Docking Result Analysis via AutuDock || Procedure || AutoDock Series

แชร์
ฝัง
  • เผยแพร่เมื่อ 24 ธ.ค. 2024

ความคิดเห็น •

  • @meenublossom6860
    @meenublossom6860 4 ปีที่แล้ว +3

    Wow... Easy going & Very well explained 👏👏... This is what i was searching for so long for my project... 😍😍I have seen many videos of mol. docking but i didn't find how to interact the protein and ligand or their interaction...I found complete mol. docking and interaction in yours videos...Thanks❤️...Good job 👌👌keep making more videos 🤗 ☺️stay Blessed💕 😇

    • @organomed
      @organomed  4 ปีที่แล้ว

      Thank you so much 🙂

  • @ShreeRamChandra-ze1el
    @ShreeRamChandra-ze1el 3 หลายเดือนก่อน +1

    Excellent explanation mam

  • @sanjaykumarpaul1864
    @sanjaykumarpaul1864 3 ปีที่แล้ว +3

    How to get dlg file? I only get output.pdbqt and log file

  • @dr.manzoorahmad2682
    @dr.manzoorahmad2682 3 ปีที่แล้ว

    great job done...easy to understand

  • @vergio_ve1028
    @vergio_ve1028 3 ปีที่แล้ว

    Hello!
    I have several questions regarding Autodock, in this case Vina... I hope you can help me 😂
    1. Can I assume "exhaustiveness" parameter as the effort of how many "runs" the program need to obtain the result?
    2. Can I consider that the 10 results from Vina as "10 probabilities"?
    Well the case is the first result which has the best binding affinity does not have the residue-ligand interaction that I desired. But when I check the other 9 poses, several of them have the residue interaction that I intend to report. Thus, I think there are 10 possibilities of ligand poses, though the best binding affinity has the highest probability to occur "in real life", the other 9 are still possible.
    Since the first result has zero interaction, but the remaining results have more than one interaction, I intended to report "This ligand may have up to X interactions with target protein".

  • @chaserheinlander356
    @chaserheinlander356 9 หลายเดือนก่อน

    Can it measure the hydrogen bond distance from the ligand?

  • @guglielmomontarani5048
    @guglielmomontarani5048 4 ปีที่แล้ว +2

    Nice video, can you please make a video in which is explained how performing a docking with a metal ion and bring the results in 2D ?

  • @gajanandongare923
    @gajanandongare923 ปีที่แล้ว

    Nice information

  • @swatisingh.
    @swatisingh. 4 ปีที่แล้ว +2

    Nice👍👍👍

  • @tushardas9400
    @tushardas9400 2 ปีที่แล้ว

    Can you please show us how to dock organometallic compounds in autodock

  • @Piyalimukh03
    @Piyalimukh03 ปีที่แล้ว

    How can I zoom the image in autodock

  • @Joshifamilydiaries
    @Joshifamilydiaries 3 ปีที่แล้ว

    Sir suupose hum ek research article likh rahe hain , sir kya hum comparison ke liye aesa kar sakte hain kya, jese remdesivir ke liye dimension xyz alag rakh rahe hain isme humne docking autodock vina , command prompt waale step se docking ki , or other multiple ligands ke liye humne autodock vina , command prompt se docking nahi ki more than two ligands hone ke usse , isme humne pyrx virtual screening ka use kiya or dimension xyz bhi different rakhi as compare to remdesivir...
    To sir kya hum comparison kar sakte hain ab remdesivir or ye multiple ligands kaa.... Yaa hume sabhi ligands ke liye pyrx virtual screening he krni pdegi , agar hum research article m isko publish karana chahte hain to.... Sir koi problem create to nahi hogi dimension different rakhkr comparison kiya karkr

  • @RohitMihir-q5w
    @RohitMihir-q5w หลายเดือนก่อน

    Hello dear
    Please Help me
    Mujhe autodock me problem aa rahi he
    Me jab run kar raha hu baad me mujhe binding energy positive sign me mil rahi he
    Isme kya problem hoga
    Please help me.

  • @gayatrikotkar4315
    @gayatrikotkar4315 3 ปีที่แล้ว +1

    Hey can u tell me how I can analyase docking score from autodock vina results

    • @organomed
      @organomed  3 ปีที่แล้ว

      You can do it in the same way as shown in autodock. or you can also analyze it using Discovery studio.

  • @satishsaw3829
    @satishsaw3829 2 ปีที่แล้ว

    Have any way to dock DNA with protein

  • @jaidevgollakota1833
    @jaidevgollakota1833 3 ปีที่แล้ว +1

    Hello, When I click on 'show interactions', I am getting an error.
    'Traceback (most recent call last):
    File "C:\Program Files (x86)\MGLTools-1.5.6\lib\site-packages\ViewerFramework\VF.py", line 898, in tryto
    result = command( *args, **kw )
    .
    .(some more similar errors)
    .
    Memory Error'
    Any idea how to fix that?

    • @Draconytt
      @Draconytt 3 ปีที่แล้ว

      I have the same problem, is there a way to fix it?

    • @rpkurup6068
      @rpkurup6068 ปีที่แล้ว

      How can we solve this please help me out

    • @manasii9292
      @manasii9292 ปีที่แล้ว

      anyone found out?

  • @eslamroshdy628
    @eslamroshdy628 3 ปีที่แล้ว

    Great 👏👏

  • @muhammadrehman4129
    @muhammadrehman4129 2 ปีที่แล้ว

    Is there any way or software to analyze protein-protein docking results. Kindly guide...?

  • @ankitajoardar6348
    @ankitajoardar6348 3 ปีที่แล้ว

    How to save a complete dock file in pdb format

  • @etibariabelghalia
    @etibariabelghalia ปีที่แล้ว

    perfect, thank you a lot

  • @tanishabanerjee1968
    @tanishabanerjee1968 ปีที่แล้ว

    i followed the instructions \

  • @yaseenjanalchemist8026
    @yaseenjanalchemist8026 2 ปีที่แล้ว

    Perfect thanks for sharing your thoughts with me thanks done Mashallah

  • @نرجسمحرمی
    @نرجسمحرمی 4 หลายเดือนก่อน

    I got the results of docking, but the problem is that I don't know how to explain the results in my paper

    • @awaisahmad5338
      @awaisahmad5338 3 หลายเดือนก่อน

      Same problem. How to explain in paper, any idea then?

  • @sandraqueiroz6112
    @sandraqueiroz6112 3 ปีที่แล้ว

    Thanks a Lot.

  • @adnansarwar1541
    @adnansarwar1541 4 ปีที่แล้ว

    how can we find number of hydrogen bonds, electrostatic information?

    • @organomed
      @organomed  4 ปีที่แล้ว

      For that I will suggest Discovery Studio because there you can analyze it better.

    • @adnansarwar1541
      @adnansarwar1541 4 ปีที่แล้ว

      @@organomed plz make a video on that or guide me. thanks

    • @organomed
      @organomed  4 ปีที่แล้ว

      @@adnansarwar1541 you can check out the end part of this video or pyrx video already uploaded th-cam.com/video/6BCIQBOswyo/w-d-xo.html

  • @baouchesabrina8443
    @baouchesabrina8443 3 ปีที่แล้ว

    thank u soo u are big help

  • @AmruMagdy
    @AmruMagdy 4 หลายเดือนก่อน

    Hbb gene docking 147***gpcrs 7*❤ honey 👌🧬 biological treatment

  • @kashyapkeshav7
    @kashyapkeshav7 2 ปีที่แล้ว

    thankyou for sharing ...🙌 #bioinformatics