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 | d1od6a_ | Phosphopantetheine adenylyltransferase | Nucleotidylyl transferase | 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 <-- 1.574 --> HitDALI alignment (Z-score: 9.1 Raw score:670.60) d1vl2a1 1 kEKVVLAYSG---GLDTSVILKWLCEKGFDVIAYVANVGQKDDFVAIKEKALKTG----a 53 ::::::::: :::::::::::::::::::::::::::::::::::::::::: d1od6a_ 1 -MHVVYPGSFdplTNGHLDVIQRASRLFEKVTVAVLENQYLFSAEERLAIIREATahlan 59 d1vl2a1 54 SKVYVEDLrrefvtdyiftallgnamyegryllgtaiarpliakRQVEIAEKEGAQYVAH 113 :::::::: :::::::::::::::: d1od6a_ 60 VEAATFSG------------------------------------LLVDFVRRVGAQAIVK 83 d1vl2a1 114 GAT--GKGNDQVRFELTYAALNPNLKVISPWkdpeFLAKFK--------------tdlIN 157 ::: :::::::::::::::::::::::::: :::::: :: d1od6a_ 84 GLRavSDYEYELQMAHLNRQLYPGLETLFIL----AATRYSfvsstmvkeiaryggdvSK 139 d1vl2a1 158 YAmekGIPI--------- 166 :: :::: d1od6a_ 140 LV--pPATLralkaklgq 155 FAST alignment (Normalized score: 7.41 Raw score:1189.00) d1vl2a1 1 KEKVVLAYS----GGLDTSVILKWLCEKG--FDVIAYVANVGQKDDFVAIKEKALKTGA- 53 ::::::: :::::::::::::: ::::::::::::::::::::::::: d1od6a_ 1 -MHVVYPG-SFDPLTNGHLDVIQRASR--LFEKVTVAVLENQYLFSAEERLAIIRE---A 53 d1vl2a1 54 ------SKVYVEDLRREFVTDYIFTALLGNAMYEGRYLLGTAIARPLIAK--RQVEIAEK 105 :::::: :::::::: d1od6a_ 54 TAHLANVEAATF--------------------------------------SGLLVDFVRR 75 d1vl2a1 106 EGAQYVAHGATGK--GNDQVRFELTYAALNPNLKVISPWKDPEF---LAKFKTDLINYAM 160 ::::::::::::: :::::::::::::::::::::: :::: d1od6a_ 76 VGAQAIVKGLRAVSDYEYELQMAHLNRQLYPGLETLF-------ILAATRY--------- 119 d1vl2a1 161 EKGIPI------------------------------------ 166 d1od6a_ 120 ------SFVSSTMVKEIARYGGDVSKLVPPATLRALKAKLGQ 155 TMalign alignment (TM-score: 0.56 Raw score:92.99) d1vl2a1 1 KEKVVLAY-S--GGLDTSVILKWLCEKGFDVIAYVANVGQKDDFVAIKEKAL-KT--G-A 53 ::::::: : :::::::::::::::::::::::::::::::::::::::: :: : : d1od6a_ 1 -MHVVYPGSFDPLTNGHLDVIQRASRLFEKVTVAVLENQYLFSAEERLAIIREATAHLAN 59 d1vl2a1 54 SKVYVEDLRREFVTDYIFTALLGNAMYEGRYLLGTAIARPLIAKRQVEIAEKEGAQYVAH 113 :::::::: :::::::::::::::: d1od6a_ 60 VEAATFSG------------------------------------LLVDFVRRVGAQAIVK 83 d1vl2a1 114 GATG-KG-NDQVRFELTYAALNPNLKVISPWKDPEFLAKFKTDLI--------------- 156 :::: :: ::::::::::::::::::::::: : :: ::: d1od6a_ 84 GLRAVSDYEYELQMAHLNRQLYPGLETLFIL----A---AT-RYSFVSSTMVKEIARYGG 135 d1vl2a1 157 --NYAM---EKGIP-I---------- 166 : :: : d1od6a_ 136 DV---SKLV---PPATLRALKAKLGQ 155 HHsearch alignment (Probability: 0.12 E-value:0.03) d1vl2a1 98 RQVEIAEKEGAQYVAHGATGKGNDQVRFE--LTYAALNPNLKVISPWKDPEFLAKFKTDL 155 ::::::::::::::::::::::::::::: ::::::::::::::::::::::::::::: d1od6a_ 68 LLVDFVRRVGAQAIVKGLRAVSDYEYELQMAHLNRQLYPGLETLFILAATRYSFVSSTMV 127 d1vl2a1 156 INYAMEKG 163 :::::::: d1od6a_ 128 KEIARYGG 135