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 | d1nvma2 | 4-hydroxy-2-oxovalerate aldolase DmpG, catalytic domain | Aldolase | 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 <-- 1.425 --> HitDALI alignment (Z-score: 16.7 Raw score:1721.00) d1tx2a_ 1 kwdydlrcgeytlnlNEKTLIMGILN------VTPDsfsdggsynEVDAAVRHAKEMRDE 54 ::::::::::: :::: ::::::::::::::: d1nvma2 1 -----------tfnpSKKLYISDVTLrdgshaIRHQ--------yTLDDVRAIARALDKA 41 d1tx2a_ 55 GAHIIDIGGES--------FAKVsveeeiKRVVPMIQAVSKEVK-LPISIDTY----KAE 101 ::::::::::: :::: ::::::::::::::: :::::::: ::: d1nvma2 42 KVDSIEVAHGDglqgssfnYGFG-----rHTDLEYIEAVAGEIShAQIATLLLpgigSVH 96 d1tx2a_ 102 VAKQAIEAGAHIINDIW---gaKAEPKIAEVAAHYDVPIILMHNRdnmnyrNLMADMIAD 158 ::::::::::::::::: ::::::::::::::::::::::: ::::::::: d1nvma2 97 DLKNAYQAGARVVRVAThcteaDVSKQHIEYARNLGMDTVGFLMM---shmIPAEKLAEQ 153 d1tx2a_ 159 LYDSIKIAkdagvrdenIILDPGIGFaktpeQNLEAMRN-LEQLNVLG---YPVLLGTsR 214 :::::::: ::::::::: :::::::: :::::::: ::::::: : d1nvma2 154 GKLMESYG--------aTCIYMADSG---gaMSMNDIRDrMRAFKAVLkpeTQVGMHA-H 201 d1tx2a_ 215 KSFIghvldlpveerleGTGATVCLGIEKGCEFVRVH-----------DVKEMSRMAK-M 262 :::: :::::::::::::::::::: :::::::::: : d1nvma2 202 HNLS-------------LGVANSIVAVEEGCDRVDASlagmgagagnaPLEVFIAVAErL 248 d1tx2a_ 263 MDA----------------------------------migk 269 ::: d1nvma2 249 GWNhgtdlytlmdaaddivrplqdrpvrvdretlglgyagv 289 FAST alignment (Normalized score: 11.19 Raw score:3119.00) d1tx2a_ 1 KWDYDLRCGEYTLNLN-----EKTLIMGILNVTPDSFSDGGSYN--------------EV 41 ::::::: :: d1nvma2 1 ----------------TFNPSKKLYISD----------------VTLRDGSHAIRHQYTL 28 d1tx2a_ 42 DAAVRHAKEMRDEGAHIIDIGGESFAKVSVEEEIK-----------------RVVPMIQA 84 ::::::::::::::::::::: :::::::: d1nvma2 29 DDVRAIARALDKAKVDSIEVA--------------HGDGLQGSSFNYGFGRHTDLEYIEA 74 d1tx2a_ 85 VSKEV-KLPISIDT----YKAEVAKQAIEAGAHIINDIWG------AKAEPKIAEVAAHY 133 ::::: :::::::: ::::::::::::::::::: :::::::::::::: d1nvma2 75 VAGEISHAQIATLLLPGIGSVHDLKNAYQAGARVVRV---ATHCTEADVSKQHIEYARNL 131 d1tx2a_ 134 DVPIILMHNRDNMNYRN------LMADMIADLYDSIKIAKDAGVRDEN---IILDPGIG- 183 :::::::: :::::::::::::: :::::: d1nvma2 132 GMDTVGFL---------MMSHMIPAEKLAEQGKLMES-----------YGATCIYMA--D 169 d1tx2a_ 184 --FAKTPEQNLEAMRNLEQLNV---LGYPVLLGTSRKSFIGHVLDLPVEERL---EGTGA 235 ::::::::::: :::::: :::::::::: ::::: d1nvma2 170 SGGAMSMNDIRDR---MRAFKAVLKPETQVGMHAH-----------------HNLSLGVA 209 d1tx2a_ 236 TVCLGIEKGCEFVRV-----------HDVKEMSRMAKMMDAMIGK--------------- 269 ::::::::::::::: :::::::::::: d1nvma2 210 NSIVAVEEGCDRVDASLAGMGAGAGNAPLEVFIAVAER-------LGWNHGTDLYTLMDA 262 d1tx2a_ 270 --------------------------- 270 d1nvma2 263 ADDIVRPLQDRPVRVDRETLGLGYAGV 289 TMalign alignment (TM-score: 0.68 Raw score:182.02) d1tx2a_ 1 ---KWDYDLRCGEYTLNLNEKTLIMGI-L--NV--T-PDSFSDGGSYNEVDAAVRHAKEM 51 :::::::::: : :: : :: ::::::::::::: d1nvma2 1 TFN--------------PSKKLYISDVTLRDGSHAIRHQ--------YTLDDVRAIARAL 38 d1tx2a_ 52 RDEGAHIIDIGGES---FAKVS--VEEE-IKRVVPMIQAVSKEVK-LPISIDTY---K-A 100 :::::::::::::: ::::: :: ::::::::::::::: :::::::: : : d1nvma2 39 DKAKVDSIEVAHGDGLQGSSFNYG--FGR-HTDLEYIEAVAGEISHAQIATLLLPGIGSV 95 d1tx2a_ 101 EVAKQAIEAGAHIINDIW---GAKAEPKIAEVAAHYDVPIILMHNRDNMNYRNLMADMIA 157 :::::::::::::::::: :::::::::::::::::::::::::::: : ::::::: d1nvma2 96 HDLKNAYQAGARVVRVATHCTEADVSKQHIEYARNLGMDTVGFLMMSHM-I--PAEKLAE 152 d1tx2a_ 158 DLYDSIKIAKDAGVRDENIILDPGIGFAKTPEQNLEAMRN-LEQLNV-L-G-YPVLLGTS 213 ::::::: : : :::::::::: ::: ::::::: :::::: : : :::::::: d1nvma2 153 QGKLMES-Y----G---ATCIYMADSG--GAM-SMNDIRDRMRAFKAVLKPETQVGMHAH 201 d1tx2a_ 214 RKSFIGHVLDLPVEERLEGTGATVCLGIEKGCEFVRVH-----------DVKEMSRMAKM 262 : : : : :::::::::::::::::::: ::::::::::: d1nvma2 202 H-N--L---------S--LGVANSIVAVEEGCDRVDASLAGMGAGAGNAPLEVFIAVAER 247 d1tx2a_ 263 MDAM--------------------------------------IGK 269 :::: d1nvma2 248 LGWNHGTDLYTLMDAADDIVRPLQDRPVRVDRETLGLGYAGV--- 289 HHsearch alignment (Probability: 0.98 E-value:0.00) d1tx2a_ 13 LNLNEKTLIMGILNVTP-DSFSDGGSYNEVDAAVRHAKEMRDEGAHIIDIGGESF----- 66 ::::::: ::::::: ::::::::::::::::::::::::::::::::::::: d1nvma2 2 FNPSKKL---YISDVTLRDGSHAIRHQYTLDDVRAIARALDKAKVDSIEVAHGDGLQGSS 58 d1tx2a_ 67 --AKVSVEEEIKRVVPMIQAVSKEVKLPISI--DTYKAEVAKQAIEAGAHIINDIWGAKA 122 ::::::::::::::::::::: ::::::: ::::::::::::::::::::::::::: d1nvma2 59 FNYGFGRHTDLEYIEAVAGEISH-AQIATLLLPGIGSVHDLKNAYQAGARVVRVATHCTE 117 d1tx2a_ 123 E---PKIAEVAAHYDVPIILMHNRDNMNYRNLMADMIADLYDSIKIAKDAGVRDENIILD 179 : ::::::::::::::::::::::::: :::::::::::::::::: :::: d1nvma2 118 ADVSKQHIEYARNLGMDTVGFLMMSHMIP-------AEKLAEQGKLMESYGATC--IYMA 168 d1tx2a_ 180 PGIGFAKTPEQNLEAMRNLEQLNVLGYPVLLGTSRKSFIGHVLDLPVEERLEGTGATVCL 239 :::::: ::::::::::::::::: :::::: :::::::::::::::: d1nvma2 169 DSGGAM-SMNDIRDRMRAFKAVLK--PETQVG------------MHAHHNLSLGVANSIV 213 d1tx2a_ 240 GIEKGCEFVRV 250 ::::::::::: d1nvma2 214 AVEEGCDRVDA 224