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 <-- 1.279 --> Hit

SVM
score
SVM
score

The query (T542_A.pdb A) is transitively linked to the hit (d1edga_) 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 d1edga_ Endoglucanase CelA(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 <-- 1.279 --> Hit
DALI alignment (Z-score: 10.9 Raw score:1282.70) d1tx2a_ 1 ----------------KWDYDLrcgeytlNLNEKTLIMGILNVT---------------P 29 :::::: ::::::::::::::: : d1edga_ 1 mydaslipnlqipqknIPNNDG------mNFVKGLRLGWNLGNTfdafngtnitneldyE 54 d1tx2a_ 30 DSFsdggsyNEVDaaVRHAKEMRDEGAHIIDIGGEsfAKVS-------VEEEIKRVVPMI 82 ::: :::: :::::::::::::::::::: :::: :::::::::::: d1edga_ 55 TSW----sgIKTT--KQMIDAIKQKGFNTVRIPVS-wHPHVsgsdykiSDVWMNRVQEVV 107 d1tx2a_ 83 QAVSKeVKLPISIDT-------------------------yKAEVAKQAIEAG--aHIIN 115 ::::: ::::::::: :::::::::::: :::: d1edga_ 108 NYCID-NKMYVILNThhdvdkvkgyfpssqymasskkyitsVWAQIAARFANYdehLIFE 166 d1tx2a_ 116 DIW-------------------------gAKAE-PKIAEVAAH-----YDVPIILMHNRd 144 ::: :::: ::::::::: ::::::::::: d1edga_ 167 GMNeprlvghanewwpeltnsdvvdsincINQLnQDFVNTVRAtggknASRYLMCPGYV- 225 d1tx2a_ 145 nmnyrnlmADMIAdlYDSIkiaKDAGvRDENIILDPGIGfaKTPE--------------- 189 ::::: :::: :::: :::::::::::: :::: d1edga_ 226 -----aspDGATNdyFRMP---NDISgNNNKIIVSVHAY--CPWNfaglamadggtnawn 275 d1tx2a_ 190 -----qnLEAMRNLEQLNVLG----YPVLL-GTSRKsfighvLDLPVEERLEGTGATVCL 239 :::::::::::::: ::::: ::::: :::::::::::::::::: d1edga_ 276 indskdqSEVTWFMDNIYNKYtsrgIPVIIgECGAV------DKNNLKTRVEYMSYYVAQ 329 d1tx2a_ 240 GIEKGCeFVRVH--------------------------dVKEMSRMAkmMDAMigk 269 :::::: ::::: :::::::: :::: d1edga_ 330 AKARGI-LCILWdnnnfsgtgelfgffdrrscqfkfpeiIDGMVKYA--FGLI--n 380 FAST alignment (Normalized score: 6.10 Raw score:1951.00) d1tx2a_ 1 ----------------KWDYDLRCGEYTLNLNEKT---------LIMGILNVTPDSFSDG 35 :::: :::::: d1edga_ 1 MYDASLIPNLQIPQKNIPNN---------------DGMNFVKGLRLGWNL---------- 35 d1tx2a_ 36 G--------------SYNEVDA---------AVRHAKEMRDEGAHIIDIGGESFAKVS-- 70 :::: ::::::::::::::::::: d1edga_ 36 -GNTFDAFNGTNITNELDY---ETSWSGIKTTKQMIDAIKQKGFNTVRIP--------VS 83 d1tx2a_ 71 ------------VEEEIKRVVPMIQAVSKEVKLPISIDTY-------------------- 98 :::::::::::::::: :::::::: d1edga_ 84 WHPHVSGSDYKISDVWMNRVQEVVNYCI-DNKMYVIL---NTHHDVDKVKGYFPSSQYMA 139 d1tx2a_ 99 -----KAEVAKQAIEAGA--------HIINDIWGAKA----------------------- 122 :::::::::: :::: d1edga_ 140 SSKKYITSVWAQIAA---RFANYDEHLIFE-------GMNEPRLVGHANEWWPELTNSDV 189 d1tx2a_ 123 ----------EPKIAEVAAH-----YDVPIILMHNRDNMNYRNLMADMIADLYDSIKIAK 167 :::::::::: :::::::: d1edga_ 190 VDSINCINQLNQDFVNTVRATGGKNASRYLMCP--------------------------- 222 d1tx2a_ 168 D--------------------AGVRDENIILDPGIGFAKT-------------------- 187 :::: :::::::: d1edga_ 223 -GYVASPDGATNDYFRMPNDISGNN-NKIIVSVH------AYCPWNFAGLAMADGGTNAW 274 d1tx2a_ 188 -------PEQNLEAMRNLE-QLNVLGYPVLLGTSRKSFIGHVLDLPV-----------EE 228 :::::::::::: ::::::::::: :: d1edga_ 275 NINDSKDQSEVTWFMDNIYNKYTSRGIPVII----------------GECGAVDKNNLKT 318 d1tx2a_ 229 RLEGTGATVCLGIEKGCEFVRVHD------------------------VKEMSRMAKMMD 264 :::::::::::::::: ::::: :::::::::: d1edga_ 319 RVEYMSYYVAQAKARG-ILCIL--WDNNNFSGTGELFGFFDRRSCQFKFPEIIDGMVK-- 373 d1tx2a_ 265 AMIGK------- 269 d1edga_ 374 -----YAFGLIN 380 TMalign alignment (TM-score: 0.65 Raw score:175.62) d1tx2a_ 1 -----------------KWDYDLRCGEYTLNLNEKTLIMGILN-VT-P----DSFSDGGS 37 :::::: ::::::::::::: :: : :::::::: d1edga_ 1 MYDASLIPNLQIPQKNIPNNDGM-------NFVKGLRLGWNLGNTFDAFNGTNITNELDY 53 d1tx2a_ 38 YNE-V-DAAVR-HAKEMRDEGAHIIDIGGESFAKVSVE---EEIK-RVVPMIQAVSKEV- 89 ::: : ::::: ::::::::::::::::::: ::::: :::: ::::::::::::: d1edga_ 54 ETSWSGIKTTKQMIDAIKQKGFNTVRIPVSW--HPHVSGSDYKISDVWMNRVQEVVNYCI 111 d1tx2a_ 90 K--LPISIDTY----------------------KAEVAKQAIEAG--A---HIIND-I-W 118 : :::::::: :::::::::::: : ::::: : : d1edga_ 112 DNKMYVILNTHHDVDKVKGYFPSSQYMASSKKYITSVWAQIAARFANYDEHLIFEGMNEP 171 d1tx2a_ 119 ------------------------GAKAEPKIAEVAAH----YD-VPIILMHNRDNMNYR 149 :::::::::::::: :: :::::::::: : d1edga_ 172 RLVGHANEWWPELTNSDVVDSINCINQLNQDFVNTVRATGGKNASRYLMCPGYVA-S--- 227 d1tx2a_ 150 NLMADMIADLYDSIKIAKDAGVRDENIILDPGIGFAKTP--------------------E 189 ::::::::: : : ::: :::::::::::::::: ::: : d1edga_ 228 -PDGATNDYF-R-M-PND-ISGNNNKIIVSVHAYC-PWNFAGLAMADGGTNAWNINDSKD 281 d1tx2a_ 190 -QNL-EAMRNLEQ-LNVLGYPVLLGTSRKSFIGHVLDLPVEE-RLE-GTGATVCLGIEKG 244 ::: :::::::: :::::::::::::: :: ::::: ::: ::::::::::::: d1edga_ 282 QSEVTWFMDNIYNKYTSRGIPVIIGECG---AV----DKNNLKTRVEYMSYYVAQAKARG 334 d1tx2a_ 245 CEFVRV-H------------DV---------K-EMSRMAKMMDA-MIG-K 269 : :::: : :: : ::::::::::: : d1edga_ 335 I-LCILWDNNNFSGTGELFGFFDRRSCQFKFPEIIDGMVKYAFGL--IN- 380 HHsearch alignment (Probability: 0.70 E-value:0.07) d1tx2a_ 33 SDGGSYNEVDAAVRHAKEMRDEGAHIIDIGGE-----SFAKVSVEEE-IKRVVPMIQAVS 86 :::::::::::::::::::::::::::::::: :::::::::: :::::::::::: d1edga_ 52 DYETSWSGIKTTKQMIDAIKQKGFNTVRIPVSWHPHVSGSDYKISDVWMNRVQEVVNYCI 111 d1tx2a_ 87 KEVKLPISIDTYKAEV 102 :: ::::::::::::: d1edga_ 112 DN-KMYVILNTHHDVD 126