-------------------------------------------------------------------------------- Domain acession : PF00283.11 Domain description : Cytochrome_B559 (Cytochrome_b559__alpha(gene psbE) and_beta(gene psbF)subunits) Gathering score : 25.0 -------------------------------------------------------------------------------- Example 1 of 9: Query sequence: gi|126308375|ref|XP_001373560.1| Accession: [none] Description: 16.9 0.084 PREDICTED: similar to beta-1,4-N-acetyl-galactosaminyl transferase 2, [Monodelphis domestica] Scores for sequence family classification (score includes all domains): Model Description Score E-value N -------- ----------- ----- ------- --- Glycos_transf_2 Glycosyl transferase family 2 58.4 2.7e-14 1 Cytochrom_B559 Cytochrome b559, alpha (gene psbE) an 16.9 0.084 1 Parsed for domains: Model Domain seq-f seq-t hmm-f hmm-t score E-value -------- ------- ----- ----- ----- ----- ----- ------- Cytochrom_B559 1/1 102 130 .. 1 29 [] 16.9 0.084 Glycos_transf_2 1/1 235 398 .. 1 149 [] 58.4 2.7e-14 Alignments of top-scoring domains: Cytochrom_B559: domain 1 of 1, from 102 to 130: score 16.9, E = 0.084 *->serpvtypIftvRwlaiHalaiPtvFflG<-* ++ p+ yp+ v + H++ iP + f G gi|1263083 102 PNIPFGYPVHGVEVMPLHTIVIPGLQFNG 130 Glycos_transf_2: domain 1 of 1, from 235 to 398: score 58.4, E = 2.7e-14 CS EEEEEESS-CCCHHHHHHHHHCHSCGGEEEEEEEE-S-SHCHHHHCC *->SiiiPtYNeekyleecleSllnQttyenfEiivVDDgStDgtveiae +i t+ ++ l+ +l S+++ y+++ +iv DD ++i + gi|1263083 235 TIATKTFLRPHKLQILLMSIRQY--YPDVTVIVADDSE--KPQKIND 277 CS CCCG.TTECCCCHCCS-HHHHHHHHHHHH--SS..EEEEEETTEEE TT eyakdprirvirleenlGlaaArNaGlkkAtGdydyiaflDaDdel.pd. y + + + ++G a+rN +++++t++ y++++D+D +++d+ gi|1263083 278 TY-----VEHYIMPFGKGWFAGRNLAVSQVTTK--YVLWVDDDFLFtKDt 320 CS HHHHHHHHHHH-TTEECEE EE EE C E EE- ECCC aleklvellekngadivig.rv.in.e.n.kgr............lngk. ++e+lv+ lek++ d+v+g++ + + + +++++ ++++++++ gi|1263083 321 KIEELVDVLEKTELDVVGGsVSgNLfQfKlLMEqgedgdcihkrsGYFEv 370 CS H H H T S CCS CGGCCCECCCHHHH l.l.l.l.v.fli.snalyrrealekll<-* l++ ++ v+ i ++l e+l++++ gi|1263083 371 LnGfPnCvVtSGIaNFFLAHTESLQRVG 398 // -------------------------------------------------------------------------------- HMM-to-structure alignment: -------------------------------------------------------------------------------- gi|28373384|pdb|1IZL|F: domain 1 of 1, from 6 to 34: score 61.1, E = 4.3e-15 *->serpvtypIftvRwlaiHalaiPtvFflG<-* ++pv+ypIftvRw+a+H+la+Pt+FflG gi|2837338 6 NQEPVSYPIFTVRWVAVHTLAVPTIFFLG 34 -------------------------------------------------------------------------------- Domain acession : PF00627.23 Domain description : UBA (UBA/TS-N domain) Gathering score : 22.4 -------------------------------------------------------------------------------- Example 2 of 9: Query sequence: gi|114773807|ref|ZP_01450808.1| Accession: [none] Description: seryl-tRNA synthetase [alpha proteobacterium HTCC2255] Scores for sequence family classification (score includes all domains): Model Description Score E-value N -------- ----------- ----- ------- --- Seryl_tRNA_N Seryl-tRNA synthetase N-terminal domain 63.8 6.6e-16 1 UBA UBA/TS-N domain 18.0 0.04 1 Parsed for domains: Model Domain seq-f seq-t hmm-f hmm-t score E-value -------- ------- ----- ----- ----- ----- ----- ------- Seryl_tRNA_N 1/1 1 81 [. 1 119 [] 63.8 6.6e-16 UBA 1/1 10 47 .. 1 38 [] 18.0 0.04 Alignments of top-scoring domains: Seryl_tRNA_N: domain 1 of 1, from 1 to 81: score 63.8, E = 6.6e-16 CS ---HHHHHH....-HHHHHHHHHHC....T--.--HHHHHHHHHHHH *->MLDiKliReeKGGNpeaVkekLrkRgedlggdvldvdelleLDeeRR MLD+K++R+ +++ ++ +L++Rg ++ldv++l +L+++R+ gi|1147738 1 MLDPKFLRD----ELAQTAQRLAARG-----FELDVAALAALEARRK 38 CS HHHHHHHHHHHHHHHHHHHGCCS-.....HHHHHHHHHHHHHHHHHHHHH elqveleeLqaeRNelSKeIgkakkegdndedaeaLiaevkelkdeikal lq ++eLq+eRN SK+Igkak++g ed++ L+aev el+d+ gi|1147738 39 DLQSSTQELQNERNVRSKSIGKAKQAG---EDIAPLLAEVGELGDK---- 81 CS HHHHHHHHHHHHHHHTT----- eaeLreleaelddllltiPNiP<-* gi|1147738 - ---------------------- - UBA: domain 1 of 1, from 10 to 47: score 18.0, E = 0.04 CS CTHHHHHHHHHHHT--HH HHHHHHHHTTT-HHHHHHHH *->ideelvkqLreMTGfsre.eakkALeatngnverAvewL<-* + +++ ++L ++ Gf+ + +a ALea +++ ++ L gi|1147738 10 ELAQTAQRLAAR-GFELDvAALAALEARRKDLQSSTQEL 47 // -------------------------------------------------------------------------------- HMM-to-structure alignment: -------------------------------------------------------------------------------- gi|38492677|pdb|1OQY|A: domain 1 of 2, from 167 to 203: score 50.4, E = 7.2e-12 CS CTHHHHHHHHHHHT--HHHHHHHHHHTTT-HHHHHHHH *->ideelvkqLreMTGfsreeakkALeatngnverAvewL<-* ++e+++ ++++M G++re+++ AL+a+ +n+ rAve+L gi|3849267 167 EYETMLTEIMSM-GYERERVVAALRASYNNPHRAVEYL 203 gi|38492677|pdb|1OQY|A: domain 2 of 2, from 324 to 360: score 36.7, E = 9.6e-08 CS CTHHHHHHHHHHHT--HHHHHHHHHHTTT-HHHHHHHH *->ideelvkqLreMTGfsreeakkALeatngnverAvewL<-* + e++++L ++ Gf+++ +++A+ a+ n++ A+++L gi|3849267 324 QEKEAIERLKAL-GFPESLVIQAYFACEKNENLAANFL 360 -------------------------------------------------------------------------------- Domain acession : PF01402.13 Domain description : RHH_1 (Ribbon-helix-helix protein, copG family) Gathering score : 25.2 -------------------------------------------------------------------------------- Example 3 of 9: Query sequence: gi|116327212|ref|YP_796932.1| Accession: [none] Description: ABC transporter permease/ATP-binding protein [Leptospira borgpetersenii serovar Hardjo-bovis L550] Scores for sequence family classification (score includes all domains): Model Description Score E-value N -------- ----------- ----- ------- --- ABC_tran ABC transporter 227.1 4.4e-65 1 ABC_membrane ABC transporter transmembrane region 86.2 1.2e-22 1 SMC_N RecF/RecN/SMC N terminal domain -116.0 0.0046 1 RHH_1 Ribbon-helix-helix protein, copG fami 16.8 0.091 1 Parsed for domains: Model Domain seq-f seq-t hmm-f hmm-t score E-value -------- ------- ----- ----- ----- ----- ----- ------- ABC_membrane 1/1 18 339 .. 1 286 [] 86.2 1.2e-22 RHH_1 1/1 53 91 .. 1 40 [] 16.8 0.091 SMC_N 1/1 301 599 .. 1 243 [] -116.0 0.0046 ABC_tran 1/1 412 596 .. 1 209 [] 227.1 4.4e-65 Alignments of top-scoring domains: ABC_membrane: domain 1 of 1, from 18 to 339: score 86.2, E = 1.2e-22 *->lligilllilagatalvtfplllgrfldsgfplsdgngdndarssli l+ gi+l++++ +++ + +l +++ + d+ g+ + + + gi|1163272 18 LISGIVLSFFVSVLNGA--SL--TSLIP----IFDSLGT--GEKTNF 54 slails............................................ ++++ +++ ++ ++++ ++++ + + + + + +++ ++ ++++ gi|1163272 55 EISLTKkdkallqrlqeedffsrtelielrlaewkirlnsslknmshdql 104 .......llavfvlqglllqgsfyllAgerlgqrlrkrlfrallrqilgl ++ v++l ++l + y+ + g + ++l++ l+ + l gi|1163272 105 vllfcfvVFPVYLLKLAFLAAAIYC--INSAGYLAIRDLRAELYAKAQTL 152 fdsffdtnsvGeltsRltnDvskirdglgdklglffqslatfvgglivmf + + f + ++G l+sR+ nDv+ + ++++ l + + +++ +v+ l++ + gi|1163272 153 PLNHFVQEKTGILMSRIINDVEVLGRLISSDLKDAIIDFFYIVTHLLLLL 202 yyswkLtLvllailpllillsavlakklrklnrkeqkayakassvaeEsl y+swk++L++++++p+++ ++a k+r+++r +q++ + ++ +++E++ gi|1163272 203 YLSWKMFLAVFIVVPIVMGPVSAFADKIRRATRNQQERLSSLNGHLQEVI 252 sgirTVkafgrEeyelerydkaledaekagikkaiiaglsfgitqlisyl sgir+++af +E++e +r+ + ++d + +k ++ + t+l+s++ gi|1163272 253 SGIRVIRAFSMEKAEAKRFWEFNQDLSDKTFKGHFYHQVGPSLTELFSSI 302 syalalwfGgyLvasvisgglsvgtvfaflslglqlsgpl<-* ++++ l fG+yL ++g s g+ af++ +++l++p+ gi|1163272 303 VVVVFLSFGAYL---MEDGTFSRGMSMAFFLTLIFLMRPF 339 RHH_1: domain 1 of 1, from 53 to 91: score 16.8, E = 0.091 CS EEEEEEEHHHHHHHHHHHHHHT.B-HHHHHHHHHHHHHHC *->rvtirLdeellerLdelAkkrGYlSrSelireAlreyler<-* + i+L+++ +++L++l ++ Sr eli+ l+e+++r gi|1163272 53 NFEISLTKKDKALLQRLQEEDF-FSRTELIELRLAEWKIR 91 SMC_N: domain 1 of 1, from 301 to 599: score -116.0, E = 0.0046 CS -EEEEEEES-SS--SEEEEE-TT-SEEEEE-STTSSHHHHHHHHHHH RF xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx *->ylkrielegFKSYagktiigpFspgFtaIvGPNGSGKSNiiDAIlFV + ++ F Y +g Fs+g+++ ++ + F gi|1163272 301 SIVVVVFLSFGAY--LMEDGTFSRGMSM----------AFFLTLIFL 335 CS T T----.-------TTSS--- RF x xxxxxxxxxxxxxxxxxxxx L.GersakkLRaeklsdLIhaG............................ ++ ++ + ++ +++++ I aG++ + +++++ +++ +++ ++ +++ gi|1163272 336 MrPFKQM-SMLSNSIQSAISAGsrvfelldqetdiqnpvspkflkkmekg 384 CS --------EEEEEEEE......EETTEE RF xxxxxxxxxxxxxxxxxxxxxxxxxxxx ......................sksgasvnsAeVtitFlvqkivdnedkk + ++ + + ++ +++ ++ + + ++ A V +++ gi|1163272 385 lsfnnvtftypgaktpaiqeinLEIPKGETVALVGA----------SGAG 424 CS .............. EEEEEEEETTS-..EEEEETTEEE-H.HHHHHHHH RF xxxxxxxxxxxxxx xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx hiNSpflpideeee.vsItRrvyrdGdqYSeYyINGknvtkIkdvseLLe ++ I R + + + + +I+G + + d+s+L + gi|1163272 425 ----------KSTLvDLIPRLIDPQEG---QIFIDGIDIRE-LDLSNLRK 460 CS CTT--TT RF xxxxxxx saGIske........................................... ++GI + + + +++ ++ +++++ ++ + + ++ gi|1163272 461 RIGIVAQqvflfngtirenicygnqsvteeqlrsaceqafamefilsfee 510 CS XXXXXXXXXXXXXXXXX.....XXXXXXXXXXXXXXXXX RF xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx ...........nLSGGEKtLaALALlFAQGEyliqkykPaPFYvlDEiDA + ++ +LSGG++ +A+A + A + +P + +lDE + gi|1163272 511 gfdtivgergvMLSGGQRQRIAIA-R-A------LLLNPE-ILILDEATS 551 CS XXXXXXXXXXXXXXX.XXXXXXXXXXXXXXXXXXXXXXXXXXXXX.XXXX RF xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx ALDeaNvsrvAnyiktelsknaQFIVIslReemfekAdrlvGvymvengv ALD + ++v + ++ l kn +I+I++R +++ A++++ m e+g gi|1163272 552 ALDTESERLVQQALE-SLYKNRTVIIIAHRLSTVQIANTIF--AM-EDGR 597 CS XX RF xx st<-* + gi|1163272 598 IV 599 ABC_tran: domain 1 of 1, from 412 to 596: score 227.1, E = 4.4e-65 CS T-EEEEE-STTSSHHHHHHHHTTSS-.-S..EEEEEET......... RF xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx *->GevlalvGpNGaGKSTLLkllsGllsyPtrAeGeilldgepkelgrd Ge++alvG +GaGKSTL l+ +l++ P+ eG+i +d gi|1163272 412 GETVALVGASGAGKSTLVDLIPRLID-PQ--EGQIFID--------- 446 CS TEEGGGB-HHHHHHHEEEE-SS----...SSBHHHHHH-S-SS--..... RF xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx ltdlssrererlrkrigyvfQdpnlfldprlTvrenlayglpdkkaggke + d++ ++++lrkrig v Q+++lf ++T+ren++yg ++ gi|1163272 447 GIDIRELDLSNLRKRIGIVAQQVFLF---NGTIRENICYGNQSV------ 487 CS -HHHHHHHHHHTT-HHHHHTSTTGGG-B--SS-SSS-HHHHHHHHHHHHH RF xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx adaraeeaLervGlpdladrlPqgydtvlgerpgtLSGGqkQRvaiARal ++++++ a e++ +++ ++ +g+dt++ger+ +LSGGq+QR+aiARal gi|1163272 488 TEEQLRSACEQAFAMEFILSFEEGFDTIVGERGVMLSGGQRQRIAIARAL 537 CS TT--SEEEEESTTTT--HHHHHHHHHHHHT-GGGGG-EEEEE-S-HHHHH RF xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx ltkpklLlLDEPTagLDpasraqllellrelrgeqgitvllitHdldlld l +p++L+LDE+T++LD +s++ ++++l+ l + ++tv++i H+l gi|1163272 538 LLNPEILILDEATSALDTESERLVQQALESLYK--NRTVIIIAHRLS-TV 584 CS T.-SEEEEEETT RF xxxxxxxxxxxx rladrilvlenG<-* ++a+ i +e+G gi|1163272 585 QIANTIFAMEDG 596 // -------------------------------------------------------------------------------- HMM-to-structure alignment: -------------------------------------------------------------------------------- gi|6573448|pdb|2CPG|A: domain 1 of 1, from 4 to 42: score 53.5, E = 8e-13 CS EEEEEEEHHHHHHHHHHHHHHT.B-HHHHHHHHHHHHHHC *->rvtirLdeellerLdelAkkrGYlSrSelireAlreyler<-* r+ti+L+e +le L+++A+++G lS+S++i++Al++y++ gi|6573448 4 RLTITLSESVLENLEKMAREMG-LSKSAMISVALENYKKG 42 -------------------------------------------------------------------------------- Domain acession : PF01814.5 Domain description : Hemerythrin (Hemerythrin HHE cation binding domain) Gathering score : 23.5 -------------------------------------------------------------------------------- Example 4 of 9: Query sequence: gi|46138783|ref|XP_391082.1| Accession: [none] Description: 17.6 0.054 hypothetical protein FG10906.1 [Gibberella zeae PH-1] Scores for sequence family classification (score includes all domains): Model Description Score E-value N -------- ----------- ----- ------- --- Ribosomal_S15 Ribosomal protein S15 48.3 3e-11 1 Hemerythrin Hemerythrin HHE cation binding domain 17.6 0.054 1 Parsed for domains: Model Domain seq-f seq-t hmm-f hmm-t score E-value -------- ------- ----- ----- ----- ----- ----- ------- Hemerythrin 1/1 151 206 .. 1 70 [] 17.6 0.054 Ribosomal_S15 1/1 206 292 .. 1 88 [] 48.3 3e-11 Alignments of top-scoring domains: Hemerythrin: domain 1 of 1, from 151 to 206: score 17.6, E = 0.054 CS THHHHHHHHHHHHHHHHHHHSS-HCHH..............CHTHHH *->pidelkaeHkalrelleellellekgavpasceengydeesldelke + +k+ H++++e+l+++ +l + ++ +d++ gi|4613878 151 KMKQHKENHQKVLEALNRITSLENGSS--------------KDRFHA 183 CS HHHHHHHHHHHHHHHHHHHHCTT lleelidwlenHilkEEeilfpl<-* +++ +i+ + +H ++ ++++p gi|4613878 184 NVQRIINEFGRHTTDSKFMMKPR 206 Ribosomal_S15: domain 1 of 1, from 206 to 292: score 48.3, E = 3e-11 CS HHHHHHHHT--S-----SHHHHHHHHHHHHHHHHHHHHH-TT --H *->makgliiseflkeekdtGSvEvQvalLTerivrLrkHleeHk..KDy + + ++ ++ dtGS+EvQ+ +LT++i +L + l+ +++ KD+ gi|4613878 206 RLSTDGEEKLGRCGPDTGSSEVQIGILTAKIHNLSNALQINRgyKDK 252 CS HHHHHHHHHHHHHHHHHHHHHH-H.....HHHHHHHHHHT-XX sSkRGLiklvsKRrrLLaYLkkknVdlnatvrYeelIeqLGlr<-* ++kR+L++l+ +R++L Y +k+ r + +e LGl gi|4613878 253 HNKRNLRLLLHRRQKLMKYMDRKE---KGNQRWTHMVETLGLT 292 // Example 5 of 9: Query sequence: gi|72049612|ref|XP_781670.1| Accession: [none] Description: 17.0 0.08 PREDICTED: similar to adenylate kinase 7 [Strongylocentrotus purpuratus]gi|115945713|ref|XP_001180638.1| PREDICTED: Scores for sequence family classification (score includes all domains): Model Description Score E-value N -------- ----------- ----- ------- --- Dpy-30 Dpy-30 motif 76.4 1e-19 1 ADK Adenylate kinase -66.7 0.0039 1 Epimerase NAD dependent epimerase/dehydratase f -68.2 0.048 1 Hemerythrin Hemerythrin HHE cation binding domain 17.0 0.08 1 Parsed for domains: Model Domain seq-f seq-t hmm-f hmm-t score E-value -------- ------- ----- ----- ----- ----- ----- ------- Epimerase 1/1 38 269 .. 1 286 [] -68.2 0.048 ADK 1/1 364 564 .. 1 152 [] -66.7 0.0039 Hemerythrin 1/1 379 448 .. 1 70 [] 17.0 0.08 Dpy-30 1/1 664 705 .. 1 42 [] 76.4 1e-19 Alignments of top-scoring domains: Epimerase: domain 1 of 1, from 38 to 269: score -68.2, E = 0.048 CS EEEETTTSHHHHHHHHHHHHCTTEEEEEEEECTT-TGGGTCCCCTCC *->iLVTGgtGfiGsaLvrrLleeGyevivlDvlgrrrrseslntvridh ++G+ L +r +ee+ ++ + + +++ + + gi|7204961 38 --------MVGASLEERDEEEDAA-----SVTSDHMPPKEGVWKVSG 71 CS G--.-- ---..STEEEEE--TT-HHHHHHHHHHH T-SEEEE--S---. lyqidp.HesktprvefvegDltdpdalerllaev.qPDaVihlAAqsgG +p+He p++++++l+ ++++ hlA gi|7204961 72 TLK-NPeHE--------------KPEWVHEILQVDeKIQMLEHLAECDV- 105 CS HHHHHHSHHHHHHHHTHHHHHHHHHHHHHTH...TT-EEEEEEE.GGGG vdasfedpaefiraNvlgtlnLLeaarkagvegaerkrfvfaSSasevY. v ++ + + i++ + + + + +k f+ +S++ ++ + gi|7204961 106 VVYDITEDPDQIDEASWAVSAVHAELDRFET----PKMFILISTVMTWAk 151 CS TSBSSSSCB-TTS--..--SSH....HHHHH HHHHHHHHHHHH .....GkvqagppitEttpltegPlsPtNegYaaaK..lagerlvlayar +++ ++++ +++p+tE++ + + P + K+++ +e+lv ++ gi|7204961 152 skpvdPDD-PEIPFTEEDY---RRRKP----HSNFKghISAEKLVIKLGK 193 CS H..HT-EEEEEEES EEESTT.S-TTSTTSHHHHHHHHHHTTSSS.... aGvygldavilRlf..NvyGPgdrgdpfvthvipalirrilegkpdgada + ++ ++v+ ++ yG+g + + +l + + +g+ +a gi|7204961 194 T--NKAKFVTYVVAsgLTYGAG-------ENIFHYLFKTAWHGEA---EA 231 CS .......EEEET.SSSTST-EEEEEEHHHHHHHHHHHHHHCTTTTEEEEE levqaeeilllGDYTpdGtarRDflyVdDvarAillalehpeaggevyNi + +G +G ++ + ++++D+a i +++ y + gi|7204961 232 -------LQCFG----NGMNILPSIHIKDLAGVIQNIADSRP--KTRYLV 268 CS S G<-* + gi|7204961 269 A 269 ADK: domain 1 of 1, from 364 to 564: score -66.7, E = 0.0039 CS EEESTTSSHHHHHHHHHHHHTEEEEEHHHHHHHHH HTTHH RF xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx xxxxx *->LlGpPGaGKGTQAerIvkkygipHLSTGDlLRaev..ksgTe..... +lGpP +GK + + k+y + H+ D ++++ +++ + ++ gi|7204961 364 VLGPPASGKTSMVAALCKHYKLHHIKIKDVIDEAIeaLEKSAaradg 410 CS HHH HHHHHHH TTSS-HHHHHHHHHHHHHHSGCGT RF xxx xxxxxxx xxxxxxxxxxxxxxxxxxxxxxxx ......lGk......eAKeyMD....kGeLVPDEvviglvkerLeqnddc ++++++ Gk +++++++ ++M++++++ + + + i+ +++L + + gi|7204961 411 deneddDGKaqedqeLLDAIMEskqsNNDRIEEQYLIRFYRDKLHSMPCQ 460 CS TTEEEEES--SSHHHHHHHHHHHHCTT-E ESEEEEEE RF xxxxxxxxxxxxxxxxxxxxxxxxxxxxx xxxxxxxx knGFLLDGFPRTvpQAeaLeemLeeagik.............lDaVield ++GF+LDGFP T++QA++L + ee++++++++ + ++ + + +Vi ld gi|7204961 461 NQGFILDGFPKTIDQAKELFAVDEEEEQEengkmpvydratmPEFVISLD 510 CS -HHHHHHHHHHT GSHHHHHHH HHHHHHHHHHHHHHHH RF xxxxxxxxxxxx xxxxxxxxx xxxxxxxxxxxxxxxx VpdevLveRltg..........DneEtvkkR...LetYhkqTePvIdyYk d+ L++R+++ +++ +++ +e+ R +++++ +++ + v+ y+ gi|7204961 511 STDDFLKQRIMNlpesvvakthNTEDGFNRRiteFRALNEEDATVLNYFD 560 CS HTTE RF xxxx kkGk<-* + + gi|7204961 561 ELEI 564 Hemerythrin: domain 1 of 1, from 379 to 448: score 17.0, E = 0.08 CS THHHHHHHHHHHHHHHHHHHSS-HCHH..............CHTHHH *->pidelkaeHkalrelleellellekgavpasceengydeesldelke +++k +H ++++ ++e e+lek+a++a++ en++d+ e +e gi|7204961 379 LCKHYKLHHIKIKDVIDEAIEALEKSAARADGDENEDDDGKAQEDQE 425 CS HHHHHHHHHHHHHHHHHHHHCTT lleelidwlenHilkEEeilfpl<-* ll+++++ +++Ee++ gi|7204961 426 LLDAIMESKQSNNDRIEEQYLIR 448 // -------------------------------------------------------------------------------- HMM-to-structure alignment: -------------------------------------------------------------------------------- gi|114793453|pdb|2AVK|A: domain 1 of 2, from 15 to 70: score 31.5, E = 3.4e-06 CS THHHHHHHHHHHHHHHHHHHSS-HCHH..............CHTHHH *->pidelkaeHkalrelleellellekgavpasceengydeesldelke ++ +++ +Hk+l++++++l++++++ + +d +e gi|1147934 15 NLPSIDTQHKRLVDYINDLYRAARRRD--------------MDKARE 47 CS HHHHHHHHHHHHHHHHHHHHCTT lleelidwlenHilkEEeilfpl<-* +++l++++++H+ EE+++ + gi|1147934 48 VFDALKNYAVEHFGYEERLFADY 70 gi|114793453|pdb|2AVK|A: domain 2 of 2, from 74 to 129: score 35.1, E = 2.8e-07 CS THHHHHHHHHHHHHHHHHHHSS-HCHH..............CHTHHH *->pidelkaeHkalrelleellellekgavpasceengydeesldelke ++k+ H++++e ++++ l +g+ +++ + gi|1147934 74 EATRHKEIHRRFVETVLKWEKQLAAGD--------------PEVVMT 106 CS HHHHHHHHHHHHHHHHHHHHCTT lleelidwlenHilkEEeilfpl<-* l+ l+dwl+nHi+kE++++ ++ gi|1147934 107 TLRGLVDWLVNHIMKEDKKYEAY 129 -------------------------------------------------------------------------------- Domain acession : PF01842.17 Domain description : ACT (ACT domain) Gathering score : 18.6 -------------------------------------------------------------------------------- Example 6 of 9: Query sequence: gi|66043677|ref|YP_233518.1| Accession: [none] Description: 18.1 0.038 hypothetical protein Psyr_0410 [Pseudomonas syringae pv. syringae B728a]gi|63254384|gb|AAY35480.1| conserved hypoth Scores for sequence family classification (score includes all domains): Model Description Score E-value N -------- ----------- ----- ------- --- SPOR Sporulation related domain 57.7 4.5e-14 1 NACHT NACHT domain -32.5 0.026 1 AAA ATPase family associated with various -34.5 0.027 1 ACT ACT domain 18.1 0.038 1 Parsed for domains: Model Domain seq-f seq-t hmm-f hmm-t score E-value -------- ------- ----- ----- ----- ----- ----- ------- NACHT 1/1 51 211 .. 1 203 [] -32.5 0.026 AAA 1/1 52 250 .. 1 216 [] -34.5 0.027 ACT 1/1 82 150 .. 1 64 [] 18.1 0.038 SPOR 1/1 454 528 .. 1 77 [] 57.7 4.5e-14 Alignments of top-scoring domains: NACHT: domain 1 of 1, from 51 to 211: score -32.5, E = 0.026 *->rtvilqGeAGsGKTtLlqklallWaqgklpqdafdfvFflscrelsr ++++ G++GsGKT L q l+ + + ++s r + gi|6604367 51 LLLAVTGPQGSGKTLLRQALVASTNKQSVQSV------VISARGAGD 91 sgeaaalLrsLadlLfsqwpepaapveeKlFeeskvfavilelperlLkS + L ++ ++ ++ e ++++ +++ gi|6604367 92 AAGV----------LQQVAQALSVAQAE-----------MQSILSQVV-- 118 alllpgqttvlilDGlDElksqlgqpdgelctdwkepqpvrtLLssLlrk l+l gq +l++D+++ l+ +++ L+ Ll gi|6604367 119 QLGLTGQEVYLLVDDAEQLG--DSA------------------LEALLGL 148 kLLPgaslllTsRPdalrdwllrrgleep..................qea ++ +P ++++ + e + ++ ++ + +++ ++ + gi|6604367 149 ---------AAGTPEGRPH--VFLFGEPSlldrldqmcadlqgdvegERF 187 rylevrgFseedrkeyvrkyfsde<-* +++e+++ ee+++ey+ + ++++ gi|6604367 188 HVIELQPYTEEETREYLAQRLEGA 211 AAA: domain 1 of 1, from 52 to 250: score -34.5, E = 0.027 CS EEEEESSTTSSHHHHHHHHHHHHT .CEEEEEEEE *->gvLLyGPPGtGKTllAkavAnelg...rkapfisisg.......... + GP G GKTll a+ +++++ + ++is g ++ + ++ gi|6604367 52 LLAVTGPQGSGKTLLRQALVASTNkqsVQSVVISARGagdaagvlqq 98 CS TTT--SSSSSHHHHHHHHHHHCCCT.. .SSE.EEEEETTTGCCCCCCC .sellskyvGesekrvralfelArkslk.aaPspiiFIDEiDalapkRgd ++l + + + ++++ + +++ +++D++ l+ + gi|6604367 99 vAQAL----SVAQAEMQSILSQVVQLGLtGQEV-YLLVDDAEQLGDS--- 140 CS HCCHHHHHHHCCCCCHH...SSS.......-SS--TTEEEEEEESHCCCS egdvssrvvnqLltemDLrigfedhylrgsdvfDlsgviviaaTNrpdll + +++ L++ e+ +++v++ + d l gi|6604367 141 ----ALEALLGLAAGTP-----EG----------RPHVFLFGEPSLLDRL 171 CS IHHHHTTSTGCEEEEEE-H -HHHHHHHHHHHHHHHHHHH... DpALlrpGRfdrrievplP........deeeRleIlkihlkkmplalcqe D + ++ +e+ + + ++ +eee +e l l+ ++ gi|6604367 172 DQMCAD---LQGDVEGERFhvielqpyTEEETREYLAQRLEGAGQGI--- 215 CS .....HHHHHCHHHHTCHHHHHCHHHHHHHHHHHHHHHHHHH rselakdvdldelakelArrtpgfsgadlaalcreAalralr<-* + d++ + + + ++ + +++++r++++ a+ gi|6604367 216 -----ALFTADQITD-IHEQSD-GWPGAINQVARDSMIEAMI 250 ACT: domain 1 of 1, from 82 to 150: score 18.1, E = 0.038 CS EEEEEEEE -TTCHHHHHHHHHCCTT-CCCEEEEEESSS CCEE *->tvlevgvp.DrPGlLaevtgaLadrgiNIesieqrtsed....givf +v++ ++++D G+L +v++aL+ +++ +si + + + ++ +v+ gi|6604367 82 VVISARGAgDAAGVLQQVAQALSVAQAEMQSILSQVVQLgltgQEVY 128 CS EECCCCCCHHHHHHHHHHTTTT ivvvvdeedleealeaLkkllg<-* + v+ e+ ++aleaL l++ gi|6604367 129 LLVDDAEQLGDSALEALLGLAA 150 SPOR: domain 1 of 1, from 454 to 528: score 57.7, E = 4.5e-14 CS - ----B----BS-HHHHHHHHHHHHTTT--...EEEEEETTEEEEE *->a.ggyyvQlGafsneanAealaakLrakGfaayvavvsgggtlYRVr a+g+y vQ+ s+ea A+a++a+ +++ +++ +g++lY+V gi|6604367 454 ApGHYVVQILGTSSEATAQAYVAEQGGEYRYF--KKTLQGKPLYVVT 498 CS ESS--TTTHHHHHHHHHH...HH--S----- vGpfasreeAraalkkLkaasaagisafvvk<-* +G f++r++A aa+k L+ a+++ +++ ++ gi|6604367 499 YGNFPDRAAALAAIKVLP-AKVQAGKPWPRT 528 // -------------------------------------------------------------------------------- HMM-to-structure alignment: -------------------------------------------------------------------------------- gi|146386459|pdb|2DTJ|A: domain 1 of 2, from 17 to 82: score 50.6, E = 6.1e-12 CS EEEEEEEE-TTCHHHHHHHHHCCTT-CCCEEEEEESSS CCEEEEC *->tvlevgvpDrPGlLaevtgaLadrgiNIesieqrtsed..givfivv v ++g D+PG +a+v++aLad+ iNI+++ q++s ++g+++i++ gi|1463864 17 KVTVLGISDKPGEAAKVFRALADAEINIDMVLQNVSSVedGTTDITF 63 CS CCCCCHHHHHHHHHHTTTT vvdeedleealeaLkkllg<-* ++d +a+e Lkkl gi|1463864 64 TCPRSDGRRAMEILKKLQV 82 gi|146386459|pdb|2DTJ|A: domain 2 of 2, from 99 to 157: score 37.7, E = 4.7e-08 CS EEEEEEEE-TTCHHHHHHHHHCCTT-CCCEEEEEESSSCCEEEECCC *->tvlevgvpDrPGlLaevtgaLadrgiNIesieqrtsedgivfivvvv + + g++ +PG+ ae+ +aL d ++NIe i++++ + i+v++ gi|1463864 99 SLVGAGMKSHPGVTAEFMEALRDVNVNIELISTSE-----IRISVLI 140 CS CCCHHHHHHHHHHTTTT deedleealeaLkkllg<-* e+dl++a +aL++ + gi|1463864 141 REDDLDAAARALHEQFQ 157 -------------------------------------------------------------------------------- Domain acession : PF01844.15 Domain description : HNN (HNN endonuclease) Gathering score : 22.5 -------------------------------------------------------------------------------- Example 7 of 9: Query sequence: gi|163845652|ref|YP_001633696.1| Accession: [none] Description: 17.0 0.077 methyltransferase type 11 [Chloroflexus aurantiacus J-10-fl]gi|187600412|ref|ZP_02986644.1| Methyltransferase type Scores for sequence family classification (score includes all domains): Model Description Score E-value N -------- ----------- ----- ------- --- Methyltransf_11 Methyltransferase domain 86.2 1.1e-22 1 Methyltransf_12 Methyltransferase domain 72.3 1.7e-18 1 MetW Methionine biosynthesis protein MetW -118.3 0.012 1 TPMT Thiopurine S-methyltransferase (TPMT) -75.1 0.021 1 HNH HNH endonuclease 17.0 0.077 1 TehB Tellurite resistance protein TehB -124.0 0.098 1 Parsed for domains: Model Domain seq-f seq-t hmm-f hmm-t score E-value -------- ------- ----- ----- ----- ----- ----- ------- TPMT 1/1 4 187 .. 1 230 [] -75.1 0.021 TehB 1/1 29 159 .. 1 193 [] -124.0 0.098 MetW 1/1 30 210 .. 1 195 [] -118.3 0.012 Methyltransf_11 1/1 44 138 .. 1 99 [] 86.2 1.1e-22 Methyltransf_12 1/1 44 136 .. 1 109 [] 72.3 1.7e-18 HNH 1/1 433 476 .. 1 58 [] 17.0 0.077 Alignments of top-scoring domains: TPMT: domain 1 of 1, from 4 to 187: score -75.1, E = 0.021 CS XXXXXXXXXXXXXXX----SSSTHHHHHHHHH.H---TT-EEEETT- *->vdedfWlkrWsegqigFHqeevnplLvrhldaFlklppglRvLVPLC +++ + + +++q +F + ++++ r++++F + ++ + + gi|1638456 4 AETIRSYDQLAREQAAFQRHLQPTAIYRLVETFFHPGRP--TIDIGS 48 CS -S-HHHHHHHHHT-EEEEEEE-SHHHHHHHHHH-S...-SE..EEEETTE GKslDlvWLAeqGhfVvGvEiSelAvekFFaEanlsYssPkAGitelsgv G++ D++WL G+ +G+E S +++ a a + AGi+ ++g+ gi|1638456 49 GSGRDVAWLNQHGYQAIGLEPSAGMIAE--ARAAY------AGIEIRQGA 90 CS EE..EE-SSSEEEEE-SSSSTHHHHHSEEEEEEES-TTTS-HHHHHHHHH keFlyraggIellCGDfFtLpaeelGkfdliYDRAALvAlppemRprYak +L + fd + A+L lp++ + gi|1638456 91 LP----------------DLAGIADASFDNVLCVAVLMHLPAAELIGAVI 124 CS HHHHHS-SEEE..EEEEEESS-SSSSS.S------HHHHHHHSTTTEEEE qlyeLLppggrLAgLLiTLdYpqaeheGGPPFsVpaaEleaLfgggfkva l+++L+pggr Li+ +Y+ +e G a +L++ a gi|1638456 125 NLARILRPGGR----LIV-SYRTPPPE-G-----ERAHDGRLYTVI-PPA 162 CS EEEE.SS--TTSTHHHHHT-SS--EEEEEEEE- elerdeDaLepeprfkaaGvsrleEkvyvlerk<-* +l +Le+ +++ ++E + r gi|1638456 163 RLML---LLES--SGLQ---ILFSEDLPDPHRP 187 TehB: domain 1 of 1, from 29 to 159: score -124.0, E = 0.098 *->FyCkkeDYFhKKYnlTptHSEVlEAVktVkPgK.aLDLGCGqGRNSL y e +Fh Pg ++ D G G+GR gi|1638456 29 IYRLVETFFH--------------------PGRpTIDIGSGSGRDVA 55 fLsllGYDVtAvDhNenSIanLqdi.....aekEnLdnlrtalYDINsAs L++ GY ++ Ia + ++ + +L+ +l I As gi|1638456 56 WLNQHGYQAIGLEPSAGMIAEARAAyagieIRQGALP----DLAGIADAS 101 idenYDFIlSTVVLMFL.qaeRIPeIIaNMQehTnvGGYNLIVaAMsTdD +d l VLM L+ ae I ++I N + ++GG LIV+ gi|1638456 102 FDN----VLCVAVLMHLpAAELIGAVI-NLARILRPGG-RLIVSY----- 140 yPCtvPFSFTFkEgELkrYYqdWellKYNEdvGeLHkTDanGNRIKLkFa ++ e+ G+ + gi|1638456 141 ----------------RTPPPEGERAH-------------DGR-----LY 156 TML<-* T gi|1638456 157 TVI 159 MetW: domain 1 of 1, from 30 to 210: score -118.3, E = 0.012 *->RaDfeiIarlIpPgSRVLDlGCGDGsLLeLLqeeKqVdGrGlEldaa ++++ Pg D+G+G G +L + + + GlE +a gi|1638456 30 ---YRLVETFFHPGRPTIDIGSGSGRDVAWL-NQHGYQAIGLEPSAG 72 GVaeCvA..kGLsViqGDaDkgLehfpDksFDyViLSQTLQatRNPreV. +ae+ A G+ qG + +L+ +D sFD V L +++ gi|1638456 73 MIAEARAayAGIEIRQGAL-PDLAGIADASFDNVLCVAVLMHLPAAELIg 121 ....LdElLRIGrraIVSF...PNFGHWrv..RlsLlskGRMPvTdsLPY +L LR G r IVS +++P G +++Rl+ P + gi|1638456 122 avinLARILRPGGRLIVSYrtpPPEGERAHdgRLYTV----IPPARL--- 164 tWYdTPNIHfCTirDFveLCeelglkvedrvaldekgrkvpLnavwwwp. + L e gl+++ + l + + ++ ++ gi|1638456 165 ----------------MLLLESSGLQILFSEDLPDPH------RPSIRWf 192 NffGe.......qavFll<-* N+ e+++++ + ++ ++ gi|1638456 193 NMVAEksdrdvsRGLERV 210 Methyltransf_11: domain 1 of 1, from 44 to 138: score 86.2, E = 1.1e-22 *->LDvGcGtGllaraLarrvgpgarvtGvDlspemlalArerapragle D+G+G+G+ +++L ++ g++ +G+++s++m+a Ar+++++ gi|1638456 44 IDIGSGSGRDVAWLNQH---GYQAIGLEPSAGMIAEARAAYAGIE-- 85 nfvvgDaedL.PfpDesFDvVvsslvlhhl.aedperalrEiaRVLKPGG +++g dL +D+sFD V++++vl+hl+a+++ a+ ++aR+L+PGG gi|1638456 86 -IRQGALPDLaGIADASFDNVLCVAVLMHLpAAELIGAVINLARILRPGG 134 klvi<-* +l++ gi|1638456 135 RLIV 138 Methyltransf_12: domain 1 of 1, from 44 to 136: score 72.3, E = 1.7e-18 *->LeiGcGtGrllralleallnpgleytgvDiSpaaleiaaaaerlaal ++iG+G+Gr +++l ++ g + g+++S+++++ a++ a+ gi|1638456 44 IDIGSGSGRDVAWLNQH----GYQAIGLEPSAGMIA--EARAAYAGI 84 gl.dadrveldvldlidedpgeqgfeesfDvvvasnvLhhldpedprevL + ++ + +l+ ++ + sfD v++ vL hl+++++ ++ gi|1638456 85 EIrQGALPDLAGIADA-----------SFDNVLCVAVLMHLPAAELIGAV 123 rnlrrlLkPGGvl<-* nl+r L+PGG+l gi|1638456 124 INLARILRPGGRL 136 HNH: domain 1 of 1, from 433 to 476: score 17.0, E = 0.077 CS CHHHCCCCCHBCTTBTC-EEEESSS.....GGGTTTTTBTTCEEEE- *->grcrlcgrafsgnppkglevdHiiPvkrehilgnggdndleNLrllc + +++g g+evdH+iP ++ g+ndl+NL +++ gi|1638456 433 WTGQRLGH--------GYEVDHVIP------YSVWGNNDLWNLLPAH 465 CS HHHHHHHHTT- pkcHrrkhark<-* p+ +++k + gi|1638456 466 PRINQTKRDAL 476 // -------------------------------------------------------------------------------- HMM-to-structure alignment: -------------------------------------------------------------------------------- gi|27573821|pdb|1M08|A: domain 1 of 1, from 79 to 131: score 39.5, E = 1.3e-08 CS CHHHCCCCCHBCTTBTC-EEEESSS.....GGGTTTTTBTTCEEEE- *->grcrlcgrafsgnppkglevdHiiPvkrehilgnggdndleNLrllc g+++ ++ ++ + +e++H +P i+ ngg++d++N+ +++ gi|2757382 79 GKAPKTRTQDVSGKRTSFELHHEKP-----ISQNGGVYDMDNISVVT 120 CS HHHHHHHHTT- pkcHrrkhark<-* pk H +h++k gi|2757382 121 PKRHIDIHRGK 131 gi|157835924|pdb|2QGP|A: domain 1 of 1, from 36 to 84: score 42.5, E = 1.6e-09 CS CHHHCCCCCHBCTTBTC-EEEESSS.....GGGTTTTTBTTCEEEE- *->grcrlcgrafsgnppkglevdHiiPvkrehilgnggdndleNLrllc g c++cg++f p+ l+ dH +Pv+ gg+ ++ N +++c gi|1578359 36 GICHYCGEIFP---PEELTXDHLVPVV------RGGKSTRGNVVPAC 73 CS HHHHHHHHTT- pkcHrrkhark<-* ++c++rk++ gi|1578359 74 KECNNRKKYLL 84 -------------------------------------------------------------------------------- Domain acession : PF04151.7 Domain description : PPC (Baterial pre-peptidase C-terminal domain) Gathering score : 21.8 -------------------------------------------------------------------------------- Example 8 of 9: Query sequence: gi|83645548|ref|YP_433983.1| Accession: [none] Description: fibronectin type III domain-containing protein [Hahella chejuensis KCTC 2396]gi|83633591|gb|ABC29558.1| protein con Scores for sequence family classification (score includes all domains): Model Description Score E-value N -------- ----------- ----- ------- --- fn3 Fibronectin type III domain 42.1 2.2e-09 2 PPC Bacterial pre-peptidase C-terminal do 17.5 0.057 1 Parsed for domains: Model Domain seq-f seq-t hmm-f hmm-t score E-value -------- ------- ----- ----- ----- ----- ----- ------- PPC 1/1 1156 1236 .. 1 85 [] 17.5 0.057 fn3 1/2 1331 1417 .. 1 84 [] 27.3 6.2e-05 fn3 2/2 1428 1513 .. 1 84 [] 14.8 0.006 Alignments of top-scoring domains: PPC: domain 1 of 1, from 1156 to 1236: score 17.5, E = 0.057 CS -EEEEEEEESTTCEEEEEE ECTSSS...S...CCEEEEE *->dvdvysFtvpaggtlsisl........dggsslrslsgnGdadtlLy dv+ y+F + + + s+++++ ++ ++++ + +d+lL+ gi|8364554 1156 DVNAYRFKGTREKNSSVWVngvqklssEDKT---------TFDLLLD 1193 CS EECCCSESSSS TTCE-.....ECCTTEEEEEECC.-SEEEEEEEEE wlldgdpslsa..ydaystTrdvdnggsdelisftapeaGtYyirVyg<- l +gd++ + da ++ + + i+f+++++G+ ++V+g gi|8364554 1194 -LQRGDNRFEFvvIDAAGN----ASVPTIANIRFDDTAPGQVTFTVDG 1236 CS * gi|8364554 - - fn3: domain 1 of 2, from 1331 to 1417: score 27.3, E = 6.2e-05 CS ----CEEEEEEECTTEEEEEEE--S -SS--SEEEEEEEEETTTCC *->PsaPtnltvtdvtstsltlsWspPt.gngpitgYevtyRqpkngge. P + +l++ + sts+ lsW + g++ gY++ + ++++++e gi|8364554 1331 PEPIVDLRALS-ASTSIDLSWAQHAnTAGDLAGYRIYV-SKAGDEEv 1375 CS CEEEEEETTTSEEEEES--TT-EEEEEEEEEETTE-EBE ....wkeltvpgtttsytltgLkPgteYtvrVqAvnggGGpeS<-* ++ + + +++ + ++gL++ t +r++A++ + G eS gi|8364554 1376 ndipLASANISDGRVNVKVEGLQAATANPIRITAYDLA-GNES 1417 fn3: domain 2 of 2, from 1428 to 1513: score 14.8, E = 0.006 CS ----CEEEEEEECTTEEEEEEE--S-SS--SEEEEEEEEETTTCC *->PsaPtnltvtdvtstsltlsWspPtgngpitgYevtyRqpkngge.. + P ++t + s l +sW+++ + + Y++ q++ ++ gi|8364554 1428 LANPAGVTTDP-LSGQLKVSWQASQPANLVKEYRIYA-QDA-AFSsv 1471 CS CEEEEEETTTSEEEEES--TT-EEEEEEEEEETTE-EBE ...wkeltvpgtttsytltgLkPgteYtvrVqAvnggGGpeS<-* + tv+g++ + ++ gL g++Y v V+Avn GG+e+ gi|8364554 1472 agmAPKTTVSGSALTRNIAGLSNGVTYYVAVTAVNLSGGEET 1513 // Example 9 of 9: Query sequence: gi|17548565|ref|NP_521905.1| Accession: [none] Description: basal-body rod modification protein FlgD [Ralstonia solanacearum GMI1000]gi|17430813|emb|CAD17495.1| probable basal Scores for sequence family classification (score includes all domains): Model Description Score E-value N -------- ----------- ----- ------- --- FlgD Flagellar hook capping protein 192.9 8.8e-55 1 DUF2271 Predicted periplasmic protein (DUF227 -81.1 0.0087 1 PPC Bacterial pre-peptidase C-terminal do 16.8 0.092 1 Parsed for domains: Model Domain seq-f seq-t hmm-f hmm-t score E-value -------- ------- ----- ----- ----- ----- ----- ------- FlgD 1/1 3 141 .. 1 155 [] 192.9 8.8e-55 PPC 1/1 110 175 .. 1 85 [] 16.8 0.092 DUF2271 1/1 119 200 .. 1 154 [] -81.1 0.0087 Alignments of top-scoring domains: FlgD: domain 1 of 1, from 3 to 141: score 192.9, E = 8.8e-55 *->mtsvssatgsssasttsasssss...selgkddFLkLLtaQLqNQDP ++s++s+t++ss+s+t+++++ ++++ ++++++F++LL+aQL+NQDP gi|1754856 3 VSSTTSTTSTSSTSSTTSTTGITsqtGTDLQNTFMQLLVAQLKNQDP 49 LnPmDntefiaQLAQFStVEqienlNttleslaasmqssqalqAssLiGk LnPmDn++ ++QLAQ++tV +i +lNtt++s+a++++ a+qAssLiG+ gi|1754856 50 LNPMDNSQLTSQLAQINTVNGIAQLNTTMSSMATQSA---ASQASSLIGR 96 eVlvpddgntivyldgggggetGsvsggvevgLpsaAdevtvtikDaaGq +V+vp ++t ++l+++ s+s+gv+ +p++Ad+v+vtik+a+G+ gi|1754856 97 TVEVP--SST-LTLSSS------SASFGVS--VPNGADDVVVTIKNASGT 135 vvnvelVrtid<-* + Vrt+d gi|1754856 136 T-----VRTVD 141 PPC: domain 1 of 1, from 110 to 175: score 16.8, E = 0.092 CS -EEEEEEEESTTCE EEEEEECTSSS...S...CCEEEEEEECCCS *->dvdvysFtvpaggt.lsisldggsslrslsgnGdadtlLywlldgd. + ++ ++vp+g +++++++ + s ++ + +d ++ gi|1754856 110 SSASFGVSVPNGADdVVVTIKNAS---------GTT--VR-TVDLGq 144 CS ESSSSTTCE-.....ECCTTEEEEEECC.-SEEEEEEEEE ..pslsaydaystTrdvdnggsdelisftapeaGtYyirVyg<-* ++ +s+y++++ d ++ t+ ++GtY i V + gi|1754856 145 vsAGTSNYTWNG---------KDDKGN-TL-SDGTYTISVAA 175 DUF2271: domain 1 of 1, from 119 to 200: score -81.1, E = 0.0087 *->pahAaelnieveiPrLdVAEYHRPYVAvWvEnadgkvvkTLAVWYdk p A++ + v+i na g +v+T +d gi|1754856 119 PNGADD--VVVTIK-----------------NASGTTVRT----VDL 142 kkkegeGtKWLKDlRQWWRKsGRelqlpvDGVSGATRppGthalsfdgkd + q+ +Gt + gkd gi|1754856 143 G------------------------QV----------SAGTSNYTWNGKD 158 dplkkLppGeYtLvVEAaREvGGREllRvPFewPakaaqslkakGtsELG d+++ L G Yt+ V A ++++ + ++++a Gt+ gi|1754856 159 DKGNTLSDGTYTISVAA--------------TLSGST-TTASALGTDKVT 193 avtlelk<-* vt++ + gi|1754856 194 GVTINSG 200 // -------------------------------------------------------------------------------- HMM-to-structure alignment: -------------------------------------------------------------------------------- gi|55670680|pdb|1WMD|A: domain 1 of 1, from 331 to 418: score 38.8, E = 2.2e-08 CS -EEEEEEEESTTCEEEEEE ECTSSS...S...CCEEEE *->dvdvysFtvpaggtlsisl.........dggsslrslsgnGdadtlL + +ysFt++ag l+isl ++ + +++++ +l d+d+++ gi|5567068 331 QKATYSFTATAGKPLKISLvwsdapastTASVTLVN-----DLDLVI 372 CS EEECCCSESSSS TTCE-.....ECCTTEEEEEECC.-SEEEEEEE ywlldgdpslsa.....ydaystTrdvdnggsdelisftapeaGtYyirV + +++g + ++ +++y+++ d+ ++ e + ++ap++GtY i+V gi|5567068 373 T-APNGTQYVGNdftspYNDNW-----DGRNNVENVFINAPQSGTYTIEV 416 CS EE yg<-* + gi|5567068 417 QA 418 --------------------------------------------------------------------------------