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
| SCOP Id | Protein | SCOP Superfamily | SCOP Fold | SCOP Class |
|
|---|---|---|---|---|---|
| Intermediate | d1tx2a_ | Dihydropteroate synthetase | Dihydropteroate synthetase-like | TIM beta/alpha-barrel | α/β |
| Hit | d1v3ha_ | beta-Amylase | (Trans)glycosidases | TIM beta/alpha-barrel | α/β |
Query <-- 0.687 --> IntermediateDALI 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 <-- 1.008 --> HitDALI alignment (Z-score: 11.8 Raw score:1428.70) d1tx2a_ 1 kwdydlrcgeytlnlNEKTLIMGILNV-TPDSfSDGGSynEVDAAVRHAKEMRDEGAHII 59 :::::::::::: :::: ::::: :::::::::::::::::::: d1v3ha_ 1 -----------snmlLNYVPVYVMLPLgVVNV-DNVFE--DPDGLKEQLLQLRAAGVDGV 46 d1tx2a_ 60 DIGGEsfAKVS-----VEEEiKRVVPMIQAVSkEVKLPISIDT----------------- 97 ::::: :::: :::: ::::::::::: :::::::::: d1v3ha_ 47 MVDVW-wGIIElkgpkQYDW-RAYRSLLQLVQ-ECGLTLQAIMsfhqcggnvgdivnipi 103 d1tx2a_ 98 -------------------------------------------------yKAEVAKQAIE 108 :::::::::: d1v3ha_ 104 pqwvldigesnhdifytnrsgtrnkeyltvgvdnepifhgrtaieiysdyMKSFRENMSD 163 d1tx2a_ 109 A----GAHIINDIW---------------------------------------------- 118 : ::::::::: d1v3ha_ 164 FlesgLIIDIEVGLgpagqlrypsypqsqgwefpgigefqcydkylkadfkaavaraghp 223 d1tx2a_ 119 ---------------------------------------------gAKAE-PKIAEVAAH 132 :::: ::::::::: d1v3ha_ 224 ewelpddagkyndvpestgffksngtyvtekgkffltwysnkllnhGDQIlDEANKAFLG 283 d1tx2a_ 133 YDVPIILMHN---------------rDNMNYRNlmADMIADLYDSIKIAkdagvrdenII 177 :::::::::: ::::::: :::::::::::::: :: d1v3ha_ 284 CKVKLAIKVSgihwwykvenhaaeltAGYYNLNdrDGYRPIARMLSRHH---------AI 334 d1tx2a_ 178 LDPGI-------gfaktpEQNLEAMRN-LEQLNVLGYPVLLGTSRKsfighvldlpveeR 229 ::::: ::::::::: :::::::::::::::::: : d1v3ha_ 335 LNFTClemrdseqpsdakSGPQELVQQvLSGGWREDIRVAGENALP------------rY 382 d1tx2a_ 230 LEGTGATVCLGIEK-----------GCEFVRVH-------------dVKEMSRMAKMMD- 264 :::::::::::::: :::::::: :::::::::::: d1v3ha_ 383 DATAYNQIILNARPqgvnnngppklSMFGVTYLrlsddllqksnfniFKKFVLKMHADQd 442 d1tx2a_ 265 --------------------------------------------amigk 269 d1v3ha_ 443 ycanpqkynhaitplkpsapkipievlleatkptlpfpwlpetdmkvdg 491 FAST alignment (Normalized score: 6.11 Raw score:2222.00) d1tx2a_ 1 KWDYDLRCGEYTLNLN-----EKTLIMGILNV--TPDSFSDGGSYN-EVDAAVRHAKEMR 52 :::::::::: :::: :::: ::::::::::::: d1v3ha_ 1 ----------------SNMLLNYVPVYVMLP-LGVVNV-DNVF---EDPDGLKEQLLQLR 39 d1tx2a_ 53 DEGAHIIDIGGESFAKVSVEE--------------EIKRVVPMIQAVSKEVKLPISIDTY 98 :::::::::: ::::::::::::: :::::::: d1v3ha_ 40 AAGVDGVMVD-----------VWWGIIELKGPKQYDWRAYRSLLQLVQ-ECGLTLQA--- 84 d1tx2a_ 99 ------------------------------------------------------------ 99 d1v3ha_ 85 IMSFHQCGGNVGDIVNIPIPQWVLDIGESNHDIFYTNRSGTRNKEYLTVGVDNEPIFHGR 144 d1tx2a_ 99 -----KAEVAKQAIEA---------GAHIINDIWGAKA---------------------- 122 :::::::::: ::::::: d1v3ha_ 145 TAIEIYSDYMKSFRE-NMSDFLESGLIIDIEV------GLGPAGQLRYPSYPQSQGWEFP 197 d1tx2a_ 123 ------------------------------------------------------------ 123 d1v3ha_ 198 GIGEFQCYDKYLKADFKAAVARAGHPEWELPDDAGKYNDVPESTGFFKSNGTYVTEKGKF 257 d1tx2a_ 123 ----------------EPKIAEVAAHYDVPIILMHNR------------------DNMNY 148 :::::::::::::::::: ::::: d1v3ha_ 258 FLTWYSNKLLNHGDQILDEANKAFLGCKVKLAIK---VSGIHWWYKVENHAAELTAGYYN 314 d1tx2a_ 149 RNLM----ADMIADLYDSIKIAKDAGVRDE-NIILDPGIGFAK----------------- 186 :::::::::::: :::::: d1v3ha_ 315 ----LNDRDGYRPIARMLSR----------HHAILNF------TCLEMRDSEQPSDAKSG 354 d1tx2a_ 187 TPEQNLEAMRNLEQLNVLGYPVLLGTSRKSFIGHVLDLPVEER-------LEGTGATVCL 239 :::::::: ::::::::::::: :::::::::: d1v3ha_ 355 PQELVQQV---LSGGWREDIRVAG-------------------ENALPRYDATAYNQIIL 392 d1tx2a_ 240 GIE------------KGCEFVRVH---------------DVKEMSRMAKMMDAMIGK--- 269 :: ::::::: ::::::::: d1v3ha_ 393 NA-RPQGVNNNGPPKLSMFGVT--YLRLSDDLLQKSNFNIFKKFVLKM---------HAD 440 d1tx2a_ 270 --------------------------------------------------- 270 d1v3ha_ 441 QDYCANPQKYNHAITPLKPSAPKIPIEVLLEATKPTLPFPWLPETDMKVDG 491 TMalign alignment (TM-score: 0.66 Raw score:177.48) d1tx2a_ 1 --KWDYDLRCGEYTLNLNEKTLIMGILNVTPDSFSDGGSYNEVDAAVRHAKEMRDEGAHI 58 ::::::::::::::::::::::: :::::::::::::::::::: d1v3ha_ 1 SN-------------MLLNYVPVYVMLPLGVVNVDNVF--EDPDGLKEQLLQLRAAGVDG 45 d1tx2a_ 59 IDIGGESFAKVSVEE------EIKRVVPMIQAVSKEVKLPISIDTY-------------- 98 :::::: :::::: ::::::::::::: ::::::::::: d1v3ha_ 46 VMVDVW---WGIIELKGPKQYDWRAYRSLLQLVQ-ECGLTLQAIMSFHQCGGNVGDIVNI 101 d1tx2a_ 99 ------------------------------------------------KA-EV--AKQAI 107 :: :: ::::: d1v3ha_ 102 PIPQWVLDIGESNHDIFYTNRSGTRNKEYLTVGVDNEPIFHGRTAIEIYSDYMKSFRENM 161 d1tx2a_ 108 EAG----AH-IINDIW-----G-------------------------------------- 119 ::: :: :::::: : d1v3ha_ 162 SDFLESGLIIDIEVGLGPAGQLRYPSYPQSQGWEFPGIGEFQCYDKYLKADFKAAVARAG 221 d1tx2a_ 120 -----------------------------------------------AK-AEP-KIAEVA 130 :: ::: :::::: d1v3ha_ 222 HPEWELPDDAGKYNDVPESTGFFKSNGTYVTEKGKFFLTWYSNKLLNHGDQILDEANKAF 281 d1tx2a_ 131 AHYDVPIILMHN-------------R-DNMNYRNL-MADMIADLYDSIKIAKDAGVRDEN 175 :::::::::::: : :::::::: ::::::::::::: : : d1v3ha_ 282 LGCKVKLAIKVSGIHWWYKVENHAAELTAGYYNLNDRDGYRPIARMLSR-H------H-- 332 d1tx2a_ 176 IILDPGIG----------FAKTPEQNLEAMRN-LEQLNVLGYPVLLGTSRKSFIGHVLDL 224 :::::::: ::::::::::: :::::::::::::::: : d1v3ha_ 333 AILNFTCLEMRDSEQPSD---AKSGPQELVQQVLSGGWREDIRVAGENA-L--------- 379 d1tx2a_ 225 PVEERLE-GTGATVCLGIEK-----------GCEFVRV-H----D-----VKEMSRMAKM 262 : ::: :::::::::::: ::::::: : : :::::::::: d1v3ha_ 380 -P--RYDATAYNQIILNARPQGVNNNGPPKLSMFGVTYLRLSDDLLQKSNFNIFKKFVLK 436 d1tx2a_ 263 M-DA---------------------------------------------MI----GK 269 : :: :: d1v3ha_ 437 MHADQDYCANPQKYNHAITPLKPSAPKIPIEVLLEATKPTLPFPWLPETDMKVDG-- 491 HHsearch alignment (Probability: 0.15 E-value:0.03) d1tx2a_ 30 DSFSDGGSYNEVDAAVRHAKEMRDEGAHII 59 :::::::::::::::::::::::::::::: d1v3ha_ 17 GVVNVDNVFEDPDGLKEQLLQLRAAGVDGV 46