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: T592_B.pdb B
Database: SCOP1.69 less than 40% identity downloaded from ASTRAL
| SCOP Id | Protein | SCOP Superfamily | SCOP Fold | SCOP Class |
|
|---|---|---|---|---|---|
| Intermediate | d1gmxa_ | Sulfurtransferase GlpE | Rhodanese/Cell cycle control phosphatase | Rhodanese/Cell cycle control phosphatase | α/β |
| Hit | d1t64a_ | Histone deacetylase 8, HDAC8 | Arginase/deacetylase | Arginase/deacetylase | α/β |
Query <-- 1.662 --> IntermediateDALI alignment (Z-score: 13.4 Raw score:712.00) query 1 npneayrhymkklsYETDIADLSIDIKkgYEGIIVVDVRDAEAYKECHIPTAISIPgNKI 60 ::::::::::::: ::::::::::::::::::::::::::: ::: d1gmxa_ 1 ----------mdqfECINVADAHQKLQ--EKEAVLVDIRDPQSFAMGHAVQAFHLT-NDT 47 query 61 NEDTTKRLSKEKVIITYCWGpacNGATKAAAKFAQLGF-RVKELIGGIEYWRKENG-EVE 118 :::::::::::::::::::: ::::::::::::::: ::::::::::::::::: ::: d1gmxa_ 48 LGAFMRDNDFDTPVMVMCYH--gNSSKGAAQYLLQQGYdVVYSIDGGFEAWQRQFPaEVA 105 query 119 GTlgakadlfwnmkkesle 137 :: d1gmxa_ 106 YG----------------a 108 FAST alignment (Normalized score: 11.37 Raw score:1383.00) query 1 NPNEAYRHYMKKLS----YETDIADLSIDIKKGYEGIIVVDVRDAEAYKECHIPTAISIP 56 :::::::::::::: :::::::::::::::::::::::::: d1gmxa_ 1 --------------MDQFECINVADAHQKLQE--KEAVLVDIRDPQSFAMGHAVQAFHLT 44 query 57 GNKINEDTTKRLSKEKVIITYCWGPACNGATKAAAKFAQLG-FRVKELIGGIEYWRKENG 115 ::: ::::::::::::::::::::: :::::::::::::: ::::::::::::::: d1gmxa_ 45 NDT-LGAFMRDNDFDTPVMVMCYHG--NSSKGAAQYLLQQGYDVVYSIDGGFEAWQR--- 98 query 116 EVEGTLGAKADLFWNMKKESLE---------- 137 d1gmxa_ 99 ----------------------QFPAEVAYGA 108 TMalign alignment (TM-score: 0.65 Raw score:88.83) query 1 --NPNEAYRHYMKKLSYETDIADLSIDIKKGYEGIIVVDVRDAEAYKECHIPTAISIPGN 58 : ::::::::::::: :::::::::::::::::::::::::::: d1gmxa_ 1 MD-----------Q-FECINVADAHQKL--QEKEAVLVDIRDPQSFAMGHAVQAFHLT-- 44 query 59 KINEDT-TKRLSKEKVIITYCWGPACNGATKAAAKFAQLGF-RVKELIGGIEYWRKENG- 115 :::::: ::::::::::::::::: ::::::::::::::: ::::::::::::::::: d1gmxa_ 45 NDTLGAFMRDNDFDTPVMVMCYHG--NSSKGAAQYLLQQGYDVVYSIDGGFEAWQRQFPA 102 query 116 EVEGT-LGAKADLFWNMKKESLE 137 ::::: d1gmxa_ 103 EVAYGA----------------- 108 HHsearch alignment (Probability: 1.00 E-value:0.00) query 16 ETDIADLSIDIKKGYEGIIVVDVRDAEAYKECHIPTAISIPGNKINEDTTKRLSKEKVII 75 ::::::::::::: :::::::::::::::::::::::::::::: :::::::::::::: d1gmxa_ 6 CINVADAHQKLQE--KEAVLVDIRDPQSFAMGHAVQAFHLTNDTL-GAFMRDNDFDTPVM 62 query 76 TYCWGPACNGATKAAAKFAQLGFR-VKELIGGIEYWRKENGEVEGTLGA 123 :::::: :::::::::::::::: :::::::::::::: ::::::::: d1gmxa_ 63 VMCYHG--NSSKGAAQYLLQQGYDVVYSIDGGFEAWQRQ-FPAEVAYGA 108
Intermediate <-- 0.606 --> HitDALI alignment (Z-score: 2.0 Raw score:288.70) d1gmxa_ 1 ------------------------------------------------------------ 1 d1t64a_ 1 lvpvyiyspeyvsmcdslakipkrasmvhslieayalhkqmrivkpkvasmeematfhtd 60 d1gmxa_ 1 --------------------------------------------------------mdQF 4 :: d1t64a_ 61 aylqhlqkvsqegdddhpdsieyglgydcpategifdyaaaiggatitaaqclidgmcKV 120 d1gmxa_ 5 ECIN-----------------vADAHQKLQEKE-----AVLVDIRDpqsfamGHAV---- 38 :::: ::::::::::: :::::::: :::: d1t64a_ 121 AINWsggwhhakkdeasgfcylNDAVLGILRLRrkferILYVDLDL------HHGDgved 174 d1gmxa_ 39 --------qAFHL-------------------------------------------TNDT 47 :::: :::: d1t64a_ 175 afsftskvmTVSLhkfspgffpgtgdvsdvglgkgryysvnvpiqdgiqdekyyqiCESV 234 d1gmxa_ 48 LGAFMRDNDFdTPVMVMCYH--------------gnssKGAAQYLLQQGyDVVYSIdgGF 93 :::::::::: ::::::::: ::::::::::: :::::: :: d1t64a_ 235 LKEVYQAFNP-KAVVLQLGAdtiagdpmcsfnmtpvgiGKCLKYILQWQ-LATLIL--GG 290 d1gmxa_ 94 EA---------------------------------------------------------- 95 :: d1t64a_ 291 GGynlantarcwtyltgvilgktlsseipdhefftaygpdyvleitpscrpdrnephriq 350 d1gmxa_ 96 -wqrqfpaevayga 108 d1t64a_ 351 qilnyikgnlkhvv 364 FAST alignment (Normalized score: 2.25 Raw score:447.10) d1gmxa_ 1 MD---------------------------------------------------------- 2 d1t64a_ 1 --LVPVYIYSPEYVSMCDSLAKIPKRASMVHSLIEAYALHKQMRIVKPKVASMEEMATFH 58 d1gmxa_ 3 ------------------------------------------------------------ 3 d1t64a_ 59 TDAYLQHLQKVSQEGDDDHPDSIEYGLGYDCPATEGIFDYAAAIGGATITAAQCLIDGMC 118 d1gmxa_ 3 QFECINV-------------------ADAHQKLQEK-------EAVLVDIRDPQSFAMGH 36 ::::: :::::::: :::::::: d1t64a_ 119 KVAIN--WSGGWHHAKKDEASGFCYLNDAVLGIL--RLRRKFERILYVDLD--------- 165 d1gmxa_ 37 AVQAFHL----------------------------------------------------- 43 d1t64a_ 166 -------LHHGDGVEDAFSFTSKVMTVSLHKFSPGFFPGTGDVSDVGLGKGRYYSVNVPI 218 d1gmxa_ 44 ------------TNDTLGAFMRDNDFDTPVMVMC---------------YHGNSSKGAAQ 76 :::::::::::::: :::::: ::::::::::: d1t64a_ 219 QDGIQDEKYYQICESVLKEVYQAFNP-KAVVLQ-LGADTIAGDPMCSFNMTPVGIGKCLK 276 d1gmxa_ 77 YLLQQGYDVVYSIDGGFEAWQRQFPAEVAYGA---------------------------- 108 :::::: :::::: d1t64a_ 277 YILQWQ-LATLIL-------------------GGGGYNLANTARCWTYLTGVILGKTLSS 316 d1gmxa_ 109 ------------------------------------------------ 109 d1t64a_ 317 EIPDHEFFTAYGPDYVLEITPSCRPDRNEPHRIQQILNYIKGNLKHVV 364 TMalign alignment (TM-score: 0.54 Raw score:58.28) d1gmxa_ 1 M----------------------------------------------------------- 1 : d1t64a_ 1 LVPVYIYSPEYVSMCDSLAKIPKRASMVHSLIEAYALHKQMRIVKPKVASMEEMATFHTD 60 d1gmxa_ 2 ---------------------------------------------------------DQF 4 ::: d1t64a_ 61 AYLQHLQKVSQEGDDDHPDSIEYGLGYDCPATEGIFDYAAAIGGATITAAQCLIDGMCKV 120 d1gmxa_ 5 ECI--NV---------------ADAHQKLQE-KE-----AVLVDIRDPQSFAMGHAV--Q 39 ::: :: ::::::: : :: ::::::: : :::: : d1t64a_ 121 AINWSGGWHHAKKDEASGFCYLNDAVLGI-LRLRRKFERILYVDLD---L---HHGDGVE 173 d1gmxa_ 40 ----------AFHL-------------------------------------------TND 46 :::: ::: d1t64a_ 174 DAFSFTSKVMTVSLHKFSPGFFPGTGDVSDVGLGKGRYYSVNVPIQDGIQDEKYYQICES 233 d1gmxa_ 47 TLGAFMRDNDFDTPVMVMCYHG-N-----------S-SKG-AAQYLLQQGYDVVYSIDGG 92 ::::::::::: :::::::::: : : ::: ::::::: ::::::::: : d1t64a_ 234 VLKEVYQAFNP-KAVVLQLGADTIAGDPMCSFNMTPVGIGKCLKYILQ-WQLATLILG-G 290 d1gmxa_ 93 FEA--------------------------------------------------------- 95 :: d1t64a_ 291 -GGYNLANTARCWTYLTGVILGKTLSSEIPDHEFFTAYGPDYVLEITPSCRPDRNEPHRI 349 d1gmxa_ 96 ------WQRQFPAEVAYGA-------- 108 : d1t64a_ 350 QQILNY------------IKGNLKHVV 364 HHsearch alignment (Probability: 0.02 E-value:0.10) d1gmxa_ 72 KGAAQYLLQQGYDVVYSIDGGFEAW 96 ::::::::::::::::::::::::: d1t64a_ 272 GKCLKYILQWQLATLILGGGGYNLA 296