YRC Public Data Repository - Protein Structure Prediction

Protein:	YBR242W
Organism:	Saccharomyces cerevisiae
Length:	238 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 YBR242W.

Description	E-value	Query Range	Subject Range
YB92_YEAST - HD domain-containing protein YBR242W OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=YBR... YBR242W - Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to th...	8.0E-82	[1..238]	[1..238]
YC0H_SCHPO - HD domain-containing protein C4G3.17 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=SPCC4... SPCC4G3.17 - HD domain	2.0E-56	[47..234]	[8..195]
gi\|18395782, gi\|... - gi\|21593302\|gb\|AAM65251.1\| unknown [Arabidopsis thaliana], gi\|21280857\|gb\|AAM45013.1\| unknown protei...	6.0E-49	[43..225]	[70..249]
gi\|12845074 - gi\|12845074\|dbj\|BAB26609.1\| unnamed protein product [Mus musculus]	7.0E-44	[54..230]	[1..174]
gi\|14521817, gi\|... - gi\|5459037\|emb\|CAB50523.1\| Metal-dependent phosphohydrolase, putative [Pyrococcus abyssi GE5], gi\|14... gi\|7518086, gi\|5... - pir\|\|E75010 hypothetical protein PAB1287 - Pyrococcus abyssi (strain Orsay), gi\|5459037\|emb\|CAB50523...	4.0E-39	[49..232]	[5..179]
YFBR_ECOLI - 5'-nucleotidase yfbR (EC 3.1.3.5) (Nucleoside 5'-monophosphate phosphohydrolase) (5'-deoxyribonucleo... gi\|85675347, gi\|... - gi\|89109111\|ref\|AP_002891.1\| deoxyribonucleoside 5'-monophosphatase [Escherichia coli str. K-12 subs... 5DNU_ECOBW - 5'-deoxynucleotidase YfbR OS=Escherichia coli (strain K12 / MC4100 / BW2952) GN=yfbR PE=3 SV=1 5DNU_ECODH - 5'-deoxynucleotidase YfbR OS=Escherichia coli (strain K12 / DH10B) GN=yfbR PE=3 SV=1 EG14102 - 5'-nucleotidase / 5'-nucleotidase; only canonical deoxyribonucleosides used as substrates EG14102 - 5'-nucleotidase / 5'-nucleotidase; only canonical deoxyribonucleosides used as substrates	7.0E-39	[51..221]	[6..181]
gi\|197265103, gi... - gi\|197265103\|ref\|ZP_03165177.1\| 5'-nucleotidase YfbR [Salmonella enterica subsp. enterica serovar Sa... 5DNU_SALPK - 5'-deoxynucleotidase YfbR OS=Salmonella paratyphi A (strain AKU_12601) GN=yfbR PE=3 SV=1 5DNU_SALDC - 5'-deoxynucleotidase YfbR OS=Salmonella dublin (strain CT_02021853) GN=yfbR PE=3 SV=1 gi\|204928933, gi... - gi\|204928933\|ref\|ZP_03220076.1\| 5'-nucleotidase YfbR [Salmonella enterica subsp. enterica serovar Ja... 5DNU_SALHS - 5'-deoxynucleotidase YfbR OS=Salmonella heidelberg (strain SL476) GN=yfbR PE=3 SV=1 gi\|194456031, gi... - gi\|194469667\|ref\|ZP_03075651.1\| 5'-nucleotidase YfbR [Salmonella enterica subsp. enterica serovar Ke... 5DNU_SALSV - 5'-deoxynucleotidase YfbR OS=Salmonella schwarzengrund (strain CVM19633) GN=yfbR PE=3 SV=1 5DNU_SALA4 - 5'-deoxynucleotidase YfbR OS=Salmonella agona (strain SL483) GN=yfbR PE=3 SV=1 gi\|205349614, gi... - gi\|205349614\|gb\|EDZ36245.1\| 5'-nucleotidase YfbR [Salmonella enterica subsp. enterica serovar Hadar ... gi\|195631381, gi... - gi\|195631381\|gb\|EDX49941.1\| 5'-nucleotidase YfbR [Salmonella enterica subsp. enterica serovar Newpor... gi\|168817935, gi... - gi\|205344927\|gb\|EDZ31691.1\| 5'-nucleotidase YfbR [Salmonella enterica subsp. enterica serovar Weltev... 5DNU_SALPB - 5'-deoxynucleotidase YfbR OS=Salmonella paratyphi B (strain ATCC BAA-1250 / SPB7) GN=yfbR PE=3 SV=1 5DNU_SALNS - 5'-deoxynucleotidase YfbR OS=Salmonella newport (strain SL254) GN=yfbR PE=3 SV=1 gi\|205327499, gi... - gi\|205327499\|gb\|EDZ14263.1\| 5'-nucleotidase YfbR [Salmonella enterica subsp. enterica serovar 4,[5],... gi\|205335942, gi... - gi\|205335942\|gb\|EDZ22706.1\| 5'-nucleotidase YfbR [Salmonella enterica subsp. enterica serovar Kentuc... gi\|197289607, gi... - gi\|197289607\|gb\|EDY28970.1\| 5'-nucleotidase YfbR (5'-deoxyribonucleotidase) [Salmonella enterica sub... gi\|205338591, gi... - gi\|205338591\|gb\|EDZ25355.1\| 5'-nucleotidase YfbR [Salmonella enterica subsp. enterica serovar Heidel... 5DNU_SALCH - 5'-deoxynucleotidase YfbR OS=Salmonella choleraesuis (strain SC-B67) GN=yfbR PE=3 SV=1 5DNU_SALPA - 5'-deoxynucleotidase YfbR OS=Salmonella paratyphi A (strain ATCC 9150 / SARB42) GN=yfbR PE=3 SV=1 YFBR_SALCH - UPF0207 protein yfbR OS=Salmonella choleraesuis GN=yfbR PE=3 SV=1 5DNU_SALG2 - 5'-deoxynucleotidase YfbR OS=Salmonella gallinarum (strain 287/91 / NCTC 13346) GN=yfbR PE=3 SV=1 YFBR_SALTY - UPF0207 protein yfbR OS=Salmonella typhimurium GN=yfbR PE=3 SV=1 YFBR_SALPA - UPF0207 protein yfbR OS=Salmonella paratyphi A GN=yfbR PE=3 SV=1 5DNU_SALEP - 5'-deoxynucleotidase YfbR OS=Salmonella enteritidis PT4 (strain P125109) GN=yfbR PE=3 SV=1 YFBR_SALPB - UPF0207 protein yfbR OS=Salmonella paratyphi B (strain ATCC BAA-1250 / SPB7) GN=yfbR PE=3 SV=1 5DNU_SALPC - 5'-deoxynucleotidase YfbR OS=Salmonella paratyphi C (strain RKS4594) GN=yfbR PE=3 SV=1 lcl\|NC_016856.1_... - [gene=STM14_2875] [protein=hypothetical protein] [protein_id=YP_005238410.1] [location=2494855..2495... 5DNU_SALTY - 5'-deoxynucleotidase YfbR OS=Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) GN=yfbR PE... YFBR_SALTY - UPF0207 protein yfbR OS=Salmonella typhimurium GN=yfbR PE=3 SV=1 gi\|205325422, gi... - gi\|205325422\|gb\|EDZ13261.1\| 5'-nucleotidase YfbR [Salmonella enterica subsp. enterica serovar Saintp... YFBR_SALCH - UPF0207 protein yfbR OS=Salmonella choleraesuis GN=yfbR PE=3 SV=1	1.0E-38	[51..219]	[6..179]
5DNU_ECOLU - 5'-deoxynucleotidase YfbR OS=Escherichia coli O17:K52:H18 (strain UMN026 / ExPEC) GN=yfbR PE=3 SV=1 gi\|208739475, gi... - gi\|208819352\|ref\|ZP_03259672.1\| 5'-nucleotidase [Escherichia coli O157:H7 str. EC4042], gi\|208739475... gi\|208734590, gi... - gi\|208813313\|ref\|ZP_03254642.1\| 5'-nucleotidase [Escherichia coli O157:H7 str. EC4045], gi\|208734590... 5DNU_ECOSE - 5'-deoxynucleotidase YfbR OS=Escherichia coli (strain SE11) GN=yfbR PE=3 SV=1 5DNU_ECO5E - 5'-deoxynucleotidase YfbR OS=Escherichia coli O157:H7 (strain EC4115 / EHEC) GN=yfbR PE=3 SV=1 5DNU_ECO8A - 5'-deoxynucleotidase YfbR OS=Escherichia coli O8 (strain IAI1) GN=yfbR PE=3 SV=1 gi\|217327666, gi... - gi\|217327666\|ref\|ZP_03443749.1\| 5'-nucleotidase [Escherichia coli O157:H7 str. TW14588], gi\|21732003... 5DNU_ECO7I - 5'-deoxynucleotidase YfbR OS=Escherichia coli O7:K1 (strain IAI39 / ExPEC) GN=yfbR PE=3 SV=1 5DNU_ECO55 - 5'-deoxynucleotidase YfbR OS=Escherichia coli (strain 55989 / EAEC) GN=yfbR PE=3 SV=1 gi\|242377924, gi... - gi\|251785651\|ref\|YP_002999955.1\| hypothetical protein B21_02176 [Escherichia coli BL21], gi\|24237792... gi\|253323829, gi... - gi\|254289061\|ref\|YP_003054809.1\| hypothetical protein ECD_02216 [Escherichia coli BL21(DE3)], gi\|253... gi\|253974201, gi... - gi\|254162300\|ref\|YP_003045408.1\| hypothetical protein ECB_02216 [Escherichia coli B str. REL606], gi... gi\|254593583, gi... - gi\|254794183\|ref\|YP_003079020.1\| nucleotidase [Escherichia coli O157:H7 str. TW14359], gi\|254593583\|... 5DNU_ECOLC - 5'-deoxynucleotidase YfbR OS=Escherichia coli (strain ATCC 8739 / DSM 1576 / Crooks) GN=yfbR PE=3 SV... gi\|187771033, gi... - gi\|187771033\|gb\|EDU34877.1\| 5'-nucleotidase [Escherichia coli O157:H7 str. EC4196], gi\|168772981\|ref... gi\|189363026, gi... - gi\|189363026\|gb\|EDU81445.1\| 5'-nucleotidase [Escherichia coli O157:H7 str. EC4486], gi\|168767919\|ref... gi\|124526456, gi... - gi\|124526456\|ref\|ZP_01698409.1\| metal dependent phosphohydrolase [Escherichia coli B], gi\|124501927\|... gi\|168787200, gi... - gi\|189372954\|gb\|EDU91370.1\| 5'-nucleotidase [Escherichia coli O157:H7 str. EC869], gi\|168787200\|ref\|... gi\|194424819, gi... - gi\|83588274\|ref\|ZP_00926899.1\| COG1896: Predicted hydrolases of HD superfamily [Escherichia coli 101... gi\|189001882, gi... - gi\|189001882\|gb\|EDU70868.1\| 5'-nucleotidase [Escherichia coli O157:H7 str. EC4076], gi\|168780148\|ref... gi\|209765056, gi... - pir\|\|G91025 probable alpha helix protein [imported] - Escherichia coli (strain O157:H7, substrain R... 5DNU_ECOHS - 5'-deoxynucleotidase YfbR OS=Escherichia coli O9:H4 (strain HS) GN=yfbR PE=3 SV=1 5DNU_ECOSM - 5'-deoxynucleotidase YfbR OS=Escherichia coli (strain SMS-3-5 / SECEC) GN=yfbR PE=3 SV=1 gi\|75512763, gi\|... - gi\|75512763\|ref\|ZP_00735265.1\| COG1896: Predicted hydrolases of HD superfamily [Escherichia coli 536... gi\|168798463, gi... - gi\|189378871\|gb\|EDU97287.1\| 5'-nucleotidase [Escherichia coli O157:H7 str. EC508], gi\|168798463\|ref\|... 5DNU_ECO57 - 5'-deoxynucleotidase YfbR OS=Escherichia coli O157:H7 GN=yfbR PE=3 SV=1 gi\|208806139, gi... - gi\|208806139\|ref\|ZP_03248476.1\| 5'-nucleotidase [Escherichia coli O157:H7 str. EC4206], gi\|208725940... gi\|12516644, gi\|... - gi\|15802838\|ref\|NP_288865.1\| hypothetical protein Z3552 [Escherichia coli O157:H7 EDL933], gi\|125166... gi\|195935669 - gi\|195935669\|ref\|ZP_03081051.1\| hypothetical protein EscherichcoliO157_04282 [Escherichia coli O157:... gi\|15832429, gi\|... - gi\|15832429\|ref\|NP_311202.1\| hypothetical protein ECs3175 [Escherichia coli O157:H7 str. Sakai], gi\|... gi\|188017214, gi... - gi\|188017214\|gb\|EDU55336.1\| 5'-nucleotidase [Escherichia coli O157:H7 str. EC4113], gi\|168748142\|ref... gi\|168761268, gi... - gi\|189368322\|gb\|EDU86738.1\| 5'-nucleotidase [Escherichia coli O157:H7 str. EC4501], gi\|168761268\|ref... gi\|168755045, gi... - gi\|189357647\|gb\|EDU76066.1\| 5'-nucleotidase [Escherichia coli O157:H7 str. EC4401], gi\|168755045\|ref...	2.0E-38	[51..221]	[6..181]

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Predicted Domain #1

Region A:
Residues: [1-71]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MTATITNKKS CSGSVEAGKT RLTTEWKPES QVPQYVKNEL SKPHPNYILA FLNVVQQLKI  60
   61 QRRTGYLDLG I

[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	0.309	a.77.1	DEATH domain
View	Download	0.458	c.23.1	CheY-like
View	Download	0.650	a.50.1	Anaphylotoxins (complement system)
View	Download	0.503	a.23.5	Hemolysin expression modulating protein HHA
View	Download	0.355	a.23.5	Hemolysin expression modulating protein HHA
View	Download	0.293	a.52.1	Bifunctional inhibitor/lipid-transfer protein/seed storage 2S albumin
View	Download	0.292	a.50.1	Anaphylotoxins (complement system)
View	Download	0.277	a.60.2	RuvA domain 2-like
View	Download	0.276	a.50.1	Anaphylotoxins (complement system)
View	Download	0.270	f.17.1	F1F0 ATP synthase subunit C
View	Download	0.270	g.57.1	Serine proteinase inhibitor lekti
View	Download	0.266	a.60.2	RuvA domain 2-like
View	Download	0.246	a.60.9	lambda integrase-like, N-terminal domain
View	Download	0.236	a.60.1	SAM/Pointed domain
View	Download	0.231	a.17.1	p8-MTCP1
View	Download	0.224	a.2.3	Chaperone J-domain
View	Download	0.222	a.23.5	Hemolysin expression modulating protein HHA
View	Download	0.221	a.43.1	Met repressor-like
View	Download	0.213	a.23.5	Hemolysin expression modulating protein HHA
View	Download	0.211	a.64.1	Saposin
View	Download	0.209	a.118.9	ENTH/VHS domain
View	Download	0.205	a.17.1	p8-MTCP1

Predicted functions:

Term	Confidence	Notes
binding	0.789902125235751	bayes_pls_golite062009
phosphoric ester hydrolase activity	0.745631665100501	bayes_pls_golite062009
catalytic activity	0.527877614007078	bayes_pls_golite062009
hydrolase activity, acting on ester bonds	0.494691732255975	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [72-238]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 KECESISDHM YRLSIITMLI KDSRVNRDKC VRIALVHDIA ESLVGDITPV DPIGKEEKHR  60
   61 REWETIKYLC NALIKPYNEI AAKEIMDDWL AYENVTSLEA RYVKDIDKYE MLVQCFEYER 120
  121 EYKGTKNFDD FFGAVASIKT DEVKGWTSDL VVQRQKYFAD LTQSITK

[Run NCBI BLAST on this sequence.]

Detection Method:	Pfam
Confidence:	8.283997
Match:	PF01966
Description:	HD domain

Shown below are all of our structure predictions for this domain.
Click here to view only most confident match.

Found no structure predictions for this domain.

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: