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: T542_A.pdb A
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 | d1efva1 | Large, alpha subunit of electron transfer flavoprotein ETFP, N-terminal domain | Adenine nucleotide alpha hydrolases-like | Adenine nucleotide alpha hydrolase-like | α/β |
Query <-- 1.669 --> IntermediateDALI alignment (Z-score: 12.4 Raw score:948.50) query 1 slqlrlalnqidstvgdiagnaeailrwtrhsaeqgahlvafpemaltgypvedlalrss 60 d1vl2a1 1 ------------------------------------------------------------ 1 query 61 fveasrtalrelaarlaeegfgelpvlvgyldrsesaqpkygqpagaprnaaavlhrgrv 120 d1vl2a1 1 ------------------------------------------------------------ 1 query 121 altfakhhlpnygvfdefryfvpgdtmpivrlhgvdialaicedlwqdggrvpaarsaga 180 d1vl2a1 1 ------------------------------------------------------------ 1 query 181 glllsvnaspyerdkddtrlelvrkraqeagcttaylamiggqdelvfdgdsivvdrdge 240 d1vl2a1 1 ------------------------------------------------------------ 1 query 241 vvarapqfsegcvvldldlpaaeaepptgvvddglridrlviseeplpayeaelaggyad 300 d1vl2a1 1 ------------------------------------------------------------ 1 query 301 rldadeevysalvvglrayvakngFRSVLIGLSGGIDSALVAAIACDALGaqNVYGVSMP 360 :::::::::::::::::::::::::: :::::::: d1vl2a1 1 ------------------------KEKVVLAYSGGLDTSVILKWLCEKGF--DVIAYVAN 34 query 361 SKySSDHsKGDAAELARRTGL-NFRTVSIEPMFDAY-MASLG-------ltGLAEENLQS 411 :: :::: ::::::::::::: :::::::::::::: ::::: ::::::::: d1vl2a1 35 VG-QKDD-FVAIKEKALKTGAsKVYVEDLRREFVTDyIFTALlgnamyegrYLLGTAIAR 92 query 412 RLRGTTLMAISNQEGH-IVLAPGNKselavGYST-lyGDSV--------gAYGPIK---- 457 :::::::::::::::: :::::::: :::: :::: :::::: d1vl2a1 93 PLIAKRQVEIAEKEGAqYVAHGATG-----KGNDqvrFELTyaalnpnlkVISPWKdpef 147 query 458 DVYK-TSIFRLAEWRnraaaergqtPPIPeasitkpdypvldailelyvdrdtgadaiva 516 :::: :::::::::: :::: d1vl2a1 148 LAKFkTDLINYAMEK----------GIPI------------------------------- 166 query 517 agydrelvvktlrmvdtaeykrrqyppgtkisakgfgkdrrlpitnrwregh 568 d1vl2a1 167 ---------------------------------------------------- 167 FAST alignment (Normalized score: 5.35 Raw score:1644.00) query 1 SLQLRLALNQIDSTVGDIAGNAEAILRWTRHSAEQGAHLVAFPEMALTGYPVEDLALRSS 60 d1vl2a1 1 ------------------------------------------------------------ 1 query 61 FVEASRTALRELAARLAEEGFGELPVLVGYLDRSESAQPKYGQPAGAPRNAAAVLHRGRV 120 d1vl2a1 1 ------------------------------------------------------------ 1 query 121 ALTFAKHHLPNYGVFDEFRYFVPGDTMPIVRLHGVDIALAICEDLWQDGGRVPAARSAGA 180 d1vl2a1 1 ------------------------------------------------------------ 1 query 181 GLLLSVNASPYERDKDDTRLELVRKRAQEAGCTTAYLAMIGGQDELVFDGDSIVVDRDGE 240 d1vl2a1 1 ------------------------------------------------------------ 1 query 241 VVARAPQFSEGCVVLDLDLPAAEAEPPTGVVDDGLRIDRLVISEEPLPAYEAELAGGYAD 300 d1vl2a1 1 ------------------------------------------------------------ 1 query 301 RLDADEEVYSALVVGLRAYVAKNGF-RSVLIGLSGGIDSALVAAIACDALGAQNVYGVSM 359 :::::::::::::::::::::: ::: ::::::: d1vl2a1 1 -------------------------KEKVVLAYSGGLDTSVILKWLCE-KGF-DVIAYVA 33 query 360 PS-KYS-SDHSKGDAAELARRTG---LNFRTVSIEPMFD-AYMA---SLGLTGL------ 404 :: ::: :::::::::: ::::::::::::: :::: :::: d1vl2a1 34 NVGQKDDFVAIKEKALK------TGASKVYVEDLRREFVTDYIFTALLGNA---MYEGRY 84 query 405 -AEENLQSRLRGTTLMAISNQEG-HIVLAPGNKSELAVGYSTLY------GDSVG----- 451 :::::::::::::::::::::: :::::::::: :::: d1vl2a1 85 LLGTAIARPLIAKRQVEIAEKEGAQYVAHGATGK----------GNDQVRFELT-YAALN 133 query 452 ----AYGPIKDVY----------KTSIFRLAEWRNRAAAERGQTPPIPEASITKPDYPVL 497 :::: :::::::::: d1vl2a1 134 PNLKVISP-----WKDPEFLAKFKTDLINYAME--------------------------- 161 query 498 DAILELYVDRDTGADAIVAAGYDRELVVKTLRMVDTAEYKRRQYPPGTKISAKGFGKDRR 557 d1vl2a1 162 ------------------------------------------------------------ 162 query 558 LPITNRWREGH----- 568 d1vl2a1 162 -----------KGIPI 166 TMalign alignment (TM-score: 0.23 Raw score:131.95) query 1 SLQLRLALNQIDSTVGDIAGNAEAILRWTRHSAEQGAHLVAFPEMALTGYPVEDLALRSS 60 d1vl2a1 1 ------------------------------------------------------------ 1 query 61 FVEASRTALRELAARLAEEGFGELPVLVGYLDRSESAQPKYGQPAGAPRNAAAVLHRGRV 120 d1vl2a1 1 ------------------------------------------------------------ 1 query 121 ALTFAKHHLPNYGVFDEFRYFVPGDTMPIVRLHGVDIALAICEDLWQDGGRVPAARSAGA 180 d1vl2a1 1 ------------------------------------------------------------ 1 query 181 GLLLSVNASPYERDKDDTRLELVRKRAQEAGCTTAYLAMIGGQDELVFDGDSIVVDRDGE 240 d1vl2a1 1 ------------------------------------------------------------ 1 query 241 VVARAPQFSEGCVVLDLDLPAAEAEPPTGVVDDGLRIDRLVISEEPLPAYEAELAGGYAD 300 d1vl2a1 1 ------------------------------------------------------------ 1 query 301 RLDADEEVYSALVVGLRAYVAKNGFRSVLIGLSGGIDSALVAAIACDALGAQNVYGVSMP 360 :::::::::::::::::::::::::: :::::::: d1vl2a1 1 ------------------------KEKVVLAYSGGLDTSVILKWLCEKGF--DVIAYVAN 34 query 361 SKYSSDHSKGDAAELARRTGL-NFRTVSIEPMFDAY-MASLG---LT----GLAEENLQS 411 :: :::: ::::::::::::: :::::::::::::: ::::: :: ::::::::: d1vl2a1 35 VG-QKDD-FVAIKEKALKTGASKVYVEDLRREFVTDYIFTALLGNAMYEGRYLLGTAIAR 92 query 412 RLRGTTLMAISNQEGH-IVLAPGNKSELAVGYSTLYGDS-VG--------AYGPIK-D-- 458 :::::::::::::::: :::::::: : :::::::: :: :::::: : d1vl2a1 93 PLIAKRQVEIAEKEGAQYVAHGATG--K---GNDQVRFELTYAALNPNLKVISPWKDPEF 147 query 459 VYKTSIFRLAEWRNRAAAERGQTPPIPEASITKPDYPVLDAILELYVDRDTGADAIVAAG 518 :: :::::::::::: : : ::: d1vl2a1 148 LA-KFKTDLINYAME-K------G-IPI-------------------------------- 166 query 519 YDRELVVKTLRMVDTAEYKRRQYPPGTKISAKGFGKDRRLPITNRWREGH 568 d1vl2a1 167 -------------------------------------------------- 167 HHsearch alignment (Probability: 0.96 E-value:0.00) query 326 RSVLIGLSGGIDSALVAAIACDALGAQNVYGVSMPSKYSSDHSKGDAAELARRTGL-NFR 384 ::::::::::::::::::::::: :::::::::: ::::::::::::::::::: ::: d1vl2a1 2 EKVVLAYSGGLDTSVILKWLCEK--GFDVIAYVAN--VGQKDDFVAIKEKALKTGASKVY 57 query 385 TVSIEPMFDAYM--------ASLGLTGLAEENLQSRLRGTTLMAISNQEGHIVLAPG--- 433 :::::::::::: ::::::::::::::::::::::::::::::::::::: d1vl2a1 58 VEDLRREFVTDYIFTALLGNAMYEGRYLLGTAIARPLIAKRQVEIAEKEGAQYVAHGATG 117 query 434 ---NKSELAVGYSTLYGDSVGAYGP-----IKDVYKTSIFRLAEWRN 472 ::::::::::::::: :::::: ::::::::::::::::: d1vl2a1 118 KGNDQVRFELTYAALNPN-LKVISPWKDPEFLAKFKTDLINYAMEKG 163
Intermediate <-- 1.752 --> HitDALI alignment (Z-score: 8.6 Raw score:691.90) d1vl2a1 1 kEKVVLAYS-----GGLDTSVILKWLCEKGFDVIAYVANVGqkddFVAIKEKALKT-GAS 54 :::::::: ::::::::::::::::::::::::::: ::::::::::: ::: d1efva1 1 -QSTLVIAEhandsLAPITLNTITAATRLGGEVSCLVAGTK----CDKVAQDLCKVaGIA 55 d1vl2a1 55 KVYVEDlRREFvtdyiftallgnamyegryllgtaiARPLIAKRQVEIAEKEGAQYVAHG 114 :::::: :::: :::::::::::::::::::::::: d1efva1 56 KVLVAQ-HDVY----------------------kglLPEELTPLILATQKQFNYTHICAG 92 d1vl2a1 115 ATgkgNDQVRFELTYAALNPN---------------------------------LKVISP 141 :: :::::::::::::::: :::::: d1efva1 93 AS---AFGKNLLPRVAAKLEVapisdiiaikspdtfvrtiyagnalctvkcdekVKVFSV 149 d1vl2a1 142 WkDPEFlakfktdlinyameKGIP---------------------------i 166 : :::: :::: d1efva1 150 R-GTSF------------daAATSggsassekasstspveisewldqkltks 188 FAST alignment (Normalized score: 7.27 Raw score:1284.00) d1vl2a1 1 KEKVVLAYS------GGLDTSVILKWLCEKGFDVIAYVANVGQK-DDFVAIKEKALK-TG 52 ::::::: :::::::::::::::::::::::: :::::::::::: :: d1efva1 1 -QSTLVIA-EHANDSLAPITLNTITAATRLGGEVSCLVA-----GTKCDKVAQDLCKVAG 53 d1vl2a1 53 ASKVYVEDLRREFVTDYIFTALLGNAMYEGRYLLGTAI-------ARPLIAKRQVEIAEK 105 :::::::: ::::::::::::::: d1efva1 54 IAKVLVAQ------------------------------HDVYKGLLPEELTPLILATQKQ 83 d1vl2a1 106 EGAQYVAHGATG-KGNDQVRFELTYAALN------------------------------- 133 :::::::: :::::::::::::::: d1efva1 84 FNYTHICA----GASAFGKNLLPRVAAKLEVAPISDIIAIKSPDTFVRTIYAGNALCTVK 139 d1vl2a1 134 --PNLKVISPWKDPEFLAKFKTDLINY--AMEKGIPI----------------------- 166 ::::::: :::: d1efva1 140 CDEKVKVFS------------------VRGTSF----DAAATSGGSASSEKASSTSPVEI 177 d1vl2a1 167 ----------- 167 d1efva1 178 SEWLDQKLTKS 188 TMalign alignment (TM-score: 0.60 Raw score:98.86) d1vl2a1 1 KEKVVLAYS-----GGLDTSVILKWLCEKGFDVIAYVANVGQKDDFVAIKEKALKT-GAS 54 :::::::: ::::::::::::::::::::::::: : : ::::::::::: ::: d1efva1 1 -QSTLVIAEHANDSLAPITLNTITAATRLGGEVSCLVAG-T--K-CDKVAQDLCKVAGIA 55 d1vl2a1 55 KVYVEDLRREFVTDYIFTALLGNAMYEGRYLLGTAIARPLIAKRQVEIAEKEGAQYVAHG 114 ::::::::: :: :: :::::::::::::::::::::::: d1efva1 56 KVLVAQHDV-YK--------------------GL--LPEELTPLILATQKQFNYTHICAG 92 d1vl2a1 115 ATGKGNDQVRFELTYAALNP---------------------------------NLKVISP 141 :: :::::::::::: ::: ::::::: d1efva1 93 AS--AFGKNLLPRVAA-KLEVAPISDIIAIKSPDTFVRTIYAGNALCTVKCDEKVKVFSV 149 d1vl2a1 142 WKDPEFLAKFKTDLINYAMEKGIP----------------------------I 166 : : :: : :: :::: d1efva1 150 R-----G--TS--F--DA--AATSGGSASSEKASSTSPVEISEWLDQKLTKS- 188 HHsearch alignment (Probability: 0.18 E-value:0.12) d1vl2a1 14 TSVILKWLCEKGFDVIAYVANVGQKDDFVAIKEKALKTGASKVYVEDLRREFVTDYIFTA 73 ::::::::::::::::::::::::::: ::::::::::::::::::::: :: d1efva1 18 TLNTITAATRLGGEVSCLVAGTKCDKV---AQDLCKVAGIAKVLVAQHDVY--KG----- 67 d1vl2a1 74 LLGNAMYEGRYLLGTAIARPLIAKRQVEIAEKEGAQYVAHGATGKGNDQVRFELTYAALN 133 ::: :::::::::::::::::::::::::: ::::::::::: d1efva1 68 -----------LLP-----EELTPLILATQKQFNYTHICAGASAF----GKNLLPRVAAK 107