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: T0542_Ad2+3.pdb
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 <-- 1.905 --> IntermediateDALI alignment (Z-score: 12.5 Raw score:953.20) query 1 dadeevysalvvglrayvakngFRSVLIGLSGGIDSALVAAIACDALGaqNVYGVSMPSK 60 :::::::::::::::::::::::::: :::::::::: d1vl2a1 1 ----------------------KEKVVLAYSGGLDTSVILKWLCEKGF--DVIAYVANVG 36 query 61 ySSDHsKGDAAELARRTGL-NFRTVSIEPMFDAY-MASLG-------ltGLAEENLQSRL 111 :::: ::::::::::::: :::::::::::::: ::::: ::::::::::: d1vl2a1 37 -QKDD-FVAIKEKALKTGAsKVYVEDLRREFVTDyIFTALlgnamyegrYLLGTAIARPL 94 query 112 RGTTLMAISNQEGH-IVLAPGNKselavGYST-lyGDSV--------gAYGPIK----DV 157 :::::::::::::: :::::::: :::: :::: :::::: :: d1vl2a1 95 IAKRQVEIAEKEGAqYVAHGATG-----KGNDqvrFELTyaalnpnlkVISPWKdpefLA 149 query 158 YK-TSIFRLAEWRnraaaergqtPPIPeasitkpdypvldailelyvdrdtgadaivaag 216 :: :::::::::: :::: d1vl2a1 150 KFkTDLINYAMEK----------GIPI--------------------------------- 166 query 217 ydrelvvktlrmvdtaeykrrqyppgtkisakgfgkdrrlpitnrwregh 266 d1vl2a1 167 -------------------------------------------------- 167 FAST alignment (Normalized score: 7.91 Raw score:1662.00) query 1 DADEEVYSALVVGLRAYVAKNGF-RSVLIGLSGGIDSALVAAIACDALGAQNVYGVSMPS 59 :::::::::::::::::::::: ::: ::::::::: d1vl2a1 1 -----------------------KEKVVLAYSGGLDTSVILKWLCE-KGF-DVIAYVANV 35 query 60 KYSSDHSKGDAAELARRTG-LNFRTVSIEPMFD-AYMA---SLGLTGL-------AEENL 107 :::: ::::::::::::: ::::::::::::: :::: :::: ::::: d1vl2a1 36 -GQKD-DFVAIKEKALKTGASKVYVEDLRREFVTDYIFTALLGNA---MYEGRYLLGTAI 90 query 108 QSRLRGTTLMAISNQEG-HIVLAPGNKSELAVGYSTLY------GDSVG---------AY 151 ::::::::::::::::: :::::::::: :::: :: d1vl2a1 91 ARPLIAKRQVEIAEKEGAQYVAHGATGK----------GNDQVRFELT-YAALNPNLKVI 139 query 152 GPIKDVY----------KTSIFRLAEWRNRAAAERGQTPPIPEASITKPDYPVLDAILEL 201 :: :::::::::: d1vl2a1 140 SP-----WKDPEFLAKFKTDLINYAME--------------------------------- 161 query 202 YVDRDTGADAIVAAGYDRELVVKTLRMVDTAEYKRRQYPPGTKISAKGFGKDRRLPITNR 261 d1vl2a1 162 ------------------------------------------------------------ 162 query 262 WREGH----- 266 d1vl2a1 162 -----KGIPI 166 TMalign alignment (TM-score: 0.47 Raw score:124.53) query 1 DADEEVYSALVVGLRAYVAKNGFRSVLIGLSGGIDSALVAAIACDALGAQNVYGVSMPSK 60 :::::::::::::::::::::::::: :::::::::: d1vl2a1 1 ----------------------KEKVVLAYSGGLDTSVILKWLCEKGF--DVIAYVANVG 36 query 61 YSSDHSKGDAAELARRTGL-NFRTVSIEPMFDAY-MASLG---LT----GLAEENLQSRL 111 :::: ::::::::::::: :::::::::::::: ::::: :: ::::::::::: d1vl2a1 37 -QKDD-FVAIKEKALKTGASKVYVEDLRREFVTDYIFTALLGNAMYEGRYLLGTAIARPL 94 query 112 RGTTLMAISNQEGH-IVLAPGNKSELAVGYSTLYGDS-VG--------AYGPIK-D--VY 158 :::::::::::::: :::::::: : :::::::: :: :::::: : :: d1vl2a1 95 IAKRQVEIAEKEGAQYVAHGATG--K---GNDQVRFELTYAALNPNLKVISPWKDPEFLA 149 query 159 KTSIFRLAEWRNRAAAERGQTPPIPEASITKPDYPVLDAILELYVDRDTGADAIVAAGYD 218 :::::::::::: : : ::: d1vl2a1 150 -KFKTDLINYAME-K------G-IPI---------------------------------- 166 query 219 RELVVKTLRMVDTAEYKRRQYPPGTKISAKGFGKDRRLPITNRWREGH 266 d1vl2a1 167 ------------------------------------------------ 167 HHsearch alignment (Probability: 0.97 E-value:0.00) query 24 RSVLIGLSGGIDSALVAAIACDALGAQNVYGVSMPSKYSSDHSKGDAAELARRTGL-NFR 82 ::::::::::::::::::::::: ::: ::::::: ::::::::::::::::::: ::: d1vl2a1 2 EKVVLAYSGGLDTSVILKWLCEK-GFD-VIAYVAN--VGQKDDFVAIKEKALKTGASKVY 57 query 83 TVSIEPMFDAYMASLGLTGLA--------EENLQSRLRGTTLMAISNQEGHIVLAPG--- 131 ::::::::::::::::::::: :::::::::::::::::::::::::::: d1vl2a1 58 VEDLRREFVTDYIFTALLGNAMYEGRYLLGTAIARPLIAKRQVEIAEKEGAQYVAHGATG 117 query 132 ---NKSELAVGYSTLYGDSVGAYGP-----IKDVYKTSIFRLAEWRNRAA 173 :::::::::::::::::: ::: :::::::::::::::::::: d1vl2a1 118 KGNDQVRFELTYAALNPNLKV-ISPWKDPEFLAKFKTDLINYAMEKGIPI 166
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