Saurabh presentation

ASSINGMENT WORK

STUDENT NAME :- SAURABH VERMA DEPARTMENT :- PHARMACOINFORMATIC INSTITUTE :- NIPER, KOLKATA SUBJECT :- (DATABASE MANAGEMENT) ( SYSTEM)

STUDENT NAME :- SAURABH VERMA DEPARTMENT :- PHARMACOINFORMATIC INSTITUTE :- NIPER, KOLKATA SUBJECT :- (DATABASE MANAGEMENT) ( SYSTEM)

To get the protien sequence and observe structure and superimpose with ligand,get the pi

value and mol.wt of that sequence and Glycosylation

Assignment Work

• >3E63:A|PDBID|CHAIN|SEQUENCE• RDPTQFEERHLKFLQQLGKGNFGSVEMCRYDPLQDNTGE

VVAVKKLQHSTEEHLRDFEREIEILKSLQHDNIVKYKGVCY• SAGRRNLKLIMEYLPYGSLRDYLQKHKERIDHIKLLQYTSQI

CKGMEYLGTKRYIHRDLATRNILVENENRVKIGDFGLT• KVLPQDKEYYKVKEPGESPIFWYAPESLTESKFSVASDVWS

FGVVLYELFTYIEKSKSPPAEFMRMIGNDKQGQMIVFHL• IELLKNNGRLPRPDGCPDEIYMIMTECWNNNVNQRPSFR

DLALRVDQIRDNMA

Fragment-based discovery of JAK-2 inhibitors

Molecular Description

• Classification: Transferase • Structure Weight: 34888.05• Molecule: Tyrosine-protein kinase JAK2• Polymer: 1 • Type: protein• Length: 293• Chains: A• EC#: 2.7.10.2 3.1.13.2 • Organism: Homo sapiens • UniProtKB: Search PDB | O60674• PDB Display Files :-3E63

http://www.rcsb.org/pdb/search/smartSubquery.do?smartSearchSubtype=StructureKeywordsQuery&display=true&struct_keywords.pdbx_keywords.value=TRANSFERASE&struct_keywords.pdbx_keywords.comparator=contains

http://www.rcsb.org/pdb/search/smartSubquery.do?smartSearchSubtype=StructureKeywordsQuery&display=true&struct_keywords.pdbx_keywords.value=TRANSFERASE&struct_keywords.pdbx_keywords.comparator=contains

http://www.rcsb.org/pdb/search/smartSubquery.do?smartSearchSubtype=EnzymeClassificationQuery&Enzyme_Classification=2.7.10.2

http://www.chem.qmul.ac.uk/iubmb/enzyme/EC2/7/10/2.html

http://www.rcsb.org/pdb/search/smartSubquery.do?smartSearchSubtype=EnzymeClassificationQuery&Enzyme_Classification=3.1.13.2

http://www.rcsb.org/pdb/search/smartSubquery.do?smartSearchSubtype=TreeEntityQuery&t=1&n=9606

http://www.rcsb.org/pdb/search/smart.do?smartComparator=and&smartSearchSubtype_0=UpAccessionIdQuery&target=Current&accessionIdList_0=O60674

http://www.uniprot.org/uniprot/O60674

http://www.rcsb.org/pdb/explore/explore.do?structureId=3E63

Sequence Display

3E63.txt3E63.txt

SEQUENCE

3D- VIEW

LIGAND PROTIEN INTERACTION

5-phenyl-1H-indazol-3-amine(5-B2)

RESULT OF MOTIF FINDERIN SEQUENCE

1 MOTIF

2-MOTIF

Database of protein domains, families and functional sites

PROTIEN SITE

PROTIEN SITE

MOLECULAR WEIGHT

• The Sequence Manipulation Suite: Protein Molecular WeightResults for 293 residue sequence "3E63:A|PDBID|CHAIN|SEQUENCE" starting "RDPTQFEERH".The protein weighs 34.47 kilodaltons

CALCULATE THE PI VALUE OF PROTIEN SEQUENCE

PI- TABLE

NetOGlyc 4.0 ServerThe NetOglyc server produces neural network predictions of mucin type GalNAc O-

glycosylation sites in mammalian proteins.

OUTPUT DESCRIPTION

END

THANKU

Education

Saurabh presentation