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 | d1qyca_ | Phenylcoumaran benzylic ether reductase | NAD(P)-binding Rossmann-fold domains | NAD(P)-binding Rossmann-fold domains | 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 <-- 0.616 --> HitDALI alignment (Z-score: 8.3 Raw score:534.10) d1vl2a1 1 --KEKVVLAYSGGLDTSVILKWLCEKGFDVIAYVAnvGQKD----DFVAIKEKALKTGAs 54 ::::::::::::::::::::::::::::::::: :::: :::::::::::::: d1qyca_ 1 gsRSRILLIGATGYIGRHVAKASLDLGHPTFLLVR--ESTAssnsEKAQLLESFKASGA- 57 d1vl2a1 55 KVYVEdlrrefvtdyiftallgnamyegryllgtaiARPLIAKRQVEIAekegaQYVAHG 114 ::::: ::::::::::::: :::::: d1qyca_ 58 NIVHG-----------------------------siDDHASLVEAVKNV-----DVVIST 83 d1vl2a1 115 ATGKG-NDQVRFELTYAaLNPNL-KVISP------------------------------- 141 ::::: ::::::::::: ::::: ::::: d1qyca_ 84 VGSLQiESQVNIIKAIK-EVGTVkRFFPSefgndvdnvhavepaksvfevkakvrraiea 142 d1vl2a1 142 ------------------------------------------------------------ 142 d1qyca_ 143 egipytyvssncfagyflrslaqagltapprdkvvilgdgnarvvfvkeedigtftikav 202 d1vl2a1 142 ------------------------------------------------------------ 142 d1qyca_ 203 ddprtlnktlylrlpantlslnelvalwekkidktlekayvpeeevlkliadtpfpanis 262 d1vl2a1 142 --------------------wkdpeflakfktdlinyamekgipi 166 d1qyca_ 263 iaishsifvkgdqtnfeigpagveasqlypdvkyttvdeylsnfv 307 FAST alignment (Normalized score: 3.89 Raw score:877.40) d1vl2a1 1 --KEKVVLAY--SGGLDTSVILKWLCEKGFDVIAYVANVGQKD---------DFVAIKEK 47 :::::: :::::::::::::::::::::::: :::::::: d1qyca_ 1 GSRSRILL--IGATGYIGRHVAKASLDLGHPTFLLV-------RESTASSNSEKAQLLES 51 d1vl2a1 48 ALKTGASKVYVEDLRREFVTDYIFTALLGNAMYEGRYLLG-------------------- 87 :::::: :::::::: d1qyca_ 52 FKASGA-NIVHGSID-------------------------DHASLVEAVKNVDVVISTVG 85 d1vl2a1 88 --TAIARPLIAKRQVEIAEKE--GAQYVAHGATGK--------------GNDQVRFELTY 129 :::::::::::::: :::::::::::: ::::::::::: d1qyca_ 86 SLQIESQVNIIKAIKE-----VGTVKRFFPSEFGNDVDNVHAVEPAKSVFEVKAKVRRAI 140 d1vl2a1 130 AALNPNLKVISPWKDPEF-----LAKFKTDLINYAMEKGIPI------------------ 166 :: ::::::: :::: d1qyca_ 141 EA--EGIPYTY-------VSSNCFAGY---------------FLRSLAQAGLTAPPRDKV 176 d1vl2a1 167 ------------------------------------------------------------ 167 d1qyca_ 177 VILGDGNARVVFVKEEDIGTFTIKAVDDPRTLNKTLYLRLPANTLSLNELVALWEKKIDK 236 d1vl2a1 167 ------------------------------------------------------------ 167 d1qyca_ 237 TLEKAYVPEEEVLKLIADTPFPANISIAISHSIFVKGDQTNFEIGPAGVEASQLYPDVKY 296 d1vl2a1 167 ----------- 167 d1qyca_ 297 TTVDEYLSNFV 307 TMalign alignment (TM-score: 0.53 Raw score:88.27) d1vl2a1 1 --KEKVVLAYSGGLDTSVILKWLCEKGFDVIAYVANVGQ-KDD-FVAIKEKALKTGASKV 56 ::::::::::::::::::::::::::::::::::::: ::: :::::::::: ::::: d1qyca_ 1 GSRSRILLIGATGYIGRHVAKASLDLGHPTFLLVRESTASSNSEKAQLLESFKA-SGANI 59 d1vl2a1 57 YVEDLRREFVTDYIFTALLGNAMYEGRYLLGTAIARPLIAKRQVEIAEKEGAQYVAHGAT 116 : : : :::: ::::::::: :::::::::: d1qyca_ 60 V-H-G-----------------------------SIDD-HASLVEAVK--NVDVVISTVG 85 d1vl2a1 117 G-KGNDQVRFELTYAALNPNLK-VISPW------------------------K------- 143 : ::::::::::::: :::::: ::::: : d1qyca_ 86 SLQIESQVNIIKAIK-EVGTVKRFFPSEFGNDVDNVHAVEPAKSVFEVKAKVRRAIEAEG 144 d1vl2a1 144 ---DPEFLAKFKTDLI-------------------------------NYAMEK------- 162 :: :: ::::::: :::::: d1qyca_ 145 IPYTY-VS-SNCFAGYFLRSLAQAGLTAPPRDKVVILGDGNARVVFVKEEDIGTFTIKAV 202 d1vl2a1 163 ------------------------------------------------------------ 163 d1qyca_ 203 DDPRTLNKTLYLRLPANTLSLNELVALWEKKIDKTLEKAYVPEEEVLKLIADTPFPANIS 262 d1vl2a1 163 ---------------------------------------------GIPI 166 d1qyca_ 263 IAISHSIFVKGDQTNFEIGPAGVEASQLYPDVKYTTVDEYLSNFV---- 307 HHsearch alignment (Probability: 0.78 E-value:0.01) d1vl2a1 1 KEKVVLAYSGGLDTSVILKWLCEKGFDVIAYVANVGQKDDFVAIK 45 ::::::::::::::::::::::::::::::::::::::::::::: d1qyca_ 3 RSRILLIGATGYIGRHVAKASLDLGHPTFLLVRESTASSNSEKAQ 47