PRY1/YJL079C Single Page Format

This page provides an alternative format to the SGD Locus Summary Page. Note that additional information may be available on or linked from the standard format SGD Locus Summary page.

Contents
Names and Identifiers

GO Annotations

Pathways

Summary Paragraph

Mutant Phenotypes

Interactions

Homologs

Protein Info (physical properties, transcript info)

PDB Homologs (protein structure info)

Motifs

Genome-wide Expression
(and other large-scale analyses)

Locus History (misc. notes)

Sequence Retrieval and Analysis

Map and Displays

Localization

Community Annotation

Literature Guide

Sequence Coordinates

ChrX: 290768 to 289869
CDS: 290768 - 289869

Click on map for expanded view

SGD ORF map GBrowse
SGD Locus Page

Names and Identifiers [TOP] [NEXT]
Standard Name Systematic Name Alias Feature Type SGDID

PRY1 YJL079C ORF, Verified S000003615

This name is reserved with SGD according to the Gene Naming Guidelines agreed upon by the yeast community.
Gene name reserved on: 1999-04-12. Gene name expires on 2000-04-12.
Description
Protein of unknown function

GO Annotations [TOP] [NEXT]
Molecular Function
Annotation(s) Reference(s) Evidence Assigned By
molecular_function
unknown SGD (2002) Use of the ND evidence code for Gene Ontology (GO) terms in SGD
   ND : No Biological Data Available
Assigned on 2002-11-26 SGD
Biological Process
Annotation(s) Reference(s) Evidence Assigned By
biological_process
unknown SGD (2002) Use of the ND evidence code for Gene Ontology (GO) terms in SGD
   ND : No Biological Data Available
Assigned on 2002-11-26 SGD
translational elongation Huttenhower C and Troyanskaya OG (2009) Prediction of Gene Ontology annotations by integrating high-throughput datasets
   RCA : Reviewed Computational Analysis
Assigned on 2009-08-06 bioPIXIE_MEFIT
Cellular Component
Annotation(s) Reference(s) Evidence Assigned By
endoplasmic reticulum Kumar A, et al. (2002) Subcellular localization of the yeast proteome. Genes Dev 16(6):707-19
             IDA : Inferred from Direct Assay
Assigned on 2002-05-07 SGD
extracellular region Terashima H, et al. (2002) Sequence-based approach for identification of cell wall proteins in Saccharomyces cerevisiae. Curr Genet 40(5):311-6
       IDA : Inferred from Direct Assay
Assigned on 2004-01-14 SGD
DDB, et al. (2001) Gene Ontology annotation through association of InterPro records with GO terms.
     IEA : Inferred from Electronic Annotation with EBI:IPR001283 , EBI:IPR018244
Assigned on 2007-05-23 UniProtKB
fungal-type vacuole Huh WK, et al. (2003) Global analysis of protein localization in budding yeast. Nature 425(6959):686-91
         IDA : Inferred from Direct Assay
Assigned on 2003-10-28 SGD
nuclear envelope Kumar A, et al. (2002) Subcellular localization of the yeast proteome. Genes Dev 16(6):707-19
             IDA : Inferred from Direct Assay
Assigned on 2002-05-07 SGD

Pathways [TOP] [NEXT]
No pathways available

Summary Paragraph [TOP] [NEXT]
No summary paragraph available

Basic References [TOP]
BASIC INFORMATION REFERENCES forPRY1/YJL079C for PRY1
1) SGD (2006) No information available

2) Ku, T. et al. (1996) Characterization of the PRY Genes: Yeast homologs of the plant PR-1 proteins. Unpublished

Mutant Phenotypes [TOP] [NEXT]
Phenotype page for PRY1/YJL079C

Interactions: genetic, physical, and other gene-gene links. [TOP] [NEXT]
Interaction page for PRY1/YJL079C

Homologs [TOP] [NEXT]

Comparison Resources

Physical Properties and Transcript Information: predicted from sequence [TOP] [NEXT]
Protein Sequence Calculations
from Predicted Full length Translation

N-term MKLSKLS

C-term DNVEPLA

Length(aa) 299

MW(Da) 30,634

pI 4.3

Amino Acid Composition (full length)

GCG tools: PepPlot, Helical Wheel, PepStruct

Transcript Translation Calculations

Codon Bias 0.405

Codon Adaptation Index 0.297

Frequency of Optimal Codons 0.635

Hydropathicity of Protein -0.176

Aromaticity Score 0.074

10 20 30 40 50 | | | | | MKLSKLSILTSALATSALAAPAVVTVTEHAHEAAVVTVQGVVYVENGQTR TTYETLAPASTATPTSTATALVAPPVAPSSASSNSDVVLSALKNLASVWG KTTDSTTTLTSSESTSQSLAQATTTSTPAAASTTSTPAATTTTSQAAATS SASSSDSDLSDFASSVLAEHNKKRALHKDTPALSWSDTLASYAQDYADNY DCSGTLTHSGGPYGENLALGYDGPAAVDAWYNEISNYDFSNPGFSSNTGH FTQVVWKSTTQVGCGIKTCGGAWGDYVICSYDPAGNYEGEYADNVEPLA*

Protein Structures from PDB: proteins of known structure with sequence similarity to PRY1/YJL079C, based on Smith-Waterman analysis. [TOP] [NEXT]
PDB protein structure(s) homologous to PRY1 Homolog Source (per PDB) Protein Alignment: PRY1 vs. Homolog External Links
P-Value %Identical %Similar Alignment
1smb ( Chain: A)
Crystal structure of golgi-associated pr-1 protein
PDB_Info
PDB_Structure
Homo sapiens 3.2e-14 41 22 View alignment SCOP
MMDB
CATH
1cfe ( Chain: A)
P14a, nmr, 20 structures
PDB_Info
PDB_Structure
Solanum lycopersicum 5.7e-13 41 26 View alignment SCOP
MMDB
CATH
1qnx ( Chain: A)
Ves v 5, an allergen from vespula vulgaris venom
PDB_Info
PDB_Structure
Vespula vulgaris 2.0e-08 36 24 View alignment SCOP
MMDB
CATH
1xta ( Chain: B, A)
Crystal structure of natrin, a snake venom crisp from taiwan cobra (naja atra)
PDB_Info
PDB_Structure
Naja atra Chain B = 3.4e-07 32 28 View alignment SCOP
MMDB
CATH
Chain A = 3.4e-07 32 28 View alignment
1xx5 ( Chain: B, C, A)
Crystal structure of natrin from naja atra snake venom
PDB_Info
PDB_Structure
Naja atra Chain B = 3.9e-07 31 31 View alignment SCOP
MMDB
CATH
Chain C = 3.9e-07 31 31 View alignment
Chain A = 3.9e-07 31 31 View alignment
2giz ( Chain: B, A)
Structural and functional analysis of natrin, a member of crisp-3 family blocks a variety of ion channels
PDB_Info
PDB_Structure
Naja atra Chain B = 3.9e-07 31 31 View alignment SCOP
MMDB
CATH
Chain A = 3.9e-07 31 31 View alignment
2epf ( Chain: D, A, C, B)
Crystal structure of zinc-bound pseudecin from pseudechis porphyriacus
PDB_Info
PDB_Structure
Pseudechis porphyriacus Chain D = 9.1e-07 31 27 View alignment SCOP
MMDB
CATH
Chain A = 9.1e-07 31 27 View alignment
Chain C = 9.1e-07 31 27 View alignment
Chain B = 9.1e-07 31 27 View alignment
2ddb ( Chain: D, B, A, C)
Crystal structure of pseudecin from pseudechis porphyriacus
PDB_Info
PDB_Structure
Pseudechis porphyriacus Chain D = 9.1e-07 31 27 View alignment SCOP
MMDB
CATH
Chain B = 9.1e-07 31 27 View alignment
Chain A = 9.1e-07 31 27 View alignment
Chain C = 9.1e-07 31 27 View alignment
2vzn ( Chain: A, B)
Crystal structure of the major allergen from fire ant venom, sol i 3
PDB_Info
PDB_Structure
Solenopsis invicta Chain A = 1.7e-06 32 25 View alignment SCOP
MMDB
CATH
Chain B = 1.7e-06 32 25 View alignment
2dda ( Chain: B, A, C, D)
Crystal structure of pseudechetoxin from pseudechis australis
PDB_Info
PDB_Structure
Pseudechis australis Chain B = 2.2e-06 31 26 View alignment SCOP
MMDB
CATH
Chain A = 2.2e-06 31 26 View alignment
Chain C = 2.2e-06 31 26 View alignment
Chain D = 2.2e-06 31 26 View alignment
1u53 ( Chain: A)
Novel x-ray structure of na-asp-2, a pr-1 protein from the nematode parasite necator americanus and a vaccine antigen for human hookworm infection
PDB_Info
PDB_Structure
Necator americanus 3.1e-05 34 32 View alignment SCOP
MMDB
CATH
1rc9 ( Chain: A)
Crystal structure of stecrisp, a member of crisp family from trimeresurus stejnegeri refined at 1.6 angstroms resolution: structual relationship of the two domains
PDB_Info
PDB_Structure
Viridovipera stejnegeri 0.000190 27 29 View alignment SCOP
MMDB
CATH
1wvr ( Chain: A)
Crystal structure of a crisp family ca-channel blocker derived from snake venom
PDB_Info
PDB_Structure
Trimeresurus flavoviridis 0.000410 29 27 View alignment SCOP
MMDB
CATH

Genome-wide Expression and Other Large-Scale Analyses [TOP] [NEXT]

Functional Analysis
You can also search multiple datasets simultaneously using Expression Connection for expression studies or Function Junction for other large scale analyses.

Locus History (misc. notes) [TOP] [NEXT]
Nomenclature History
Standard Name Date Standardized Reference
PRY1 2001-10-19 Ku, T. et al. (1996) Characterization of the PRY Genes: Yeast homologs of the plant PR-1 proteins. Unpublished

Standard Name	Date Standardized	Reference
PRY1	2001-10-19	*Ku, T. et al.* (1996)** Characterization of the PRY Genes: Yeast homologs of the plant PR-1 proteins. Unpublished

Sequence Retrieval [TOP] [NEXT]
Sequence Type Output Format

Genomic DNA GCG | FASTA | NoHeader

Genomic DNA with 1 kb up and downstream GCG | FASTA | NoHeader

DNA coding sequence
(without introns, without flanking regions) GCG | FASTA | NoHeader

Protein Translation of ORF GCG | FASTA | NoHeader

6-Frame Translation(with Restriction Map) GCG

Restriction Fragment Sizes GCG

Sequence Analysis Tools
Sequence from other databases

Sequence ID Source

YJL079C SGD Systematic Sequence

853366 NCBI: Gene ID

NP_012456.1 NCBI: RefSeq protein version ID

NP_012456.1 NCBI: RefSeq protein version ID

6322382 NCBI: NCBI protein GI

Sequence from other databases
Sequence ID	Source
YJL079C	SGD Systematic Sequence
853366	NCBI: Gene ID
NP_012456.1	NCBI: RefSeq protein version ID
NP_012456.1	NCBI: RefSeq protein version ID
6322382	NCBI: NCBI protein GI

Map and Displays [TOP] [NEXT]
Physical, Genetic Maps: Chromosomal Feature Map GBrowse Combined Physical and Genetic Map Genetic Distance vs. Physical Distance Ratios
Similarity Viewers: Synteny Viewer Genomic Stripe View SAGE Results Map

Localization [TOP] [NEXT]

Localization Resources

Community Annotation [TOP] [NEXT]
No community annotation available.

Literature Guide: papers categorized by topic. [TOP]
Topics Reference Other Genes Addressed
14 curated references; 0 references not yet curated
RNA Levels and Processing
Regulation of
Garcia R, et al. (2009) The High Osmotic Response and Cell Wall Integrity Pathways Cooperate to Regulate Transcriptional Responses to Zymolyase-induced Cell Wall Stress in Saccharomyces cerevisiae. J Biol Chem 284(16):10901-11
       |AFR1 |ALD3 |ALD4 |ARI1 |BCK1 |BGL2 |CCW14 |CIS3 |CRG1 |CRH1 |CTT1 |CWP1 |CWP2 |DCS2 |MORE
RNA Levels and Processing
Regulation of
Roberts GG 3rd and Hudson AP (2009) Rsf1p is required for an efficient metabolic shift from fermentative to glycerol-based respiratory growth in S. cerevisiae. Yeast 26(2):95-110
           |ABC1 |ACH1 |AEP2 |AGP2 |AGX1 |AHP1 |AIM33 |AIM39 |ANB1 |ARN1 |ARN2 |ATG3 |ATP1 |ATP10 |MORE
Evolution
Fungal Related Genes/Proteins
Coronado JE, et al. (2007) Conserved processes and lineage-specific proteins in fungal cell wall evolution. Eukaryot Cell 6(12):2269-77
       |ACF2 |AGA1 |AGA2 |ANS1 |BAR1 |BGL2 |BSC1 |CCW12 |CCW14 |CDA1 |CDA2 |CHS1 |CHS2 |CHS3 |MORE
Protein-Nucleic Acid Interactions
RNA Levels and Processing
Oeffinger M, et al. (2007) Comprehensive analysis of diverse ribonucleoprotein complexes. Nat Methods 4(11):951-6
       |ACB1 |ACT1 |ADE3 |AIM34 |ASH1 |ASM4 |BEM2 |BRR2 |BRX1 |BUD8 |CBC2 |CBF5 |CDC3 |CDC31 |MORE
Regulation of
Transcription
Buck MJ and Lieb JD (2006) A chromatin-mediated mechanism for specification of conditional transcription factor targets. Nat Genet 38(12):1446-51
         |ACA1 |ACS1 |ADE3 |ADH1 |AGP1 |AIM38 |ANP1 |AQY1 |ASC1 |AST2 |ATG19 |AZF1 |BDF1 |BSC3 |MORE
Genetic Interactions
Mutants/Phenotypes
Strains/Constructs
Barwell KJ, et al. (2005) Relationship of DFG16 to the Rim101p pH response pathway in Saccharomyces cerevisiae and Candida albicans. Eukaryot Cell 4(5):890-9
       |ASN1 |DFG16 |GPH1 |RIM101 |RIM21 |YGR122W
DNA/RNA Sequence Features
Regulation of
Transcription
Vyas VK, et al. (2005) Repressors Nrg1 and Nrg2 regulate a set of stress-responsive genes in Saccharomyces cerevisiae. Eukaryot Cell 4(11):1882-91
       |ADK2 |AGA2 |AGP2 |AIM13 |AIM19 |AIM34 |AIM36 |ALD4 |ASG7 |ATP15 |ATP16 |ATP17 |ATP18 |ATP2 |MORE
Reviews
Rutherford JC and Bird AJ (2004) Metal-responsive transcription factors that regulate iron, zinc, and copper homeostasis in eukaryotic cells. Eukaryot Cell 3(1):1-13
         |ADE17 |ADH4 |AFT1 |AFT2 |AKR1 |ARN1 |ARN2 |ATX1 |BAG7 |BNA2 |CCC2 |COS1 |COS2 |COS3 |MORE
Regulation of
Transcription
Barz T, et al. (2003) Genome-wide expression screens indicate a global role for protein kinase CK2 in chromatin remodeling. J Cell Sci 116(Pt 8):1563-77
         |AGP1 |AIM3 |ARG1 |ARG5,6 |ARO10 |ARO9 |ATR1 |BAT1 |BNA5 |CIT2 |CKA1 |CKA2 |CKB1 |CKB2 |MORE
Cellular Location
Strains/Constructs
Huh WK, et al. (2003) Global analysis of protein localization in budding yeast. Nature 425(6959):686-91
         |AAH1 |AAP1 |ABZ1 |ABZ2 |ACB1 |ACO2 |ADD37 |ADD66 |ADE1 |ADE12 |ADE2 |ADE3 |ADE4 |ADE6 |MORE
Cellular Location
Mutants/Phenotypes
Protein Sequence Features
Strains/Constructs
Techniques and Reagents
Terashima H, et al. (2002) Sequence-based approach for identification of cell wall proteins in Saccharomyces cerevisiae. Curr Genet 40(5):311-6
       |CWC23 |DIA3 |DSE2 |DSE4 |EAR1 |ERJ5 |GRX7 |HPF1 |MNL1 |PAN5 |PGU1 |PRY2 |SLP1 |SPC25 |MORE
DNA/RNA Sequence Features
Regulation of
Transcription
Iyer VR, et al. (2001) Genomic binding sites of the yeast cell-cycle transcription factors SBF and MBF. Nature 409(6819):533-8
         |ABF1 |APN1 |BBP1 |BUD9 |CAP1 |CDC21 |CDC45 |CDC7 |CLA4 |CLB1 |CLB2 |CLB6 |CLD1 |CLN1 |MORE
Function/Process
RNA Levels and Processing
Miura S, et al. (2000) Screening of genes involved in isooctane tolerance in saccharomyces cerevisiae by using mRNA differential display Appl Environ Microbiol 66(11):4883-9
       |GAC1 |HAC1 |ICT1 |JEN1 |KRE1 |MAL11 |MUQ1 |PRY2 |PRY3
Mutants/Phenotypes
Strains/Constructs
Entian KD, et al. (1999) Functional analysis of 150 deletion mutants in Saccharomyces cerevisiae by a systematic approach. Mol Gen Genet 262(4-5):683-702
     |ABM1 |AIM3 |ALT1 |AMN1 |APD1 |APL2 |AVT3 |BIO3 |BIO4 |BIO5 |BNA3 |BUD4 |CFD1 |CHA4 |MORE

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