ASpdb: an integrative knowledgebase of human protein isoforms from experimental and AI-predicted structures

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	Protein Summary
	AS Summary
	Protein Functional Features
	Gene Isoform Structures and Expression Levels
	Protein Structures
	pLDDT Score Distribution
	Ramachandran Plot of Protein Structures
	Potential Active Site Information
	Protein Structure and Feature Comparision
	Protein-Protein Interaction
	Related Drugs
	Related Diseases
	Clinically Important Variants

Protein:MBD1

Protein Summary

Gene summary

Gene name: MBD1
ASpdb.0 ID: 4152
	Gene
Gene symbol	MBD1
Gene ID	4152
Gene name	methyl-CpG binding domain protein 1
Synonyms	CXXC3\|PCM1\|RFT
Cytomap	18q21.1
Type of gene	protein-coding
Description	methyl-CpG-binding domain protein 1CXXC-type zinc finger protein 3protein containing MBD 1protein containing methyl-CpG-binding domain 1the regulator of fibroblast growth factor 2 (FGF-2) transcription
Modification date	20240411
UniProtAcc	Q9UIS9

Gene ontology of this gene with evidence of Inferred from Direct Assay (IDA) from Entrez

Partner	Gene	GO ID	GO term	PubMed ID
Gene	MBD1	GO:0005654	nucleoplasm	-
Gene	MBD1	GO:0008270	zinc ion binding	29276034
Gene	MBD1	GO:0008327	methyl-CpG binding	25284789
Gene	MBD1	GO:0010385	double-stranded methylated DNA binding	11371345
Gene	MBD1	GO:0043231	intracellular membrane-bounded organelle	-
Gene	MBD1	GO:0045322	unmethylated CpG binding	29276034

AS Summary

Information of the canonical protein with experimentally identified structure from PDB (2023).

UniProt Acc	File name	PDB ID	Method	Resolution	Chain	Start	End
Q9UIS9-1	Q9UIS9-1_6d1t_A.pdb	6D1T	X-ray	2.25	A	2	70

ASpdb's canonical and alternatively spliced isoform information.

accession_id	gene_name	canonical_id	alternative_id	canonical_length	alternative_length	canonical_start	canonical_end	type	originalSEQ	variationSEQ	alternative_start	alternative_end
Q9UIS9	MBD1	Q9UIS9-1	Q9UIS9-10	605	567	173	221	Deletion	none	none	172	172
Q9UIS9	MBD1	Q9UIS9-1	Q9UIS9-10	605	567	327	327	Deletion	none	none	277	277
Q9UIS9	MBD1	Q9UIS9-1	Q9UIS9-10	605	567	594	605	Substitution	SKDLKKPGARKQ	YYHLALDWKCNCGYHLCCRSVLVP	544	567
Q9UIS9	MBD1	Q9UIS9-1	Q9UIS9-11	605	535	326	382	Substitution	LQPYTNRRQNRKCGACAACLRRMDCGRCDFCCDKPKFGGSNQKRQKCRWRQCLQFAM	L	326	326
Q9UIS9	MBD1	Q9UIS9-1	Q9UIS9-11	605	535	483	528	Deletion	none	none	426	426
Q9UIS9	MBD1	Q9UIS9-1	Q9UIS9-11	605	535	594	605	Substitution	SKDLKKPGARKQ	AGTREGKMDVKCGRPRTQWSPRARAGTHEDGLEPMSVSHHLQLR	492	535
Q9UIS9	MBD1	Q9UIS9-1	Q9UIS9-12	605	655	593	605	Substitution	RSKDLKKPGARKQ	SLQGRHSGREDGCKVWETEDTVEPTSTSWNPRGWPGTHVSLSPPPASMMWVSCRRSWCPSSQS	593	655
Q9UIS9	MBD1	Q9UIS9-1	Q9UIS9-2	605	586	304	326	Deletion	none	none	303	303
Q9UIS9	MBD1	Q9UIS9-1	Q9UIS9-2	605	586	483	528	Deletion	none	none	459	459
Q9UIS9	MBD1	Q9UIS9-1	Q9UIS9-2	605	586	593	605	Substitution	RSKDLKKPGARKQ	SLQGRHSGREDGCKVWETEDTVEPTSTSWNPRGWPGTHVSLSPPPASMMWVSCRRSWCPSSQS	524	586
Q9UIS9	MBD1	Q9UIS9-1	Q9UIS9-4	605	503	327	382	Deletion	none	none	326	326
Q9UIS9	MBD1	Q9UIS9-1	Q9UIS9-4	605	503	483	528	Deletion	none	none	426	426
Q9UIS9	MBD1	Q9UIS9-1	Q9UIS9-5	605	556	173	221	Deletion	none	none	172	172
Q9UIS9	MBD1	Q9UIS9-1	Q9UIS9-6	605	550	483	528	Deletion	none	none	482	482
Q9UIS9	MBD1	Q9UIS9-1	Q9UIS9-6	605	550	573	596	Substitution	ITEIFSLGGTRFRDTAVWLPRSKD	EPTTQPQYSGNFDNDLYEIYLIDI	527	550
Q9UIS9	MBD1	Q9UIS9-1	Q9UIS9-6	605	550	597	605	Deletion	none	none	550	550
Q9UIS9	MBD1	Q9UIS9-1	Q9UIS9-7	605	549	327	382	Deletion	none	none	326	326
Q9UIS9	MBD1	Q9UIS9-1	Q9UIS9-8	605	536	304	326	Deletion	none	none	303	303
Q9UIS9	MBD1	Q9UIS9-1	Q9UIS9-8	605	536	483	528	Deletion	none	none	459	459
Q9UIS9	MBD1	Q9UIS9-1	Q9UIS9-9	605	630	264	264	Substitution	R	RHLAHRLRRRHQRCQRRTPLAVAPPT	264	289

Multiple sequence alignment of our canonical and alternatively spliced MBD1

Matched gene isoform IDs with Ensembl and RefSeq of our canonical and alternative spliced genes of MBD1

UniProt-id	ENSG	ENST	ENSP
Q9UIS9-1	ENSG00000141644.19	ENST00000269468.10	ENSP00000269468.5
Q9UIS9-1	ENSG00000141644.19	ENST00000382948.9	ENSP00000372407.5
Q9UIS9-1	ENSG00000141644.19	ENST00000591416.5	ENSP00000467017.1
Q9UIS9-10	ENSG00000141644.19	ENST00000585672.5	ENSP00000466092.1
Q9UIS9-11	ENSG00000141644.19	ENST00000587605.5	ENSP00000468042.1
Q9UIS9-12	ENSG00000141644.19	ENST00000590208.5	ENSP00000468785.1
Q9UIS9-2	ENSG00000141644.19	ENST00000269471.9	ENSP00000269471.5
Q9UIS9-2	ENSG00000141644.19	ENST00000588937.5	ENSP00000467763.1
Q9UIS9-4	ENSG00000141644.19	ENST00000398488.5	ENSP00000381502.1
Q9UIS9-5	ENSG00000141644.19	ENST00000353909.7	ENSP00000269469.5
Q9UIS9-6	ENSG00000141644.19	ENST00000339998.10	ENSP00000339546.5
Q9UIS9-7	ENSG00000141644.19	ENST00000347968.7	ENSP00000285102.5
Q9UIS9-7	ENSG00000141644.19	ENST00000398493.5	ENSP00000381506.1
Q9UIS9-8	ENSG00000141644.19	ENST00000591535.5	ENSP00000465923.1
Q9UIS9-9	ENSG00000141644.19	ENST00000457839.6	ENSP00000405268.2
Q9UIS9-9	ENSG00000141644.19	ENST00000585595.5	ENSP00000468430.1

UniProt-id	NM ID	NP ID
Q9UIS9-1	NM_001204139.1	NP_001191068.1
Q9UIS9-1	NM_015846.3	NP_056671.2
Q9UIS9-1	XM_005258271.2	XP_005258328.1
Q9UIS9-10	NM_001204141.1	NP_001191070.1
Q9UIS9-11	NM_001204143.1	NP_001191072.1
Q9UIS9-12	NM_001204136.1	NP_001191065.1
Q9UIS9-2	NM_015845.3	NP_056670.2
Q9UIS9-4	NM_002384.2	NP_002375.1
Q9UIS9-4	XM_017025776.1	XP_016881265.1
Q9UIS9-5	NM_015847.3	NP_056723.2
Q9UIS9-6	NM_001204142.1	NP_001191071.1
Q9UIS9-7	NM_015844.2	NP_056669.2
Q9UIS9-7	XM_017025770.1	XP_016881259.1
Q9UIS9-8	NM_001204151.2	NP_001191080.1
Q9UIS9-9	NM_001204137.1	NP_001191066.1

Amino acid sequences of our canonical and alternatively spliced MBD1

accession_id	Protein sequence
Q9UIS9-1	MAEDWLDCPALGPGWKRREVFRKSGATCGRSDTYYQSPTGDRIRSKVELTRYLGPACDLTLFDFKQGILCYPAPKAHPVAVASKKRKKPS RPAKTRKRQVGPQSGEVRKEAPRDETKADTDTAPASFPAPGCCENCGISFSGDGTQRQRLKTLCKDCRAQRIAFNREQRMFKRVGCGECA ACQVTEDCGACSTCLLQLPHDVASGLFCKCERRRCLRIVERSRGCGVCRGCQTQEDCGHCPICLRPPRPGLRRQWKCVQRRCLRGKHARR KGGCDSKMAARRRPGAQPLPPPPPSQSPEPTEPHPRALAPSPPAEFIYYCVDEDELQPYTNRRQNRKCGACAACLRRMDCGRCDFCCDKP KFGGSNQKRQKCRWRQCLQFAMKRLLPSVWSESEDGAGSPPPYRRRKRPSSARRHHLGPTLKPTLATRTAQPDHTQAPTKQEAGGGFVLP PPGTDLVFLREGASSPVQVPGPVAASTEALLQEAQCSGLSWVVALPQVKQEKADTQDEWTPGTAVLTSPVLVPGCPSKAVDPGLPSVKQE
Q9UIS9-10	MAEDWLDCPALGPGWKRREVFRKSGATCGRSDTYYQSPTGDRIRSKVELTRYLGPACDLTLFDFKQGILCYPAPKAHPVAVASKKRKKPS RPAKTRKRQVGPQSGEVRKEAPRDETKADTDTAPASFPAPGCCENCGISFSGDGTQRQRLKTLCKDCRAQRIAFNREQRMFKSRGCGVCR GCQTQEDCGHCPICLRPPRPGLRRQWKCVQRRCLRGKHARRKGGCDSKMAARRRPGAQPLPPPPPSQSPEPTEPHPRALAPSPPAEFIYY CVDEDELPYTNRRQNRKCGACAACLRRMDCGRCDFCCDKPKFGGSNQKRQKCRWRQCLQFAMKRLLPSVWSESEDGAGSPPPYRRRKRPS SARRHHLGPTLKPTLATRTAQPDHTQAPTKQEAGGGFVLPPPGTDLVFLREGASSPVQVPGPVAASTEALLQEAQCSGLSWVVALPQVKQ EKADTQDEWTPGTAVLTSPVLVPGCPSKAVDPGLPSVKQEPPDPEEDKEENKDDSASKLAPEEEAGGAGTPVITEIFSLGGTRFRDTAVW
Q9UIS9-11	MAEDWLDCPALGPGWKRREVFRKSGATCGRSDTYYQSPTGDRIRSKVELTRYLGPACDLTLFDFKQGILCYPAPKAHPVAVASKKRKKPS RPAKTRKRQVGPQSGEVRKEAPRDETKADTDTAPASFPAPGCCENCGISFSGDGTQRQRLKTLCKDCRAQRIAFNREQRMFKRVGCGECA ACQVTEDCGACSTCLLQLPHDVASGLFCKCERRRCLRIVERSRGCGVCRGCQTQEDCGHCPICLRPPRPGLRRQWKCVQRRCLRGKHARR KGGCDSKMAARRRPGAQPLPPPPPSQSPEPTEPHPRALAPSPPAEFIYYCVDEDELKRLLPSVWSESEDGAGSPPPYRRRKRPSSARRHH LGPTLKPTLATRTAQPDHTQAPTKQEAGGGFVLPPPGTDLVFLREGASSPVQVPGPVAASTEALLQAVDPGLPSVKQEPPDPEEDKEENK
Q9UIS9-12	MAEDWLDCPALGPGWKRREVFRKSGATCGRSDTYYQSPTGDRIRSKVELTRYLGPACDLTLFDFKQGILCYPAPKAHPVAVASKKRKKPS RPAKTRKRQVGPQSGEVRKEAPRDETKADTDTAPASFPAPGCCENCGISFSGDGTQRQRLKTLCKDCRAQRIAFNREQRMFKRVGCGECA ACQVTEDCGACSTCLLQLPHDVASGLFCKCERRRCLRIVERSRGCGVCRGCQTQEDCGHCPICLRPPRPGLRRQWKCVQRRCLRGKHARR KGGCDSKMAARRRPGAQPLPPPPPSQSPEPTEPHPRALAPSPPAEFIYYCVDEDELQPYTNRRQNRKCGACAACLRRMDCGRCDFCCDKP KFGGSNQKRQKCRWRQCLQFAMKRLLPSVWSESEDGAGSPPPYRRRKRPSSARRHHLGPTLKPTLATRTAQPDHTQAPTKQEAGGGFVLP PPGTDLVFLREGASSPVQVPGPVAASTEALLQEAQCSGLSWVVALPQVKQEKADTQDEWTPGTAVLTSPVLVPGCPSKAVDPGLPSVKQE PPDPEEDKEENKDDSASKLAPEEEAGGAGTPVITEIFSLGGTRFRDTAVWLPSLQGRHSGREDGCKVWETEDTVEPTSTSWNPRGWPGTH
Q9UIS9-2	MAEDWLDCPALGPGWKRREVFRKSGATCGRSDTYYQSPTGDRIRSKVELTRYLGPACDLTLFDFKQGILCYPAPKAHPVAVASKKRKKPS RPAKTRKRQVGPQSGEVRKEAPRDETKADTDTAPASFPAPGCCENCGISFSGDGTQRQRLKTLCKDCRAQRIAFNREQRMFKRVGCGECA ACQVTEDCGACSTCLLQLPHDVASGLFCKCERRRCLRIVERSRGCGVCRGCQTQEDCGHCPICLRPPRPGLRRQWKCVQRRCLRGKHARR KGGCDSKMAARRRPGAQPLPPPPPSQSPEPTEPQPYTNRRQNRKCGACAACLRRMDCGRCDFCCDKPKFGGSNQKRQKCRWRQCLQFAMK RLLPSVWSESEDGAGSPPPYRRRKRPSSARRHHLGPTLKPTLATRTAQPDHTQAPTKQEAGGGFVLPPPGTDLVFLREGASSPVQVPGPV AASTEALLQAVDPGLPSVKQEPPDPEEDKEENKDDSASKLAPEEEAGGAGTPVITEIFSLGGTRFRDTAVWLPSLQGRHSGREDGCKVWE
Q9UIS9-4	MAEDWLDCPALGPGWKRREVFRKSGATCGRSDTYYQSPTGDRIRSKVELTRYLGPACDLTLFDFKQGILCYPAPKAHPVAVASKKRKKPS RPAKTRKRQVGPQSGEVRKEAPRDETKADTDTAPASFPAPGCCENCGISFSGDGTQRQRLKTLCKDCRAQRIAFNREQRMFKRVGCGECA ACQVTEDCGACSTCLLQLPHDVASGLFCKCERRRCLRIVERSRGCGVCRGCQTQEDCGHCPICLRPPRPGLRRQWKCVQRRCLRGKHARR KGGCDSKMAARRRPGAQPLPPPPPSQSPEPTEPHPRALAPSPPAEFIYYCVDEDELKRLLPSVWSESEDGAGSPPPYRRRKRPSSARRHH LGPTLKPTLATRTAQPDHTQAPTKQEAGGGFVLPPPGTDLVFLREGASSPVQVPGPVAASTEALLQAVDPGLPSVKQEPPDPEEDKEENK
Q9UIS9-5	MAEDWLDCPALGPGWKRREVFRKSGATCGRSDTYYQSPTGDRIRSKVELTRYLGPACDLTLFDFKQGILCYPAPKAHPVAVASKKRKKPS RPAKTRKRQVGPQSGEVRKEAPRDETKADTDTAPASFPAPGCCENCGISFSGDGTQRQRLKTLCKDCRAQRIAFNREQRMFKSRGCGVCR GCQTQEDCGHCPICLRPPRPGLRRQWKCVQRRCLRGKHARRKGGCDSKMAARRRPGAQPLPPPPPSQSPEPTEPHPRALAPSPPAEFIYY CVDEDELQPYTNRRQNRKCGACAACLRRMDCGRCDFCCDKPKFGGSNQKRQKCRWRQCLQFAMKRLLPSVWSESEDGAGSPPPYRRRKRP SSARRHHLGPTLKPTLATRTAQPDHTQAPTKQEAGGGFVLPPPGTDLVFLREGASSPVQVPGPVAASTEALLQEAQCSGLSWVVALPQVK QEKADTQDEWTPGTAVLTSPVLVPGCPSKAVDPGLPSVKQEPPDPEEDKEENKDDSASKLAPEEEAGGAGTPVITEIFSLGGTRFRDTAV
Q9UIS9-6	MAEDWLDCPALGPGWKRREVFRKSGATCGRSDTYYQSPTGDRIRSKVELTRYLGPACDLTLFDFKQGILCYPAPKAHPVAVASKKRKKPS RPAKTRKRQVGPQSGEVRKEAPRDETKADTDTAPASFPAPGCCENCGISFSGDGTQRQRLKTLCKDCRAQRIAFNREQRMFKRVGCGECA ACQVTEDCGACSTCLLQLPHDVASGLFCKCERRRCLRIVERSRGCGVCRGCQTQEDCGHCPICLRPPRPGLRRQWKCVQRRCLRGKHARR KGGCDSKMAARRRPGAQPLPPPPPSQSPEPTEPHPRALAPSPPAEFIYYCVDEDELQPYTNRRQNRKCGACAACLRRMDCGRCDFCCDKP KFGGSNQKRQKCRWRQCLQFAMKRLLPSVWSESEDGAGSPPPYRRRKRPSSARRHHLGPTLKPTLATRTAQPDHTQAPTKQEAGGGFVLP PPGTDLVFLREGASSPVQVPGPVAASTEALLQAVDPGLPSVKQEPPDPEEDKEENKDDSASKLAPEEEAGGAGTPVEPTTQPQYSGNFDN
Q9UIS9-7	MAEDWLDCPALGPGWKRREVFRKSGATCGRSDTYYQSPTGDRIRSKVELTRYLGPACDLTLFDFKQGILCYPAPKAHPVAVASKKRKKPS RPAKTRKRQVGPQSGEVRKEAPRDETKADTDTAPASFPAPGCCENCGISFSGDGTQRQRLKTLCKDCRAQRIAFNREQRMFKRVGCGECA ACQVTEDCGACSTCLLQLPHDVASGLFCKCERRRCLRIVERSRGCGVCRGCQTQEDCGHCPICLRPPRPGLRRQWKCVQRRCLRGKHARR KGGCDSKMAARRRPGAQPLPPPPPSQSPEPTEPHPRALAPSPPAEFIYYCVDEDELKRLLPSVWSESEDGAGSPPPYRRRKRPSSARRHH LGPTLKPTLATRTAQPDHTQAPTKQEAGGGFVLPPPGTDLVFLREGASSPVQVPGPVAASTEALLQEAQCSGLSWVVALPQVKQEKADTQ DEWTPGTAVLTSPVLVPGCPSKAVDPGLPSVKQEPPDPEEDKEENKDDSASKLAPEEEAGGAGTPVITEIFSLGGTRFRDTAVWLPRSKD
Q9UIS9-8	MAEDWLDCPALGPGWKRREVFRKSGATCGRSDTYYQSPTGDRIRSKVELTRYLGPACDLTLFDFKQGILCYPAPKAHPVAVASKKRKKPS RPAKTRKRQVGPQSGEVRKEAPRDETKADTDTAPASFPAPGCCENCGISFSGDGTQRQRLKTLCKDCRAQRIAFNREQRMFKRVGCGECA ACQVTEDCGACSTCLLQLPHDVASGLFCKCERRRCLRIVERSRGCGVCRGCQTQEDCGHCPICLRPPRPGLRRQWKCVQRRCLRGKHARR KGGCDSKMAARRRPGAQPLPPPPPSQSPEPTEPQPYTNRRQNRKCGACAACLRRMDCGRCDFCCDKPKFGGSNQKRQKCRWRQCLQFAMK RLLPSVWSESEDGAGSPPPYRRRKRPSSARRHHLGPTLKPTLATRTAQPDHTQAPTKQEAGGGFVLPPPGTDLVFLREGASSPVQVPGPV
Q9UIS9-9	MAEDWLDCPALGPGWKRREVFRKSGATCGRSDTYYQSPTGDRIRSKVELTRYLGPACDLTLFDFKQGILCYPAPKAHPVAVASKKRKKPS RPAKTRKRQVGPQSGEVRKEAPRDETKADTDTAPASFPAPGCCENCGISFSGDGTQRQRLKTLCKDCRAQRIAFNREQRMFKRVGCGECA ACQVTEDCGACSTCLLQLPHDVASGLFCKCERRRCLRIVERSRGCGVCRGCQTQEDCGHCPICLRPPRPGLRRQWKCVQRRCLRHLAHRL RRRHQRCQRRTPLAVAPPTGKHARRKGGCDSKMAARRRPGAQPLPPPPPSQSPEPTEPHPRALAPSPPAEFIYYCVDEDELQPYTNRRQN RKCGACAACLRRMDCGRCDFCCDKPKFGGSNQKRQKCRWRQCLQFAMKRLLPSVWSESEDGAGSPPPYRRRKRPSSARRHHLGPTLKPTL ATRTAQPDHTQAPTKQEAGGGFVLPPPGTDLVFLREGASSPVQVPGPVAASTEALLQEAQCSGLSWVVALPQVKQEKADTQDEWTPGTAV LTSPVLVPGCPSKAVDPGLPSVKQEPPDPEEDKEENKDDSASKLAPEEEAGGAGTPVITEIFSLGGTRFRDTAVWLPRSKDLKKPGARKQ

Protein Functional Features

Main function of this protein. (from UniProt)

MBD1 (go to UniProt):Q9UIS9

Retention analysis result of protein across 39 protein features of UniProt such as six molecule processing features, 13 region features, four site features, six amino acid modification features, two natural variation features, five experimental info features, and 3 secondary structure features. Here, because of limited space for viewing, we only show the protein feature retention information belong to the 13 regional features. All retention annotation result can be downloaded at
download page
* Minus value of BPloci means that the break pointn is located before the CDS.

- Retained protein feature among the 13 regional features.

Accession_id	Subsection	Start	End	Funcitonal feature	Splicing information
Q9UIS9	Zinc finger	169	216	"Note=CXXC-type 1;Ontology_term=ECO:0000255	ECO:0000269;evidence=ECO:0000255\|PROSITE-ProRule:PRU00509
Q9UIS9	Zinc finger	169	216	"Note=CXXC-type 1;Ontology_term=ECO:0000255	ECO:0000269;evidence=ECO:0000255\|PROSITE-ProRule:PRU00509
Q9UIS9	Zinc finger	217	263	Note=CXXC-type 2;Ontology_term=ECO:0000255;evidence=ECO:0000255\|PROSITE-ProRule:PRU00509	Type=Deletion;Start=173;End=221
Q9UIS9	Zinc finger	217	263	Note=CXXC-type 2;Ontology_term=ECO:0000255;evidence=ECO:0000255\|PROSITE-ProRule:PRU00509	Type=Deletion;Start=173;End=221
Q9UIS9	Zinc finger	330	378	"Note=CXXC-type 3;Ontology_term=ECO:0000255	ECO:0000269;evidence=ECO:0000255\|PROSITE-ProRule:PRU00509
Q9UIS9	Zinc finger	330	378	"Note=CXXC-type 3;Ontology_term=ECO:0000255	ECO:0000269;evidence=ECO:0000255\|PROSITE-ProRule:PRU00509
Q9UIS9	Zinc finger	330	378	"Note=CXXC-type 3;Ontology_term=ECO:0000255	ECO:0000269;evidence=ECO:0000255\|PROSITE-ProRule:PRU00509
Q9UIS9	Region	269	308	Note=Disordered;Ontology_term=ECO:0000256;evidence=ECO:0000256\|SAM:MobiDB-lite	Type=Deletion;Start=304;End=326
Q9UIS9	Region	269	308	Note=Disordered;Ontology_term=ECO:0000256;evidence=ECO:0000256\|SAM:MobiDB-lite	Type=Deletion;Start=304;End=326
Q9UIS9	Region	520	573	Note=Disordered;Ontology_term=ECO:0000256;evidence=ECO:0000256\|SAM:MobiDB-lite	Type=Deletion;Start=483;End=528
Q9UIS9	Region	520	573	Note=Disordered;Ontology_term=ECO:0000256;evidence=ECO:0000256\|SAM:MobiDB-lite	Type=Deletion;Start=483;End=528
Q9UIS9	Region	520	573	Note=Disordered;Ontology_term=ECO:0000256;evidence=ECO:0000256\|SAM:MobiDB-lite	Type=Deletion;Start=483;End=528
Q9UIS9	Region	520	573	Note=Disordered;Ontology_term=ECO:0000256;evidence=ECO:0000256\|SAM:MobiDB-lite	Type=Deletion;Start=483;End=528
Q9UIS9	Region	520	573	Note=Disordered;Ontology_term=ECO:0000256;evidence=ECO:0000256\|SAM:MobiDB-lite	Type=Substitution;Start=573;End=596
Q9UIS9	Region	520	573	Note=Disordered;Ontology_term=ECO:0000256;evidence=ECO:0000256\|SAM:MobiDB-lite	Type=Deletion;Start=483;End=528
Q9UIS9	Region	529	592	Note=Transcriptional repression domain (TRD);Ontology_term=ECO:0000269;evidence=ECO:0000269\|PubMed:14555760;Dbxref=PMID:14555760	Type=Substitution;Start=573;End=596
Q9UIS9	Compositional bias	285	308	Note=Pro residues;Ontology_term=ECO:0000256;evidence=ECO:0000256\|SAM:MobiDB-lite	Type=Deletion;Start=304;End=326
Q9UIS9	Compositional bias	285	308	Note=Pro residues;Ontology_term=ECO:0000256;evidence=ECO:0000256\|SAM:MobiDB-lite	Type=Deletion;Start=304;End=326

Gene Isoform Structures and Expression Levels for MBD1

Gene structures of our canonical and alternative spliced genes of MBD1
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.

Expression levels of gene isoforms across GTEx.

Expression levels of gene isoforms across TCGA.

Protein Structures

PDB and CIF files of the predicted protein structures
* Here we show the 3D structure of the proteins using Mol*. AlphaFold produces a per-residue confidence score (pLDDT) between 0 and 100. Model confidence is shown from the pLDDT values per residue. pLDDT corresponds to the model’s prediction of its score on the local Distance Difference Test. It is a measure of local accuracy (from AlphfaFold website). To color code individual residues, we transformed individual PDB files into CIF format.

3D view using mol* of Q9UIS9-1

3D view using mol* of Q9UIS9-10

3D view using mol* of Q9UIS9-11

3D view using mol* of Q9UIS9-12

3D view using mol* of Q9UIS9-2

3D view using mol* of Q9UIS9-4

3D view using mol* of Q9UIS9-5

3D view using mol* of Q9UIS9-6

3D view using mol* of Q9UIS9-7

3D view using mol* of Q9UIS9-8

3D view using mol* of Q9UIS9-9

pLDDT Score Distribution

pLDDT score distribution of the predicted protein structures from AlphaFold2
* AlphaFold produces a per-residue confidence score (pLDDT) between 0 and 100.

pLDDT distribution across the protein length of Q9UIS9-1

pLDDT distribution across the protein length of Q9UIS9-10

pLDDT distribution across the protein length of Q9UIS9-11

pLDDT distribution across the protein length of Q9UIS9-12

pLDDT distribution across the protein length of Q9UIS9-2

pLDDT distribution across the protein length of Q9UIS9-4

pLDDT distribution across the protein length of Q9UIS9-5

pLDDT distribution across the protein length of Q9UIS9-6

pLDDT distribution across the protein length of Q9UIS9-7

pLDDT distribution across the protein length of Q9UIS9-8

pLDDT distribution across the protein length of Q9UIS9-9

Ramachandran Plot of Protein Structures

Ramachandran plot of the torsional angles - phi (φ)and psi (ψ) - of the residues (amino acids) contained in this protein peptide.

Ramachandran plot of Q9UIS9-1

Ramachandran plot of Q9UIS9-11

Ramachandran plot of Q9UIS9-12

Ramachandran plot of Q9UIS9-2

Ramachandran plot of Q9UIS9-4

Ramachandran plot of Q9UIS9-5

Ramachandran plot of Q9UIS9-6

Ramachandran plot of Q9UIS9-7

Ramachandran plot of Q9UIS9-9

Potential Active Site Information

The potential binding sites of these proteins were identified using SiteMap, a module of the Schrodinger suite.

UniProt-id	Site score	Size	D score	Volume	Exposure	Enclosure	Contact	Phobic	Philic	Balance	Don/Acc	Residues
Q9UIS9-1	1.008	134	0.924	359.121	0.489	0.709	0.994	0.181	1.356	0.134	0.539	150,161,164,165,168,169,172,219,220,221,222,223,22 4,230,231,233,234,253,254,255,256,258,260,261,262
Q9UIS9-10	0.904	69	0.737	184.534	0.485	0.74	1.073	0.216	1.495	0.144	1.591	140,141,142,143,144,145,146,148,150,151,153,154,15 5,158
Q9UIS9-11	0.985	321	0.974	1120.238	0.609	0.675	0.871	0.302	1.138	0.265	0.776	165,168,169,171,172,173,174,175,177,181,182,183,18 4,185,206,207,208,209,213,214,215,218,219,220,221, 222,223,224,225,226,227,229,230,231,232,233,234,24 1,242,245,254,255,256,258,259,260,261,262,263,264, 265,266,267,268,269,270,271
Q9UIS9-12	0.998	165	1.061	404.397	0.64	0.612	0.81	0.621	0.755	0.822	1.139	171,172,173,174,175,177,181,182,184,185,187,189,19 3,194,197,198,199,200,203,204,206,207,208,209,210, 213,214,215,218,585,586,587,588,589,590,591
Q9UIS9-2	1.021	380	1.057	1260.525	0.545	0.694	0.918	0.759	0.92	0.824	0.76	128,129,130,131,132,134,135,140,142,149,150,151,15 2,153,157,158,160,161,162,164,165,168,169,172,178, 179,216,217,218,220,221,222,223,224,225,229,230,23 1,233,234,237,239,240,241,242,254,255,256,258,259, 260,261,262,263,264,265,266,267,268,269
Q9UIS9-4	0.976	201	0.983	450.702	0.571	0.662	0.935	0.445	1.086	0.41	0.814	164,165,168,169,171,172,173,174,175,182,184,185,20 7,209,213,214,215,218,219,220,221,222,223,224,226, 230,231,233,234,254,255,256,260,261,262,265,266,26 7,268
Q9UIS9-5	0.794	60	0.802	144.06	0.735	0.579	0.765	0.308	0.841	0.367	0.78	171,172,173,174,175,181,182,184,185,206,207,211,21 2,213,216,217,219,220
Q9UIS9-6	0.973	91	1.024	227.066	0.647	0.63	0.859	0.862	0.77	1.12	1.191	171,172,174,175,182,184,185,187,193,194,196,197,19 8,200,203,204,207,208,209,210,213,214,215,218
Q9UIS9-7	1.01	102	1.069	211.631	0.617	0.635	0.871	0.752	0.771	0.974	1.213	171,172,174,175,177,181,182,184,185,187,189,193,19 4,195,197,198,200,203,204,208,209,210,213,214,215, 218
Q9UIS9-8	1.016	99	1.09	228.095	0.635	0.619	0.791	0.76	0.664	1.145	1.272	174,175,177,182,184,185,187,193,194,196,197,198,20 0,203,204,207,208,209,210,213,215
Q9UIS9-9	1.032	249	1.099	1032.773	0.653	0.65	0.805	0.917	0.709	1.293	0.551	134,135,149,150,152,153,157,160,161,162,163,164,16 5,167,168,171,176,178,217,219,220,221,222,223,224, 230,231,233,242,245,246,247,248,251,253,254,255,25 6,258,259,260,261,262,263,265,266,268,269,270,272, 273,275,276,277

Protein Structure and Feature Comparision

Protein Structure Comparision Using Template Modeling Scores (TM-score).

Protein Structure Comparision Visualization with mol*. between Canonical predicted structure (AF2)(orange) vs Canonical validated structure (PDB)(green)

3D view using mol* of Q9UIS9-1_Q9UIS9-1_6d1t_A.pdb

Protein Structure Comparision Visualization with mol*. between Canonical validated structure (PDB)(orange) vs Alternative predicted structure (AF2)(green)

3D view using mol* of Q9UIS9-1_6d1t_A_Q9UIS9-10.pdb

3D view using mol* of Q9UIS9-1_6d1t_A_Q9UIS9-11.pdb

3D view using mol* of Q9UIS9-1_6d1t_A_Q9UIS9-12.pdb

3D view using mol* of Q9UIS9-1_6d1t_A_Q9UIS9-2.pdb

3D view using mol* of Q9UIS9-1_6d1t_A_Q9UIS9-4.pdb

3D view using mol* of Q9UIS9-1_6d1t_A_Q9UIS9-5.pdb

3D view using mol* of Q9UIS9-1_6d1t_A_Q9UIS9-6.pdb

3D view using mol* of Q9UIS9-1_6d1t_A_Q9UIS9-7.pdb

3D view using mol* of Q9UIS9-1_6d1t_A_Q9UIS9-8.pdb

3D view using mol* of Q9UIS9-1_6d1t_A_Q9UIS9-9.pdb

Protein Structure Comparision Visualization with mol*. between Canonical predicted structure (AF2)(orange) vs Alternative predicted structure (AF2)(green)

3D view using mol* of Q9UIS9-1_Q9UIS9-10.pdb

3D view using mol* of Q9UIS9-1_Q9UIS9-11.pdb

3D view using mol* of Q9UIS9-1_Q9UIS9-12.pdb

3D view using mol* of Q9UIS9-1_Q9UIS9-2.pdb

3D view using mol* of Q9UIS9-1_Q9UIS9-4.pdb

3D view using mol* of Q9UIS9-1_Q9UIS9-5.pdb

3D view using mol* of Q9UIS9-1_Q9UIS9-6.pdb

3D view using mol* of Q9UIS9-1_Q9UIS9-7.pdb

3D view using mol* of Q9UIS9-1_Q9UIS9-8.pdb

3D view using mol* of Q9UIS9-1_Q9UIS9-9.pdb

Protein Feature Comparison of the protein sequendary structures among the protiens.

./stats/secondary_structure/figure/Q9UIS9-1_vs_Q9UIS9-10.png

./stats/secondary_structure/figure/Q9UIS9-1_vs_Q9UIS9-11.png

./stats/secondary_structure/figure/Q9UIS9-1_vs_Q9UIS9-12.png

./stats/secondary_structure/figure/Q9UIS9-1_vs_Q9UIS9-2.png

./stats/secondary_structure/figure/Q9UIS9-1_vs_Q9UIS9-4.png

./stats/secondary_structure/figure/Q9UIS9-1_vs_Q9UIS9-5.png

./stats/secondary_structure/figure/Q9UIS9-1_vs_Q9UIS9-6.png

./stats/secondary_structure/figure/Q9UIS9-1_vs_Q9UIS9-7.png

./stats/secondary_structure/figure/Q9UIS9-1_vs_Q9UIS9-8.png

./stats/secondary_structure/figure/Q9UIS9-1_vs_Q9UIS9-9.png

Protein Feature Comparison of the relative accessible surface area (ASA) among the protiens.

./stats/relative_asa/Q9UIS9-1_vs_Q9UIS9-10.png

./stats/relative_asa/Q9UIS9-1_vs_Q9UIS9-11.png

./stats/relative_asa/Q9UIS9-1_vs_Q9UIS9-12.png

./stats/relative_asa/Q9UIS9-1_vs_Q9UIS9-2.png

./stats/relative_asa/Q9UIS9-1_vs_Q9UIS9-4.png

./stats/relative_asa/Q9UIS9-1_vs_Q9UIS9-5.png

./stats/relative_asa/Q9UIS9-1_vs_Q9UIS9-6.png

./stats/relative_asa/Q9UIS9-1_vs_Q9UIS9-7.png

./stats/relative_asa/Q9UIS9-1_vs_Q9UIS9-8.png

./stats/relative_asa/Q9UIS9-1_vs_Q9UIS9-9.png

Protein-Protein Interaction

Interactors from UniProt.

Accession_id

Subsection

Start

End

Funcitonal feature

Splicing information

Interactors from STRING.

Gene name

Interactors

Related Drugs to MBD1

Drugs targeting this gene/protein.
(DrugBank)

UniProt accession

Gene name

DrugBank ID

Drug name

Drug group

Actions

Related Diseases to MBD1

Previous studies relating to the alternative splicing of MBD1 and disease information from the MeSH term (PubMed)

Gene

PMID

Title

Abstract

MeSH ID

MeSH term

Clinically important variants in MBD1

(ClinVar, 04/20/2024)

accession_id

uniprot_id

gene_name

Type

Variant

Clinical_significance