UniProtKB - P25974 (GLCB1_SOYBN)

4/12/2019 CG-4 - Beta-conglycinin beta subunit 1 precursor - Glycine max (Soybean) - CG-4 gene & protein

Protein Beta-conglycinin beta subunit 1

Gene CG-4
Organism Glycine max (Soybean) (Glycine hispida)

Status s Reviewed - Annotation score: - Experimental evidence at protein lev

Function
Seed storage protein. Accumulates during seed development and is hydrolyzed after germination
to provide a carbon and nitrogen source for the developing seedling. Evidence: 1 Publication

Miscellaneous
Mutagenesis of Ile-145 and Lys-147 allow the creation of a beta-conglycinin beta chain containin
a phagocytosis-stimulating peptide, soymetide, found normally only in the alpha' chain. The thre
mutants created exhibit phagocytosis activities after digestion by trypsin and the order is wild
type < I145M/K147T < I145M/K147F < I145M/K147W. Evidence: 1 Publication

GO - Molecular function

nutrient reservoir activity Evidence: Source: UniProtKB-KW

Keywords
Molecular Seed storage protein, Storage protein
function

Names & Taxonomy

Protein names Recommended name:
Beta-conglycinin beta subunit 1 Evidence: Curated
Short CG-beta-1 Evidence: Curated
name: Alternative name(s):
Beta-conglycinin beta subunit Evidence: 1 Publication
Allergen: Gly m 5 Evidence: Curated

Gene names Name:CG-4 Evidence: 1 Publication

ORF Names:GLYMA_20G146200 Evidence: Imported

Organism Glycine max (Soybean) (Glycine hispida)

Taxonomic identifier 3847 [NCBI]
Taxonomic lineage Eukaryota › Viridiplantae › Streptophyta › Embryophyta › Tracheophyta ›
Spermatophyta › Magnoliophyta › eudicotyledons › Gunneridae ›
Pentapetalae › rosids › fabids › Fabales › Fabaceae › Papilionoideae › 50 kb
inversion clade › NPAAA clade › indigoferoid/millettioid clade › Phaseoleae ›
Glycine › Soja
Proteomes
UP000008827 Component: Chromosome 20

Subcellular location
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4/12/2019 CG-4 - Beta-conglycinin beta subunit 1 precursor - Glycine max (Soybean) - CG-4 gene & protein

Vacuole

ER

Graphics by Christian Stolte & Seán O’Donoghue; Source: COMPARTMENTS

Manual annotation Automatic computational assertion

UniProt annotation GO - Cellular component

Endoplasmic reticulum

Endoplasmic reticulum i Evidence: 1 Publication

Vacuole

aleurone grain i Evidence: Curated

Protein storage vacuole i Evidence: 2 Publications
Note: Localizes in protein storage vacuoles in cotyledons of developing and mature beans
(PubMed:15447650, Ref. 6). Synthesized and assembled into trimers in the endoplasmic
reticulum, and transported to the protein storage vacuoles by the dense vesicles
(PubMed:15447650). Evidence: 2 Publications

Keywords - Cellular component

Endoplasmic reticulum, Vacuole

Pathology & Biotech

Allergenic properties
Causes
We'd like to inform you thatan
weallergic reactionour
have updated in human
Privacy(PubMed:18996574).
Notice to comply withBinds to IgE
Europe’s newof General
patientsData
with Protectio
severe
allergic reactions (anaphylaxis)
Regulation (GDPR) that applies since 25 May 2018. to soybean (PubMed:18996574). Evidence: 1 Publication

Mutagenesis Do not show this banner again

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4/12/2019 CG-4 - Beta-conglycinin beta subunit 1 precursor - Glycine max (Soybean) - CG-4 gene & protein
Feature key Position(s) Description Graphical view

Mutagenesis 145 I → M: Little or no effect

on the secondary
structure and strong
phagocytosis-stimulating
activity; when associated
with T-147; F-147 or W-
147.
Evidence: 1 Publication
Mutagenesis 147 K → T, F or W: Little or no
effect on the secondary
structure and strong
phagocytosis-stimulating
activity; when associated
with M-145.
Evidence: 1 Publication

Keywords - Disease
Allergen

Protein family/group databases

Allergome 5816 Gly m 5
5819 Gly m 5.0301
5820 Gly m 5.0302

PTM / Processing
Molecule processing
Feature key Position(s) Description Graphical view

Signal peptide 1 – 23 Evidence: 1 Publication

Chain (PRO_0000032191) 24 – 439 Beta-conglycinin beta

subunit 1
Evidence: 2 Publications

Amino acid modifications

Feature key Position(s) Description Graphical view

Glycosylation 351 N-linked (GlcNAc...)

asparagine
Evidence: 1 Publication

Post-translational modification
The N-linked glycans are not essential for the folding and assembly into trimers.
Evidence: 1 Publication

Keywords - PTM
Glycoprotein

Proteomic databases
PRIDE P25974

PTM databases
iPTMnet P25974

Expression
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Tissue specificity
Do plants.
Expressed in seeds. Not detected in cotyledons or in mature not showEvidence:
this banner again
1 Publication
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4/12/2019 CG-4 - Beta-conglycinin beta subunit 1 precursor - Glycine max (Soybean) - CG-4 gene & protein
Developmental stage
Expressed early in embryogenesis, with a high transcription rate at midmaturation and then
decreases prior to seed dormancy. Evidence: 1 Publication

Interaction
Subunit structure
The alpha-, alpha'-, and beta-subunits associate in various combinations to form trimeric
proteins. Evidence: 1 Publication

Protein-protein interaction databases

STRING 3847.GLYMA20G28460.1

Structure
      PDB
MethodResolution
Chain Positions
Link
Entry
1I… X-r… 2.7… A/B/C 24-43 PD…
RC…
PDBj
PD…
1I… X-r… 2.7… A/B/C 24-43 PD…
RC…
PDBj
PD…
1U… X-r… 2.5… A/B/C 24-43 PD…
RC…
PDBj
PD…

Secondary structure
1 4

Legend: Helix Turn Beta strand PDB Structure known for this area

Show more details

3D structure databases
Select the link PDB entry Method Resolution (Å) Chain Positions PDBsum
destinations: 1IPJ X-ray 2.70 A/B/C 24-439 [»]
PDBe
1IPK X-ray 2.70 A/B/C 24-439 [»]
We'd like to inform you thatRCSB
we have
PDBupdated our Privacy Notice to comply with Europe’s new General Data Protectio
PDBj25 May 2018. 1UIJ X-ray
Regulation (GDPR) that applies since 2.50 A/B/C/D/E/F 24-439 [»]
ProteinModelPortal P25974
SMR P25974 Do not show this banner again

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4/12/2019 CG-4 - Beta-conglycinin
ModBase beta subunit 1 precursor - Glycine max (Soybean) - CG-4 gene & protein
Search...
MobiDB Search...

Miscellaneous databases
EvolutionaryTrace P25974

Family & Domains

Region
Feature key Position(s) Description Graphical view

Region 430 – 439 Necessary for sorting to

protein storage vacuole
Evidence: 1 Publication

Compositional bias
Feature key Position(s) Description Graphical view

Compositional bias 199 – 202 Poly-Glu

Evidence:
Sequence analysis

Sequence similarities
Belongs to the 7S seed storage protein family. Evidence: Curated

Keywords - Domain
Signal

Phylogenomic databases
eggNOG ENOG410INE4 Eukaryota
ENOG410YEDB LUCA
InParanoid P25974

Family and domain databases

Gene3D 2.60.120.10, 2 hits
InterPro View protein in InterPro
IPR006045 Cupin_1
IPR013096 Cupin_2
IPR014710 RmlC-like_jellyroll
IPR011051 RmlC_Cupin_sf
Pfam View protein in Pfam
PF00190 Cupin_1, 1 hit
PF07883 Cupin_2, 1 hit
SMART View protein in SMART
SM00835 Cupin_1, 2 hits
SUPFAM SSF51182 SSF51182, 2 hits

Sequence
Sequence status: Complete.
Sequence processing: The displayed sequence is further processed into a mature form.

P25974-1 [UniParc]
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4/12/2019 CG-4 - Beta-conglycinin beta subunit 1 precursor - Glycine max (Soybean) - CG-4 gene & protein

10 20 30 40 50
MMRVRFPLLV LLGTVFLASV CVSLKVREDE NNPFYLRSSN SFQTLFENQN
60 70 80 90 100
GRIRLLQRFN KRSPQLENLR DYRIVQFQSK PNTILLPHHA DADFLLFVLS
110 120 130 140 150
GRAILTLVNN DDRDSYNLHP GDAQRIPAGT TYYLVNPHDH QNLKIIKLAI
160 170 180 190 200
PVNKPGRYDD FFLSSTQAQQ SYLQGFSHNI LETSFHSEFE EINRVLFGEE
210 220 230 240 250
EEQRQQEGVI VELSKEQIRQ LSRRAKSSSR KTISSEDEPF NLRSRNPIYS
260 270 280 290 300
NNFGKFFEIT PEKNPQLRDL DIFLSSVDIN EGALLLPHFN SKAIVILVIN
310 320 330 340 350
EGDANIELVG IKEQQQKQKQ EEEPLEVQRY RAELSEDDVF VIPAAYPFVV
360 370 380 390 400
NATSNLNFLA FGINAENNQR NFLAGEKDNV VRQIERQVQE LAFPGSAQDV
410 420 430
ERLLKKQRES YFVDAQPQQK EEGSKGRKGP FPSILGALY

Length: 439
Mass (Da): 50,476
Last modified: January 16, 2019 - v2
Checksum: 86D20314FC21D9E7

Experimental Info
Feature key
Sequence conflict
Sequence conflict
Sequence conflict
Sequence conflict
Sequence conflict
Position(s) Description Graphical view
36 L → F in AAB23463
(PubMed:2562562).
Evidence: Curated
39 S → V AA sequence (Ref.
4) Evidence: Curated
44 T → G AA sequence (Ref.
4) Evidence: Curated
50 N → D AA sequence (Ref.
4) Evidence: Curated
51 G → V in AAB23463
(PubMed:2562562).
Evidence: Curated

Sequence databases
Select the link S44893 Genomic DNA Translation: AAB23463.1
destinations: CM000853 Genomic DNA Translation: KRG91303.1
EMBL ACUP02012674 Genomic DNA No translation available.
GenBank
DDBJ
PIR JQ0969 FWSYCB
UniGene Gma.26853

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Genome annotation databases
Regulation (GDPR) that applies since 25 May 2018.
EnsemblPlants KRG91303; KRG91303; GLYMA_20G146200
Gramene KRG91303; KRG91303; GLYMA_20G146200
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4/12/2019
Similar proteins
CG-4 - Beta-conglycinin beta subunit 1 precursor - Glycine max (Soybean) - CG-4 gene & protein

100% Identity 90% Identity 50% Identity

Protein Similar proteins Species Score Length Source

P25974 Beta-conglycinin beta subunit SOYBN 420 UniRef100_P2597

(Fragment)
t

Cross-references
Sequence databases
Select the link S44893 Genomic DNA Translation: AAB23463.1
destinations: CM000853 Genomic DNA Translation: KRG91303.1
EMBL ACUP02012674 Genomic DNA No translation available.
GenBank
DDBJ
PIR JQ0969 FWSYCB
UniGene Gma.26853

3D structure databases
Select the link PDB entry Method Resolution (Å) Chain Positions PDBsum
destinations: 1IPJ X-ray 2.70 A/B/C 24-439 [»]
PDBe
1IPK X-ray 2.70 A/B/C 24-439 [»]
RCSB PDB
PDBj 1UIJ X-ray 2.50 A/B/C/D/E/F 24-439 [»]
ProteinModelPortal P25974
SMR P25974
ModBase Search...
MobiDB Search...

Protein-protein interaction databases

STRING 3847.GLYMA20G28460.1

Protein family/group databases

Allergome 5816 Gly m 5
5819 Gly m 5.0301
5820 Gly m 5.0302

PTM databases
iPTMnet P25974

Proteomic databases
PRIDE P25974

Protocols and materials databases

Structural Biology Search...
Knowledgebase

Genome annotation databases

We'd like to inform you that we have updated
EnsemblPlants KRG91303
our Privacy
; KRG91303
Notice
; GLYMA_20G146200
to comply with Europe’s new General Data Protectio
Regulation (GDPR) that applies since 25 KRG91303
Gramene May 2018.; KRG91303; GLYMA_20G146200

Phylogenomic databases Do not show this banner again

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4/12/2019 CG-4 - Beta-conglycinin
eggNOG beta subunit 1Eukaryota
ENOG410INE4 precursor - Glycine max (Soybean) - CG-4 gene & protein

ENOG410YEDB LUCA
InParanoid P25974

Miscellaneous databases
EvolutionaryTrace P25974

Family and domain databases

Gene3D 2.60.120.10, 2 hits
InterPro View protein in InterPro
IPR006045 Cupin_1
IPR013096 Cupin_2
IPR014710 RmlC-like_jellyroll
IPR011051 RmlC_Cupin_sf
Pfam View protein in Pfam
PF00190 Cupin_1, 1 hit
PF07883 Cupin_2, 1 hit
SMART View protein in SMART
SM00835 Cupin_1, 2 hits
SUPFAM SSF51182 SSF51182, 2 hits
ProtoNet Search...

Entry information
Entry name GLCB1_SOYBN
Accession Primary (citable) accession number: P25974
Secondary accession number(s): I1NGF4
Entry history Integrated into UniProtKB/Swiss- May 1, 1992
Prot:
Last sequence update: January 16, 2019
Last modified: April 10, 2019
This is version 97 of the entry and version 2 of the sequence. See
complete history.
Entry status Reviewed (UniProtKB/Swiss-Prot)
Annotation program Plant Protein Annotation Program

Miscellaneous
Keywords - Technical term
3D-structure, Complete proteome, Direct protein sequencing, Reference proteome

Documents

SIMILARITY comments
Index of protein domains and families
PDB cross-references
Index of Protein Data Bank (PDB) cross-references

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