Citrus Sinensis ID: 034052

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-----
Protein Sequence
MTTVVTFPSLHSMAVLHPEQDRVLTIRECARLQGFPDYYRFFGTVKERYCQVGNAVPIVVARALGYALGMAFQKLGNDEPLMTLPPKFSLSTNLQLAKSLFQGND
Secondary Structure (PSIPRED)
ccEEcccccccccccccccccccccHHHHHHHccccccEEEEEccccHHHHccccccHHHHHHHHHHHHHHHHHHccccccccccccccccHHHHHHHHHHcccc
Secondary Structure Prediction (SSPRO)
cccEEccccccccEEEccccccEEEEEHHHHHccccccEEEEccHHHHHHEccccccHHHHHHHHHHHHHHHHHcccccccccccccccccccccccHHHHcccc
Coil and Loop (DISEMBL)
mttvvtfpslhsmavlhpeqdrVLTIRECArlqgfpdyyrfFGTVKERYCQVGNAVPIVVARALGYALGMAFQklgndeplmtlppkfslsTNLQLAKSLFQGND
Flexible Loop (DISEMBL)
mttvvtfpslhsmavlhpeqDRVLTIRECARLQGFPDYYRFFGTVKERYCQVGNAVPIVVARALGYALGMAFQKLGNDEPLMTLPPKFSLSTNLQLAKSLFQGND
Low Complexity Region (SEG)
MTTVVTFPSLHSMAVLHPEQDRVLTIRECARLQGFPDYYRFFGTVKERYCQVGNAVPIVVARALGYALGMAFQKLGNDEPLMTLPPKFSLSTNLQLAKSLFQGND
Disordered region (IsUnstruct)
****VTFPSLHSMAVLHPEQDRVLTIRECARLQGFPDYYRFFGTVKERYCQVGNAVPIVVARALGYALGMAFQKLGNDEPLM***********************
Disordered Region (DISOPRED)
MTTVVT*PSLHSMAVLHPEQDRVLTIRECARLQGFPDYYRFFGTVKERYCQVGNAVPIVVARALGYALGMAFQKLGN****************LQL****F****
Disordered Region (DISEMBL)
MTTVVTFPSLHSMAVLHPEQDRVLTIRECARLQGFPDYYRFFGTVKERYCQVGNAVPIVVARALGYALGMAFQKLGNDEPLMTLPPKFSLSTNLQLAKSLFQGND
Disordered Region (DISPRO)
*TTVVTFPSLHSMAVLHPEQDRVLTIRECARLQGFPDYYRFFGTVKERYCQVGNAVPIVVARALGYALGMAFQKLGNDEPLMTLPPKFSL***************
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MTTVVTFPSLHSMAVLHPEQDRVLTIRECARLQGFPDYYRFFGTVKERYCQVGNAVPIVVARALGYALGMAFQKLGNDEPLMTLPPKFSLSTNLQLAKSLFQGND
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	105	2.2.26 [Sep-21-2011]
Q94F87	1295	DNA (cytosine-5)-methyltr	yes	no	0.933	0.075	0.663	2e-34
Q9AXT8	912	DNA (cytosine-5)-methyltr	N/A	no	0.809	0.093	0.622	2e-25
Q94F88	839	DNA (cytosine-5)-methyltr	no	no	0.838	0.104	0.595	2e-24
O49139	791	Putative DNA (cytosine-5)	no	no	0.838	0.111	0.579	2e-23
Q9ARI6	915	DNA (cytosine-5)-methyltr	N/A	no	0.828	0.095	0.602	4e-23
Q8LPU5	915	DNA (cytosine-5)-methyltr	N/A	no	0.828	0.095	0.602	4e-23
Q27746	1612	DNA (cytosine-5)-methyltr	N/A	no	0.685	0.044	0.506	1e-15
P13864	1620	DNA (cytosine-5)-methyltr	yes	no	0.676	0.043	0.520	2e-15
Q7Y1I7	1527	DNA (cytosine-5)-methyltr	no	no	0.533	0.036	0.589	1e-14
Q9Z330	1622	DNA (cytosine-5)-methyltr	yes	no	0.676	0.043	0.506	1e-14

>sp|Q94F87|CMT2_ARATH DNA (cytosine-5)-methyltransferase CMT2 OS=Arabidopsis thaliana GN=CMT2 PE=2 SV=3

 Score =  144 bits (363), Expect = 2e-34,   Method: Composition-based stats.
 Identities = 65/98 (66%), Positives = 80/98 (81%)

Query: 3    TVVTFPSLHSMAVLHPEQDRVLTIRECARLQGFPDYYRFFGTVKERYCQVGNAVPIVVAR 62
            TV+T P+ HS A+LHPEQDRVLTIRE ARLQGFPDY++F GT+KERYCQ+GNAV + V+R
Sbjct: 1196 TVLTVPTCHSQALLHPEQDRVLTIRESARLQGFPDYFQFCGTIKERYCQIGNAVAVSVSR 1255

Query: 63   ALGYALGMAFQKLGNDEPLMTLPPKFSLSTNLQLAKSL 100
            ALGY+LGMAF+ L  DE L+ LP  FS ST  QL +++
Sbjct: 1256 ALGYSLGMAFRGLARDEHLIKLPQNFSHSTYPQLQETI 1293

May be involved in the CpXpG methylation and in gene silencing.
Arabidopsis thaliana (taxid: 3702)
EC: 2EC: .EC: 1EC: .EC: 1EC: .EC: 3EC: 7

>sp|Q9AXT8|CMT1_MAIZE DNA (cytosine-5)-methyltransferase 1 OS=Zea mays GN=MET2A PE=1 SV=1

 Score =  114 bits (284), Expect = 2e-25,   Method: Composition-based stats.
 Identities = 56/90 (62%), Positives = 64/90 (71%), Gaps = 5/90 (5%)

Query: 3   TVVTFPSLHSMAVLHPEQDRVLTIRECARLQGFPDYYRFFGTVKERYCQVGNAVPIVVAR 62
           TVVT    H+  ++HP Q RVLTIRE ARLQGFPDYYR FG +KE+Y QVGNAV + VAR
Sbjct: 800 TVVTRAEPHNQVIIHPTQARVLTIRENARLQGFPDYYRLFGPIKEKYIQVGNAVAVPVAR 859

Query: 63  ALGYALGMAFQKLGNDE---PLMTLPPKFS 89
           ALGY LG A+  LG  E   PL  LPP F+
Sbjct: 860 ALGYCLGQAY--LGESEGSDPLYQLPPSFT 887

Involved in the CpXpG methylation and in gene silencing.

Zea mays (taxid: 4577)

EC: 2

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 3

EC: 7

>sp|Q94F88|CMT3_ARATH DNA (cytosine-5)-methyltransferase CMT3 OS=Arabidopsis thaliana GN=CMT3 PE=1 SV=2

 Score =  111 bits (277), Expect = 2e-24,   Method: Composition-based stats.
 Identities = 53/89 (59%), Positives = 66/89 (74%), Gaps = 1/89 (1%)

Query: 3   TVVTFPSLHSMAVLHPEQDRVLTIRECARLQGFPDYYRFFGTVKERYCQVGNAVPIVVAR 62
           TVVT    H+  ++HPEQ+RVL+IRE ARLQGFPD Y+ FG  K++Y QVGNAV + VA+
Sbjct: 741 TVVTRAEPHNQVIIHPEQNRVLSIRENARLQGFPDDYKLFGPPKQKYIQVGNAVAVPVAK 800

Query: 63  ALGYALGMAFQKLG-NDEPLMTLPPKFSL 90
           ALGYALG AFQ L    +PL+TLP  F+ 
Sbjct: 801 ALGYALGTAFQGLAVGKDPLLTLPEGFAF 829

Involved in the CpXpG methylation and in gene silencing. Methylates preferentially transposon-related sequences. Functionally redundant to DRM1/DRM2 to maintain non-CpG methylation. Involved in RNA-directed DNA methylation.

Arabidopsis thaliana (taxid: 3702)

EC: 2

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 3

EC: 7

>sp|O49139|CMT1_ARATH Putative DNA (cytosine-5)-methyltransferase CMT1 OS=Arabidopsis thaliana GN=CMT1 PE=5 SV=2

 Score =  107 bits (267), Expect = 2e-23,   Method: Compositional matrix adjust.
 Identities = 51/88 (57%), Positives = 65/88 (73%)

Query: 1   MTTVVTFPSLHSMAVLHPEQDRVLTIRECARLQGFPDYYRFFGTVKERYCQVGNAVPIVV 60
           + TVVT    H+  V+HP Q+RVL++RE ARLQGFPD Y+  GT+KE+Y QVGNAV + V
Sbjct: 694 VNTVVTRAEPHNQCVIHPMQNRVLSVRENARLQGFPDCYKLCGTIKEKYIQVGNAVAVPV 753

Query: 61  ARALGYALGMAFQKLGNDEPLMTLPPKF 88
             ALGYA GMA Q L +DEP++ LP K+
Sbjct: 754 GVALGYAFGMASQGLTDDEPVIKLPFKY 781

May be involved in the CpXpG methylation and in gene silencing.

Arabidopsis thaliana (taxid: 3702)

EC: 2

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 3

EC: 7

>sp|Q9ARI6|CMT2_MAIZE DNA (cytosine-5)-methyltransferase 2 OS=Zea mays GN=ZMET5 PE=2 SV=1

 Score =  106 bits (265), Expect = 4e-23,   Method: Compositional matrix adjust.
 Identities = 53/88 (60%), Positives = 62/88 (70%), Gaps = 1/88 (1%)

Query: 3   TVVTFPSLHSMAVLHPEQDRVLTIRECARLQGFPDYYRFFGTVKERYCQVGNAVPIVVAR 62
           TVVT    H+  +LHP Q RVLTIRE ARLQGFPDYYR FG +KE+Y QVGNAV + VAR
Sbjct: 804 TVVTRAEPHNQVILHPTQARVLTIRENARLQGFPDYYRLFGPIKEKYIQVGNAVAVPVAR 863

Query: 63  ALGYALGMAF-QKLGNDEPLMTLPPKFS 89
           ALGY LG A+  +    +PL  LP  F+
Sbjct: 864 ALGYCLGQAYLGESDGSQPLYQLPASFT 891

May be involved in the CpXpG methylation and in gene silencing.

Zea mays (taxid: 4577)

EC: 2

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 3

EC: 7

>sp|Q8LPU5|CMT3_MAIZE DNA (cytosine-5)-methyltransferase 3 OS=Zea mays GN=DMT105 PE=2 SV=1

 Score =  106 bits (265), Expect = 4e-23,   Method: Compositional matrix adjust.
 Identities = 53/88 (60%), Positives = 62/88 (70%), Gaps = 1/88 (1%)

Query: 3   TVVTFPSLHSMAVLHPEQDRVLTIRECARLQGFPDYYRFFGTVKERYCQVGNAVPIVVAR 62
           TVVT    H+  +LHP Q RVLTIRE ARLQGFPDYYR FG +KE+Y QVGNAV + VAR
Sbjct: 804 TVVTRAEPHNQVILHPTQARVLTIRENARLQGFPDYYRLFGPIKEKYIQVGNAVAVPVAR 863

Query: 63  ALGYALGMAF-QKLGNDEPLMTLPPKFS 89
           ALGY LG A+  +    +PL  LP  F+
Sbjct: 864 ALGYCLGQAYLGESDGSQPLYQLPASFT 891

May be involved in the CpXpG methylation and in gene silencing.

Zea mays (taxid: 4577)

EC: 2

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 3

EC: 7

>sp|Q27746|DNMT1_PARLI DNA (cytosine-5)-methyltransferase PliMCI OS=Paracentrotus lividus GN=DNMT PE=2 SV=1

 Score = 82.0 bits (201), Expect = 1e-15,   Method: Composition-based stats.
 Identities = 37/73 (50%), Positives = 51/73 (69%), Gaps = 1/73 (1%)

Query: 15   VLHPEQDRVLTIRECARLQGFPDYYRFFGTVKERYCQVGNAVPIVVARALGYALGMAFQ- 73
            VLHPEQ RV+++RECAR QGFPD YRFFG++ +++ Q+GNAVP  +A A+G  + +  Q 
Sbjct: 1530 VLHPEQHRVVSVRECARSQGFPDTYRFFGSILDKHRQIGNAVPPPMAAAIGMEIKVCLQT 1589

Query: 74   KLGNDEPLMTLPP 86
            K   D+    L P
Sbjct: 1590 KTKRDQERAALEP 1602

Methylates CpG residues.

Paracentrotus lividus (taxid: 7656)

EC: 2

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 3

EC: 7

>sp|P13864|DNMT1_MOUSE DNA (cytosine-5)-methyltransferase 1 OS=Mus musculus GN=Dnmt1 PE=1 SV=5

 Score = 80.5 bits (197), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 38/73 (52%), Positives = 50/73 (68%), Gaps = 2/73 (2%)

Query: 2    TTVVTFPSLHSMA--VLHPEQDRVLTIRECARLQGFPDYYRFFGTVKERYCQVGNAVPIV 59
            +T VT P        VLHPEQ RV+++RECAR QGFPD YRFFG + +R+ QVGNAVP  
Sbjct: 1526 STTVTNPEPMGKQGRVLHPEQHRVVSVRECARSQGFPDSYRFFGNILDRHRQVGNAVPPP 1585

Query: 60   VARALGYALGMAF 72
            +A+A+G  + +  
Sbjct: 1586 LAKAIGLEIKLCL 1598

Methylates CpG residues. Preferentially methylates hemimethylated DNA. Associates with DNA replication sites in S phase maintaining the methylation pattern in the newly synthesized strand, that is essential for epigenetic inheritance. Associates with chromatin during G2 and M phases to maintain DNA methylation independently of replication. It is responsible for maintaining methylation patterns established in development. DNA methylation is coordinated with methylation of histones. Mediates transcriptional repression by direct binding to HDAC2. In association with DNMT3B and via the recruitment of CTCFL/BORIS, involved in activation of BAG1 gene expression by modulating dimethylation of promoter histone H3 at H3K4 and H3K9.

Mus musculus (taxid: 10090)

EC: 2

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 3

EC: 7

>sp|Q7Y1I7|DNM1A_ORYSJ DNA (cytosine-5)-methyltransferase 1A OS=Oryza sativa subsp. japonica GN=MET1A PE=2 SV=1

 Score = 78.6 bits (192), Expect = 1e-14,   Method: Composition-based stats.
 Identities = 33/56 (58%), Positives = 42/56 (75%)

Query: 16   LHPEQDRVLTIRECARLQGFPDYYRFFGTVKERYCQVGNAVPIVVARALGYALGMA 71
             HPEQDR++T+RECAR QGFPD YRF G ++ ++ Q+GNAVP  +A ALG  L  A
Sbjct: 1467 FHPEQDRIITVRECARSQGFPDSYRFAGNIQNKHRQIGNAVPPPLAYALGRKLKQA 1522

Probably methylates CpG residues and maintains DNA methylation. May be involved in methylation-dependent gene silencing.

Oryza sativa subsp. japonica (taxid: 39947)

EC: 2

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 3

EC: 7

>sp|Q9Z330|DNMT1_RAT DNA (cytosine-5)-methyltransferase 1 OS=Rattus norvegicus GN=Dnmt1 PE=1 SV=2

 Score = 78.2 bits (191), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 37/73 (50%), Positives = 49/73 (67%), Gaps = 2/73 (2%)

Query: 2    TTVVTFPSLHSMA--VLHPEQDRVLTIRECARLQGFPDYYRFFGTVKERYCQVGNAVPIV 59
            +T VT P        VLHPEQ RV+++RECAR QGFPD YR FG + +R+ QVGNAVP  
Sbjct: 1528 STTVTNPEPMGKQGRVLHPEQHRVVSVRECARSQGFPDTYRLFGNILDRHRQVGNAVPPP 1587

Query: 60   VARALGYALGMAF 72
            +A+A+G  + +  
Sbjct: 1588 LAKAIGLEIKLCL 1600

Methylates CpG residues. Preferentially methylates hemimethylated DNA. Associates with DNA replication sites in S phase maintaining the methylation pattern in the newly synthesized strand, that is essential for epigenetic inheritance. Associates with chromatin during G2 and M phases to maintain DNA methylation independently of replication. It is responsible for maintaining methylation patterns established in development. DNA methylation is coordinated with methylation of histones. Mediates transcriptional repression by direct binding to HDAC2. In association with DNMT3B and via the recruitment of CTCFL/BORIS, involved in activation of BAG1 gene expression by modulating dimethylation of promoter histone H3 at H3K4 and H3K9.

Rattus norvegicus (taxid: 10116)

EC: 2

EC: .

EC: 1

EC: .

EC: 1

EC: .

EC: 3

EC: 7

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	105
255557861	734	protein with unknown function [Ricinus c	0.980	0.140	0.815	4e-42
356560887	1143	PREDICTED: DNA (cytosine-5)-methyltransf	0.980	0.090	0.711	5e-37
449456909	1243	PREDICTED: DNA (cytosine-5)-methyltransf	0.914	0.077	0.739	3e-36
224071435	729	DNA methyltransferase [Populus trichocar	0.838	0.120	0.795	8e-36
359490000	1298	PREDICTED: DNA (cytosine-5)-methyltransf	0.923	0.074	0.701	2e-34
359474666	1789	PREDICTED: uncharacterized protein LOC10	0.847	0.049	0.764	1e-33
147801050	272	hypothetical protein VITISV_020830 [Viti	0.895	0.345	0.723	3e-33
297737359	847	unnamed protein product [Vitis vinifera]	0.895	0.110	0.723	5e-33
42566945	1295	chromomethylase 2 [Arabidopsis thaliana]	0.933	0.075	0.663	7e-33
14583094	1244	chromomethylase CMT2 [Arabidopsis thalia	0.933	0.078	0.663	9e-33

>gi|255557861|ref|XP_002519960.1| protein with unknown function [Ricinus communis] gi|223541006|gb|EEF42564.1| protein with unknown function [Ricinus communis]

 Score =  175 bits (443), Expect = 4e-42,   Method: Compositional matrix adjust.
 Identities = 84/103 (81%), Positives = 89/103 (86%)

Query: 3   TVVTFPSLHSMAVLHPEQDRVLTIRECARLQGFPDYYRFFGTVKERYCQVGNAVPIVVAR 62
           TVVT+PS+HS A+LHPEQDR LTIRECARLQGFPDYYRF GTVKERY Q+GNAV + V R
Sbjct: 632 TVVTYPSIHSQAMLHPEQDRALTIRECARLQGFPDYYRFSGTVKERYRQIGNAVAVPVGR 691

Query: 63  ALGYALGMAFQKLGNDEPLMTLPPKFSLSTNLQLAKSLFQGND 105
           ALGYALGMAF KL  D PLMTLPPKFS STNLQLAKSLFQ  D
Sbjct: 692 ALGYALGMAFLKLSGDGPLMTLPPKFSHSTNLQLAKSLFQKTD 734

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356560887|ref|XP_003548718.1| PREDICTED: DNA (cytosine-5)-methyltransferase CMT2-like [Glycine max]

 Score =  157 bits (398), Expect = 5e-37,   Method: Composition-based stats.
 Identities = 74/104 (71%), Positives = 87/104 (83%), Gaps = 1/104 (0%)

Query: 1    MTTVVTFPSLHSMAVLHPEQDRVLTIRECARLQGFPDYYRFFGTVKERYCQVGNAVPIVV 60
            + T +TFPS H+  VLHPEQDRVLTIRE ARLQGFPDYYRF+GTVKERYCQ+GNAV + V
Sbjct: 995  LPTALTFPSCHNQVVLHPEQDRVLTIREFARLQGFPDYYRFYGTVKERYCQIGNAVAVPV 1054

Query: 61   ARALGYALGMAFQKLGNDEPLMTLPPKFSLSTNLQLAKSLFQGN 104
            +RALGYALG+A +KL  +EPL+TLP KFS S  LQL+K +F GN
Sbjct: 1055 SRALGYALGLACRKLNGNEPLVTLPSKFSHSNYLQLSKCVF-GN 1097

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449456909|ref|XP_004146191.1| PREDICTED: DNA (cytosine-5)-methyltransferase CMT2-like [Cucumis sativus] gi|449512953|ref|XP_004164187.1| PREDICTED: DNA (cytosine-5)-methyltransferase CMT2-like [Cucumis sativus]

 Score =  155 bits (392), Expect = 3e-36,   Method: Composition-based stats.
 Identities = 71/96 (73%), Positives = 81/96 (84%)

Query: 3    TVVTFPSLHSMAVLHPEQDRVLTIRECARLQGFPDYYRFFGTVKERYCQVGNAVPIVVAR 62
            TVVTFPS HS   LHPEQDRVLTIRE ARLQGFPDYY+F G+VKERY QVGNAV + V+R
Sbjct: 1140 TVVTFPSCHSSVALHPEQDRVLTIREYARLQGFPDYYKFSGSVKERYRQVGNAVAVSVSR 1199

Query: 63   ALGYALGMAFQKLGNDEPLMTLPPKFSLSTNLQLAK 98
            ALGY+LG+A +++G DEPLM LPPKFSLS  +QL K
Sbjct: 1200 ALGYSLGLAVRRMGGDEPLMVLPPKFSLSNYIQLQK 1235

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224071435|ref|XP_002303458.1| DNA methyltransferase [Populus trichocarpa] gi|222840890|gb|EEE78437.1| DNA methyltransferase [Populus trichocarpa]

 Score =  154 bits (388), Expect = 8e-36,   Method: Compositional matrix adjust.
 Identities = 70/88 (79%), Positives = 78/88 (88%)

Query: 1   MTTVVTFPSLHSMAVLHPEQDRVLTIRECARLQGFPDYYRFFGTVKERYCQVGNAVPIVV 60
           ++TVVTFP LHS AV+HPEQDRVLTIRECARLQGFPDYYRF GTVK+RY Q+GNAV + V
Sbjct: 642 VSTVVTFPDLHSQAVMHPEQDRVLTIRECARLQGFPDYYRFCGTVKQRYRQIGNAVAVPV 701

Query: 61  ARALGYALGMAFQKLGNDEPLMTLPPKF 88
            RALG+ LGMAFQKL  D+PLMTLPPKF
Sbjct: 702 GRALGFTLGMAFQKLSGDDPLMTLPPKF 729

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359490000|ref|XP_002274960.2| PREDICTED: DNA (cytosine-5)-methyltransferase CMT2-like [Vitis vinifera]

 Score =  149 bits (377), Expect = 2e-34,   Method: Composition-based stats.
 Identities = 68/97 (70%), Positives = 78/97 (80%)

Query: 3    TVVTFPSLHSMAVLHPEQDRVLTIRECARLQGFPDYYRFFGTVKERYCQVGNAVPIVVAR 62
            TV+T P  H  A LHPEQDRVLT+RE ARLQGFPDYY+F G VKERYCQ+GNAV + VAR
Sbjct: 1197 TVLTKPDPHCQAYLHPEQDRVLTVRESARLQGFPDYYKFCGQVKERYCQIGNAVAVPVAR 1256

Query: 63   ALGYALGMAFQKLGNDEPLMTLPPKFSLSTNLQLAKS 99
            ALGYA+G+A QKL   EPL+TLPPKFS ST  QL ++
Sbjct: 1257 ALGYAMGLAVQKLSRAEPLLTLPPKFSHSTTAQLLQA 1293

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359474666|ref|XP_002267685.2| PREDICTED: uncharacterized protein LOC100255190 [Vitis vinifera]

 Score =  146 bits (369), Expect = 1e-33,   Method: Composition-based stats.
 Identities = 68/89 (76%), Positives = 73/89 (82%)

Query: 3    TVVTFPSLHSMAVLHPEQDRVLTIRECARLQGFPDYYRFFGTVKERYCQVGNAVPIVVAR 62
            TV+TFP L + A+LHPEQDRVLTIRECARLQGFPDYYRF GTVKERYCQ+GNAV   VAR
Sbjct: 1699 TVLTFPYLRNQAILHPEQDRVLTIRECARLQGFPDYYRFRGTVKERYCQIGNAVAFPVAR 1758

Query: 63   ALGYALGMAFQKLGNDEPLMTLPPKFSLS 91
            ALGY LGMAFQ    +E L TLP KFS S
Sbjct: 1759 ALGYMLGMAFQNQSGNEALATLPLKFSHS 1787

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147801050|emb|CAN77846.1| hypothetical protein VITISV_020830 [Vitis vinifera]

 Score =  145 bits (366), Expect = 3e-33,   Method: Compositional matrix adjust.
 Identities = 68/94 (72%), Positives = 76/94 (80%)

Query: 3   TVVTFPSLHSMAVLHPEQDRVLTIRECARLQGFPDYYRFFGTVKERYCQVGNAVPIVVAR 62
           TV+T P  H  A LHPEQDRVLT+RE ARLQGFPDYY+F G VKERYCQ+GNAV + VAR
Sbjct: 171 TVLTKPDPHCQAYLHPEQDRVLTVRESARLQGFPDYYKFCGQVKERYCQIGNAVAVPVAR 230

Query: 63  ALGYALGMAFQKLGNDEPLMTLPPKFSLSTNLQL 96
           ALGYA+G+A QKL   EPL+TLPPKFS ST  QL
Sbjct: 231 ALGYAMGLAVQKLSRAEPLLTLPPKFSHSTTAQL 264

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297737359|emb|CBI26560.3| unnamed protein product [Vitis vinifera]

 Score =  144 bits (364), Expect = 5e-33,   Method: Compositional matrix adjust.
 Identities = 68/94 (72%), Positives = 76/94 (80%)

Query: 3   TVVTFPSLHSMAVLHPEQDRVLTIRECARLQGFPDYYRFFGTVKERYCQVGNAVPIVVAR 62
           TV+T P  H  A LHPEQDRVLT+RE ARLQGFPDYY+F G VKERYCQ+GNAV + VAR
Sbjct: 746 TVLTKPDPHCQAYLHPEQDRVLTVRESARLQGFPDYYKFCGQVKERYCQIGNAVAVPVAR 805

Query: 63  ALGYALGMAFQKLGNDEPLMTLPPKFSLSTNLQL 96
           ALGYA+G+A QKL   EPL+TLPPKFS ST  QL
Sbjct: 806 ALGYAMGLAVQKLSRAEPLLTLPPKFSHSTTAQL 839

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|42566945|ref|NP_193637.2| chromomethylase 2 [Arabidopsis thaliana] gi|322510132|sp|Q94F87.3|CMT2_ARATH RecName: Full=DNA (cytosine-5)-methyltransferase CMT2; AltName: Full=Chromomethylase 2; AltName: Full=Protein CHROMOMETHYLASE 2 gi|332658726|gb|AEE84126.1| chromomethylase 2 [Arabidopsis thaliana]

 Score =  144 bits (363), Expect = 7e-33,   Method: Composition-based stats.
 Identities = 65/98 (66%), Positives = 80/98 (81%)

Query: 3    TVVTFPSLHSMAVLHPEQDRVLTIRECARLQGFPDYYRFFGTVKERYCQVGNAVPIVVAR 62
            TV+T P+ HS A+LHPEQDRVLTIRE ARLQGFPDY++F GT+KERYCQ+GNAV + V+R
Sbjct: 1196 TVLTVPTCHSQALLHPEQDRVLTIRESARLQGFPDYFQFCGTIKERYCQIGNAVAVSVSR 1255

Query: 63   ALGYALGMAFQKLGNDEPLMTLPPKFSLSTNLQLAKSL 100
            ALGY+LGMAF+ L  DE L+ LP  FS ST  QL +++
Sbjct: 1256 ALGYSLGMAFRGLARDEHLIKLPQNFSHSTYPQLQETI 1293

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|14583094|gb|AAK69757.1|AF383171_1 chromomethylase CMT2 [Arabidopsis thaliana]

 Score =  144 bits (362), Expect = 9e-33,   Method: Composition-based stats.
 Identities = 65/98 (66%), Positives = 80/98 (81%)

Query: 3    TVVTFPSLHSMAVLHPEQDRVLTIRECARLQGFPDYYRFFGTVKERYCQVGNAVPIVVAR 62
            TV+T P+ HS A+LHPEQDRVLTIRE ARLQGFPDY++F GT+KERYCQ+GNAV + V+R
Sbjct: 1145 TVLTVPTCHSQALLHPEQDRVLTIRESARLQGFPDYFQFCGTIKERYCQIGNAVAVSVSR 1204

Query: 63   ALGYALGMAFQKLGNDEPLMTLPPKFSLSTNLQLAKSL 100
            ALGY+LGMAF+ L  DE L+ LP  FS ST  QL +++
Sbjct: 1205 ALGYSLGMAFRGLARDEHLIKLPQNFSHSTYPQLQETI 1242

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

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	105
TAIR|locus:2117104	1295	CMT2 "chromomethylase 2" [Arab	0.933	0.075	0.663	1.3e-29
TAIR|locus:2205015	839	CMT3 "chromomethylase 3" [Arab	0.828	0.103	0.602	1.1e-21
TAIR|locus:2025787	791	CMT1 "chromomethylase 1" [Arab	0.838	0.111	0.579	4.5e-21
TIGR_CMR|SPO_1049	373	SPO_1049 "DNA methylase, C-5 c	0.647	0.182	0.492	1.1e-13
MGI|MGI:94912	1620	Dnmt1 "DNA methyltransferase (	0.609	0.039	0.575	3.6e-13
ZFIN|ZDB-GENE-990714-15	1500	dnmt1 "DNA (cytosine-5-)-methy	0.609	0.042	0.560	1.1e-12
UNIPROTKB|D4A0P3	1410	Dnmt1 "DNA (cytosine-5)-methyl	0.609	0.045	0.560	1.3e-12
UNIPROTKB|D4A8Z6	1616	Dnmt1 "Cytosine-specific methy	0.609	0.039	0.560	1.6e-12
RGD|620979	1622	Dnmt1 "DNA (cytosine-5-)-methy	0.609	0.039	0.560	1.6e-12
UNIPROTKB|Q9Z330	1622	Dnmt1 "DNA (cytosine-5)-methyl	0.609	0.039	0.560	1.6e-12

TAIR|locus:2117104 CMT2 "chromomethylase 2" [Arabidopsis thaliana (taxid:3702)]

 Score = 341 (125.1 bits), Expect = 1.3e-29, P = 1.3e-29
 Identities = 65/98 (66%), Positives = 80/98 (81%)

Query:     3 TVVTFPSLHSMAVLHPEQDRVLTIRECARLQGFPDYYRFFGTVKERYCQVGNAVPIVVAR 62
             TV+T P+ HS A+LHPEQDRVLTIRE ARLQGFPDY++F GT+KERYCQ+GNAV + V+R
Sbjct:  1196 TVLTVPTCHSQALLHPEQDRVLTIRESARLQGFPDYFQFCGTIKERYCQIGNAVAVSVSR 1255

Query:    63 ALGYALGMAFQKLGNDEPLMTLPPKFSLSTNLQLAKSL 100
             ALGY+LGMAF+ L  DE L+ LP  FS ST  QL +++
Sbjct:  1256 ALGYSLGMAFRGLARDEHLIKLPQNFSHSTYPQLQETI 1293

GO:0003677 "DNA binding" evidence=IEA;ISS

GO:0005634 "nucleus" evidence=ISM;IEA

GO:0006306 "DNA methylation" evidence=IEA;ISS

TAIR|locus:2205015 CMT3 "chromomethylase 3" [Arabidopsis thaliana (taxid:3702)]

 Score = 264 (98.0 bits), Expect = 1.1e-21, P = 1.1e-21
 Identities = 53/88 (60%), Positives = 66/88 (75%)

Query:     3 TVVTFPSLHSMAVLHPEQDRVLTIRECARLQGFPDYYRFFGTVKERYCQVGNAVPIVVAR 62
             TVVT    H+  ++HPEQ+RVL+IRE ARLQGFPD Y+ FG  K++Y QVGNAV + VA+
Sbjct:   741 TVVTRAEPHNQVIIHPEQNRVLSIRENARLQGFPDDYKLFGPPKQKYIQVGNAVAVPVAK 800

Query:    63 ALGYALGMAFQKLG-NDEPLMTLPPKFS 89
             ALGYALG AFQ L    +PL+TLP  F+
Sbjct:   801 ALGYALGTAFQGLAVGKDPLLTLPEGFA 828

GO:0003677 "DNA binding" evidence=IEA

GO:0005634 "nucleus" evidence=ISM;IEA

GO:0006306 "DNA methylation" evidence=IEA;RCA;IMP

GO:0006342 "chromatin silencing" evidence=IGI;RCA

GO:0010425 "DNA methylation on cytosine within a CNG sequence" evidence=IMP

GO:0045814 "negative regulation of gene expression, epigenetic" evidence=IGI

GO:0003886 "DNA (cytosine-5-)-methyltransferase activity" evidence=IMP

GO:0010069 "zygote asymmetric cytokinesis in embryo sac" evidence=IMP

GO:0051567 "histone H3-K9 methylation" evidence=IGI;RCA

GO:0006260 "DNA replication" evidence=RCA

GO:0006261 "DNA-dependent DNA replication" evidence=RCA

GO:0006270 "DNA replication initiation" evidence=RCA

GO:0006275 "regulation of DNA replication" evidence=RCA

GO:0006346 "methylation-dependent chromatin silencing" evidence=RCA

GO:0008283 "cell proliferation" evidence=RCA

GO:0009909 "regulation of flower development" evidence=RCA

GO:0016458 "gene silencing" evidence=RCA

GO:0016572 "histone phosphorylation" evidence=RCA

GO:0031047 "gene silencing by RNA" evidence=RCA

GO:0031048 "chromatin silencing by small RNA" evidence=RCA

GO:0034968 "histone lysine methylation" evidence=RCA

GO:0051726 "regulation of cell cycle" evidence=RCA

TAIR|locus:2025787 CMT1 "chromomethylase 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 258 (95.9 bits), Expect = 4.5e-21, P = 4.5e-21
 Identities = 51/88 (57%), Positives = 65/88 (73%)

Query:     1 MTTVVTFPSLHSMAVLHPEQDRVLTIRECARLQGFPDYYRFFGTVKERYCQVGNAVPIVV 60
             + TVVT    H+  V+HP Q+RVL++RE ARLQGFPD Y+  GT+KE+Y QVGNAV + V
Sbjct:   694 VNTVVTRAEPHNQCVIHPMQNRVLSVRENARLQGFPDCYKLCGTIKEKYIQVGNAVAVPV 753

Query:    61 ARALGYALGMAFQKLGNDEPLMTLPPKF 88
               ALGYA GMA Q L +DEP++ LP K+
Sbjct:   754 GVALGYAFGMASQGLTDDEPVIKLPFKY 781

GO:0003677 "DNA binding" evidence=IEA;ISS

GO:0005634 "nucleus" evidence=ISM;IEA

GO:0006306 "DNA methylation" evidence=IEA;ISS

GO:0009294 "DNA mediated transformation" evidence=IMP

TIGR_CMR|SPO_1049 SPO_1049 "DNA methylase, C-5 cytosine-specific family" [Ruegeria pomeroyi DSS-3 (taxid:246200)]

 Score = 183 (69.5 bits), Expect = 1.1e-13, P = 1.1e-13
 Identities = 34/69 (49%), Positives = 51/69 (73%)

Query:     3 TVVTFPSLHSMAVLHPEQDRVLTIRECARLQGFPDYYRFFGTVKERYCQVGNAVPIVVAR 62
             TV+T   +H  A +HPEQDR +++RE ARLQ FPD++ F G+  ++Y QVGNAVP V+ +
Sbjct:   296 TVLTKCDIHWGAYIHPEQDRAISVREAARLQAFPDWFEFHGSRTDQYVQVGNAVPPVLGK 355

Query:    63 ALG-YALGM 70
             A+G + +G+
Sbjct:   356 AIGDHLMGL 364

GO:0003886 "DNA (cytosine-5-)-methyltransferase activity" evidence=ISS

GO:0006304 "DNA modification" evidence=ISS

MGI|MGI:94912 Dnmt1 "DNA methyltransferase (cytosine-5) 1" [Mus musculus (taxid:10090)]

 Score = 188 (71.2 bits), Expect = 3.6e-13, P = 3.6e-13
 Identities = 38/66 (57%), Positives = 48/66 (72%)

Query:     2 TTVVTFPSLHSMA--VLHPEQDRVLTIRECARLQGFPDYYRFFGTVKERYCQVGNAVPIV 59
             +T VT P        VLHPEQ RV+++RECAR QGFPD YRFFG + +R+ QVGNAVP  
Sbjct:  1526 STTVTNPEPMGKQGRVLHPEQHRVVSVRECARSQGFPDSYRFFGNILDRHRQVGNAVPPP 1585

Query:    60 VARALG 65
             +A+A+G
Sbjct:  1586 LAKAIG 1591

GO:0000792 "heterochromatin" evidence=IDA

GO:0003677 "DNA binding" evidence=ISO;IDA

GO:0003690 "double-stranded DNA binding" evidence=ISO

GO:0003723 "RNA binding" evidence=IDA

GO:0003824 "catalytic activity" evidence=IEA

GO:0003886 "DNA (cytosine-5-)-methyltransferase activity" evidence=ISO;IDA

GO:0005515 "protein binding" evidence=IPI

GO:0005634 "nucleus" evidence=ISO;IDA

GO:0005657 "replication fork" evidence=IDA

GO:0005721 "centromeric heterochromatin" evidence=IDA

GO:0005737 "cytoplasm" evidence=IEA

GO:0006306 "DNA methylation" evidence=IDA

GO:0006351 "transcription, DNA-dependent" evidence=IEA

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA

GO:0008134 "transcription factor binding" evidence=IEA

GO:0008152 "metabolic process" evidence=IEA

GO:0008168 "methyltransferase activity" evidence=IDA

GO:0008270 "zinc ion binding" evidence=IDA

GO:0008327 "methyl-CpG binding" evidence=ISO;IDA

GO:0009008 "DNA-methyltransferase activity" evidence=ISO

GO:0010216 "maintenance of DNA methylation" evidence=ISO;IMP

GO:0010424 "DNA methylation on cytosine within a CG sequence" evidence=ISO

GO:0010468 "regulation of gene expression" evidence=IMP

GO:0010628 "positive regulation of gene expression" evidence=ISO

GO:0016458 "gene silencing" evidence=IDA

GO:0016568 "chromatin modification" evidence=IEA

GO:0016740 "transferase activity" evidence=IEA

GO:0019904 "protein domain specific binding" evidence=ISO

GO:0032259 "methylation" evidence=IEA

GO:0042127 "regulation of cell proliferation" evidence=IGI

GO:0042826 "histone deacetylase binding" evidence=ISO

GO:0043234 "protein complex" evidence=ISO

GO:0045322 "unmethylated CpG binding" evidence=ISO

GO:0045892 "negative regulation of transcription, DNA-dependent" evidence=IMP;IDA

GO:0046498 "S-adenosylhomocysteine metabolic process" evidence=ISO

GO:0046499 "S-adenosylmethioninamine metabolic process" evidence=ISO

GO:0046500 "S-adenosylmethionine metabolic process" evidence=ISO

GO:0046872 "metal ion binding" evidence=IEA

GO:0051571 "positive regulation of histone H3-K4 methylation" evidence=ISO

GO:0051573 "negative regulation of histone H3-K9 methylation" evidence=ISO

GO:0051718 "DNA (cytosine-5-)-methyltransferase activity, acting on CpG substrates" evidence=ISO

GO:0071230 "cellular response to amino acid stimulus" evidence=IDA

GO:0090116 "C-5 methylation of cytosine" evidence=IDA

ZFIN|ZDB-GENE-990714-15 dnmt1 "DNA (cytosine-5-)-methyltransferase 1" [Danio rerio (taxid:7955)]

 Score = 183 (69.5 bits), Expect = 1.1e-12, P = 1.1e-12
 Identities = 37/66 (56%), Positives = 48/66 (72%)

Query:     2 TTVVTFPSLHSMA--VLHPEQDRVLTIRECARLQGFPDYYRFFGTVKERYCQVGNAVPIV 59
             +T VT P        VLHPEQ RV+++RECAR QGFPD YRFFG V +++ QVGNAVP  
Sbjct:  1407 STTVTNPEPMGKQGRVLHPEQHRVVSVRECARSQGFPDTYRFFGNVLDKHRQVGNAVPPP 1466

Query:    60 VARALG 65
             +++A+G
Sbjct:  1467 LSKAIG 1472

GO:0003677 "DNA binding" evidence=IEA

GO:0090116 "C-5 methylation of cytosine" evidence=IEA

GO:0006306 "DNA methylation" evidence=IEA;IMP

GO:0008168 "methyltransferase activity" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0003886 "DNA (cytosine-5-)-methyltransferase activity" evidence=IEA

GO:0008134 "transcription factor binding" evidence=IEA

GO:0032776 "DNA methylation on cytosine" evidence=IMP

GO:0035622 "intrahepatic bile duct development" evidence=IMP

GO:0044030 "regulation of DNA methylation" evidence=IMP

GO:0031017 "exocrine pancreas development" evidence=IMP

GO:0048565 "digestive tract development" evidence=IMP

GO:0010842 "retina layer formation" evidence=IMP

GO:0051216 "cartilage development" evidence=IMP

GO:0002088 "lens development in camera-type eye" evidence=IMP

GO:0060042 "retina morphogenesis in camera-type eye" evidence=IMP

GO:0051567 "histone H3-K9 methylation" evidence=IMP

GO:0016740 "transferase activity" evidence=IEA

GO:0032259 "methylation" evidence=IEA

UNIPROTKB|D4A0P3 Dnmt1 "DNA (cytosine-5)-methyltransferase 1" [Rattus norvegicus (taxid:10116)]

 Score = 182 (69.1 bits), Expect = 1.3e-12, P = 1.3e-12
 Identities = 37/66 (56%), Positives = 47/66 (71%)

Query:     2 TTVVTFPSLHSMA--VLHPEQDRVLTIRECARLQGFPDYYRFFGTVKERYCQVGNAVPIV 59
             +T VT P        VLHPEQ RV+++RECAR QGFPD YR FG + +R+ QVGNAVP  
Sbjct:  1316 STTVTNPEPMGKQGRVLHPEQHRVVSVRECARSQGFPDTYRLFGNILDRHRQVGNAVPPP 1375

Query:    60 VARALG 65
             +A+A+G
Sbjct:  1376 LAKAIG 1381

GO:0003677 "DNA binding" evidence=IEA

GO:0003886 "DNA (cytosine-5-)-methyltransferase activity" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0008134 "transcription factor binding" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|D4A8Z6 Dnmt1 "Cytosine-specific methyltransferase" [Rattus norvegicus (taxid:10116)]

 Score = 182 (69.1 bits), Expect = 1.6e-12, P = 1.6e-12
 Identities = 37/66 (56%), Positives = 47/66 (71%)

Query:     2 TTVVTFPSLHSMA--VLHPEQDRVLTIRECARLQGFPDYYRFFGTVKERYCQVGNAVPIV 59
             +T VT P        VLHPEQ RV+++RECAR QGFPD YR FG + +R+ QVGNAVP  
Sbjct:  1522 STTVTNPEPMGKQGRVLHPEQHRVVSVRECARSQGFPDTYRLFGNILDRHRQVGNAVPPP 1581

Query:    60 VARALG 65
             +A+A+G
Sbjct:  1582 LAKAIG 1587

GO:0003677 "DNA binding" evidence=IEA

GO:0003886 "DNA (cytosine-5-)-methyltransferase activity" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0008134 "transcription factor binding" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

RGD|620979 Dnmt1 "DNA (cytosine-5-)-methyltransferase 1" [Rattus norvegicus (taxid:10116)]

 Score = 182 (69.1 bits), Expect = 1.6e-12, P = 1.6e-12
 Identities = 37/66 (56%), Positives = 47/66 (71%)

Query:     2 TTVVTFPSLHSMA--VLHPEQDRVLTIRECARLQGFPDYYRFFGTVKERYCQVGNAVPIV 59
             +T VT P        VLHPEQ RV+++RECAR QGFPD YR FG + +R+ QVGNAVP  
Sbjct:  1528 STTVTNPEPMGKQGRVLHPEQHRVVSVRECARSQGFPDTYRLFGNILDRHRQVGNAVPPP 1587

Query:    60 VARALG 65
             +A+A+G
Sbjct:  1588 LAKAIG 1593

GO:0000792 "heterochromatin" evidence=ISO

GO:0003677 "DNA binding" evidence=IEA;ISO

GO:0003690 "double-stranded DNA binding" evidence=IDA

GO:0003723 "RNA binding" evidence=ISO

GO:0003886 "DNA (cytosine-5-)-methyltransferase activity" evidence=IEA;IGI;ISO;IDA

GO:0005634 "nucleus" evidence=IEA;ISO;IDA

GO:0005657 "replication fork" evidence=ISO

GO:0005721 "centromeric heterochromatin" evidence=ISO

GO:0006306 "DNA methylation" evidence=ISO;TAS

GO:0006351 "transcription, DNA-dependent" evidence=IEA

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA

GO:0008134 "transcription factor binding" evidence=IEA

GO:0008168 "methyltransferase activity" evidence=ISO

GO:0008270 "zinc ion binding" evidence=IEA;ISO

GO:0008327 "methyl-CpG binding" evidence=ISO;IDA

GO:0008757 "S-adenosylmethionine-dependent methyltransferase activity" evidence=TAS

GO:0009008 "DNA-methyltransferase activity" evidence=ISO

GO:0010216 "maintenance of DNA methylation" evidence=ISO;IDA

GO:0010424 "DNA methylation on cytosine within a CG sequence" evidence=IDA

GO:0010468 "regulation of gene expression" evidence=ISO

GO:0010628 "positive regulation of gene expression" evidence=ISO

GO:0016458 "gene silencing" evidence=ISO

GO:0016568 "chromatin modification" evidence=IEA

GO:0019904 "protein domain specific binding" evidence=IPI

GO:0042127 "regulation of cell proliferation" evidence=ISO

GO:0042826 "histone deacetylase binding" evidence=IPI

GO:0043234 "protein complex" evidence=IDA

GO:0045322 "unmethylated CpG binding" evidence=IDA

GO:0045892 "negative regulation of transcription, DNA-dependent" evidence=ISO

GO:0046498 "S-adenosylhomocysteine metabolic process" evidence=IDA

GO:0046499 "S-adenosylmethioninamine metabolic process" evidence=IDA

GO:0046500 "S-adenosylmethionine metabolic process" evidence=IDA

GO:0051571 "positive regulation of histone H3-K4 methylation" evidence=ISO

GO:0051573 "negative regulation of histone H3-K9 methylation" evidence=ISO

GO:0051718 "DNA (cytosine-5-)-methyltransferase activity, acting on CpG substrates" evidence=IDA

GO:0071230 "cellular response to amino acid stimulus" evidence=ISO

GO:0090116 "C-5 methylation of cytosine" evidence=ISO

UNIPROTKB|Q9Z330 Dnmt1 "DNA (cytosine-5)-methyltransferase 1" [Rattus norvegicus (taxid:10116)]

 Score = 182 (69.1 bits), Expect = 1.6e-12, P = 1.6e-12
 Identities = 37/66 (56%), Positives = 47/66 (71%)

Query:     2 TTVVTFPSLHSMA--VLHPEQDRVLTIRECARLQGFPDYYRFFGTVKERYCQVGNAVPIV 59
             +T VT P        VLHPEQ RV+++RECAR QGFPD YR FG + +R+ QVGNAVP  
Sbjct:  1528 STTVTNPEPMGKQGRVLHPEQHRVVSVRECARSQGFPDTYRLFGNILDRHRQVGNAVPPP 1587

Query:    60 VARALG 65
             +A+A+G
Sbjct:  1588 LAKAIG 1593

GO:0008134 "transcription factor binding" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

---

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

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input:
	DMT904	DNA methyltransferase (729 aa)
		(Populus trichocarpa)
Predicted Functional Partners:
	gw1.XVIII.3078.1	S-adenosylmethionine decarboxylase (EC-4.1.1.50) (348 aa)						•			0.899
	gw1.VIII.2435.1	S-adenosylmethionine decarboxylase (EC-4.1.1.50) (303 aa)						•			0.899
	gw1.IV.4194.1	SubName- Full=Putative uncharacterized protein; (357 aa)						•			0.899
	gw1.123.86.1	SubName- Full=Putative uncharacterized protein; (357 aa)						•			0.899
	AdoMet5	s-adenosylmethionine synthetase 5 (EC-2.5.1.6); Catalyzes the formation of S-adenosylmethionine [...] (392 aa)						•			0.899
	ACS3	1-aminocyclopropane-1-carboxylate (EC-4.4.1.14) (467 aa)						•			0.899
	ACS6	1-aminocyclopropane-1-carboxylate (EC-4.4.1.14) (440 aa)						•			0.899
	ACS7	1-aminocyclopropane-1-carboxylate (480 aa)						•			0.899
	ACS8	1-aminocyclopropane-1-carboxylate (EC-4.4.1.14) (449 aa)						•			0.899
	ACS5	1-aminocyclopropane-1-carboxylate (EC-4.4.1.14) (446 aa)						•			0.899

---

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	105
pfam00145	320	pfam00145, DNA_methylase, C-5 cytosine-specific DN	1e-16
COG0270	328	COG0270, Dcm, Site-specific DNA methylase [DNA rep	2e-16
TIGR00675	315	TIGR00675, dcm, DNA-methyltransferase (dcm)	6e-16
cd00315	275	cd00315, Cyt_C5_DNA_methylase, Cytosine-C5 specifi	2e-15
PRK10458	467	PRK10458, PRK10458, DNA cytosine methylase; Provis	0.001

>gnl|CDD|215747 pfam00145, DNA_methylase, C-5 cytosine-specific DNA methylase

 Score = 72.7 bits (179), Expect = 1e-16
 Identities = 28/53 (52%), Positives = 36/53 (67%)

Query: 17  HPEQDRVLTIRECARLQGFPDYYRFFGTVKERYCQVGNAVPIVVARALGYALG 69
            P+  R LT RECARLQGFPD + F G+  + Y Q+GNAVP+ VA A+  A+ 
Sbjct: 267 RPKNIRRLTPRECARLQGFPDDFIFPGSKTQLYKQIGNAVPVPVAEAIAKAIK 319

Length = 320

>gnl|CDD|223348 COG0270, Dcm, Site-specific DNA methylase [DNA replication, recombination, and repair]

 Score = 72.1 bits (177), Expect = 2e-16
 Identities = 27/52 (51%), Positives = 39/52 (75%)

Query: 17  HPEQDRVLTIRECARLQGFPDYYRFFGTVKERYCQVGNAVPIVVARALGYAL 68
           HP +DR LT+RE ARLQGFPD + F G+  ++Y Q+GN+VP ++A A+  A+
Sbjct: 269 HPLEDRELTVREAARLQGFPDDFVFPGSKTDQYRQIGNSVPPLLAEAIAKAI 320

Length = 328

>gnl|CDD|233085 TIGR00675, dcm, DNA-methyltransferase (dcm)

 Score = 70.8 bits (174), Expect = 6e-16
 Identities = 27/60 (45%), Positives = 36/60 (60%)

Query: 9   SLHSMAVLHPEQDRVLTIRECARLQGFPDYYRFFGTVKERYCQVGNAVPIVVARALGYAL 68
             H   V+HP + R LT RECARLQGFPD ++F  +  + Y Q GNAV + V  A+   +
Sbjct: 256 VPHKSTVVHPGRIRRLTPRECARLQGFPDDFKFPVSDSQLYKQAGNAVVVPVIEAIAKQI 315

All proteins in this family for which functions are known are DNA-cytosine methyltransferases. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University) [DNA metabolism, DNA replication, recombination, and repair]. Length = 315

>gnl|CDD|238192 cd00315, Cyt_C5_DNA_methylase, Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology

 Score = 68.8 bits (169), Expect = 2e-15
 Identities = 27/56 (48%), Positives = 36/56 (64%), Gaps = 1/56 (1%)

Query: 14  AVLHPEQDRVLTIRECARLQGFPDYYRFFG-TVKERYCQVGNAVPIVVARALGYAL 68
            +      R LT RECARLQGFPD + F G +V + Y Q+GN+VP+ VA A+  A+
Sbjct: 218 MIGKESNIRRLTPRECARLQGFPDDFEFPGKSVTQAYRQIGNSVPVPVAEAIAKAI 273

Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group to cytosine within the context of the CpG dinucleotide, has profound effects on the mammalian genome. These effects include transcriptional repression via inhibition of transcription factor binding or the recruitment of methyl-binding proteins and their associated chromatin remodeling factors, X chromosome inactivation, imprinting and the suppression of parasitic DNA sequences. DNA methylation is also essential for proper embryonic development and is an important player in both DNA repair and genome stability. Length = 275

>gnl|CDD|236696 PRK10458, PRK10458, DNA cytosine methylase; Provisional

 Score = 36.2 bits (84), Expect = 0.001
 Identities = 19/39 (48%), Positives = 22/39 (56%), Gaps = 4/39 (10%)

Query: 22  RVLTIRECARLQGF--PDYYRFFGTVK--ERYCQVGNAV 56
           R LT RECARL GF  P   +F   V   + Y Q GN+V
Sbjct: 402 RRLTPRECARLMGFEAPGEAKFRIPVSDTQAYRQFGNSV 440

Length = 467

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	105
PF00145	335	DNA_methylase: C-5 cytosine-specific DNA methylase	99.83
TIGR00675	315	dcm DNA-methyltransferase (dcm). All proteins in t	99.8
cd00315	275	Cyt_C5_DNA_methylase Cytosine-C5 specific DNA meth	99.8
COG0270	328	Dcm Site-specific DNA methylase [DNA replication,	99.74
PRK10458	467	DNA cytosine methylase; Provisional	99.57
KOG0919	338	consensus C-5 cytosine-specific DNA methylase [Tra	98.96

>PF00145 DNA_methylase: C-5 cytosine-specific DNA methylase; InterPro: IPR001525 C-5 cytosine-specific DNA methylases (2

Probab=99.83  E-value=5.3e-21  Score=144.70  Aligned_cols=56  Identities=54%  Similarity=0.837  Sum_probs=48.8

Q ss_pred             cccCCCcccccHHHHhhhcCCCCCceecCChHhHHhhhcccccHHHHHHHHHHHHH
Q 034052           15 VLHPEQDRVLTIRECARLQGFPDYYRFFGTVKERYCQVGNAVPIVVARALGYALGM   70 (105)
Q Consensus        15 ~ihp~~~R~lT~rE~arLQgFPd~f~~~~s~~~~~k~iGNaVp~~v~~~I~~~l~~   70 (105)
                      .+||.+.|.||+||+||||||||+|.|.|+.+++|+||||||||.|+++|+++|++
T Consensus       280 ~~hp~~~R~LT~rE~aRLqgFPd~~~f~g~~~~~~~qiGNAVpp~v~~~I~~~i~~  335 (335)
T PF00145_consen  280 FIHPEQNRRLTPREAARLQGFPDDFKFPGSKTQQYKQIGNAVPPPVAEAIAKAIKK  335 (335)
T ss_dssp             EBTTSSSCB-BHHHHHHHTTSSTTS-S-SSHHHHHHHHHCS--HHHHHHHHHHHH-
T ss_pred             ccCCCCCCcCcHHHHHHhCCCCCceEccCCHHHHhceECCCcCHHHHHHHHHHhhC
Confidence            68999999999999999999999999999999999999999999999999999974

1.1.37 from EC) (C5 Mtase) are enzymes that specifically methylate the C-5 carbon of cytosines in DNA to produce C5-methylcytosine [, , ]. In mammalian cells, cytosine-specific methyltransferases methylate certain CpG sequences, which are believed to modulate gene expression and cell differentiation. In bacteria, these enzymes are a component of restriction-modification systems and serve as valuable tools for the manipulation of DNA [, ]. The structure of HhaI methyltransferase (M.HhaI) has been resolved to 2.5 A []: the molecule folds into 2 domains - a larger catalytic domain containing catalytic and cofactor binding sites, and a smaller DNA recognition domain.; GO: 0003677 DNA binding, 0006306 DNA methylation; PDB: 4DA4_A 3PT6_B 3AV6_A 3AV5_A 3AV4_A 3PT9_A 1DCT_A 3LX6_A 3ME5_A 2QRV_A ....

>TIGR00675 dcm DNA-methyltransferase (dcm)

Probab=99.80  E-value=4.3e-20  Score=144.35  Aligned_cols=53  Identities=47%  Similarity=0.718  Sum_probs=51.2

Q ss_pred             ccCCCcccccHHHHhhhcCCCCCceecCChHhHHhhhcccccHHHHHHHHHHH
Q 034052           16 LHPEQDRVLTIRECARLQGFPDYYRFFGTVKERYCQVGNAVPIVVARALGYAL   68 (105)
Q Consensus        16 ihp~~~R~lT~rE~arLQgFPd~f~~~~s~~~~~k~iGNaVp~~v~~~I~~~l   68 (105)
                      +||.+.|.||+||+||||||||+|.|.++.+++|+||||||||+++++|++.|
T Consensus       263 ~hp~~~R~lT~RE~aRLQ~FPd~f~f~~s~~~~~~qiGNAVPp~la~~I~~~i  315 (315)
T TIGR00675       263 VHPGRIRRLTPRECARLQGFPDDFKFPVSDSQLYKQAGNAVVVPVIEAIAKQI  315 (315)
T ss_pred             ccCCceeeCCHHHHHHHcCCCcccEeCCCHHHHHhhhCCcccHHHHHHHHhhC
Confidence            79999999999999999999999999999999999999999999999999764

All proteins in this family for which functions are known are DNA-cytosine methyltransferases. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>cd00315 Cyt_C5_DNA_methylase Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology

Probab=99.80  E-value=7.6e-20  Score=140.56  Aligned_cols=69  Identities=41%  Similarity=0.597  Sum_probs=58.3

Q ss_pred             CceeeccCCCCCCc--------cccCCCcccccHHHHhhhcCCCCCceecC-ChHhHHhhhcccccHHHHHHHHHHHH
Q 034052            1 MTTVVTFPSLHSMA--------VLHPEQDRVLTIRECARLQGFPDYYRFFG-TVKERYCQVGNAVPIVVARALGYALG   69 (105)
Q Consensus         1 ~pTItT~~~~~~~~--------~ihp~~~R~lT~rE~arLQgFPd~f~~~~-s~~~~~k~iGNaVp~~v~~~I~~~l~   69 (105)
                      ++|||+....+.+.        ..|+.+.|.||+||+||||||||+|.|.| +.+++|+||||||||+++++|++.|.
T Consensus       197 ~~ti~~~~~~~~~~~~~~~~~~~~~~~~~R~lT~rE~arlqgFPd~f~f~g~~~~~~~~qiGNAVp~~~~~~I~~~i~  274 (275)
T cd00315         197 SPTLTASYGKGTGSVHPTAPDMIGKESNIRRLTPRECARLQGFPDDFEFPGKSVTQAYRQIGNSVPVPVAEAIAKAIK  274 (275)
T ss_pred             ccceecCCCCCccccccCcccccccCCCCCCCCHHHHHHHcCCCCCcEEcCCCHHHHHHhhcCCcCHHHHHHHHHHHh
Confidence            46888765421112        14567899999999999999999999999 99999999999999999999999875

Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group to cytosine within the context of the CpG dinucleotide, has profound effects on the mammalian genome. These effects include transcriptional repression via inhibition of transcription factor binding or the recruitment of methyl-binding proteins and their associated chromatin remodeling factors, X chromosome inactivation, imprinting and the suppression of parasitic DNA sequences. DNA methylation is also essential for proper embryonic development and is an important player in both DNA repair and genome stability.

>COG0270 Dcm Site-specific DNA methylase [DNA replication, recombination, and repair]

Probab=99.74  E-value=3.8e-18  Score=133.93  Aligned_cols=71  Identities=41%  Similarity=0.623  Sum_probs=64.3

Q ss_pred             ceeeccCCCCCCccccCCCcccccHHHHhhhcCCCCCceecCChHhHHhhhcccccHHHHHHHHHHHHHHHHhc
Q 034052            2 TTVVTFPSLHSMAVLHPEQDRVLTIRECARLQGFPDYYRFFGTVKERYCQVGNAVPIVVARALGYALGMAFQKL   75 (105)
Q Consensus         2 pTItT~~~~~~~~~ihp~~~R~lT~rE~arLQgFPd~f~~~~s~~~~~k~iGNaVp~~v~~~I~~~l~~~l~~~   75 (105)
                      ||+++   ......+||...|.||++|++|||||||+|.|.|+.+++|+||||||||+++++|++.|.+.|.+.
T Consensus       257 ~t~~~---~~~~~~~h~~~~r~lt~rE~arlq~fPd~~~~~gs~~~~~~qiGnsVp~~l~~~ia~~i~~~l~~~  327 (328)
T COG0270         257 PTVRG---GGNERFIHPLEDRELTVREAARLQGFPDDFVFPGSKTDQYRQIGNSVPPLLAEAIAKAILKKLNEK  327 (328)
T ss_pred             ceeec---CCCcccCCCCcCCCCCHHHHHHhcCCCCceEEeccchhhhhhccCcCCHHHHHHHHHHHHHHhhcC
Confidence            55552   245779999999999999999999999999999999999999999999999999999999998763

>PRK10458 DNA cytosine methylase; Provisional

Probab=99.57  E-value=2.7e-15  Score=123.62  Aligned_cols=56  Identities=38%  Similarity=0.501  Sum_probs=49.4

Q ss_pred             CcccccHHHHhhhcCC--CCCcee--cCChHhHHhhhcccccHHHHHHHHHHHHHHHHhc
Q 034052           20 QDRVLTIRECARLQGF--PDYYRF--FGTVKERYCQVGNAVPIVVARALGYALGMAFQKL   75 (105)
Q Consensus        20 ~~R~lT~rE~arLQgF--Pd~f~~--~~s~~~~~k~iGNaVp~~v~~~I~~~l~~~l~~~   75 (105)
                      ..|+||||||||||||  |++|.|  +.+.+++|+|+||||+|+|+++|++.|...+...
T Consensus       400 ~~RrLTprE~aRLqGF~~pd~~~F~~~vSdtq~Ykq~GNSV~Vpvv~aIa~~L~~~~~~~  459 (467)
T PRK10458        400 RPRRLTPRECARLMGFEAPGEAKFRIPVSDTQAYRQFGNSVVVPVFAAVAKLLEPKIKQA  459 (467)
T ss_pred             CcccCCHHHHHHhCCCCCCccccccCCCCHHHHHHHhCCcccHHHHHHHHHHHHHHHHHH
Confidence            5799999999999999  555555  4589999999999999999999999999988653

>KOG0919 consensus C-5 cytosine-specific DNA methylase [Transcription]

Probab=98.96  E-value=2e-10  Score=89.40  Aligned_cols=53  Identities=40%  Similarity=0.563  Sum_probs=46.8

Q ss_pred             ccCCCcccccHHHHhhhcCCCCCceecC--ChHhHHhhhcccccHHHHHHHHHHH
Q 034052           16 LHPEQDRVLTIRECARLQGFPDYYRFFG--TVKERYCQVGNAVPIVVARALGYAL   68 (105)
Q Consensus        16 ihp~~~R~lT~rE~arLQgFPd~f~~~~--s~~~~~k~iGNaVp~~v~~~I~~~l   68 (105)
                      .|--+.|+||+||.|||||||++|.|+.  +..+.|+.+|||+.+.|+..+.+-+
T Consensus       282 l~~l~LRYFTprEvArLmgFPe~fefp~~~T~kq~YRLLGNSiNVkVV~~LIklL  336 (338)
T KOG0919|consen  282 LHQLRLRYFTPREVARLMGFPENFEFPPETTNKQKYRLLGNSINVKVVGELIKLL  336 (338)
T ss_pred             HHHHHhhccCHHHHHHHcCCCcccCCCcchhHHHHHHHhcCcccceeHHHHHHHh
Confidence            4556789999999999999999999997  6789999999999999988776554

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	105
4fsx_A	784	Crystal Structure Of Se-Substituted Zea Mays Zmet2		1e-26
4ft2_A	784	Crystal Structure Of Zea Mays Zmet2 In Complex H3(1		3e-25
3av4_A	1330	Crystal Structure Of Mouse Dna Methyltransferase 1		3e-16
3pt6_A	954	Crystal Structure Of Mouse Dnmt1(650-1602) In Compl		5e-16
3pt9_A	873	Crystal Structure Of Mouse Dnmt1(731-1602) In The F		5e-16
3swr_A	1002	Structure Of Human Dnmt1 (601-1600) In Complex With		6e-15
3pta_A	956	Crystal Structure Of Human Dnmt1(646-1600) In Compl		7e-15
3g7u_A	376	Crystal Structure Of Putative Dna Modification Meth		5e-09
3ubt_Y	331	Crystal Structure Of C71s Mutant Of Dna Cytosine-5		7e-07
1dct_A	324	Dna (Cytosine-5) Methylase From Haeiii Covalently B		1e-06
2i9k_A	327	Engineered Extrahelical Base Destabilization Enhanc		1e-05
2uz4_A	327	Hhai Dna Methyltransferase R165n Mutant Complex Wit		1e-05
2uyc_A	327	Hhai Dna Methyltransferase R163n Mutant Complex Wit		1e-05
1fjx_A	327	Structure Of Ternary Complex Of Hhai Methyltransfer		1e-05
2uyh_A	327	Hhai Dna Methyltransferase S87q-Q237s Mutant Comple		1e-05
2z6q_A	327	Ternary Structure Of Arg165ala M.Hhai C5-Cytosine D		1e-05
1mht_A	327	Covalent Ternary Structure Of Hhai Methyltransferas		1e-05
1svu_A	327	Structure Of The Q237w Mutant Of Hhai Dna Methyltra		1e-05
2z6a_A	327	S-Adenosyl-L-Methionine-Dependent Methyl Transfer:		1e-05
2zcj_A	327	Ternary Structure Of The Glu119gln M.Hhai, C5-Cytos		1e-05
2z6u_A	327	Ternary Structure Of The Glu119ala M.Hhai, C5-Cytos		2e-05

>pdb|4FSX|A Chain A, Crystal Structure Of Se-Substituted Zea Mays Zmet2 In Complex With Sah Length = 784

Iteration: 1
 Score =  114 bits (285), Expect = 1e-26,   Method: Composition-based stats.
 Identities = 56/90 (62%), Positives = 64/90 (71%), Gaps = 5/90 (5%)
Query: 3   TVVTFPSLHSMAVLHPEQDRVLTIRECARLQGFPDYYRFFGTVKERYCQVGNAVPIVVAR 62
           TVVT    H+  ++HP Q RVLTIRE ARLQGFPDYYR FG +KE+Y QVGNAV + VAR
Sbjct: 672 TVVTRAEPHNQVIIHPTQARVLTIRENARLQGFPDYYRLFGPIKEKYIQVGNAVAVPVAR 731
Query: 63  ALGYALGMAFQKLGNDE---PLMTLPPKFS 89
           ALGY LG A+  LG  E   PL  LPP F+
Sbjct: 732 ALGYCLGQAY--LGESEGSDPLYQLPPSFT 759

>pdb|4FT2|A Chain A, Crystal Structure Of Zea Mays Zmet2 In Complex H3(1-15)k9me2 Peptide And Sah Length = 784

Iteration: 1
 Score =  109 bits (273), Expect = 3e-25,   Method: Compositional matrix adjust.
 Identities = 55/89 (61%), Positives = 65/89 (73%), Gaps = 3/89 (3%)
Query: 3   TVVTFPSLHSMAVLHPEQDRVLTIRECARLQGFPDYYRFFGTVKERYCQVGNAVPIVVAR 62
           TVVT    H+  ++HP Q RVLTIRE ARLQGFPDYYR FG +KE+Y QVGNAV + VAR
Sbjct: 672 TVVTRAEPHNQVIIHPTQARVLTIRENARLQGFPDYYRLFGPIKEKYIQVGNAVAVPVAR 731
Query: 63  ALGYALGMAF--QKLGNDEPLMTLPPKFS 89
           ALGY LG A+  +  G+D PL  LPP F+
Sbjct: 732 ALGYCLGQAYLGESEGSD-PLYQLPPSFT 759

>pdb|3AV4|A Chain A, Crystal Structure Of Mouse Dna Methyltransferase 1 Length = 1330

Iteration: 1
 Score = 79.7 bits (195), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 38/73 (52%), Positives = 50/73 (68%), Gaps = 2/73 (2%)
Query: 2    TTVVTFPSLHSMA--VLHPEQDRVLTIRECARLQGFPDYYRFFGTVKERYCQVGNAVPIV 59
            +T VT P        VLHPEQ RV+++RECAR QGFPD YRFFG + +R+ QVGNAVP  
Sbjct: 1236 STTVTNPEPMGKQGRVLHPEQHRVVSVRECARSQGFPDSYRFFGNILDRHRQVGNAVPPP 1295
Query: 60   VARALGYALGMAF 72
            +A+A+G  + +  
Sbjct: 1296 LAKAIGLEIKLCL 1308

>pdb|3PT6|A Chain A, Crystal Structure Of Mouse Dnmt1(650-1602) In Complex With Dna Length = 954

Iteration: 1
 Score = 79.3 bits (194), Expect = 5e-16,   Method: Compositional matrix adjust.
 Identities = 38/73 (52%), Positives = 50/73 (68%), Gaps = 2/73 (2%)
Query: 2   TTVVTFPSLHSMA--VLHPEQDRVLTIRECARLQGFPDYYRFFGTVKERYCQVGNAVPIV 59
           +T VT P        VLHPEQ RV+++RECAR QGFPD YRFFG + +R+ QVGNAVP  
Sbjct: 878 STTVTNPEPMGKQGRVLHPEQHRVVSVRECARSQGFPDSYRFFGNILDRHRQVGNAVPPP 937
Query: 60  VARALGYALGMAF 72
           +A+A+G  + +  
Sbjct: 938 LAKAIGLEIKLCL 950

>pdb|3PT9|A Chain A, Crystal Structure Of Mouse Dnmt1(731-1602) In The Free State Length = 873

Iteration: 1
 Score = 79.3 bits (194), Expect = 5e-16,   Method: Compositional matrix adjust.
 Identities = 34/58 (58%), Positives = 45/58 (77%)
Query: 15  VLHPEQDRVLTIRECARLQGFPDYYRFFGTVKERYCQVGNAVPIVVARALGYALGMAF 72
           VLHPEQ RV+++RECAR QGFPD YRFFG + +R+ QVGNAVP  +A+A+G  + +  
Sbjct: 812 VLHPEQHRVVSVRECARSQGFPDSYRFFGNILDRHRQVGNAVPPPLAKAIGLEIKLCL 869

>pdb|3SWR|A Chain A, Structure Of Human Dnmt1 (601-1600) In Complex With Sinefungin Length = 1002

Iteration: 1
 Score = 75.9 bits (185), Expect = 6e-15,   Method: Compositional matrix adjust.
 Identities = 36/72 (50%), Positives = 49/72 (68%), Gaps = 2/72 (2%)
Query: 2   TTVVTFPSLHSMA--VLHPEQDRVLTIRECARLQGFPDYYRFFGTVKERYCQVGNAVPIV 59
           +T VT P        VLHPEQ RV+++RECAR QGFPD YR FG + +++ QVGNAVP  
Sbjct: 926 STTVTNPEPMGKQGRVLHPEQHRVVSVRECARSQGFPDTYRLFGNILDKHRQVGNAVPPP 985
Query: 60  VARALGYALGMA 71
           +A+A+G  + + 
Sbjct: 986 LAKAIGLEIKLC 997

>pdb|3PTA|A Chain A, Crystal Structure Of Human Dnmt1(646-1600) In Complex With Dna Length = 956

Iteration: 1
 Score = 75.5 bits (184), Expect = 7e-15,   Method: Compositional matrix adjust.
 Identities = 36/72 (50%), Positives = 49/72 (68%), Gaps = 2/72 (2%)
Query: 2   TTVVTFPSLHSMA--VLHPEQDRVLTIRECARLQGFPDYYRFFGTVKERYCQVGNAVPIV 59
           +T VT P        VLHPEQ RV+++RECAR QGFPD YR FG + +++ QVGNAVP  
Sbjct: 880 STTVTNPEPMGKQGRVLHPEQHRVVSVRECARSQGFPDTYRLFGNILDKHRQVGNAVPPP 939
Query: 60  VARALGYALGMA 71
           +A+A+G  + + 
Sbjct: 940 LAKAIGLEIKLC 951

>pdb|3G7U|A Chain A, Crystal Structure Of Putative Dna Modification Methyltransferase Encoded Within Prophage Cp-933r (E.Coli) Length = 376

Iteration: 1
 Score = 56.2 bits (134), Expect = 5e-09,   Method: Composition-based stats.
 Identities = 25/53 (47%), Positives = 35/53 (66%)
Query: 9   SLHSMAVLHPEQDRVLTIRECARLQGFPDYYRFFGTVKERYCQVGNAVPIVVA 61
           S  ++  +HP   RV+T RE ARLQGFPD++RF  T    + Q+GN+V  +VA
Sbjct: 304 SFQAVRPIHPYHPRVITPREAARLQGFPDWFRFHVTKWHSFRQIGNSVSPIVA 356

>pdb|3UBT|Y Chain Y, Crystal Structure Of C71s Mutant Of Dna Cytosine-5 Methyltransferase M.Haeiii Bound To Dna Length = 331

Iteration: 1
 Score = 48.9 bits (115), Expect = 7e-07,   Method: Composition-based stats.
 Identities = 22/53 (41%), Positives = 35/53 (66%), Gaps = 1/53 (1%)
Query: 22  RVLTIRECARLQGFPDYYRF-FGTVKERYCQVGNAVPIVVARALGYALGMAFQ 73
           R LT+RECAR+QGFPD + F + ++ + Y  +GNAVP+ +A  +   +  A +
Sbjct: 273 RRLTVRECARVQGFPDDFIFHYESLNDGYKMIGNAVPVNLAYEIAKTIKSALE 325

>pdb|1DCT|A Chain A, Dna (Cytosine-5) Methylase From Haeiii Covalently Bound To Dna Length = 324

Iteration: 1
 Score = 48.1 bits (113), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 22/52 (42%), Positives = 34/52 (65%), Gaps = 1/52 (1%)
Query: 22  RVLTIRECARLQGFPDYYRF-FGTVKERYCQVGNAVPIVVARALGYALGMAF 72
           R LT+RECAR+QGFPD + F + ++ + Y  +GNAVP+ +A  +   +  A 
Sbjct: 273 RRLTVRECARVQGFPDDFIFHYESLNDGYKMIGNAVPVNLAYEIAKTIKSAL 324

>pdb|2I9K|A Chain A, Engineered Extrahelical Base Destabilization Enhances Sequence Discrimination Of Dna Methyltransferase M.Hhai Length = 327

Iteration: 1
 Score = 44.7 bits (104), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 20/53 (37%), Positives = 31/53 (58%)
Query: 20  QDRVLTIRECARLQGFPDYYRFFGTVKERYCQVGNAVPIVVARALGYALGMAF 72
           + R L  RECAR+ G+PD Y+   +  + Y Q GN+V I V + + Y +G + 
Sbjct: 270 KTRKLHPRECARVMGYPDSYKVHPSTSQAYKQFGNSVVINVLQYIAYNIGSSL 322

>pdb|2UZ4|A Chain A, Hhai Dna Methyltransferase R165n Mutant Complex With 13mer Gcgc-Gmgc Oligonucleotide And Sah Length = 327

Iteration: 1
 Score = 44.7 bits (104), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 20/53 (37%), Positives = 31/53 (58%)
Query: 20  QDRVLTIRECARLQGFPDYYRFFGTVKERYCQVGNAVPIVVARALGYALGMAF 72
           + R L  RECAR+ G+PD Y+   +  + Y Q GN+V I V + + Y +G + 
Sbjct: 270 KTRKLHPRECARVMGYPDSYKVHPSTSQAYKQFGNSVVINVLQYIAYNIGSSL 322

>pdb|2UYC|A Chain A, Hhai Dna Methyltransferase R163n Mutant Complex With 13mer Gcgc-Gmgc Oligonucleotide And Sah Length = 327

Iteration: 1
 Score = 44.7 bits (104), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 20/53 (37%), Positives = 31/53 (58%)
Query: 20  QDRVLTIRECARLQGFPDYYRFFGTVKERYCQVGNAVPIVVARALGYALGMAF 72
           + R L  RECAR+ G+PD Y+   +  + Y Q GN+V I V + + Y +G + 
Sbjct: 270 KTRKLHPRECARVMGYPDSYKVHPSTSQAYKQFGNSVVINVLQYIAYNIGSSL 322

>pdb|1FJX|A Chain A, Structure Of Ternary Complex Of Hhai Methyltransferase Mutant (T250g) In Complex With Dna And Adohcy Length = 327

Iteration: 1
 Score = 44.7 bits (104), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 20/53 (37%), Positives = 31/53 (58%)
Query: 20  QDRVLTIRECARLQGFPDYYRFFGTVKERYCQVGNAVPIVVARALGYALGMAF 72
           + R L  RECAR+ G+PD Y+   +  + Y Q GN+V I V + + Y +G + 
Sbjct: 270 KTRKLHPRECARVMGYPDSYKVHPSTSQAYKQFGNSVVINVLQYIAYNIGSSL 322

>pdb|2UYH|A Chain A, Hhai Dna Methyltransferase S87q-Q237s Mutant Complex With 13mer Gcgc-Gmgc Oligonucleotide And Sah Length = 327

Iteration: 1
 Score = 44.7 bits (104), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 20/53 (37%), Positives = 31/53 (58%)
Query: 20  QDRVLTIRECARLQGFPDYYRFFGTVKERYCQVGNAVPIVVARALGYALGMAF 72
           + R L  RECAR+ G+PD Y+   +  + Y Q GN+V I V + + Y +G + 
Sbjct: 270 KTRKLHPRECARVMGYPDSYKVHPSTSQAYKQFGNSVVINVLQYIAYNIGSSL 322

>pdb|2Z6Q|A Chain A, Ternary Structure Of Arg165ala M.Hhai C5-Cytosine Dna Methyltransferase With Unmodified Dna And Adohcy Length = 327

Iteration: 1
 Score = 44.7 bits (104), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 20/53 (37%), Positives = 31/53 (58%)
Query: 20  QDRVLTIRECARLQGFPDYYRFFGTVKERYCQVGNAVPIVVARALGYALGMAF 72
           + R L  RECAR+ G+PD Y+   +  + Y Q GN+V I V + + Y +G + 
Sbjct: 270 KTRKLHPRECARVMGYPDSYKVHPSTSQAYKQFGNSVVINVLQYIAYNIGSSL 322

>pdb|1MHT|A Chain A, Covalent Ternary Structure Of Hhai Methyltransferase, Dna And S-Adenosyl-L-Homocysteine Length = 327

Iteration: 1
 Score = 44.7 bits (104), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 20/53 (37%), Positives = 31/53 (58%)
Query: 20  QDRVLTIRECARLQGFPDYYRFFGTVKERYCQVGNAVPIVVARALGYALGMAF 72
           + R L  RECAR+ G+PD Y+   +  + Y Q GN+V I V + + Y +G + 
Sbjct: 270 KTRKLHPRECARVMGYPDSYKVHPSTSQAYKQFGNSVVINVLQYIAYNIGSSL 322

>pdb|1SVU|A Chain A, Structure Of The Q237w Mutant Of Hhai Dna Methyltransferase: An Insight Into Protein-Protein Interactions Length = 327

Iteration: 1
 Score = 44.7 bits (104), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 20/53 (37%), Positives = 31/53 (58%)
Query: 20  QDRVLTIRECARLQGFPDYYRFFGTVKERYCQVGNAVPIVVARALGYALGMAF 72
           + R L  RECAR+ G+PD Y+   +  + Y Q GN+V I V + + Y +G + 
Sbjct: 270 KTRKLHPRECARVMGYPDSYKVHPSTSQAYKQFGNSVVINVLQYIAYNIGSSL 322

>pdb|2Z6A|A Chain A, S-Adenosyl-L-Methionine-Dependent Methyl Transfer: Observable Precatalytic Intermediates During Dna Cytosine Methylation Length = 327

Iteration: 1
 Score = 44.7 bits (104), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 20/53 (37%), Positives = 31/53 (58%)
Query: 20  QDRVLTIRECARLQGFPDYYRFFGTVKERYCQVGNAVPIVVARALGYALGMAF 72
           + R L  RECAR+ G+PD Y+   +  + Y Q GN+V I V + + Y +G + 
Sbjct: 270 KTRKLHPRECARVMGYPDSYKVHPSTSQAYKQFGNSVVINVLQYIAYNIGSSL 322

>pdb|2ZCJ|A Chain A, Ternary Structure Of The Glu119gln M.Hhai, C5-Cytosine Dna Methyltransferase, With Unmodified Dna And Adohcy Length = 327

Iteration: 1
 Score = 44.7 bits (104), Expect = 1e-05,   Method: Composition-based stats.
 Identities = 20/53 (37%), Positives = 31/53 (58%)
Query: 20  QDRVLTIRECARLQGFPDYYRFFGTVKERYCQVGNAVPIVVARALGYALGMAF 72
           + R L  RECAR+ G+PD Y+   +  + Y Q GN+V I V + + Y +G + 
Sbjct: 270 KTRKLHPRECARVMGYPDSYKVHPSTSQAYKQFGNSVVINVLQYIAYNIGSSL 322

>pdb|2Z6U|A Chain A, Ternary Structure Of The Glu119ala M.Hhai, C5-Cytosine Dna Methyltransferase, With Unmodified Dna And Adohcy Length = 327

Iteration: 1
 Score = 43.9 bits (102), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 20/52 (38%), Positives = 30/52 (57%)
Query: 22  RVLTIRECARLQGFPDYYRFFGTVKERYCQVGNAVPIVVARALGYALGMAFQ 73
           R L  RECAR+ G+PD Y+   +  + Y Q GN+V I V + + Y +G +  
Sbjct: 272 RKLHPRECARVMGYPDSYKVHPSTSQAYKQFGNSVVINVLQYIAYNIGSSLN 323

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	105
3av4_A	1330	DNA (cytosine-5)-methyltransferase 1; CXXC-type zi	2e-30
3swr_A	1002	DNA (cytosine-5)-methyltransferase 1; epigenetics,	8e-27
3g7u_A	376	Cytosine-specific methyltransferase; DNA-binding,	2e-25
1g55_A	343	DNA cytosine methyltransferase DNMT2; human DNA me	1e-21
1dct_A	324	Protein (modification methylase HAEIII); enzyme, c	2e-19
3qv2_A	327	5-cytosine DNA methyltransferase; DNMT2, ehmeth; H	2e-16
2c7p_A	327	Modification methylase HHAI; DNA methyltransferase	7e-15
3me5_A	482	Cytosine-specific methyltransferase; structural ge	3e-12
2qrv_A	295	DNA (cytosine-5)-methyltransferase 3A; DNA methylt	9e-08

>3av4_A DNA (cytosine-5)-methyltransferase 1; CXXC-type zinc finger/C5-methyltransferase family; HET: DNA; 2.75A {Mus musculus} PDB: 3av5_A* 3av6_A* Length = 1330

 Score =  112 bits (280), Expect = 2e-30
 Identities = 40/92 (43%), Positives = 54/92 (58%), Gaps = 1/92 (1%)

Query: 2    TTVVT-FPSLHSMAVLHPEQDRVLTIRECARLQGFPDYYRFFGTVKERYCQVGNAVPIVV 60
            TTV    P      VLHPEQ RV+++RECAR QGFPD YRFFG + +R+ QVGNAVP  +
Sbjct: 1237 TTVTNPEPMGKQGRVLHPEQHRVVSVRECARSQGFPDSYRFFGNILDRHRQVGNAVPPPL 1296

Query: 61   ARALGYALGMAFQKLGNDEPLMTLPPKFSLST 92
            A+A+G  + +       +     +  K   +T
Sbjct: 1297 AKAIGLEIKLCLLSSARESASAAVKAKEEAAT 1328

>3swr_A DNA (cytosine-5)-methyltransferase 1; epigenetics, DNA methyltransferase fold, maintenance methyla transferase; HET: DNA SFG MES; 2.49A {Homo sapiens} PDB: 3pta_A* 3pt6_A* 3pt9_A* 4da4_A* Length = 1002

 Score =  101 bits (253), Expect = 8e-27
 Identities = 33/68 (48%), Positives = 45/68 (66%)

Query: 7    FPSLHSMAVLHPEQDRVLTIRECARLQGFPDYYRFFGTVKERYCQVGNAVPIVVARALGY 66
             P      VLHPEQ RV+++RECAR QGFPD YR FG + +++ QVGNAVP  +A+A+G 
Sbjct: 933  EPMGKQGRVLHPEQHRVVSVRECARSQGFPDTYRLFGNILDKHRQVGNAVPPPLAKAIGL 992

Query: 67   ALGMAFQK 74
             + +    
Sbjct: 993  EIKLCMLA 1000

>3g7u_A Cytosine-specific methyltransferase; DNA-binding, NAD-binding, structural GENO protein structure initiative, PSI; 1.75A {Escherichia coli O157} Length = 376

 Score = 96.3 bits (240), Expect = 2e-25
 Identities = 27/71 (38%), Positives = 39/71 (54%), Gaps = 5/71 (7%)

Query: 3   TVVT-----FPSLHSMAVLHPEQDRVLTIRECARLQGFPDYYRFFGTVKERYCQVGNAVP 57
           T+         S  ++  +HP   RV+T RE ARLQGFPD++RF  T    + Q+GN+V 
Sbjct: 293 TLRAGTARDKGSFQAVRPIHPYHPRVITPREAARLQGFPDWFRFHVTKWHSFRQIGNSVS 352

Query: 58  IVVARALGYAL 68
            +VA  +   L
Sbjct: 353 PIVAEYILKGL 363

>1g55_A DNA cytosine methyltransferase DNMT2; human DNA methyltransferase homologue; HET: DNA SAH; 1.80A {Homo sapiens} SCOP: c.66.1.26 Length = 343

 Score = 86.0 bits (213), Expect = 1e-21
 Identities = 18/69 (26%), Positives = 30/69 (43%), Gaps = 2/69 (2%)

Query: 2   TTVVTFPSLHSMAVLHPEQDRVLTIRECARLQGFPDYYRFFGTV--KERYCQVGNAVPIV 59
            ++        +  L   + R  T +E A L GFP  + F   +  K+RY  +GN++ + 
Sbjct: 273 KSLTNLSQEEQITKLLILKLRYFTPKEIANLLGFPPEFGFPEKITVKQRYRLLGNSLNVH 332

Query: 60  VARALGYAL 68
           V   L   L
Sbjct: 333 VVAKLIKIL 341

>1dct_A Protein (modification methylase HAEIII); enzyme, cytosine methylase, transferase/DNA complex; HET: DNA C49 5CM; 2.80A {Haemophilus influenzae biotypeaegyptius} SCOP: c.66.1.26 Length = 324

 Score = 79.7 bits (197), Expect = 2e-19
 Identities = 21/53 (39%), Positives = 33/53 (62%), Gaps = 1/53 (1%)

Query: 17  HPEQDRVLTIRECARLQGFPDYYRF-FGTVKERYCQVGNAVPIVVARALGYAL 68
                R LT+RECAR+QGFPD + F + ++ + Y  +GNAVP+ +A  +   +
Sbjct: 268 KEHLYRRLTVRECARVQGFPDDFIFHYESLNDGYKMIGNAVPVNLAYEIAKTI 320

>3qv2_A 5-cytosine DNA methyltransferase; DNMT2, ehmeth; HET: SAH; 2.15A {Entamoeba histolytica} Length = 327

 Score = 71.4 bits (175), Expect = 2e-16
 Identities = 15/56 (26%), Positives = 23/56 (41%), Gaps = 3/56 (5%)

Query: 16  LHPEQDRVLTIRECARLQGFPDYYRFFG---TVKERYCQVGNAVPIVVARALGYAL 68
           L  +  R  T  E  ++ GF   +       T K++Y  +GN+V   V   L   L
Sbjct: 266 LLNKNLRYFTPNEIKKIHGFSSNFTTQIDGLTDKQQYQCLGNSVSCFVIAQLMEYL 321

>2c7p_A Modification methylase HHAI; DNA methyltransferase, methyltransferase, base flipping, restriction system, transferase; HET: 5CM A1P SAH EPE CIT; 1.7A {Haemophilus haemolyticus} SCOP: c.66.1.26 PDB: 10mh_A* 1m0e_A* 1mht_A* 1hmy_A* 1skm_A* 2c7o_A* 2c7q_A* 2hmy_B* 2hr1_A* 3eeo_A* 3mht_A* 4mht_A* 5mht_A* 6mht_A* 7mht_A* 8mht_A* 9mht_A* 2zcj_A* 2z6u_A* 2z6q_A* ... Length = 327

 Score = 67.1 bits (164), Expect = 7e-15
 Identities = 20/53 (37%), Positives = 30/53 (56%)

Query: 16  LHPEQDRVLTIRECARLQGFPDYYRFFGTVKERYCQVGNAVPIVVARALGYAL 68
           L   + R L  RECAR+ G+PD Y+   +  + Y Q GN+V I V + + Y +
Sbjct: 266 LVNGKTRKLHPRECARVMGYPDSYKVHPSTSQAYKQFGNSVVINVLQYIAYNI 318

>3me5_A Cytosine-specific methyltransferase; structural genomics, protein structure initiative, NEW YORK structural genomix research consortium; 1.75A {Shigella flexneri 2A} PDB: 3lx6_A Length = 482

 Score = 60.1 bits (145), Expect = 3e-12
 Identities = 20/71 (28%), Positives = 30/71 (42%), Gaps = 4/71 (5%)

Query: 14  AVLHPEQDRVLTIRECARLQGF----PDYYRFFGTVKERYCQVGNAVPIVVARALGYALG 69
            +    + R LT RECARL GF       +R   +  + Y Q GN+V + V  A+   L 
Sbjct: 394 PLNQQHRPRRLTPRECARLMGFEAPGEAKFRIPVSDTQAYRQFGNSVVVPVFAAVAKLLE 453

Query: 70  MAFQKLGNDEP 80
              ++      
Sbjct: 454 PKIKQAVALRQ 464

>2qrv_A DNA (cytosine-5)-methyltransferase 3A; DNA methyltransferase 3A (DNMT3A) and ITS regulatory factor; HET: DNA SAH; 2.89A {Homo sapiens} Length = 295

 Score = 47.3 bits (112), Expect = 9e-08
 Identities = 15/60 (25%), Positives = 24/60 (40%), Gaps = 2/60 (3%)

Query: 11  HSMAVLHPEQDRVLTIRECARLQGFPDYYRFFGTV--KERYCQVGNAVPIVVARALGYAL 68
               V   E++ +L   E  R+ GFP +Y     +    R   +G +  + V R L   L
Sbjct: 229 QHFPVFMNEKEDILWCTEMERVFGFPVHYTDVSNMSRLARQRLLGRSWSVPVIRHLFAPL 288

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	105
4ft4_B	784	DNA (cytosine-5)-methyltransferase 1; chromodomain	99.93
3g7u_A	376	Cytosine-specific methyltransferase; DNA-binding,	99.9
2c7p_A	327	Modification methylase HHAI; DNA methyltransferase	99.87
3ubt_Y	331	Modification methylase HAEIII; protein-DNA complex	99.86
3av4_A	1330	DNA (cytosine-5)-methyltransferase 1; CXXC-type zi	99.83
3swr_A	1002	DNA (cytosine-5)-methyltransferase 1; epigenetics,	99.8
1g55_A	343	DNA cytosine methyltransferase DNMT2; human DNA me	99.8
3qv2_A	327	5-cytosine DNA methyltransferase; DNMT2, ehmeth; H	99.72
2qrv_A	295	DNA (cytosine-5)-methyltransferase 3A; DNA methylt	99.72
4dkj_A	403	Cytosine-specific methyltransferase; CG-specificit	99.72
4h0n_A	333	DNMT2; SAH binding, transferase; HET: SAH; 2.71A {	99.66
3me5_A	482	Cytosine-specific methyltransferase; structural ge	99.65

>4ft4_B DNA (cytosine-5)-methyltransferase 1; chromodomain, BAH domain, DNA methyltransferase domain, H3K9 binding, methylation, transferase; HET: DNA MLY SAH; 2.70A {Zea mays} PDB: 4ft2_A* 4fsx_A*

Probab=99.93  E-value=8.8e-27  Score=196.21  Aligned_cols=92  Identities=58%  Similarity=0.951  Sum_probs=84.6

Q ss_pred             CceeeccCCCCCCccccCCCcccccHHHHhhhcCCCCCceecCChHhHHhhhcccccHHHHHHHHHHHHHHHHhcC-CCC
Q 034052            1 MTTVVTFPSLHSMAVLHPEQDRVLTIRECARLQGFPDYYRFFGTVKERYCQVGNAVPIVVARALGYALGMAFQKLG-NDE   79 (105)
Q Consensus         1 ~pTItT~~~~~~~~~ihp~~~R~lT~rE~arLQgFPd~f~~~~s~~~~~k~iGNaVp~~v~~~I~~~l~~~l~~~~-~~~   79 (105)
                      +|||||..+...+.++||.+.|+||+|||||||||||+|.|.|+.+++|+||||||||+|+++||++|+++|.+.. +.+
T Consensus       670 s~TItt~~~~~~~~~iHp~~~R~LTpRE~ARLQgFPD~y~f~Gs~~~~ykQIGNAVpp~lA~aIg~~I~~al~~~~~~~~  749 (784)
T 4ft4_B          670 VPTVVTRAEPHNQVIIHPTQARVLTIRENARLQGFPDYYRLFGPIKEKYIQVGNAVAVPVARALGYCLGQAYLGESEGSD  749 (784)
T ss_dssp             CSCCCSCCCSSSSEEECSSSSSBCCHHHHHHHTTCCTTCCCCSCHHHHHHHHHHSCCHHHHHHHHHHHHHHHHTCCCSSC
T ss_pred             ccceeccccCCCCeecCCCCCcCCcHHHHHHHCCCCCCCEeCCCHHHHHhhccCCCCHHHHHHHHHHHHHHHcCcCcccC
Confidence            4899999887778899999999999999999999999999999999999999999999999999999999999876 567


Q ss_pred             CCcCCCCCCchhh
Q 034052           80 PLMTLPPKFSLST   92 (105)
Q Consensus        80 ~~~~~~~~~~~~~   92 (105)
                      |+..+|.+++...
T Consensus       750 ~~~~~p~~~~~~~  762 (784)
T 4ft4_B          750 PLYQLPPSFTSVG  762 (784)
T ss_dssp             SEECCCSSSSCCC
T ss_pred             hhhhcCCCCCccc
Confidence            9999998876543

>3g7u_A Cytosine-specific methyltransferase; DNA-binding, NAD-binding, structural GENO protein structure initiative, PSI; 1.75A {Escherichia coli O157}

Probab=99.90  E-value=1.2e-24  Score=172.33  Aligned_cols=74  Identities=35%  Similarity=0.500  Sum_probs=62.9

Q ss_pred             CceeeccCCCC-----CCccccCCCcccccHHHHhhhcCCCCCceecCChHhHHhhhcccccHHHHHHHHHHHHHHHHh
Q 034052            1 MTTVVTFPSLH-----SMAVLHPEQDRVLTIRECARLQGFPDYYRFFGTVKERYCQVGNAVPIVVARALGYALGMAFQK   74 (105)
Q Consensus         1 ~pTItT~~~~~-----~~~~ihp~~~R~lT~rE~arLQgFPd~f~~~~s~~~~~k~iGNaVp~~v~~~I~~~l~~~l~~   74 (105)
                      +|||||.....     +++++||.++|.||+||+||||||||+|.|.|+.+++|+||||||||.++++||+.|++.|++
T Consensus       291 s~Ti~~~~~~~~g~~~~~r~~HP~~~R~lTvRE~ARlQsFPD~f~f~g~~~~~~~qIGNAVPp~la~aia~~I~~~l~~  369 (376)
T 3g7u_A          291 CPTLRAGTARDKGSFQAVRPIHPYHPRVITPREAARLQGFPDWFRFHVTKWHSFRQIGNSVSPIVAEYILKGLYNLLNE  369 (376)
T ss_dssp             BCCC-------------CCCBCSSSSSBCCHHHHHHHHTCCTTCCCCSSHHHHHHHHHTSCCHHHHHHHHHHHHHHHTC
T ss_pred             CCceecCcCCCCCcccCccccCCccCcCCCHHHHHHhCCCCcceEECCChHHhheeeecCCCHHHHHHHHHHHHHHHHh
Confidence            48999875422     356799999999999999999999999999999999999999999999999999999999875

>2c7p_A Modification methylase HHAI; DNA methyltransferase, methyltransferase, base flipping, restriction system, transferase; HET: 5CM A1P SAH EPE CIT; 1.7A {Haemophilus haemolyticus} SCOP: c.66.1.26 PDB: 10mh_A* 1m0e_A* 1mht_A* 1hmy_A* 1skm_A* 2c7o_A* 2c7q_A* 2hmy_B* 2hr1_A* 3eeo_A* 3mht_A* 4mht_A* 5mht_A* 6mht_A* 7mht_A* 8mht_A* 9mht_A* 2zcj_A* 2z6u_A* 2z6q_A* ...

Probab=99.87  E-value=8.8e-23  Score=158.94  Aligned_cols=74  Identities=30%  Similarity=0.515  Sum_probs=66.1

Q ss_pred             CceeeccCC---CCCCccccCCCcccccHHHHhhhcCCCCCceecCChHhHHhhhcccccHHHHHHHHHHHHHHHHh
Q 034052            1 MTTVVTFPS---LHSMAVLHPEQDRVLTIRECARLQGFPDYYRFFGTVKERYCQVGNAVPIVVARALGYALGMAFQK   74 (105)
Q Consensus         1 ~pTItT~~~---~~~~~~ihp~~~R~lT~rE~arLQgFPd~f~~~~s~~~~~k~iGNaVp~~v~~~I~~~l~~~l~~   74 (105)
                      +|||||..+   ...+..+|+.+.|.||+|||||||||||+|.|.++.+++|+||||||||+++++||+.|.+.|..
T Consensus       248 ~~Ti~~~~~~~~~~~~~~~~~~~~R~LT~rE~aRLQgFPd~f~f~gs~~~~ykqIGNAVp~~l~~~Ia~~i~~~l~~  324 (327)
T 2c7p_A          248 AITLSAYGGGIFAKTGGYLVNGKTRKLHPRECARVMGYPDSYKVHPSTSQAYKQFGNSVVINVLQYIAYNIGSSLNF  324 (327)
T ss_dssp             BCCCCSSCCSTTTTTCEEEETTEEEECCHHHHHHHTTCCTTSCCCSSHHHHHHHHHHCCCHHHHHHHHHHHHHHHHC
T ss_pred             cCceecCCCCccCCCCccCCCCCCcCCCHHHHHHHCCCCcCcEeCCCHHHHHhHccCCCCHHHHHHHHHHHHHHHhc
Confidence            479988732   23345788999999999999999999999999999999999999999999999999999999875

>3ubt_Y Modification methylase HAEIII; protein-DNA complex, DNA cytosine-5 methyltransferase, DNA B S-adenosyl methionine binding; HET: ATP 2PE; 2.50A {Haemophilus aegyptius} PDB: 1dct_A*

Probab=99.86  E-value=1.4e-22  Score=154.59  Aligned_cols=64  Identities=34%  Similarity=0.581  Sum_probs=56.8

Q ss_pred             cccCCCcccccHHHHhhhcCCCCCceec-CChHhHHhhhcccccHHHHHHHHHHHHHHHHhcCCC
Q 034052           15 VLHPEQDRVLTIRECARLQGFPDYYRFF-GTVKERYCQVGNAVPIVVARALGYALGMAFQKLGND   78 (105)
Q Consensus        15 ~ihp~~~R~lT~rE~arLQgFPd~f~~~-~s~~~~~k~iGNaVp~~v~~~I~~~l~~~l~~~~~~   78 (105)
                      ..|+...|.||+|||||||||||+|.|+ ++.+++|+||||||||+|+++||+.|+++|+...++
T Consensus       266 ~~~~~~~R~LT~rE~aRLQgFPd~f~f~~~s~~~~ykqiGNAVpp~la~~I~~~I~~~L~~~~~n  330 (331)
T 3ubt_Y          266 EGKEHLYRRLTVRECARVQGFPDDFIFHYESLNDGYKMIGNAVPVNLAYEIAKTIKSALEICKGN  330 (331)
T ss_dssp             TTCGGGCCBCBHHHHHHHHTCCTTCCCCCSBHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHCC--
T ss_pred             CCCCCcCcCCCHHHHHHhCCCCCCCEeCCCCHHHHhhhCccCccHHHHHHHHHHHHHHHhhhhcC
Confidence            3466778999999999999999999996 689999999999999999999999999999865543

>3av4_A DNA (cytosine-5)-methyltransferase 1; CXXC-type zinc finger/C5-methyltransferase family; HET: DNA; 2.75A {Mus musculus} PDB: 3av5_A* 3av6_A*

Probab=99.83  E-value=4.1e-21  Score=171.09  Aligned_cols=65  Identities=52%  Similarity=0.899  Sum_probs=61.3

Q ss_pred             CCccccCCCcccccHHHHhhhcCCCCCceecCChHhHHhhhcccccHHHHHHHHHHHHHHHHhcC
Q 034052           12 SMAVLHPEQDRVLTIRECARLQGFPDYYRFFGTVKERYCQVGNAVPIVVARALGYALGMAFQKLG   76 (105)
Q Consensus        12 ~~~~ihp~~~R~lT~rE~arLQgFPd~f~~~~s~~~~~k~iGNaVp~~v~~~I~~~l~~~l~~~~   76 (105)
                      .+.++||.+.|.||+||+||||||||+|.|.|+.+++|+||||||||+|+++||+.|.++|....
T Consensus      1248 ~g~~iHP~q~R~LTVREaARLQsFPDdF~F~Gs~t~~yrQIGNAVPPlLAkAIA~~I~~~L~~~~ 1312 (1330)
T 3av4_A         1248 QGRVLHPEQHRVVSVRECARSQGFPDSYRFFGNILDRHRQVGNAVPPPLAKAIGLEIKLCLLSSA 1312 (1330)
T ss_dssp             SCCCBCSSSSSBCCHHHHHHHTTCCTTCCCCSSHHHHHHHHHHSCCHHHHHHHHHHHHHHHHHHH
T ss_pred             CCcccCccccccCCHHHHHHhcCCCCCeEECCCHhhhhEEeEeCcCHHHHHHHHHHHHHHHHhhh
Confidence            45789999999999999999999999999999999999999999999999999999999988643

>3swr_A DNA (cytosine-5)-methyltransferase 1; epigenetics, DNA methyltransferase fold, maintenance methyla transferase; HET: DNA SFG MES; 2.49A {Homo sapiens} PDB: 3pta_A* 3pt6_A* 3pt9_A* 4da4_A*

Probab=99.80  E-value=3.6e-20  Score=161.73  Aligned_cols=65  Identities=49%  Similarity=0.848  Sum_probs=62.1

Q ss_pred             CCCCccccCCCcccccHHHHhhhcCCCCCceecCChHhHHhhhcccccHHHHHHHHHHHHHHHHh
Q 034052           10 LHSMAVLHPEQDRVLTIRECARLQGFPDYYRFFGTVKERYCQVGNAVPIVVARALGYALGMAFQK   74 (105)
Q Consensus        10 ~~~~~~ihp~~~R~lT~rE~arLQgFPd~f~~~~s~~~~~k~iGNaVp~~v~~~I~~~l~~~l~~   74 (105)
                      ...++++||.++|.||+||+||||||||+|.|.|+.+++|+||||||||+++++||+.|.++|..
T Consensus       936 ~~~g~~~Hp~~~R~lt~rE~arlQ~fPd~~~f~g~~~~~~~qiGNaVp~~~~~~i~~~i~~~l~~ 1000 (1002)
T 3swr_A          936 GKQGRVLHPEQHRVVSVRECARSQGFPDTYRLFGNILDKHRQVGNAVPPPLAKAIGLEIKLCMLA 1000 (1002)
T ss_dssp             CTTCCCBCSSSSSBCCHHHHHHHTTCCTTCCCCSSHHHHHHHHHHSCCHHHHHHHHHHHHHHHHH
T ss_pred             CCCCcccCcccccCCCHHHHHHhCCCCcceEEcCChHHHheeeeccCCHHHHHHHHHHHHHHHhc
Confidence            34688999999999999999999999999999999999999999999999999999999999876

>1g55_A DNA cytosine methyltransferase DNMT2; human DNA methyltransferase homologue; HET: DNA SAH; 1.80A {Homo sapiens} SCOP: c.66.1.26

Probab=99.80  E-value=4.7e-21  Score=149.45  Aligned_cols=56  Identities=36%  Similarity=0.401  Sum_probs=52.7

Q ss_pred             ccccCCCcccccHHHHhhhcCCCCCceecC--ChHhHHhhhcccccHHHHHHHHHHHH
Q 034052           14 AVLHPEQDRVLTIRECARLQGFPDYYRFFG--TVKERYCQVGNAVPIVVARALGYALG   69 (105)
Q Consensus        14 ~~ihp~~~R~lT~rE~arLQgFPd~f~~~~--s~~~~~k~iGNaVp~~v~~~I~~~l~   69 (105)
                      ..+||.+.|+||+|||||||||||+|.|++  +.+++|+||||||||+|+++|++.|.
T Consensus       285 ~~~h~~~~R~lT~RE~aRLqgFPd~f~f~g~~s~~~~ykqiGNAVpv~v~~~I~~~l~  342 (343)
T 1g55_A          285 TKLLILKLRYFTPKEIANLLGFPPEFGFPEKITVKQRYRLLGNSLNVHVVAKLIKILY  342 (343)
T ss_dssp             HHHHTTCEECCCHHHHHHHTTCCTTCCCCTTSCHHHHHHHHHHSCCHHHHHHHHHHHH
T ss_pred             eccCCCCccccCHHHHHHHcCCChhhccCCCCCHHHHHHHhcCcccHHHHHHHHHHHh
Confidence            456999999999999999999999999997  89999999999999999999999875

>3qv2_A 5-cytosine DNA methyltransferase; DNMT2, ehmeth; HET: SAH; 2.15A {Entamoeba histolytica}

Probab=99.72  E-value=2.4e-18  Score=134.28  Aligned_cols=59  Identities=25%  Similarity=0.234  Sum_probs=54.3

Q ss_pred             cccCCCcccccHHHHhhhcCCCCCceec---CChHhHHhhhcccccHHHHHHHHHHHHHHHH
Q 034052           15 VLHPEQDRVLTIRECARLQGFPDYYRFF---GTVKERYCQVGNAVPIVVARALGYALGMAFQ   73 (105)
Q Consensus        15 ~ihp~~~R~lT~rE~arLQgFPd~f~~~---~s~~~~~k~iGNaVp~~v~~~I~~~l~~~l~   73 (105)
                      .+|+.+.|+||++||+|||||||+|.++   .+.+++|+|+||||||+++++|++.|.+.|+
T Consensus       265 ~~~~~~~R~lt~~E~~rlqgfP~~~~~~~~~~s~~~~y~~~GNsv~v~v~~~i~~~l~~~l~  326 (327)
T 3qv2_A          265 DLLNKNLRYFTPNEIKKIHGFSSNFTTQIDGLTDKQQYQCLGNSVSCFVIAQLMEYLFDDLK  326 (327)
T ss_dssp             GGTTSCCBCCCHHHHHHHTTCCTTCCSCCTTCCHHHHHHHHHTSCCHHHHHHHHHHHTTTSC
T ss_pred             eecCCccccCcHHHHHHhCcCCHHHcCCcCCCCHHHHHHHccCccCHHHHHHHHHHHHHHhc
Confidence            4488899999999999999999999998   5899999999999999999999999977653

>2qrv_A DNA (cytosine-5)-methyltransferase 3A; DNA methyltransferase 3A (DNMT3A) and ITS regulatory factor; HET: DNA SAH; 2.89A {Homo sapiens}

Probab=99.72  E-value=7.5e-19  Score=135.55  Aligned_cols=59  Identities=27%  Similarity=0.305  Sum_probs=53.7

Q ss_pred             cccCCCcccccHHHHhhhcCCCCCceecC--ChHhHHhhhcccccHHHHHHHHHHHHHHHH
Q 034052           15 VLHPEQDRVLTIRECARLQGFPDYYRFFG--TVKERYCQVGNAVPIVVARALGYALGMAFQ   73 (105)
Q Consensus        15 ~ihp~~~R~lT~rE~arLQgFPd~f~~~~--s~~~~~k~iGNaVp~~v~~~I~~~l~~~l~   73 (105)
                      .+|+.+.|+||++||+|||||||+|.|.+  +.+++|+|+||||||+++++|++.|.++|.
T Consensus       233 ~~~~~~~R~lt~rE~arlqgFPd~~~~~~~~s~~~~~~qiGNaVpv~~~~~i~~~i~~~l~  293 (295)
T 2qrv_A          233 VFMNEKEDILWCTEMERVFGFPVHYTDVSNMSRLARQRLLGRSWSVPVIRHLFAPLKEYFA  293 (295)
T ss_dssp             EEETTEEECCCHHHHHHHHTCCTTTTCCTTCCHHHHHHHHHTSCCHHHHHHHHGGGGGGSC
T ss_pred             cccCCCcCCCCHHHHHHHcCCCHHHeeCCCcCHHHHhccEecCcCHHHHHHHHHHHHHHhc
Confidence            46888999999999999999999999998  459999999999999999999999987653

>4dkj_A Cytosine-specific methyltransferase; CG-specificity, DNA intercalation, CPG sequence, cytosine C5 methylation; HET: DNA C37 5CM SAH; 2.15A {Mycoplasma penetrans}

Probab=99.72  E-value=2.3e-19  Score=143.69  Aligned_cols=75  Identities=16%  Similarity=0.166  Sum_probs=60.7

Q ss_pred             CceeeccCCCCCCccccCCCcccccHHHHhhhcCCCC-Cceec-----CChHhHHhhhcccccHHHHHHHHHHHHHHHHh
Q 034052            1 MTTVVTFPSLHSMAVLHPEQDRVLTIRECARLQGFPD-YYRFF-----GTVKERYCQVGNAVPIVVARALGYALGMAFQK   74 (105)
Q Consensus         1 ~pTItT~~~~~~~~~ihp~~~R~lT~rE~arLQgFPd-~f~~~-----~s~~~~~k~iGNaVp~~v~~~I~~~l~~~l~~   74 (105)
                      +|||||+.......+++..+.|+||+|||+||||||| +|.+.     .+.+++|+|+||||+|+|+++|++.|+++|.+
T Consensus       315 ~~Tlt~~~~~~~~~~~~~~~~R~ltprE~~rlqGFpd~~~~~~~~~~~~s~~~~y~~~GNsv~v~v~~~i~~~i~~~l~~  394 (403)
T 4dkj_A          315 GPTLTASGANSRIKIETQQGVRYLTPLECFKYMQFDVNDFKKVQSTNLISENKMIYIAGNSIPVKILEAIFNTLEFVNNE  394 (403)
T ss_dssp             BCCCCSSSGGGSCEEEETTEEEECCHHHHHHHTTCCHHHHHHHHHTSCSCHHHHHHHHHTSCCHHHHHHHHHTCCCCCCC
T ss_pred             ccceecCCCCceeEEccCCCcccCCHHHHHHHcCCCHHHhhhhhccCCCCHHHHHhhcCCccCHHHHHHHHHHHHHHHhc
Confidence            4788885321111234567899999999999999999 79886     59999999999999999999999998877665


Q ss_pred             c
Q 034052           75 L   75 (105)
Q Consensus        75 ~   75 (105)
                      .
T Consensus       395 ~  395 (403)
T 4dkj_A          395 E  395 (403)
T ss_dssp             -
T ss_pred             c
Confidence            4

>4h0n_A DNMT2; SAH binding, transferase; HET: SAH; 2.71A {Spodoptera frugiperda}

Probab=99.66  E-value=4.4e-17  Score=127.25  Aligned_cols=54  Identities=26%  Similarity=0.303  Sum_probs=50.3

Q ss_pred             ccCCCcccccHHHHhhhcCCCCCceecC--ChHhHHhhhcccccHHHHHHHHHHHH
Q 034052           16 LHPEQDRVLTIRECARLQGFPDYYRFFG--TVKERYCQVGNAVPIVVARALGYALG   69 (105)
Q Consensus        16 ihp~~~R~lT~rE~arLQgFPd~f~~~~--s~~~~~k~iGNaVp~~v~~~I~~~l~   69 (105)
                      +|+.+.|+||++||+|||||||+|.+++  +.+++|+|+||||+|+++++|++.|.
T Consensus       277 ~~~~~~R~lt~~E~~rl~gfp~~~~~~~~~s~~~~y~~~GNsv~v~v~~~i~~~l~  332 (333)
T 4h0n_A          277 FKELKLRYFTPKEVLMIMCFPKSYNLPTNISMKQCYRLLGNSVNVKVISELLKILF  332 (333)
T ss_dssp             HHTTTCBCCCHHHHHHHTTCCTTCCCCTTSCHHHHHHHHHTSCCHHHHHHHHHHHH
T ss_pred             ccCCCcCCCCHHHHHHhCCCCccccCCCCCCHHHHHHHhCCccCHHHHHHHHHHHh
Confidence            3678999999999999999999999984  88999999999999999999999875

>3me5_A Cytosine-specific methyltransferase; structural genomics, protein structure initiative, NEW YORK structural genomix research consortium; 1.75A {Shigella flexneri 2A} PDB: 3lx6_A

Probab=99.65  E-value=1.4e-16  Score=130.16  Aligned_cols=58  Identities=34%  Similarity=0.441  Sum_probs=53.4

Q ss_pred             CCcccccHHHHhhhcCCC----CCceecCChHhHHhhhcccccHHHHHHHHHHHHHHHHhcC
Q 034052           19 EQDRVLTIRECARLQGFP----DYYRFFGTVKERYCQVGNAVPIVVARALGYALGMAFQKLG   76 (105)
Q Consensus        19 ~~~R~lT~rE~arLQgFP----d~f~~~~s~~~~~k~iGNaVp~~v~~~I~~~l~~~l~~~~   76 (105)
                      ...|+|||+||+||||||    ++|.+.++.+++|+|+||||||+++++|++.|.+.+....
T Consensus       399 ~~~R~lTprE~~rlqgFp~~~~~~~~~~~s~~~~y~q~GNsV~v~v~~~i~~~l~~~l~~~~  460 (482)
T 3me5_A          399 HRPRRLTPRECARLMGFEAPGEAKFRIPVSDTQAYRQFGNSVVVPVFAAVAKLLEPKIKQAV  460 (482)
T ss_dssp             GCCEECCHHHHHHHHTSSCTTCCCSCCCSCHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHH
T ss_pred             CCcccCCHHHHHHHcCCCCccccceeccCCHHHHHHHcCCccChHHHHHHHHHHHHHHHHHH
Confidence            368999999999999999    6788889999999999999999999999999999887644

---

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	105
d2c7pa1	327	c.66.1.26 (A:1-327) DNA methylase HhaI {Haemophilu	7e-23
d1g55a_	343	c.66.1.26 (A:) DNMT2 {Human (Homo sapiens) [TaxId:	2e-22
d1dcta_	324	c.66.1.26 (A:) DNA methylase HaeIII {Haemophilus a	6e-21

>d2c7pa1 c.66.1.26 (A:1-327) DNA methylase HhaI {Haemophilus haemolyticus [TaxId: 726]} Length = 327

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: C5 cytosine-specific DNA methylase, DCM
domain: DNA methylase HhaI
species: Haemophilus haemolyticus [TaxId: 726]

 Score = 87.7 bits (216), Expect = 7e-23
 Identities = 21/69 (30%), Positives = 34/69 (49%)

Query: 1   MTTVVTFPSLHSMAVLHPEQDRVLTIRECARLQGFPDYYRFFGTVKERYCQVGNAVPIVV 60
           ++         +   L   + R L  RECAR+ G+PD Y+   +  + Y Q GN+V I V
Sbjct: 251 LSAYGGGIFAKTGGYLVNGKTRKLHPRECARVMGYPDSYKVHPSTSQAYKQFGNSVVINV 310

Query: 61  ARALGYALG 69
            + + Y +G
Sbjct: 311 LQYIAYNIG 319

>d1g55a_ c.66.1.26 (A:) DNMT2 {Human (Homo sapiens) [TaxId: 9606]} Length = 343

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: C5 cytosine-specific DNA methylase, DCM
domain: DNMT2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 86.7 bits (213), Expect = 2e-22
 Identities = 20/69 (28%), Positives = 31/69 (44%), Gaps = 2/69 (2%)

Query: 2   TTVVTFPSLHSMAVLHPEQDRVLTIRECARLQGFPDYYRFFG--TVKERYCQVGNAVPIV 59
            ++        +  L   + R  T +E A L GFP  + F    TVK+RY  +GN++ + 
Sbjct: 273 KSLTNLSQEEQITKLLILKLRYFTPKEIANLLGFPPEFGFPEKITVKQRYRLLGNSLNVH 332

Query: 60  VARALGYAL 68
           V   L   L
Sbjct: 333 VVAKLIKIL 341

>d1dcta_ c.66.1.26 (A:) DNA methylase HaeIII {Haemophilus aegyptius [TaxId: 197575]} Length = 324

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: C5 cytosine-specific DNA methylase, DCM
domain: DNA methylase HaeIII
species: Haemophilus aegyptius [TaxId: 197575]

 Score = 82.8 bits (203), Expect = 6e-21
 Identities = 21/53 (39%), Positives = 33/53 (62%), Gaps = 1/53 (1%)

Query: 17  HPEQDRVLTIRECARLQGFPDYYRF-FGTVKERYCQVGNAVPIVVARALGYAL 68
                R LT+RECAR+QGFPD + F + ++ + Y  +GNAVP+ +A  +   +
Sbjct: 268 KEHLYRRLTVRECARVQGFPDDFIFHYESLNDGYKMIGNAVPVNLAYEIAKTI 320

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	105
d2c7pa1	327	DNA methylase HhaI {Haemophilus haemolyticus [TaxI	99.85
d1dcta_	324	DNA methylase HaeIII {Haemophilus aegyptius [TaxId	99.84
d1g55a_	343	DNMT2 {Human (Homo sapiens) [TaxId: 9606]}	99.82

>d2c7pa1 c.66.1.26 (A:1-327) DNA methylase HhaI {Haemophilus haemolyticus [TaxId: 726]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: C5 cytosine-specific DNA methylase, DCM
domain: DNA methylase HhaI
species: Haemophilus haemolyticus [TaxId: 726]

Probab=99.85  E-value=3.5e-22  Score=149.25  Aligned_cols=63  Identities=33%  Similarity=0.573  Sum_probs=59.5

Q ss_pred             CCccccCCCcccccHHHHhhhcCCCCCceecCChHhHHhhhcccccHHHHHHHHHHHHHHHHh
Q 034052           12 SMAVLHPEQDRVLTIRECARLQGFPDYYRFFGTVKERYCQVGNAVPIVVARALGYALGMAFQK   74 (105)
Q Consensus        12 ~~~~ihp~~~R~lT~rE~arLQgFPd~f~~~~s~~~~~k~iGNaVp~~v~~~I~~~l~~~l~~   74 (105)
                      ....+|+.+.|+||+||+||||||||+|.|.++.+++|+||||||||+|+++||+.|++.|+.
T Consensus       262 ~~~~~~~~~~R~lT~rE~arLqgFPd~f~~~~s~~~~~~~iGNAVp~~v~~~I~~~I~~~L~~  324 (327)
T d2c7pa1         262 TGGYLVNGKTRKLHPRECARVMGYPDSYKVHPSTSQAYKQFGNSVVINVLQYIAYNIGSSLNF  324 (327)
T ss_dssp             TCEEEETTEEEECCHHHHHHHTTCCTTSCCCSSHHHHHHHHHHCCCHHHHHHHHHHHHHHHHC
T ss_pred             CCcccCCCcCcCCCHHHHHHhCCCCCCcEeCCCHHHHHhHccCCCCHHHHHHHHHHHHHHHcC
Confidence            345789999999999999999999999999999999999999999999999999999999965

>d1dcta_ c.66.1.26 (A:) DNA methylase HaeIII {Haemophilus aegyptius [TaxId: 197575]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: C5 cytosine-specific DNA methylase, DCM
domain: DNA methylase HaeIII
species: Haemophilus aegyptius [TaxId: 197575]

Probab=99.84  E-value=3e-22  Score=147.75  Aligned_cols=58  Identities=38%  Similarity=0.643  Sum_probs=53.1

Q ss_pred             cccCCCcccccHHHHhhhcCCCCCceec-CChHhHHhhhcccccHHHHHHHHHHHHHHH
Q 034052           15 VLHPEQDRVLTIRECARLQGFPDYYRFF-GTVKERYCQVGNAVPIVVARALGYALGMAF   72 (105)
Q Consensus        15 ~ihp~~~R~lT~rE~arLQgFPd~f~~~-~s~~~~~k~iGNaVp~~v~~~I~~~l~~~l   72 (105)
                      ..|+...|+||++||+|||||||+|.|+ ++.+++|+||||||||+|+++|+++|+++|
T Consensus       266 ~~~~~~~R~LT~rE~arLqgFPd~~~f~~~s~~~~y~~iGNaV~p~v~~~I~~~I~~~L  324 (324)
T d1dcta_         266 EGKEHLYRRLTVRECARVQGFPDDFIFHYESLNDGYKMIGNAVPVNLAYEIAKTIKSAL  324 (324)
T ss_dssp             TTTGGGCCBCBHHHHHHHHTCCTTCCCCCSBHHHHHHHHHTSCCHHHHHHHHHHHHHTC
T ss_pred             CCCCCcCcCCCHHHHHHHCCCCCCCEeCCCCHHHHHeeEccCccHHHHHHHHHHHHHhC
Confidence            3466788999999999999999999997 689999999999999999999999998764

>d1g55a_ c.66.1.26 (A:) DNMT2 {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: C5 cytosine-specific DNA methylase, DCM
domain: DNMT2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.82  E-value=3.8e-22  Score=148.52  Aligned_cols=57  Identities=35%  Similarity=0.382  Sum_probs=52.8

Q ss_pred             ccccCCCcccccHHHHhhhcCCCCCceecC--ChHhHHhhhcccccHHHHHHHHHHHHH
Q 034052           14 AVLHPEQDRVLTIRECARLQGFPDYYRFFG--TVKERYCQVGNAVPIVVARALGYALGM   70 (105)
Q Consensus        14 ~~ihp~~~R~lT~rE~arLQgFPd~f~~~~--s~~~~~k~iGNaVp~~v~~~I~~~l~~   70 (105)
                      ..+|+.+.|+||++||||||||||+|.|++  +.+++|+||||||||+|+++|++.|.+
T Consensus       285 ~~~~~~~~R~LT~rE~arLQgFPd~f~~~~~~s~~~~ykqiGNaVp~~v~~~i~k~l~e  343 (343)
T d1g55a_         285 TKLLILKLRYFTPKEIANLLGFPPEFGFPEKITVKQRYRLLGNSLNVHVVAKLIKILYE  343 (343)
T ss_dssp             HHHHTTCEECCCHHHHHHHTTCCTTCCCCTTSCHHHHHHHHHHSCCHHHHHHHHHHHHC
T ss_pred             ccCCCCCCcCCCHHHHHHhCCCCCCCEECCCCCHHHHhhhEeCCccHHHHHHHHHHhcC
Confidence            457999999999999999999999999987  689999999999999999999998863