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Center for Computational Systems Medicine
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Protein Summary

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AS Summary

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Protein Functional Features

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Gene Isoform Structures and Expression Levels

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Protein Structures

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pLDDT Score Distribution

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Ramachandran Plot of Protein Structures

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Potential Active Site Information

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Protein Structure and Feature Comparision

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Protein-Protein Interaction

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Related Drugs

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Related Diseases

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Clinically Important Variants

Protein:CRB1

Protein Summary

check button Gene summary
Gene name: CRB1
ASpdb.0 ID: 23418
Gene
Gene symbol

CRB1

Gene ID

23418

Gene namecrumbs cell polarity complex component 1
SynonymsCRB1-A|CRB1-B|CRB1-C|LCA8|RP12
Cytomap

1q31.3

Type of geneprotein-coding
Descriptionprotein crumbs homolog 1crumbs 1, cell polarity complex componentcrumbs family member 1, photoreceptor morphogenesis associated
Modification date20240416
UniProtAcc

P82279


check button Gene ontology of this gene with evidence of Inferred from Direct Assay (IDA) from Entrez
PartnerGeneGO IDGO termPubMed ID
GeneCRB1

GO:0005912

adherens junction

15914641

GeneCRB1

GO:0032991

protein-containing complex

15914641



AS Summary

check button Information of the canonical protein with experimentally identified structure from PDB (2023).
UniProt AccFile namePDB IDMethodResolutionChainStartEnd
P82279-1P82279-1_4uu5_B.pdb4UU5X-ray1.23B13931406

check button ASpdb's canonical and alternatively spliced isoform information.
accession_idgene_namecanonical_idalternative_idcanonical_lengthalternative_lengthcanonical_startcanonical_endtypeoriginalSEQvariationSEQalternative_startalternative_end
P82279CRB1P82279-1P82279-414069421351Deletionnonenone00
P82279CRB1P82279-1P82279-41406942352390SubstitutionGECVELSSEKQYGRITGLPSSFSYHEASGYVCICQPGFTMIRNSLCQPSRCLDEYLFFNRKMFGARTHGFHILMAMLI139
P82279CRB1P82279-1P82279-4140694212941406Deletionnonenone942942
P82279CRB1P82279-1P82279-514068707101245Deletionnonenone709709

check buttonMultiple sequence alignment of our canonical and alternatively spliced CRB1

check button Matched gene isoform IDs with Ensembl and RefSeq of our canonical and alternative spliced genes of CRB1
UniProt-idENSGENSTENSP
P82279-1ENSG00000134376.17ENST00000367400.8ENSP00000356370.3
P82279-5ENSG00000134376.17ENST00000538660.5ENSP00000438091.1

UniProt-idNM IDNP ID
P82279-1NM_201253.2NP_957705.1
P82279-5NM_001257966.1NP_001244895.1

check buttonAmino acid sequences of our canonical and alternatively spliced CRB1
accession_idProtein sequence
P82279-1MALKNINYLLIFYLSFSLLIYIKNSFCNKNNTRCLSNSCQNNSTCKDFSKDNDCSCSDTANNLDKDCDNMKDPCFSNPCQGSATCVNTPG
ERSFLCKCPPGYSGTICETTIGSCGKNSCQHGGICHQDPIYPVCICPAGYAGRFCEIDHDECASSPCQNGAVCQDGIDGYSCFCVPGYQG
RHCDLEVDECASDPCKNEATCLNEIGRYTCICPHNYSGVNCELEIDECWSQPCLNGATCQDALGAYFCDCAPGFLGDHCELNTDECASQP
CLHGGLCVDGENRYSCNCTGSGFTGTHCETLMPLCWSKPCHNNATCEDSVDNYTCHCWPGYTGAQCEIDLNECNSNPCQSNGECVELSSE
KQYGRITGLPSSFSYHEASGYVCICQPGFTGIHCEEDVNECSSNPCQNGGTCENLPGNYTCHCPFDNLSRTFYGGRDCSDILLGCTHQQC
LNNGTCIPHFQDGQHGFSCLCPSGYTGSLCEIATTLSFEGDGFLWVKSGSVTTKGSVCNIALRFQTVQPMALLLFRSNRDVFVKLELLSG
YIHLSIQVNNQSKVLLFISHNTSDGEWHFVEVIFAEAVTLTLIDDSCKEKCIAKAPTPLESDQSICAFQNSFLGGLPVGMTSNGVALLNF
YNMPSTPSFVGCLQDIKIDWNHITLENISSGSSLNVKAGCVRKDWCESQPCQSRGRCINLWLSYQCDCHRPYEGPNCLREYVAGRFGQDD
STGYVIFTLDESYGDTISLSMFVRTLQPSGLLLALENSTYQYIRVWLERGRLAMLTPNSPKLVVKFVLNDGNVHLISLKIKPYKIELYQS
SQNLGFISASTWKIEKGDVIYIGGLPDKQETELNGGFFKGCIQDVRLNNQNLEFFPNPTNNASLNPVLVNVTQGCAGDNSCKSNPCHNGG
VCHSRWDDFSCSCPALTSGKACEEVQWCGFSPCPHGAQCQPVLQGFECIANAVFNGQSGQILFRSNGNITRELTNITFGFRTRDANVIIL
HAEKEPEFLNISIQDSRLFFQLQSGNSFYMLSLTSLQSVNDGTWHEVTLSMTDPLSQTSRWQMEVDNETPFVTSTIATGSLNFLKDNTDI
YVGDRAIDNIKGLQGCLSTIEIGGIYLSYFENVHGFINKPQEEQFLKISTNSVVTGCLQLNVCNSNPCLHGGNCEDIYSSYHCSCPLGWS
GKHCELNIDECFSNPCIHGNCSDRVAAYHCTCEPGYTGVNCEVDIDNCQSHQCANGATCISHTNGYSCLCFGNFTGKFCRQSRLPSTVCG
NEKTNLTCYNGGNCTEFQTELKCMCRPGFTGEWCEKDIDECASDPCVNGGLCQDLLNKFQCLCDVAFAGERCEVDLADDLISDIFTTIGS
P82279-4MIRNSLCQPSRCLDEYLFFNRKMFGARTHGFHILMAMLIGIHCEEDVNECSSNPCQNGGTCENLPGNYTCHCPFDNLSRTFYGGRDCSDI
LLGCTHQQCLNNGTCIPHFQDGQHGFSCLCPSGYTGSLCEIATTLSFEGDGFLWVKSGSVTTKGSVCNIALRFQTVQPMALLLFRSNRDV
FVKLELLSGYIHLSIQVNNQSKVLLFISHNTSDGEWHFVEVIFAEAVTLTLIDDSCKEKCIAKAPTPLESDQSICAFQNSFLGGLPVGMT
SNGVALLNFYNMPSTPSFVGCLQDIKIDWNHITLENISSGSSLNVKAGCVRKDWCESQPCQSRGRCINLWLSYQCDCHRPYEGPNCLREY
VAGRFGQDDSTGYVIFTLDESYGDTISLSMFVRTLQPSGLLLALENSTYQYIRVWLERGRLAMLTPNSPKLVVKFVLNDGNVHLISLKIK
PYKIELYQSSQNLGFISASTWKIEKGDVIYIGGLPDKQETELNGGFFKGCIQDVRLNNQNLEFFPNPTNNASLNPVLVNVTQGCAGDNSC
KSNPCHNGGVCHSRWDDFSCSCPALTSGKACEEVQWCGFSPCPHGAQCQPVLQGFECIANAVFNGQSGQILFRSNGNITRELTNITFGFR
TRDANVIILHAEKEPEFLNISIQDSRLFFQLQSGNSFYMLSLTSLQSVNDGTWHEVTLSMTDPLSQTSRWQMEVDNETPFVTSTIATGSL
NFLKDNTDIYVGDRAIDNIKGLQGCLSTIEIGGIYLSYFENVHGFINKPQEEQFLKISTNSVVTGCLQLNVCNSNPCLHGGNCEDIYSSY
HCSCPLGWSGKHCELNIDECFSNPCIHGNCSDRVAAYHCTCEPGYTGVNCEVDIDNCQSHQCANGATCISHTNGYSCLCFGNFTGKFCRQ
P82279-5MALKNINYLLIFYLSFSLLIYIKNSFCNKNNTRCLSNSCQNNSTCKDFSKDNDCSCSDTANNLDKDCDNMKDPCFSNPCQGSATCVNTPG
ERSFLCKCPPGYSGTICETTIGSCGKNSCQHGGICHQDPIYPVCICPAGYAGRFCEIDHDECASSPCQNGAVCQDGIDGYSCFCVPGYQG
RHCDLEVDECASDPCKNEATCLNEIGRYTCICPHNYSGVNCELEIDECWSQPCLNGATCQDALGAYFCDCAPGFLGDHCELNTDECASQP
CLHGGLCVDGENRYSCNCTGSGFTGTHCETLMPLCWSKPCHNNATCEDSVDNYTCHCWPGYTGAQCEIDLNECNSNPCQSNGECVELSSE
KQYGRITGLPSSFSYHEASGYVCICQPGFTGIHCEEDVNECSSNPCQNGGTCENLPGNYTCHCPFDNLSRTFYGGRDCSDILLGCTHQQC
LNNGTCIPHFQDGQHGFSCLCPSGYTGSLCEIATTLSFEGDGFLWVKSGSVTTKGSVCNIALRFQTVQPMALLLFRSNRDVFVKLELLSG
YIHLSIQVNNQSKVLLFISHNTSDGEWHFVEVIFAEAVTLTLIDDSCKEKCIAKAPTPLESDQSICAFQNSFLGGLPVGMTSNGVALLNF
YNMPSTPSFVGCLQDIKIDWNHITLENISSGSSLNVKAGCVRKDWCESQPCQSRGRCINLWLSYQCDCHRPYEGPNCLRGKFCRQSRLPS
TVCGNEKTNLTCYNGGNCTEFQTELKCMCRPGFTGEWCEKDIDECASDPCVNGGLCQDLLNKFQCLCDVAFAGERCEVDLADDLISDIFT

Protein Functional Features

check buttonMain function of this protein. (from UniProt)
CRB1 (go to UniProt):P82279

check buttonRetention 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_idSubsectionStartEndFuncitonal featureSplicing information
P82279Topological domain261347Note=Extracellular;Ontology_term=ECO:0000255;evidence=ECO:0000255Type=Deletion;Start=1;End=351
P82279Topological domain261347Note=Extracellular;Ontology_term=ECO:0000255;evidence=ECO:0000255Type=Substitution;Start=352;End=390
P82279Topological domain261347Note=Extracellular;Ontology_term=ECO:0000255;evidence=ECO:0000255Type=Deletion;Start=1294;End=1406
P82279Topological domain261347Note=Extracellular;Ontology_term=ECO:0000255;evidence=ECO:0000255Type=Deletion;Start=710;End=1245
P82279Transmembrane13481368Note=Helical;Ontology_term=ECO:0000255;evidence=ECO:0000255Type=Deletion;Start=1294;End=1406
P82279Topological domain13691406Note=Cytoplasmic;Ontology_term=ECO:0000255;evidence=ECO:0000255Type=Deletion;Start=1294;End=1406
P82279Domain3068Note=EGF-like 1;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU00076Type=Deletion;Start=1;End=351
P82279Domain70108Note=EGF-like 2;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU00076Type=Deletion;Start=1;End=351
P82279Domain110146Note=EGF-like 3;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU00076Type=Deletion;Start=1;End=351
P82279Domain148184Note=EGF-like 4%3B calcium-binding;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU00076Type=Deletion;Start=1;End=351
P82279Domain186222Note=EGF-like 5%3B calcium-binding;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU00076Type=Deletion;Start=1;End=351
P82279Domain224260Note=EGF-like 6%3B calcium-binding;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU00076Type=Deletion;Start=1;End=351
P82279Domain262299Note=EGF-like 7%3B calcium-binding;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU00076Type=Deletion;Start=1;End=351
P82279Domain301337Note=EGF-like 8;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU00076Type=Deletion;Start=1;End=351
P82279Domain339395Note=EGF-like 9;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU00076Type=Deletion;Start=1;End=351
P82279Domain339395Note=EGF-like 9;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU00076Type=Substitution;Start=352;End=390
P82279Domain714885Note=Laminin G-like 2;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU00122Type=Deletion;Start=710;End=1245
P82279Domain887923Note=EGF-like 13;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU00076Type=Deletion;Start=710;End=1245
P82279Domain924960Note=EGF-like 14;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU00076Type=Deletion;Start=710;End=1245
P82279Domain9501137Note=Laminin G-like 3;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU00122Type=Deletion;Start=710;End=1245
P82279Domain11391175Note=EGF-like 15;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU00076Type=Deletion;Start=710;End=1245
P82279Domain11771212Note=EGF-like 16%3B calcium-binding;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU00076Type=Deletion;Start=710;End=1245
P82279Domain12141250Note=EGF-like 17;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU00076Type=Deletion;Start=710;End=1245
P82279Domain12551295Note=EGF-like 18;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU00076Type=Deletion;Start=1294;End=1406
P82279Domain12971333Note=EGF-like 19%3B calcium-binding;Ontology_term=ECO:0000255;evidence=ECO:0000255|PROSITE-ProRule:PRU00076Type=Deletion;Start=1294;End=1406
P82279Region13701406Note=Interaction with EPB41L5;Ontology_term=ECO:0000269;evidence=ECO:0000269|PubMed:17920587;Dbxref=PMID:17920587Type=Deletion;Start=1294;End=1406


Gene Isoform Structures and Expression Levels for CRB1

check buttonGene structures of our canonical and alternative spliced genes of CRB1
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.
gene isoform structure of CRB1

check button Expression levels of gene isoforms across GTEx.
gtex expression

check button Expression levels of gene isoforms across TCGA.
tcga expression


Protein Structures

check button 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 P82279-1
3D view using mol* of P82279-4
3D view using mol* of P82279-5


pLDDT Score Distribution

check button 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 P82279-1
all structure
pLDDT distribution across the protein length of P82279-4
all structure
pLDDT distribution across the protein length of P82279-5
all structure


Ramachandran Plot of Protein Structures


check button Ramachandran plot of the torsional angles - phi (φ)and psi (ψ) - of the residues (amino acids) contained in this protein peptide.
Ramachandran plot of P82279-1
all structure
Ramachandran plot of P82279-4
all structure

Potential Active Site Information


check button The potential binding sites of these proteins were identified using SiteMap, a module of the Schrodinger suite.
UniProt-idSite scoreSizeD scoreVolumeExposureEnclosureContactPhobicPhilicBalanceDon/AccResidues
P82279-11.021001.054270.6270.4790.6961.0180.9550.9321.0251.042522,525,534,615,616,617,618,619,620,621,625,626,62
7,628,629,630,631,633,634,635,636,638
P82279-41.012971.041231.1820.4890.7030.9661.0860.9411.1540.819140,171,174,183,264,265,266,267,268,269,270,274,27
5,276,277,278,279,280,282,283,284,285,286,287
P82279-50.9471130.952285.3760.6570.6190.8110.1941.1030.1761.125498,500,501,502,503,504,505,506,507,528,529,530,53
1,548,549,574,575,597,599,600,601,602,603,604,605,
606,607,608,609

Protein Structure and Feature Comparision


check button Protein Structure Comparision Using Template Modeling Scores (TM-score).
all structure

check button Protein Structure Comparision Visualization with mol*. between Canonical predicted structure (AF2)(orange) vs Canonical validated structure (PDB)(green)
3D view using mol* of P82279-1_P82279-1_4uu5_B.pdb

check button Protein Structure Comparision Visualization with mol*. between Canonical validated structure (PDB)(orange) vs Alternative predicted structure (AF2)(green)
3D view using mol* of P82279-1_4uu5_B_P82279-4.pdb
3D view using mol* of P82279-1_4uu5_B_P82279-5.pdb

check button Protein Structure Comparision Visualization with mol*. between Canonical predicted structure (AF2)(orange) vs Alternative predicted structure (AF2)(green)
3D view using mol* of P82279-1_P82279-4.pdb
3D view using mol* of P82279-1_P82279-5.pdb

check button Protein Feature Comparison of the protein sequendary structures among the protiens.
./stats/secondary_structure/figure/P82279-1_vs_P82279-4.png
all structure<
./stats/secondary_structure/figure/P82279-1_vs_P82279-5.png
all structure<

check button Protein Feature Comparison of the relative accessible surface area (ASA) among the protiens.
./stats/relative_asa/P82279-1_vs_P82279-4.png
all structure<
./stats/relative_asa/P82279-1_vs_P82279-5.png
all structure<


Protein-Protein Interaction


check button Interactors from UniProt.
Accession_idSubsectionStartEndFuncitonal featureSplicing information
P82279Region13701406Note=Interaction with EPB41L5;Ontology_term=ECO:0000269;evidence=ECO:0000269|PubMed:17920587;Dbxref=PMID:17920587Type=Deletion;Start=1294;End=1406


check button Interactors from STRING.
Gene nameInteractors


Related Drugs to CRB1


check button Drugs targeting this gene/protein.
(DrugBank)
UniProt accessionGene nameDrugBank IDDrug nameDrug groupActions

Related Diseases to CRB1


check button Previous studies relating to the alternative splicing of CRB1 and disease information from the MeSH term (PubMed)
GenePMIDTitleAbstractMeSH IDMeSH term


Clinically important variants in CRB1


check button (ClinVar, 04/20/2024)
accession_iduniprot_idgene_nameTypeVariantClinical_significance