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: T542_A.pdb A
Database: SCOP1.69 less than 40% identity downloaded from ASTRAL


Query <-- 0.687 --> Intermediate <-- 1.273 --> Hit

SVM
score
SVM
score

The query (T542_A.pdb A) is transitively linked to the hit (d1pvna1) through the intermediate protein (d1tx2a_) by significant SVM score (>0.4).

  SCOP Id Protein SCOP Superfamily SCOP Fold SCOP
Class
Intermediate d1tx2a_ Dihydropteroate synthetaseDihydropteroate synthetase-​likeTIM beta/​alpha-​barrelα/β
Hit d1pvna1 Inosine monophosphate dehydrogenase (IMPDH)Inosine monophosphate dehydrogenase (IMPDH)TIM beta/​alpha-​barrelα/β

Supporting Alignments

Query <-- 0.687 --> Intermediate
DALI alignment (Z-score: 2.9 Raw score:483.20) query 1 ---------------SLQLRLALN----qidstvgdiagnAEAILRWTRHSAEQGAHLVA 41 ::::::::: :::::::::::::::::::: d1tx2a_ 1 kwdydlrcgeytlnlNEKTLIMGIlnvtpdsfsdggsyneVDAAVRHAKEMRDEGAHIID 60 query 42 fpemALTGypvedlalrSSFVEASRTALRELAARLAeEGFGeLPVLVGYldrsesaqpky 101 :::: ::::::::::::::::::: :::: ::::::: d1tx2a_ 61 ---iGGES-------faKVSVEEEIKRVVPMIQAVS-KEVK-LPISIDT----------- 97 query 102 gqpagaprnaaavlhrGRVALT-FAKHhlpnygvfdefryfvPGDT-mpivrlhgvdiaL 159 :::::: :::: :::: : d1tx2a_ 98 -----ykaevakqaieAGAHIInDIWG--------------aKAEPkiaevaahydvpiI 138 query 160 AICE---------dlwQDGGR----vpaarsagaglllsvnaspyerdkDDTRLELVRKR 206 :::: ::::: ::::::::::: d1tx2a_ 139 LMHNrdnmnyrnlmadMIADLydsikiakdagvrdeniildpgigfaktPEQNLEAMRNL 198 query 207 aQEAG---ctTAYLAmiggqdelvFDGD------------------sivVDRDGevvara 245 :::: ::::: :::: ::::: d1tx2a_ 199 -EQLNvlgypVLLGT-------srKSFIghvldlpveerlegtgatvclGIEKG------ 244 query 246 pqfsegCVVLdldlpaaeaepptgvvddglridrlviseeplpayeaeLAGGyadrldad 305 :::: :::: d1tx2a_ 245 cefvrvHDVK-----------------------------------emsRMAK-------- 261 query 306 eevysalvvglrayvakngfrsvliglsggidsalvaaiacdalgaqnvygvsmpskyss 365 d1tx2a_ 262 ------------------------------------------------------------ 262 query 366 dhskgdaaelarrtglnfrtvsiepmfdaymaslgltglaeenlqsrlrgttlmaisnqe 425 d1tx2a_ 262 ------------------------------------------------------------ 262 query 426 ghivlapgnkselavgystlygdsvgaygpikdvyktsifrlaewrnraaaergqtppip 485 d1tx2a_ 262 ------------------------------------------------------------ 262 query 486 easitkpdypvldailelyvdrdtgadaivaagydrelvvktlrmvdtaeykrrqyppgt 545 d1tx2a_ 262 ------------------------------------------------------------ 262 query 546 kisakgfgkdrrlpitnrwregh 568 d1tx2a_ 262 ---------------mmdamigk 269 FAST alignment (Normalized score: 1.23 Raw score:478.70) query 1 ----------------SLQLRLALNQIDSTVGD---IAGNAEAILRWTRHSAEQGAHLVA 41 ::::::::::::::::: :::::::::::::::::::::::: d1tx2a_ 1 KWDYDLRCGEYTLNLNEKTLIMGILNVTPDSFSDGGSYNEVDAAVRHAKEMRDEGAHIID 60 query 42 FPEMALTGYPVEDLALRSSFVEASRTALRELAARLAEEGF-------------------- 81 :: d1tx2a_ 61 IG--------------------------------------GESFAKVSVEEEIKRVVPMI 82 query 82 ------GELPVLVGYLDRSESAQPKYGQPAGAPRNAAAVLHRGRVALTFAKHHLPNYGVF 135 ::::::: d1tx2a_ 83 QAVSKEVKLPISI----------------------------------------------- 95 query 136 DEFRYFVPGDTMPIVRLHGVDIALAICEDLWQDGGRVPAARSAGAGLLLSVNASPYERDK 195 d1tx2a_ 96 ------------------------------------------------------------ 96 query 196 DDTRLELVRKRAQEAGCTTAYLAMIGGQDELVFDGDSIVVDRDGEVVARAPQFSEGCVVL 255 d1tx2a_ 96 ------------------------------------------------------------ 96 query 256 DLDLPAAEAEPPTGVVDDGLRIDRLVISEEPLPAYEAELAGGYADRLDADEEVYSALVVG 315 d1tx2a_ 96 ------------------------------------------------------------ 96 query 316 LRAYVAKNGFRSVLIGLSGGIDSALVAAIACDALGAQNVYGVS----------------- 358 d1tx2a_ 96 -------------------------------------------DTYKAEVAKQAIEAGAH 112 query 359 ----------------------------MPSKYSSDHSKGDAAELARRTGLNFRTVSIEP 390 :::: d1tx2a_ 113 IINDIWGAKAEPKIAEVAAHYDVPIILMHNRD---------------------------- 144 query 391 MFDAYMASLG----LTGLAEENLQSRLRGTTLMAISNQEGHIVLAPGNKSELAVGYSTLY 446 :::::::::::::::::::: d1tx2a_ 145 ----------NMNYRNLMADMIADLYDSIKIAKD-------------------------- 168 query 447 GDSVGAYGPIKDVYKTSIFRLAEWRNRAAAERGQTPPIPEASITKPDYPVLDAILELYVD 506 d1tx2a_ 169 ------------------------------------------------------------ 169 query 507 RDTGADAIVAAGYDRELVVKTLRMVDTAEYKRRQYPPGTKISAKGFGKDRRLPITNRWRE 566 d1tx2a_ 169 ------------------------------------------------------------ 169 query 567 GH---------------------------------------------------------- 568 d1tx2a_ 169 --AGVRDENIILDPGIGFAKTPEQNLEAMRNLEQLNVLGYPVLLGTSRKSFIGHVLDLPV 226 query 569 ------------------------------------------- 569 d1tx2a_ 227 EERLEGTGATVCLGIEKGCEFVRVHDVKEMSRMAKMMDAMIGK 269 TMalign alignment (TM-score: 0.25 Raw score:142.24) query 1 --SLQL------RLALNQIDSTVGDIAGNAEAILRWTRHSAEQGAHLVAFPEMALTGYPV 52 :::: ::: : :::: :::: ::: d1tx2a_ 1 KWDYDLRCGEYTLNL------------------------N-EKTL--IMGI--LNV---- 27 query 53 EDLALRSSFV--E-ASRTALRELAARLAEEGFGELPVLVGYLDR---SESAQPKYGQPAG 106 :: ::::: : :::::::::::::: ::: :::::::::: :: : : d1tx2a_ 28 --TP-DSFSDGGSYNEVDAAVRHAKEMR-DEG--AHIIDIGGESFAK---VS--V-E--- 72 query 107 APR-NAA-AV--LHRGRV-ALTFAKHHLPNYGVFDEFRYFVPGDTMPIV-RLHGVDIALA 160 ::: ::: :: :::::: ::::::::: :::::::: : ::::: d1tx2a_ 73 EEIKRVVPMIQAVSKEVKLPISIDTYKA-------------EVAKQAIEA-G---AHIIN 115 query 161 ICEDLWQDGGRVPAARSAGAGLLLSVNASP-YERD-K---DD-TRLELVRKRAQE--AGC 212 :::::::::::::::::: : ::::::::: :::: : :: :::::::::::: ::: d1tx2a_ 116 DIWGAKAEPKIAEVAAHY-D-VPIILMHNRDNMNYRNLMADMIADLYDSIKIAKDAGVRD 173 query 213 T-TAYLAMIGG-QDELV-FD--GD--SIVVDRDGEVVARAPQFSE-GCVVLDLDLPAAEA 264 : ::::::::: ::: :: :: ::::: :::::::: ::: d1tx2a_ 174 ENIILDPGIGFA--KTPEQNLEAMRNLEQLN--VLGYPVLL-GTSR-------------- 214 query 265 EPPTGVVDDGLRIDRLVISEEPLPAYEAELAGGYADRLDADEEVYSALVVGLRAYVAKNG 324 :::::::: ::::: d1tx2a_ 215 ----------------------------------------------KSFIGHVL-DLPVE 227 query 325 FR----------------------------------------SVLIGLSGGIDSALVAAI 344 :: d1tx2a_ 228 ERLEGTGATVCLGIEKGCEFVRVHDVKEMSRMAKMMDAMIGK------------------ 269 query 345 ACDALGAQNVYGVSMPSKYSSDHSKGDAAELARRTGLNFRTVSIEPMFDAYMASLGLTGL 404 d1tx2a_ 270 ------------------------------------------------------------ 270 query 405 AEENLQSRLRGTTLMAISNQEGHIVLAPGNKSELAVGYSTLYGDSVGAYGPIKDVYKTSI 464 d1tx2a_ 270 ------------------------------------------------------------ 270 query 465 FRLAEWRNRAAAERGQTPPIPEASITKPDYPVLDAILELYVDRDTGADAIVAAGYDRELV 524 d1tx2a_ 270 ------------------------------------------------------------ 270 query 525 VKTLRMVDTAEYKRRQYPPGTKISAKGFGKDRRLPITNRWREGH 568 d1tx2a_ 270 -------------------------------------------- 270 HHsearch alignment (Probability: 0.05 E-value:0.02) query 494 YPVLDAILELYVDRDTGADAIV---AAGYDRELVVKTLRMVDTAEYKRRQYPPGTKISAK 550 :::::::::::::::::::::: ::::::::::::::::::::::::::::::::::: d1tx2a_ 156 IADLYDSIKIAKDAGVRDENIILDPGIGFAKTPEQNLEAMRNLEQLNVLGYPVLLGTSRK 215 query 551 GF 552 :: d1tx2a_ 216 SF 217
Intermediate <-- 1.273 --> Hit
DALI alignment (Z-score: 11.0 Raw score:1263.90) d1tx2a_ 1 ----------------------------------------kwDYDLrcgeyTLNLnektL 20 :::: :::: : d1pvna1 1 akyynepchtfneyllipglstvdcipsnvnlstplvkfqkgQQSE-----INLK---iP 52 d1tx2a_ 21 IMGILNVTpdsfsdggsynevdaAVRHAKEMRDeGAHIIDIGGESfakvsveeEIKRVVP 80 :::::::: :::::::::: ::::::::::: ::::::: d1pvna1 53 LVSAIMQS-------------vsGEKMAIALAR-EGGISFIFGSQ--------SIESQAA 90 d1tx2a_ 81 MIQAVSKEvKLPISIDTY---KAEVAKQAIEAGAHIINDIW--gaKAEP-KIAEVAA--- 131 :::::::: ::::::::: :::::::::::::::::::: :::: ::::::: d1pvna1 91 MVHAVKNF-RYLVGAGINtrdFRERVPALVEAGADVLCIDSsdgfSEWQkITIGWIReky 149 d1tx2a_ 132 HYDVPIILMHnrdnmnyrnlmadMIADLYDSIKIAkdagvrdenIILDPGIG----FAKT 187 :::::::::: :::::::::::: :::::::: :::: d1pvna1 150 GDKVKVGAGN-----------ivDGEGFRYLADAG--------aDFIKIGIGggsiCITR 190 d1tx2a_ 188 --pEQNLEAMRNLEQ-LNVLG---------YPVLLGTSRksfighvldlpveerleGTGA 235 :::::::::::: ::::: ::::::::: :::: d1pvna1 191 eqkGIGRGQATAVIDvVAERNkyfeetgiyIPVCSDGGI-----------------VYDY 233 d1tx2a_ 236 TVCLGIEKGCEFVRVHDV------------------------------------------ 253 :::::::::::::::::: d1pvna1 234 HMTLALAMGADFIMLGRYfarfeesptrkvtingsvmkeywgegssrarnwqrydlggkq 293 d1tx2a_ 254 -------------------kEMSRMAKMMDAMIG-------------------------- 268 :::::::::::::: d1pvna1 294 klsfeegvdsyvpyagklkdNVEASLNKVKSTMCncgaltipqlqskakitlvssvsive 353 d1tx2a_ 269 --------k 269 d1pvna1 354 ggahdvivk 362 FAST alignment (Normalized score: 6.72 Raw score:2097.00) d1tx2a_ 1 K----------------------------------------WDYDLRCGEYTLNLNEKT- 19 ::::: :::: d1pvna1 1 -AKYYNEPCHTFNEYLLIPGLSTVDCIPSNVNLSTPLVKFQKGQQS---EINL------K 50 d1tx2a_ 20 -LIMGILNVTPDSFSDGGSYNEVDA-----AVRHAKEMRDEGAHIIDIGGESFAKVSVEE 73 :::::: :::::::::::: :::::: d1pvna1 51 IPLVSAI------------------MQSVSGEKMAIALAREG-GISFIF----------- 80 d1tx2a_ 74 ---EIKRVVPMIQAVSKEVKLPISIDTY-----KAEVAKQAIEAGAHIINDIWGAKA--- 122 :::::::::::::: :::::::: :::::::::::::::::: d1pvna1 81 GSQSIESQAAMVHAVKN-FRYLVGAG--INTRDFRERVPALVEAGADVLCI------DSS 131 d1tx2a_ 123 ------EPKIAEVAAHY----DVPIILMHNRDNMNYRNLMAD----MIADLYDSIKIAKD 168 :::::::::: :::::: :::::::::: d1pvna1 132 DGFSEWQKITIGWIRE-KYGDKVKVGA---------------GNIVDGEGFRYLAD---- 171 d1tx2a_ 169 AGVRDEN---IILDPGIGFAK--------------------TPEQNLEAMRNLEQL-NVL 204 :::: ::::::::::::::: ::: d1pvna1 172 -------AGADFIK-------IGIGGGSICITREQKGIGRGQATAVIDVVAERNKYFEET 217 d1tx2a_ 205 --GYPVLLGTSRKSFIGHVLDLPVEERLEG-----TGATVCLGIEKGCEFVRVH------ 251 :::::: ::::::::::::::::::: d1pvna1 218 GIYIPVCS----------------------DGGIVYDYHMTLALAMGADFIMLGRYFARF 255 d1tx2a_ 252 ----------------------------------------------------------DV 253 :: d1pvna1 256 EESPTRKVTINGSVMKEYWGEGSSRARNWQRYDLGGKQKLSFEEGVDSYVPYAGKLKDNV 315 d1tx2a_ 254 KEMSRMAKMMDAMIGK-------------------------------- 269 ::::::::::::::: d1pvna1 316 EASLNKVKSTMCNCG-ALTIPQLQSKAKITLVSSVSIVEGGAHDVIVK 362 TMalign alignment (TM-score: 0.56 Raw score:151.11) d1tx2a_ 1 ------------------------------KWDYDLRCG-----EYTLNLNE-------- 17 ::::::::: ::::::: d1pvna1 1 AKYYNEPCHTFNEYLLIPGLSTVDCIPSNVNLSTPLVKFQKGQQ-SEINLKIPLVSAIMQ 59 d1tx2a_ 18 -------------KTLIMGILNVTPDSFSDGGSYNEVDAAVRHAKEMRDEGAHIIDIGGE 64 ::::::::::: :::::::::::::::::::::::: d1pvna1 60 SVSGEKMAIALAREGGISFIFGSQ-----------SIESQAAMVHAVKNFRYLVGAGIN- 107 d1tx2a_ 65 SFAKVSVEEEIKRVVPMIQAVSKEVKLPISIDT-YK-AEVAKQAI-EA---G---AHIIN 115 ::::::::::::::::::::::: :: :::::::: :: : ::::: d1pvna1 108 ----------TRDFRERVPALVEAGADVLCIDSSDGFSEWQKITIGWIREKYGDKVKVGA 157 d1tx2a_ 116 DIWGAKAEPKIAEVAAHYDVPIILMHNR------DN------MNYRNLMADMIADLYDSI 163 : : :::::::::::::::::::::::: :: :::::::::: d1pvna1 158 G-N-IVDGEGFRYLADAGADFIKIGIGGGSICITREQKGIGR--------GQATAVIDVV 207 d1tx2a_ 164 KIAKDAG--VRDENIILDPGIGFAKTPEQNLEAMRNLEQLNVLGYPVLLG--TSRKS--- 216 ::::::: ::::::::::::: : :::::::::::::::::: ::::: d1pvna1 208 AERNKYFEETGIYIPVCSDGGI-------V--YDYHMTLALAMGADFIMLGRYFARFEES 258 d1tx2a_ 217 ---FIG-H-VLDLPVE--------------------------------ERLEGTGATVCL 239 :: : ::::::: :::::::::::: d1pvna1 259 PTR-KVTINGSVMKEYWGEGSSRARNWQRYDLGGKQKLSFEEGVDSYVPYAGKLKDNVEA 317 d1tx2a_ 240 GIE-KG---------CE----------------------------FVRVHDVKEMSRMAK 261 ::: :: :: d1pvna1 318 SLNKVKSTMCNCGALTIPQLQSKAKITLVSSVSIVEGGAHDVIVK--------------- 362 d1tx2a_ 262 MMDAMIGK 269 d1pvna1 363 -------- 363 HHsearch alignment (Probability: 0.66 E-value:0.00) d1tx2a_ 38 YNEVDAAVRHAKEMRDEGAHIIDIGGESFAKVSVEEEIKRVVPMIQAVSKEV---KLPIS 94 ::::::::::::::::::::::::::::::::: :::::::::::: ::::: d1pvna1 105 GINTRDFRERVPALVEAGADVLCIDSSDGFSEW-------QKITIGWIREKYGDKVKVGA 157 d1tx2a_ 95 IDTYKAEVAKQAIEAGAHIINDIWGAKAEPKIAEVAAHYDVPIILMHNRDNMNYRNLMAD 154 ::::::::::::::::::::: :::::: ::: :::::::::::::::: :: d1pvna1 158 GNIVDGEGFRYLADAGADFIK-IGIGGG--SIC--------ITREQKGIGRGQATAV-ID 205 d1tx2a_ 155 MIADLYDSIKIAKDAGVRDENIILDPGIGFAKTPEQNLEA 194 ::::: :::::::::::: ::::::::::::::::::: d1pvna1 206 VVAER-NKYFEETGIYIP---VCSDGGIVYDYHMTLALAM 241