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Q6ZNL6 (FGD5_HUMAN) Reviewed, UniProtKB/Swiss-Prot

Last modified July 9, 2014. Version 106. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (6) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Interactions·Alt products·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
FYVE, RhoGEF and PH domain-containing protein 5
Alternative name(s):
Zinc finger FYVE domain-containing protein 23
Gene names
Name:FGD5
Synonyms:ZFYVE23
OrganismHomo sapiens (Human) [Reference proteome]
Taxonomic identifier9606 [NCBI]
Taxonomic lineageEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo

Protein attributes

Sequence length1462 AA.
Sequence statusComplete.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

Activates CDC42, a member of the Ras-like family of Rho- and Rac proteins, by exchanging bound GDP for free GTP. Mediates VEGF-induced CDC42 activation. May regulate proangiogenic action of VEGF in vascular endothelial cells, including network formation, directional movement and proliferation. May play a role in regulating the actin cytoskeleton and cell shape. Ref.6

Subcellular location

Cytoplasmcytoskeleton. Cell projectionruffle membrane. Endoplasmic reticulum. Golgi apparatus. Early endosome. Note: In peripheral membrane ruffles, colocolizes with F-actin. In confluent HUVECs, detected at cell-cell-contact sites where it colocalizes with vascular endothelial cadherin/CDH5. Ref.6

Tissue specificity

Expressed in endothelial cells (at protein level). Ref.6

Sequence similarities

Contains 1 DH (DBL-homology) domain.

Contains 1 FYVE-type zinc finger.

Contains 2 PH domains.

Sequence caution

The sequence BAC04878.1 differs from that shown. Reason: Erroneous initiation. Translation N-terminally extended.

The sequence BAC04989.1 differs from that shown. Reason: Erroneous initiation. Translation N-terminally extended.

The sequence BAC85128.1 differs from that shown. Reason: Frameshift at position 79.

The sequence CAD98090.1 differs from that shown. Reason: Erroneous termination at position 1279. Translated as Lys.

Ontologies

Keywords
   Cellular componentCell membrane
Cell projection
Cytoplasm
Cytoskeleton
Endoplasmic reticulum
Endosome
Golgi apparatus
Membrane
   Coding sequence diversityAlternative splicing
Polymorphism
   DomainRepeat
Zinc-finger
   LigandMetal-binding
Zinc
   Molecular functionGuanine-nucleotide releasing factor
   Technical term3D-structure
Complete proteome
Reference proteome
Gene Ontology (GO)
   Biological_processactin cytoskeleton organization

Inferred from sequence or structural similarity. Source: UniProtKB

cytoskeleton organization

Inferred from sequence or structural similarity. Source: UniProtKB

filopodium assembly

Inferred from sequence or structural similarity. Source: UniProtKB

regulation of Cdc42 GTPase activity

Inferred from sequence or structural similarity. Source: UniProtKB

regulation of cell shape

Inferred from sequence or structural similarity. Source: UniProtKB

   Cellular_componentGolgi apparatus

Inferred from sequence or structural similarity. Source: UniProtKB

cytoplasm

Inferred from sequence or structural similarity. Source: UniProtKB

cytoskeleton

Inferred from electronic annotation. Source: UniProtKB-SubCell

early endosome

Inferred from electronic annotation. Source: UniProtKB-SubCell

endoplasmic reticulum

Inferred from electronic annotation. Source: UniProtKB-SubCell

lamellipodium

Inferred from sequence or structural similarity. Source: UniProtKB

ruffle

Inferred from sequence or structural similarity. Source: UniProtKB

ruffle membrane

Inferred from electronic annotation. Source: UniProtKB-SubCell

   Molecular_functionRho guanyl-nucleotide exchange factor activity

Inferred from electronic annotation. Source: InterPro

guanyl-nucleotide exchange factor activity

Inferred from sequence or structural similarity. Source: UniProtKB

metal ion binding

Inferred from electronic annotation. Source: UniProtKB-KW

protein binding

Inferred from physical interaction PubMed 23455924. Source: IntAct

small GTPase binding

Inferred from sequence or structural similarity. Source: UniProtKB

Complete GO annotation...

Binary interactions

With

Entry

#Exp.

IntAct

Notes

SUV39H1O434632EBI-7962481,EBI-349968

Alternative products

This entry describes 2 isoforms produced by alternative splicing. [Align] [Select]
Isoform 1 (identifier: Q6ZNL6-1)

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.
Isoform 2 (identifier: Q6ZNL6-2)

The sequence of this isoform differs from the canonical sequence as follows:
     1-922: Missing.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 14621462FYVE, RhoGEF and PH domain-containing protein 5
PRO_0000080950

Regions

Domain892 – 1084193DH
Domain1113 – 120795PH 1
Domain1363 – 146199PH 2
Zinc finger1242 – 130160FYVE-type
Compositional bias58 – 323266Glu-rich
Compositional bias645 – 6506Poly-Lys

Natural variations

Alternative sequence1 – 922922Missing in isoform 2.
VSP_013088
Natural variant4031G → R.
Corresponds to variant rs7636593 [ dbSNP | Ensembl ].
VAR_059799
Natural variant8281A → T.
Corresponds to variant rs17038795 [ dbSNP | Ensembl ].
VAR_059800
Natural variant9411E → K.
Corresponds to variant rs2307092 [ dbSNP | Ensembl ].
VAR_059801

Experimental info

Sequence conflict1241A → T in BAC85128. Ref.1
Sequence conflict2131A → G in BAC85128. Ref.1
Sequence conflict3541S → G in CAE45896. Ref.5
Sequence conflict5741H → Y in BAC04989. Ref.1
Sequence conflict11121R → M in CAE45896. Ref.5
Sequence conflict11961D → N in CAE45896. Ref.5
Sequence conflict12891M → T in CAE45896. Ref.5
Sequence conflict13821K → E in BAC04989. Ref.1
Sequence conflict14001D → G in CAD98090. Ref.5

Secondary structure

.................................. 1462
Helix Strand Turn

Details...

Sequences

Sequence LengthMass (Da)Tools
Isoform 1 [UniParc].

Last modified May 18, 2010. Version 3.
Checksum: 3012049C00F7384B

FASTA1,462159,891
        10         20         30         40         50         60 
MFRGPKPPIA PKPRLTAPNE WRASVYLNDS LNKCSNGRLP CVDRGLDEGP RSIPKCSESE 

        70         80         90        100        110        120 
TDEDYIVVPR VPLREDEPKD EGSVGNKALV SPESSAEEEE EREEGGEACG LEGTGAGEDS 

       130        140        150        160        170        180 
VAPAAPGAGA LSREGEEGTD LALEDEGEGC ADEPGTLEQV SRSEEEEKLV QPHRECSLED 

       190        200        210        220        230        240 
SGPWAGEGVF QSDLLLPHIH GEDQEPPDTP GEAEEDDEEG CASTDPAGAD EGSGPDRPTE 

       250        260        270        280        290        300 
DMGQDAEDTS EEPPEKEELA GVQEAETATD CPEVLEEGCE EATGVTGGEQ VDLSEPPDHE 

       310        320        330        340        350        360 
KKTNQEVAAA TLEDHAQDES AEESCQIVPF ENDCMEDFVT SLTGSPYEFF PTESTSFCSE 

       370        380        390        400        410        420 
SCSPLSESAK GLESEQAPKL GLRAEENPMV GALCGQCGSL QGGAAEGPAA PDVVVVLEEE 

       430        440        450        460        470        480 
ALDDALANPY VMGVGLPGQA APGEGGQAAS DALGGYGSKE ELNCEAEGGL VPADRKNTST 

       490        500        510        520        530        540 
RVRPHSGKVA GYVPETVPEE TGPEAGSSAP GIGGAAEEVG KTLLSLEGKP LEASRALPAK 

       550        560        570        580        590        600 
PRAFTLYPRS FSVEGREIPV SVYQEPEGSG LDDHRIKRKE DNLSLSCVIG SSGSFSQRNH 

       610        620        630        640        650        660 
LPSSGTSTPS SMVDIPPPFD LACITKKPIT KSSPSLLIES DSPDKYKKKK SSFKRFLALT 

       670        680        690        700        710        720 
FKKKTENKLH VDVNVSSSRS SSESSYHGPS RILEVDRRSL SNSPQLKSRT GKLRASESPS 

       730        740        750        760        770        780 
SLIFYRDGKR KGVPFSRTVS RVESFEDRSR PPFLPLPLTK PRSISFPSAD TSDYENIPAM 

       790        800        810        820        830        840 
NSDYENIQIP PRRPARAGAF TKLFEDQSRA LSTANENDGY VDMSSFNAFE SKQQSADQDA 

       850        860        870        880        890        900 
ESAYTEPYKV CPISSAAPKE DLTSDEEQRS SEEEDSASRD PSVTHKVEGQ SRALVIAQEL 

       910        920        930        940        950        960 
LSSEKAYVEM LQHLNLDFHG AVMRALDDMD HEGRDTLARE ELRQGLSELP AIHDLHQGIL 

       970        980        990       1000       1010       1020 
EELEERLSNW ESQQKVADVF LAREQGFDHH ATHILQFDRY LGLLSENCLH SPRLAAAVRE 

      1030       1040       1050       1060       1070       1080 
FEQSVQGGSQ TAKHRLLRVV QRLFQYQVLL TDYLNNLCPD SAEYDNTQGA LSLISKVTDR 

      1090       1100       1110       1120       1130       1140 
ANDSMEQGEN LQKLVHIEHS VRGQGDLLQP GREFLKEGTL MKVTGKNRRP RHLFLMNDVL 

      1150       1160       1170       1180       1190       1200 
LYTYPQKDGK YRLKNTLAVA NMKVSRPVME KVPYALKIET SESCLMLSAS SCAERDEWYG 

      1210       1220       1230       1240       1250       1260 
CLSRALPEDY KAQALAAFHH SVEIRERLGV SLGERPPTLV PVTHVMMCMN CGCDFSLTLR 

      1270       1280       1290       1300       1310       1320 
RHHCHACGKI VCRNCSRNKY PLKYLKDRMA KVCDGCFGEL KKRGRAVPGL MRERPVSMSF 

      1330       1340       1350       1360       1370       1380 
PLSSPRFSGS AFSSVFQSIN PSTFKKQKKV PSALTEVAAS GEGSAISGYL SRCKRGKRHW 

      1390       1400       1410       1420       1430       1440 
KKLWFVIKGK VLYTYMASED KVALESMPLL GFTIAPEKEE GSSEVGPIFH LYHKKTLFYS 

      1450       1460 
FKAEDTNSAQ RWIEAMEDAS VL 

« Hide

Isoform 2 [UniParc].

Checksum: A8ED7C2316625D0E
Show »

FASTA54061,238

References

« Hide 'large scale' references
[1]"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. expand/collapse author list , 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 2), NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 77-1462 (ISOFORM 1).
Tissue: Spleen and Testis.
[2]"The DNA sequence, annotation and analysis of human chromosome 3."
Muzny D.M., Scherer S.E., Kaul R., Wang J., Yu J., Sudbrak R., Buhay C.J., Chen R., Cree A., Ding Y., Dugan-Rocha S., Gill R., Gunaratne P., Harris R.A., Hawes A.C., Hernandez J., Hodgson A.V., Hume J. expand/collapse author list , Jackson A., Khan Z.M., Kovar-Smith C., Lewis L.R., Lozado R.J., Metzker M.L., Milosavljevic A., Miner G.R., Morgan M.B., Nazareth L.V., Scott G., Sodergren E., Song X.-Z., Steffen D., Wei S., Wheeler D.A., Wright M.W., Worley K.C., Yuan Y., Zhang Z., Adams C.Q., Ansari-Lari M.A., Ayele M., Brown M.J., Chen G., Chen Z., Clendenning J., Clerc-Blankenburg K.P., Chen R., Chen Z., Davis C., Delgado O., Dinh H.H., Dong W., Draper H., Ernst S., Fu G., Gonzalez-Garay M.L., Garcia D.K., Gillett W., Gu J., Hao B., Haugen E., Havlak P., He X., Hennig S., Hu S., Huang W., Jackson L.R., Jacob L.S., Kelly S.H., Kube M., Levy R., Li Z., Liu B., Liu J., Liu W., Lu J., Maheshwari M., Nguyen B.-V., Okwuonu G.O., Palmeiri A., Pasternak S., Perez L.M., Phelps K.A., Plopper F.J., Qiang B., Raymond C., Rodriguez R., Saenphimmachak C., Santibanez J., Shen H., Shen Y., Subramanian S., Tabor P.E., Verduzco D., Waldron L., Wang J., Wang J., Wang Q., Williams G.A., Wong G.K.-S., Yao Z., Zhang J., Zhang X., Zhao G., Zhou J., Zhou Y., Nelson D., Lehrach H., Reinhardt R., Naylor S.L., Yang H., Olson M., Weinstock G., Gibbs R.A.
Nature 440:1194-1198(2006) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
[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.
[4]"Shotgun sequencing of the human transcriptome with ORF expressed sequence tags."
Dias Neto E., Correa R.G., Verjovski-Almeida S., Briones M.R.S., Nagai M.A., da Silva W. Jr., Zago M.A., Bordin S., Costa F.F., Goldman G.H., Carvalho A.F., Matsukuma A., Baia G.S., Simpson D.H., Brunstein A., de Oliveira P.S.L., Bucher P., Jongeneel C.V. expand/collapse author list , O'Hare M.J., Soares F., Brentani R.R., Reis L.F.L., de Souza S.J., Simpson A.J.G.
Proc. Natl. Acad. Sci. U.S.A. 97:3491-3496(2000) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 1-215 (ISOFORM 1).
Tissue: Placenta.
[5]"The full-ORF clone resource of the German cDNA consortium."
Bechtel S., Rosenfelder H., Duda A., Schmidt C.P., Ernst U., Wellenreuther R., Mehrle A., Schuster C., Bahr A., Bloecker H., Heubner D., Hoerlein A., Michel G., Wedler H., Koehrer K., Ottenwaelder B., Poustka A., Wiemann S., Schupp I.
BMC Genomics 8:399-399(2007) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 318-1462 (ISOFORM 1).
Tissue: Esophageal carcinoma and Uterus.
[6]"FGD5 mediates proangiogenic action of vascular endothelial growth factor in human vascular endothelial cells."
Kurogane Y., Miyata M., Kubo Y., Nagamatsu Y., Kundu R.K., Uemura A., Ishida T., Quertermous T., Hirata K., Rikitake Y.
Arterioscler. Thromb. Vasc. Biol. 32:988-996(2012) [PubMed] [Europe PMC] [Abstract]
Cited for: FUNCTION, SUBCELLULAR LOCATION, TISSUE SPECIFICITY.
[7]"Crystal structure of the DH and PH-1 domains of human FGD5."
Structural genomics consortium (SGC)
Submitted (JUN-2010) to the PDB data bank
Cited for: X-RAY CRYSTALLOGRAPHY (2.8 ANGSTROMS) OF 889-1304.
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
AK096856 mRNA. Translation: BAC04878.1. Different initiation.
AK097276 mRNA. Translation: BAC04989.1. Different initiation.
AK131078 mRNA. Translation: BAC85128.1. Frameshift.
AK123054 mRNA. Translation: BAG53865.1.
AC087591 Genomic DNA. No translation available.
AC090954 Genomic DNA. No translation available.
BC035364 mRNA. Translation: AAH35364.1.
BF989107 mRNA. No translation available.
BX640820 Transcribed RNA. Translation: CAE45896.2.
BX538312 mRNA. Translation: CAD98090.1. Sequence problems.
CCDSCCDS46767.1. [Q6ZNL6-1]
RefSeqNP_689749.3. NM_152536.3. [Q6ZNL6-1]
UniGeneHs.412406.

3D structure databases

PDBe
RCSB-PDB
PDBj
EntryMethodResolution (Å)ChainPositionsPDBsum
3MPXX-ray2.80A889-1304[»]
ProteinModelPortalQ6ZNL6.
SMRQ6ZNL6. Positions 890-1205, 1245-1301, 1369-1461.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

BioGrid127439. 3 interactions.
IntActQ6ZNL6. 3 interactions.
STRING9606.ENSP00000285046.

PTM databases

PhosphoSiteQ6ZNL6.

Polymorphism databases

DMDM296439343.

Proteomic databases

PaxDbQ6ZNL6.
PRIDEQ6ZNL6.

Protocols and materials databases

DNASU152273.
StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblENST00000285046; ENSP00000285046; ENSG00000154783. [Q6ZNL6-1]
GeneID152273.
KEGGhsa:152273.
UCSCuc003bzc.3. human. [Q6ZNL6-1]
uc003bzd.3. human. [Q6ZNL6-2]

Organism-specific databases

CTD152273.
GeneCardsGC03P014860.
H-InvDBHIX0003091.
HIX0003092.
HGNCHGNC:19117. FGD5.
HPAHPA014536.
HPA019191.
MIM614788. gene.
neXtProtNX_Q6ZNL6.
PharmGKBPA134874843.
GenAtlasSearch...

Phylogenomic databases

eggNOGNOG291216.
HOGENOMHOG000168874.
HOVERGENHBG051609.
InParanoidQ6ZNL6.
KOK05724.
OMAEYDNTQG.
PhylomeDBQ6ZNL6.
TreeFamTF343077.

Gene expression databases

ArrayExpressQ6ZNL6.
BgeeQ6ZNL6.
CleanExHS_FGD5.
GenevestigatorQ6ZNL6.

Family and domain databases

Gene3D1.20.900.10. 1 hit.
2.30.29.30. 2 hits.
3.30.40.10. 1 hit.
InterProIPR000219. DH-domain.
IPR011993. PH_like_dom.
IPR001849. Pleckstrin_homology.
IPR000306. Znf_FYVE.
IPR017455. Znf_FYVE-rel.
IPR013083. Znf_RING/FYVE/PHD.
[Graphical view]
PfamPF01363. FYVE. 1 hit.
PF00169. PH. 2 hits.
PF00621. RhoGEF. 1 hit.
[Graphical view]
SMARTSM00064. FYVE. 1 hit.
SM00233. PH. 2 hits.
SM00325. RhoGEF. 1 hit.
[Graphical view]
SUPFAMSSF48065. SSF48065. 1 hit.
PROSITEPS50010. DH_2. 1 hit.
PS50003. PH_DOMAIN. 2 hits.
PS50178. ZF_FYVE. 1 hit.
[Graphical view]
ProtoNetSearch...

Other

EvolutionaryTraceQ6ZNL6.
GenomeRNAi152273.
NextBio86934.
PROQ6ZNL6.
SOURCESearch...

Entry information

Entry nameFGD5_HUMAN
AccessionPrimary (citable) accession number: Q6ZNL6
Secondary accession number(s): B3KVQ3 expand/collapse secondary AC list , Q6MZY1, Q7Z303, Q8IYP3, Q8N861, Q8N8G4
Entry history
Integrated into UniProtKB/Swiss-Prot: March 15, 2005
Last sequence update: May 18, 2010
Last modified: July 9, 2014
This is version 106 of the entry and version 3 of the sequence. [Complete history]
Entry statusReviewed (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.

Relevant documents

SIMILARITY comments

Index of protein domains and families

PDB cross-references

Index of Protein Data Bank (PDB) cross-references

MIM cross-references

Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot

Human polymorphisms and disease mutations

Index of human polymorphisms and disease mutations

Human entries with polymorphisms or disease mutations

List of human entries with polymorphisms or disease mutations

Human chromosome 3

Human chromosome 3: entries, gene names and cross-references to MIM