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 | d1t0ba_ | GK2113 homologue | Class I glutamine amidotransferase-like | 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 <-- 1.108 --> HitDALI alignment (Z-score: 5.1 Raw score:587.00) d1qyca_ 1 gSRSRILLIG--------------atgYIGRHVAKASLDLGHPTFLLVrestassnseka 46 ::::::::: ::::::::::::::::::::: d1t0ba_ 1 -TPIRVVVWNefrhekkdeqvraiypeGMHTVIASYLAEAGFDAATAV------------ 47 d1qyca_ 47 qllesfkasganivHGSIddhasLVEAVKNVDVVISTVGSLQIESqVNIIKAIKEV-GTV 105 :::: :::::::::::::::::::::: :::::::::: ::: d1t0ba_ 48 ------------ldEPEH---glTDEVLDRCDVLVWWGHIAHDEVkDEVVERVHRRvLEG 92 d1qyca_ 106 KRFFPSEfgndvdnvhavepaksvfevKAKVRRAIEA----------------------- 142 ::::::: :::::::::: d1t0ba_ 93 MGLIVLH-----------------sghFSKIFKKLMGttcnlkwreadekerlwvvapgh 135 d1qyca_ 143 --------------------------------------------------egIPYTYVSS 152 :::::::: d1t0ba_ 136 pivegigpyieleqeemygeffdipepdetifiswfeggevfrsgctftrgkGKIFYFRP 195 d1qyca_ 153 --NCFAgyflrslaqagltapprdkvvilgdgnarvvfvKEED--IGTFTIKAVDDprtl 208 :::: :::: ::::::::::: d1t0ba_ 196 ghETYP---------------------------------TYHHpdVLKVIANAVRW---- 218 d1qyca_ 209 nktlylrlpantlslnelvalwekkidktlekayvpeeevlkliadtpfpanisiaishs 268 d1t0ba_ 219 ------------------------------------------------------------ 219 d1qyca_ 269 ifvkgdqtnfeigpagveasqlypdvkyttvdeylsnfv 307 d1t0ba_ 219 -----------------aapvnrgeivfgnvkplepika 240 FAST alignment (Normalized score: 3.87 Raw score:1050.00) d1qyca_ 1 GS-RSRILLIGATG-------------------YIGRHVAKASLDLGHPTFLLVRESTAS 40 :::::: ::::::::::::::::::::: d1t0ba_ 1 --TPIRVVV-----WNEFRHEKKDEQVRAIYPEGMHTVIASYLAEAGFDAATAV------ 47 d1qyca_ 41 SNSEKAQLLESFKASGANIVHGSIDDHAS--------LVEAVKNVDVVISTVGSLQIES- 91 :::::::::::::: ::::::: d1t0ba_ 48 -----------------------------LDEPEHGLTDEVLDRCDVLVWW-GHIAHDEV 77 d1qyca_ 92 QVNIIKAIKEVGTV-----KRFFPSEFGNDVDNVHAVEPAKSVFEVK------AKVRRAI 140 :::::::::: ::::: ::::::: d1t0ba_ 78 KDEVVERVHR----RVLEGMGLIV-----------------------LHSGHFSKIFKKL 110 d1qyca_ 141 EA---------------------------------------------------------- 142 d1t0ba_ 111 --MGTTCNLKWREADEKERLWVVAPGHPIVEGIGPYIELEQEEMYGEFFDIPEPDETIFI 168 d1qyca_ 143 -----------------EGIPYTYVSSNCFAGYFLRSLAQAGLTAPPRDKVVILGDGNAR 185 :::::::: d1t0ba_ 169 SWFEGGEVFRSGCTFTRGKGKIFYF----------------------------------- 193 d1qyca_ 186 VVFVK-----------EEDIGTFTIKAVDDPRTLNKTLYLRLPANTLSLNELVALWEKKI 234 :::::::::::: d1t0ba_ 194 -----RPGHETYPTYHHPDVLKVIANAV-------------------------------- 216 d1qyca_ 235 DKTLEKAYVPEEEVLKLIADTPFPANISIAISHSIFVKGDQTNFEIGPAGVEASQLYPDV 294 d1t0ba_ 217 ------------------------------------------------------------ 217 d1qyca_ 295 KYTTVDEYLSNFV------------------------ 307 d1t0ba_ 217 -------------RWAAPVNRGEIVFGNVKPLEPIKA 240 TMalign alignment (TM-score: 0.34 Raw score:104.61) d1qyca_ 1 GSRSRILLIGAT--G---------Y---IGRHVAKASLDLGHPTFLLVRESTASSNSEKA 46 ::::::::::: : : :::::::::::::::::::::: d1t0ba_ 1 -TPIRVVVWNEFRHEKKDEQVRAIYPEGMHTVIASYLAEAGFDAATAVLD---------- 49 d1qyca_ 47 QLLESFKASGANIVHGSIDDHASLVEAVKNVDVVISTVGSLQIESQVNIIKAIKEV-GTV 105 :::: : :::::::::::::::::::::::::::::::::: ::: d1t0ba_ 50 --------------EPEH-G--LTDEVLDRCDVLVWWGHIAHDEVKDEVVERVHRRVLEG 92 d1qyca_ 106 KRFFPSEFGND----------VDNVHAVE------------------------------- 124 ::::::::::: :::::::: d1t0ba_ 93 MGLIVLHSGHFSKIFKKLMGTTCNLKWREADEKERLWVVAPGHPIVEGIGPYIELEQEEM 152 d1qyca_ 125 PAKSVFE-VKAKVRR-------------------AIEAEG-IPYTYVSSNCFAGYFLRSL 163 ::: :::::: ::::: ::::::::::: ::: d1t0ba_ 153 ----YGEF-FDIPEPDETIFISWFEGGEVFRSGC-TFTRGKGKIFYFRPGHE-TYP---- 201 d1qyca_ 164 AQAGLTAPPRDKVVILGDGNARVVFVKEED-IGTFTIKAVDDP----------------- 205 ::::: :::::::::::: d1t0ba_ 202 -------------------------TYHHPDVLKVIANAVRWAAPVNRGEIVFGNVKPLE 236 d1qyca_ 206 ----RTLNKTLYLRLPANTLSLNELVALWEKKIDKTLEKAYVPEEEVLKLIADTPFPANI 261 d1t0ba_ 237 PIKA-------------------------------------------------------- 240 d1qyca_ 262 SIAISHSIFVKGDQTNFEIGPAGVEASQLYPDVKYTTVDEYLSNFV 307 d1t0ba_ 241 ---------------------------------------------- 241 HHsearch alignment (Probability: 0.48 E-value:0.01) d1qyca_ 3 RSRILLIGATG--------------YIGRHVAKASLDLGHPTFLLVRESTASSNSEKAQL 48 ::::::::::: ::::::::::::::::::::::::: d1t0ba_ 2 PIRVVVWNEFRHEKKDEQVRAIYPEGMHTVIASYLAEAGFDAATAVLDEP---------- 51 d1qyca_ 49 LESFKASGANIVHGSIDDHASLVEAVKNVDVVISTV---G-SLQIESQVNIIKAIKEVGT 104 ::::::::::::::::::: : :::::::::::::: :::: d1t0ba_ 52 -----------------EHGLTDEVLDRCDVLVWWGHIAHDEVKDEVVERVHRRV-LEGM 93 d1qyca_ 105 VKRFFPSEF 113 ::::::::: d1t0ba_ 94 GLIVLHSGH 102