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Protein

Structural maintenance of chromosomes protein 5

Gene

smc5

Organism
Schizosaccharomyces pombe (strain 972 / ATCC 24843) (Fission yeast)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Acts in a DNA repair pathway for removal of UV-induced DNA damage that is distinct from classical nucleotide excision repair and in repair of ionizing radiation damage. Functions in homologous recombination repair of DNA double strand breaks and in recovery of stalled replication forks. Plays a critical role in meiosis.

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi51 – 58ATPSequence analysis8

GO - Molecular functioni

GO - Biological processi

Keywordsi

Biological processDNA damage, DNA recombination, DNA repair, Meiosis
LigandATP-binding, Nucleotide-binding

Names & Taxonomyi

Protein namesi
Recommended name:
Structural maintenance of chromosomes protein 5
Alternative name(s):
DNA repair protein spr18
SMC partner of rad18
Gene namesi
Name:smc5
Synonyms:spr18
ORF Names:SPAC14C4.02c
OrganismiSchizosaccharomyces pombe (strain 972 / ATCC 24843) (Fission yeast)
Taxonomic identifieri284812 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaTaphrinomycotinaSchizosaccharomycetesSchizosaccharomycetalesSchizosaccharomycetaceaeSchizosaccharomyces
Proteomesi
  • UP000002485 Componenti: Chromosome I

Organism-specific databases

EuPathDBiFungiDB:SPAC14C4.02c.
PomBaseiSPAC14C4.02c. smc5.

Subcellular locationi

GO - Cellular componenti

  • barrier septum Source: UniProtKB-SubCell
  • cytosol Source: PomBase
  • mitotic spindle Source: PomBase
  • mitotic spindle pole body Source: PomBase
  • nucleus Source: PomBase
  • Smc5-Smc6 complex Source: PomBase

Keywords - Cellular componenti

Chromosome, Cytoplasm, Cytoskeleton, Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001190191 – 1076Structural maintenance of chromosomes protein 5Add BLAST1076

Proteomic databases

MaxQBiO13710.
PRIDEiO13710.

Interactioni

Subunit structurei

Two subcomplexes smc5-smc6-nse2 and nse1-nse3-nse4 exist. These subcomplexes are then brought together via a number of interactions, forming the Smc5-Smc6 complex. Interacts also with rad60.7 Publications

Binary interactionsi

Show more details

Protein-protein interaction databases

BioGridi278084. 8 interactors.
IntActiO13710. 8 interactors.
MINTiMINT-4667337.
STRINGi4896.SPAC14C4.02c.1.

Structurei

Secondary structure

11076
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Helixi411 – 432Combined sources22
Helixi437 – 448Combined sources12
Helixi450 – 452Combined sources3
Helixi461 – 464Combined sources4
Beta strandi466 – 469Combined sources4
Helixi470 – 472Combined sources3
Helixi473 – 485Combined sources13
Beta strandi487 – 492Combined sources6
Helixi493 – 506Combined sources14
Beta strandi512 – 515Combined sources4
Helixi524 – 526Combined sources3
Helixi533 – 538Combined sources6
Helixi545 – 548Combined sources4
Helixi553 – 562Combined sources10
Helixi565 – 567Combined sources3
Beta strandi569 – 573Combined sources5
Helixi577 – 584Combined sources8
Beta strandi593 – 595Combined sources3
Beta strandi597 – 600Combined sources4
Beta strandi603 – 609Combined sources7
Beta strandi617 – 623Combined sources7
Helixi637 – 688Combined sources52

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
5MG8X-ray2.75A/C366-692[»]
ProteinModelPortaliO13710.
SMRiO13710.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni399 – 629Flexible hingeAdd BLAST231

Coiled coil

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Coiled coili184 – 275Sequence analysisAdd BLAST92
Coiled coili328 – 398Sequence analysisAdd BLAST71
Coiled coili630 – 693Sequence analysisAdd BLAST64
Coiled coili767 – 816Sequence analysisAdd BLAST50
Coiled coili866 – 907Sequence analysisAdd BLAST42

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Compositional biasi966 – 1001Ala/Asp-rich (DA-box)Add BLAST36

Domaini

The flexible hinge domain, which separates the large intramolecular coiled coil regions, allows the heterotypic interaction with the corresponding domain of smc6, forming a V-shaped heterodimer.By similarity

Sequence similaritiesi

Belongs to the SMC family. SMC5 subfamily.Curated

Keywords - Domaini

Coiled coil

Phylogenomic databases

InParanoidiO13710.
OMAiMVEIELF.
OrthoDBiEOG092C0RBU.

Family and domain databases

InterProiView protein in InterPro
IPR027417. P-loop_NTPase.
IPR027131. SMC5.
PANTHERiPTHR19306:SF7. PTHR19306:SF7. 1 hit.
SUPFAMiSSF52540. SSF52540. 3 hits.

Sequencei

Sequence statusi: Complete.

O13710-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MDGLRPSKRR KSNPLYSDYA LGSIVRIKLV NFVTYDYCEL FPGPYLNLII
60 70 80 90 100
GPNGTGKSTI VSAICIGLGW PPKLLGRAKE AREFIKYGKN TATIEIEMKY
110 120 130 140 150
RDDETVTITR QISQDKSSSF SINREACATS SITSLMDTFN VQLNNLCHFL
160 170 180 190 200
PQDRVAEFAQ LDPYSRLMET ERAIDHEGLL PAHEKLIDLR KREREILQNK
210 220 230 240 250
NQGQSTLNSL KDRQQALEKE VNIFKEREKI KSYIEMLGLA KMLVIYREKT
260 270 280 290 300
NVFNQLRADK KKLKKDLKDL VEEFQPILDK GEELRSDLKL KDDTFNDYSS
310 320 330 340 350
ASMELNTSNL RARASFSNFM ENEKKLYEKV NTNRTLLRNA NLTLNEAQQS
360 370 380 390 400
VKSLTERQGP RPSDNGVQDL QEKMQEVNAE KLQHENEKLE SSHELGSIRT
410 420 430 440 450
LKAQKLIDLD NIKRELSYYN DATKRKLDFM SSAPGWEDAY QTYQLLKEYE
460 470 480 490 500
SAFEAPAYGP IYMNLKCKEK GFAALIEGFF RTDTFRTFIM SNYNDYLKLM
510 520 530 540 550
DLITSKTKYT PTIREFSSER KKKIEDFEPP CSREKLQSFG FDGYVIDFLE
560 570 580 590 600
GPEVVLVALC HMLKIHQIPI AKRELPPASV NALNNFRLAN GDPVLKTYLA
610 620 630 640 650
GSSIHLVFRS AYGDREITRR TDPLPSRSIY FSENVEMDLV KRKEEQLNAQ
660 670 680 690 700
LSQLENLQNE ERKLQEKVNE HESLLSRTND ILSTLRKERD EKLIPIHEWQ
710 720 730 740 750
QLQERIEHQT LLLRQREKVP EQFAAEIEKN EDIRKENFEA LMNSVLKVKE
760 770 780 790 800
NSIKATNNFE KMLGSRLNVI EAKYKLEKHE MDANQVNARL TEVQDRLKDI
810 820 830 840 850
TDKLASARED AMSLYGSVVD SLQTQSSDRQ TAITELNEEF ATSSEVDNKI
860 870 880 890 900
SIEETKLKFM NVNSYVMEQY DARKKEIEEL ESKMSDFDQS VEELQDEMNS
910 920 930 940 950
IKEDWVSKLE ENVQCISDRF SKGMSGMGYA GEVRLGKSDD YDKWYIDILV
960 970 980 990 1000
QFREEEGLQK LTGQRQSGGE RSVSTIMYLL SLQGLAIAPF RIVDEINQGM
1010 1020 1030 1040 1050
DPRNERVVHR HIVNSVCDNA VSQYFLVTPK LLPDLTYHRN LKVLCICNGA
1060 1070
WLPATFRTSL STYFEKLKKS ALISSS
Length:1,076
Mass (Da):124,261
Last modified:April 18, 2012 - v3
Checksum:i40D07ABB385D73DA
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AJ277543 Genomic DNA. Translation: CAB89122.1.
CU329670 Genomic DNA. Translation: CAB11195.2.
PIRiT37687.
RefSeqiNP_594907.2. NM_001020338.2.

Genome annotation databases

EnsemblFungiiSPAC14C4.02c.1; SPAC14C4.02c.1:pep; SPAC14C4.02c.
GeneIDi2541587.
KEGGispo:SPAC14C4.02c.

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.

Entry informationi

Entry nameiSMC5_SCHPO
AccessioniPrimary (citable) accession number: O13710
Entry historyiIntegrated into UniProtKB/Swiss-Prot: July 15, 1998
Last sequence update: April 18, 2012
Last modified: July 5, 2017
This is version 138 of the entry and version 3 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Direct protein sequencing, Reference proteome

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  2. Schizosaccharomyces pombe
    Schizosaccharomyces pombe: entries and gene names
  3. SIMILARITY comments
    Index of protein domains and families