YRC Public Data Repository - Protein Structure Prediction

Protein:	PYC2
Organism:	Saccharomyces cerevisiae
Length:	1180 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 PYC2.

Description	E-value	Query Range	Subject Range
PYC_PICPA - Pyruvate carboxylase OS=Komagataella pastoris GN=PYC1 PE=3 SV=1	0.0	[4..1166]	[6..1170]
gi\|215404942 - gi\|215404942\|ref\|ZP_03417123.1\| pyruvate carboxylase [Mycobacterium tuberculosis 02_1987] gi\|215428417 - gi\|215428417\|ref\|ZP_03426336.1\| pyruvate carboxylase [Mycobacterium tuberculosis T92] gi\|215431916 - gi\|215431916\|ref\|ZP_03429835.1\| pyruvate carboxylase [Mycobacterium tuberculosis EAS054] gi\|31794143, gi\|... - gi\|31794143\|ref\|NP_856636.1\| pyruvate carboxylase [Mycobacterium bovis AF2122/97], gi\|31619738\|emb\|C... gi\|148824157, gi... - gi\|76783442\|ref\|ZP_00770634.1\| COG1038: Pyruvate carboxylase [Mycobacterium tuberculosis F11], gi\|14... gi\|7438126 - pir\|\|D70671 pyruvate carboxylase (EC 6.4.1.1) - Mycobacterium tuberculosis (strain H37RV) gi\|81253032, gi\|... - gi\|81253032\|ref\|ZP_00877600.1\| COG1038: Pyruvate carboxylase [Mycobacterium tuberculosis C], gi\|2542... gi\|255097796 - gi\|255097796\|ref\|ZP_05327274.1\| pyruvate carboxylase [Mycobacterium tuberculosis KZN 605] gi\|254816813 - gi\|254816813\|ref\|ZP_05221814.1\| pyruvate carboxylase [Mycobacterium tuberculosis KZN 4207] gi\|254552044 - gi\|254552044\|ref\|ZP_05142491.1\| pyruvate carboxylase [Mycobacterium tuberculosis '98-R604 INH-RIF-EM... gi\|121638848, gi... - gi\|121638848\|ref\|YP_979072.1\| pyruvate carboxylase [Mycobacterium bovis BCG str. Pasteur 1173P2], gi... gi\|253319444, gi... - gi\|253797941\|ref\|YP_003030942.1\| pyruvate carboxylase pca [Mycobacterium tuberculosis KZN 1435], gi\|... gi\|134151117, gi... - gi\|254365604\|ref\|ZP_04981649.1\| pyruvate carboxylase pca [Mycobacterium tuberculosis str. Haarlem], ... gi\|13882829, gi\|... - gi\|15842520\|ref\|NP_337557.1\| pyruvate carboxylase [Mycobacterium tuberculosis CDC1551], gi\|13882829\|... gi\|15610104, gi\|... - gi\|1694864\|emb\|CAB05410.1\| PROBABLE PYRUVATE CARBOXYLASE PCA (PYRUVIC CARBOXYLASE) [Mycobacterium tu... gi\|148506967, gi... - gi\|148662815\|ref\|YP_001284338.1\| pyruvate carboxylase [Mycobacterium tuberculosis H37Ra], gi\|1485069... gi\|215447234 - gi\|215447234\|ref\|ZP_03433986.1\| pyruvate carboxylase [Mycobacterium tuberculosis T85] gi\|218754727 - gi\|218754727\|ref\|ZP_03533523.1\| pyruvate carboxylase [Mycobacterium tuberculosis GM 1503] gi\|219558997 - gi\|219558997\|ref\|ZP_03538073.1\| pyruvate carboxylase [Mycobacterium tuberculosis T17] gi\|224774455, gi... - gi\|224991340\|ref\|YP_002646029.1\| pyruvate carboxylase [Mycobacterium bovis BCG str. Tokyo 172], gi\|2...	0.0	[19..1169]	[1..1126]
PYC_PICAN - Pyruvate carboxylase OS=Pichia angusta GN=PYC PE=3 SV=1 PYC_PICAN - Pyruvate carboxylase OS=Pichia angusta GN=PYC PE=3 SV=1	0.0	[1..1169]	[1..1173]
gi\|7507776 - gi\|7507776\|pir\|\|T16867 probable cytochrome P450 T13C5.1 [similarity] - Caenorhabditis elegans	0.0	[2..1170]	[19..1178]
gi\|25293930 - pir\|\|A83978 pyruvate carboxylase pycA [imported] - Bacillus halodurans (strain C-125) gi\|10175246, gi\|... - gi\|15615188\|ref\|NP_243491.1\| pyruvate carboxylase [Bacillus halodurans C-125], gi\|10175246\|dbj\|BAB06...	0.0	[20..1171]	[7..1149]
PC - pyruvate carboxylase	0.0	[2..1170]	[19..1178]
gi\|16800129 - gi\|16800129\|ref\|NP_470397.1\| pyruvate carboxylase [Listeria innocua Clip11262] gi\|25293933, gi\|... - pir\|\|AC1565 pyruvate carboxylase homolog pycA [imported] - Listeria innocua (strain Clip11262), gi\|1...	0.0	[17..1169]	[1..1143]
gi\|18858695, gi\|... - gi\|18858695\|ref\|NP_571625.1\| pyruvate carboxylase [Danio rerio], gi\|11545421\|gb\|AAG37836.1\|AF295372_...	0.0	[19..1171]	[38..1180]
gi\|269202726\|ref... - pyruvate carboxylase [Staphylococcus aureus subsp. aureus ED98] gi\|25293932 - pir\|\|G89881 pyruvate carboxylase [imported] - Staphylococcus aureus (strain N315) gi\|156721572, gi... - gi\|156979437\|ref\|YP_001441696.1\| pyruvate carboxylase [Staphylococcus aureus subsp. aureus Mu3], gi\|... gi\|90587124, gi\|... - gi\|90587124\|ref\|ZP_01242798.1\| Pyruvate carboxylase [Staphylococcus aureus subsp. aureus JH9], gi\|90... gi\|149946114, gi... - gi\|90584339\|ref\|ZP_01240075.1\| Pyruvate carboxylase [Staphylococcus aureus subsp. aureus JH1], gi\|90... gi\|255005901 - gi\|255005901\|ref\|ZP_05144502.2\| pyruvate carboxylase [Staphylococcus aureus subsp. aureus Mu50-omega... gi\|253316745 - gi\|253316745\|ref\|ZP_04839958.1\| pyruvate carboxylase [Staphylococcus aureus subsp. aureus str. CF-Ma... gi\|242556709, gi... - gi\|242556710\|pdb\|3HO8\|B Chain B, Crystal Structure Of S. Aureus Pyruvate Carboxylase In Complex With... gi\|13700915, gi\|... - gi\|15926699\|ref\|NP_374232.1\| pyruvate carboxylase [Staphylococcus aureus subsp. aureus N315], gi\|137...	0.0	[17..1174]	[1..1150]
gi\|25293937 - pir\|\|AE3285 pyruvate carboxylase (EC 6.4.1.1) [imported] - Brucella melitensis (strain 16M) gi\|17986550, gi\|... - gi\|17986550\|ref\|NP_539184.1\| pyruvate carboxylase [Brucella melitensis 16M], gi\|17982157\|gb\|AAL51448...	0.0	[18..1171]	[6..1158]

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Predicted Domain #1

Region A:
Residues: [1-129]

      1          11         21         31         41         51         
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    1 MSSSKKLAGL RDNFSLLGEK NKILVANRGE IPIRIFRSAH ELSMRTIAIY SHEDRLSMHR  60
   61 LKADEAYVIG EEGQYTPVGA YLAMDEIIEI AKKHKVDFIH PGYGFLSENS EFADKVVKAG 120
  121 ITWIGPPAE

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	1114.228787
Match:	1lsrA_
Description:	No description for 1lsrA_ was found.

Predicted Domain #2

Region A:
Residues: [130-136]

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    1 VIDSVGD

[Run NCBI BLAST on this sequence.]

Region B:
Residues: [152-224]

      1          11         21         31         41         51         
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    1 VPGTPGPIET VQEALDFVNE YGYPVIIKAA FGGGGRGMRV VREGDDVADA FQRATSEART  60
   61 AFGNGTCFVE RFL

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	1114.228787
Match:	1lsrA_
Description:	No description for 1lsrA_ was found.

Predicted Domain #3

Region A:
Residues: [137-151]

      1          11         21         31         41         51         
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    1 KVSARHLAAR ANVPT

[Run NCBI BLAST on this sequence.]

Region B:
Residues: [225-250]

      1          11         21         31         41         51         
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    1 DKPKHIEVQL LADNHGNVVH LFERDC

[Run NCBI BLAST on this sequence.]

Region C:
Residues: [263-357]

      1          11         21         31         41         51         
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    1 APAKTLPREV RDAILTDAVK LAKVCGYRNA GTAEFLVDNQ NRHYFIEINP RIQVEHTITE  60
   61 EITGIDIVSA QIQIAAGATL TQLGLLQDKI TTRGF

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	1114.228787
Match:	1lsrA_
Description:	No description for 1lsrA_ was found.

Predicted Domain #4

Region A:
Residues: [251-262]

      1          11         21         31         41         51         
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    1 SVQRRHQKVV EV

[Run NCBI BLAST on this sequence.]

Region B:
Residues: [358-475]

      1          11         21         31         41         51         
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    1 SIQCRITTED PSKNFQPDTG RLEVYRSAGG NGVRLDGGNA YAGATISPHY DSMLVKCSCS  60
   61 GSTYEIVRRK MIRALIEFRI RGVKTNIPFL LTLLTNPVFI EGTYWTTFID DTPQLFQM

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	1114.228787
Match:	1lsrA_
Description:	No description for 1lsrA_ was found.

Predicted Domain #5

Region A:
Residues: [476-536]

      1          11         21         31         41         51         
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    1 VSSQNRAQKL LHYLADLAVN GSSIKGQIGL PKLKSNPSVP HLHDAQGNVI NVTKSAPPSG  60
   61 W

[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	0.344	a.4.5	"Winged helix" DNA-binding domain
View	Download	0.286	a.4.1	Homeodomain-like
View	Download	0.295	a.24.17	Group V grass pollen allergen
View	Download	0.280	a.4.1	Homeodomain-like
View	Download	0.263	d.58.8	Viral DNA-binding domain
View	Download	0.262	a.4.5	"Winged helix" DNA-binding domain
View	Download	0.254	a.4.1	Homeodomain-like
View	Download	0.253	d.51.1	Eukaryotic type KH-domain (KH-domain type I)
View	Download	0.235	c.47.1	Thioredoxin-like
View	Download	0.222	b.34.2	SH3-domain
View	Download	0.211	a.64.2	Bacteriocin AS-48
View	Download	0.209	b.34.7	DNA-binding domain of retroviral integrase

Predicted Domain #6

Region A:
Residues: [537-701]

      1          11         21         31         41         51         
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    1 RQVLLEKGPS EFAKQVRQFN GTLLMDTTWR DAHQSLLATR VRTHDLATIA PTTAHALAGA  60
   61 FALECWGGAT FDVAMRFLHE DPWERLRKLR SLVPNIPFQM LLRGANGVAY SSLPDNAIDH 120
  121 FVKQAKDNGV DIFRVFDALN DLEQLKVGVN AVKKAGGVVE ATVCY

[Run NCBI BLAST on this sequence.]

Detection Method:	ORFEUS
Confidence:	9.05
Match:	1lt7A
Description:	Betaine-homocysteine S-methyltransferase
Matching Structure (courtesy of the PDB):

Predicted Domain #7

Region A:
Residues: [702-932]

      1          11         21         31         41         51         
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    1 SGDMLQPGKK YNLDYYLEVV EKIVQMGTHI LGIKDMAGTM KPAAAKLLIG SLRTRYPDLP  60
   61 IHVHSHDSAG TAVASMTACA LAGADVVDVA INSMSGLTSQ PSINALLASL EGNIDTGINV 120
  121 EHVRELDAYW AEMRLLYSCF EADLKGPDPE VYQHEIPGGQ LTNLLFQAQQ LGLGEQWAET 180
  181 KRAYREANYL LGDIVKVTPT SKVVGDLAQF MVSNKLTSDD IRRLANSLDF P

[Run NCBI BLAST on this sequence.]

Detection Method:	ORFEUS
Confidence:	9.79
Match:	1dhpA
Description:	Dihydrodipicolinate synthase
Matching Structure (courtesy of the PDB):

Predicted Domain #8

Region A:
Residues: [933-992]

      1          11         21         31         41         51         
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    1 DSVMDFFEGL IGQPYGGFPE PLRSDVLRNK RRKLTCRPGL ELEPFDLEKI REDLQNRFGD  60
   61

[Run NCBI BLAST on this sequence.]

Detection Method:	ORFEUS
Confidence:	9.79
Match:	1dhpA
Description:	Dihydrodipicolinate synthase
Matching Structure (courtesy of the PDB):

Predicted Domain #9

Region A:
Residues: [993-1086]

      1          11         21         31         41         51         
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    1 IDECDVASYN MYPRVYEDFQ KIRETYGDLS VLPTKNFLAP AEPDEEIEVT IEQGKTLIIK  60
   61 LQAVGDLNKK TGQREVYFEL NGELRKIRVA DKSQ

[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	0.579	b.1.1	Immunoglobulin
View	Download	0.630	d.17.1	Cystatin/monellin
View	Download	0.716	c.47.2	RNA 3'-terminal phosphate cyclase, RPTC, insert domain
View	Download	0.748	d.81.1	Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain
View	Download	0.618	b.61.4	Quinohemoprotein amine dehydrogenase A chain, domain 3
View	Download	0.554	b.61.4	Quinohemoprotein amine dehydrogenase A chain, domain 3
View	Download	0.546	b.1.1	Immunoglobulin
View	Download	0.533	b.1.1	Immunoglobulin
View	Download	0.529	d.66.1	Alpha-L RNA-binding motif
View	Download	0.508	b.1.2	Fibronectin type III
View	Download	0.488	d.17.1	Cystatin/monellin
View	Download	0.477	d.17.2	Copper amine oxidase, domains 1 and 2
View	Download	0.477	b.1.1	Immunoglobulin
View	Download	0.445	d.17.2	Copper amine oxidase, domains 1 and 2
View	Download	0.439	b.61.3	D-aminopeptidase, middle and C-terminal domains
View	Download	0.436	c.15.1	BRCT domain
View	Download	0.434	d.17.1	Cystatin/monellin
View	Download	0.434	b.1.18	E set domains
View	Download	0.429	d.17.2	Copper amine oxidase, domains 1 and 2
View	Download	0.419	b.61.3	D-aminopeptidase, middle and C-terminal domains
View	Download	0.414	c.47.2	RNA 3'-terminal phosphate cyclase, RPTC, insert domain
View	Download	0.413	b.1.5	Transglutaminase, two C-terminal domains
View	Download	0.410	b.1.1	Immunoglobulin
View	Download	0.407	b.61.3	D-aminopeptidase, middle and C-terminal domains
View	Download	0.404	b.1.18	E set domains
View	Download	0.398	d.17.1	Cystatin/monellin
View	Download	0.397	b.1.1	Immunoglobulin
View	Download	0.397	b.61.4	Quinohemoprotein amine dehydrogenase A chain, domain 3
View	Download	0.392	b.128.1	Hypothetical protein YojF
View	Download	0.391	b.1.2	Fibronectin type III
View	Download	0.389	d.81.1	Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain
View	Download	0.389	b.1.18	E set domains
View	Download	0.388	d.17.1	Cystatin/monellin
View	Download	0.388	b.1.5	Transglutaminase, two C-terminal domains
View	Download	0.384	d.99.1	Ribosomal protein L9 C-domain
View	Download	0.381	b.1.2	Fibronectin type III
View	Download	0.377	b.53.1	Ribosomal protein L25-like
View	Download	0.367	d.67.2	Arginyl-tRNA synthetase (ArgRS), N-terminal 'additional' domain
View	Download	0.362	d.110.3	PYP-like sensor domain (PAS domain)
View	Download	0.362	b.61.4	Quinohemoprotein amine dehydrogenase A chain, domain 3
View	Download	0.362	c.47.2	RNA 3'-terminal phosphate cyclase, RPTC, insert domain
View	Download	0.361	b.1.14	Invasin/intimin cell-adhesion fragments
View	Download	0.355	d.17.2	Copper amine oxidase, domains 1 and 2
View	Download	0.354	b.1.1	Immunoglobulin
View	Download	0.353	b.1.1	Immunoglobulin
View	Download	0.349	d.58.7	RNA-binding domain, RBD
View	Download	0.348	b.36.1	PDZ domain-like
View	Download	0.346	b.1.1	Immunoglobulin
View	Download	0.343	b.61.3	D-aminopeptidase, middle and C-terminal domains
View	Download	0.343	b.1.14	Invasin/intimin cell-adhesion fragments
View	Download	0.342	d.50.1	dsRNA-binding domain-like
View	Download	0.339	d.67.2	Arginyl-tRNA synthetase (ArgRS), N-terminal 'additional' domain
View	Download	0.336	d.52.3	Prokaryotic type KH domain (KH-domain type II)
View	Download	0.334	d.81.1	Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain
View	Download	0.330	b.1.18	E set domains
View	Download	0.330	a.39.1	EF-hand
View	Download	0.324	b.1.5	Transglutaminase, two C-terminal domains
View	Download	0.318	b.1.2	Fibronectin type III
View	Download	0.304	b.1.18	E set domains
View	Download	0.302	b.128.1	Hypothetical protein YojF
View	Download	0.300	b.40.9	Heme chaperone CcmE
View	Download	0.293	b.61.3	D-aminopeptidase, middle and C-terminal domains
View	Download	0.291	c.3.1	FAD/NAD(P)-binding domain
View	Download	0.288	b.61.4	Quinohemoprotein amine dehydrogenase A chain, domain 3
View	Download	0.283	d.52.5	Probable GTPase Der, C-terminal domain
View	Download	0.276	b.61.4	Quinohemoprotein amine dehydrogenase A chain, domain 3
View	Download	0.275	c.51.1	Anticodon-binding domain of Class II aaRS
View	Download	0.269	b.61.4	Quinohemoprotein amine dehydrogenase A chain, domain 3
View	Download	0.268	b.84.1	Single hybrid motif
View	Download	0.267	d.66.1	Alpha-L RNA-binding motif
View	Download	0.260	d.105.1	Clathrin adaptor appendage, alpha and beta chain-specific domain
View	Download	0.256	d.58.35	Pseudouridine synthase
View	Download	0.251	b.61.4	Quinohemoprotein amine dehydrogenase A chain, domain 3
View	Download	0.250	c.3.1	FAD/NAD(P)-binding domain
View	Download	0.245	b.128.1	Hypothetical protein YojF
View	Download	0.243	b.1.1	Immunoglobulin
View	Download	0.243	d.58.35	Pseudouridine synthase
View	Download	0.242	b.40.4	Nucleic acid-binding proteins
View	Download	0.242	b.118.1	FAS1 domain
View	Download	0.238	b.55.1	PH domain-like
View	Download	0.236	d.233.1	Inhibitor of vertebrate lysozyme, Ivy
View	Download	0.234	d.92.1	Metalloproteases ("zincins"), catalytic domain
View	Download	0.232	b.84.1	Single hybrid motif
View	Download	0.232	b.34.5	Translation proteins SH3-like domain
View	Download	0.228	b.1.1	Immunoglobulin
View	Download	0.226	b.7.1	C2 domain (Calcium/lipid-binding domain, CaLB)
View	Download	0.221	b.61.4	Quinohemoprotein amine dehydrogenase A chain, domain 3
View	Download	0.219	b.1.5	Transglutaminase, two C-terminal domains
View	Download	0.214	g.41.3	Zinc beta-ribbon
View	Download	0.213	d.38.1	Thioesterase/thiol ester dehydrase-isomerase
View	Download	0.211	c.3.1	FAD/NAD(P)-binding domain
View	Download	0.209	d.52.5	Probable GTPase Der, C-terminal domain

Predicted Domain #10

Region A:
Residues: [1087-1180]

      1          11         21         31         41         51         
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    1 NIQSVAKPKA DVHDTHQIGA PMAGVIIEVK VHKGSLVKKG ESIAVLSAMK MEMVVSSPAD  60
   61 GQVKDVFIKD GESVDASDLL VVLEEETLPP SQKK

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	86.39794
Match:	1dczA_
Description:	Biotin carboxyl carrier domain of transcarboxylase (TC 1.3S)
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