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: T517_A.pdb A
Database: SCOP1.69 less than 40% identity downloaded from ASTRAL
| SCOP Id | Protein | SCOP Superfamily | SCOP Fold | SCOP Class |
|
|---|---|---|---|---|---|
| Intermediate | d1vi2a1 | Putative shikimate dehydrogenase YdiB | NAD(P)-binding Rossmann-fold domains | NAD(P)-binding Rossmann-fold domains | α/β |
| Hit | d1dpga1 | Glucose 6-phosphate dehydrogenase, N-terminal domain | NAD(P)-binding Rossmann-fold domains | NAD(P)-binding Rossmann-fold domains | α/β |
Query <-- 0.883 --> IntermediateDALI alignment (Z-score: 4.6 Raw score:365.80) query 1 --------------GMENKKMNLLLfsgdydkALASLIIANAAREMEI-EVTIFCAFWgl 45 ::::::::::: :::::::::::::::: ::::::::: d1vi2a1 1 dgtghiraikesgfDIKGKTMVLLG------aGGASTAIGAQGAIEGLkEIKLFNRRD-- 52 query 46 LLLRdpekasqedkslyeqafssltpreaeelplskmnlggigkkmllemmkeekapkls 105 :::: d1vi2a1 53 EFFD-------------------------------------------------------- 56 query 106 dlLSGARKKE------VKFYAXQlsveimgfkkeelfpevqimDVKEYLKNALESDLQLF 159 :::::::: ::::::: ::::::::::::::::: d1vi2a1 57 kaLAFAQRVNentdcvVTVTDLA--------------------DQQAFAEALASADILTN 96 query 160 ------------------------------------------------------------ 160 d1vi2a1 97 gtkvgmkpleneslvndisllhpgllvtecvynphmtkllqqaqqagcktidgygmllwq 156 query 160 -------------------------i 160 d1vi2a1 157 gaeqftlwtgkdfpleyvkqvmgfga 182 FAST alignment (Normalized score: 4.17 Raw score:711.70) query 1 --------------GMENKKMNLLLFSGDYDK---ALASLIIANAAREME-IEVTIFCA- 41 ::::::::: ::::::::::::::: :::::::: d1vi2a1 1 DGTGHIRAIKESGFDIKGKTMVL---------LGAGGASTAIGAQGAIEGLKEIKLFNRR 51 query 42 FWGLLLLRDPEKASQEDKSLYEQAFSSLTPREAEELPLSKMNLGGIGKKMLLEMMKEEKA 101 ::::: d1vi2a1 52 DEFFD------------------------------------------------------- 56 query 102 PK-LSDLLSGARK---KEVKFYAXQLSVEIMGFKKEELFPEVQIM--DVKEYLKNALESD 155 :::::::::: ::::::: ::::::::::::: d1vi2a1 57 --KALAFAQRVNENTDCVVTVTD----------------------LADQQAFAEALASAD 92 query 156 LQLFI------------------------------------------------------- 160 ::: d1vi2a1 93 ILT--NGTKVGMKPLENESLVNDISLLHPGLLVTECVYNPHMTKLLQQAQQAGCKTIDGY 150 query 161 -------------------------------- 161 d1vi2a1 151 GMLLWQGAEQFTLWTGKDFPLEYVKQVMGFGA 182 TMalign alignment (TM-score: 0.31 Raw score:49.46) query 1 ------GMENKKMNL------------LLFSGDYD-KALASLIIAN-AAR--EMEIEVTI 38 :::: ::::: :::::::::: ::: d1vi2a1 1 DGTGHI-----RAIKESGFDIKGKTMV---LLGAGGASTAIGAQGAIEGLKE-------- 44 query 39 FCAFWGLLLLRDPEKASQEDKSLYEQAFSSLTPREAEELPLSKMNLGGIGKKMLLEMMKE 98 ::::::::: : ::::::::::::: d1vi2a1 45 ----------------------------------IKLFNRRDE-F--FDKALAFAQRVNE 67 query 99 EK-APKLS------------DLLSGARKKEVKFYA----XQLS----VEIMG--FKKEEL 135 :: ::::: ::::: : ::: : :::: :::::: d1vi2a1 68 NTDCVVTVTDLADQQAFAEA--LASAD---I-LTNGTKV---GMKPL-ENESLVNDISLL 117 query 136 FPEV-Q---------------IMD-----VKEYLKNALESDLQL---------------- 158 :::: : ::: ::: ::: ::::: d1vi2a1 118 HPGLLVTECVYNPHMTKLLQQAQQAGCKT--IDG-YGM-LLWQGAEQFTLWTGKDFPLEY 173 query 159 ---------FI 160 d1vi2a1 174 VKQVMGFGA-- 182 HHsearch alignment (Probability: 0.01 E-value:0.14) query 102 PKLSDLLSGARKKEVKFY 119 :::::::::::::::::: d1vi2a1 130 PHMTKLLQQAQQAGCKTI 147
Intermediate <-- 1.003 --> HitDALI alignment (Z-score: 6.8 Raw score:611.90) d1vi2a1 1 dgtghiraikesgfdiKGKTMVLLG-AGGAST-AIGAQGAIEG-------lKEIKLFNRR 51 ::::::::: :::::: :::::::::: ::::::::: d1dpga1 1 -------------vseIKTLVTFFGgTGDLAKrKLYPSVFNLYkkgylqkhFAIVGTARQ 47 d1vi2a1 52 DeffDKALAFAQR---------vnENTD-cVVTVTDLA-----DQQAFAEALAS------ 90 : ::::::::: :::: :::::::: ::::::::::: d1dpga1 48 AlndDEFKQLVRDcikdftddqaqAEAFieHFSYRAHDvtdaaSYAVLKEAIEEaadkfd 107 d1vi2a1 91 ---aDILTNGTKVGmkplenESLVNDI---SLLH--pGLLVTECVYNP--------hmtK 134 :::::::::: ::::::: :::: ::::::::::: : d1dpga1 108 idgnRIFYMSVAPR----ffGTIAKYLkseGLLAdtgYNRLMIEKPFGtsydtaaelqnD 163 d1vi2a1 135 LLQQAQqagcKTIDGYgmLLWQgaeqftlwtgkdfpleyvkqvmgfga 182 :::::: :::::: :::: d1dpga1 164 LENAFD--dnQLFRID--HYLG------------epyermihdtmngd 195 FAST alignment (Normalized score: 4.56 Raw score:858.60) d1vi2a1 1 DGTGHIRAIKESGFDI---KGKTMVLL-GAGGAST-AIGAQGAIEGL----------KEI 45 :::::::: ::::::: :::::::: ::: d1dpga1 1 ----------------VSEIKTLVTFFGGTGDLAKRKLYPSVFN---LYKKGYLQKHFAI 41 d1vi2a1 46 KLFNRRDEF---------FDKALAFAQRVNENTDC-------------VVTVTDLA---- 79 :::: :::::::::: :::::: d1dpga1 42 VGTA-----RQALNDDEFKQLVRDCIKD-------FTDDQAQAEAFIEHFSYRA--HDVT 87 d1vi2a1 80 ---DQQAFAEALASA-----------DILTNGTKVGMKPLENESLVND------------ 113 :::::::::: ::::::: d1dpga1 88 DAASYAVLKEAIE--EAADKFDIDGNRIFYMSV---------------APRFFGTIAKYL 130 d1vi2a1 114 --ISLLHP----GLLVTECVYNPHM----------TKLLQQAQQAGC-----KTIDGYGM 152 :::: ::::::: ::::::::: ::::: :: d1dpga1 131 KSEGLL--ADTGYNRLMIE------KPFGTSYDTAAELQNDLEN---AFDDNQLFRI-DH 178 d1vi2a1 153 LLWQGAEQFTLWTGKDFPLEYVKQVMGFGA--------------- 182 :: d1dpga1 179 YL----------------------------GEPYERMIHDTMNGD 195 TMalign alignment (TM-score: 0.56 Raw score:101.77) d1vi2a1 1 -DGTGHIRAIKESGFDIKGKTMVLLG-AGGAST-AIGAQGAIEG----L---KEIKLFNR 50 ::::::::::: :::::: :::::::::: : :::::::: d1dpga1 1 V--------------SEIKTLVTFFGGTGDLAKRKLYPSVFNLYKKGYLQKHFAIVGTAR 46 d1vi2a1 51 RDEFFD--KAL-AFAQR-VN-----E--NTDC--VVTVTDLA-----DQQAFAEALA--S 90 :: :: :: ::::: :: : :::: :::::::: :::::::::: : d1dpga1 47 QA--LNDD-EFKQLVRDCIKDFTDDQAQAEAFIEHFSYRAHDVTDAASYAVLKEAIEEAA 103 d1vi2a1 91 -------ADILTNGTKVGMKPLENESLVND-IS-LLHP---GLLVTECVYNPH----MTK 134 ::::::::: : ::::::::: :: :::: :::::::::::: ::: d1dpga1 104 DKFDIDGNRIFYMSVA-P---RFFGTIAKYLKSEGLLADTGYNRLMIEKPFGTSYDTAAE 159 d1vi2a1 135 LLQQAQQAGC--KTIDGYGMLLW-QG-AE---------QFTLWTGKDFPLEYVKQVMGFG 181 :::::::::: :::::: :::: :: : d1dpga1 160 LQNDLENAFDDNQLFRID-HYLGEPYE-RMIHDTMNGD---------------------- 195 d1vi2a1 182 A 182 d1dpga1 196 - 196 HHsearch alignment (Probability: 0.03 E-value:0.03) d1vi2a1 20 TMVLLGAGGA--STA---IGAQGAIEGL----KEIKLFNRRDEFFDKALA 60 :::::::::: ::: :::::::::: :::::::::::::::::: d1dpga1 7 LVTFFGGTGDLAKRKLYPSVFNLYKKGYLQKHFAIVGTARQALNDDEFKQ 56