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:RGS7

Protein Summary

Gene summary

Gene name: RGS7
ASpdb.0 ID: 6000
	Gene
Gene symbol	RGS7
Gene ID	6000
Gene name	regulator of G protein signaling 7
Synonyms	-
Cytomap	1q43\|1q23.1
Type of gene	protein-coding
Description	regulator of G-protein signaling 7regulator of G-protein signaling RGS7regulator of G-protein signalling 7
Modification date	20240403
UniProtAcc	P49802

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

Partner	Gene	GO ID	GO term	PubMed ID
Gene	RGS7	GO:0001965	G-protein alpha-subunit binding	36996198
Gene	RGS7	GO:0005096	GTPase activator activity	10521509\|31189666\|36996198
Gene	RGS7	GO:0005829	cytosol	10521509
Gene	RGS7	GO:0005886	plasma membrane	10521509
Gene	RGS7	GO:0007186	G protein-coupled receptor signaling pathway	31189666
Gene	RGS7	GO:0043547	positive regulation of GTPase activity	10521509
Gene	RGS7	GO:0045744	negative regulation of G protein-coupled receptor signaling pathway	36996198

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
P49802-1	P49802-1_2a72_A.pdb	2A72	X-ray	2.0	A	320	450

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

P49802

RGS7

P49802-1

P49802-2

495

469

454

495

Substitution

SGNSMDRRTSFEKFAQNVGRNIPIFPCHKNCTPTLRASTNLL

GKSLTSKRLTSLAQSY

454

469

P49802

RGS7

P49802-1

P49802-3

495

477

454

471

Deletion

none

453

P49802

RGS7

P49802-1

P49802-4

495

424

128

Deletion

none

P49802

RGS7

P49802-1

P49802-4

495

424

454

471

Deletion

none

400

P49802

RGS7

P49802-1

P49802-5

495

487

473

495

Substitution

RNIPIFPCHKNCTPTLRASTNLL

KSLTSKRLTSLAQSY

473

487

Multiple sequence alignment of our canonical and alternatively spliced RGS7

Matched gene isoform IDs with Ensembl and RefSeq of our canonical and alternative spliced genes of RGS7

UniProt-id	ENSG	ENST	ENSP
P49802-1	ENSG00000182901.18	ENST00000440928.6	ENSP00000404399.2
P49802-2	ENSG00000182901.18	ENST00000366564.5	ENSP00000355522.1
P49802-3	ENSG00000182901.18	ENST00000366563.5	ENSP00000355521.1
P49802-3	ENSG00000182901.18	ENST00000691979.1	ENSP00000510676.1
P49802-4	ENSG00000182901.18	ENST00000348120.6	ENSP00000341242.2
P49802-4	ENSG00000182901.18	ENST00000693043.1	ENSP00000508520.1
P49802-5	ENSG00000182901.18	ENST00000366565.5	ENSP00000355523.1

UniProt-id	NM ID	NP ID
P49802-2	NM_001282778.1	NP_001269707.1
P49802-3	NM_001282775.1	NP_001269704.1
P49802-4	NM_001282773.1	NP_001269702.1
P49802-5	NM_002924.5	NP_002915.3

Amino acid sequences of our canonical and alternatively spliced RGS7

accession_id	Protein sequence
P49802-1	MAQGNNYGQTSNGVADESPNMLVYRKMEDVIARMQDEKNGIPIRTVKSFLSKIPSVFSGSDIVQWLIKNLTIEDPVEALHLGTLMAAHGY FFPISDHVLTLKDDGTFYRFQTPYFWPSNCWEPENTDYAVYLCKRTMQNKARLELADYEAESLARLQRAFARKWEFIFMQAEAQAKVDKK RDKIERKILDSQERAFWDVHRPVPGCVNTTEVDIKKSSRMRNPHKTRKSVYGLQNDIRSHSPTHTPTPETKPPTEDELQQQIKYWQIQLD RHRLKMSKVADSLLSYTEQYLEYDPFLLPPDPSNPWLSDDTTFWELEASKEPSQQRVKRWGFGMDEALKDPVGREQFLKFLESEFSSENL RFWLAVEDLKKRPIKEVPSRVQEIWQEFLAPGAPSAINLDSKSYDKTTQNVKEPGRYTFEDAQEHIYKLMKSDSYPRFIRSSAYQELLQA
P49802-2	MAQGNNYGQTSNGVADESPNMLVYRKMEDVIARMQDEKNGIPIRTVKSFLSKIPSVFSGSDIVQWLIKNLTIEDPVEALHLGTLMAAHGY FFPISDHVLTLKDDGTFYRFQTPYFWPSNCWEPENTDYAVYLCKRTMQNKARLELADYEAESLARLQRAFARKWEFIFMQAEAQAKVDKK RDKIERKILDSQERAFWDVHRPVPGCVNTTEVDIKKSSRMRNPHKTRKSVYGLQNDIRSHSPTHTPTPETKPPTEDELQQQIKYWQIQLD RHRLKMSKVADSLLSYTEQYLEYDPFLLPPDPSNPWLSDDTTFWELEASKEPSQQRVKRWGFGMDEALKDPVGREQFLKFLESEFSSENL RFWLAVEDLKKRPIKEVPSRVQEIWQEFLAPGAPSAINLDSKSYDKTTQNVKEPGRYTFEDAQEHIYKLMKSDSYPRFIRSSAYQELLQA
P49802-3	MAQGNNYGQTSNGVADESPNMLVYRKMEDVIARMQDEKNGIPIRTVKSFLSKIPSVFSGSDIVQWLIKNLTIEDPVEALHLGTLMAAHGY FFPISDHVLTLKDDGTFYRFQTPYFWPSNCWEPENTDYAVYLCKRTMQNKARLELADYEAESLARLQRAFARKWEFIFMQAEAQAKVDKK RDKIERKILDSQERAFWDVHRPVPGCVNTTEVDIKKSSRMRNPHKTRKSVYGLQNDIRSHSPTHTPTPETKPPTEDELQQQIKYWQIQLD RHRLKMSKVADSLLSYTEQYLEYDPFLLPPDPSNPWLSDDTTFWELEASKEPSQQRVKRWGFGMDEALKDPVGREQFLKFLESEFSSENL RFWLAVEDLKKRPIKEVPSRVQEIWQEFLAPGAPSAINLDSKSYDKTTQNVKEPGRYTFEDAQEHIYKLMKSDSYPRFIRSSAYQELLQA
P49802-4	MAQGNNYGQTSNGVADESPNMLVYRKMEDVIARMQDEKNGIPIRTVKSFLSKIPSVFSGSDIVQWLIKNLTIEDPAVYLCKRTMQNKARL ELADYEAESLARLQRAFARKWEFIFMQAEAQAKVDKKRDKIERKILDSQERAFWDVHRPVPGCVNTTEVDIKKSSRMRNPHKTRKSVYGL QNDIRSHSPTHTPTPETKPPTEDELQQQIKYWQIQLDRHRLKMSKVADSLLSYTEQYLEYDPFLLPPDPSNPWLSDDTTFWELEASKEPS QQRVKRWGFGMDEALKDPVGREQFLKFLESEFSSENLRFWLAVEDLKKRPIKEVPSRVQEIWQEFLAPGAPSAINLDSKSYDKTTQNVKE
P49802-5	MAQGNNYGQTSNGVADESPNMLVYRKMEDVIARMQDEKNGIPIRTVKSFLSKIPSVFSGSDIVQWLIKNLTIEDPVEALHLGTLMAAHGY FFPISDHVLTLKDDGTFYRFQTPYFWPSNCWEPENTDYAVYLCKRTMQNKARLELADYEAESLARLQRAFARKWEFIFMQAEAQAKVDKK RDKIERKILDSQERAFWDVHRPVPGCVNTTEVDIKKSSRMRNPHKTRKSVYGLQNDIRSHSPTHTPTPETKPPTEDELQQQIKYWQIQLD RHRLKMSKVADSLLSYTEQYLEYDPFLLPPDPSNPWLSDDTTFWELEASKEPSQQRVKRWGFGMDEALKDPVGREQFLKFLESEFSSENL RFWLAVEDLKKRPIKEVPSRVQEIWQEFLAPGAPSAINLDSKSYDKTTQNVKEPGRYTFEDAQEHIYKLMKSDSYPRFIRSSAYQELLQA

Protein Functional Features

Main function of this protein. (from UniProt)

RGS7 (go to UniProt):P49802

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
P49802	Domain	37	112	Note=DEP;Ontology_term=ECO:0000255;evidence=ECO:0000255\|PROSITE-ProRule:PRU00066	Type=Deletion;Start=76;End=128

Gene Isoform Structures and Expression Levels for RGS7

Gene structures of our canonical and alternative spliced genes of RGS7
* 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 P49802-1

3D view using mol* of P49802-2

3D view using mol* of P49802-3

3D view using mol* of P49802-4

3D view using mol* of P49802-5

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 P49802-1

pLDDT distribution across the protein length of P49802-2

pLDDT distribution across the protein length of P49802-3

pLDDT distribution across the protein length of P49802-4

pLDDT distribution across the protein length of P49802-5

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 P49802-1

Ramachandran plot of P49802-3

Ramachandran plot of P49802-4

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
P49802-1	1.037	94	0.952	284.004	0.523	0.787	1.075	0.445	1.324	0.336	0.691	50,51,52,53,54,94,97,109,131,134,135,138,142,143,1 44,178,181,183,184,186,187,188,189,190,191,193,194
P49802-2	1.004	139	1.033	410.571	0.58	0.685	0.858	0.314	0.977	0.321	1.322	15,16,17,18,19,20,21,24,117,120,121,122,123,199,20 0,201,208,209,210,211,212,219,220,221,222,223,226, 227
P49802-3	1.014	188	1.047	679.826	0.597	0.688	0.895	0.43	0.937	0.459	1.107	10,11,12,14,15,16,17,18,19,20,21,24,25,88,117,118, 119,120,121,122,123,200,201,209,210,211,212,217,21 9,220,221,222,223,224,225,226,227,228
P49802-4	0.995	133	1.027	275.086	0.56	0.669	0.863	0.53	0.966	0.549	1.264	239,240,242,245,246,247,248,249,260,263,264,265,27 0,271,272,273,276,277,283,286,287,288,399
P49802-5	0.993	392	0.967	1046.836	0.533	0.688	0.902	0.301	1.182	0.255	0.984	15,16,17,18,19,20,21,24,25,88,112,113,114,115,116, 117,118,119,120,121,122,123,134,138,174,178,181,18 6,189,190,193,200,201,208,209,210,211,212,217,219, 220,221,222,223,224,225,226,227,228,229,230,231,23 2,233,234,235,236,237,238,239,240,241

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 P49802-1_P49802-1_2a72_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 P49802-1_2a72_A_P49802-2.pdb

3D view using mol* of P49802-1_2a72_A_P49802-3.pdb

3D view using mol* of P49802-1_2a72_A_P49802-4.pdb

3D view using mol* of P49802-1_2a72_A_P49802-5.pdb

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

3D view using mol* of P49802-1_P49802-2.pdb

3D view using mol* of P49802-1_P49802-3.pdb

3D view using mol* of P49802-1_P49802-4.pdb

3D view using mol* of P49802-1_P49802-5.pdb

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

./stats/secondary_structure/figure/P49802-1_vs_P49802-2.png