A Simple Perl CGI

Repeats regions & their secondary structure in the PDBID : 3gtl_A

>3gtl_A mol:protein length:1733 DNA-directed RNA polymerase II subunit RPB1

MVGQQYSSAPLRTVKEVQFGLFSPEEVRAISVAKIRFPETMDETQTRAKIGGLNDPRLGSIDRNLKCQTCQEGMNECPGHFGHIDLAKPVFHVGFIAKIKKVCECVCMHCGKLLLDEHNELMRQALAIKDSKKRFAAIWTLCKTKMVCETDVPSEDDPTQLVSRGGCGNTQPTIRKDGLKLVGSWKKDRATGDADEPELRVLSTEEILNIFKHISVKDFTSLGFNEVFSRPEWMILTCLPVPPPPVRPSISFNESQRGEDDLTFKLADILKANISLETLEHNGAPHHAIEEAESLLQFHVATYMDNDIAGQPQALQKSGRPVKSIRARLKGKEGRIRGNLMGKRVDFSARTVISGDPNLELDQVGVPKSIAKTLTYPEVVTPYNIDRLTQLVRNGPNEHPGAKYVIRDSGDRIDLRYSKRAGDIQLQYGWKVERHIMDNDPVLFNRQPSLHKMSMMAHRVKVIPYSTFRLNLSVTSPYNADFDGDEMNLHVPQSEETRAELSQLCAVPLQIVSPQSNKPCMGIVQDTLCGIRKLTLRDTFIELDQVLNMLYWVPDWDGVIPTPAIIKPKPLWSGKQILSVAIPNGIHLQRFDEGTTLLSPKDNGMLIIDGQIIFGVVEKKTVGSSNGGLIHVVTREKGPQVCAKLFGNIQKVVNFWLLHNGFSTGIGDTIADGPTMREITETIAEAKKKVLDVTKEAQANLLTAKHGMTLRESFEDNVVRFLNEARDKAGRLAEVNLKDLNNVKQMVMAGSKGSFINIAQMSACVGQQSVEGKRIAFGFVDRTLPHFSKDDYSPESKGFVENSYLRGLTPQEFFFHAMGGREGLIDTAVKTAETGYIQRRLVKALEDIMVHYDNTTRNSLGNVIQFIYGEDGMDAAHIEKQSLDTIGGSDAAFEKRYRVDLLNTDHTLDPSLLESGSEILGDLKLQVLLDEEYKQLVKDRKFLREVFVDGEANWPLPVNIRRIIQNAQQTFHIDHTKPSDLTIKDIVLGVKDLQENLLVLRGKNEIIQNAQRDAVTLFCCLLRSRLATRRVLQEYRLTKQAFDWVLSNIEAQFLRSVVHPGEMVGVLAAQSIGEPATQMTLNTFHFAGVASKKVTSGVPRLKEILNVAKNMKTPSLTVYLEPGHAADQEQAKLIRSAIEHTTLKSVTIASEIYYDPDPRSTVIPEDEEIIQLHFSLLDEEAEQSFDQQSPWLLRLELDRAAMNDKDLTMGQVGERIKQTFKNDLFVIWSEDNDEKLIIRCRVVRPKSLDAETEAEEDHMLKKIENTMLENITLRGVENIERVVMMKYDRKVPSPTGEYVKEPEWVLETDGVNLSEVMTVPGIDPTRIYTNSFIDIMEVLGIEAGRAALYKEVYNVIASDGSYVNYRHMALLVDVMTTQGGLTSVTRHGFNRSNTGALMRCSFEETVEILFEAGASAELDDCRGVSENVILGQMAPIGTGAFDVMIDEESLVKYMPEQKITEIEDGQDGGVTPYSNESGLVNADLDVKDELMFSPLVDSGSNDAMAGGFTAYGGADYGEATSPFGAYGEAPTSPGFGVSSPGFSPTSPTYSPTSPAYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPAYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPNYSPTSPSYSPTSPGYSPGSPAYSPKQDEQKHNENENSR

1537-1554	VSSPGFSPTSPTYSPTSP
1558-1575	PTSPSYSPTSPSYSPTSP
1579-1596	PTSPSYSPTSPSYSPTSP
1600-1617	PTSPSYSPTSPSYSPTSP
1621-1638	PTSPSYSPTSPSYSPTSP
1642-1659	PTSPSYSPTSPSYSPTSP
1663-1680	PTSPSYSPTSPSYSPTSP
1684-1701	PTSPSYSPTSPNYSPTSP
1705-1719	PTSPGYSPGSPAYSP...








	xxx
1463-1494	EDGQDGGVTPYSN.ESGLVNADLDVKDELMFSP
1501-1533	NDAMAGGFTAYGGaDYGEATSPFGAYGEAPTSP
	x
	x
995-1039	ENLLVLRGKNeIIQNAQRDAVTLFCCllrSRLATRR.VLQEYRL..TK
1062-1102	EMVGVLAAQS.IGEPATQMTLNTFHF...AGVASKK.VTSGVPR..LK
1103-1144	EILNV..AKN.MKTPSLTVYLEPGHA...ADQEQAKlIRSAIEHttLK
	GG S SxTTGGGTTTGGGHHHHxxxHHHHHHSx HHHHHHxxHT
	HHHHHHHHxHHHHHTT xxx x SHHHxxHH
	HHHHTxx SSx SS BEEEEB SS xxxS HHHHHxHHHHTTSxx
308-333	IAGQPQ.ALQKSGRPvKSIRARLKGKE
353-378	ISGDPNlELDQVGVP.KSIAKTLTYPE
	SSS x SSS S x TTTTTSSS
	EEE TTxS TTEEEExEHHHHTT EE
1241-1277	RVVRPK......SLDAETEAEEDHMLKKIENTMLENITLRGVE
1281-1323	RVVMMKydrkvpSPTGEYVKEPEWVLETDGVNLSEVMTVPGID
	E xxxxxx TTTTTTTHHHHHSS B SS S
	EEEExxxxxxE EEE TTSSEEE EEEEE SB HHHHT
153-199	PSEDDPTQLVSR..GGCGNTQPTIRKDGLKLVGSWKKDRATGDADePEL
396-443	PNEHPGAKYVIRdsGDRIDLRYSKRAGDIQLQYGWKVERHIMDND.PVL
	xx B EEETTEEE x
	TTSSS EEEEE xxTT EE TTS TTTTT SS EEEE SxS

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Repeats regions & their secondary structure in the PDBID : 3gtl_B

>3gtl_B mol:protein length:1224 DNA-directed RNA polymerase II subunit RPB2

MSDLANSEKYYDEDPYGFEDESAPITAEDSWAVISAFFREKGLVSQQLDSFNQFVDYTLQDIICEDSTLILEQLAQHTTESDNISRKYEISFGKIYVTKPMVNESDGVTHALYPQEARLRNLTYSSGLFVDVKKRTYEAIDVPGRELKYELIAEESEDDSESGKVFIGRLPIMLRSKNCYLSEATESDLYKLKECPFDMGGYFIINGSEKVLIAQERSAGNIVQVFKKAAPSPISHVAEIRSALEKGSRFISTLQVKLYGREGSSARTIKATLPYIKQDIPIVIIFRALGIIPDGEILEHICYDVNDWQMLEMLKPCVEDGFVIQDRETALDFIGRRGTALGIKKEKRIQYAKDILQKEFLPHITQLEGFESRKAFFLGYMINRLLLCALDRKDQDDRDHFGKKRLDLAGPLLAQLFKTLFKKLTKDIFRYMQRTVEEAHDFNMKLAINAKTITSGLKYALATGNWGEQKKAMSSRAGVSQVLNRYTYSSTLSHLRRTNTPIGRDGKLAKPRQLHNTHWGLVCPAETPEGQACGLVKNLSLMSCISVGTDPMPIITFLSEWGMEPLEDYVPHQSPDATRVFVNGVWHGVHRNPARLMETLRTLRRKGDINPEVSMIRDIREKELKIFTDAGRVYRPLFIVEDDESLGHKELKVRKGHIAKLMATEYQDIEGGFEDVEEYTWSSLLNEGLVEYIDAEEEESILIAMQPEDLEPAEANEENDLDVDPAKRIRVSHHATTFTHCEIHPSMILGVAASIIPFPDHNQSPRNTYQSAMGKQAMGVFLTNYNVRMDTMANILYYPQKPLGTTRAMEYLKFRELPAGQNAIVAIACYSGYNQEDSMIMNQSSIDRGLFRSLFFRSYMDQEKKYGMSITETFEKPQRTNTLRMKHGTYDKLDDDGLIAPGVRVSGEDVIIGKTTPISPDEEELGQRTAYHSKRDASTPLRSTENGIVDQVLVTTNQDGLKFVKVRVRTTKIPQIGDKFASRHGQKGTIGITYRREDMPFTAEGIVPDLIINPHAIPSRMTVAHLIECLLSKVAALSGNEGDASPFTDITVEGISKLLREHGYQSRGFEVMYNGHTGKKLMAQIFFGPTYYQRLRHMVDDKIHARARGPMQVLTRQPVEGRSRDGGLRFGEMERDCMIAHGAASFLKERLMEASDAFRVHICGICGLMTVIAKLNHNQFECKGCDNKIDIYQIHIPYAAKLLFQELMAMNITPRLYTDRSRDF

628-716	TDAGRVY...RPLFIVEDDESLGHKELKVrkGHIAKLMATEYqdieGGF..EDVEEYTWSSlLNEGLVE......YIDAEEEESILIAMQPEdlEPAEAN
791-881	TMANILYypqKPLGTTRAMEYLKFRELPA..GQNAIVAIACY....SGYnqEDSMIMNQSS.IDRGLFRslffrsYMDQEKKYGMSITETFE..KPQRTN
	S EExxx B SSSS SSxxBHHHHHHHTHHxxxxHH xx x HHHHxxxxxxHHHTSB BHHHHTT xx BS S
	S EEESxxxS B SS TTTTTTTTTTxxS B EEE xxxxS xxSS SSTT ExEEHHHHHxxxxxxHTTT EEEEEEEEE xxSS SS
141-169	DVPGRELkYELIAEESED.....DSESGKVFIGR
304-336	DVNDWQM.LEMLKPCVEDgfviqDRETALDFIGR
	x xxxxx EEEE
	SS HHHxHHHHHHHHHHxxxxxHTT SHHHHT
98-119	TKPMVNesdGVTHALYPQEARL
578-596	TRVFVN...GVWHGVHRNPARL
	S EEExxx SSS EEE HHH
	EETxxxTEE EEB HHHH
474-539	SSRAG.VSQVLNRYTYSS.TLSHLRRTNTPIGRDG.KLAKpRQLHNTHWGLVCPAETPEGQACGLVKNL
943-1010	STENGiVDQVLVTTNQDGlKFVKVRVRTTKIPQIGdKFAS.RHGQKGTIGITYRREDMPFTAEGIVPDL
	GGGSSxS SSHHHxHHHHHTEE x x SS GGGBTTB SS STTTTTSEE
	TT EExEEEE EEEETTxTEEEEEEEEEEEE xTT x SSS EE TTTS EETT
283-298	VIIFRALGIIPDGEIL
910-925	VIIGKTTPISPDEEEL
	HHHHHHTT STTHHH
	B EEE

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