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Protein

Structural maintenance of chromosomes protein 6

Gene

smc6

Organism
Dictyostelium discoideum (Slime mold)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Protein inferred from homologyi

Functioni

Core component of the smc5-smc6 complex, a complex involved in DNA double-strand breaks by homologous recombination. The complex may promote sister chromatid homologous recombination by recruiting the smc1-smc3 cohesin complex to double-strand breaks (By similarity).By similarity

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi176 – 1838ATPSequence analysis

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Biological processi

DNA damage, DNA recombination, DNA repair

Keywords - Ligandi

ATP-binding, Nucleotide-binding

Names & Taxonomyi

Protein namesi
Recommended name:
Structural maintenance of chromosomes protein 6
Short name:
SMC protein 6
Short name:
SMC-6
Gene namesi
Name:smc6
ORF Names:DDB_G0288993
OrganismiDictyostelium discoideum (Slime mold)
Taxonomic identifieri44689 [NCBI]
Taxonomic lineageiEukaryotaAmoebozoaMycetozoaDictyosteliidaDictyostelium
Proteomesi
  • UP000002195 Componentsi: Chromosome 5, Unassembled WGS sequence

Organism-specific databases

dictyBaseiDDB_G0288993. smc6.

Subcellular locationi

  • Nucleus By similarity
  • Chromosome By similarity

  • Note: Associates with chromatin.By similarity

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Chromosome, Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 11851185Structural maintenance of chromosomes protein 6PRO_0000327930Add
BLAST

Proteomic databases

PaxDbiQ54I56.

Interactioni

Subunit structurei

Forms a heterodimer with smc5.By similarity

Protein-protein interaction databases

STRINGi44689.DDB0231143.

Structurei

3D structure databases

ProteinModelPortaliQ54I56.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni571 – 807237Flexible hingeAdd
BLAST

Coiled coil

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Coiled coili337 – 570234Sequence analysisAdd
BLAST
Coiled coili808 – 1024217Sequence analysisAdd
BLAST

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi17 – 248Poly-Glu
Compositional biasi25 – 284Poly-Asp
Compositional biasi57 – 659Poly-Gln
Compositional biasi108 – 12114Poly-AspAdd
BLAST
Compositional biasi1090 – 112536Ala/Asp-rich (DA-box)Add
BLAST

Domaini

The flexible hinge domain, which separates the large intramolecular coiled coil regions, allows the heterotypic interaction with the corresponding domain of smc5, forming a V-shaped heterodimer.By similarity

Sequence similaritiesi

Belongs to the SMC family. SMC6 subfamily.Curated

Keywords - Domaini

Coiled coil

Phylogenomic databases

eggNOGiKOG0250. Eukaryota.
COG1196. LUCA.
InParanoidiQ54I56.
OMAiICERIEI.
PhylomeDBiQ54I56.

Family and domain databases

Gene3Di3.40.50.300. 1 hit.
InterProiIPR027417. P-loop_NTPase.
IPR003395. RecF/RecN/SMC_N.
IPR033268. Smc5/Smc6.
IPR027132. SMC6.
[Graphical view]
PANTHERiPTHR19306. PTHR19306. 1 hit.
PTHR19306:SF6. PTHR19306:SF6. 1 hit.
PfamiPF02463. SMC_N. 1 hit.
[Graphical view]
SUPFAMiSSF52540. SSF52540. 4 hits.

Sequencei

Sequence statusi: Complete.

Q54I56-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSKRKLGHDG NSHELDEEEE EEEEDDDDEL IHSTQDQDRP HKQQRVENGK
60 70 80 90 100
QMTPTKQHQQ QQQQQPISNG RLKKLKAQSS DEESGSSEDD DEDVEDVDSS
110 120 130 140 150
GSDSGSSDDD DDDDDDDDDD DGNSEDEREA VRREQQLKSG VTEPEAGIIE
160 170 180 190 200
SITLENFMCH RHFKLDFCSN VNFIAGENGS GKSAVLIALI VCLGAKAGFT
210 220 230 240 250
NRGSKLSDLV KAETNTAVIT VKLRNQGQEA FKPEKYGKSV IIERRISRTG
260 270 280 290 300
SSGYKVKDYN GKTVSDKFND VSLILEQFNI QIDNPMSILT QDTSRQFLNS
310 320 330 340 350
AGPQDKYKSF LMATQLDKMT KDYTTIREHI DKIKDMLSQK VVVIQELEKK
360 370 380 390 400
VREYNKEYKD LQQMVGLERK ISEFKNQLAW SFVVESEREA KRKEKQVAEA
410 420 430 440 450
EERSFDNDIR KVDETIETYN KSIEDIKKDI KEFTDQIKIQ EQKKETNNRE
460 470 480 490 500
ILTIEREEAK IQTQIEANNK KRQQRKQRRH LQLQSINEIK ERNAQLANNQ
510 520 530 540 550
SKLDEIKKKG QQKLQLEARK EELIKEKEDL MRDRENLKRD HQNQRTITQQ
560 570 580 590 600
MNREYEGLRV QLNNLRSTQK GENQAYGKGM TDFLHKIEAS RRNFSKLPIG
610 620 630 640 650
PIGLSLKIKN ESWAFAIESA ISKATLRNFL VFSIPDGITL QKLGHQFGIK
660 670 680 690 700
VDYTKIPETT EVYKTVEHDE LDPSLATVLR VLDSPSHFII NFLIDTKKVE
710 720 730 740 750
QIGLGNDRKE IDSVLYTDRC PRGLSQFFDP QGNNYSKTKS GNPFYQAAKN
760 770 780 790 800
SGEATMLRVN SDAAIQRTQR DMESKLPALN QQKKIEQELS SDVQAIEHKI
810 820 830 840 850
SQNDQDQNQC SRKILQITNE IKSIEDTLVQ QTDDYSELEI GLASLDEEIK
860 870 880 890 900
SMDEEINIQK AQRTEVAAQK GPFAENNRAL DDQIDVLSNQ LGNIENNLRK
910 920 930 940 950
FNEGLRKLNN NKQALLQQQG RSAQERDQFK AEYQRILEIV KEKTDKATQI
960 970 980 990 1000
CERIEIPTNE TNTTLTNKII QYTKQLEKES RGKRSRTEAL KLFQDANNSL
1010 1020 1030 1040 1050
KEISEQRDNI EELATILERN LNERYKKWQR FRLSISRRSD QYFNIFLSKK
1060 1070 1080 1090 1100
GYTGSLTFDH QNGKLDINVE LQKALPSNQN GTAKGDTKGL SGGERSFSTV
1110 1120 1130 1140 1150
SLLLAFWENM ECPFRAMDEF DVFMDEVNRS ISINLLMSKA EENRSKQYIF
1160 1170 1180
VTPLALNHIK TSEYVKVFRV RAPVRTGGDV TVETD
Length:1,185
Mass (Da):136,329
Last modified:May 24, 2005 - v1
Checksum:iBE024B4D34E8CDED
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AAFI02000129 Genomic DNA. Translation: EAL62951.1.
RefSeqiXP_636454.1. XM_631362.1.

Genome annotation databases

EnsemblProtistsiDDB0231143; DDB0231143; DDB_G0288993.
GeneIDi8626906.
KEGGiddi:DDB_G0288993.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AAFI02000129 Genomic DNA. Translation: EAL62951.1.
RefSeqiXP_636454.1. XM_631362.1.

3D structure databases

ProteinModelPortaliQ54I56.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi44689.DDB0231143.

Proteomic databases

PaxDbiQ54I56.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblProtistsiDDB0231143; DDB0231143; DDB_G0288993.
GeneIDi8626906.
KEGGiddi:DDB_G0288993.

Organism-specific databases

dictyBaseiDDB_G0288993. smc6.

Phylogenomic databases

eggNOGiKOG0250. Eukaryota.
COG1196. LUCA.
InParanoidiQ54I56.
OMAiICERIEI.
PhylomeDBiQ54I56.

Miscellaneous databases

PROiQ54I56.

Family and domain databases

Gene3Di3.40.50.300. 1 hit.
InterProiIPR027417. P-loop_NTPase.
IPR003395. RecF/RecN/SMC_N.
IPR033268. Smc5/Smc6.
IPR027132. SMC6.
[Graphical view]
PANTHERiPTHR19306. PTHR19306. 1 hit.
PTHR19306:SF6. PTHR19306:SF6. 1 hit.
PfamiPF02463. SMC_N. 1 hit.
[Graphical view]
SUPFAMiSSF52540. SSF52540. 4 hits.
ProtoNetiSearch...

Publicationsi

  1. "The genome of the social amoeba Dictyostelium discoideum."
    Eichinger L., Pachebat J.A., Gloeckner G., Rajandream M.A., Sucgang R., Berriman M., Song J., Olsen R., Szafranski K., Xu Q., Tunggal B., Kummerfeld S., Madera M., Konfortov B.A., Rivero F., Bankier A.T., Lehmann R., Hamlin N.
    , Davies R., Gaudet P., Fey P., Pilcher K., Chen G., Saunders D., Sodergren E.J., Davis P., Kerhornou A., Nie X., Hall N., Anjard C., Hemphill L., Bason N., Farbrother P., Desany B., Just E., Morio T., Rost R., Churcher C.M., Cooper J., Haydock S., van Driessche N., Cronin A., Goodhead I., Muzny D.M., Mourier T., Pain A., Lu M., Harper D., Lindsay R., Hauser H., James K.D., Quiles M., Madan Babu M., Saito T., Buchrieser C., Wardroper A., Felder M., Thangavelu M., Johnson D., Knights A., Loulseged H., Mungall K.L., Oliver K., Price C., Quail M.A., Urushihara H., Hernandez J., Rabbinowitsch E., Steffen D., Sanders M., Ma J., Kohara Y., Sharp S., Simmonds M.N., Spiegler S., Tivey A., Sugano S., White B., Walker D., Woodward J.R., Winckler T., Tanaka Y., Shaulsky G., Schleicher M., Weinstock G.M., Rosenthal A., Cox E.C., Chisholm R.L., Gibbs R.A., Loomis W.F., Platzer M., Kay R.R., Williams J.G., Dear P.H., Noegel A.A., Barrell B.G., Kuspa A.
    Nature 435:43-57(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: AX4.

Entry informationi

Entry nameiSMC6_DICDI
AccessioniPrimary (citable) accession number: Q54I56
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 8, 2008
Last sequence update: May 24, 2005
Last modified: May 11, 2016
This is version 61 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Dictyostelium discoideum
    Dictyostelium discoideum: entries, gene names and cross-references to dictyBase
  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.