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 | d1kk1a3 | Initiation factor eIF2 gamma subunit, N-terminal (G) domain | P-loop containing nucleoside triphosphate hydrolases | P-loop containing nucleoside triphosphate hydrolases | 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 <-- 1.348 --> HitDALI alignment (Z-score: 4.9 Raw score:609.10) d1qyca_ 1 --GSRSRILLI-----GATGyIGRHV------------------akaSLDL--------- 26 ::::::::: :::: ::::: :::: d1kk1a3 1 srQAEVNIGMVghvdhGKTT-LTKALtgvwtdseelrrgitikigfaDAEIrrcpncgry 59 d1qyca_ 27 -----------------GHPTFLlvrestassnsekaqllesfkasganiVHGSidDHAS 69 :::::: :::: :::: d1kk1a3 60 stspvcpycghetefvrRVSFID---------------------------APGHeaLMTT 92 d1qyca_ 70 LVEAVKNVDVVISTVG--SLQIES-QVNIIKAIKEVGtVKRFFPSEFGNdvdnvhavePA 126 :::::::::::::::: :::::: :::::::::::: ::::::::::: :: d1kk1a3 93 MLAGASLMDGAILVIAanEPCPRPqTREHLMALQIIG-QKNIIIAQNKI------elvDK 145 d1qyca_ 127 KSVFEVKAKVRRAIEaEGIP--YTYVSSNcfagyflrslaqagltapprdkvvilgdgna 184 ::::::::::::::: :::: ::::::: d1kk1a3 146 EKALENYRQIKEFIE-GTVAenAPIIPIS------------------------------- 173 d1qyca_ 185 rvvfVKEEDIgTFTIKAVDDprtlnktlylrlpantlslnelvalwekkidktlekayvp 244 :::::: ::::::::: d1kk1a3 174 ---aLHGANI-DVLVKAIED---------------------------------------- 189 d1qyca_ 245 eeevlkliadtpfpanisiaishsifvkgdqtnfeigpagveasqlypdvkyttvdeyls 304 d1kk1a3 190 -----------------------------------------------------------f 190 d1qyca_ 305 nfv 307 d1kk1a3 191 ipt 193 FAST alignment (Normalized score: 3.62 Raw score:880.30) d1qyca_ 1 G---SRSRILLIGATG-----YIGRHVAKASLD--------------------------- 25 ::::::: :::::::::: d1kk1a3 1 -SRQAEVNIGM-----VGHVDHGKTTLTKAL--TGVWTDSEELRRGITIKIGFADAEIRR 52 d1qyca_ 26 -----------------------LGHPTFLLVRESTASSNSEKAQLLESFKASGANIVHG 62 :::::::: d1kk1a3 53 CPNCGRYSTSPVCPYCGHETEFVRRVSFIDA----------------------------- 83 d1qyca_ 63 SID-DHASLVEAV----KNVDVVISTVGSLQ------IESQVNIIKAIKEVGTVKRFFPS 111 ::::::::: ::::::::::: :::::::::::::: :::::::: d1kk1a3 84 ---PGHEALMTTMLAGASLMDGAILVIA---ANEPCPRPQTREHLMALQII-GQKNIIIA 136 d1qyca_ 112 EFGNDVDNVHAVEPAKS-----VFEVKAKVRRAIEAEG-------IPYTYVSSNCFAGYF 159 :: :::::::::::::: ::::::: d1kk1a3 137 QN---------------KIELVDKEKALENYRQIKE--FIEGTVAENAPIIP-------- 171 d1qyca_ 160 LRSLAQAGLTAPPRDKVVILGDGNARVVFVK----EEDIGTFTIKAVDDPRTLNKTLYLR 215 :::::::::::: d1kk1a3 172 -------------------------------ISALHGANIDVLVKAI------------- 187 d1qyca_ 216 LPANTLSLNELVALWEKKIDKTLEKAYVPEEEVLKLIADTPFPANISIAISHSIFVKGDQ 275 d1kk1a3 188 ------------------------------------------------------------ 188 d1qyca_ 276 TNFEIGPAGVEASQLYPDVKYTTVDEYLSNFV------ 307 d1kk1a3 188 --------------------------------EDFIPT 193 TMalign alignment (TM-score: 0.34 Raw score:105.91) d1qyca_ 1 -G-SRSRILLI-----GATGYIGRHVAK------------------ASLDL--------- 26 : :::::::: :::: ::::::: ::::: d1kk1a3 1 SRQAEVNIGMVGHVDHGKTT-LTKALTGVWTDSEELRRGITIKIGFADAEIRRCPNCGRY 59 d1qyca_ 27 -----------------GHPTFLLVRESTASSNSEKAQLLESFKASGANIVHGSIDDHAS 69 :::::: :::: : :: d1kk1a3 60 STSPVCPYCGHETEFVRRVSFID---------------------------APGH--E-AL 89 d1qyca_ 70 LVEAV--K-NVDVVISTVG-SLQIES--QVNIIKAIKEVGTVKRFFPSEFGN--DVDNVH 121 ::::: : :::::::::: :::::: :::::::::::: ::::::::::: d1kk1a3 90 MTTMLAGASLMDGAILVIAANEPCPRPQTREHLMALQIIG-QKNIIIAQNKIEL------ 142 d1qyca_ 122 AVEPAKSVFEVKAKVRRAIEAEGIPYTYVSSNCF-AGYFLRSLAQAGLTAPPRDKVVILG 180 :::::::::::::::::::::::::::::: : :: d1kk1a3 143 --VDKEKALENYRQIKEFIEGTVAENAPIIPI-SA-LH---------------------- 176 d1qyca_ 181 DGNARVVFVKEEDIGTFTIKAVDDPRTLNKTLYLRLPANTLSLNELVALWEKKIDKTLEK 240 ::::::::::::::::: d1kk1a3 177 --------GANIDVLVKAIEDFIPT----------------------------------- 193 d1qyca_ 241 AYVPEEEVLKLIADTPFPANISIAISHSIFVKGDQTNFEIGPAGVEASQLYPDVKYTTVD 300 d1kk1a3 194 ------------------------------------------------------------ 194 d1qyca_ 301 EYLSNFV 307 d1kk1a3 194 ------- 194 HHsearch alignment (Probability: 0.01 E-value:0.91) d1qyca_ 5 RILLIGATGYIGRHVAKASLDL 26 :::::::::::::::::::::: d1kk1a3 7 NIGMVGHVDHGKTTLTKALTGV 28