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 | d1js1x1 | Transcarbamylase-like protein | Aspartate/ornithine carbamoyltransferase | ATC-like | α/β |
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 <-- 0.736 --> HitDALI alignment (Z-score: 4.1 Raw score:350.10) d1jfla2 1 -----------------------------------fKKAGLLA-TTGTivsGVYEKEFSK 24 ::::::: :::: ::::::::: d1js1x1 1 mkkftcvqdigdlksalaesfeikkdrfkyvelgrnKTLLMIFfNSSLrtrLSTQKAALN 60 d1jfla2 25 YGVEIMTPtedeqkdVMRGiyegvkagnlkLGRE--------------lllktaKILEEr 70 :::::::: :::: :::: ::::: d1js1x1 61 LGMNVIVL------dINQG-----------AWKLetergvimdgdkpehlleaiPVMGC- 102 d1jfla2 71 GAECIIAGCTEV---------sVVLK--QDDLKVPLIDP-----MDVIAEVAVKVALEK- 113 :::::::::::: :::: ::::::::::: ::::::::::::::: d1js1x1 103 YCDIIGVRSFARfenreydyneVIINqfIQHSGRPVFSMeaatrHPLQSFADLITIEEYk 162 d1jfla2 114 - 114 d1js1x1 163 k 163 FAST alignment (Normalized score: 4.37 Raw score:592.70) d1jfla2 1 -----------------------------------FKKAGLLA----TTGTIVSGVYEKE 21 ::::::: ::::: :::::: d1js1x1 1 MKKFTCVQDIGDLKSALAESFEIKKDRFKYVELGRNKTLLMI-FFNSSLRTR--LSTQKA 57 d1jfla2 22 FSKYGVEIMTPTEDEQKDVMRGIYEGVKAGNLKLGRE----------------------- 58 :::::::::: d1js1x1 58 ALNLGMNVIV---------------------------LDINQGAWKLETERGVIMDGDKP 90 d1jfla2 59 -LLLKTAKILEERGAECIIAGC-------------TEVSVVLKQDDLKVPLID------- 97 ::::::::::: :::::::: :::::: ::::::::::: d1js1x1 91 EHLLEAIPVMGC-YCDIIGVR-SFARFENREYDYNEVIINQ-FIQHSGRPVFSMEAATRH 147 d1jfla2 98 -PMDVIAEVAVKVALEK--- 113 :::::::::::: d1js1x1 148 PLQSFADLITIEE----YKK 163 TMalign alignment (TM-score: 0.54 Raw score:60.71) d1jfla2 1 ---------------------------------F--KKAGLLATTGTI--VSGVYEKE-F 22 : :::::::::::: :::::: : d1js1x1 1 MKKFTCVQDIGDLKSALAESFEIKKDRFKYVELGRNKTLLMIFFNSSLRT--RLSTQKAA 58 d1jfla2 23 SKYGVEIMTPTEDEQKDVM-R-GIYEGVKAGNLK---------L--GREL-LLKTAKILE 68 :::::::::: : :: : : :: :: : :: :: ::::: d1js1x1 59 LNLGMNVIVL----D--INQGAW--KL-----ETERGVIMDGDKPE--HLL-EA-IPVMG 101 d1jfla2 69 ERGAECIIAGCTE---------VSVV-LK--QDDLKVPLIDP-----MDVIAEVAVKVAL 111 :: :::::::::: ::: :: ::::::::::: :::::::::::: d1js1x1 102 CY-CDIIGVRSFARFENREYDY-NEVIINQFIQHSGRPVFSMEAATRHPLQSFADLITI- 158 d1jfla2 112 E--K- 113 : : d1js1x1 159 EEYKK 163 HHsearch alignment (Probability: 0.10 E-value:0.05) d1jfla2 6 LLATTGTIVSGVYEKEFSKYGVEIMTPTEDEQKDVMRGIYE---GVKAGNLKLGRELLLK 62 ::::::::::::::::::::::::::::::::::::::::: ::::::: ::: d1js1x1 42 IFFNSSLRTRLSTQKAALNLGMNVIVLDINQGAWKLETERGVIMDGDKPEH------LLE 95 d1jfla2 63 TAKILEERGAECIIAGC-----------TEVSVVLKQDDLKVPLID-------PMDVIAE 104 ::::: ::::::::::: :::::::::::::::::: ::::::: d1js1x1 96 AIPVM-GCYCDIIGVRSFARFENREYDYNEVIINQFIQHSGRPVFSMEAATRHPLQSFAD 154 d1jfla2 105 V 105 : d1js1x1 155 L 155