please answer all the questionss !1 1. Obtain the human p63 isoform 1 protein ue

Question

please answer all the questionss !1

1. Obtain the human p63 isoform 1 protein uence and the human p53 isoform a protein sequence. Use the Needleman-Wunsch program (http://www.ebi.ac.uk/Tools/psa/) to align the two roteins. Which amino acid sequences within p53 are conserved in p63? (Hint: find a region longer than 50 amino acids with no gaps spanning longer than 5 amino acids.) A second paralog of is p73. Which amino acid sequences within p53 p53 isoform a are conserved in p73 isoform a? Is the particular domain common within p53, p63, and p73 associated with a specific function? Use the following parameters when you run the Needleman-Wunsch program: Matrix: BLOSUM62; Gap Open Penalty: 10; Gap Extend Penalty: 0.5; End Gap Penalty False; End Gap Open Penalty: 10; End Gap Extend Penalty: 0.5

Explanation / Answer

Human p63 isoform 1 protein sequence:

This sequence is obtained from ncbi. https://www.ncbi.nlm.nih.gov/protein/NP_003713.3?report=fasta

MNFETSRCATLQYCPDPYIQRFVETPAHFSWKESYYRSTMSQSTQTNEFLSPEVFQHIWDFLEQPICSVQPIDLNFVDEPSEDGATNKIEISMDCIRMQDSDLSDPMWPQYTNLGLLNSMDQQIQNGSSSTSPYNTDHAQNSVTAPSPYAQPSSTFDALSPSPAIPSNTDYPGPHSFDVSFQQSSTAKSATWTYSTELKKLYCQIAKTCPIQIKVMTPPPQGAVIRAMPVYKKAEHVTEVVKRCPNHELSREFNEGQIAPPSHLIRVEGNSHAQYVEDPITGRQSVLVPYEPPQVGTEFTTVLYNFMCNSSCVGGMNRRPILIIVTLETRDGQVLGRRCFEARICACPGRDRKADEDSIRKQQVSDSTKNGDGTKRPFRQNTHGIQMTSIKKRRSPDDELLYLPVRGRETYEMLLKIKESLELMQYLPQHTIETYRQQQQQQHQHLLQKQTSIQSPSSYGNSSPPLNKMNSMNKLPSVSQLINPQQRNALTPTTIPDGMGANIPMMGTHMPMAGDMNGLSPTQALPPPLSMPSTSHCTPPPPYPTDCSIVSFLARLGCSSCLDYFTTQGLTTIYQIEHYSMDDLASLKIPEQFRHAIWKGILDHRQLHEFSSPSHLLRTPSSASTVSVGSSETRGERVIDAVRFTLRQTISFPPRDEWNDFNFDMDARRNKQQRIKEEGE

Human p53 isoform a protein sequence:

This sequence is obtained from ncbi. https://www.ncbi.nlm.nih.gov/protein/NP_000537.3?report=fasta

MEEPQSDPSVEPPLSQETFSDLWKLLPENNVLSPLPSQAMDDLMLSPDDIEQWFTEDPGPDEAPRMPEAAPPVAPAPAAPTPAAPAPAPSWPLSSSVPSQKTYQGSYGFRLGFLHSGTAKSVTCTYSPALNKMFCQLAKTCPVQLWVDSTPPPGTRVRAMAIYKQSQHMTEVVRRCPHHERCSDSDGLAPPQHLIRVEGNLRVEYLDDRNTFRHSVVVPYEPPEVGSDCTTIHYNYMCNSSCMGGMNRRPILTIITLEDSSGNLLGRNSFEVRVCACPGRDRRTEEENLRKKGEPHHELPPGSTKRALPNNTSSSPQPKKKPLDGEYFTLQIRGRERFEMFRELNEALELKDAQAGKEPGGSRAHSSHLKSKKGQSTSRHKKLMFKTEGPDSD

Needleman-Wunsch program has been used to align the two proteins. Following parameters were used. Matrix: BLOSUM62, Gap open penalty: 10, Gap extend penalty: 0.5, End gap penalty: False, End Gap Open Penalty: 10, End Gap Extend Penalty: 0.5

The amino acid sequence within p53 which is conserved in p63 is

HLIRVEGNLRVEYLDDRNTFRHSVVVPYEPPEVGSDCTTIHYNYMCNSSCMGGMNRRPILTIITLEDSSGNLLGRNSFEVRVCACPGRDRRTEEENLRKKGEPHHELPPGSTKRALPNNT

Human p73 isoform a protein sequence:

This sequence is obtained from ncbi.https://www.ncbi.nlm.nih.gov/protein/NP_005418.1?report=fasta

MAQSTATSPDGGTTFEHLWSSLEPDSTYFDLPQSSRGNNEVVGGTDSSMDVFHLEGMTTSVMAQFNLLSSTMDQMSSRAASASPYTPEHAASVPTHSPYAQPSSTFDTMSPAPVIPSNTDYPGPHHFEVTFQQSSTAKSATWTYSPLLKKLYCQIAKTCPIQIKVSTPPPPGTAIRAMPVYKKAEHVTDVVKRCPNHELGRDFNEGQSAPASHLIRVEGNNLSQYVDDPVTGRQSVVVPYEPPQVGTEFTTILYNFMCNSSCVGGMNRRPILIIITLEMRDGQVLGRRSFEGRICACPGRDRKADEDHYREQQALNESSAKNGAASKRAFKQSPPAVPALGAGVKKRRHGDEDTYYLQVRGRENFEILMKLKESLELMELVPQPLVDSYRQQQQLLQRPSHLQPPSYGPVLSPMNKVHGGMNKLPSVNQLVGQPPPHSSAATPNLGPVGPGMLNNHGHAVPANGEMSSSHSAQSMVSGSHCTPPPPYHADPSLVSFLTGLGCPNCIEYFTSQGLQSIYHLQNLTIEDLGALKIPEQYRMTIWRGLQDLKQGHDYSTAQQLLRSSNAATISIGGSGELQRQRVMEAVHFRVRHTITIPNRGGPGGGPDEWADFGFDLPDCKARKQPIKEEFTEAEIH

The amino acid sequence within p53 which is conserved in p73 isoform a is

HLIRVEGNLRVEYLDDRNTFRHSVVVPYEPPEVGSDCTTIHYNYMCNSSCMGGMNRRPILTIITLEDSSGNLLGRNSFEVRVCACPGRDRR

Now, as this sequence is common among three above proteins, this is a conserved domain. All three proteins are DNA binding protein. So, this domain may be considered as DNA binding domain.

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