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Query: PF07088.9; GVPD1_HALSA/23-536; GvpD gas vesicle protein, from PfamA30U

Results of FFAS03 search in PfamA30U
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 LSQFFMGDAGETLLINGAPGTGKTLFTIRGLDVLDRDSDVLYVSTRVDQETVHEMYFADHSSLDTTAILDLFQDPFELPLDVDVPFEKLDLDSLLEWIQEINAATTQLTIAFDSWELIYEYLAVRHDDPPDIKTVTNQLAVLAREENIRLMLVTETAAPSSLEYIVDGVVTLQVKEDDRGRTRRDLRLDKLRGVRIGNRLQPFTLADGQFQVITPVELLTIQTGTGNGTWDPLANSKAKFSTGIRDLDRILSGGYNRGSVVHLDLGPDLSRDAWSVLTLPTIRNFLSQEMGVAVVPPREGSPGLLHNDLNTVLSSQVFDTYCHVFETYAGPSDSADRYDQPDSTESFSEMATTTPPDDAPTATHETDGADDGSRSTDGVTGSDQPHPIDEDFESPIEGGQLAYEPYMAYVEQVREESEDPLLHVISMDTAQEAFETRLGDFANYVALHNDLTLLITKQGTELRTRADRVADMHFRLERSGDAIILYGENPLTPLLGIGISQSESIPKITLTEMVLast
1 -132.000PF07088.9; GVPD1_HALSA/23-536; GvpD gas vesicle protein  ali  100  1LSQFFMGDAGETLLINGAPGTGKTLFTIRGLDVLDRDSDVLYVSTRVDQETVHEMYFADHSSLDTTAILDLFQDPFELPLDVDVPFEKLDLDSLLEWIQEINAATTQLTIAFDSWELIYEYLAVRHDDPPDIKTVTNQLAVLAREENIRLMLVTETAAPSSLEYIVDGVVTLQVKEDDRGRTRRDLRLDKLRGVRIGNRLQPFTLADGQFQVITPVELLTIQTGTGNGTWDPLANSKAKFSTGIRDLDRILSGGYNRGSVVHLDLGPDLSRDAWSVLTLPTIRNFLSQEMGVAVVPPREGSPGLLHNDLNTVLSSQVFDTYCHVFETYAGPSDSADRYDQPDSTESFSEMATTTPPDDAPTATHETDGADDGSRSTDGVTGSDQPHPIDEDFESPIEGGQLAYEPYMAYVEQVREESEDPLLHVISMDTAQEAFETRLGDFANYVALHNDLTLLITKQGTELRTRADRVADMHFRLERSGDAIILYGENPLTPLLGIGISQSESIPKITLTEMV 514
2 -47.400PF06745.11; O29463_ARCFU/20-274; KaiC  ali follow..  15  21YVRKPLGGHLAVMNITGVPDTGKSLLAEQFATQAGSGYRVLYVTVESPANFLYTAMKERSEAMG---DFTKVESNVVVIDASESDELRENPKALMETMAYAIKEKKVTNTIIDSITGLYE------HKEMMARQIVRQFFNFMKKYRQTGIFVSQKRSAQAVAHIVDGTIVLDKKLIESGSILRTIRIDGCRIAPHDSRVWVFEISEIGTIEIIA........................................................................................................................................................................................................................................................................................................... 252
3 -17.900PF13401.4; B2UJB3_RALPJ/42-210; AAA domain  ali follow..  16  1......DSQESILLVCGPTGAGKTTLAKFMVENAHSQSPAIYVQAPASGETKFSWRLFYQRILNQSPKVAYGVDSLSGRLVRPRGTSGNSLAALRTAVERGLRARQVQFMVIDEAAHIFR----DTQRNSKLEVQLDTLKSLVNECGTQIVLVGSYDLYHLV................................................................................................................................................................................................................................................................................................................................................................ 169
4 -17.300PF13481.4; B2JV40_BURP8/220-401; AAA domain  ali follow..  12  23VDDVI--PAHAVGAVWGASAAAKSFLVLDLAAALTECRSVLLVSLEGNNGLPRRYLAW----------EKHNGRPVPARLHTLTQGFSLLDPRDTDDLCEAIETCGITVVFIDPFALATI--GLEENSSADMGRAGAALNTLRERTGCTVIAVHHTGKKQE................................................................................................................................................................................................................................................................................................................................................................. 182
5 -16.500PF13479.4; F5YIK8_TREPZ/11-202; AAA domain  ali follow..  10  5............CALFGPSGSGKTMTALRMAKGIADGVPFAVIDTEARSASKYADRIPFDV----------------------DDLDGKTVDHYIAAM-NECVKAGYKVLVIDSLSHAWRELTDEVDRIAQVNPKQKRFIDAILNFPGHIIATMRSKTEKGIEYEFDLLMELD--------QKHQATVTKDR.................................................................................................................................................................................................................................................................................................................................. 191
6 -16.300PF05625.9; W5J4H7_ANODA/9-373; PAXNEB protein  ali follow..  12  14..........................................................................................................................................................................................................................................SGQSIVSSGNPSLDHIFGGGFPVGSIIGLE--EDKYGNYARVLAKYFLAEGLVNDHALLLASLEEDPEQLMRKLPTPVEEKSRSSKS----VPPPSADGMRIAFRYNQLTPVDSEQKSSQTLGHYFDLTKAIDPTTLIGKDITYWSGGEVAMEQEEQSSTSGPFESSHFASLLSCIHRKAREQQKNVLRIC--RGFSKDFVHFLTVLKAIVRNTLSVCFITMPYDSYLCAKLTNLCDYSFGLEAFVGQ--------AEEQANPLFKEYHGLLNIGKITAL 305
7 -14.800PF04665.10; Q6TUP8_YMTV5/6-246; Poxvirus A32 protein  ali follow..  12  16............IALVGGSGSGKTAYLLSLFNTFVEKYRHIFLFTPVYNSEYDSYI-----------WPDHVNRVTTYEELDYSLITTKQKIEKYVKKQGNDKTTEMFLLILDDMG-----------DKQIRSSCLLDFLNHGRHLNTSIILLCQTYKPVNGRTSITHFCCCNVSDSDIENMLRSM........................................................................................................................................................................................................................................................................................................................................ 169
8 -14.300PF08423.9; W1Q8L5_OGAPD/106-359; Rad51  ali follow..  17  26LDTLLGGGTGAITEVFGEFRTGKSQLCHTLAVTCQ-EGKCLYIDTEGTFRPIRLVAIARRFGLDENETLDNVAYARAYNADHQL--------QLLHQAASMMTESRFSLLIVDSIMALYRT-GELSARQMHVAKFMRTLQRLADEFGIAVVITNQVVAQGGAIFNPDPKKPIGGNIVAHSSTTR-LYFKKAKGANLAESETVFALGQGGVI............................................................................................................................................................................................................................................................................................................... 252
9 -13.800PF05621.9; S6B007_9PROT/25-277; Bacterial TniB protein  ali follow..  12  23LEALYKVEDAVGRLVVGRSLMGKSTLFDEFLRR-GDAAIIPIVSVQYPDTAKEGIYPEILASLN------------------ARIPANTKAPELRRATVELLRQVGMRVLLIDEIHNLLE------GSANSQRKGLNSIKYLMNELHRPVITA--------------GTIEALNAIRTDEQISSRLTPLPLV---------RFKDDDAFQELLQCFELMLPLRKPSYLGDPELSSVIYQHTFGVGRVAEVLN-AIREGIECI............................................................................................................................................................................................................................................................ 250
10 -13.600PF03266.13; NTPTH_METAC/3-167; NTPase  ali follow..  11  2............IAVTGSPGVGKSTVVAKTAEKLAEKPGFKIGGI--RTAEIRKEGHREGFSIRDLATGKTGILSHVKGSGPRLGKYHVNLDDLERIANAVRNALACDLVVIDEIGPM----------ELISQSFVSAVEEVLESDKPVLAVLHHSSRHPLAQRFRKGFEVLTVDKGNRDELPEKI........................................................................................................................................................................................................................................................................................................................................ 164
11 -12.800PF01637.16; A8M939_CALMQ/15-228; ATPase domain predominantly from Archaea  ali follow..  11  11IEKLAEKGTWNPVVIYGPEGCGKSAFLKQAVEVLGEDYSVVKVSPLEDESN---------EKLRYSEELRGLFRDIMTRIPTPFNDASALIDIAISLLYDVVRRRIRRALLADDVFQAIGL-----DKAELLVKRLLNMIEYSSVDYERIVVIVATSEGVTWGRIGR---WAEIMAMWNMPREGFGKLYNALPGPKPPFEEVWRWTGG.................................................................................................................................................................................................................................................................................................................. 206
12 -12.400PF09807.7; H2RXC0_TAKRU/2-258; Elongation complex protein 6  ali follow..  4LNSILN--TQGEFILVTDRQSDASFLIHHFLCFLRARCKVLFLGLVQSLNHYSSVSQRLGVSLAQAKDKGQLESSKASEAMDFLRDPAAGLRSLYQFVRSRLSGAGPPVLLVDDVSVLLSL----GVSAGAVLDFSHYCRATVCSRLKGNVVMLTRCDGKGLTHQCSIALHVQGLPTGFCRIHGQVEVCWTDGQCTPSKLFQYKVHD................................................................................................................................................................................................................................................................................................................... 257
13 -12.100PF02572.13; R5BPN3_9FIRM/40-219; ATP:corrinoid adenosyltransferase BtuR/CobO/CobP  ali follow..  16  1.......SRGLILVNTGD-GKGKTTASLGVLRAVGNGYRVLILQFAYGELKAIEALQKAGMPIEIRPMGKGFVFHNKETSEADLQAHRAAADNAWQMLTEEVMSDKWDLIIFDEINYAVKF------GLLPVEQVVDLLKT--KPERLHVVLTGRDAKPEIVA-MADTVTEMRVVKHAYQQ-----GIKAARGIEF.............................................................................................................................................................................................................................................................................................................................. 180
14 -12.000PF03796.13; M4NCG5_9GAMM/198-453; DnaB-like helicase C terminal domain  ali follow..  12  9LDRLTSGQPSDLIIVAARPSMGKTAFALNIAEALGGKKAVVVFSMEMSSSQLAFRLISSVGRIHQQHLRNGDLQEEDWPRVSNADTPGLSPVELRSRARRLHREHGGLGLIVIDYLQLMQVPGNKENRATEISEISRSLKGLAKELNVPVIMMSDLRESGAIEQDADVIMFI-YNKESPDKGVAEIIIGKQRNGPTDTCKLTF....................................................................................................................................................................................................................................................................................................................... 247
15 -11.800PF05729.10; G3V6C0_RAT/441-610; NACHT domain  ali follow..  16  1...........VVAVLGKAGQGKSHWARTVSHIWAQGQ-VFYVPCQC-----------LDRPGDTYHLRDLLCPPNLQPLAMDD-----------EVIDHIVRQPDRVLLILDAFEELEAQDSLLHGPCGPLSPEPCSLRGLLAGLFQRKLLRGCTL-----------LLTARPRGRLAQSLSKADAIFEVPSFSTKQAQIYMR...................................................................................................................................................................................................................................................................................................................... 165
16 -11.600PF07652.12; Q32ZD8_9FLAV/1675-1822; Flavivirus DEAD domain  ali follow..  2.......KKKQLIVLDPHPGAGKTRKVLPEFIRQAVERRLWTLALAPTRVVAAEMAEALNGL------VRYLTPAVIQQHTGKEIVDLMCHATFTMRLLSGGRVPNYNMFIMDEAHFT----------DPSSIAARGYISTKVDMGEASAVFMTATPPGSREPFPDSN.......................................................................................................................................................................................................................................................................................................................................................... 147
17 -10.700PF07931.10; Q98FG2_RHILO/59-238; Chloramphenicol phosphotransferase-like protein  ali follow..  11  1.........ARIVLLNGVGSAGKSSIARALQTIT--AAPFLHVQMDSFLEMLPDALIRAGPVGERTLRGMRHAIAAMAGQGNDLIVDDVLCNGELSDCVDLLSAFDFHLVGVMPLEVLEAREARRADRLPGLARWQYERVHAGISYDLEV--TSQSTPLECARRIQQRF......................................................................................................................................................................................................................................................................................................................................................... 179
18 -10.400PF02399.13; OBP_VZVD/13-828; Origin of replication binding protein  ali follow..  15  46.......QTRPVTVVRAPMGSGKTTALLEWLHALKADISVLVVSCRR---SFTQTLI---QRFNDAGLSGFVTYLTSETYIMGFKRLIVQLESLHRVSSEAIDSYD--VLILDEVMSVIGQL--YSPTMRRLSAVDSLLYRLLNRCS-QIIAMDATVNSQFIDLISG........................................................................................................................................................................................................................................................................................................................................................... 195
19 -10.300PF09848.7; A1A222_BIFAA/236-699; Uncharacterized conserved protein (DUF2075 topsan)  ali follow..  10  1.........SRLIFVQGVAGTGKTVLLSHLFYRIATEMDINGRINDEDDEDILETDSSLKISKEDRRKAYILQIASKLGLQKHFGEVALKPSQFINRFSEKKPRGKADVVLVDEAHLLLTQGDQGYSGKNM-------LHDLLRRAKVVIAVFDPNQSEEDQDMLFPQQAESDVQKTAAGYSGQLERFVPLNMWGDHYLLSRICLHRADDATIRWIDDFADGKRIGRIPQDIGEKDRKTGEYVREPFEIRVFDSPVGLFKAIKEKAYLKASGVDGCGLSRVVATY..................................................................................................................................................................................................................................... 302
20 -10.100PF01443.16; RDRP_TMV/829-1085; Viral (Superfamily 1) RNA helicase  ali follow..  14  1............VLVDGVPGCGKTKE---ILSRVNFDEDLILVPGKQAAEMIRRRANSSGIIVATKDNVKTVDSFMMNFGKS--------------------TRCQFKRLFIDEGLMLHTGC----------------VNFLVAMSLCEAYVYGDTQQIPYIN............................................................................................................................................................................................................................................................................................................................................................... 113
21 -10.000PF13671.4; B2JHT3_BURP8/20-178; AAA domain  ali follow..  1...........LVFICGHAGTGKTTLAKRLIGPLMTGEACCLLDKDTLYGVYSAAAI-------------GALTGDPNDRDSPLFLQHFRDPEYRGLFDTAAENLRLIGVIAVG-------------SREVRERRLFDHVWLGVPKDAKISVVWVSTSEETAR------IAARGNPNDAYKLAHWEDYRQRR.................................................................................................................................................................................................................................................................................................................................. 156
22 -10.000PF13500.4; B1XHZ8_SYNP2/6-216; AAA domain  ali follow..  10  1..........QHIVVASEPYSGKSAVLLGLVQSLQKGISVAYSK-NGRFTRIEDDLRFLGEAFGLKETEVRSPVLFLDEATVAQRLTGQDQTDYPQKLKDDLGAIASDITFIEAPKSLWEGSLFNLSA-----------GEIAATLGAKILLVIPYHHKLLVDSLLTGVVINKIPPEALETAETQIKFLAQRGIDV.............................................................................................................................................................................................................................................................................................................................. 197
23 -9.970PF00154.19; RECA_ACIAD/7-268; recA bacterial DNA recombination protein  ali follow..  12  51........KGRIVEIYGPESSGKTTMTLQAIAQCQKGGTCAFIDAEHALDPQYARKLGVD-------------------IDNLLVSQPDHGEQALEIADMLVRSGAIDLIVVDSVAALTPKAEIEGEQARLMSQALRKITGNAKRSNCMVIFINQIRMKIGVMFTTTGGNALKFYASVRLDIRR-IGQVKEGDEIIGSETKVKVVKN---KMAPPFREA--------------------------IFQILYGKGVN.................................................................................................................................................................................................................................................................. 262
24 -9.960PF01695.15; Y4IQ_RHISN/60-238; IstB-like ATP binding protein  ali follow..  16  46.......AKGANILLFGPPGGGKSHLAAAILALIENGWRVLFTRTTDLVQKLQVAR------------------------------RELQLESAIAKLDKF------DLLILDDLAYV-------TKDQAETSVLFELISARYERR--SIMITANQPFGEWNRVFPDPAMTLAAVD.................................................................................................................................................................................................................................................................................................................................................. 170
25 -9.840PF02283.14; Q89Q74_BRADU/14-176; Cobinamide kinase / cobinamide phosphate guanyltransferase  ali follow..  16  1............ILITGGARSGKSRRAETRTQAF--PGRPVYIATAEALDAEMEDRIAKHRARRGAD---------------------IEREVPLDLVQALVETEGGGARLVDCLTLWLSNLLHSERD---WSREVTHLAEVLPRLRSPVIMVTNEVG---LGIVPDNALA-RTYRDAAGIMNQTFA....................................................................................................................................................................................................................................................................................................................................... 146
26 -9.430PF00910.20; A7M6L1_9SECO/473-576; RNA helicase  ali follow..  17  1............VYAYGESRTGKTLVVDKLITDFQNGKDTVYSRNPIDQ-------YWSGYRRQPIVSIDDFGAVTCDPSMEAQMIPLVSSAPLMAAIEEKGMMFDSKFIFCSS................................................................................................................................................................................................................................................................................................................................................................................................................ 102
27 -9.140PF05707.10; Q79YX7_VIBPA/2-255; Zonular occludens toxin (Zot)  ali follow..  10  1..........ATSFRYGHGGSYKSACAVWLLPALREGRI-CITNIH---------------GMQPLEVIEQRLGEKFPDTARLIRISSRNPEGFELWKYFFCWAPIGAFILIDECQQIFSVNAGFKMANIHKRPFTDFEPH-IDTSSLDNGEIDDIYPENFNNAFMD-IVLLTPDFAQIPKELKGV---------AELAKQHKGKDGIFFSNRKPRILEHDPTRTVTKPSKDDVVYNLKVPLDVHLLYASTVTG.................................................................................................................................................................................................................................................................... 253

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.

Li W, Godzik A. cd-hit: a fast program for clustering and comparing large sets of protein or nucleotide sequences. Bioinformatics. 2006 May 26;