Target+- protein-tyrosine-phosphatase+(Yersinia+Enterocolitica)

** NCBI Gene # or RefSeq#: **12602158 ** Protein ID (NP or XP #) or Wolbachia#: **YP_006006958.1 , **Locus tag ****: **Y11_34591 ** Organism: ** //Yersinia enterocolitica// ** Etiologic Risk Group (see link below): ** Risk Group 2 (RG2) - Bacterial Agents Including
 * Target (protein/gene name **** ): **protein-tyrosine-phosphatase

** Background/Disease Information: **
 * Yersiniosis is an infectious disease caused by a bacterium
 * // Yersinia enterocolitica // is most frequently associated with acute diarrhea, terminal ileitis
 * // Belongs to the //family of Enterobacteriaceae
 * Occurs in humans and animals such as cattle, deer, pigs, and birds
 * Common symptoms in children are fever, __#|abdominal pain__, and diarrhea, which is often bloody.
 * Some uncomplicated cases can be resolve on their own without antibiotic treatment but in more severe infections, antibiotics such as doxycycline may be useful.
 * Washing your hands daily and avoiding raw or undercooked meats can also prevent this disease.

===** Essentiality of this protein: **http://www.ncbi.nlm.nih.gov/pubmed/9063884, http://go.galegroup.com/ps/retrieve.do?sgHitCountType=None&sort=DA-SORT&inPS=true&prodId=AONE&userGroupName=txshracd2598&tabID=T002&searchId=R1&resultListType=RESULT_LIST&contentSegment=&searchType=AdvancedSearchForm¤tPosition=1&contentSet=GALE|A9353389&&docId=GALE|A9353389&docType=GALE&role====

** Complex of enzymes: **

 * EC#: **3.1.3.48
 * Link to BRENDA EC# page: ** <span style="color: windowtext; font-family: 'Times New Roman',serif; font-size: 12pt;">[]
 * **<span style="font-family: 'Times New Roman',serif; font-size: 12pt;">Reaction catalyzed by protein-tyrosine-phosphatase (3.1.3.48) ** ||  ||


 * || [[image:part 1.png link="file:///C:/Users/Ivy%20Nwogu/Downloads/Time%20lab%20started.docx"]] || <span style="font-family: 'Times New Roman',serif; font-size: 12pt;">+ ||  || __<span style="color: windowtext; font-family: 'Times New Roman',serif; font-size: 12pt;">[[file:///C:/Users/Ivy%20Nwogu/Downloads/Time%20lab%20started.docx|H2O]] __ || <span style="font-family: 'Times New Roman',serif; font-size: 12pt;">= ||   || [[image:part 2.png link="file:///C:/Users/Ivy%20Nwogu/Downloads/Time%20lab%20started.docx"]] || <span style="font-family: 'Times New Roman',serif; font-size: 12pt;">+ ||   || [[image:part 3.png link="file:///C:/Users/Ivy%20Nwogu/Downloads/Time%20lab%20started.docx"]] ||
 * || __<span style="color: windowtext; font-family: 'Times New Roman',serif; font-size: 12pt;">[[file:///C:/Users/Ivy%20Nwogu/Downloads/Time%20lab%20started.docx|protein tyrosine phosphate]] __ || <span style="font-family: 'Times New Roman',serif; font-size: 12pt;">+ ||  || __<span style="color: windowtext; font-family: 'Times New Roman',serif; font-size: 12pt;">[[file:///C:/Users/Ivy%20Nwogu/Downloads/Time%20lab%20started.docx|H2O]] __ || <span style="font-family: 'Times New Roman',serif; font-size: 12pt;">= ||   || __<span style="color: windowtext; font-family: 'Times New Roman',serif; font-size: 12pt;">[[file:///C:/Users/Ivy%20Nwogu/Downloads/Time%20lab%20started.docx|protein tyrosine]] __ || <span style="font-family: 'Times New Roman',serif; font-size: 12pt;">+ ||   || __<span style="color: windowtext; font-family: 'Times New Roman',serif; font-size: 12pt;">[[file:///C:/Users/Ivy%20Nwogu/Downloads/Time%20lab%20started.docx|phosphate]] __ ||

<span style="font-family: 'Times New Roman',serif; font-size: 12pt;"> **--** http://www.ncbi.nlm.nih.gov/pubmed/15588980 <span style="font-family: 'Times New Roman',serif; font-size: 12pt;"> **--** http://www.sciencedirect.com/science/article/pii/S1046202304001653 <span style="font-family: 'Times New Roman',serif; font-size: 12pt;"> **-- List cost and quantity of substrate reagents and supplier**
 * <span style="font-family: 'Times New Roman',serif; font-size: 12pt;">Enzyme Assay information (spectrophotometric, coupled assay ?, reagents): **

p-nitrophenyl phosphate (pNPP)- SIGMA $71.00


 * Structure Available (PDB or Homology model) **** : **<span style="color: windowtext; font-family: 'Times New Roman',serif; font-size: 12pt;">[]
 * -- PDB # or closest PDB entry if using homology model **** : **<span style="font-family: 'Times New Roman',serif; font-size: 12pt;">3U96
 * <span style="font-family: 'Times New Roman',serif; font-size: 12pt;">-- Query Coverage (if not direct match): N/A **
 * <span style="font-family: 'Times New Roman',serif; font-size: 12pt;">-- Max Ident (if not direct match): N/A **


 * Druggable Target (see Databases for this): **Protein kinases, http://onlinelibrary.wiley.com/doi/10.1002/ddr.20362/abstract


 * Current Inhibitors **** : **<span style="color: windowtext; font-family: 'Times New Roman',serif; font-size: 12pt;">[]


 * Expression Information (has it been expressed in bacterial cells): **http://www.ch.embnet.org/cgi-bin/TMPRED_form_parser


 * Purification Method **** : **<span style="color: windowtext; font-family: 'Times New Roman',serif; font-size: 12pt;">[]

<span style="font-family: 'Times New Roman',serif; font-size: 12pt;">
 * Image of protein (PyMol or etc): **

<span style="font-family: 'Times New Roman',serif; font-size: 12pt;"> ***Amino Acid Sequence:** <span style="color: windowtext; font-family: 'Times New Roman',serif; font-size: 12pt;">[] code <span style="font-family: 'Times New Roman',serif; font-size: 12pt;">>gi|318607573|emb|CBY29071.1| protein tyrosine phosphatase [Yersinia enterocolitica subsp. palearctica Y11] code code <span style="font-family: 'Times New Roman',serif; font-size: 12pt;">MTTSALSHPSLLPLDGGINFRDLGGNVVADGRRIKRGLLFRSGSLDRLSTKDCAVLSSGSVAQILDYRDA code code <span style="font-family: 'Times New Roman',serif; font-size: 12pt;">DEVQAKPDIVWQGASYHNIPANPPSSEVNANLEKLTNETLATFDARAFMLELYRRLPFNNQAYKQLVSLL code code <span style="font-family: 'Times New Roman',serif; font-size: 12pt;">QNSASPEHAAAGVVQHCAVGKDRTGVGSALVLFALGADESTVLEDYLLTETTLAPFREHMLAELALKLNS code code <span style="font-family: 'Times New Roman',serif; font-size: 12pt;">QALGQFAFVLSAREEFIQTALRCIQERYGSSEQWLQQEFGLGRIEREKLQSYFLE

code

<span style="font-family: 'Times New Roman',serif; font-size: 12pt;">**length of your protein in Amino Acids: 265**


 * Molecular Weight of your protein in kiloDaltons **** : **<span style="color: windowtext; font-family: 'Times New Roman',serif; font-size: 12pt;">[]

code <span style="font-family: 'Times New Roman',serif; font-size: 12pt;">Ext. coefficient   21555 code code <span style="font-family: 'Times New Roman',serif; font-size: 12pt;">Abs 0.1% (=1 g/l)  0.738, assuming all pairs of Cys residues form cystines code code code code
 * Molar Extinction coefficient of your protein at 280 nm wavelength: **

code code <span style="font-family: 'Times New Roman',serif; font-size: 12pt;">Ext. coefficient   21430 code code <span style="font-family: 'Times New Roman',serif; font-size: 12pt;">Abs 0.1% (=1 g/l)  0.734, assuming all Cys residues are reduced

code <span style="font-family: 'Times New Roman',serif; font-size: 12pt;"> ***CDS Gene Sequence:** <span style="color: windowtext; font-family: 'Times New Roman',serif; font-size: 12pt;">[] <span style="font-family: 'Times New Roman',serif; font-size: 12pt; vertical-align: baseline;">ATGACGACATCTGCTCTATCTCATCCTTCCCTATTGCCACTGGATGGGGGTATTAACTTCCGTGATCTCG <span style="font-family: 'Times New Roman',serif; font-size: 12pt; vertical-align: baseline;">GTGGTAACGTCGTTGCAGATGGCCGGCGTATTAAGCGCGGGTTATTGTTTCGTTCAGGATCACTTGATCG <span style="font-family: 'Times New Roman',serif; font-size: 12pt; vertical-align: baseline;">TTTGAGCACCAAAGATTGTGCTGTTCTTAGCAGCGGCTCTGTCGCTCAAATCCTTGATTACCGCGATGCG <span style="font-family: 'Times New Roman',serif; font-size: 12pt; vertical-align: baseline;">GATGAAGTTCAGGCTAAGCCCGATATTGTGTGGCAAGGTGCCAGTTATCACAATATTCCAGCCAACCCAC <span style="font-family: 'Times New Roman',serif; font-size: 12pt; vertical-align: baseline;">CCAGCAGTGAAGTTAACGCCAATCTGGAAAAACTGACTAACGAGACGTTAGCAACATTTGATGCCAGAGC <span style="font-family: 'Times New Roman',serif; font-size: 12pt; vertical-align: baseline;">TTTCATGTTAGAGCTGTACCGTCGCCTGCCATTTAATAATCAAGCTTATAAACAGTTAGTCAGTTTGCTA <span style="font-family: 'Times New Roman',serif; font-size: 12pt; vertical-align: baseline;">CAAAATAGTGCCTCACCAGAGCATGCCGCTGCTGGCGTGGTACAGCATTGTGCAGTCGGGAAAGACCGTA <span style="font-family: 'Times New Roman',serif; font-size: 12pt; vertical-align: baseline;">CTGGAGTGGGTTCGGCTTTGGTGTTGTTTGCTTTAGGTGCTGATGAATCGACGGTATTGGAAGATTACCT <span style="font-family: 'Times New Roman',serif; font-size: 12pt; vertical-align: baseline;">GTTGACTGAAACAACACTGGCACCTTTCCGTGAACACATGCTGGCGGAATTGGCACTAAAACTAAATTCT <span style="font-family: 'Times New Roman',serif; font-size: 12pt; vertical-align: baseline;">CAGGCGCTAGGACAGTTTGCATTTGTGTTATCGGCTCGAGAAGAGTTTATTCAAACCGCACTGCGATGTA <span style="font-family: 'Times New Roman',serif; font-size: 12pt; vertical-align: baseline;">TTCAAGAGCGTTACGGGAGCAGCGAGCAATGGCTACAGCAGGAATTTGGTCTTGGCAGAATTGAGCGCGA <span style="font-family: 'Times New Roman',serif; font-size: 12pt; vertical-align: baseline;">AAAGTTGCAGTCATATTTCCTGGAGTAA

code code
 * GC% Content for gene: 47.62%**


 * CDS Gene Sequence (codon optimized) -

http://helixweb.nih.gov/tmp/dnaworks_1346436365p1699_22129/LOGFILE.txt Total Size Of Gene ......... 798 nt

1 ATGACCACCTCTGCACTCTCTCACCCATCTCTGCTCCCGCTGGACGGTGGTATCAACTTC 61 CGTGATCTGGGTGGTAACGTTGTTGCGGACGGTCGTCGTATTAAACGTGGTCTGCTGTTC 121 CGCAGCGGTAGCCTGGACCGTCTGTCTACCAAAGACTGCGCTGTTCTCTCTAGCGGTTCT 181 GTTGCGCAGATCCTGGACTACCGTGACGCGGACGAAGTTCAGGCGAAACCGGACATCGTT 241 TGGCAGGGTGCGTCTTACCACAACATCCCGGCGAACCCGCCGTCTTCTGAAGTTAACGCG 301 AACCTGGAAAAACTCACCAACGAAACTCTGGCCACCTTCGACGCTCGTGCGTTCATGCTG 361 GAACTGTACCGTCGTCTGCCGTTCAACAACCAGGCGTACAAACAGCTGGTTTCTCTCCTG 421 CAGAACTCTGCGTCTCCGGAACACGCGGCTGCGGGTGTTGTTCAGCACTGCGCGGTTGGT 481 AAAGACCGTACCGGTGTTGGTTCTGCGCTCGTCCTGTTTGCCCTCGGTGCCGACGAATCT 541 ACCGTTCTGGAAGACTACCTGCTGACTGAGACCACCCTGGCGCCTTTTCGTGAGCACATG 601 CTCGCTGAACTGGCTCTGAAACTGAACTCTCAGGCGCTGGGTCAGTTCGCCTTCGTTCTG 661 TCTGCGCGTGAAGAATTCATCCAAACGGCCCTGCGTTGCATCCAGGAACGCTACGGTTCT 721 AGCGAACAGTGGCTGCAACAGGAATTCGGTCTGGGTCGTATCGAACGTGAAAAGCTCCAA 781 TCTTATTTCCTCGAATAA

<span style="font-family: 'Times New Roman',serif; font-size: 12pt;">***GC% Content for gene (codon optimized): 55.89%**


 * Primer design results for pNIC-Bsa4 cloning (list seqeunces of all of your ~40 nt long primers):**


 * ( link to DNA Works output text file - **that should be saved in your Google Docs folder after you did the primer design protocol)

-- Ask a mentor, Dr. B, or a fellow researcher -how to link a GDocs file if you are not sure how to.

https://docs.google.com/document/d/1CwiVxxmojEtiNaIdlgOHQzBxSHymG1XhwzuSz3lFHVI/edit

1 ATGACCACCTCTGCACTCTCTCACCCATCTCTGCTCC 37 <span style="font-family: 'Calibri','sans-serif'; font-size: 14.6667px;">20 TTATTCGAGGAAATAAGATTGGAGCTTTTCACGT 34
 * Primer design results for 'tail' primers (this is just 2 sequences): --- 093012: These are not 'Tail' primers. See protocol. - Dr. B**




 * Figure 1: image of the TMpred graph withamino acid sequence ||