PoojaMoolya at 10:21, 28 October 2020

2020-10-28T10:21:34Z

Hezekiah2016: Created page with "{| border=1 || '''Time''' || '''Narration''' |- ||00:01 ||Khublei ïaphi baroh. Pdiang sngewbha sha kane ka tutorial halor '''3D Models of Enzymes in Jmol '''. |- ||00:08..."

2017-05-11T13:50:33Z

Created page with "{| border=1 || '''Time''' || '''Narration''' |- ||00:01 ||Khublei ïaphi baroh. Pdiang sngewbha sha kane ka tutorial halor '''3D Models of Enzymes in Jmol '''. |- ||00:08..."

New page

{| border=1
|| '''Time'''
|| '''Narration'''

|-
||00:01
||Khublei ïaphi baroh. Pdiang sngewbha sha kane ka tutorial halor '''3D Models of Enzymes in Jmol '''.

|-
||00:08
|| Ha kane ka tutorial, ngin pule ban: * '''Load''' structure jong '''Human Pancreatic Hexokinase''' haka '''Jmol panel'''

|-
||00:16
||Pynpher ia ka display jong ka secondary structure

|-
||00:20
||Highlight ki '''amino acid residue''' haka active site.

|-
||00:25
||Highlight '''substrate''' bad ki '''cofactor''' jong ki enzyme.

|-
||00:30
||Bad, peit ka '''Ramachandran plot''' na bynta u '''protein'''.

|-
||00:35
|| Ban bud ïa kane ka tutorial, phi dei ban don ka jing tip ïaka basic biochemistry

|-
||00:41
||bad tip bha shaphang ka rukom treikam naka '''Jmol Application window'''.

|-
||00:46
||Sngewbha peit ïaka tutorial '''Proteins and Macromolecules''' haka '''Jmol Application''' series.

|-
||00:53
||lah ban ioh ïaka na ka link harum.

|-
||00:57
|| Ban record ïa kane ka tutorial, nga pyndonkam ka:* '''Ubuntu''' Operating System version '''12.04'''

|-
||01:05
||'''Jmol''' version '''12.2.2'''.

|-
||01:08
||'''Java''' version '''7''' bad * '''Mozilla Firefox browser''' '''22.0'''.

|-
||01:16
||Plie ïaka '''Jmol window''' bad '''load''' ka structure jong u '''hexokinase''' enzyme.

|-
||01:22
||Nga long connect sha ka '''internet'''. Te, ngan '''load''' beit ïaka structure beit beit naka '''PDB website'''.

|-
||01:28
||Ban leh kumta, plie ïaka '''File''' menu, hiar shapoh bad click ha u jingjied '''Get PDB'''.

|-
||01:37
||Ka '''Input''' dialogue-box ka paw haka screen. Type ïaki saw tylli ki dak '''PDB code''' na bynta ka '''hexokinase''', kata, '''3IDH''' haka text-box.

|-
||01:50
||ïa une u code la ioh na ka website jong ka '''Protein Data Bank'''.

|-
||01:55
||Lada phim don ka internet connection ba long: plie ïaka file '''pdb''' pyndonkam da u icon '''Open a file''' ha u tool bar.

|-
||02:06
||Click ha u jingshon '''OK'''.

|-
||02:09
||ïa ki 3D structure jong u '''hexokinase''' bala tip ruh kum ka '''glucokinase''' la plie haka screen.

|-
||02:16
||Plie ïaka '''Console''' window pyndonkam daka '''File''' menu.

|-
||02:21
||Kumba la pyni ha ka '''Console''', ka structure haka panel ka dei naka bynta ka '''Human Pancreatic Glucokinase''' ryngkat ka substrate '''Glucose'''.

|-
||02:31
||Khang noh ka Console.

|-
||02:34
||Haka panel, ngi don ïaka model '''ball and stick''' jong ka '''hexokinase'''.

|-
||02:40
||Weng ïaki water molecules na ka '''protein model''' haka panel.

|-
||02:44
||ïa Kane ka rukom la batai bniah bha haka Jmol tutorial '''Proteins and macromolecules'''.

|-
||02:53
||Shaphang u '''hexokinase''' Enzyme-

|-
||02:56
||'''Hexokinase''' u dei u '''monomeric protein''' jong ki 465 amino acids.

|-
||03:02
||u don artylli ki '''domains''', Ka domain baheh bad ka domain barit.

|-
||03:07
||Ka '''active-site''' na bynta kane ka '''enzyme''' la pynshong haka '''cleft''' hapdeng ki artylli ki domain.

|-
||03:14
|| Ka Active-site na bynta ka '''hexokinase''' ka don 3 tylli ki '''amino acid residue''': '''Aspergine''' ha '''204''', '''Aspergine''' haka kyrdan ba '''231''' bad '''Glutamic acid''' ha '''256'''.

|-
||03:30
||U '''Alpha-D-Glucose''' u dei u '''substrate''' naka bynta une u enzyme.

|-
||03:34
||Mynta to ngin leit phai pat sha ka Jmol panel.

|-
||03:38
||Ngi lah ban jied bad highlight ïa ki jingpynlong jong u enzymes kum '''Substrate, Cofactors''' lane '''Amino acid residues''' haka active site.

|-
|| 03:49
||Ban jied ïa uno uno u component- plie ïaka pop-up menu dakaba pyndonkam u right-click.

|-
||03:55
|Hiar sha u jingjied '''Select'''.

|-
||03:57
||Naka sub-menu, '''Proteins''', jied '''By Residue name'''.

|-
||04:04
||Ngi don ki '''amino acid residue''' ba marwei bala list hangne.

|-
||04:10
||Click haka kyrteng jong u amino acid ban jied ïa u.

|-
||04:14
||ïa ki amino acids ruh la group hapoh ki heading kum: '''Polar''', '''Non-polar''', '''Basic''', '''Acidic''', '''Uncharged''' ter ter.

|-
||04:26
||Kiba la List haka '''Hetero''' menu, ki long ki metal ion '''potassium''' bad '''substrate glucose'''.

|-
||04:34
||Ngi lah ban pynpher ïaka display jong u '''enzyme''' ban lap suk ïa ka '''substrate binding site'''.`

|-
||04:41
||To ngin pynkylla ïaka display bad ka rong jong ki atoms jong ki protein.

|-
||04:46
||Plie ïaka pop-up menu, leit sha '''Select''' bad hiar sha u jingjied '''Protein'''. Click ha '''All'''.

|-
||04:55
||Plie biang ïaka pop-up menu, Hiar sha u '''Style''', nangta sha u '''Scheme'''. bAd click ha u jingjied '''Sticks'''.

|-
||05:05
||Mynta ngi don haka panel, ïa ka protein haka '''sticks''' display.

|-
||05:11
|Mynta ban pynkylla ïa ka rong, - plie biang ïaka pop-up menu, leit sha '''Color''' >> '''Atoms''' bad click ha u jingjied '''Blue'''.

|-
||05:23
||Ngi don haka screen ïaka model jong ka '''hexokinase''' haka rong blue bad haka '''sticks''' display.

|-
||05:30
||Khmih thuh ïa u substrate '''Alfa-D-Glucose''' haka '''ball and stick''' display haka cleft.

|-
||05:38
||Ban highlight ïa ka substrate- plie ïaka pop-up menu, leit sha '''Select''', nangta '''Hetero''' bad click ha '''GLC-ALFA-D-GLUCOSE'''.

|-
||05:52
||Plie biang ïaka pop-up menu, Hiar sha '''Style''' >> '''Scheme''' bad click ha u jingjied '''Sticks'''.

|-
||06:00
||Ban pynkylla ïaka rong – Plie biang ïaka pop-up menu, Hiar sha '''Color''' >> '''Atoms''' bad click ha u jingjied '''White'''.

|-
||06:12
||Haka panel, ïa u model jong ka '''hexokinase''' ryngkat ka jaka shong jong u '''substrate''' la highlight shai bha.

|-
||06:20
||Ngi lah ban pynkylla ïa ka rong jong ki amino acids haka active site ban highlight ïaki.

|-
||06:26
||ban leh kumta, ngi donkam ban type ki command ha ka '''Console''' window.

|-
||06:32
||Kumba la la batai mynne, ki amino acids kiba don haka active-site ki long u '''Aspergine''' ha ka kyrdan ba 204, '''Aspergine''' haka kyrdan ba 231 bad '''Glutamic acid''' ha 256.

|-
||06:50
|| Plie ïaka '''console window''' pyndonkam ka '''File menu'''. Click ha '''Console'''.

|-
||06:57
||Nga pyndonkam ka '''Kmag''' Screen magnifier ban pyni heh ïaka console window.

|-
||07:03
||Ha u $ (dollar) prompt, type: '''"select"''' hapoh ki square brackets '''"Asn"''' na bynta u aspergine bad khang noh u bracket, '''"204"''' kata, ka kyrdan semicolon '''"color atoms orange"'''.

|-
||07:25
||ñion '''Enter'''.

|-
||07:27
||Khmih thuh ba ki atom jong u '''aspargine residue''' mynta ki long rong orange.

|-
||07:33
||ñion ïa u up-arrow button haka key board bad '''edit''' ïaka command.

|-
||07:39
||Edit ïaka jaka shong u amino acid sha '''231''' bad ka rong jong ki atom sha rong saw.

|-
||07:48
||ñion '''Enter'''.

|-
||07:51
||ñion biang ïa u up-arrow key bad edit ïaka kyrteng jong u amino acid sha '''GLU''', kata u, '''glutamic acid''' bad ka kyrdan sha '''256'''.

|-
||08:06
||bad, ka rong jong ki atom sha rong green bad ñion '''Enter'''.

|-
||08:13
|| Ngi don haka panel ïa ka '''3D model''' jong ka '''hexokinase''' ryngkat ka '''substrate''' bad ka active site bala highlight.

|-
||08:23
||Bala highlight ruh haka model u dei u '''potassium''' atom bala pyni hangne,haka rong purple.

|-
||08:30
||Ngi lah ruh ban pyni ïa ki '''ramachandran plots''' na bynta u protein bala thmu haka jmol.

|-
||08:36
||Ha ka console, ha u dollar($) prompt, type: '''plot ramachandran'''

|-
||08:45
||ñion '''Enter'''.

|-
||08:47
||Ha ka screen, ngi don ka '''ramachandran plot''' na ka bynta ka '''hexokinase'''.

|-
||08:54
||Pyrshang ban '''load''' ïa ki enzymes bapher bapher pyndonkam da ki '''pdb files''' naka database.

|-
||09:00
||Pynkylla ïaka display jong ka secondary structure.

|-
||09:04
|| To ngin Batai lyngkot. Ha kane ka tutorial, ngi la pule ban:: * '''Load''' ki structure jong ka '''Human Pancreatic Hexokinase''' pyndonkam u PDB code.

|-
||09:14
||Pynpher ïaka display jong ka secondary structure.

|-
||09:17
||Highlight ki '''amino acid residue''' haka active site.

|-
||09:21
||Highlight ki '''substrate''' bad ki '''cofactor''' jong ki '''enzyme'''.

|-
||09:25
||Bad,Peit ïa ka '''ramachandran''' plot naka bynta ki proteins.

|-
||09:30
||Kum ka assignment: Load ïa ka dot pdb file jong u enzyme '''Lysozyme''' haka Jmol panel.

|-
||09:38
|| Highlight ïa u substrate bala khum sha u enzyme.

|-
||09:42
|| Highlight ki amino acids haka active site.

|-
||09:46
||Hint: Shim ïa ka '''pdb''' file jong '''Lysozyme''' naka '''PDB database'''.

|-
||09:52
|| Peit ïaka video badon ha kane ka URL:

|-
||09:56
|| Ka batai lyngkot ïaka '''Spoken Tutorial''' project.

|-
||10:00
|| Lada phim don ka bandwidth ba biang, phi lah ban download bad peit ïaka.

|-
||10:04
|| Ka '''Spoken Tutorial''' project team:

|-
||10:07
|| Ka pynlong workshop bad Ka sam certificates.

|-
||10:10
|| Ban tip kham bniah, sngewbha thoh sha ngi

|-
||10:14
|| '''Spoken Tutorial''' project kadei shi bynta jong ka ‘‘‘Talk to a Teacher''' project.

|-
||10:19
|| La kyrshan ïaka daka National Mission on Education Lyngba ka ICT, MHRD, Sorkar India.

|-
||10:25
|| Khambun ka jingtip halor kane ka mission kadon ha kane ka link:

|-
||10:30
|| ïa kane ka script la pynkylla sha ka ktien Khasi da I Hezekiah Lyngdoh na Shillong. Khublei ba phi la ïasnohlang.
|-
|}

@@ Line 69: / Line 69: @@
 |-
 ||01:37
-||Ka '''Input''' dialogue-box ka paw haka screen. Type ïaki saw tylli ki dak '''PDB code''' na bynta ka '''hexokinase''',  kata, '''3IDH'''  haka text-box.
+||Ka '''Input''' dialog-box ka paw haka screen. Type ïaki saw tylli ki dak '''PDB code''' na bynta ka '''hexokinase''',  kata, '''3IDH'''  haka text-box.
 |-

Jmol-Application/C4/3D-Models-of-Enzymes/Khasi - Revision history

PoojaMoolya at 10:21, 28 October 2020

Hezekiah2016: Created page with "{| border=1 || '''Time''' || '''Narration''' |- ||00:01 ||Khublei ïaphi baroh. Pdiang sngewbha sha kane ka tutorial halor '''3D Models of Enzymes in Jmol '''. |- ||00:08..."