P41511 (TOP1_USTMA) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
DNA topoisomerase 1
EC=5.99.1.2

Alternative name(s):
DNA topoisomerase I

Gene names

Name:	TOP1
ORF Names:	UM05101

Organism

Ustilago maydis (strain 521 / FGSC 9021) (Smut fungus)

Taxonomic identifier

237631 [NCBI]

Taxonomic lineage

Eukaryota › Fungi › Dikarya › Basidiomycota › Ustilaginomycotina › Ustilaginomycetes › Ustilaginales › Ustilaginaceae › Ustilago

Protein attributes

Sequence length	1019 AA.
Sequence status	Complete.
Protein existence	Inferred from homology

General annotation (Comments)

Function	Releases the supercoiling and torsional tension of DNA introduced during the DNA replication and transcription by transiently cleaving and rejoining one strand of the DNA duplex. Introduces a single-strand break via transesterification at a target site in duplex DNA. The scissile phosphodiester is attacked by the catalytic tyrosine of the enzyme, resulting in the formation of a DNA-(3'-phosphotyrosyl)-enzyme intermediate and the expulsion of a 5'-OH DNA strand. The free DNA strand than undergoes passage around the unbroken strand thus removing DNA supercoils. Finally, in the religation step, the DNA 5'-OH attacks the covalent intermediate to expel the active-site tyrosine and restore the DNA phosphodiester backbone By similarity.
Catalytic activity	ATP-independent breakage of single-stranded DNA, followed by passage and rejoining.
Subunit structure	Monomer.
Miscellaneous	Eukaryotic topoisomerase I and II can relax both negative and positive supercoils, whereas prokaryotic enzymes relax only negative supercoils.
Sequence similarities	Belongs to the type IB topoisomerase family.

Ontologies

Keywords
Ligand	ATP-binding DNA-binding Nucleotide-binding
Molecular function	Isomerase Topoisomerase
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological process	DNA topological change Inferred from electronic annotation. Source: InterPro
Cellular component	chromosome Inferred from electronic annotation. Source: InterPro
Molecular function	ATP binding Inferred from electronic annotation. Source: UniProtKB-KW DNA topoisomerase (ATP-hydrolyzing) activity Inferred from electronic annotation. Source: InterPro DNA topoisomerase type I activity Inferred from electronic annotation. Source: EC
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 1019	1019	DNA topoisomerase 1		PRO_0000145210
Regions
	Compositional bias	108 – 118	11	Poly-Asp
	Compositional bias	121 – 124	4	Poly-Asp
	Compositional bias	127 – 136	10	Poly-Asp
	Compositional bias	856 – 859	4	Poly-Glu
Sites
	Active site	822	1	O-(3'-phospho-DNA)-tyrosine intermediate By similarity
Experimental info
	Sequence conflict	181	1	P → A in AAC37415. Ref.1
	Sequence conflict	197	1	W → C in AAC37415. Ref.1
	Sequence conflict	341	1	A → G in AAC37415. Ref.1
	Sequence conflict	434	1	W → C in AAC37415. Ref.1
	Sequence conflict	452	1	A → T in AAC37415. Ref.1
	Sequence conflict	1011	1	E → G in AAC37415. Ref.1
	Sequence conflict	1017	1	A → S in AAC37415. Ref.1

Sequences

	Sequence		Length	Mass (Da)
	P41511 [UniParc]. Last modified December 12, 2006. Version 2. Checksum: 7E89EDE7201E7FA2	FASTA	1,019	115,545
	10 20 30 40 50 60 MNSIQVKNEP MLASFASTST NGKAKRSAKP SLFSGSEVSS DDDEEKPLAK RPKVEDSDSD 70 80 90 100 110 120 APLTSTVSSQ NGVQKRSGSS NNDDNDDDSD SDSDAPLTAL VKKSNGSDDD EDDDDDDDEG 130 140 150 160 170 180 DDDDEEDDDD DDDDDDKPLS KSSKSNRKPP KTMSITGSGE KKWDVLIHKG PRFPDPYQPL 190 200 210 220 230 240 PKDVKLKYDG RPVDLPWQTE EIAMFYAVKL ETQHAQNAIF NRNFFDDFKT DLKKYPPRDG 250 260 270 280 290 300 TQIKSFDKLD FRDMYNYWRS LKDAELERKK ALAPSARKRE IEERKAEETK WKICLVDGVE 310 320 330 340 350 360 QRVGNVNVEP PGLFLGRGAH PKAGKVKRRI SPGDITINHS ADHPAPQPPA GMGDWAEVVE 370 380 390 400 410 420 KKDVTWLAYW KENINGQYKY VFLDATSNFK TNSDREKFEK ARKLDTVVKQ IRRDVNKNLK 430 440 450 460 470 480 SKVRHERQIA TIVWLIDNFS LRAGNEKGED EAETYGVCSL RCEHAQIKMP DTIHLEFLGK 490 500 510 520 530 540 DSMKFEEDLK ITNPDVFKNI AMFLKSNGMK DKSGNYVRKK PSDPIFCAPE SGSGKMQPLQ 550 560 570 580 590 600 PNSVNQFLSK YMKGLSAKVF RTYNASVTFQ GLLEQTEEWL KSRPNAAERE INQTNLRLAY 610 620 630 640 650 660 NEANRQVAIL CNHQKTVNPM LLNRNLERTQ DKIFQIRYEI MKEQQKILTF HKVSELKKEF 670 680 690 700 710 720 KVKEHPFMKQ FDKIMQKQDL DAEKVKQYEE QMISDKKSKL ESTFKRQQSE LQYQLEQKGL 730 740 750 760 770 780 TGDDGTPKKG KKAKNVEEEV RSSIKGFKDK KQVDEELKAL NETAKRLEKE RKTNKSQATS 790 800 810 820 830 840 CNFVSSAKKI LSKYEMIKKQ EAELVNKNNT SDVALSTSKL NYIDPRITLA WLKEWDDRLS 850 860 870 880 890 900 DLGQGKAAPK KKVKKEEEEN DIKPKKKDAK GAASKKRAAK TGLANSTGDS EKMELGLQVM 910 920 930 940 950 960 NISQFFANAL QKKFKWAASG DDGRDISAKW VFVKDAQSKM RKLDSAERKG QKGGSMAAMT 970 980 990 1000 1010 DAADSKEAQP KVNCVLKKQT SADRKMSKPI KAVDKTEESD DDLSSDSSDD EDKPLAAVV

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"The topoisomerase I gene from Ustilago maydis: sequence, disruption and mutant phenotype." Gerhold D., Thiyagarajan M., Kmiec E.B. Nucleic Acids Res. 22:3773-3778(1994) [PubMed: 7937091] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA]. Strain: ATCC 90884 / UCM005.
[2]	"Insights from the genome of the biotrophic fungal plant pathogen Ustilago maydis." Kaemper J., Kahmann R., Boelker M., Ma L.-J., Brefort T., Saville B.J., Banuett F., Kronstad J.W., Gold S.E., Mueller O., Perlin M.H., Woesten H.A.B., de Vries R., Ruiz-Herrera J., Reynaga-Pena C.G., Snetselaar K., McCann M., Perez-Martin J. , Feldbruegge M., Basse C.W., Steinberg G., Ibeas J.I., Holloman W., Guzman P., Farman M.L., Stajich J.E., Sentandreu R., Gonzalez-Prieto J.M., Kennell J.C., Molina L., Schirawski J., Mendoza-Mendoza A., Greilinger D., Muench K., Roessel N., Scherer M., Vranes M., Ladendorf O., Vincon V., Fuchs U., Sandrock B., Meng S., Ho E.C.H., Cahill M.J., Boyce K.J., Klose J., Klosterman S.J., Deelstra H.J., Ortiz-Castellanos L., Li W., Sanchez-Alonso P., Schreier P.H., Haeuser-Hahn I., Vaupel M., Koopmann E., Friedrich G., Voss H., Schlueter T., Margolis J., Platt D., Swimmer C., Gnirke A., Chen F., Vysotskaia V., Mannhaupt G., Gueldener U., Muensterkoetter M., Haase D., Oesterheld M., Mewes H.-W., Mauceli E.W., DeCaprio D., Wade C.M., Butler J., Young S.K., Jaffe D.B., Calvo S.E., Nusbaum C., Galagan J.E., Birren B.W. Nature 444:97-101(2006) [PubMed: 17080091] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: 521 / FGSC 9021.
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	L32017 Genomic DNA. Translation: AAC37415.1. AACP01000188 Genomic DNA. Translation: EAK82975.1.
PIR	S53694.
RefSeq	XP_761248.1. XM_756155.1.
3D structure databases
ProteinModelPortal	P41511.
SMR	P41511. Positions 812-837.
ModBase	Search...
Protein-protein interaction databases
STRING	P41511.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblFungi	UM05101T0; UM05101P0; UM05101.
GeneID	3633275.
KEGG	uma:UM05101.1.
Phylogenomic databases
eggNOG	fuNOG07068.
OrthoDB	EOG4BK8C3.
Family and domain databases
InterPro	IPR011010. DNA_brk_join_enz. IPR013034. DNA_topo_domain1. IPR018521. TopoI_AS. IPR001631. TopoI_C. IPR013499. TopoI_C_euk. IPR014711. TopoI_cat_a-hlx-sub_euk. IPR014727. TopoI_cat_a/b-sub_euk. IPR013500. TopoI_cat_euk. IPR008336. TopoI_DNA-bd_euk. IPR013030. TopoI_DNA-bd_mixed-a/b_euk. [Graphical view]
Gene3D	G3DSA:3.90.15.10. TopoI_cat_a-hlx-sub_euk. 1 hit. G3DSA:1.10.132.10. TopoI_cat_a/b-sub_euk. 3 hits. G3DSA:1.10.10.41. TopoI_DNA-bd_a-hlx_euk. 1 hit. G3DSA:2.170.11.10. TopoI_DNA-bd_mixed-a/b_euk. 2 hits.
KO	K03163.
Pfam	PF01028. Topoisom_I. 1 hit. PF02919. Topoisom_I_N. 1 hit. [Graphical view]
PRINTS	PR00416. EUTPISMRASEI.
SMART	SM00435. TOPEUc. 1 hit. [Graphical view]
SUPFAM	SSF56349. DNA_brk_join_enz. 1 hit. SSF56741. TopoI_DNA_bd_euk. 1 hit.
PROSITE	PS00176. TOPOISOMERASE_I_EUK. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

TOP1_USTMA

Accession

Primary (citable) accession number: P41511
Secondary accession number(s): Q4P462

Entry history

Integrated into UniProtKB/Swiss-Prot:	November 1, 1995
Last sequence update:	December 12, 2006
Last modified:	December 14, 2011
This is version 67 of the entry and version 2 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Fungal Protein Annotation Program