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Protein

CAP-Gly domain-containing linker protein 4

Gene

Clip4

Organism
Mus musculus (Mouse)
Status
Reviewed-Annotation score: Annotation score: 2 out of 5-Experimental evidence at protein leveli

Names & Taxonomyi

Protein namesi
Recommended name:
CAP-Gly domain-containing linker protein 4
Alternative name(s):
Restin-like protein 2
Gene namesi
Name:Clip4
Synonyms:Rsnl2
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
Proteomesi
  • UP000000589 Componenti: Chromosome 17

Organism-specific databases

MGIiMGI:1919100. Clip4.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 704704CAP-Gly domain-containing linker protein 4PRO_0000083530Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei556 – 5561PhosphoserineBy similarity
Modified residuei608 – 6081PhosphoserineCombined sources

Keywords - PTMi

Phosphoprotein

Proteomic databases

MaxQBiQ8CI96.
PaxDbiQ8CI96.
PRIDEiQ8CI96.

PTM databases

PhosphoSiteiQ8CI96.

Expressioni

Gene expression databases

BgeeiQ8CI96.
GenevisibleiQ8CI96. MM.

Interactioni

Protein-protein interaction databases

STRINGi10090.ENSMUSP00000024854.

Structurei

Secondary structure

1
704
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi268 – 2703Combined sources
Beta strandi273 – 2753Combined sources
Helixi278 – 2814Combined sources
Beta strandi288 – 2914Combined sources
Turni292 – 2943Combined sources
Beta strandi295 – 30410Combined sources
Beta strandi306 – 3083Combined sources
Beta strandi310 – 32011Combined sources
Beta strandi323 – 3286Combined sources
Turni338 – 3403Combined sources
Beta strandi341 – 3455Combined sources
Helixi346 – 3483Combined sources
Beta strandi349 – 3546Combined sources
Beta strandi627 – 6337Combined sources
Beta strandi636 – 6394Combined sources
Beta strandi646 – 65611Combined sources
Beta strandi658 – 6603Combined sources
Beta strandi666 – 6683Combined sources
Helixi686 – 6883Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1WHJNMR-A266-354[»]
1WHKNMR-A617-694[»]
ProteinModelPortaliQ8CI96.
SMRiQ8CI96. Positions 84-232, 260-354, 446-696.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ8CI96.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Repeati65 – 10137ANK 1Add
BLAST
Repeati149 – 18032ANK 2Add
BLAST
Repeati186 – 21530ANK 3Add
BLAST
Domaini303 – 34543CAP-Gly 1PROSITE-ProRule annotationAdd
BLAST
Domaini504 – 54643CAP-Gly 2PROSITE-ProRule annotationAdd
BLAST
Domaini643 – 68543CAP-Gly 3PROSITE-ProRule annotationAdd
BLAST

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi423 – 47351Ser-richAdd
BLAST

Sequence similaritiesi

Contains 3 ANK repeats.PROSITE-ProRule annotation
Contains 3 CAP-Gly domains.PROSITE-ProRule annotation

Keywords - Domaini

ANK repeat, Repeat

Phylogenomic databases

eggNOGiKOG0241. Eukaryota.
KOG4568. Eukaryota.
COG5244. LUCA.
GeneTreeiENSGT00760000119173.
HOGENOMiHOG000007206.
HOVERGENiHBG057079.
InParanoidiQ8CI96.
KOiK10423.
OMAiSCQEILF.
OrthoDBiEOG75QR3B.
PhylomeDBiQ8CI96.
TreeFamiTF326096.

Family and domain databases

Gene3Di1.25.40.20. 1 hit.
2.30.30.190. 3 hits.
InterProiIPR002110. Ankyrin_rpt.
IPR020683. Ankyrin_rpt-contain_dom.
IPR000938. CAP-Gly_domain.
IPR028397. CLIP4.
[Graphical view]
PANTHERiPTHR18916:SF32. PTHR18916:SF32. 2 hits.
PfamiPF12796. Ank_2. 1 hit.
PF01302. CAP_GLY. 3 hits.
[Graphical view]
SMARTiSM00248. ANK. 3 hits.
SM01052. CAP_GLY. 3 hits.
[Graphical view]
SUPFAMiSSF48403. SSF48403. 1 hit.
SSF74924. SSF74924. 3 hits.
PROSITEiPS50297. ANK_REP_REGION. 1 hit.
PS50088. ANK_REPEAT. 1 hit.
PS00845. CAP_GLY_1. 2 hits.
PS50245. CAP_GLY_2. 3 hits.
[Graphical view]

Sequences (3)i

Sequence statusi: Complete.

This entry describes 3 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: Q8CI96-1) [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
MTIEDLPDIP LEGSSLIGRY PFLFTGSDTS VIFSISAAPM PSDCEFSFFD
60 70 80 90 100
PNDASCQEIL FDPKTSVSEL FAILRQWVPQ VQQNIDIIGN EILKRGCNVN
110 120 130 140 150
DRDGLTDMTL LHYTCKSGAH GIGDIETAVK FAAQLIDLGA DASLRSRWTN
160 170 180 190 200
MNALHYASYF DVPELIRVIL KTSKPKDVDA TCSDFNFGTA LHIAAHNLCA
210 220 230 240 250
GAVKTLLELG ANPAFRNDKG QIPAEVVPDP VDMPLEMADA AAIAKEIKQM
260 270 280 290 300
LLDAVPLPCT SAKAVLPNSD HTTSRAMLTS LGLKLGDRVV IAGQKVGTLR
310 320 330 340 350
FCGTTEFASG QWAGIELDEP EGKNNGSVGR VQYFKCAPKY GIFAPLSKIS
360 370 380 390 400
KLKDGRKTTT HTPSTRATPH ARSQKVDVAH FTSRVNSGLT TSKKETASES
410 420 430 440 450
TLTLPPSEEP KTVAENDAAQ PGSMSSSSSS SSLDHKQSYP KKLTTSSGGK
460 470 480 490 500
KTLSKSPSLP SRASAGLKSS ATSAANNSHH EGALHLGERV LVVGQRVGTI
510 520 530 540 550
KFFGTTNFAP GYWYGIELEK PHGKNDGSVG GVQYFSCSPR YGIFAPPSRV
560 570 580 590 600
QRLSDSLDTL SEISSNKQNH SYPGFRRSFS TTSASSQKEI NRRNAFAKTK
610 620 630 640 650
TTLRRSWSSS TTAGGLEGTV KLHEGSQVLL TSSNEMATVR YVGPTDFASG
660 670 680 690 700
IWLGLELRSA KGKNDGAVGD KRYFTCKPNY GVLVRPSRVT YRGISGSKLI

DENC
Length:704
Mass (Da):75,789
Last modified:March 1, 2003 - v1
Checksum:i615B49B7A536B918
GO
Isoform 2 (identifier: Q8CI96-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     341-387: Missing.
     599-704: Missing.

Note: No experimental confirmation available.
Show »
Length:551
Mass (Da):59,234
Checksum:i65DAFE3B38259A80
GO
Isoform 3 (identifier: Q8CI96-3) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     217-219: NDK → VRD
     220-704: Missing.

Note: No experimental confirmation available.
Show »
Length:219
Mass (Da):24,005
Checksum:i7D91BF8B66F87720
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti30 – 301S → Y in BAC35936 (PubMed:16141072).Curated
Sequence conflicti44 – 441C → S in BAC35936 (PubMed:16141072).Curated
Sequence conflicti190 – 1901A → S in BAC35936 (PubMed:16141072).Curated
Sequence conflicti495 – 4951Q → K in BAC35936 (PubMed:16141072).Curated

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei217 – 2193NDK → VRD in isoform 3. 1 PublicationVSP_012973
Alternative sequencei220 – 704485Missing in isoform 3. 1 PublicationVSP_012974Add
BLAST
Alternative sequencei341 – 38747Missing in isoform 2. 1 PublicationVSP_012975Add
BLAST
Alternative sequencei599 – 704106Missing in isoform 2. 1 PublicationVSP_012976Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK018895 mRNA. Translation: BAB31478.1.
AK075758 mRNA. Translation: BAC35936.1.
BC011280 mRNA. Translation: AAH11280.1.
BC035226 mRNA. Translation: AAH35226.1.
CCDSiCCDS37687.1. [Q8CI96-1]
RefSeqiNP_084455.2. NM_030179.3. [Q8CI96-1]
NP_780587.1. NM_175378.1. [Q8CI96-2]
XP_006525206.1. XM_006525143.2. [Q8CI96-1]
XP_006525207.1. XM_006525144.1. [Q8CI96-1]
XP_006525208.1. XM_006525145.2. [Q8CI96-1]
XP_006525209.1. XM_006525146.1. [Q8CI96-1]
XP_006525217.1. XM_006525154.1. [Q8CI96-2]
UniGeneiMm.196382.

Genome annotation databases

EnsembliENSMUST00000024854; ENSMUSP00000024854; ENSMUSG00000024059. [Q8CI96-1]
GeneIDi78785.
KEGGimmu:78785.
UCSCiuc008dmw.2. mouse. [Q8CI96-3]
uc008dmx.2. mouse. [Q8CI96-1]
uc012awx.1. mouse. [Q8CI96-2]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK018895 mRNA. Translation: BAB31478.1.
AK075758 mRNA. Translation: BAC35936.1.
BC011280 mRNA. Translation: AAH11280.1.
BC035226 mRNA. Translation: AAH35226.1.
CCDSiCCDS37687.1. [Q8CI96-1]
RefSeqiNP_084455.2. NM_030179.3. [Q8CI96-1]
NP_780587.1. NM_175378.1. [Q8CI96-2]
XP_006525206.1. XM_006525143.2. [Q8CI96-1]
XP_006525207.1. XM_006525144.1. [Q8CI96-1]
XP_006525208.1. XM_006525145.2. [Q8CI96-1]
XP_006525209.1. XM_006525146.1. [Q8CI96-1]
XP_006525217.1. XM_006525154.1. [Q8CI96-2]
UniGeneiMm.196382.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1WHJNMR-A266-354[»]
1WHKNMR-A617-694[»]
ProteinModelPortaliQ8CI96.
SMRiQ8CI96. Positions 84-232, 260-354, 446-696.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi10090.ENSMUSP00000024854.

PTM databases

PhosphoSiteiQ8CI96.

Proteomic databases

MaxQBiQ8CI96.
PaxDbiQ8CI96.
PRIDEiQ8CI96.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSMUST00000024854; ENSMUSP00000024854; ENSMUSG00000024059. [Q8CI96-1]
GeneIDi78785.
KEGGimmu:78785.
UCSCiuc008dmw.2. mouse. [Q8CI96-3]
uc008dmx.2. mouse. [Q8CI96-1]
uc012awx.1. mouse. [Q8CI96-2]

Organism-specific databases

CTDi79745.
MGIiMGI:1919100. Clip4.

Phylogenomic databases

eggNOGiKOG0241. Eukaryota.
KOG4568. Eukaryota.
COG5244. LUCA.
GeneTreeiENSGT00760000119173.
HOGENOMiHOG000007206.
HOVERGENiHBG057079.
InParanoidiQ8CI96.
KOiK10423.
OMAiSCQEILF.
OrthoDBiEOG75QR3B.
PhylomeDBiQ8CI96.
TreeFamiTF326096.

Miscellaneous databases

EvolutionaryTraceiQ8CI96.
NextBioi349496.
PROiQ8CI96.
SOURCEiSearch...

Gene expression databases

BgeeiQ8CI96.
GenevisibleiQ8CI96. MM.

Family and domain databases

Gene3Di1.25.40.20. 1 hit.
2.30.30.190. 3 hits.
InterProiIPR002110. Ankyrin_rpt.
IPR020683. Ankyrin_rpt-contain_dom.
IPR000938. CAP-Gly_domain.
IPR028397. CLIP4.
[Graphical view]
PANTHERiPTHR18916:SF32. PTHR18916:SF32. 2 hits.
PfamiPF12796. Ank_2. 1 hit.
PF01302. CAP_GLY. 3 hits.
[Graphical view]
SMARTiSM00248. ANK. 3 hits.
SM01052. CAP_GLY. 3 hits.
[Graphical view]
SUPFAMiSSF48403. SSF48403. 1 hit.
SSF74924. SSF74924. 3 hits.
PROSITEiPS50297. ANK_REP_REGION. 1 hit.
PS50088. ANK_REPEAT. 1 hit.
PS00845. CAP_GLY_1. 2 hits.
PS50245. CAP_GLY_2. 3 hits.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "The transcriptional landscape of the mammalian genome."
    Carninci P., Kasukawa T., Katayama S., Gough J., Frith M.C., Maeda N., Oyama R., Ravasi T., Lenhard B., Wells C., Kodzius R., Shimokawa K., Bajic V.B., Brenner S.E., Batalov S., Forrest A.R., Zavolan M., Davis M.J.
    , Wilming L.G., Aidinis V., Allen J.E., Ambesi-Impiombato A., Apweiler R., Aturaliya R.N., Bailey T.L., Bansal M., Baxter L., Beisel K.W., Bersano T., Bono H., Chalk A.M., Chiu K.P., Choudhary V., Christoffels A., Clutterbuck D.R., Crowe M.L., Dalla E., Dalrymple B.P., de Bono B., Della Gatta G., di Bernardo D., Down T., Engstrom P., Fagiolini M., Faulkner G., Fletcher C.F., Fukushima T., Furuno M., Futaki S., Gariboldi M., Georgii-Hemming P., Gingeras T.R., Gojobori T., Green R.E., Gustincich S., Harbers M., Hayashi Y., Hensch T.K., Hirokawa N., Hill D., Huminiecki L., Iacono M., Ikeo K., Iwama A., Ishikawa T., Jakt M., Kanapin A., Katoh M., Kawasawa Y., Kelso J., Kitamura H., Kitano H., Kollias G., Krishnan S.P., Kruger A., Kummerfeld S.K., Kurochkin I.V., Lareau L.F., Lazarevic D., Lipovich L., Liu J., Liuni S., McWilliam S., Madan Babu M., Madera M., Marchionni L., Matsuda H., Matsuzawa S., Miki H., Mignone F., Miyake S., Morris K., Mottagui-Tabar S., Mulder N., Nakano N., Nakauchi H., Ng P., Nilsson R., Nishiguchi S., Nishikawa S., Nori F., Ohara O., Okazaki Y., Orlando V., Pang K.C., Pavan W.J., Pavesi G., Pesole G., Petrovsky N., Piazza S., Reed J., Reid J.F., Ring B.Z., Ringwald M., Rost B., Ruan Y., Salzberg S.L., Sandelin A., Schneider C., Schoenbach C., Sekiguchi K., Semple C.A., Seno S., Sessa L., Sheng Y., Shibata Y., Shimada H., Shimada K., Silva D., Sinclair B., Sperling S., Stupka E., Sugiura K., Sultana R., Takenaka Y., Taki K., Tammoja K., Tan S.L., Tang S., Taylor M.S., Tegner J., Teichmann S.A., Ueda H.R., van Nimwegen E., Verardo R., Wei C.L., Yagi K., Yamanishi H., Zabarovsky E., Zhu S., Zimmer A., Hide W., Bult C., Grimmond S.M., Teasdale R.D., Liu E.T., Brusic V., Quackenbush J., Wahlestedt C., Mattick J.S., Hume D.A., Kai C., Sasaki D., Tomaru Y., Fukuda S., Kanamori-Katayama M., Suzuki M., Aoki J., Arakawa T., Iida J., Imamura K., Itoh M., Kato T., Kawaji H., Kawagashira N., Kawashima T., Kojima M., Kondo S., Konno H., Nakano K., Ninomiya N., Nishio T., Okada M., Plessy C., Shibata K., Shiraki T., Suzuki S., Tagami M., Waki K., Watahiki A., Okamura-Oho Y., Suzuki H., Kawai J., Hayashizaki Y.
    Science 309:1559-1563(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORMS 2 AND 3).
    Strain: C57BL/6J.
    Tissue: Testis.
  2. "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).
    Strain: FVB/N.
    Tissue: Mammary gland and Salivary gland.
  3. Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-608, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Tissue: Lung.
  4. "Solution structure of the 1st and the 3rd CAP-Gly domain."
    RIKEN structural genomics initiative (RSGI)
    Submitted (NOV-2004) to the PDB data bank
    Cited for: STRUCTURE BY NMR OF 266-354 AND 617-696.

Entry informationi

Entry nameiCLIP4_MOUSE
AccessioniPrimary (citable) accession number: Q8CI96
Secondary accession number(s): Q8BW09, Q921Q4, Q9D2S6
Entry historyi
Integrated into UniProtKB/Swiss-Prot: March 1, 2005
Last sequence update: March 1, 2003
Last modified: May 11, 2016
This is version 116 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. MGD cross-references
    Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  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.