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 | d1vl2a1 | Argininosuccinate synthetase, N-terminal domain | Adenine nucleotide alpha hydrolases-like | Adenine nucleotide alpha hydrolase-like | α/β |
| Hit | d1o97c_ | Small, beta subunit of electron transfer flavoprotein ETFP | Adenine nucleotide alpha hydrolases-like | Adenine nucleotide alpha hydrolase-like | α/β |
Query <-- 1.669 --> IntermediateDALI alignment (Z-score: 12.4 Raw score:948.50) query 1 slqlrlalnqidstvgdiagnaeailrwtrhsaeqgahlvafpemaltgypvedlalrss 60 d1vl2a1 1 ------------------------------------------------------------ 1 query 61 fveasrtalrelaarlaeegfgelpvlvgyldrsesaqpkygqpagaprnaaavlhrgrv 120 d1vl2a1 1 ------------------------------------------------------------ 1 query 121 altfakhhlpnygvfdefryfvpgdtmpivrlhgvdialaicedlwqdggrvpaarsaga 180 d1vl2a1 1 ------------------------------------------------------------ 1 query 181 glllsvnaspyerdkddtrlelvrkraqeagcttaylamiggqdelvfdgdsivvdrdge 240 d1vl2a1 1 ------------------------------------------------------------ 1 query 241 vvarapqfsegcvvldldlpaaeaepptgvvddglridrlviseeplpayeaelaggyad 300 d1vl2a1 1 ------------------------------------------------------------ 1 query 301 rldadeevysalvvglrayvakngFRSVLIGLSGGIDSALVAAIACDALGaqNVYGVSMP 360 :::::::::::::::::::::::::: :::::::: d1vl2a1 1 ------------------------KEKVVLAYSGGLDTSVILKWLCEKGF--DVIAYVAN 34 query 361 SKySSDHsKGDAAELARRTGL-NFRTVSIEPMFDAY-MASLG-------ltGLAEENLQS 411 :: :::: ::::::::::::: :::::::::::::: ::::: ::::::::: d1vl2a1 35 VG-QKDD-FVAIKEKALKTGAsKVYVEDLRREFVTDyIFTALlgnamyegrYLLGTAIAR 92 query 412 RLRGTTLMAISNQEGH-IVLAPGNKselavGYST-lyGDSV--------gAYGPIK---- 457 :::::::::::::::: :::::::: :::: :::: :::::: d1vl2a1 93 PLIAKRQVEIAEKEGAqYVAHGATG-----KGNDqvrFELTyaalnpnlkVISPWKdpef 147 query 458 DVYK-TSIFRLAEWRnraaaergqtPPIPeasitkpdypvldailelyvdrdtgadaiva 516 :::: :::::::::: :::: d1vl2a1 148 LAKFkTDLINYAMEK----------GIPI------------------------------- 166 query 517 agydrelvvktlrmvdtaeykrrqyppgtkisakgfgkdrrlpitnrwregh 568 d1vl2a1 167 ---------------------------------------------------- 167 FAST alignment (Normalized score: 5.35 Raw score:1644.00) query 1 SLQLRLALNQIDSTVGDIAGNAEAILRWTRHSAEQGAHLVAFPEMALTGYPVEDLALRSS 60 d1vl2a1 1 ------------------------------------------------------------ 1 query 61 FVEASRTALRELAARLAEEGFGELPVLVGYLDRSESAQPKYGQPAGAPRNAAAVLHRGRV 120 d1vl2a1 1 ------------------------------------------------------------ 1 query 121 ALTFAKHHLPNYGVFDEFRYFVPGDTMPIVRLHGVDIALAICEDLWQDGGRVPAARSAGA 180 d1vl2a1 1 ------------------------------------------------------------ 1 query 181 GLLLSVNASPYERDKDDTRLELVRKRAQEAGCTTAYLAMIGGQDELVFDGDSIVVDRDGE 240 d1vl2a1 1 ------------------------------------------------------------ 1 query 241 VVARAPQFSEGCVVLDLDLPAAEAEPPTGVVDDGLRIDRLVISEEPLPAYEAELAGGYAD 300 d1vl2a1 1 ------------------------------------------------------------ 1 query 301 RLDADEEVYSALVVGLRAYVAKNGF-RSVLIGLSGGIDSALVAAIACDALGAQNVYGVSM 359 :::::::::::::::::::::: ::: ::::::: d1vl2a1 1 -------------------------KEKVVLAYSGGLDTSVILKWLCE-KGF-DVIAYVA 33 query 360 PS-KYS-SDHSKGDAAELARRTG---LNFRTVSIEPMFD-AYMA---SLGLTGL------ 404 :: ::: :::::::::: ::::::::::::: :::: :::: d1vl2a1 34 NVGQKDDFVAIKEKALK------TGASKVYVEDLRREFVTDYIFTALLGNA---MYEGRY 84 query 405 -AEENLQSRLRGTTLMAISNQEG-HIVLAPGNKSELAVGYSTLY------GDSVG----- 451 :::::::::::::::::::::: :::::::::: :::: d1vl2a1 85 LLGTAIARPLIAKRQVEIAEKEGAQYVAHGATGK----------GNDQVRFELT-YAALN 133 query 452 ----AYGPIKDVY----------KTSIFRLAEWRNRAAAERGQTPPIPEASITKPDYPVL 497 :::: :::::::::: d1vl2a1 134 PNLKVISP-----WKDPEFLAKFKTDLINYAME--------------------------- 161 query 498 DAILELYVDRDTGADAIVAAGYDRELVVKTLRMVDTAEYKRRQYPPGTKISAKGFGKDRR 557 d1vl2a1 162 ------------------------------------------------------------ 162 query 558 LPITNRWREGH----- 568 d1vl2a1 162 -----------KGIPI 166 TMalign alignment (TM-score: 0.23 Raw score:131.95) query 1 SLQLRLALNQIDSTVGDIAGNAEAILRWTRHSAEQGAHLVAFPEMALTGYPVEDLALRSS 60 d1vl2a1 1 ------------------------------------------------------------ 1 query 61 FVEASRTALRELAARLAEEGFGELPVLVGYLDRSESAQPKYGQPAGAPRNAAAVLHRGRV 120 d1vl2a1 1 ------------------------------------------------------------ 1 query 121 ALTFAKHHLPNYGVFDEFRYFVPGDTMPIVRLHGVDIALAICEDLWQDGGRVPAARSAGA 180 d1vl2a1 1 ------------------------------------------------------------ 1 query 181 GLLLSVNASPYERDKDDTRLELVRKRAQEAGCTTAYLAMIGGQDELVFDGDSIVVDRDGE 240 d1vl2a1 1 ------------------------------------------------------------ 1 query 241 VVARAPQFSEGCVVLDLDLPAAEAEPPTGVVDDGLRIDRLVISEEPLPAYEAELAGGYAD 300 d1vl2a1 1 ------------------------------------------------------------ 1 query 301 RLDADEEVYSALVVGLRAYVAKNGFRSVLIGLSGGIDSALVAAIACDALGAQNVYGVSMP 360 :::::::::::::::::::::::::: :::::::: d1vl2a1 1 ------------------------KEKVVLAYSGGLDTSVILKWLCEKGF--DVIAYVAN 34 query 361 SKYSSDHSKGDAAELARRTGL-NFRTVSIEPMFDAY-MASLG---LT----GLAEENLQS 411 :: :::: ::::::::::::: :::::::::::::: ::::: :: ::::::::: d1vl2a1 35 VG-QKDD-FVAIKEKALKTGASKVYVEDLRREFVTDYIFTALLGNAMYEGRYLLGTAIAR 92 query 412 RLRGTTLMAISNQEGH-IVLAPGNKSELAVGYSTLYGDS-VG--------AYGPIK-D-- 458 :::::::::::::::: :::::::: : :::::::: :: :::::: : d1vl2a1 93 PLIAKRQVEIAEKEGAQYVAHGATG--K---GNDQVRFELTYAALNPNLKVISPWKDPEF 147 query 459 VYKTSIFRLAEWRNRAAAERGQTPPIPEASITKPDYPVLDAILELYVDRDTGADAIVAAG 518 :: :::::::::::: : : ::: d1vl2a1 148 LA-KFKTDLINYAME-K------G-IPI-------------------------------- 166 query 519 YDRELVVKTLRMVDTAEYKRRQYPPGTKISAKGFGKDRRLPITNRWREGH 568 d1vl2a1 167 -------------------------------------------------- 167 HHsearch alignment (Probability: 0.96 E-value:0.00) query 326 RSVLIGLSGGIDSALVAAIACDALGAQNVYGVSMPSKYSSDHSKGDAAELARRTGL-NFR 384 ::::::::::::::::::::::: :::::::::: ::::::::::::::::::: ::: d1vl2a1 2 EKVVLAYSGGLDTSVILKWLCEK--GFDVIAYVAN--VGQKDDFVAIKEKALKTGASKVY 57 query 385 TVSIEPMFDAYM--------ASLGLTGLAEENLQSRLRGTTLMAISNQEGHIVLAPG--- 433 :::::::::::: ::::::::::::::::::::::::::::::::::::: d1vl2a1 58 VEDLRREFVTDYIFTALLGNAMYEGRYLLGTAIARPLIAKRQVEIAEKEGAQYVAHGATG 117 query 434 ---NKSELAVGYSTLYGDSVGAYGP-----IKDVYKTSIFRLAEWRN 472 ::::::::::::::: :::::: ::::::::::::::::: d1vl2a1 118 KGNDQVRFELTYAALNPN-LKVISPWKDPEFLAKFKTDLINYAMEKG 163
Intermediate <-- 1.588 --> HitDALI alignment (Z-score: 8.4 Raw score:738.00) d1vl2a1 1 kEKVVLAYS--------------------------GGLDTSVILKWLCEKG------FDV 28 :::::::: :::::::::::::::: ::: d1o97c_ 1 -MKILVAVKqtaaleedfeiredgmdvdedfmmydLNEWDDFSLEEAMKIKessdtdVEV 59 d1vl2a1 29 IAYVANVgqkDDFVAIKEKALKTGASKVYVEDLRREFVtdyiftallgnamyegryllgt 88 ::::::: :::::::::::::::::::::::::::: d1o97c_ 60 VVVSVGP---DRVDESLRKCLAKGADRAVRVWDDAAEG---------------------- 94 d1vl2a1 89 aIARPLIAKRQVEIAEKEGAQYVAHGAT-gkGNDQvRFELTYAALNPN------------ 135 ::::::::::::::::::::::::::: :::: :::::::::::: d1o97c_ 95 -SDAIVVGRILTEVIKKEAPDMVFAGVQssdQAYA-STGISVASYLNWphaavvadlqyk 152 d1vl2a1 136 ------------------------LKVISPWkdpeflakfktdLINYAmeKGIP------ 165 ::::::: ::::: :::: d1o97c_ 153 pgdnkavirreleggmlqeveincPAVLTIQ-----------lGINKP--RYASpieevs 199 d1vl2a1 166 ---------------------------------------------------i 166 d1o97c_ 200 ladiglsandvgaaqsmsrvrrmyipekgratmiegtiseqaakiiqiinef 251 FAST alignment (Normalized score: 6.13 Raw score:1251.00) d1vl2a1 1 KEKVVLAYS--------------------------GGLDTSVILKWLCE------KGFDV 28 :::::::: :::::::::::::: ::::: d1o97c_ 1 -MKILVAVKQTAALEEDFEIREDGMDVDEDFMMYDLNEWDDFSLEEAMKIKESSDTDVEV 59 d1vl2a1 29 IAYVANVGQK---DDFVAIKEKALKTGASKVYVED-LRREFVTDYIFTALLGNAMYEGRY 84 :::: :::::::::::::::::::: ::::::: d1o97c_ 60 VVVS------VGPDRVDESLRKCLAKGADRAVR--VWDDAAEG----------------- 94 d1vl2a1 85 LLGTAI-ARPLIAKRQVEIAEKEGAQYVAHGATGK---------GNDQVRFELTYAALN- 133 ::::::::::::::::::::::: :::::::::: d1o97c_ 95 ------SDAIVVGRILTEVIKKEAPDMVFA-----GVQSSDQAYASTGISVASY-----L 138 d1vl2a1 134 ------------------------------------PNLKVISPWKDPEFLAKFKTDLIN 157 ::::::: d1o97c_ 139 NWPHAAVVADLQYKPGDNKAVIRRELEGGMLQEVEINCPAVLT----------------- 181 d1vl2a1 158 YAM------EKGIPI--------------------------------------------- 166 :::: d1o97c_ 182 ---IQLGINKPRY--ASPIEEVSLADIGLSANDVGAAQSMSRVRRMYIPEKGRATMIEGT 236 d1vl2a1 167 --------------- 167 d1o97c_ 237 ISEQAAKIIQIINEF 251 TMalign alignment (TM-score: 0.58 Raw score:97.07) d1vl2a1 1 KEKVVLAYS--------------------------GGLDTSVILKWLCEKG------FDV 28 :::::::: :::::::::::::::: ::: d1o97c_ 1 -MKILVAVKQTAALEEDFEIREDGMDVDEDFMMYDLNEWDDFSLEEAMKIKESSDTDVEV 59 d1vl2a1 29 IAYVANVGQKDDFVAIKEKALKTGASKVYVEDLRREFVTDYIFTALLGNAMYEGRYLLGT 88 :::::: : ::::::::::::::::::::::::: :: : :: d1o97c_ 60 VVVSVG-P--DRVDESLRKCLAKGADRAVRVWDDA-AE---G----------------SD 96 d1vl2a1 89 AIARPLIAKRQVEIAEKEGAQYVAHGAT-----GKGNDQVRFELTYAALNPNLKVISPWK 143 :::::::::::::::: ::::::::: ::::::::::::: : :: : :: d1o97c_ 97 AIVVGRILTEVIKKEA---PDMVFAGVQSSDQA-YASTGISVASYLN---W--PH-A-AV 145 d1vl2a1 144 DPEF-------------L-----A------------KFKTDLINYAMEKGIP-------- 165 :::: : : ::: :: ::: :::: d1o97c_ 146 VADLQYKPGDNKAVIRRELEGGMLQEVEINCPAVLTIQL-GI-NKP--RYASPIEEVSLA 201 d1vl2a1 166 --------------------------------------------------I 166 d1o97c_ 202 DIGLSANDVGAAQSMSRVRRMYIPEKGRATMIEGTISEQAAKIIQIINEF- 251 HHsearch alignment (Probability: 0.18 E-value:0.13) d1vl2a1 27 DVIAYVANVGQKDDFVAIKEKALKTGASKVYVEDLRREFVTDYIFTALLGNAMYEGRYLL 86 :::::::: : :::::::::::::::::::::::::: d1o97c_ 58 EVVVVSVG--P-DRVDESLRKCLAKGADRAVRVWDDAA---------------------- 92 d1vl2a1 87 GTAIARPLIAKRQVEIAEKEGAQYVAHGATGKGND 121 :::::::::::::::::::::::::::::::::: d1o97c_ 93 -EGSDAIVVGRILTEVIKKEAPDMVFAGVQSSDQA 126