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reference predict_h8378 (Jun 19, 2000 20:55:42) reference pred_h8378 (Jun 19, 2000 20:56:08) PPhdr from: kapilm@cs.brandeis.edu PPhdr resp: MAIL PPhdr orig: HTML PPhdr want: HTML PPhdr password(###) prediction of: - default prediction of: - PHDsec PHDacc PHDhtm ProSite SEG ProDom return msf format ret html # default: single protein sequence description=Serine Racemase MCAQYCISFADVEKAHINIQDSIHLTPVLTSSILNQIAGRNLFFKCELFQKTGSFKIRGALNAIRGLIPDTPEEKPKAVVTHSSGNHGQALTYAAKLEGIPAYIVVPQTAPNCKKLAIQAYGASIVYCDPSDESREKVTQRIMQETEGILVHPNQEPAVIAGQGTIALEVLNQVPLVDALVVPVGGGGMVAGIAITIKALKPSVKVYAAEPSNADDCYQSKLKGELTPNLHPPETIADGVKSSIGLNTWPIIRDLVDDVFTVTEDEIKYATQLVWGRMKLLIEPTAGVALAAVLSQHFQTVSPEVKNVCIVLSGGNVDLTSLNWVGQAERPAPYQTVSV
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Pattern-ID: PKC_PHOSPHO_SITE PS00005 PDOC00005
Pattern-DE: Protein kinase C phosphorylation site
Pattern: [ST].[RK]
54 SFK
139 TQR
196 TIK
203 SVK
Pattern-ID: CK2_PHOSPHO_SITE PS00006 PDOC00006
Pattern-DE: Casein kinase II phosphorylation site
Pattern: [ST].{2}[DE]
8 SFAD
71 TPEE
212 SNAD
235 TIAD
261 TVTE
Pattern-ID: MYRISTYL PS00008 PDOC00008
Pattern-DE: N-myristoylation site
Pattern: G[^EDRKHPFYW].{2}[STAGCN][^P]
59 GALNAI
88 GQALTY
187 GGMVAG
239 GVKSSI
287 GVALAA
Pattern-ID: DEHYDRATASE_SER_THR PS00165 PDOC00149
Pattern-DE: Serine/threonine dehydratases pyridoxal-phosphate attachment site
Pattern: [DESH].{4,5}[STVG].[AS][FYI]K[DLIFSA][RVMF][GA][LIVMGA]
47 ELFQKTGSFKIRGA
>prot (#) ppOld, default: single protein sequence description=serine racemase /home/phd/server/work/predict_h8378
MCAQYCISFADVEKAHINIQDSIHLTPVLTSSILNQIAGRNLFFKCELFQKTGSFKIRGA
LNAIRGLIPDTPEEKPKAVVTHSSGNHGQALTYAAKLEGIPAYIVVPQTAPNCKKLAIQA
YGASIVYCDPSDESREKVTQRIMQETEGILVHPNQEPAVIAGQGTIALEVLNQVPLVDAL
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IAITIKALKPSVKVYAAEPSNADDCYQSKLKGELTPNLHPPETIADGV
KSSIGLNTWPIIRDLVDDVFTVTEDEIKYATQLVWGRMKLLIEPTAGVALAAVLSQHFQT
VSPEVKNVCIVLSGGNVDLTSLNWVGQAERPAPYQTVSV
Identities computed with respect to: (query) prot Colored by: consensus/70% and property
HSP processing: ranked
52 [ . . . . 1 . . . . : . . . . 2 . . . . : . . . . ] 292
prot (#) ppOld, default: single ... score P(N) N 100.0% TGSFKIRGALNAIXXXXXXXPEEKPKAVVTHSSGNHGQALTYAAKLEGIPAYIVVPQTXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXVDALVVPVGGGGMVAGIAITIKXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXDVFTVTEDEIKYATQLVWGRMKLLIEPTAGVALAA
1 PD000323 p99.2 (175) TRPB(29) CYSK(1... 56 0.019 4 35.2% SGSYKDRGAYSMI-------PGKKSVIVESTSGNTGAVALAMVAARLGLKCVIVMPES-------------------------------------------------------------------VDVIVASVGTGGTIAGVARYLK-----------------------------------------------------------EAVSVSDEEALEAGLLLGESEGIVPEPASAAAIAA
consensus/100% oGSaK.RGAhshI PtcKshhV.opSusstu.ALshsAth.Gl.shIVhPpo VDslVssVGsGGhlAGlAhhlK -shoVo--Ehh.As.Llhtp.tll.EPsuusAlAA
consensus/90% oGSaK.RGAhshI PtcKshhV.opSusstu.ALshsAth.Gl.shIVhPpo VDslVssVGsGGhlAGlAhhlK -shoVo--Ehh.As.Llhtp.tll.EPsuusAlAA
consensus/80% oGSaK.RGAhshI PtcKshhV.opSusstu.ALshsAth.Gl.shIVhPpo VDslVssVGsGGhlAGlAhhlK -shoVo--Ehh.As.Llhtp.tll.EPsuusAlAA
consensus/70% oGSaK.RGAhshI PtcKshhV.opSusstu.ALshsAth.Gl.shIVhPpo VDslVssVGsGGhlAGlAhhlK -shoVo--Ehh.As.Llhtp.tll.EPsuusAlAA
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--- ------------------------------------------------------------ --- --- Again: these results were obtained based on the domain data- --- base collected by Daniel Kahn and his coworkers in Toulouse. --- --- PLEASE quote: --- F Corpet, J Gouzy, D Kahn (1998). The ProDom database --- of protein domain families. Nucleic Ac Res 26:323-326. --- --- The general WWW page is on: ---- --------------------------------------- --- http://www.toulouse.inra.fr/prodom.html ---- --------------------------------------- --- --- For WWW graphic interfaces to PRODOM, in particular for your --- protein family, follow the following links (each line is ONE --- single link for your protein!!): --- http://www.toulouse.inra.fr/prodom/cgi-bin/ReqProdomII.pl?id_dom1=PD000323 ==> multiple alignment, consensus, PDB and PROSITE links of domain PD000323 http://www.toulouse.inra.fr/prodom/cgi-bin/ReqProdomII.pl?id_dom2=PD000323 ==> graphical output of all proteins having domain PD000323 --- --- NOTE: if you want to use the link, make sure the entire line --- is pasted as URL into your browser! --- --- END of PRODOM --- ------------------------------------------------------------
--- ------------------------------------------------------------ --- MAXHOM multiple sequence alignment --- ------------------------------------------------------------ --- --- MAXHOM ALIGNMENT HEADER: ABBREVIATIONS FOR SUMMARY --- ID : identifier of aligned (homologous) protein --- STRID : PDB identifier (only for known structures) --- PIDE : percentage of pairwise sequence identity --- WSIM : percentage of weighted similarity --- LALI : number of residues aligned --- NGAP : number of insertions and deletions (indels) --- LGAP : number of residues in all indels --- LSEQ2 : length of aligned sequence --- ACCNUM : SwissProt accession number --- NAME : one-line description of aligned protein --- --- MAXHOM ALIGNMENT HEADER: SUMMARY ID STRID IDE WSIM LALI NGAP LGAP LEN2 ACCNUM NAME ykv8_yeast 40 52 319 4 8 326 P36007 HYPOTHETICAL 34.9 KD PROT thd2_ecoli 35 47 320 4 6 329 P05792 THREONINE DEHYDRATASE CAT y4tj_rhisn 32 44 328 4 10 332 P55664 PUTATIVE THREONINE DEHYDR thdh_yeast 31 42 319 6 13 576 P00927 THREONINE DEHYDRATASE PRE thdh_arxad 31 43 320 5 9 550 O42615 THREONINE DEHYDRATASE PRE thd1_haein 31 44 327 5 10 513 P46493 DEAMINASE). thd1_salty 31 43 334 6 16 514 P20506 DEAMINASE). thd1_lyces 30 41 323 5 11 595 P25306 DEAMINASE). thd1_ecoli 1TDJ 30 42 334 6 16 514 P04968 DEAMINASE). thd1_burce 30 41 316 6 10 507 P53607 DEAMINASE). thd1_myctu 30 37 318 5 13 429 Q10766 DEAMINASE). thd1_bacsu 28 39 320 6 12 422 P37946 DEAMINASE). thd1_lacla 28 39 312 6 15 441 Q02145 DEAMINASE). thd1_soltu 28 41 185 3 3 359 P31212 (FRAGMENT). sdhl_rat 28 28 298 9 59 362 P09367 DEHYDRATASE (EC 4.2.1.16) sdhl_human 28 30 297 7 16 328 P20132 L-SERINE DEHYDRATASE (EC thd1_corgl 27 33 313 7 18 436 Q04513 DEAMINASE). --- --- MAXHOM ALIGNMENT: IN MSF FORMAT
--- ------------------------------------------------------------ --- 3D homologue: the known structure that appeared to have sig- --- 3D homologue: nificant sequence identity to your protein is: --- 3D homologue: 1TDJ, . --- 3D homologue: Note: we do NOT check whether the similarity --- 3D homologue: is in the region for which structure has --- 3D homologue: been determined. Thus, please verify! --- ------------------------------------------------------------
--- --- Version of database searched for alignment: --- SWISS-PROT release 38.0 (7/99) with 80000 proteins ---
Identities computed with respect to: (1) predict_h8370 Colored by: consensus/70% and property
1 [ . . . . : . . . . 1 . . . . : . . . . 2 . . . . : . . . . 3 . . . ] 339
1 predict_h8370 100.0% MCAQYCISFADVEKAHINIQDSIHLTPVLTSSILNQIAGRNLFFKCELFQKTGSFKIRGALNAIRGLIPDTPEEKPKAVVTHSSGNHGQALTYAAKLEGIPAYIVVPQTAPNCKKLAIQAYGASIVYCDPSDESREKVTQRIMQETEGILVHPNQEPAVIAGQGTIALEVLNQVPLVDALVVPVGGGGMVAGIAITIKALKPSVKVYAAEPSNADDCYQSKLKGELTPNLHPPETIADGVKSSIGLNTWPIIRDLVDDVFTVTEDEIKYATQLVWGRMKLLIEPTAGVALAAVLSQHFQTVSPEVKNVCIVLSGGNVDLTSLNWVGQAERPAPYQTVSV
2 ykv8_yeast 39.6% -------TYGDVLDASNRIKEYVNKTPVLTSRMLNDRLGAQIYFKGENFQRVGAFKFRGAMNAVSKL---SDEKRSKGVIAFSSGNHAQAIALSAKLLNVPATIVMPEDAPALKVAATAGYGAHIIRYNRYTEDREQIGRQLAAEHGFALIPPYDHPDVIAGQGTSAKELLEEVGQLDALFVPLGGGGLLSGSALAARSLSPGCKIFGVEPEAGNDGQQSFRSGSIV-HINTPKTIADGAQthLGEYTFAIIRENVDDILTVSDQELVKCMHFLAERMKVVVEPTACLGFAGALLKKEELVG---KKVGIILSGGNVDMKRYATLISGKEDGP------
3 thd2_ecoli 33.8% ITYDLPVAIDDIIEAKQRLAGRIYKTGMPRSNYFSERCKGEIFLKFENMQRTGSFKIRGAFNKLSSL---TDAEKRKGVVACSAGNHAQGVSLSCAMLGIDGKVVMPKGAPKSKVAATCDYSAEVVLHGDNFNDTIAKVSEIVEMEGRIFIPPYDDPKVIAGQGTIGLEIMEDLYDVDNVIVPIGGGGLIAGIAVAIKSINPTIRVIGVQSENVHGMAASFHSGEITTHRT-TGTLADGCdsRPGNLTYEIVRELVDDIVLVSEDEIRNSMIALIQRNKVVTEGAGALACAALLSGKLDQYIQNRKTV-SIISGGNIDLSRVSQI--------------
4 y4tj_rhisn 31.0% MNELSNLSLESIERARERIEEHVFRTPLTTSRSLTELTGTQVSLKLEHYQRTGSFKLRGATNAILQL---SPSDRARGVIAASTGNHGRALSYAAKAVGSRATICMSDLVPENKVSEIRKLGATVRIVGSSQDDAQVEVERLVAEEGLSMIPPFDHPHIIAGQRTVGLEIVEAMPDVAMVLLPLSGGGLAAGVAAAVKALRPHARIIGVTMDRGAAMKASIEAGHPV-QVKEYRSLADSLGGGIGmwTFQMCRALLDDVVLVNEGEIAAGIRHAYEHERQILEGAGAVGIAALLSG---KVAARGGSVGVVLSGQNIDMGLHREVINGVVRATEE----
5 thdh_yeast 30.6% ---------------RSSVYDVINESPISQGVGLSSRLNTNVILKREDLLPVFSFKLRGAYNMIAKL---DDSQRNQGVIACSAGNHAQGVAFAAKHLKIPATIVMPVCTPSIKYQNVSRLGSQVVLYGNDFDEAKAECAKLAEERGLTNIPPFDHPYVIAGQGTVAMEILRQVrkIGAVFVPVGGGGLIAGIGAYLKRVAPHIKIIGVETYDAATLHNSLQRNQRTP-LPVVGTFADGTSvmIGEETFRVAQQVVDEVVLVNTDEICAAVKDIFEDTRSIVEPSGALSVAGMKK-YISTVHPEinTYVPILSGANMNFDRLRFVSERAVLGEGKEVFM
6 thdh_arxad 30.6% ---------------TSKVYDVCNETPVTPAVNLSSKLGANIFLKREDLQPVFSFKLRGAYNMMAHLP---QETRWKGVIACSAGNHAQGVAYSAKHLNIPATIVMPVVTPAIKYKNVDRLGAKVVLHGNDFDAAKAECNRLSEKHGLTNIPLFDNPYVIAGQGTIGVELLRQIdsLKAIFVCIGGGGLIAGVGAYIKRIAPQVKIIGVETYDANAMRQSLQKGERI-TLSEVGLFADGAAviLGEETFRLCQQVVDEIVLVSTDEICAAIKDVFTETRSIVEPAGALSVAGLVkeSHPEIDHSASGYTAILSGANMDFDRLRFVSERAKLGEGSEVFI
7 thd1_haein 30.1% -------SQSDYINAIVKLGSRVyvTPLQKMGKLSERLHNNIWIKREDRQPVNSFKLRGAYAMISSL---SAEQKAAGVIAASAGNHAQGVALSAKQLGLKALIVMPQNTPSIKVDAVRGFGGEVLLHGANFDEAKAKAIELSKEKNMTFIPPFDHPLVIAGQGTLAMEMLQQVADLDYVFVQVGGGGLAAGVAILLKQFMPEIKIIGVESKDSACLKAALDKGEPT-DLTHIGLFADGVAvrIGDETFRLCQQYLDDMVLVDSDEVCAAMKDLFENVRAVAEPSGALGLAGLKKYVKQNHI-EGKNMAAILSGANLNFHTLRYVSERCEIGENREALL
8 thd1_salty 29.8% MAESQPLSVAPEGAEYlpVYEAAQVTPLQKMEKLSSRLDNVILVKREDRQPVHSFKLRGAYAMMTGL---TEEQKAHGVITASAGNHAQGVAFSSARLGVKSLIVMPKATADIKVDAVRGLGGEVLLHGANFDEAKAKAIELAQQQGFTWVPPFDHPMVIAGQGTLALELLQQDSHLDRVFVPVGGGGLAAGVAVLIKQLMPQIKVIAVEAEDSA-CLKAALEAGHPVDLPRVGLFAEGVAvrIGDETFRLCQEYLDDIITVDSDAICAAMKDLFEDVRAVAEPSGALALAGMKKYIAQH-NIRGERLAHVLSGANVNFHGLRYVSEreQREGLLTVTI
9 thd1_lyces 29.6% -----------VDILASPVYDVAIESPLELAEKLSDRLGVNFYIKREDKQRVFSFKLRGAYNMMSNL---SREELDKGVITASAGNHAQGVALAGQRLNCVAKIVMPTTTPQIKIDAVRALGGDVVLYGKTFDEAQTHALELSEKDGLKYIPPFDDPGVIKGQGTIGTEINRQLKDIHAVFIPVGGGGLIAGVATFFKQIAPNTKIIGVEPYGAASMTLSLHEGHRV-KLSNVDTFADGVAvlVGEYTFAKCQELIDGMVLVANDGISAAIKDVYDEGRNILETSGAVAIAGAAA-YCEFYKIKNENIVAIASGANMDFSKLHKVTELakEALLATFMV
10 thd1_ecoli 29.2% MADSQPLSGAPEGAEYlpVYEAAQVTPLQKMEKLSSRLDNVILVKREDRQPVHSFKLRGAYAMMAGL---TEEQKAHGVITASAGNHAQGVAFSSARLGVKALIVMPTATADIKVDAVRGFGGEVLLHGANFDEAKAKAIELSQQQGFTWVPPFDHPMVIAGQGTLALELLQQDAHLDRVFVPVGGGGLAAGVAVLIKQLMPQIKVIAVEAEDSA-CLKAALDAGHPVDLPRVGLFAEGVAvrIGDETFRLCQEYLDDIITVDSDAICAAMKDLFEDVRAVAEPSGALALAGMKK-YIALHNIRGERLAHILSGANVNFHGLRYVSEreQREALLAVTI
11 thd1_burce 29.3% ---------------TARVYDVAFETELEPARNLSARLRNPVYLKREDNQPVFSFKLRGAYNKMAHIP---ADALARGVITASAGNHAQGVAFSAARMGVKAVIVVPVTTPQVKVDAVRAHGGPGVEVIQAGESYSDaaLKVQEERGLTFVHPFDDPYVIAGQGTIAMEILRQHqpIHAIFVPIGGGGLAAGVAAYVKAVRPEIKVIGVQAEDSCAMAQSLQAGKRV-ELAEVGLFADGTAvlVGEETFRLCKEYLDGVVTVDTDALCAAIKDVFQDTRSVLEPSGALAVAGAKL-YAEREGIENQTLVAVTSGANMNFDRMRFVAERAEVGEARE---
12 thd1_myctu 28.6% --PLFSLSGADIDRAAKRIAPVVTPTPLQPSDRLSAITGATVYLKREDLQTVRSYKLRGAYNLLVQL---SDEELAAGVVCSSAGNHAQGFAYACRCLGVHGRVYVPAKTPKQKRDRIRYHGGEFIDLIVGGSTYDLAAAAALEDVErtLVPPFDDLRTIAGQGTIAVEVLGQLeePDLVVVPVGGGGCIAGITTYLAERTTNTAVLGVEPAGAAAMMAALAAGEPVTLDHVDQFVDGAAVNRAGTLTYAALAAAGDMVstVDEGAVCTAMLDLYQNEGIIAEPAGALSVAGLLEADIEPGST----VVCLISGGNNDVSRYGEVLE------------
13 thd1_bacsu 28.4% LKENSLIQVKHILKAHQNVKDVVIHTPLQRNDRLSERYECNIYLKREDLQVVRSFKLRGAYHKMKQL---SSEQTENGVVCASAGNHAQGVAFSCKHLGIHGKIFMPSTTPRQKVSQVELFGKgiILTGDTFDDVYKSAAECCEAESRTFIHPFDDPDVMAGQGTLAVEILNDIdePHFLFASVGGGGLLSGVGTYLKNVSPDTKVIAVEPAGAASYFESNKAGHVV-TLDKIDKFVDGAAvkIGEETFRTLETVVDDILLVPEGKVCTSILELYNECAVVAEPAGALSVAALDLYKDQIKG---KNVVCVVSGGNNDIGRMQEMKE------------
14 thd1_lacla 28.2% --------LSNKYQANIYLKEVVTKTPLQLDPYLSNKYQANIYLKEENLQKVRSFKLRGAYYSISKL---SDEQRSKGVVCASAGNHAQGVAFAANQLNISATIFMPVTTPNQKISQVKFFGESHVtiGDTFDESARAAKAFSQDNDKPFIDPFDDENVIAGQGTVALEIFAQAksLDKIFVQIGGGGLIAGITAYSKERYPQTEIIGVEAKGATSMKAAYSAGQPV-TLEHIDKFADGIAvtVGQKTYQLINDKVKQLLAVDEGLISQTILELYSKLGIVAEPAGATSVAALELIKDEIKG---KNIVCIISGGNNDISRMQEIEE------------
15 thd1_soltu 28.9% --------------------------------------------------------------------------------------------------------------------------------------------------------PFDAPGVIKGQGTIGTEINRQLKDIHAVFVPVGGGGLISGVAAYFTQVAPHTKIIGVEPYGAASMTLSLYEGHRV-KLENVDTFADGVAvlVGEYTFAKCQELIDGMVLVRNDGISAAIKDVYDEGRNILETSGAVAIAGAAA-YCEFYNIKNENIVAIASGANMDFSKLHKVTELAELGSDNEALL
16 sdhl_rat 27.1% -------------------QESLhkTPLRDSMALSKVAGTSVFLKMDS |