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 <-- 0.629 --> Hit

SVM
score
SVM
score

The query (T542_A.pdb A) is transitively linked to the hit (d1aq0a_) 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 d1aq0a_ Plant beta-​glucanases(Trans)glycosidasesTIM 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 <-- 0.629 --> Hit
DALI alignment (Z-score: 8.1 Raw score:957.30) d1tx2a_ 1 kwdydlrcgeytlnlnektlIMGILNVTPDSfsdggsynevDAAVRHAKEMRDEGAHIID 60 ::::::::::: ::::::::::::::::::: d1aq0a_ 1 --------------------IGVCYGMSANN---------lPAASTVVSMFKSNGIKSMR 31 d1tx2a_ 61 IGGesfakvsveeeikrVVPMIQAVSKeVKLPISIDTY-------------kaEVAKQAI 107 ::: :::::::::: :::::::::: ::::::: d1aq0a_ 32 LYA-------------pNQAALQAVGG-TGINVVVGAPndvlsnlaaspaaaaSWVKSNI 77 d1tx2a_ 108 EAG----AHIINDIW--------gAKAE-PKIAEVAA---HYDVPIILMHNrdnmnyrnL 151 ::: :::::::: :::: :::::::: ::::::::::: : d1aq0a_ 78 QAYpkvsFRYVCVGNevaggatrnLVPAmKNVHGALVaagLGHIKVTTSVS------qaI 131 d1tx2a_ 152 MAD------------miaDLYDSIKIAKdagvRDENiILDPGIGF-aKTPE--------- 189 ::: :::::::::: :::: :::::::: :::: d1aq0a_ 132 LGVfsppsagsftgeaaaFMGPVVQFLA----RTNA-PLMANIYPylAWAYnpsamdmgy 186 d1tx2a_ 190 ----------------qnLEAMRNLEQLNV-------LGYPVLL-GTSRKsfiGHVLDLP 225 :::::::::::: ::::::: ::::: ::::::: d1aq0a_ 187 alfnasgtvvrdgaygyqNLFDTTVDAFYTamgkhggSSVKLVVsESGWP--sGGGTAAT 244 d1tx2a_ 226 VEERLEGTGATVCLGIEK-----GCEFVRVH-------------------------dvKE 255 :::::::::::::::::: :::::::: :: d1aq0a_ 245 PANARFYNQHLINHVGRGtprhpGAIETYIFamfnenqkdsgveqnwglfypnmqhvyPI 304 d1tx2a_ 256 MSrmakmmdamigk 269 :: d1aq0a_ 305 NF------------ 306 FAST alignment (Normalized score: 3.92 Raw score:1124.00) d1tx2a_ 1 KWDYDLRCGEYTLNLNE------------------------------------------- 17 d1aq0a_ 1 -----------------IGVCYGMSANNLPAASTVVSMFKSNGIKSMRLYAPNQAALQAV 43 d1tx2a_ 18 ---KTLIMGILNVTPDSFSDGGSYN---------EVDAAVRHAKEMRD----EGAHIIDI 61 ::::::::: :::::::::::::: ::::::: d1aq0a_ 44 GGTGINVVVGAP-------------NDVLSNLAASPAAAASWVKSNIQAYPKVSFRYVC- 89 d1tx2a_ 62 GGESFAKVS-----VEEEIKRVVPMIQAVSKE------VKLPISIDTYKAEVAKQAIEAG 110 :::::::::::::::::: ::::::: d1aq0a_ 90 ---------VGNEVAGGATRNLVPAMKNVHGALVAAGLGHIKVTT--------------- 125 d1tx2a_ 111 AHIINDIWGAKAE--------------------------PKIAEVAAHYDVPIILMHNRD 144 ::::::::::::::::::: d1aq0a_ 126 -------------SVSQAILGVFSPPSAGSFTGEAAAFMGPVVQFLARTNAPLMANIY-- 170 d1tx2a_ 145 NMNYRNLM----------------------------------ADMIADLYDSIKIAKDAG 170 :::::::::::::::::: d1aq0a_ 171 --------PYLAWAYNPSAMDMGYALFNASGTVVRDGAYGYQNLFDTTVDAFYTAMGKHG 222 d1tx2a_ 171 VRDENIILDPGIGFAK-----------------TPEQNLEAMRNLEQLNV-----LGYPV 208 ::: ::::: ::::::::::::: ::::: d1aq0a_ 223 -GSS-VKLVV------SESGWPSGGGTAATPANARFYNQHLINHVG----RGTPRHPGAI 270 d1tx2a_ 209 LLGTSRKSFIGHVLDLPVEERLEGTGATVCLGIEKGCEFVRVHDVKEMSRMAKMMDAMIG 268 :::: d1aq0a_ 271 ETYI-------------------------------------------------------- 274 d1tx2a_ 269 K-------------------------------- 269 d1aq0a_ 275 -FAMFNENQKDSGVEQNWGLFYPNMQHVYPINF 306 TMalign alignment (TM-score: 0.51 Raw score:136.78) d1tx2a_ 1 --------------------------KWDYDLRCGEYTLNLNEKTL-------------- 20 ::: d1aq0a_ 1 IGVCYGMSANNLPAASTVVSMFKSNG-----------------IKSMRLYAPNQAALQAV 43 d1tx2a_ 21 -----IMGILNV-TPDSFSDGGSYNEVDAAVRHAKEMRDEGAHIIDIGGESFAKVSVEEE 74 ::::::: ::::::::::::::::::::::::::::: ::::::::::::::::: d1aq0a_ 44 GGTGINVVVGAPNDVLSNLAASPAAAASWVKSNIQAYPKVSF-RYVCVGNEVAGGATRNL 102 d1tx2a_ 75 IKRVVPMIQAVSKE-VKLPISIDTY-----------------------KAEVAKQAIEAG 110 :::::::::::::: :::::::::: :::::::::: d1aq0a_ 103 VPAMKNVHGALVAAGLGHIKVTTSVSQAILGVFSPPSAGSFTGEAAAFMGPVVQFLAR-- 160 d1tx2a_ 111 AHIINDIWGAKAEPKIAEVAAHYDVPIILMHN-RDNM--N---YRN--LMAD-------- 154 :::::::: ::: :::: : ::: :::: d1aq0a_ 161 TNAPLMAN---------------------IYPYLAWAYNPSAMDMGYALFNASGTVVRDG 199 d1tx2a_ 155 ---MIADLYD-SIKIAKD-A---GVRDENIILDPGIGFAKTP------E--QNLEAMRN- 197 ::::::: ::::::: : ::: ::::::::: ::: : :::::::: d1aq0a_ 200 AYGYQNLFDTTVDAFYTAMGKHGGSS--VKLVVSESG--WPSGGGTAATPANARFYNQHL 255 d1tx2a_ 198 LEQLNVL----GYPVLLGT-SRKS----------FIGHVLDLPVEERLEGT-GATVCLGI 241 ::::::: :::::::: :::: :::::::: ::: :: ::: d1aq0a_ 256 INHVGRGTPRHPGAIETYIFAMFNENQKDSGVEQNWGLFYPN------MQHV-YP-INF- 306 d1tx2a_ 242 EKGCEFVRVHDVKEMSRMAKMMDAMIGK 269 d1aq0a_ 307 ---------------------------- 307 HHsearch alignment (Probability: 0.22 E-value:0.46) d1tx2a_ 19 TLIMGILNVTPDSFSDGGSYNEVDAAVRHAKEMRDEGA----HIIDIGGESF 66 :::::::::::::::: ::::::::::::::::: :::::::::: d1aq0a_ 49 NVVVGAPNDVLSNLAA-----SPAAAASWVKSNIQAYPKVSFRYVCVGNEVA 95