Psyllid ID: psy13907

Local Sequence Feature Prediction

Prediction and (Method)	Result

Residue Number Marker

Protein Sequence

Secondary Structure (PSIPRED)

Secondary Structure Prediction (SSPRO)

Coil and Loop (DISEMBL)

Flexible Loop (DISEMBL)

Low Complexity Region (SEG)

Disordered region (IsUnstruct)

Disordered Region (DISOPRED)

Disordered Region (DISEMBL)

Disordered Region (DISPRO)

Transmembrane Helix (TMHMM)

Transmembrane Helix (HMMTOP)

Transmembrane Helix (MEMSAT)

TM Helix, Signal Peptide (MEMSAT_SVM)

TM Helix, Signal Peptide (Phobius)

Signal Peptide (SignalP HMM Mode)

Signal Peptide (SignalP NN Mode)

Coiled Coils (COILS)

Positional Conservation

--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530-------540-------550-------560-------570-------580-------590-------600-------610-------620-------630-------640-------650-------660-------670-------680-------690-------70

ASVEGFVQHLGLSEDQSVQLIRDAVKYVKEAIVLEEKRDPAIASRHVRVAGSLGSYGAFLHDGSEYRGDYIDSTTPQELIDYHRPRIEALIQGGIDLLAIETLPAQEEAMVLAELIKEYPGLKAWISFSCKDEKHTCHGDKFGLIARDVYAKNPAQLVAVGVNCLAPHYVESLLTSAEVEGQSLELPVNNTLISRKPIQLLSIELELAAAGKMPSGTTQIPFEAPLKAKPNRSLFETYHGVFVNVQYNLKCELKRSHFNILSKDLQKINEFILENKLYLIDGGFSSQLSKHVGEDNVTEKDNPLWCSAFLHSNRQAVIDTHRDYVRAGCDIVTTNTYQASVEGFVQHLGLSEDQSVQLIRDAVKYVKEAIALEEKRDPAIASRHVRVAGSLGSYGAFLHDGSEYRGDYIDSTTPQELIDYHRPRIEALIQGGIDLLAIETLPAQEEAMVLAELIKEYPGLKAWISFSCKDEKHTCHGDKFGLIARDVYAKNPAQLVAVGVNCLAPHYVESLLTSAGRDVPLLCCPNSGETFDPGQRIWMNKDSVPSVDTYVPRWLDTGVKYVGGCCRTNADDMKNVNQVPVKFSITPESLTNARDKFNIPRFRISGHLDSTECSVVRPFTGEIVIEQTELPIKSVELQLVRVETCGCAEGYSRDATEIQNIQIGEGNVFTGIPIPIYMVFPRLFTCPTLITSNFKIVM

ccHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHccccccccccEEEEEcccccccccccccccccccccccHHHHHHHHHHHHHHHHHccccEEEEcccccHHHHHHHHHHHHHccccEEEEEEEEEccccccccccHHHHHHHHHHcccccEEEEEEccccHHHHHHHHHHHHHHcccccEEEccccccccHHHHHHHHHHHHHcccccccccccccccccccccccccccccccEEEEEEEccccccccccccccHHHHHHHHHHHHccccEEEEccHHHHHHccccccccccccccccccHHHccccHHHHHHHHHHHHHcccEEEcccccccHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHccccccccccEEEEEcccccccccccccccccccccccHHHHHHHHHHHHHHHHHccccEEEEEccccHHHHHHHHHHHHHccccEEEEEEEEEccccccccccHHHHHHHHHHcccccEEEEEEccccHHHHHHHHHHHcccccEEEEccccccccccccEEcccccHHHHHHHHHHHHHccccEEcccccccHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccEEEccccccHHHHHHHHcccHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccEEEccccEEEc

ccHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccEEEEEEcccccEccccccccccccccccHHHHHHHHHHHHHHHHHccccEEEEEccccHHHHHHHHHHHHHcccccEEEEEEEccccEccccccHHHHHHHHHHcccccEEEEEEccccHHHHHHHHHHHHHHHcccEEEccccccccccEEEEcccccEccccccccccccccccccccccccccHHHHHEEEEEEEEHHHccccccccccccccHHHHHHHHHHcccEEEEccHHHHHHHHcccHHccccccccccccEEEEccHHHHHHHHHHHHHHcccEEEEccccccHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccEEEEEEccccccccccccccccccccccHHHHHHHHHHHHHHHHHccccEEEEEccccHHHHHHHHHHHHHHccccEEEEEEEccccEccccccHHHHHHHHHHccccccEEEEEccccHHHHHHHHHHHHccccEEEEcccccccccccccccccccHHHHHHHHHHHHHccccEEEccccccHHHHHHHHHHHHccccccccccccccEEEEccEEEcccccEEEcccccccccEEEEEccHHHHHHHHHHHHHHHHHHHHHHHHHcHcEEHccccccccccccccccEEEEcccccccccEEccccEEEc

ASVEGFVQHLGLSEDQSVQLIRDAVKYVKEAIVLEekrdpaiasRHVRVAGSlgsygaflhdgseyrgdyidsttpqelidyhRPRIEALIQGGIDLLAIETLPAQEEAMVLAELIKEypglkawisfsckdekhtchgdkfglIARDVYAKNPAQLVAVGVNCLAPHYVESLLTSaevegqslelpvnntlisrkpIQLLSIELELAaagkmpsgttqipfeaplkakpnrslfeTYHGVFVNVQYNLKCELKRSHFNILSKDLQKINEFILENKLylidggfssqlskhvgednvtekdnplwcsaFLHSNRQAVIDTHRDYVRAGCDIVTTNTYQASVEGFVQHLGLSEDQSVQLIRDAVKYVKEAIALEekrdpaiasRHVRVAGSlgsygaflhdgseyrgdyidsttpqelidyhRPRIEALIQGGIDLLAIETLPAQEEAMVLAELIKEypglkawisfsckdekhtchgdkfglIARDVYAKNPAQLVAVGVNCLAPHYVESLLtsagrdvpllccpnsgetfdpgqriwmnkdsvpsvdtyvprwldtgvkyvggccrtnaddmknvnqvpvkfsitpesltnardkfniprfrisghldstecsvvrpfTGEIVIEQTELPIKSVELQLVRVETcgcaegysrdatEIQNIqigegnvftgipipiymvfprlftcptlitsnfkivm

asvegfvqhlglsedqsvQLIRDAVKYVKEAIvleekrdpaiasrHVRVAGSLGSYGAFLHDGSEYRGDYIDSTTPQELIDYHRPRIEALIQGGIDLLAIETLPAQEEAMVLAELIKEYPGLKAWISFSCKDEKHTCHGDKFGLIARDVYAKNPAQLVAVGVNCLAPHYVESLLTSAEVEGQSLELPVNNTLISRKPIQLLSIELELAAAGKMPSGTTQIPFEAPLKAKPNRSLFETYHGVFVNVQYNLKCELKRSHFNILSKDLQKINEFILENKLYLIDGGFSSQLSKHVGEDNVTEKDNPLWCSAFLHSNRQAVIDTHRDYVRAGCDIVTTNTYQASVEGFVQHLGLSEDQSVQLIRDAVKYVKEAIaleekrdpaiasrHVRVAGSLGSYGAFLHDGSEYRGDYIDSTTPQELIDYHRPRIEALIQGGIDLLAIETLPAQEEAMVLAELIKEYPGLKAWISFSCKDEKHTCHGDKFGLIARDVYAKNPAQLVAVGVNCLAPHYVESLLTSAGRDVPLLCCPNSGEtfdpgqriwmnkdsvPSVDTYVPRWLDTGVKYVGGCCRtnaddmknvnqVPVKfsitpesltnardkFNIPRFrisghldstecsvvRPFTGEIVIEQTELPIKSVELQLVRVETCGCAEGYSRDATEIQNIQIGEGNVFTGIPIPIYMVFPRLFTCPTLITSNFKIVM

********HLGLSEDQSVQLIRDAVKYVKEAIVLEEKRDPAIASRHVRVAGSLGSYGAFLHDGSEYRGDYIDSTTPQELIDYHRPRIEALIQGGIDLLAIETLPAQEEAMVLAELIKEYPGLKAWISFSCKDEKHTCHGDKFGLIARDVYAKNPAQLVAVGVNCLAPHYVESLLTSAEVEGQSLELPVNNTLISRKPIQLLSIELELAAAG*******************NRSLFETYHGVFVNVQYNLKCELKRSHFNILSKDLQKINEFILENKLYLIDGGFSSQLSKHVGEDNVTEKDNPLWCSAFLHSNRQAVIDTHRDYVRAGCDIVTTNTYQASVEGFVQHLGLSEDQSVQLIRDAVKYVKEAIALEEKRDPAIASRHVRVAGSLGSYGAFLHDGSEYRGDYIDSTTPQELIDYHRPRIEALIQGGIDLLAIETLPAQEEAMVLAELIKEYPGLKAWISFSCKDEKHTCHGDKFGLIARDVYAKNPAQLVAVGVNCLAPHYVESLLTSAGRDVPLLCCPNSGETFDPGQRIWMNKDSVPSVDTYVPRWLDTGVKYVGGCCRTNADDMKNVNQVPVKFSITPESLTNARDKFNIPRFRISGHLDSTECSVVRPFTGEIVIEQTELPIKSVELQLVRVETCGCAEGYSRDATEIQNIQIGEGNVFTGIPIPIYMVFPRLFTCPTLITSNFKI**

ASVEGFVQHLGLSEDQSVQLIRDAVKYVKEAIVLEEKRDPAIASRHVRVAGSLGSYGAFLHDGSEYRGDYIDSTTPQELIDYHRPRIEALIQGGIDLLAIETLPAQEEAMVLAELIKEYPGLKAWISFSCKDEK*TCHGDKFGLIARDVYAKNPAQLVAVGVNCLAPHYVESLLTSAEVEGQSLELPVNNTLISRKPIQLLSIELELAAAGKMPSGTTQIPFEAPLKAKPNRSLFETYHGVFVNVQYNL**********************ILENKLYLIDGGFSSQLSKHVGEDNVTEKDNPLWCSAFLHSNRQAVIDTHRDYVRAGCDIVTTNTYQASVEGFVQHLGLSEDQSVQLIRDAVKYVKEAIALEEKRDPAIASRHVRVAGSLGSYGAFLHDGSEYRGDYIDSTTPQELIDYHRPRIEALIQGGIDLLAIETLPAQEEAMVLAELIKEYPGLKAWISFSCKDEKHTCHGDKFGLIARDVYAKNPAQLVAVGVNCLAPHYVESLLTSAGRDVPLLCCPNSGETFDPGQRIWMNKDSVPSVDTYVPRWLDTGVKYVGGCCRTNADDMKNVNQVPV***********************SGHLDSTECSVVRPFTGEIVIEQTELPIKSVELQLVRVETCGCAEGYSRDATEIQNIQIGEGNVFTGIPIPIYMVFPRLFTCPTLITSNFKIVM

*SVEGFVQHLGLSEDQSVQLIRDAVKYVKEAIVLEEKRDPAIASRHVRVAGSLGSYGAFLHDGSEYRGDYIDSTTPQELIDYHRPRIEALIQGGIDLLAIETLPAQEEAMVLAELIKEYPGLKAWISFSCKDEKHTCHGDKFGLIARDVYAKNPAQLVAVGVNCLAPHYVESLLTSAEVEGQSLELPVNNTLISRKPIQLLSIELELAAAGKMPSGTTQIPFEAPLKAKPNRSLFETYHGVFVNVQYNLKCELKRSHFNILSKDLQKINEFILENKLYLIDGGFSSQLSKHVGEDNVTEKDNPLWCSAFLHSNRQAVIDTHRDYVRAGCDIVTTNTYQASVEGFVQHLGLSEDQSVQLIRDAVKYVKEAIALEEKRDPAIASRHVRVAGSLGSYGAFLHDGSEYRGDYIDSTTPQELIDYHRPRIEALIQGGIDLLAIETLPAQEEAMVLAELIKEYPGLKAWISFSCKDEKHTCHGDKFGLIARDVYAKNPAQLVAVGVNCLAPHYVESLLTSAGRDVPLLCCPNSGETFDPGQRIWMNKDSVPSVDTYVPRWLDTGVKYVGGCCRTNADDMKNVNQVPVKFSITPESLTNARDKFNIPRFRISGHLDSTECSVVRPFTGEIVIEQTELPIKSVELQLVRVETCGCAEGYSRDATEIQNIQIGEGNVFTGIPIPIYMVFPRLFTCPTLITSNFKIVM

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no confident homologs detected

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Alignment graph	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query		698	2.2.26 [Sep-21-2011]
Q9M1W4		333	Homocysteine S-methyltran	yes	N/A	0.434	0.909	0.341	7e-50
Q9FUM9		339	Homocysteine S-methyltran	N/A	N/A	0.419	0.864	0.372	9e-50
Q4VNK0		346	Selenocysteine Se-methylt	N/A	N/A	0.445	0.898	0.348	1e-49
Q9FUM8		338	Homocysteine S-methyltran	N/A	N/A	0.419	0.866	0.362	3e-49
Q8LAX0		347	Homocysteine S-methyltran	no	N/A	0.419	0.844	0.360	8e-49
Q9FUM7		342	Homocysteine S-methyltran	N/A	N/A	0.418	0.853	0.366	1e-46
O31463		315	Homocysteine S-methyltran	yes	N/A	0.411	0.911	0.349	2e-46
P56707		338	Selenocysteine methyltran	N/A	N/A	0.435	0.899	0.328	7e-46
Q9FUN0		323	Homocysteine S-methyltran	N/A	N/A	0.418	0.904	0.345	2e-45
Q47690		310	Homocysteine S-methyltran	N/A	N/A	0.418	0.941	0.366	4e-45

>sp\|Q9M1W4\|HMT2_ARATH Homocysteine S-methyltransferase 2 OS=Arabidopsis thaliana GN=HMT-2 PE=1 SV=1	Back alignment and function desciption

 Score =  199 bits (505), Expect = 7e-50,   Method: Compositional matrix adjust.
 Identities = 113/331 (34%), Positives = 184/331 (55%), Gaps = 28/331 (8%)

Query: 265 LQKINEFILENKLY-LIDGGFSSQLSKHVGEDNVTEKDNPLWCSAFLHSNRQAVIDTHRD 323
              + +F+ +   Y +IDGG +++  +H  + N     +PLW +  L ++   +   H D
Sbjct: 6   FNSMKDFLKQTGGYAVIDGGLATEFERHGADLN-----DPLWSAKCLVTSPHLIHTVHLD 60

Query: 324 YVRAGCDIVTTNTYQASVEGFVQHLGLSEDQSVQLIRDAVKYVKEAI--------ALEEK 375
           Y+ AG DI+++ +YQA+++GF +  G S ++S  L++ +V+   EA              
Sbjct: 61  YLEAGADIISSASYQATIQGF-EAKGFSREESESLLKKSVEIATEARNSYYDKCGTSSSM 119

Query: 376 RDPAIASRHVRVAGSLGSYGAFLHDGSEYRGDYIDSTTPQELIDYHRPRIEALIQGGIDL 435
            D  +  R + VA S+GSYGA+L DGSEY G Y DS T ++L D+HR R++ L + G DL
Sbjct: 120 DDKILKKRPILVAASVGSYGAYLADGSEYSGIYGDSITLEKLKDFHRRRLQVLAESGADL 179

Query: 436 LAIETLPAQEEAMVLAELIKE----YPGLKAWISFSCKDEKHTCHGDKFGLIARDVYAKN 491
           +A ET+P + EA   A+L++E     PG   W SF+ KD  +   GD          A+N
Sbjct: 180 IAFETIPNKIEAQAFADLLEEGDVKIPG---WFSFNSKDGVNVVSGDSIKECIS--IAEN 234

Query: 492 PAQLVAVGVNCLAPHYVESLLTSAGR--DVPLLCCPNSGETFDPGQRIWMNKDSVPSVD- 548
             ++VAVG+NC  P ++E L+    +    P+L  PNSGE++D  ++ W+    V   D 
Sbjct: 235 CEKVVAVGINCTPPRFIEGLVLEIEKVTSKPILVYPNSGESYDADRKEWVENTGVGDEDF 294

Query: 549 -TYVPRWLDTGVKYVGGCCRTNADDMKNVNQ 578
            +YV +W+D GV  +GGCCRT    ++ +++
Sbjct: 295 VSYVEKWMDAGVSLLGGCCRTTPTTIRAIHK 325

Catalyzes methyl transfer from S-methylmethionine (SMM) to adenosyl-L-homocysteine (AdoMet). SMM degradation (by HMT-1, HMT-2 and HMT-3) and biosynthesis (by MMT1) constitute the SMM cycle in plants, which is probably required to achieve short term control of AdoMet level.
Arabidopsis thaliana (taxid: 3702)
EC: 2EC: .EC: 1EC: .EC: 1EC: .EC: 1EC: 0

>sp\|Q9FUM9\|HMT2_MAIZE Homocysteine S-methyltransferase 2 OS=Zea mays GN=HMT-2 PE=2 SV=1	Back alignment and function description

>sp\|Q4VNK0\|SMTA_BRAOT Selenocysteine Se-methyltransferase OS=Brassica oleracea var. italica GN=SMT PE=1 SV=1	Back alignment and function description

>sp\|Q9FUM8\|HMT3_MAIZE Homocysteine S-methyltransferase 3 OS=Zea mays GN=HMT-3 PE=2 SV=1	Back alignment and function description

>sp\|Q8LAX0\|HMT3_ARATH Homocysteine S-methyltransferase 3 OS=Arabidopsis thaliana GN=HMT3 PE=1 SV=2	Back alignment and function description

>sp\|Q9FUM7\|HMT4_MAIZE Homocysteine S-methyltransferase 4 OS=Zea mays GN=HMT-4 PE=2 SV=1	Back alignment and function description

>sp\|O31463\|HMT_BACSU Homocysteine S-methyltransferase YbgG OS=Bacillus subtilis (strain 168) GN=ybgG PE=4 SV=1	Back alignment and function description

>sp\|P56707\|SMTA_ASTBI Selenocysteine methyltransferase OS=Astragalus bisulcatus GN=SMTA PE=1 SV=1	Back alignment and function description

>sp\|Q9FUN0\|HMT1_MAIZE Homocysteine S-methyltransferase 1 OS=Zea mays GN=HMT-1 PE=2 SV=1	Back alignment and function description

>sp\|Q47690\|MMUM_ECOLI Homocysteine S-methyltransferase OS=Escherichia coli (strain K12) GN=mmuM PE=1 SV=2	Back alignment and function description

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Alignment Graph	Length	Definition	Q cover	H cover	Identity	E-value
Query		698
389611259		343	5-methyltetrahydrofolate [Papilio polyte	0.428	0.871	0.504	7e-82
357606652		341	putative homocysteine S-methyltransferas	0.428	0.876	0.501	1e-80
91080855		313	PREDICTED: similar to homocysteine S-met	0.412	0.920	0.489	5e-75
114052514		325	homocysteine S-methyltransferase [Bombyx	0.424	0.910	0.447	1e-74
242007818		312	Homocysteine S-methyltransferase, putati	0.434	0.971	0.433	2e-74
91083213		348	PREDICTED: similar to homocysteine S-met	0.442	0.887	0.457	9e-73
322800889		318	hypothetical protein SINV_01371 [Solenop	0.425	0.933	0.453	1e-72
307168596		321	Homocysteine S-methyltransferase 3 [Camp	0.425	0.925	0.453	1e-71
332021681		318	Homocysteine S-methyltransferase ybgG [A	0.425	0.933	0.447	3e-71
383862211		325	PREDICTED: homocysteine S-methyltransfer	0.418	0.898	0.438	4e-70

>gi\|389611259\|dbj\|BAM19241.1\| 5-methyltetrahydrofolate [Papilio polytes]	Back alignment and taxonomy information

 Score =  311 bits (798), Expect = 7e-82,   Method: Compositional matrix adjust.
 Identities = 158/313 (50%), Positives = 220/313 (70%), Gaps = 14/313 (4%)

Query: 276 KLYLIDGGFSSQLSKHVGEDNVTEKDNPLWCSAFLHSNRQAVIDTHRDYVRAGCDIVTTN 335
           ++ ++DGGFS+QLS HVG  +V + D PLW + FLH++   V++TH D++RAG  ++ TN
Sbjct: 13  QIVVLDGGFSTQLSCHVG--HVIDGD-PLWSARFLHTHPNEVVNTHLDFLRAGAHLIITN 69

Query: 336 TYQASVEGFVQHLGLSEDQSVQLIRDAVKYVKEAIAL--EEKRDPAIASRHV-RVAGSLG 392
           TYQASV+GFV+HLG+S +Q  +LI  AV+  K A+ L  EE R   I   HV  V GS+G
Sbjct: 70  TYQASVDGFVEHLGVSPEQGYELIVRAVELAKRALNLYLEEYRG-CIQDDHVPLVVGSVG 128

Query: 393 SYGAFLHDGSEYRGDYIDSTTPQELIDYHRPRIEALIQGGIDLLAIETLPAQEEAMVLAE 452
            YGA LHDGSEY G Y D+TT Q + ++HRPRI+AL++ G+DLLA+ET+P QEEA +L +
Sbjct: 129 PYGAHLHDGSEYDGSYADTTTVQTMREWHRPRIQALVEAGVDLLALETIPCQEEAEMLCD 188

Query: 453 LIKEYPGLKAWISFSCKDEKHTCHGDKFGLIARDVYAKNPAQLVAVGVNCLAPHYVESLL 512
           L++E+P +KAW++FSCKD +   HG+ F  +A+  +  NP QLVAVGVNC AP YV +LL
Sbjct: 189 LLREFPNVKAWLAFSCKDNQSIAHGESFQKVAKKCWEANPDQLVAVGVNCCAPSYVSTLL 248

Query: 513 TSAGRD-----VPLLCCPNSGETFDPGQRIWMNKDSVPSVDTYVPRWLDTGVKYVGGCCR 567
                D     +PL+  PNSGE ++P Q  W+++D   +V+ ++  WLD GV+YVGGCCR
Sbjct: 249 KGINDDRPHDPIPLIVYPNSGEKYNP-QIGWIDRDKCEAVEVFIQEWLDLGVRYVGGCCR 307

Query: 568 TNADDMKNV-NQV 579
           T A D+  + NQV
Sbjct: 308 TYATDVSRIRNQV 320

Source: Papilio polytes

Species: Papilio polytes

Genus: Papilio

Family: Papilionidae

Order: Lepidoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi\|357606652\|gb\|EHJ65150.1\| putative homocysteine S-methyltransferase isoform 1 [Danaus plexippus]	Back alignment and taxonomy information

>gi\|91080855\|ref\|XP_971795.1\| PREDICTED: similar to homocysteine S-methyltransferase [Tribolium castaneum] gi\|270005414\|gb\|EFA01862.1\| hypothetical protein TcasGA2_TC007465 [Tribolium castaneum]	Back alignment and taxonomy information

>gi\|114052514\|ref\|NP_001040249.1\| homocysteine S-methyltransferase [Bombyx mori] gi\|87248513\|gb\|ABD36309.1\| homocysteine S-methyltransferase [Bombyx mori]	Back alignment and taxonomy information

>gi\|242007818\|ref\|XP_002424718.1\| Homocysteine S-methyltransferase, putative [Pediculus humanus corporis] gi\|212508211\|gb\|EEB11980.1\| Homocysteine S-methyltransferase, putative [Pediculus humanus corporis]	Back alignment and taxonomy information

>gi\|91083213\|ref\|XP_966501.1\| PREDICTED: similar to homocysteine S-methyltransferase isoform 1 [Tribolium castaneum] gi\|270006942\|gb\|EFA03390.1\| hypothetical protein TcasGA2_TC013376 [Tribolium castaneum]	Back alignment and taxonomy information

>gi\|322800889\|gb\|EFZ21732.1\| hypothetical protein SINV_01371 [Solenopsis invicta]	Back alignment and taxonomy information

>gi\|307168596\|gb\|EFN61654.1\| Homocysteine S-methyltransferase 3 [Camponotus floridanus]	Back alignment and taxonomy information

>gi\|332021681\|gb\|EGI62037.1\| Homocysteine S-methyltransferase ybgG [Acromyrmex echinatior]	Back alignment and taxonomy information

>gi\|383862211\|ref\|XP_003706577.1\| PREDICTED: homocysteine S-methyltransferase 1-like [Megachile rotundata]	Back alignment and taxonomy information

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Alignment graph	Length	Definition	Q cover	H cover	Identity	E-value
Query		698
UNIPROTKB\|E1BSI1		297	DSCR3 "Uncharacterized protein	0.167	0.393	0.666	9.5e-64
UNIPROTKB\|A8MTY9		249	DSCR3 "Down syndrome critical	0.167	0.469	0.649	4e-62
UNIPROTKB\|O14972		297	DSCR3 "Down syndrome critical	0.167	0.393	0.649	4e-62
UNIPROTKB\|E2RM98		297	DSCR3 "Uncharacterized protein	0.167	0.393	0.649	8.6e-62
UNIPROTKB\|A6QLW5		292	DSCR3 "Uncharacterized protein	0.167	0.400	0.658	1e-61
UNIPROTKB\|F1SGV6		297	DSCR3 "Uncharacterized protein	0.167	0.393	0.641	2.5e-61
FB\|FBgn0032726		331	CG10621 [Drosophila melanogast	0.421	0.888	0.404	4.3e-61
MGI\|MGI:1206040		297	Dscr3 "Down syndrome critical	0.167	0.393	0.615	3.5e-60
FB\|FBgn0032727		331	CG10623 [Drosophila melanogast	0.426	0.900	0.417	2.2e-57
ZFIN\|ZDB-GENE-030131-9545		311	zgc:172121 "zgc:172121" [Danio	0.432	0.971	0.382	1.1e-55

UNIPROTKB\|E1BSI1 DSCR3 "Uncharacterized protein" [Gallus gallus (taxid:9031)]	Back alignment and assigned GO terms

 Score = 442 (160.7 bits), Expect = 9.5e-64, Sum P(2) = 9.5e-64
 Identities = 78/117 (66%), Positives = 98/117 (83%)

Query:   580 PVKFSITPESLTNARDKFNIPRFRISGHLDSTECSVVRPFTGEIVIEQTELPIKSVELQL 639
             PV F+ITPE+L N +++ ++P+F I GHL ST C + +P TGE+V+E  E  +KS+ELQL
Sbjct:   154 PVDFTITPETLQNVKERASLPKFLIRGHLSSTNCVITQPLTGELVVESAEAAVKSIELQL 213

Query:   640 VRVETCGCAEGYSRDATEIQNIQIGEGNVFTGIPIPIYMVFPRLFTCPTLITSNFKI 696
             VRVETCGCAEGY+RDATEIQNIQI +G+V  G+PIPIYMVFPRLFTCPTL T+NFK+
Sbjct:   214 VRVETCGCAEGYARDATEIQNIQIADGDVCRGLPIPIYMVFPRLFTCPTLETTNFKV 270

GO:0007034 "vacuolar transport" evidence=IEA

GO:0030904 "retromer complex" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

UNIPROTKB\|A8MTY9 DSCR3 "Down syndrome critical region protein 3" [Homo sapiens (taxid:9606)]	Back alignment and assigned GO terms

UNIPROTKB\|O14972 DSCR3 "Down syndrome critical region protein 3" [Homo sapiens (taxid:9606)]	Back alignment and assigned GO terms

UNIPROTKB\|E2RM98 DSCR3 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]	Back alignment and assigned GO terms

UNIPROTKB\|A6QLW5 DSCR3 "Uncharacterized protein" [Bos taurus (taxid:9913)]	Back alignment and assigned GO terms

UNIPROTKB\|F1SGV6 DSCR3 "Uncharacterized protein" [Sus scrofa (taxid:9823)]	Back alignment and assigned GO terms

FB\|FBgn0032726 CG10621 [Drosophila melanogaster (taxid:7227)]	Back alignment and assigned GO terms

MGI\|MGI:1206040 Dscr3 "Down syndrome critical region gene 3" [Mus musculus (taxid:10090)]	Back alignment and assigned GO terms

FB\|FBgn0032727 CG10623 [Drosophila melanogaster (taxid:7227)]	Back alignment and assigned GO terms

ZFIN\|ZDB-GENE-030131-9545 zgc:172121 "zgc:172121" [Danio rerio (taxid:7955)]	Back alignment and assigned GO terms

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q54DI8	DSCR3_DICDI	No assigned EC number	0.5238	0.1776	0.4078	yes	N/A

EC Number Prediction by EFICAz Software

Prediction Level	EC number	Confidence of Prediction
3rd Layer	2.1.1	0.691
4th Layer	2.1.1.10	LOW CONFIDENCE prediction!

Prediction of Functionally Associated Proteins

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Alignment Graph	Length	Definition	E-value
Query		698
PRK09485		304	PRK09485, mmuM, homocysteine methyltransferase; Pr	1e-98
PLN02489		335	PLN02489, PLN02489, homocysteine S-methyltransfera	5e-77
COG2040		300	COG2040, MHT1, Homocysteine/selenocysteine methyla	4e-63
PRK09485		304	PRK09485, mmuM, homocysteine methyltransferase; Pr	5e-57
pfam02574		303	pfam02574, S-methyl_trans, Homocysteine S-methyltr	3e-55
PLN02489		335	PLN02489, PLN02489, homocysteine S-methyltransfera	2e-42
COG2040		300	COG2040, MHT1, Homocysteine/selenocysteine methyla	2e-28
pfam02574		303	pfam02574, S-methyl_trans, Homocysteine S-methyltr	3e-25
pfam03643		275	pfam03643, Vps26, Vacuolar protein sorting-associa	7e-20
PRK08645		612	PRK08645, PRK08645, bifunctional homocysteine S-me	4e-19
COG0646		311	COG0646, MetH, Methionine synthase I (cobalamin-de	7e-17
pfam03643		275	pfam03643, Vps26, Vacuolar protein sorting-associa	7e-11
TIGR02082		1178	TIGR02082, metH, 5-methyltetrahydrofolate--homocys	2e-10
PRK07534		336	PRK07534, PRK07534, methionine synthase I; Validat	2e-08
PRK09490		1229	PRK09490, metH, B12-dependent methionine synthase;	2e-07
COG0646		311	COG0646, MetH, Methionine synthase I (cobalamin-de	1e-04
PRK08645		612	PRK08645, PRK08645, bifunctional homocysteine S-me	3e-04

>gnl\|CDD\|181899 PRK09485, mmuM, homocysteine methyltransferase; Provisional	Back alignment and domain information

 Score =  305 bits (783), Expect = 1e-98
 Identities = 125/315 (39%), Positives = 177/315 (56%), Gaps = 20/315 (6%)

Query: 267 KINEFILENKLYLIDGGFSSQLSKHVGEDNVTEKDNPLWCSAFLHSNRQAVIDTHRDYVR 326
              E + +  + ++DG  +++L    G D     ++ LW +  L  N + +   H DY R
Sbjct: 3   PFKELLAQGPVLILDGALATELEAR-GCD----LNDSLWSAKVLLENPELIYQVHLDYFR 57

Query: 327 AGCDIVTTNTYQASVEGFVQHLGLSEDQSVQLIRDAVKYVKEAIALEEKRDPAIASRHVR 386
           AG D   T +YQA+ +GF    GLSE ++ +LIR +V+  KEA      RD   A + + 
Sbjct: 58  AGADCAITASYQATFQGFAAR-GLSEAEAEELIRRSVELAKEA------RDEFWAEKPL- 109

Query: 387 VAGSLGSYGAFLHDGSEYRGDYIDSTTPQELIDYHRPRIEALIQGGIDLLAIETLPAQEE 446
           VAGS+G YGA+L DGSEYRGDY    + +EL D+HRPRIEAL + G DLLA ET+P  +E
Sbjct: 110 VAGSVGPYGAYLADGSEYRGDY--GLSEEELQDFHRPRIEALAEAGADLLACETIPNLDE 167

Query: 447 AMVLAELIK-EYPGLKAWISFSCKDEKHTCHGDKFGLIARDVYAKNPAQLVAVGVNCLAP 505
           A  L EL+K E+PG+ AW+SF+ +D  H   G      A  + A +P Q+VAVGVNC AP
Sbjct: 168 AEALVELLKEEFPGVPAWLSFTLRDGTHISDGTPLAEAAA-LLAASP-QVVAVGVNCTAP 225

Query: 506 HYVESLLTSAGR--DVPLLCCPNSGETFDPGQRIWMNKDSVPSVDTYVPRWLDTGVKYVG 563
             V + + +     D PL+  PNSGE +D   + W       S+    P W   G + +G
Sbjct: 226 ELVTAAIAALRAVTDKPLVVYPNSGEVYDAVTKTWHGPADDASLGELAPEWYAAGARLIG 285

Query: 564 GCCRTNADDMKNVNQ 578
           GCCRT  +D+  +  
Sbjct: 286 GCCRTTPEDIAALAA 300

Length = 304

>gnl\|CDD\|215269 PLN02489, PLN02489, homocysteine S-methyltransferase	Back alignment and domain information

>gnl\|CDD\|224951 COG2040, MHT1, Homocysteine/selenocysteine methylase (S-methylmethionine-dependent) [Amino acid transport and metabolism]	Back alignment and domain information

>gnl\|CDD\|181899 PRK09485, mmuM, homocysteine methyltransferase; Provisional	Back alignment and domain information

>gnl\|CDD\|217114 pfam02574, S-methyl_trans, Homocysteine S-methyltransferase	Back alignment and domain information

>gnl\|CDD\|215269 PLN02489, PLN02489, homocysteine S-methyltransferase	Back alignment and domain information

>gnl\|CDD\|224951 COG2040, MHT1, Homocysteine/selenocysteine methylase (S-methylmethionine-dependent) [Amino acid transport and metabolism]	Back alignment and domain information

>gnl\|CDD\|217114 pfam02574, S-methyl_trans, Homocysteine S-methyltransferase	Back alignment and domain information

>gnl\|CDD\|146336 pfam03643, Vps26, Vacuolar protein sorting-associated protein 26	Back alignment and domain information

>gnl\|CDD\|236321 PRK08645, PRK08645, bifunctional homocysteine S-methyltransferase/5,10-methylenetetrahydrofolate reductase protein; Reviewed	Back alignment and domain information

>gnl\|CDD\|223719 COG0646, MetH, Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]	Back alignment and domain information

>gnl\|CDD\|146336 pfam03643, Vps26, Vacuolar protein sorting-associated protein 26	Back alignment and domain information

>gnl\|CDD\|233714 TIGR02082, metH, 5-methyltetrahydrofolate--homocysteine methyltransferase	Back alignment and domain information

>gnl\|CDD\|236045 PRK07534, PRK07534, methionine synthase I; Validated	Back alignment and domain information

>gnl\|CDD\|236539 PRK09490, metH, B12-dependent methionine synthase; Provisional	Back alignment and domain information

>gnl\|CDD\|223719 COG0646, MetH, Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]	Back alignment and domain information

>gnl\|CDD\|236321 PRK08645, PRK08645, bifunctional homocysteine S-methyltransferase/5,10-methylenetetrahydrofolate reductase protein; Reviewed	Back alignment and domain information

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Alignment Graph	Length	Definition	Probability
Query		698
COG0646		311	MetH Methionine synthase I (cobalamin-dependent),	100.0
PRK09490		1229	metH B12-dependent methionine synthase; Provisiona	100.0
TIGR02082		1178	metH 5-methyltetrahydrofolate--homocysteine methyl	100.0
PLN02489		335	homocysteine S-methyltransferase	100.0
PRK09485		304	mmuM homocysteine methyltransferase; Provisional	100.0
KOG1579\|consensus		317		100.0
COG2040		300	MHT1 Homocysteine/selenocysteine methylase (S-meth	100.0
PRK07534		336	methionine synthase I; Validated	100.0
PF02574		305	S-methyl_trans: Homocysteine S-methyltransferase;	100.0
PRK08645		612	bifunctional homocysteine S-methyltransferase/5,10	100.0
COG0646		311	MetH Methionine synthase I (cobalamin-dependent),	100.0
PLN02489		335	homocysteine S-methyltransferase	100.0
PRK09485		304	mmuM homocysteine methyltransferase; Provisional	100.0
PRK09490		1229	metH B12-dependent methionine synthase; Provisiona	100.0
PRK07534		336	methionine synthase I; Validated	100.0
KOG1579\|consensus		317		100.0
TIGR02082		1178	metH 5-methyltetrahydrofolate--homocysteine methyl	100.0
PF02574		305	S-methyl_trans: Homocysteine S-methyltransferase;	100.0
COG2040		300	MHT1 Homocysteine/selenocysteine methylase (S-meth	100.0
KOG2717\|consensus		313		100.0
PRK08645		612	bifunctional homocysteine S-methyltransferase/5,10	100.0
PF03643		275	Vps26: Vacuolar protein sorting-associated protein	99.75
KOG2717\|consensus		313		98.05
COG1410		842	MetH Methionine synthase I, cobalamin-binding doma	97.72
PF03437		254	BtpA: BtpA family; InterPro: IPR005137 Photosystem	94.81
cd00408		281	DHDPS-like Dihydrodipicolinate synthase family. A	92.83
cd00952		309	CHBPH_aldolase Trans-o-hydroxybenzylidenepyruvate	92.65
PF00701		289	DHDPS: Dihydrodipicolinate synthetase family; Inte	92.52
TIGR03249		296	KdgD 5-dehydro-4-deoxyglucarate dehydratase. 5-deh	92.3
TIGR00683		290	nanA N-acetylneuraminate lyase. N-acetylneuraminat	92.1
cd00945		201	Aldolase_Class_I Class I aldolases. The class I al	91.87
PRK03620		303	5-dehydro-4-deoxyglucarate dehydratase; Provisiona	91.23
cd00950		284	DHDPS Dihydrodipicolinate synthase (DHDPS) is a ke	91.18
cd00951		289	KDGDH 5-dehydro-4-deoxyglucarate dehydratase, also	91.0
PRK03170		292	dihydrodipicolinate synthase; Provisional	90.64
TIGR00674		285	dapA dihydrodipicolinate synthase. Dihydrodipicoli	90.6
COG0329		299	DapA Dihydrodipicolinate synthase/N-acetylneuramin	89.58
TIGR00259		257	thylakoid_BtpA membrane complex biogenesis protein	88.82
TIGR00222		263	panB 3-methyl-2-oxobutanoate hydroxymethyltransfer	88.64
PRK04147		293	N-acetylneuraminate lyase; Provisional	88.59
cd00954		288	NAL N-Acetylneuraminic acid aldolase, also called	88.04
cd00377		243	ICL_PEPM Members of the ICL/PEPM enzyme family cat	87.87
PRK13384		322	delta-aminolevulinic acid dehydratase; Provisional	87.4
TIGR01037		300	pyrD_sub1_fam dihydroorotate dehydrogenase (subfam	87.16
cd00739		257	DHPS DHPS subgroup of Pterin binding enzymes. DHPS	87.03
PF00490		324	ALAD: Delta-aminolevulinic acid dehydratase; Inter	86.34
TIGR02313		294	HpaI-NOT-DapA 2,4-dihydroxyhept-2-ene-1,7-dioic ac	85.53
PRK15063		428	isocitrate lyase; Provisional	85.51
cd04740		296	DHOD_1B_like Dihydroorotate dehydrogenase (DHOD) c	85.23
cd00377		243	ICL_PEPM Members of the ICL/PEPM enzyme family cat	85.1
PRK03620		303	5-dehydro-4-deoxyglucarate dehydratase; Provisiona	84.78
cd04823		320	ALAD_PBGS_aspartate_rich Porphobilinogen synthase	84.05
cd06556		240	ICL_KPHMT Members of the ICL/PEPM_KPHMT enzyme sup	82.89
TIGR03249		296	KdgD 5-dehydro-4-deoxyglucarate dehydratase. 5-deh	82.84
cd06557		254	KPHMT-like Ketopantoate hydroxymethyltransferase (	82.76
cd00384		314	ALAD_PBGS Porphobilinogen synthase (PBGS), which i	82.72
cd00408		281	DHDPS-like Dihydrodipicolinate synthase family. A	82.26
PF03437		254	BtpA: BtpA family; InterPro: IPR005137 Photosystem	81.37
PF00490		324	ALAD: Delta-aminolevulinic acid dehydratase; Inter	81.36
PRK09283		323	delta-aminolevulinic acid dehydratase; Validated	81.34
PRK05581		220	ribulose-phosphate 3-epimerase; Validated	81.3
cd06557		254	KPHMT-like Ketopantoate hydroxymethyltransferase (	80.98
cd04823		320	ALAD_PBGS_aspartate_rich Porphobilinogen synthase	80.91
TIGR00737		319	nifR3_yhdG putative TIM-barrel protein, nifR3 fami	80.8
TIGR01769		205	GGGP geranylgeranylglyceryl phosphate synthase. Th	80.6
PRK05692		287	hydroxymethylglutaryl-CoA lyase; Provisional	80.47
cd02810		289	DHOD_DHPD_FMN Dihydroorotate dehydrogenase (DHOD)	80.35
PRK00865		261	glutamate racemase; Provisional	80.2
TIGR00683		290	nanA N-acetylneuraminate lyase. N-acetylneuraminat	80.14

>COG0646 MetH Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]	Back alignment and domain information

Probab=100.00  E-value=3.9e-75  Score=593.79  Aligned_cols=294  Identities=25%  Similarity=0.358  Sum_probs=264.2

Q ss_pred             HHHHHhhCceEEEecccccccccccCCCCcCcCCCcccchhhcccChHHHHHHHHHHHHHhcchhhcccccCChhchHhh
Q psy13907        268 INEFILENKLYLIDGGFSSQLSKHVGEDNVTEKDNPLWCSAFLHSNRQAVIDTHRDYVRAGCDIVTTNTYQASVEGFVQH  347 (698)
Q Consensus       268 ~~~~~~~~~~~i~dG~~gt~l~~~~g~~~~~~~~~~lws~~~~l~~Pe~V~~iH~~yl~AGAdII~TNTf~as~~~l~~~  347 (698)
                      +.+ .++++|+|+||+|||+||++ |+++.|+++-.-..++|++|+||+|++||++|++||||||+||||++|+.+|++|
T Consensus         8 l~~-~l~~rVLv~DGAmGT~lq~~-~l~~~df~g~~g~nE~LnlT~Pd~I~~IH~aY~eAGADiIeTNTFgat~i~lady   85 (311)
T COG0646           8 LRE-ALKERVLVLDGAMGTMLQSY-GLDEADFRGLKGNNELLNLTKPDVIEAIHRAYIEAGADIIETNTFGATTIKLADY   85 (311)
T ss_pred             HHH-HHHcCEEEeechhhhhHHhc-CCcHHhhccccCChHHHhcCCcHHHHHHHHHHHhccCcEEEecCCCcchhhHhhh
Confidence            444 47899999999999999999 9997666543344599999999999999999999999999999999999999997


Q ss_pred             cCCCHHHHHHHHHHHHHHHHHHHHHhhccCCccCCCCcEEEEecCCcCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHH
Q psy13907        348 LGLSEDQSVQLIRDAVKYVKEAIALEEKRDPAIASRHVRVAGSLGSYGAFLHDGSEYRGDYIDSTTPQELIDYHRPRIEA  427 (698)
Q Consensus       348 ~g~~~~~~~eln~~av~lAr~A~~~~~~~~~~~~~~~~~VAGsiGP~~~~l~~~~ey~g~y~~~~t~del~~~y~~qi~~  427 (698)
                       ++ ++++++||++|++|||+|++++.  +   + +++||||||||++.+++.-    |++  ++|||++++.|++|+++
T Consensus        86 -~l-ed~v~~in~~aa~iAR~aA~~~~--~---~-k~rfVaGsiGPt~k~~~~~----~~~--~v~fd~l~~ay~eq~~~  151 (311)
T COG0646          86 -GL-EDKVYEINQKAARIARRAADEAG--D---P-KPRFVAGSIGPTNKTLSIS----PDF--AVTFDELVEAYREQVEG  151 (311)
T ss_pred             -Ch-HHHHHHHHHHHHHHHHHHHhhcC--C---C-CceEEEEeccCcCCcCCcC----Ccc--cccHHHHHHHHHHHHHH
Confidence             99 99999999999999999999874  2   3 6899999999999655442    222  69999999999999999


Q ss_pred             HHhCCCCEEEecccCCHHHHHHHHHHHHhcCC-----CeEEEEEEecCCCccCCCCcHHHHHHHHHHhCCCCceEEEEcC
Q psy13907        428 LIQGGIDLLAIETLPAQEEAMVLAELIKEYPG-----LKAWISFSCKDEKHTCHGDKFGLIARDVYAKNPAQLVAVGVNC  502 (698)
Q Consensus       428 L~~~GvDlll~ETi~~~~Eakaa~~a~~~~~~-----~Pv~iS~t~~~~g~l~~G~~l~~~v~~~~~~~~~~~~~iGlNC  502 (698)
                      |+++|||+||+||++|++|+|+|++++++.++     +|||+|.|+.+.|++++|+++.+....+.   +.++++||+||
T Consensus       152 Li~gG~D~iLiET~~D~l~~KaA~~a~~~~~~~~~~~LPv~~s~Ti~~sG~tl~Gq~~~a~~~~l~---~~~~~~vGlNC  228 (311)
T COG0646         152 LIDGGADLILIETIFDTLNAKAAVFAAREVFEELGVRLPVMISGTITDSGRTLSGQTIEAFLNSLE---HLGPDAVGLNC  228 (311)
T ss_pred             HHhCCCcEEEEehhccHHHHHHHHHHHHHHHHhcCCcccEEEEEEEecCceecCCCcHHHHHHHhh---ccCCcEEeecc
Confidence            99999999999999999999999999997654     99999999999999999999887777664   46799999999


Q ss_pred             -CChhhhHHHHHHhc--CCCCEEEecCCCCCcCCCCcc-cccCCChhhHHHHHHHHHHcC-CeEEeecCCCchHHHHHHH
Q psy13907        503 -LAPHYVESLLTSAG--RDVPLLCCPNSGETFDPGQRI-WMNKDSVPSVDTYVPRWLDTG-VKYVGGCCRTNADDMKNVN  577 (698)
Q Consensus       503 -~~p~~~~~~l~~l~--~~~pl~~yPNaG~~~d~~~g~-~~~~~~p~~~a~~~~~~~~~G-~~iiGGCCGTtP~hI~al~  577 (698)
                       +||+.|+++|+.++  ++.+|+||||||+|+  ..|+ ..|+++|+.|+++++.|++.| +|||||||||||+||++|+
T Consensus       229 a~Gp~~m~~~l~~ls~~~~~~vs~~PNAGLP~--~~g~~~~Y~~~p~~~a~~~~~f~~~g~vnIvGGCCGTTPeHIraia  306 (311)
T COG0646         229 ALGPDEMRPHLRELSRIADAFVSVYPNAGLPN--AFGERAVYDLTPEYMAEALAEFAEEGGVNIVGGCCGTTPEHIRAIA  306 (311)
T ss_pred             ccCHHHHHHHHHHHHhccCceEEEeCCCCCCc--ccCCccccCCCHHHHHHHHHHHHHhCCceeeccccCCCHHHHHHHH
Confidence             99999999999998  899999999999998  4443 446999999999999999998 9999999999999999999


Q ss_pred             hcccc
Q psy13907        578 QVPVK  582 (698)
Q Consensus       578 ~~v~~  582 (698)
                      +++++
T Consensus       307 ~~v~~  311 (311)
T COG0646         307 EAVKG  311 (311)
T ss_pred             HHhcC
Confidence            99864

>PRK09490 metH B12-dependent methionine synthase; Provisional	Back alignment and domain information

>TIGR02082 metH 5-methyltetrahydrofolate--homocysteine methyltransferase	Back alignment and domain information

>PLN02489 homocysteine S-methyltransferase	Back alignment and domain information

>PRK09485 mmuM homocysteine methyltransferase; Provisional	Back alignment and domain information

>KOG1579\|consensus	Back alignment and domain information

>COG2040 MHT1 Homocysteine/selenocysteine methylase (S-methylmethionine-dependent) [Amino acid transport and metabolism]	Back alignment and domain information

>PRK07534 methionine synthase I; Validated	Back alignment and domain information

>PF02574 S-methyl_trans: Homocysteine S-methyltransferase; InterPro: IPR003726 S-methylmethionine: homocysteine methyltransferase 2	Back alignment and domain information

>PRK08645 bifunctional homocysteine S-methyltransferase/5,10-methylenetetrahydrofolate reductase protein; Reviewed	Back alignment and domain information

>COG0646 MetH Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]	Back alignment and domain information

>PLN02489 homocysteine S-methyltransferase	Back alignment and domain information

>PRK09485 mmuM homocysteine methyltransferase; Provisional	Back alignment and domain information

>PRK09490 metH B12-dependent methionine synthase; Provisional	Back alignment and domain information

>PRK07534 methionine synthase I; Validated	Back alignment and domain information

>KOG1579\|consensus	Back alignment and domain information

>TIGR02082 metH 5-methyltetrahydrofolate--homocysteine methyltransferase	Back alignment and domain information

>PF02574 S-methyl_trans: Homocysteine S-methyltransferase; InterPro: IPR003726 S-methylmethionine: homocysteine methyltransferase 2	Back alignment and domain information

>COG2040 MHT1 Homocysteine/selenocysteine methylase (S-methylmethionine-dependent) [Amino acid transport and metabolism]	Back alignment and domain information

>KOG2717\|consensus	Back alignment and domain information

>PRK08645 bifunctional homocysteine S-methyltransferase/5,10-methylenetetrahydrofolate reductase protein; Reviewed	Back alignment and domain information

>PF03643 Vps26: Vacuolar protein sorting-associated protein 26 ; InterPro: IPR005377 The movement of lipid and protein components between intracellular organelles requires the regulated interactions of many molecules	Back alignment and domain information

>KOG2717\|consensus	Back alignment and domain information

>COG1410 MetH Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]	Back alignment and domain information

>PF03437 BtpA: BtpA family; InterPro: IPR005137 Photosystem I (PSI) is a large protein complex embedded within the photosynthetic thylakoid membrane	Back alignment and domain information

>cd00408 DHDPS-like Dihydrodipicolinate synthase family	Back alignment and domain information

>cd00952 CHBPH_aldolase Trans-o-hydroxybenzylidenepyruvate hydratase-aldolase (HBPHA) and trans-2'-carboxybenzalpyruvate hydratase-aldolase (CBPHA)	Back alignment and domain information

>PF00701 DHDPS: Dihydrodipicolinate synthetase family; InterPro: IPR002220 Dihydropicolinate synthase (DHDPS) is the key enzyme in lysine biosynthesis via the diaminopimelate pathway of prokaryotes, some phycomycetes and higher plants	Back alignment and domain information

>TIGR03249 KdgD 5-dehydro-4-deoxyglucarate dehydratase	Back alignment and domain information

>TIGR00683 nanA N-acetylneuraminate lyase	Back alignment and domain information

>cd00945 Aldolase_Class_I Class I aldolases	Back alignment and domain information

>PRK03620 5-dehydro-4-deoxyglucarate dehydratase; Provisional	Back alignment and domain information

>cd00950 DHDPS Dihydrodipicolinate synthase (DHDPS) is a key enzyme in lysine biosynthesis	Back alignment and domain information

>cd00951 KDGDH 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH), which is member of dihydrodipicolinate synthase (DHDPS) family that comprises several pyruvate-dependent class I aldolases	Back alignment and domain information

>PRK03170 dihydrodipicolinate synthase; Provisional	Back alignment and domain information

>TIGR00674 dapA dihydrodipicolinate synthase	Back alignment and domain information

>COG0329 DapA Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]	Back alignment and domain information

>TIGR00259 thylakoid_BtpA membrane complex biogenesis protein, BtpA family	Back alignment and domain information

>TIGR00222 panB 3-methyl-2-oxobutanoate hydroxymethyltransferase	Back alignment and domain information

>PRK04147 N-acetylneuraminate lyase; Provisional	Back alignment and domain information

>cd00954 NAL N-Acetylneuraminic acid aldolase, also called N-acetylneuraminate lyase (NAL), which catalyses the reversible aldol reaction of N-acetyl-D-mannosamine and pyruvate to give N-acetyl-D-neuraminic acid (D-sialic acid)	Back alignment and domain information

>cd00377 ICL_PEPM Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage	Back alignment and domain information

>PRK13384 delta-aminolevulinic acid dehydratase; Provisional	Back alignment and domain information

>TIGR01037 pyrD_sub1_fam dihydroorotate dehydrogenase (subfamily 1) family protein	Back alignment and domain information

>cd00739 DHPS DHPS subgroup of Pterin binding enzymes	Back alignment and domain information

>PF00490 ALAD: Delta-aminolevulinic acid dehydratase; InterPro: IPR001731 Tetrapyrroles are large macrocyclic compounds derived from a common biosynthetic pathway []	Back alignment and domain information

>TIGR02313 HpaI-NOT-DapA 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase	Back alignment and domain information

>PRK15063 isocitrate lyase; Provisional	Back alignment and domain information

>cd04740 DHOD_1B_like Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain	Back alignment and domain information

>cd00377 ICL_PEPM Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage	Back alignment and domain information

>PRK03620 5-dehydro-4-deoxyglucarate dehydratase; Provisional	Back alignment and domain information

>cd04823 ALAD_PBGS_aspartate_rich Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the biosynthesis of tetrapyrroles, such as heme, vitamin B12 and chlorophyll	Back alignment and domain information

>cd06556 ICL_KPHMT Members of the ICL/PEPM_KPHMT enzyme superfamily catalyze the formation and cleavage of either P-C or C-C bonds	Back alignment and domain information

>TIGR03249 KdgD 5-dehydro-4-deoxyglucarate dehydratase	Back alignment and domain information

>cd06557 KPHMT-like Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway	Back alignment and domain information

>cd00384 ALAD_PBGS Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the biosynthesis of tetrapyrroles, such as heme, vitamin B12 and chlorophyll	Back alignment and domain information

>cd00408 DHDPS-like Dihydrodipicolinate synthase family	Back alignment and domain information

>PF03437 BtpA: BtpA family; InterPro: IPR005137 Photosystem I (PSI) is a large protein complex embedded within the photosynthetic thylakoid membrane	Back alignment and domain information

>PF00490 ALAD: Delta-aminolevulinic acid dehydratase; InterPro: IPR001731 Tetrapyrroles are large macrocyclic compounds derived from a common biosynthetic pathway []	Back alignment and domain information

>PRK09283 delta-aminolevulinic acid dehydratase; Validated	Back alignment and domain information

>PRK05581 ribulose-phosphate 3-epimerase; Validated	Back alignment and domain information

>cd06557 KPHMT-like Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway	Back alignment and domain information

>cd04823 ALAD_PBGS_aspartate_rich Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the biosynthesis of tetrapyrroles, such as heme, vitamin B12 and chlorophyll	Back alignment and domain information

>TIGR00737 nifR3_yhdG putative TIM-barrel protein, nifR3 family	Back alignment and domain information

>TIGR01769 GGGP geranylgeranylglyceryl phosphate synthase	Back alignment and domain information

>PRK05692 hydroxymethylglutaryl-CoA lyase; Provisional	Back alignment and domain information

>cd02810 DHOD_DHPD_FMN Dihydroorotate dehydrogenase (DHOD) and Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain	Back alignment and domain information

>PRK00865 glutamate racemase; Provisional	Back alignment and domain information

>TIGR00683 nanA N-acetylneuraminate lyase	Back alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Alignment Graph	Length	Definition	E-value
Query		698
1q7m_A		566	Cobalamin-Dependent Methionine Synthase (Meth) From		3e-11
1q85_A		566	Cobalamin-Dependent Methionine Synthase (1-566) Fro		6e-11
1umy_A		407	Bhmt From Rat Liver Length = 407		4e-05
1lt7_A		406	Oxidized Homo Sapiens Betaine-Homocysteine S-Methyl		5e-04

>pdb|1Q7M|A Chain A, Cobalamin-Dependent Methionine Synthase (Meth) From Thermotoga Maritima (Oxidized, Monoclinic) Length = 566

Back alignment and structure

Iteration: 1

Score = 67.0 bits (162), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 80/326 (24%), Positives = 141/326 (43%), Gaps = 67/326 (20%) Query: 272 ILENKLYLIDGGFSSQLSKHVGEDNVTEKDNPLWCSAFLHSNRQAVIDTHRDYVRAGCDI 331 +L ++ L+DG + ++ K+ G D++ E+ N V+ HR Y+ +G D+ Sbjct: 10 LLSERVLLLDGAYGTEFMKY-GYDDLPEELN--------IKAPDVVLKVHRSYIESGSDV 60 Query: 332 VTTNTYQASVEGFVQHLGLSEDQSVQLIRDAVKYVKEAIALEEKRDPAIASRHVRVAGSL 391 + TNT+ A+ +H GL ED+ ++R+AV+ + A EK V G + Sbjct: 61 ILTNTFGATRMKLRKH-GL-EDKLDPIVRNAVRIARRAAG--EK----------LVFGDI 106 Query: 392 GSYGAFLHDGSEYRGDYIDSTTPQELIDYHRPRIEALIQGGIDLLAIETLPAQEE---AM 448 G G + + ST +E + R +E +++ G+D + ET E A+ Sbjct: 107 GPTGELPYP--------LGSTLFEEFYENFRETVEIMVEEGVDGIIFETFSDILELKAAV 158 Query: 449 VLAELIKEYPGLKAWISFSCKDEKHTCHGDKFGLIARDVYAKNPAQLV---------AVG 499 + A + L A ++F DEK R + +PA A+G Sbjct: 159 LAAREVSRDVFLIAHMTF---DEK-----------GRSLTGTDPANFAITFDELDIDALG 204 Query: 500 VNC-LAPHYVESLLTSAGR--DVPLLCCPNSGETF-DPGQRIWMNK--DSVPSVDTYVPR 553 +NC L P + + + D L+ PN+G+ + G+ ++ K D +D+Y Sbjct: 205 INCSLGPEEILPIFQELSQYTDKFLVVEPNAGKPIVENGKTVYPLKPHDFAVHIDSY--- 261 Query: 554 WLDTGVKYVGGCCRTNADDMKNVNQV 579 + GV GGCC T + +K +V Sbjct: 262 -YELGVNIFGGCCGTTPEHVKLFRKV 286

PyMOL of 1q7m

>pdb|1Q85|A Chain A, Cobalamin-Dependent Methionine Synthase (1-566) From Thermotoga Maritima (Cd2+ Complex, Se-Met) Length = 566

Back alignment and structure

>pdb|1UMY|A Chain A, Bhmt From Rat Liver Length = 407

Back alignment and structure

>pdb|1LT7|A Chain A, Oxidized Homo Sapiens Betaine-Homocysteine S-Methyltransferase In Complex With Four Sm(Iii) Ions Length = 406

Back alignment and structure

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Alignment Graph	Length	Definition	E-value
Query		698
1lt8_A		406	Betaine-homocysteine methyltransferase; homocystei	2e-33
1lt8_A		406	Betaine-homocysteine methyltransferase; homocystei	3e-10
2fau_A		341	Vacuolar protein sorting 26; arrestin, retromer, p	3e-33
2fau_A		341	Vacuolar protein sorting 26; arrestin, retromer, p	4e-11
2r51_A		340	Vacuolar protein sorting-associated protein 26B; r	2e-32
2r51_A		340	Vacuolar protein sorting-associated protein 26B; r	1e-11
1q7z_A		566	5-methyltetrahydrofolate S-homocysteine methyltran	7e-20
1q7z_A		566	5-methyltetrahydrofolate S-homocysteine methyltran	7e-04
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-10
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	5e-08

>1lt8_A Betaine-homocysteine methyltransferase; homocysteine metabolism, homocysteinemia, zinc, thiol alkyl transfer; HET: CBH CIT; 2.05A {Homo sapiens} SCOP: c.1.26.1 PDB: 1lt7_A* 1umy_A Length = 406	Back alignment and structure

 Score =  131 bits (332), Expect = 2e-33
 Identities = 58/329 (17%), Positives = 109/329 (33%), Gaps = 57/329 (17%)

Query: 266 QKINEFILENKLYLIDGGFSSQLSKHVGEDNVTEKD--NPLWCSAFLHSNRQAVIDTHRD 323
           + I E +   ++ + DGGF   L K        +     P         + +AV   HR+
Sbjct: 11  KGILERLNAGEIVIGDGGFVFALEKR----GYVKAGPWTPEAA----VEHPEAVRQLHRE 62

Query: 324 YVRAGCDIVTTNTYQASVEGFVQH--LGLSEDQSVQLIRDAVKYVKEAIALEEKRDPAIA 381
           ++RAG +++ T T+ AS +         L +    ++   A    ++             
Sbjct: 63  FLRAGSNVMQTFTFYASEDKLENRGNYVLEKISGQEVNEAAADIARQ----------VAD 112

Query: 382 SRHVRVAGSLGSYGAFLHDGSEYRGDYIDSTTPQELIDYHRPRIEALIQGGIDLLAIETL 441
                VAG +    ++L              +  E+      ++E  ++  +D L  E  
Sbjct: 113 EGDALVAGGVSQTPSYLSA-----------KSETEVKKVFLQQLEVFMKKNVDFLIAEYF 161

Query: 442 PAQEEAMVLAELIKEYPGLKAWISFSCKDEKHTCHGDKFGLIARDVYAKNPAQLVAVGVN 501
              EEA+   E +    G     + +    +   HG               A    +GVN
Sbjct: 162 EHVEEAVWAVETLIAS-GKPVAATMAI-GPEGDLHG---VPPGEAAVRLVKAGASIIGVN 216

Query: 502 C------LAPH--YVESLLTSAGRDVPLLCCPNSGETFDPGQRIWMNKDSVPS------- 546
           C             ++  L +A     L+  P +  T D  ++ +++    P        
Sbjct: 217 CHFDPTISLKTVKLMKEGLEAAQLKAHLMSQPLAYHTPDANKQGFIDLPEFPFGLEPRVA 276

Query: 547 ----VDTYVPRWLDTGVKYVGGCCRTNAD 571
               +  Y     + GV+Y+GGCC     
Sbjct: 277 TRWDIQKYAREAYNLGVRYIGGCCGFEPY 305

PyMOL of 1lt8

>1lt8_A Betaine-homocysteine methyltransferase; homocysteine metabolism, homocysteinemia, zinc, thiol alkyl transfer; HET: CBH CIT; 2.05A {Homo sapiens} SCOP: c.1.26.1 PDB: 1lt7_A* 1umy_A Length = 406	Back alignment and structure

>2fau_A Vacuolar protein sorting 26; arrestin, retromer, protein transport; HET: CAF; 2.10A {Homo sapiens} Length = 341	Back alignment and structure

>2fau_A Vacuolar protein sorting 26; arrestin, retromer, protein transport; HET: CAF; 2.10A {Homo sapiens} Length = 341	Back alignment and structure

>2r51_A Vacuolar protein sorting-associated protein 26B; retromer, fibronectin III, arrestin domain, membrane, phosphorylation, protein transport; 2.10A {Mus musculus} PDB: 3lh9_A 3lh8_A 3lha_A Length = 340	Back alignment and structure

>2r51_A Vacuolar protein sorting-associated protein 26B; retromer, fibronectin III, arrestin domain, membrane, phosphorylation, protein transport; 2.10A {Mus musculus} PDB: 3lh9_A 3lh8_A 3lha_A Length = 340	Back alignment and structure

>1q7z_A 5-methyltetrahydrofolate S-homocysteine methyltransferase; methionine, cobalamin, vitamin B12; 1.70A {Thermotoga maritima} SCOP: c.1.21.2 c.1.26.1 PDB: 1q7q_A 1q7m_A 1q85_A 1q8a_A 1q8j_A* 3bof_A 3bol_A Length = 566	Back alignment and structure

>1q7z_A 5-methyltetrahydrofolate S-homocysteine methyltransferase; methionine, cobalamin, vitamin B12; 1.70A {Thermotoga maritima} SCOP: c.1.21.2 c.1.26.1 PDB: 1q7q_A 1q7m_A 1q85_A 1q8a_A 1q8j_A* 3bof_A 3bol_A Length = 566	Back alignment and structure

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221	Back alignment and structure

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221	Back alignment and structure

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Alignment Graph	Length	Definition	Probability
Query		698
1q7z_A		566	5-methyltetrahydrofolate S-homocysteine methyltran	100.0
1lt8_A		406	Betaine-homocysteine methyltransferase; homocystei	100.0
1q7z_A		566	5-methyltetrahydrofolate S-homocysteine methyltran	100.0
1lt8_A		406	Betaine-homocysteine methyltransferase; homocystei	100.0
2r51_A		340	Vacuolar protein sorting-associated protein 26B; r	99.4
2fau_A		341	Vacuolar protein sorting 26; arrestin, retromer, p	99.35
3cpr_A		304	Dihydrodipicolinate synthetase; (beta/alpha)8-barr	94.24
1xky_A		301	Dihydrodipicolinate synthase; TIM barrel, , lysine	93.91
2vc6_A		292	MOSA, dihydrodipicolinate synthase; DHDPS, TIM bar	93.61
1w3i_A		293	EDA, 2-keto-3-deoxy gluconate aldolase; archaeal m	93.51
2ehh_A		294	DHDPS, dihydrodipicolinate synthase; structural ge	93.48
2yxg_A		289	DHDPS, dihydrodipicolinate synthase; MJ0244, TIM b	93.48
2v9d_A		343	YAGE; dihydrodipicolinic acid synthase, N-acetyl n	93.45
3flu_A		297	DHDPS, dihydrodipicolinate synthase; TIM barrel, b	93.24
2r91_A		286	2-keto-3-deoxy-(6-phospho-)gluconate aldolase; TIM	93.19
3qze_A		314	DHDPS, dihydrodipicolinate synthase; alpha beta ba	92.88
3l21_A		304	DHDPS, dihydrodipicolinate synthase; DAPA, dimer,	92.82
3m5v_A		301	DHDPS, dihydrodipicolinate synthase; TIM barrel, c	92.72
2rfg_A		297	Dihydrodipicolinate synthase; beta barrel, amino-a	92.51
3daq_A		292	DHDPS, dihydrodipicolinate synthase; lysine biosyn	92.44
3tak_A		291	DHDPS, dihydrodipicolinate synthase; TIM barrel, l	92.34
3a5f_A		291	Dihydrodipicolinate synthase; TIM barrel, enzyme,	92.12
3qfe_A		318	Putative dihydrodipicolinate synthase family PROT;	92.03
3si9_A		315	DHDPS, dihydrodipicolinate synthase; structural ge	91.66
3d0c_A		314	Dihydrodipicolinate synthase; lysine biosynthesis,	91.63
3eb2_A		300	Putative dihydrodipicolinate synthetase; lysine bi	91.2
2ojp_A		292	DHDPS, dihydrodipicolinate synthase; dimer, lysine	90.7
2r8w_A		332	AGR_C_1641P; APC7498, dihydrodipicolinate synthase	88.32
2wkj_A		303	N-acetylneuraminate lyase; directed evolution, sia	88.29
3na8_A		315	Putative dihydrodipicolinate synthetase; lyase; HE	88.13
1o5k_A		306	DHDPS, dihydrodipicolinate synthase; TM1521, struc	88.02
3fkr_A		309	L-2-keto-3-deoxyarabonate dehydratase; DHDPS/NAL f	87.33
1f6k_A		293	N-acetylneuraminate lyase; beta barrel; 1.60A {Hae	87.0
3noy_A		366	4-hydroxy-3-methylbut-2-EN-1-YL diphosphate synth;	86.59
3s5o_A		307	4-hydroxy-2-oxoglutarate aldolase, mitochondrial;	85.41
2nuw_A		288	2-keto-3-deoxygluconate/2-keto-3-deoxy-6-phospho a	84.96
3lg3_A		435	Isocitrate lyase; conserved, CD, proteomics eviden	84.88
3i4e_A		439	Isocitrate lyase; structural genomics, seattle str	84.7
3e96_A		316	Dihydrodipicolinate synthase; structural genomics,	84.69
3eol_A		433	Isocitrate lyase; seattle structural center for in	83.93
3b4u_A		294	Dihydrodipicolinate synthase; structural genomics,	83.15
3dz1_A		313	Dihydrodipicolinate synthase; lysine biosynthesis,	83.02
2ojp_A		292	DHDPS, dihydrodipicolinate synthase; dimer, lysine	82.6
3cpr_A		304	Dihydrodipicolinate synthetase; (beta/alpha)8-barr	82.26
2hmc_A		344	AGR_L_411P, dihydrodipicolinate synthase; alpha-be	81.3
3fkr_A		309	L-2-keto-3-deoxyarabonate dehydratase; DHDPS/NAL f	81.18
1xky_A		301	Dihydrodipicolinate synthase; TIM barrel, , lysine	81.13
3h5d_A		311	DHDPS, dihydrodipicolinate synthase; lysine biosyn	80.94
3l21_A		304	DHDPS, dihydrodipicolinate synthase; DAPA, dimer,	80.28
2ehh_A		294	DHDPS, dihydrodipicolinate synthase; structural ge	80.27
2vc6_A		292	MOSA, dihydrodipicolinate synthase; DHDPS, TIM bar	80.11

>1q7z_A 5-methyltetrahydrofolate S-homocysteine methyltransferase; methionine, cobalamin, vitamin B12; 1.70A {Thermotoga maritima} SCOP: c.1.21.2 c.1.26.1 PDB: 1q7q_A 1q7m_A 1q85_A 1q8a_A 1q8j_A* 3bof_A 3bol_A	Back alignment and structure

Probab=100.00  E-value=1.8e-69  Score=617.08  Aligned_cols=348  Identities=20%  Similarity=0.318  Sum_probs=298.6

Q ss_pred             HHHHHHhhCceEEEecccccccccccCCCCcCcCCCcccchhhcccChHHHHHHHHHHHHHhcchhhcccccCChhchHh
Q psy13907        267 KINEFILENKLYLIDGGFSSQLSKHVGEDNVTEKDNPLWCSAFLHSNRQAVIDTHRDYVRAGCDIVTTNTYQASVEGFVQ  346 (698)
Q Consensus       267 ~~~~~~~~~~~~i~dG~~gt~l~~~~g~~~~~~~~~~lws~~~~l~~Pe~V~~iH~~yl~AGAdII~TNTf~as~~~l~~  346 (698)
                      .+.+.+ +++++|+||||||+|+++ |++     .++   ++|++++||+|+++|++|++||||||+||||++|+.+|++
T Consensus         6 ~l~~~l-~~~ililDGamGT~L~~~-g~~-----~~~---el~~l~~Pe~V~~iH~~Yl~AGAdii~TnTf~a~~~~l~~   75 (566)
T 1q7z_A            6 EVSKLL-SERVLLLDGAYGTEFMKY-GYD-----DLP---EELNIKAPDVVLKVHRSYIESGSDVILTNTFGATRMKLRK   75 (566)
T ss_dssp             HHHHHH-HHCCEECCCCSHHHHHHT-TCC-----SCG---GGHHHHCHHHHHHHHHHHHHHTCSEEECSCTTCSHHHHGG
T ss_pred             HHHHHH-cCCeEEEEChHHHHHHHC-CCC-----CCc---hhhcccCHHHHHHHHHHHHHhhcceeecCcccCCHHHHHh
Confidence            456654 678999999999999998 887     232   4557999999999999999999999999999999999998


Q ss_pred             hcCCCHHHHHHHHHHHHHHHHHHHHHhhccCCccCCCCcEEEEecCCcCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHH
Q psy13907        347 HLGLSEDQSVQLIRDAVKYVKEAIALEEKRDPAIASRHVRVAGSLGSYGAFLHDGSEYRGDYIDSTTPQELIDYHRPRIE  426 (698)
Q Consensus       347 ~~g~~~~~~~eln~~av~lAr~A~~~~~~~~~~~~~~~~~VAGsiGP~~~~l~~~~ey~g~y~~~~t~del~~~y~~qi~  426 (698)
                      + |+ ++++++||++|++|||+|+++           + ||||||||+|+++.+        .+++++++++++|++|++
T Consensus        76 ~-g~-~~~~~el~~~av~lAr~a~~~-----------~-~VAGsiGP~g~~~~~--------~~~~~~~e~~~~~~~qi~  133 (566)
T 1q7z_A           76 H-GL-EDKLDPIVRNAVRIARRAAGE-----------K-LVFGDIGPTGELPYP--------LGSTLFEEFYENFRETVE  133 (566)
T ss_dssp             G-TC-GGGHHHHHHHHHHHHHHHHTT-----------S-EEEEEECCCSCCBTT--------TSSBCHHHHHHHHHHHHH
T ss_pred             c-Cc-hHHHHHHHHHHHHHHHHHHhC-----------C-eEEEeCCCcccCCCC--------CCCCCHHHHHHHHHHHHH
Confidence            6 99 799999999999999999853           3 999999999987632        357899999999999999


Q ss_pred             HHHhCCCCEEEecccCCHHHHHHHHHHHHhc-CCCeEEEEEEecCCCccCCCCcHHHHHHHHHHhCCCCceEEEEcC-CC
Q psy13907        427 ALIQGGIDLLAIETLPAQEEAMVLAELIKEY-PGLKAWISFSCKDEKHTCHGDKFGLIARDVYAKNPAQLVAVGVNC-LA  504 (698)
Q Consensus       427 ~L~~~GvDlll~ETi~~~~Eakaa~~a~~~~-~~~Pv~iS~t~~~~g~l~~G~~l~~~v~~~~~~~~~~~~~iGlNC-~~  504 (698)
                      +|+++|||+|++||++++.|+++++.++++. .++|+|+|||+.++|++++|+++.+++..+..   .++++||+|| +|
T Consensus       134 ~l~~~gvD~l~~ET~~~~~Ea~aa~~a~~~~~~~~Pv~vS~t~~~~g~~~~G~~~~~~~~~l~~---~~~~avG~NC~~g  210 (566)
T 1q7z_A          134 IMVEEGVDGIIFETFSDILELKAAVLAAREVSRDVFLIAHMTFDEKGRSLTGTDPANFAITFDE---LDIDALGINCSLG  210 (566)
T ss_dssp             HHHHTTCSEEEEEEECCHHHHHHHHHHHHHHCSSSCEEEEECCCTTSCCTTSCCHHHHHHHHHT---SSCSEEEEESSSC
T ss_pred             HHHhCCCCEEEEeccCCHHHHHHHHHHHHHhCCCCcEEEEEEEcCCCeeCCCCcHHHHHHHhhc---cCCCEEEEeCCCC
Confidence            9999999999999999999999999999974 68999999999999999999999999998854   5789999999 79


Q ss_pred             hhhhHHHHHHhc--CCCCEEEecCCCCCc--CCCCcccccCCChhhHHHHHHHHHHcCCeEEeecCCCchHHHHHHHhcc
Q psy13907        505 PHYVESLLTSAG--RDVPLLCCPNSGETF--DPGQRIWMNKDSVPSVDTYVPRWLDTGVKYVGGCCRTNADDMKNVNQVP  580 (698)
Q Consensus       505 p~~~~~~l~~l~--~~~pl~~yPNaG~~~--d~~~g~~~~~~~p~~~a~~~~~~~~~G~~iiGGCCGTtP~hI~al~~~v  580 (698)
                      |++|.++|+.++  ++.|+++|||+|+|+  +. .+.|  +.+|++|++++++|++.|++||||||||||+||++|++++
T Consensus       211 p~~~~~~l~~l~~~~~~p~~vyPNaG~p~~~~~-~~~~--~~~p~~~a~~~~~~~~~G~~iiGGCCGTtP~hI~aia~~~  287 (566)
T 1q7z_A          211 PEEILPIFQELSQYTDKFLVVEPNAGKPIVENG-KTVY--PLKPHDFAVHIDSYYELGVNIFGGCCGTTPEHVKLFRKVL  287 (566)
T ss_dssp             HHHHHHHHHHHHHTCCSEEEEECCSSSCEEETT-EEEC--CCCHHHHHTTHHHHHHTTCSEECCCTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCCEEEEEcCCCCCcccCC-cccc--CCCHHHHHHHHHHHHHcCCcEEccccCCCHHHHHHHHHHh
Confidence            999999999997  789999999999986  32 2335  7899999999999999999999999999999999999999


Q ss_pred             ccCCCCCcccccccccCCCCceeeeeeccccccccccCCcccEEE-EeecCCchhhhhhhhhcccccccccchhhhhhhh
Q psy13907        581 VKFSITPESLTNARDKFNIPRFRISGHLDSTECSVVRPFTGEIVI-EQTELPIKSVELQLVRVETCGCAEGYSRDATEIQ  659 (698)
Q Consensus       581 ~~~~~~~~~~~~~~e~~~~~~~~lsG~~~~~~~~~~~p~~~~~~v-Er~nv~~~s~~~~Lir~e~~~~~~~~~~~~~~iq  659 (698)
                      ++.+|+.++..       .+..+.||+    +.+..   ..+++| ||.|++++..|...++..+...+...|++..+ +
T Consensus       288 ~~~~p~~~~~~-------~~~~~~s~~----~~~~~---~~~~iiGer~N~Tg~dsf~~~~~~~~~~~a~~~A~~~v~-~  352 (566)
T 1q7z_A          288 GNRKPLQRKKK-------RIFAVSSPS----KLVTF---DHFVVIGERINPAGRKKLWAEMQKGNEEIVIKEAKTQVE-K  352 (566)
T ss_dssp             CSCCCCCCCCC-------CCCEEECSS----CEEES---SSCEEEEEEECCTTCHHHHHHHHTTCCHHHHHHHHHHHH-T
T ss_pred             cCCCCCCcccC-------ccceecCCc----eeecc---ccceEEEEEecCCCChhHHHHhhcCCHHHHHHHHHHHHH-C
Confidence            99998864431       234677887    55544   557888 99999998888888887766666665544443 3


Q ss_pred             hhhhcccc
Q psy13907        660 NIQIGEGN  667 (698)
Q Consensus       660 ~~qi~~g~  667 (698)
                      ..+|.|-+
T Consensus       353 GAdiIDIg  360 (566)
T 1q7z_A          353 GAEVLDVN  360 (566)
T ss_dssp             TCSEEEEE
T ss_pred             CCCEEEEC
Confidence            44454444

PyMOL of 1q7z

>1lt8_A Betaine-homocysteine methyltransferase; homocysteine metabolism, homocysteinemia, zinc, thiol alkyl transfer; HET: CBH CIT; 2.05A {Homo sapiens} SCOP: c.1.26.1 PDB: 1lt7_A* 1umy_A	Back alignment and structure

>1q7z_A 5-methyltetrahydrofolate S-homocysteine methyltransferase; methionine, cobalamin, vitamin B12; 1.70A {Thermotoga maritima} SCOP: c.1.21.2 c.1.26.1 PDB: 1q7q_A 1q7m_A 1q85_A 1q8a_A 1q8j_A* 3bof_A 3bol_A	Back alignment and structure

>1lt8_A Betaine-homocysteine methyltransferase; homocysteine metabolism, homocysteinemia, zinc, thiol alkyl transfer; HET: CBH CIT; 2.05A {Homo sapiens} SCOP: c.1.26.1 PDB: 1lt7_A* 1umy_A	Back alignment and structure

>2r51_A Vacuolar protein sorting-associated protein 26B; retromer, fibronectin III, arrestin domain, membrane, phosphorylation, protein transport; 2.10A {Mus musculus} PDB: 3lh9_A 3lh8_A 3lha_A	Back alignment and structure

>2fau_A Vacuolar protein sorting 26; arrestin, retromer, protein transport; HET: CAF; 2.10A {Homo sapiens}	Back alignment and structure

>3cpr_A Dihydrodipicolinate synthetase; (beta/alpha)8-barrel fold with A C-terminal alpha-helical segment, amino-acid biosynthesis, cytoplasm; HET: MCL; 2.20A {Corynebacterium glutamicum}	Back alignment and structure

>1xky_A Dihydrodipicolinate synthase; TIM barrel, , lysine biosynthesis;spine, lyase; 1.94A {Bacillus anthracis} SCOP: c.1.10.1 PDB: 1xl9_A 3hij_A*	Back alignment and structure

>2vc6_A MOSA, dihydrodipicolinate synthase; DHDPS, TIM barrel, schiff base, lyase; HET: MCL; 1.95A {Sinorhizobium meliloti}	Back alignment and structure

>1w3i_A EDA, 2-keto-3-deoxy gluconate aldolase; archaeal metabolism, pyruvate; 1.7A {Sulfolobus solfataricus} SCOP: c.1.10.1 PDB: 1w37_A 1w3n_A* 1w3t_A* 2yda_A*	Back alignment and structure

>2ehh_A DHDPS, dihydrodipicolinate synthase; structural genomics, NPPSFA, national project on protein structural and functional analyses; 1.90A {Aquifex aeolicus}	Back alignment and structure

>2yxg_A DHDPS, dihydrodipicolinate synthase; MJ0244, TIM beta/alpha-barrel fold, structural genomics, NPPSFA; 2.20A {Methanocaldococcus jannaschii DSM2661}	Back alignment and structure

>2v9d_A YAGE; dihydrodipicolinic acid synthase, N-acetyl neuraminate lyase, NAL, lyase, DHDPS, prophage; 2.15A {Escherichia coli} PDB: 2v8z_A 3nev_A* 3n2x_A*	Back alignment and structure

>3flu_A DHDPS, dihydrodipicolinate synthase; TIM barrel, beta-alpha-barrel, amino-acid biosynthesis, diaminopimelate biosynthesis; 2.00A {Neisseria meningitidis serogroup B} SCOP: c.1.10.0	Back alignment and structure

>2r91_A 2-keto-3-deoxy-(6-phospho-)gluconate aldolase; TIM barrel, thermophilic, lyase; 2.00A {Thermoproteus tenax} PDB: 2r94_A	Back alignment and structure

>3qze_A DHDPS, dihydrodipicolinate synthase; alpha beta barrel, cytoplasmic; 1.59A {Pseudomonas aeruginosa} PDB: 3puo_A* 3noe_A 3ps7_A* 3s8h_A	Back alignment and structure

>3l21_A DHDPS, dihydrodipicolinate synthase; DAPA, dimer, RV2753C, lysine biosynthesis, amino-acid biosynthesis, diaminopimelate biosynthesis; HET: KPI CME; 2.10A {Mycobacterium tuberculosis} SCOP: c.1.10.1 PDB: 1xxx_A	Back alignment and structure

>3m5v_A DHDPS, dihydrodipicolinate synthase; TIM barrel, csgid, amino-acid biosynthesis, diaminopimelate biosynthesis, lyase, lysine biosynthesis; HET: MSE; 1.80A {Campylobacter jejuni} SCOP: c.1.10.0 PDB: 3ler_A*	Back alignment and structure

>2rfg_A Dihydrodipicolinate synthase; beta barrel, amino-acid biosynthesis, diaminopimelate biosyn lyase, lysine biosynthesis, schiff base; 1.50A {Hahella chejuensis}	Back alignment and structure

>3daq_A DHDPS, dihydrodipicolinate synthase; lysine biosynthesis, amino-ACI biosynthesis, diaminopimelate biosynthesis, lyase, schiff B; 1.45A {Staphylococcus aureus} SCOP: c.1.10.0 PDB: 3di1_A 3di0_A	Back alignment and structure

>3tak_A DHDPS, dihydrodipicolinate synthase; TIM barrel, lysine biosynthesis, pyruvate, lyase; 1.42A {Acinetobacter baumannii} PDB: 3pud_A* 3pue_A* 3pul_A 3rk8_A 3tce_A* 3tdf_A 3u8g_A 3uqn_A 4dxv_A	Back alignment and structure

>3a5f_A Dihydrodipicolinate synthase; TIM barrel, enzyme, amino-acid biosynthesis, cytoplasm, diaminopimelate biosynthesis, lyase; HET: KPI; 1.19A {Clostridium botulinum A} PDB: 3bi8_A* 3ird_A*	Back alignment and structure

>3qfe_A Putative dihydrodipicolinate synthase family PROT; seattle structural genomics center for infectious disease, S coccidioides, valley fever; 2.35A {Coccidioides immitis}	Back alignment and structure

>3si9_A DHDPS, dihydrodipicolinate synthase; structural genomics, seattle structural genomics center for infectious disease, ssgcid, TIM barrel; 2.10A {Bartonella henselae}	Back alignment and structure

>3d0c_A Dihydrodipicolinate synthase; lysine biosynthesis, pyruvate, TIM barrel, NYSGXRC, PSI-2, structural genomics; 1.90A {Oceanobacillus iheyensis HTE831}	Back alignment and structure

>3eb2_A Putative dihydrodipicolinate synthetase; lysine biosynthesis, pyruvate, TIM barrel, NYSGXRC, PSI2., structural genomics; HET: PGE; 2.04A {Rhodopseudomonas palustris} SCOP: c.1.10.0	Back alignment and structure

>2ojp_A DHDPS, dihydrodipicolinate synthase; dimer, lysine biosynthe lyase; HET: KGC GOL; 1.70A {Escherichia coli} PDB: 1yxc_A 1dhp_A 1yxd_A* 2ats_A* 3du0_A* 3c0j_A* 3ubs_A* 4eou_A* 3i7q_A* 3i7r_A* 3i7s_A* 2pur_A* 1s5v_A 1s5w_A 1s5t_A 3den_A* 2a6l_A 2a6n_A 3g0s_A	Back alignment and structure

>2r8w_A AGR_C_1641P; APC7498, dihydrodipicolinate synthase, agrobacterium tumefac C58, structural genomics, PSI-2; HET: MSE; 1.80A {Agrobacterium tumefaciens str}	Back alignment and structure

>2wkj_A N-acetylneuraminate lyase; directed evolution, sialic acid mimetics, aldolase, S base, carbohydrate metabolism, N-acetylneuraminic acid LYAS; HET: KPI PYR; 1.45A {Escherichia coli} PDB: 2wnq_A 2xfw_A* 2wpb_A* 2wnz_A* 2ygy_A* 2wo5_A* 2wnn_A* 3lbm_A 3lbc_A 3lcf_A 3lcl_A 3lcg_A 3lch_A 3lci_A 1hl2_A 1fdy_A 1fdz_A 1nal_1 3lcx_A 3lcw_A	Back alignment and structure

>3na8_A Putative dihydrodipicolinate synthetase; lyase; HET: MSE; 1.85A {Pseudomonas aeruginosa}	Back alignment and structure

>1o5k_A DHDPS, dihydrodipicolinate synthase; TM1521, structural genomics, J protein structure initiative, joint center for structural G lyase; HET: MCL; 1.80A {Thermotoga maritima} SCOP: c.1.10.1 PDB: 3pb2_A 3pb0_A	Back alignment and structure

>3fkr_A L-2-keto-3-deoxyarabonate dehydratase; DHDPS/NAL family, complex, pyruvate, lyase; HET: KPI; 1.80A {Azospirillum brasilense} PDB: 3fkk_A	Back alignment and structure

>1f6k_A N-acetylneuraminate lyase; beta barrel; 1.60A {Haemophilus influenzae} SCOP: c.1.10.1 PDB: 1f5z_A 1f6p_A 1f73_A* 1f74_A* 1f7b_A*	Back alignment and structure

>3noy_A 4-hydroxy-3-methylbut-2-EN-1-YL diphosphate synth; iron-sulfur protein, non-mevalonate pathway, terpene biosynt isoprenoid biosynthesis; 2.70A {Aquifex aeolicus}	Back alignment and structure

>3s5o_A 4-hydroxy-2-oxoglutarate aldolase, mitochondrial; beta barrel, schiff base, hydroxyproline metabolis; HET: KPI; 1.97A {Homo sapiens} SCOP: c.1.10.0 PDB: 3s5n_A	Back alignment and structure

>2nuw_A 2-keto-3-deoxygluconate/2-keto-3-deoxy-6-phospho aldolase; TIM barrel, lyase; 1.80A {Sulfolobus acidocaldarius dsm 639} PDB: 2nux_A 2nuy_A	Back alignment and structure

>3lg3_A Isocitrate lyase; conserved, CD, proteomics evidence (cytopl periplasmic), drug target functions; 1.40A {Yersinia pestis} SCOP: c.1.12.7 PDB: 1igw_A	Back alignment and structure

>3i4e_A Isocitrate lyase; structural genomics, seattle structural genomics center for infectious disease, ssgcid; 2.69A {Burkholderia pseudomallei}	Back alignment and structure

>3e96_A Dihydrodipicolinate synthase; structural genomics, nysgrc, target 9375C, operon, PSI-2; 1.80A {Bacillus clausii ksm-k16} SCOP: c.1.10.0	Back alignment and structure

>3eol_A Isocitrate lyase; seattle structural center for infectious disease, ssgcid; 2.00A {Brucella melitensis} PDB: 3oq8_A 3e5b_A 3p0x_A*	Back alignment and structure

>3b4u_A Dihydrodipicolinate synthase; structural genomics, PSI-2, MC protein structure initiative, midwest center for structural genomics; 1.20A {Agrobacterium tumefaciens str}	Back alignment and structure

>3dz1_A Dihydrodipicolinate synthase; lysine biosynthesis, pyruvate, TIM barrel, NYSGXRC, PSI2, structural genomics; 1.87A {Rhodopseudomonas palustris} SCOP: c.1.10.0	Back alignment and structure

>2ojp_A DHDPS, dihydrodipicolinate synthase; dimer, lysine biosynthe lyase; HET: KGC GOL; 1.70A {Escherichia coli} PDB: 1yxc_A 1dhp_A 1yxd_A* 2ats_A* 3du0_A* 3c0j_A* 3ubs_A* 4eou_A* 3i7q_A* 3i7r_A* 3i7s_A* 2pur_A* 1s5v_A 1s5w_A 1s5t_A 3den_A* 2a6l_A 2a6n_A 3g0s_A	Back alignment and structure

>3cpr_A Dihydrodipicolinate synthetase; (beta/alpha)8-barrel fold with A C-terminal alpha-helical segment, amino-acid biosynthesis, cytoplasm; HET: MCL; 2.20A {Corynebacterium glutamicum}	Back alignment and structure

>2hmc_A AGR_L_411P, dihydrodipicolinate synthase; alpha-beta barrel (TIM barrel), structural genomics, PSI-2, structure initiative; HET: MSE; 1.90A {Agrobacterium tumefaciens str}	Back alignment and structure

>3fkr_A L-2-keto-3-deoxyarabonate dehydratase; DHDPS/NAL family, complex, pyruvate, lyase; HET: KPI; 1.80A {Azospirillum brasilense} PDB: 3fkk_A	Back alignment and structure

>1xky_A Dihydrodipicolinate synthase; TIM barrel, , lysine biosynthesis;spine, lyase; 1.94A {Bacillus anthracis} SCOP: c.1.10.1 PDB: 1xl9_A 3hij_A*	Back alignment and structure

>3h5d_A DHDPS, dihydrodipicolinate synthase; lysine biosynthesis, amino-ACI biosynthesis, schiff base, cytoplasm, diaminopimelate biosy lyase; HET: MES; 1.99A {Streptococcus pneumoniae}	Back alignment and structure

>3l21_A DHDPS, dihydrodipicolinate synthase; DAPA, dimer, RV2753C, lysine biosynthesis, amino-acid biosynthesis, diaminopimelate biosynthesis; HET: KPI CME; 2.10A {Mycobacterium tuberculosis} SCOP: c.1.10.1 PDB: 1xxx_A	Back alignment and structure

>2ehh_A DHDPS, dihydrodipicolinate synthase; structural genomics, NPPSFA, national project on protein structural and functional analyses; 1.90A {Aquifex aeolicus}	Back alignment and structure

>2vc6_A MOSA, dihydrodipicolinate synthase; DHDPS, TIM barrel, schiff base, lyase; HET: MCL; 1.95A {Sinorhizobium meliloti}	Back alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Alignment Graph	Length	Definition	E-value
Query		698
d1lt7a_		361	c.1.26.1 (A:) Betaine-homocysteine S-methyltransfe	6e-28
d3bofa2		300	c.1.26.1 (A:1-300) Cobalamin-dependent methionine	5e-27

>d1lt7a_ c.1.26.1 (A:) Betaine-homocysteine S-methyltransferase {Human (Homo sapiens) [TaxId: 9606]} Length = 361	Back information, alignment and structure


class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Homocysteine S-methyltransferase
family: Homocysteine S-methyltransferase
domain: Betaine-homocysteine S-methyltransferase
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  113 bits (284), Expect = 6e-28
 Identities = 59/321 (18%), Positives = 109/321 (33%), Gaps = 43/321 (13%)

Query: 270 EFILENKLYLIDGGFSSQLSKHVGEDNVTEKDNPLWCSAFLHSNRQAVIDTHRDYVRAGC 329
           E +   ++ + DGGF   L K  G           W       + +AV   HR+++RAG 
Sbjct: 5   ERLNAGEIVIGDGGFVFALEKR-GYV-----KAGPWTPEAAVEHPEAVRQLHREFLRAGS 58

Query: 330 DIVTTNTYQASVEGFVQHLGLSEDQSVQLIRDAVKYVKEAIALEEKRDPAIASRHVRVAG 389
           +++ T T+ AS +                  +   YV E I+ +E     +      +A 
Sbjct: 59  NVMQTFTFYASEDKL---------------ENRGNYVLEKISGQE-----VNEAAADIAR 98

Query: 390 SLGSYGAFL-HDGSEYRGDYIDSTTPQELIDYHRPRIEALIQGGIDLLAIETLPAQEEAM 448
            +   G  L   G      Y+ + +  E+      ++E  ++  +D L  E     EEA+
Sbjct: 99  QVADEGDALVAGGVSQTPSYLSAKSETEVKKVFLQQLEVFMKKNVDFLIAEYFEHVEEAV 158

Query: 449 VLAELIKEYPGLKAWISFSCKDEKHTCHGDKFGLIARDVYAKNPAQLVAVGVNCL----A 504
              E +          + +   E             R V A      V    +       
Sbjct: 159 WAVETLIASGK-PVAATMAIGPEGDLHGVPPGEAAVRLVKAGASIIGVNCHFDPTISLKT 217

Query: 505 PHYVESLLTSAGRDVPLLCCPNSGETFDPGQRIWMNKDSVP-----------SVDTYVPR 553
              ++  L +A     L+  P +  T D  ++ +++    P            +  Y   
Sbjct: 218 VKLMKEGLEAAQLKAHLMSQPLAYHTPDANKQGFIDLPEFPFGLEPRVATRWDIQKYARE 277

Query: 554 WLDTGVKYVGGCCRTNADDMK 574
             + GV+Y+GGCC      ++
Sbjct: 278 AYNLGVRYIGGCCGFEPYHIR 298

PyMOL of d1lt7a_

>d3bofa2 c.1.26.1 (A:1-300) Cobalamin-dependent methionine synthase MetH, N-terminal domain {Thermotoga maritima [TaxId: 2336]} Length = 300	Back information, alignment and structure

Homologous Domains Detected by HHsearch

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

ID	Alignment Graph	Length	Definition	Probability
Query		698
d3bofa2		300	Cobalamin-dependent methionine synthase MetH, N-te	100.0
d1lt7a_		361	Betaine-homocysteine S-methyltransferase {Human (H	100.0
d3bofa2		300	Cobalamin-dependent methionine synthase MetH, N-te	99.96
d1lt7a_		361	Betaine-homocysteine S-methyltransferase {Human (H	99.94
d1xkya1		292	Dihydrodipicolinate synthase {Bacillus anthracis [	92.79
d1xxxa1		296	Dihydrodipicolinate synthase {Mycobacterium tuberc	92.75
d1f74a_		293	N-acetylneuraminate lyase {Haemophilus influenzae	90.07
d2a6na1		292	Dihydrodipicolinate synthase {Escherichia coli [Ta	89.49
d3bofa1		260	Cobalamin-dependent methionine synthase MetH, C-te	87.78
d1w3ia_		293	2-keto-3-deoxy gluconate aldolase Eda {Sulfolobus	83.72
d1o5ka_		295	Dihydrodipicolinate synthase {Thermotoga maritima	83.65
d1xkya1		292	Dihydrodipicolinate synthase {Bacillus anthracis [	83.09
d1vhna_		305	Putative flavin oxidoreducatase TM0096 {Thermotoga	82.27

>d3bofa2 c.1.26.1 (A:1-300) Cobalamin-dependent methionine synthase MetH, N-terminal domain {Thermotoga maritima [TaxId: 2336]}	Back information, alignment and structure

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Homocysteine S-methyltransferase
family: Homocysteine S-methyltransferase
domain: Cobalamin-dependent methionine synthase MetH, N-terminal domain
species: Thermotoga maritima [TaxId: 2336]

Probab=100.00  E-value=5.3e-60  Score=499.11  Aligned_cols=285  Identities=22%  Similarity=0.364  Sum_probs=252.4

Q ss_pred             HHHHHhhCceEEEecccccccccccCCCCcCcCCCcccchhhcccChHHHHHHHHHHHHHhcchhhcccccCChhchHhh
Q psy13907        268 INEFILENKLYLIDGGFSSQLSKHVGEDNVTEKDNPLWCSAFLHSNRQAVIDTHRDYVRAGCDIVTTNTYQASVEGFVQH  347 (698)
Q Consensus       268 ~~~~~~~~~~~i~dG~~gt~l~~~~g~~~~~~~~~~lws~~~~l~~Pe~V~~iH~~yl~AGAdII~TNTf~as~~~l~~~  347 (698)
                      +.++ ++++++|+||||||+|+++ |++        +|++++++++||+|+++|++|++||||||+||||++++.+|.++
T Consensus         7 ~~~~-l~~~i~ilDGg~GteL~~~-G~~--------~~~~~~~~~~Pe~V~~iH~~yi~AGAdiI~TnTy~a~~~~l~~~   76 (300)
T d3bofa2           7 VSKL-LSERVLLLDGAYGTEFMKY-GYD--------DLPEELNIKAPDVVLKVHRSYIESGSDVILTNTFGATRMKLRKH   76 (300)
T ss_dssp             HHHH-HHHCCEECCCCSHHHHGGG-TCC--------SCGGGHHHHCHHHHHHHHHHHHTTTCSEEECSCTTCSHHHHGGG
T ss_pred             HHHH-HcCCeEEEECHHHHHHHHC-CCC--------CCChHHhhcCHHHHHHHHHHHHHhCCCEEeeCceeceeChhhcC
Confidence            4554 5667999999999999999 665        79999999999999999999999999999999999999999986


Q ss_pred             cCCCHHHHHHHHHHHHHHHHHHHHHhhccCCccCCCCcEEEEecCCcCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHH
Q psy13907        348 LGLSEDQSVQLIRDAVKYVKEAIALEEKRDPAIASRHVRVAGSLGSYGAFLHDGSEYRGDYIDSTTPQELIDYHRPRIEA  427 (698)
Q Consensus       348 ~g~~~~~~~eln~~av~lAr~A~~~~~~~~~~~~~~~~~VAGsiGP~~~~l~~~~ey~g~y~~~~t~del~~~y~~qi~~  427 (698)
                       |+ ++++.++|+.|+++|++|+++            ..|+||+||+|.++.|        .+..++++++++|++|++.
T Consensus        77 -g~-~~~~~~~~~~Av~la~~a~~~------------~~~~g~i~~~g~~~~~--------~~~~~~~~~~~~~~~~~~~  134 (300)
T d3bofa2          77 -GL-EDKLDPIVRNAVRIARRAAGE------------KLVFGDIGPTGELPYP--------LGSTLFEEFYENFRETVEI  134 (300)
T ss_dssp             -TC-GGGHHHHHHHHHHHHHHHHTT------------SEEEEEECCCSCCBTT--------TSSBCHHHHHHHHHHHHHH
T ss_pred             -Cc-hHHHHHHHHHHHHHHHHHhhh------------ccccceEeccccccCc--------cccccHHHHHHHHHHHHHH
Confidence             98 889999999999999999853            5799999999876543        2457899999999999999


Q ss_pred             HHhCCCCEEEecccCCHHHHHHHHHHHHhcC-CCeEEEEEEecCCCccCCCCcHHHHHHHHHHhCCCCceEEEEcC-CCh
Q psy13907        428 LIQGGIDLLAIETLPAQEEAMVLAELIKEYP-GLKAWISFSCKDEKHTCHGDKFGLIARDVYAKNPAQLVAVGVNC-LAP  505 (698)
Q Consensus       428 L~~~GvDlll~ETi~~~~Eakaa~~a~~~~~-~~Pv~iS~t~~~~g~l~~G~~l~~~v~~~~~~~~~~~~~iGlNC-~~p  505 (698)
                      |.++|||+|++|||++..|+++++.++++.. ..|+++|++++++|++.+|+++.+++..+.+   .+++++|+|| .+|
T Consensus       135 l~~~gvD~i~~ET~~~~~E~~~~~~~~~~~~~~~~~~~s~~~~~~g~~~~G~~~~~~~~~~~~---~~~~~~~inc~~~~  211 (300)
T d3bofa2         135 MVEEGVDGIIFETFSDILELKAAVLAAREVSRDVFLIAHMTFDEKGRSLTGTDPANFAITFDE---LDIDALGINCSLGP  211 (300)
T ss_dssp             HHHTTCSEEEEEEECCHHHHHHHHHHHHHHCSSSCEEEEECCCTTSCCTTCCCHHHHHHHHHT---SSCSEEEEESSSCH
T ss_pred             HHhcCcceeeeeeeecHHHHHHHHHhHHhhccccceEEEEEecCCCCcccccchhHHHhhhcc---cccchHhhcccccc
Confidence            9999999999999999999999999999753 3567777777888999999999988887753   5789999999 589


Q ss_pred             hhhHHHHHHhc--CCCCEEEecCCCCCcCCCCcccccCCChhhHHHHHHHHHHcCCeEEeecCCCchHHHHHHHhccccC
Q psy13907        506 HYVESLLTSAG--RDVPLLCCPNSGETFDPGQRIWMNKDSVPSVDTYVPRWLDTGVKYVGGCCRTNADDMKNVNQVPVKF  583 (698)
Q Consensus       506 ~~~~~~l~~l~--~~~pl~~yPNaG~~~d~~~g~~~~~~~p~~~a~~~~~~~~~G~~iiGGCCGTtP~hI~al~~~v~~~  583 (698)
                      ..+..+++.+.  .+.|+++|||+|.+++.. +.+.++.+|++|++++++|++.|++||||||||||+||++|+++++++
T Consensus       212 ~~~~~~~~~~~~~~~~~~~vypN~g~~~~~~-~~~~~~~~p~~f~~~~~~w~~~Ga~iIGGCCgt~P~hI~~l~~~l~~~  290 (300)
T d3bofa2         212 EEILPIFQELSQYTDKFLVVEPNAGKPIVEN-GKTVYPLKPHDFAVHIDSYYELGVNIFGGCCGTTPEHVKLFRKVLGNR  290 (300)
T ss_dssp             HHHHHHHHHHHHTCCSEEEEECCSSSCEEET-TEEECCCCHHHHHTTHHHHHHTTCSEECCCTTCCHHHHHHHHHHHCSC
T ss_pred             cchhhhhhhhhccccccccccCCCCCCEeCC-CcccCCCCHHHHHHHHHHHHHCCCCEEEEcCCCCHHHHHHHHHHHhCC
Confidence            99999988887  889999999999887543 334457899999999999999999999999999999999999999999


Q ss_pred             CCCCc
Q psy13907        584 SITPE  588 (698)
Q Consensus       584 ~~~~~  588 (698)
                      +|+..
T Consensus       291 ~p~~~  295 (300)
T d3bofa2         291 KPLQR  295 (300)
T ss_dssp             CCCCC
T ss_pred             CCCCc
Confidence            88643

PyMOL of d3bofa2

>d1lt7a_ c.1.26.1 (A:) Betaine-homocysteine S-methyltransferase {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d3bofa2 c.1.26.1 (A:1-300) Cobalamin-dependent methionine synthase MetH, N-terminal domain {Thermotoga maritima [TaxId: 2336]}	Back information, alignment and structure

>d1lt7a_ c.1.26.1 (A:) Betaine-homocysteine S-methyltransferase {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1xkya1 c.1.10.1 (A:1-292) Dihydrodipicolinate synthase {Bacillus anthracis [TaxId: 1392]}	Back information, alignment and structure

>d1xxxa1 c.1.10.1 (A:5-300) Dihydrodipicolinate synthase {Mycobacterium tuberculosis [TaxId: 1773]}	Back information, alignment and structure

>d1f74a_ c.1.10.1 (A:) N-acetylneuraminate lyase {Haemophilus influenzae [TaxId: 727]}	Back information, alignment and structure

>d2a6na1 c.1.10.1 (A:1-292) Dihydrodipicolinate synthase {Escherichia coli [TaxId: 562]}	Back information, alignment and structure

>d3bofa1 c.1.21.2 (A:301-560) Cobalamin-dependent methionine synthase MetH, C-terminal domain {Thermotoga maritima [TaxId: 2336]}	Back information, alignment and structure

>d1w3ia_ c.1.10.1 (A:) 2-keto-3-deoxy gluconate aldolase Eda {Sulfolobus solfataricus [TaxId: 2287]}	Back information, alignment and structure

>d1o5ka_ c.1.10.1 (A:) Dihydrodipicolinate synthase {Thermotoga maritima [TaxId: 2336]}	Back information, alignment and structure

>d1xkya1 c.1.10.1 (A:1-292) Dihydrodipicolinate synthase {Bacillus anthracis [TaxId: 1392]}	Back information, alignment and structure

>d1vhna_ c.1.4.1 (A:) Putative flavin oxidoreducatase TM0096 {Thermotoga maritima [TaxId: 2336]}	Back information, alignment and structure