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 | d1qyca_ | Phenylcoumaran benzylic ether reductase | NAD(P)-binding Rossmann-fold domains | NAD(P)-binding Rossmann-fold domains | α/β |
| Hit | d1eucb1 | Succinyl-CoA synthetase, beta-chain, C-terminal domain | Succinyl-CoA synthetase domains | Flavodoxin-like | α/β |
Query <-- 0.813 --> IntermediateDALI alignment (Z-score: 4.9 Raw score:359.30) query 1 gMENKKMNLLLfsgdydkALASLIIANAAREMEIEVTIFCAfwglllLRDPekasqedks 60 :::::::::: ::::::::::::::::::::::: :::: d1qyca_ 1 -GSRSRILLIG-----atGYIGRHVAKASLDLGHPTFLLVR-----eSTAS--------- 40 query 61 lyeqafssltpREAEelplskmnlggigkkmllemmkeekapkLSDLLSGARKKEVKFY- 119 :::: :::::::::::::::: d1qyca_ 41 -----------SNSE----------------------------KAQLLESFKASGANIVh 61 query 120 AXQLsveimgfkkeelfpevqimDVKEYLKNALESDLQLFI------------------- 160 :::: :::::::::::::::::: d1qyca_ 62 GSID-------------------DHASLVEAVKNVDVVISTvgslqiesqvniikaikev 102 query 161 ------------------------------------------------------------ 161 d1qyca_ 103 gtvkrffpsefgndvdnvhavepaksvfevkakvrraieaegipytyvssncfagyflrs 162 query 161 ------------------------------------------------------------ 161 d1qyca_ 163 laqagltapprdkvvilgdgnarvvfvkeedigtftikavddprtlnktlylrlpantls 222 query 161 ------------------------------------------------------------ 161 d1qyca_ 223 lnelvalwekkidktlekayvpeeevlkliadtpfpanisiaishsifvkgdqtnfeigp 282 query 161 ------------------------- 161 d1qyca_ 283 agveasqlypdvkyttvdeylsnfv 307 FAST alignment (Normalized score: 3.09 Raw score:685.40) query 1 GMENKKMNLLLFSGDYDK----ALASLIIANAAREMEIEVTIFCAFWGLLLLRDPEKASQ 56 :::::::: ::::::::::::::::::::::: d1qyca_ 1 -GSRSRILL---------IGATGYIGRHVAKASLDLGHPTFLLVR--------------- 35 query 57 EDKSLYEQAFSSLTPREAEELPLSKMNLGGIGKKMLLEMMKEEKAP--------KLSDLL 108 :::::: d1qyca_ 36 ----------------------------------------------ESTASSNSEKAQLL 49 query 109 SGARKKEVKFYAXQLSVEIMGFKKEELFPEVQI----MDVKEYLKNALESDLQLFI---- 160 ::::::::::: ::::::::::::::::: d1qyca_ 50 ESFKASGANIV----------------------HGSIDDHASLVEAVKNVDVVI--STVG 85 query 161 ------------------------------------------------------------ 161 d1qyca_ 86 SLQIESQVNIIKAIKEVGTVKRFFPSEFGNDVDNVHAVEPAKSVFEVKAKVRRAIEAEGI 145 query 161 ------------------------------------------------------------ 161 d1qyca_ 146 PYTYVSSNCFAGYFLRSLAQAGLTAPPRDKVVILGDGNARVVFVKEEDIGTFTIKAVDDP 205 query 161 ------------------------------------------------------------ 161 d1qyca_ 206 RTLNKTLYLRLPANTLSLNELVALWEKKIDKTLEKAYVPEEEVLKLIADTPFPANISIAI 265 query 161 ------------------------------------------ 161 d1qyca_ 266 SHSIFVKGDQTNFEIGPAGVEASQLYPDVKYTTVDEYLSNFV 307 TMalign alignment (TM-score: 0.36 Raw score:58.19) query 1 GMENKKMNLLLFSGDYDKALASLIIANAAREMEIEVTIFCAFWGLLLLRDPEKASQEDKS 60 :: ::::::::::::::::::::::::: : ::::::: :: d1qyca_ 1 GS--RSRILLIGATGYIGRHVAKASLDLG----H-PTFLLVR--ES-------------- 37 query 61 LYEQAFSSLTPR-EAEELPLSKMNLGGIGKKMLLEMMKEEKAPKLSDLLSGARKKEVKFY 119 ::::::: ::: : :: ::::: :::: d1qyca_ 38 -----TASSNSEKAQL-L--------------------------ES-FKASG----ANIV 60 query 120 AXQLSVE-IMGFKKEELFPEVQIMDVKEYLKNALESDLQLFI------------------ 160 ::::: : :::::::::: : ::::: d1qyca_ 61 HGSID-DH---------------ASLVEAVKNV--D-VVISTVGSLQIESQVNIIKAIKE 101 query 161 ------------------------------------------------------------ 161 d1qyca_ 102 VGTVKRFFPSEFGNDVDNVHAVEPAKSVFEVKAKVRRAIEAEGIPYTYVSSNCFAGYFLR 161 query 161 ------------------------------------------------------------ 161 d1qyca_ 162 SLAQAGLTAPPRDKVVILGDGNARVVFVKEEDIGTFTIKAVDDPRTLNKTLYLRLPANTL 221 query 161 ------------------------------------------------------------ 161 d1qyca_ 222 SLNELVALWEKKIDKTLEKAYVPEEEVLKLIADTPFPANISIAISHSIFVKGDQTNFEIG 281 query 161 -------------------------- 161 d1qyca_ 282 PAGVEASQLYPDVKYTTVDEYLSNFV 307 HHsearch alignment (Probability: 0.02 E-value:0.33) query 89 KKMLLEMMKEEKAPKLSDLLSGARKKEVKFYAXQLSVEIMGFKKEELFPEVQIMDVKEYL 148 ::::::::::::: :::::::::::::::::::::::::::::::::::::::::::::: d1qyca_ 245 EEEVLKLIADTPF-PANISIAISHSIFVKGDQTNFEIGPAGVEASQLYPDVKYTTVDEYL 303 query 149 KN 150 :: d1qyca_ 304 SN 305
Intermediate <-- 0.936 --> HitDALI alignment (Z-score: 5.0 Raw score:544.50) d1qyca_ 1 ----------------gSRSRILLIGATGyIGRHVAKASLD--LGHPTFLLVRestassn 42 :::::::::::: ::::::::::: :::::::::: d1eucb1 1 epieneaakydlkyiglDGNIACFVNGAG-LAMATCDIIFLngGKPANFLDLG------- 52 d1qyca_ 43 sekaqllesfkasganivhgSIDDhaSLVEAVKNV-------DVVISTVGSL-QIESQ-V 93 :::: ::::::::: :::::::::: ::::: : d1eucb1 53 ------------------ggVKES--QVYQAFKLLtadpkveAILVNIFGGIvNXAIIaN 92 d1qyca_ 94 NIIKAIKEV-GTVKRFFPSEfgndvdnvhavepaksvfeVKAKVRRAIEAEGIPYTYVSS 152 ::::::::: :::::::::: ::::::::::::::::::::: d1eucb1 93 GITKACRELeLKVPLVVRLE-----------------gtNVHEAQNILTNSGLPITSAVD 135 d1qyca_ 153 ncfagyflrslaqagltapprdkvvilgdgnarvvfvkeediGTFTIKAVDDprtlnktl 212 :::::::::: d1eucb1 136 ------------------------------------------LEDAAKKAVA-------- 145 d1qyca_ 213 ylrlpantlslnelvalwekkidktlekayvpeeevlkliadtpfpanisiaishsifvk 272 d1eucb1 146 ------------------------------------------------------------ 146 d1qyca_ 273 gdqtnfeigpagveasqlypdvkyttvdeylsnfv 307 d1eucb1 146 --------------------------------svt 148 FAST alignment (Normalized score: 5.00 Raw score:1066.00) d1qyca_ 1 GSRS-------------------RILLIGAT----GYIGRHVAKASLDLGHPT-FLLVRE 36 :::: :::::::::::::::::: ::::: d1eucb1 1 ----EPIENEAAKYDLKYIGLDGNIAC----FVNGAGLAMATCDIIFLNGGKPANFLDL- 51 d1qyca_ 37 STASSNSEKAQLLESFKASGANIVHGSI---DDHASLVEAVK------NVDVVISTVGSL 87 ::::::::::: :::::::::: d1eucb1 52 ----------------------------GGGVKESQVYQAFKLLTADPKVEAILVNIF-- 81 d1qyca_ 88 QI-------ESQVNIIKAIKEVGTV---KRFFPSEFGNDVDNVHAVEPAKSVFE------ 131 ::::::::::::: :::: d1eucb1 82 --GGIVNAAIIANGITKACREL---ELKVPLV----------------------VRLEGT 114 d1qyca_ 132 VKAKVRRAIEAEGIPYTYVSSNCFAGYFLRSLAQAGLTAPPRDKVVILGDGNARVVFVKE 191 ::::::::::::::::::: d1eucb1 115 NVHEAQNILTNSGLPITSA----------------------------------------- 133 d1qyca_ 192 ED-IGTFTIKAVDDPRTLNKTLYLRLPANTLSLNELVALWEKKIDKTLEKAYVPEEEVLK 250 :::::::::: d1eucb1 134 --VDLEDAAKKAV----------------------------------------------- 144 d1qyca_ 251 LIADTPFPANISIAISHSIFVKGDQTNFEIGPAGVEASQLYPDVKYTTVDEYLSNFV--- 307 d1eucb1 145 ---------------------------------------------------------ASV 147 d1qyca_ 308 - 308 d1eucb1 148 T 148 TMalign alignment (TM-score: 0.23 Raw score:69.19) d1qyca_ 1 ------------------GSRSRILLIGATGYIGRHVAKA-SL---DLGHPTFLL---VR 35 :: : ::: :::::::::: :: :: ::::::::: :: d1eucb1 1 EPIENEAAKYDLKYIGLDGN-I-ACF-VNGAGLAMAT-CDIIFLNGGKPANFLDLGGGVK 56 d1qyca_ 36 E-STASSNSEKAQLL--ESFKASGANIVH-------------------GS-IDD-HASLV 71 : : :::: : ::: ::::: d1eucb1 57 ES------------QVY--------QAFKLLTADPKVEAILVNIFGGI-VNAAIIANGIT 95 d1qyca_ 72 EAVK---N-VDVVISTVGSLQIESQVNIIKAIKEVGTVKRFFPSEFGNDVDNVHAVEPAK 127 :::: : :::::::: : ::::::::::::::::::::: :: d1eucb1 96 KACRELELKVPLVVRLE---G-TNVHEAQNILTNSGLPITSAV-DL-------------- 136 d1qyca_ 128 SVFEVKAKVRRAIEAEGIPYTYVSSNCFAGYFLRSLAQAGLTAPPRDKVVILGDGNARVV 187 :: d1eucb1 137 ---------------------ED------------------------------------- 138 d1qyca_ 188 FVKEEDIGTFTIKAVDDP--RTLNKTLYLRLPANTLSLNELVALWEKKIDKTLEKAYVPE 245 :::::::: d1eucb1 139 ----------AAKKAVASVT---------------------------------------- 148 d1qyca_ 246 EEVLKLIADTPFPANISIAISHSIFVKGDQTNFEIGPAGVEASQLYPDVKYTTVDEYLSN 305 d1eucb1 149 ------------------------------------------------------------ 149 d1qyca_ 306 FV 307 d1eucb1 149 -- 149 HHsearch alignment (Probability: 0.47 E-value:0.03) d1qyca_ 136 VRRAIEAEGIPYTYVSSNC-FAGYFLRSLAQAGLTAPPRDKVVILGDGNARVVFVKEEDI 194 ::::::::::::::::::: :::::::::: ::::::: ::::::::::::::::::::: d1eucb1 3 IENEAAKYDLKYIGLDGNIACFVNGAGLAM-ATCDIIF-LNGGKPANFLDLGGGVKESQV 60 d1qyca_ 195 GTFTIKAVDDPRTLNKTLYLRLPANTLSLNELVALWEKKID 235 :::::::::::::::: :::: ::::::::::::::::::: d1eucb1 61 YQAFKLLTADPKVEAI-LVNI-FGGIVNXAIIANGITKACR 99