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 | d1jfla2 | Aspartate racemase | Aspartate/glutamate racemase | ATC-like | α/β |
| Hit | d1rrma_ | Lactaldehyde reductase FucO | Dehydroquinate synthase-like | Dehydroquinate synthase-like | multi |
Query <-- 0.593 --> IntermediateDALI alignment (Z-score: 3.0 Raw score:191.90) query 1 slqLRLALNQ-------------------------------IDST------VGDIAGNAE 23 ::::::: :::: ::::::::: d1jfla2 1 --fKKAGLLAttgtivsgvyekefskygveimtptedeqkdVMRGiyegvkAGNLKLGRE 58 query 24 AILRWTRHSAEQGAHLVAF-PEMAltgypvedlalrssfveasrtalrelAARLaeegfg 82 ::::::::::::::::::: :::: :::: d1jfla2 59 LLLKTAKILEERGAECIIAgCTEV----------------------svvlKQDD-----l 91 query 83 ELPVLvgyldrsesaqpkygqpagaprnaaavlhrgrvaltfakhhlpnygvfdefryfv 142 ::::: d1jfla2 92 KVPLI------------------------------------------------------- 96 query 143 pgdtmpivrlhgvdialaicedlwqdggrvpaarsagaglllsvnaspyerdkddtrlel 202 d1jfla2 97 ------------------------------------------------------------ 97 query 203 vrkraqeagcttaylamiggqdelvfdgdsivvdrdgevvarapqfsegcvvldldlpaa 262 d1jfla2 97 ------------------------------------------------------------ 97 query 263 eaepptgvvddglridrlviseeplpayeaelaggyadrldadeevysalvvglrayvak 322 d1jfla2 97 ------------------------------------------------------------ 97 query 323 ngfrsvliglsggidsalvaaiacdalgaqnvygvsmpskyssdhskgdaaelarrtgln 382 d1jfla2 97 ------------------------------------------------------------ 97 query 383 frtvsiepmfdaymaslgltglaeenlqsrlrgttlmaisnqeghivlapgnkselavgy 442 d1jfla2 97 ------------------------------------------------------------ 97 query 443 stlygdsvgaygpikdvyktsifrlaewrnraaaergqtppipeasitkpdypvldaile 502 d1jfla2 97 ------------------------------------------------------------ 97 query 503 lyvdrdtgadaivaagydrelvvktlrmvdtaeykrrqyppgtkisakgfgkdrrlpitn 562 d1jfla2 97 -------------------------------------------------dpmdviaevav 107 query 563 rwregh 568 d1jfla2 108 kvalek 113 FAST alignment (Normalized score: 1.63 Raw score:413.10) query 1 SLQLRLALNQIDSTVGDIAGNAEAILRWTRHSAEQGAHLVAFPEMALTGYPVEDLALRSS 60 d1jfla2 1 ------------------------------------------------------------ 1 query 61 FVEASRTALRELAARLAEEGFGELPVLVGYLDRSESAQPKYGQPAGAPRNAAAVLHRGRV 120 d1jfla2 1 ------------------------------------------------------------ 1 query 121 ALTFAKHHLPNYGVFDEFRYFVPGDTMPIVRLHGVDIALAICEDLWQDGGRVPAARSAGA 180 d1jfla2 1 ------------------------------------------------------------ 1 query 181 GLLLSVNASPYERDKDDTRLELVRKRAQEAGCTTAYLAMIGGQDELVFDGDSIVVDRDGE 240 d1jfla2 1 ------------------------------------------------------------ 1 query 241 VVARAPQFSEGCVVLDLDLPAAEAEPPTGVVDDGLRIDRLVISEEPLPAYEAELAGGYAD 300 d1jfla2 1 ------------------------------------------------------------ 1 query 301 RLDADEEVYSALVVGLRAYVAKNGF-RSVLIGLSGGIDS--ALVAAIACDALGA--QNVY 355 :::::::: :::: ::::::::: :::: d1jfla2 1 -------------------------FKKAGLLAT-TGTIVSGVYEKEFSK----YGVEIM 30 query 356 GVSMPSKYSSDHSKGDAAELARRTGLNFRTVSIEPMFDAYMASLGLT------------- 402 : d1jfla2 31 T----------------------------------------------PTEDEQKDVMRGI 44 query 403 -------GLAEENLQSRLRGTTLMAISNQEG---HIVLAPGNKSELAVGYSTLYGDSVG- 451 :::::::::::::::::: ::::: d1jfla2 45 YEGVKAGNLKLGRELLLKTAKILEE------RGAECIIA--------------------G 78 query 452 ----------------AYGPIKDVYKTSIFRLAEWRNRAAAERGQTPPIPEASITKPDYP 495 :::: d1jfla2 79 CTEVSVVLKQDDLKVPLIDP---------------------------------------- 98 query 496 VLDAILELYVDRDTGADAIVAAGYDRELVVKTLRMVDTAEYKRRQYPPGTKISAKGFGKD 555 d1jfla2 99 ------------------------------------------------------------ 99 query 556 RRLPITNRWREGH--------------- 568 d1jfla2 99 -------------MDVIAEVAVKVALEK 113 TMalign alignment (TM-score: 0.13 Raw score:76.04) query 1 SLQLRLALNQIDSTVGDIAGNAEAILRWTRHSAEQGAHLVAFPEMALTGYPVEDLALRSS 60 d1jfla2 1 ------------------------------------------------------------ 1 query 61 FVEASRTALRELAARLAEEGFGELPVLVGYLDRSESAQPKYGQPAGAPRNAAAVLHRGRV 120 d1jfla2 1 ------------------------------------------------------------ 1 query 121 ALTFAKHHLPNYGVFDEFRYFVPGDTMPIVRLHGVDIALAICEDLWQDGGRVPAARSAGA 180 d1jfla2 1 ------------------------------------------------------------ 1 query 181 GLLLSVNASPYERDKDDTRLELVRKRAQEAGCTTAYLAMIGGQDELVFDGDSIVVDRDGE 240 d1jfla2 1 ------------------------------------------------------------ 1 query 241 VVARAPQFSEGCVVLDLDLPAAEAEPPTGVVDDGLRIDRLVISEEPLPAYEAELAGGYAD 300 d1jfla2 1 ------------------------------------------------------------ 1 query 301 RLDADEEVYSALVVGLRAYVAKNGFRSVLIGLSGGIDSALVAAIACDALGAQNVYGVSMP 360 :::::::: d1jfla2 1 ----------------------------------------------------FKKAGLLA 8 query 361 SKYSSDHSK--GDAAELARRTGLNFRTV-S--IEPMFDAY--MASLGL-TGLAE-ENLQS 411 : :: :: ::::::::::::::::: : :: ::::: :: ::::: :: : d1jfla2 9 T--TG--TIVSGVYEKEFSKYGVEIMTPTEDEQK-DVMRGIY----EGVKAGNLK-LG-R 57 query 412 RLRGTTLMAISNQEGHIVLAP-GNKSELAVGYSTLYGD-SVG--A--YGPI--KDVYKTS 463 :::::::::::::: :::::: :::::: ::: : :::: :::: : d1jfla2 58 ELLLKTAKILEERG-AECIIAG----------CTEVSVVLKQDDLKVPLIDPM-DVIA-E 104 query 464 IFRLAEWRNRAAAERGQTPPIPEASITKPDYP---VLDAILELYVDRDTGADAIVAAGYD 520 :::: : : d1jfla2 105 VAVK-V-------------------------ALEK------------------------- 113 query 521 RELVVKTLRMVDTAEYKRRQYPPGTKISAKGFGKDRRLPITNRWREGH 568 d1jfla2 114 ------------------------------------------------ 114 HHsearch alignment (Probability: 0.04 E-value:0.07) query 16 GDIAGNAEAILRWTRHSAEQGAHLVAF 42 ::::::::::::::::::::::::::: d1jfla2 51 GNLKLGRELLLKTAKILEERGAECIIA 77
Intermediate <-- 1.457 --> HitDALI alignment (Z-score: 5.1 Raw score:384.40) d1jfla2 1 -----------------------------FKKAGLLATTGTIVS---GVYEKEFSKYGVE 28 ::::::::::::::: ::::::::::::: d1rrma_ 1 manrmilnetawfgrgavgaltdevkrrgYQKALIVTDKTLVQCgvvAKVTDKMDAAGLA 60 d1jfla2 29 IMTPtedeqkDVMRGIyegvkagnlklGRELLLKTAKILEERGAECIIAGC-TEVSV--v 85 :::: :::::: :::::::::::::::::::::::: ::::: d1rrma_ 61 WAIY-----dGVVPNP-----------TITVVKEGLGVFQNSGADYLIAIGgGSPQDtck 104 d1jfla2 86 LKQDDL--------------------KVPLIDPM-------------------------- 99 :::::: :::::::: d1rrma_ 105 AIGIISnnpefadvrsleglsptnkpSVPILAIPttagtaaevtinyvitdeekrrkfvc 164 d1jfla2 100 ---------DVIAE---------------------------------------------- 104 ::::: d1rrma_ 165 vdphdipqvAFIDAdmmdgmppalkaatgvdalthaiegyitrgawaltdalhikaieii 224 d1jfla2 105 ------------------------------------------------------------ 105 d1rrma_ 225 agalrgsvagdkdageemalgqyvagmgfsnvglglvhgmahplgafyntphgvanaill 284 d1jfla2 105 ------------------------------------------------------------ 105 d1rrma_ 285 phvmrynadftgekyrdiarvmgvkvegmsleearnaaveavfalnrdvgipphlrdvgv 344 d1jfla2 105 --------------------------------vavkvalek 113 d1rrma_ 345 rkedipalaqaalddvctggnpreatledivelyhtawegg 385 FAST alignment (Normalized score: 3.51 Raw score:732.80) d1jfla2 1 F------------------------------KKAGLLATTGTIVS---GVYEKEFSKYGV 27 :::::::::::::: :::::::::::: d1rrma_ 1 -MANRMILNETAWFGRGAVGALTDEVKRRGYQKALIVTDKTLVQCGVVAKVTDKMDAAGL 59 d1jfla2 28 EIMTPTEDEQKDVMRGIYEGVKAGN---------LKLGRELLLKTAKILEERGAECIIAG 78 ::: :::::::::::::: ::::::::: d1rrma_ 60 AWA----------------------IYDGVVPNPTITVVKEGLGVFQN---SGADYLIAI 94 d1jfla2 79 -CTEVSVVL---KQDDL---------------------KVPLIDPMDVIAEVAVKVALEK 113 ::::::: :::: :::::: d1rrma_ 95 GGGSPQDT-CKAIGII-SNNPEFADVRSLEGLSPTNKPSVPILA---------------- 136 d1jfla2 114 ------------------------------------------------------------ 114 d1rrma_ 137 IPTTAGTAAEVTINYVITDEEKRRKFVCVDPHDIPQVAFIDADMMDGMPPALKAATGVDA 196 d1jfla2 114 ------------------------------------------------------------ 114 d1rrma_ 197 LTHAIEGYITRGAWALTDALHIKAIEIIAGALRGSVAGDKDAGEEMALGQYVAGMGFSNV 256 d1jfla2 114 ------------------------------------------------------------ 114 d1rrma_ 257 GLGLVHGMAHPLGAFYNTPHGVANAILLPHVMRYNADFTGEKYRDIARVMGVKVEGMSLE 316 d1jfla2 114 ------------------------------------------------------------ 114 d1rrma_ 317 EARNAAVEAVFALNRDVGIPPHLRDVGVRKEDIPALAQAALDDVCTGGNPREATLEDIVE 376 d1jfla2 114 --------- 114 d1rrma_ 377 LYHTAWEGG 385 TMalign alignment (TM-score: 0.59 Raw score:67.12) d1jfla2 1 -----------------------------FKKAGLLATTGTIV-S--GVYEKEFSKYGVE 28 :::::::::::::: : ::::::::::::: d1rrma_ 1 MANRMILNETAWFGRGAVGALTDEVKRRGYQKALIVTDKTLVQCGVVAKVTDKMDAAGLA 60 d1jfla2 29 IMTPTEDEQKDVMRGIYEGVKAGNLKLGRELLLKTAKILEERGAECIIAGC-TEVSVV-L 86 :::: : :: :: : : :::::::::::::::::::::::: :::::: : d1rrma_ 61 WAIY----D--GV--VP--N----P--TITVVKEGLGVFQNSGADYLIAIGGGSPQDTCK 104 d1jfla2 87 K-QDDLK--------------------VPLIDPM-------D------------------ 100 : ::::: ::::::: : d1rrma_ 105 AIGIISNNPEFADVRSLEGLSPTNKPSVPILAIPTTAGTAAEVTINYVITDEEKRRKFVC 164 d1jfla2 101 ---------VIA------------------------------------------------ 103 ::: d1rrma_ 165 VDPHDIPQVAFIDADMMDGMPPALKAATGVDALTHAIEGYITRGAWALTDALHIKAIEII 224 d1jfla2 104 ------------------EVAV-------------------------------------- 107 :: d1rrma_ 225 AGALRGSVAGDKDAGEEM--ALGQYVAGMGFSNVGLGLVHGMAHPLGAFYNTPHGVANAI 282 d1jfla2 108 ------------------------------------------------------------ 108 d1rrma_ 283 LLPHVMRYNADFTGEKYRDIARVMGVKVEGMSLEEARNAAVEAVFALNRDVGIPPHLRDV 342 d1jfla2 108 -------------------------------------------KVALEK 113 d1rrma_ 343 GVRKEDIPALAQAALDDVCTGGNPREATLEDIVELYHTAWEGG------ 385 HHsearch alignment (Probability: 0.52 E-value:0.00) d1jfla2 1 FKKAGLLATTGTIVSGVYE---KEFSKYGVEIMTPT----EDEQKDVMRGIYEGV 48 ::::::::::::::::::: :::::::::::::: ::::::::::::::: d1rrma_ 30 YQKALIVTDKTLVQCGVVAKVTDKMDAAGLAWAIYDGVVPNPTITVVKEGLGVFQ 84