Skip Header

You are using a version of Internet Explorer that may not display all features of this website. Please upgrade to a modern browser.
Contribute Send feedback
Read comments (?) or add your own

Q54IZ9 (RPC2_DICDI) Reviewed, UniProtKB/Swiss-Prot

Last modified July 9, 2014. Version 72. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (3) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
DNA-directed RNA polymerase III subunit rpc2

Short name=RNA polymerase III subunit C2
EC=2.7.7.6
Alternative name(s):
DNA-directed RNA polymerase III subunit B

Cleaved into the following chain:

  1. Ddi rpc2 intein
Gene names
Name:polr3b
Synonyms:rpc2
ORF Names:DDB_G0288449
OrganismDictyostelium discoideum (Slime mold) [Reference proteome]
Taxonomic identifier44689 [NCBI]
Taxonomic lineageEukaryotaAmoebozoaMycetozoaDictyosteliidaDictyostelium

Protein attributes

Sequence length1608 AA.
Sequence statusComplete.
Sequence processingThe displayed sequence is further processed into a mature form.
Protein existenceInferred from homology

General annotation (Comments)

Function

DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Second largest core component of RNA polymerase III which synthesizes small RNAs, such as 5S rRNA and tRNAs. Proposed to contribute to the polymerase catalytic activity and forms the polymerase active center together with the largest subunit. Pol III is composed of mobile elements and rpc2 is part of the core element with the central large cleft and probably a clamp element that moves to open and close the cleft By similarity.

Catalytic activity

Nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1).

Subunit structure

Component of the RNA polymerase III (Pol III) complex.

Subcellular location

Nucleus 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.

Sequence similarities

Belongs to the RNA polymerase beta chain family.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 505505DNA-directed RNA polymerase III subunit rpc2, 1st part Potential
PRO_0000328068
Chain506 – 969464Ddi rpc2 intein Potential
PRO_0000328069
Chain970 – 1608639DNA-directed RNA polymerase III subunit rpc2, 2nd part Potential
PRO_0000328070

Regions

Zinc finger1557 – 157216C4-type
Compositional bias612 – 62413Poly-Asn
Compositional bias720 – 7267Poly-Gln
Compositional bias731 – 7377Poly-Gln
Compositional bias899 – 9079Poly-Asn

Sites

Metal binding15571Zinc By similarity
Metal binding15601Zinc By similarity
Metal binding15691Zinc By similarity
Metal binding15721Zinc By similarity

Sequences

Sequence LengthMass (Da)Tools
Q54IZ9 [UniParc].

Last modified May 24, 2005. Version 1.
Checksum: 16D3C2AC009EAF5A

FASTA1,608183,030
        10         20         30         40         50         60 
MDPESVGYCN NPDFLHKGSM DELYNISKLT DDIKPVEEKW KLVPAFMKCR GLVKQHIDSF 

        70         80         90        100        110        120 
NFFINVEMKK IVKANERLTA ENDPSYFVRF TDINVGSPTS TEDNLDSVQL TPQRCRLRDM 

       130        140        150        160        170        180 
TYSAPIFVNI EYTRNKQIIS KRDVHIGNIP IMLRSSNCVL SKKTPEQMAA LGECPMDPGG 

       190        200        210        220        230        240 
YFIVRGQEKV ILNHEQLSKN RIIIEMDSKG LPSASVTSST HERKSRTGVT LKNEKLYLKH 

       250        260        270        280        290        300 
NTFGEDIPVA IVLKGMGVET DQEMAQLVGS DDVFLNAITP SLEECQKCGV HTAAQALDYL 

       310        320        330        340        350        360 
GSRIKVFRRP YGVQNKKTKS EEARDILAGV VLNHVPVRRY NFRLKVIYLS LMIRRIIMAS 

       370        380        390        400        410        420 
KDKSCLDDKD YYGNKRIELS GQLISLLFED CFKKFQSELK KSVDQAIAKA NRAENLDLPK 

       430        440        450        460        470        480 
LIRTDTITNG FTHAISSGQW NLKRFRMERS GVSQVLSRLS YISCMGMMTR IQSQFEKTRK 

       490        500        510        520        530        540 
VAGPRSLQPS QWGMLCPSDT PEGEACLHPD TIITMSNGQQ KPIRQLKDGD SIITLDPITM 

       550        560        570        580        590        600 
EAHSTRIYSH FIKSSSQYGK QLLKITTITG KEIICTNDHR FLTSNGNWKQ SKDLLLNDKL 

       610        620        630        640        650        660 
FLISSSNQLE FNNNNNENNN ENNNDIIEIL NENQLINQGV VPIKIIQELK SIELLPLLNN 

       670        680        690        700        710        720 
NEKLITISRI IGSIDKIGSN KQNEPIIQYQ FNLISDFDQF LKDLQYLGFI NPIYKLNEEQ 

       730        740        750        760        770        780 
QQQQQQKIDH QQQQQQQVEQ QQKSIIIDFI GSSFGYFIQS LLNEKNWIEK SNNQFVKKEF 

       790        800        810        820        830        840 
LSSFISNVNR IQFNIIEEIN QQNNDSNFKI LLNYKQQKQQ QNEKEERAVV DHDNEIFNIK 

       850        860        870        880        890        900 
SLQILLNQFN VISSIDFEES NLIIINSSLK KFIDLINIKF NQKLNNQIIQ IREYLNYINY 

       910        920        930        940        950        960 
NNNNNNNEEI NIKKKDFGYF KKLKIKRNSF EIEIEKIEQL NYQDCPEISD FTTESDYHSM 

       970        980        990       1000       1010       1020 
ISNGFVSHNC GLVKNFALMS HVTTDDSEGP LLRLAYNLGV QDILLVTGEE LNSRNAYLVL 

      1030       1040       1050       1060       1070       1080 
LNGQIIGIHN SPDYFVTTLR KMRRAGRIRE FVSICKNKAQ QTISVACDGG RLCRPVIIVD 

      1090       1100       1110       1120       1130       1140 
DQRPRLTQEH IEDLKDGLRT FDDFIREGII EYLDVNEEND SFLAWREAAI QPWTTHLEIE 

      1150       1160       1170       1180       1190       1200 
PFTMLGCVAG LIPYPHHNQS PRNTYQCAMG KQAIGAIAYN QLTRIDTLLY LLVHTQRPLC 

      1210       1220       1230       1240       1250       1260 
QTRTIDLLNW YKLPAGHNAT VAVMSYSGYD IEDALVMNKA SLDRGFGRCI VLKKQVTSIK 

      1270       1280       1290       1300       1310       1320 
KHGNDTSDRI FPPTPNDLRQ PKYGLLDSDG IAKPGELAQK GQILVNKYSP LNTIDATPNP 

      1330       1340       1350       1360       1370       1380 
ELIPDSAYKS SYMGYKYDNP AFIDKVLLTS GDDEQLLIKM LMRSTRRPEL GDKFSSRHGQ 

      1390       1400       1410       1420       1430       1440 
KGVCGIIVKQ EDMPFSDLGI CPDIIMNPHG FPSRMTIGKM IELLAGKAGV LSGKFGFGTC 

      1450       1460       1470       1480       1490       1500 
FGGDRVENIS KVLISKGFSY GGKDYVTSGV TGEPLACFIF FGPIFYQKLK HMVMDKMHAR 

      1510       1520       1530       1540       1550       1560 
ARGPTVTLTR QPTEGRARGG GLRLGEMERD CLIGYGASAL IMERLMISSD RFTVYACKNC 

      1570       1580       1590       1600 
GFLGYEGYCQ YCKSSVDIST IQIPYACKLL FQELQAMNIV PRLKLVDS 

« Hide

References

« Hide 'large scale' references
[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. expand/collapse author list , 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.
[2]"Multiple, non-allelic, intein-coding sequences in eukaryotic RNA polymerase genes."
Goodwin T.J., Butler M.I., Poulter R.T.
BMC Biol. 4:38-38(2006) [PubMed] [Europe PMC] [Abstract]
Cited for: IDENTIFICATION OF INTEIN, NOMENCLATURE.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
AAFI02000111 Genomic DNA. Translation: EAL63250.1.
RefSeqXP_636731.1. XM_631639.1.

3D structure databases

ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

STRING44689.DDB_0216313.

Proteomic databases

PRIDEQ54IZ9.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblProtistsDDB0216313; DDB0216313; DDB_G0288449.
GeneID8626608.
KEGGddi:DDB_G0288449.

Organism-specific databases

dictyBaseDDB_G0288449. rpc2.

Phylogenomic databases

eggNOGCOG0085.
OMAQIPYACK.

Family and domain databases

Gene3D2.170.16.10. 2 hits.
2.40.270.10. 2 hits.
2.40.50.150. 1 hit.
3.90.1110.10. 1 hit.
InterProIPR015712. DNA-dir_RNA_pol_su2.
IPR007120. DNA-dir_RNA_pol_su2_6.
IPR028992. Hedgehog/Intein_dom.
IPR003587. Hint_dom_N.
IPR006141. Intein_splice_site.
IPR007121. RNA_pol_bsu_CS.
IPR007644. RNA_pol_bsu_protrusion.
IPR007642. RNA_pol_Rpb2_2.
IPR007645. RNA_pol_Rpb2_3.
IPR007646. RNA_pol_Rpb2_4.
IPR007647. RNA_pol_Rpb2_5.
IPR007641. RNA_pol_Rpb2_7.
IPR014724. RNA_pol_RPB2_OB-fold.
[Graphical view]
PANTHERPTHR20856. PTHR20856. 1 hit.
PfamPF04563. RNA_pol_Rpb2_1. 1 hit.
PF04561. RNA_pol_Rpb2_2. 1 hit.
PF04565. RNA_pol_Rpb2_3. 1 hit.
PF04566. RNA_pol_Rpb2_4. 1 hit.
PF04567. RNA_pol_Rpb2_5. 1 hit.
PF00562. RNA_pol_Rpb2_6. 1 hit.
PF04560. RNA_pol_Rpb2_7. 1 hit.
[Graphical view]
SMARTSM00306. HintN. 1 hit.
[Graphical view]
SUPFAMSSF51294. SSF51294. 2 hits.
TIGRFAMsTIGR01443. intein_Cterm. 1 hit.
TIGR01445. intein_Nterm. 1 hit.
PROSITEPS50818. INTEIN_C_TER. 1 hit.
PS50817. INTEIN_N_TER. 1 hit.
PS01166. RNA_POL_BETA. 1 hit.
[Graphical view]
ProtoNetSearch...

Other

PROQ54IZ9.

Entry information

Entry nameRPC2_DICDI
AccessionPrimary (citable) accession number: Q54IZ9
Entry history
Integrated into UniProtKB/Swiss-Prot: April 8, 2008
Last sequence update: May 24, 2005
Last modified: July 9, 2014
This is version 72 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)

Relevant documents

SIMILARITY comments

Index of protein domains and families

Intein-containing proteins

List of intein-containing protein entries

Dictyostelium discoideum

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