作者amon7279 (硬汉)
看板Biotech
标题[求救] 有人会SWISS-MODEL的Alignment Mode 功能吗??
时间Wed Apr 23 22:23:28 2008
想请问一下 这个alignment该怎麽做
http://0rz.tw/d63Wk SWISS-MODEL页面
进入後点选Alignment Mode
接着在框框输入欲比对的Protein sequence跟Template sequence
麻烦有兴趣的直接复制以下
Target Sequence(这个不用复制)
>P23219|PGH1_HUMAN Prostaglandin G/H synthase 1 - Homo sapiens (Human).
MSRSLLLRFLLFLLLLPPLPVLLADPGAPTPVNPCCYYPCQHQGICVRFGLDRYQCDCTR
TGYSGPNCTIPGLWTWLRNSLRPSPSFTHFLLTHGRWFWEFVNATFIREMLMRLVLTVRS
NLIPSPPTYNSAHDYISWESFSNVSYYTRILPSVPKDCPTPMGTKGKKQLPDAQLLARRF
LLRRKFIPDPQGTNLMFAFFAQHFTHQFFKTSGKMGPGFTKALGHGVDLGHIYGDNLERQ
YQLRLFKDGKLKYQVLDGEMYPPSVEEAPVLMHYPRGIPPQSQMAVGQEVFGLLPGLMLY
ATLWLREHNRVCDLLKAEHPTWGDEQLFQTTRLILIGETIKIVIEEYVQQLSGYFLQLKF
DPELLFGVQFQYRNRIAMEFNHLYHWHPLMPDSFKVGSQEYSYEQFLFNTSMLVDYGVEA
LVDAFSRQIAGRIGGGRNMDHHILHVAVDVIRESREMRLQPFNEYRKRFGMKPYTSFQEL
VGEKEMAAELEELYGDIDALEFYPGLLLEKCHPNSIFGESMIEIGAPFSLKGLLGNPICS
PEYWKPSTFGGEVGFNIVKTATLKKLVCLNTKTCPYVSFRVPDASQDDGPAVERPSTEL
Template sequence(这个不用复制)
>gi|55670189|pdb|1U67|A Chain A, Crystal Structure Of Arachidonic
Acid Bound To A Mutant Of Prostagladin H Synthase-1 That Forms
Predominantly 11- Hpete.
MSRQSISLRFPLLLLLLSPSPVFSADPGAPAPVNPCCYYPCQHQGICVRFGLDRYQCDCTR
TGYSGPNCTIPEIWTWLRTTLRPSPSFIHFLLTHGRWLWDFVNATFIRDTLMRLVLTVRSN
LIPSPPTYNIAHDYISWESFSNVSYYTRILPSVPRDCPTPMGTKGKKQLPDAEFLSRRFLL
RRKFIPDPQGTNLMFAFFAQHFTHQFFKTSGKMGPGFTKALGHGVDLGHIYGDNLERQYQL
RLFKDGKLKYQMLNGEVYPPSVEEAPVLMHYPRGIPPQSQMAVGQEVFGLLPGLMLYATIW
LREHNRVCDLLKAEHPTWGDEQLFQTARLILIGETIKIVIEEYAQQLSGYFLQLKFDPELL
FGAQFQYRNRIAMEFNQLYHFHPLMPDSFRVGPQDYSYEQFLFNTSMLVDYGVEALVDAFS
RQPAGRIGGGRNIDHHILHVAVDVIKESRVLRLQPFNEYRKRFGMKPYTSFQELTGEKEMA
AELEELYGDIDALEFYPGLLLEKCHPNSIFGESMIEMGAPFSLKGLLGNPICSPEYWKAST
FGGEVGFNLVKTATLKKLVCLNTKTCPYVSFHVPDPRQEDRPGVERPPTEL
两个一起都复制到框框里
接着按下submit alignment之後进入第二个页面
Target Sequence 跟 Template Sequence 如果照上面顺序放
就不用重新选择了 PDB-code 是1U67 Chain-ID我不知道所以空着
再按一次submit alignment 结果却是
Your Alignment seems incorrect.Please go BACK and correct your input. ()
我试了好几种方法 也换过其他序列去比对
结果都是这样子
想请问有没有有经验的人 能跟我说我在哪个步骤错了
谢谢
--
※ 发信站: 批踢踢实业坊(ptt.cc)
◆ From: 59.124.121.226
2F:推 lingon:你第二个sequence不是fasta 04/24 06:36
3F:→ lingon:fasta 的format是> header 一行, 下一行开始就是sequence 04/24 06:37
4F:→ amon7279:楼上 我知道 可是为了排版方便才这样排的@@ 04/24 10:18