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 | d1efvb_ | 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 <-- 1.926 --> HitDALI alignment (Z-score: 8.8 Raw score:764.00) d1vl2a1 1 kEKVVLAYS--------------------------GGLDTSVILKWLCEKG-----FDVI 29 :::::::: :::::::::::::::: :::: d1efvb_ 1 -LRVLVAVKrvidyavkirvkpdrtgvvtdgvkhsMNPFCEIAVEEAVRLKekklvKEVI 59 d1vl2a1 30 AYVANVgqkDDFVAIKEKALKTGASKVYVEDLR-REFVtdyiftallgnamyegryllgt 88 :::::: :::::::::::::::::::::::: :::: d1efvb_ 60 AVSCGP---AQCQETIRTALAMGADRGIHVEVPpAEAE---------------------- 94 d1vl2a1 89 aIARPLIAKRQVEIAEKEGAQYVAHGAT-gkGNDQvRFELTYAALNPN------------ 135 ::::::::::::::::::::::::::: :::: :::::::::::: d1efvb_ 95 rLGPLQVARVLAKLAEKEKVDLVLLGKQaidDDCN-QTGQMTAGFLDWpqgtfasqvtle 153 d1vl2a1 136 ---------------------LKVISPWkdPEFLakfktdlinyameKGIPI-------- 166 ::::::: :::: ::::: d1efvb_ 154 gdklkvereidggletlrlklPAVVTAD--LRLN-----------epRYATLpnimkakk 200 d1vl2a1 167 ---------------------------------------------------- 167 d1efvb_ 201 kkievikpgdlgvdltsklsvisvedppqrtagvkvettedlvaklkeigri 252 FAST alignment (Normalized score: 6.60 Raw score:1349.00) d1vl2a1 1 KEKVVLAYS--------------------------GGLDTSVILKWLCEKG-------FD 27 :::::::: :::::::::::::: :: d1efvb_ 1 -LRVLVAVKRVIDYAVKIRVKPDRTGVVTDGVKHSMNPFCEIAVEEAVR--LKEKKLVKE 57 d1vl2a1 28 VIAYVANVGQK---DDFVAIKEKALKTGASKVYVED-LRREFVTDYIFTALLGNAMYEGR 83 ::::: :::::::::::::::::::::: :::::: d1efvb_ 58 VIAVS------CGPAQCQETIRTALAMGADRGIHVEVPPAEAE----------------- 94 d1vl2a1 84 YLLGTAI--ARPLIAKRQVEIAEKEGAQYVAHGATGK---------GNDQVRFELTYAAL 132 ::::::::::::::::::::::: :::::::::: d1efvb_ 95 -------RLGPLQVARVLAKLAEKEKVDLVLL-----GKQAIDDDCNQTGQMTAGF---- 138 d1vl2a1 133 N----------------------------------PNLKVISPWKDPEFLAKFKTDLINY 158 ::::::: d1efvb_ 139 -LDWPQGTFASQVTLEGDKLKVEREIDGGLETLRLKLPAVVT------------------ 179 d1vl2a1 159 AMEKGIPI---------------------------------------------------- 166 d1efvb_ 180 --------ADLRLNEPRYATLPNIMKAKKKKIEVIKPGDLGVDLTSKLSVISVEDPPQRT 231 d1vl2a1 167 --------------------- 167 d1efvb_ 232 AGVKVETTEDLVAKLKEIGRI 252 TMalign alignment (TM-score: 0.61 Raw score:100.70) d1vl2a1 1 KEKVVLAYS--------------------------GGLDTSVILKWLCEKG----F-DVI 29 :::::::: :::::::::::::::: : ::: d1efvb_ 1 -LRVLVAVKRVIDYAVKIRVKPDRTGVVTDGVKHSMNPFCEIAVEEAVRLKEKKLVKEVI 59 d1vl2a1 30 AYVANVGQKDDFVAIKEKALKTGASKVYVEDLRREFVTDYIFTALLGNAMYEGRYLLGTA 89 ::::: : :::::::::::::::::::::::::::: :: d1efvb_ 60 AVSCG-P--AQCQETIRTALAMGADRGIHVEVPPAEA--ER------------------- 95 d1vl2a1 90 IARPLIAKRQVEIAEKEGAQYVAHGATG--KGNDQVRFELTYAALNPN------------ 135 :::::::::::::::::::::::::::: :::: :::::::::::: d1efvb_ 96 LGPLQVARVLAKLAEKEKVDLVLLGKQAID-DDCN-QTGQMTAGFLDWPQGTFASQVTLE 153 d1vl2a1 136 ---------------------LKVISPWKDPEFLAKFKTDLINYAMEKG--IP------- 165 ::::::: :::: : ::: :: :: d1efvb_ 154 GDKLKVEREIDGGLETLRLKLPAVVTAD----LRLN----E--PRY-ATLPNIMKAKKKK 202 d1vl2a1 166 --------------------------------------------------I 166 d1efvb_ 203 IEVIKPGDLGVDLTSKLSVISVEDPPQRTAGVKVETTEDLVAKLKEIGRI- 252 HHsearch alignment (Probability: 0.13 E-value:0.08) d1vl2a1 20 WLCEK--GFDVIAYVANVGQKDDFVAIKEKALKTGASKVYVEDLRREFVTDYIFTALLGN 77 ::::: ::::::::::: :::::::::::::::::::::::::: d1efvb_ 48 RLKEKKLVKEVIAVSCGP---AQCQETIRTALAMGADRGIHVEVPPA------------- 91 d1vl2a1 78 AMYEGRYLLGTAIARPLIAKRQVEIAEKEGAQYVAHGATGK 118 ::::: :::::::::::::::::::::::::::: d1efvb_ 92 ---EAERL-----GPLQVARVLAKLAEKEKVDLVLLGKQAI 124