slide1
Download
Skip this Video
Download Presentation
TTCCPSIVARSNFNVCRLPGTPEAICATYTGCIIIPGATCPGDYAN

Loading in 2 Seconds...

play fullscreen
1 / 34

TTCCPSIVARSNFNVCRLPGTPEAICATYTGCIIIPGATCPGDYAN - PowerPoint PPT Presentation


  • 48 Views
  • Uploaded on

Structure prediction. TTCCPSIVARSNFNVCRLPGTPEAICATYTGCIIIPGATCPGDYAN. At present, there is still no method available that can consistently predict correct structure from a general sequence. Homology Modeling. If the sequence identity between two sequences A and B is greater than 25%,

loader
I am the owner, or an agent authorized to act on behalf of the owner, of the copyrighted work described.
capcha
Download Presentation

PowerPoint Slideshow about ' TTCCPSIVARSNFNVCRLPGTPEAICATYTGCIIIPGATCPGDYAN' - hu-stevens


An Image/Link below is provided (as is) to download presentation

Download Policy: Content on the Website is provided to you AS IS for your information and personal use and may not be sold / licensed / shared on other websites without getting consent from its author.While downloading, if for some reason you are not able to download a presentation, the publisher may have deleted the file from their server.


- - - - - - - - - - - - - - - - - - - - - - - - - - E N D - - - - - - - - - - - - - - - - - - - - - - - - - -
Presentation Transcript
slide1

Structure prediction

TTCCPSIVARSNFNVCRLPGTPEAICATYTGCIIIPGATCPGDYAN

At present, there is still no method available

that can consistently predict correct structure from

a general sequence

NCKU

homology modeling
Homology Modeling

If the sequence identity between two sequences A and B

is greater than 25%,

and if B has a known structure,

then it is possible to predict the structure of the sequence A

by homology modeling method.

NCKU

slide3

For a raw sequence without a known structure

MQQPMNYPCP QIFWVDSSAT SSWAPPGSVF PCPSCGPRGP DQRRPPPPPP PVSPLPPPSQ

PLPLPPLTPL KKKDHNTNLW LPVVFFMVLV ALVGMGLGMY QLFHLQKELA ELREFTNQSL

KVSSFEKQIA NPSTPSEKKE PRSVAHLTGN PHSRSIPLEW EDTYGTALIS GVKYKKGGLV

INETGLYFVY SKVYFRGQSC NNQPLNHKVY MRNSKYPEDL VLMEEKRLNY CTTGQIWAHS

SYLGAVFNLT SADHLYVNIS QLSLINFEES KTFFGLYKL

Search for homologues

in PDB by BLAST

NCKU

slide5

Raw sequence

Use templates to build

the structure of the homologous

sequence

Predicted structure

NCKU

use swisspdbviewer as an example to build a structure of the following sequence
Use SwissPDBViewer as an Example to build a structure of the following sequence

MQQPMNYPCP QIFWVDSSAT SSWAPPGSVF PCPSCGPRGP DQRRPPPPPP PVSPLPPPSQ

PLPLPPLTPL KKKDHNTNLW LPVVFFMVLV ALVGMGLGMY QLFHLQKELA ELREFTNQSL

KVSSFEKQIA NPSTPSEKKE PRSVAHLTGN PHSRSIPLEW EDTYGTALIS GVKYKKGGLV

INETGLYFVY SKVYFRGQSC NNQPLNHKVY MRNSKYPEDL VLMEEKRLNY CTTGQIWAHS

SYLGAVFNLT SADHLYVNIS QLSLINFEES KTFFGLYKL

NCKU

slide13

1TNRA

DOGB

NCKU

slide15

Before magic fit

After magic fit

NCKU

jenn kang hwang dept of biological science technology national chiao tung university

Structural Bioinformatics System

Jenn-Kang Hwang

Dept of Biological Science & Technology

National Chiao-Tung University

NCKU

structural bioinformatics system
Structural Bioinformatics System
  • Integration of structure database & other bio-databases
  • Structure analysis & Prediction
  • Dynamics & minimization
  • Molecular docking
  • Structure-sequence analysis
  • Integration of analysis tools

NCKU

slide21

Dynamics & minimization

Link to structure database

Molecular visualization

Molecular docking

Structure Analysis & Prediction

NCKU

slide25
VMD

NCKU

slide29
NAMD

NCKU

ad