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 <-- 1.311 --> Hit

SVM
score
SVM
score

The query (T542_A.pdb A) is transitively linked to the hit (d1piia2) 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 d1piia2 N-​(5'​phosphoribosyl)antranilate isomerase,​ PRAIRibulose-​phoshate binding barrelTIM 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 <-- 1.311 --> Hit
DALI alignment (Z-score: 11.7 Raw score:1108.60) d1tx2a_ 1 kwdydlrcgeytlnlnekTLIMGILNVtpdsfsdggsynevdaAVRHAKEMRDEGAHIID 60 ::::::::: ::::::::::::::::: d1piia2 1 ------------------GENKVCGLT----------------RGQDAKAAYDAGAIYGG 26 d1tx2a_ 61 IGGESFakvsveeeikRVVPMIQAVSKEVKLPISIDTY--KAEVAKQAIE-AGAHIINDI 117 :::::: :::::::::::::::::::::: :::::::::: ::::::::: d1piia2 27 LIFVAT------sprcVNVEQAQEVMAAAPLQYVGVFRnhDIADVVDKAKvLSLAAVQLH 80 d1tx2a_ 118 WgaKAEP-KIAEVAAHY--DVPIILMHNrdnmnyrnlMADMIAdlydSIKIAkdagvrde 174 : :::: ::::::::: ::::::::: :::::: ::::: d1piia2 81 G--NEEQlYIDTLREALpaHVAIWKALS--------vGETLPA----REFQH-------- 118 d1tx2a_ 175 NIILDPGIGFaktpeqNLEAmRNLEQLNvlgYPVLLGTSRksfighvldlpveerlegTG 234 :::::::::: :::: ::::::: ::::::::: :: d1piia2 119 VDKYVLDNGQ-ggsgqRFDW-SLLNGQS--lGNVLLAGGL------------------GA 156 d1tx2a_ 235 ATVCLGIEKGCEFVRVH-------------DVKEMSRMAKMMdamigk 269 ::::::::::::::::: :::::::::::: d1piia2 157 DNCVEAAQTGCAGLDFNsavesqpgikdarLLASVFQTLRAY------ 198 FAST alignment (Normalized score: 7.61 Raw score:1757.00) d1tx2a_ 1 KWDYDLRCGEYTLNLNEKTLIMGILNVTPDSFSDGGSYNEVDA----AVRHAKEMRDEGA 56 ::::: ::::::::::::: d1piia2 1 ------------------GENKV--------------------CGLTRGQDAKAAYDAGA 22 d1tx2a_ 57 HIIDIGGESFAKVSVEEEIKR---------VVPMIQAVSKEVKLPISIDT--YKAEVAKQ 105 :::::: :::::::::::::::::::: :::::::: d1piia2 23 IYGGLI---------------FVATSPRCVNVEQAQEVMAAAPLQYVGVFRNHDIADVVD 67 d1tx2a_ 106 AIE-AGAHIINDIWGAKA---EPKI-AEVAAHY---DVPIILMHNRDNMNYRNLMADMIA 157 ::: ::::::::: :::: :::::: ::::::: d1piia2 68 KAKVLSLAAVQLH-----GNEEQLYIDTLREA-LPAHVAIWKA----------------- 104 d1tx2a_ 158 DLYDSIKIAKDAGVRDEN---------------IILDPGIGFAKTPEQNLE--------- 193 ::::: d1piia2 105 ------------------LSVGETLPAREFQHVDKYVL-------------DNGQGGSGQ 133 d1tx2a_ 194 --AMRNLEQLNVLGY----PVLLGTSRKSFIGHVLDLPVEERLEG---TGATVCLGIEKG 244 ::::::: ::::: :::::::::::: d1piia2 134 RFDWSLLNG------QSLGNVLLA---------------------GGLGADNCVEAAQTG 166 d1tx2a_ 245 CEFVRVH--------------DVKEMSRMAKMMDAMIGK-- 269 :::::: :::::::::: d1piia2 167 CAGLDF-NSAVESQPGIKDARLLASVFQTLR--------AY 198 TMalign alignment (TM-score: 0.55 Raw score:148.64) d1tx2a_ 1 KWDYDLRCGEYTLNLNEKTLIMGILNVTPDSFSDGGSYNEVDAAVRHAKEMRDEGAHIID 60 ::::::::: ::::::::::::::::: d1piia2 1 ------------------GENKVCGLT----------------RGQDAKAAYDAGAIYGG 26 d1tx2a_ 61 IGG-E-SFAKVSVEEEIKRVVPMIQAVSKEVKLPISIDTY-K-AEVAKQAIE-AGAHIIN 115 ::: : ::: : :::::::::::::::::::::: : ::::::::: ::::::: d1piia2 27 LIFVATSPR------C--VNVEQAQEVMAAAPLQYVGVFRNHDIADVVDKAKVLSLAAVQ 78 d1tx2a_ 116 DIWGAKAEPKIAEVAA-HYD-VPIILMHNRDNMNYRNLMADMIADLYDSIKIAKDAGVRD 173 :::::: ::::::::: ::: ::::::::: : ::: :: :: : : : d1piia2 79 LHGNEE-QLYIDTLREALPAHVAIWKALSV--G---ETL--PA--RE--F---Q---H-- 118 d1tx2a_ 174 ENIILDPGIGFAK-TPEQNLEAMRNLEQLNVLGYPVLLGTSRKSFIGHVLDLPVEERLEG 232 :::::::::::: :: :: ::::::::: :::::::::: ::: d1piia2 119 -VDKYVLDNGQGGS-GQ-RF-DWSLLNGQS--LGNVLLAGGL--------------GAD- 157 d1tx2a_ 233 TGATVCLGIEKGCEFVRVH--D-----------VKEMSRMAKMMDAMIGK 269 : ::::::::::::::: : :::::::::: : d1piia2 158 --N-CVEAAQTGCAGLDFNSAVESQPGIKDARLLASVFQTLRA---Y--- 198 HHsearch alignment (Probability: 0.86 E-value:0.00) d1tx2a_ 46 RHAKEMRDEGAHIIDIG--GESFAKVSVEEEIKRVVPMIQAVSKEVKLPISIDTYKAEVA 103 ::::::::::::::::: ::::::::::: :::::::::: ::::::::::::::: d1piia2 12 QDAKAAYDAGAIYGGLIFVATSPRCVNVEQ----AQEVMAAAPL-QYVGVFRNHDIADVV 66 d1tx2a_ 104 KQAIEAGAHIINDIWGAKAEPKIAEVAAHY-DVPIILMHNRDNMNYRNLMADMIADLYDS 162 :::::::::::: ::: ::::::::::::: :::::::::::: : ::: :: d1piia2 67 DKAKVLSLAAVQ-LHG-NEEQLYIDTLREALPAHVAIWKALSV-G-----ETL---PA-- 113 d1tx2a_ 163 IKIAKDAGVRDENIILDPGIGFAKTPEQNLEAMRNLEQLNVLGYPVLLG 211 :::: :::::::::::: :::::::::::::::: :::::: d1piia2 114 ---REFQ--HVDKYVLDNGQG-GSGQRFDWSLLNGQSL-----GNVLLA 151