YRC Public Data Repository - Protein Structure Prediction

Protein:	CPA2
Organism:	Saccharomyces cerevisiae
Length:	1118 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 CPA2.

Description	E-value	Query Range	Subject Range
gi\|124122439, gi... - gi\|153802029\|ref\|ZP_01956615.1\| carbamoyl-phosphate synthase, large subunit [Vibrio cholerae MZO-3],... gi\|126519143, gi... - gi\|229512256\|ref\|ZP_04401735.1\| carbamoyl-phosphate synthase large chain [Vibrio cholerae B33], gi\|2... gi\|125617231, gi... - gi\|75828898\|ref\|ZP_00758228.1\| COG0458: Carbamoylphosphate synthase large subunit (split gene in MJ)... gi\|147673654, gi... - gi\|75827657\|ref\|ZP_00757092.1\| COG0458: Carbamoylphosphate synthase large subunit (split gene in MJ)... CARB_VIBCH - Carbamoyl-phosphate synthase large chain OS=Vibrio cholerae serotype O1 (strain ATCC 39315 / El Tor ... gi\|153828839, gi... - gi\|153828839\|ref\|ZP_01981506.1\| carbamoyl-phosphate synthase, large subunit [Vibrio cholerae 623-39]... gi\|229607054, gi... - gi\|229607054\|ref\|YP_002877702.1\| carbamoyl-phosphate synthase large chain [Vibrio cholerae MJ-1236],... gi\|229528623, gi... - gi\|229528623\|ref\|ZP_04418013.1\| carbamoyl-phosphate synthase large chain [Vibrio cholerae 12129(1)],... gi\|229521221, gi... - gi\|229521221\|ref\|ZP_04410641.1\| carbamoyl-phosphate synthase large chain [Vibrio cholerae TM 11079-8... gi\|229344081, gi... - gi\|229519392\|ref\|ZP_04408835.1\| carbamoyl-phosphate synthase large chain [Vibrio cholerae RC9], gi\|2... gi\|229507548, gi... - gi\|229507548\|ref\|ZP_04397053.1\| carbamoyl-phosphate synthase large chain [Vibrio cholerae BX 330286]... gi\|227082512, gi... - gi\|227082512\|ref\|YP_002811063.1\| carbamoyl-phosphate synthase, large subunit [Vibrio cholerae M66-2]... gi\|121591079, gi... - gi\|121591079\|ref\|ZP_01678391.1\| carbamoyl-phosphate synthase, large subunit [Vibrio cholerae 2740-80... CARB_VIBCH - Carbamoyl-phosphate synthase large chain OS=Vibrio cholerae GN=carB PE=3 SV=1 gi\|124113657, gi... - gi\|153217328\|ref\|ZP_01951079.1\| carbamoyl-phosphate synthase, large subunit [Vibrio cholerae 1587], ... gi\|153225032, gi... - gi\|153225032\|ref\|ZP_01954678.1\| carbamoyl-phosphate synthase, large subunit [Vibrio cholerae MAK 757...	0.0	[23..1101]	[2..1068]
gi\|1518088, gi\|1... - gi\|185132254\|ref\|NP_001118181.1\| carbamoyl-phosphate synthetase III [Oncorhynchus mykiss], gi\|151808...	0.0	[23..1100]	[415..1491]
gi\|7507776 - gi\|7507776\|pir\|\|T16867 probable cytochrome P450 T13C5.1 [similarity] - Caenorhabditis elegans	0.0	[23..1110]	[418..1502]
gi\|5499725 - gi\|5499725\|gb\|AAD43968.1\|AF119250_1 carbamoyl-phosphate synthetase III [Alcolapia grahami]	0.0	[23..1111]	[416..1504]
CARB_NEIMA - Carbamoyl-phosphate synthase large chain OS=Neisseria meningitidis serogroup A / serotype 4A (strain... CARB_NEIMA - Carbamoyl-phosphate synthase large chain OS=Neisseria meningitidis serogroup A GN=carB PE=3 SV=1 gi\|11272704 - pir\|\|F81979 carbamoyl-phosphate synthase (glutamine-hydrolyzing) (EC 6.3.5.5) large chain NMA0602 [i...	0.0	[23..1101]	[2..1064]
PYR1_SCHPO - Protein ura1 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=ura1 PE=1 SV=1 ura1 - carbamoyl-phosphate synthase (glutamine hydrolyzing), aspartate carbamoyltransferase Ura1	0.0	[14..1102]	[461..1535]
URA2 - Bifunctional carbamoylphosphate synthetase (CPSase)-aspartate transcarbamylase (ATCase), catalyzes t...	0.0	[16..1102]	[427..1503]
gi\|229690759, gi... - gi\|229842449\|ref\|ZP_04462604.1\| carbamoyl-phosphate synthase large subunit [Yersinia pestis biovar O... gi\|229696735, gi... - gi\|229840369\|ref\|ZP_04460528.1\| carbamoyl-phosphate synthase large subunit [Yersinia pestis biovar O... gi\|229705878, gi... - gi\|229836935\|ref\|ZP_04457100.1\| carbamoyl-phosphate synthase large subunit [Yersinia pestis Pestoide... gi\|167426016, gi... - gi\|167426016\|ref\|ZP_02317769.1\| carbamoyl-phosphate synthase, large subunit [Yersinia pestis biovar ... gi\|77634648, gi\|... - gi\|77634648\|ref\|ZP_00796744.1\| COG0458: Carbamoylphosphate synthase large subunit (split gene in MJ)... gi\|22127566, gi\|... - gi\|22127566\|ref\|NP_670989.1\| carbamoyl phosphate synthase large subunit [Yersinia pestis KIM], gi\|21... gi\|165914176, gi... - gi\|89102796\|ref\|ZP_01175405.1\| COG0458: Carbamoylphosphate synthase large subunit (split gene in MJ)... CARB_YERPE - Carbamoyl-phosphate synthase large chain OS=Yersinia pestis GN=carB PE=3 SV=3 gi\|108781978, gi... - gi\|108810065\|ref\|YP_653981.1\| carbamoyl phosphate synthase large subunit [Yersinia pestis Antiqua], ... gi\|218927680, gi... - gi\|218927680\|ref\|YP_002345555.1\| carbamoyl phosphate synthase large subunit [Yersinia pestis CO92], ... gi\|229900708, gi... - gi\|229900708\|ref\|ZP_04515832.1\| carbamoyl-phosphate synthase large subunit [Yersinia pestis Nepal516... gi\|45443429, gi\|... - gi\|45443429\|ref\|NP_994968.1\| carbamoyl phosphate synthase large subunit [Yersinia pestis biovar Micr... gi\|165927321, gi... - gi\|165927321\|ref\|ZP_02223153.1\| carbamoyl-phosphate synthase, large subunit [Yersinia pestis biovar ... gi\|166008680, gi... - gi\|166008680\|ref\|ZP_02229578.1\| carbamoyl-phosphate synthase, large subunit [Yersinia pestis biovar ... gi\|166206615, gi... - gi\|166211869\|ref\|ZP_02237904.1\| carbamoyl-phosphate synthase, large subunit [Yersinia pestis biovar ... gi\|149289889, gi... - gi\|150260481\|ref\|ZP_01917209.1\| carbamoyl-phosphate synthase large chain [Yersinia pestis CA88-4125]... gi\|167401670, gi... - gi\|167401670\|ref\|ZP_02307164.1\| carbamoyl-phosphate synthase, large subunit [Yersinia pestis biovar ... gi\|167421983, gi... - gi\|167421983\|ref\|ZP_02313736.1\| carbamoyl-phosphate synthase, large subunit [Yersinia pestis biovar ...	0.0	[23..1108]	[2..1077]
gi\|530209 - gi\|530209\|gb\|AAA96435.1\| carbamyl phosphate synthetase III	0.0	[23..1110]	[418..1502]
PYR1_MESAU - CAD protein OS=Mesocricetus auratus GN=CAD PE=1 SV=4	0.0	[26..1104]	[391..1465]

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Predicted Domain #1

Region A:
Residues: [1-682]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MTSIYTSTEP TNSAFTTEDY KPQLVEGVNS VLVIGSGGLS IGQAGEFDYS GSQAIKALKE  60
   61 DNKFTILVNP NIATNQTSHS LADKIYYLPV TPEYITYIIE LERPDAILLT FGGQTGLNCG 120
  121 VALDESGVLA KYNVKVLGTP IKTLITSEDR DLFASALKDI NIPIAESFAC ETVDEALEAA 180
  181 ERVKYPVIVR SAYALGGLGS GFANNASEMK ELAAQSLSLA PQILVEKSLK GWKEVEYEVV 240
  241 RDRVGNCITV CNMENFDPLG VHTGDSMVFA PSQTLSDEEF HMLRSAAIKI IRHLGVIGEC 300
  301 NVQYALQPDG LDYRVIEVNA RLSRSSALAS KATGYPLAYT AAKIGLGYTL PELPNPITKT 360
  361 TVANFEPSLD YIVAKIPKWD LSKFQYVDRS IGSSMKSVGE VMAIGRNYEE AFQKALRQVD 420
  421 PSLLGFQGST EFGDQLDEAL RTPTDRRVLA IGQALIHENY TVERVNELSK IDKWFLYKCM 480
  481 NIVNIYKELE SVKSLSDLSK DLLQRAKKLG FSDKQIAVTI NKHASTNINE LEIRSLRKTL 540
  541 GIIPFVKRID TLAAEFPAQT NYLYTTYNAT KNDVEFNENG MLVLGSGVYR IGSSVEFDWC 600
  601 AVNTAKTLRD QGKKTIMINY NPETVSTDFD EVDRLYFEEL SYERVMDIYE LEQSEGCIIS 660
  661 VGGQLPQNIA LKLYDNGCNI MG

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	11000.0
Match:	1bxrA_
Description:	Carbamoyl phosphate synthetase, large subunit connection domain; Carbamoyl phosphate synthetase, large subunit allosteric, C-terminal domain; Carbamoyl phosphate synthetase (CPS), large subunit PreATP-grasp domains; Carbamoyl phosphate synthetase (CPS), large subunit ATP-binding domains
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
carbamoyl-phosphate synthase activity	10.3961907577933	bayes_pls_golite062009
carbamoyl-phosphate synthase (glutamine-hydrolyzing) activity	10.3817460390594	bayes_pls_golite062009
carbon-nitrogen ligase activity, with glutamine as amido-N-donor	7.55690629692775	bayes_pls_golite062009
ligase activity, forming carbon-nitrogen bonds	6.95559501787172	bayes_pls_golite062009
ligase activity	1.91091941710895	bayes_pls_golite062009
phosphoribosylaminoimidazole carboxylase activity	1.57708889650281	bayes_pls_golite062009
catalytic activity	1.08688404807699	bayes_pls_golite062009
phosphoribosylamine-glycine ligase activity	1.04915286326924	bayes_pls_golite062009
carbon-oxygen lyase activity, acting on phosphates	0.964679554894316	bayes_pls_golite062009
phosphoribosylaminoimidazolecarboxamide formyltransferase activity	0.898425265043358	bayes_pls_golite062009
acid-amino acid ligase activity	0.730894973410499	bayes_pls_golite062009
carbon-oxygen lyase activity	0.482425669839603	bayes_pls_golite062009
lyase activity	0.432948879967458	bayes_pls_golite062009
ligase activity, forming carbon-sulfur bonds	0.37779550230552	bayes_pls_golite062009
hydroxymethyl-, formyl- and related transferase activity	0.2431211195117	bayes_pls_golite062009
glutathione synthase activity	0.0685848191991462	bayes_pls_golite062009
biotin carboxylase activity	0.0172732430077291	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [683-961]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 TNPNDIDRAE NRHKFSSILD SIDVDQPEWS ELTSVEEAKL FASKVNYPVL IRPSYVLSGA  60
   61 AMSVVNNEEE LKAKLTLASD VSPDHPVVMS KFIEGAQEID VDAVAYNGNV LVHAISEHVE 120
  121 NAGVHSGDAS LVLPPQHLSD DVKIALKDIA DKVAKAWKIT GPFNMQIIKD GEHTLKVIEC 180
  181 NIRASRSFPF VSKVLGVNFI EIAVKAFLGG DIVPKPVDLM LNKKYDYVAT KVPQFSFTRL 240
  241 AGADPFLGVE MASTGEVASF GRDLIESYWT AIQSTMNFH

[Run NCBI BLAST on this sequence.]

Region B:
Residues: [1076-1118]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 TALLFAKCLK AKIAEKIKIL ESHDVIVPPE VRSWDEFIGF KAY

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	11000.0
Match:	1bxrA_
Description:	Carbamoyl phosphate synthetase, large subunit connection domain; Carbamoyl phosphate synthetase, large subunit allosteric, C-terminal domain; Carbamoyl phosphate synthetase (CPS), large subunit PreATP-grasp domains; Carbamoyl phosphate synthetase (CPS), large subunit ATP-binding domains
Matching Structure (courtesy of the PDB):

Predicted Domain #3

Region A:
Residues: [962-1075]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 VPLPPSGILF GGDTSREYLG QVASIVATIG YRIYTTNETT KTYLQEHIKE KNAKVSLIKF  60
   61 PKNDKRKLRE LFQEYDIKAV FNLASKRAES TDDVDYIMRR NAIDFAIPLF NEPQ

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	11000.0
Match:	1bxrA_
Description:	Carbamoyl phosphate synthetase, large subunit connection domain; Carbamoyl phosphate synthetase, large subunit allosteric, C-terminal domain; Carbamoyl phosphate synthetase (CPS), large subunit PreATP-grasp domains; Carbamoyl phosphate synthetase (CPS), large subunit ATP-binding domains
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: