YRC Public Data Repository - Protein Structure Prediction

Protein:	SEE1
Organism:	Saccharomyces cerevisiae
Length:	257 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 SEE1.

Description	E-value	Query Range	Subject Range
SEE1 - Protein with a role in intracellular transport; has sequence similarity to S-adenosylmethionine-depe... EFM4_YEAST - Protein-lysine N-methyltransferase EFM4 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=...	2.0E-55	[1..257]	[1..257]
UBIE_LISIN - Demethylmenaquinone methyltransferase OS=Listeria innocua GN=ubiE PE=3 SV=1 UBIE_LISMO - Demethylmenaquinone methyltransferase OS=Listeria monocytogenes GN=ubiE PE=3 SV=1 MENG_LISIN - Demethylmenaquinone methyltransferase OS=Listeria innocua serovar 6a (strain CLIP 11262) GN=menG PE=... gi\|47094454, gi\|... - gi\|47094454\|ref\|ZP_00232134.1\| 2-heptaprenyl-1,4-naphthoquinone methyltransferase [Listeria monocyto... UBIE_LISMC - Menaquinone biosynthesis methyltransferase ubiE OS=Listeria monocytogenes serotype 4b (strain Clip81... gi\|254825574 - gi\|254825574\|ref\|ZP_05230575.1\| ubiquinone/menaquinone biosynthesis methyltransferase [Listeria mono... gi\|254852834 - gi\|254852834\|ref\|ZP_05242182.1\| ubiquinone/menaquinone biosynthesis methyltransferase [Listeria mono... gi\|254877951 - gi\|254877951\|ref\|ZP_05250661.1\| ubiquinone/menaquinone biosynthesis methyltransferase [Listeria mono... MENG_LISMC - Demethylmenaquinone methyltransferase OS=Listeria monocytogenes serotype 4b (strain CLIP80459) GN=me... MENG_LISMF - Demethylmenaquinone methyltransferase OS=Listeria monocytogenes serotype 4b (strain F2365) GN=menG P... gi\|254993470 - gi\|254993470\|ref\|ZP_05275660.1\| ubiquinone/menaquinone biosynthesis methyltransferase [Listeria mono... MENG_LISMO - Demethylmenaquinone methyltransferase OS=Listeria monocytogenes serovar 1/2a (strain ATCC BAA-679 / ... gi\|255521039 - gi\|255521039\|ref\|ZP_05388276.1\| ubiquinone/menaquinone biosynthesis methyltransferase [Listeria mono... gi\|254831468, gi... - gi\|254831468\|ref\|ZP_05236123.1\| ubiquinone/menaquinone biosynthesis methyltransferase [Listeria mono... gi\|153167788, gi... - gi\|153167788\|ref\|ZP_01927873.1\| 2-heptaprenyl-1,4-naphthoquinone methyltransferase [Listeria monocyt... gi\|254827184, gi... - gi\|254827184\|ref\|ZP_05231871.1\| ubiquinone/menaquinone biosynthesis methyltransferase [Listeria mono... gi\|153202924, gi... - gi\|254931898\|ref\|ZP_05265257.1\| ubiquinone/menaquinone biosynthesis methyltransferase [Listeria mono... gi\|224498619 - gi\|224498619\|ref\|ZP_03666968.1\| ubiquinone/menaquinone biosynthesis methyltransferase [Listeria mono... gi\|224501270 - gi\|224501270\|ref\|ZP_03669577.1\| ubiquinone/menaquinone biosynthesis methyltransferase [Listeria mono...	3.0E-40	[57..251]	[12..194]
MENG_MICLU - Demethylmenaquinone methyltransferase OS=Micrococcus luteus GN=menG PE=3 SV=1	5.0E-40	[48..253]	[14..205]
MENG_STAA1 - Demethylmenaquinone methyltransferase OS=Staphylococcus aureus (strain Mu3 / ATCC 700698) GN=menG PE... MENG_STAAW - Demethylmenaquinone methyltransferase OS=Staphylococcus aureus (strain MW2) GN=menG PE=3 SV=1 MENG_STAAE - Demethylmenaquinone methyltransferase OS=Staphylococcus aureus (strain Newman) GN=menG PE=3 SV=1 MENG_STAA9 - Demethylmenaquinone methyltransferase OS=Staphylococcus aureus (strain JH9) GN=menG PE=3 SV=1 gi\|269203096\|ref... - ubiquinone/menaquinone biosynthesis methyltransferase [Staphylococcus aureus subsp. aureus ED98] gi\|25304996 - pir\|\|G89925 menaquinone biosynthesis methyltransferase [imported] - Staphylococcus aureus (strain N3... MENG_STAAT - Demethylmenaquinone methyltransferase OS=Staphylococcus aureus (strain USA300 / TCH1516) GN=menG PE=... gi\|221140962 - gi\|221140962\|ref\|ZP_03565455.1\| ubiquinone/menaquinone biosynthesis methyltransferase [Staphylococcu... MENG_STAAS - Demethylmenaquinone methyltransferase OS=Staphylococcus aureus (strain MSSA476) GN=menG PE=3 SV=1 gi\|221138325 - gi\|221138325\|ref\|ZP_03563127.1\| ubiquinone/menaquinone biosynthesis methyltransferase [Staphylococcu... MENG_STAAM - Demethylmenaquinone methyltransferase OS=Staphylococcus aureus (strain Mu50 / ATCC 700699) GN=menG P... MENG_STAAN - Demethylmenaquinone methyltransferase OS=Staphylococcus aureus (strain N315) GN=menG PE=1 SV=1 gi\|251802063, gi... - gi\|251814398\|ref\|ZP_04828871.1\| ubiquinone/menaquinone biosynthesis methyltransferase [Staphylococcu... gi\|253315978 - gi\|253315978\|ref\|ZP_04839191.1\| ubiquinone/menaquinone biosynthesis methyltransferase [Staphylococcu... gi\|253732113, gi... - gi\|253732113\|ref\|ZP_04866278.1\| ubiquinone/menaquinone biosynthesis methyltransferase [Staphylococcu... gi\|253728822, gi... - gi\|253733282\|ref\|ZP_04867447.1\| ubiquinone/menaquinone biosynthesis methyltransferase [Staphylococcu... gi\|255006257 - gi\|255006257\|ref\|ZP_05144858.2\| ubiquinone/menaquinone biosynthesis methyltransferase [Staphylococcu... MENG_STAA2 - Demethylmenaquinone methyltransferase OS=Staphylococcus aureus (strain JH1) GN=menG PE=3 SV=1 MENG_STAAC - Demethylmenaquinone methyltransferase OS=Staphylococcus aureus (strain COL) GN=menG PE=3 SV=1	1.0E-39	[56..254]	[13..197]
gi\|11277873 - pir\|\|A81324 cyclopropane-fatty-acyl-phospholipid synthase (EC 2.1.1.79) Cj1183c [similarity] - Campy... gi\|15792507, gi\|... - gi\|6968616\|emb\|CAB73437.1\| putative cyclopropane-fatty-acyl-phospholipid synthase [Campylobacter jej...	1.0E-39	[8..252]	[54..299]
gi\|254699182 - gi\|254699182\|ref\|ZP_05161010.1\| ubiquinone/menaquinone biosynthesis methyltransferase [Brucella abor... gi\|254705477 - gi\|254705477\|ref\|ZP_05167305.1\| ubiquinone/menaquinone biosynthesis methyltransferase [Brucella pinn... gi\|254690622 - gi\|254690622\|ref\|ZP_05153876.1\| ubiquinone/menaquinone biosynthesis methyltransferase [Brucella abor... gi\|254696073 - gi\|254696073\|ref\|ZP_05157901.1\| ubiquinone/menaquinone biosynthesis methyltransferase [Brucella abor... gi\|254732627 - gi\|254732627\|ref\|ZP_05191205.1\| ubiquinone/menaquinone biosynthesis methyltransferase [Brucella abor... gi\|254710710 - gi\|254710710\|ref\|ZP_05172521.1\| ubiquinone/menaquinone biosynthesis methyltransferase [Brucella pinn... gi\|254715888 - gi\|254715888\|ref\|ZP_05177699.1\| ubiquinone/menaquinone biosynthesis methyltransferase [Brucella ceti... UBIE_BRUA1 - Ubiquinone/menaquinone biosynthesis C-methyltransferase UbiE OS=Brucella abortus (strain S19) GN=ubi... UBIE_BRUA2 - Ubiquinone/menaquinone biosynthesis C-methyltransferase UbiE OS=Brucella abortus (strain 2308) GN=ub... UBIE_BRUAB - Ubiquinone/menaquinone biosynthesis C-methyltransferase UbiE OS=Brucella abortus biovar 1 (strain 9-... UBIE_BRUME - Ubiquinone/menaquinone biosynthesis methyltransferase ubiE OS=Brucella melitensis GN=ubiE PE=3 SV=1 UBIE_BRUAB - Ubiquinone/menaquinone biosynthesis methyltransferase ubiE OS=Brucella abortus GN=ubiE PE=3 SV=1 UBIE_BRUMB - Ubiquinone/menaquinone biosynthesis C-methyltransferase UbiE OS=Brucella melitensis biotype 2 (strai... gi\|237817434, gi... - gi\|237817434\|ref\|ZP_04596426.1\| ubiquinone/menaquinone biosynthesis methyltransferase [Brucella abor... UBIE_BRUME - Ubiquinone/menaquinone biosynthesis C-methyltransferase UbiE OS=Brucella melitensis biotype 1 (strai... gi\|225616009, gi... - gi\|225629513\|ref\|ZP_03787546.1\| ubiquinone/menaquinone biosynthesis methyltransferase [Brucella ceti...	2.0E-39	[28..256]	[15..232]
gi\|3560474 - gi\|3560474\|gb\|AAC34951.1\| S-adenosyl-methionine-sterol-C- methyltransferase [Nicotiana tabacum]	1.0E-38	[1..250]	[1..239]
gi\|15600739, gi\|... - gi\|9951886\|gb\|AAG08931.1\|AE004967_2 conserved hypothetical protein [Pseudomonas aeruginosa PAO1], gi... gi\|11348354 - pir\|\|C82951 conserved hypothetical protein PA5546 [imported] - Pseudomonas aeruginosa (strain PAO1)	1.0E-38	[10..251]	[71..302]
UBIE_PASMU - Ubiquinone/menaquinone biosynthesis methyltransferase ubiE OS=Pasteurella multocida GN=ubiE PE=3 SV=... UBIE_PASMU - Ubiquinone/menaquinone biosynthesis C-methyltransferase UbiE OS=Pasteurella multocida (strain Pm70) ...	2.0E-38	[35..255]	[23..230]
gi\|3560531 - gi\|3560531\|gb\|AAC34988.1\| cycloartenol-C24-methyltransferase [Oryza sativa subsp. japonica]	2.0E-38	[1..234]	[1..227]

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Predicted Domain #1

Region A:
Residues: [1-257]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MKRSEKKSMS SALKNGIMER TQPEKVVQMQ GTADLSTSKL GTKKYWDELY ALELENFRRN  60
   61 PQDTGDCWFS DSDAEQKMID FLVDNIGAYR ISENASVVDL GTGNGHMLFE LHQTEFQGKL 120
  121 VGIDYSEESV KLASNIAEAT GVDNFISFQQ ADIFSGDWKP GKYDIVLDKG TLDAISLSGM 180
  181 KINGKLDVVD VYAGVVERIL KKDGIFLITS CNFTQDELVK IIETDNLKMW KTIKYPVFQF 240
  241 GGVQGATICS VAFVKQN

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	35.30103
Match:	1kpiA_
Description:	CmaA1
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
transferase activity	1.55708326065545	bayes_pls_golite062009
catalytic activity	0.710731808917009	bayes_pls_golite062009
binding	0.525862599962993	bayes_pls_golite062009
transferase activity, transferring one-carbon groups	0.352072576393216	bayes_pls_golite062009
methyltransferase activity	0.349480046648587	bayes_pls_golite062009

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: