YRC Public Data Repository - Protein Structure Prediction

Protein:	MET1
Organism:	Saccharomyces cerevisiae
Length:	593 amino acids
Reference:	Malmström L, et al. (2007) Superfamily assignments for the yeast proteome through integration of structure prediction with the gene ontology. PLoS Biol 5(4): e76. doi:10.1371/journal.pbio.0050076

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Top Sequence Alignment Hits

Listed below are up to the top 10 sequence alignment matches, by species, for the PSI-BLAST search against the protein sequence for MET1.

Description	E-value	Query Range	Subject Range
MET1 - S-adenosyl-L-methionine uroporphyrinogen III transmethylase, involved in the biosynthesis of sirohem... SUMT_YEAST - Uroporphyrinogen-III C-methyltransferase OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN...	0.0	[1..593]	[1..593]
CYSG2_YERPN - Siroheme synthase 2 OS=Yersinia pestis bv. Antiqua (strain Nepal516) GN=cysG2 PE=3 SV=1 gi\|161484726 - gi\|161484726\|ref\|NP_671234.2\| siroheme synthase [Yersinia pestis KIM] gi\|165928045, gi... - gi\|165928045\|ref\|ZP_02223877.1\| siroheme synthase [Yersinia pestis biovar Orientalis str. F1991016],... gi\|166010560, gi... - gi\|166010560\|ref\|ZP_02231458.1\| siroheme synthase [Yersinia pestis biovar Antiqua str. E1979001], gi... gi\|166213239, gi... - gi\|166213239\|ref\|ZP_02239274.1\| siroheme synthase [Yersinia pestis biovar Antiqua str. B42003004], g... gi\|167051152, gi... - gi\|167398648\|ref\|ZP_02304172.1\| siroheme synthase [Yersinia pestis biovar Antiqua str. UG05-0454], g... gi\|150260840, gi... - gi\|150260840\|ref\|ZP_01917568.1\| siroheme synthase [Yersinia pestis CA88-4125], gi\|149290248\|gb\|EDM40... gi\|167419358, gi... - gi\|167419358\|ref\|ZP_02311111.1\| siroheme synthase [Yersinia pestis biovar Orientalis str. MG05-1020]... gi\|165936152, gi... - gi\|89105793\|ref\|ZP_01178306.1\| COG0007: Uroporphyrinogen-III methylase [Yersinia pestis biovar Orien... gi\|167425680, gi... - gi\|167425680\|ref\|ZP_02317433.1\| siroheme synthase [Yersinia pestis biovar Mediaevalis str. K1973002]... CYSG_YERPA - Siroheme synthase OS=Yersinia pestis bv. Antiqua (strain Antiqua) GN=cysG PE=3 SV=1 gi\|167468236 - gi\|167468236\|ref\|ZP_02332940.1\| siroheme synthase [Yersinia pestis FV-1] gi\|45440022, gi\|... - gi\|45440022\|ref\|NP_991561.1\| siroheme synthase [Yersinia pestis biovar Microtus str. 91001], gi\|4543... CYSG_YERPE - Siroheme synthase OS=Yersinia pestis GN=cysG PE=3 SV=1 gi\|77634599, gi\|... - gi\|77634599\|ref\|ZP_00796696.1\| COG0007: Uroporphyrinogen-III methylase [Yersinia pestis Angola], gi\|... gi\|16120501, gi\|... - gi\|218927369\|ref\|YP_002345244.1\| siroheme synthase [Yersinia pestis CO92], gi\|16120501\|ref\|NP_403814...	0.0	[185..577]	[72..460]
gi\|208726275, gi... - gi\|208806474\|ref\|ZP_03248811.1\| siroheme synthase [Escherichia coli O157:H7 str. EC4206], gi\|2087262... CYSG_ECOSM - Siroheme synthase OS=Escherichia coli (strain SMS-3-5 / SECEC) GN=cysG PE=3 SV=1 gi\|208739702, gi... - gi\|208819579\|ref\|ZP_03259899.1\| siroheme synthase [Escherichia coli O157:H7 str. EC4042], gi\|2087397... gi\|208733150, gi... - gi\|208811873\|ref\|ZP_03253202.1\| siroheme synthase [Escherichia coli O157:H7 str. EC4045], gi\|2087331... CYSG_ECO55 - Siroheme synthase OS=Escherichia coli (strain 55989 / EAEC) GN=cysG PE=3 SV=1 gi\|217320428, gi... - gi\|217324207\|ref\|ZP_03440291.1\| siroheme synthase [Escherichia coli O157:H7 str. TW14588], gi\|217320... gi\|193061862, gi... - gi\|75260342\|ref\|ZP_00731610.1\| COG0007: Uroporphyrinogen-III methylase [Escherichia coli E22], gi\|19... gi\|189369618, gi... - gi\|189369618\|gb\|EDU88034.1\| siroheme synthase [Escherichia coli O157:H7 str. EC4501], gi\|168759399\|r... gi\|85676672, gi\|... - gi\|89110641\|ref\|AP_004421.1\| fused siroheme synthase 1,3-dimethyluroporphyriongen III dehydrogenase/... gi\|189359351, gi... - gi\|189359351\|gb\|EDU77770.1\| siroheme synthase [Escherichia coli O157:H7 str. EC4401], gi\|168753127\|r... gi\|187771618, gi... - gi\|187771618\|gb\|EDU35462.1\| siroheme synthase [Escherichia coli O157:H7 str. EC4196], gi\|168772734\|r... CYSG_ECOLC - Siroheme synthase OS=Escherichia coli (strain ATCC 8739 / DSM 1576 / Crooks) GN=cysG PE=3 SV=1 gi\|168765722, gi... - gi\|189364751\|gb\|EDU83170.1\| siroheme synthase [Escherichia coli O157:H7 str. EC4486], gi\|168765722\|r... gi\|189374423, gi... - gi\|189374423\|gb\|EDU92839.1\| siroheme synthase [Escherichia coli O157:H7 str. EC869], gi\|168785179\|re... gi\|189002542, gi... - gi\|189002542\|gb\|EDU71528.1\| siroheme synthase [Escherichia coli O157:H7 str. EC4076], gi\|168779458\|r... CYSG_ECODH - Siroheme synthase OS=Escherichia coli (strain K12 / DH10B) GN=cysG PE=3 SV=1 gi\|168797146, gi... - gi\|189380160\|gb\|EDU98576.1\| siroheme synthase [Escherichia coli O157:H7 str. EC508], gi\|168797146\|re... gi\|194439502, gi... - gi\|83585121\|ref\|ZP_00923773.1\| COG0007: Uroporphyrinogen-III methylase [Escherichia coli 101-1], gi\|... CYSG_ECOHS - Siroheme synthase OS=Escherichia coli O9:H4 (strain HS) GN=cysG PE=3 SV=1 gi\|75211735, gi\|... - gi\|75211735\|ref\|ZP_00711799.1\| COG0007: Uroporphyrinogen-III methylase [Escherichia coli B171], gi\|1... gi\|191168412, gi... - gi\|75228409\|ref\|ZP_00715055.1\| COG0007: Uroporphyrinogen-III methylase [Escherichia coli B7A], gi\|19... CYSG_ECOBW - Siroheme synthase OS=Escherichia coli (strain K12 / MC4100 / BW2952) GN=cysG PE=3 SV=1 CYSG_ECO57 - Siroheme synthase OS=Escherichia coli O157:H7 GN=cysG PE=3 SV=1 gi\|242378894, gi... - gi\|251786621\|ref\|YP_003000925.1\| hypothetical protein B21_03171 [Escherichia coli BL21], gi\|24237889... gi\|253322849, gi... - gi\|254290046\|ref\|YP_003055794.1\| fused siroheme synthase 1,3-dimethyluroporphyriongen III dehydrogen... gi\|12517996, gi\|... - gi\|15803881\|ref\|NP_289916.1\| siroheme synthase [Escherichia coli O157:H7 EDL933], gi\|12517996\|gb\|AAG... gi\|226839038, gi... - gi\|254038532\|ref\|ZP_04872588.1\| siroheme synthase [Escherichia sp. 1_1_43], gi\|226839038\|gb\|EEH71061... EG10188 - fused siroheme synthase 1,3-dimethyluroporphyriongen III dehydrogenase and siroheme ferrochelatase /u... gi\|254163296, gi... - gi\|254163296\|ref\|YP_003046404.1\| fused siroheme synthase 1,3-dimethyluroporphyriongen III dehydrogen... gi\|254594692, gi... - gi\|254795292\|ref\|YP_003080129.1\| fused siroheme synthase 1,3-dimethyluroporphyriongen III dehydrogen... EG10188 - fused siroheme synthase 1,3-dimethyluroporphyriongen III dehydrogenase and siroheme ferrochelatase /u... gi\|13363692, gi\|... - gi\|15833473\|ref\|NP_312246.1\| siroheme synthase [Escherichia coli O157:H7 str. Sakai], gi\|13363692\|db... CYSG_ECOLI - Siroheme synthase [Includes: Uroporphyrinogen-III C-methyltransferase (EC 2.1.1.107) (Urogen III met... gi\|168751811, gi... - gi\|188014206\|gb\|EDU52328.1\| siroheme synthase [Escherichia coli O157:H7 str. EC4113], gi\|168751811\|r...	0.0	[186..565]	[73..454]
gi\|606302\|gb\|AAA... - CG Site No. 893 [Escherichia coli] gi\|606302 - gi\|606302\|gb\|AAA58165.1\| CG Site No. 893 [Escherichia coli]	0.0	[186..565]	[73..454]
gi\|7507776 - gi\|7507776\|pir\|\|T16867 probable cytochrome P450 T13C5.1 [similarity] - Caenorhabditis elegans	1.0E-99	[186..565]	[73..454]
gi\|29144295, gi\|... - gi\|29144295\|ref\|NP_807637.1\| siroheme synthase [Salmonella enterica subsp. enterica serovar Typhi st... gi\|16762808 - gi\|16762808\|ref\|NP_458425.1\| siroheme synthase [Salmonella enterica subsp. enterica serovar Typhi st... gi\|213053371 - gi\|213053371\|ref\|ZP_03346249.1\| siroheme synthase [Salmonella enterica subsp. enterica serovar Typhi... gi\|213647200 - gi\|213647200\|ref\|ZP_03377253.1\| siroheme synthase [Salmonella enterica subsp. enterica serovar Typhi... CYSG_SALTI - Siroheme synthase OS=Salmonella typhi GN=cysG PE=3 SV=1 gi\|213613177 - gi\|213613177\|ref\|ZP_03371003.1\| siroheme synthase [Salmonella enterica subsp. enterica serovar Typhi... gi\|213426753 - gi\|213426753\|ref\|ZP_03359503.1\| siroheme synthase [Salmonella enterica subsp. enterica serovar Typhi... gi\|213416826 - gi\|213416826\|ref\|ZP_03349970.1\| siroheme synthase [Salmonella enterica subsp. enterica serovar Typhi... CYSG_SALTI - Siroheme synthase OS=Salmonella typhi GN=cysG PE=3 SV=1 gi\|214000213 - gi\|214000213\|ref\|ZP_03410948.1\| siroheme synthase [Salmonella enterica subsp. enterica serovar Typhi... gi\|213974705 - gi\|213974705\|ref\|ZP_03401964.1\| siroheme synthase [Salmonella enterica subsp. enterica serovar Typhi...	5.0E-99	[184..565]	[71..454]
gi\|219681776, gi... - gi\|219681776\|ref\|YP_002468162.1\| ferrochelatase [Buchnera aphidicola str. 5A (Acyrthosiphon pisum)],... gi\|257471478\|ref... - ferrochelatase [Buchnera aphidicola str. LSR1 (Acyrthosiphon pisum)] CYSG_BUCAI - Siroheme synthase OS=Buchnera aphidicola subsp. Acyrthosiphon pisum GN=cysG PE=3 SV=1 gi\|25403619 - gi\|25403619\|pir\|\|C84979 hypothetical protein cysG [imported] - Buchnera sp. (strain APS) CYSG_BUCAI - Siroheme synthase OS=Buchnera aphidicola subsp. Acyrthosiphon pisum (strain APS) GN=cysG PE=3 SV=1	3.0E-97	[149..568]	[22..457]
gi\|11992147 - gi\|11992147\|gb\|AAG42466.1\|AF308468_7 siroheme synthetase [Klebsiella aerogenes]	1.0E-95	[152..566]	[33..455]
CYSG_PSEAE - Siroheme synthase OS=Pseudomonas aeruginosa (strain ATCC 15692 / PAO1 / 1C / PRS 101 / LMG 12228) GN... CYSG_PSEAE - Siroheme synthase OS=Pseudomonas aeruginosa GN=cysG PE=3 SV=1 gi\|254235597, gi... - gi\|84320580\|ref\|ZP_00968953.1\| COG0007: Uroporphyrinogen-III methylase [Pseudomonas aeruginosa C3719... gi\|107102133 - gi\|107102133\|ref\|ZP_01366051.1\| hypothetical protein PaerPA_01003182 [Pseudomonas aeruginosa PACS2]	4.0E-95	[185..566]	[72..459]
SUMT_SCHPO - Probable uroporphyrinogen-III C-methyltransferase OS=Schizosaccharomyces pombe (strain 972 / ATCC 24... SPCC1739.06c - uroporphyrin methyltransferase	2.0E-92	[14..557]	[1..490]

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Predicted Domain #1

Region A:
Residues: [1-216]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MVRDLVTLPS SLPLITAGFA TDQVHLLIGT GSTDSVSVCK NRIHSILNAG GNPIVVNPSS  60
   61 PSHTKQLQLE FGKFAKFEIV EREFRLSDLT TLGRVLVCKV VDRVFVDLPI TQSRLCEEIF 120
  121 WQCQKLRIPI NTFHKPEFST FNMIPTWVDP KGSGLQISVT TNGNGYILAN RIKRDIISHL 180
  181 PPNISEVVIN MGYLKDRIIN EDHKALLEEK YYQTDM

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	34.522879
Match:	1kyqA_
Description:	Bifunctional dehydrogenase/ferrochelatase Met8p, N-terminal domain; Bifunctional dehydrogenase/ferrochelatase Met8p, dimerisation and C-terminal domains
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
uroporphyrin-III C-methyltransferase activity	3.573271502205	bayes_pls_golite062009
C-methyltransferase activity	3.35393353163232	bayes_pls_golite062009
precorrin-4 C11-methyltransferase activity	2.18371138649366	bayes_pls_golite062009
catalytic activity	1.48349578618275	bayes_pls_golite062009
transferase activity	0.912524944496351	bayes_pls_golite062009
binding	0.591538530271277	bayes_pls_golite062009
transferase activity, transferring one-carbon groups	0.463693177369635	bayes_pls_golite062009
methyltransferase activity	0.454156823400351	bayes_pls_golite062009
oxidoreductase activity, acting on CH-OH group of donors	0.418775403210681	bayes_pls_golite062009
S-adenosylmethionine-dependent methyltransferase activity	0.323461631906645	bayes_pls_golite062009
oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor	0.32207755075663	bayes_pls_golite062009
protein binding	0.0615599502226839	bayes_pls_golite062009
uroporphyrinogen-III synthase activity	0.00871858903098705	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [217-321]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 SLPGFGYGLD EDGWESHKFN KLIREFEMTS REQRLKRTRW LSQIMEYYPM NKLSDIKLED  60
   61 FETSSSPNKK TKQETVTEGV VPPTDENIEN GTKQLQLSEV KKEEG

[Run NCBI BLAST on this sequence.]

Detection Method:

deduced

Shown below are all of our de novo (Rosetta) predictions for this domain.
Click here to view only most confident match.

		MCM Score	SCOP Match	SCOP Description
View	Download	0.368	a.4.1	Homeodomain-like
View	Download	0.295	a.45.1	Glutathione S-transferase (GST), C-terminal domain
View	Download	0.347	a.61.1	Retroviral matrix proteins
View	Download	0.308	a.181.1	Antibiotic binding domain of TipA-like multidrug resistance regulators
View	Download	0.286	a.12.1	Kix domain of CBP (creb binding protein)
View	Download	0.280	a.24.16	Nucleotidyltransferase substrate binding subunit/domain
View	Download	0.275	a.74.1	Cyclin-like
View	Download	0.257	a.39.1	EF-hand
View	Download	0.255	a.13.1	alpha-2-Macroglobulin receptor associated protein (RAP) domain 1
View	Download	0.247	a.45.1	Glutathione S-transferase (GST), C-terminal domain
View	Download	0.226	a.74.1	Cyclin-like
View	Download	0.214	a.3.1	Cytochrome c
View	Download	0.203	a.144.1	PABC (PABP) domain

Predicted Domain #3

Region A:
Residues: [322-441]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 PKKLGKISLV GSGPGSVSML TIGALQEIKS ADIILADKLV PQAILDLIPP KTETFIAKKF  60
   61 PGNAERAQQE LLAKGLESLD NGLKVVRLKQ GDPYIFGRGG EEFNFFKDHG YIPVVLPGIS 120
  121

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	213.70927
Match:	2cbf__
Description:	Cobalt precorrin-4 methyltransferase CbiF
Matching Structure (courtesy of the PDB):

Predicted Domain #4

Region A:
Residues: [442-593]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 SSLACTVLAQ IPATQRDIAD QVLICTGTGR KGALPIIPEF VESRTTVFLM ALHRANVLIT  60
   61 GLLKHGWDGD VPAAIVERGS CPDQRVTRTL LKWVPEVVEE IGSRPPGVLV VGKAVNALVE 120
  121 KDLINFDESR KFVIDEGFRE FEVDVDSLFK LY

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	213.70927
Match:	2cbf__
Description:	Cobalt precorrin-4 methyltransferase CbiF
Matching Structure (courtesy of the PDB):

TMHMM	2.0c	PSIPRED	v2.61
SignalP	3.0	COILS	1999
DISOPRED	v0.1	NCBI nr	06/2007
PSI-BLAST	2.2.18	FFAS	ffas03
PDB	06/2007	Pfam	22
HMMER	2.3.2

View Structure Prediction Details

Top Sequence Alignment Hits

Predicted functions: