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Protein

E3 ubiquitin-protein ligase RNF19B

Gene

RNF19B

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

E3 ubiquitin-protein ligase which accepts ubiquitin from E2 ubiquitin-conjugating enzymes UBE2L3 and UBE2L6 in the form of a thioester and then directly transfers the ubiquitin to targeted substrates, such as UCKL1. Involved in the cytolytic activity of natural killer cells and cytotoxic T-cells.2 Publications

Pathwayi: protein ubiquitination

This protein is involved in the pathway protein ubiquitination, which is part of Protein modification.
View all proteins of this organism that are known to be involved in the pathway protein ubiquitination and in Protein modification.

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri119 – 16648RING-type 1PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri186 – 25166IBR-typeAdd
BLAST
Zinc fingeri287 – 31832RING-type 2PROSITE-ProRule annotationAdd
BLAST

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Ligase

Keywords - Biological processi

Adaptive immunity, Immunity, Ubl conjugation pathway

Keywords - Ligandi

Metal-binding, Zinc

Enzyme and pathway databases

ReactomeiR-HSA-983168. Antigen processing: Ubiquitination & Proteasome degradation.
UniPathwayiUPA00143.

Names & Taxonomyi

Protein namesi
Recommended name:
E3 ubiquitin-protein ligase RNF19B (EC:6.3.2.-)
Alternative name(s):
IBR domain-containing protein 3
Natural killer lytic-associated molecule
RING finger protein 19B
Gene namesi
Name:RNF19B
Synonyms:IBRDC3, NKLAM
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 1

Organism-specific databases

HGNCiHGNC:26886. RNF19B.

Subcellular locationi

  • Cytoplasmic granule membrane 1 Publication; Multi-pass membrane protein 1 Publication

Topology

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Transmembranei354 – 37421HelicalSequence analysisAdd
BLAST
Transmembranei415 – 43521HelicalSequence analysisAdd
BLAST

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Membrane

Pathology & Biotechi

Organism-specific databases

PharmGKBiPA162401626.

Polymorphism and mutation databases

BioMutaiRNF19B.
DMDMi160370005.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 732732E3 ubiquitin-protein ligase RNF19BPRO_0000084129Add
BLAST

Proteomic databases

MaxQBiQ6ZMZ0.
PaxDbiQ6ZMZ0.
PeptideAtlasiQ6ZMZ0.
PRIDEiQ6ZMZ0.

PTM databases

iPTMnetiQ6ZMZ0.
PhosphoSiteiQ6ZMZ0.

Expressioni

Tissue specificityi

Expressed specifically in natural killer cells, activated macrophages and cytotoxic T-cells. Present in natural killer cells (at protein level).2 Publications

Inductioni

In natural killer cells, by IFNB1/IFN-beta and IL2/interleukin-2 (at protein level).1 Publication

Gene expression databases

BgeeiENSG00000116514.
CleanExiHS_RNF19B.
GenevisibleiQ6ZMZ0. HS.

Organism-specific databases

HPAiHPA049587.

Interactioni

Subunit structurei

Interacts with UBE2L3, UBE2L6 and UCKL1.1 Publication

Binary interactionsi

WithEntry#Exp.IntActNotes
UBE2L3P680362EBI-2466594,EBI-711173
UBE2L6O149333EBI-2466594,EBI-2129974
UCKL1Q9NWZ54EBI-2466594,EBI-2466660

GO - Molecular functioni

Protein-protein interaction databases

BioGridi126065. 45 interactions.
IntActiQ6ZMZ0. 5 interactions.
STRINGi9606.ENSP00000362555.

Structurei

3D structure databases

ProteinModelPortaliQ6ZMZ0.
SMRiQ6ZMZ0. Positions 119-319.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi29 – 324Poly-Arg
Compositional biasi41 – 9757Ala-richAdd
BLAST
Compositional biasi52 – 8433Pro-richAdd
BLAST
Compositional biasi625 – 6306Poly-Gly

Domaini

The first IBR-type zinc finger is the most crucial for interaction with UBE2L3, UBE2L6 and UCKL1.

Sequence similaritiesi

Belongs to the RBR family. RNF19 subfamily.Curated
Contains 1 IBR-type zinc finger.Curated
Contains 2 RING-type zinc fingers.PROSITE-ProRule annotation

Zinc finger

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri119 – 16648RING-type 1PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri186 – 25166IBR-typeAdd
BLAST
Zinc fingeri287 – 31832RING-type 2PROSITE-ProRule annotationAdd
BLAST

Keywords - Domaini

Repeat, Transmembrane, Transmembrane helix, Zinc-finger

Phylogenomic databases

eggNOGiKOG1815. Eukaryota.
ENOG410XP9Y. LUCA.
GeneTreeiENSGT00840000129738.
HOGENOMiHOG000059258.
HOVERGENiHBG052073.
InParanoidiQ6ZMZ0.
KOiK11973.
OMAiWDITLAQ.
OrthoDBiEOG091G0503.
PhylomeDBiQ6ZMZ0.
TreeFamiTF324777.

Family and domain databases

Gene3Di3.30.40.10. 1 hit.
InterProiIPR031127. E3_UB_ligase_RBR.
IPR002867. IBR_dom.
IPR001841. Znf_RING.
IPR013083. Znf_RING/FYVE/PHD.
[Graphical view]
PANTHERiPTHR11685. PTHR11685. 2 hits.
PfamiPF01485. IBR. 2 hits.
[Graphical view]
SMARTiSM00647. IBR. 2 hits.
SM00184. RING. 1 hit.
[Graphical view]
PROSITEiPS50089. ZF_RING_2. 1 hit.
[Graphical view]

Sequences (4)i

Sequence statusi: Complete.

This entry describes 4 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: Q6ZMZ0-1) [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
MGSEKDSESP RSTSLHAAAP DPKCRSGGRR RRLTLHSVFS ASARGRRARA
60 70 80 90 100
KPQAEPPPPA AQPPPAPAPA AAQGPPPEAL PAEPAAEAEA EAAAAAAEPG
110 120 130 140 150
FDDEEAAEGG GPGAEEVECP LCLVRLPPER APRLLSCPHR SCRDCLRHYL
160 170 180 190 200
RLEISESRVP ISCPECSERL NPHDIRLLLA DPPLMHKYEE FMLRRYLASD
210 220 230 240 250
PDCRWCPAPD CGYAVIAYGC ASCPKLTCER EGCQTEFCYH CKQIWHPNQT
260 270 280 290 300
CDMARQQRAQ TLRVRTKHTS GLSYGQESGP ADDIKPCPRC SAYIIKMNDG
310 320 330 340 350
SCNHMTCAVC GCEFCWLCMK EISDLHYLSP SGCTFWGKKP WSRKKKILWQ
360 370 380 390 400
LGTLIGAPVG ISLIAGIAIP AMVIGIPVYV GRKIHSRYEG RKTSKHKRNL
410 420 430 440 450
AITGGVTLSV IASPVIAAVS VGIGVPIMLA YVYGVVPISL CRGGGCGVST
460 470 480 490 500
ANGKGVKIEF DEDDGPITVA DAWRALKNPS IGESSIEGLT SVLSTSGSPT
510 520 530 540 550
DGLSVMQGPY SETASFAALS GGTLSGGILS SGKGKYSRLE VQADVQKEIF
560 570 580 590 600
PKDTASLGAI SDNASTRAMA GSIISSYNPQ DRECNNMEIQ VDIEAKPSHY
610 620 630 640 650
QLVSGSSTED SLHVHAQMAE NEEEGSGGGG SEEDPPCRHQ SCEQKDCLAS
660 670 680 690 700
KPWDISLAQP ESIRSDLESS DAQSDDVPDI TSDECGSPRS HTAACPSTPR
710 720 730
AQGAPSPSAH MNLSALAEGQ TVLKPEGGEA RV
Length:732
Mass (Da):77,925
Last modified:October 23, 2007 - v2
Checksum:iEB30FBB46393C30B
GO
Isoform 2 (identifier: Q6ZMZ0-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     281-281: Missing.
     583-588: ECNNME → FSMIHA
     589-732: Missing.

Show »
Length:587
Mass (Da):62,717
Checksum:i1BB83ED988E1DCDF
GO
Isoform 3 (identifier: Q6ZMZ0-3) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     33-133: Missing.
     281-281: Missing.
     583-588: ECNNME → FSMIHA
     589-732: Missing.

Note: No experimental confirmation available.
Show »
Length:486
Mass (Da):52,668
Checksum:iF9FFA09A39464082
GO
Isoform 4 (identifier: Q6ZMZ0-4) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     281-281: Missing.

Show »
Length:731
Mass (Da):77,854
Checksum:iAB43F675B795E72B
GO

Sequence cautioni

The sequence AAI13561 differs from that shown. Reason: Erroneous initiation. Translation N-terminally extended.Curated
The sequence AAI43688 differs from that shown. Reason: Erroneous initiation. Translation N-terminally extended.Curated
The sequence EAX07490 differs from that shown. Reason: Erroneous initiation. Translation N-terminally extended.Curated

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti284 – 2841I → V in BAC11017 (PubMed:14702039).Curated

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei33 – 133101Missing in isoform 3. 1 PublicationVSP_028632Add
BLAST
Alternative sequencei281 – 2811Missing in isoform 2, isoform 3 and isoform 4. 3 PublicationsVSP_028635
Alternative sequencei583 – 5886ECNNME → FSMIHA in isoform 2 and isoform 3. 3 PublicationsVSP_028633
Alternative sequencei589 – 732144Missing in isoform 2 and isoform 3. 3 PublicationsVSP_028634Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK074486 mRNA. Translation: BAC11017.1.
AK131439 mRNA. Translation: BAD18585.1.
AL031602 Genomic DNA. No translation available.
CH471059 Genomic DNA. Translation: EAX07490.1. Different initiation.
CH471059 Genomic DNA. Translation: EAX07491.1.
BC020595 mRNA. Translation: AAH20595.2.
BC062374 mRNA. Translation: AAH62374.1.
BC113560 mRNA. Translation: AAI13561.1. Different initiation.
BC143687 mRNA. Translation: AAI43688.1. Different initiation.
CCDSiCCDS372.2. [Q6ZMZ0-1]
CCDS44107.1. [Q6ZMZ0-2]
CCDS72754.1. [Q6ZMZ0-4]
RefSeqiNP_001120833.1. NM_001127361.2. [Q6ZMZ0-2]
NP_001287755.1. NM_001300826.1. [Q6ZMZ0-4]
NP_699172.2. NM_153341.3. [Q6ZMZ0-1]
XP_006710419.1. XM_006710356.2. [Q6ZMZ0-1]
UniGeneiHs.591504.

Genome annotation databases

EnsembliENST00000235150; ENSP00000235150; ENSG00000116514. [Q6ZMZ0-4]
ENST00000356990; ENSP00000349482; ENSG00000116514. [Q6ZMZ0-2]
ENST00000373456; ENSP00000362555; ENSG00000116514. [Q6ZMZ0-1]
GeneIDi127544.
KEGGihsa:127544.
UCSCiuc001bwm.5. human. [Q6ZMZ0-1]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK074486 mRNA. Translation: BAC11017.1.
AK131439 mRNA. Translation: BAD18585.1.
AL031602 Genomic DNA. No translation available.
CH471059 Genomic DNA. Translation: EAX07490.1. Different initiation.
CH471059 Genomic DNA. Translation: EAX07491.1.
BC020595 mRNA. Translation: AAH20595.2.
BC062374 mRNA. Translation: AAH62374.1.
BC113560 mRNA. Translation: AAI13561.1. Different initiation.
BC143687 mRNA. Translation: AAI43688.1. Different initiation.
CCDSiCCDS372.2. [Q6ZMZ0-1]
CCDS44107.1. [Q6ZMZ0-2]
CCDS72754.1. [Q6ZMZ0-4]
RefSeqiNP_001120833.1. NM_001127361.2. [Q6ZMZ0-2]
NP_001287755.1. NM_001300826.1. [Q6ZMZ0-4]
NP_699172.2. NM_153341.3. [Q6ZMZ0-1]
XP_006710419.1. XM_006710356.2. [Q6ZMZ0-1]
UniGeneiHs.591504.

3D structure databases

ProteinModelPortaliQ6ZMZ0.
SMRiQ6ZMZ0. Positions 119-319.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi126065. 45 interactions.
IntActiQ6ZMZ0. 5 interactions.
STRINGi9606.ENSP00000362555.

PTM databases

iPTMnetiQ6ZMZ0.
PhosphoSiteiQ6ZMZ0.

Polymorphism and mutation databases

BioMutaiRNF19B.
DMDMi160370005.

Proteomic databases

MaxQBiQ6ZMZ0.
PaxDbiQ6ZMZ0.
PeptideAtlasiQ6ZMZ0.
PRIDEiQ6ZMZ0.

Protocols and materials databases

DNASUi127544.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000235150; ENSP00000235150; ENSG00000116514. [Q6ZMZ0-4]
ENST00000356990; ENSP00000349482; ENSG00000116514. [Q6ZMZ0-2]
ENST00000373456; ENSP00000362555; ENSG00000116514. [Q6ZMZ0-1]
GeneIDi127544.
KEGGihsa:127544.
UCSCiuc001bwm.5. human. [Q6ZMZ0-1]

Organism-specific databases

CTDi127544.
GeneCardsiRNF19B.
HGNCiHGNC:26886. RNF19B.
HPAiHPA049587.
MIMi610872. gene.
neXtProtiNX_Q6ZMZ0.
PharmGKBiPA162401626.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG1815. Eukaryota.
ENOG410XP9Y. LUCA.
GeneTreeiENSGT00840000129738.
HOGENOMiHOG000059258.
HOVERGENiHBG052073.
InParanoidiQ6ZMZ0.
KOiK11973.
OMAiWDITLAQ.
OrthoDBiEOG091G0503.
PhylomeDBiQ6ZMZ0.
TreeFamiTF324777.

Enzyme and pathway databases

UniPathwayiUPA00143.
ReactomeiR-HSA-983168. Antigen processing: Ubiquitination & Proteasome degradation.

Miscellaneous databases

ChiTaRSiRNF19B. human.
GenomeRNAii127544.
PROiQ6ZMZ0.
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000116514.
CleanExiHS_RNF19B.
GenevisibleiQ6ZMZ0. HS.

Family and domain databases

Gene3Di3.30.40.10. 1 hit.
InterProiIPR031127. E3_UB_ligase_RBR.
IPR002867. IBR_dom.
IPR001841. Znf_RING.
IPR013083. Znf_RING/FYVE/PHD.
[Graphical view]
PANTHERiPTHR11685. PTHR11685. 2 hits.
PfamiPF01485. IBR. 2 hits.
[Graphical view]
SMARTiSM00647. IBR. 2 hits.
SM00184. RING. 1 hit.
[Graphical view]
PROSITEiPS50089. ZF_RING_2. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiRN19B_HUMAN
AccessioniPrimary (citable) accession number: Q6ZMZ0
Secondary accession number(s): B7ZLB2
, E9PAW6, G3XA82, Q0VG77, Q5TH44, Q5TH45, Q6P6A4, Q8N2S8, Q8WUF3
Entry historyi
Integrated into UniProtKB/Swiss-Prot: January 4, 2005
Last sequence update: October 23, 2007
Last modified: September 7, 2016
This is version 122 of the entry and version 2 of the sequence. [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

Complete proteome, Reference proteome

Documents

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

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.