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Query: 2ddu_A mol:protein length:387 reelin, from PDB0516

Results of FFAS03 search in PDB0516
Master-slave alignment(slide right to see more) does not show gaps in the query sequence, use ali links to display alignment between query and templates.
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# Score Template Links and tools%idFirst GRSEKQKQVIPVVNPTLPQNFYEKPAFDYPMNQMSVWLMLANEGMAKNDSFCATTPSAMVFGKSDGDRFAVTRDLTLKPGYVLQFKLNIGCTSQFSSTAPVLLQYSHDAGMSWFLVKEGCFPASAGKGCEGNSRELSEPTVYYTGDFEEWTRITIAIPRSLASSKTRFRWIQESSSQKNVPPFGLDGVYISEPCPSYCSGHGDCISGVCFCDLGYTAAQGTCVSNTPNHSEMFDRFEGKLSPLWYKITGGQVGTGCGTLNDGRSLYFNGLGKREARTVPLDTRNIRLVQFYIQIGSKTSGITCIKPRARNEGLVVQYSNDNGILWHLLRELDFMSFLEPQIISIDLPREAKTPATAFRWWQPQHGKHSAQWALDDVLISRLENLYFQLast
1 -160.0002ddu_A mol:protein length:387 reelin  ali model  100  1GRSEKQKQVIPVVNPTLPQNFYEKPAFDYPMNQMSVWLMLANEGMAKNDSFCATTPSAMVFGKSDGDRFAVTRDLTLKPGYVLQFKLNIGCTSQFSSTAPVLLQYSHDAGMSWFLVKEGCFPASAGKGCEGNSRELSEPTVYYTGDFEEWTRITIAIPRSLASSKTRFRWIQESSSQKNVPPFGLDGVYISEPCPSYCSGHGDCISGVCFCDLGYTAAQGTCVSNTPNHSEMFDRFEGKLSPLWYKITGGQVGTGCGTLNDGRSLYFNGLGKREARTVPLDTRNIRLVQFYIQIGSKTSGITCIKPRARNEGLVVQYSNDNGILWHLLRELDFMSFLEPQIISIDLPREAKTPATAFRWWQPQHGKHSAQWALDDVLISRLENLYFQ 387
2 -74.9002e26_A mol:protein length:725 Reelin  ali model follow..  28  1GRDG--------NNLNNPVLLLD--TFD-FGPREDNWFFYPGGNIGLSSKGAPEEDSAMVFVSNEGEHSITTRDLSVNENTIIQFEINVGCSTDSSSADPVRLEFSRDFGATWHLLLPLCYHSSSLVSSLCSTEHHP-SSTYYAGTTQGWRREVVHFGKLHLCGSVRFRWYQGFYPAGSQVTWAIDNVYIGPQCEEMCYGHGSCINGKCICDPGYSGPTCKISTKNPDFLKD-DFEGQLESDRFLLMSGGKPSRKCGILSSGNNLFFNEDGLRMLVTRDLDLSHARFVQFFMRLGCGK-----GVPDPRSQPVLLQYSLNGGLSWSLLQEFLSNSSNVGRYIALEMPLKARSGSTRLRWWQPSEGHFYSPWVIDQILIGGNISGN.. 376
3 -21.3002ygq_A mol:protein length:324 WNT INHIBITORY FACTOR 1  ali model follow..  11  18..IGFEEDILIVSEGKMAPFTHDFRKAQQRMPAIPVNIHSMNFTWQAAGQAEYFYEFLSLRSLDKGIMADPTVNVPLLG--------------------------TVPHKASVVQVGFPCLGKQDGVAAFDVIVMNSEGNTILKTPQNAIFFKTCQQAECPGGCRNGGFCNE-RRICECPDGFHGPHCEKAL-CTPRCMNGGLCVTGFCICPPGFYGVNCDKANCSTTC-----FNGGTCYPGKCICPPGLEGEQCEISKCPQPCRNGGKC----------IGKSKCKCSKGYQGDLCSKPVCEPGCGAHGTCHEPNKCQCQEGWH............................................................. 302
4 -16.8005e6w_A mol:protein length:317 Integrin beta-2  ali model follow..  17  157.............................................................TECIQEQSFVIRALGFTDIVTVQVLPQCECRCRDQSRDR-----LCHGKGFLECGICRCDTGYIGKNCECQTQGRSSQEL--------------------------------------------EGSCRKDNNSIICSGLGDCVCGQCLCHTSIYGQYCECDTIN-NGQVCGGPGRGLCFCGKCRCHPGFEGSACQ.................................................................................................................................. 313
5 -15.9004xlw_B mol:protein length:261 Delta-like protein  ali model follow..  11  105.........................................................................................................RPETSPGNSLISQIIIQGSLAVGKNWKSDEQNNTLTRLRYSYDNYYGDSCSRLCKKRDDHFGHYECQPDGSPSCLPGWTGKYCDQPICLSGCHEQNGYCSKDECNCRPGWQGPLCNECIPHKGC------RHGTCTIPWCACDEGWGGLFCDQAAA.............................................................................................................................. 261
6 -15.4002p26_A mol:protein length:280 Integrin beta-2  ali model follow..  24  196...................................................................................................................................................................................................SLCHGKGFLECGICRCDTGYIGKNCECQTQGRSSQELEGSGLGDCVCGQCLCHTSIYGQYCE.................................................................................................................................. 274
7 -15.0002m74_A mol:protein length:136 Fibrillin-1  ali model follow..  15  22.......................................................................................................NAYCCPGWKTLPGGNQCIVPICRHSCGDGFCSRPNMCTCPSGQIAPSCGSRSI-----------------------------------QHCNIRCMNGGSCSDDHCLCQKGYIGTHCGQPVCESGC-----LNGGRCAPNRCACTYGFTGPQCE.................................................................................................................................. 136
8 -14.9004xl1_B mol:protein length:230 Delta-like protein  ali model follow..  16  153....................................................................................................................................................................................DNYYGDSCSRLCKKRDDHFGHYECQDGSPSCLPGWTGKYCDQPICLSGCH----EQNGYCKPDECNCRPGWQGPLCNEAA............................................................................................................................... 230
9 -14.2002qn5_B mol:protein length:133 Bowman-Birk type bran trypsin inhibitor  ali model follow..  14  8.................................................................................................................................................................................................CDNIKRLPTKPDPPQWRCNDELEPSQCTAA--------KSCREAPGPFPGKLICEDIYWGADPGPFCTPR............................................................................................................................ 70
10 -13.6004cbz_A mol:protein length:312 PROTEIN JAGGED-1  ali model follow..  10  132.........................................................................................................................PSRQWQTLKQNTGVAHFEYQIRVTCDDYYYGFGCNKFCRPRDDFFGHYACDQNGNKTCMEGWMGPECNRAICRQGCSPKHGSCKLGDCRCQYGWQGLYCDKCIPHPGC------VHGICNEPWCLCETNWGGQLCDKDLNYCGT-------HQPCLNGGTCSNTGPDKYQCSCPEGYSGPNCEIVD................................................................................ 306
11 -13.4001aut_L mol:protein length:114 ACTIVATED PROTEIN C  ali model follow..  20  9........................................................................................................................................................................................CLVLPLEHPCASLCCGHGTCIDGSCDCRSGWEGRFCQREVSFLNCSLDNGGCTHYCLEERCSCAPGYKLGDDLLQCHP............................................................................................................................. 94
12 -12.7002vj2_A mol:protein length:169 JAGGED-1  ali model follow..  11  12....................................................................................................................AVTCDDYYYGFGCNKFCRPRD-DQNGNKTCMEGWMGPECNRAICRQGCSPKHGSCKLPGDCRCQYGWQGLYCDKCIPHP--GCVHGICNEPQCLCETNWGGQLCDKDGTHQPCLNGGTCSNTGPDKYQCSCPEGYSGPNCEI................................................................................................................................. 163
13 -12.2005e6v_A mol:protein length:224 Integrin beta-2  ali model follow..  28  187..........................................................................................................................................................................................RCRDQSRDRSLCHGKGFLECGICRCDTGYIGKNCE...................................................................................................................................................................... 221
14 -11.8001k7t_A mol:protein length:186 agglutinin isolectin 3  ali model follow..  12  61.....................................................................................................................................................................................................CSQYGHCGFGAEYCGAGCQGGPCRADIKCGSQAGGKLCPNNLCQWGYCGLGSEFCGEGCQNGACSTDKPCGKDAGGRVCTNNYCCSKWGCGIGPGYCGAGCQSGGCDGVFAEA............................................................................. 176
15 -11.8002ygo_A mol:protein length:188 WNT INHIBITORY FACTOR 1  ali model follow..  12  1.....................................................ETGSLYLWIDAHQARVLIGFEEDVSEGKMAPFTHDFRKAQQR-PVNIHSMNFTWQAAGQAEYFYEFLSLRSLDKGIMADPTVNVPLLGTVPHKASVVQVGFPCLGKQDGVAAFEVDVIVMNSEGNTILKTPQNAIF-QAECPGGCRNGGFCNERICECPDGFHGPHCEGTK................................................................................................................................................................... 182
16 -11.7004k0v_A mol:protein length:529 TEK tyrosine kinase variant  ali model follow..  11  147.............................................................................EVPDILEVHLPHAQPQDAGVYSARYIGGNLFTSAFTRLIVRRCEAQKWGPECNHLCTACMNNGVCHEDT-PGFMGRTCEKACEL--------------------HTFGRTCKERCSGQEGCKSYVFCDPYGCSCATGWKGLQCNEACHPPDCKLRCSCNNGEMRFQGCLCSPGWQGLQCEREGIPRM........................................................................................................................... 326
17 -11.5001dan_L mol:protein length:152 BLOOD COAGULATION FACTOR VIIA light chain  ali model follow..  1..........................................................................................................................................ANAFLEELRPGSLERECKEEQCSFEEAREIFKDAERTKLFWISYSDGDQCASSP-----CQNGGSCKDQICFCLPAFEGRNCETHKDDQLICVNENGSDHTGTKRSCRCHEGYSLLADGVSCTP............................................................................................................................. 129
18 -11.1004xup_A mol:protein length:334 Endo-1,4-beta-xylanase C  ali model follow..  2............ASAAKAGDILLSHSFEEG--TTQGWTARGGVKVDVTAEQAYQGKQSLQTTGRTGPSLSLTDVVHKNEVVEISGYVKLVAGSAPADLKFTVERRDGNGDTQYDQVNAA-----------------------EQVTDQKWVKLQGQYSYEQGSSLLLY------ESTDAKAAYLLDEFQIRLVKAA---------------------PENPGEPGEAGQALFKADFEDGNIGNWRARGTEKLEVVSGIGHNSNRSLKTYHGPLVEVLPYLQKGSTVHISFWAMYDEGPATQV-NRDTANLEYAMFASTTLNKGQWKKIE-------------DIIVPAESTGISGLRMYAETVTETDTIPFYVDDVQITATEA.... 334
19 -11.1003l95_X mol:protein length:244 Neurogenic locus notch homolog protein 1  ali model follow..  12  7...............................................................................................................................................................................................PECQEDA-GNKVCSLQCNNHACGWDGGDCSLNFNDPWKNCTQSFSDGHCDQGCNSAECEWDGLDCAEHVPERLAAGTLVVVVLMPPEQLRNSSSRVLHTNVVFKRDAHGQQMIFPYGDVRGSIVYLEIDN----RQCVQASSQCFQSATDVAAFLGALASLGSLNI-------------YKIEAVQSETVEPA... 236
20 -10.9001pfx_L mol:protein length:146 FACTOR IXA  ali model follow..  19  53..................................................................................................................................................................................................PNPCLNGGLCKDDECWCQVGFEGKNCELDANIKNGRCKQFCKTGADSKVLCSCTTGYRLAPDQKSCKP............................................................................................................................. 126
21 -10.4005fm9_A mol:protein length:157 NEUROGENIC LOCUS NOTCH HOMOLOG PROTEIN 1  ali model follow..  13  7..........................................................................................CASNPCANGGQCLPFEAS-------YICHCPPSFHGPTCRQDVNECGQKPG------------LCRHGGTCHNEVGSYRCVCRATHTGPNCERPYVPCSPSP-----CQNGGTCRPTECACLPGFTGQNCEENDCPGNNCKNGGACVDGVNTYNCRCPPEWTGQYCT.................................................................................................................................. 156
22 -10.4005fma_A mol:protein length:154 NEUROGENIC LOCUS NOTCH HOMOLOG PROTEIN 1  ali model follow..  13  11...........................................................................................................NGGQFEASYICHCPPSFHGPTCRQDVNECGEKPG------------LCRHGGTCHNEVGSYRCVCRATHTGPNCERPYVPCSPSP-----CQNGGTCRPTECACLPGFTGQNCEE-DCPGNNCKNGGACVDGVNTYNCRCPPEWTGQYCT.................................................................................................................................. 153
23 -10.4001wgc_A mol:protein length:171 WHEAT GERM LECTIN  ali model follow..  12  18.....................................................................................................................................................................................................CSQYGYCGMGGDYCGKGCQNGACWTSKRCGSQ-----AGGATCTNNQCCSQYGYCGFGAEYCGAGDIKCGSQAGGKLCPNNLCCSQWGFCGLGSEFCGGGCQSGACSTDKPCGK............................................................................ 134
24 -10.3005es4_B mol:protein length:727 Integrin beta-2  ali model follow..  11  325EDSSNVVQLIKNAYNKLSSRVFLDHNALPDTLKVTYDSFCSNGVTHRGDCDGVQINVPITFQVKVTEQSFVIRALGFTDIVTVQVLPQCECRCRDQSRDR-----LCHGKGFLECGICRCDTGYIGKNCEC-----QTQGRSSQELEGSCRKDNNSIICSGLGDCVCGQCLCHTSDVPGKLIYGCDTINCERYNGQVCGGRGLCFCGKCRCHPGFEGSACQCERTTEGCLNPRRSGRGRCRCNVCECHSGYQLPLCQEPGCPSPCGKYISCAECLKKGPFGKNCSAACPGLQLSNNPVKGRTCKERDSEGCWVAYTLEQQDGMDRYLIYVDESRECVDGCGLENLYFQGGKNAQCKKKLQALKKKNAQLKWKLQAL........... 713
25 -10.3001fax_L mol:protein length:96 FACTOR XA  ali model follow..  14  9..................................................................................................................................................................................................TSPCQNQGKCKDGTCTCLEGFEGKNCELFTCSLDNGDCDQFCHEEQASVVCSCARGYTLADNGKACIP............................................................................................................................. 83
26 -10.2001fyb_A mol:protein length:111 PROTEINASE INHIBITOR  ali model follow..  12  58.............................................................................................................................................................................................NDRICTNCCAGTKGCDDGTFVCEGES--DPRNPKACPRNC-------DPRIAYGICPLA........................................................................................................................................... 111
27 -10.1003i08_A mol:protein length:220 Neurogenic locus notch homolog protein 1  ali model follow..  12  7..............................................................................................................................................................................................LPECQEDA-GNKVC-SLQCNNHAGWDGGDCSLNFNDPWKN-----------TQSLQCWKYFSDGHCDSQCNSAGCLFDGFDCQR-QYCKDHFSDGHCDQGCNSAECEWDGLDCAEHVPERL-VLMPPEQLRNSSFHFLRELSRVLHTN-----VVFKRDAHGQQMIFPYYGREEELRKH.................. 185
28 -9.7101p0s_L mol:protein length:138 Coagulation factor X precursor  ali model follow..  1..........................................................................................................................................ANSFLEEMKKGHLERECMEETCSYEEAREVFEDSDKTNEFWNKYKDGDQCETSP-----CQNQGKCKDGTCTCLEGFEGKNCELFTCSLDNGDCDQFCHEEQNSVVCSCARGYTLADNGKACIP............................................................................................................................. 126
29 -9.6501l3y_A mol:protein length:41 Integrin beta-2:CYSTEINE-RICH MODULE 3  ali model follow..  29  17.....................................................................................................................................................................................................GPGRGLCFCGKCRCHPGFEGSACQ...................................................................................................................................................................... 40
30 -9.5404d90_A mol:protein length:143 EGF-like repeat and discoidin I-like domain-c  ali model follow..  14  3..........................................................................................CDPNPCENGGICLPGLADGSFS-----CECPDGFTDPNCSSVVEVASDEEEPTS---------------------------------------------AGPCTPNPCHNGGTCEISVCKCPRGFNGIHCQH-ECEVEPCKNGGICTDLVANYSCECPGEFMGRNCQYKGGG............................................................................................................................. 137
31 -9.5404xlw_A mol:protein length:124 Neurogenic locus notch homolog protein 1  ali model follow..  19  1..........................................................................................................................................................................................DVDECALGANPCEHAGKCLNTECQCLQGYTGPRCEIDVCISNPCQNDATCLDQIGEFQCICMPGYEGVYCEINTDE-------------CASSPCLHNGRCVEFLCQCPKGFSGHLCQ................................................................................... 115
32 -9.5202vj3_A mol:protein length:135 NEUROGENIC LOCUS NOTCH HOMOLOG PROTEIN 1  ali model follow..  16  1.......................................................................................................................................................................................SAQDVDECSLGANPCEHAGKCINTECQCLQGYTGPRCEI-ECVSNPCQNDATCLDQIGEFQCICMPGYEGVHCEVNTDE-------------CASSPCLHNGRCLDFQCECPTGFTGHLCQ................................................................................... 118
33 -9.4701ehd_A mol:protein length:89 AGGLUTININ ISOLECTIN VI  ali model follow..  17  4...................................................................................................................................................................................................GSQGGGATCPGLRCCSIWGWCGDSEPAVGNPPCGQDRCCSVHGWCGGGNDYCSGGKCQYRCSSS................................................................................................................................ 89
34 -9.4504hj1_A mol:protein length:432 ENVELOPE GLYCOPROTEIN  ali model follow..  12  1.......................................................................................................DPGCSELIQASSRITTCSTEGVNTKCR-----LSGTALIRAGSVGAEACLMLKGVKEDQTKFLKIKTVSSELSCREGQSYWTGSFSPKCLSSRRCHLVGECHVNRCL------------SWRDNETSAEFSFVGESTTMRENKCFEQCGGWGCGCFNVNPSCLFVHTYLQSVRKEALRV-------------------NCID----VHKLTLEITDFDGSVSTIDLGASSSRFTNWGSVSLSLDAEGISGSNSFSFIESPGKGYA---FLGEIRCNSESSV... 253
35 -9.2803m1h_A mol:protein length:178 Lysine specific cysteine protease  ali model follow..  13  9...........................DFENGIPASWKTIDADGDGNNAICVSSASYINFEGPQNPDNYLVTPELSLPGGGTLTFWVCAQDANYASEHYAVYASSTGNDASNFANALL-------EEVLTAKTVVTAPEAIRGTRAQGTWYQKTVQLP----AGTKYVAFRHFGCTDF--FWINLDDVVITSG.................................................................................................................................................................................................. 178
36 -9.1102wgc_A mol:protein length:171 WHEAT GERM LECTIN  ali model follow..  12  18.....................................................................................................................................................................................................CSQYGYCGMGGDYCGKGCQNGACWTSKRCGSQ-----AGGATCPNNHCCSQYGHCGFGAEYCGAGDIKCGSQSGGKLCPNNLCCSQWGFCGLGSEFCGGGCQSGACSTDKPCGK............................................................................ 134
37 -9.0901nfu_B mol:protein length:195 COAGULATION FACTOR XA, LIGHT CHAIN  ali model follow..  14  47..................................................................................................................................................................................................TSPCQNQGKCKDGTCTCLEGFEGKNCELFTCSLDNGDCDQFCHEEQNSVVCSCARGYTLADNGKACIP............................................................................................................................. 121

FFAS is supported by the NIH grant R01-GM087218-01
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Selected papers from Godzik Lab
Ying Zhang, Ines Thiele, Dana Weekes, Zhanwen Li, Lukasz Jaroszewski, Krzysztof Ginalski, Ashley Deacon, John Wooley, Scott Lesley, Ian Wilson, Bernhard Palsson, Andrei Osterman, Adam Godzik. Three-Dimensional Structural View of the Central Metabolic Network of Thermotoga maritima. Science. 2009 Sep 18;325(5947):1544-9.

Alexey M. Eroshkin, Andrew LeBlanc, Dana Weekes, Kai Post, Zhanwen Li, Akhil Rajput, Sal T. Butera, Dennis R. Burton, Adam Godzik. bNAber: database of broadly neutralizing HIV antibodies. Nucl. Acids Res. 2013; published on November 7, 2013.

Ye Y, Godzik A. Comparative analysis of protein domain organization. Genome Res. 2004 Mar;14(3):343-53.