HorA Server Transitive Detail

Reference:
H. Cheng, BH. Kim, and N. Grishin (2008). Discrimination between distant homologs and structural analogs: lessons from manually constructed, reliable datasets. J. Mol. Biol. 377(4): 1265-1278
BH. Kim, H. Cheng, and N. Grishin (2009). HorA web server to infer homology between proteins using sequence and structural similarity. Nucleic Acids Res. 37(Web Server issue):W532-8
Comments and suggestions to: grishin@chop.swmed.edu


Query: T515_B.pdb B
Database: SCOP1.69 less than 40% identity downloaded from ASTRAL


Query <-- 1.289 --> Intermediate <-- 1.244 --> Hit

SVM
score
SVM
score

The query (T515_B.pdb B) is transitively linked to the hit (d1fcqa_) through the intermediate protein (d1twda_) by significant SVM score (>0.4).

  SCOP Id Protein SCOP Superfamily SCOP Fold SCOP
Class
Intermediate d1twda_ Copper homeostasis protein CutCCutC-​like (Pfam 03932)TIM beta/​alpha-​barrelα/β
Hit d1fcqa_ Bee venom hyaluronidase(Trans)glycosidasesTIM beta/​alpha-​barrelα/β

Supporting Alignments

Query <-- 1.289 --> Intermediate
DALI alignment (Z-score: 8.2 Raw score:868.70) query 1 mietpyylidkakltrnmeriahvreksgAKALLALkcFATWsvFDLMRD-YMDGTTS-- 57 ::::::: :::: :::::: ::::::: d1twda_ 1 -----------------------------ALLEICC--YSME-cALTAQQnGADRVELca 28 query 58 -------SSLF-EVRLGRERFGKETHAYSVA-------------yGDNEIDEVVS-HADK 95 :::: ::::::::::::::::::: :::::::::: :::: d1twda_ 29 apkegglTPSLgVLKSVRQRVTIPVHPIIRPrggdfcysdgefaaILEDVRTVRElGFPG 88 query 96 IIFNS--------ISQLERFADKAAGIARGLR-LNPQrlgEWDVPKV-ERVMD-RINGFM 144 ::::: ::::::::::::::::::: :::: ::::::: ::::: :::::: d1twda_ 89 LVTGVldvdgnvdMPRMEKIMAAAGPLAVTFHrAFDM---CANPLYTlNNLAElGIARVL 145 query 145 IHnncenkdfglfDRMLGEIEErFGALiARVDWVSLGGGIHFtgddypvdaFSARLRAFS 204 :: ::::::::: :::: :::::::::::::: ::::::::: d1twda_ 146 TS-----gqksdaLQGLSKIME-LIAH-RDAPIIMAGAGVRA--------eNLHHFLDAG 190 query 205 drygvqIYLEPGeaSITKsTTLE-VTVLdtlynknlaivdssieahmldlliyretakvl 263 :::::: :::: :::: :::: d1twda_ 191 -----vLEVHSS--AGAW-QASPmRYRN-------------------------------- 210 query 264 pnegshsymicgksclagdvfgefrfaeelkvgdrisfqDAAGYtmvkknwfngvkmpai 323 ::::: d1twda_ 211 ---------------------------------------YSRYI---------------- 215 query 324 aireldgsvrtvreftyadyeqsls 348 d1twda_ 216 ------vdgaavaemkgiierhqak 234 FAST alignment (Normalized score: 4.77 Raw score:1361.00) query 1 MIETPYYLIDKAKLTRNMERIAHVREKSGAKALLALKCFA--TWSVFDLMRD-YMDGTTS 57 :::::: :::::::::: ::::::: d1twda_ 1 -----------------------------ALLEIC-----CYSMECALTAQQNGADRVEL 26 query 58 ----------SSLFEVRLGRERFGKETHAYSVAY----------------GDNEIDEVVS 91 ::::::::::::::::::::: :::::::::: d1twda_ 27 CAAPKEGGLTPSLGVLKSVRQRVTIPVHPII---RPRGGDFCYSDGEFAAILEDVRTVRE 83 query 92 -HADKIIFN---------SISQLERFADKAAGIARGLRLNPQRLGEW---------DVPK 132 ::::::: ::::::::::::::::::: :::: d1twda_ 84 LGFPGLVT-GVLDVDGNVDMPRMEKIMAAAGPLAVTF----------HRAFDMCANPLYT 132 query 133 VERVMD-RINGFMIHNNCENKDFG--------LFDRMLGEIEERFGALIARV----DWVS 179 :::::: ::::::: ::::::::::: :::: d1twda_ 133 LNNLAELGIARVLT----------SGQKSDALQGLSKIMELIA---------HRDAPIIM 173 query 180 LGGGIHFTGDD--YPVDAFSARLRAFSDRYGVQ---IYLEPGEASITK----STTLEVTV 230 ::::: :::::::: ::::: :::::::: d1twda_ 174 AGAGV------RAENLHHFLD------------AGVLEVHS-------SAGAWQASPMRY 208 query 231 LDTLYNKNLAIVDSSIEAHMLDLLIYRETAKVLPNEGSHSYMICGKSCLAGDVFGEFRFA 290 d1twda_ 209 ------------------------------------------------------------ 209 query 291 EELKVGDRISFQDAAGYTMVKKNWFNGVKMPAIAIRELDGSVRTVREFTYADYEQSLS-- 348 d1twda_ 209 ----------------------------------------------------------RN 210 query 349 ------------------------ 349 d1twda_ 211 YSRYIVDGAAVAEMKGIIERHQAK 234 TMalign alignment (TM-score: 0.42 Raw score:146.57) query 1 MIETPYYLIDKAKLTRNMERIAHVREKSGAKALLALKCFATWSVFDLMRDYMDGTTSS-- 58 ::::: ::: ::::::::::::::::::: d1twda_ 1 ----------------------------ALLEI-CCY--SMECALTAQQNGADRVELCAA 29 query 59 ------SLF--EVRLGRERFGKETHAYSVA-------------YGDNEIDEVVS-HADKI 96 ::: ::::::::::::::::::: ::::::::::: ::::: d1twda_ 30 PKEGGLTPSLGVLKSVRQRVTIPVHPIIRPRGGDFCYSDGEFAAILEDVRTVRELGFPGL 89 query 97 IFNS------IS--QLERFADKAAGIARGLRLNPQRLGEWD-VPKVERVMD-RINGFMIH 146 :::: :: ::::::::::::::::::::: :::: ::::::::: :::::::: d1twda_ 90 VTGVLDVDGNVDMPRMEKIMAAAGPLAVTFHRAFD--MCANPLYTLNNLAELGIARVLTS 147 query 147 -NNCENKDFGLFDRMLGEIEERFGALIARVDWVSLGGGIHFTGDDYPVDAFSARLRAFSD 205 ::: : :::::::::: :::: :::::::::::::: :: ::::::::: d1twda_ 148 GQKS-D-----ALQGLSKIME-LIAH-RDAPIIMAGAGVRA----EN---LHHFLDAGV- 191 query 206 RYGVQIYLEPGEASITKSTTLEVTVLDTLYNKNLAIVDSSIEAHMLDLLIYRETAKVLPN 265 :::: :: : ::: ::::: :: d1twda_ 192 ----LEVH-SS-A-GAW-QASPM--------------RY--------------------- 208 query 266 EGSHSYMICGKSCLAGDVFGEFRFAEELKVGDRISFQDAAGYTM---------------- 309 :: :::::: d1twda_ 209 ----------RN--------------------------YSRYIVDGAAVAEMKGIIERHQ 232 query 310 --VKKNWFNGVKMPAIAIRELDGSVRTVREFTYADYEQSLS 348 d1twda_ 233 AK--------------------------------------- 234 HHsearch alignment (Probability: 0.20 E-value:0.04) query 45 FDLMRDYMDGTTSSSLFEVRLGRERFGKETHAYSVAYG-------------DNEIDEVVS 91 :::::::::::::::::::::::::::::::::::::: ::::::::: d1twda_ 24 VELCAAPKEGGLTPSLGVLKSVRQRVTIPVHPIIRPRGGDFCYSDGEFAAILEDVRTVRE 83 query 92 HADKIIF---------NSISQLERFADKAAGIARGLRLNPQRLGEWDVPKVERVMDRING 142 ::::::: :::::::::::::::::::: ::::::::::::::::::: d1twda_ 84 LGFPGLVTGVLDVDGNVDMPRMEKIMAAAGPLAVTF-----HRAFDMCANPLYTLNNLAE 138 query 143 FMI-HNNCENKDFGLFDRMLGEIEERFGALIARVDWVSLGGGI 184 ::: ::::::::::: :::::::::::::::::: ::::::: d1twda_ 139 LGIARVLTSGQKSDA-LQGLSKIMELIAHRDAPI--IMAGAGV 178
Intermediate <-- 1.244 --> Hit
DALI alignment (Z-score: 8.3 Raw score:931.90) d1twda_ 1 -ALLEICCYSM------ecALTAQQ-NGADRvelcaapkeggltpslgvlksvRQRV--t 50 :::::::::: :::::: ::::: :::: d1fcqa_ 1 eFNVYWNVPTFmchkyglrFEEVSEkYGILQ----------------------NWMDkfr 38 d1twda_ 51 iPVHPIIRP-------------rggdfcySDGEFAAILEDVRTVREL-GFPG-LVTGVld 95 :::::::: :::::::::::::::::: :::: ::::: d1fcqa_ 39 gEEIAILYDpgmfpallvarnggvpqlgnLTKHLQVFRDHLINQIPDkSFPGvGVIDF-e 97 d1twda_ 96 VDGN----------------------------------------------vDMPRMEKIM 109 :::: ::::::::: d1fcqa_ 98 SWRPifrqnwaslqpykklsvevvrrehpfwddqrveqeakrrfekygqlfMEETLKAAK 157 d1twda_ 110 AAAGPLAVTFHRAFD----------------mcaNPLYTlNNLAELgIARVLTS------ 147 ::::::::::::::: ::::: :::::: ::::::: d1fcqa_ 158 RMRPAANWGYYAYPYcynltpnqpsaqceattmqENDKM-SWLFES-EDVLLPSvylrwn 215 d1twda_ 148 -gqksdaLQGLSKIMELI--AHRD---APIIMAGAG--------------vRAENLHHFL 187 ::::::::::: :::: ::::::::: ::::::::: d1fcqa_ 216 ltsgervGLVGGRVKEALriARQMttsRKKVLPYYWykyqdrrdtdlsradLEATLRKIT 275 d1twda_ 188 DAGVLEVHSS--agAWQAspmryrnYSRY---IVDG--AAVAEMKGiierhqak 234 :::::::::: :::: :::: :::: :::::::: d1fcqa_ 276 DLGADGFIIWgssdDINT-------KAKClqfREYLnnELGPAVKR-------- 314 FAST alignment (Normalized score: 4.31 Raw score:1169.00) d1twda_ 1 AL----------------------------------------LEICCY------------ 8 :::::: d1fcqa_ 1 --EFNVYWNVPTFMCHKYGLRFEEVSEKYGILQNWMDKFRGEEIAILYDPGMFPALLVAR 58 d1twda_ 9 ------------SMECALTAQQNG--------ADRVELCAAPKEGGLTP----------- 37 :::::::::: ::::::: d1fcqa_ 59 NGGVPQLGNLTKHLQVFRDHLI--NQIPDKSFPGVGVID----------FESWRPIFRQN 106 d1twda_ 38 ------------------------------------------SLGVLKSVRQRVT-IPVH 54 ::::::::::::: :::: d1fcqa_ 107 WASLQPYKKLSVEVVRREHPFWDDQRVEQEAKRRFEKYGQLFMEETLKAAKRMRPAANWG 166 d1twda_ 55 PIIRPRGGDF----------------CYSDGEFAAILEDVRTVRELGFPGLVTGVLDVDG 98 : :::::::::::: :::::: ::::::::::: d1fcqa_ 167 Y---------YAYPYCYNLTPNQPSAQCEATTMQENDK-MSWLFE-SEDVLLPSVYL--- 212 d1twda_ 99 NV------------DMPRMEKIMAAA------GPLAVTFHRAFDMCA------------- 127 ::::::::::: ::::::: d1fcqa_ 213 --RWNLTSGERVGLVGGRVKEALRI-ARQMTTSRKKVLP--------YYWYKYQDRRDTD 261 d1twda_ 128 ----NPLYTLNNLAELGIARVLTSGQKS------------DALQGLSKIM-ELIAHRDAP 170 :::::::::::::::::: :::::::::: :::: d1fcqa_ 262 LSRADLEATLRKITDLGADGFI------IWGSSDDINTKAKCLQFREYLNNELGP----- 310 d1twda_ 171 IIMAGAGVRAENLHHFLDAGVLEVHSSAGAWQASPMRYRNYSRYIVDGAAVAEMKGIIER 230 d1fcqa_ 311 ------------------------------------------------------------ 311 d1twda_ 231 HQAK---- 234 d1fcqa_ 311 ----AVKR 314 TMalign alignment (TM-score: 0.62 Raw score:144.64) d1twda_ 1 -ALLEICCYSM--E----CALTAQQNGADRVELCAAPKEGGLTPSLGVLKSVRQRVT--I 51 :::::::::: : ::::::::::::: :: ::: : d1fcqa_ 1 EFNVYWNVPTFMCHKYGLRFEEVSEKYGILQ--------------------NW-MDKFRG 39 d1twda_ 52 PVHPIIRPR-GGDFCY-----S-------D--GEFAAILEDVRT-VRELGFPG-LVTGV- 93 ::::::::: :::: : : :::::::::::: :::::::: ::::: d1fcqa_ 40 EEIAILYDPG--MFPALLVARNGGVPQLGNLTKHLQVFRDHLINQIPDKSFPGVGVIDFE 97 d1twda_ 94 LDVDG------------------------------------------NV--DMPRMEKIM 109 ::::: :: ::::::::: d1fcqa_ 98 SWRPIFRQNWASLQPYKKLSVEVVRREHPFWDDQRVEQEAKRRFEKYGQLFMEETLKAAK 157 d1twda_ 110 AAAGPLAVTFHRAFDMC--------------A--NPLYTLNNLAELGIARVLTSGQKS-- 151 ::::::::::::::::: : ::::: :::::: ::::::::::: d1fcqa_ 158 RMRPAANWGYYAYPYCYNLTPNQPSAQCEATTMQENDKM-SWLFES-EDVLLPSVYLRWN 215 d1twda_ 152 -----DALQGLSKIMELIA--HR---DAPIIMAGAGV-------------RAEN-LHHFL 187 :::::::::::::: :: ::::::::::: :::: ::::: d1fcqa_ 216 LTSGERVGLVGGRVKEALRIARQMTTSRKKVLPYYWYKYQDRRDTDLSRADLEATLRKIT 275 d1twda_ 188 DAGVLEVHSSAG-AWQASPMRYRNYSRYIV-DGA-AVAEMKGIIERHQAK 234 :::::::::::: ::::::: :::::: ::: :::::::: d1fcqa_ 276 DLGADGFIIWGSSDDINTKA----KCLQFREYLNNELGPAVKR------- 314 HHsearch alignment (Probability: 0.72 E-value:0.00) d1twda_ 49 VTIPVHPIIRPRG---GDFCYSDGEFAAILEDVRTVRELGFPGLVTGVLDVDGNVDMPRM 105 ::::::::::::: :::::::::: ::::::::::::::::::: ::::::::::: d1fcqa_ 242 SRKKVLPYYWYKYQDRRDTDLSRADL---EATLRKITDLGADGFIIWG-SSDDINTKAKC 297 d1twda_ 106 EKIMA 110 ::::: d1fcqa_ 298 LQFRE 302