YRC Public Data Repository - Protein Structure Prediction

Protein:	DAL3
Organism:	Saccharomyces cerevisiae
Length:	195 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

[What does the above image mean?]

[Show Ginzu Version Information]

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 DAL3.

Description	E-value	Query Range	Subject Range
DAL3 - Ureidoglycolate hydrolase, converts ureidoglycolate to glyoxylate and urea in the third step of alla... ALLA_YEAST - Ureidoglycolate lyase OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=DAL3 PE=1 SV=1	8.0E-77	[1..195]	[1..195]
ALLA_BRUME - Ureidoglycolate hydrolase OS=Brucella melitensis GN=allA PE=3 SV=1 ALLA_BRUME - Ureidoglycolate lyase OS=Brucella melitensis biotype 1 (strain 16M / ATCC 23456 / NCTC 10094) GN=all... ALLA_BRUMB - Ureidoglycolate lyase OS=Brucella melitensis biotype 2 (strain ATCC 23457) GN=allA PE=3 SV=1	8.0E-58	[1..188]	[3..158]
ALLA_PSEAB - Ureidoglycolate lyase OS=Pseudomonas aeruginosa (strain UCBPP-PA14) GN=allA PE=3 SV=1 ALLA_PSEA8 - Ureidoglycolate lyase OS=Pseudomonas aeruginosa (strain LESB58) GN=allA PE=3 SV=1 ALLA_PSEAE - Ureidoglycolate lyase OS=Pseudomonas aeruginosa (strain ATCC 15692 / PAO1 / 1C / PRS 101 / LMG 12228... gi\|254239863, gi... - gi\|84328428\|ref\|ZP_00976435.1\| COG3194: Ureidoglycolate hydrolase [Pseudomonas aeruginosa 2192], gi\|... gi\|126166541, gi... - gi\|84321700\|ref\|ZP_00970054.1\| COG3194: Ureidoglycolate hydrolase [Pseudomonas aeruginosa C3719], gi... ALLA_PSEAE - Ureidoglycolate hydrolase OS=Pseudomonas aeruginosa GN=allA PE=3 SV=1	1.0E-56	[1..190]	[1..159]
gi\|25353288, gi\|... - gi\|25353292\|pir\|\|B97639 hypothetical protein AGR_C_4225 [imported] - Agrobacterium tumefaciens (stra... ALLA_AGRFC - Ureidoglycolate lyase OS=Agrobacterium fabrum (strain C58 / ATCC 33970) GN=allA PE=3 SV=1	2.0E-55	[4..191]	[5..160]
ALLA1_RHIME, ALL... - Ureidoglycolate hydrolase 1 OS=Rhizobium meliloti GN=allA1 PE=3 SV=1, (Q92UG4) Ureidoglycolate hydro... ALLA1_RHIME - Ureidoglycolate lyase 1 OS=Rhizobium meliloti (strain 1021) GN=allA1 PE=3 SV=1	3.0E-55	[4..191]	[5..160]
ALLA_RHILO - Ureidoglycolate hydrolase OS=Rhizobium loti GN=allA PE=3 SV=1 ALLA_RHILO - Ureidoglycolate lyase OS=Rhizobium loti (strain MAFF303099) GN=allA PE=3 SV=1	1.0E-54	[1..190]	[1..158]
gi\|25353293, gi\|... - pir\|\|F90699 ureidoglycolate hydrolase [imported] - Escherichia coli (strain O157:H7, substrain RIMD... ALLA_SHIFL - Ureidoglycolate lyase OS=Shigella flexneri GN=allA PE=1 SV=1 gi\|242376284, gi... - gi\|251784011\|ref\|YP_002998315.1\| hypothetical protein B21_00460 [Escherichia coli BL21], gi\|24237628... gi\|30040241, gi\|... - gi\|30061997\|ref\|NP_836168.1\| ureidoglycolate hydrolase [Shigella flexneri 2a str. 2457T], gi\|3004024... gi\|253774506, gi... - gi\|254287377\|ref\|YP_003053125.1\| ureidoglycolate hydrolase [Escherichia coli BL21(DE3)], gi\|25397668... ALLA_ECO57 - Ureidoglycolate lyase OS=Escherichia coli O157:H7 GN=allA PE=1 SV=1 gi\|24111881, gi\|... - gi\|24111881\|ref\|NP_706391.1\| ureidoglycolate hydrolase [Shigella flexneri 2a str. 301], gi\|24050681\|... gi\|253972474, gi... - gi\|254160573\|ref\|YP_003043681.1\| ureidoglycolate hydrolase [Escherichia coli B str. REL606], gi\|2539... gi\|254591095, gi... - gi\|254791695\|ref\|YP_003076532.1\| ureidoglycolate hydrolase [Escherichia coli O157:H7 str. TW14359], ... gi\|12513397, gi\|... - gi\|15800241\|ref\|NP_286253.1\| ureidoglycolate hydrolase [Escherichia coli O157:H7 EDL933], gi\|1251339... gi\|194423706, gi... - gi\|83587044\|ref\|ZP_00925674.1\| COG3194: Ureidoglycolate hydrolase [Escherichia coli 101-1], gi\|19443... ALLA_SHIB3 - Ureidoglycolate lyase OS=Shigella boydii serotype 18 (strain CDC 3083-94 / BS512) GN=allA PE=3 SV=1 ALLA_ECOHS - Ureidoglycolate lyase OS=Escherichia coli O9:H4 (strain HS) GN=allA PE=3 SV=1 gi\|75229338 - gi\|75229338\|ref\|ZP_00715893.1\| COG3194: Ureidoglycolate hydrolase [Escherichia coli B7A] gi\|192959153, gi... - gi\|75239003\|ref\|ZP_00722985.1\| COG3194: Ureidoglycolate hydrolase [Escherichia coli E110019], gi\|193... gi\|188017664, gi... - gi\|188017664\|gb\|EDU55786.1\| ureidoglycolate hydrolase [Escherichia coli O157:H7 str. EC4113], gi\|168... gi\|188493003, gi... - gi\|75514624\|ref\|ZP_00736879.1\| COG3194: Ureidoglycolate hydrolase [Escherichia coli 53638], gi\|18849... ALLA_SHIDS - Ureidoglycolate lyase OS=Shigella dysenteriae serotype 1 (strain Sd197) GN=allA PE=3 SV=1 gi\|168760330, gi... - gi\|189369157\|gb\|EDU87573.1\| ureidoglycolate hydrolase [Escherichia coli O157:H7 str. EC4501], gi\|168... ALLA_SHIBS - Ureidoglycolate lyase OS=Shigella boydii serotype 4 (strain Sb227) GN=allA PE=3 SV=1 gi\|168754619, gi... - gi\|189358070\|gb\|EDU76489.1\| ureidoglycolate hydrolase [Escherichia coli O157:H7 str. EC4401], gi\|168... gi\|15829820, gi\|... - gi\|15829820\|ref\|NP_308593.1\| ureidoglycolate hydrolase [Escherichia coli O157:H7 str. Sakai], gi\|133... ALLA_SHIF8 - Ureidoglycolate lyase OS=Shigella flexneri serotype 5b (strain 8401) GN=allA PE=3 SV=1 gi\|194419002, gi... - gi\|83570167\|ref\|ZP_00921613.1\| COG3194: Ureidoglycolate hydrolase [Shigella dysenteriae 1012], gi\|19... ALLA_ECO5E - Ureidoglycolate lyase OS=Escherichia coli O157:H7 (strain EC4115 / EHEC) GN=allA PE=3 SV=1 gi\|208822890, gi... - gi\|208822890\|ref\|ZP_03263208.1\| ureidoglycolate hydrolase [Escherichia coli O157:H7 str. EC4042], gi... gi\|217324272, gi... - gi\|217324272\|ref\|ZP_03440356.1\| ureidoglycolate hydrolase [Escherichia coli O157:H7 str. TW14588], g... ALLA_ECOSE - Ureidoglycolate lyase OS=Escherichia coli (strain SE11) GN=allA PE=3 SV=1 gi\|187769695, gi... - gi\|187769695\|gb\|EDU33539.1\| ureidoglycolate hydrolase [Escherichia coli O157:H7 str. EC4196], gi\|168... gi\|189362461, gi... - gi\|189362461\|gb\|EDU80880.1\| ureidoglycolate hydrolase [Escherichia coli O157:H7 str. EC4486], gi\|168... gi\|189373573, gi... - gi\|189373573\|gb\|EDU91989.1\| ureidoglycolate hydrolase [Escherichia coli O157:H7 str. EC869], gi\|1687... gi\|189003093, gi... - gi\|189003093\|gb\|EDU72079.1\| ureidoglycolate hydrolase [Escherichia coli O157:H7 str. EC4076], gi\|168... ALLA_ECOLC - Ureidoglycolate lyase OS=Escherichia coli (strain ATCC 8739 / DSM 1576 / Crooks) GN=allA PE=3 SV=1 gi\|195936075 - gi\|195936075\|ref\|ZP_03081457.1\| ureidoglycolate hydrolase [Escherichia coli O157:H7 str. EC4024] gi\|189379285, gi... - gi\|189379285\|gb\|EDU97701.1\| ureidoglycolate hydrolase [Escherichia coli O157:H7 str. EC508], gi\|1687... gi\|208732389, gi... - gi\|208815741\|ref\|ZP_03256920.1\| ureidoglycolate hydrolase [Escherichia coli O157:H7 str. EC4045], gi... gi\|208727950, gi... - gi\|208808149\|ref\|ZP_03250486.1\| ureidoglycolate hydrolase [Escherichia coli O157:H7 str. EC4206], gi... gi\|124529315, gi... - gi\|124529315\|ref\|ZP_01700349.1\| Ureidoglycolate hydrolase [Escherichia coli B], gi\|124499915\|gb\|EAY4...	5.0E-54	[3..192]	[2..158]
ALLA_ECODH - Ureidoglycolate lyase OS=Escherichia coli (strain K12 / DH10B) GN=allA PE=1 SV=1 EG13615 - ureidoglycolate lyase, releasing urea / Ureidoglycolate lyase, releasing urea gi\|85674643, gi\|... - gi\|89107373\|ref\|AP_001153.1\| ureidoglycolate hydrolase [Escherichia coli str. K-12 substr. W3110], g... ALLA_ECOBW - Ureidoglycolate lyase OS=Escherichia coli (strain K12 / MC4100 / BW2952) GN=allA PE=3 SV=1 EG13615 - ureidoglycolate lyase, releasing urea / Ureidoglycolate lyase, releasing urea ALLA_ECOLI - Ureidoglycolate hydrolase (EC 3.5.3.19) - Escherichia coli	2.0E-53	[3..192]	[2..158]
ALLA_SALTY - Ureidoglycolate hydrolase OS=Salmonella typhimurium GN=allA PE=3 SV=1 lcl\|NC_016856.1_... - [gene=allA] [protein=ureidoglycolate hydrolase] [protein_id=YP_005236218.1] [location=576697..577179... gi\|167990508, gi... - gi\|205330925\|gb\|EDZ17689.1\| ureidoglycolate hydrolase [Salmonella enterica subsp. enterica serovar 4... ALLA_SALTY - Ureidoglycolate hydrolase OS=Salmonella typhimurium GN=allA PE=3 SV=1 ALLA_SALTY - Ureidoglycolate lyase OS=Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) GN=allA PE=3 S...	3.0E-52	[3..192]	[2..158]
ALLA_SALEN - Ureidoglycolate hydrolase OS=Salmonella enteritidis GN=allA PE=3 SV=1 ALLA_SALEP - Ureidoglycolate lyase OS=Salmonella enteritidis PT4 (strain P125109) GN=allA PE=3 SV=1 ALLA_SALEN - Ureidoglycolate lyase OS=Salmonella enteritidis GN=allA PE=3 SV=1	8.0E-52	[3..192]	[2..158]

Back

Predicted Domain #1

Region A:
Residues: [1-195]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MVTVVAETLT KESFEEYGTI ISPDEEISRM QNLEKGANQG TAIKLLQVSQ VENKSTSKVP  60
   61 NWNLFRCFPQ PHLNRVFTQG SNQAISHSIK VLEKHPCSTQ TFVPMGRTSA EVAYLVVVAK 120
  121 EIGNKPDLST LRAFTCLGNQ AVTYGLGTWH APMIVLGKEE HLDFSVLIYE SLDPDRPEKD 180
  181 CVEEHYSDGD VCIII

[Run NCBI BLAST on this sequence.]

Detection Method:

deduced

Shown below is our most confident de novo (Rosetta) prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

Predicted functions:

Term	Confidence	Notes
ureidoglycolate hydrolase activity	2.63080015873229	bayes_pls_golite062009
oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen	1.64225826538892	bayes_pls_golite062009
dioxygenase activity	0.930778069601015	bayes_pls_golite062009
oxidoreductase activity, acting on single donors with incorporation of molecular oxygen	0.901194069960417	bayes_pls_golite062009
binding	0.797072992275176	bayes_pls_golite062009
nucleic acid binding	0.623892372229422	bayes_pls_golite062009
DNA binding	0.483453407263708	bayes_pls_golite062009
transcription regulator activity	0.465649136635506	bayes_pls_golite062009
catalytic activity	0.401988496917198	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: