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Protein

DNA double-strand break repair Rad50 ATPase

Gene

rad50

Organism
Methanopyrus kandleri (strain AV19 / DSM 6324 / JCM 9639 / NBRC 100938)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Protein inferred from homologyi

Functioni

Part of the Rad50/Mre11 complex, which is involved in the early steps of DNA double-strand break (DSB) repair. The complex may facilitate opening of the processed DNA ends to aid in the recruitment of HerA and NurA. Rad50 controls the balance between DNA end bridging and DNA resection via ATP-dependent structural rearrangements of the Rad50/Mre11 complex.UniRule annotation

Cofactori

Zn2+UniRule annotationNote: Binds 1 zinc ion per homodimer.UniRule annotation

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Binding sitei11ATPUniRule annotation1
Binding sitei139ATPUniRule annotation1
Metal bindingi432ZincUniRule annotation1
Metal bindingi435ZincUniRule annotation1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi31 – 37ATPUniRule annotation7

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Hydrolase

Keywords - Biological processi

DNA damage, DNA repair

Keywords - Ligandi

ATP-binding, Metal-binding, Nucleotide-binding, Zinc

Names & Taxonomyi

Protein namesi
Recommended name:
DNA double-strand break repair Rad50 ATPaseUniRule annotation
Gene namesi
Name:rad50UniRule annotation
Synonyms:sbcC
Ordered Locus Names:MK0690
OrganismiMethanopyrus kandleri (strain AV19 / DSM 6324 / JCM 9639 / NBRC 100938)
Taxonomic identifieri190192 [NCBI]
Taxonomic lineageiArchaeaEuryarchaeotaMethanopyriMethanopyralesMethanopyraceaeMethanopyrus
Proteomesi
  • UP000001826 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001386551 – 876DNA double-strand break repair Rad50 ATPaseAdd BLAST876

Proteomic databases

PRIDEiQ8TXI4.

Interactioni

Subunit structurei

Homodimer. Forms a heterotetramer composed of two Mre11 subunits and two Rad50 subunits.UniRule annotation

Protein-protein interaction databases

STRINGi190192.MK0690.

Structurei

3D structure databases

ProteinModelPortaliQ8TXI4.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini387 – 484Zinc-hookUniRule annotationAdd BLAST98

Coiled coil

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Coiled coili188 – 528UniRule annotationAdd BLAST341
Coiled coili575 – 710UniRule annotationAdd BLAST136

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Compositional biasi782 – 819Ala/Asp-rich (DA-box)Add BLAST38

Domaini

The two conserved Cys that bind zinc constitute the zinc-hook, which separates the large intramolecular coiled coil regions. The 2 Cys residues coordinate one molecule of zinc with the help of the 2 Cys residues of the zinc-hook of another Rad50 molecule, thereby forming a V-shaped homodimer.UniRule annotation

Sequence similaritiesi

Belongs to the SMC family. RAD50 subfamily.UniRule annotation
Contains 1 zinc-hook domain.UniRule annotation

Keywords - Domaini

Coiled coil

Phylogenomic databases

eggNOGiarCOG00368. Archaea.
COG0419. LUCA.
KOiK03546.
OMAiELIDYHE.

Family and domain databases

Gene3Di3.40.50.300. 3 hits.
HAMAPiMF_00449. RAD50. 1 hit.
InterProiIPR003593. AAA+_ATPase.
IPR003959. ATPase_AAA_core.
IPR027417. P-loop_NTPase.
IPR009053. Prefoldin.
IPR022982. Rad50_ATPase_archaeal.
IPR013134. Zn_hook_RAD50.
[Graphical view]
PfamiPF13304. AAA_21. 1 hit.
PF04423. Rad50_zn_hook. 1 hit.
[Graphical view]
SMARTiSM00382. AAA. 1 hit.
[Graphical view]
SUPFAMiSSF46579. SSF46579. 1 hit.
SSF52540. SSF52540. 3 hits.
PROSITEiPS51131. ZN_HOOK. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q8TXI4-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MIERVKIENL RSHSSTEIEF REGINVLVGP NGAGKTTVLE AITLALFPRT
60 70 80 90 100
FRSYDHMIRE GERRAVVEVV FWGADGHKYK VRREFYRGGG QRNPRLYREE
110 120 130 140 150
GDGWKVVASG RAEDVDREVM NALGGVDRDV FREAVYIRQG EIAKLVEATR
160 170 180 190 200
EERKRIVDRT LGLAEFKKAR EQAHELLRVA EAKLETFRER VRDLKGSKKE
210 220 230 240 250
LKRVERELEE LKREVKELEP EVEELKERLN ELREAKREFE RLEGELRLLE
260 270 280 290 300
NKIESLKGRR DDLRKLVEEG KEAERELQRL GDVPSKVREL ENEEAELRRR
310 320 330 340 350
IEELRNLLDD LRSLRNRLES AEEELEGVKR ELEELKDEAG VDPERLVEFK
360 370 380 390 400
DKIVEASERL RDLRREEELK RKLEKVSDEL SELGDREETL QSEYEELQER
410 420 430 440 450
LDEIQGELKE IRVKEKELLE RIESLREAEG ECPVCLRKLP RERAEKLLRD
460 470 480 490 500
AEKELERLQG REEDLRKERR ELKDRLESVR RELEGTKERM WRLRERREEL
510 520 530 540 550
ERELEEIEEL KEELADLSRE LGVEEDRLPE LRDLAVRAES LLRDLERRRG
560 570 580 590 600
DVLRLEKELE RTLDRCEKVI GRTPSGVEDV EEELRRLEEE RDHVGQKLRE
610 620 630 640 650
AEGELERYHN LEEKVKRARE ARKELKRIER DLEDAKGRLE QVERNLEGLR
660 670 680 690 700
ERYGSEDRLE EELESVEKKY ERVRDKLSEV KGRLNGMEKR REELKKQVRK
710 720 730 740 750
YREAKERKER LERVVEVLSL CKEVFRYSRD VAREKVLPAV EREASKILQD
760 770 780 790 800
LSDRYGSLRI EDDGAVIRVS VPGGHFIEAD RMSGGEKIII GLALRLALAM
810 820 830 840 850
VGSSFAPFIM LDEPTVHLDA EHRERLAQAL RELDLGKGRV RQAIVVTHDE
860 870
ELEDAADELW RIENRAGESR VERYSG
Length:876
Mass (Da):103,706
Last modified:June 1, 2002 - v1
Checksum:iD651E682271FD383
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE009439 Genomic DNA. Translation: AAM01904.1.

Genome annotation databases

EnsemblBacteriaiAAM01904; AAM01904; MK0690.
KEGGimka:MK0690.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE009439 Genomic DNA. Translation: AAM01904.1.

3D structure databases

ProteinModelPortaliQ8TXI4.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi190192.MK0690.

Proteomic databases

PRIDEiQ8TXI4.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAM01904; AAM01904; MK0690.
KEGGimka:MK0690.

Phylogenomic databases

eggNOGiarCOG00368. Archaea.
COG0419. LUCA.
KOiK03546.
OMAiELIDYHE.

Family and domain databases

Gene3Di3.40.50.300. 3 hits.
HAMAPiMF_00449. RAD50. 1 hit.
InterProiIPR003593. AAA+_ATPase.
IPR003959. ATPase_AAA_core.
IPR027417. P-loop_NTPase.
IPR009053. Prefoldin.
IPR022982. Rad50_ATPase_archaeal.
IPR013134. Zn_hook_RAD50.
[Graphical view]
PfamiPF13304. AAA_21. 1 hit.
PF04423. Rad50_zn_hook. 1 hit.
[Graphical view]
SMARTiSM00382. AAA. 1 hit.
[Graphical view]
SUPFAMiSSF46579. SSF46579. 1 hit.
SSF52540. SSF52540. 3 hits.
PROSITEiPS51131. ZN_HOOK. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiRAD50_METKA
AccessioniPrimary (citable) accession number: Q8TXI4
Entry historyi
Integrated into UniProtKB/Swiss-Prot: June 21, 2004
Last sequence update: June 1, 2002
Last modified: October 5, 2016
This is version 88 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. 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.