assignment4

Thanyathon Khetsuphan

5036955 SIMI/M

The function of a protein being a direct consequence of its 3-D structure (shape), the logical link was established.
Sequence >> Structure >> Function
Find open reading frame of given nucleotide sequence

The result will be shown translated amino acid


LOCUS Unknown 7108 bp linear 08-JAN-2010

DEFINITION No definition line found.

ACCESSION Unknown

VERSION

KEYWORDS .

SOURCE Unknown.

ORGANISM Unknown.

Unclassified.

FEATURES Location/Qualifiers

source 1..7108

CDS 142..5733,127..5733

/note="predicted coding region"

/translation="MDLSALRVEEVQNVINAMQKILECPICLELIKEPVSTKCDHIFC KFCMLKLLNQKKGPSQCPLCKNDITKRSLQESTRFSQLVEELLKIICAFQLDTGLEYA NSYNFAKKENNSPEHLKDEVSIIQSMGYRNRAKRLLQSEPENPSLQETSLSVQLSNLG TVRTLRTKQRIQPQKTSVYIELGSDSSEDTVNKATYCSVGDQELLQITPQGTRDEISL DSAKKAACEFSETDVTNTEHHQPSNNDLNTTEKRAAERHPEKYQGSSVSNLHVEPCGT NTHASSLQHENSSLLLTKDRMNVEKAEFCNKSKQPGLARSQHNRWAGSKETCNDRRTP STEKKVDLNADPLCERKEWNKQKLPCSENPRDTEDVPWITLNSSIQKVNEWFSRSDEL LGSDDSHDGESESNAKVADVLDVLNEVDEYSGSSEKIDLLASDPHEALICKSERVHSK SVESNIEDKIFGKTYRKKASLPNLSHVTENLIIGAFVTEPQIIQERPLTNKLKRKRRP TSGLHPEDFIKKADLAVQKTPEMINQGTNQTEQNGQVMNITNSGHENKTKGDSIQNEK NPNPIESLEKESAFKTKAEPISSSISNMELELNIHNSKAPKKNRLRRKSSTRHIHALE LVVSRNLSPPNCTELQIDSCSSSEEIKKKKYNQMPVRHSRNLQLMEGKEPATGAKKSN KPNEQTSKRHDSDTFPELKLTNAPGSFTKCSNTSELKEFVNPSLPREEKEEKLETVKV SNNAEDPKDLMLSGERVLQTERSVESSSISLVPGTDYGTQESISLLEVSTLGKAKTEP NKCVSQCAAFENPKGLIHGCSKDNRNDTEGFKYPLGHEVNHSRETSIEMEESELDAQY LQNTFKVSKRQSFAPFSNPGNAEEECATFSAHSGSLKKQSPKVTFECEQKEENQGKNE SNIKPVQTVNITAGFPVVGQKDKPVDNAKCSIKGGSRFCLSSQFRGNETGLITPNKHG LLQNPYRIPPLFPIKSFVKTKCKKNLLEENFEEHSMSPEREMGNENIPSTVSTISRNN IRENVFKEASSSNINEVGSSTNEVGSSINEIGSSDENIQAELGRNRGPKLNAMLRLGV LQPEVYKQSLPGSNCKHPEIKKQEYEEVVQTVNTDFSPYLISDNLEQPMGSSHASQVC SETPDDLLDDGEIKEDTSFAENDIKESSAVFSKSVQKGELSRSPSPFTHTHLAQGYRR GAKKLESSEENLSSEDEELPCFQHLLFGKVNNIPSQSTRHSTVATECLSKNTEENLLS LKNSLNDCSNQVILAKASQEHHLSEETKCSASLFSSQCSELEDLTANTNTQDPFLIGS SKQMRHQSESQGVGLSDKELVSDDEERGTGLEENNQEEQSMDSNLGEAASGCESETSV SEDCSGLSSQSDILTTQQRDTMQHNLIKLQQEMAELEAVLEQHGSQPSNSYPSIISDS SALEDLRNPEQSTSEKAVLTSQKSSEYPISQNPEGLSADKFEVSADSSTSKNKEPGVE RSSPSKCPSLDDRWYMHSCSGSLQNRNYPSQEELIKVVDVEEQQLEESGPHDLTETSY LPRQDLEGTPYLESGISLFSDDPESDPSEDRAPESARVGNIPSSTSALKVPQLKVAES AQSPAAAHTTDTAGYNAMEESVSREKPELTASTERVNKRMSMVVSGLTPEEFMLVYKF ARKHHITLTNLITEETTHVVMKTDAEFVCERTLKYFLGIAGGKWVVSYFWVTQSIKER KMLNEHDFEVRGDVVNGRNHQGPKRARESQDRKIFRGLEICCYGPFTNMPTDQLEWMV QLCGASVVKELSSFTLGTGVHPIVVVQPDAWTEDNGFHAIGQMCEAPVVTREWVLDSV ALYQCQELDTYLIPQIPHSHY

"BASE COUNT 2369 a 1386 c 1591 g 1762 tORIGIN

1 aaaactgcga ctgcgcggcg tgagctcgct gagacttcct ggaccccgca ccaggctgtg

61 gggtttctca gataactggg cccctgcgct caggaggcct tcaccctctg ctctgggtaa

121 agttcattgg aacagaaaga aatggattta tctgctcttc gcgttgaaga agtacaaaat

181 gtcattaatg ctatgcagaa aatcttagag tgtcccatct gtctggagtt gatcaaggaa

241 cctgtctcca caaagtgtga ccacatattt tgcaaatttt gcatgctgaa acttctcaac

301 cagaagaaag ggccttcaca gtgtccttta tgtaagaatg atataaccaa aaggagccta

361 caagaaagta cgagatttag tcaacttgtt gaagagctat tgaaaatcat ttgtgctttt

421 cagcttgaca caggtttgga gtatgcaaac agctataatt ttgcaaaaaa ggaaaataac

481 tctcctgaac atctaaaaga tgaagtttct atcatccaaa gtatgggcta cagaaaccgt

541 gccaaaagac ttctacagag tgaacccgaa aatccttcct tgcaggaaac cagtctcagt

601 gtccaactct ctaaccttgg aactgtgaga actctgagga caaagcagcg gatacaacct

661 caaaagacgt ctgtctacat tgaattggga tctgattctt ctgaagatac cgttaataag

721 gcaacttatt gcagtgtggg agatcaagaa ttgttacaaa tcacccctca aggaaccagg

781 gatgaaatca gtttggattc tgcaaaaaag gctgcttgtg aattttctga gacggatgta

841 acaaatactg aacatcatca acccagtaat aatgatttga acaccactga gaagcgtgca

901 gctgagaggc atccagaaaa gtatcagggt agttctgttt caaacttgca tgtggagcca

961 tgtggcacaa atactcatgc cagctcatta cagcatgaga acagcagttt attactcact

1021 aaagacagaa tgaatgtaga aaaggctgaa ttctgtaata aaagcaaaca gcctggctta

1081 gcaaggagcc aacataacag atgggctgga agtaaggaaa catgtaatga taggcggact

1141 cccagcacag aaaaaaaggt agatctgaat gctgatcccc tgtgtgagag aaaagaatgg

1201 aataagcaga aactgccatg ctcagagaat cctagagata ctgaagatgt tccttggata

1261 acactaaata gcagcattca gaaagttaat gagtggtttt ccagaagtga tgaactgtta

1321 ggttctgatg actcacatga tggggagtct gaatcaaatg ccaaagtagc tgatgtattg

1381 gacgttctaa atgaggtaga tgaatattct ggttcttcag agaaaataga cttactggcc

1441 agtgatcctc atgaggcttt aatatgtaaa agtgaaagag ttcactccaa atcagtagag

1501 agtaatattg aagacaaaat atttgggaaa acctatcgga agaaggcaag cctccccaac

1561 ttaagccatg taactgaaaa tctaattata ggagcatttg ttactgagcc acagataata

1621 caagagcgtc ccctcacaaa taaattaaag cgtaaaagga gacctacatc aggccttcat

1681 cctgaggatt ttatcaagaa agcagatttg gcagttcaaa agactcctga aatgataaat

1741 cagggaacta accaaacgga gcagaatggt caagtgatga atattactaa tagtggtcat

1801 gagaataaaa caaaaggtga ttctattcag aatgagaaaa atcctaaccc aatagaatca

1861 ctcgaaaaag aatctgcttt caaaacgaaa gctgaaccta taagcagcag tataagcaat

1921 atggaactcg aattaaatat ccacaattca aaagcaccta aaaagaatag gctgaggagg

1981 aagtcttcta ccaggcatat tcatgcgctt gaactagtag tcagtagaaa tctaagccca

2041 cctaattgta ctgaattgca aattgatagt tgttctagca gtgaagagat aaagaaaaaa

2101 aagtacaacc aaatgccagt caggcacagc agaaacctac aactcatgga aggtaaagaa

2161 cctgcaactg gagccaagaa gagtaacaag ccaaatgaac agacaagtaa aagacatgac

2221 agcgatactt tcccagagct gaagttaaca aatgcacctg gttcttttac taagtgttca

2281 aataccagtg aacttaaaga atttgtcaat cctagccttc caagagaaga aaaagaagag

2341 aaactagaaa cagttaaagt gtctaataat gctgaagacc ccaaagatct catgttaagt

2401 ggagaaaggg ttttgcaaac tgaaagatct gtagagagta gcagtatttc attggtacct

2461 ggtactgatt atggcactca ggaaagtatc tcgttactgg aagttagcac tctagggaag

2521 gcaaaaacag aaccaaataa atgtgtgagt cagtgtgcag catttgaaaa ccccaaggga

2581 ctaattcatg gttgttccaa agataataga aatgacacag aaggctttaa gtatccattg

2641 ggacatgaag ttaaccacag tcgggaaaca agcatagaaa tggaagaaag tgaacttgat

2701 gctcagtatt tgcagaatac attcaaggtt tcaaagcgcc agtcatttgc tccgttttca

2761 aatccaggaa atgcagaaga ggaatgtgca acattctctg cccactctgg gtccttaaag

2821 aaacaaagtc caaaagtcac ttttgaatgt gaacaaaagg aagaaaatca aggaaagaat

2881 gagtctaata tcaagcctgt acagacagtt aatatcactg caggctttcc tgtggttggt

2941 cagaaagata agccagttga taatgccaaa tgtagtatca aaggaggctc taggttttgt

3001 ctatcatctc agttcagagg caacgaaact ggactcatta ctccaaataa acatggactt

3061 ttacaaaacc catatcgtat accaccactt tttcccatca agtcatttgt taaaactaaa

3121 tgtaagaaaa atctgctaga ggaaaacttt gaggaacatt caatgtcacc tgaaagagaa

3181 atgggaaatg agaacattcc aagtacagtg agcacaatta gccgtaataa cattagagaa

3241 aatgttttta aagaagccag ctcaagcaat attaatgaag taggttccag tactaatgaa

3301 gtgggctcca gtattaatga aataggttcc agtgatgaaa acattcaagc agaactaggt

3361 agaaacagag ggccaaaatt gaatgctatg cttagattag gggttttgca acctgaggtc

3421 tataaacaaa gtcttcctgg aagtaattgt aagcatcctg aaataaaaaa gcaagaatat

3481 gaagaagtag ttcagactgt taatacagat ttctctccat atctgatttc agataactta

3541 gaacagccta tgggaagtag tcatgcatct caggtttgtt ctgagacacc tgatgacctg

3601 ttagatgatg gtgaaataaa ggaagatact agttttgctg aaaatgacat taaggaaagt

3661 tctgctgttt ttagcaaaag cgtccagaaa ggagagctta gcaggagtcc tagccctttc

3721 acccatacac atttggctca gggttaccga agaggggcca agaaattaga gtcctcagaa

3781 gagaacttat ctagtgagga tgaagagctt ccctgcttcc aacacttgtt atttggtaaa

3841 gtaaacaata taccttctca gtctactagg catagcaccg ttgctaccga gtgtctgtct

3901 aagaacacag aggagaattt attatcattg aagaatagct taaatgactg cagtaaccag

3961 gtaatattgg caaaggcatc tcaggaacat caccttagtg aggaaacaaa atgttctgct

4021 agcttgtttt cttcacagtg cagtgaattg gaagacttga ctgcaaatac aaacacccag

4081 gatcctttct tgattggttc ttccaaacaa atgaggcatc agtctgaaag ccagggagtt

4141 ggtctgagtg acaaggaatt ggtttcagat gatgaagaaa gaggaacggg cttggaagaa

4201 aataatcaag aagagcaaag catggattca aacttaggtg aagcagcatc tgggtgtgag

4261 agtgaaacaa gcgtctctga agactgctca gggctatcct ctcagagtga cattttaacc

4321 actcagcaga gggataccat gcaacataac ctgataaagc tccagcagga aatggctgaa

4381 ctagaagctg tgttagaaca gcatgggagc cagccttcta acagctaccc ttccatcata

4441 agtgactctt ctgcccttga ggacctgcga aatccagaac aaagcacatc agaaaaagca

4501 gtattaactt cacagaaaag tagtgaatac cctataagcc agaatccaga aggcctttct

4561 gctgacaagt ttgaggtgtc tgcagatagt tctaccagta aaaataaaga accaggagtg

4621 gaaaggtcat ccccttctaa atgcccatca ttagatgata ggtggtacat gcacagttgc

4681 tctgggagtc ttcagaatag aaactaccca tctcaagagg agctcattaa ggttgttgat

4741 gtggaggagc aacagctgga agagtctggg ccacacgatt tgacggaaac atcttacttg

4801 ccaaggcaag atctagaggg aaccccttac ctggaatctg gaatcagcct cttctctgat

4861 gaccctgaat ctgatccttc tgaagacaga gccccagagt cagctcgtgt tggcaacata

4921ccatcttcaa cctctgcatt gaaagttccc caattgaaag ttgcagaatc tgcccagagt

4981 ccagctgctg ctcatactac tgatactgct gggtataatg caatggaaga aagtgtgagc

5041 agggagaagc cagaattgac agcttcaaca gaaagggtca acaaaagaat gtccatggtg

5101 gtgtctggcc tgaccccaga agaatttatg ctcgtgtaca agtttgccag aaaacaccac

5161 atcactttaa ctaatctaat tactgaagag actactcatg ttgttatgaa aacagatgct

5221 gagtttgtgt gtgaacggac actgaaatat tttctaggaa ttgcgggagg aaaatgggta

5281 gttagctatt tctgggtgac ccagtctatt aaagaaagaa aaatgctgaa tgagcatgat

5341 tttgaagtca gaggagatgt ggtcaatgga agaaaccacc aaggtccaaa gcgagcaaga

5401 gaatcccagg acagaaagat cttcaggggg ctagaaatct gttgctatgg gcccttcacc

5461 aacatgccca cagatcaact ggaatggatg gtacagctgt gtggtgcttc tgtggtgaag

5521 gagctttcat cattcaccct tggcacaggt gtccacccaa ttgtggttgt gcagccagat

5581 gcctggacag aggacaatgg cttccatgca attgggcaga tgtgtgaggc acctgtggtg

5641 acccgagagt gggtgttgga cagtgtagca ctctaccagt gccaggagct ggacacctac

5701 ctgatacccc agatccccca cagccactac tgactgcagc cagccacagg tacagagccc

5761 aggaccccaa gaatgagctt acaaagtggc ctttccaggc cctgggagct cctctcactc

5821 ttcagtcctt ctactgtcct ggctactaaa tattttatgt acatcagcct gaaaaggact

5881 tctggctatg caagggtccc ttaaagattt tctgcttgaa gtctcccttg gaaatctgcc

5941 atgagcacaa aattatggta atttttcacc tgagaagatt ttaaaaccat ttaaacgcca

6001 ccaattgagc aagatgctga ttcattattt atcagcccta ttctttctat tcaggctgtt

6061 gttggcttag ggctggaagc acagagtggc ttggcctcaa gagaatagct ggtttcccta

6121 agtttacttc tctaaaaccc tgtgttcaca aaggcagaga gtcagaccct tcaatggaag

6181 gagagtgctt gggatcgatt atgtgactta aagtcagaat agtccttggg cagttctcaa

6241 atgttggagt ggaacattgg ggaggaaatt ctgaggcagg tattagaaat gaaaaggaaa

6301 cttgaaacct gggcatggtg gctcacgcct gtaatcccag cactttggga ggccaaggtg

6361 ggcagatcac tggaggtcag gagttcgaaa ccagcctggc caacatggtg aaaccccatc

6421 tctactaaaa atacagaaat tagccggtca tggtggtgga cacctgtaat cccagctact

6481 caggtggcta aggcaggaga atcacttcag cccgggaggt ggaggttgca gtgagccaag

6541 atcataccac ggcactccag cctgggtgac agtgagactg tggctcaaaa aaaaaaaaaa

6601 aaaaggaaaa tgaaactagg aaaggtttct taaagtctga gatatatttg ctagatttct

6661 aaagaatgtg ttctaaaaca gcagaagatt ttcaagaacc ggtttccaaa gacagtcttc

6721 taattcctca ttagtaataa gtaaaatgtt tattgttgta gctctggtat ataatccatt

6781 cctcttaaaa tataagacct ctggcatgaa tatttcatat ctataaaatg acagatccca

6841 ccaggaagga agctgttgct ttctttgagg tgattttttt cctttgctcc ctgttgctga

6901 aaccatacag cttcataaat aattttgctt gctgaaggaa gaaaaagtgt ttttcataaa

6961 cccattatcc aggactgttt atagctgttg gaaggactag gtcttcccta gcccccccag

7021 tgtgcaaggg cagtgaagac ttgattgtac aaaatacgtt ttgtaaatgt tgtgctgtta

7081 acactgcaaa taaacttggt agcaaaca

Use given nucleotide (unknown) blast into gen bank database

The result show maximum score is 3844 bits with breast cancer 1

Use these amino acid sequence to blast against protein data bank
MDLSALRVEEVQNVINAMQKILECPICLELIKEPVSTKCDHIFCKFCMLKLLNQKK

GPSQCPLCKNDITKRSLQESTRFSQLVEELLKIICAFQLDTGLEYANSYNFAKKENNS

PEHLKDEVSIIQSMGYRNRAKRLLQSEPENPSLQETSLSVQLSNLGTVRTLRTKQRIQ

PQKTSVYIELGSDSSEDTVNKATYCSVGDQELLQITPQGTRDEISLDSAKKAACEFSET

DVTNTEHHQPSNNDLNTTEKRAAERHPEKYQGSSVSNLHVEPCGTNTHASSLQHEN

SSLLLTKDRMNVEKAEFCNKSKQPGLARSQHNRWAGSKETCNDRRTPSTEKKVDLN

ADPLCERKEWNKQKLPCSENPRDTEDVPWITLNSSIQKVNEWFSRSDELLGSDDSHDG

ESESNAKVADVLDVLNEVDEYSGSSEKIDLLASDPHEALICKSERVHSKSVESNIEDKIFG

KTYRKKASLPNLSHVTENLIIGAFVTEPQIIQERPLTNKLKRKRRPTSGLHPEDFIKKAD

LAVQKTPEMINQGTNQTEQNGQVMNITNSGHENKTKGDSIQNEKNPNPIESLEKESAF

KTKAEPISSSISNMELELNIHNSKAPKKNRLRRKSSTRHIHALELVVSRNLSPPNCTELQI

DSCSSSEEIKKKKYNQMPVRHSRNLQLMEGKEPATGAKKSNKPNEQTSKRHDSDTFPEL

KLTNAPGSFTKCSNTSELKEFVNPSLPREEKEEKLETVKVSNNAEDPKDLMLSGERVLQ

TERSVESSSISLVPGTDYGTQESISLLEVSTLGKAKTEPNKCVSQCAAFENPKGLIHGCSK

DNRNDTEGFKYPLGHEVNHSRETSIEMEESELDAQYLQNTFKVSKRQSFAPFSNPGNAE

EECATFSAHSGSLKKQSPKVTFECEQKEENQGKNESNIKPVQTVNITAGFPVVGQKDKPV

DNAKCSIKGGSRFCLSSQFRGNETGLITPNKHGLLQNPYRIPPLFPIKSFVKTKCKKNLLE

ENFEEHSMSPEREMGNENIPSTVSTISRNNIRENVFKEASSSNINEVGSSTNEVGSSINEIGS

SDENIQAELGRNRGPKLNAMLRLGVLQPEVYKQSLPGSNCKHPEIKKQEYEEVVQTVNTD

FSPYLISDNLEQPMGSSHASQVCSETPDDLLDDGEIKEDTSFAENDIKESSAVFSKSVQKGEL

SRSPSPFTHTHLAQGYRRGAKKLESSEENLSSEDEELPCFQHLLFGKVNNIPSQSTRHSTVA

TECLSKNTEENLLSLKNSLNDCSNQVILAKASQEHHLSEETKCSASLFSSQCSELEDLTANTN

TQDPFLIGSSKQMRHQSESQGVGLSDKELVSDDEERGTGLEENNQEEQSMDSNLGEAASG

CESETSVSEDCSGLSSQSDILTTQQRDTMQHNLIKLQQEMAELEAVLEQHGSQPSNSYPSII

SDSSALEDLRNPEQSTSEKAVLTSQKSSEYPISQNPEGLSADKFEVSADSSTSKNKEPGVERS

SPSKCPSLDDRWYMHSCSGSLQNRNYPSQEELIKVVDVEEQQLEESGPHDLTETSYLPRQDL

EGTPYLESGISLFSDDPESDPSEDRAPESARVGNIPSSTSALKVPQLKVAESAQSPAAAHTTD

TAGYNAMEESVSREKPELTASTERVNKRMSMVVSGLTPEEFMLVYKFARKHHITLTNLIT

EETTHVVMKTDAEFVCERTLKYFLGIAGGKWVVSYFWVTQSIKERKMLNEHDFEVRGDVV

NGRNHQGPKRARESQDRKIFRGLEICCYGPFTNMPTDQLEWMVQLCGASVVKELSSFTLG

TGVHPIVVVQPDAWTEDNGFHAIGQMCEAPVVTREWVLDSVALYQCQELDTYLIPQIPHSHY

The result the maximum score with Chain X, Crystal Structure Of The Brct Repeat Region From The Breast Cancer Associated Protein, Brca1 are 468 bits

This protein structure is the most costly relate to query protein which can be found in protein bank data base (pdb)

View 3D structure of this protein which contained in protein data bank using Cn3D 4.1 program

Function

The C-terminal BRCT region of BRCA1 is essential for its DNA repair, transcriptional regulation and tumor suppressor functions. Here we determine the crystal structure of the BRCT domain of human BRCA1 at 2.5 A resolution. The domain contains two BRCT repeats that adopt similar structures and are packed together in a head-to-tail arrangement. Cancer-causing missense mutations occur at the interface between the two repeats and destabilize the structure. The manner by which the two BRCT repeats interact in BRCA1 may represent a general mode of interaction between homologous domains within proteins that interact to regulate the cellular response to DNA damage. The structure provides a basis to predict the structural consequences of uncharacterized BRCA1 mutations

Reference:Williams RS, Green R, Glover JNCrystal structure of the BRCT repeat region from the breast cancer-associated protein BRCA1Nat. Struct. Biol. v8, p.838-842