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Protein

Agglutinin

Gene
N/A
Organism
Ricinus communis (Castor bean)
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

Catalytic activityi

Endohydrolysis of the N-glycosidic bond at one specific adenosine on the 28S rRNA.

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Binding sitei74Carbohydrate; via amide nitrogenBy similarity1
Active sitei200By similarity1
Binding sitei312Carbohydrate; via carbonyl oxygen1
Binding sitei337Carbohydrate1
Binding sitei342Carbohydrate1
Binding sitei348Carbohydrate1
Binding sitei381Carbohydrate1
Binding sitei397Carbohydrate1
Binding sitei437Carbohydrate1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi104 – 105AMPBy similarity2
Nucleotide bindingi145 – 147AMPBy similarity3

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionHydrolase, Protein synthesis inhibitor, Toxin
Biological processPlant defense
LigandLectin, Nucleotide-binding

Protein family/group databases

CAZyiCBM13 Carbohydrate-Binding Module Family 13
UniLectiniP06750

Names & Taxonomyi

Protein namesi
Recommended name:
Agglutinin
Alternative name(s):
RCA
Cleaved into the following 2 chains:
Alternative name(s):
rRNA N-glycosidase
OrganismiRicinus communis (Castor bean)
Taxonomic identifieri3988 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsfabidsMalpighialesEuphorbiaceaeAcalyphoideaeAcalypheaeRicinus

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cell wall Cytoskeleton Vacuole Chloroplast Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertion Graphics by Christian Stolte; Source: COMPARTMENTS

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Signal peptidei1 – 24Sequence analysisAdd BLAST24
ChainiPRO_000003072625 – 290Agglutinin A chainAdd BLAST266
PropeptideiPRO_0000030727291 – 302Linker peptide2 PublicationsAdd BLAST12
ChainiPRO_0000030728303 – 564Agglutinin B chain1 PublicationAdd BLAST262

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Glycosylationi34N-linked (GlcNAc...) asparagineSequence analysis1
Glycosylationi259N-linked (GlcNAc...) asparagineSequence analysis1
Disulfide bondi282 ↔ 306Interchain (between A and B chains)PROSITE-ProRule annotation1 Publication
Disulfide bondi322 ↔ 341PROSITE-ProRule annotation1 Publication
Disulfide bondi365 ↔ 382PROSITE-ProRule annotation1 Publication
Glycosylationi397N-linked (GlcNAc...) asparagine1
Glycosylationi437N-linked (GlcNAc...) asparagine1
Disulfide bondi453 ↔ 466PROSITE-ProRule annotation1 Publication
Disulfide bondi492 ↔ 509PROSITE-ProRule annotation1 Publication

Keywords - PTMi

Disulfide bond, Glycoprotein

PTM databases

GlyConnecti10
UniCarbKBiP06750

Structurei

Secondary structure

1564
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details

3D structure databases

ProteinModelPortaliP06750
SMRiP06750
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP06750

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini309 – 436Ricin B-type lectin 1PROSITE-ProRule annotationAdd BLAST128
Repeati319 – 3611-alphaAdd BLAST43
Repeati362 – 4021-betaAdd BLAST41
Repeati405 – 4371-gammaAdd BLAST33
Domaini439 – 563Ricin B-type lectin 2PROSITE-ProRule annotationAdd BLAST125
Repeati450 – 4852-alphaAdd BLAST36
Repeati489 – 5282-betaAdd BLAST40
Repeati531 – 5582-gammaAdd BLAST28

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni32 – 34Carbohydrate binding3
Regioni164 – 169Carbohydrate bindingBy similarity6
Regioni218 – 220Carbohydrate bindingBy similarity3
Regioni324 – 328Carbohydrate binding5
Regioni536 – 539Carbohydrate bindingBy similarity4
Regioni553 – 557Carbohydrate bindingBy similarity5

Sequence similaritiesi

In the N-terminal section; belongs to the ribosome-inactivating protein family. Type 2 RIP subfamily.Curated

Keywords - Domaini

Repeat, Signal

Family and domain databases

CDDicd00161 RICIN, 2 hits
Gene3Di3.40.420.10, 1 hit
4.10.470.10, 1 hit
InterProiView protein in InterPro
IPR036041 Ribosome-inact_prot_sf
IPR017989 Ribosome_inactivat_1/2
IPR001574 Ribosome_inactivat_prot
IPR017988 Ribosome_inactivat_prot_CS
IPR016138 Ribosome_inactivat_prot_sub1
IPR016139 Ribosome_inactivat_prot_sub2
IPR035992 Ricin_B-like_lectins
IPR000772 Ricin_B_lectin
PfamiView protein in Pfam
PF00652 Ricin_B_lectin, 2 hits
PF00161 RIP, 1 hit
PRINTSiPR00396 SHIGARICIN
SMARTiView protein in SMART
SM00458 RICIN, 2 hits
SUPFAMiSSF50370 SSF50370, 2 hits
SSF56371 SSF56371, 1 hit
PROSITEiView protein in PROSITE
PS50231 RICIN_B_LECTIN, 2 hits
PS00275 SHIGA_RICIN, 1 hit

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

P06750-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MYAVATWLCF GSTSGWSFTL EDNNIFPKQY PIINFTTADA TVESYTNFIR
60 70 80 90 100
AVRSHLTTGA DVRHEIPVLP NRVGLPISQR FILVELSNHA ELSVTLALDV
110 120 130 140 150
TNAYVVGCRA GNSAYFFHPD NQEDAEAITH LFTDVQNSFT FAFGGNYDRL
160 170 180 190 200
EQLGGLRENI ELGTGPLEDA ISALYYYSTC GTQIPTLARS FMVCIQMISE
210 220 230 240 250
AARFQYIEGE MRTRIRYNRR SAPDPSVITL ENSWGRLSTA IQESNQGAFA
260 270 280 290 300
SPIQLQRRNG SKFNVYDVSI LIPIIALMVY RCAPPPSSQF SLLIRPVVPN
310 320 330 340 350
FNADVCMDPE PIVRIVGRNG LCVDVTGEEF FDGNPIQLWP CKSNTDWNQL
360 370 380 390 400
WTLRKDSTIR SNGKCLTISK SSPRQQVVIY NCSTATVGAT RWQIWDNRTI
410 420 430 440 450
INPRSGLVLA ATSGNSGTKL TVQTNIYAVS QGWLPTNNTQ PFVTTIVGLY
460 470 480 490 500
GMCLQANSGK VWLEDCTSEK AEQQWALYAD GSIRPQQNRD NCLTTDANIK
510 520 530 540 550
GTVVKILSCG PASSGQRWMF KNDGTILNLY NGLVLDVRRS DPSLKQIIVH
560
PFHGNLNQIW LPLF
Length:564
Mass (Da):62,851
Last modified:January 1, 1988 - v1
Checksum:iD455F2A72F609759
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti331F → T AA sequence (Ref. 2) Curated1
Sequence conflicti362N → D AA sequence (Ref. 2) Curated1
Sequence conflicti374R → G AA sequence (Ref. 2) Curated1
Sequence conflicti404R → T AA sequence (Ref. 2) Curated1
Sequence conflicti552F → V AA sequence (Ref. 2) Curated1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
M12089 mRNA Translation: AAA33869.1
S40368 mRNA Translation: AAB22584.1
PIRiA24261 RLCSAG

Similar proteinsi

Cross-referencesi

Web resourcesi

Functional Glycomics Gateway - Glycan Binding

RCA

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
M12089 mRNA Translation: AAA33869.1
S40368 mRNA Translation: AAB22584.1
PIRiA24261 RLCSAG

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1RZOX-ray2.63A/C25-286[»]
B/D303-564[»]
ProteinModelPortaliP06750
SMRiP06750
ModBaseiSearch...
MobiDBiSearch...

Protein family/group databases

CAZyiCBM13 Carbohydrate-Binding Module Family 13
UniLectiniP06750

PTM databases

GlyConnecti10
UniCarbKBiP06750

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Miscellaneous databases

EvolutionaryTraceiP06750

Family and domain databases

CDDicd00161 RICIN, 2 hits
Gene3Di3.40.420.10, 1 hit
4.10.470.10, 1 hit
InterProiView protein in InterPro
IPR036041 Ribosome-inact_prot_sf
IPR017989 Ribosome_inactivat_1/2
IPR001574 Ribosome_inactivat_prot
IPR017988 Ribosome_inactivat_prot_CS
IPR016138 Ribosome_inactivat_prot_sub1
IPR016139 Ribosome_inactivat_prot_sub2
IPR035992 Ricin_B-like_lectins
IPR000772 Ricin_B_lectin
PfamiView protein in Pfam
PF00652 Ricin_B_lectin, 2 hits
PF00161 RIP, 1 hit
PRINTSiPR00396 SHIGARICIN
SMARTiView protein in SMART
SM00458 RICIN, 2 hits
SUPFAMiSSF50370 SSF50370, 2 hits
SSF56371 SSF56371, 1 hit
PROSITEiView protein in PROSITE
PS50231 RICIN_B_LECTIN, 2 hits
PS00275 SHIGA_RICIN, 1 hit
ProtoNetiSearch...

Entry informationi

Entry nameiAGGL_RICCO
AccessioniPrimary (citable) accession number: P06750
Entry historyiIntegrated into UniProtKB/Swiss-Prot: January 1, 1988
Last sequence update: January 1, 1988
Last modified: July 18, 2018
This is version 125 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Direct protein sequencing

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
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Main funding by: National Institutes of Health

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