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 <-- 1.229 --> Hit

SVM
score
SVM
score

The query (T542_A.pdb A) is transitively linked to the hit (d1ceoa_) 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 d1ceoa_ Endoglucanase CelC(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 <-- 1.229 --> Hit
DALI alignment (Z-score: 10.4 Raw score:1192.10) d1tx2a_ 1 kwdydlrcgeyTLNLnektLIMGILNVT---PDSFSdggSYNEVDAAVR-HAKEMRDEGA 56 :::: ::::::::: ::::: :::::::::: :::::::::: d1ceoa_ 1 -----------MVSF----KAGINLGGWisqYQVFS---KEHFDTFITEkDIETIAEAGF 42 d1tx2a_ 57 HIIDIGGEsfakvsvEEEIK----------rvVPMIQAVSKEVK---LPISIDT------ 97 :::::::: ::::: :::::::::::: ::::::: d1ceoa_ 43 DHVRLPFD-------YPIIEsddnvgeykedgLSYIDRCLEWCKkynLGLVLDMhhapgs 95 d1tx2a_ 98 ----------yKAEVAKQAIEAG-----aHIINDIW--------gaKAEP-KIAEVAA-- 131 :::::::::::: ::::::: :::: ::::::: d1ceoa_ 96 tlfedpnqqkrFVDIWRFLAKRYinerehIAFELLNqvvepdstrwNKLMlECIKAIRei 155 d1tx2a_ 132 HYDVPIILMHNRdnmnyrnlmadmiaDLYDSiKIAKdagvrDENIILDPGIG-------- 183 :::::::::::: ::::: :::: ::::::::::: d1ceoa_ 156 DSTMWLYIGGNN---------ynspdELKNL-ADID-----DDYIVYNFHFYnpfffthq 200 d1tx2a_ 184 ------------------------------------------faktpEQNLEAMRNLEQL 201 ::::::::::::: d1ceoa_ 201 kahwsesamaynrtvkypgqyegieefvknnpkysfmmelnnlklnkELLRKDLKPAIEF 260 d1tx2a_ 202 NV-LGYPVLL-GTSRksfighvlDLPVEERLEGTGATVCLGIEKGCeFVRVH-------- 251 :: ::::::: :::: ::::::::::::::::::::::: ::::: d1ceoa_ 261 REkKKCKLYCgEFGV------iaIADLESRIKWHEDYISLLEEYDI-GGAVWnykkmdfe 313 d1tx2a_ 252 ------------dVKEMSRmakmmdamigk 269 :::::: d1ceoa_ 314 iynedrkpvsqelVNILAR----------- 332 FAST alignment (Normalized score: 5.16 Raw score:1542.00) d1tx2a_ 1 KWDYDLRCGEYTLNLNEK------------------------------------------ 18 d1ceoa_ 1 ------------------MVSFKAGINLGGWISQYQVFSKEHFDTFITEKDIETIAEAGF 42 d1tx2a_ 19 TLIMGILNV---TPDSFS-DGGSYNEVDAAVRHAKEMRDEGA-HIIDIGGESFAKVS--- 70 :::::::: :::::: ::::::::::::::::::::::: ::::: d1ceoa_ 43 DHVRLPFD-YPIIESDDNVGEYKEDGLSYIDRCLEWCKKYNLGLVLDM---------HHA 92 d1tx2a_ 71 -------VEEEIKRVVPMIQAVSKEVK-------LPISIDTY------------KAEVAK 104 :::::::::::::::::: :::: :::::: d1ceoa_ 93 PGSTLFEDPNQQKRFVDIWRFLAKR--YINEREHIAFE----LLNQVVEPDSTRWNKLML 146 d1tx2a_ 105 QAIEAGA--------HIINDIWGAKAEPKIAEVA----------------AHYD-VPIIL 139 :::: ::::: :::: ::::: d1ceoa_ 147 ECIK---AIREIDSTMWLYI--------------GGNNYNSPDELKNLADIDDDYIVYNF 189 d1tx2a_ 140 MHNRDNMNYR-------------------------------------------------- 149 ::: d1ceoa_ 190 HFY-------NPFFFTHQKAHWSESAMAYNRTVKYPGQYEGIEEFVKNNPKYSFMMELNN 242 d1tx2a_ 150 --NLMADMIADLYDSIKIAKDAGVRDE-NIILDPGIGF-------AKTPEQNLEAMRN-L 198 ::::::::::::::::::::: :::: ::::::::::::: : d1ceoa_ 243 LKLNKELLRKDLKPAIEFREKKK----CKLYC------GEFGVIAIADLESRIKWHEDYI 292 d1tx2a_ 199 EQLNVLGYPVLLGTSRKSFIGHVLDLPVEERLEG---------------TGATVCLGIEK 243 ::::::::::::::: ::::::::: d1ceoa_ 293 SLLEEYDIGGAVWNY-------------------KKMDFEIYNEDRKPVSQELVNILA-- 331 d1tx2a_ 244 GCEFVRVHDVKEMSRMAKMMDAMIGK- 269 d1ceoa_ 332 --------------------------R 332 TMalign alignment (TM-score: 0.53 Raw score:143.65) d1tx2a_ 1 KWDYDLRCGEYTLNLNEKTLIMGILNVT---PD--SFSDGGSYNEV-DAAVRHAKEMRDE 54 ::: :::::::::: :: ::::::: ::: ::::::::: : d1ceoa_ 1 ----------MVS-----FKAGINLGGWISQYQVFSKEHFDT-FITEKDIETIAEA--G- 41 d1tx2a_ 55 GAHIIDIGGESFAKVS---------VEEEIKRVVPMIQAVSKEVKLPISIDTYK------ 99 :::::::::: ::: ::::::::::::::::: ::::::::::: d1ceoa_ 42 -FDHVRLPFDY--PIIESDDNVGEYKEDGLSYIDRCLEWCKK-YNLGLVLDMHHAPGSTL 97 d1tx2a_ 100 -----AEVAKQAIEAGAHIINDIWGAKAEPKIAEVAAH-YD-V---PIILMHNRDNMNYR 149 ::::::::::::::: :: : :::::::: :: : d1ceoa_ 98 FEDPN------------------QQKRFVDIWRFLAKRYINEREHIAFELLNQV-VE-P- 136 d1tx2a_ 150 NLMADMIADLYDSIKIAKDAGVRDENIILDPGIGFAKTPEQNLEAMRNLEQLNVLGY--P 207 ::::::::::::::::: :::: ::::::::::: : ::::::::::::: : d1ceoa_ 137 -DSTRWNKLMLECIKAIR-EIDS-TMWLYIGGNNY------N--SPDELKNLADIDDDYI 185 d1tx2a_ 208 VLLGTSRKSFIGHVLDLPV-----------EERL-------------------------- 230 ::::::: :::::::::: :::: d1ceoa_ 186 VYNFHFY--NPFFFTHQKAHWSESAMAYNRTVKYPGQYEGIEEFVKNNPKYSFMMELNNL 243 d1tx2a_ 231 ---E-GTGATVCLGIEKG-----CEFVRVHD------------VKE-MSRMAKMMDA--- 265 : ::::::::::::: :::::::: ::: :::::::::: d1ceoa_ 244 KLNKELLRKDLKPAIEFREKKKCKLYCGEFGVIAIADLESRIKWHEDYISLLEEYDIGGA 303 d1tx2a_ 266 -----------------------------MIGK 269 d1ceoa_ 304 VWNYKKMDFEIYNEDRKPVSQELVNILAR---- 332 HHsearch alignment (Probability: 0.18 E-value:0.02) d1tx2a_ 46 RHAKEMRDEGAHIIDIGG-----ESFA--KVSVEEEIKRVVPMIQAVSKEVKLPISIDTY 98 :::::::::::::::::: :::: ::::::::::::::::::::: ::::::::: d1ceoa_ 32 KDIETIAEAGFDHVRLPFDYPIIESDDNVGEYKEDGLSYIDRCLEWCKKY-NLGLVLDMH 90 d1tx2a_ 99 KAEV 102 :::: d1ceoa_ 91 HAPG 94