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Protein

Rabphilin-3A

Gene

RPH3A

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

Functioni

Protein transport. Probably involved with Ras-related protein Rab-3A in synaptic vesicle traffic and/or synaptic vesicle fusion. Could play a role in neurotransmitter release by regulating membrane flow in the nerve terminal (By similarity).By similarity

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi422 – 4221Calcium 1; via carbonyl oxygenBy similarity
Metal bindingi423 – 4231Calcium 1By similarity
Metal bindingi423 – 4231Calcium 2By similarity
Metal bindingi429 – 4291Calcium 2By similarity
Metal bindingi484 – 4841Calcium 1By similarity
Metal bindingi484 – 4841Calcium 2By similarity
Metal bindingi485 – 4851Calcium 2; via carbonyl oxygenBy similarity
Metal bindingi486 – 4861Calcium 1By similarity
Metal bindingi486 – 4861Calcium 2By similarity
Metal bindingi492 – 4921Calcium 1By similarity
Metal bindingi539 – 5391Calcium 3; via carbonyl oxygenBy similarity
Metal bindingi581 – 5811Calcium 3By similarity
Metal bindingi581 – 5811Calcium 4By similarity
Metal bindingi587 – 5871Calcium 3By similarity
Metal bindingi641 – 6411Calcium 3By similarity
Metal bindingi641 – 6411Calcium 4By similarity
Metal bindingi642 – 6421Calcium 3; via carbonyl oxygenBy similarity
Metal bindingi643 – 6431Calcium 3By similarity
Metal bindingi643 – 6431Calcium 4By similarity
Metal bindingi649 – 6491Calcium 4By similarity

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri92 – 14857FYVE-typePROSITE-ProRule annotationAdd
BLAST

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Biological processi

Protein transport, Transport

Keywords - Ligandi

Calcium, Lipid-binding, Metal-binding, Zinc

Names & Taxonomyi

Protein namesi
Recommended name:
Rabphilin-3A
Alternative name(s):
Exophilin-1
Gene namesi
Name:RPH3A
Synonyms:KIAA0985
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 12

Organism-specific databases

HGNCiHGNC:17056. RPH3A.

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cell junction, Membrane, Synapse

Pathology & Biotechi

Organism-specific databases

PharmGKBiPA134886118.

Polymorphism and mutation databases

BioMutaiRPH3A.
DMDMi13878745.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 694694Rabphilin-3APRO_0000190227Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei272 – 2721PhosphoserineBy similarity
Modified residuei692 – 6921PhosphoserineBy similarity
Modified residuei693 – 6931PhosphoserineBy similarity

Keywords - PTMi

Phosphoprotein

Proteomic databases

PaxDbiQ9Y2J0.
PRIDEiQ9Y2J0.

PTM databases

PhosphoSiteiQ9Y2J0.

Expressioni

Gene expression databases

BgeeiQ9Y2J0.
CleanExiHS_RPH3A.
ExpressionAtlasiQ9Y2J0. baseline and differential.
GenevisibleiQ9Y2J0. HS.

Organism-specific databases

HPAiHPA002475.

Interactioni

Subunit structurei

Monomer. Interacts with RAB3A, RAB3B, RAB3C, RAB3D, RAB8A, RAB27A and RAB27B (By similarity).By similarity

Binary interactionsi

WithEntry#Exp.IntActNotes
CASKO149363EBI-1216802,EBI-1215506

GO - Molecular functioni

Protein-protein interaction databases

BioGridi116560. 15 interactions.
IntActiQ9Y2J0. 2 interactions.
MINTiMINT-199741.
STRINGi9606.ENSP00000374036.

Structurei

3D structure databases

ProteinModelPortaliQ9Y2J0.
SMRiQ9Y2J0. Positions 48-170, 392-690.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini44 – 160117RabBDPROSITE-ProRule annotationAdd
BLAST
Domaini394 – 498105C2 1PROSITE-ProRule annotationAdd
BLAST
Domaini552 – 655104C2 2PROSITE-ProRule annotationAdd
BLAST

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi162 – 375214Pro-richAdd
BLAST

Domaini

Binds calcium via the C2 domains. The calcium-bound C2 domains mediate interactions with phospholipid bilayers (By similarity).By similarity

Sequence similaritiesi

Contains 2 C2 domains.PROSITE-ProRule annotation
Contains 1 FYVE-type zinc finger.PROSITE-ProRule annotation
Contains 1 RabBD (Rab-binding) domain.PROSITE-ProRule annotation

Zinc finger

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri92 – 14857FYVE-typePROSITE-ProRule annotationAdd
BLAST

Keywords - Domaini

Repeat, Zinc-finger

Phylogenomic databases

eggNOGiKOG1013. Eukaryota.
ENOG410XQXA. LUCA.
GeneTreeiENSGT00810000125376.
HOGENOMiHOG000294226.
HOVERGENiHBG017739.
InParanoidiQ9Y2J0.
KOiK19938.
OMAiMLGSACV.
OrthoDBiEOG7CZK67.
PhylomeDBiQ9Y2J0.
TreeFamiTF351844.

Family and domain databases

Gene3Di2.60.40.150. 2 hits.
3.30.40.10. 1 hit.
InterProiIPR000008. C2_dom.
IPR010911. Rab_BD.
IPR028698. RPH3A.
IPR001565. Synaptotagmin.
IPR017455. Znf_FYVE-rel.
IPR011011. Znf_FYVE_PHD.
IPR013083. Znf_RING/FYVE/PHD.
[Graphical view]
PANTHERiPTHR10024:SF118. PTHR10024:SF118. 1 hit.
PfamiPF00168. C2. 2 hits.
PF02318. FYVE_2. 1 hit.
[Graphical view]
PRINTSiPR00360. C2DOMAIN.
PR00399. SYNAPTOTAGMN.
SMARTiSM00239. C2. 2 hits.
[Graphical view]
SUPFAMiSSF49562. SSF49562. 2 hits.
SSF57903. SSF57903. 1 hit.
PROSITEiPS50004. C2. 2 hits.
PS50916. RABBD. 1 hit.
PS50178. ZF_FYVE. 1 hit.
[Graphical view]

Sequences (2)i

Sequence statusi: Complete.

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

Isoform 1 (identifier: Q9Y2J0-1) [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
MTDTVFSNSS NRWMYPSDRP LQSNDKEQLQ AGWSVHPGGQ PDRQRKQEEL
60 70 80 90 100
TDEEKEIINR VIARAEKMEE MEQERIGRLV DRLENMRKNV AGDGVNRCIL
110 120 130 140 150
CGEQLGMLGS ACVVCEDCKK NVCTKCGVET NNRLHSVWLC KICIEQREVW
160 170 180 190 200
KRSGAWFFKG FPKQVLPQPM PIKKTKPQQP VSEPAAPEQP APEPKHPARA
210 220 230 240 250
PARGDSEDRR GPGQKTGPDP ASAPGRGNYG PPVRRASEAR MSSSSRDSES
260 270 280 290 300
WDHSGGAGDS SRSPAGLRRA NSVQASRPAP GSVQSPAPPQ PGQPGTPGGS
310 320 330 340 350
RPGPGPAGRF PDQKPEVAPS DPGTTAPPRE ERTGGVGGYP AVGAREDRMS
360 370 380 390 400
HPSGPYSQAS AAAPQPAAAR QPPPPEEEEE EANSYDSDEA TTLGALEFSL
410 420 430 440 450
LYDQDNSSLQ CTIIKAKGLK PMDSNGLADP YVKLHLLPGA SKSNKLRTKT
460 470 480 490 500
LRNTRNPIWN ETLVYHGITD EDMQRKTLRI SVCDEDKFGH NEFIGETRFS
510 520 530 540 550
LKKLKPNQRK NFNICLERVI PMKRAGTTGS ARGMALYEEE QVERVGDIEE
560 570 580 590 600
RGKILVSLMY STQQGGLIVG IIRCVHLAAM DANGYSDPFV KLWLKPDMGK
610 620 630 640 650
KAKHKTQIKK KTLNPEFNEE FFYDIKHSDL AKKSLDISVW DYDIGKSNDY
660 670 680 690
IGGCQLGISA KGERLKHWYE CLKNKDKKIE RWHQLQNENH VSSD
Length:694
Mass (Da):76,872
Last modified:November 1, 1999 - v1
Checksum:iBD9C43F306A04D69
GO
Isoform 2 (identifier: Q9Y2J0-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     24-28: NDKEQ → K

Show »
Length:690
Mass (Da):76,386
Checksum:i919E8AF287D0EBBA
GO

Sequence cautioni

The sequence BAA76829.2 differs from that shown. Reason: Erroneous initiation. Curated

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei24 – 285NDKEQ → K in isoform 2. 1 PublicationVSP_021016

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB023202 mRNA. Translation: BAA76829.2. Different initiation.
AK295696 mRNA. Translation: BAH12159.1.
BC017259 mRNA. Translation: AAH17259.1.
CCDSiCCDS31904.1. [Q9Y2J0-2]
CCDS44979.1. [Q9Y2J0-1]
RefSeqiNP_001137326.1. NM_001143854.1. [Q9Y2J0-1]
NP_055769.2. NM_014954.3. [Q9Y2J0-2]
XP_011536350.1. XM_011538048.1. [Q9Y2J0-1]
UniGeneiHs.21239.

Genome annotation databases

EnsembliENST00000389385; ENSP00000374036; ENSG00000089169. [Q9Y2J0-1]
ENST00000415485; ENSP00000405357; ENSG00000089169. [Q9Y2J0-1]
ENST00000543106; ENSP00000440384; ENSG00000089169. [Q9Y2J0-1]
ENST00000551052; ENSP00000448297; ENSG00000089169. [Q9Y2J0-2]
GeneIDi22895.
KEGGihsa:22895.
UCSCiuc001tty.4. human. [Q9Y2J0-1]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB023202 mRNA. Translation: BAA76829.2. Different initiation.
AK295696 mRNA. Translation: BAH12159.1.
BC017259 mRNA. Translation: AAH17259.1.
CCDSiCCDS31904.1. [Q9Y2J0-2]
CCDS44979.1. [Q9Y2J0-1]
RefSeqiNP_001137326.1. NM_001143854.1. [Q9Y2J0-1]
NP_055769.2. NM_014954.3. [Q9Y2J0-2]
XP_011536350.1. XM_011538048.1. [Q9Y2J0-1]
UniGeneiHs.21239.

3D structure databases

ProteinModelPortaliQ9Y2J0.
SMRiQ9Y2J0. Positions 48-170, 392-690.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi116560. 15 interactions.
IntActiQ9Y2J0. 2 interactions.
MINTiMINT-199741.
STRINGi9606.ENSP00000374036.

PTM databases

PhosphoSiteiQ9Y2J0.

Polymorphism and mutation databases

BioMutaiRPH3A.
DMDMi13878745.

Proteomic databases

PaxDbiQ9Y2J0.
PRIDEiQ9Y2J0.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000389385; ENSP00000374036; ENSG00000089169. [Q9Y2J0-1]
ENST00000415485; ENSP00000405357; ENSG00000089169. [Q9Y2J0-1]
ENST00000543106; ENSP00000440384; ENSG00000089169. [Q9Y2J0-1]
ENST00000551052; ENSP00000448297; ENSG00000089169. [Q9Y2J0-2]
GeneIDi22895.
KEGGihsa:22895.
UCSCiuc001tty.4. human. [Q9Y2J0-1]

Organism-specific databases

CTDi22895.
GeneCardsiRPH3A.
HGNCiHGNC:17056. RPH3A.
HPAiHPA002475.
MIMi612159. gene.
neXtProtiNX_Q9Y2J0.
PharmGKBiPA134886118.
HUGEiSearch...
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG1013. Eukaryota.
ENOG410XQXA. LUCA.
GeneTreeiENSGT00810000125376.
HOGENOMiHOG000294226.
HOVERGENiHBG017739.
InParanoidiQ9Y2J0.
KOiK19938.
OMAiMLGSACV.
OrthoDBiEOG7CZK67.
PhylomeDBiQ9Y2J0.
TreeFamiTF351844.

Miscellaneous databases

ChiTaRSiRPH3A. human.
GeneWikiiRPH3A.
GenomeRNAii22895.
NextBioi43515.
PROiQ9Y2J0.
SOURCEiSearch...

Gene expression databases

BgeeiQ9Y2J0.
CleanExiHS_RPH3A.
ExpressionAtlasiQ9Y2J0. baseline and differential.
GenevisibleiQ9Y2J0. HS.

Family and domain databases

Gene3Di2.60.40.150. 2 hits.
3.30.40.10. 1 hit.
InterProiIPR000008. C2_dom.
IPR010911. Rab_BD.
IPR028698. RPH3A.
IPR001565. Synaptotagmin.
IPR017455. Znf_FYVE-rel.
IPR011011. Znf_FYVE_PHD.
IPR013083. Znf_RING/FYVE/PHD.
[Graphical view]
PANTHERiPTHR10024:SF118. PTHR10024:SF118. 1 hit.
PfamiPF00168. C2. 2 hits.
PF02318. FYVE_2. 1 hit.
[Graphical view]
PRINTSiPR00360. C2DOMAIN.
PR00399. SYNAPTOTAGMN.
SMARTiSM00239. C2. 2 hits.
[Graphical view]
SUPFAMiSSF49562. SSF49562. 2 hits.
SSF57903. SSF57903. 1 hit.
PROSITEiPS50004. C2. 2 hits.
PS50916. RABBD. 1 hit.
PS50178. ZF_FYVE. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. "Prediction of the coding sequences of unidentified human genes. XIII. The complete sequences of 100 new cDNA clones from brain which code for large proteins in vitro."
    Nagase T., Ishikawa K., Suyama M., Kikuno R., Hirosawa M., Miyajima N., Tanaka A., Kotani H., Nomura N., Ohara O.
    DNA Res. 6:63-70(1999) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1).
    Tissue: Brain.
  2. "Complete sequencing and characterization of 21,243 full-length human cDNAs."
    Ota T., Suzuki Y., Nishikawa T., Otsuki T., Sugiyama T., Irie R., Wakamatsu A., Hayashi K., Sato H., Nagai K., Kimura K., Makita H., Sekine M., Obayashi M., Nishi T., Shibahara T., Tanaka T., Ishii S.
    , Yamamoto J., Saito K., Kawai Y., Isono Y., Nakamura Y., Nagahari K., Murakami K., Yasuda T., Iwayanagi T., Wagatsuma M., Shiratori A., Sudo H., Hosoiri T., Kaku Y., Kodaira H., Kondo H., Sugawara M., Takahashi M., Kanda K., Yokoi T., Furuya T., Kikkawa E., Omura Y., Abe K., Kamihara K., Katsuta N., Sato K., Tanikawa M., Yamazaki M., Ninomiya K., Ishibashi T., Yamashita H., Murakawa K., Fujimori K., Tanai H., Kimata M., Watanabe M., Hiraoka S., Chiba Y., Ishida S., Ono Y., Takiguchi S., Watanabe S., Yosida M., Hotuta T., Kusano J., Kanehori K., Takahashi-Fujii A., Hara H., Tanase T.-O., Nomura Y., Togiya S., Komai F., Hara R., Takeuchi K., Arita M., Imose N., Musashino K., Yuuki H., Oshima A., Sasaki N., Aotsuka S., Yoshikawa Y., Matsunawa H., Ichihara T., Shiohata N., Sano S., Moriya S., Momiyama H., Satoh N., Takami S., Terashima Y., Suzuki O., Nakagawa S., Senoh A., Mizoguchi H., Goto Y., Shimizu F., Wakebe H., Hishigaki H., Watanabe T., Sugiyama A., Takemoto M., Kawakami B., Yamazaki M., Watanabe K., Kumagai A., Itakura S., Fukuzumi Y., Fujimori Y., Komiyama M., Tashiro H., Tanigami A., Fujiwara T., Ono T., Yamada K., Fujii Y., Ozaki K., Hirao M., Ohmori Y., Kawabata A., Hikiji T., Kobatake N., Inagaki H., Ikema Y., Okamoto S., Okitani R., Kawakami T., Noguchi S., Itoh T., Shigeta K., Senba T., Matsumura K., Nakajima Y., Mizuno T., Morinaga M., Sasaki M., Togashi T., Oyama M., Hata H., Watanabe M., Komatsu T., Mizushima-Sugano J., Satoh T., Shirai Y., Takahashi Y., Nakagawa K., Okumura K., Nagase T., Nomura N., Kikuchi H., Masuho Y., Yamashita R., Nakai K., Yada T., Nakamura Y., Ohara O., Isogai T., Sugano S.
    Nat. Genet. 36:40-45(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1).
    Tissue: Hippocampus.
  3. "The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)."
    The MGC Project Team
    Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 2).
    Tissue: Brain.

Entry informationi

Entry nameiRP3A_HUMAN
AccessioniPrimary (citable) accession number: Q9Y2J0
Secondary accession number(s): B7Z3C3, Q96AE0
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 27, 2001
Last sequence update: November 1, 1999
Last modified: May 11, 2016
This is version 145 of the entry and version 1 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 12
    Human chromosome 12: 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. 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.