YRC Public Data Repository - Protein Structure Prediction

Protein:	PYC1
Organism:	Saccharomyces cerevisiae
Length:	1178 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 PYC1.

Description	E-value	Query Range	Subject Range
PYC_PICPA - Pyruvate carboxylase OS=Komagataella pastoris GN=PYC1 PE=3 SV=1	0.0	[10..1165]	[13..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..1168]	[2..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	[10..1168]	[14..1173]
gi\|7507776 - gi\|7507776\|pir\|\|T16867 probable cytochrome P450 T13C5.1 [similarity] - Caenorhabditis elegans	0.0	[17..1169]	[35..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	[15..1170]	[3..1149]
PC - pyruvate carboxylase	0.0	[17..1169]	[35..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	[16..1168]	[1..1143]
gi\|18858695, gi\|... - gi\|18858695\|ref\|NP_571625.1\| pyruvate carboxylase [Danio rerio], gi\|11545421\|gb\|AAG37836.1\|AF295372_...	0.0	[18..1170]	[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	[16..1169]	[1..1146]
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	[17..1170]	[6..1158]

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Predicted Domain #1

Region A:
Residues: [1-128]

      1          11         21         31         41         51         
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    1 MSQRKFAGLR DNFNLLGEKN KILVANRGEI PIRIFRTAHE LSMQTVAIYS HEDRLSTHKQ  60
   61 KADEAYVIGE VGQYTPVGAY LAIDEIISIA QKHQVDFIHP GYGFLSENSE FADKVVKAGI 120
  121 TWIGPPAE

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	1115.218487
Match:	1lsrA_
Description:	No description for 1lsrA_ was found.

Predicted Domain #2

Region A:
Residues: [129-135]

      1          11         21         31         41         51         
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    1 VIDSVGD

[Run NCBI BLAST on this sequence.]

Region B:
Residues: [151-223]

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

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	1115.218487
Match:	1lsrA_
Description:	No description for 1lsrA_ was found.

Predicted Domain #3

Region A:
Residues: [136-150]

      1          11         21         31         41         51         
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    1 KVSARNLAAK ANVPT

[Run NCBI BLAST on this sequence.]

Region B:
Residues: [224-249]

      1          11         21         31         41         51         
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    1 DKPKHIEVQL LADNHGNVVH LFERDC

[Run NCBI BLAST on this sequence.]

Region C:
Residues: [262-356]

      1          11         21         31         41         51         
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    1 APAKTLPREV RDAILTDAVK LAKECGYRNA GTAEFLVDNQ NRHYFIEINP RIQVEHTITE  60
   61 EITGIDIVAA QIQIAAGASL PQLGLFQDKI TTRGF

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	1115.218487
Match:	1lsrA_
Description:	No description for 1lsrA_ was found.

Predicted Domain #4

Region A:
Residues: [250-261]

      1          11         21         31         41         51         
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    1 SVQRRHQKVV EV

[Run NCBI BLAST on this sequence.]

Region B:
Residues: [357-508]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 AIQCRITTED PAKNFQPDTG RIEVYRSAGG NGVRLDGGNA YAGTIISPHY DSMLVKCSCS  60
   61 GSTYEIVRRK MIRALIEFRI RGVKTNIPFL LTLLTNPVFI EGTYWTTFID DTPQLFQMVS 120
  121 SQNRAQKLLH YLADVAVNGS SIKGQIGLPK LK

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	1115.218487
Match:	1lsrA_
Description:	No description for 1lsrA_ was found.

Predicted Domain #5

Region A:
Residues: [509-893]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 SNPSVPHLHD AQGNVINVTK SAPPSGWRQV LLEKGPAEFA RQVRQFNGTL LMDTTWRDAH  60
   61 QSLLATRVRT HDLATIAPTT AHALAGRFAL ECWGGATFDV AMRFLHEDPW ERLRKLRSLV 120
  121 PNIPFQMLLR GANGVAYSSL PDNAIDHFVK QAKDNGVDIF RVFDALNDLE QLKVGVDAVK 180
  181 KAGGVVEATV CFSGDMLQPG KKYNLDYYLE IAEKIVQMGT HILGIKDMAG TMKPAAAKLL 240
  241 IGSLRAKYPD LPIHVHTHDS AGTAVASMTA CALAGADVVD VAINSMSGLT SQPSINALLA 300
  301 SLEGNIDTGI NVEHVRELDA YWAEMRLLYS CFEADLKGPD PEVYQHEIPG GQLTNLLFQA 360
  361 QQLGLGEQWA ETKRAYREAN YLLGD

[Run NCBI BLAST on this sequence.]

Detection Method:	ORFEUS
Confidence:	9.06
Match:	1lt7A
Description:	Betaine-homocysteine S-methyltransferase
Matching Structure (courtesy of the PDB):

Predicted Domain #6

Region A:
Residues: [894-1014]

      1          11         21         31         41         51         
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    1 IVKVTPTSKV VGDLAQFMVS NKLTSDDVRR LANSLDFPDS VMDFFEGLIG QPYGGFPEPF  60
   61 RSDVLRNKRR KLTCRPGLEL EPFDLEKIRE DLQNRFGDVD ECDVASYNMY PRVYEDFQKM 120
  121 R

[Run NCBI BLAST on this sequence.]

Detection Method:	ORFEUS
Confidence:	9.41
Match:	1dhpA
Description:	Dihydrodipicolinate synthase
Matching Structure (courtesy of the PDB):

Predicted Domain #7

Region A:
Residues: [1015-1085]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 ETYGDLSVLP TRSFLSPLET DEEIEVVIEQ GKTLIIKLQA VGDLNKKTGE REVYFDLNGE  60
   61 MRKIRVADRS Q

[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	GO Score	GO Term	SCOP Match	SCOP Description
View	Download	0.847	0.031	gluconeogenesis	b.34.5	Translation proteins SH3-like domain
View	Download	0.840	0.031	gluconeogenesis	g.41.3	Zinc beta-ribbon
View	Download	0.809	0.031	gluconeogenesis	b.114.1	N-utilization substance G protein NusG, insert domain
View	Download	0.842	0.031	gluconeogenesis	b.34.5	Translation proteins SH3-like domain
View	Download	0.799	0.031	gluconeogenesis	d.16.1	FAD-linked reductases, C-terminal domain
View	Download	0.784	0.031	gluconeogenesis	b.49.1	N-terminal domain of alpha and beta subunits of F1 ATP synthase
View	Download	0.780	0.031	gluconeogenesis	b.38.1	Sm-like ribonucleoproteins
View	Download	0.757	0.031	gluconeogenesis	b.38.1	Sm-like ribonucleoproteins
View	Download	0.751	0.031	gluconeogenesis	b.4.1	HSP40/DnaJ peptide-binding domain
View	Download	0.724	0.031	gluconeogenesis	b.38.2	YhbC-like, C-terminal domain
View	Download	0.719	0.031	gluconeogenesis	b.34.4	Electron transport accessory proteins
View	Download	0.697	0.031	gluconeogenesis	b.34.5	Translation proteins SH3-like domain
View	Download	0.689	0.031	gluconeogenesis	g.18.1	Complement control module/SCR domain
View	Download	0.660	0.031	gluconeogenesis	d.17.1	Cystatin/monellin
View	Download	0.656	0.031	gluconeogenesis	b.107.1	Urease metallochaperone UreE, N-terminal domain
View	Download	0.655	0.031	gluconeogenesis	b.38.1	Sm-like ribonucleoproteins
View	Download	0.654	0.031	gluconeogenesis	b.84.1	Single hybrid motif
View	Download	0.641	0.031	gluconeogenesis	b.40.4	Nucleic acid-binding proteins
View	Download	0.634	0.031	gluconeogenesis	d.17.1	Cystatin/monellin
View	Download	0.615	0.031	gluconeogenesis	b.122.1	PUA domain-like
View	Download	0.595	0.031	gluconeogenesis	b.48.1	mu transposase, C-terminal domain
View	Download	0.582	0.031	gluconeogenesis	b.34.5	Translation proteins SH3-like domain
View	Download	0.538	0.031	gluconeogenesis	d.17.2	Copper amine oxidase, domains 1 and 2
View	Download	0.534	0.031	gluconeogenesis	b.1.1	Immunoglobulin
View	Download	0.503	0.031	gluconeogenesis	b.34.9	Tudor/PWWP/MBT
View	Download	0.501	0.031	gluconeogenesis	b.55.1	PH domain-like
View	Download	0.500	0.031	gluconeogenesis	b.1.18	E set domains
View	Download	0.499	0.031	gluconeogenesis	b.61.4	Quinohemoprotein amine dehydrogenase A chain, domain 3
View	Download	0.489	0.031	gluconeogenesis	b.34.10	Cap-Gly domain
View	Download	0.472	0.031	gluconeogenesis	b.36.1	PDZ domain-like
View	Download	0.471	0.031	gluconeogenesis	b.55.1	PH domain-like
View	Download	0.465	0.031	gluconeogenesis	d.47.1	Ribosomal protein L11, N-terminal domain
View	Download	0.462	0.031	gluconeogenesis	b.84.1	Single hybrid motif
View	Download	0.460	0.031	gluconeogenesis	g.41.3	Zinc beta-ribbon
View	Download	0.443	0.031	gluconeogenesis	b.1.1	Immunoglobulin
View	Download	0.438	0.031	gluconeogenesis	b.4.1	HSP40/DnaJ peptide-binding domain
View	Download	0.432	0.031	gluconeogenesis	b.1.14	Invasin/intimin cell-adhesion fragments
View	Download	0.423	0.031	gluconeogenesis	b.1.1	Immunoglobulin
View	Download	0.422	0.031	gluconeogenesis	b.36.1	PDZ domain-like
View	Download	0.419	0.031	gluconeogenesis	g.41.3	Zinc beta-ribbon
View	Download	0.417	0.031	gluconeogenesis	b.1.1	Immunoglobulin
View	Download	0.409	0.031	gluconeogenesis	b.1.1	Immunoglobulin
View	Download	0.404	0.031	gluconeogenesis	d.50.1	dsRNA-binding domain-like
View	Download	0.396	0.031	gluconeogenesis	b.55.1	PH domain-like
View	Download	0.388	0.031	gluconeogenesis	d.186.1	Head-to-tail joining protein W, gpW
View	Download	0.376	0.031	gluconeogenesis	g.27.1	Fibronectin type I module
View	Download	0.373	0.031	gluconeogenesis	b.1.3	PKD domain
View	Download	0.364	0.031	gluconeogenesis	b.55.1	PH domain-like
View	Download	0.363	0.031	gluconeogenesis	b.1.1	Immunoglobulin
View	Download	0.358	0.031	gluconeogenesis	b.1.1	Immunoglobulin
View	Download	0.350	0.031	gluconeogenesis	b.53.1	Ribosomal protein L25-like
View	Download	0.343	0.031	gluconeogenesis	b.34.11	GW domain
View	Download	0.329	0.031	gluconeogenesis	d.31.1	Cdc48 domain 2-like
View	Download	0.328	0.031	gluconeogenesis	g.27.1	Fibronectin type I module
View	Download	0.309	0.031	gluconeogenesis	b.7.1	C2 domain (Calcium/lipid-binding domain, CaLB)
View	Download	0.303	0.031	gluconeogenesis	d.1.1	Microbial ribonucleases
View	Download	0.286	0.031	gluconeogenesis	b.40.9	Heme chaperone CcmE
View	Download	0.281	0.031	gluconeogenesis	b.61.4	Quinohemoprotein amine dehydrogenase A chain, domain 3
View	Download	0.270	0.031	gluconeogenesis	b.34.7	DNA-binding domain of retroviral integrase
View	Download	0.268	0.031	gluconeogenesis	d.38.1	Thioesterase/thiol ester dehydrase-isomerase
View	Download	0.261	0.031	gluconeogenesis	b.55.1	PH domain-like
View	Download	0.255	0.031	gluconeogenesis	d.93.1	SH2 domain
View	Download	0.252	0.031	gluconeogenesis	d.93.1	SH2 domain
View	Download	0.250	0.031	gluconeogenesis	b.1.2	Fibronectin type III
View	Download	0.234	0.031	gluconeogenesis	b.40.4	Nucleic acid-binding proteins
View	Download	0.232	0.031	gluconeogenesis	b.128.1	Hypothetical protein YojF
View	Download	0.229	0.031	gluconeogenesis	b.61.1	Avidin/streptavidin
View	Download	0.227	0.031	gluconeogenesis	d.31.1	Cdc48 domain 2-like
View	Download	0.227	0.031	gluconeogenesis	d.16.1	FAD-linked reductases, C-terminal domain
View	Download	0.224	0.031	gluconeogenesis	d.31.1	Cdc48 domain 2-like
View	Download	0.219	0.031	gluconeogenesis	b.61.3	D-aminopeptidase, middle and C-terminal domains
View	Download	0.214	0.031	gluconeogenesis	b.34.10	Cap-Gly domain
View	Download	0.214	0.031	gluconeogenesis	d.38.1	Thioesterase/thiol ester dehydrase-isomerase

Predicted Domain #8

Region A:
Residues: [1086-1178]

      1          11         21         31         41         51         
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    1 KVETVTKSKA DMHDPLHIGA PMAGVIVEVK VHKGSLIKKG QPVAVLSAMK MEMIISSPSD  60
   61 GQVKEVFVSD GENVDSSDLL VLLEDQVPVE TKA

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	81.927757
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