surA:On One Page

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Quickview   Gene   Gene Product(s)   Expression   Evolution   On One Page    
Quickview | Gene | Product(s) | Expression| Evolution | References |

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Standard Name

surA

Gene Synonym(s)

ECK0054, b0053, JW0052[1], JW0052

Product Desc.

peptidyl-prolyl cis-trans isomerase (PPIase)[2][3]

Periplasmic OM porin chaperone, has PPIase activity; required for stationary-phase survival[4]

Product Synonyms(s)

peptidyl-prolyl cis-trans isomerase (PPIase)[1], B0053[2][1], SurA[2][1] , ECK0054, JW0052, b0053

Function from GO

<GO_nr />

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): imp-surA-pdxA[2], surA-pdxA-rsmA-apaGH[2], surA-pdxA-ksgA-apaGH

Regulation/Activity
Quick Links

porteco.png EcoCyc.gif regulondb.jpg

dnadisplay.png proteindisplay.png   pubmed.jpg   textpresso.jpg  

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Notes

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Parvulin (ppiC) family. SurA contains two PPIase domains. PPIase domain I is inactive. PPIase activity is not required for porin maturation. An fkpA, surA, ppiB, ppiD quadruple mutant is viable.[4]



Gene

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Nomenclature

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See Help:Gene_nomenclature for help with entering information in the Gene Nomenclature table.

Standard name

surA

Mnemonic

Survival

Synonyms

ECK0054, b0053, JW0052[1], JW0052

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Notes

Location(s) and DNA Sequence

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<protect> See Help:Gene_location for help entering information in the Gene Location and DNA sequence table.

Strain Map location Genome coordinates Genome browsers Sequence links

MG1655

1.15 minutes 

MG1655: 54702..53416
<gbrowseImage> name=NC_000913:53416..54702 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 58897..57611
<gbrowseImage> name=NC_012967:57611..58897 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 53416..54702
<gbrowseImage> name=NC_012759:53416..54702 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 54702..53416
<gbrowseImage> name=NC_007779:53416..54702 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 54702..53416
<gbrowseImage> name=NC_010473:53416..54702 source=DH10B preset=GeneLocation </gbrowseImage>

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Notes

Sequence Features

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See Help:Gene_sequence_features for help in entering sequence features in EcoliWiki.

Feature Type Strain Genomic Location Evidence Reference Notes

Coding Start (SO:0000323)

MG1655

53419

Edman degradation

PMID:9298646
PMID:9600841


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Notes

Alleles and Phenotypes

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See Help:Gene_alleles for how to enter or edit alleles and phenotypes in EcoliWiki.

Allele Nt change(s) AA change(s) Phenotype: Type Phenotype: Description Reference Availability Comments

surA(del) (Keio:JW0052)

deletion

deletion

PMID:16738554

Shigen

CGSC8362[5]

surA765(del)::kan

PMID:16738554

CGSC:103072


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Notes

Genetic Interactions

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Interactor Interaction Allele Score(s) Reference(s) Accessions Notes
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Notes

Genetic Resources

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See Help:Gene_resources for help entering information into the Genetic Resources table.

Resource Resource Type Source Notes/Reference

JW0052

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCAAGAACTGGAAAACGCTGCT

Primer 2:CCGTTGCTCAGGATTTTAACGTA

4A3

Kohara Phage

Genobase

PMID:3038334

8D2

Kohara Phage

Genobase

PMID:3038334

carB96::Tn10

Linked marker

CAG12093 = CGSC7322[5]

est. P1 cotransduction: 46% [6]
Synonyms:car-96::Tn10

leuO3051::Tn10

Linked marker

CAG12095 = CGSC7324[5]

est. P1 cotransduction: 31% [6]
Synonyms:zab-3051::Tn10 nnnThe start of leuO was reannotated by Riley et al. (2006).

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Notes

Accessions in Other Databases

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database Accession Notes

EcoCyc

EcoCyc:EG10985

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10985

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000974

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:944812

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0978

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0000180

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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Product(s)

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Nomenclature

See Help:Product_nomenclature for help entering or editing information in this section of EcoliWiki.

Standard name

SurA

Synonyms

peptidyl-prolyl cis-trans isomerase (PPIase)[1], B0053[2][1], SurA[2][1] , ECK0054, JW0052, b0053

Product description

peptidyl-prolyl cis-trans isomerase (PPIase)[2][3]

Periplasmic OM porin chaperone, has PPIase activity; required for stationary-phase survival[4]

EC number (for enzymes)
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Notes

Function

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<protect> Gene Ontology
See Help:Gene_ontology for help entering or editing GO terms and GO annotations in EcoliWiki.

Qualifier GO ID GO term name Reference Evidence Code with/from Aspect Notes Status

GO:0030288

outer membrane-bounded periplasmic space

C

Seeded from Riley et al 2006 [1].

Missing: evidence, reference

GO:0003755

peptidyl-prolyl cis-trans isomerase activity

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_01183

F

Seeded from EcoCyc (v14.0)

complete

GO:0003755

peptidyl-prolyl cis-trans isomerase activity

GOA:spec
GO_REF:0000003

IEA: Inferred from Electronic Annotation

EC:5.2.1.8

F

Seeded from EcoCyc (v14.0)

complete

GO:0003755

peptidyl-prolyl cis-trans isomerase activity

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0697

F

Seeded from EcoCyc (v14.0)

complete

GO:0051082

unfolded protein binding

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_01183

F

Seeded from EcoCyc (v14.0)

complete

GO:0051082

unfolded protein binding

PMID:11226178

IPI: Inferred from Physical Interaction

UniProtKB:P02931

F

Seeded from EcoCyc (v14.0)

complete

GO:0051082

unfolded protein binding

PMID:11226178

IPI: Inferred from Physical Interaction

UniProtKB:P02932

F

Seeded from EcoCyc (v14.0)

complete

GO:0060274

maintenance of stationary phase

PMID:2165476

IMP: Inferred from Mutant Phenotype

P

complete

GO:0051082

unfolded protein binding

PMID:11226178

IPI: Inferred from Physical Interaction

UniProtKB:P02943

F

Seeded from EcoCyc (v14.0)

complete

GO:0006457

protein folding

PMID:8626309

IMP: Inferred from Mutant Phenotype

P

complete

GO:0050821

protein stabilization

PMID:8626309

IMP: Inferred from Mutant Phenotype

P

complete

GO:0003755

peptidyl-prolyl cis-trans isomerase activity

PMID:8985185

IDA: Inferred from Direct Assay

F

complete

GO:0043165

Gram-negative-bacterium-type cell outer membrane assembly

PMID:8985185

IMP: Inferred from Mutant Phenotype

P

complete

GO:0030288

outer membrane-bounded periplasmic space

PMID:8985185

IDA: Inferred from Direct Assay

C

complete

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Interactions See Help:Product_interactions for help entering or editing information about gene product interactions in this section of EcoliWiki.

Partner Type Partner Notes References Evidence

Protein

dnaK

PMID:16606699

Experiment(s):EBI-1135459

Protein

hflB

PMID:16606699

Experiment(s):EBI-1135459

Protein

chbC

PMID:15690043

Experiment(s):EBI-891312

Protein

ilvA

PMID:15690043

Experiment(s):EBI-891312

Protein

lpdA

PMID:15690043

Experiment(s):EBI-891312

Protein

rplL

PMID:15690043

Experiment(s):EBI-891312

Protein

rpsN

PMID:15690043

Experiment(s):EBI-891312

Protein

ydaY

PMID:15690043

Experiment(s):EBI-891312

Protein

ilvA

PMID:19402753

LCMS(ID Probability):99.0

Protein

chbC

PMID:19402753

LCMS(ID Probability):99.0

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Notes

Localization

See Help:Product_localization for how to add or edit information in this section of EcoliWiki.

Compartment Description Evidence Reference/Source Notes

periplasm

Periplasm

PMID:9298646

EchoLocation:surA


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Notes

Structure and Physical Properties

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<protect> Physical Properties See Help:Product_physical_properties for help entering or editing information about the physical properties of this gene product.

Name
Sequence

at EcoCyc 

MKNWKTLLLG IAMIANTSFA APQVVDKVAA VVNNGVVLES DVDGLMQSVK LNAAQARQQL
PDDATLRHQI MERLIMDQII LQMGQKMGVK ISDEQLDQAI ANIAKQNNMT LDQMRSRLAY
DGLNYNTYRN QIRKEMIISE VRNNEVRRRI TILPQEVESL AQQVGNQNDA STELNLSHIL
IPLPENPTSD QVNEAESQAR AIVDQARNGA DFGKLAIAHS ADQQALNGGQ MGWGRIQELP
GIFAQALSTA KKGDIVGPIR SGVGFHILKV NDLRGESKNI SVTEVHARHI LLKPSPIMTD
EQARVKLEQI AADIKSGKTT FAAAAKEFSQ DPGSANQGGD LGWATPDIFD PAFRDALTRL
NKGQMSAPVH SSFGWHLIEL LDTRNVDKTD AAQKDRAYRM LMNRKFSEEA ASWMQEQRAS
AYVKILSN
Length

428

Mol. Wt

47.284 kDa

pI

7.0 (calculated)

Extinction coefficient

34,950 (calc based on 5 Y, 5 W, and 0 C residues)

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Domains/Motifs/Modification Sites

See Help:Product_domains_motifs for help entering or editing information in this section of EcoliWiki.

Type Residues Description Notes References

motif

1-20

UniProt Manual:Signal Peptides

UniProt:P0ABZ6

Domain

178..272

PF00639 PPIC-type PPIASE domain

PMID:19920124

Domain

289..382

PF00639 PPIC-type PPIASE domain

PMID:19920124

Domain

25..142

PF09312 SurA N-terminal domain

PMID:19920124

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<motif_map/>

Structure
See Help:Product_structure for help entering or editing information in this section of EcoliWiki.

Structures

<beststructure> gene=surA taxon=562,83333 </beststructure>

Models

View models at:

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Structure figures

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Notes

Gene Product Resources

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See Help:Product_resources for help with entering or editing information in this section of EcoliWiki.

Resource type Source Notes/Reference
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Notes

Accessions in Other Databases

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database Accession Notes

NCBI (Protein) (EcoliWiki Page)

GI:16128047

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:944812

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0000180

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P0ABZ6

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG10985

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10985

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:944812

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000974

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0978

Escherichia coli str. K-12 substr. MG1655

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Notes

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Expression

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Overview

This is a placeholder for a summary statement on how expression of this gene product is regulated. You can help EcoliWiki by becoming a user and writing/editing this statement.


Cellular Levels

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See Help:Cellular levels

Molecule Organism or Strain Value Units Experimental Conditions Assay used Notes Reference(s)

Protein

E. coli K-12 MC4100

2.20E+03

molecules/cell

  • Medium: median data from rich and minimal media
  • Temperature (°C): 37
  • Doubling time (min): Growth Rate(min):
  • Growth phase: other:

emPAI

PMID:18304323

Protein

Ecoli K-12

6.869+/-0.074

Molecules/cell

  • Medium:
  • Temperature (°C):
  • Doubling time (min): Growth Rate(min): *
  • Growth phase: other: *

Single Molecule Fluorescence

PMID:20671182

mRNA

Ecoli K-12

0.167962675

Molecules/cell

  • Medium:
  • Temperature (°C):
  • Doubling time (min): Growth Rate(min): *
  • Growth phase: other: *

by RNA_Seq

PMID:20671182

Protein

E. coli K-12 MG1655

3872

molecules/cell/generation

  • Medium: MOPS Complete
  • Temperature (°C): 37
  • Doubling time (min):
  • *Growth phase:
  • OD:
  • other:

Ribosome Profiling

PMID: 24766808

Protein

E. coli K-12 MG1655

1291

molecules/cell/generation

  • Medium: MOPS Minimal
  • Temperature (°C): 37
  • Doubling time (min):
  • *Growth phase:
  • OD:
  • other:

Ribosome Profiling

PMID: 24766808

Protein

E. coli K-12 MG1655

2546

molecules/cell/generation

  • Medium: MOPS Complete without Methionine
  • Temperature (°C): 37
  • Doubling time (min):
  • *Growth phase:
  • OD:
  • other:

Ribosome Profiling

PMID: 24766808

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Notes

Transcription and Transcriptional Regulation

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<protect>

See Help:Expression_transcription for help entering or editing information in this section of EcoliWiki.

Transcription unit(s)

lptD-surA-pdxA

surA-pdxA-rsmA-apaGH

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Figure courtesy of RegulonDB

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Notes

This is a placeholder for a summary statement about how transcription of this gene is regulated. You can help EcoliWiki by becoming a user and writing/editing this statement.

Translation and Regulation of Translation

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<protect><gbrowseImage> name=NC_000913:54682..54722 source=MG1655 flip=1 type=Gene+DNA_+Protein preset=Nterminus </gbrowseImage> This picture shows the sequence around the N-terminus.

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Notes

This is a placeholder for a summary statement about how translation of this gene product is regulated. You can help EcoliWiki by becoming a user and writing/editing this statement.

Turnover and Regulation of Turnover

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Notes

This is a placeholder for a summary statement about turnover of this gene product. You can help EcoliWiki by becoming a user and writing/editing this statement.

Experimental

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<protect> Mutations Affecting Expression See Help:Expression_mutations for help entering or editing information in this section of EcoliWiki.

Allele Name Mutation Phenotype Reference
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Expression Studies See Help:Expression_studies for help entering or editing information in this section of EcoliWiki.

Type Reference Notes

microarray

GEO Profiles:b0053 (EcoliWiki Page)

NCBI GEO profiles for surA

microarray

GenExpDB:b0053 (EcoliWiki Page)

Summary of data for surA from multiple microarray studies

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Expression Resources See Help:Expression_resources for help entering or editing information in this section of EcoliWiki.

Resource Name Resource Type Description Source Notes
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Notes

Accessions Related to surA Expression

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database Accession Notes

EcoCyc

EcoCyc:EG10985

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0978

Escherichia coli str. K-12 substr. MG1655

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b0053

EcoGene

EcoGene:EG10985

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000974

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0000180

Escherichia coli str. K-12 substr. MG1655

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Notes

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Evolution

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Homologs in Other Organisms

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See Help:Evolution_homologs for help entering or editing information in this section of EcoliWiki.

Organism Homologs (Statistics) Comments

Dictyostelium discoideum

  • DDB0001410 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Shigella flexneri

SURA

From SHIGELLACYC

E. coli O157

SURA

From ECOO157CYC

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Do-It-Yourself Web Tools

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Notes

Families

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database Accession Notes

Superfamily (EcoliWiki Page)

SUPERFAMILY:54534

Superfamily (EcoliWiki Page)

SUPERFAMILY:54534

Superfamily (EcoliWiki Page)

SUPERFAMILY:109998

Pfam (EcoliWiki Page)

PF00639 PPIC-type PPIASE domain

Pfam (EcoliWiki Page)

PF00639 PPIC-type PPIASE domain

Pfam (EcoliWiki Page)

PF09312 SurA N-terminal domain

EcoCyc

EcoCyc:EG10985

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10985

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000974

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0978

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0000180

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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References

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See Help:References for how to manage references in EcoliWiki.

  1. ↑ 1.0 1.1 1.2 1.3 1.4 1.5 1.6 1.7 1.8 1.9 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
  2. ↑ 2.0 2.1 2.2 2.3 2.4 2.5 2.6 2.7 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  3. ↑ 3.0 3.1 EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  4. ↑ 4.0 4.1 4.2 EcoGene: Rudd, KE (2000) EcoGene: a genome sequence database for Escherichia coli K-12. Nucleic Acids Res 28:60-4.
  5. ↑ 5.0 5.1 5.2 CGSC: The Coli Genetics Stock Center
  6. ↑ 6.0 6.1 The Tn10 insertion sites determined by Nichols et al. 1998 (PMID:9829956) were reannotated by alignment with E. coli K-12 genome sequence (GenBank accession NC_000913). P1 contransduction frequencies were calculated using the formula of Wu (PMID:5338813).

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