Phospholipases PLBD1 and PLBD2
Introduction
A surprising number of orphan human enzymes (unknown substrate) still exist ten years after the completion of the human genome. PLBD1 and PLBD2 are semi-orphans in the sense of being probable phospholipases of B class but with uncertain physiological substrates and thus functionalities. This is especially important in the case of PLBD2 which localizes to the lysosome, as its absence could plausibly lead to a serious yet unrecognized lysosomal storage disease.
No bioinformatic algorithm or experimental protocol leads with any certainty to determination of function. The gene pair here has seven targeted publications but cases exist where protein function remains unknown after ten thousand papers (eg PRNP).
PLBD1 and PLBD2 constiture a small gene family (sequence homology class) within vertebrates though it occurs expanded in some early eukaryotes. However, the Pfam clan (NTN: N-terminal nucleophile aminohydrolases) may have additional representatives in humans diverged beyond recognizability in primary sequence among its ten family members. These establish the great antiquity of the fold and certain of its features but are not likely to shed additional light on phospholipases.
PLBD2 presents a special difficulty in that a sequence of post-translational steps are necessary for its activation. Without these, potential substrates can hardly be assayed. These steps include removal of the signal peptide, mannosylation appropriate to the lysosome targeting receptor, and self-catalytic proteolytic activation (into 28k and 42k fragments which remain associated) to expose the substrate binding site once this is appropriate.
Because PLBD1 and PLBD2 are full length paralogs, the bioinformatic approach below considers both. PLBD1 has been somewhat more amenable to activation whereas PLBD2 has a high-resolution structual determination. Thus comparative genomics allow for annotation transfer, first from PLBD2 to a structural model for PLBD1 (provided by SwissModel), then transfer of PLBD1 experimental successes to PLBD2.
However the gene duplication event occured some 650 million years ago and the two genes are quite diverged today. Yet certain core features remain conserved, including the fold, active site residues, signature motifs, ertain glycosylation sites and even the fragmentation pattern, implying these are essential functional features under long-range strong selective pressure for their maintainence.
The disulfides are only separately conserved but this fortuitously provides a reliable signature for assigning deeply diverged proteins from early eukaryotes to their ortholgy class. As the respective functions become known, we can hope to better understand how the gene duplication event contributed advantageously to increasing evolutionary complexity, requiring both copies to persist in most species over the immense time spans involved.
Conservation at critical sites
The six residues of PLBD2 associated with the active site are completely conserved within vertebrates to within genomic sequencing error. These same six residues are also completely conserved within PLBD1. Indeed 3 of the residues are conserved in the broader NTN hydrolase clan.
This is perhaps unsurprising since the active site was established a couple billion years earlier in the bacterial ancestor. However if PLBD2 and PLBD1 have different substrates, this establishes that these six residues are insufficient to distinguish the two active sites. Note H266 and T330 do not contribute their side chain, leaving them and W269 to separate phospholipases from the other NTN hydrolases.
The glycosylation sites are surprisingly conserved both within and between PLBD2 and PLBD1. Some of the motifs may be either recently acquired within later vertebrates or spurious glycosylation motifs with N and D both acceptable (or similar small amino acids) in the first slot of the NxS/T motif. Glycosylation is important in correct targeting of lysosomal proteins, more so than in generic endoplasmic reticulum proteins where motifs are often poorly conserved (as in sulfatases).
PLBD2 has two established disulfides. Strict sequence conservation of these throughout vertebrates (indeed, throughout metazoa) suggests both play an important role in protein structure and stability.
In PLBD1 however, the first disulfide is not a possibility and while an opportunity exists for a disulfide homologous to the the second disulfide of PLBD2, indels cloud the alignment and spacing would have to be different. There is additionally ambiguity given C...CC as to the cysteines involved. Indeed a second distal disulfide may occur utilizing C...CC.............C which has no counterpart in PLBD2. While cysteines can be conserved for many reasons other than disulfide (as in the nucleophile cysteine here), suitably proximity and side chain orientation in the SwissModel of PLBD1 would argue for disulfide. Comparative genomics suggests that C2 and C4 may form an ancient disulfide whereas C1 and C3 might represent a deuterostome innovation.
homSap CNTICCREDLNSPNPSPGGC human PLBD1 braFlo CSAICCRKDLAKVGAKPDGC Branchiostoma floridae strPur SKSICMRGDLM-TSPMPNGC Strongylocentrotus purpuratus XM_001192029 nemVec MNAICSRGDLIADGPRASGC Nematostella vectensis XM_001638165 monBre YNAICSRGDLESDSPSPGGC Monosiga brevicollis XM_001745398 SwissModel coordinates for PLBD1 show the 2nd and 4th sulfur atoms separated by 2.03 angstroms: ATOM 3552 SG CYS 471 49.680 -13.769 -12.461 ATOM 3579 SG CYS 475 49.273 -14.310 -4.881 ATOM 3585 SG CYS 476 51.067 -9.716 -9.172 ATOM 3678 SG CYS 490 50.737 -13.198 -5.75
The known human SNPs of PLBD2 are in some cases quite radical substitutions in terms of both physical qualities of the substituted amino acid and the degree of observed phylogenetic conservation at that site. These likely result in unstable and/or inactive enzyme. Both enzymes are autosomal so compensation might occur in the recessive state, or alternately, PLBD2 and PLBD1 could fill for each other to some extent. In either case, lysosomal storage disease might not be clinically observable.
Here Q54P may actually be a mutation in the reference sequence individual (with the SNP representing wildtype) as proline is quite well conserved throughout mammals. In A204V, valine is quite a bulky substituent for a site normally restricted to small amino acids; R354C is definitely a serious mutation, no doubt attributable to a CpG hotspot; Q521K appears milder as does R524C.
The known human SNPs of PLBD1 can be analyzed similarlly. P26Q and V30L may be inconsequential as they occur in the rather unconstrained primary sequence of the N-terminus; V265I occurs at an ILV reduced alphabet; V377A and P534A are much more serious despite the aliphatic nature of alanine and likely give rise to dysfunctional protein.
Structural superposition of active sites from five NTN hydrolases showing conserved side chains (*) and relevant main chains (....) (adapted from Fig 6 of Lakomek et al. BMC Struct Biol.2009;9:56:) * (*) * * PLBD2 phospholipase B-like gray 3FGR C244 H261 W264 T325 N427 R458 human numbering PLBD1 phospholipase B-like .... pred C228 H245 W248 T303 N402 R433 human numbering SwissModel Cephalosporin acylase pink 1OQZ S170 .... H192 .... N413 R443 Conjugated bile acid hydrolase green 2BJF C2 .... D21 .... N175 R228 Penicillin V acylase yellow 3PVA C1 .... D20 .... N175 R228 Penicillin G acylase orange 1K5S S1 .... Q23 .... N241 R263 Human SNPs resulting in amino acid substitions: PLBD2: PLBD1: Q54P rs7965471 P26Q rs1141509 A204V rs12231990 V30L rs12296104 R354C rs56935204 V265I rs7957558 Q521K rs17852787 V377A rs2287541 R524C rs12425042 P534A rs1600
Intron evolution
PLBD1 and PLBD2, being full length paralogs, clearly indicate an early gene duplication and subsequent divergence to the current low percent identity. Segmental duplications preserve any introns present at the time of the event and these generally persist in both position and phase into living species.
However PLBD1 and PLBD2 -- despite having similar numbers of introns -- exhibit very little in common in terms of location as the diagram below shows. One possibility is that a second copy arose as a retroprocessed gene (a mechanism erasing existing introns) and was subsequently intronated at random positions. This is unlikely here given that 10-11 relatively rare events would be needed.
The remaining possiblity is that the gene duplication took place prior to the main era in early eukaryotes during which the bulk of introns were established. This fits the current state of high divergence despite fairly slow rates of evolution during metazoan times.
The last five amino acids of each PLBD1 exon are colored below. Then using an alignment of PLBD1 to PLBD2, the colors are mapped to the homologous five residues within PLBD2. There they fall on the ends of exons only when these correspond to those of PLBD1. The outcome here -- despite uncertainties in alignment gapping -- shows intron positions do not correspond with the exception of the terminal intron (which also is phase 0).
While this merely compares human PLBD1 and PLBD2, the collected reference sequences (intronated against their respective genome assemblies) confirm that introns in both genes are deeply conserved.
PLBD1 introns do not correspond well to those of PLBD2: >PLBD1_homSap Homo sapiens (human) first and last introns are not mappable 0 MTRGGPGGRPGLPQPPPLLLLLLLLPLLLVTAEPPKPA 1 2 GVYYATAYWMPAEKTVQVKNVMDKNGDAYGFYNNSVKTTGWGILEIRAGYGSQTLSNEIIMFVAGFLEGYLTAP 2 1 HMNDHYTNLYPQLITKPSIMDKVQDFME 2 1 KQDKWTRKNIKEYKTDSFWRHTGYVMAQIDGLYVGAKKRAILEGTK 0 0 PMTLFQIQFLNSVGDLLDLIPSLSPTKNGSLKVFKRWDMGHCSALIK 0 0 VLPGFENILFAHSSWYTYAAMLRIYKHWDFNVIDKDTSSSRLSFSSYP 1 2 GFLESLDDFYILSSGLILLQTTNSVFNKTLLKQVIPETLLSWQRVRVANMMADSGKRWADIFSKYNS 1 2 GTYNNQYMVLDLKKVKLNHSLDKGTLYIVEQIPTYVEYSEQTDVLRK 1 2 GYWPSYNVPFHEKIYNWSGYPLLVQKLGLDYSYDLAPRAKIFRRDQGKVTDTASMKYIMRYN 1 2 NYKKDPYSRGDPCNTICCREDLNSPNPSPGGCYDTK 0 0 VADIYLASQYTSYAISGPTVQGGLPVFRWDRFNKTLHQGMPEVYNFDFITMKPILKLDIK* 0 >PLBD2_homSap Homo sapiens (human) 0 MVGQMYCYPGSHLARALTRALALALVLALLVGPFLSGLAGAIPAPGGRWARDGQVPPASRSRSVLLDVSAGQLLMVDGRHPDAVAWANLTNAIRETG 2 1 WAFLELGTSGQYNDSLQAYAAGVVEAAVSEE 0 0 LIYMHWMNTVVNYCGPFEYEVGYCERLKSFLEANLEWMQEEMESNPDSPYWHQ 0 0 VRLTLLQLKGLEDSYEGRVSFPAGKFTIKPLGFL 2 1 LLQLSGDLEDLELALNKTKIKPSLGSGSCSALIKLLPGQSDLLVAHNTWNNYQHMLRVIKKYWLQFREGPW 1 2 GDYPLVPGNKLVFSSYPGTIFSCDDFYILGSGL 0 0 VTLETTIGNKNPALWKYVRPRGCVLEWVRNIVANRLASDGATWADIFKRFNSGT 2 1 YNNQWMIVDYKAFIPGGPSPGSRVLTILEQIP 2 1 GMVVVADKTSELYQKTYWASYNIP 2 1 SFETVFNASGLQALVAQYGDWFSYDGSPRAQIFRRNQSLVQDMDSMVRLMR 2 1 YNDFLHDPLSLCKACNPQPNGENAISARSDLNPANGSYPFQALRQRSHGGIDVK 0 0 VTSMSLARILSLLAASGPTWDQVPPFQWSTSPFSGLLHMGQPDLWKFAPVKVSWD* 0
Compositional anomaly in first exon
The first exon of both PLBD1 and PLBD2 are ill-behaved in alignments. The explanation can be see in their compositional distortion (very high GC content) that specialized masking tools such as seg and gnu recognize. Such dna manifests itself at the protein level by high levels of the amino acids, such as GPL that use those codons in the three reading frames.
Such regions are prone to repeated expansions and contractions via replication slippage. Not only do we expect such alleles in human but also that inter-species comparisons will be difficult and alignments problematic (as homology by definition is lost even if the sequences still align).
This matters very little to the mature protein since this region is trimmed off during maturation but the question still arises as to how signal peptide variations continue to be recognized efficiently by the signal receptor complex. Indeed a class of mutations could exist in which the signal peptide cannot be processed correctly and the protein never reaches the lysosomal compartment, in effect a knockout mutation.
This compositional anomaly may have caused vertebrate-wide sequencing problems. Many assemblies had difficulty sequencing up to the initial methionine and alignment programs also choked. A set of reliable sequences could only be obtained after careful hand-curation.
Even then the set of first exons raises more questions than it answers as it seems to be evolving quite chaotically in fish. Mammals also exhibit a peculiar conserved insertion as placentals diverged from marsupials.
PLBD1: ATGAcccgcggcggtccgggcgggcgcccggggctgccacagccgccaccgcttctgctgctgctgctgctgctgccgctgttgTTAGTCACCGCGGAGCCGCCGAAACCTGCAG MTRxxxxxxxxxxxxxxxxxxxxxxxxxxVTAEPPKPA MTRGGPGGRPGLPQPPPLLLLLLLLPLLLVTAEPPKPA PLBD2: ATGGTGGGCCAGATGTACTGCTACCCCGGCAGCCACCTGGCCCGGGCGCTGACGCGGGCGCTGGCGCTGGCCCTGGTGCTGGCCCTGCTGGTCGGGCCGTTCCTGAGCGGCCTGGCGGGGGCGATCCCAGCGCCGGGGGGCCGCT... MVGQMYCYPGSHxxxxxxxxxxxxxxxxxxxGPFLSGLAGAIPAPGGR... MVGQMYCYPGSHLARALTRALALALVLALLVGPFLSGLAGAIPAPGGR...
Hand-curated leader sequences >PLBD2_homSap MVGQMYCYPGSHLARALTRALALALVLALLVGPFLSGLAGAIPAPGGRWARDGQVPPASRSRSVLLDVSAGQLLMVDGRHPDAVAWANLTNAIRETG >PLBD2_panTro MVGQMYCSPGSHLARALTRALALALVLALLVGPFLSGLAGAIPAPGGRWARDGPVPPASRSRSVLLDVSAGQLLMVDGRHPDAVAWANLTNAIRETG >PLBD2_ponAbe MVGQMYGSSGSHLA----RALALALVLALLVGPFLSGLAGAIPAPGGRWARDGPVTPASRSRSVLLDASAGQLLLVDGRHPDAVAWANLTNAIRETG >PLBD2_rheMac MVGQMYCSSGSPLARALTRALALALVLALLVGLFLSGLAGAIPAPGGRWAHDGPVTPASRSRSVLLHAATGQLLLVDGRQPDAVAWANLTNSIHETG >PLBD2_papHam MVGQMYCSSGSPLARALTRALALALVLALLVGLFLSGLAGAIPAPGGRWAHDGPVTPASRSRSVLLDAATGQLLLVDGRHPDAVAWANLTNAIRETG >PLBD2_calJac MVGKMYSSPSSRLAQALTRALALALVLALLAGLFLSGLSGAIPAPGGRWARDGSVPSGSGSRSVVLDAAAGQLLLVDGRHPDAVAWANLTNAIHETG >PLBD2_otoGar MvGPMYGSPGGRLARALTRALALALVLaLLIGLFLSCLAGAiPPPGSGRARDGLITPASRSSSVLLDATTDQLRLVDGRHPDAVAWANLSNAIHETG >PLBD2_musMus MAAPVDGSSGGWAARALRRALALTSLLASLTGLLLSGPAGALPTLGPGWQRQNPDPPVSRTRSLLLDAASGQLRLEDGFHPDAVAWANLTNAIRETG >PLBD2_ratNor MAAPMDRTHGGRAARALRRALA----LASLAGLLLSGLAGALPTLGPGWRRQNPEPPASRTRSLLLDAASGQLRLEYGFHPDAVAWANLTNAIRETG >PLBD2_dipOrd MAAPPYGSRGGRPAGSLSRALV----LAVLVGLSPSGPAGAVPSPGDRWGRHKPEPPVSRSRSVLVDAASGQLRLVDGLHPGAVAWANLTNAIRETG >PLBD2_cavPor MAAPTYVSLDGRPVRARALALA----PALCLLVGLSLGRLAGAVPAPGPRGARDGPVPAACRSVLLDAASGQLRLVDGLQPGAVAWANLTNAIPETG >PLBD2_oryCun MVAPRDGCAGGRLARALALALL--------TGLLLGGLAGAAPAPGGGEQRDPPSPPASCCRSALLDAATGQLRLVDGRHPDAVAWANLTNAIHETG >PLBD2_ochPri MAATRDSSAGCRLARVLTRALAL---LALPTGLFLSGPAGAIPVRGDGEERGRPAPSGSRCRSVLVDAESGQLRLVDGRHPAAVAWANLTNAIHETG >PLBD2_turTru MVDPMYGCPGGRLARALTRALALALVLALLVGLFLSGLTGAIPTPRGHRGPGRPVPPASRCRSVLLDPEtGQLRLVDGRHPDAVAWANLTNAIRETG >PLBD2_bosTau MVAPMYGSPGGRLARAVTRALALALVLALLVGLFLSGLTGAIPTPRGQRGRGMPVPPASRCRSLLLDPETGQLRLVDGRHPDAVAWANLTNAIRETG >PLBD2_oviAri MVAPMYGSPGGRLARAVTRALALALVLALLVGLFLSGLTGAIPTPRGQRGRGMPVPPASRCRSLLLDPETGQLSLVDGRHPDAVAWANLTNAIRETG >PLBD2_susScr MVAPMYGSPGGRLARALTRALALALVLALLVGLFLSGLTSAIPTPKGYRGSGRSVPPASRSRSVLLDTETGQLRLVDGRHPDAVAWANLTNAIHENG >PLBD2_ursAme MAAPMYGSPGGRLARALTRALALALVLALLVGLFLSGLTGAIPISGRQWGPNGPVPPDSRSRSVLLDAETGQLRLVDGRHPEAVAWANLTNAIRETG >PLBD2_musPut GS-GGRLARALTRALALALVLALLVGLFLSGLTGAIPISGRQWGPKGPVPPDSRSRSVLLDAETGQLRLVDGRHPDAVAWANLTNAIRETG >PLBD2_canFam ...................................SGLTGATPVSGRRWGPSGPVPPASRSRSVRLDPQTGQFQLVDGRNPDAVAWANLTNAIRDTG >PLBD2_felCat .................................................GPDGPVPPASRSRSVLLDAETGQLRLVDGRHPDAVAWANLTNAIRETG >PLBD2_myoLuc MVAPPSRSPGGRLTPALSRAPALAPGLALLAGLFLSGWTGAIPTPRDPWGPNGPVPPASRSRSVVLDARTGQLQLVDGRQPDAVAWANLTNAIHETG >PLBD2_pteVam MVAPMDRSPGGRLAGALTRTLELTLVLAPLAGLFLSGRTSAIQTPGSRWGSEGPVSPASRSRSVLLDPQTGQLRLVDGRHPDAVAWANLTNAIHETG >PLBD2_eriEur MVAPMCGSPGGRPARALTRALALAPALALLVGLFLSSLAGAIPPPEDNWGRNGSFPPVSRCRSVLLDSETGQLRLVDGRHPDAVAWANLSNAIHETG >PLBD2_loxAfr MVAPVYGSPGGRLARALTQALAVALVLALLVGLFLSGLTGAISLTGHRWGPDGPAPPASRSRSVLLDTATGQLRLVDGRHPDAVAWANLTNAIRETG >PLBD2_echTel MVATEYGSPGGRLARALTRAPALALMLALLVGLFLSGLTGAISPAGGRREPNGRVPPASSSRSALLDPATGQLRLADGRHPEAVAWANLTNAIHETG >PLBD2_macEug mVATMYQ--GGCLALGLALGLGLVLVLSLPQPSL--------------------PPPPSRTRSVVMDSATGQLNVVEGWEAGAIAWANLTNAIAETG >PLBD2_monDom MVATMCQ--GSSLALGLALALGLALGLRPPQPSL-------------------PPPAPSRSCSVVLDEASGQLKVVEGAQAGAVAWANLTNAIGETG >PLBD2_anoCar MAPAWLLRFFGLALLLARSPARRPPPFPDPAAVP------------------------TRSCSVVLEPGSAALKLVNGWAPGAVAWANLTEGIRQNG >PLBD2_galGal MAVVRALLVAAAVAAWVPGVASGPTPPP-------------------------------RSASVLLEPGSGRLRVLPGRQPAAVAWAELTDHIQAVG >PLBD2_melGaL MAVVRALLVAAAVAAWVPGVASGPTPPP-------------------------------RSASVLLEPGSGRLRVLPGRQPAAIAWAELTDHIQAVG >PLBD2_xenTro MGAQLLLIFMLFSLGAAQQ-AVVSVLFDP--------------------------------------ATGNITTVEEKRVVGAVAWAELKDSILENG >PLBD2_xenLae MAPWQLFIFSLFCVGAAQQQAVVSVLFDP--------------------------------------ATGNITTVAEKKVAGAAAWAELTDSIQENG >PLBD2_oryLat MAFRQNKTVCAKMSTFMKSLLVLGLFWG---------------------------CGRAEIRSAVIDKGSGKLTVVEGYHEGFVAWANFTNDIETSG >PLBD2_dicLab MASRLNKTSAVGGFSKVLNVLAVLSGLCLLFA-----------------------SVGAEIRTAVIDKQTGQLSVVDGYREGFVAWANFTDDIKTSG >PLBD2_hipHip .......DGVQDKQDVFCGEFSSASVAFYVLCLT---------------------CVRAEIKSAVIDGQSGELSVVDGFQKDFVAWANFTDDIQTSG >PLBD2_parOli MASRINKMGVEDKQDVSCVEF----------------------------------CVRAEIKSAVIDAQSGDLCVRDGFHQDLVAWANFTDDIQTSG >PLBD2_gasAcu MASRQNTTVTLRHFKAVLSALFVMCA-----------------------------CVQAEIRSAVIDKQTGKLSVVEGYREGFVAWSNFTDDINTSG >PLBD2_oreNil MACRRNGADRVRSFTEVLGLLKMFLLLFCLFS-----------------------AVRAEIRTAVIDKQTGQLSVIEGYQEDFVAWANFTNDIETSG >PLBD2_sebCau MASRHNKMFAVGRFKVALSVLSTLCFMCA--------------------------SVGAEVRTAVVNKQTGQLSVVEGYREDFVAWSNFTDDIKTSG >PLBD2_osmMor MAFR-----LLRLSTTLHLAVFLHVLFLSCS------------------------SIKAEISTIVLDEKTGQLTILEGYRDDYVAWANFTDDIEHSG >PLBD2_onyTsh MADRRTQMSLTTEKMFMFSCVFYLSWT----------------------------SVRAEIPSKILDKQTGQLSLEEGFRDDYVAWANFTDDIKNSg >PLBD2_salSal -------MSVTTEKMFMFLCVFYLSWT----------------------------SVGAEIHSAVLDKQTGQLSLEEGFRDDFVAWANFTDDIKNSG >PLBD2_danRer MAHLQLLVSAVCVLL---------------------------------------SVCQAQIYSAIYEEETAQLLLIEGARTHSVAEANFTDHINTTG >PLBD2_calMil MCVGVRGQGLGLGLPLLLVLAAVGVSP---------------------------SARGHLLRSVVLDEHSGRLRVVGGLNPHSIAWANLTDRIRATG >PLBD2_braFlo MAACRNIFCGRMLSCLLLFSFVFSAV-----------------------------SDGSKLASVRYDEAAKTYQITDKLDPSAAAWANFTDRISSTG >PLBD2_acyPis MLSIRCILLSLLFVWALQCSATQKNQT------------------------------LLAVKTDNNRITIQPKHYSVKDKEIIIGKGKFIDRINSTG >PLBD2_triAdh MAQCGKFLIYFSIFIITLATLCSCQSG-------------------------------------SVIYKDGLYTFSKGINKRAASYGTFTDKIASSG Difference alignment of exon 1 from placental mammals PLBD2_homSap MVGQMYCYPGSHLARALTRALALALVLALLVGPFLSGLAGAIPAPGGRWARDGQVPPASRSRSVLLDVSAGQLLMVDGRHPDAVAWANLTNAIRETG PLBD2_panTro .......S.............................................P........................................... PLBD2_ponAbe ......GSS.....----...................................P.T...........A......L...................... PLBD2_rheMac .......SS..P....................L.................H..P.T..........HAAT....L....Q...........S.H... PLBD2_papHam .......SS..P....................L.................H..P.T...........AAT....L...................... PLBD2_calJac ...K..SS.S.R..Q...............A.L.....S..............S..SG.G....V..AA.....L..................H... PLBD2_otoGar ...P..GS..GR..................I.L...C......P..SGR....LIT.....S.....ATTD..RL..............S...H... PLBD2_musMus .AAPVDGSS.GWA....R.....TSL..S.T.LL...P...L.TL.PG.Q.QNPD..V..T..L...AAS...RLE..F.................. PLBD2_ratNor .AAP.DRTH.GRA....R.....----.S.A.LL.......L.TL.PG.R.QNPE.....T..L...AAS...RLEY.F.................. PLBD2_dipOrd .AAPP.GSR.GRP.GS.S...V.----.V...LSP..P...V.S..D..G.HKPE..V.......V.AAS...RL...L..G............... PLBD2_cavPor .AAPT.VSLDGRPV..--......PA.C....LS.GR....V....P.G....P..A.--C......AAS...RL...LQ.G...........P... PLBD2_oryCun ..APRDGCA.GR.....A--------....T.LL.G.....A.....GEQ..PPS....CC..A...AAT...RL..................H... PLBD2_ochPri .AATRDSSA.CR...V.......---...PT.L....P.....VR.DGEE.GRPA.SG..C....V.AES...RL......A...........H... PLBD2_turTru ..DP..GC..GR....................L.....T....T.R.HRGPGRP......C......PET...RL...................... PLBD2_bosTau ..AP..GS..GR....V...............L.....T....T.R.QRG.GMP......C..L...PET...RL...................... PLBD2_oviAri ..AP..GS..GR....V...............L.....T....T.R.QRG.GMP......C..L...PET...SL...................... PLBD2_susScr ..AP..GS..GR....................L.....TS...T.K.YRGSGRS.............TET...RL..................H.N. PLBD2_ursAme .AAP..GS..GR....................L.....T....IS.RQ.GPN.P...D.........AET...RL......E............... PLBD2_myoLuc ..APPSRS..GR.TP..S..P...PG....A.L....WT....T.RDP.GPN.P..........V..ART...QL....Q.............H... PLBD2_pteVam ..AP.DRS..GR..G....T.E.T....P.A.L....RTS..QT..S..GSE.P.S...........PQT...RL..................H... PLBD2_eriEur ..AP.CGS..GRP...........PA......L...S......P.EDN.G.N.SF..V..C......SET...RL..............S...H... PLBD2_loxAfr ..APV.GS..GR......Q...V.........L.....T...SLT.H..GP..PA............TAT...RL...................... PLBD2_echTel ..ATE.GS..GR........P....M......L.....T...SPA...REPN.R.....S...A...PAT...RLA.....E...........H... Consensus MVAPMYGSPGGRLARALTRALALALVLALLVGLFLSGLAGAIPaPGGRWGRDGPVPPASRSRSVLLDAATGQLRLVDGRHPDAVAWANLTNAIRETG
PLBD1 reference sequences
>PLBD1_homSap Homo sapiens (human) FLJ22662 PMID: 19019078,20093120 0 MTRGGPGGRPGLPQPPPLLLLLLLLPLLLVTAEPPKPA 1 2 GVYYATAYWMPAEKTVQVKNVMDKNGDAYGFYNNSVKTTGWGILEIRAGYGSQTLSNEIIMFVAGFLEGYLTAP 2 1 HMNDHYTNLYPQLITKPSIMDKVQDFME 2 1 KQDKWTRKNIKEYKTDSFWRHTGYVMAQIDGLYVGAKKRAILEGTK 0 0 PMTLFQIQFLNSVGDLLDLIPSLSPTKNGSLKVFKRWDMGHCSALIK 0 0 VLPGFENILFAHSSWYTYAAMLRIYKHWDFNVIDKDTSSSRLSFSSYP 1 2 GFLESLDDFYILSSGLILLQTTNSVFNKTLLKQVIPETLLSWQRVRVANMMADSGKRWADIFSKYNS 1 2 GTYNNQYMVLDLKKVKLNHSLDKGTLYIVEQIPTYVEYSEQTDVLRK 1 2 GYWPSYNVPFHEKIYNWSGYPLLVQKLGLDYSYDLAPRAKIFRRDQGKVTDTASMKYIMRYN 1 2 NYKKDPYSRGDPCNTICCREDLNSPNPSPGGCYDTK 0 0 VADIYLASQYTSYAISGPTVQGGLPVFRWDRFNKTLHQGMPEVYNFDFITMKPILKLDIK* 0 >PLBD1_braFlo Branchiostoma floridae (lancelet) XM_002595538 0 MEGRACRSCRLHHLSAVFLLFLVTIAA 1 2 GAEIQATAYLQAQGKVQVKLGVLDKQNGDAVATYDDR 2 1 LTENGWGVLNVVSGFGPKKLSDNDIMYLAGYLEGVLTQE 2 1 RIYQHYLNLYGIFFMGKSEDLVGK 0 0 VKKFYTAQDTWVRAQVKQSTDPVMKHLSYILSQYDGLVKGYNDN 0 0 LFPHVSFFQKLDIFAFQLLNGNGDTFDIIPAVNPSSRPDFSNMSRVEIDDWVSAHSHCSALVK 0 0 VLGAYENVYMSHSSWFNYAATMRIYKHYNFNIANPATATRKMSFSSYP 1 2 GYLESLDDFYLMDSGLVMLQTTNNVFNGTLYDLVKPESILAWQRVRTANMLARNGDQWGAIMNVHNS 1 2 GTYNNQYMIIDLNLIELGKTIHDGALYVVEQIPGLVMSADQTDILRA 1 2 GYWPSYNIPFYEKVYNLSGYPEFAKSQGLDYTYQLAPRAKIFRRDAGKVKDMESMKAIMRYN 1 2 DYLHDPYSKGNPCSAICCRKDLAKVGAKPDGCYDTK 0 0 VSDYYLARNLTSFAINGPTLGTGLEPFSWSDKFKISHIGLPKVYNFSFVTMTPAEL* 0 >PLBD1_strPur Strongylocentrotus purpuratus (urchin) XM_001192029 0 MANKFRMFKILTAFLVLVLVNLST 1 2 GELLQGTVYKQEDGTFTVSSGIIDKQGVAYGSYNNTLFQTGWGELHLFAGYSTADNVALSDADRMYAAGILEGALTAK 2 1 QISQTLRNINVTFFSAESDPEIWRRVADFFETQDAWMKGMIIERADEDPFWEGVGLVLAQFEGLIKGYEMSQFSNAST 0 0 SNGFLAMQVLNSCGDLLDLKSAVMPSLIPDWDKLTKKEFLKFIRTSGHCSALVK 0 0 ICAALVKVGRFAPPFQSLLYSIS 0 0 SYFKSQAILKLNSPSCQLFGIE 1 2 GFLESLDDFYIMSSGLSMLQTTNNIFNKTLYKYVKPQSLLAWQRVRVANMMARSGKDWARIVARYNS 1 2 GTYNNQYMVIDRTKIKPNVAILDDALWVVEQVPTLVASGDQTNILRA 1 2 GYWPSYNVPFYEEIYNISGYPEYAYKGGADISYQLAPRAKIFRRDQGNVVDMESFKKIMRFN 1 2 DYKNDPYSEGDPSKSICMRGDLMTSPMPNGCYDTK0 0 VTNLAMAAKQTSFVINGPTRGDGSLPPFKWVAPFTGWSHVGLPTVYDFNFVEMCPKEL* 0 >PLBD1_nemVec Nematostella vectensis (anemone) XM_001638165 0 MTLIRNSVMITVTFVLILFVFGCHGSQKSATVYYNRGQG 2 1 YSLKFGVVDKLMGVAYGTFEDSLNTTG 2 1 WYELNIVSGTGIEPYNDDVIMHAAGYLEGALTAS 2 1 QINDNYANLYGVFFKSEDDPMVAKVEKFFIEQ 0 0 DIWMRKMIALKSSNSSFWRQMGNIIAQFD 1 2 GLVEGYQKYPATDK 0 0 ALGVFAFQMLNGVGDLLDLTKALMPERMADWDHMTEKEILEK 0 0 VAMDGHCSALIKVLPAYENVFASHVS 2 1 WFTYSAMLRVYKHYHLNLKDETT 1 2 AAQRMSFSSYPGFLESLDDFYIMDS 2 1 KLVMLQTTNNVFNKSLYEQVVPESLFSWQRVRLANLVASSGRQWADIVGQYNS 1 2 GTYNNQYMVLDLKLIQLNNTIQDNALWVVEQIPT 2 1 LVASGDQTAILRAGYWPSYNVPFYEL 0 0 VYNLSGYPDFVARHGVQFSHELAPRAKIFRRDQSM 0 0 VHDLDSMKHIMRYNDFQHDPYSQGNPMNAICSRGDLIADGPRASGCYDGK 0 0 VTDFTMAQSLISHAINGPTHE 0 0 QQVPFHWSQYQFKNKHEGQ 0 0 PDLFNFDFVEMKPKF* 0 >PLBD1_monBre Monosiga brevicollis (choanoflagellate) XM_001745398 MSSLNNGIPEPLLKFLAAQFNWTRSQVAANQDDVFWQQVGLIMA QYDGLRAGYGANVYDKHVLPEFAFQLLNGNGDFFDIIPKAVDVTKMSSREFHDWRMRN GRCSALIKLTGDFSDLFMSHSAWYIYQAMNRIYKHCASYNFQATITHAKKISFSSYPG YLESLDDFYLMSSGLVMLQTTNNVFNTDLQQYIQPESLQSWIRIRTATALAQTSEDWA ELAGRHNSGTYNNQYMVMDLNKFTPGQPLLDGTLYVAEQIPGTWEYADVTKMLSLGYW PSYNVPFFEKIYNLSGYPAVVKQHGTDDSYELAPRAKIFRRDQTTVVDLDSFKAIMRY NDYKNDPYAKGDPYNAICSRGDLESDSPSPGGCYDTKVTTYSMALKLQSQVINGPTTS HGLPPFSWSQFPNASHLGMPEVFNFTFETMDAGW*
PLBD2 reference sequences
>PLBD2_homSap Homo sapiens (human) PMID: 19706171,19237744,17007843 0 MVGQMYCYPGSHLARALTRALALALVLALLVGPFLSGLAGAIPAPGGRWARDGQVPPASRSRSVLLDVSAGQLLMVDGRHPDAVAWANLTNAIRETG 2 1 WAFLELGTSGQYNDSLQAYAAGVVEAAVSEE 0 0 LIYMHWMNTVVNYCGPFEYEVGYCERLKSFLEANLEWMQEEMESNPDSPYWHQ 0 0 VRLTLLQLKGLEDSYEGRVSFPAGKFTIKPLGFL 2 1 LLQLSGDLEDLELALNKTKIKPSLGSGSCSALIKLLPGQSDLLVAHNTWNNYQHMLRVIKKYWLQFREGPW 1 2 GDYPLVPGNKLVFSSYPGTIFSCDDFYILGSGL 0 0 VTLETTIGNKNPALWKYVRPRGCVLEWVRNIVANRLASDGATWADIFKRFNSGT 2 1 YNNQWMIVDYKAFIPGGPSPGSRVLTILEQIP 2 1 GMVVVADKTSELYQKTYWASYNIP 2 1 SFETVFNASGLQALVAQYGDWFSYDGSPRAQIFRRNQSLVQDMDSMVRLMR 2 1 YNDFLHDPLSLCKACNPQPNGENAISARSDLNPANGSYPFQALRQRSHGGIDVK 0 0 VTSMSLARILSLLAASGPTWDQVPPFQWSTSPFSGLLHMGQPDLWKFAPVKVSWD* 0 >PLBD2_musMus Mus musculus (mouse) NM_023625 0 MAAPVDGSSGGWAARALRRALALTSLTTLALLASLTGLLLSGPAGALPTLGPGWQRQNPDPPVSRTRSLLLDAASGQLRLEDGFHPDAVAWANLTNAIRETG 2 1 WAYLDLSTNGRYNDSLQAYAAGVVEASVSEE 0 0 LIYMHWMNTVVNYCGPFEYEVGYCEKLKNFLEANLEWMQREMELNPDSPYWHQ 0 0 VRLTLLQLKGLEDSYEGRLTFPTGRFTIKPLGFL 2 1 LLQISGDLEDLEPALNKTNTKPSLGSGSCSALIKLLPGGHDLLVAHNTWNSYQNMLRIIKKYRLQFREGPQ 1 2 EEYPLVAGNNLVFSSYPGTIFSGDDFYILGSGL 0 0 VTLETTIGNKNPALWKYVQPQGCVLEWIRNVVANRLALDGATWADVFKRFNSGT 2 1 YNNQWMIVDYKAFLPNGPSPGSRVLTILEQIP 2 1 GMVVVADKTAELYKTTYWASYNIP 2 1 YFETVFNASGLQALVAQYGDWFSYTKNPRAKIFQRDQSLVEDMDAMVR 0 0 LMRYNDFLHDPLSLCEACNPKPNAENAISARSDLNPANGSYPFQALHQRAHGGIDVK 0 0 VTSFTLAKYMSMLAASGPTWDQCPPFQWSKSPFHSMLHMGQPDLWMFSPIRVPWD* 0 >PLBD2_braFlo Branchiostoma floridae (lancelet) XM_002612057 0 MAACRNIFCGRMLSCLLLFSFVFSAVSDGSKLASVRYDEAAKTYQITDKLDPSAAAWANFTDRISSTG 2 1 WSFLTVTTNEKYDDSVQAYAAGLVEGYLTRD LMYNHWLNTVGAAFCSSRSAFCKNLESFLKTNLAWMQEQIQASGDTDDYWHQ 0 0 VKLTLQQLSGLDDGYNDDPRQPSLDINPFGFL 2 1 IFQIGGDMEDLQEALKDKDSHRVLGSGSCSALVKLLPGNADLLVAHDTWDTFQSMLRIIKKYQFPFKLGGKK 1 2 GEDKIPGHTVSFSSYPGVIYSGDDFYITSASL 0 0 VAQETTIGNSNPALWKYVQPQGQVLEWLRNIVANRLANKAMDWATIFKKYNSGT 2 1 YNNQWMIVDYKTFTPNKDLPEKGLLVVLEQLP 2 1 GMVMMDDVTSVLAKQAYWPSYNSP 2 1 YFEKIFNTSGLPAMVEKYGDWFSYEHTPRANIFRRDHGKVTDISSMIKLMR 2 1 YNDFQNDPLSKCDCTPPYSAENAISARSDLNPANGTYPFSALQHRCHGGTDMK 0 0 MTSYSMHESHQMMAVSGPTHDQQQPFQWSTSDYDKQFYHLGHPDLFNFDPIHVIWFDQSDN* 0 >PLBD2_droMel Drosophila melanogaster (fruitfly) U57314 retinal lamina neuron ancestor (lama) PMID: 16077094,8892229 0 MERPEYDGTYCATALWTKQVGFQIENWKQQNDLVNIPTGVGRICYKDSVYENGW 0 0 AQIEVETQRTYPDWVQAYAAGMLEGSLTWRNIYNQWSN 2 1 TISSSCERDESTQKFCGWLRDLLTTNYHRLKRQTEKAENDHYWHQLHLFITQLEGLETGYKRGASRARSDLEEEIPFSD FLLMNAAADIQDLKIYYENYELQNSTEHTEEPRTDQPKNFFLPSATMLTKIVQEEESPQVLQLLFGHSTAGSYSSMLRIQK RYKFHYHFSSKLRSNTVPGVDITFTGYPGILGSTDDFYTIKGRHLHAIVGGVGIKNENLQLWKTVDPKKMVPLVARVMAANRI SQNRQTWASAMSRHPFTGAKQWITVDLNKMKVQDNLYNVLEGDDKHDDAPVVLNEKDRTAIQQRHDQLRDMVWIAEQLPGMMTKK DVTQGFLVPGNTSWLANGVPYFKNVLELSGVNYSEDQQLTVADEEELTSLASVDKYLRTHGFRGDLLGSQESIAYGNIDLKLFS YNARLGISDFHAFAGPVFLRFQHTQPRTLEDEGQDGGVPPAASMGDERLSVSIEDADSLAEMELITERRSVRNDMRAIAMRKIGSGP FKWSEMSPVEEGGGHEGHPDEWNFDKVSPKWAW* 0 >PLBD2_acyPis Acyrthosiphon pisum (aphid) XM_001948827 0 MLSIRCILLSLLFVWALQCSATQKNQTLLAVKTDNNRITIQPKHYSVKDKEIIIGKGKFIDRINSTG 2 1 WAYLEIRTSQKAKDEDQAYGAGYLEGTLTADLIYSYWFNTAKGYCTDRPNVCQQLKDYMTTNKNWIKSKLNESDPYWYQ 0 0 VGLYYKQLDGLYDGYMRGKSPSTPDLTWDDLY 2 1 WLNALDDLGDLSIALYPSDISNRVLGSGSCSALIKLMPDNKDILVSHATWSG 2 1 YETMLRIQKRYSLRFRKSKKSNKLIRGFDMSFSSFPGGIQSGDDFYLISSGLTTMETTIENYNDSLWSNVKPVGQ 0 0 VLEFVRAMVANRLADNPTDWANLFKLHNSGTYNNQWMILNYAAFQPGSPLPPRDVLHVLEQIPGHVMHDDFTGHLINRTYWASYNVPYFPFIFNVSGNYEMEQIYGSW 2 1 FSYSETPRARIFARDHVKIHCDKCMLHLMRSNNYTRDPESRCDCSPPYSAENAISSR 2 1 NDLNPANGTYPIRALGHRSHGATDVKVTSSQLFQQLQFKAIAGPTQGSNNSLGPFCWSKSDFNDKVSHLGHPDCFNFKPVLHQWSL* 0 >PLBD2_triAdh Trichoplax adhaerens (trichoplax) XM_002107718 introns largely conserved 0 MAQCGKFLIYFSIFIITLATLCSCQSGSVIYKDGLYTFSKGINKRAASYGTFTDKIASSG 2 1 WTYLDVHTNPQDDDFITAYAAGYVEGILTAKY IYMHWKNTVGDYCKQKSIYCQKLKSFIMKNNQWMATQIKHRPHSIYWYH 0 0 INLTLIQQKGLRDGYHKAMPHKPIDEFSFL 2 1 LIELSGDLESLETALKDEDTHHVLGSGSCSAFIKVLPDNRDLYFAHDTWTGYQTMLRIYKYYELNFSMLPKTN 1 2 VTVPGTRISFSSYPGTILSGDDYYLIGSGL 0 0 ATMETTNGNSNEKLWKYVTPSSVLEWIRTIIANRLTSSGNDWVKIFSKYNSGT 2 1 YNNQ 00 WMILDYKLFAPKRPLNPNTLWVLEQIP 2 1 GKIESADVTNVLKKQGYWASYNVP 2 1 YFSSIFNMSGNQEQAKKYGNWFTHDKCPRALIFKRDQHKVNSMESLMKLMR 2 1 YNDFKHDPLSRCNCTPPYSAENAISARSDLNPADGKYNIGALGHRCHGGTDSK STNYTMFHSGLKSYAIAGPTHEQQPPFRWSTAKFNMTKPLGHPDLFNFTRQLVSWD* 0 >PLBD2_monBre Monosiga brevicollis (choanoflagellate) introns all novel 0 MWSCGAAAAAVVAVVVLASPATATVARFVEQTDVQTTYASVFYVESDDSYVVKTENHPWDGDFEKDE 0 0 AVRIKYTPGYLVAGWDQLHVKSNSAMDDATVAYAAGYGEAQLTAEMIYNYAYNNGYDTFTPNDKLADYLAKNQAFMAASIASNRSDANGYWYHVDLILRQLQGVCDGYNSSD FAKSFPLPCESMLAINLMGDMEDLSDALASSDEWYTEDRFFRATHCSALVKLVGGASSPSDIYISQDTWSSLNSMTRIMKRYDLNFLQ 2 1 AKGADDRIAGSSIVFSSYPGSLYSGDDFYLTSAGMAVIETTIGNSNPELYQYIVPDTVLEWIRNIMANRLASNSQTWYEVYRQFNSGT 1 2 YNNMNMILDYKQFKPQEALQDELLTIVEQIP GTVTKTDVTGYLRNMTYWGS 1 2 YNVAFDQNIRELSGANQAEQLYGPW 2 1 FSYWNTSRALIFAREQKNVSSLEDLKRLMRLNQFKTDPL 2 1 YRGWTNCTPAYTAENVIATRGDLNDP 0 0 NGIYSLSSFGLRNHVATDSKISTFSTYDSNNLNVWAIS 2 1 GPTNGPPPNQPVFNWSTSYYKDTRHRGMPEAFDFDWVNFNWPF* 0 >PLBD2_dicDis Dictyostelium discoideum (slime_mold) AAFI02000019 AF411829 introns both novel 0 MRVIRSLLLLTIAIIGSVLSQSSIDDGYTVFYSQPDNYYVKPGTFSNGVAQAIFSNEMMTTGWSFMSISSSEGLYPNDIIAAGAGYLEGYISQEMIYQNWMNMYNNEYHNVIGSD VENWIQENLQYLQTMIDSAPSNDLYWQNVETVLTQITYMQRGYNQSVIDNGVDASQSLGITEFFLMNMDGDMIDLGPALNLTNGKQVTSPATATSPKQAFKEFMRRTGHCSALIKMTDDLSDLFSGHTTW 2 1 SSYYEMVRMFKVYNLKYLFNGQPPASKVTMFSGYPGTLSSIDDFYLLDTKIVVIETTNGLMNNNLYHLITSESVLSWIRVIVANRLATGGESWCQTFSLYNSGTYNNQ 0 0 WIIVDYNKFIKGYGALDGTLYILEQVPDYVEYGDQTAILRTGYWPSFNIPFYENIYGLTGFNETYAQFGNWFSYQASPRSMIFKRDANNIHSLTQFQAMLRYNNWQNDPFSQGNAGN QISSRFDLVTADDPNNQYLDPDAFGGIDSKVVSADMVAALLVNAQSGPSHDNETPFTWNSQWNQKYTYAGQPTTWNFDWMTMSLQSMKPASPSSDSSSDSTTFN* 0
