Find the human hemoglobin subunit alpha protein on PDB (Protein Data Bank) protein database. Hint: You...

Find the human hemoglobin subunit alpha protein on PDB (Protein Data Bank) protein database. Hint: You can use also use PDB identifier “5HU6” to find human hemoglobin subunit alpha protein on PDB database.

(a) Find the Experimental Data section on this protein page and report Method and Resolution used?

(b) Find the Entry History section on this protein page and report Deposited Date and Deposition author(s)?

(c) Find the secondary structure information for this protein structure. What secondary structure types does this protein contain?

(d) How many helices are there? How many beta strands are there?

(e) Download the FASTA Sequence and Copy/Paste the sequence information from the downloaded file

(f) Click 3D View tab and view the protein structure in 3D. Then, take a screenshot of the Protein structure on the viewer and provide the screenshot

(g) Click the Sequence Similarity tab and write down how many sequences on PDB database are 70% or more similar to hemoglobin subunit alpha( it is the number is shown under “Chains in Cluster”)

Solutions

Expert Solution

(a) method used : X RAY DIFFERACTION , resolution: 2.9 A^0.

??(B)deposited date : 27/01/2016 , Deposited authors : Lane-Serff,H. , Higgins,M.K.
?(C) Secondary structure : G, H, T, S, E, B according to DBBP
?(D) No. of helices : 37, beta strands: 17
?(E) FASTA sequence : A chain: >5HU6:A|PDBID|CHAIN|SEQUENCE
VLSPADKTNVKAAWGKVGAHAGEYGAEALERMFLSFPTTKTYFPHFDLSHGSAQVKGHGKKVADALTNAVAHVDDMPNAL
SALSDLHAHKLRVDPVNFKLLSHCLLVTLAAHLPAEFTPAVHASLDKFLASVSTVLTSKYR
?B chain : >5HU6:B|PDBID|CHAIN|SEQUENCE
HLTPEEKSAVTALWGKVNVDEVGGEALGRLLVVYPWTQRFFESFGDLSTPDAVMGNPKVKAHGKKVLGAFSDGLAHLDNL
KGTFATLSELHCDKLHVDPENFRLLGNVLVCVLAHHFGKEFTPPVQAAYQKVVAGVANALA
?C chain : >5HU6:C|PDBID|CHAIN|SEQUENCE
VCGKPKNPANPVQRILGGHLDAKGSFPWQAKMVSHHNLTTGATLINEQWLLTTAKNLFLNHSENATAKDIAPTLTLYVGK
KQLVEIEKVVLHPNYSQVDIGLIKLKQKVSVNERVMPICLPSKDYAEVGRVGYVSGWGRNANFKFTDHLKYVMLPVADQD
QCIRHYEGSTVPEKKTPKSPVGVQPILNEHTFCAGMSKYQEDTCYGDAGSAFAVHDLEEDTWYATGILSFDKSCAVAEYG
VYVKVTSIQDWVQKTIAEN
?D chain: >5HU6:D|PDBID|CHAIN|SEQUENCE
GLKTKDEVEKACHLAQQLKEVSITLGVIYRTTERHSVQVEAHKTAIDKHADAVSRAVEALTRVDVALQRLKELGKANDTK
AVKIIENITSARENLALFNNETQAVLTARDHVHKHRAAALQGWSDAKEKGDAAAEDVWVLLNAAKKGNGSADAKAAAEKC
SRYSSSSTSETELQKAIDAAANVGGLSAHKSKYGDVLNKFKLSNASVGAVRDTSGRGGKHMEKVNNVAKLLKDAEVSLAA
AAAEIEEVKNAHETKVQEEM
?(G) 4 sequences are 70% or more similar to the required gene.

(F)

gladiator answered 2 years ago

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