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View Structure Prediction Details

Protein: PRI2
Organism: Saccharomyces cerevisiae
Length: 528 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 PRI2.

Description E-value Query
Range
Subject
Range
PRI2 - Subunit of DNA primase, which is required for DNA synthesis and double-strand break repair
PRI2_YEAST - DNA primase large subunit OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=PRI2 PE=1 SV=1
0.0 [1..528] [1..528]
PRI2_MOUSE - DNA primase large subunit OS=Mus musculus GN=Prim2 PE=1 SV=1
0.0 [53..520] [20..464]
gi|7507776 - gi|7507776|pir||T16867 probable cytochrome P450 T13C5.1 [similarity] - Caenorhabditis elegans
0.0 [53..520] [20..464]
PRI2_RAT - DNA primase large subunit OS=Rattus norvegicus GN=Prim2 PE=2 SV=1
0.0 [53..520] [20..464]
gi|9828626, gi|2... - gi|9828626|gb|AAG00249.1|AC002130_14 F1N21.14 [Arabidopsis thaliana], pir||G96696 protein F1N21.14 [...
0.0 [59..514] [316..759]
spp2 - DNA primase large subunit Spp2
PRI2_SCHPO - DNA primase large subunit OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=pri2 PE=1 SV=1
0.0 [38..507] [9..456]
gi|5679048 - gi|5679048|gb|AAD46835.1|AF160895_1 GM13640p [Drosophila melanogaster]
0.0 [55..516] [24..468]
gi|19170867, gi|... - gi|19173661|ref|NP_597464.1| DNA POLYMERASE ALPHA/PRIMASE LARGE SUBUNIT [Encephalitozoon cuniculi GB...
gi|19173661 - gi|19173661|ref|NP_597464.1| DNA POLYMERASE ALPHA/PRIMASE LARGE SUBUNIT [Encephalitozoon cuniculi GB...
2.0E-89 [124..479] [59..368]

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Predicted Domain #1
Region A:
Residues: [1-139]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MFRQSKRRIA SRKNFSSYDD IVKSELDVGN TNAANQIILS SSSSEEEKKL YARLYESKLS  60
   61 FYDLPPQGEI TLEQFEIWAI DRLKILLEIE SCLSRNKSIK EIETIIKPQF QKLLPFNTES 120
  121 LEDRKKDYYS HFILRLCFC

[Run NCBI BLAST on this sequence.]

Detection Method: MSA

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

    MCM
Score
GO
Score
GO
Term
SCOP
Match
SCOP Description
View Download 0.758 0.022 DNA replication, synthesis of RNA primer a.177.1 Sigma2 domain of RNA polymerase sigma factors
View Download 0.681 0.010 DNA replication, synthesis of RNA primer a.24.14 FAT domain of focal adhesion kinase
View Download 0.591 0.009 DNA replication, synthesis of RNA primer a.80.1 DNA polymerase III clamp loader subunits, C-terminal domain
View Download 0.946 N/A N/A a.185.1 Gametocyte protein Pfg27
View Download 0.660 N/A N/A a.25.2 Thermoplasma ferritin-like 4-helical bundle
View Download 0.576 N/A N/A f.36.1 Neurotransmitter-gated ion-channel pransmembrane pore
View Download 0.536 N/A N/A a.116.1 GTPase activation domain, GAP
View Download 0.535 N/A N/A a.1.1 Globin-like
View Download 0.512 N/A N/A a.24.3 Cytochromes
View Download 0.506 N/A N/A a.24.3 Cytochromes
View Download 0.489 N/A N/A a.24.4 Hemerythrin
View Download 0.470 N/A N/A a.22.1 Histone-fold
View Download 0.468 N/A N/A a.1.1 Globin-like
View Download 0.456 N/A N/A f.32.1 a domain/subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase)
View Download 0.455 N/A N/A d.96.1 Tetrahydrobiopterin biosynthesis enzymes-like
View Download 0.443 N/A N/A d.92.2 beta-N-acetylhexosaminidase-like domain
View Download 0.440 N/A N/A d.14.1 Ribosomal protein S5 domain 2-like
View Download 0.430 N/A N/A f.18.1 F1F0 ATP synthase subunit A
View Download 0.419 N/A N/A d.110.4 SNARE-like
View Download 0.409 N/A N/A f.1.4 Bcl-2 inhibitors of programmed cell death
View Download 0.401 N/A N/A c.25.1 Ferredoxin reductase-like, C-terminal NADP-linked domain
View Download 0.399 N/A N/A d.96.1 Tetrahydrobiopterin biosynthesis enzymes-like
View Download 0.396 N/A N/A a.149.1 RNase III endonuclease catalytic domain
View Download 0.393 N/A N/A a.74.1 Cyclin-like
View Download 0.376 N/A N/A a.1.1 Globin-like
View Download 0.373 N/A N/A a.118.9 ENTH/VHS domain
View Download 0.372 N/A N/A a.1.1 Globin-like
View Download 0.360 N/A N/A a.5.4 Elongation factor TFIIS domain 2
View Download 0.358 N/A N/A a.1.1 Globin-like
View Download 0.357 N/A N/A f.14.1 Voltage-gated potassium channels
View Download 0.354 N/A N/A c.55.3 Ribonuclease H-like
View Download 0.353 N/A N/A f.13.1 Family A G protein-coupled receptor-like
View Download 0.350 N/A N/A f.13.1 Family A G protein-coupled receptor-like
View Download 0.349 N/A N/A a.1.1 Globin-like
View Download 0.344 N/A N/A a.41.1 Domain of poly(ADP-ribose) polymerase
View Download 0.342 N/A N/A i.11.1 Computational models partly based on NMR data
View Download 0.341 N/A N/A a.116.1 GTPase activation domain, GAP
View Download 0.339 N/A N/A a.29.5 alpha-ketoacid dehydrogenase kinase, N-terminal domain
View Download 0.336 N/A N/A a.79.1 Antitermination factor NusB
View Download 0.326 N/A N/A a.1.1 Globin-like
View Download 0.325 N/A N/A a.60.10 Enzyme I of the PEP:sugar phosphotransferase system HPr-binding (sub)domain
View Download 0.324 N/A N/A a.60.9 lambda integrase-like, N-terminal domain
View Download 0.324 N/A N/A d.14.1 Ribosomal protein S5 domain 2-like
View Download 0.320 N/A N/A a.74.1 Cyclin-like
View Download 0.315 N/A N/A a.78.1 Fatty acid responsive transcription factor FadR, C-terminal domain
View Download 0.313 N/A N/A b.40.4 Nucleic acid-binding proteins
View Download 0.311 N/A N/A c.25.1 Ferredoxin reductase-like, C-terminal NADP-linked domain
View Download 0.309 N/A N/A d.167.1 Peptide deformylase
View Download 0.300 N/A N/A a.80.1 DNA polymerase III clamp loader subunits, C-terminal domain
View Download 0.299 N/A N/A a.80.1 DNA polymerase III clamp loader subunits, C-terminal domain
View Download 0.298 N/A N/A a.129.1 GroEL equatorial domain-like
View Download 0.297 N/A N/A a.74.1 Cyclin-like
View Download 0.297 N/A N/A a.27.1 Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases
View Download 0.291 N/A N/A a.148.1 Arp2/3 complex 21 kDa subunit ARPC3
View Download 0.280 N/A N/A a.13.1 alpha-2-Macroglobulin receptor associated protein (RAP) domain 1
View Download 0.272 N/A N/A c.13.2 Anti-sigma factor antagonist SpoIIaa
View Download 0.263 N/A N/A d.14.1 Ribosomal protein S5 domain 2-like
View Download 0.261 N/A N/A c.37.1 P-loop containing nucleoside triphosphate hydrolases
View Download 0.259 N/A N/A b.26.1 SMAD/FHA domain
View Download 0.256 N/A N/A a.69.3 1-deoxy-D-xylulose-5-phosphate reductoisomerase, C-terminal domain
View Download 0.256 N/A N/A a.149.1 RNase III endonuclease catalytic domain
View Download 0.248 N/A N/A d.153.1 N-terminal nucleophile aminohydrolases (Ntn hydrolases)
View Download 0.245 N/A N/A a.61.1 Retroviral matrix proteins
View Download 0.245 N/A N/A a.26.1 4-helical cytokines
View Download 0.237 N/A N/A a.24.12 Outer surface protein C (OspC)
View Download 0.235 N/A N/A f.34.1 Mechanosensitive channel protein MscS (YggB), transmembrane region
View Download 0.233 N/A N/A b.34.8 Fumarylacetoacetate hydrolase, FAH, N-terminal domain
View Download 0.230 N/A N/A d.163.1 DNA breaking-rejoining enzymes
View Download 0.225 N/A N/A a.39.1 EF-hand
View Download 0.225 N/A N/A a.60.13 Putative methyltransferase TM0872, insert domain
View Download 0.222 N/A N/A c.19.1 FabD/lysophospholipase-like
View Download 0.221 N/A N/A a.29.2 Bromodomain
View Download 0.220 N/A N/A a.26.1 4-helical cytokines
View Download 0.219 N/A N/A a.24.7 FKBP12-rapamycin-binding domain of FKBP-rapamycin-associated protein (FRAP)
View Download 0.214 N/A N/A f.21.2 Fumarate reductase respiratory complex transmembrane subunits
View Download 0.214 N/A N/A a.4.6 C-terminal effector domain of the bipartite response regulators
View Download 0.208 N/A N/A a.24.13 Domain of the SRP/SRP receptor G-proteins
View Download 0.207 N/A N/A a.97.1 An anticodon-binding domain of class I aminoacyl-tRNA synthetases
View Download 0.207 N/A N/A d.127.1 Creatinase/aminopeptidase
View Download 0.202 N/A N/A a.168.1 GEF domain of SopE toxin
View Download 0.201 N/A N/A a.59.1 PAH2 domain

Predicted Domain #2
Region A:
Residues: [140-220]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 RSKELREKFV RAETFLFKIR FNMLTSTDQT KFVQSLDLPL LQFISNEEKA ELSHQLYQTV  60
   61 SASLQFQLNL NEEHQRKQYF 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 0.635 0.952 DNA replication initiation a.4.5 "Winged helix" DNA-binding domain
View Download 0.661 0.952 DNA replication initiation a.52.1 Bifunctional inhibitor/lipid-transfer protein/seed storage 2S albumin
View Download 0.628 0.952 DNA replication initiation a.64.1 Saposin
View Download 0.898 0.952 DNA replication initiation a.4.9 Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3
View Download 0.555 0.952 DNA replication initiation a.159.1 Protein serine/threonine phosphatase 2C, C-terminal domain
View Download 0.512 0.952 DNA replication initiation a.24.13 Domain of the SRP/SRP receptor G-proteins
View Download 0.501 0.952 DNA replication initiation a.135.1 Tetraspanin
View Download 0.486 0.952 DNA replication initiation a.126.1 Serum albumin-like
View Download 0.461 0.952 DNA replication initiation d.54.1 Enolase N-terminal domain-like
View Download 0.455 0.952 DNA replication initiation a.100.1 6-phosphogluconate dehydrogenase C-terminal domain-like
View Download 0.451 0.952 DNA replication initiation a.24.10 Histidine-containing phosphotransfer domain, HPT domain
View Download 0.417 0.952 DNA replication initiation a.4.5 "Winged helix" DNA-binding domain
View Download 0.404 0.952 DNA replication initiation a.46.1 Methionine synthase domain
View Download 0.391 0.952 DNA replication initiation a.60.6 DNA polymerase beta, N-terminal domain-like
View Download 0.390 0.952 DNA replication initiation a.24.17 Group V grass pollen allergen
View Download 0.378 0.952 DNA replication initiation a.4.1 Homeodomain-like
View Download 0.365 0.952 DNA replication initiation a.23.4 Mitochondrial import receptor subunit Tom20
View Download 0.365 0.952 DNA replication initiation a.118.13 Arp2/3 complex 16 kDa subunit ARPC5
View Download 0.363 0.952 DNA replication initiation a.64.1 Saposin
View Download 0.355 0.952 DNA replication initiation a.38.1 Helix-loop-helix DNA-binding domain
View Download 0.352 0.952 DNA replication initiation a.35.1 lambda repressor-like DNA-binding domains
View Download 0.345 0.952 DNA replication initiation a.4.5 "Winged helix" DNA-binding domain
View Download 0.342 0.952 DNA replication initiation a.7.5 Tubulin chaperone cofactor A
View Download 0.342 0.952 DNA replication initiation a.28.2 Colicin E immunity proteins
View Download 0.341 0.952 DNA replication initiation a.39.1 EF-hand
View Download 0.339 0.952 DNA replication initiation a.2.1 GreA transcript cleavage protein, N-terminal domain
View Download 0.333 0.952 DNA replication initiation d.56.1 GroEL-intermediate domain like
View Download 0.330 0.952 DNA replication initiation c.58.1 Aminoacid dehydrogenase-like, N-terminal domain
View Download 0.322 0.952 DNA replication initiation a.4.5 "Winged helix" DNA-binding domain
View Download 0.321 0.952 DNA replication initiation a.64.1 Saposin
View Download 0.313 0.952 DNA replication initiation a.118.8 TPR-like
View Download 0.309 0.952 DNA replication initiation a.24.16 Nucleotidyltransferase substrate binding subunit/domain
View Download 0.293 0.952 DNA replication initiation c.102.1 Cell-division inhibitor MinC, N-terminal domain
View Download 0.292 0.952 DNA replication initiation a.29.2 Bromodomain
View Download 0.288 0.952 DNA replication initiation a.4.1 Homeodomain-like
View Download 0.283 0.952 DNA replication initiation a.7.6 Ribosomal protein S20
View Download 0.273 0.952 DNA replication initiation a.1.1 Globin-like
View Download 0.262 0.952 DNA replication initiation a.28.3 Retrovirus capsid protein C-terminal domain
View Download 0.262 0.952 DNA replication initiation a.85.1 Hemocyanin, N-terminal domain
View Download 0.258 0.952 DNA replication initiation a.4.5 "Winged helix" DNA-binding domain
View Download 0.255 0.952 DNA replication initiation a.4.1 Homeodomain-like
View Download 0.255 0.952 DNA replication initiation b.55.1 PH domain-like
View Download 0.251 0.952 DNA replication initiation a.118.11 Cytochrome c oxidase subunit E
View Download 0.248 0.952 DNA replication initiation d.68.6 DNA-binding protein Sso10b (AlbA)
View Download 0.248 0.952 DNA replication initiation a.52.1 Bifunctional inhibitor/lipid-transfer protein/seed storage 2S albumin
View Download 0.240 0.952 DNA replication initiation a.65.1 Annexin
View Download 0.234 0.952 DNA replication initiation a.130.1 Chorismate mutase II
View Download 0.233 0.952 DNA replication initiation a.45.1 Glutathione S-transferase (GST), C-terminal domain
View Download 0.230 0.952 DNA replication initiation a.8.2 Plasmid maintenance system epsilon/zeta, antidote epsilon subunit
View Download 0.229 0.952 DNA replication initiation a.101.1 Uteroglobin-like
View Download 0.229 0.952 DNA replication initiation d.52.7 Ribosome-binding factor A, RbfA
View Download 0.225 0.952 DNA replication initiation a.39.1 EF-hand
View Download 0.225 0.952 DNA replication initiation a.4.11 RNA polymerase subunit RPB10
View Download 0.222 0.952 DNA replication initiation a.181.1 Antibiotic binding domain of TipA-like multidrug resistance regulators
View Download 0.221 0.952 DNA replication initiation f.1.2 Diphtheria toxin, middle domain
View Download 0.218 0.952 DNA replication initiation a.3.1 Cytochrome c
View Download 0.217 0.952 DNA replication initiation a.60.3 C-terminal domain of RNA polymerase alpha subunit
View Download 0.217 0.952 DNA replication initiation b.84.2 Rudiment single hybrid motif
View Download 0.216 0.952 DNA replication initiation c.47.1 Thioredoxin-like
View Download 0.214 0.952 DNA replication initiation a.140.4 Recombination endonuclease VII, C-terminal and dimerization domains
View Download 0.212 0.952 DNA replication initiation a.4.1 Homeodomain-like
View Download 0.211 0.952 DNA replication initiation a.4.6 C-terminal effector domain of the bipartite response regulators
View Download 0.208 0.952 DNA replication initiation d.26.1 FKBP-like
View Download 0.204 0.952 DNA replication initiation a.91.1 Regulator of G-protein signalling, RGS
View Download 0.204 0.952 DNA replication initiation a.159.2 FF domain
View Download 0.201 0.952 DNA replication initiation a.23.5 Hemolysin expression modulating protein HHA

Predicted Domain #3
Region A:
Residues: [221-468]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 QEKFIKLPFE NVIELVGNRL VFLKDGYAYL PQFQQLNLLS NEFASKLNQE LIKTYQYLPR  60
   61 LNEDDRLLPI LNHLSSGYTI ADFNQQKANQ FSENVDDEIN AQSVWSEEIS SNYPLCIKNL 120
  121 MEGLKKNHHL RYYGRQQLSL FLKGIGLSAD EALKFWSEAF TRNGNMTMEK FNKEYRYSFR 180
  181 HNYGLEGNRI NYKPWDCHTI LSKPRPGRGD YHGCPFRDWS HERLSAELRS MKLTQAQIIS 240
  241 VLDSCQKG

[Run NCBI BLAST on this sequence.]

Detection Method: MSA

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.

Predicted Domain #4
Region A:
Residues: [469-528]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 EYTIACTKVF EMTHNSASAD LEIGEQTHIA HPNLYFERSR QLQKKQQKLE KEKLFNNGNH  60
   61 

[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 0.481 a.4.5 "Winged helix" DNA-binding domain
View Download 0.341 a.4.1 Homeodomain-like
View Download 0.380 f.13.1 Family A G protein-coupled receptor-like
View Download 0.348 a.37.1 A DNA-binding domain in eukaryotic transcription factors
View Download 0.398 d.68.5 C-terminal domain of ProRS
View Download 0.332 d.10.1 DNA-binding domain
View Download 0.326 a.4.5 "Winged helix" DNA-binding domain
View Download 0.298 a.4.1 Homeodomain-like
View Download 0.273 a.4.5 "Winged helix" DNA-binding domain
View Download 0.255 a.4.1 Homeodomain-like
View Download 0.250 d.9.2 Description not found.
View Download 0.242 a.4.1 Homeodomain-like
View Download 0.236 d.10.1 DNA-binding domain
View Download 0.231 a.4.1 Homeodomain-like
View Download 0.222 a.4.5 "Winged helix" DNA-binding domain


YRC Informatics Platform - Version 3.0
Created and Maintained by: Michael Riffle