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ONTOLOGY REPORT - ANNOTATIONS

Term:DNA secondary structure binding
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Accession:GO:0000217 term browser browse the term
Definition:Binding to a DNA secondary structure element such as a four-way junction, a bubble, a loop, Y-form DNA, or a double-strand/single-strand junction.


show annotations for term's descendants           Sort by:
DNA secondary structure binding term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Clspn claspin enables ISO
IEA 		(PMID:5226314)
GO_REF:0000107 		RGD
Ensembl		 PMID:5226314 GO_REF:0000107 NCBI chr 5:144,134,619...144,169,531
Ensembl chr 5:144,134,632...144,169,530 		JBrowse link
G Rad51ap1 RAD51 associated protein 1 enables ISO
IEA 		(PMID:17996710)
GO_REF:0000107 		RGD
Ensembl		 PMID:17996710 GO_REF:0000107 NCBI chr 4:161,445,610...161,458,661
Ensembl chr 4:161,445,512...161,458,680 		JBrowse link
G Smc5 structural maintenance of chromosomes 5 enables ISO (PMID:28095508) RGD PMID:28095508 NCBI chr 1:230,195,894...230,265,677
Ensembl chr 1:230,195,894...230,265,621 		JBrowse link
G Smc6 structural maintenance of chromosomes 6 enables ISO
IEA 		(PMID:28095508)
GO_REF:0000107 		RGD
Ensembl		 PMID:28095508 GO_REF:0000107 NCBI chr 6:39,697,810...39,752,275
Ensembl chr 6:39,697,811...39,752,279 		JBrowse link
bubble DNA binding term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Abl1 ABL proto-oncogene 1, non-receptor tyrosine kinase enables ISO
IEA 		(PMID:9558345)
GO_REF:0000107 		RGD
Ensembl		 PMID:9558345 GO_REF:0000107 NCBI chr 3:35,377,587...35,480,843
Ensembl chr 3:35,377,391...35,480,846 		JBrowse link
G Blm BLM RecQ like helicase enables ISO
IEA 		(PMID:11433031), (PMID:11735402)
GO_REF:0000107 		RGD
Ensembl		 PMID:11433031 PMID:11735402 GO_REF:0000107 NCBI chr 1:143,819,072...143,905,300
Ensembl chr 1:143,819,090...143,905,210 		JBrowse link
G Ercc5 ERCC excision repair 5, endonuclease enables ISO (PMID:16246722), (PMID:32821917) RGD PMID:16246722 PMID:32821917 NCBI chr 9:53,801,471...53,846,611
Ensembl chr 9:53,801,714...53,875,084 		JBrowse link
G Hmgb1 high mobility group box 1 enables ISS GO_REF:0000024 AgBase GO_REF:0000024 NCBI chr12:11,009,236...11,015,941
Ensembl chr16:39,039,050...39,041,327
Ensembl chr12:39,039,050...39,041,327 		JBrowse link
G Hmgb1l2 high mobility group box 1 like 2 enables ISS GO_REF:0000024 AgBase GO_REF:0000024 NCBI chr  X:112,467,960...112,469,220
Ensembl chr  X:112,432,846...112,469,219
Ensembl chr16:112,432,846...112,469,219 		JBrowse link
G LOC134483981 high mobility group protein B1-like enables ISS GO_REF:0000024 AgBase GO_REF:0000024 NCBI chr 1:232,223,702...232,226,269
Ensembl chr 1:232,223,273...232,224,642
Ensembl chr16:232,223,273...232,224,642 		JBrowse link
G LOC134485624 high mobility group protein B1-like enables ISS GO_REF:0000024 AgBase GO_REF:0000024 NCBI chr 2:152,634,059...152,634,929
Ensembl chr16:39,039,050...39,041,327 		JBrowse link
G Neil3 nei-like DNA glycosylase 3 enables IEA
ISO 		GO_REF:0000107
(PMID:20185759) 		Ensembl
RGD		 PMID:20185759 GO_REF:0000107 NCBI chr16:45,091,401...45,151,419
Ensembl chr16:45,092,200...45,151,205 		JBrowse link
G Recql4 RecQ like helicase 4 enables ISO (PMID:19177149) RGD PMID:19177149 NCBI chr 7:110,304,092...110,311,426
Ensembl chr 7:110,304,094...110,311,258 		JBrowse link
G Wrn WRN RecQ like helicase enables ISO (PMID:11433031), (PMID:11735402) RGD PMID:11433031 PMID:11735402 NCBI chr16:65,466,552...65,602,951
Ensembl chr16:65,456,254...65,602,951 		JBrowse link
crossed form four-way junction DNA binding term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Hmgb1 high mobility group box 1 enables IDA PMID:10962007 MGI PMID:10962007 RGD:8554262 NCBI chr12:11,009,236...11,015,941
Ensembl chr16:39,039,050...39,041,327
Ensembl chr12:39,039,050...39,041,327 		JBrowse link
D-loop DNA binding term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Hmga1 high mobility group AT-hook 1 enables ISO (PMID:15893306) RGD PMID:15893306 NCBI chr20:5,612,902...5,620,596
Ensembl chr20:5,613,471...5,620,593 		JBrowse link
G Rad51ap1 RAD51 associated protein 1 enables ISO
IEA 		(PMID:17996711)
GO_REF:0000107 		RGD
Ensembl		 PMID:17996711 GO_REF:0000107 NCBI chr 4:161,445,610...161,458,661
Ensembl chr 4:161,445,512...161,458,680 		JBrowse link
DNA hairpin binding term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Nr0b1 nuclear receptor subfamily 0, group B, member 1 enables IEA
ISO
ISS 		GO_REF:0000107
(PMID:9384387)
GO_REF:0000024 		Ensembl
RGD
HGNC-UCL		 PMID:9384387 GO_REF:0000024 GO_REF:0000107 NCBI chr  X:54,707,658...54,711,786
Ensembl chr  X:54,707,639...54,712,083 		JBrowse link
four-way junction DNA binding term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Abl1 ABL proto-oncogene 1, non-receptor tyrosine kinase enables ISO
IEA 		(PMID:9558345)
GO_REF:0000107 		RGD
Ensembl		 PMID:9558345 GO_REF:0000107 NCBI chr 3:35,377,587...35,480,843
Ensembl chr 3:35,377,391...35,480,846 		JBrowse link
G Blm BLM RecQ like helicase enables ISO
IEA 		(PMID:11735402), (PMID:20639533), (PMID:25901030)
GO_REF:0000107 		RGD
Ensembl		 PMID:11735402 PMID:20639533 PMID:25901030 GO_REF:0000107 NCBI chr 1:143,819,072...143,905,300
Ensembl chr 1:143,819,090...143,905,210 		JBrowse link
G Fancm FA complementation group M enables IBA GO_REF:0000033 GO_Central GO_REF:0000033 NCBI chr 6:88,862,898...88,916,701
Ensembl chr 6:88,863,306...88,921,652 		JBrowse link
G Gen1 GEN1 Holliday junction 5' flap endonuclease enables ISO
IEA
IBA 		(PMID:26578604), (PMID:26682650), (PMID:28049850)
GO_REF:0000117
GO_REF:0000033 		RGD
UniProt
GO_Central		 PMID:26578604 PMID:26682650 PMID:28049850 GO_REF:0000033 GO_REF:0000117 NCBI chr 6:39,666,675...39,697,480
Ensembl chr 6:39,667,286...39,697,480 		JBrowse link
G Hmgb1 high mobility group box 1 enables IDA
ISS 		GO_REF:0000024 AgBase
RGD		 PMID:1547772 GO_REF:0000024, RGD:2316829 NCBI chr12:11,009,236...11,015,941
Ensembl chr16:39,039,050...39,041,327
Ensembl chr12:39,039,050...39,041,327 		JBrowse link
G Hmgb1l2 high mobility group box 1 like 2 enables ISS GO_REF:0000024 AgBase GO_REF:0000024 NCBI chr  X:112,467,960...112,469,220
Ensembl chr  X:112,432,846...112,469,219
Ensembl chr16:112,432,846...112,469,219 		JBrowse link
G LOC134483981 high mobility group protein B1-like enables ISS GO_REF:0000024 AgBase GO_REF:0000024 NCBI chr 1:232,223,702...232,226,269
Ensembl chr 1:232,223,273...232,224,642
Ensembl chr16:232,223,273...232,224,642 		JBrowse link
G LOC134485624 high mobility group protein B1-like enables ISS GO_REF:0000024 AgBase GO_REF:0000024 NCBI chr 2:152,634,059...152,634,929
Ensembl chr16:39,039,050...39,041,327 		JBrowse link
G Mecp2 methyl CpG binding protein 2 IDA RGD PMID:16314321 RGD:1601323 NCBI chr  X:156,932,481...156,995,981
Ensembl chr  X:156,941,234...156,943,560 		JBrowse link
G Men1 menin 1 enables ISO
IEA 		(PMID:15331604)
GO_REF:0000107 		RGD
Ensembl		 PMID:15331604 GO_REF:0000107 NCBI chr 1:213,068,166...213,074,132
Ensembl chr 1:213,068,166...213,074,120 		JBrowse link
G Msh2 mutS homolog 2 contributes_to ISO
IEA 		(PMID:12034830)
GO_REF:0000107 		RGD
Ensembl		 PMID:12034830 GO_REF:0000107 NCBI chr 6:12,567,368...12,626,534
Ensembl chr 6:12,567,368...12,626,503 		JBrowse link
G Msh6 mutS homolog 6 contributes_to ISO
IEA 		(PMID:12034830)
GO_REF:0000107 		RGD
Ensembl		 PMID:12034830 GO_REF:0000107 NCBI chr 6:12,316,190...12,333,505
Ensembl chr 6:12,316,198...12,333,844 		JBrowse link
G Rad51b RAD51 paralog B contributes_to ISO
IBA 		(PMID:20207730)
GO_REF:0000033 		RGD
GO_Central		 PMID:20207730 GO_REF:0000033 NCBI chr 6:103,829,390...104,373,923
Ensembl chr 6:103,829,554...104,374,509 		JBrowse link
G Rad51c RAD51 paralog C contributes_to ISO
IEA
IBA 		(PMID:20207730)
GO_REF:0000107
GO_REF:0000033 		RGD
Ensembl
GO_Central		 PMID:20207730 GO_REF:0000033 GO_REF:0000107 NCBI chr10:72,702,299...72,728,980
Ensembl chr10:72,702,299...72,729,143 		JBrowse link
G Rad51d RAD51 paralog D contributes_to ISO (PMID:20207730) RGD PMID:20207730 NCBI chr10:68,303,350...68,322,002
Ensembl chr10:68,238,273...68,321,902 		JBrowse link
G RFFL ring finger and FYVE like domain containing E3 ubiquitin protein ligase enables
contributes_to 		IEA
IBA 		Ensembl
GO_Central		 GO_REF:0000033 GO_REF:0000107
G Wrn WRN RecQ like helicase enables ISO (PMID:11735402) RGD PMID:11735402 NCBI chr16:65,466,552...65,602,951
Ensembl chr16:65,456,254...65,602,951 		JBrowse link
G Xrcc2 X-ray repair cross complementing 2 contributes_to ISO
IEA
IBA 		(PMID:20207730)
GO_REF:0000107
GO_REF:0000033 		RGD
Ensembl
GO_Central		 PMID:20207730 GO_REF:0000033 GO_REF:0000107 NCBI chr 4:10,157,130...10,237,089
Ensembl chr 4:10,157,800...10,176,407 		JBrowse link
G Xrcc3 X-ray repair cross complementing 3 contributes_to ISO
IEA
IBA 		(PMID:20207730)
GO_REF:0000107
GO_REF:0000033 		RGD
Ensembl
GO_Central		 PMID:20207730 GO_REF:0000033 GO_REF:0000107 NCBI chr 6:136,684,558...136,694,822
Ensembl chr 6:136,684,558...136,694,822 		JBrowse link
G Yy1 YY1 transcription factor enables ISO
IEA 		(PMID:18026119)
GO_REF:0000107 		RGD
Ensembl		 PMID:18026119 GO_REF:0000107 NCBI chr 6:133,471,615...133,500,875
Ensembl chr 6:133,471,562...133,497,257 		JBrowse link
minor groove of adenine-thymine-rich DNA binding term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G H1f0 H1.0 linker histone enables ISO (PMID:11413144) RGD PMID:11413144 NCBI chr 7:112,473,280...112,475,140
Ensembl chr 7:112,473,222...112,475,006 		JBrowse link
G Hand2 heart and neural crest derivatives expressed 2 enables ISO
IEA 		(PMID:15486975)
GO_REF:0000107 		RGD
Ensembl		 PMID:15486975 GO_REF:0000107 NCBI chr16:37,928,145...37,931,488
Ensembl chr16:37,928,145...37,931,488 		JBrowse link
G Hmga1 high mobility group AT-hook 1 enables ISO
IBA 		(PMID:9253416)
(PMID:19389484)
GO_REF:0000033 		RGD
GO_Central		 PMID:9253416 PMID:19389484 GO_REF:0000033 NCBI chr20:5,612,902...5,620,596
Ensembl chr20:5,613,471...5,620,593 		JBrowse link
G Hmga2 high mobility group AT-hook 2 enables ISO
IBA
IEA
ISS 		(PMID:14627817), (PMID:17078040), (PMID:17426251), (PMID:18832382), (PMID:20108983), (PMID:21533145)
(PMID:16109425)
GO_REF:0000033
GO_REF:0000107
GO_REF:0000024 		RGD
GO_Central
Ensembl
UniProt		 PMID:14627817 PMID:16109425 PMID:17078040 PMID:17426251 PMID:18832382 More... GO_REF:0000024 GO_REF:0000033 GO_REF:0000107 NCBI chr 7:57,762,710...57,884,555
Ensembl chr 7:57,765,675...57,880,341 		JBrowse link
G Hnrnpd heterogeneous nuclear ribonucleoprotein D IDA RGD PMID:18413351 RGD:10041067 NCBI chr14:9,918,630...9,938,072
Ensembl chr14:9,919,739...9,938,066 		JBrowse link
G Lin54 lin-54 DREAM MuvB core complex component enables ISO
IEA 		(PMID:27465258)
GO_REF:0000107 		RGD
Ensembl		 PMID:27465258 GO_REF:0000107 NCBI chr14:9,434,093...9,514,091
Ensembl chr14:9,434,112...9,492,106 		JBrowse link
G Mef2c myocyte enhancer factor 2C enables ISO (PMID:15486975) RGD PMID:15486975 NCBI chr 2:15,708,732...15,871,639
Ensembl chr 2:15,708,924...15,871,640 		JBrowse link
G Pax6 paired box 6 IDA RGD PMID:12370174 RGD:632189 NCBI chr 3:112,590,034...112,611,771
Ensembl chr 3:112,590,391...112,611,763 		JBrowse link
G Pou3f4 POU class 3 homeobox 4 IDA RGD PMID:9372951 RGD:1599157 NCBI chr  X:79,974,808...79,976,085
Ensembl chr  X:79,974,627...79,987,326 		JBrowse link
G Tcf20 transcription factor 20 enables ISO (PMID:10995766) RGD PMID:10995766 NCBI chr 7:115,833,523...116,009,790
Ensembl chr 7:115,834,416...115,931,915 		JBrowse link
open form four-way junction DNA binding term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Hmgb1 high mobility group box 1 enables IDA PMID:10962007 MGI PMID:10962007 RGD:8554262 NCBI chr12:11,009,236...11,015,941
Ensembl chr16:39,039,050...39,041,327
Ensembl chr12:39,039,050...39,041,327 		JBrowse link
telomeric D-loop binding term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Blm BLM RecQ like helicase enables ISO
IEA 		(PMID:19734539)
GO_REF:0000107 		RGD
Ensembl		 PMID:19734539 GO_REF:0000107 NCBI chr 1:143,819,072...143,905,300
Ensembl chr 1:143,819,090...143,905,210 		JBrowse link
G Pot1 protection of telomeres 1 enables ISO (PMID:19734539) RGD PMID:19734539 NCBI chr 4:55,170,821...55,228,588
Ensembl chr 4:55,170,821...55,228,543 		JBrowse link
G Recql4 RecQ like helicase 4 enables ISO (PMID:22039056) RGD PMID:22039056 NCBI chr 7:110,304,092...110,311,426
Ensembl chr 7:110,304,094...110,311,258 		JBrowse link
G Wrn WRN RecQ like helicase enables ISO (PMID:19734539), (PMID:26420422) RGD PMID:19734539 PMID:26420422 NCBI chr16:65,466,552...65,602,951
Ensembl chr16:65,456,254...65,602,951 		JBrowse link
Y-form DNA binding term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Blm BLM RecQ like helicase enables ISO
IEA 		(PMID:11735402)
GO_REF:0000107 		RGD
Ensembl		 PMID:11735402 GO_REF:0000107 NCBI chr 1:143,819,072...143,905,300
Ensembl chr 1:143,819,090...143,905,210 		JBrowse link
G Men1 menin 1 enables ISO
IBA
IEA 		(PMID:15331604)
GO_REF:0000033
GO_REF:0000107 		RGD
GO_Central
Ensembl		 PMID:15331604 GO_REF:0000033 GO_REF:0000107 NCBI chr 1:213,068,166...213,074,132
Ensembl chr 1:213,068,166...213,074,120 		JBrowse link
G Rad18 RAD18 E3 ubiquitin protein ligase enables ISO
IEA 		(PMID:18363965)
GO_REF:0000107 		RGD
Ensembl		 PMID:18363965 GO_REF:0000107 NCBI chr 4:147,291,463...147,376,904
Ensembl chr 4:147,291,276...147,376,869 		JBrowse link
G Wrn WRN RecQ like helicase enables ISO (PMID:11735402), (PMID:17715146), (PMID:26420422) RGD PMID:11735402 PMID:17715146 PMID:26420422 NCBI chr16:65,466,552...65,602,951
Ensembl chr16:65,456,254...65,602,951 		JBrowse link
Term paths to the root
Path 1
Term Annotations click to browse term
  molecular_function 19971
    binding 17406
      nucleic acid binding 3781
        DNA binding 2354
          DNA secondary structure binding 40
            D-loop DNA binding + 6
            DNA hairpin binding 1
            Y-form DNA binding 4
            bubble DNA binding 10
            double-strand/single-strand DNA junction binding + 0
            four-way junction DNA binding + 20
            heteroduplex DNA loop binding 0
            minor groove of adenine-thymine-rich DNA binding 10
paths to the root