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: T515_B.pdb B
Database: SCOP1.69 less than 40% identity downloaded from ASTRAL
| SCOP Id | Protein | SCOP Superfamily | SCOP Fold | SCOP Class |
|
|---|---|---|---|---|---|
| Intermediate | d1tqja_ | D-ribulose-5-phosphate 3-epimerase | Ribulose-phoshate binding barrel | TIM beta/alpha-barrel | α/β |
| Hit | d1j79a_ | Dihydroorotase | Metallo-dependent hydrolases | TIM beta/alpha-barrel | α/β |
Query <-- 2.347 --> IntermediateDALI alignment (Z-score: 13.0 Raw score:1145.60) query 1 mietpyylidkakltrnmeriahvreksGAKALLALKCF---aTWSVFDLMRD-YMDGTT 56 ::::::::::: :::::::::: :::::: d1tqja_ 1 ---------------------------kNIVVAPSILSAdfsrLGEEIKAVDEaGADWIH 33 query 57 SSS------------LFEVRLGRERFGKETHAYSV--AYGDnEIDEVVS-HADKIIFNS- 100 ::: :::::::::::::::::::: :::: ::::::: ::::::::: d1tqja_ 34 VDVmdgrfvpnitigPLIVDAIRPLTKKTLDVHLMivEPEK-YVEDFAKaGADIISVHVe 92 query 101 ---ISQLERFADKAA--GIARGLRLNPQrlgeWDVPKVERVMDRINGFMIHN-NCENkdf 154 :::::::::::: ::::::::::: :::::::::::::::::::: :::: d1tqja_ 93 hnaSPHLHRTLCQIRelGKKAGAVLNPS----TPLDFLEYVLPVCDLILIMSvNPQS--- 145 query 155 glFDRMLGEIEeRFGALIA---RVDWVSLGGGIHFtgddypvdaFSARLRAFSdrygvqI 211 ::::::::: ::::::: ::::::::::::: ::::::::: : d1tqja_ 146 -fIPEVLPKIR-ALRQMCDergLDPWIEVDGGLKP--------nNTWQVLEAG-----aN 190 query 212 YLEPGEASITKsttlevtvldtlynknlaivdssieahmldlliyretakvlpnegshsy 271 ::::::::::: d1tqja_ 191 AIVAGSAVFNA------------------------------------------------- 201 query 272 micgksclagdvfgefrfaeelkvgdrisfqdaagytmvkknwfngvkmpaiaireldgs 331 d1tqja_ 202 ------------------------------------------------------------ 202 query 332 vrtvreftyadyeqsls 348 d1tqja_ 202 --pnyaeaiagvrnskr 216 FAST alignment (Normalized score: 7.32 Raw score:2007.00) query 1 MIETPYYLIDKAKLTRNMERIAHVREKS-GAKALLALK-CFA--TWSVFDLMRD-YMDGT 55 ::::::::: ::: :::::::::: ::::: d1tqja_ 1 ----------------------------KNIVVAPSILSADFSRLGEEIKAVDEAGADWI 32 query 56 TS------------SSLFEVRLGRERFGKETHAYSVAY----GDNEIDEVVS-HADKIIF 98 :: ::::::::::::::::::::: :::::::::: ::::::: d1tqja_ 33 HVDVMDGRFVPNITIGPLIVDAIRPLTKKTLDVHL---MIVEPEKYVEDFAKAGADIISV 89 query 99 N--SISQ---LERFADKA---AGIARGLRLNPQRLGE-WDVPKVERVMDRINGFMIHNNC 149 :::: ::::::: ::::::::::: :::::::::::::::::::: d1tqja_ 90 -HVEHNASPHLHRTLCQ-IRELGKKAGAVLNP-----STPLDFLEYVLPVCDLILIMS-- 140 query 150 ENKD------FGLFDRMLGEIEERFGALIARV----DWVSLGGGIHFTGDDYPVDA---F 196 ::::::::::::::::: ::::::::: : d1tqja_ 141 ----VNPQSFIPEVLPKIRALRQMCDE-----RGLDPWIEVDGGL-----------KPNN 180 query 197 SARLRAFSDRYGVQ---IYLEPGEASITKSTTLEVTVLDTLYNKNLAIVDSSIEAHMLDL 253 :::::: ::::::::: d1tqja_ 181 TWQVLE--------AGANAIVAGSAV---------------------------------- 198 query 254 LIYRETAKVLPNEGSHSYMICGKSCLAGDVFGEFRFAEELKVGDRISFQDAAGYTMVKKN 313 d1tqja_ 199 ------------------------------------------------------------ 199 query 314 WFNGVKMPAIAIRELDGSVRTVREFTYADYEQSLS------------------ 348 d1tqja_ 199 -----------------------------------FNAPNYAEAIAGVRNSKR 216 TMalign alignment (TM-score: 0.43 Raw score:149.23) query 1 MIETPYYLIDKAKLTRNMERIAHVREKSGAKALLALKCF-A--TWSVFDLMRD-YMDGTT 56 :::::::::::: : :::::::::: :::::: d1tqja_ 1 ---------------------------KNIVVAPSILSADFSRLGEEIKAVDEAGADWIH 33 query 57 S-S-----------SLFEVRLGRERFGKETHAYSVA--YGDNEIDEVVS-HADKIIFNS- 100 : : :::::::::::::::::::::: ::: ::::::: ::::::::: d1tqja_ 34 VDVMDGRFVPNITIGPLIVDAIRPLTKKTLDVHLMIVEPEK-YVEDFAKAGADIISVHVE 92 query 101 ---ISQLERFADKAA--GIARGLRLNPQRLGEWDVPKVERVMDRINGFMIHNN--CENKD 153 :::::::::::: ::::::::::: :::: ::::::::::::::::: ::: d1tqja_ 93 HNASPHLHRTLCQIRELGKKAGAVLNPS---TPLD-FLEYVLPVCDLILIMSVNPQSF-- 146 query 154 FGLFDRMLGEIEERFGALIA---RVDWVSLGGGIHFTGDDYPVDAFSARLRAFSDRYGVQ 210 : ::::::::::::::: ::::::::::::: ::: :: :: ::: : d1tqja_ 147 ---I-PEVLPKIRALRQMCDERGLDPWIEVDGGLKP----NNT--WQ-VL-EAG-----A 189 query 211 IYLEPGEASITKST-------------TLEVTVLDTLYNKNLAIVDSSIEAHMLDLLIYR 257 :::::::::::::: d1tqja_ 190 NAIVAGSAVFNAPNYAEAIAGVRNSKR--------------------------------- 216 query 258 ETAKVLPNEGSHSYMICGKSCLAGDVFGEFRFAEELKVGDRISFQDAAGYTMVKKNWFNG 317 d1tqja_ 217 ------------------------------------------------------------ 217 query 318 VKMPAIAIRELDGSVRTVREFTYADYEQSLS 348 d1tqja_ 217 ------------------------------- 217 HHsearch alignment (Probability: 0.21 E-value:0.01) query 75 HAYSVAYGDNEIDEVVSHADKIIFN--SISQLERFADKAAG--IARGLRLNPQRLGEWDV 130 ::::::::::::::::::::::::: :::::::::::::: :::::::::: ::: d1tqja_ 68 MIVEPEKYVEDFAKAGADIISVHVEHNASPHLHRTLCQIRELGKKAGAVLNPS----TPL 123 query 131 PKVERVMDRINGFMIHNNCENKDFGLFDRMLGEIEERFGALIARVDW-VSLG 181 ::::::::::::::::::::::::::::::::::::::::::::::: :::: d1tqja_ 124 DFLEYVLPVCDLILIMSVNPQSFIPEVLPKIRALRQMCDERGLDPWIEVDGG 175
Intermediate <-- 1.336 --> HitDALI alignment (Z-score: 6.8 Raw score:789.50) d1tqja_ 1 knivvapsilsadfsrlgeeiKAVDeagadWIHVDvmdgrfvpnitIGPL-----IVDAI 55 :::: ::::: :::: ::::: d1j79a_ 1 ----------------sqvlkIRRP----dDWHLH-----------LRDGdmlktVVPYT 29 d1tqja_ 56 RPLTKkTLDVHLMI--VEPE-KYVEDFAKAG----------aDIISVHVEHnasPHLHRT 102 ::::: :::::::: :::: :::::::::: ::::::::: :::::: d1j79a_ 30 SEIYG-RAIVMPNLapPVTTvEAAVAYRQRIldavpaphdftPLMTCYLTD---SLDPNE 85 d1tqja_ 103 LCQIRELGKKAGAVLNPS----------TPLDFLEYVLPVC----DLILIMSV------n 142 :::::::::::::::::: ::::::::::::: :::::::: d1j79a_ 86 LERGFNEGVFTAAXLYPAnattnsshgvTSVDAIMPVLERMekigMPLLVHGEvthadid 145 d1tqja_ 143 pqSFIPEVL-PKIRALRQMCDerglDPWIEVDGgLKPNN-TWQVLEAG-aNAIVAG-SAV 198 ::::::: ::::::::::: :::::::: ::::: :::::::: :::::: ::: d1j79a_ 146 ifDREARFIeSVMEPLRQRLT----ALKVVFEH-ITTKDaADYVRDGNerLAATITpQHL 200 d1tqja_ 199 FNA----------------------pnyaeaIAGV------------------------- 211 ::: :::: d1j79a_ 201 MFNrnhmlvggvrphlyclpilkrnihqqalRELVasgfqrvflgtdsapharhrkessc 260 d1tqja_ 212 ------------------------------------------------------------ 212 d1j79a_ 261 gcagcfnaptalgsyatvfeemnalqhfeafcsvngpqfyglpvndtfielvreeqqvae 320 d1tqja_ 212 ------------------rnskr 216 d1j79a_ 321 sialtddtlvpflagetvrwsvk 343 FAST alignment (Normalized score: 3.68 Raw score:1001.00) d1tqja_ 1 KNIV-----------VAPSILSAD---FSRLGEEIKAVDEAGADWIHVDVMDGRFVPNIT 46 :::: :::::::::::: :::::::::: d1j79a_ 1 ----SQVLKIRRPDDWHLH-----LRDGDMLKTVVPYTS-EIYGRAIVMP---------- 40 d1tqja_ 47 ------IGPLIVDAIRPL--------TKKTLDVHL-MIVE-PEKYVEDFAKA-GADIISV 89 :::::::::::: ::::::::: :::: ::::::::::: ::::::: d1j79a_ 41 NLAPPVTTVEAAVAYRQRILDAVPAPHDFTPLMTCYLTDSLDPNELERGFNEGVFTAAAL 100 d1tqja_ 90 HVEHNASP----------------HLHRTLCQIRELGKKAGAVLNPSTP----------- 122 : ::::::::::::::::::: d1j79a_ 101 Y-------PANATTNSSHGVTSVDAIMPVLERMEKIGMPLLVH------GEVTHADIDIF 147 d1tqja_ 123 -------LDFLEYV---LPVCDLILIMSVNPQSFIPEVLPK--------IRALRQMCDER 164 ::::::: :::: :::::::::: d1j79a_ 148 DREARFIESVMEPLRQRLTAL--------------------KVVFEHITTKDAADYVRD- 186 d1tqja_ 165 GLD----PWIEVDGGLKPNN--------------------------------TWQVLEAG 188 ::::: :::::: d1j79a_ 187 ---GNERLAATI--------TPQHLMFNRNHMLVGGVRPHLYCLPILKRNIHQQALRE-- 233 d1tqja_ 189 A--------NAIVAGSAVFNAP------------------------NYAEAIAGVRNSKR 216 :::: :::::::::: d1j79a_ 234 -LVASGFQRVFLG---------TDSAPHARHRKESSCGCAGCFNAPTALGSYATVF---- 279 d1tqja_ 217 ------------------------------------------------------------ 217 d1j79a_ 280 EEMNALQHFEAFCSVNGPQFYGLPVNDTFIELVREEQQVAESIALTDDTLVPFLAGETVR 339 d1tqja_ 217 ---- 217 d1j79a_ 340 WSVK 343 TMalign alignment (TM-score: 0.54 Raw score:117.51) d1tqja_ 1 ------K-NIV------------------------VAPSILSAD-F-S-RL-GEEIKAVD 25 : ::: ::::::::: : : :: :::::::: d1j79a_ 1 SQVLKIRRPDDWHLHLRDGDMLKTVVPYTSEIYGRAIVMPNLAPPVTTVEAAVAYRQRIL 60 d1tqja_ 26 E-A-----GADWIHVDVMDGRFVPNITIGPL--IVDAIRPLTKKTLDVHLMIV------- 70 : : ::::::::: ::::: :::::::::::::::::::: d1j79a_ 61 DAVPAPHDFTPLMTCYL---------TDSLDPNELERGFNEGVFTAAALYPANATTNSSH 111 d1tqja_ 71 ---EPEKYVEDFAKA--GADIISV-HV-----------EHNASPH-LHRTLCQIRELGKK 112 :::::::::::: ::::::: :: ::::::: :::::::: :: :: d1j79a_ 112 GVTSVDAIMPVLERMEKIGMPLLVHGEVTHADIDIFDREARFIESVMEPLRQRL-TA-LK 169 d1tqja_ 113 AGAVLNPSTPLDFLEYVL-PV-CDLILIM-SV--------------NPQSFIP---EV-L 151 :::::: :::::::::: :: ::::::: :: ::::: :: d1j79a_ 170 VVFEHI--TTKDAADYVRDGNERLAATITPQHLMFNRNHMLVGGVR--PHLYCLPILKR- 224 d1tqja_ 152 P-KIRALRQMCDERGLDPWI-EVD-G---------------GLKPNNTWQVLE-A----- 187 : ::::::::::: :::::: ::: : :::::::::::: : d1j79a_ 225 NIHQQALRELVAS-GFQRVFLGTDSAPHARHRKESSCGCAGCFNAPTALGSYATVFEEMN 283 d1tqja_ 188 ----G--AN---A---------------------------IVAGSAVFNA---------- 201 : :: : :: d1j79a_ 284 ALQHFEAFCSVNGPQFYGLPVNDTFIELVREEQQVAESIA--------LTDDTLVPFLAG 335 d1tqja_ 202 -----PNYAEAIAGVRNSKR 216 ::: d1j79a_ 336 ETVRW------------SVK 343 HHsearch alignment (Probability: 0.10 E-value:0.62) d1tqja_ 170 IEVDGGLKPNNTWQVLEAGAN 190 ::::::::::::::::::::: d1j79a_ 170 VVFEHITTKDAADYVRDGNER 190