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 | d1muma_ | 2-methylisocitrate lyase | Phosphoenolpyruvate/pyruvate domain | 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 <-- 1.265 --> HitDALI alignment (Z-score: 15.5 Raw score:1522.30) d1tx2a_ 1 kwdydlRCGEY-TLNLNEKT-LIMGILNvtpdsfsdggsynevdaAVRHAKEMRDEGAHI 58 ::::: :::::::: ::::::: ::::::::::::::: d1muma_ 1 ----lhSPGKAfRAALTKENpLQIVGTI-----------------NANHALLAQRAGYQA 39 d1tx2a_ 59 IDIGGES-----FAKV-SVEEEIKRVVPMIQAVSKEVKLPISIDTY---------KAEVA 103 ::::::: :::: ::::::::::::::::::::::::::::: ::::: d1muma_ 40 IYLSGGGvaagsLGLPdLGISTLDDVLTDIRRITDVCSLPLLVDADigfgssafnVARTV 99 d1tx2a_ 104 KQAIEAGAHIINDIW-------------------gAKAE-PKIAEVaAHYD-VPIILMHN 142 ::::::::::::::: :::: :::::: :::: :::::::: d1muma_ 100 KSMIKAGAAGLHIEDqvgakrcghrpnkaivskeeMVDRiRAAVDA-KTDPdFVIMARTD 158 d1tx2a_ 143 RdNMNYrnlMADMIADLYDSIKIAkdagvrdenIILDPGIGfaktpeqnlEAMRNLEQLN 202 : :::: ::::::::::::::: :::::::: :::::::::: d1muma_ 159 AlAVEG---LDAAIERAQAYVEAG--------aEMLFPEAI---------TELAMYRQFA 198 d1tx2a_ 203 V-LGYPVLLGTSRKSFighvldlpveerleGTGAtVCLGIEKGCEFVRVH---------- 251 : :::::::::::::: :::: ::::::::::::::: d1muma_ 199 DaVQVPILANITEFGA-------------tPLFT-TDELRSAHVAMALYPlsaframnra 244 d1tx2a_ 252 ---------------------------dvkemsrmakmmdamigk 269 d1muma_ 245 aehvynvlrqegtqksvidtmqtrnelyesinyyqyeekldnlfa 289 FAST alignment (Normalized score: 9.04 Raw score:2521.00) d1tx2a_ 1 KWDYDLRCGEYTL----------NLNE-KTLIMGILNVTPDSFSDGGSYNEVDA-AVRHA 48 :::: :::::::: ::::: d1muma_ 1 -------------LHSPGKAFRAALTKENPLQIVGT------------------INANHA 29 d1tx2a_ 49 KEMRDEGAHIIDIGGE--------SFAKVSVEE---EIKRVVPMIQAVSKEVKLPISIDT 97 :::::::::::::: :::::: :::::::::::::::::::::::: d1muma_ 30 LLAQRAGYQAIYLS--GGGVAAGSLGLPDL---GISTLDDVLTDIRRITDVCSLPLLVDA 84 d1tx2a_ 98 Y----------KAEVAKQAIEAGAHIINDIWGAKA------------------------- 122 :::::::::::::::::: d1muma_ 85 -DIGFGSSAFNVARTVKSMIKAGAAGLHI------EDQVGAKRCGHRPNKAIVSKEEMVD 137 d1tx2a_ 123 -EPKIAEVAAHY-DVPIILMHNRDNMNYR-----NLMADMIADLYDSIKIAKDAGVRDEN 175 ::::::: ::: :::::::: ::::::::::::::: d1muma_ 138 RIRAAVDA-KTDPDFVIMART--------DALAVEGLDAAIERAQAYVE----------- 177 d1tx2a_ 176 ---IILDPGIGFAKTPEQNLE----AMRNLEQLN-VLGYPVLLGTSRKSFIGHVLDLPVE 227 ::::: ::::::::: ::::::::::: d1muma_ 178 AGAEMLFP-------------EAITELAMYRQFADAVQVPILANIT-------------- 210 d1tx2a_ 228 ERLEGTGA--------TVCLGIEKGCEFVRVHDVKEMSRMAKMMDAMIGK---------- 269 :::::::::::::: d1muma_ 211 --------EFGATPLFTTDELRSAHVAMAL--------------------YPLSAFRAMN 242 d1tx2a_ 270 ----------------------------------------------- 270 d1muma_ 243 RAAEHVYNVLRQEGTQKSVIDTMQTRNELYESINYYQYEEKLDNLFA 289 TMalign alignment (TM-score: 0.62 Raw score:166.04) d1tx2a_ 1 --KWDYDLRCGEY-TLNLNEKTLIMGILNVTPDSFSDGGSYNEVDAAVRHAKEMRDEGAH 57 :::::: ::::::::::::::: :::::::::::::: d1muma_ 1 LH-----SPGKAFRAALTKENPLQIVGTI-----------------NANHALLAQRAGYQ 38 d1tx2a_ 58 IIDI-G--GES---FAKVSVEEEIKRVVPMIQAVSKEVKLPISIDT-YK-------A-EV 102 :::: : ::: :::::::::::::::::::::::::::::::: :: : :: d1muma_ 39 AIYLSGGGVAAGSLGLPDLGISTLDDVLTDIRRITDVCSLPLLVDADIGFGSSAFNVART 98 d1tx2a_ 103 AKQAIEAGAHIINDIWG------------------AK-AEP-KIAEVAAHYD-VPIILMH 141 ::::::::::::::::: :: ::: :::::: ::: ::::::: d1muma_ 99 VKSMIKAGAAGLHIEDQVGAKRCGHRPNKAIVSKEEMVDRIRAAVDAK-TDPDFVIMART 157 d1tx2a_ 142 NRDNMNYRNLMADMIADLYDSIKIAKDAGVRDENIILDPGIGFAKTPEQNLEAMRNLEQL 201 ::::::: : :::::::::::::: : ::::::: ::: ::::::: d1muma_ 158 DALAVEG--L-DAAIERAQAYVEAG----A----EMLFPEA--------ITE-LAMYRQF 197 d1tx2a_ 202 NV-LGYPVLLGTSRKSFIGHVLDLPVEERLEGTGATVCLGIEKGCEFVRV-HDV------ 253 :: ::::::::::::::: :: :::::::::::::::: ::: d1muma_ 198 ADAVQVPILANITEFGAT-------------PL-FTTDELRSAHVAMALYPLSAFRAMNR 243 d1tx2a_ 254 ----------------------------------------------KEMSRMAKMMDAMI 267 d1muma_ 244 AAEHVYNVLRQEGTQKSVIDTMQTRNELYESINYYQYEEKLDNLFA-------------- 289 d1tx2a_ 268 GK 269 d1muma_ 290 -- 290 HHsearch alignment (Probability: 0.93 E-value:0.00) d1tx2a_ 48 AKEMRDEGAHIIDIGGESF---AKVSVEE---EIKRVVPMIQAVSKEVKLPISID--TY- 98 ::::::::::::::::::: ::::::: ::::::::::::::::::::::: :: d1muma_ 29 ALLAQRAGYQAIYLSGGGVAAGSLGLPDLGISTLDDVLTDIRRITDVCSLPLLVDADIGF 88 d1tx2a_ 99 --KA----EVAKQAIEAGAHIINDIWGAK--------AEP------KIA-----EVAAHY 133 :: ::::::::::::::: ::::: ::: ::: :::::: d1muma_ 89 GSSAFNVARTVKSMIKAGAAGLH-IEDQVGAKRCGHRPNKAIVSKEEMVDRIRAAVDAKT 147 d1tx2a_ 134 DVPIILMHNRDNMNYRNLMADMIADLYDSIKIAKDAGVRDENIILDPGIGFAKTPEQNLE 193 :::::::::::: :::::::::::::::::::::: :::::::: ::::::: d1muma_ 148 DPDFVIMARTDA-----LAVEGLDAAIERAQAYVEAGAE---MLFPEAIT---ELAMYRQ 196 d1tx2a_ 194 AMRNL 198 ::::: d1muma_ 197 FADAV 201