生物信息学作业

作业
个人感觉entrez系统查询序列比SRS更精准，推荐用entrez完成作业。

1.Do a search for the 16S ribosomal RNA gene from Aeromonas hydrophila strain
AE7.
a.Give the search details that you used to find this sequence.
b.What is the accession number?
c.How many base pairs are in this sequence?
d.When was the entry last modified?
e.Is there another organism that produces the same gene? If so, name the
organism and show your evidence.
答案：
a.进入网址/Entrez，在搜索栏中输入“16S
ribosomal RNA gene from Aeromonas hydrophila strain AE7”点击GO，在Nucleotide就能找到结果。

b.DQ855289
c． 992 bp
d. 21-AUG-2006
e. there are a few organisms like Drosophila melanogaster and it was published on
Science 316 (5831), 1625-1628 (2007)
2.Search for the nucleotide sequence with accession number NM_013161.
a.What organism is this sequence from?
b.What is the accession number of the protein linked to this sequence?
c.What is the function of this protein?
d.Find a reference by Hjorth, et al, related to this protein. What is the PubMed
ID for this article?
e.In your own words, briefly describe what the researchers reported in the
article.
答案：
a.Rattus norvegicus (Norway rat)
b. NP_037293.1
c.The protein named Pancreatic triglyceride lipase (胰甘油三酯脂酶, PTL), is an enzyme of
digestive system, which plays very important roles in the digestion and absorption of lipids. And there has new data suggested that PTL may be involved in the pathophysiology of TBI (脑外伤) and that PTL may be implicated in the proliferation (增殖) of astrocytes (星形胶质细胞) and the recovery of neurological outcomes.
d. 8490016 Pancreatic lipase structure-function relationships by domain exchange (通过改变结构域来研究胰脂酶三级结构与功能的关系).
e.试验通过交换古典人类胰脂肪酶（HPL）和几内亚猪胰脂肪酶相关蛋白2（GPLRP2）帽子区域设计嵌合突变体，测定两种嵌合体C-端磷脂酶与脂肪酶活性发现脂肪分解酵素在界面锚定和稳定的效应，这个嵌合体的动力学特性首次揭示了胰脂肪酶的界面稳定性取决于它的C端结构域的结构。

3.Search for orthologous nucleotide and protein sequences in more than 5
organisms, save all the sequences in fasta and genbank format for next
practice.
a.Give the titles of those sequences.(first line of the fasta format).
b.What organisms are those orthologous sequences from?
c.What is the sequence length of each sequence?
d.When was each entry last modified?
答案：
1. title of those sequence：>gi|42476098|ref|NM_008117.2| Mus musculus growth
hormone (Gh), mRNA
organism：Mus musculus (house mouse)
length of each sequence：935 bp
last modified：25-SEP-2011
2. title of those sequence：>gi|340371294|ref|XM_00338413
3.1| PREDICTED:
Amphimedon queenslandica probable GH family 25 lysozyme 2-like
(LOC100631690), mRNA
organism：Amphimedon queenslandica
length of each sequence：663 bp
last modified：18-JUL-2011
3. title of those sequence：>gi|260763976|ref|NM_001009315.3| Ovis aries growth
hormone (GH), mRNA
organism：Ovis aries (sheep)
length of each sequence：763 bp
last modified：24-APR-2011
4. title of those sequence：>gi|46048938|ref|NM_204359.1| Gallus gallus growth
hormone 1 (GH), mRNA
organism：Gallus gallus (chicken)
length of each sequence：782 bp
last modified：12-MAR-2011
5. title of those sequence：>gi|170040392|ref|XM_001847933.1| Culex
quinquefasciatus gh regulated tbc protein-1, mRNA
organism：Culex quinquefasciatus (southern house mosquito)
length of each sequence：1008 bp
last modified：01-DEC-2009。