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Protein

Ras-related protein Rab-5B

Gene

RAB5B

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

Protein transport. Probably involved in vesicular traffic (By similarity).By similarity

Activity regulationi

Regulated by guanine nucleotide exchange factors (GEFs) which promote the exchange of bound GDP for free GTP.

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi27 – 35GTPCombined sources1 Publication9
Nucleotide bindingi46 – 52GTPCombined sources1 Publication7
Nucleotide bindingi75 – 79GTPBy similarity5
Nucleotide bindingi133 – 136GTPCombined sources1 Publication4
Nucleotide bindingi163 – 165GTPCombined sources1 Publication3

GO - Molecular functioni

  • GDP binding Source: UniProtKB
  • GTPase activity Source: UniProtKB
  • GTP binding Source: UniProtKB-KW
  • GTP-dependent protein binding Source: UniProtKB

GO - Biological processi

Keywordsi

Biological processProtein transport, Transport
LigandGTP-binding, Nucleotide-binding

Enzyme and pathway databases

ReactomeiR-HSA-6798695 Neutrophil degranulation
R-HSA-8854214 TBC/RABGAPs
R-HSA-8856828 Clathrin-mediated endocytosis
R-HSA-8873719 RAB geranylgeranylation
R-HSA-8876198 RAB GEFs exchange GTP for GDP on RABs
SIGNORiP61020

Names & Taxonomyi

Protein namesi
Recommended name:
Ras-related protein Rab-5B
Gene namesi
Name:RAB5B
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 12

Organism-specific databases

EuPathDBiHostDB:ENSG00000111540.15
HGNCiHGNC:9784 RAB5B
MIMi179514 gene
neXtProtiNX_P61020

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

Keywords - Cellular componenti

Cell membrane, Endosome, Membrane

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi34S → N: Constitutively inactivated. Strongly reduces interaction with RIN2. 1 Publication1
Mutagenesisi79Q → L: Constitutively active. 1 Publication1

Organism-specific databases

DisGeNETi5869
OpenTargetsiENSG00000111540
PharmGKBiPA34144

Polymorphism and mutation databases

BioMutaiRAB5B
DMDMi46577637

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Initiator methionineiRemovedCombined sources
ChainiPRO_00001211072 – 215Ras-related protein Rab-5BAdd BLAST214

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei2N-acetylthreonineCombined sources1
Lipidationi212S-geranylgeranyl cysteineBy similarity1
Lipidationi213S-geranylgeranyl cysteineBy similarity1

Keywords - PTMi

Acetylation, Lipoprotein, Prenylation

Proteomic databases

EPDiP61020
MaxQBiP61020
PaxDbiP61020
PeptideAtlasiP61020
PRIDEiP61020
ProteomicsDBi57253

PTM databases

iPTMnetiP61020
PhosphoSitePlusiP61020
SwissPalmiP61020

Expressioni

Gene expression databases

BgeeiENSG00000111540 Expressed in 234 organ(s), highest expression level in C1 segment of cervical spinal cord
CleanExiHS_RAB5B
ExpressionAtlasiP61020 baseline and differential
GenevisibleiP61020 HS

Organism-specific databases

HPAiCAB010224
HPA068337

Interactioni

Subunit structurei

Binds EEA1. Interacts with RIN2 and RIN3, which probably regulate its pathway, possibly by acting as GEFs.3 Publications

Binary interactionsi

GO - Molecular functioni

Protein-protein interaction databases

BioGridi111807, 66 interactors
IntActiP61020, 15 interactors
MINTiP61020
STRINGi9606.ENSP00000353444

Structurei

Secondary structure

1215
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details

3D structure databases

ProteinModelPortaliP61020
SMRiP61020
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP61020

Family & Domainsi

Motif

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Motifi49 – 57Effector regionSequence analysis9

Sequence similaritiesi

Belongs to the small GTPase superfamily. Rab family.Curated

Phylogenomic databases

eggNOGiKOG0092 Eukaryota
ENOG410YCCP LUCA
GeneTreeiENSGT00760000119101
HOGENOMiHOG000233968
HOVERGENiHBG009351
InParanoidiP61020
KOiK07888
OMAiQTTVKFE
OrthoDBiEOG091G0HKN
PhylomeDBiP61020
TreeFamiTF300199

Family and domain databases

InterProiView protein in InterPro
IPR027417 P-loop_NTPase
IPR005225 Small_GTP-bd_dom
IPR001806 Small_GTPase
PfamiView protein in Pfam
PF00071 Ras, 1 hit
SUPFAMiSSF52540 SSF52540, 1 hit
TIGRFAMsiTIGR00231 small_GTP, 1 hit
PROSITEiView protein in PROSITE
PS51419 RAB, 1 hit

Sequences (2+)i

Sequence statusi: Complete.

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

This entry describes 2 isoformsi produced by alternative splicing. AlignAdd to basket

This entry has 2 described isoforms and 4 potential isoforms that are computationally mapped.Show allAlign All

Isoform 1 (identifier: P61020-1) [UniParc]FASTAAdd to basket

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide
        10         20         30         40         50
MTSRSTARPN GQPQASKICQ FKLVLLGESA VGKSSLVLRF VKGQFHEYQE
60 70 80 90 100
STIGAAFLTQ SVCLDDTTVK FEIWDTAGQE RYHSLAPMYY RGAQAAIVVY
110 120 130 140 150
DITNQETFAR AKTWVKELQR QASPSIVIAL AGNKADLANK RMVEYEEAQA
160 170 180 190 200
YADDNSLLFM ETSAKTAMNV NDLFLAIAKK LPKSEPQNLG GAAGRSRGVD
210
LHEQSQQNKS QCCSN
Length:215
Mass (Da):23,707
Last modified:April 26, 2004 - v1
Checksum:iD47AD834BCF8B591
GO
Isoform 2 (identifier: P61020-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     106-146: Missing.

Show »
Length:174
Mass (Da):19,090
Checksum:i90D1C43B99761B6E
GO

Computationally mapped potential isoform sequencesi

There are 4 potential isoforms mapped to this entry.BLASTAlignShow allAdd to basket
EntryEntry nameProtein names
Gene namesLengthAnnotation
F8VVZ0F8VVZ0_HUMAN
Ras-related protein Rab-5B
RAB5B
100Annotation score:
F8VUA5F8VUA5_HUMAN
Ras-related protein Rab-5B
RAB5B
115Annotation score:
F8VWZ7F8VWZ7_HUMAN
Ras-related protein Rab-5B
RAB5B
79Annotation score:
F8VPW9F8VPW9_HUMAN
Ras-related protein Rab-5B
RAB5B
73Annotation score:

Sequence cautioni

The sequence AAH40143 differs from that shown. Reason: Erroneous initiation.Curated

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_045301106 – 146Missing in isoform 2. 1 PublicationAdd BLAST41

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X54871 mRNA Translation: CAA38653.1
AF498937 mRNA Translation: AAM21085.1
AK292597 mRNA Translation: BAF85286.1
AK296517 mRNA Translation: BAG59149.1
BX537408 mRNA Translation: CAD97650.1
AC034102 Genomic DNA No translation available.
CH471054 Genomic DNA Translation: EAW96862.1
CH471054 Genomic DNA Translation: EAW96864.1
BC032740 mRNA Translation: AAH32740.1
BC040143 mRNA Translation: AAH40143.1 Different initiation.
BC050558 mRNA Translation: AAH50558.2
BC056422 mRNA Translation: AAH56422.2
BC065298 mRNA Translation: AAH65298.2
CCDSiCCDS58244.1 [P61020-2]
CCDS8900.1 [P61020-1]
PIRiA43925
RefSeqiNP_001238965.1, NM_001252036.1 [P61020-1]
NP_001238966.1, NM_001252037.1 [P61020-2]
NP_002859.1, NM_002868.3 [P61020-1]
XP_005269108.1, XM_005269051.2 [P61020-1]
XP_005269109.1, XM_005269052.2 [P61020-1]
UniGeneiHs.157659

Genome annotation databases

EnsembliENST00000360299; ENSP00000353444; ENSG00000111540 [P61020-1]
ENST00000448789; ENSP00000391319; ENSG00000111540 [P61020-2]
ENST00000553116; ENSP00000450168; ENSG00000111540 [P61020-1]
GeneIDi5869
KEGGihsa:5869
UCSCiuc001siv.4 human [P61020-1]

Keywords - Coding sequence diversityi

Alternative splicing

Similar proteinsi

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X54871 mRNA Translation: CAA38653.1
AF498937 mRNA Translation: AAM21085.1
AK292597 mRNA Translation: BAF85286.1
AK296517 mRNA Translation: BAG59149.1
BX537408 mRNA Translation: CAD97650.1
AC034102 Genomic DNA No translation available.
CH471054 Genomic DNA Translation: EAW96862.1
CH471054 Genomic DNA Translation: EAW96864.1
BC032740 mRNA Translation: AAH32740.1
BC040143 mRNA Translation: AAH40143.1 Different initiation.
BC050558 mRNA Translation: AAH50558.2
BC056422 mRNA Translation: AAH56422.2
BC065298 mRNA Translation: AAH65298.2
CCDSiCCDS58244.1 [P61020-2]
CCDS8900.1 [P61020-1]
PIRiA43925
RefSeqiNP_001238965.1, NM_001252036.1 [P61020-1]
NP_001238966.1, NM_001252037.1 [P61020-2]
NP_002859.1, NM_002868.3 [P61020-1]
XP_005269108.1, XM_005269051.2 [P61020-1]
XP_005269109.1, XM_005269052.2 [P61020-1]
UniGeneiHs.157659

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2HEIX-ray1.55A/B15-191[»]
ProteinModelPortaliP61020
SMRiP61020
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi111807, 66 interactors
IntActiP61020, 15 interactors
MINTiP61020
STRINGi9606.ENSP00000353444

PTM databases

iPTMnetiP61020
PhosphoSitePlusiP61020
SwissPalmiP61020

Polymorphism and mutation databases

BioMutaiRAB5B
DMDMi46577637

Proteomic databases

EPDiP61020
MaxQBiP61020
PaxDbiP61020
PeptideAtlasiP61020
PRIDEiP61020
ProteomicsDBi57253

Protocols and materials databases

DNASUi5869
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000360299; ENSP00000353444; ENSG00000111540 [P61020-1]
ENST00000448789; ENSP00000391319; ENSG00000111540 [P61020-2]
ENST00000553116; ENSP00000450168; ENSG00000111540 [P61020-1]
GeneIDi5869
KEGGihsa:5869
UCSCiuc001siv.4 human [P61020-1]

Organism-specific databases

CTDi5869
DisGeNETi5869
EuPathDBiHostDB:ENSG00000111540.15
GeneCardsiRAB5B
HGNCiHGNC:9784 RAB5B
HPAiCAB010224
HPA068337
MIMi179514 gene
neXtProtiNX_P61020
OpenTargetsiENSG00000111540
PharmGKBiPA34144
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG0092 Eukaryota
ENOG410YCCP LUCA
GeneTreeiENSGT00760000119101
HOGENOMiHOG000233968
HOVERGENiHBG009351
InParanoidiP61020
KOiK07888
OMAiQTTVKFE
OrthoDBiEOG091G0HKN
PhylomeDBiP61020
TreeFamiTF300199

Enzyme and pathway databases

ReactomeiR-HSA-6798695 Neutrophil degranulation
R-HSA-8854214 TBC/RABGAPs
R-HSA-8856828 Clathrin-mediated endocytosis
R-HSA-8873719 RAB geranylgeranylation
R-HSA-8876198 RAB GEFs exchange GTP for GDP on RABs
SIGNORiP61020

Miscellaneous databases

ChiTaRSiRAB5B human
EvolutionaryTraceiP61020
GeneWikiiRAB5B
GenomeRNAii5869
PROiPR:P61020
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000111540 Expressed in 234 organ(s), highest expression level in C1 segment of cervical spinal cord
CleanExiHS_RAB5B
ExpressionAtlasiP61020 baseline and differential
GenevisibleiP61020 HS

Family and domain databases

InterProiView protein in InterPro
IPR027417 P-loop_NTPase
IPR005225 Small_GTP-bd_dom
IPR001806 Small_GTPase
PfamiView protein in Pfam
PF00071 Ras, 1 hit
SUPFAMiSSF52540 SSF52540, 1 hit
TIGRFAMsiTIGR00231 small_GTP, 1 hit
PROSITEiView protein in PROSITE
PS51419 RAB, 1 hit
ProtoNetiSearch...

Entry informationi

Entry nameiRAB5B_HUMAN
AccessioniPrimary (citable) accession number: P61020
Secondary accession number(s): A8K982
, B4DKD7, P35239, P35277, Q6PIK9, Q86TH0, Q8IXL2
Entry historyiIntegrated into UniProtKB/Swiss-Prot: April 26, 2004
Last sequence update: April 26, 2004
Last modified: October 10, 2018
This is version 152 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  3. Human chromosome 12
    Human chromosome 12: entries, gene names and cross-references to MIM
  4. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
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