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 <-- 0.796 --> Hit

SVM
score
SVM
score

The query (T542_A.pdb A) is transitively linked to the hit (d1un7a2) 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 d1un7a2 N-​acetylglucosamine-​6-​phosphate deacetylase,​ NagA,​ catalytic domainMetallo-​dependent hydrolasesTIM 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 <-- 0.796 --> Hit
DALI alignment (Z-score: 8.4 Raw score:950.40) d1tx2a_ 1 kwdydlrcgeytlnlnektLIMGI-----LNVTpdsfsdggsyneVDAAVRHAKEMRDEG 55 ::::: :::: ::::::::::::::: d1un7a2 1 ----------------gmiDIHIHggygaDTMD-----------aSFSTLDIMSSRLPEE 33 d1tx2a_ 56 ---AHIIDIGGEsfakvsveeEIKRVVPMIQAVSKEV-----------KLPISIDT---- 97 ::::::::: :::::::::::::::: :::::::: d1un7a2 34 gttSFLATTITQ---------EHGNISQALVNAREWKaaeessllgaeLLGIHLEGpfvs 84 d1tx2a_ 98 --------------yKAEVAKQAIEAG--AHIINDIWgAKAE--PKIAEVAAHYDVPIIL 139 :::::::::::: :::::::: :::: :::::::::::::::: d1un7a2 85 pkragaqpkewirpsDVELFKKWQQEAggLIKIVTLA-PEEDqhFELIRHLKDESIIASM 143 d1tx2a_ 140 MHNRdnmnyrnlmadMIADLYDSIKIAkdagvrdenIILD-PGIGFAKTPEqnleamrnl 198 :::: :::::::::::: :::: :::::::::: d1un7a2 144 GHTD----------aDSALLSDAAKAG--------aSHMThLYNAMSPFHH---repgvi 182 d1tx2a_ 199 eqLNVLG-YPVLLgtsrksfighvldlpveerlegTGAT-vclgIEKG--------CEFV 248 ::::: ::::: :::: :::: :::: d1un7a2 183 gtALAHDgFVTEL--------------------iaDGIHshplaAKLAflakgsskLILI 222 d1tx2a_ 249 -RVHD--------------------------------vkEMSRMAKMMDAMIG------- 268 :::: :::::::::::::: d1un7a2 223 tDSMRakglkdgvyefggqsvtvrgrtallsdgtlagsiLKMNEGARHMREFTncswtdi 282 d1tx2a_ 269 ------------------k 269 d1un7a2 283 anitsenaakqlgifdrkg 301 FAST alignment (Normalized score: 4.33 Raw score:1231.00) d1tx2a_ 1 KWDYDLRCGEYTLNL--------------------------------------------- 15 d1un7a2 1 ---------------GMIDIHIHGGYGADTMDASFSTLDIMSSRLPEEGTTSFLATTITQ 45 d1tx2a_ 16 -------------------------NEKTLIMGILNVTPDSFSDGGSYNEVDA------- 43 :::::::::: d1un7a2 46 EHGNISQALVNAREWKAAEESSLLGAELLGIHLEG------------------PFVSPKR 87 d1tx2a_ 44 ------------AVRHAKEMRD---EGAHIIDIGGESFAKVSVEEEIKRV-----VPMIQ 83 :::::::::: :::::::::: ::::: d1un7a2 88 AGAQPKEWIRPSDVELFKKWQQEAGGLIKIVTLAP---------------EEDQHFELIR 132 d1tx2a_ 84 AVSKEVKLPIS-IDT-YKAEVAKQAIEAGAHIINDIWGAKAEP---------------KI 126 ::: ::::::: ::: ::::::::::::::::: :: d1un7a2 133 HLK-DESIIASMGHTDADSALLSDAAKAGASHM----------THLYNAMSPFHHREPGV 181 d1tx2a_ 127 AEVAAHY-DVPIILMHNRDNMNYRNL--MADMIAD-LYDSIKIAKDAGVRDENIILDPGI 182 ::::::: :::::: :::: :::::::::: :::::::::::: d1un7a2 182 IGTALAHDGFVTEL------------IADGIH---SHPLAAKLAFL-AKGSSKLILITD- 224 d1tx2a_ 183 GFAKTPEQNLEAMR--------------------------------------NLEQLNVL 204 ::::::: d1un7a2 225 --------------SMRAKGLKDGVYEFGGQSVTVRGRTALLSDGTLAGSILKMNEGAR- 269 d1tx2a_ 205 GYPVLLGTSRKSFIGHVLDLPVEERLEGTGATVCLGIEKGCEFVRVHDVKEMSRMAKMMD 264 d1un7a2 270 ------------------------------------------------------------ 270 d1tx2a_ 265 AMIGK-------------------------------- 269 d1un7a2 270 -----HMREFTNCSWTDIANITSENAAKQLGIFDRKG 301 TMalign alignment (TM-score: 0.52 Raw score:139.24) d1tx2a_ 1 KWDYDLRCGEYTLNLNEKTLIM-GIL----NVTPDSFSDGGSYNEVDAAVRHAKEMRDE- 54 ::::: ::: :::: ::::::::::::::: d1un7a2 1 -----------------GMIDIHIHGGYGADTMD----------ASFSTLDIMSSRLPEE 33 d1tx2a_ 55 -GAHIIDIGGESFAKVSVEEEIKRVVPMIQAVSK-E--V----KLPISIDTY-K------ 99 :::::::::: ::: ::::::::::::::: : : ::::::::: : d1un7a2 34 GTTSFLATTIT----QEH-GNISQALVNAREWKAAEESSLLGAELLGIHLEGPFVSPKRA 88 d1tx2a_ 100 ----------A-E-VAKQAIE-A-GAHIINDIWGAKAE--PKIAEVAAHYDVPIILMHNR 143 : : ::::::: : ::::::::: :::: ::::::::::::::::: :: d1un7a2 89 GAQPKEWIRPSDVELFKKWQQEAGGLIKIVTLA-PEEDQHFELIRHLKDESIIASMG-HT 146 d1tx2a_ 144 DNMNYRNLMADMIADLYDSIKIAKDAGVRDENIILDPGIGFA-KT--------------- 187 :: :: ::::::::: : ::::::::::: :: d1un7a2 147 DA-----------DS-ALLSDAAKA--G---ASHMTHLYNAMSPFHHREPGVIGTALAHD 189 d1tx2a_ 188 ---------PEQNL-EAMRNLEQLNVLGYPVLLGTSRK-------------------SFI 218 ::::: ::::::::::: ::::::::::: d1un7a2 190 GFVTELIADGIHSHPLAAKLAFLAKG-SSKLILITDSMRAKGLKDGVYEFGGQSVTV--- 245 d1tx2a_ 219 GHVLDLPVE---------ERLEGTGATVCLGI----EK--GC-EFVR------------- 249 ::::: :::: ::::::::: :: :: :::: d1un7a2 246 ----RGRTALLSDGTLAGSILK-MNEGARHMREFTNCSWTDIANITSENAAKQLGIFDRK 300 d1tx2a_ 250 VHDVKEMSRMAKMMDAMIGK 269 : d1un7a2 301 -------------------G 301 HHsearch alignment (Probability: 0.15 E-value:0.02) d1tx2a_ 79 VPMIQAVSKEVKLPISIDTY--KAEVAKQAIEAGAHII 114 :::::::::: ::::::::: :::::::::::::::: d1un7a2 128 FELIRHLKDE-SIIASMGHTDADSALLSDAAKAGASHM 164