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 | d1nvmb1 | Acetaldehyde dehydrogenase (acylating) | NAD(P)-binding Rossmann-fold domains | NAD(P)-binding Rossmann-fold domains | 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 <-- 1.305 --> HitDALI alignment (Z-score: 7.3 Raw score:562.00) d1vl2a1 1 ---KEKVVLAYSgGLDTSVILKWLCEKG--FDVI-AYVANvgqkddFVAI-KEKALKTGA 53 ::::::::: ::::::::::::::: :::: ::::: :::: ::::::::: d1nvmb1 1 mnqKLKVAIIGS-GNIGTDLMIKVLRNAkyLEMGaMVGID------AASDgLARAQRMGV 53 d1vl2a1 54 sKVYVEdlrrefvtdyiftallgnamyegryllgtaiarplIAKRQVEIaEKEG-AQYVA 112 ::::: :::::::: :::: ::::: d1nvmb1 54 -TTTYA-----------------------------------GVEGLIKL-PEFAdIDFVF 76 d1vl2a1 113 HGATGkgNDQVRFELTYAALNPNLKVISPW-----------------------KDPEfla 149 ::::: ::::::::::::::::::::::: :::: d1nvmb1 77 DATSA--SAHVQNEALLRQAKPGIRLIDLTpaaigpycvpvvnleehlgklnvNMVT--- 131 d1vl2a1 150 kfkTDLIN----------yamekgipi 166 ::::: d1nvmb1 132 -yaGNLDImtsaalataermaqsmlna 157 FAST alignment (Normalized score: 6.47 Raw score:1045.00) d1vl2a1 1 ---KEKVVLAYSGGLDTSVILKWLCE--KGFDV-IAYVANVGQKDDF----VAIKEKALK 50 :::::: :::::::::::::::: ::::: :::: ::::::::: d1nvmb1 1 MNQKLKVAI-IGSGNIGTDLMIKVLRNAKYLEMGAMVG---------IDAASDGLARAQR 50 d1vl2a1 51 TGASKVYVEDLRREFVTDYIFTALLGNAMYEGRYLLGTAIARP-LIAKRQVEIAEK---- 105 :: :::: :::::::: d1nvmb1 51 MG-VTTT------------------------------------YAGVEGLIK----LPEF 69 d1vl2a1 106 EGAQYVAHGATGKGNDQVRFELTYAALNPNLKVISPWKDPEFLAKFKTDLINYAMEKGIP 165 ::::::::::: ::::::::::::::::::::::: d1nvmb1 70 ADIDFVFDATS--ASAHVQNEALLRQAKPGIRLIDL------------------------ 103 d1vl2a1 166 I------------------------------------------------------ 166 d1nvmb1 104 -TPAAIGPYCVPVVNLEEHLGKLNVNMVTYAGNLDIMTSAALATAERMAQSMLNA 157 TMalign alignment (TM-score: 0.51 Raw score:85.27) d1vl2a1 1 ---KEKVVLAYSGGLDTSVILKWLC-EKG-FDVIAYVANVGQKDDFVAIKEKALKTGASK 55 ::::::::: :::::::::::: ::: ::::::::: : ::: :::::::: ::: d1nvmb1 1 MNQKLKVAIIGS-GNIGTDLMIKVLRNAKYLEMGAMVGI--D-AAS-DGLARAQR--MGV 53 d1vl2a1 56 VYVEDLRREFVTDYIFTALLGNAMYEGRYLLGTAIARPLIAKRQVEI-AEKEGAQYVAHG 114 :::: : :::::::: ::: :::::::: d1nvmb1 54 TTTY-A---------------------------------GVEGLIKLPEFA-DIDFVFDA 78 d1vl2a1 115 ATGKGNDQVRFELTYAALNPNLKVISPW------KDPE-------------FLAKF-KTD 154 :: :::::::::::::::::::::::: :::: ::: : :: d1nvmb1 79 TS--ASAHVQNEALLRQAKPGIRLIDLTPAAIGPYCVPVVNLEEHLGKLNVNMV-TY-AG 134 d1vl2a1 155 LINYA-------------------MEKGIPI 166 :: :: d1nvmb1 135 NL-DIMTSAALATAERMAQSMLNA------- 157 HHsearch alignment (Probability: 0.01 E-value:0.72) d1vl2a1 2 EKVVLAY--SGGLDTSVILKWLCEKG-FDVIAYVANVGQKDDFVAIKEKALKTGAS 54 ::::::: ::::::::::::::::: :::::::: : :::::::::::::::: d1nvmb1 3 QKLKVAIIGSGNIGTDLMIKVLRNAKYLEMGAMVG-I---DAASDGLARAQRMGVT 54