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Protein

Leucine-rich repeat-containing protein 49

Gene

LRRC49

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at transcript leveli

Names & Taxonomyi

Protein namesi
Recommended name:
Leucine-rich repeat-containing protein 49
Alternative name(s):
Tubulin polyglutamylase complex subunit 4
Short name:
PGs4
Gene namesi
Name:LRRC49
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 15

Organism-specific databases

HGNCiHGNC:25965. LRRC49.

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm, Cytoskeleton, Microtubule

Pathology & Biotechi

Organism-specific databases

PharmGKBiPA142671509.

Polymorphism and mutation databases

DMDMi269849615.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 686686Leucine-rich repeat-containing protein 49PRO_0000233034Add
BLAST

Proteomic databases

PaxDbiQ8IUZ0.
PRIDEiQ8IUZ0.

PTM databases

iPTMnetiQ8IUZ0.
PhosphoSiteiQ8IUZ0.

Expressioni

Gene expression databases

BgeeiQ8IUZ0.
CleanExiHS_LRRC49.
ExpressionAtlasiQ8IUZ0. baseline and differential.
GenevisibleiQ8IUZ0. HS.

Organism-specific databases

HPAiHPA015596.

Interactioni

Subunit structurei

Part of the neuronal tubulin polyglutamylase complex which contains TPGS1, TPGS2, TTLL1, LRRC49 and NICN1.By similarity

Protein-protein interaction databases

BioGridi120190. 31 interactions.
IntActiQ8IUZ0. 20 interactions.
STRINGi9606.ENSP00000260382.

Structurei

3D structure databases

ProteinModelPortaliQ8IUZ0.
SMRiQ8IUZ0. Positions 23-303.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Repeati113 – 13422LRR 1Add
BLAST
Repeati135 – 15622LRR 2Add
BLAST
Repeati157 – 17822LRR 3Add
BLAST
Repeati179 – 20022LRR 4Add
BLAST
Repeati201 – 22222LRR 5Add
BLAST
Repeati223 – 24422LRR 6Add
BLAST
Repeati245 – 26622LRR 7Add
BLAST
Domaini279 – 31739LRRCTAdd
BLAST

Coiled coil

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Coiled coili303 – 34139Sequence analysisAdd
BLAST

Sequence similaritiesi

Contains 7 LRR (leucine-rich) repeats.Curated
Contains 1 LRRCT domain.Curated

Keywords - Domaini

Coiled coil, Leucine-rich repeat, Repeat

Phylogenomic databases

eggNOGiKOG0531. Eukaryota.
COG4886. LUCA.
GeneTreeiENSGT00730000110223.
HOGENOMiHOG000294212.
HOVERGENiHBG081931.
InParanoidiQ8IUZ0.
KOiK16606.
OMAiESWYKHT.
OrthoDBiEOG74R1Q3.
PhylomeDBiQ8IUZ0.
TreeFamiTF324815.

Family and domain databases

Gene3Di3.80.10.10. 2 hits.
InterProiIPR032675. L_dom-like.
IPR001611. Leu-rich_rpt.
IPR003591. Leu-rich_rpt_typical-subtyp.
[Graphical view]
SMARTiSM00369. LRR_TYP. 5 hits.
[Graphical view]
SUPFAMiSSF52058. SSF52058. 1 hit.
PROSITEiPS51450. LRR. 7 hits.
[Graphical view]

Sequences (4)i

Sequence statusi: Complete.

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

Isoform 1 (identifier: Q8IUZ0-1) [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
MIPGKYRSVS GRAANNVNCG LHLVIQTSSL PEKNKVEFKL NKDTSSFPGR
60 70 80 90 100
LLQHDLERNY SSRQGDHINL VSSSLSSFPI LQRSSEEKIL YSDRLSLERQ
110 120 130 140 150
KLTVCPIING EDHLRLLNFQ HNFITRIQNI SNLQKLISLD LYDNQIEEIS
160 170 180 190 200
GLSTLRCLRV LLLGKNRIKK ISNLENLKSL DVLDLHGNQI TKIENINHLC
210 220 230 240 250
ELRVLNLARN FLSHVDNLNG LDSLTELNLR HNQITFVRDV DNLPCLQHLF
260 270 280 290 300
LSFNNISSFD SVSCLADSSS LSDITFDGNP IAQESWYKHT VLQNMMQLRQ
310 320 330 340 350
LDMKRITEEE RRMASVLAKK EEEKKRESHK QSLLKEKKRL TINNVARQWD
360 370 380 390 400
LQQQRVANIA TNEDRKDSDS PQDPCQIDGS TLSAFPEETG PLDSGLNNAL
410 420 430 440 450
QGLSVIDTYL VEVDGDTLSL YGSGALESLD RNWSVQTAGM ITTVSFTFIE
460 470 480 490 500
FDEIVQVLPK LKIKFPNSLH LKFKETNLVM LQQFNALAQL RRIDQLTIDP
510 520 530 540 550
QGNPVVNFTL WKYYVLFRLS HFSMQKINGT EVTQNDMIMA ERLFGILAHV
560 570 580 590 600
ASSELPQYRL ISILGDARKK QFRYLLESKG KKPGIINEEN NDSKRLVGEN
610 620 630 640 650
TNRATLNYTT RDFYNEKLEE IKEKKKFCKT YIEDLVKEAT EINMKNEALQ
660 670 680
KLWPQMFIEL VRDAVIEIRN KNSYMKLCLQ QITDQK
Length:686
Mass (Da):78,894
Last modified:November 24, 2009 - v2
Checksum:iFFD08F686C86C6AA
GO
Isoform 2 (identifier: Q8IUZ0-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     34-34: N → NKVRFK

Note: No experimental confirmation available.
Show »
Length:691
Mass (Da):79,553
Checksum:i6028146A148AD861
GO
Isoform 3 (identifier: Q8IUZ0-3) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-64: MIPGKYRSVS...DLERNYSSRQ → MRSITQGACRFIWEDKGYIS

Note: No experimental confirmation available.
Show »
Length:642
Mass (Da):74,025
Checksum:iC8BD21EB91D5BA2A
GO
Isoform 4 (identifier: Q8IUZ0-4) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-16: MIPGKYRSVSGRAANN → MDCQAE

Note: No experimental confirmation available.
Show »
Length:676
Mass (Da):77,869
Checksum:i1CD4C286E7BAE71B
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti28 – 281S → L in BAG53933 (PubMed:14702039).Curated
Sequence conflicti274 – 2741I → T in BAA90984 (PubMed:14702039).Curated
Sequence conflicti352 – 3521Missing in BAG53933 (PubMed:14702039).Curated
Sequence conflicti354 – 3541Missing in BAA90984 (PubMed:14702039).Curated
Sequence conflicti354 – 3541Missing in AAH37982 (PubMed:15489334).Curated
Sequence conflicti488 – 4881A → T in BAH12102 (PubMed:14702039).Curated

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei1 – 6464MIPGK…YSSRQ → MRSITQGACRFIWEDKGYIS in isoform 3. CuratedVSP_046801Add
BLAST
Alternative sequencei1 – 1616MIPGK…RAANN → MDCQAE in isoform 4. 1 PublicationVSP_055653Add
BLAST
Alternative sequencei34 – 341N → NKVRFK in isoform 2. 1 PublicationVSP_044747

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK000163 mRNA. Translation: BAA90984.1.
AK123672 mRNA. Translation: BAG53933.1.
AK295547 mRNA. Translation: BAH12102.1.
AC013752 Genomic DNA. No translation available.
AC084703 Genomic DNA. No translation available.
AC090868 Genomic DNA. No translation available.
CH471082 Genomic DNA. Translation: EAW77864.1.
BC037982 mRNA. Translation: AAH37982.1.
CCDSiCCDS32282.1. [Q8IUZ0-1]
CCDS55971.1. [Q8IUZ0-3]
CCDS58376.1. [Q8IUZ0-2]
CCDS61694.1. [Q8IUZ0-4]
RefSeqiNP_001185946.1. NM_001199017.2. [Q8IUZ0-2]
NP_001185947.1. NM_001199018.2. [Q8IUZ0-3]
NP_001271286.1. NM_001284357.1. [Q8IUZ0-4]
NP_060161.2. NM_017691.4. [Q8IUZ0-1]
XP_011520017.1. XM_011521715.1. [Q8IUZ0-3]
XP_011520018.1. XM_011521716.1. [Q8IUZ0-3]
UniGeneiHs.12692.

Genome annotation databases

EnsembliENST00000260382; ENSP00000260382; ENSG00000137821. [Q8IUZ0-1]
ENST00000443425; ENSP00000414065; ENSG00000137821. [Q8IUZ0-3]
ENST00000544974; ENSP00000439600; ENSG00000137821. [Q8IUZ0-4]
ENST00000560369; ENSP00000453273; ENSG00000137821. [Q8IUZ0-2]
GeneIDi54839.
KEGGihsa:54839.
UCSCiuc002asu.5. human. [Q8IUZ0-1]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK000163 mRNA. Translation: BAA90984.1.
AK123672 mRNA. Translation: BAG53933.1.
AK295547 mRNA. Translation: BAH12102.1.
AC013752 Genomic DNA. No translation available.
AC084703 Genomic DNA. No translation available.
AC090868 Genomic DNA. No translation available.
CH471082 Genomic DNA. Translation: EAW77864.1.
BC037982 mRNA. Translation: AAH37982.1.
CCDSiCCDS32282.1. [Q8IUZ0-1]
CCDS55971.1. [Q8IUZ0-3]
CCDS58376.1. [Q8IUZ0-2]
CCDS61694.1. [Q8IUZ0-4]
RefSeqiNP_001185946.1. NM_001199017.2. [Q8IUZ0-2]
NP_001185947.1. NM_001199018.2. [Q8IUZ0-3]
NP_001271286.1. NM_001284357.1. [Q8IUZ0-4]
NP_060161.2. NM_017691.4. [Q8IUZ0-1]
XP_011520017.1. XM_011521715.1. [Q8IUZ0-3]
XP_011520018.1. XM_011521716.1. [Q8IUZ0-3]
UniGeneiHs.12692.

3D structure databases

ProteinModelPortaliQ8IUZ0.
SMRiQ8IUZ0. Positions 23-303.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi120190. 31 interactions.
IntActiQ8IUZ0. 20 interactions.
STRINGi9606.ENSP00000260382.

PTM databases

iPTMnetiQ8IUZ0.
PhosphoSiteiQ8IUZ0.

Polymorphism and mutation databases

DMDMi269849615.

Proteomic databases

PaxDbiQ8IUZ0.
PRIDEiQ8IUZ0.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000260382; ENSP00000260382; ENSG00000137821. [Q8IUZ0-1]
ENST00000443425; ENSP00000414065; ENSG00000137821. [Q8IUZ0-3]
ENST00000544974; ENSP00000439600; ENSG00000137821. [Q8IUZ0-4]
ENST00000560369; ENSP00000453273; ENSG00000137821. [Q8IUZ0-2]
GeneIDi54839.
KEGGihsa:54839.
UCSCiuc002asu.5. human. [Q8IUZ0-1]

Organism-specific databases

CTDi54839.
GeneCardsiLRRC49.
HGNCiHGNC:25965. LRRC49.
HPAiHPA015596.
neXtProtiNX_Q8IUZ0.
PharmGKBiPA142671509.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG0531. Eukaryota.
COG4886. LUCA.
GeneTreeiENSGT00730000110223.
HOGENOMiHOG000294212.
HOVERGENiHBG081931.
InParanoidiQ8IUZ0.
KOiK16606.
OMAiESWYKHT.
OrthoDBiEOG74R1Q3.
PhylomeDBiQ8IUZ0.
TreeFamiTF324815.

Miscellaneous databases

GenomeRNAii54839.
NextBioi35470328.
PROiQ8IUZ0.

Gene expression databases

BgeeiQ8IUZ0.
CleanExiHS_LRRC49.
ExpressionAtlasiQ8IUZ0. baseline and differential.
GenevisibleiQ8IUZ0. HS.

Family and domain databases

Gene3Di3.80.10.10. 2 hits.
InterProiIPR032675. L_dom-like.
IPR001611. Leu-rich_rpt.
IPR003591. Leu-rich_rpt_typical-subtyp.
[Graphical view]
SMARTiSM00369. LRR_TYP. 5 hits.
[Graphical view]
SUPFAMiSSF52058. SSF52058. 1 hit.
PROSITEiPS51450. LRR. 7 hits.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  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.
    , 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] (ISOFORMS 1; 2 AND 4).
    Tissue: Colon and Hippocampus.
  2. "Analysis of the DNA sequence and duplication history of human chromosome 15."
    Zody M.C., Garber M., Sharpe T., Young S.K., Rowen L., O'Neill K., Whittaker C.A., Kamal M., Chang J.L., Cuomo C.A., Dewar K., FitzGerald M.G., Kodira C.D., Madan A., Qin S., Yang X., Abbasi N., Abouelleil A.
    , Arachchi H.M., Baradarani L., Birditt B., Bloom S., Bloom T., Borowsky M.L., Burke J., Butler J., Cook A., DeArellano K., DeCaprio D., Dorris L. III, Dors M., Eichler E.E., Engels R., Fahey J., Fleetwood P., Friedman C., Gearin G., Hall J.L., Hensley G., Johnson E., Jones C., Kamat A., Kaur A., Locke D.P., Madan A., Munson G., Jaffe D.B., Lui A., Macdonald P., Mauceli E., Naylor J.W., Nesbitt R., Nicol R., O'Leary S.B., Ratcliffe A., Rounsley S., She X., Sneddon K.M.B., Stewart S., Sougnez C., Stone S.M., Topham K., Vincent D., Wang S., Zimmer A.R., Birren B.W., Hood L., Lander E.S., Nusbaum C.
    Nature 440:671-675(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
  3. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
  4. "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 1).
    Tissue: Brain.

Entry informationi

Entry nameiLRC49_HUMAN
AccessioniPrimary (citable) accession number: Q8IUZ0
Secondary accession number(s): B3KVX1
, B7Z366, F5H1J4, G5E9T5, H0YLN4, Q9NXM6
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 18, 2006
Last sequence update: November 24, 2009
Last modified: May 11, 2016
This is version 115 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 15
    Human chromosome 15: entries, gene names and cross-references to MIM
  2. 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.