Methyltransferase; NYSGXRC, NEW YORK SGX research CE structural genomics, protein structure initiative, pyrococc furiosus, PSI-2; 2.20A {Pyrococcus furiosus}

Probab=87.65  E-value=0.25  Score=38.02  Aligned_cols=22  Identities=5%  Similarity=0.084  Sum_probs=18.9

Q ss_pred             CCCCCeEEEecCC-ccHHHHhhh
Q 036188          188 FDNIKQLVDVGGS-LGVTLQAIT  209 (210)
Q Consensus       188 ~~~~~~vvDiGGg-~G~~~~~l~  209 (210)
                      .+...+|+||||| +|.++..++
T Consensus        53 ~~~~~~vLDlG~G~~G~~~~~la   75 (230)
T 3evz_A           53 LRGGEVALEIGTGHTAMMALMAE   75 (230)
T ss_dssp             CCSSCEEEEECCTTTCHHHHHHH
T ss_pred             cCCCCEEEEcCCCHHHHHHHHHH
Confidence            4567899999999 999988765

>2pbf_A Protein-L-isoaspartate O-methyltransferase beta-A methyltransferase; protein repair, isoaspartyl formation, P. falciparum; HET: SAH; 2.00A {Plasmodium falciparum}

Probab=87.63  E-value=0.38  Score=37.00  Aligned_cols=22  Identities=18%  Similarity=0.289  Sum_probs=18.5

Q ss_pred             CCCCCeEEEecCCccHHHHhhh
Q 036188          188 FDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       188 ~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      .....+|+|||||.|.++..++
T Consensus        78 ~~~~~~VLdiG~G~G~~~~~la   99 (227)
T 2pbf_A           78 LKPGSRAIDVGSGSGYLTVCMA   99 (227)
T ss_dssp             SCTTCEEEEESCTTSHHHHHHH
T ss_pred             CCCCCEEEEECCCCCHHHHHHH
Confidence            4566899999999999988765

>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=87.52  E-value=0.22  Score=39.15  Aligned_cols=20  Identities=10%  Similarity=0.315  Sum_probs=17.0

Q ss_pred             CCCeEEEecCCccHHHHhhh
Q 036188          190 NIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       190 ~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ...+|||||||+|.++..++
T Consensus        65 ~~~~vLDlG~G~G~~~~~la   84 (254)
T 2h00_A           65 TLRRGIDIGTGASCIYPLLG   84 (254)
T ss_dssp             CCCEEEEESCTTTTHHHHHH
T ss_pred             CCCEEEEeCCChhHHHHHHH
Confidence            46799999999999887764

>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=87.52  E-value=0.28  Score=39.61  Aligned_cols=21  Identities=24%  Similarity=0.433  Sum_probs=18.3

Q ss_pred             CCCeEEEecCCccHHHHhhhC
Q 036188          190 NIKQLVDVGGSLGVTLQAITT  210 (210)
Q Consensus       190 ~~~~vvDiGGg~G~~~~~l~~  210 (210)
                      +..+|+|||||.|.++..+++
T Consensus        75 ~~~~VLdiG~G~G~~~~~l~~   95 (281)
T 1mjf_A           75 KPKRVLVIGGGDGGTVREVLQ   95 (281)
T ss_dssp             CCCEEEEEECTTSHHHHHHTT
T ss_pred             CCCeEEEEcCCcCHHHHHHHh
Confidence            467999999999999998764

>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=87.38  E-value=0.45  Score=40.98  Aligned_cols=30  Identities=17%  Similarity=0.172  Sum_probs=22.6

Q ss_pred             HHHHhCCCCCCCCeEEEecCCccHHHHhhhC
Q 036188          180 NILESYKGFDNIKQLVDVGGSLGVTLQAITT  210 (210)
Q Consensus       180 ~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~~  210 (210)
                      .+++..+ ..+..+|+|+|||.|.++..+++
T Consensus       277 ~~~~~l~-~~~~~~VLDlgcG~G~~~~~la~  306 (433)
T 1uwv_A          277 RALEWLD-VQPEDRVLDLFCGMGNFTLPLAT  306 (433)
T ss_dssp             HHHHHHT-CCTTCEEEEESCTTTTTHHHHHT
T ss_pred             HHHHhhc-CCCCCEEEECCCCCCHHHHHHHh
Confidence            3344444 55677999999999999988763

>3c3y_A Pfomt, O-methyltransferase; plant secondary metabolism; HET: SAH; 1.37A {Mesembryanthemum crystallinum}

Probab=87.30  E-value=0.55  Score=36.75  Aligned_cols=21  Identities=29%  Similarity=0.321  Sum_probs=18.0

Q ss_pred             CCCCeEEEecCCccHHHHhhh
Q 036188          189 DNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       189 ~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      .+..+|||||||.|..+..++
T Consensus        69 ~~~~~VLeiG~G~G~~~~~la   89 (237)
T 3c3y_A           69 VNAKKTIEVGVFTGYSLLLTA   89 (237)
T ss_dssp             TTCCEEEEECCTTSHHHHHHH
T ss_pred             hCCCEEEEeCCCCCHHHHHHH
Confidence            456799999999999988775

>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=87.29  E-value=0.33  Score=38.84  Aligned_cols=66  Identities=11%  Similarity=0.065  Sum_probs=46.4

Q ss_pred             hChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCC-Ccccceecccccccc
Q 036188           35 LGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDAS-GARRLYSLNSVSKYY  105 (210)
Q Consensus        35 lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~-~~~~~y~~t~~s~~l  105 (210)
                      ..|...|...+ ++++|..|||+.+++    ++..+.++++-|...|++++..+.. ...-...+|+.++.+
T Consensus       161 ~~vL~~L~~~~-~~~~t~~eLa~~l~i----~~~tvt~~v~rLe~~GlV~R~~~~~DrR~~~i~LT~~G~~~  227 (250)
T 1p4x_A          161 FTILAIITSQN-KNIVLLKDLIETIHH----KYPQTVRALNNLKKQGYLIKERSTEDERKILIHMDDAQQDH  227 (250)
T ss_dssp             HHHHHHHHTTT-TCCEEHHHHHHHSSS----CHHHHHHHHHHHHHHTSSEEEECSSSTTCEEEECCHHHHHH
T ss_pred             HHHHHHHHhCC-CCCcCHHHHHHHHCC----ChhhHHHHHHHHHHCCCEEeeCCCCCCCeEEEEECHHHHHH
Confidence            34556666543 126999999999999    9999999999999999999763110 011125566665543

>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=87.29  E-value=0.65  Score=39.77  Aligned_cols=51  Identities=18%  Similarity=0.329  Sum_probs=44.6

Q ss_pred             HHHHHhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           29 IQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        29 l~~a~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      ++..-+..|++.|...   +++|..|||+++++    ++.-+.++++-|...|++.+.
T Consensus        36 ~r~~n~~~il~~l~~~---~~~sr~ela~~~gl----s~~tv~~~v~~L~~~gli~~~   86 (429)
T 1z05_A           36 IKQINAGRVYKLIDQK---GPISRIDLSKESEL----APASITKITRELIDAHLIHET   86 (429)
T ss_dssp             HHHHHHHHHHHHHHHH---CSBCHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEEE
T ss_pred             HHHHHHHHHHHHHHHc---CCcCHHHHHHHHCC----CHHHHHHHHHHHHHCCCEEec
Confidence            4554555688889886   59999999999999    999999999999999999886

>1ixk_A Methyltransferase; open beta sheet; 1.90A {Pyrococcus horikoshii} SCOP: c.66.1.38

Probab=87.16  E-value=0.28  Score=40.37  Aligned_cols=45  Identities=7%  Similarity=-0.030  Sum_probs=28.2

Q ss_pred             HHHHHHHhhhhhhhHHHHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          164 KHFNAAMYNYTSLVMSNILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       164 ~~f~~~M~~~~~~~~~~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ..|...+...+......+....+ .....+|+|+|||+|..+..++
T Consensus        93 ~~~~~G~~~~qd~~s~l~~~~l~-~~~g~~VLDlg~G~G~~t~~la  137 (315)
T 1ixk_A           93 PEFLTGLIYIQEASSMYPPVALD-PKPGEIVADMAAAPGGKTSYLA  137 (315)
T ss_dssp             HHHHTTSEEECCHHHHHHHHHHC-CCTTCEEEECCSSCSHHHHHHH
T ss_pred             hhHhcceEEEeCHHHHHHHHHhC-CCCCCEEEEeCCCCCHHHHHHH
Confidence            34554443333332233334444 6677899999999999988775

>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=87.09  E-value=0.35  Score=40.35  Aligned_cols=23  Identities=26%  Similarity=0.463  Sum_probs=19.5

Q ss_pred             CCCCCeEEEecCCccHHHHhhhC
Q 036188          188 FDNIKQLVDVGGSLGVTLQAITT  210 (210)
Q Consensus       188 ~~~~~~vvDiGGg~G~~~~~l~~  210 (210)
                      ..+..+|||||||.|.++..+++
T Consensus       118 ~~~~~~VLdIG~G~G~~a~~la~  140 (334)
T 1xj5_A          118 IPNPKKVLVIGGGDGGVLREVAR  140 (334)
T ss_dssp             SSCCCEEEEETCSSSHHHHHHTT
T ss_pred             CCCCCEEEEECCCccHHHHHHHH
Confidence            34578999999999999998864

>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=87.00  E-value=0.49  Score=40.22  Aligned_cols=31  Identities=16%  Similarity=0.116  Sum_probs=25.0

Q ss_pred             HHHHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          178 MSNILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       178 ~~~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      +..++.... |.....|+|++||+|.++++.+
T Consensus       184 Aa~ll~~~~-~~~~~~vlDp~CGSGt~lieaa  214 (385)
T 3ldu_A          184 AAGLIYLTP-WKAGRVLVDPMCGSGTILIEAA  214 (385)
T ss_dssp             HHHHHHTSC-CCTTSCEEETTCTTCHHHHHHH
T ss_pred             HHHHHHhhC-CCCCCeEEEcCCCCCHHHHHHH
Confidence            445566666 8888999999999999998764

>4azs_A Methyltransferase WBDD; kinase; HET: AMP SAM; 2.15A {Escherichia coli} PDB: 4azt_A* 4azv_A* 4azw_A*

Probab=86.97  E-value=0.24  Score=44.24  Aligned_cols=21  Identities=14%  Similarity=0.254  Sum_probs=17.9

Q ss_pred             CCCCeEEEecCCccHHHHhhh
Q 036188          189 DNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       189 ~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      .+..+|||||||.|.++..++
T Consensus        65 ~~~~~vLDvGCG~G~~~~~la   85 (569)
T 4azs_A           65 GRPLNVLDLGCAQGFFSLSLA   85 (569)
T ss_dssp             TSCCEEEEETCTTSHHHHHHH
T ss_pred             CCCCeEEEECCCCcHHHHHHH
Confidence            456799999999999998875

>4ham_A LMO2241 protein; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, winged helix-turn-helix, four helix bundle; 1.91A {Listeria monocytogenes}

Probab=86.93  E-value=0.55  Score=33.57  Aligned_cols=43  Identities=14%  Similarity=0.212  Sum_probs=36.8

Q ss_pred             CCC-CHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceec
Q 036188           48 TKL-SASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSL   98 (210)
Q Consensus        48 ~~~-t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~   98 (210)
                      ..+ |..+||+.+|+    +..-+++-++.|...|+++...    +.|.|-.
T Consensus        36 ~~LPser~La~~~gV----Sr~tVReAl~~L~~eGlv~~~~----g~G~~V~   79 (134)
T 4ham_A           36 EKILSIREFASRIGV----NPNTVSKAYQELERQEVIITVK----GKGTFIA   79 (134)
T ss_dssp             CEECCHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEEET----TTEEEEC
T ss_pred             CCCccHHHHHHHHCC----CHHHHHHHHHHHHHCCcEEEEc----CcEEEEe
Confidence            466 88999999999    9999999999999999998763    4566654

>2i62_A Nicotinamide N-methyltransferase; structural genomics, structural genomics consortium, SGC; HET: SAH; 1.80A {Mus musculus} PDB: 2iip_A* 3rod_A*

Probab=86.93  E-value=0.42  Score=37.38  Aligned_cols=21  Identities=14%  Similarity=0.121  Sum_probs=17.5

Q ss_pred             CCCCeEEEecCCccHHHHhhh
Q 036188          189 DNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       189 ~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ....+|||||||.|.++..++
T Consensus        55 ~~~~~vLDlGcG~G~~~~~l~   75 (265)
T 2i62_A           55 VKGELLIDIGSGPTIYQLLSA   75 (265)
T ss_dssp             CCEEEEEEESCTTCCGGGTTG
T ss_pred             cCCCEEEEECCCccHHHHHHh
Confidence            456799999999999887764

>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=86.80  E-value=0.32  Score=39.66  Aligned_cols=21  Identities=33%  Similarity=0.503  Sum_probs=18.2

Q ss_pred             CCCeEEEecCCccHHHHhhhC
Q 036188          190 NIKQLVDVGGSLGVTLQAITT  210 (210)
Q Consensus       190 ~~~~vvDiGGg~G~~~~~l~~  210 (210)
                      +..+|+|||||.|.++..+++
T Consensus        90 ~~~~VLdiG~G~G~~~~~l~~  110 (296)
T 1inl_A           90 NPKKVLIIGGGDGGTLREVLK  110 (296)
T ss_dssp             SCCEEEEEECTTCHHHHHHTT
T ss_pred             CCCEEEEEcCCcCHHHHHHHh
Confidence            357999999999999998864

>1mzb_A Ferric uptake regulation protein; ferric uptake regulator, iron, DTXR, gene regulation; 1.80A {Pseudomonas aeruginosa} SCOP: a.4.5.42

Probab=86.76  E-value=0.54  Score=33.74  Aligned_cols=59  Identities=22%  Similarity=0.296  Sum_probs=43.5

Q ss_pred             hhChhhHHhhcCCCCCCCHHHHHHHh-----cCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceec
Q 036188           34 ELGIFEILDKAGPGTKLSASDIAAQL-----LTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSL   98 (210)
Q Consensus        34 ~lglfd~L~~~g~~~~~t~~eLA~~~-----~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~   98 (210)
                      +.-|++.|...+ +++.|++||.+.+     ++    +..-+.|-|+.|+..|++.+.... ++..+|..
T Consensus        20 R~~Il~~L~~~~-~~~~sa~ei~~~l~~~~~~i----s~aTVYR~L~~L~e~Glv~~~~~~-~~~~~Y~~   83 (136)
T 1mzb_A           20 RVKILQMLDSAE-QRHMSAEDVYKALMEAGEDV----GLATVYRVLTQFEAAGLVVRHNFD-GGHAVFEL   83 (136)
T ss_dssp             HHHHHHHHHCC--CCSBCHHHHHHHHHHTTCCC----CHHHHHHHHHHHHHHTSEEEECSS-SSSCEEEE
T ss_pred             HHHHHHHHHhCC-CCCCCHHHHHHHHHhhCCCC----CHHHHHHHHHHHHHCCcEEEEEeC-CCceEEEe
Confidence            344778886531 1489999999999     56    888999999999999999987321 12345764

>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=86.75  E-value=0.34  Score=41.93  Aligned_cols=65  Identities=14%  Similarity=0.143  Sum_probs=45.8

Q ss_pred             ChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCC-Ccccceecccccccc
Q 036188           36 GIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDAS-GARRLYSLNSVSKYY  105 (210)
Q Consensus        36 glfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~-~~~~~y~~t~~s~~l  105 (210)
                      .|...|.+.+ ++++|..|||+++++    ++..+.|+++-|...|++++..+.. ...-...+|+.++.+
T Consensus       408 ~vl~~l~~~~-~~~~~~~~l~~~~~~----~~~~~t~~~~~le~~g~v~r~~~~~D~R~~~i~lT~~g~~~  473 (487)
T 1hsj_A          408 YILNHILRSE-SNEISSKEIAKCSEF----KPYYLTKALQKLKDLKLLSKKRSLQDERTVIVYVTDTQKAN  473 (487)
T ss_dssp             HHHHHHHTCS-CSEEEHHHHHHSSCC----CHHHHHHHHHHHHTTTTSCCEECCSSSSCCEEECCSSHHHH
T ss_pred             HHHHHHHhCC-CCCcCHHHHHHHHCC----CHHHHHHHHHHHHHCCCEeecCCCCCCCeEEEEECHHHHHH
Confidence            3555666541 148999999999999    9999999999999999998763110 111235566655443

>2cmg_A Spermidine synthase; transferase, putrescine aminopropyltransferase, spermidine biosynthesis, polyamine biosynthesis, SPEE; 2.0A {Helicobacter pylori} PDB: 2cmh_A

Probab=86.74  E-value=0.35  Score=38.80  Aligned_cols=22  Identities=14%  Similarity=0.080  Sum_probs=18.8

Q ss_pred             CCCCeEEEecCCccHHHHhhhC
Q 036188          189 DNIKQLVDVGGSLGVTLQAITT  210 (210)
Q Consensus       189 ~~~~~vvDiGGg~G~~~~~l~~  210 (210)
                      .+..+|+|||||.|.++.++++
T Consensus        71 ~~~~~VL~iG~G~G~~~~~ll~   92 (262)
T 2cmg_A           71 KELKEVLIVDGFDLELAHQLFK   92 (262)
T ss_dssp             SCCCEEEEESSCCHHHHHHHTT
T ss_pred             CCCCEEEEEeCCcCHHHHHHHh
Confidence            4568999999999999988764

>3lmm_A Uncharacterized protein; multi-domained alpha-beta protein, structural genomics, PSI- 2, protein structure initiative; 3.00A {Corynebacterium diphtheriae}

Probab=86.71  E-value=0.66  Score=41.70  Aligned_cols=57  Identities=9%  Similarity=0.067  Sum_probs=48.9

Q ss_pred             hhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhc-----ccceeeeccCCCcccceecccccc
Q 036188           34 ELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLAS-----YSVVECSLDASGARRLYSLNSVSK  103 (210)
Q Consensus        34 ~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~-----~gl~~~~~~~~~~~~~y~~t~~s~  103 (210)
                      +.-|...|...   +.+|..+||+.+++    +++.+++.|+.|+.     .|+++..      .+.|.+++...
T Consensus       432 ~~~iL~~l~~~---~~it~~~la~~l~~----s~~~~~~~L~~L~~~~~~~~glie~~------g~~y~L~~~~~  493 (583)
T 3lmm_A          432 IAIVLYLLFQR---PFITIDVVARGLQS----GKEAARNALEAARQTTVAGAPLIIAH------DGVWLLGNACR  493 (583)
T ss_dssp             HHHHHHHHHHS---SSBCHHHHHHHHTS----CHHHHHHHHHHHHTCEETTEESEEEE------TTEEEECHHHH
T ss_pred             HHHHHHHHHHC---CCcCHHHHHHHhCc----CHHHHHHHHHHHHhhhccccceEEEe------CCEEEECHHHH
Confidence            34577778776   48999999999999    99999999999999     8999997      47899998644

>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=86.67  E-value=0.31  Score=39.56  Aligned_cols=22  Identities=14%  Similarity=-0.044  Sum_probs=18.8

Q ss_pred             CCCCCeEEEecCCccHHHHhhh
Q 036188          188 FDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       188 ~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      .....+|+|||||.|.++..++
T Consensus       116 l~~~~~vLDiGcG~G~~~~~la  137 (305)
T 3ocj_A          116 LRPGCVVASVPCGWMSELLALD  137 (305)
T ss_dssp             CCTTCEEEETTCTTCHHHHTSC
T ss_pred             CCCCCEEEEecCCCCHHHHHHH
Confidence            4567899999999999998773

>3rkx_A Biotin-[acetyl-COA-carboxylase] ligase; biotin protein ligase, 3 domains, enzyme DNA binding, biotin coupling domains; 2.10A {Staphylococcus aureus} PDB: 3rir_A* 3rkw_A 3rky_A* 3v7c_A* 3v7s_A* 3v8j_A 3v7r_A 3v8k_A* 3v8l_A* 4dq2_A*

Probab=86.64  E-value=0.82  Score=37.94  Aligned_cols=63  Identities=14%  Similarity=0.161  Sum_probs=47.0

Q ss_pred             hhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceecccccccc
Q 036188           34 ELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSVSKYY  105 (210)
Q Consensus        34 ~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~~s~~l  105 (210)
                      +..|.+.|.++. |.++|.++||+++|+    +...+.+-++.|...|+..+..    ....|++.+....|
T Consensus         5 ~~~iL~~L~~~~-g~~~Sg~eLa~~lgv----Sr~aV~k~i~~L~~~G~~i~~~----~~~GY~L~~~~~~l   67 (323)
T 3rkx_A            5 SQDVLQLLYKNK-PNYISGQSIAESLNI----SRTAVKKVIDQLKLEGCKIDSV----NHKGHLLQQLPDIW   67 (323)
T ss_dssp             HHHHHHHHHHHT-TSCBCHHHHHHHHTS----CHHHHHHHHHHHHHTTCEEEEE----TTTEEEEEECCSSC
T ss_pred             HHHHHHHHHhCC-CCccCHHHHHHHHCC----CHHHHHHHHHHHHhcCCeEEEe----CCCeEEEecCcccC
Confidence            345777785431 158999999999999    9999999999999999966541    24568877644433

>2o0m_A Transcriptional regulator, SORC family; structural genomics, protein structure initiative, midwest center for structural genomics, MCSG; 1.60A {Enterococcus faecalis} SCOP: c.124.1.8

Probab=86.61  E-value=0.13  Score=43.07  Aligned_cols=60  Identities=10%  Similarity=0.078  Sum_probs=0.0

Q ss_pred             hhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceeccccccccc
Q 036188           34 ELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSVSKYYV  106 (210)
Q Consensus        34 ~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~~s~~l~  106 (210)
                      +..|...|...   +++|..|||+++++    ++.-++|.|+.|...|+++..      .....+|+.++.+.
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----TERVLRTETDVLKQLNLIEPS------KSGMTLTERGLEVY   81 (345)
T ss_dssp             -------------------------------------------------------------------------
T ss_pred             HHHHHHHHHHc---CCCCHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEEE------ecceEEcHHHHHHH
Confidence            45566777665   59999999999999    999999999999999999743      23356666665433

>2pt6_A Spermidine synthase; transferase, structural genomics consor SGC,dcadoMet complex; HET: S4M 1PG; 2.00A {Plasmodium falciparum} PDB: 2pss_A* 2pt9_A*

Probab=86.58  E-value=0.33  Score=40.13  Aligned_cols=21  Identities=24%  Similarity=0.403  Sum_probs=18.3

Q ss_pred             CCCeEEEecCCccHHHHhhhC
Q 036188          190 NIKQLVDVGGSLGVTLQAITT  210 (210)
Q Consensus       190 ~~~~vvDiGGg~G~~~~~l~~  210 (210)
                      +..+|+|||||.|.++.++++
T Consensus       116 ~~~~VLdiG~G~G~~~~~l~~  136 (321)
T 2pt6_A          116 EPKNVLVVGGGDGGIIRELCK  136 (321)
T ss_dssp             SCCEEEEEECTTCHHHHHHTT
T ss_pred             CCCEEEEEcCCccHHHHHHHH
Confidence            457999999999999998764

>3dr5_A Putative O-methyltransferase; Q8NRD3, CGL1119, PF01596, CGR117, NESG, structural genomics, PSI-2, protein structure initiative; 2.25A {Corynebacterium glutamicum}

Probab=86.47  E-value=0.49  Score=36.73  Aligned_cols=20  Identities=10%  Similarity=0.044  Sum_probs=16.8

Q ss_pred             CCCeEEEecCCccHHHHhhh
Q 036188          190 NIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       190 ~~~~vvDiGGg~G~~~~~l~  209 (210)
                      +..+|||||||.|..+..++
T Consensus        56 ~~~~vLdiG~G~G~~~~~la   75 (221)
T 3dr5_A           56 GSTGAIAITPAAGLVGLYIL   75 (221)
T ss_dssp             TCCEEEEESTTHHHHHHHHH
T ss_pred             CCCCEEEEcCCchHHHHHHH
Confidence            34599999999999988775

>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=86.45  E-value=0.32  Score=37.35  Aligned_cols=22  Identities=18%  Similarity=0.348  Sum_probs=18.4

Q ss_pred             CCCCCeEEEecCCccHHHHhhh
Q 036188          188 FDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       188 ~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      .....+|+|||||.|..+..++
T Consensus        75 ~~~~~~vLDiG~G~G~~~~~la   96 (226)
T 1i1n_A           75 LHEGAKALDVGSGSGILTACFA   96 (226)
T ss_dssp             SCTTCEEEEETCTTSHHHHHHH
T ss_pred             CCCCCEEEEEcCCcCHHHHHHH
Confidence            4556799999999999988765

>3k0b_A Predicted N6-adenine-specific DNA methylase; methylase,PF01170, putative RNA methylase, PSI,MCSG, structu genomics; 1.50A {Listeria monocytogenes str}

Probab=86.43  E-value=0.56  Score=39.97  Aligned_cols=31  Identities=6%  Similarity=-0.017  Sum_probs=25.1

Q ss_pred             HHHHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          178 MSNILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       178 ~~~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      +..++.... |.+...|+|.+||+|.++++.+
T Consensus       190 Aa~ll~l~~-~~~~~~vlDp~CGSGt~~ieaa  220 (393)
T 3k0b_A          190 AAALVLLTS-WHPDRPFYDPVCGSGTIPIEAA  220 (393)
T ss_dssp             HHHHHHHSC-CCTTSCEEETTCTTSHHHHHHH
T ss_pred             HHHHHHHhC-CCCCCeEEEcCCCCCHHHHHHH
Confidence            445566666 8888999999999999998764

>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=86.41  E-value=0.36  Score=38.16  Aligned_cols=22  Identities=14%  Similarity=0.353  Sum_probs=19.0

Q ss_pred             CCCCCeEEEecCCccHHHHhhh
Q 036188          188 FDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       188 ~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ++...+|+|||||+|.++..++
T Consensus        74 l~~g~~VLDlG~GtG~~t~~la   95 (232)
T 3id6_C           74 IRKGTKVLYLGAASGTTISHVS   95 (232)
T ss_dssp             CCTTCEEEEETCTTSHHHHHHH
T ss_pred             CCCCCEEEEEeecCCHHHHHHH
Confidence            6678999999999999887664

>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=86.40  E-value=0.37  Score=39.68  Aligned_cols=22  Identities=32%  Similarity=0.499  Sum_probs=18.7

Q ss_pred             CCCCeEEEecCCccHHHHhhhC
Q 036188          189 DNIKQLVDVGGSLGVTLQAITT  210 (210)
Q Consensus       189 ~~~~~vvDiGGg~G~~~~~l~~  210 (210)
                      .+..+|+|||||.|.++..+++
T Consensus        76 ~~~~~VLdiG~G~G~~~~~l~~   97 (314)
T 1uir_A           76 PEPKRVLIVGGGEGATLREVLK   97 (314)
T ss_dssp             SCCCEEEEEECTTSHHHHHHTT
T ss_pred             CCCCeEEEEcCCcCHHHHHHHh
Confidence            3467999999999999998864

>1yg2_A Gene activator APHA; virulence factor, winged helix, transcripti factor, transcription; 2.20A {Vibrio cholerae} SCOP: a.4.5.61

Probab=86.39  E-value=0.71  Score=34.67  Aligned_cols=62  Identities=21%  Similarity=0.413  Sum_probs=47.0

Q ss_pred             hhChhhHHhhcCCCCCCCHHHHHHHh--------cCCCCCCcccHHHHHHHHhcccceeeeccCC-C--cccceeccccc
Q 036188           34 ELGIFEILDKAGPGTKLSASDIAAQL--------LTKNKDAPMMLDRILRLLASYSVVECSLDAS-G--ARRLYSLNSVS  102 (210)
Q Consensus        34 ~lglfd~L~~~g~~~~~t~~eLA~~~--------~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~-~--~~~~y~~t~~s  102 (210)
                      ++-|...|..    +|++.-||++.+        ++    ++..+.+.|+-|...|+++...... +  ..-.|++|+.+
T Consensus         4 ~~~iL~lL~~----~~~~gyel~~~l~~~~~~~~~~----s~~~ly~~L~~Le~~GlI~~~~~~~~~~~~r~~Y~lT~~G   75 (179)
T 1yg2_A            4 PHVILTVLST----RDATGYDITKEFSASIGYFWKA----SHQQVYRELNKMGEQGLVTCVLEPQEGKPDRKVYSITQAG   75 (179)
T ss_dssp             HHHHHHHHHH----CCBCHHHHHHHHTTGGGGTCCC----CHHHHHHHHHHHHHTTSEEECCC---------CEEECHHH
T ss_pred             HHHHHHHHhc----CCCCHHHHHHHHHHHhCCccCC----CcCcHHHHHHHHHHCCCeEEEeecCCCCCCceEEEeChHH
Confidence            4456667877    699999999999        57    8999999999999999998653110 0  12359999988


Q ss_pred             c
Q 036188          103 K  103 (210)
Q Consensus       103 ~  103 (210)
                      +
T Consensus        76 ~   76 (179)
T 1yg2_A           76 R   76 (179)
T ss_dssp             H
T ss_pred             H
Confidence            6

>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=86.31  E-value=0.37  Score=39.00  Aligned_cols=22  Identities=23%  Similarity=0.392  Sum_probs=19.0

Q ss_pred             CCCCeEEEecCCccHHHHhhhC
Q 036188          189 DNIKQLVDVGGSLGVTLQAITT  210 (210)
Q Consensus       189 ~~~~~vvDiGGg~G~~~~~l~~  210 (210)
                      .+..+|+|||||.|.++..+++
T Consensus        77 ~~~~~VLdiG~G~G~~~~~l~~   98 (283)
T 2i7c_A           77 KEPKNVLVVGGGDGGIIRELCK   98 (283)
T ss_dssp             SSCCEEEEEECTTSHHHHHHTT
T ss_pred             CCCCeEEEEeCCcCHHHHHHHH
Confidence            4568999999999999998864

>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=86.28  E-value=0.36  Score=41.11  Aligned_cols=52  Identities=21%  Similarity=0.223  Sum_probs=44.1

Q ss_pred             hChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceecc
Q 036188           35 LGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLN   99 (210)
Q Consensus        35 lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t   99 (210)
                      ..|++.|..    +|.++++|+.++|+    +...+...|-.|.-.|++...     ..++|+++
T Consensus       331 ~~vl~~l~~----~~~~~D~l~~~~gl----~~~~v~~~L~~LEl~G~v~~~-----~Gg~~~~~  382 (382)
T 3maj_A          331 TRILALLGP----SPVGIDDLIRLSGI----SPAVVRTILLELELAGRLERH-----GGSLVSLS  382 (382)
T ss_dssp             HHHHHHCCS----SCEEHHHHHHHHCC----CHHHHHHHHHHHHHTTCCEEC-----TTSEEEC-
T ss_pred             HHHHHhhCC----CCCCHHHHHHHHCc----CHHHHHHHHHHHHhCCcEEeC-----CCceEecC
Confidence            357788865    69999999999999    999999999999999999987     46677653

>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=86.22  E-value=0.37  Score=39.52  Aligned_cols=23  Identities=22%  Similarity=0.423  Sum_probs=19.6

Q ss_pred             CCCCCeEEEecCCccHHHHhhhC
Q 036188          188 FDNIKQLVDVGGSLGVTLQAITT  210 (210)
Q Consensus       188 ~~~~~~vvDiGGg~G~~~~~l~~  210 (210)
                      ..+..+|||||||.|.++..+++
T Consensus        93 ~~~~~~VLdiG~G~G~~~~~l~~  115 (304)
T 2o07_A           93 HPNPRKVLIIGGGDGGVLREVVK  115 (304)
T ss_dssp             SSSCCEEEEEECTTSHHHHHHTT
T ss_pred             CCCCCEEEEECCCchHHHHHHHH
Confidence            34668999999999999998864

>2hnk_A SAM-dependent O-methyltransferase; modified rossman fold; HET: SAH; 2.30A {Leptospira interrogans}

Probab=86.20  E-value=0.31  Score=38.05  Aligned_cols=21  Identities=14%  Similarity=0.371  Sum_probs=17.7

Q ss_pred             CCCCeEEEecCCccHHHHhhh
Q 036188          189 DNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       189 ~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      .+..+|||||||.|..+..++
T Consensus        59 ~~~~~VLdiG~G~G~~~~~la   79 (239)
T 2hnk_A           59 SGAKRIIEIGTFTGYSSLCFA   79 (239)
T ss_dssp             HTCSEEEEECCTTCHHHHHHH
T ss_pred             hCcCEEEEEeCCCCHHHHHHH
Confidence            346799999999999988775

>3cbg_A O-methyltransferase; cyanobacterium; HET: SAH FER 4FE; 2.00A {Synechocystis SP}

Probab=86.06  E-value=0.42  Score=37.21  Aligned_cols=21  Identities=24%  Similarity=0.344  Sum_probs=17.9

Q ss_pred             CCCeEEEecCCccHHHHhhhC
Q 036188          190 NIKQLVDVGGSLGVTLQAITT  210 (210)
Q Consensus       190 ~~~~vvDiGGg~G~~~~~l~~  210 (210)
                      +..+|||||||.|..+..+++
T Consensus        72 ~~~~vLdiG~G~G~~~~~la~   92 (232)
T 3cbg_A           72 GAKQVLEIGVFRGYSALAMAL   92 (232)
T ss_dssp             TCCEEEEECCTTSHHHHHHHT
T ss_pred             CCCEEEEecCCCCHHHHHHHH
Confidence            457999999999999988763

>3r3h_A O-methyltransferase, SAM-dependent; structural genomics, PSI-biology, NEW YORK structural genomi research consortium, nysgrc; 2.65A {Legionella pneumophila subsp}

Probab=86.01  E-value=0.28  Score=38.68  Aligned_cols=20  Identities=20%  Similarity=0.406  Sum_probs=17.5

Q ss_pred             CCCeEEEecCCccHHHHhhh
Q 036188          190 NIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       190 ~~~~vvDiGGg~G~~~~~l~  209 (210)
                      +..+|||||||.|..+..++
T Consensus        60 ~~~~VLDiG~G~G~~t~~la   79 (242)
T 3r3h_A           60 RAKKVLELGTFTGYSALAMS   79 (242)
T ss_dssp             TCSEEEEEESCCSHHHHHHH
T ss_pred             CcCEEEEeeCCcCHHHHHHH
Confidence            46799999999999988775

>2gpy_A O-methyltransferase; structural genomics, PSI, protein structure initiative, NEW research center for structural genomics, nysgxrc; HET: MSE; 1.90A {Bacillus halodurans}

Probab=85.99  E-value=0.32  Score=37.67  Aligned_cols=20  Identities=10%  Similarity=0.408  Sum_probs=17.3

Q ss_pred             CCCeEEEecCCccHHHHhhh
Q 036188          190 NIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       190 ~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ...+|||||||.|..+..++
T Consensus        54 ~~~~vLdiG~G~G~~~~~la   73 (233)
T 2gpy_A           54 APARILEIGTAIGYSAIRMA   73 (233)
T ss_dssp             CCSEEEEECCTTSHHHHHHH
T ss_pred             CCCEEEEecCCCcHHHHHHH
Confidence            46799999999999988765

>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=85.96  E-value=0.31  Score=41.45  Aligned_cols=18  Identities=28%  Similarity=0.327  Sum_probs=15.1

Q ss_pred             CCeEEEecCCccHHHHhh
Q 036188          191 IKQLVDVGGSLGVTLQAI  208 (210)
Q Consensus       191 ~~~vvDiGGg~G~~~~~l  208 (210)
                      .++|||||||+|.+++-.
T Consensus        84 ~k~VLDvG~GtGiLs~~A  101 (376)
T 4hc4_A           84 GKTVLDVGAGTGILSIFC  101 (376)
T ss_dssp             TCEEEEETCTTSHHHHHH
T ss_pred             CCEEEEeCCCccHHHHHH
Confidence            568999999999987643

>3l7w_A Putative uncharacterized protein SMU.1704; PADR, transcriptional factor, transcription; HET: MSE; 2.20A {Streptococcus mutans} SCOP: a.4.5.0

Probab=85.68  E-value=0.53  Score=32.36  Aligned_cols=66  Identities=21%  Similarity=0.250  Sum_probs=46.4

Q ss_pred             HHhhChhhHHhhcCCCCCCCHHHHHHHh----cCCCCCCcccHHHHHHHHhcccceeeeccC-CC-cccceecccccccc
Q 036188           32 VYELGIFEILDKAGPGTKLSASDIAAQL----LTKNKDAPMMLDRILRLLASYSVVECSLDA-SG-ARRLYSLNSVSKYY  105 (210)
Q Consensus        32 a~~lglfd~L~~~g~~~~~t~~eLA~~~----~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~-~~-~~~~y~~t~~s~~l  105 (210)
                      ..++-|...|.+    +|.+--+|++.+    ++    ++..+.+.|+-|...|+++..... ++ ..-.|++|+.++..
T Consensus         9 ~l~~~IL~~L~~----~~~~gyel~~~l~~~~~i----~~~tly~~L~~Le~~GlI~~~~~~~~~r~r~~y~LT~~G~~~   80 (108)
T 3l7w_A            9 LIEYLILAIVSK----HDSYGYDISQTIKLIASI----KESTLYPILKKLEKAGYLSTYTQEHQGRRRKYYHLTDSGEKH   80 (108)
T ss_dssp             HHHHHHHHHHHH----SCEEHHHHHHHHTTTCCC----CHHHHHHHHHHHHHTTSEEEEEEEETTEEEEEEEECHHHHHH
T ss_pred             HHHHHHHHHHHc----CCCcHHHHHHHHHHHhCC----CcChHHHHHHHHHHCCCeEEEeecCCCCcceEEEECHHHHHH
Confidence            345556667777    588888888885    78    999999999999999999875210 00 01137777776543

>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=85.38  E-value=0.77  Score=37.38  Aligned_cols=31  Identities=16%  Similarity=0.005  Sum_probs=24.0

Q ss_pred             HHHHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          178 MSNILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       178 ~~~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ...+.+.+. +....+|||+|||.|.++...+
T Consensus        79 L~ei~eK~~-Lk~~~~VLDLGaAPGGWsQvAa  109 (282)
T 3gcz_A           79 LRWMEERGY-VKPTGIVVDLGCGRGGWSYYAA  109 (282)
T ss_dssp             HHHHHHTTS-CCCCEEEEEETCTTCHHHHHHH
T ss_pred             HHHHHHhcC-CCCCCEEEEeCCCCCHHHHHHH
Confidence            345566665 7777799999999999988544

>3c7j_A Transcriptional regulator, GNTR family; structural genomics, PSI-2, protein structure initiative, midwest center for STR genomics; HET: MSE; 2.10A {Pseudomonas syringae PV}

Probab=85.30  E-value=0.94  Score=35.62  Aligned_cols=36  Identities=25%  Similarity=0.345  Sum_probs=34.0

Q ss_pred             CCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           47 GTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        47 ~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      |..++..+||+.+|+    +...+++-|+.|...|+++..
T Consensus        47 G~~L~e~~La~~lgV----Sr~~VReAL~~L~~~Glv~~~   82 (237)
T 3c7j_A           47 GTALRQQELATLFGV----SRMPVREALRQLEAQSLLRVE   82 (237)
T ss_dssp             TCBCCHHHHHHHHTS----CHHHHHHHHHHHHHTTSEEEE
T ss_pred             cCeeCHHHHHHHHCC----CHHHHHHHHHHHHHCCCEEEe
Confidence            468999999999999    999999999999999999976

>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=85.16  E-value=0.33  Score=38.41  Aligned_cols=21  Identities=24%  Similarity=0.409  Sum_probs=17.8

Q ss_pred             CCCCeEEEecCCccHHHHhhh
Q 036188          189 DNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       189 ~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ....+|+|||||.|.++..++
T Consensus        84 ~~~~~vLdiG~G~G~~~~~l~  104 (269)
T 1p91_A           84 DKATAVLDIGCGEGYYTHAFA  104 (269)
T ss_dssp             TTCCEEEEETCTTSTTHHHHH
T ss_pred             CCCCEEEEECCCCCHHHHHHH
Confidence            456799999999999988765

>2b2c_A Spermidine synthase; beta-alpha, transferase; 2.50A {Caenorhabditis elegans} SCOP: c.66.1.17

Probab=85.12  E-value=0.48  Score=39.12  Aligned_cols=22  Identities=23%  Similarity=0.398  Sum_probs=18.7

Q ss_pred             CCCCeEEEecCCccHHHHhhhC
Q 036188          189 DNIKQLVDVGGSLGVTLQAITT  210 (210)
Q Consensus       189 ~~~~~vvDiGGg~G~~~~~l~~  210 (210)
                      .+..+|+|||||.|..+..+++
T Consensus       107 ~~~~~VLdIG~G~G~~~~~l~~  128 (314)
T 2b2c_A          107 PDPKRVLIIGGGDGGILREVLK  128 (314)
T ss_dssp             SSCCEEEEESCTTSHHHHHHTT
T ss_pred             CCCCEEEEEcCCcCHHHHHHHH
Confidence            3467999999999999998864

>3eyi_A Z-DNA-binding protein 1; alternative splicing, DNA-binding, polymorphism, DNA binding protein/Z-DNA complex, DNA binding protein/DNA complex; 1.45A {Homo sapiens} PDB: 2l4m_A

Probab=84.91  E-value=1.2  Score=28.23  Aligned_cols=47  Identities=21%  Similarity=0.198  Sum_probs=39.9

Q ss_pred             hhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           34 ELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        34 ~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      +-.|+++|..+   ||.++-.||+.+|++   ...-+.+-|-.|...|++..+
T Consensus        12 ee~I~~fL~~~---Gp~~AL~IAK~LGlk---tAK~VNp~LY~m~~~~lL~~D   58 (72)
T 3eyi_A           12 EEDIYRFLKDN---GPQRALVIAQALGMR---TAKDVNRDLYRMKSRHLLDMD   58 (72)
T ss_dssp             HHHHHHHHHHH---CSEEHHHHHHHTTCC---SGGGTHHHHHHHHHTTSEEEC
T ss_pred             HHHHHHHHHHc---CCchHHHHHHHhCcc---hhhhcCHHHHHHHHccCcCCC
Confidence            55689999987   599999999999993   444599999999999999654

>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=84.79  E-value=0.39  Score=37.97  Aligned_cols=21  Identities=29%  Similarity=0.336  Sum_probs=17.8

Q ss_pred             CCCCeEEEecCCccHHHHhhh
Q 036188          189 DNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       189 ~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      .+..+|||||||.|..+..++
T Consensus        78 ~~~~~VLeiG~G~G~~~~~la   98 (247)
T 1sui_A           78 INAKNTMEIGVYTGYSLLATA   98 (247)
T ss_dssp             TTCCEEEEECCGGGHHHHHHH
T ss_pred             hCcCEEEEeCCCcCHHHHHHH
Confidence            346799999999999988775

>3ldg_A Putative uncharacterized protein SMU.472; YPSC, methyltransferase, transferase; HET: SAH; 1.96A {Streptococcus mutans}

Probab=84.35  E-value=0.77  Score=39.01  Aligned_cols=32  Identities=16%  Similarity=0.046  Sum_probs=25.6

Q ss_pred             hHHHHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          177 VMSNILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       177 ~~~~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      .+..++.... |.....|+|.+||+|.++++.+
T Consensus       182 LAaall~l~~-~~~~~~llDp~CGSGt~lIEAa  213 (384)
T 3ldg_A          182 MAAAIILLSN-WFPDKPFVDPTCGSGTFCIEAA  213 (384)
T ss_dssp             HHHHHHHHTT-CCTTSCEEETTCTTSHHHHHHH
T ss_pred             HHHHHHHHhC-CCCCCeEEEeCCcCCHHHHHHH
Confidence            3445566666 8888999999999999998764

>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=84.09  E-value=0.44  Score=38.97  Aligned_cols=18  Identities=17%  Similarity=0.309  Sum_probs=14.5

Q ss_pred             CCCeEEEecCCccHHHHh
Q 036188          190 NIKQLVDVGGSLGVTLQA  207 (210)
Q Consensus       190 ~~~~vvDiGGg~G~~~~~  207 (210)
                      ...+|||||||.|..+..
T Consensus        48 ~~~~VLDlGCG~G~~l~~   65 (302)
T 2vdw_A           48 NKRKVLAIDFGNGADLEK   65 (302)
T ss_dssp             SCCEEEETTCTTTTTHHH
T ss_pred             CCCeEEEEecCCcHhHHH
Confidence            467999999999976544

>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=84.08  E-value=0.5  Score=39.81  Aligned_cols=22  Identities=14%  Similarity=-0.002  Sum_probs=19.2

Q ss_pred             CCCCCeEEEecCCccHHHHhhh
Q 036188          188 FDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       188 ~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      |....+|+|+|||+|.+++.++
T Consensus       215 ~~~~~~vLD~gCGsG~~~i~~a  236 (373)
T 3tm4_A          215 ELDGGSVLDPMCGSGTILIELA  236 (373)
T ss_dssp             TCCSCCEEETTCTTCHHHHHHH
T ss_pred             cCCCCEEEEccCcCcHHHHHHH
Confidence            5667899999999999998875

>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=84.08  E-value=0.68  Score=42.07  Aligned_cols=50  Identities=18%  Similarity=0.323  Sum_probs=33.6

Q ss_pred             CchhHhhccCchHHHHHHHHHhhhhhhhHHHHHHhCCC---CCCCCeEEEecCCccHHHH
Q 036188          150 VHIFEYAGLNPRFNKHFNAAMYNYTSLVMSNILESYKG---FDNIKQLVDVGGSLGVTLQ  206 (210)
Q Consensus       150 ~~~fe~l~~~p~~~~~f~~~M~~~~~~~~~~~l~~~~~---~~~~~~vvDiGGg~G~~~~  206 (210)
                      ..-||.+++||..-..|.+|+..       .+.+..+.   -.+...|+|||+|+|-++.
T Consensus       321 s~tYevFEkD~vKy~~Ye~AI~~-------Al~d~~~~~~~~~~~~vVldVGaGrGpLv~  373 (637)
T 4gqb_A          321 SQTYEVFEKDPIKYSQYQQAIYK-------CLLDRVPEEEKDTNVQVLMVLGAGRGPLVN  373 (637)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH-------HHHHHSCGGGTTTCEEEEEEESCTTSHHHH
T ss_pred             hhhhhhhcCChhhHHHHHHHHHH-------HHHHhhhhccccCCCcEEEEECCCCcHHHH
Confidence            35678888999887788877652       22222110   2345679999999998854

>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=83.98  E-value=0.95  Score=36.75  Aligned_cols=29  Identities=14%  Similarity=-0.037  Sum_probs=21.8

Q ss_pred             HHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          180 NILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       180 ~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      .+.+... ++...+|||+|||.|.++..++
T Consensus        65 ei~ek~~-l~~~~~VLDLGaAPGGWSQvAa   93 (277)
T 3evf_A           65 WFHERGY-VKLEGRVIDLGCGRGGWCYYAA   93 (277)
T ss_dssp             HHHHTTS-SCCCEEEEEETCTTCHHHHHHH
T ss_pred             HHHHhCC-CCCCCEEEEecCCCCHHHHHHH
Confidence            4445543 6677799999999999998543

>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=83.97  E-value=0.39  Score=38.69  Aligned_cols=21  Identities=19%  Similarity=0.159  Sum_probs=18.1

Q ss_pred             CCCCeEEEecCCccHHHHhhh
Q 036188          189 DNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       189 ~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      +...+|+|+|||+|.++..++
T Consensus       124 ~~~~~VLDlgcG~G~~~~~la  144 (278)
T 2frn_A          124 KPDELVVDMFAGIGHLSLPIA  144 (278)
T ss_dssp             CTTCEEEETTCTTTTTHHHHH
T ss_pred             CCCCEEEEecccCCHHHHHHH
Confidence            456899999999999998765

>4fsd_A Arsenic methyltransferase; rossmann fold; 1.75A {Cyanidioschyzon SP} PDB: 4fr0_A* 4fs8_A 3p7e_A 3qnh_A 3qhu_A

Probab=83.96  E-value=0.43  Score=40.24  Aligned_cols=20  Identities=15%  Similarity=0.235  Sum_probs=17.2

Q ss_pred             CCCeEEEecCCccHHHHhhh
Q 036188          190 NIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       190 ~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ...+|||||||+|.++..++
T Consensus        83 ~~~~VLDlGcG~G~~~~~la  102 (383)
T 4fsd_A           83 EGATVLDLGCGTGRDVYLAS  102 (383)
T ss_dssp             TTCEEEEESCTTSHHHHHHH
T ss_pred             CCCEEEEecCccCHHHHHHH
Confidence            56799999999999887764

>3a27_A TYW2, uncharacterized protein MJ1557; wybutosine modification, transferase; HET: SAM; 2.00A {Methanocaldococcus jannaschii}

Probab=83.69  E-value=0.4  Score=38.47  Aligned_cols=22  Identities=14%  Similarity=0.169  Sum_probs=19.0

Q ss_pred             CCCCCeEEEecCCccHHHHhhh
Q 036188          188 FDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       188 ~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      +.+..+|+|+|||.|.++..++
T Consensus       117 ~~~~~~VLDlgcG~G~~s~~la  138 (272)
T 3a27_A          117 SNENEVVVDMFAGIGYFTIPLA  138 (272)
T ss_dssp             CCTTCEEEETTCTTTTTHHHHH
T ss_pred             cCCCCEEEEecCcCCHHHHHHH
Confidence            5667899999999999998775

>3hhh_A Transcriptional regulator, PADR family; PF03551, structural PSI-2, protein structure initiative, midwest center for STR genomics, MCSG; 2.70A {Enterococcus faecalis} SCOP: a.4.5.0

Probab=83.46  E-value=1.3  Score=30.91  Aligned_cols=69  Identities=17%  Similarity=0.179  Sum_probs=48.6

Q ss_pred             HHHHHhhChhhHHhhcCCCCCCCHHHHHHHh------cCCCCCCcccHHHHHHHHhcccceeeeccC-CC--cccceecc
Q 036188           29 IQAVYELGIFEILDKAGPGTKLSASDIAAQL------LTKNKDAPMMLDRILRLLASYSVVECSLDA-SG--ARRLYSLN   99 (210)
Q Consensus        29 l~~a~~lglfd~L~~~g~~~~~t~~eLA~~~------~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~-~~--~~~~y~~t   99 (210)
                      ++-..++=|...|.+    +|.+--||++.+      ++    ++..+...|+-|...|+++..... +.  ..-.|++|
T Consensus        10 ~~g~l~~~IL~lL~~----~p~~Gyei~~~l~~~g~~~i----s~gtlY~~L~rLe~~GlI~~~~~~~~~g~~rk~Y~lT   81 (116)
T 3hhh_A           10 LKGILEGLVLAIIQR----KETYGYEITKILNDQGFTEI----VEGTVYTILLRLEKNQWVIAEKKPSEKGPMRKFYRLT   81 (116)
T ss_dssp             HTTHHHHHHHHHHHH----SCBCHHHHHHHHHTTSCSSC----CHHHHHHHHHHHHHTTSEEEEEEECC--CEEEEEEEC
T ss_pred             HhhhHHHHHHHHHhc----CCCCHHHHHHHHHHcCCCCC----CccHHHHHHHHHHHCCCEEEEeeecCCCCCceEEEEC
Confidence            333344445666777    699999999998      57    999999999999999999865210 00  11247788


Q ss_pred             cccccc
Q 036188          100 SVSKYY  105 (210)
Q Consensus       100 ~~s~~l  105 (210)
                      +.++..
T Consensus        82 ~~G~~~   87 (116)
T 3hhh_A           82 SSGEAE   87 (116)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            777643

>1tc3_C Protein (TC3 transposase); DNA binding, helix-turn-helix, TC1/mariner family, complex (transposase/DNA), DNA binding protein/DNA complex; HET: DNA; 2.45A {Caenorhabditis elegans} SCOP: a.4.1.2

Probab=83.37  E-value=0.77  Score=25.78  Aligned_cols=28  Identities=14%  Similarity=0.233  Sum_probs=23.6

Q ss_pred             CCCHHHHHHHhcCCCCCCcccHHHHHHHHhcc
Q 036188           49 KLSASDIAAQLLTKNKDAPMMLDRILRLLASY   80 (210)
Q Consensus        49 ~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~   80 (210)
                      +.|..+||+.+|+    ++.-+.++++.....
T Consensus        21 g~s~~~IA~~lgi----s~~Tv~~~~~~~~~~   48 (51)
T 1tc3_C           21 NVSLHEMSRKISR----SRHCIRVYLKDPVSY   48 (51)
T ss_dssp             TCCHHHHHHHHTC----CHHHHHHHHHCSTTT
T ss_pred             CCCHHHHHHHHCc----CHHHHHHHHhhHHhc
Confidence            6899999999999    999999988754433

>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=83.12  E-value=0.44  Score=38.23  Aligned_cols=17  Identities=24%  Similarity=0.321  Sum_probs=14.0

Q ss_pred             CCCeEEEecCCccHHHH
Q 036188          190 NIKQLVDVGGSLGVTLQ  206 (210)
Q Consensus       190 ~~~~vvDiGGg~G~~~~  206 (210)
                      ...+|||||||+|.+..
T Consensus        71 ~~~~vLDiGcG~G~~~~   87 (289)
T 2g72_A           71 SGRTLIDIGSGPTVYQL   87 (289)
T ss_dssp             CCSEEEEETCTTCCGGG
T ss_pred             CCCeEEEECCCcChHHH
Confidence            56799999999998543

>3eyy_A Putative iron uptake regulatory protein; NUR, nickel-uptake regulator, D-domain, dimerization domain, DB-domain, DNA-binding domain; 2.40A {Streptomyces coelicolor}

Probab=83.11  E-value=0.97  Score=32.80  Aligned_cols=52  Identities=17%  Similarity=0.179  Sum_probs=40.0

Q ss_pred             HhhChhhHHhhcCCCCCCCHHHHHHHhcCC-CCCCcccHHHHHHHHhcccceeeec
Q 036188           33 YELGIFEILDKAGPGTKLSASDIAAQLLTK-NKDAPMMLDRILRLLASYSVVECSL   87 (210)
Q Consensus        33 ~~lglfd~L~~~g~~~~~t~~eLA~~~~~~-~~~~~~~l~rlLr~L~~~gl~~~~~   87 (210)
                      -+.-|++.|...   ++.|++||.+.+.-. +.++..-+.|-|+.|+..|++.+..
T Consensus        20 qR~~Il~~l~~~---~h~ta~ei~~~l~~~~~~is~~TVYR~L~~L~e~Glv~~i~   72 (145)
T 3eyy_A           20 QRQLVLEAVDTL---EHATPDDILGEVRKTASGINISTVYRTLELLEELGLVSHAH   72 (145)
T ss_dssp             HHHHHHHHHHHH---SSBCHHHHHHHHHTTCTTCCHHHHHHHHHHHHHHTSEEEEE
T ss_pred             HHHHHHHHHHhc---CCCCHHHHHHHHHhhCCCCCHhHHHHHHHHHHHCCcEEEEE
Confidence            344577788775   389999999988321 1227889999999999999999874

>2w48_A Sorbitol operon regulator; SORC, activator, repressor, DNA-binding, transcription, transcription regulator, transcription regulation; 3.20A {Klebsiella pneumoniae}

Probab=83.07  E-value=0.89  Score=37.33  Aligned_cols=35  Identities=17%  Similarity=0.222  Sum_probs=33.2

Q ss_pred             CCCCHHHHHHHhcCCCCCCcccHHHHHHHHhccccee-ee
Q 036188           48 TKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVE-CS   86 (210)
Q Consensus        48 ~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~-~~   86 (210)
                      +++|.+|||+++++    ++.-++|.|..|...|++. +.
T Consensus        20 ~~~~~~ela~~l~v----S~~tIrRdL~~l~~~G~v~iri   55 (315)
T 2w48_A           20 QDMTQAQIARELGI----YRTTISRLLKRGREQGIVTIAI   55 (315)
T ss_dssp             SCCCHHHHHHHTTC----CHHHHHHHHHHHHHTTSEEEEE
T ss_pred             CCCCHHHHHHHHCc----CHHHHHHHHHHHHHCCcEEEEe
Confidence            58999999999999    9999999999999999997 65

>3htx_A HEN1; HEN1, small RNA methyltransferase, protein-RNA complex; HET: SAH; 3.10A {Arabidopsis thaliana}

Probab=82.93  E-value=0.64  Score=43.76  Aligned_cols=22  Identities=27%  Similarity=0.419  Sum_probs=18.8

Q ss_pred             CCCCeEEEecCCccHHHHhhhC
Q 036188          189 DNIKQLVDVGGSLGVTLQAITT  210 (210)
Q Consensus       189 ~~~~~vvDiGGg~G~~~~~l~~  210 (210)
                      ....+|||||||.|.++..+++
T Consensus       720 ~~g~rVLDVGCGTG~lai~LAr  741 (950)
T 3htx_A          720 SSASTLVDFGCGSGSLLDSLLD  741 (950)
T ss_dssp             SCCSEEEEETCSSSHHHHHHTS
T ss_pred             cCCCEEEEECCCCCHHHHHHHH
Confidence            3578999999999999988763

>2w57_A Ferric uptake regulation protein; gene regulation, transcription regulation, transport, iron, repressor, DNA-binding, transcription; 2.60A {Vibrio cholerae}

Probab=82.46  E-value=0.77  Score=33.56  Aligned_cols=59  Identities=20%  Similarity=0.330  Sum_probs=42.7

Q ss_pred             hhChhhHHhhcCCCCCCCHHHHHHHh-----cCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceec
Q 036188           34 ELGIFEILDKAGPGTKLSASDIAAQL-----LTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSL   98 (210)
Q Consensus        34 ~lglfd~L~~~g~~~~~t~~eLA~~~-----~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~   98 (210)
                      +.-|++.|...+ +++.|++||.+.+     ++    +..-+.|-|+.|+..|++.+.... ++..+|..
T Consensus        19 R~~Il~~L~~~~-~~h~sa~ei~~~l~~~~~~i----s~aTVYR~L~~L~e~Glv~~~~~~-~~~~~Y~~   82 (150)
T 2w57_A           19 RLKILEVLQQPE-CQHISAEELYKKLIDLGEEI----GLATVYRVLNQFDDAGIVTRHHFE-GGKSVFEL   82 (150)
T ss_dssp             HHHHHHHHTSGG-GSSEEHHHHHHHHHHTTCCC----CHHHHHHHHHHHHHTTSEEEEECG-GGCEEEEE
T ss_pred             HHHHHHHHHhCC-CCCCCHHHHHHHHHHhCCCC----CHHHHHHHHHHHHHCCcEEEEEeC-CCceEEEe
Confidence            344677776531 0389999999999     56    888999999999999999976311 02235764

>3sxy_A Transcriptional regulator, GNTR family; transcription factor, metal-binding, structur genomics, PSI-2, protein structure initiative; 1.65A {Thermotoga maritima} PDB: 3dbw_A 3fms_A*

Probab=82.33  E-value=1.1  Score=34.61  Aligned_cols=37  Identities=22%  Similarity=0.229  Sum_probs=34.2

Q ss_pred             CCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           46 PGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        46 ~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      ||..++-.+||+++|+    +...++.-|+.|...|+++..
T Consensus        32 pG~~L~e~~La~~lgV----SRtpVREAL~~L~~eGlv~~~   68 (218)
T 3sxy_A           32 LGEKLNVRELSEKLGI----SFTPVRDALLQLATEGLVKVV   68 (218)
T ss_dssp             TTCEECHHHHHHHHTC----CHHHHHHHHHHHHHHTSEEEE
T ss_pred             CCCEeCHHHHHHHHCC----CHHHHHHHHHHHHHCCCEEEe
Confidence            3468999999999999    999999999999999999876

>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=82.19  E-value=1.2  Score=40.89  Aligned_cols=50  Identities=8%  Similarity=-0.002  Sum_probs=33.8

Q ss_pred             CchhHhhccCchHHHHHHHHHhhhhhhhHHHHHHhCCCCCCCCeEEEecCCccHHHH
Q 036188          150 VHIFEYAGLNPRFNKHFNAAMYNYTSLVMSNILESYKGFDNIKQLVDVGGSLGVTLQ  206 (210)
Q Consensus       150 ~~~fe~l~~~p~~~~~f~~~M~~~~~~~~~~~l~~~~~~~~~~~vvDiGGg~G~~~~  206 (210)
                      ..-||.+.+|+.+-+.|.+++...       +.+..++-.+...|+|||||+|-++.
T Consensus       376 s~tYe~fekD~vRy~~Y~~AI~~a-------l~d~~~~~~~~~VVldVGaGtGpLs~  425 (745)
T 3ua3_A          376 SGVYNTFEQDQIKYDVYGEAVVGA-------LKDLGADGRKTVVIYLLGGGRGPIGT  425 (745)
T ss_dssp             HHHHHHHHHCHHHHHHHHHHHHHH-------HHHHHTTCCSEEEEEEESCTTCHHHH
T ss_pred             hHHHHHHcCChhhHHHHHHHHHHH-------HHHhhcccCCCcEEEEECCCCCHHHH
Confidence            356777888888888888877642       22222111245689999999999964

>3ajd_A Putative methyltransferase MJ0026; tRNA, M5C, rossmann fold, structural genomics, riken structu genomics/proteomics initiative; 1.27A {Methanocaldococcus jannaschii} PDB: 3a4t_A

Probab=82.17  E-value=0.41  Score=38.42  Aligned_cols=22  Identities=9%  Similarity=0.060  Sum_probs=18.7

Q ss_pred             CCCCCeEEEecCCccHHHHhhh
Q 036188          188 FDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       188 ~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      .....+|+|+|||+|..+..++
T Consensus        81 ~~~g~~VLDlgaG~G~~t~~la  102 (274)
T 3ajd_A           81 PREDDFILDMCAAPGGKTTHLA  102 (274)
T ss_dssp             CCTTCEEEETTCTTCHHHHHHH
T ss_pred             CCCcCEEEEeCCCccHHHHHHH
Confidence            5567899999999999987765

>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=82.08  E-value=0.71  Score=36.97  Aligned_cols=21  Identities=10%  Similarity=0.104  Sum_probs=17.7

Q ss_pred             CCCCCeEEEecCCccHHHHhh
Q 036188          188 FDNIKQLVDVGGSLGVTLQAI  208 (210)
Q Consensus       188 ~~~~~~vvDiGGg~G~~~~~l  208 (210)
                      +....+|+|||||.|-++..+
T Consensus       103 ~~~p~~VLDlGCG~gpLal~~  123 (253)
T 3frh_A          103 AETPRRVLDIACGLNPLALYE  123 (253)
T ss_dssp             SCCCSEEEEETCTTTHHHHHH
T ss_pred             CCCCCeEEEecCCccHHHHHh
Confidence            455789999999999998764

>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=81.57  E-value=0.51  Score=40.03  Aligned_cols=20  Identities=20%  Similarity=0.418  Sum_probs=17.4

Q ss_pred             CCCeEEEecCCccHHHHhhh
Q 036188          190 NIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       190 ~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ...+|+|||||.|.++..++
T Consensus       233 ~~~~VLDlGcG~G~~~~~la  252 (381)
T 3dmg_A          233 RGRQVLDLGAGYGALTLPLA  252 (381)
T ss_dssp             TTCEEEEETCTTSTTHHHHH
T ss_pred             CCCEEEEEeeeCCHHHHHHH
Confidence            45799999999999998775

>1hw1_A FADR, fatty acid metabolism regulator protein; helix-turn-helix, helix bundle, transcription; 1.50A {Escherichia coli} SCOP: a.4.5.6 a.78.1.1 PDB: 1hw2_A 1e2x_A 1h9g_A* 1h9t_A

Probab=81.44  E-value=1.4  Score=34.27  Aligned_cols=45  Identities=18%  Similarity=0.173  Sum_probs=38.5

Q ss_pred             CCCC-CHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceecc
Q 036188           47 GTKL-SASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLN   99 (210)
Q Consensus        47 ~~~~-t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t   99 (210)
                      |..+ |-.+||+++|+    +...++.-|+.|...|+++...    +.|.|...
T Consensus        28 G~~LPsE~eLa~~~gV----SR~tVReAL~~L~~eGlv~~~~----g~G~~V~~   73 (239)
T 1hw1_A           28 GTILPAERELSELIGV----TRTTLREVLQRLARDGWLTIQH----GKPTKVNN   73 (239)
T ss_dssp             TSBCCCHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEEET----TEEEEECC
T ss_pred             CCCCCCHHHHHHHHCC----CHHHHHHHHHHHHHCCcEEEec----CCCcEeeC
Confidence            4678 89999999999    9999999999999999998763    45666654

>2r6z_A UPF0341 protein in RSP 3' region; alpha-beta protein, structural genomics, PSI-2, protein structure initiative; 1.80A {Neisseria gonorrhoeae}

Probab=81.20  E-value=0.6  Score=37.36  Aligned_cols=22  Identities=14%  Similarity=0.123  Sum_probs=18.2

Q ss_pred             CCCCCeEEEecCCccHHHHhhh
Q 036188          188 FDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       188 ~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      .....+|||+|||.|.+++.++
T Consensus        81 ~~~~~~VLDlgcG~G~~a~~lA  102 (258)
T 2r6z_A           81 HTAHPTVWDATAGLGRDSFVLA  102 (258)
T ss_dssp             GGGCCCEEETTCTTCHHHHHHH
T ss_pred             cCCcCeEEEeeCccCHHHHHHH
Confidence            3445799999999999998775

>3ic7_A Putative transcriptional regulator; helix-turn-helix, structural genomics, PSI-2, protein struct initiative; 2.82A {Bacteroides thetaiotaomicron}

Probab=80.93  E-value=0.4  Score=34.02  Aligned_cols=44  Identities=14%  Similarity=0.121  Sum_probs=35.7

Q ss_pred             CCC-CHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceecc
Q 036188           48 TKL-SASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLN   99 (210)
Q Consensus        48 ~~~-t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t   99 (210)
                      ..+ |..+||+.+|+    +...+++-++.|...|++....    +.|.|...
T Consensus        33 ~~lPs~~~La~~~~v----Sr~tvr~Al~~L~~~G~i~~~~----~~G~~V~~   77 (126)
T 3ic7_A           33 GRIPSVREYASIVEV----NANTVMRSYEYLQSQEVIYNKR----GIGFFVAS   77 (126)
T ss_dssp             SEECCTTTTTTCC-C----CSGGGHHHHHHHHTTTSEEEET----TTEEEECT
T ss_pred             CcCcCHHHHHHHHCc----CHHHHHHHHHHHHHCCcEEEEc----CCccEEcc
Confidence            456 88999999999    9999999999999999998763    34555543

>3kor_A Possible Trp repressor; putative DNA-binding Trp repressor, TRPR like protein, struc genomics, transcription; 1.60A {Staphylococcus aureus}

Probab=80.82  E-value=3.6  Score=28.98  Aligned_cols=41  Identities=12%  Similarity=0.164  Sum_probs=34.4

Q ss_pred             HHHHhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhc
Q 036188           30 QAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLAS   79 (210)
Q Consensus        30 ~~a~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~   79 (210)
                      ..+-++.|+..|.+     +.|..|||+++|+    ...-+.|+-|.|..
T Consensus        61 aLs~R~eV~klL~~-----G~syreIA~~~g~----S~aTIsRv~r~L~~  101 (119)
T 3kor_A           61 SLSQRLQVAKMIKQ-----GYTYATIEQESGA----STATISRVKRSLQW  101 (119)
T ss_dssp             HHHHHHHHHHHHHH-----TCCHHHHHHHHCC----CHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHHc-----CCCHHHHHHHHCC----CHHHHHHHHHHHhc
Confidence            34445889999988     5999999999999    99999998887753

>3dv8_A Transcriptional regulator, CRP/FNR family; cyclic nucleotide-binding domain, structural genomics, joint for structural genomics; 2.55A {Eubacterium rectale atcc 33656}

Probab=80.73  E-value=1.6  Score=32.93  Aligned_cols=34  Identities=26%  Similarity=0.369  Sum_probs=32.6

Q ss_pred             CCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           49 KLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        49 ~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      ++|-++||..+|+    .+..+.|+|+.|...|+++..
T Consensus       169 ~~t~~~lA~~lg~----sr~tvsR~l~~L~~~g~I~~~  202 (220)
T 3dv8_A          169 KITHETIANHLGS----HREVITRMLRYFQVEGLVKLS  202 (220)
T ss_dssp             CCCHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEEE
T ss_pred             cCCHHHHHHHhCC----CHHHHHHHHHHHHHCCCEEeC
Confidence            7899999999999    999999999999999999875

>2oz6_A Virulence factor regulator; winged helix, helix-turn-helix, transcription factor, CAMP-B proteins, CAMP receptor protein; HET: CMP; 2.80A {Pseudomonas aeruginosa} SCOP: a.4.5.4 b.82.3.2

Probab=80.64  E-value=1.4  Score=32.87  Aligned_cols=34  Identities=21%  Similarity=0.336  Sum_probs=32.3

Q ss_pred             CCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           49 KLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        49 ~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      ++|-++||..+|+    .+..+.|+++.|...|+++..
T Consensus       164 ~~t~~~lA~~lg~----sr~tvsR~l~~l~~~g~I~~~  197 (207)
T 2oz6_A          164 KITRQEIGRIVGC----SREMVGRVLKSLEEQGLVHVK  197 (207)
T ss_dssp             ECCHHHHHHHHTS----CHHHHHHHHHHHHHTTSEEEE
T ss_pred             ccCHHHHHHHhCC----CHHHHHHHHHHHHHCCCEEec
Confidence            5899999999999    999999999999999999875

>4ets_A Ferric uptake regulation protein; metal binding protein, transcription factor; 2.10A {Campylobacter jejuni subsp}

Probab=80.54  E-value=2  Score=31.84  Aligned_cols=63  Identities=16%  Similarity=0.142  Sum_probs=44.0

Q ss_pred             hhChhhHHhhcCCCCCCCHHHHHHHhcCC---CCCCcccHHHHHHHHhcccceeeeccCCCcccceecc
Q 036188           34 ELGIFEILDKAGPGTKLSASDIAAQLLTK---NKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLN   99 (210)
Q Consensus        34 ~lglfd~L~~~g~~~~~t~~eLA~~~~~~---~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t   99 (210)
                      +.-|++.|.+.+  ++.|++||-+.+.-+   +.++..-+.|-|+.|+..|++.+.... .+..+|..+
T Consensus        35 R~~IL~~L~~~~--~h~sA~eI~~~l~~~~~~~~is~aTVYRtL~~L~e~Glv~~i~~~-~~~~~Y~~~  100 (162)
T 4ets_A           35 REVLLKTLYHSD--THYTPESLYMEIKQAEPDLNVGIATVYRTLNLLEEAEMVTSISFG-SAGKKYELA  100 (162)
T ss_dssp             HHHHHHHHHSCC--SCBCHHHHHHHHHHHCGGGCCCHHHHHHHHHHHHHTTSEEECC------CCEEEC
T ss_pred             HHHHHHHHHhCC--CCCCHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHHCCCEEEEEeC-CCceEEEeC
Confidence            455788887764  699999999877420   223788999999999999999986311 123357654

>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=80.43  E-value=3  Score=34.18  Aligned_cols=18  Identities=22%  Similarity=0.159  Sum_probs=15.4

Q ss_pred             CCCCCeEEEecCCccHHH
Q 036188          188 FDNIKQLVDVGGSLGVTL  205 (210)
Q Consensus       188 ~~~~~~vvDiGGg~G~~~  205 (210)
                      .....+|+|||||+|.++
T Consensus       120 l~~g~rVLDIGcG~G~~t  137 (298)
T 3fpf_A          120 FRRGERAVFIGGGPLPLT  137 (298)
T ss_dssp             CCTTCEEEEECCCSSCHH
T ss_pred             CCCcCEEEEECCCccHHH
Confidence            678899999999998654

>2zcw_A TTHA1359, transcriptional regulator, FNR/CRP family; stationary phase, DNA-binding, transcription regulation; 1.50A {Thermus thermophilus}

Probab=80.21  E-value=1.5  Score=32.83  Aligned_cols=34  Identities=15%  Similarity=0.219  Sum_probs=32.3

Q ss_pred             CCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           49 KLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        49 ~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      ++|-++||..+|+    .+..+.|+|+.|...|+++..
T Consensus       146 ~~t~~~lA~~lg~----sr~tvsR~l~~L~~~g~I~~~  179 (202)
T 2zcw_A          146 KATHDELAAAVGS----VRETVTKVIGELAREGYIRSG  179 (202)
T ss_dssp             ECCHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEEE
T ss_pred             CCCHHHHHHHhCC----CHHHHHHHHHHHHHCCCEEeC
Confidence            5899999999999    999999999999999999875

---

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	210
d1kyza1	107	a.4.5.29 (A:13-119) Caffeic acid/5-hydroxyferulic	2e-33
d1fp1d1	110	a.4.5.29 (D:19-128) Chalcone O-methyltransferase {	7e-33
d1kyza2	243	c.66.1.12 (A:120-362) Caffeic acid/5-hydroxyferuli	1e-31
d1fp1d2	244	c.66.1.12 (D:129-372) Chalcone O-methyltransferase	2e-29
d1fp2a2	244	c.66.1.12 (A:109-352) Isoflavone O-methyltransfera	2e-27
d1qzza2	256	c.66.1.12 (A:102-357) Aclacinomycin-10-hydroxylase	3e-20
d1tw3a2	253	c.66.1.12 (A:99-351) Carminomycin 4-O-methyltransf	8e-20
d1fp2a1	101	a.4.5.29 (A:8-108) Isoflavone O-methyltransferase	2e-15
d1qzza1	92	a.4.5.29 (A:10-101) Aclacinomycin-10-hydroxylase R	1e-09
d1tw3a1	85	a.4.5.29 (A:14-98) Carminomycin 4-O-methyltransfer	2e-08

>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 =  113 bits (285), Expect = 2e-33
 Identities = 48/105 (45%), Positives = 71/105 (67%), Gaps = 3/105 (2%)

Query: 8   ERDQSFAYADQLATGVVLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAP 67
             +++  +A QLA+  VLPM +++  EL + EI+ KAGPG ++S  +IA+QL T N DAP
Sbjct: 3   SDEEANLFAMQLASASVLPMILKSALELDLLEIIAKAGPGAQISPIEIASQLPTTNPDAP 62

Query: 68  MMLDRILRLLASYSVVECSLDAS---GARRLYSLNSVSKYYVPNK 109
           +MLDR+LRLLA Y ++ CS+        +RLY L +V+KY V N+
Sbjct: 63  VMLDRMLRLLACYIILTCSVRTQQDGKVQRLYGLATVAKYLVKNE 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 =  112 bits (282), Expect = 7e-33
 Identities = 45/109 (41%), Positives = 64/109 (58%), Gaps = 6/109 (5%)

Query: 8   ERDQSFAYADQLATGVVLPMAIQAVYELGIFEILDKAG-PGTKLSASDIAAQL--LTKNK 64
             D +   A  L T +V P  + A  +L +FEI+ KA  PG  +S S+IA++L   T++ 
Sbjct: 2   TEDSACLSAMVLTTNLVYPAVLNAAIDLNLFEIIAKATPPGAFMSPSEIASKLPASTQHS 61

Query: 65  DAPMMLDRILRLLASYSVVECSLDAS---GARRLYSLNSVSKYYVPNKD 110
           D P  LDR+LRLLASYSV+  +       GA R+Y L+ V KY VP++ 
Sbjct: 62  DLPNRLDRMLRLLASYSVLTSTTRTIEDGGAERVYGLSMVGKYLVPDES 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 =  112 bits (282), Expect = 1e-31
 Identities = 52/99 (52%), Positives = 71/99 (71%)

Query: 110 DGVLLGPLIQIIQDKVILESWSQLKDAILEGGIPFNRAHGVHIFEYAGLNPRFNKHFNAA 169
           DGV +  L  + QDKV++ESW  LKDA+L+GGIPFN+A+G+  FEY G +PRFNK FN  
Sbjct: 1   DGVSISALNLMNQDKVLMESWYHLKDAVLDGGIPFNKAYGMTAFEYHGTDPRFNKVFNKG 60

Query: 170 MYNYTSLVMSNILESYKGFDNIKQLVDVGGSLGVTLQAI 208
           M +++++ M  ILE+Y GF+ +K LVDVGG  G  +  I
Sbjct: 61  MSDHSTITMKKILETYTGFEGLKSLVDVGGGTGAVINTI 99

>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 =  107 bits (268), Expect = 2e-29
 Identities = 32/96 (33%), Positives = 50/96 (52%), Gaps = 1/96 (1%)

Query: 114 LGPLIQIIQDKVILESWSQLKDAILEGGI-PFNRAHGVHIFEYAGLNPRFNKHFNAAMYN 172
           L      +    +L+ W   K+A+++  I  F   HGV  +E+ G + + N+ FN +M +
Sbjct: 4   LASFTTFLCYPALLQVWMNFKEAVVDEDIDLFKNVHGVTKYEFMGKDKKMNQIFNKSMVD 63

Query: 173 YTSLVMSNILESYKGFDNIKQLVDVGGSLGVTLQAI 208
             +  M  +LE Y GF+ I  LVDVGG  G  L+ I
Sbjct: 64  VCATEMKRMLEIYTGFEGISTLVDVGGGSGRNLELI 99

>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 =  102 bits (255), Expect = 2e-27
 Identities = 28/96 (29%), Positives = 49/96 (51%), Gaps = 1/96 (1%)

Query: 114 LGPLIQIIQDKVILESWSQLKDAILEGGI-PFNRAHGVHIFEYAGLNPRFNKHFNAAMYN 172
           L P+++ + D  +  S+ +LK  I E  +  F    G   +++   NP +N  FN AM +
Sbjct: 3   LAPMVECVLDPTLSGSYHELKKWIYEEDLTLFGVTLGSGFWDFLDKNPEYNTSFNDAMAS 62

Query: 173 YTSLVMSNILESYKGFDNIKQLVDVGGSLGVTLQAI 208
            + L+   + +    FD ++ +VDVGG  G T + I
Sbjct: 63  DSKLINLALRDCDFVFDGLESIVDVGGGTGTTAKII 98

>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 = 83.5 bits (205), Expect = 3e-20
 Identities = 18/80 (22%), Positives = 34/80 (42%), Gaps = 1/80 (1%)

Query: 129 SWSQLKDAILEGGIPFNRAHGVHIFEYAGLNPRFNKHFNAAMYNYTSLVMSNILESYKGF 188
           +++ L D +  G   +   +G   +E    +      F+A M     L      ++Y  +
Sbjct: 21  AFTGLLDVVRTGRPAYAGRYGRPFWEDLSADVALADSFDALMSCDEDLAYEAPADAYD-W 79

Query: 189 DNIKQLVDVGGSLGVTLQAI 208
             ++ ++DVGG  G  L AI
Sbjct: 80  SAVRHVLDVGGGNGGMLAAI 99

>d1tw3a2 c.66.1.12 (A:99-351) Carminomycin 4-O-methyltransferase {Streptomyces peucetius [TaxId: 1950]} Length = 253

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: Plant O-methyltransferase, C-terminal domain
domain: Carminomycin 4-O-methyltransferase
species: Streptomyces peucetius [TaxId: 1950]

 Score = 82.4 bits (202), Expect = 8e-20
 Identities = 19/80 (23%), Positives = 35/80 (43%), Gaps = 1/80 (1%)

Query: 129 SWSQLKDAILEGGIPFNRAHGVHIFEYAGLNPRFNKHFNAAMYNYTSLVMSNILESYKGF 188
           S+++L DAI  G   +   +G   +E     P     F++ +     +       +Y  +
Sbjct: 20  SFTRLPDAIRTGRPTYESIYGKPFYEDLAGRPDLRASFDSLLACDQDVAFDAPAAAYD-W 78

Query: 189 DNIKQLVDVGGSLGVTLQAI 208
            N++ ++DVGG  G    AI
Sbjct: 79  TNVRHVLDVGGGKGGFAAAI 98

>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 = 66.8 bits (163), Expect = 2e-15
 Identities = 19/100 (19%), Positives = 38/100 (38%), Gaps = 6/100 (6%)

Query: 11  QSFAYADQLATGVVLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMML 70
           ++ A   +     +  M+++   E+ I  I+   G    +S S++ + L   +     + 
Sbjct: 8   KAQALLYKHIYAFIDSMSLKWAVEMNIPNIIQNHGKP--ISLSNLVSILQVPSSKIGNV- 64

Query: 71  DRILRLLASYSVVECSLDASGARRLYSLNSVSKYYVPNKD 110
            R++R LA     E           Y+L   S+  V   D
Sbjct: 65  RRLMRYLAHNGFFEIITKEE---ESYALTVASELLVRGSD 101

>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 = 51.3 bits (123), Expect = 1e-09
 Identities = 18/100 (18%), Positives = 32/100 (32%), Gaps = 11/100 (11%)

Query: 8   ERDQSFAYADQLATGVVLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAP 67
             DQ      +    +V PMA++    L + + L  AG     + + +A +        P
Sbjct: 3   PTDQDLDVLLKNLGNLVTPMALRVAATLRLVDHL-LAGA---DTLAGLADRT----DTHP 54

Query: 68  MMLDRILRLLASYSVVECSLDASGARRLYSLNSVSKYYVP 107
             L R++R L    V+E                +      
Sbjct: 55  QALSRLVRHLTVVGVLEGGEKQGRP---LRPTRLGMLLAD 91

>d1tw3a1 a.4.5.29 (A:14-98) Carminomycin 4-O-methyltransferase {Streptomyces peucetius [TaxId: 1950]} Length = 85

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Plant O-methyltransferase, N-terminal domain
domain: Carminomycin 4-O-methyltransferase
species: Streptomyces peucetius [TaxId: 1950]

 Score = 47.9 bits (114), Expect = 2e-08
 Identities = 13/91 (14%), Positives = 30/91 (32%), Gaps = 13/91 (14%)

Query: 18  QLATGVVLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLL 77
                +  PM ++    L + + +         +   +AA+        P  L R++R L
Sbjct: 7   IRLGSLHTPMVVRTAATLRLVDHILAG----ARTVKALAART----DTRPEALLRLIRHL 58

Query: 78  ASYSVVECSLDASGARRLYSLNSVSKYYVPN 108
            +  ++E       A   +    V +    +
Sbjct: 59  VAIGLLEED-----APGEFVPTEVGELLADD 84

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	210
d1fp2a1	101	Isoflavone O-methyltransferase {Alfalfa (Medicago	99.83
d1kyza2	243	Caffeic acid/5-hydroxyferulic acid 3/5-O-methyltra	99.8
d1tw3a1	85	Carminomycin 4-O-methyltransferase {Streptomyces p	99.78
d1fp1d2	244	Chalcone O-methyltransferase {Alfalfa (Medicago sa	99.76
d1kyza1	107	Caffeic acid/5-hydroxyferulic acid 3/5-O-methyltra	99.74
d1qzza1	92	Aclacinomycin-10-hydroxylase RdmB {Streptomyces pu	99.72
d1fp1d1	110	Chalcone O-methyltransferase {Alfalfa (Medicago sa	99.69
d1fp2a2	244	Isoflavone O-methyltransferase {Alfalfa (Medicago	99.67
d1qzza2	256	Aclacinomycin-10-hydroxylase RdmB {Streptomyces pu	99.64
d1tw3a2	253	Carminomycin 4-O-methyltransferase {Streptomyces p	99.59
d1mkma1	75	Transcriptional regulator IclR, N-terminal domain	98.29
d1r1ua_	94	Metal-sensing transcriptional repressor CzrA {Stap	96.94
d1ub9a_	100	Hypothetical protein PH1061 {Archaeon Pyrococcus h	96.83
d1r1ta_	98	SmtB repressor {Cyanobacteria (Synechococcus), pcc	96.81
d1j5ya1	65	Putative transcriptional regulator TM1602, N-termi	96.8
d2o57a1	282	Putative sarcosine dimethylglycine methyltransfera	96.75
d1biaa1	63	Biotin repressor, N-terminal domain {Escherichia c	96.71
d1z05a1	71	Transcriptional regulator VC2007 N-terminal domain	96.71
d2hoea1	62	N-acetylglucosamine kinase {Thermotoga maritima [T	96.63
d1ylfa1	138	Hypothetical protein BC1842 {Bacillus cereus [TaxI	96.59
d1u2wa1	108	Cadmium efflux system accessory protein CadC {Stap	96.54
d1lvaa3	64	C-terminal fragment of elongation factor SelB {Moo	96.54
d1xd7a_	127	Hypothetical protein ywnA {Bacillus subtilis [TaxI	96.34
d2d1ha1	109	Hypothetical transcriptional regulator ST1889 {Sul	96.32
d1ulya_	190	Hypothetical protein PH1932 {Pyrococcus horikoshii	96.32
d1z6ra1	70	Mlc protein N-terminal domain {Escherichia coli [T	96.12
d3ctaa1	85	Ta1064 (RFK), N-terminal domain {Thermoplasma acid	96.07
d2p4wa1	194	Transcriptional regulatory protein PF1790 {Pyrococ	96.0
d1sfxa_	109	Hypothetical protein AF2008 {Archaeoglobus fulgidu	95.96
d1lnwa_	141	MexR repressor {Pseudomonas aeruginosa [TaxId: 287	95.93
d1r7ja_	90	Sso10a (SSO10449) {Archaeon Sulfolobus solfataricu	95.82
d1wzna1	251	Hypothetical methyltransferase PH1305 {Archaeon Py	95.71
d3broa1	135	Transcriptional regulator OEOE1854 {Oenococcus oen	95.58
d1ku9a_	151	DNA-binding protein Mj223 {Archaeon Methanococcus	95.3
d1dpua_	69	C-terminal domain of RPA32 {Human (Homo sapiens) [	95.18
d1i1ga1	60	LprA {Archaeon Pyrococcus furiosus [TaxId: 2261]}	95.14
d2cg4a1	63	Regulatory protein AsnC {Escherichia coli [TaxId:	95.11
d2cfxa1	63	Transcriptional regulator LrpC {Bacillus subtilis	95.11
d2cyya1	60	Putative transcriptional regulator PH1519 {Archaeo	95.08
d1j75a_	57	Dlm-1 {Mouse (Mus musculus) [TaxId: 10090]}	94.91
d2hzta1	95	Putative transcriptional regulator YtcD {Bacillus	94.86
d2gxba1	59	Z-alpha domain of dsRNA-specific adenosine deamina	94.84
d1dusa_	194	Hypothetical protein MJ0882 {Archaeon Methanococcu	94.82
d2hr3a1	145	Probable transcriptional regulator PA3067 {Pseudom	94.8
d1jhfa1	71	LexA repressor, N-terminal DNA-binding domain {Esc	94.77
d1s3ja_	143	Putative transcriptional regulator YusO {Bacillus	94.75
d2fk8a1	280	Methoxy mycolic acid synthase 4, Mma4 {Mycobacteri	94.69
d1kpga_	285	CmaA1 {Mycobacterium tuberculosis [TaxId: 1773]}	94.65
d2bv6a1	136	Transcriptional regulator MgrA {Staphylococcus aur	94.59
d2etha1	140	Putative transcriptional regulator TM0816 {Thermot	94.56
d1jqea_	280	Histamine methyltransferase {Human (Homo sapiens)	94.55
d2fbha1	137	Transcriptional regulator PA3341 {Pseudomonas aeru	94.52
d1kpia_	291	CmaA2 {Mycobacterium tuberculosis [TaxId: 1773]}	94.5
d2a61a1	139	Transcriptional regulator TM0710 {Thermotoga marit	94.44
d1xtpa_	254	Hypothetical protein Lmaj004091aaa (LmjF30.0810) {	94.35
d1q1ha_	88	Transcription factor E/IIe-alpha, N-terminal domai	94.32
d2ex4a1	222	Adrenal gland protein AD-003 (C9orf32) {Human (Hom	94.13
d1jgsa_	138	Multiple antibiotic resistance repressor, MarR {Es	94.09
d2avna1	246	Hypothetical methyltransferase TM1389 {Thermotoga	94.08
d2fswa1	102	Hypothetical protein PG0823 {Porphyromonas gingiva	94.08
d1yyva1	114	Putative transcriptional regulator YtfH {Salmonell	94.08
d2ev0a1	61	Manganese transport regulator MntR {Bacillus subti	93.86
d3deua1	140	Transcriptional regulator SlyA {Salmonella typhimu	93.74
d1zx0a1	229	Guanidinoacetate methyltransferase {Human (Homo sa	93.7
d2isya1	63	Iron-dependent regulator IdeR {Mycobacterium tuber	93.56
d1xvaa_	292	Glycine N-methyltransferase {Rat (Rattus norvegicu	93.5
d1u2za_	406	Catalytic, N-terminal domain of histone methyltran	93.48
d2hs5a1	69	Putative transcriptional regulator RHA1_ro03477 {R	93.45
d2f2ea1	142	Hypothetical protein PA1607 {Pseudomonas aeruginos	93.29
d1dl5a1	213	Protein-L-isoaspartyl O-methyltransferase {Thermot	93.09
d1xmka1	73	Z-alpha domain of dsRNA-specific adenosine deamina	93.07
d1z7ua1	108	Hypothetical protein EF0647 {Enterococcus faecalis	92.99
d1p91a_	268	rRNA methyltransferase RlmA {Escherichia coli [Tax	92.88
d2nxca1	254	PrmA-like protein TTHA0656 (TT0836) {Thermus therm	92.78
d1yb2a1	250	Hypothetical protein Ta0852 {Thermoplasma acidophi	92.75
d1z91a1	137	Organic hydroperoxide resistance transcriptional r	92.75
d2frha1	115	Pleiotropic regulator of virulence genes, SarA {St	92.66
d2fbia1	136	Probable transcriptional regulator PA4135 {Pseudom	92.58
d1g8sa_	230	Fibrillarin homologue {Archaeon Methanococcus jann	92.53
d1hw1a1	74	Fatty acid responsive transcription factor FadR, N	92.51
d1zyba1	73	Probable transcription regulator BT4300, C-termina	91.97
d1p4xa1	125	Staphylococcal accessory regulator A homolog, SarS	91.9
d3bwga1	78	Transcriptional regulator YydK {Bacillus subtilis	91.82
d1nw3a_	328	Catalytic, N-terminal domain of histone methyltran	91.76
d2obpa1	81	Putative DNA-binding protein ReutB4095 {Ralstonia	91.67
d2fbka1	172	Transcriptional regulator DR1159 {Deinococcus radi	91.58
d1ne2a_	197	Hypothetical protein Ta1320 {Archaeon Thermoplasma	91.51
d1lj9a_	144	Transcriptional regulator SlyA {Enterococcus faeca	91.43
d2bzga1	229	Thiopurine S-methyltransferase {Human (Homo sapien	91.39
d1vbfa_	224	Protein-L-isoaspartyl O-methyltransferase {Sulfolo	91.36
d1o54a_	266	Hypothetical protein TM0748 {Thermotoga maritima [	91.34
d1nt2a_	209	Fibrillarin homologue {Archaeon Archaeoglobus fulg	91.28
d1i9ga_	264	Probable methyltransferase Rv2118c {Mycobacterium	91.27
d1hsja1	115	Staphylococcal accessory regulator A homolog, SarR	90.97
d1sfua_	70	34L {Yaba-like disease virus, YLDV [TaxId: 132475]	90.56
d1bl0a1	54	MarA {Escherichia coli [TaxId: 562]}	90.08
d1wy7a1	201	Hypothetical protein PH1948 {Archaeon Pyrococcus h	90.0
d1cf7a_	67	Cell cycle transcription factor E2F-4 {Human (Homo	89.97
d2b25a1	324	Hypothetical protein FLJ20628 {Human (Homo sapiens	89.84
d1p4xa2	125	Staphylococcal accessory regulator A homolog, SarS	89.84
d2gaua1	81	Transcriptional regulator PG0396, C-terminal domai	89.84
d1ft9a1	80	CO-sensing protein CooA, C-terminal domain {Rhodos	89.83
d2zcwa1	82	Transcriptional regulator TTHA1359, C-terminal dom	89.8
d2dk5a1	78	DNA-directed RNA polymerase III subunit RPC6, RPO3	89.64
d2b3ta1	274	N5-glutamine methyltransferase, HemK {Escherichia	89.57
d2fxaa1	162	Protease production regulatory protein Hpr {Bacill	89.56
d1i5za1	69	Catabolite gene activator protein (CAP), C-termina	89.13
d2a14a1	257	Indolethylamine N-methyltransferase, INMT {Human (	89.02
d1i1na_	224	Protein-L-isoaspartyl O-methyltransferase {Human (	88.49
d1stza1	87	Heat-inducible transcription repressor HrcA, N-ter	88.26
d1g8aa_	227	Fibrillarin homologue {Archaeon Pyrococcus horikos	87.17
d3e5ua1	80	Chlorophenol reduction protein CprK {Desulfitobact	86.7
d1jg1a_	215	Protein-L-isoaspartyl O-methyltransferase {Archaeo	86.02
d1r18a_	223	Protein-L-isoaspartyl O-methyltransferase {Fruit f	85.64
d1ws6a1	171	Methyltransferase TTHA0928 {Thermus thermophilus [	85.12
d1v4ra1	100	Transcriptional repressor TraR, N-terminal domain	84.44
d1d5ya1	54	Rob transcription factor, N-terminal domain {Esche	83.39
d1okra_	120	Methicillin resistance regulatory protein MecI {St	82.97
d1u5ta2	68	Vacuolar sorting protein SNF8 {Baker's yeast (Sacc	81.62
d1xn7a_	78	Hypothetical protein YhgG {Escherichia coli [TaxId	81.23
d2p8ta1	69	Hypothetical protein PH0730 {Pyrococcus horikoshii	80.92
d1s6la1	60	Alkylmercury lyase MerB {Escherichia coli [TaxId:	80.55
d2fpoa1	183	Methylase YhhF {Escherichia coli [TaxId: 562]}	80.28

>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=99.83  E-value=4.9e-21  Score=133.56  Aligned_cols=96  Identities=20%  Similarity=0.217  Sum_probs=83.4

Q ss_pred             hcchHHHHHHHHHhhchHHHHHHHHHhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeec
Q 036188            8 ERDQSFAYADQLATGVVLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSL   87 (210)
Q Consensus         8 ~~~~~~~~l~~~~~~~~~~~al~~a~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~   87 (210)
                      |..+++..+|+++++|+.+++|++|+++||||.|+++|  +|+|++|||+++++ ++.+++.|.|+||+|++.|+|+++.
T Consensus         5 e~~qaq~~l~~~~~gf~~s~aL~~aveLgi~d~l~~~~--~p~t~~eLa~~~~~-~~~~~~~L~RlLR~L~~~gi~~~~~   81 (101)
T d1fp2a1           5 EIFKAQALLYKHIYAFIDSMSLKWAVEMNIPNIIQNHG--KPISLSNLVSILQV-PSSKIGNVRRLMRYLAHNGFFEIIT   81 (101)
T ss_dssp             HHHHHHHHHHHHHTTHHHHHHHHHHHHTTHHHHHHHHT--SCEEHHHHHHHHTC-CGGGHHHHHHHHHHHHHTTSEEEEE
T ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHHHHcCcHHHHHHcC--CCCCHHHHHHHcCC-CCccchHHHHHHHHHHhCCceeeec
Confidence            56789999999999999999999999999999999876  79999999999998 2223466999999999999998652


Q ss_pred             cCCCcccceeccccccccccCC
Q 036188           88 DASGARRLYSLNSVSKYYVPNK  109 (210)
Q Consensus        88 ~~~~~~~~y~~t~~s~~l~~~~  109 (210)
                      .   .+++|++||.|++|++++
T Consensus        82 ~---~~~~Y~lt~~s~~Lv~~~  100 (101)
T d1fp2a1          82 K---EEESYALTVASELLVRGS  100 (101)
T ss_dssp             S---SSEEEEECHHHHTTSTTS
T ss_pred             C---CCCeEecCHHHHHhhcCC
Confidence            1   357899999999998765

>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=99.80  E-value=1.2e-19  Score=145.80  Aligned_cols=99  Identities=51%  Similarity=0.923  Sum_probs=92.2

Q ss_pred             CChHHHHHHhcChhHHHHHhhHHHHHhcCCchhhhhhCCchhHhhccCchHHHHHHHHHhhhhhhhHHHHHHhCCCCCCC
Q 036188          112 VLLGPLIQIIQDKVILESWSQLKDAILEGGIPFNRAHGVHIFEYAGLNPRFNKHFNAAMYNYTSLVMSNILESYKGFDNI  191 (210)
Q Consensus       112 ~~~~~~~~~~~~~~~~~~~~~L~~~l~~g~~~f~~~~g~~~fe~l~~~p~~~~~f~~~M~~~~~~~~~~~l~~~~~~~~~  191 (210)
                      .|+++++.+++++.+++.|.+|++++|+|+++|+.++|.++|||+.++|+..+.|+++|...+....+.++..|+.+++.
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            47999999998888999999999999999999999999999999999999999999999999988888999999844678


Q ss_pred             CeEEEecCCccHHHHhhhC
Q 036188          192 KQLVDVGGSLGVTLQAITT  210 (210)
Q Consensus       192 ~~vvDiGGg~G~~~~~l~~  210 (210)
                      ++|||||||+|.++++|++
T Consensus        83 ~~vvDvGGG~G~~~~~l~~  101 (243)
T d1kyza2          83 KSLVDVGGGTGAVINTIVS  101 (243)
T ss_dssp             SEEEEETCTTSHHHHHHHH
T ss_pred             cEEEEecCCCcHHHHHHHH
Confidence            9999999999999999874

>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=99.78  E-value=3.1e-19  Score=120.71  Aligned_cols=80  Identities=18%  Similarity=0.196  Sum_probs=74.0

Q ss_pred             HHHHhhchHHHHHHHHHhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccce
Q 036188           17 DQLATGVVLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLY   96 (210)
Q Consensus        17 ~~~~~~~~~~~al~~a~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y   96 (210)
                      +..+.+++.+++|++|+++||||+|+.    +|+|++|||+++|+    +++.+.|+||+|++.|+|+++     +++.|
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----RPEALLRLIRHLVAIGLLEED-----APGEF   72 (85)
T ss_dssp             HHHHHCSHHHHHHHHHHHTTHHHHHHT----TCCBHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEEE-----ETTEE
T ss_pred             HHHHHchHHHHHHHHHHHcCcHHHhcc----CCCCHHHHHHHhCc----ChhHHHHHHHHHHHCCCeEec-----CCCeE
Confidence            445578899999999999999999976    79999999999999    999999999999999999998     68999


Q ss_pred             eccccccccccCC
Q 036188           97 SLNSVSKYYVPNK  109 (210)
Q Consensus        97 ~~t~~s~~l~~~~  109 (210)
                      .+|+.|+.|++|+
T Consensus        73 ~lt~~s~~L~~Dh   85 (85)
T d1tw3a1          73 VPTEVGELLADDH   85 (85)
T ss_dssp             EECTTGGGGSTTS
T ss_pred             ecCHHHHHhhcCC
Confidence            9999999998764

>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=99.76  E-value=5.5e-19  Score=141.94  Aligned_cols=99  Identities=31%  Similarity=0.600  Sum_probs=80.3

Q ss_pred             CChHHHHHHhcChhHHHHHhhHHHHHhcCC-chhhhhhCCchhHhhccCchHHHHHHHHHhhhhhhhHHHHHHhCCCCCC
Q 036188          112 VLLGPLIQIIQDKVILESWSQLKDAILEGG-IPFNRAHGVHIFEYAGLNPRFNKHFNAAMYNYTSLVMSNILESYKGFDN  190 (210)
Q Consensus       112 ~~~~~~~~~~~~~~~~~~~~~L~~~l~~g~-~~f~~~~g~~~fe~l~~~p~~~~~f~~~M~~~~~~~~~~~l~~~~~~~~  190 (210)
                      .|+++++.++++|.+++.|.+|.+++++|. ++|+.++|.++|||+.+||+..+.|+++|.+.+...++.+++.|+.|++
T Consensus         2 g~l~~~~~~~~~p~~~~~w~~l~~~v~~g~~~~f~~~~G~~~~e~l~~~p~~~~~F~~aM~~~s~~~~~~l~~~~~~f~~   81 (244)
T d1fp1d2           2 GYLASFTTFLCYPALLQVWMNFKEAVVDEDIDLFKNVHGVTKYEFMGKDKKMNQIFNKSMVDVCATEMKRMLEIYTGFEG   81 (244)
T ss_dssp             CCCTHHHHHHTCHHHHHHHTTHHHHHHSCC--------------CCSSCHHHHHHHHHHHHHHHHHHHHHHHHHCCTTTT
T ss_pred             ccHHHHHHHHhCHHHHHHHHHHHHHHhcCCCCHhHHhcCCCHHHHHhhCHHHHHHHHHHHHHHHHHHHHHHHHhcccccC
Confidence            378999999999999999999999999865 5699999999999999999999999999999999999999999987899


Q ss_pred             CCeEEEecCCccHHHHhhhC
Q 036188          191 IKQLVDVGGSLGVTLQAITT  210 (210)
Q Consensus       191 ~~~vvDiGGg~G~~~~~l~~  210 (210)
                      ..+|||||||+|.++++|++
T Consensus        82 ~~~vlDiGGG~G~~~~~l~~  101 (244)
T d1fp1d2          82 ISTLVDVGGGSGRNLELIIS  101 (244)
T ss_dssp             CSEEEEETCTTSHHHHHHHH
T ss_pred             CcEEEEecCCCcHHHHHHHH
Confidence            99999999999999999874

>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=99.74  E-value=1.7e-18  Score=121.04  Aligned_cols=99  Identities=48%  Similarity=0.815  Sum_probs=83.7

Q ss_pred             chHHHHHHHHHhhchHHHHHHHHHhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccC
Q 036188           10 DQSFAYADQLATGVVLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDA   89 (210)
Q Consensus        10 ~~~~~~l~~~~~~~~~~~al~~a~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~   89 (210)
                      +++....++++++++.+++|++|++|||||+|+..|+++++|+.|||.++..++|..+..|+|+||+|++.|+|++....
T Consensus         5 ee~~l~a~~L~~~~v~pmaLk~AieLgI~DiI~~~G~~~~ls~~eia~~l~~~~p~~~~~L~RilR~Las~~vf~~~~~~   84 (107)
T d1kyza1           5 EEANLFAMQLASASVLPMILKSALELDLLEIIAKAGPGAQISPIEIASQLPTTNPDAPVMLDRMLRLLACYIILTCSVRT   84 (107)
T ss_dssp             HHHHHHHHHHHTTTHHHHHHHHHHHTTHHHHHHTTCTTCCBCHHHHHHTSSCCCTTHHHHHHHHHHHHHHTTSEEEEEEE
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHcCCHHHHHHcCCCCCCCHHHHHHhcCCCCCcchHHHHHHHHHHHhcCceEEeeec
Confidence            45667788999999999999999999999999998766789999999999996565577899999999999999865311


Q ss_pred             ---CCcccceeccccccccccC
Q 036188           90 ---SGARRLYSLNSVSKYYVPN  108 (210)
Q Consensus        90 ---~~~~~~y~~t~~s~~l~~~  108 (210)
                         +..+..|.+||.|++|++|
T Consensus        85 ~~dg~~~~~Y~LTpvsk~Lv~d  106 (107)
T d1kyza1          85 QQDGKVQRLYGLATVAKYLVKN  106 (107)
T ss_dssp             CTTSCEEEEEEECHHHHHHSCC
T ss_pred             CCCCCeeeEEecchhHHhhcCC
Confidence               1223479999999999876

>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=99.72  E-value=5.2e-18  Score=116.09  Aligned_cols=87  Identities=21%  Similarity=0.211  Sum_probs=78.2

Q ss_pred             chHHHHHHHHHhhchHHHHHHHHHhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccC
Q 036188           10 DQSFAYADQLATGVVLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDA   89 (210)
Q Consensus        10 ~~~~~~l~~~~~~~~~~~al~~a~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~   89 (210)
                      .+....+++++.+++.+++|++|+++||||+|+.    +|+|++|||+++|+    +++.+.|+||+|+++|+|++..+ 
T Consensus         5 d~~~d~ll~~~~~~~~~~~L~~aveL~ifd~L~~----gp~t~~eLA~~~g~----~~~~l~rLlr~L~a~gll~~~~d-   75 (92)
T d1qzza1           5 DQDLDVLLKNLGNLVTPMALRVAATLRLVDHLLA----GADTLAGLADRTDT----HPQALSRLVRHLTVVGVLEGGEK-   75 (92)
T ss_dssp             HHHHHHHHHTTTCCHHHHHHHHHHHTTHHHHHHT----TCCSHHHHHHHHTC----CHHHHHHHHHHHHHTTSEECCCC-
T ss_pred             chhHHHHHHHHHchHHHHHHHHHHHcCchHHHhC----CCCCHHHHHHHHCc----CchHHHHHHHHHHHCCCeeeecC-
Confidence            4677889999999999999999999999999987    79999999999999    99999999999999999998721 


Q ss_pred             CCcccceecccccccccc
Q 036188           90 SGARRLYSLNSVSKYYVP  107 (210)
Q Consensus        90 ~~~~~~y~~t~~s~~l~~  107 (210)
                        +.+.|++|+.++.|.+
T Consensus        76 --~~~~~~~t~~g~lL~d   91 (92)
T d1qzza1          76 --QGRPLRPTRLGMLLAD   91 (92)
T ss_dssp             ---CCCCEECTTGGGGST
T ss_pred             --CCceecccHHHHhccC
Confidence              2457999999998875

>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=99.69  E-value=4.1e-17  Score=114.25  Aligned_cols=101  Identities=44%  Similarity=0.693  Sum_probs=81.5

Q ss_pred             cchHHHHHHHHHhhchHHHHHHHHHhhChhhHHhhcC-CCCCCCHHHHHHHhcC--CCCCCcccHHHHHHHHhcccceee
Q 036188            9 RDQSFAYADQLATGVVLPMAIQAVYELGIFEILDKAG-PGTKLSASDIAAQLLT--KNKDAPMMLDRILRLLASYSVVEC   85 (210)
Q Consensus         9 ~~~~~~~l~~~~~~~~~~~al~~a~~lglfd~L~~~g-~~~~~t~~eLA~~~~~--~~~~~~~~l~rlLr~L~~~gl~~~   85 (210)
                      -+++...+++++.+++.+++|++|++|||||+|+..| +|+++|++|||.++.+  ++|..+..|.|+||+|++.|+|++
T Consensus         3 ~~~~~l~a~~L~~~~v~pMaLk~AieLgI~diI~~~G~~~~~ls~~ela~~lp~~~~~p~~~~~L~RiLRlLas~~vf~~   82 (110)
T d1fp1d1           3 EDSACLSAMVLTTNLVYPAVLNAAIDLNLFEIIAKATPPGAFMSPSEIASKLPASTQHSDLPNRLDRMLRLLASYSVLTS   82 (110)
T ss_dssp             HHHHHHHHHHHHHTTHHHHHHHHHHHTTHHHHHHTCSSTTCCBCHHHHHTTSCGGGCCTTHHHHHHHHHHHHHHTTSEEE
T ss_pred             hHHHHHHHHHHHHhhHHHHHHHHHHHcCCHHHHHHcCCCCCCCCHHHHHHhCCCCCCCccHHHHHHHHHHHHHHcCcccc
Confidence            3567788999999999999999999999999999876 4567999999999875  222224469999999999999975


Q ss_pred             eccC---CCcccceeccccccccccCC
Q 036188           86 SLDA---SGARRLYSLNSVSKYYVPNK  109 (210)
Q Consensus        86 ~~~~---~~~~~~y~~t~~s~~l~~~~  109 (210)
                      ....   ++.+..|.+||.|++|+++.
T Consensus        83 ~~~~~~~g~~e~~Y~Ltpvsk~Lv~de  109 (110)
T d1fp1d1          83 TTRTIEDGGAERVYGLSMVGKYLVPDE  109 (110)
T ss_dssp             EEEECTTSCEEEEEEECTTGGGGSTTC
T ss_pred             ccccCCCCCeeeEEecchhhHhhcCCC
Confidence            5321   12234699999999999875

>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=99.67  E-value=2.8e-17  Score=131.87  Aligned_cols=97  Identities=29%  Similarity=0.535  Sum_probs=86.4

Q ss_pred             ChHHHHHHhcChhHHHHHhhHHHHHhcCC-chhhhhhCCchhHhhccCchHHHHHHHHHhhhhhhhHHHHHHh-CCCCCC
Q 036188          113 LLGPLIQIIQDKVILESWSQLKDAILEGG-IPFNRAHGVHIFEYAGLNPRFNKHFNAAMYNYTSLVMSNILES-YKGFDN  190 (210)
Q Consensus       113 ~~~~~~~~~~~~~~~~~~~~L~~~l~~g~-~~f~~~~g~~~fe~l~~~p~~~~~f~~~M~~~~~~~~~~~l~~-~~~~~~  190 (210)
                      |+++++.++.+|.++.+|..|.++++++. ++|+.++|.++|||+.+||+..+.|+++|...+......+.+. ++ |++
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            67899999999999999999999999874 6899999999999999999999999999999888766665543 34 889


Q ss_pred             CCeEEEecCCccHHHHhhhC
Q 036188          191 IKQLVDVGGSLGVTLQAITT  210 (210)
Q Consensus       191 ~~~vvDiGGg~G~~~~~l~~  210 (210)
                      ..+|||||||+|++++++++
T Consensus        81 ~~~vvDvGGG~G~~~~~l~~  100 (244)
T d1fp2a2          81 LESIVDVGGGTGTTAKIICE  100 (244)
T ss_dssp             CSEEEEETCTTSHHHHHHHH
T ss_pred             ceEEEEecCCccHHHHHHHH
Confidence            99999999999999999863

>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=99.64  E-value=9.2e-17  Score=129.59  Aligned_cols=98  Identities=18%  Similarity=0.276  Sum_probs=86.4

Q ss_pred             CChHHHHHHhcChhHH-HHHhhHHHHHhcCCchhhhhhCCchhHhhccCchHHHHHHHHHhhhhhhhHHHHHHhCCCCCC
Q 036188          112 VLLGPLIQIIQDKVIL-ESWSQLKDAILEGGIPFNRAHGVHIFEYAGLNPRFNKHFNAAMYNYTSLVMSNILESYKGFDN  190 (210)
Q Consensus       112 ~~~~~~~~~~~~~~~~-~~~~~L~~~l~~g~~~f~~~~g~~~fe~l~~~p~~~~~f~~~M~~~~~~~~~~~l~~~~~~~~  190 (210)
                      .+++.++.+....... .+|.+|.+++|+|.++|+..+|.++|||+.++|+..+.|+++|...+...++.+++.+| |++
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            3677887664332222 37999999999999999999999999999999999999999999999988899999999 999


Q ss_pred             CCeEEEecCCccHHHHhhhC
Q 036188          191 IKQLVDVGGSLGVTLQAITT  210 (210)
Q Consensus       191 ~~~vvDiGGg~G~~~~~l~~  210 (210)
                      .++|||||||.|.++.+|++
T Consensus        82 ~~~vlDvG~G~G~~~~~l~~  101 (256)
T d1qzza2          82 VRHVLDVGGGNGGMLAAIAL  101 (256)
T ss_dssp             CCEEEEETCTTSHHHHHHHH
T ss_pred             CCEEEEECCCCCHHHHHHHH
Confidence            99999999999999998863

>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=99.59  E-value=6.8e-16  Score=124.00  Aligned_cols=81  Identities=23%  Similarity=0.406  Sum_probs=77.2

Q ss_pred             HHHhhHHHHHhcCCchhhhhhCCchhHhhccCchHHHHHHHHHhhhhhhhHHHHHHhCCCCCCCCeEEEecCCccHHHHh
Q 036188          128 ESWSQLKDAILEGGIPFNRAHGVHIFEYAGLNPRFNKHFNAAMYNYTSLVMSNILESYKGFDNIKQLVDVGGSLGVTLQA  207 (210)
Q Consensus       128 ~~~~~L~~~l~~g~~~f~~~~g~~~fe~l~~~p~~~~~f~~~M~~~~~~~~~~~l~~~~~~~~~~~vvDiGGg~G~~~~~  207 (210)
                      .+|.+|++++|+|+++|+.++|.++|||+.++|+..+.|+.+|...+...++.+++.|| |++.++|||||||+|.++..
T Consensus        19 ~~~~~L~~~vr~G~~~~~~~~G~~~~~~~~~~~~~~~~f~~~m~~~~~~~~~~~~~~~d-~~~~~~VLDvGcG~G~~~~~   97 (253)
T d1tw3a2          19 ISFTRLPDAIRTGRPTYESIYGKPFYEDLAGRPDLRASFDSLLACDQDVAFDAPAAAYD-WTNVRHVLDVGGGKGGFAAA   97 (253)
T ss_dssp             GGGGGHHHHHHHCCCCHHHHHSSCHHHHHHTCHHHHHHHHHHHTTTTTTTTHHHHHHSC-CTTCSEEEEETCTTSHHHHH
T ss_pred             ccHHHHHHHHHhCCchhhhccCCCHHHHHhhCHHHHHHHHHHHHHhHHHHHHHHHhhcC-CccCCEEEEeCCCCCHHHHH
Confidence            37999999999999999999999999999999999999999999998888899999999 99999999999999999998


Q ss_pred             hh
Q 036188          208 IT  209 (210)
Q Consensus       208 l~  209 (210)
                      ++
T Consensus        98 la   99 (253)
T d1tw3a2          98 IA   99 (253)
T ss_dssp             HH
T ss_pred             HH
Confidence            86

>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=98.29  E-value=3.6e-07  Score=58.84  Aligned_cols=57  Identities=16%  Similarity=0.138  Sum_probs=50.7

Q ss_pred             hChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceeccccc
Q 036188           35 LGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSVS  102 (210)
Q Consensus        35 lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~~s  102 (210)
                      +.|.+.++..+  +|+|+.|||+++|+    ++.-+.|+|..|+..|+++++     .++.|.+++..
T Consensus         8 l~IL~~~a~~~--~~~s~~eia~~~~~----~~st~~rll~tL~~~g~l~~~-----~~g~y~lG~~l   64 (75)
T d1mkma1           8 FEILDFIVKNP--GDVSVSEIAEKFNM----SVSNAYKYMVVLEEKGFVLRK-----KDKRYVPGYKL   64 (75)
T ss_dssp             HHHHHHHHHCS--SCBCHHHHHHHTTC----CHHHHHHHHHHHHHTTSEEEC-----TTSCEEECTHH
T ss_pred             HHHHHHHHhCC--CCCCHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEEC-----CCCCEeecHHH
Confidence            56788888875  69999999999999    999999999999999999997     57889988754

>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=96.94  E-value=0.00034  Score=46.32  Aligned_cols=53  Identities=25%  Similarity=0.285  Sum_probs=46.7

Q ss_pred             HHHHHHHHhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           26 PMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        26 ~~al~~a~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      +.+|.--.++.|+..|..    ++.++.||++.+|+    +...+.+-|+.|...|++...
T Consensus        12 fkaL~d~~Rl~Il~~L~~----~~~~v~el~~~l~~----s~~~vS~HL~~L~~~glv~~~   64 (94)
T d1r1ua_          12 FKALGDYNRIRIMELLSV----SEASVGHISHQLNL----SQSNVSHQLKLLKSVHLVKAK   64 (94)
T ss_dssp             HHHTCSHHHHHHHHHHHH----CCBCHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEEE
T ss_pred             HHHhCCHHHHHHHHHHHc----CCccHHHHHHHHCC----CHHHHHHHHHHHHHCCceEEE
Confidence            345556677888899987    69999999999999    999999999999999999876

>d1ub9a_ a.4.5.28 (A:) Hypothetical protein PH1061 {Archaeon Pyrococcus horikoshii [TaxId: 53953]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: MarR-like transcriptional regulators
domain: Hypothetical protein PH1061
species: Archaeon Pyrococcus horikoshii [TaxId: 53953]

Probab=96.83  E-value=0.00027  Score=47.10  Aligned_cols=66  Identities=23%  Similarity=0.213  Sum_probs=50.9

Q ss_pred             HHHhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCC-Ccccceecccccc
Q 036188           31 AVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDAS-GARRLYSLNSVSK  103 (210)
Q Consensus        31 ~a~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~-~~~~~y~~t~~s~  103 (210)
                      .-.++.|..+|...   +++|+.|||+.+++    ++..+.+.++.|...|+++...... ...-.|.+|+.++
T Consensus        15 ~p~r~~IL~~L~~~---~~~~~~eLa~~l~i----s~~~vs~~l~~L~~~glV~~~~~~~d~r~~~~~LT~~G~   81 (100)
T d1ub9a_          15 NPVRLGIMIFLLPR---RKAPFSQIQKVLDL----TPGNLDSHIRVLERNGLVKTYKVIADRPRTVVEITDFGM   81 (100)
T ss_dssp             SHHHHHHHHHHHHH---SEEEHHHHHHHTTC----CHHHHHHHHHHHHHTTSEEEEEECSSSCEEEEEECHHHH
T ss_pred             CHHHHHHHHHhccC---CCeeHHHHHHHHhh----ccccccHHHHHHhhhceeEEEEcCcCCccccccCCHHHH
Confidence            34567788889776   59999999999999    9999999999999999998652110 0112388887765

>d1r1ta_ a.4.5.5 (A:) SmtB repressor {Cyanobacteria (Synechococcus), pcc7942 [TaxId: 1129]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: ArsR-like transcriptional regulators
domain: SmtB repressor
species: Cyanobacteria (Synechococcus), pcc7942 [TaxId: 1129]

Probab=96.81  E-value=0.00051  Score=45.77  Aligned_cols=52  Identities=17%  Similarity=0.298  Sum_probs=45.7

Q ss_pred             HHHHHHHhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           27 MAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        27 ~al~~a~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      .+|.--.++.|...|..    ++.++.|||+.+|+    +...+.+-|+.|...|++...
T Consensus        18 kaL~~p~Rl~Il~~L~~----~~~~v~ela~~l~i----s~stvS~HL~~L~~aglV~~~   69 (98)
T d1r1ta_          18 AVLADPNRLRLLSLLAR----SELCVGDLAQAIGV----SESAVSHQLRSLRNLRLVSYR   69 (98)
T ss_dssp             HHHCCHHHHHHHHHHTT----CCBCHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEEE
T ss_pred             HHhCCHHHHHHHHHHHc----CCcCHHHHHHHHCc----CHHHHHHHHHHHHHCCceEEE
Confidence            45556677788888876    69999999999999    999999999999999999865

>d1j5ya1 a.4.5.1 (A:3-67) Putative transcriptional regulator TM1602, N-terminal domain {Thermotoga maritima [TaxId: 2336]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Biotin repressor-like
domain: Putative transcriptional regulator TM1602, N-terminal domain
species: Thermotoga maritima [TaxId: 2336]

Probab=96.80  E-value=0.0011  Score=40.54  Aligned_cols=58  Identities=19%  Similarity=0.249  Sum_probs=46.1

Q ss_pred             HHHhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccc-eeeeccCCCcccceeccc
Q 036188           31 AVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSV-VECSLDASGARRLYSLNS  100 (210)
Q Consensus        31 ~a~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl-~~~~~~~~~~~~~y~~t~  100 (210)
                      .--...|...|.+..  +++|++|||+.+++    +.+-++|-+..|...|+ +...      .+.|.+.+
T Consensus         6 ~eR~~~Il~~L~~~~--~~vs~~~La~~l~V----S~~TI~rdi~~L~~~G~~I~~~------~gGY~L~~   64 (65)
T d1j5ya1           6 QERLKSIVRILERSK--EPVSGAQLAEELSV----SRQVIVQDIAYLRSLGYNIVAT------PRGYVLAG   64 (65)
T ss_dssp             HHHHHHHHHHHHHCS--SCBCHHHHHHHHTS----CHHHHHHHHHHHHHHTCCCEEE------TTEEECCT
T ss_pred             HHHHHHHHHHHHHcC--CCCcHHHHHHHHCC----CHHHHHHHHHHHHHCCCeEEEe------CCCEEeCC
Confidence            334456788887653  58999999999999    99999999999999997 4443      56787753

>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=96.75  E-value=0.00053  Score=53.86  Aligned_cols=44  Identities=11%  Similarity=0.144  Sum_probs=31.8

Q ss_pred             HHHHHHhhhhhhhHHHHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          165 HFNAAMYNYTSLVMSNILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       165 ~f~~~M~~~~~~~~~~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      .+..++.......+..+....+ ++...+|||||||.|.++..|+
T Consensus        43 ~~~~a~~~~~~~~~~~l~~~~~-l~~~~~vLDiGcG~G~~~~~la   86 (282)
T d2o57a1          43 EIREASLRTDEWLASELAMTGV-LQRQAKGLDLGAGYGGAARFLV   86 (282)
T ss_dssp             CHHHHHHHHHHHHHHHHHHTTC-CCTTCEEEEETCTTSHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHHHhcC-CCCCCEEEEeCCCCcHHHhhhh
Confidence            3444444444445556566666 8889999999999999998775

>d1biaa1 a.4.5.1 (A:1-63) Biotin repressor, N-terminal domain {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Biotin repressor-like
domain: Biotin repressor, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=96.71  E-value=0.0011  Score=40.35  Aligned_cols=56  Identities=16%  Similarity=0.247  Sum_probs=43.8

Q ss_pred             HhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceecc
Q 036188           33 YELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLN   99 (210)
Q Consensus        33 ~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t   99 (210)
                      .++.|...|.+.   +.+|.+|||+++|+    +.+.++|-+..|...|+..+..    ....|.++
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----SRAAINKHIQTLRDWGVDVFTV----PGKGYSLP   61 (63)
T ss_dssp             HHHHHHHHHTTS---SCBCHHHHHHHHTS----CHHHHHHHHHHHHHTTCCCEEE----TTTEEECS
T ss_pred             HHHHHHHHHHHC---CcCCHHHHHHHHCc----CHHHHHHHHHHHHHCCCcEEEe----CCCeEEeC
Confidence            345677888663   68999999999999    9999999999999999854431    22257764

>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=96.71  E-value=0.0012  Score=41.11  Aligned_cols=45  Identities=18%  Similarity=0.321  Sum_probs=40.9

Q ss_pred             hChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           35 LGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        35 lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      ..|+.+|...   +++|..|||+.+|+    ++..+.++++.|...|++.+.
T Consensus         9 ~~Il~~l~~~---g~~sr~eLa~~~gl----S~~Tv~~~l~~L~~~Glv~e~   53 (71)
T d1z05a1           9 GRVYKLIDQK---GPISRIDLSKESEL----APASITKITRELIDAHLIHET   53 (71)
T ss_dssp             HHHHHHHHHH---CSBCHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEEE
T ss_pred             HHHHHHHHHc---CCcCHHHHHHHHCC----CHHHHHHHHHHHHHCCCEEEe
Confidence            3578888876   59999999999999    999999999999999999875

>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=96.63  E-value=0.0013  Score=39.91  Aligned_cols=43  Identities=16%  Similarity=0.223  Sum_probs=39.5

Q ss_pred             ChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           36 GIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        36 glfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      .|+..|.+    +|+|..|||+.+|+    .+.-+.++++-|...|++.+.
T Consensus         3 ~Il~~i~~----~pisr~eLa~~~gl----s~~TVs~~v~~L~~~GlV~e~   45 (62)
T d2hoea1           3 RILKRIMK----SPVSRVELAEELGL----TKTTVGEIAKIFLEKGIVVEE   45 (62)
T ss_dssp             CSHHHHHH----SCBCHHHHHHHHTC----CHHHHHHHHHHHHHHTSEEEE
T ss_pred             HHHHHHHH----CCcCHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEEC
Confidence            46778877    69999999999999    999999999999999999886

>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=96.59  E-value=0.0012  Score=46.47  Aligned_cols=45  Identities=16%  Similarity=0.164  Sum_probs=37.8

Q ss_pred             CCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceeccc
Q 036188           48 TKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNS  100 (210)
Q Consensus        48 ~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~  100 (210)
                      .+.|.++||+++++    ++.+++++|+.|...|+++...    +.|.|.+..
T Consensus        22 ~~vss~~IA~~~~i----~~~~l~kil~~L~~aGlv~S~r----G~GG~~L~~   66 (138)
T d1ylfa1          22 SLCTSDYMAESVNT----NPVVIRKIMSYLKQAGFVYVNR----GPGGAGLLK   66 (138)
T ss_dssp             GGCCHHHHHHHHTS----CHHHHHHHHHHHHHTTSEEEC-------CCEEESS
T ss_pred             CcCcHHHHHHHHCc----CHHHHHHHHHHHHHCCCeEeec----CCCCceecC
Confidence            58999999999999    9999999999999999998764    346676653

>d1u2wa1 a.4.5.5 (A:12-119) Cadmium efflux system accessory protein CadC {Staphylococcus aureus [TaxId: 1280]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: ArsR-like transcriptional regulators
domain: Cadmium efflux system accessory protein CadC
species: Staphylococcus aureus [TaxId: 1280]

Probab=96.54  E-value=0.00098  Score=45.14  Aligned_cols=55  Identities=25%  Similarity=0.132  Sum_probs=49.2

Q ss_pred             HHHHHHHHHhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           25 LPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        25 ~~~al~~a~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      .+.||.--.++.|+..|...   ++.++.|||+.+|+    .+..+.+-|+.|...|++...
T Consensus        24 ~~kaLadp~Rl~Il~~L~~~---~~~~v~ela~~l~~----s~s~vS~HL~~L~~aGlv~~~   78 (108)
T d1u2wa1          24 ILKAIADENRAKITYALCQD---EELCVCDIANILGV----TIANASHHLRTLYKQGVVNFR   78 (108)
T ss_dssp             HHHHHHSHHHHHHHHHHHHS---SCEEHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEEC
T ss_pred             HHHHhCCHHHHHHHHHHHhC---CCccHHHHHHHHcc----ChhHHHHHHHHHHHCCeeEEE
Confidence            45678888889999999764   58999999999999    999999999999999999876

>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=96.54  E-value=0.0019  Score=39.45  Aligned_cols=52  Identities=15%  Similarity=0.126  Sum_probs=42.8

Q ss_pred             hhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceec
Q 036188           37 IFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSL   98 (210)
Q Consensus        37 lfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~   98 (210)
                      |-+.+.++|- .|-++.|||+.+|+    ++..++.+|+.|+..|.+.+.     .++.|-+
T Consensus        12 I~~~~~~~g~-~PP~vrdl~~~l~~----~e~~~~~lL~~l~~~G~lvkI-----~~d~yfh   63 (64)
T d1lvaa3          12 LEDKYRVSRW-QPPSFKEVAGSFNL----DPSELEELLHYLVREGVLVKI-----NDEFYWH   63 (64)
T ss_dssp             HHHHHHHHTT-SCCBHHHHHHHTTC----CHHHHHHHHHHHHHTTSEEES-----SSSBEEE
T ss_pred             HHHHHHHcCC-CCCcHHHHHHHhCC----CHHHHHHHHHHHHHCCCEEEe-----ccccccc
Confidence            4455555432 58999999999999    999999999999999999988     5777643

>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=96.34  E-value=0.0025  Score=44.13  Aligned_cols=43  Identities=21%  Similarity=0.366  Sum_probs=37.2

Q ss_pred             hhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeec
Q 036188           38 FEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSL   87 (210)
Q Consensus        38 fd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~   87 (210)
                      .-.|+.+   +++|.++||+.+++    +|.+++++|+.|...|+++...
T Consensus        10 L~~la~~---~~~ss~~IA~~~~~----~~~~v~kIl~~L~~aglV~s~r   52 (127)
T d1xd7a_          10 LSLISMD---EKTSSEIIADSVNT----NPVVVRRMISLLKKADILTSRA   52 (127)
T ss_dssp             HHHHHTC---SCCCHHHHHHHHTS----CHHHHHHHHHHHHHTTSEECCS
T ss_pred             HHHHhcC---CCCCHHHHHHHhCc----CHHHHHHHHHHHHHhCcccccC
Confidence            3445554   58999999999999    9999999999999999998663

>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=96.32  E-value=0.0013  Score=44.32  Aligned_cols=44  Identities=9%  Similarity=0.172  Sum_probs=37.5

Q ss_pred             hhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           37 IFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        37 lfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      |+..|.+.+  +|+|+.|||+.+++    ++..+.++++-|...|++.+.
T Consensus        26 iL~~L~~~~--~~~t~~eLa~~~~i----~~~tvs~~l~~L~~~GlV~r~   69 (109)
T d2d1ha1          26 VLLKMVEIE--KPITSEELADIFKL----SKTTVENSLKKLIELGLVVRT   69 (109)
T ss_dssp             HHHHHHHHC--SCEEHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEEE
T ss_pred             HHHHHHHcC--CCCCHHHHHHHHCc----cHhHHHHHHHHHHHCCCEEEe
Confidence            444454433  68999999999999    999999999999999999876

>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=96.32  E-value=0.0021  Score=47.57  Aligned_cols=71  Identities=14%  Similarity=0.192  Sum_probs=53.3

Q ss_pred             HHHHHHHHhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccC--CC-cccceeccccc
Q 036188           26 PMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDA--SG-ARRLYSLNSVS  102 (210)
Q Consensus        26 ~~al~~a~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~--~~-~~~~y~~t~~s  102 (210)
                      ..+|.-=.++.|+..|..    +|+|+.|||+.+|+    ++..+.+-|+.|...|+++.....  .+ ..-.|..|+.+
T Consensus        13 ~~~l~~p~R~~Il~~L~~----~~~s~~ela~~lg~----s~~~v~~hl~~L~~~glv~~~~~~~~~g~~~k~y~~~~~~   84 (190)
T d1ulya_          13 IKVMLEDTRRKILKLLRN----KEMTISQLSEILGK----TPQTIYHHIEKLKEAGLVEVKRTEMKGNLVEKYYGRTADV   84 (190)
T ss_dssp             HHHHHSHHHHHHHHHHTT----CCBCHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEEEEEEEETTEEEEEEEESSSE
T ss_pred             HHHhCCHHHHHHHHHHHh----CCCCHHHHHHHHCc----CHHHHHHHHHHHHHCCCeEEEEeeccCCcceEEEEEcccc
Confidence            456666677888999976    79999999999999    999999999999999999643100  00 01237777665


Q ss_pred             cc
Q 036188          103 KY  104 (210)
Q Consensus       103 ~~  104 (210)
                      ..
T Consensus        85 ~~   86 (190)
T d1ulya_          85 FY   86 (190)
T ss_dssp             EE
T ss_pred             ee
Confidence            43

>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=96.12  E-value=0.0028  Score=39.26  Aligned_cols=45  Identities=16%  Similarity=0.266  Sum_probs=40.7

Q ss_pred             hChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           35 LGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        35 lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      ..|+..|...   +++|..|||+.+|+    .+..+.++++-|...|++.+.
T Consensus         8 ~~Il~~i~~~---g~~sr~eLa~~~gL----S~~Tvs~iv~~L~~~glv~e~   52 (70)
T d1z6ra1           8 GAVYRLIDQL---GPVSRIDLSRLAQL----APASITKIVHEMLEAHLVQEL   52 (70)
T ss_dssp             HHHHHHHHSS---CSCCHHHHHHHTTC----CHHHHHHHHHHHHHHTSEEEC
T ss_pred             HHHHHHHHHc---CCcCHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEee
Confidence            3477888876   69999999999999    999999999999999999875

>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=96.07  E-value=0.0016  Score=42.06  Aligned_cols=49  Identities=14%  Similarity=0.107  Sum_probs=41.3

Q ss_pred             CCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccc---eecccccccc
Q 036188           48 TKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRL---YSLNSVSKYY  105 (210)
Q Consensus        48 ~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~---y~~t~~s~~l  105 (210)
                      +++|..|||+.+++    ++..+.+++.-|...|++.+.     .+++   |.+|+.+..+
T Consensus        20 ~~lt~~eLa~~l~i----~~~~vs~~l~~Le~~GlV~r~-----~D~R~~~i~LT~~G~~~   71 (85)
T d3ctaa1          20 AYLTSSKLADMLGI----SQQSASRIIIDLEKNGYITRT-----VTKRGQILNITEKGLDV   71 (85)
T ss_dssp             EECCHHHHHHHHTS----CHHHHHHHHHHHHHTTSEEEE-----EETTEEEEEECHHHHHH
T ss_pred             CCCCHHHHHHHHCC----CHHHHHHHHHHHHHCCCeeee-----cccccccceECHHHHHH
Confidence            58999999999999    999999999999999999986     2333   6677766533

>d2p4wa1 a.4.5.64 (A:1-194) Transcriptional regulatory protein PF1790 {Pyrococcus furiosus [TaxId: 2261]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: PF1790-like
domain: Transcriptional regulatory protein PF1790
species: Pyrococcus furiosus [TaxId: 2261]

Probab=96.00  E-value=0.0031  Score=46.85  Aligned_cols=68  Identities=18%  Similarity=0.275  Sum_probs=50.7

Q ss_pred             HHHHHHhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccC-C-C-cccceecccccc
Q 036188           28 AIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDA-S-G-ARRLYSLNSVSK  103 (210)
Q Consensus        28 al~~a~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~-~-~-~~~~y~~t~~s~  103 (210)
                      +|.-=.++.|...|..    +|+|+.|||+.+|+    ++..+.+-|+.|...|+++..... + + ..-.|.++..+.
T Consensus        11 ~l~~~~R~~Il~~L~~----~~~~~~ela~~l~~----s~~~v~~HL~~L~~~Glv~~~~~~~~~G~~~~~y~l~~~~~   81 (194)
T d2p4wa1          11 VLGNETRRRILFLLTK----RPYFVSELSRELGV----GQKAVLEHLRILEEAGLIESRVEKIPRGRPRKYYMIKKGLR   81 (194)
T ss_dssp             HHHSHHHHHHHHHHHH----SCEEHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEEEECCBTTBCCCEEEEECTTEE
T ss_pred             HhCCHHHHHHHHHHHh----CCCCHHHHHHHHCc----CHHHHHHHHHHHHHCCCeEEEEeecCCCCceEEEEecccce
Confidence            3444455677888877    69999999999999    999999999999999999854211 0 0 112588777654

>d1sfxa_ a.4.5.50 (A:) Hypothetical protein AF2008 {Archaeoglobus fulgidus [TaxId: 2234]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: TrmB-like
domain: Hypothetical protein AF2008
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=95.96  E-value=0.0032  Score=42.36  Aligned_cols=43  Identities=21%  Similarity=0.283  Sum_probs=38.0

Q ss_pred             hhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           37 IFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        37 lfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      |+-.|...   ++.|+.|||+.+|+    ++..+.++|.-|...|++++.
T Consensus        25 v~~~L~~~---g~~t~~eia~~~~i----~~~~v~~~l~~L~~~GlV~r~   67 (109)
T d1sfxa_          25 IYSLLLER---GGMRVSEIARELDL----SARFVRDRLKVLLKRGFVRRE   67 (109)
T ss_dssp             HHHHHHHH---CCBCHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEEE
T ss_pred             HHHHHHhc---CCCCHHHHHHHhCC----CcchHHHHHHHHHhCCCEEEE
Confidence            45566665   59999999999999    999999999999999999865

>d1lnwa_ a.4.5.28 (A:) MexR repressor {Pseudomonas aeruginosa [TaxId: 287]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: MarR-like transcriptional regulators
domain: MexR repressor
species: Pseudomonas aeruginosa [TaxId: 287]

Probab=95.93  E-value=0.011  Score=41.25  Aligned_cols=76  Identities=13%  Similarity=0.149  Sum_probs=52.6

Q ss_pred             cchhcchHHHHHHHHHhhchHHHHHH-----HHHhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhc
Q 036188            5 VDGERDQSFAYADQLATGVVLPMAIQ-----AVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLAS   79 (210)
Q Consensus         5 ~~~~~~~~~~~l~~~~~~~~~~~al~-----~a~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~   79 (210)
                      +++++.+....++..+..-.....-.     ...+..|...|...   +++|+.|||+.+++    ++..+.|+++.|+.
T Consensus         4 ~~~dl~~~l~~~~~~~~~~~~~~~~~~~~~lt~~q~~vL~~l~~~---~~~t~~~la~~l~~----~~~~vsr~l~~L~~   76 (141)
T d1lnwa_           4 VNPDLMPALMAVFQHVRTRIQSELDCQRLDLTPPDVHVLKLIDEQ---RGLNLQDLGRQMCR----DKALITRKIRELEG   76 (141)
T ss_dssp             CCTTHHHHHHHHHHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHSS---TTCBHHHHHHHTTC----CHHHHHHHHHHHHH
T ss_pred             CChhHHHHHHHHHHHHHHHHHHHHHhhcCCCCHHHHHHHHHHHHC---CCCCHHHHHHHHCc----cHhHHHHHHHHHHH
Confidence            45556666666655555433322211     22233455566654   47999999999999    99999999999999


Q ss_pred             ccceeeec
Q 036188           80 YSVVECSL   87 (210)
Q Consensus        80 ~gl~~~~~   87 (210)
                      .|++++..
T Consensus        77 ~G~v~r~~   84 (141)
T d1lnwa_          77 RNLVRRER   84 (141)
T ss_dssp             TTSEEEEE
T ss_pred             hhceeeec
Confidence            99998763

>d1r7ja_ a.4.5.49 (A:) Sso10a (SSO10449) {Archaeon Sulfolobus solfataricus [TaxId: 2287]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Archaeal DNA-binding protein
domain: Sso10a (SSO10449)
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=95.82  E-value=0.0038  Score=40.69  Aligned_cols=57  Identities=12%  Similarity=0.183  Sum_probs=47.5

Q ss_pred             hhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceeccccccccc
Q 036188           38 FEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSVSKYYV  106 (210)
Q Consensus        38 fd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~~s~~l~  106 (210)
                      +|.|....  ++.+.-.|..++++    +.+.+.+.+..|...|++++.      .+.|.+|+.+.-+.
T Consensus         9 ~DIL~~~~--~g~~kT~i~~~aNL----s~~~~~kyl~~L~~~GLI~~~------~~~Y~iT~kG~~~L   65 (90)
T d1r7ja_           9 QAILEACK--SGSPKTRIMYGANL----SYALTGRYIKMLMDLEIIRQE------GKQYMLTKKGEELL   65 (90)
T ss_dssp             HHHHHHHT--TCBCHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEEE------TTEEEECHHHHHHH
T ss_pred             HHHHHHHh--CCCCccHHHHHcCC----CHHHHHHHHHHHHHCCCeeec------CCEEEECccHHHHH
Confidence            45554432  35578999999999    999999999999999999876      78999999998655

>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=95.71  E-value=0.0078  Score=45.59  Aligned_cols=30  Identities=10%  Similarity=0.312  Sum_probs=23.9

Q ss_pred             HHHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          179 SNILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       179 ~~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ..++..+. ..+.++|||||||+|..+..++
T Consensus        31 ~~~~~~~~-~~~~~~iLDiGcGtG~~~~~l~   60 (251)
T d1wzna1          31 EEIFKEDA-KREVRRVLDLACGTGIPTLELA   60 (251)
T ss_dssp             HHHHHHTC-SSCCCEEEEETCTTCHHHHHHH
T ss_pred             HHHHHHhc-CCCCCEEEEeCCCCCccchhhc
Confidence            34556665 6778899999999999998775

>d3broa1 a.4.5.28 (A:3-137) Transcriptional regulator OEOE1854 {Oenococcus oeni [TaxId: 1247]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: MarR-like transcriptional regulators
domain: Transcriptional regulator OEOE1854
species: Oenococcus oeni [TaxId: 1247]

Probab=95.58  E-value=0.007  Score=41.86  Aligned_cols=69  Identities=7%  Similarity=0.147  Sum_probs=50.0

Q ss_pred             HhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCC-Ccccceeccccccccc
Q 036188           33 YELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDAS-GARRLYSLNSVSKYYV  106 (210)
Q Consensus        33 ~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~-~~~~~y~~t~~s~~l~  106 (210)
                      .++.+...|...+ ++++|..|||+.+++    +...+.++++.|...|++++..... ...-.+.+|+.++.+.
T Consensus        30 ~q~~vL~~l~~~~-~~~it~~ela~~~~~----~~~~vs~~l~~L~~~g~v~r~~~~~D~R~~~i~lT~~G~~~~   99 (135)
T d3broa1          30 TQMTIIDYLSRNK-NKEVLQRDLESEFSI----KSSTATVLLQRMEIKKLLYRKVSGKDSRQKCLKLTKKANKLE   99 (135)
T ss_dssp             HHHHHHHHHHHTT-TSCCBHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEEEECSSCTTSEEEEECHHHHTTH
T ss_pred             HHHHHHHHHHHcC-CCCCCHHHHHHHHCc----CHhHHHHHHHHHHHHHHHHHHhhhhhhhhhhhcccHHHHHHH
Confidence            3444566676643 257999999999999    9999999999999999998663110 1122477777766443

>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=95.30  E-value=0.0089  Score=41.98  Aligned_cols=46  Identities=22%  Similarity=0.211  Sum_probs=39.7

Q ss_pred             hChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           35 LGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        35 lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      ..|+..|..++  +|+|+.|||+++|+    ++..+.+.++.|...|++.+.
T Consensus        29 ~~i~~~L~~~~--~plt~~ela~~l~v----sk~~vs~~l~~L~~~GlV~r~   74 (151)
T d1ku9a_          29 GAVYAILYLSD--KPLTISDIMEELKI----SKGNVSMSLKKLEELGFVRKV   74 (151)
T ss_dssp             HHHHHHHHHCS--SCEEHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEEE
T ss_pred             HHHHHHHHhCC--CCcCHHHHHHHhCC----CcchHHHHHHHHHHCCCEEEE
Confidence            34566665554  68999999999999    999999999999999999866

>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=95.18  E-value=0.014  Score=35.89  Aligned_cols=59  Identities=8%  Similarity=0.167  Sum_probs=46.6

Q ss_pred             hhChhhHHhhcCCCCCCCHHHHHHHh-cCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceeccc
Q 036188           34 ELGIFEILDKAGPGTKLSASDIAAQL-LTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNS  100 (210)
Q Consensus        34 ~lglfd~L~~~g~~~~~t~~eLA~~~-~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~  100 (210)
                      +..||.+|...+...++++.||++++ ++    +...++..++.|...|.+=..-    .+++|+.|.
T Consensus         8 q~~V~~~i~s~~~~eGi~~~el~~~l~~~----~~~~i~~aid~L~~eG~IYsTi----DddHfkstd   67 (69)
T d1dpua_           8 QNQVLNLIKACPRPEGLNFQDLKNQLKHM----SVSSIKQAVDFLSNEGHIYSTV----DDDHFKSTD   67 (69)
T ss_dssp             HHHHHHHHHHCCCTTTEEHHHHHHHSTTS----CHHHHHHHHHHHHHTTSEEECS----STTEEEESS
T ss_pred             HHHHHHHHHhCCCccCcCHHHHHHHccCC----CHHHHHHHHHHHHhCCceeccc----ccchhcccC
Confidence            44567777655434689999999999 79    9999999999999999886542    478888764

>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=95.14  E-value=0.0085  Score=35.77  Aligned_cols=47  Identities=21%  Similarity=0.293  Sum_probs=41.1

Q ss_pred             HhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           33 YELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        33 ~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      ++..|...|.++   +.+|..+||+++|+    ++..+.+=++.|...|++...
T Consensus         4 ~D~kIl~~L~~n---~r~s~~~lA~~~gl----s~~~v~~Ri~~L~~~giI~~~   50 (60)
T d1i1ga1           4 RDKIILEILEKD---ARTPFTEIAKKLGI----SETAVRKRVKALEEKGIIEGY   50 (60)
T ss_dssp             HHHHHHHHHHHC---TTCCHHHHHHHHTS----CHHHHHHHHHHHHHHTSSCCC
T ss_pred             HHHHHHHHHHHc---CCCCHHHHHHHHCc----CHHHHHHHHHHHHHCCCeEeE
Confidence            356677888886   58999999999999    999999999999999999753

>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=95.11  E-value=0.012  Score=35.48  Aligned_cols=47  Identities=15%  Similarity=0.259  Sum_probs=41.8

Q ss_pred             HhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           33 YELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        33 ~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      ++..|...|.++   +.+|..|||+++|+    ++..+.+=++.|...|++...
T Consensus         6 ~D~~IL~~L~~~---~r~s~~eiA~~l~l----s~~~v~~Ri~rL~~~GiI~~~   52 (63)
T d2cg4a1           6 LDRGILEALMGN---ARTAYAELAKQFGV----SPETIHVRVEKMKQAGIITGA   52 (63)
T ss_dssp             HHHHHHHHHHHC---TTSCHHHHHHHHTS----CHHHHHHHHHHHHHHTSEEEE
T ss_pred             HHHHHHHHHHHc---CCCCHHHHHHHHCc----CHHHHHHHHHHHHHCCCeEeE
Confidence            456688889886   59999999999999    999999999999999999854

>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=95.11  E-value=0.013  Score=35.21  Aligned_cols=47  Identities=23%  Similarity=0.426  Sum_probs=41.8

Q ss_pred             HhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           33 YELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        33 ~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      ++..|.+.|.++   +..|..+||+.+|+    ++.-+.+=++-|...|++...
T Consensus         6 ~D~~IL~~L~~n---~r~s~~~iA~~lgi----s~~tv~~Ri~~L~~~giI~~~   52 (63)
T d2cfxa1           6 IDLNIIEELKKD---SRLSMRELGRKIKL----SPPSVTERVRQLESFGIIKQY   52 (63)
T ss_dssp             HHHHHHHHHHHC---SCCCHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEEE
T ss_pred             HHHHHHHHHHHc---CCCCHHHHHHHHCc----CHHHHHHHHHHHHHCCCeeeE
Confidence            456788889886   59999999999999    999999999999999999754

>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=95.08  E-value=0.0099  Score=35.41  Aligned_cols=47  Identities=19%  Similarity=0.169  Sum_probs=41.9

Q ss_pred             HhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           33 YELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        33 ~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      ++..|...|.++   +.+|..|||+++|+    ++..+.+=++.|...|++...
T Consensus         4 ~D~~Il~~L~~n---~r~s~~eiA~~l~l----s~~~v~~Ri~~L~~~giI~~~   50 (60)
T d2cyya1           4 IDKKIIKILQND---GKAPLREISKITGL----AESTIHERIRKLRESGVIKKF   50 (60)
T ss_dssp             HHHHHHHHHHHC---TTCCHHHHHHHHCS----CHHHHHHHHHHHHHHTSSCCC
T ss_pred             HHHHHHHHHHHc---CCCCHHHHHHHHCc----CHHHHHHHHHHHHHCCCeEeE
Confidence            466788889886   58999999999999    999999999999999999754

>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=94.91  E-value=0.015  Score=33.42  Aligned_cols=54  Identities=17%  Similarity=0.267  Sum_probs=46.4

Q ss_pred             hhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceec
Q 036188           34 ELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSL   98 (210)
Q Consensus        34 ~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~   98 (210)
                      |-.|...|.++|  .|..+.+|+++|.+    +...|.++|..|-..+-+...     ++..|++
T Consensus         3 EQkILQVL~dag--spvk~~ql~k~cqV----pkk~lNqVL~rlkke~kVsl~-----~patW~l   56 (57)
T d1j75a_           3 EQKILQVLSDDG--GPVKIGQLVKKCQV----PKKTLNQVLYRLKKEDRVSSP-----EPATWSI   56 (57)
T ss_dssp             HHHHHHHHHHHC--SCEEHHHHHHHHCS----CHHHHHHHHHHHHHTTSEEEE-----ETTEEEE
T ss_pred             HHHHHHHHHhcC--CchHHHHHHHHHCC----CHHHHHHHHHHHHhccccccC-----CCccccC
Confidence            446778888887  89999999999999    999999999999999988876     5777764

>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=94.86  E-value=0.017  Score=37.79  Aligned_cols=55  Identities=18%  Similarity=0.176  Sum_probs=43.9

Q ss_pred             CCCCHHHHHHHh-cCCCCCCcccHHHHHHHHhcccceeeeccCCC-cccceeccccccccc
Q 036188           48 TKLSASDIAAQL-LTKNKDAPMMLDRILRLLASYSVVECSLDASG-ARRLYSLNSVSKYYV  106 (210)
Q Consensus        48 ~~~t~~eLA~~~-~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~-~~~~y~~t~~s~~l~  106 (210)
                      |+....||.+.+ |+    +++.|.+=|+.|...|++++....+. ..-.|.+|+.++-|.
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----TQKMLTQQLRELEADGVINRIVYNQVPPKVEYELSEYGRSLE   79 (95)
T ss_dssp             CCBCHHHHHHHCTTS----CHHHHHHHHHHHHHTTSEEEEEECSSSCEEEEEECTTGGGGH
T ss_pred             CCCCHHHHHHHhhcC----ChhHHHHHHHHHHHhHHHhheeccccccchhhhhhhhHHHHH
Confidence            689999999997 89    99999999999999999997631110 012399999888765

>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=94.84  E-value=0.034  Score=32.58  Aligned_cols=46  Identities=26%  Similarity=0.404  Sum_probs=38.5

Q ss_pred             hhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           37 IFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        37 lfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      |...|.+.|++...|+.+||.++++    ..+.+.|+|-.|...|.+.+.
T Consensus         4 vl~~l~~lg~~~~~tA~~LA~kl~v----pKk~iNr~LYsL~~kgkl~k~   49 (59)
T d2gxba1           4 ILKFLEELGEGKATTAHDLSGKLGT----PKKEINRVLYSLAKKGKLQKE   49 (59)
T ss_dssp             HHHHHHHHCTTCCBCHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEEE
T ss_pred             HHHHHHhcCCccchhHHHHHHHhCC----cHHHHHHHHHHHHHccchhhc
Confidence            3444544444578999999999999    999999999999999999876

>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=94.82  E-value=0.012  Score=43.20  Aligned_cols=28  Identities=25%  Similarity=0.412  Sum_probs=22.9

Q ss_pred             HHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          181 ILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       181 ~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      +++.++ -.+..+|||||||+|.+++.++
T Consensus        44 Li~~l~-~~~~~~VLDiGcG~G~~~~~la   71 (194)
T d1dusa_          44 LVENVV-VDKDDDILDLGCGYGVIGIALA   71 (194)
T ss_dssp             HHHHCC-CCTTCEEEEETCTTSHHHHHHG
T ss_pred             HHHhCC-cCCCCeEEEEeecCChhHHHHH
Confidence            455665 5678899999999999998875

>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=94.80  E-value=0.017  Score=40.31  Aligned_cols=67  Identities=24%  Similarity=0.283  Sum_probs=48.3

Q ss_pred             HhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCC-Ccccceecccccccc
Q 036188           33 YELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDAS-GARRLYSLNSVSKYY  105 (210)
Q Consensus        33 ~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~-~~~~~y~~t~~s~~l  105 (210)
                      .++.+...|...+  +++|+.+||+.+++    ++..+.+++.-|...|++++..... ...-.+.+|+.++.+
T Consensus        35 ~q~~vL~~L~~~~--g~~t~~~La~~~~~----~~~~vs~~i~~L~~~glv~r~~~~~DrR~~~i~LT~~G~~~  102 (145)
T d2hr3a1          35 SQLVVLGAIDRLG--GDVTPSELAAAERM----RSSNLAALLRELERGGLIVRHADPQDGRRTRVSLSSEGRRN  102 (145)
T ss_dssp             HHHHHHHHHHHTT--SCBCHHHHHHHTTC----CHHHHHHHHHHHHHTTSEEEEC------CCEEEECHHHHHH
T ss_pred             HHHHHHHHHHHcC--CCCCHHHHHHHHCC----CHHHHHHHHHHHHHcCCeEeeeCccchhHHHhccCHHHHHH
Confidence            4555666676654  68999999999999    9999999999999999998763110 011236666666543

>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=94.77  E-value=0.019  Score=35.37  Aligned_cols=42  Identities=24%  Similarity=0.337  Sum_probs=36.1

Q ss_pred             HHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           40 ILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        40 ~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      ++.++|  -|-|+.|||+.+|++   ++..+.+.|..|...|++++.
T Consensus        17 ~~~~~G--~~Ps~rei~~~~g~~---S~stv~~~l~~Le~kG~I~r~   58 (71)
T d1jhfa1          17 HISQTG--MPPTRAEIAQRLGFR---SPNAAEEHLKALARKGVIEIV   58 (71)
T ss_dssp             HHHHHS--SCCCHHHHHHHTTCS---SHHHHHHHHHHHHHTTSEEEC
T ss_pred             HHHHhC--CCCCHHHHHHHcCCC---CHHHHHHHHHHHHHCcCeecC
Confidence            444555  689999999999994   677899999999999999986

>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=94.75  E-value=0.038  Score=38.27  Aligned_cols=63  Identities=19%  Similarity=0.214  Sum_probs=47.3

Q ss_pred             hChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCccc---ceeccccccccc
Q 036188           35 LGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARR---LYSLNSVSKYYV  106 (210)
Q Consensus        35 lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~---~y~~t~~s~~l~  106 (210)
                      ..+...|...   +|.|+.+||+.+++    ++..+.+++.-|...|++++....  .+.   .+.+|+.++.+.
T Consensus        38 ~~iL~~l~~~---~~~t~~~la~~~~i----~~~~vs~~l~~L~~~glv~r~~~~--~D~R~~~v~lT~~G~~~~  103 (143)
T d1s3ja_          38 LFVLASLKKH---GSLKVSEIAERMEV----KPSAVTLMADRLEQKNLIARTHNT--KDRRVIDLSLTDEGDIKF  103 (143)
T ss_dssp             HHHHHHHHHH---SEEEHHHHHHHHTS----CHHHHHHHHHHHHHTTSEEEEECS--SCTTSEEEEECHHHHHHH
T ss_pred             HHHHHHHHHC---CCCCHHHHHHHHCc----CHHHHHHHHHHHHHhhhheeeeec--CCCCceEEEECHHHHHHH
Confidence            3456667665   48999999999999    999999999999999999866311  122   266666665443

>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=94.69  E-value=0.011  Score=46.37  Aligned_cols=30  Identities=20%  Similarity=0.308  Sum_probs=25.7

Q ss_pred             HHHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          179 SNILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       179 ~~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ..+++.+. .+...+|||||||.|.++..++
T Consensus        42 ~~~~~~l~-l~~g~~VLDiGCG~G~~a~~~a   71 (280)
T d2fk8a1          42 DLNLDKLD-LKPGMTLLDIGCGWGTTMRRAV   71 (280)
T ss_dssp             HHHHTTSC-CCTTCEEEEESCTTSHHHHHHH
T ss_pred             HHHHHHcC-CCCCCEEEEecCCchHHHHHHH
Confidence            56788887 8899999999999999987764

>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=94.65  E-value=0.011  Score=46.55  Aligned_cols=30  Identities=23%  Similarity=0.255  Sum_probs=25.7

Q ss_pred             HHHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          179 SNILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       179 ~~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ..+++... .+...+|||||||.|.+++.++
T Consensus        52 ~~~~~~l~-l~~G~~VLDiGCG~G~~a~~~a   81 (285)
T d1kpga_          52 DLALGKLG-LQPGMTLLDVGCGWGATMMRAV   81 (285)
T ss_dssp             HHHHTTTT-CCTTCEEEEETCTTSHHHHHHH
T ss_pred             HHHHHHcC-CCCCCEEEEecCcchHHHHHHH
Confidence            46677777 8889999999999999998765

>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=94.59  E-value=0.016  Score=40.13  Aligned_cols=64  Identities=9%  Similarity=0.145  Sum_probs=47.3

Q ss_pred             hChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCC-Ccccceecccccccc
Q 036188           35 LGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDAS-GARRLYSLNSVSKYY  105 (210)
Q Consensus        35 lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~-~~~~~y~~t~~s~~l  105 (210)
                      ..+...|...   ++.|..+||+.+++    ++..+.|+++-|+..|++++..... ...-.+.+|+.++.+
T Consensus        37 ~~vL~~i~~~---~~~t~~~la~~l~~----~~~~~s~~l~~L~~~Gli~r~~~~~D~R~~~l~lT~~G~~~  101 (136)
T d2bv6a1          37 FLVLTILWDE---SPVNVKKVVTELAL----DTGTVSPLLKRMEQVDLIKRERSEVDQREVFIHLTDKSETI  101 (136)
T ss_dssp             HHHHHHHHHS---SEEEHHHHHHHTTC----CTTTHHHHHHHHHHTTSEEEEECSSSTTCEEEEECHHHHHH
T ss_pred             HHHHHHHHcC---CCCCHHHHHHHHCC----CHhHHHHHHHHHHHCCCEEEeecCCcccchhhccCHHHHHH
Confidence            3455667675   58999999999999    9999999999999999998763110 011235677776543

>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=94.56  E-value=0.016  Score=40.27  Aligned_cols=66  Identities=18%  Similarity=0.079  Sum_probs=48.8

Q ss_pred             HhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCC-Ccccceecccccccc
Q 036188           33 YELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDAS-GARRLYSLNSVSKYY  105 (210)
Q Consensus        33 ~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~-~~~~~y~~t~~s~~l  105 (210)
                      .+.-+...|...   ++.|+.+||+.+++    ++..+.++++.|...|++++..... ...-...+|+.++-+
T Consensus        33 ~q~~iL~~l~~~---~~~t~~~La~~l~i----~~~~vs~~v~~L~~~gli~r~~~~~D~R~~~l~lT~~G~~~   99 (140)
T d2etha1          33 TELYAFLYVALF---GPKKMKEIAEFLST----TKSNVTNVVDSLEKRGLVVREMDPVDRRTYRVVLTEKGKEI   99 (140)
T ss_dssp             HHHHHHHHHHHH---CCBCHHHHHHHTTS----CHHHHHHHHHHHHHTTSEEEEECTTTSSCEEEEECHHHHHH
T ss_pred             HHHHHHHHHHHc---CCcCHHHHHHHHCc----CHHHHHHHHHHHHHCCCeeeeecccccchhhhhcCHHHHHH
Confidence            445577778776   48999999999999    9999999999999999999763110 011236666655533

>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=94.55  E-value=0.0093  Score=46.23  Aligned_cols=31  Identities=16%  Similarity=0.243  Sum_probs=20.6

Q ss_pred             HHHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          179 SNILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       179 ~~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      +.++..+...+...+|||||||+|.++..|+
T Consensus        29 ~~~l~~l~~~~~~~~VLDiGcG~G~~~~~ll   59 (280)
T d1jqea_          29 PGIIGRIGDTKSEIKILSIGGGAGEIDLQIL   59 (280)
T ss_dssp             HHHTTTTTTTCSEEEEEEETCTTSHHHHHHH
T ss_pred             HHHHHHhccCCCCCeEEEEcCCCCHHHHHHH
Confidence            3444444313344579999999999877664

>d2fbha1 a.4.5.28 (A:8-144) Transcriptional regulator PA3341 {Pseudomonas aeruginosa [TaxId: 287]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: MarR-like transcriptional regulators
domain: Transcriptional regulator PA3341
species: Pseudomonas aeruginosa [TaxId: 287]

Probab=94.52  E-value=0.018  Score=39.72  Aligned_cols=43  Identities=19%  Similarity=0.141  Sum_probs=36.8

Q ss_pred             hhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           38 FEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        38 fd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      .-.|...+  ++.|..+||+.+++    ++..+.++++-|+..|++++.
T Consensus        34 L~~l~~~~--~~~t~~~la~~~~~----~~~~vs~~v~~L~~~gli~r~   76 (137)
T d2fbha1          34 LLHLARHR--DSPTQRELAQSVGV----EGPTLARLLDGLESQGLVRRL   76 (137)
T ss_dssp             HHHHHHCS--SCCBHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEEE
T ss_pred             HHHHHHcC--CCCcHHHHHHHHCC----CHHHHHHHHHHHHHcCCcccc
Confidence            34455543  46899999999999    999999999999999999976

>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=94.50  E-value=0.014  Score=46.13  Aligned_cols=30  Identities=20%  Similarity=0.340  Sum_probs=25.9

Q ss_pred             HHHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          179 SNILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       179 ~~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ..+++... .+...+|||||||.|.+++.++
T Consensus        51 ~~~~~~l~-l~~G~~VLDiGCG~G~~~~~~a   80 (291)
T d1kpia_          51 KLALDKLN-LEPGMTLLDIGCGWGSTMRHAV   80 (291)
T ss_dssp             HHHHHTTC-CCTTCEEEEETCTTSHHHHHHH
T ss_pred             HHHHHhcC-CCCCCEEEEecCcchHHHHHHH
Confidence            46678877 8999999999999999998765

>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=94.44  E-value=0.055  Score=37.27  Aligned_cols=63  Identities=8%  Similarity=0.082  Sum_probs=46.5

Q ss_pred             hhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCC-Ccccceeccccccccc
Q 036188           37 IFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDAS-GARRLYSLNSVSKYYV  106 (210)
Q Consensus        37 lfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~-~~~~~y~~t~~s~~l~  106 (210)
                      +...|...   ++.|+.+||+.+++    ++..+.+++.-|...|++++..... ...-.+.+|+.++.+.
T Consensus        35 iL~~i~~~---~~~t~~~la~~l~i----~~~tvs~~l~~L~~~gli~r~~~~~D~R~~~i~LT~~G~~~~   98 (139)
T d2a61a1          35 ILQKIYFE---GPKRPGELSVLLGV----AKSTVTGLVKRLEADGYLTRTPDPADRRAYFLVITRKGEEVI   98 (139)
T ss_dssp             HHHHHHHH---CCBCHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEEEEETTEEEEEEEEECHHHHHHH
T ss_pred             HHHHHHHc---CCCCHHHHHHHhCC----CcccchHHHHHHHhcCeeeeeeccCCCCeEEEEECHHHHHHH
Confidence            45556665   48999999999999    9999999999999999998653110 0122377777776544

>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=94.35  E-value=0.013  Score=45.15  Aligned_cols=30  Identities=17%  Similarity=0.297  Sum_probs=24.9

Q ss_pred             HHHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          179 SNILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       179 ~~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ..+++.++ ..+..++||||||.|.++..|+
T Consensus        83 ~~fl~~l~-~~~~~~vLD~GcG~G~~t~~ll  112 (254)
T d1xtpa_          83 RNFIASLP-GHGTSRALDCGAGIGRITKNLL  112 (254)
T ss_dssp             HHHHHTST-TCCCSEEEEETCTTTHHHHHTH
T ss_pred             HHHHhhCC-CCCCCeEEEecccCChhhHHHH
Confidence            35677777 6788999999999999988775

>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=94.32  E-value=0.019  Score=36.89  Aligned_cols=45  Identities=27%  Similarity=0.335  Sum_probs=38.1

Q ss_pred             ChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           36 GIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        36 glfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      .|++.|.+.+  +.+|=++||+++|+    +..-++|+|..|...|++...
T Consensus        22 ~v~~~L~~~~--~evtDe~iA~~tgi----~in~VRk~Ly~L~~~~L~~y~   66 (88)
T d1q1ha_          22 DVLRILLDKG--TEMTDEEIANQLNI----KVNDVRKKLNLLEEQGFVSYR   66 (88)
T ss_dssp             HHHHHHHHHC--SCBCHHHHHHTTTS----CHHHHHHHHHHHHHHTSCEEE
T ss_pred             HHHHHHHhcc--CcCCHHHHHHHhCC----cHHHHHHHHHHHHhCCceEEE
Confidence            3677665433  57999999999999    999999999999999999643

>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=94.13  E-value=0.017  Score=43.12  Aligned_cols=22  Identities=14%  Similarity=0.228  Sum_probs=18.8

Q ss_pred             CCCCCeEEEecCCccHHHHhhh
Q 036188          188 FDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       188 ~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ..+..+|||||||.|.++..++
T Consensus        58 ~~~~~~vLDiGcG~G~~~~~l~   79 (222)
T d2ex4a1          58 KTGTSCALDCGAGIGRITKRLL   79 (222)
T ss_dssp             CCCCSEEEEETCTTTHHHHHTT
T ss_pred             CCCCCEEEEeccCCCHhhHHHH
Confidence            4567899999999999998775

>d1jgsa_ a.4.5.28 (A:) Multiple antibiotic resistance repressor, MarR {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: MarR-like transcriptional regulators
domain: Multiple antibiotic resistance repressor, MarR
species: Escherichia coli [TaxId: 562]

Probab=94.09  E-value=0.03  Score=38.75  Aligned_cols=64  Identities=16%  Similarity=0.093  Sum_probs=46.6

Q ss_pred             hChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCC-Ccccceecccccccc
Q 036188           35 LGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDAS-GARRLYSLNSVSKYY  105 (210)
Q Consensus        35 lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~-~~~~~y~~t~~s~~l  105 (210)
                      ..+.-.|...   ++.|..|||+.+++    ++..+.+++..|...|++++..+.. ...-.+.+|+.++.+
T Consensus        37 ~~vL~~l~~~---~~~t~~ela~~~~i----~~~~vs~~v~~L~~~glv~r~~~~~D~R~~~i~lT~~G~~~  101 (138)
T d1jgsa_          37 FKVLCSIRCA---ACITPVELKKVLSV----DLGALTRMLDRLVCKGWVERLPNPNDKRGVLVKLTTGGAAI  101 (138)
T ss_dssp             HHHHHHHHHH---SSBCHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEEEECTTCSSCEEEEECHHHHHH
T ss_pred             HHHHHhHHhC---cCCCHHHHHHHHCC----CHhHHHHHHHHHhhCCCEEEeeccCCCCeeEEEECHHHHHH
Confidence            3345556665   48999999999999    9999999999999999998763110 111246666666544

>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=94.08  E-value=0.014  Score=43.76  Aligned_cols=29  Identities=28%  Similarity=0.465  Sum_probs=21.7

Q ss_pred             HHHHhCCCCCCCCeEEEecCCccHHHHhhhC
Q 036188          180 NILESYKGFDNIKQLVDVGGSLGVTLQAITT  210 (210)
Q Consensus       180 ~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~~  210 (210)
                      .++..+  ..+..+|||||||.|.++..+++
T Consensus        34 ~~~~~~--~~~~~~vLDiGcG~G~~~~~l~~   62 (246)
T d2avna1          34 SFLEEY--LKNPCRVLDLGGGTGKWSLFLQE   62 (246)
T ss_dssp             HHHHHH--CCSCCEEEEETCTTCHHHHHHHT
T ss_pred             HHHHHh--cCCCCEEEEECCCCchhcccccc
Confidence            334444  34667999999999999988764

>d2fswa1 a.4.5.69 (A:3-104) Hypothetical protein PG0823 {Porphyromonas gingivalis [TaxId: 837]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: HxlR-like
domain: Hypothetical protein PG0823
species: Porphyromonas gingivalis [TaxId: 837]

Probab=94.08  E-value=0.038  Score=36.47  Aligned_cols=78  Identities=14%  Similarity=0.155  Sum_probs=57.5

Q ss_pred             HHHHHHHHHhhchHHHHHHHHHhhChhhHHhhcCCCCCCCHHHHHHHh-cCCCCCCcccHHHHHHHHhcccceeeeccCC
Q 036188           12 SFAYADQLATGVVLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQL-LTKNKDAPMMLDRILRLLASYSVVECSLDAS   90 (210)
Q Consensus        12 ~~~~l~~~~~~~~~~~al~~a~~lglfd~L~~~g~~~~~t~~eLA~~~-~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~   90 (210)
                      +....++++.+-|....|+.         |..    |+....||.+.+ |+    .++.|.+=|+-|...|++.+....+
T Consensus         9 pv~~~l~ilg~kW~l~Il~~---------L~~----g~~rF~el~~~l~gI----s~~~Ls~rLkeL~~~glv~r~~~~~   71 (102)
T d2fswa1           9 PVRKSMQIFAGKWTLLIIFQ---------INR----RIIRYGELKRAIPGI----SEKMLIDELKFLCGKGLIKKKQYPE   71 (102)
T ss_dssp             HHHHHHHHHTSSSHHHHHHH---------HTT----SCEEHHHHHHHSTTC----CHHHHHHHHHHHHHTTSEEEEEECS
T ss_pred             CHHHHHHHHcCCCHHHHHHH---------Hcc----CCCCHHHHHhhCccc----chhHHHHHHHHHHHCCceeecccCC
Confidence            45666777777776555443         334    589999999998 89    9999999999999999998763111


Q ss_pred             Cc-ccceeccccccccc
Q 036188           91 GA-RRLYSLNSVSKYYV  106 (210)
Q Consensus        91 ~~-~~~y~~t~~s~~l~  106 (210)
                      .. .-.|++|+.+.-|.
T Consensus        72 ~p~~veY~LT~~G~~L~   88 (102)
T d2fswa1          72 VPPRVEYSLTPLGEKVL   88 (102)
T ss_dssp             SSCEEEEEECHHHHTTH
T ss_pred             CCCeehhhhhHhHHHHH
Confidence            00 12399999887665

>d1yyva1 a.4.5.69 (A:9-122) Putative transcriptional regulator YtfH {Salmonella typhimurium [TaxId: 90371]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: HxlR-like
domain: Putative transcriptional regulator YtfH
species: Salmonella typhimurium [TaxId: 90371]

Probab=94.08  E-value=0.027  Score=38.08  Aligned_cols=77  Identities=16%  Similarity=0.041  Sum_probs=56.3

Q ss_pred             HHHHHHHHhhchHHHHHHHHHhhChhhHHhhcCCCCCCCHHHHHHHh-cCCCCCCcccHHHHHHHHhcccceeeeccCCC
Q 036188           13 FAYADQLATGVVLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQL-LTKNKDAPMMLDRILRLLASYSVVECSLDASG   91 (210)
Q Consensus        13 ~~~l~~~~~~~~~~~al~~a~~lglfd~L~~~g~~~~~t~~eLA~~~-~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~   91 (210)
                      ....++++.+-|....|..         |..    |+....||.+.+ |+    +++.|.+=|+.|...|++++......
T Consensus        14 v~~~l~~ig~kW~l~Il~~---------L~~----g~~RF~el~~~l~gi----s~~~Ls~rL~~Le~~glv~R~~~~~~   76 (114)
T d1yyva1          14 SREVLKHVTSRWGVLILVA---------LRD----GTHRFSDLRRKMGGV----SEKMLAQSLQALEQDGFLNRVSYPVV   76 (114)
T ss_dssp             HHHHHHHHHSHHHHHHHHH---------GGG----CCEEHHHHHHHSTTC----CHHHHHHHHHHHHHHTCEEEEEECSS
T ss_pred             HHHHHHHHcCCCHHHHHHH---------Hhc----CCCCHHHHHHHcccc----chhHHHHHHHHHHHHHHHhhcccCCC
Confidence            4456666667776555543         444    689999999999 79    99999999999999999997631110


Q ss_pred             -cccceeccccccccc
Q 036188           92 -ARRLYSLNSVSKYYV  106 (210)
Q Consensus        92 -~~~~y~~t~~s~~l~  106 (210)
                       ..-.|.+|+.++-|.
T Consensus        77 p~~veY~LT~~G~~L~   92 (114)
T d1yyva1          77 PPHVEYSLTPLGEQVS   92 (114)
T ss_dssp             SCEEEEEECHHHHHHH
T ss_pred             CchhHhHhhHhHHHHH
Confidence             112399999888765

>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=93.86  E-value=0.041  Score=32.80  Aligned_cols=43  Identities=19%  Similarity=0.302  Sum_probs=36.3

Q ss_pred             hhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           37 IFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        37 lfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      |+.+..+.   ++.+..+||+.+|+    .+.-+...++-|...|+++..
T Consensus        12 I~~l~~~~---~~v~~~~iA~~L~v----s~~SVs~mikrL~~~GlV~~~   54 (61)
T d2ev0a1          12 IYMLIEEK---GYARVSDIAEALAV----HPSSVTKMVQKLDKDEYLIYE   54 (61)
T ss_dssp             HHHHHHHH---SSCCHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEC-
T ss_pred             HHHHHhcC---CCccHHHHHHHhCC----CchhHHHHHHHHHHCCCEEEc
Confidence            44444443   59999999999999    999999999999999999875

>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=93.74  E-value=0.028  Score=38.84  Aligned_cols=64  Identities=13%  Similarity=0.075  Sum_probs=45.0

Q ss_pred             hhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccC-CCcccceeccccccccc
Q 036188           37 IFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDA-SGARRLYSLNSVSKYYV  106 (210)
Q Consensus        37 lfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~-~~~~~~y~~t~~s~~l~  106 (210)
                      +.-.|...+  ++.|..+||+.+++    ++..+.++++.|...|++++..+. +...-.+.+|+.++-+.
T Consensus        36 ~L~~l~~~~--~~~t~~~la~~l~i----~~~~vs~~l~~L~~~glI~~~~~~~D~R~~~l~lT~~G~~~~  100 (140)
T d3deua1          36 TLHNIHQLP--PDQSQIQLAKAIGI----EQPSLVRTLDQLEDKGLISRQTCASDRRAKRIKLTEKAEPLI  100 (140)
T ss_dssp             HHHHHHHSC--SSEEHHHHHHHHTS----CHHHHHHHHHHHHHTTSEEEC--------CEEEECGGGHHHH
T ss_pred             HHHHHHHcC--CCccHHHHHHHHCC----CHhHHHHHHHHHHhCCCEEecccCCCCCceeeEECHHHHHHH
Confidence            444555533  47999999999999    999999999999999999865311 00112477777665443

>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=93.70  E-value=0.02  Score=43.16  Aligned_cols=22  Identities=9%  Similarity=0.264  Sum_probs=18.3

Q ss_pred             CCCCeEEEecCCccHHHHhhhC
Q 036188          189 DNIKQLVDVGGSLGVTLQAITT  210 (210)
Q Consensus       189 ~~~~~vvDiGGg~G~~~~~l~~  210 (210)
                      ....+|||||||.|..+..+++
T Consensus        52 ~~g~~VLdIGcG~G~~a~~~a~   73 (229)
T d1zx0a1          52 SKGGRVLEVGFGMAIAASKVQE   73 (229)
T ss_dssp             TTCEEEEEECCTTSHHHHHHHT
T ss_pred             cCCCeEEEeeccchHHHHHHHH
Confidence            3456999999999999988764

>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=93.56  E-value=0.069  Score=31.97  Aligned_cols=35  Identities=9%  Similarity=0.080  Sum_probs=33.3

Q ss_pred             CCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           48 TKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        48 ~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      ++.+..+||+.+|+    .+.-+.+.++-|...|++...
T Consensus        22 ~~v~~~~iA~~L~v----s~~SVt~mvkrL~~~Glv~~~   56 (63)
T d2isya1          22 VTPLRARIAERLDQ----SGPTVSQTVSRMERDGLLRVA   56 (63)
T ss_dssp             CCCCHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEEC
T ss_pred             CCCcHHHHHHHhCC----CchhHHHHHHHHHHCCCEEEc
Confidence            68999999999999    999999999999999999975

>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=93.50  E-value=0.025  Score=44.06  Aligned_cols=21  Identities=19%  Similarity=0.306  Sum_probs=18.3

Q ss_pred             CCCCeEEEecCCccHHHHhhh
Q 036188          189 DNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       189 ~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      .+..+|||||||+|.++..|+
T Consensus        55 ~~~~~vLD~GcG~G~~~~~la   75 (292)
T d1xvaa_          55 HGCHRVLDVACGTGVDSIMLV   75 (292)
T ss_dssp             TTCCEEEESSCTTSHHHHHHH
T ss_pred             cCCCEEEEecCCCcHHHHHHH
Confidence            456799999999999998875

>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=93.48  E-value=0.025  Score=46.68  Aligned_cols=31  Identities=13%  Similarity=0.384  Sum_probs=25.1

Q ss_pred             HHHHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          178 MSNILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       178 ~~~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      +..+++..+ .....+|||||||.|.++..++
T Consensus       205 i~~Il~~l~-Lkpgd~fLDLGCG~G~~vl~aA  235 (406)
T d1u2za_         205 LSDVYQQCQ-LKKGDTFMDLGSGVGNCVVQAA  235 (406)
T ss_dssp             HHHHHHHTT-CCTTCEEEEESCTTSHHHHHHH
T ss_pred             HHHHHHHhC-CCCCCEEEeCCCCCcHHHHHHH
Confidence            345667776 7888999999999999988765

>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=93.45  E-value=0.042  Score=33.47  Aligned_cols=45  Identities=24%  Similarity=0.343  Sum_probs=37.9

Q ss_pred             CCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceecc
Q 036188           47 GTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLN   99 (210)
Q Consensus        47 ~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t   99 (210)
                      |..++..+||+..|+    +..-+++-++.|...|+++...    +.|.|..+
T Consensus        23 G~~l~~~~La~~~~v----Sr~tvr~Al~~L~~~Gli~~~~----~~G~~V~~   67 (69)
T d2hs5a1          23 GARLSEPDICAALDV----SRNTVREAFQILIEDRLVAHEL----NRGVFVRV   67 (69)
T ss_dssp             TCEECHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEEET----TTEEEECC
T ss_pred             cCccCHHHHHHHHCC----CHHHHHHHHHHHHHCCcEEEEc----CCEEEecC
Confidence            357789999999999    9999999999999999999773    45666543

>d2f2ea1 a.4.5.69 (A:5-146) Hypothetical protein PA1607 {Pseudomonas aeruginosa [TaxId: 287]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: HxlR-like
domain: Hypothetical protein PA1607
species: Pseudomonas aeruginosa [TaxId: 287]

Probab=93.29  E-value=0.045  Score=38.37  Aligned_cols=74  Identities=15%  Similarity=0.073  Sum_probs=52.7

Q ss_pred             HHHHHhhchHHHHHHHHHhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccc
Q 036188           16 ADQLATGVVLPMAIQAVYELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRL   95 (210)
Q Consensus        16 l~~~~~~~~~~~al~~a~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~   95 (210)
                      .++++..-|....|+.         |..    |+....||.+.+|+    .+..|.+=|+.|...|++++........-.
T Consensus        13 ~l~ilg~kW~l~Il~~---------l~~----G~~rf~el~~~lgi----s~~vLs~rL~~L~~~gLv~r~~~~~p~r~~   75 (142)
T d2f2ea1          13 PLDVIGDGWSMLIVRD---------AFE----GLTRFGEFQKSLGL----AKNILAARLRNLVEHGVMVAVPAESGSHQE   75 (142)
T ss_dssp             THHHHCSSSHHHHHHH---------HHT----TCCSHHHHHHHHCC----CHHHHHHHHHHHHHTTSEEEEECSSSSCEE
T ss_pred             HHHHHcCCCHHHHHHH---------HHc----CCCCHHHHHHHhhc----cHHHHHHHHHHHHHhcceeeecCCCCCeeE
Confidence            4455555555555544         334    69999999999999    999999999999999999874211111234


Q ss_pred             eeccccccccc
Q 036188           96 YSLNSVSKYYV  106 (210)
Q Consensus        96 y~~t~~s~~l~  106 (210)
                      |.+|+.++-|.
T Consensus        76 Y~LT~~G~~L~   86 (142)
T d2f2ea1          76 YRLTDKGRALF   86 (142)
T ss_dssp             EEECHHHHTTH
T ss_pred             EecCcCcchHH
Confidence            88888877664

>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=93.09  E-value=0.035  Score=41.47  Aligned_cols=29  Identities=17%  Similarity=0.374  Sum_probs=24.2

Q ss_pred             HHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          180 NILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       180 ~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      .+++... .+...+|+|||||+|..+..++
T Consensus        66 ~~l~~l~-l~~g~~VLdiG~GtG~~s~~la   94 (213)
T d1dl5a1          66 LFMEWVG-LDKGMRVLEIGGGTGYNAAVMS   94 (213)
T ss_dssp             HHHHHTT-CCTTCEEEEECCTTSHHHHHHH
T ss_pred             HHHHhhh-ccccceEEEecCccchhHHHHH
Confidence            4567776 8889999999999999887664

>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=93.07  E-value=0.061  Score=33.15  Aligned_cols=60  Identities=13%  Similarity=0.060  Sum_probs=48.2

Q ss_pred             HhhChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCc-ccHHHHHHHHhcccceeeeccCCCcccceeccccc
Q 036188           33 YELGIFEILDKAGPGTKLSASDIAAQLLTKNKDAP-MMLDRILRLLASYSVVECSLDASGARRLYSLNSVS  102 (210)
Q Consensus        33 ~~lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~-~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~~s  102 (210)
                      .+-.|.++|...   ++.++-+||+.+|+    .. .-+.+.|-.|...|.+.+..   ..+-.|.++.-.
T Consensus         6 ~eekI~~~L~~~---g~~~Al~iak~lGl----~kakeVN~~LY~L~k~g~v~k~~---~tPP~W~L~~~~   66 (73)
T d1xmka1           6 IKEKICDYLFNV---SDSSALNLAKNIGL----TKARDINAVLIDMERQGDVYRQG---TTPPIWHLTDKK   66 (73)
T ss_dssp             HHHHHHHHHHHT---CCEEHHHHHHHHCG----GGHHHHHHHHHHHHHTTSEEEEC---SSSCEEEECHHH
T ss_pred             HHHHHHHHHHHc---CCchHHHHHHHhCC----CcHHHHhHHHHHHHHCCCeecCC---CCCCceeeecch
Confidence            456789999887   58999999999999    77 46999999999999998762   135567777643

>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=92.99  E-value=0.031  Score=37.34  Aligned_cols=55  Identities=15%  Similarity=0.050  Sum_probs=43.5

Q ss_pred             CCCCHHHHHHHh-cCCCCCCcccHHHHHHHHhcccceeeeccCCC-cccceeccccccccc
Q 036188           48 TKLSASDIAAQL-LTKNKDAPMMLDRILRLLASYSVVECSLDASG-ARRLYSLNSVSKYYV  106 (210)
Q Consensus        48 ~~~t~~eLA~~~-~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~-~~~~y~~t~~s~~l~  106 (210)
                      |+....||.+.+ |+    .++.|.+=|+.|...|++.+...... ..-.|.+|+.++-|.
T Consensus        31 g~~RF~el~~~l~gI----S~~~Ls~rLk~L~~~glv~R~~~~~~p~~veY~LT~~G~~L~   87 (108)
T d1z7ua1          31 GTKRNGELMRALDGI----TQRVLTDRLREMEKDGLVHRESFNELPPRVEYTLTPEGYALY   87 (108)
T ss_dssp             SCBCHHHHHHHSTTC----CHHHHHHHHHHHHHHTSEEEEEECCSSCEEEEEECHHHHHHH
T ss_pred             CCCCHHHHHHHCcCC----ChhHHHHHHHHHHHCCcceeeccCCCcceehhhhchhHHHHH
Confidence            589999999998 79    99999999999999999987631110 011399999888765

>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=92.88  E-value=0.036  Score=42.74  Aligned_cols=27  Identities=22%  Similarity=0.374  Sum_probs=20.7

Q ss_pred             HHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          181 ILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       181 ~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      +....+  .+..+|||||||.|.++..++
T Consensus        77 l~~~~~--~~~~~iLDiGcG~G~~~~~l~  103 (268)
T d1p91a_          77 LRERLD--DKATAVLDIGCGEGYYTHAFA  103 (268)
T ss_dssp             HHHHSC--TTCCEEEEETCTTSTTHHHHH
T ss_pred             HHHhcC--CCCCEEEEeCCCCcHHHHHHH
Confidence            344444  567899999999999988765

>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=92.78  E-value=0.027  Score=43.41  Aligned_cols=42  Identities=21%  Similarity=0.232  Sum_probs=26.2

Q ss_pred             HHHHHHhhhhhhhHHHHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          165 HFNAAMYNYTSLVMSNILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       165 ~f~~~M~~~~~~~~~~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      .|-..-...++..... +..+.  ....+|+|||||+|.+++.++
T Consensus        98 aFGTG~H~TT~l~l~~-l~~~~--~~g~~VLDiGcGsG~l~i~aa  139 (254)
T d2nxca1          98 AFGTGHHETTRLALKA-LARHL--RPGDKVLDLGTGSGVLAIAAE  139 (254)
T ss_dssp             ----CCSHHHHHHHHH-HHHHC--CTTCEEEEETCTTSHHHHHHH
T ss_pred             ccCccccchhhHHHHH-HHhhc--CccCEEEEcccchhHHHHHHH
Confidence            4655554455555433 44444  456799999999999998764

>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=92.75  E-value=0.029  Score=43.18  Aligned_cols=43  Identities=19%  Similarity=0.224  Sum_probs=23.6

Q ss_pred             HHHHHhhhhhhh----HHHHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          166 FNAAMYNYTSLV----MSNILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       166 f~~~M~~~~~~~----~~~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      |...|...++..    +..++...+ .+...+|||+|||+|.++..++
T Consensus        58 ~~~~~~r~~qiiypkD~~~Ii~~l~-i~pG~rVLEiG~GsG~lt~~la  104 (250)
T d1yb2a1          58 FGRVIRRNTQIISEIDASYIIMRCG-LRPGMDILEVGVGSGNMSSYIL  104 (250)
T ss_dssp             HHHHC------------------CC-CCTTCEEEEECCTTSHHHHHHH
T ss_pred             HHhhCCCCCcccCHHHHHHHHHHcC-CCCcCEEEEeeeeCcHHHHHHH
Confidence            455555444442    234556665 7788999999999999988775

>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=92.75  E-value=0.027  Score=38.86  Aligned_cols=64  Identities=14%  Similarity=0.135  Sum_probs=48.6

Q ss_pred             hhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCC-Ccccceecccccccccc
Q 036188           37 IFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDAS-GARRLYSLNSVSKYYVP  107 (210)
Q Consensus        37 lfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~-~~~~~y~~t~~s~~l~~  107 (210)
                      +...|...   +++|..+||+.+++    ++..+.|++.-|+..|++.+..+.. ...-...+|+.++.+..
T Consensus        38 vL~~l~~~---~~~t~~~La~~~~i----~~~~vsr~i~~L~~~glv~r~~~~~D~R~~~i~lT~~G~~~~~  102 (137)
T d1z91a1          38 ALLLLWEH---ETLTVKKMGEQLYL----DSGTLTPMLKRMEQQGLITRKRSEEDERSVLISLTEDGALLKE  102 (137)
T ss_dssp             HHHHHHHH---SEEEHHHHHHTTTC----CHHHHHHHHHHHHHHTSEECCBCSSCTTSBEEEECHHHHSGGG
T ss_pred             HHHHHHcC---CCCCHHHHHHHHCc----CHHHHHHHHHHHhhccceEEeecCCCCCeEEEEECHHHHHHHH
Confidence            34556654   58999999999999    9999999999999999998763210 11223788888876654

>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=92.66  E-value=0.03  Score=37.65  Aligned_cols=62  Identities=10%  Similarity=0.106  Sum_probs=45.0

Q ss_pred             hhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCC-Ccccceeccccccc
Q 036188           38 FEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDAS-GARRLYSLNSVSKY  104 (210)
Q Consensus        38 fd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~-~~~~~y~~t~~s~~  104 (210)
                      ...|...+ ++++|..+||+.+++    ++..+.++++.|...|++.+..+.. ...-.+.+|+.++-
T Consensus        39 L~~l~~~~-~~~~t~~~la~~l~~----~~~tvs~~i~~Le~~gli~r~~~~~D~R~~~i~LT~~G~~  101 (115)
T d2frha1          39 LTYISENK-EKEYYLKDIINHLNY----KQPQVVKAVKILSQEDYFDKKRNEHDERTVLILVNAQQRK  101 (115)
T ss_dssp             HHHHHHTC-CSEEEHHHHHHHSSS----HHHHHHHHHHHHHHTTSSCCBCCSSSSCCCEEECCSHHHH
T ss_pred             HHHHHcCC-CCCCCHHHHHHHHCC----CHhHHHHHHHHHHhhhhheeeecccCCceEEEEECHHHHH
Confidence            34454432 257899999999999    9999999999999999998763111 11223667776653

>d2fbia1 a.4.5.28 (A:5-140) Probable transcriptional regulator PA4135 {Pseudomonas aeruginosa [TaxId: 287]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: MarR-like transcriptional regulators
domain: Probable transcriptional regulator PA4135
species: Pseudomonas aeruginosa [TaxId: 287]

Probab=92.58  E-value=0.039  Score=37.90  Aligned_cols=65  Identities=14%  Similarity=0.125  Sum_probs=47.2

Q ss_pred             hChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCC-Ccccceeccccccccc
Q 036188           35 LGIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDAS-GARRLYSLNSVSKYYV  106 (210)
Q Consensus        35 lglfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~-~~~~~y~~t~~s~~l~  106 (210)
                      ..+...|...   ++.|..+||+.+++    ++..+.++++-|...|++++..+.. ...-.+.+|+.+.-+.
T Consensus        33 ~~vL~~l~~~---~~~t~~~la~~~~i----~~~~vs~~i~~L~~~gli~r~~~~~D~R~~~l~lT~~G~~~~   98 (136)
T d2fbia1          33 WRVIRILRQQ---GEMESYQLANQACI----LRPSMTGVLARLERDGIVRRWKAPKDQRRVYVNLTEKGQQCF   98 (136)
T ss_dssp             HHHHHHHHHH---CSEEHHHHHHHTTC----CHHHHHHHHHHHHHTTSEEEEEETTEEEEEEEEECHHHHHHH
T ss_pred             HHHHHHHHHc---CCCCHHHHHHHHCC----CHHHHHHHHHHHHHCCCEEEeecCccCchhhhccCHHHHHHH
Confidence            3455567665   58999999999999    9999999999999999998653110 0112366666665443

>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=92.53  E-value=0.019  Score=43.57  Aligned_cols=26  Identities=15%  Similarity=0.266  Sum_probs=21.7

Q ss_pred             HhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          183 ESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       183 ~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      +.++ .+...+|+|||||+|..+..|+
T Consensus        68 ~~l~-ikpG~~VLDlGcGsG~~~~~la   93 (230)
T d1g8sa_          68 KVMP-IKRDSKILYLGASAGTTPSHVA   93 (230)
T ss_dssp             CCCC-CCTTCEEEEESCCSSHHHHHHH
T ss_pred             HhCC-CCCCCEEEEeCEEcCHHHHHHH
Confidence            3455 7788999999999999988765

>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=92.51  E-value=0.082  Score=32.61  Aligned_cols=44  Identities=16%  Similarity=0.148  Sum_probs=37.4

Q ss_pred             CCCC-CHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceec
Q 036188           47 GTKL-SASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSL   98 (210)
Q Consensus        47 ~~~~-t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~   98 (210)
                      |..+ |..+||+.+++    +..-+++-++.|+..|++....    +.|.|-.
T Consensus        24 G~~LPs~~eLa~~~~v----Sr~tvr~Al~~L~~~G~i~~~~----g~G~~V~   68 (74)
T d1hw1a1          24 GTILPAERELSELIGV----TRTTLREVLQRLARDGWLTIQH----GKPTKVN   68 (74)
T ss_dssp             TSBCCCHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEEET----TEEEEEC
T ss_pred             cCCCccHHHHHHHHCC----CHHHHHHHHHHHHHCCcEEEEe----CceEEEC
Confidence            3577 89999999999    9999999999999999998873    4555543

>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=91.97  E-value=0.092  Score=32.25  Aligned_cols=42  Identities=19%  Similarity=0.266  Sum_probs=36.3

Q ss_pred             CCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceeccc
Q 036188           49 KLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNS  100 (210)
Q Consensus        49 ~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~  100 (210)
                      ++|-+|||..+|+    .+..+.|.|..|...|+++..      .+.+....
T Consensus        27 ~lt~~elA~~lg~----sr~tvsr~l~~l~~~g~I~~~------~~~i~I~d   68 (73)
T d1zyba1          27 KVKMDDLARCLDD----TRLNISKTLNELQDNGLIELH------RKEILIPD   68 (73)
T ss_dssp             ECCHHHHHHHHTS----CHHHHHHHHHHHHHTTSCEEE------TTEEEESC
T ss_pred             ecCHHHHHHHHCC----CHHHHHHHHHHHHHCCCEEec------CCEEEEcc
Confidence            5799999999999    999999999999999999875      55555443

>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=91.90  E-value=0.051  Score=36.98  Aligned_cols=47  Identities=15%  Similarity=0.078  Sum_probs=38.7

Q ss_pred             ChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeec
Q 036188           36 GIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSL   87 (210)
Q Consensus        36 glfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~   87 (210)
                      .|...|...+ ++++|..|||+.+++    ++..+.++++.|...|++++..
T Consensus        38 ~iL~~l~~~~-~~~~t~~eia~~~~~----~~~~vs~~l~~L~~~g~v~r~~   84 (125)
T d1p4xa1          38 ILLTYLFHQQ-ENTLPFKKIVSDLCY----KQSDLVQHIKVLVKHSYISKVR   84 (125)
T ss_dssp             HHHHHHHSCS-CSEEEHHHHHHHSSS----CGGGTHHHHHHHHHTTSCEEEE
T ss_pred             HHHHHHHHhc-cCCcCHHHHHHHhCC----CcchHHHHHHHHHHCCCceeec
Confidence            3444555432 258999999999999    9999999999999999998763

>d3bwga1 a.4.5.6 (A:5-82) Transcriptional regulator YydK {Bacillus subtilis [TaxId: 1423]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: GntR-like transcriptional regulators
domain: Transcriptional regulator YydK
species: Bacillus subtilis [TaxId: 1423]

Probab=91.82  E-value=0.12  Score=31.98  Aligned_cols=45  Identities=18%  Similarity=0.223  Sum_probs=38.4

Q ss_pred             CCCC-CHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceecc
Q 036188           47 GTKL-SASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLN   99 (210)
Q Consensus        47 ~~~~-t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t   99 (210)
                      |..+ |..+||+.+++    +..-+++-++.|...|++....    +.|.|...
T Consensus        19 G~~LPse~~La~~~~v----Sr~tvr~Al~~L~~~Gli~~~~----g~G~~V~~   64 (78)
T d3bwga1          19 GDKLPVLETLMAQFEV----SKSTITKSLELLEQKGAIFQVR----GSGIFVRK   64 (78)
T ss_dssp             TCBCCCHHHHHHHTTC----CHHHHHHHHHHHHHTTSEEEET----TTEEEECC
T ss_pred             cCCCcCHHHHHHHHCC----CHHHHHHHHHHHHHCCcEEEEc----CcEEEEcc
Confidence            3577 89999999999    9999999999999999999874    45666544

>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=91.76  E-value=0.06  Score=42.81  Aligned_cols=30  Identities=17%  Similarity=0.460  Sum_probs=24.9

Q ss_pred             HHHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          179 SNILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       179 ~~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ..+++.+. .....+|+|||||.|.++..++
T Consensus       141 ~~~~~~~~-l~~~~~vlD~GcG~G~~~~~~a  170 (328)
T d1nw3a_         141 AQMIDEIK-MTDDDLFVDLGSGVGQVVLQVA  170 (328)
T ss_dssp             HHHHHHSC-CCTTCEEEEETCTTSHHHHHHH
T ss_pred             HHHHHHcC-CCCCCEEEEcCCCCCHHHHHHH
Confidence            45677776 8888999999999999987664

>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=91.67  E-value=0.078  Score=32.74  Aligned_cols=55  Identities=22%  Similarity=0.212  Sum_probs=44.6

Q ss_pred             CCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceeccccccccc
Q 036188           47 GTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSVSKYYV  106 (210)
Q Consensus        47 ~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~~s~~l~  106 (210)
                      |++-|...|+|+.++    +=..|+|.|-.|...|+++-.- ++.+.|.-++|+.++.++
T Consensus        22 g~~WSLaklsKra~~----PMS~LRR~LTqL~~aGl~~t~~-~edG~G~A~Lt~~G~~lc   76 (81)
T d2obpa1          22 ATPWSLPKIAKRAQL----PMSVLRRVLTQLQAAGLADVSV-EADGRGHASLTQEGAALA   76 (81)
T ss_dssp             CCCCBHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEEEE-CTTSCEEEEECHHHHHHH
T ss_pred             CCCccHHHHHhhcCC----cHHHHHHHHHHHhhcCceeeee-ccCCcceeeccHHHHHHH
Confidence            479999999999999    9999999999999999987432 222567788888776554

>d2fbka1 a.4.5.28 (A:8-179) Transcriptional regulator DR1159 {Deinococcus radiodurans [TaxId: 1299]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: MarR-like transcriptional regulators
domain: Transcriptional regulator DR1159
species: Deinococcus radiodurans [TaxId: 1299]

Probab=91.58  E-value=0.048  Score=39.24  Aligned_cols=45  Identities=13%  Similarity=0.133  Sum_probs=37.3

Q ss_pred             hhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           38 FEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        38 fd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      .-.|...+++.++|..|||+.+++    ++..+.++++-|...|++++.
T Consensus        68 L~~L~~~~~~~~lt~~eLa~~l~i----~~~tvsr~l~~Le~~GlV~r~  112 (172)
T d2fbka1          68 LLTLYRSAPPEGLRPTELSALAAI----SGPSTSNRIVRLLEKGLIERR  112 (172)
T ss_dssp             HHHHHHHCCSSCBCHHHHHHHCSC----CSGGGSSHHHHHHHHTSEECC
T ss_pred             HHHHHhhCCCCCcCHHHHHHHHCc----CHhHHHHHHHHHHhCCCeeee
Confidence            344444443346999999999999    999999999999999999976

>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=91.51  E-value=0.032  Score=41.34  Aligned_cols=21  Identities=14%  Similarity=0.219  Sum_probs=17.3

Q ss_pred             CCCCCeEEEecCCccHHHHhhh
Q 036188          188 FDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       188 ~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ++ .++|||+|||+|.++++++
T Consensus        47 l~-Gk~VLDlGcGtG~l~i~a~   67 (197)
T d1ne2a_          47 IG-GRSVIDAGTGNGILACGSY   67 (197)
T ss_dssp             SB-TSEEEEETCTTCHHHHHHH
T ss_pred             CC-CCEEEEeCCCCcHHHHHHH
Confidence            54 5799999999999987654

>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=91.43  E-value=0.069  Score=37.08  Aligned_cols=43  Identities=9%  Similarity=0.042  Sum_probs=37.4

Q ss_pred             hhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeec
Q 036188           38 FEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSL   87 (210)
Q Consensus        38 fd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~   87 (210)
                      .-.|.++   +++|..+||+.+++    ++..+.++++-|...|++++..
T Consensus        35 L~~i~~~---~~~t~~~la~~l~i----~~~tvs~~l~~L~~~glI~r~~   77 (144)
T d1lj9a_          35 LVRVCEN---PGIIQEKIAELIKV----DRTTAARAIKRLEEQGFIYRQE   77 (144)
T ss_dssp             HHHHHHS---TTEEHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEEEE
T ss_pred             HHHHHhC---CCCCHHHHHHHHCc----cHhhHHHHHHHHHhhhcccccC
Confidence            3446665   47999999999999    9999999999999999998763

>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=91.39  E-value=0.052  Score=40.57  Aligned_cols=22  Identities=5%  Similarity=-0.229  Sum_probs=19.1

Q ss_pred             CCCCCeEEEecCCccHHHHhhh
Q 036188          188 FDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       188 ~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      .....+|||+|||.|..+..|+
T Consensus        43 ~~~~~rvLd~GCG~G~~a~~LA   64 (229)
T d2bzga1          43 GKSGLRVFFPLCGKAVEMKWFA   64 (229)
T ss_dssp             TCCSCEEEETTCTTCTHHHHHH
T ss_pred             CCCCCEEEEeCCCCcHHHHHHH
Confidence            5667899999999999998875

>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=91.36  E-value=0.063  Score=40.48  Aligned_cols=29  Identities=14%  Similarity=0.370  Sum_probs=23.9

Q ss_pred             HHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          180 NILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       180 ~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      .+++..+ .+...+|+|||||+|.++..|+
T Consensus        61 ~ml~~L~-l~~g~~VLdIG~GsGy~ta~La   89 (224)
T d1vbfa_          61 FMLDELD-LHKGQKVLEIGTGIGYYTALIA   89 (224)
T ss_dssp             HHHHHTT-CCTTCEEEEECCTTSHHHHHHH
T ss_pred             HHHHHhh-hcccceEEEecCCCCHHHHHHH
Confidence            4567777 8889999999999999887654

>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=91.34  E-value=0.07  Score=41.24  Aligned_cols=43  Identities=19%  Similarity=0.146  Sum_probs=30.5

Q ss_pred             HHHHHhhhhhhh----HHHHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          166 FNAAMYNYTSLV----MSNILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       166 f~~~M~~~~~~~----~~~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      |...|...++..    +..++...+ .....+|+|+|||+|.++..++
T Consensus        76 ~~~~~~r~~qiiypkd~~~Ii~~l~-i~pG~~VLDiG~GsG~lt~~lA  122 (266)
T d1o54a_          76 EIMNMKRRTQIVYPKDSSFIAMMLD-VKEGDRIIDTGVGSGAMCAVLA  122 (266)
T ss_dssp             HHHTCCC-CCCCCHHHHHHHHHHTT-CCTTCEEEEECCTTSHHHHHHH
T ss_pred             HHhhccCCccccchHHHHHHHHhhC-CCCCCEEEECCCCCCHHHHHHH
Confidence            334554444432    345677777 8899999999999999888775

>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=91.28  E-value=0.048  Score=40.60  Aligned_cols=24  Identities=17%  Similarity=0.371  Sum_probs=20.3

Q ss_pred             CCCCCCCCeEEEecCCccHHHHhhh
Q 036188          185 YKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       185 ~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      ++ ++...+|||||||+|..+..++
T Consensus        52 l~-lkpg~~VLDlGcG~G~~~~~la   75 (209)
T d1nt2a_          52 LK-LRGDERVLYLGAASGTTVSHLA   75 (209)
T ss_dssp             CC-CCSSCEEEEETCTTSHHHHHHH
T ss_pred             CC-CCCCCEEEEeCCcCCHHHHHHH
Confidence            55 7788999999999998887664

>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=91.27  E-value=0.091  Score=40.59  Aligned_cols=43  Identities=9%  Similarity=0.150  Sum_probs=31.1

Q ss_pred             HHHHHhhhhhhh----HHHHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          166 FNAAMYNYTSLV----MSNILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       166 f~~~M~~~~~~~----~~~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      |...|...++..    +..++...+ .+...+|||+|||+|.++..|+
T Consensus        69 ~~~~~~r~tqiiypkD~s~Ii~~l~-i~PG~~VLE~G~GsG~lt~~La  115 (264)
T d1i9ga_          69 YVMSMPRGPQVIYPKDAAQIVHEGD-IFPGARVLEAGAGSGALTLSLL  115 (264)
T ss_dssp             HHTTSCSCSCCCCHHHHHHHHHHTT-CCTTCEEEEECCTTSHHHHHHH
T ss_pred             HHhhccCCccccchHHHHHHHHHhC-CCCCCEEEecCcCCcHHHHHHH
Confidence            334455444432    345667776 8889999999999999998876

>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=90.97  E-value=0.06  Score=36.06  Aligned_cols=53  Identities=15%  Similarity=0.165  Sum_probs=40.5

Q ss_pred             CCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCC-Ccccceeccccccc
Q 036188           48 TKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDAS-GARRLYSLNSVSKY  104 (210)
Q Consensus        48 ~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~-~~~~~y~~t~~s~~  104 (210)
                      +++|..|||+.+++    ++..+.+++.-|...|++.+..... ...-...+|+.++-
T Consensus        47 ~~~t~~ela~~l~~----~~~~vs~~i~~Le~~gli~r~~~~~D~R~~~i~LT~~G~~  100 (115)
T d1hsja1          47 NEISSKEIAKCSEF----KPYYLTKALQKLKDLKLLSKKRSLQDERTVIVYVTDTQKA  100 (115)
T ss_dssp             SEEEHHHHHHSSCC----CHHHHHHHHHHHHTTTTSCCEECCSSSSCCEEECCSSHHH
T ss_pred             CCcCHHHHHHHHCC----ChhhHHHHHHHHHHcCCeEEEeecCCCceEEEEECHHHHH
Confidence            58999999999999    9999999999999999998663210 11223666666543

>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=90.56  E-value=0.21  Score=30.28  Aligned_cols=36  Identities=14%  Similarity=0.108  Sum_probs=33.8

Q ss_pred             CCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           47 GTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        47 ~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      |...|+.+||+++|+    ..+-+.|.|-.|...|.+.+.
T Consensus        22 ~~~~tA~~LAk~Lg~----~Kk~VNr~LY~L~~~G~v~~~   57 (70)
T d1sfua_          22 NDYTTAISLSNRLKI----NKKKINQQLYKLQKEDTVKMV   57 (70)
T ss_dssp             TCEECHHHHHHHTTC----CHHHHHHHHHHHHHTTSEEEE
T ss_pred             CCCchHHHHHHHhCC----CHHHHHHHHHHHHHCCCeecC
Confidence            468999999999999    999999999999999999886

>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=90.08  E-value=0.13  Score=29.35  Aligned_cols=42  Identities=14%  Similarity=0.168  Sum_probs=33.1

Q ss_pred             hhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccce
Q 036188           37 IFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVV   83 (210)
Q Consensus        37 lfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~   83 (210)
                      +.+.|.++- ..++|+++||+.+|+    +++.+.|+.+....+.+.
T Consensus         8 v~~yI~~~~-~~~~tl~~lA~~~~~----s~~~l~r~Fk~~~g~tp~   49 (54)
T d1bl0a1           8 ILDWIEDNL-ESPLSLEKVSERSGY----SKWHLQRMFKKETGHSLG   49 (54)
T ss_dssp             HHHHHHTTT-TSCCCCHHHHHHSSS----CHHHHHHHHHHHHSSCHH
T ss_pred             HHHHHHhcc-CCCCCHHHHHHHHCc----CHHHHHHHHHHHHCcCHH
Confidence            455666542 269999999999999    999999999988766543

>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=90.00  E-value=0.06  Score=39.74  Aligned_cols=21  Identities=24%  Similarity=0.378  Sum_probs=17.4

Q ss_pred             CCCCCeEEEecCCccHHHHhhh
Q 036188          188 FDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       188 ~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      +++ .+|||+|||+|.++++++
T Consensus        45 l~g-~~vLDlg~GtG~l~i~a~   65 (201)
T d1wy7a1          45 IEG-KVVADLGAGTGVLSYGAL   65 (201)
T ss_dssp             STT-CEEEEETCTTCHHHHHHH
T ss_pred             CCC-CEEEECcCcchHHHHHHH
Confidence            554 799999999999988754

>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=89.97  E-value=0.12  Score=31.33  Aligned_cols=43  Identities=19%  Similarity=0.165  Sum_probs=35.5

Q ss_pred             hHHhhcCCCCCCCHHHHHHHhcCCCCCC-cccHHHHHHHHhcccceeee
Q 036188           39 EILDKAGPGTKLSASDIAAQLLTKNKDA-PMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        39 d~L~~~g~~~~~t~~eLA~~~~~~~~~~-~~~l~rlLr~L~~~gl~~~~   86 (210)
                      ..+..++ ++..+..+.|++++.    . .|++..+...|.++|++++.
T Consensus        16 ~l~~~~~-~~~~~L~~aa~~L~v----~~kRRiYDI~NVLe~igli~K~   59 (67)
T d1cf7a_          16 SLLQEAK-DGVLDLKLAADTLAV----RQKRRIYDITNVLEGIGLIEKK   59 (67)
T ss_dssp             HHHHHSS-TTEEEHHHHHHHTTT----CCTHHHHHHHHHHHHHTSEEEE
T ss_pred             HHHhhCC-CCeeeHHHHHHHhcC----cchhhHHHHHHHHhhhhhhhcc
Confidence            3344432 367899999999999    5 68999999999999999987

>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=89.84  E-value=0.12  Score=41.15  Aligned_cols=43  Identities=14%  Similarity=0.203  Sum_probs=32.3

Q ss_pred             HHHHHhhhhhhh----HHHHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          166 FNAAMYNYTSLV----MSNILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       166 f~~~M~~~~~~~----~~~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      |...|.-.++..    +..++...+ .....+|||+|||+|.++..|+
T Consensus        71 ~~~~~~r~tqiiypkD~~~Il~~l~-i~pG~rVLE~GtGsG~lt~~LA  117 (324)
T d2b25a1          71 YVVLMKRGTAITFPKDINMILSMMD-INPGDTVLEAGSGSGGMSLFLS  117 (324)
T ss_dssp             HHHHSCCSSCCCCHHHHHHHHHHHT-CCTTCEEEEECCTTSHHHHHHH
T ss_pred             HhhccCCCCcccccccHHHHHHHhC-CCCCCEEEEecccccHHHHHHH
Confidence            555666554432    446677777 8889999999999999988875

>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=89.84  E-value=0.098  Score=35.57  Aligned_cols=63  Identities=11%  Similarity=0.075  Sum_probs=44.4

Q ss_pred             hhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCC-Ccccceeccccccc
Q 036188           37 IFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDAS-GARRLYSLNSVSKY  104 (210)
Q Consensus        37 lfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~-~~~~~y~~t~~s~~  104 (210)
                      |...|...+ +++++..+||+.+++    ++..+.++++-|...|++++..+.. ...-...+|+.++-
T Consensus        38 vL~~l~~~~-~~~~~~~~ia~~l~~----~~~~vs~~v~~L~~~glV~r~~~~~D~R~v~i~LT~~G~~  101 (125)
T d1p4xa2          38 ILAIITSQN-KNIVLLKDLIETIHH----KYPQTVRALNNLKKQGYLIKERSTEDERKILIHMDDAQQD  101 (125)
T ss_dssp             HHHHHHTTT-TCCEEHHHHHHHSSS----CHHHHHHHHHHHHHHTSSEEEECSSSTTCEEEECCHHHHH
T ss_pred             HHHHHHHcc-CCCccHHHHHHHHCC----CcchHHHHHHHHHhccCEeeeecCCCCCeEEEEECHHHHH
Confidence            455564432 157899999999999    9999999999999999998763110 11123556665543

>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=89.84  E-value=0.18  Score=31.16  Aligned_cols=34  Identities=18%  Similarity=0.056  Sum_probs=32.5

Q ss_pred             CCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           49 KLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        49 ~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      |+|-+|||..+|+    .+..+.|.|..|...|+++..
T Consensus        29 ~lt~~eLA~~~G~----sretvsr~L~~l~~~glI~~~   62 (81)
T d2gaua1          29 YLSREELATLSNM----TVSNAIRTLSTFVSERMLALD   62 (81)
T ss_dssp             CCCHHHHHHHTTS----CHHHHHHHHHHHHHTTSEEEE
T ss_pred             cCCHHHHHHHHCC----CHHHHHHHHHHHHHCCCEEec
Confidence            7899999999999    999999999999999999876

>d1ft9a1 a.4.5.4 (A:134-213) CO-sensing protein CooA, C-terminal domain {Rhodospirillum rubrum [TaxId: 1085]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: CAP C-terminal domain-like
domain: CO-sensing protein CooA, C-terminal domain
species: Rhodospirillum rubrum [TaxId: 1085]

Probab=89.83  E-value=0.19  Score=31.05  Aligned_cols=34  Identities=12%  Similarity=0.116  Sum_probs=32.5

Q ss_pred             CCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           49 KLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        49 ~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      |.|-+|||..+|+    .+..+.|.|+.|...|+++..
T Consensus        30 ~~t~~eiA~~lG~----sretvsr~l~~l~~~g~I~~~   63 (80)
T d1ft9a1          30 DFTVEEIANLIGS----SRQTTSTALNSLIKEGYISRQ   63 (80)
T ss_dssp             CCCHHHHHHHHCS----CHHHHHHHHHHHHHTTSSEEC
T ss_pred             CCCHHHHHHHHCC----CHHHHHHHHHHHHHCCCEEEC
Confidence            7899999999999    999999999999999999875

>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=89.64  E-value=0.18  Score=31.34  Aligned_cols=45  Identities=18%  Similarity=0.358  Sum_probs=41.1

Q ss_pred             hhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           37 IFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        37 lfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      |++++..+|. .++...+|..++++    +...+.++|+.|.+.+++.+.
T Consensus        18 VY~~I~~ag~-~GIW~~dir~ktnL----~~~~l~K~LK~Lesk~lIK~V   62 (78)
T d2dk5a1          18 VYQIIEDAGN-KGIWSRDVRYKSNL----PLTEINKILKNLESKKLIKAV   62 (78)
T ss_dssp             HHHHHHHHCT-TCEEHHHHHHHTTC----CHHHHHHHHHHHHHTTSEEEE
T ss_pred             HHHHHHHccc-cceeHHHHHHHcCC----CHHHHHHHHHHHHhcCCceee
Confidence            6788888763 78999999999999    999999999999999999876

>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=89.57  E-value=0.13  Score=39.86  Aligned_cols=21  Identities=19%  Similarity=0.387  Sum_probs=18.3

Q ss_pred             CCCCeEEEecCCccHHHHhhh
Q 036188          189 DNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       189 ~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      .+..+|+|+|||+|..++.++
T Consensus       107 ~~~~~vlDlGtGSG~I~i~la  127 (274)
T d2b3ta1         107 EQPCRILDLGTGTGAIALALA  127 (274)
T ss_dssp             SSCCEEEEETCTTSHHHHHHH
T ss_pred             ccccceeeeehhhhHHHHHHH
Confidence            556789999999999999875

>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=89.56  E-value=0.096  Score=37.29  Aligned_cols=62  Identities=15%  Similarity=-0.020  Sum_probs=45.9

Q ss_pred             hhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCC-Ccccceecccccccc
Q 036188           37 IFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDAS-GARRLYSLNSVSKYY  105 (210)
Q Consensus        37 lfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~-~~~~~y~~t~~s~~l  105 (210)
                      |...|...   ++.|+.+||+.+++    +...+.+++.-|...|++++..... ...-...+|+.++-+
T Consensus        46 vL~~l~~~---~~~t~~~la~~~~l----~~~tvs~~i~rL~~~gli~r~~~~~D~R~~~l~lT~~G~~~  108 (162)
T d2fxaa1          46 ILWIAYQL---NGASISEIAKFGVM----HVSTAFNFSKKLEERGYLRFSKRLNDKRNTYVQLTEEGTEV  108 (162)
T ss_dssp             HHHHHHHH---TSEEHHHHHHHTTC----CHHHHHHHHHHHHHHTSEEEECC------CEEEECHHHHHH
T ss_pred             HHhhhccC---CCcCHHHHHHHHcC----CchhhHHHHHHHHHCCCceeecccccCeeeeeccCHhHHHH
Confidence            45566665   58999999999999    9999999999999999999763110 112236777776644

>d1i5za1 a.4.5.4 (A:138-206) Catabolite gene activator protein (CAP), C-terminal domain {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: CAP C-terminal domain-like
domain: Catabolite gene activator protein (CAP), C-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=89.13  E-value=0.16  Score=30.49  Aligned_cols=34  Identities=18%  Similarity=0.353  Sum_probs=32.4

Q ss_pred             CCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           49 KLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        49 ~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      |+|-+|||..+|+    ....+.|.|+-|...|+++..
T Consensus        29 ~lt~~~lA~~~G~----sRetvsr~L~~l~~~glI~~~   62 (69)
T d1i5za1          29 KITRQEIGQIVGC----SRETVGRILKMLEDQNLISAH   62 (69)
T ss_dssp             ECCHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEEE
T ss_pred             CCCHHHHHHHHCC----CHHHHHHHHHHHHHCCCEEEc
Confidence            6899999999999    999999999999999999875

>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=89.02  E-value=0.069  Score=40.14  Aligned_cols=21  Identities=14%  Similarity=0.042  Sum_probs=16.5

Q ss_pred             CCCCCeEEEecCCccHHHHhh
Q 036188          188 FDNIKQLVDVGGSLGVTLQAI  208 (210)
Q Consensus       188 ~~~~~~vvDiGGg~G~~~~~l  208 (210)
                      ..+..+|||||||.|.++..+
T Consensus        49 ~~~g~~vLDlGcG~G~~~~~~   69 (257)
T d2a14a1          49 GLQGDTLIDIGSGPTIYQVLA   69 (257)
T ss_dssp             SCCEEEEEESSCTTCCGGGTT
T ss_pred             CCCCCEEEEECCCCCHhHHHH
Confidence            345679999999999876544

>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=88.49  E-value=0.14  Score=38.25  Aligned_cols=30  Identities=20%  Similarity=0.245  Sum_probs=21.3

Q ss_pred             HHHHhCC-CCCCCCeEEEecCCccHHHHhhh
Q 036188          180 NILESYK-GFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       180 ~~l~~~~-~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      .+++.+. ..+...+|||||||+|..+..++
T Consensus        65 ~~le~L~~~l~~g~~VLdiG~GsGy~ta~la   95 (224)
T d1i1na_          65 YALELLFDQLHEGAKALDVGSGSGILTACFA   95 (224)
T ss_dssp             HHHHHTTTTSCTTCEEEEETCTTSHHHHHHH
T ss_pred             HHHHHHhhccCCCCeEEEecCCCCHHHHHHH
Confidence            4455542 26678899999999998765543

>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=88.26  E-value=0.32  Score=30.86  Aligned_cols=37  Identities=5%  Similarity=-0.013  Sum_probs=32.3

Q ss_pred             CCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           48 TKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        48 ~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      .|.+..+|++..++  +.++.-++..|..|...|++.+.
T Consensus        22 ~Pv~s~~i~~~~~l--~~S~aTIRn~m~~LE~~G~l~~~   58 (87)
T d1stza1          22 KPVSSQRVLEVSNI--EFSSATIRNDMKKLEYLGYIYQP   58 (87)
T ss_dssp             SCBCHHHHHHHSCC--CSCHHHHHHHHHHHHHTTSEECC
T ss_pred             CccCHHHHHHHhCC--CCCHHHHHHHHHHHHHCCcccCC
Confidence            79999999999776  11688999999999999999875

>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=87.17  E-value=0.091  Score=39.59  Aligned_cols=25  Identities=16%  Similarity=0.275  Sum_probs=21.0

Q ss_pred             hCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          184 SYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       184 ~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      .++ .+...+|+|+|||+|.++..|+
T Consensus        68 ~l~-i~pG~~VLDlGaGsG~~t~~la   92 (227)
T d1g8aa_          68 NFP-IKPGKSVLYLGIASGTTASHVS   92 (227)
T ss_dssp             CCC-CCTTCEEEEETTTSTTHHHHHH
T ss_pred             ccc-cCCCCEEEEeccCCCHHHHHHH
Confidence            344 7788999999999999988775

>d3e5ua1 a.4.5.4 (A:148-227) Chlorophenol reduction protein CprK {Desulfitobacterium hafniense [TaxId: 49338]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: CAP C-terminal domain-like
domain: Chlorophenol reduction protein CprK
species: Desulfitobacterium hafniense [TaxId: 49338]

Probab=86.70  E-value=0.3  Score=30.07  Aligned_cols=35  Identities=17%  Similarity=0.186  Sum_probs=32.2

Q ss_pred             CCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           48 TKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        48 ~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      -|+|-+|||..+|+    ....+.|.|..|...|+++..
T Consensus        29 ~~lt~~elA~~~g~----sretvsr~l~~l~~~glI~~~   63 (80)
T d3e5ua1          29 MPLSQKSIGEITGV----HHVTVSRVLASLKRENILDKK   63 (80)
T ss_dssp             SCCCHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEC-
T ss_pred             eCCCHHHHHHHHCC----CHHHHHHHHHHHHHCCcEEec
Confidence            37899999999999    999999999999999999865

>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=86.02  E-value=0.2  Score=37.33  Aligned_cols=29  Identities=21%  Similarity=0.259  Sum_probs=23.8

Q ss_pred             HHHHhCCCCCCCCeEEEecCCccHHHHhhh
Q 036188          180 NILESYKGFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       180 ~~l~~~~~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      .+++..+ .+...+|+|||+|+|..+.-++
T Consensus        69 ~ml~~L~-l~~g~~VLeIGsGsGY~taila   97 (215)
T d1jg1a_          69 IMLEIAN-LKPGMNILEVGTGSGWNAALIS   97 (215)
T ss_dssp             HHHHHHT-CCTTCCEEEECCTTSHHHHHHH
T ss_pred             HHHHhhc-cCccceEEEecCCCChhHHHHH
Confidence            5566666 8888999999999999887654

>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=85.64  E-value=0.27  Score=36.73  Aligned_cols=30  Identities=20%  Similarity=0.242  Sum_probs=22.4

Q ss_pred             HHHHhCC-CCCCCCeEEEecCCccHHHHhhh
Q 036188          180 NILESYK-GFDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       180 ~~l~~~~-~~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      .+++.+. +.++..+|||||+|+|..+..++
T Consensus        69 ~~l~~L~~~l~~g~~VLeIGtGsGY~ta~la   99 (223)
T d1r18a_          69 FALEYLRDHLKPGARILDVGSGSGYLTACFY   99 (223)
T ss_dssp             HHHHHTTTTCCTTCEEEEESCTTSHHHHHHH
T ss_pred             HHHHHHhhccCCCCeEEEecCCCCHHHHHHH
Confidence            4455551 27788999999999999876653

>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=85.12  E-value=0.21  Score=35.63  Aligned_cols=22  Identities=9%  Similarity=0.055  Sum_probs=18.3

Q ss_pred             CCCCCeEEEecCCccHHHHhhh
Q 036188          188 FDNIKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       188 ~~~~~~vvDiGGg~G~~~~~l~  209 (210)
                      .....+|+|+|||+|.++++.+
T Consensus        39 ~~~g~~vLDl~~G~G~~~i~a~   60 (171)
T d1ws6a1          39 YPRRGRFLDPFAGSGAVGLEAA   60 (171)
T ss_dssp             CTTCCEEEEETCSSCHHHHHHH
T ss_pred             ccCCCeEEEeccccchhhhhhh
Confidence            4556799999999999998754

>d1v4ra1 a.4.5.6 (A:1-100) Transcriptional repressor TraR, N-terminal domain {Streptomyces sp. [TaxId: 1931]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: GntR-like transcriptional regulators
domain: Transcriptional repressor TraR, N-terminal domain
species: Streptomyces sp. [TaxId: 1931]

Probab=84.44  E-value=0.32  Score=31.54  Aligned_cols=43  Identities=30%  Similarity=0.217  Sum_probs=37.0

Q ss_pred             CCC-CHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceec
Q 036188           48 TKL-SASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSL   98 (210)
Q Consensus        48 ~~~-t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~   98 (210)
                      ..+ |..+||+.+++    +..-+++-++.|...|++....    +.|.|..
T Consensus        31 ~~LPs~r~La~~~~v----Sr~tvr~Al~~L~~~Gli~~~~----g~G~~V~   74 (100)
T d1v4ra1          31 DTLPSVADIRAQFGV----AAKTVSRALAVLKSEGLVSSRG----ALGTVVE   74 (100)
T ss_dssp             SBCCCHHHHHHHSSS----CTTHHHHHTTTTTTSSCCEEET----TTEEESC
T ss_pred             CCCccHHHHHHHHCC----CHHHHHHHHHHHHHCCcEEEec----CCEEEEC
Confidence            567 89999999999    9999999999999999998773    4566653

>d1d5ya1 a.4.1.8 (A:3-56) Rob transcription factor, N-terminal domain {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Homeodomain-like
family: AraC type transcriptional activator
domain: Rob transcription factor, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=83.39  E-value=0.39  Score=27.14  Aligned_cols=41  Identities=17%  Similarity=0.186  Sum_probs=32.9

Q ss_pred             ChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhccc
Q 036188           36 GIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYS   81 (210)
Q Consensus        36 glfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~g   81 (210)
                      .+.+.|.++- ..++|+++||+.+++    ++..+.|+.+......
T Consensus         7 ~i~~yi~~~~-~~~itl~~lA~~~~~----S~~~l~r~Fk~~~g~t   47 (54)
T d1d5ya1           7 DLLIWLEGHL-DQPLSLDNVAAKAGY----SKWHLQRMFKDVTGHA   47 (54)
T ss_dssp             HHHHHHHTTS-SSSCCCHHHHTTTSS----CHHHHHHHHHHHHSSC
T ss_pred             HHHHHHHHcc-CCCCCHHHHHHHHCc----CHHHHHHHHHHHHCcC
Confidence            4566776642 269999999999999    9999999998776554

>d1okra_ a.4.5.39 (A:) Methicillin resistance regulatory protein MecI {Staphylococcus aureus [TaxId: 1280]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Penicillinase repressor
domain: Methicillin resistance regulatory protein MecI
species: Staphylococcus aureus [TaxId: 1280]

Probab=82.97  E-value=0.39  Score=31.97  Aligned_cols=47  Identities=15%  Similarity=0.188  Sum_probs=38.7

Q ss_pred             HhhChhhHHhhcCCCCCCCHHHHHHHh----cCCCCCCcccHHHHHHHHhcccceeee
Q 036188           33 YELGIFEILDKAGPGTKLSASDIAAQL----LTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        33 ~~lglfd~L~~~g~~~~~t~~eLA~~~----~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      .|+.|-..|-+.   +|.|+.||.+.+    ++    ++.-+..+|+-|...|++++.
T Consensus         8 ~E~~VM~~lW~~---~~~t~~ei~~~l~~~~~~----~~sTv~t~L~rL~~Kg~l~r~   58 (120)
T d1okra_           8 AEWEVMNIIWMK---KYASANNIIEEIQMQKDW----SPKTIRTLITRLYKKGFIDRK   58 (120)
T ss_dssp             HHHHHHHHHHHH---SSEEHHHHHHHHHHHCCC----CHHHHHHHHHHHHHHTSEEEE
T ss_pred             HHHHHHHHHHcC---CCCCHHHHHHHHhcccCc----cHHhHHHHHHHHHHCCCeEEE
Confidence            355566666665   599999998887    57    888999999999999999876

>d1u5ta2 a.4.5.54 (A:165-232) Vacuolar sorting protein SNF8 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Vacuolar sorting protein domain
domain: Vacuolar sorting protein SNF8
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=81.62  E-value=1.5  Score=26.27  Aligned_cols=35  Identities=14%  Similarity=-0.034  Sum_probs=33.1

Q ss_pred             CCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeee
Q 036188           48 TKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECS   86 (210)
Q Consensus        48 ~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~   86 (210)
                      |-.|++.|-..+|+    +..+.+..|+.|+..|++--+
T Consensus        16 G~Vt~s~l~~~lgW----~~~Ra~~aLd~lv~eGl~WvD   50 (68)
T d1u5ta2          16 GYSSISLLKANLGW----EAVRSKSALDEMVANGLLWID   50 (68)
T ss_dssp             SCCBHHHHHHHHCC----CSHHHHHHHHHHHHTTSSEEE
T ss_pred             CceeHHHHHHHhCC----CHHHHHHHHHHHHhcCcEEEe
Confidence            68999999999999    999999999999999999766

>d1xn7a_ a.4.5.62 (A:) Hypothetical protein YhgG {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: Hypothetical protein YhgG
domain: Hypothetical protein YhgG
species: Escherichia coli [TaxId: 562]

Probab=81.23  E-value=1  Score=27.31  Aligned_cols=45  Identities=20%  Similarity=0.245  Sum_probs=40.0

Q ss_pred             ChhhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeec
Q 036188           36 GIFEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSL   87 (210)
Q Consensus        36 glfd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~   87 (210)
                      .|=|.|+-+   |.+.+.+|+..+..    +...+...|.-|+++|-+++.+
T Consensus         6 qvRD~iAL~---G~~da~qlS~qL~~----P~Plv~AMLerL~aMGK~erie   50 (78)
T d1xn7a_           6 QVRDLLALR---GRMEAAQISQTLNT----PQPMINAMLQQLESMGKAVRIQ   50 (78)
T ss_dssp             HHHHHHHHS---CSBCHHHHHHHTTC----CHHHHHHHHHHHHHHTSEEEEC
T ss_pred             HHHHHHHHc---CcccHHHHHHHHcC----ChHHHHHHHHHHHHhhcceecc
Confidence            355788886   58999999999999    9999999999999999998873

>d2p8ta1 a.4.5.72 (A:14-82) Hypothetical protein PH0730 {Pyrococcus horikoshii [TaxId: 53953]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: PH0730 N-terminal domain-like
domain: Hypothetical protein PH0730
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=80.92  E-value=0.9  Score=27.33  Aligned_cols=46  Identities=20%  Similarity=0.217  Sum_probs=38.1

Q ss_pred             CCCCHHHHHHHhcCCCCCCcccHHHHHHHHhcccceeeeccCCCcccceecccccc
Q 036188           48 TKLSASDIAAQLLTKNKDAPMMLDRILRLLASYSVVECSLDASGARRLYSLNSVSK  103 (210)
Q Consensus        48 ~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~~~gl~~~~~~~~~~~~~y~~t~~s~  103 (210)
                      .|+.-.-||+.+++    .++.++..++.|...|+++-.      ...-.+|+.++
T Consensus        16 qPiGRr~La~~L~l----~Er~vRte~~~Lk~~gLI~~~------~~Gm~lTe~G~   61 (69)
T d2p8ta1          16 EPLGRKQISERLEL----GEGSVRTLLRKLSHLDIIRSK------QRGHFLTLKGK   61 (69)
T ss_dssp             SCBCHHHHHHHHTC----CHHHHHHHHHHHHHTTSEEEC--------CEEECHHHH
T ss_pred             CCccHHHHHHHcCC----cHHHHHHHHHHHHHCCCeeee------CCCCEECHhHH
Confidence            49999999999999    999999999999999999986      34445555554

>d1s6la1 a.4.5.79 (A:21-80) Alkylmercury lyase MerB {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: "Winged helix" DNA-binding domain
family: MerB N-terminal domain-like
domain: Alkylmercury lyase MerB
species: Escherichia coli [TaxId: 562]

Probab=80.55  E-value=0.44  Score=27.70  Aligned_cols=34  Identities=18%  Similarity=0.145  Sum_probs=26.1

Q ss_pred             hhHHhhcCCCCCCCHHHHHHHhcCCCCCCcccHHHHHHHHh
Q 036188           38 FEILDKAGPGTKLSASDIAAQLLTKNKDAPMMLDRILRLLA   78 (210)
Q Consensus        38 fd~L~~~g~~~~~t~~eLA~~~~~~~~~~~~~l~rlLr~L~   78 (210)
                      ...|++.   .|.|++.||..+|+    ..+.++..|..+.
T Consensus         8 Lr~LA~G---~PVs~~~LA~alg~----~~~eV~~aL~~~p   41 (60)
T d1s6la1           8 LRELAKG---RPVSRTTLAGILDW----PAERVAAVLEQAT   41 (60)
T ss_dssp             HHHHHTT---CCBCHHHHHHHHTC----CHHHHHHHHTTCC
T ss_pred             HHHHhCC---CCcCHHHHHHHhCC----CHHHHHHHHHhCC
Confidence            4456662   79999999999999    8777766665554

>d2fpoa1 c.66.1.46 (A:10-192) Methylase YhhF {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: YhhF-like
domain: Methylase YhhF
species: Escherichia coli [TaxId: 562]

Probab=80.28  E-value=0.33  Score=34.89  Aligned_cols=19  Identities=16%  Similarity=-0.095  Sum_probs=16.6

Q ss_pred             CCeEEEecCCccHHHHhhh
Q 036188          191 IKQLVDVGGSLGVTLQAIT  209 (210)
Q Consensus       191 ~~~vvDiGGg~G~~~~~l~  209 (210)
                      ..+|||++||+|.++++.+
T Consensus        44 ~~~vLDlfaGsG~~gieal   62 (183)
T d2fpoa1          44 DAQCLDCFAGSGALGLEAL   62 (183)
T ss_dssp             TCEEEETTCTTCHHHHHHH
T ss_pred             hhhhhhhhccccceeeeEE
Confidence            4689999999999998765