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Query: 1c04_B mol:protein length:177 RIBOSOMAL PROTEIN L6, 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 SRVGKKPIEIPAGVTVTVNGNTVTVKGPKGELTRTFHPDMTITVEGNVITVTRPSDEKHHRALHGTTRSLLANMVEGVSKGYEKALELVGVGYRASKQGKKLVLSVGYSHPVEIEPEEGLEIEVPSQTKIIVKGADKQRVGELAANIRAVRPPEPYKGKGIRYEGELVRLKEGKTGKLast
1 -103.0001c04_B mol:protein length:177 RIBOSOMAL PROTEIN L6  ali model  100  1SRVGKKPIEIPAGVTVTVNGNTVTVKGPKGELTRTFHPDMTITVEGNVITVTRPSDEKHHRALHGTTRSLLANMVEGVSKGYEKALELVGVGYRASKQGKKLVLSVGYSHPVEIEPEEGLEIEVPSQTKIIVKGADKQRVGELAANIRAVRPPEPYKGKGIRYEGELVRLKEGKTGK 177
2 -102.0004wce_E mol:protein length:178 50S ribosomal protein L6  ali model follow..  66  2SRVGKKIIDIPSDVTVTFDGNHVTVKGPKGELSRTLNERMTFKQEENTIEVVRPSDSKEDRTNHGTTRALLNNMVQGVSQGYVKVLELVGVGYRAQMQGKDLILNVGYSHPVEIKAEENITFSVEKNTVVKVEGISKEQVGALASNIRSVRPPEPYKGKGIRYQGEYVRRKEGKTGK 178
3 -101.0004v4i_F mol:protein length:180 50S ribosomal protein L6  ali model follow..  55  2SRIGRLPIPVPKGVSVEVAPGRVKVKGPKGELEVPVSPEMRVVVEEGVVRVERPSDERRHKSLHGLTRTLIANAVKGVSEGYSKELLIKGIGYRARLVGRALELTVGFSHPVVVEPPEGITFEVPEPTRVRVSGIDKQKVGQVAANIRAIRKPSAYHEKGIYYAGEPVRLKPGKAGA 178
4 -98.4003j3v_G mol:protein length:179 50S ribosomal protein L6  ali model follow..  80  2SRVGKKLLEIPSDVTVTLDNNTVAVKGPKGELTRTFHPDMEIKVEDNVLTVARPSDQKEHRALHGTTRSLLGNMVEGVSKGFERGLELVGVGYRASKSGNKLVLNVGYSHPVEIVPEEGIEIEVPSQTKVVVKGTDKERVGAIAANIRAVRSPEPYKGKGIRYEGEVVRRKEGKSAK 179
5 -93.5001nkw_E mol:protein length:212 50S ribosomal protein L6  ali model follow..  53  29SRIGKQPIAVPSGVTVNAQDGVFKVKGPKGELTVPYNTELTVRQDGDQLLVERPSDAQKHRALHGLTRTLVANAVKGVSDGYTINLELRGVGFRAKLTGKALEMNIGYSHPVIIEPPAGVTFAVPEPTRIDVSGIDKQLVGQVAANVRKVRKPDAYHGKGVRFVGEQIALKAGKAGA 205
6 -90.0003j7z_G mol:protein length:177 50S ribosomal protein L6  ali model follow..  49  2SRVAKAPVVVPAGVDVKINGQVITIKGKNGELTRTLNDAVEVKHADNTLTFGPRDGYADGWAQAGTARALLNSMVIGVTEGFTKKLQLVGVGYRAAVKGNVINLSLGFSHPVDHQLPAGITAECPTQTEIVLKGADKQVIGQVAADLRAYRRPEPYKGKGVRYADEVVRTKEAK... 175
7 -82.7003j6b_F mol:protein length:214 54S ribosomal protein L6, mitochondrial  ali model follow..  39  17SQVGSLPLYISPEVQVSINAQNITVKGPKGELSVEVPDFLHLDKDEKHNVTVQNSEDKHQRSMWGTVRSLINNHIIGVTEGHLAVLRFVGTGYRAQLEGKFVNVKVGASIKQGLDVPEGIVVKTPAPTSLIIEGCNKQQVLLFAAKLRKFHPPEPYKGKGIYVNDETIKLKDKK... 212
8 -55.4001s72_E mol:protein length:178 50S ribosomal protein L6P  ali model follow..  24  1..MPRVELEIPEDVDAEQDHLDITVEGDNGSVTRRLYPDIDVSVDGDTVVIESDEDNAKTMSTIGTFQSHIENMFHGVTEGWEYGMEVFYSHFQVNVEGDEVVIELGEKAPRRTTIHGDTDVEIDG-EELTVSGPDIEAVGQTAADIEQLT---RINDKDVRQDGVYITRKPNRGD. 177
9 -54.4005an9_B mol:protein length:188 60S RIBOSOMAL PROTEIN L9  ali model follow..  25  5..NSSRKVQIPENVTVDVKGRSVKVTGPRGTLSKSFHASVDINLGKKELTVDLWFGNRKQIACIKTITSIIENMITGVTKGYEYKMRFVYAHFPITDGGRVVEIRFGEKIVRRIELLDGITCYRNEKDEIVLTGNSLELLSQSCATIQL-RSAIKYKDVRKFLDGIYVSERNVLE.. 186
10 -53.2003j7o_H mol:protein length:192 Ribosomal protein uL6  ali model follow..  25  5..LSNQTVDIPENVDITLKGRTVIVKGPRGTLRRDFHINVELSLLKKRLRVDKWWGNRKELATVRTICSHVQNMIKGVTLGFRYKMRSVYAHFPINVVIQRNFLGEKYIRRVRMRPGVACSVSQAQKDELILEGNDIELVSNSAALI---QQATTVKNKDIRLDGIYVSEKGTVQQA 190
11 -53.0003jag_H mol:protein length:190 uL6  ali model follow..  24  5..LSNQTVDIPENVDISLKGRTVIVKGPRGTLRRDFHINVELSLLKKRLRVDKWWGNRKELATVRTICSHVQNMIKGVTLGFRYKMRSVYAHFPINVVIQRNFLGEKYIRRVRMRPGVACSVSQAQKDELVLEGNDIELVSNSAALI---QQATTVKNKDIRLDGIYVSEKGTVQQ. 189
12 -52.8003j79_H mol:protein length:190 60S ribosomal protein uL6  ali model follow..  26  5..VSTQKVLIPEGVKVAINARKVTVSGKYGTLRRSFRHDIRLNKLKKYIKVVMWFGVPDSLACIRTVCTHLKNMFTGVTKKFLYKMRLVHAHFPINSNIVDIRNYLGEKSVRFVKALPGVVIEKSPNVKIYVSGADIENVSLTAALIHQ---SVLCRNKDIRLDGIYVSEVTTVEKD 189
13 -48.7003j16_F mol:protein length:191 60S ribosomal protein L6  ali model follow..  29  7....EQQIEVPEGVTVSIKSRIVKVVGPRGTLTKNLHIDVTFTKNNQLIKVAVHNGGRKHVAALRTVKSLVDNMITGVTKGYKYKMRYVYAHFPINAKFIEVRNFLGDKKIRNVPVRDGVTIEFSTNVKIVLSGNSVEDVSQNAADL---QQICRVRNKDIRLDGIYVSHK...... 184
14 -48.7005I4L Entity 46(prereleased)  ali follow..  29  7....EQQIEVPEGVTVSIKSRIVKVVGPRGTLTKNLHIDVTFTKNNQLIKVAVHNGGRKHVAALRTVKSLVDNMITGVTKGYKYKMRYVYAHFPINAKFIEVRNFLGDKKIRNVPVRDGVTIEFSTNVKIVLSGNSVEDVSQNAADL---QQICRVRNKDIRLDGIYVSHK...... 184
15 -33.4002cql_A mol:protein length:100 60S ribosomal protein L9  ali model follow..  29  12..LSNQTVDIPENVDITLKGRTVIVKGPRGTLRRDFHINVELSLKKKRLRVDKWWGNRKELATVRTICSHVQNMIKGVTLGSGPSS........................................................................................... 99

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.

Jaroszewski L, Rychlewski L, Zhang B, Godzik A. Fold prediction by a hierarchy of sequence, threading, and modeling methods. Protein Sci. 1998 Jun;7(6):1431-40.