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Reviewed, UniProtKB/Swiss-Prot Q58907 (RGYR_METJA)

Last modified November 24, 2009. Version 68. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (3) | Third-party data | Customize display text xml rdf/xml gff fasta
Names and origin · Protein attributes · General annotation (Comments) · Ontologies · Sequence annotation (Features) · Sequences · References · Cross-references · Entry information · Relevant documents

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Names and origin

Protein namesRecommended name:
    Reverse gyrase
Cleaved into the following chain:
    1- Recommended name:
            Mja r-Gyr intein
Including the following 2 domains:
    1- Recommended name:
            Helicase
              EC=3.6.1.-
    2- Recommended name:
            Topoisomerase
              EC=5.99.1.3
Gene names
Name: rgy
Ordered Locus Names: MJ1512
OrganismMethanocaldococcus jannaschii (Methanococcus jannaschii) [Complete proteome] [HAMAP]
Taxonomic identifier2190 [NCBI]
Taxonomic lineageArchaea › Euryarchaeota › Methanococci › Methanococcales › Methanocaldococcaceae › Methanocaldococcus

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Protein attributes

Sequence length1613 AA.
Sequence statusComplete.
Sequence processingThe displayed sequence is further processed into a mature form.
Protein existenceInferred from homology.

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General annotation (Comments)

Function

Modifies the topological state of DNA by introducing positive supercoils in an ATP-dependent process. It cleaves transiently a single DNA strand and remains covalently bound to the 5' DNA end through a tyrosine residue. May be involved in rewinding the DNA strands in the regions of the chromosome that have opened up to allow transcription or replication By similarity.

Catalytic activity

ATP-dependent breakage, passage and rejoining of double-stranded DNA. HAMAP MF_01125

Subunit structure

Monomer By similarity.

Domain

Both the DNA unwinding and positive supercoiling activities require the cooperation of both domains. The cooperative action between the helicase-like and the topoisomerase domains is specific. The helicase-like domain probably does not directly unwind DNA but acts more likely by driving ATP-dependent conformational changes within the whole enzyme, functioning more like a protein motor. The "latch" region of the N-terminal domain plays a regulatory role in the enzyme, repressing topoisomerase activity in the absence of ATP and therefore preventing the enzyme from acting as an ATP-independent relaxing enzyme; it also helps to coordinate nucleotide hydrolysis by the ATPase domain with the supercoiling activity of the topoisomerase domain By similarity.

Post-translational modification

This protein undergoes a protein self splicing that involves a post-translational excision of the intervening region (intein) followed by peptide ligation Potential.

Miscellaneous

This enzyme is the only unique feature of hyperthermophilic bacteria/archaea discovered so far. It appears to be essential for adaptation to life at high temperatures. HAMAP MF_01125

Sequence similarities

In the N-terminal section; belongs to the DEAD box helicase family. DDVD subfamily.

In the C-terminal section; belongs to the prokaryotic type I/III topoisomerase family.

Contains 1 DOD-type homing endonuclease domain.

Contains 1 helicase ATP-binding domain.

Contains 1 helicase C-terminal domain.

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Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 866866Reverse gyrase, 1st part Potential
PRO_0000030353
Chain867 – 1360494Mja r-Gyr intein Potential
PRO_0000030354
Chain1361 – 1613253Reverse gyrase, 2nd part Potential
PRO_0000030355

Regions

Domain87 – 291205Helicase ATP-binding
Domain310 – 525216Helicase C-terminal
Domain1070 – 1199130DOD-type homing endonuclease
Zinc finger10 – 3021C4-type By similarity
Nucleotide binding100 – 1078ATP By similarity
Region556 – 16131058Topoisomerase I HAMAP MF_01125
Motif203 – 2064DDVD box HAMAP MF_01125

Sites

Active site13631For DNA cleavage activity By similarity
Binding site831ATP By similarity

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Sequences

Sequence LengthMass (Da)Tools
Q58907-1 [UniParc].

Last modified November 1, 1996. Version 1.
Checksum: 7170C4E120237AE3

FASTA1,613188,257
        10         20         30         40         50         60 
MIPMIYKEMC PNCNGEITSE RLAIGVCEKC LKEENVFEKL KLCEKLREEK TLKNLKDYCI 

        70         80         90        100        110        120 
IWNEFKEFEE FVKDLGFELL SIQKMWAKRV LKNKSFSIVV PTGVGKSFFG ILMSLFLAKK 

       130        140        150        160        170        180 
GKRCYIILPT TLLVKQTYEK ISSLTEKNNL NIRVVAYHSE LSTKEKKEVK ERIENNDYDV 

       190        200        210        220        230        240 
LITTSNYLTK NMPKCKFDFV FVDDVDALLK ASKNIDRTLK LLGFDEEIIN EAYKIIYLIK 

       250        260        270        280        290        300 
IGKIEDAMKK REILKKKISK IKHGCLIIAS ATGKSYGDRV KLYRELLDFE IGFGMNKLRD 

       310        320        330        340        350        360 
VVDIYDEEFS KEKILEYIKL FGSGGIVFVS IDYGVEKAQE IEKYLLENNI KAKLIHSKDK 

       370        380        390        400        410        420 
KGFDDFREGK IDVLIGVASY YGVLVRGLDM PERVRYAIFY GIPKFKIRLK EYINSLKEKG 

       430        440        450        460        470        480 
ELKEDINIEG KTEEEIRQII TEKLKIKNFS LRKEDDEYLL LIPDVKTYIQ ASGRTSRMTE 

       490        500        510        520        530        540 
FGLTKGASIV LVDEKEIFEA LKKYMLFMYE SEFKRIDEVN LEELIKKIDE DREKIKVGRA 

       550        560        570        580        590        600 
KGKVPDLLKS VLMVVESPNK ARTIANFFGK PSVRKINNRN VYEVCIGDLN LIITASGGHV 

       610        620        630        640        650        660 
FDLVTKEGFY GVKIENNLYI PIYTSIKKVN GEQFTDQKDL EELIKQLMEK GERVNAMDAK 

       670        680        690        700        710        720 
ENIEIIREIA DEVDAIFIAT DIDTEGEKIG YDIAINALPF NRNIYRVGFN EITKRAILKA 

       730        740        750        760        770        780 
VESFKKGEEL SLDENKVKGQ VVRRIEDRWI GFRLSQKLWE VFNKNYLSAG RVQTPVLGWI 

       790        800        810        820        830        840 
IERYNEHKIK VPYLSLKLEN DIYIGKIWED EFDKDEVEVE VKVYEKEIPP LPPFTTDTLL 

       850        860        870        880        890        900 
EEATKRFGLS TDEIMSIAQE LFELGLCLTP DTYVVLGDGR IETIEDIVNA KERNVLSLDL 

       910        920        930        940        950        960 
DNLSIKIDTA IKFWKLRYNG NLSKITLSNN YELKATPDHC LLVLRDNQLK WIPAKDIKEN 

       970        980        990       1000       1010       1020 
DYIAMPFNYK VERKPISLLN LLKYLDITDV LIEFDENSTI FEKIAEYIRN NIKTSTKYKY 

      1030       1040       1050       1060       1070       1080 
LRNRRVPLKY LIEWNFDLDE IEKEAKYIYK SVAGTKKIPL FKLDERFWYF AGLVLGDGSI 

      1090       1100       1110       1120       1130       1140 
QDSKIRIAQT PLKDVKSILD ETFPFLHNWI SGNQVIISNP IIAEILEKLG MRNGKLNGII 

      1150       1160       1170       1180       1190       1200 
FSLPESYINA LIAGYFDTDG CFSLLYDKKA KKHNLRMVLT SKRRDVLEKI GIYLNSIGIL 

      1210       1220       1230       1240       1250       1260 
NTLHKSREVY SLIISNKSLE TFKEKIAKYL KIRKEAFING YKTYKKEHEE RFECDLLPVK 

      1270       1280       1290       1300       1310       1320 
EVFKKLTFEK GRKEILKDSK IHIENWYKEK TNNIPREKLK TVLRYANNSE HKEFLEKIVN 

      1330       1340       1350       1360       1370       1380 
GDISFVRVKK VENIPYDGYV YDLSIKHNQN FISNGVISHN CTYHRTSSTR VSLDGMRVAR 

      1390       1400       1410       1420       1430       1440 
EYLKLNNLED YLKNREYFME GAHECIRPTK PMNTDELIEF LKENNIKLTK NHIKVYDLIF 

      1450       1460       1470       1480       1490       1500 
RRFIASQMKE AVVEYEEIYI KDLDEKVEGY VDIKFDGWSR IYNLKLKKLP RIEKSSLKVL 

      1510       1520       1530       1540       1550       1560 
DKKLRKIPKV PLYDEGEVVK LMKERGIGRP STYAQIIKKL LDRGYVVKSK DKNKLIPTKL 

      1570       1580       1590       1600       1610 
GIEVYNYLIN NYPHLISEER TRELEEIMDK IENGEVDYIE VLKALHEEIL SIR

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Cross-references

Sequence databases

L77117 Genomic DNA. Translation: AAB99531.1.
PIRG64488.
RefSeqNP_248519.1.

3D structure databases

ModBaseSearch...

Genome annotation databases

GeneID1452419.
GenomeReviewsGene locus MJ1512 in contig L77117_GR.
KEGGmja:MJ1512.
NMPDRfig|243232.1.peg.1556.
TIGRMJ1512.

Phylogenomic databases

HOGENOMQ58907.
OMATSTKYKY

Enzyme and pathway databases

BRENDA5.99.1.3. 256362.

Family and domain databases

HAMAPMF_01125.
[Tree]
InterProIPR014001. DEAD-like_N.
IPR001650. DNA/RNA_helicase_C.
IPR001982. Endonuc_LAG/HNH.
IPR003586. Hedgehog_hint_C.
IPR003587. Hedgehog_hint_N.
IPR014021. Helicase_SF1/SF2_ATP-bd.
IPR006142. INTEIN.
IPR004042. Intein_endonuc.
IPR006141. Intein_splicing_site.
IPR006935. Restrct_endonuc_I_R/III_Res.
IPR005736. Reverse_gyrase.
IPR003601. Topo_IA_2.
IPR013497. Topo_IA_cen.
IPR013824. Topo_IA_cen_sub1.
IPR013826. Topo_IA_cen_sub3.
IPR000380. Topo_IA_core.
IPR003602. Topo_IA_DNA_bd.
IPR006154. Toprim_dom_subgr.
IPR006171. Toprim_domain.
[Graphical view]
Gene3DG3DSA:1.10.460.10. Topo_IA_cen_sub1. 2 hits.
G3DSA:1.10.290.10. Topo_IA_cen_sub3. 1 hit.
PANTHERPTHR11390. Topo_IA. 1 hit.
PfamPF00961. LAGLIDADG_1. 1 hit.
PF04851. ResIII. 1 hit.
PF01131. Topoisom_bac. 3 hits.
PF01751. Toprim. 1 hit.
[Graphical view]
PRINTSPR00379. INTEIN.
PR00417. PRTPISMRASEI.
SMARTSM00487. DEXDc. 1 hit.
SM00490. HELICc. 1 hit.
SM00305. HintC. 1 hit.
SM00306. HintN. 1 hit.
SM00437. TOP1Ac. 1 hit.
SM00436. TOP1Bc. 1 hit.
SM00493. TOPRIM. 1 hit.
[Graphical view]
TIGRFAMsTIGR01443. intein_Cterm. 1 hit.
TIGR01445. intein_Nterm. 1 hit.
TIGR01054. rgy. 1 hit.
PROSITEPS51192. HELICASE_ATP_BIND_1. 1 hit.
PS51194. HELICASE_CTER. 1 hit.
PS50818. INTEIN_C_TER. 1 hit.
PS50819. INTEIN_ENDONUCLEASE. 1 hit.
PS50817. INTEIN_N_TER. 1 hit.
[Graphical view]
ProtoNetSearch...

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Entry information

Entry nameRGYR_METJA
AccessionPrimary (citable) accession number: Q58907
Entry history
Integrated into UniProtKB/Swiss-Prot: February 16, 2004
Last sequence update: November 1, 1996
Last modified: November 24, 2009
This is version 68 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation projectHAMAP (High-quality Automated and Manual Annotation of microbial Proteomes)

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Relevant documents

Intein-containing proteins

List of intein-containing protein entries

Methanococcus jannaschii

Methanococcus jannaschii: entries and gene names

SIMILARITY comments

Index of protein domains and families

Names and origin · Protein attributes · General annotation (Comments) · Ontologies · Sequence annotation (Features) · Sequences · References · Cross-references · Entry information · Relevant documents