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 | d1di6a_ | MogA | Molybdenum cofactor biosynthesis proteins | Molybdenum cofactor biosynthesis proteins | 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 <-- 1.147 --> HitDALI alignment (Z-score: 4.2 Raw score:409.10) d1vl2a1 1 -KEKVVLAY--sgGLDTSVILKWLCEKG---FDVIAYVANvgqkddfvaikekalktgas 54 :::::::: ::::::::::::::: ::::::::: d1di6a_ 1 aTLRIGLVSisdrDKGIPALEEWLTSALttpFELETRLIP-------------------- 40 d1vl2a1 55 kvyvedlrrefvtdyiftallgnamyegryllgtaiARPLIAKRQVEIAEKEGAQYVAHG 114 :::::::::::::::::::::::: d1di6a_ 41 -----------------------------------dEQAIIEQTLCELVDEMSCHLVLTT 65 d1vl2a1 115 ATGKG---NDQVRFELTYAA-----------------------------lNPNLKVISPW 142 ::::: :::::::::::: :::::::::: d1di6a_ 66 GGTGParrDVTPDATLAVADrempgfgeqmrqislhfvptailsrqvgviRKQALILNLP 125 d1vl2a1 143 -----kdPEFLA-----------------------------kfktdlinyamekgipi 166 ::::: d1di6a_ 126 gqpksikETLEGvkdaegnvvvhgifasvpyciqllegpyvetapevvaafrpksarr 183 FAST alignment (Normalized score: 3.22 Raw score:561.30) d1vl2a1 1 -KEKVVLAYSG----GLDTSVILKWLCE---KGFDVIAYVANVGQKDDFVAIKEKALKTG 52 :::::::: ::::::::::::: :::::::::: d1di6a_ 1 ATLRIGLVS--ISDRDKGIPALEEWLTSALTTPFELETRLI------------------- 39 d1vl2a1 53 ASKVYVEDLRREFVTDYIFTALLGNAMYEGRYLLGTAI--ARPLIAKRQVEIAEKEGAQY 110 :::::::::::::::::::: d1di6a_ 40 --------------------------------------PDEQAIIEQTLCELVDEMSCHL 61 d1vl2a1 111 VAHGATGK---------GNDQVRFELTYAAL----------------------------- 132 ::: :::::::::: d1di6a_ 62 VLT-----TGGTGPARRDVTPDATLAV----ADREMPGFGEQMRQISLHFVPTAILSRQV 112 d1vl2a1 133 ---NPNLKVISPWKDPEFLAKFKTDLINYAMEKGIPI----------------------- 166 :::::::: d1di6a_ 113 GVIRKQALILN--------------------------LPGQPKSIKETLEGVKDAEGNVV 146 d1vl2a1 167 ------------------------------------- 167 d1di6a_ 147 VHGIFASVPYCIQLLEGPYVETAPEVVAAFRPKSARR 183 TMalign alignment (TM-score: 0.43 Raw score:71.11) d1vl2a1 1 -KEKVVLAYSG--GLDTSVILKWLCEKG---FDVIAYVANVGQKDDFVAIKEKALKTGAS 54 :::::::::: ::::::::::::::: :::::::: : d1di6a_ 1 ATLRIGLVSISDRDKGIPALEEWLTSALTTPFELETRLI-P------------------- 40 d1vl2a1 55 KVYVEDLRREFVTDYIFTALLGNAMYEGRYLLGTAIARPLIAKRQVEIAEKEGAQYVAHG 114 : :::::::::::::::::::::::: d1di6a_ 41 ---------------------------------D--EQAIIEQTLCELVDEMSCHLVLTT 65 d1vl2a1 115 ATGKGNDQVRFELTYAALNP------------------------------N--LKVISPW 142 :::::::::::::::::::: : ::::::: d1di6a_ 66 GGTGPARRDVTPDATLAVADREMPGFGEQMRQISLHFVPTAILSRQVGVIRKQALILNLP 125 d1vl2a1 143 -----K-DPEFLAK--------------------------------------------FK 152 : ::::::: d1di6a_ 126 GQPKSIKETLEGVKDAEGNVVVHGIFASVPYCIQLLEGPYVETAPEVVAAFRPKSARR-- 183 d1vl2a1 153 TDLINYAMEKGIPI 166 d1di6a_ 184 -------------- 184 HHsearch alignment (Probability: 0.02 E-value:0.14) d1vl2a1 15 SVILKWLCEKGFDVIAYVANVGQKDDFVAIKEKALK 50 :::::::::::::::::::: ::::::::::::::: d1di6a_ 18 PALEEWLTSALTTPFELETR-LIPDEQAIIEQTLCE 52