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 | d1n55a_ | Triosephosphate isomerase | Triosephosphate isomerase (TIM) | 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 <-- 2.153 --> HitDALI alignment (Z-score: 14.4 Raw score:1333.20) d1tqja_ 1 --KNIVVAPSILSADFSR-LGEEIKAVDEA-----gaDWIHVdvmdgrfvpnitigPLIV 52 :::::::::::::::: ::::::::::: ::::: :::: d1n55a_ 1 akPQPIAAANWKCNGTTAsIEKLVQVFNEHtishdvqCVVAP-------------tFVHI 47 d1tqja_ 53 DAIRPLTK---KTLDVHLmivEPEK--------YVEDFAKAGADIISVH-----veHNAS 96 :::::::: ::::::: :::: :::::::::::::::: :::: d1n55a_ 48 PLVQAKLRnpkYVISAQN---AIAKsgaftgevSMPILKDIGVHWVILGhserrtyYGET 104 d1tqja_ 97 -PHLHRTLCQIRELGKKAGAVLNPS-----------TPLDFLEYVL-------PVCDLIL 137 :::::::::::::::::::::::: :::::::::: ::::::: d1n55a_ 105 dEIVAQKVSEACKQGFMVIACIGETlqqreanqtakVVLSQTSAIAakltkdaWNQVVLA 164 d1tqja_ 138 IMS--VNPQ-SFIP--EVLPKIRALRQMCDE---RGLD--PWIEVDGGLKPNNTWQVLEA 187 ::: :::: :::: ::::::::::::::: :::: :::::::::::::::::::: d1n55a_ 165 YEPvwAIGTgKVATpeQAQEVHLLLRKWVSEnigTDVAakLRILYGGSVNAANAATLYAK 224 d1tqja_ 188 -GANAIVAGSAVFNapnyaEAIAGVRNSkr 216 ::::::::::::: ::::::::: d1n55a_ 225 pDINGFLVGGASLK-----PEFRDIIDAtr 249 FAST alignment (Normalized score: 9.48 Raw score:2200.00) d1tqja_ 1 --KNIVVAPS-ILSADFSRLGEEIKAVDEAGA-------DWIHVDVMDGRFVPNITIGPL 50 :::::::: ::::::::::::::::::: ::::: ::: d1n55a_ 1 AKPQPIAAANWKCNGTTASIEKLVQVFNEH--TISHDVQCVVAP-------------TFV 45 d1tqja_ 51 IVDAIRPLTK---KTLDVHLMIVEPEK--------------YVEDFAKAGADIISVHVEH 93 :::::::::: ::::: :::::::::::::: d1n55a_ 46 HIPLVQAKLRNPKYVISA---------QNAIAKSGAFTGEVSMPILKDIGVHWVI----- 91 d1tqja_ 94 NAS--------------PHLHRTLCQIRELGKKAGAVLNPST----------------PL 123 :::::::::::::::::::: :: d1n55a_ 92 ---LGHSERRTYYGETDEIVAQKVSEACKQGFMVIAC-----IGETLQQREANQTAKVVL 143 d1tqja_ 124 DFLEYVLPVC---------DLILIMSVN------PQSF--IPEVLPKIRALRQMCDERG- 165 :::::::: :::::: :::: ::::::::::::::::: d1n55a_ 144 SQTSAIAA--KLTKDAWNQVVLAYE---PVWAIGTGKVATPEQAQEVHLLLRKWVSE--N 196 d1tqja_ 166 ------LDPWIEVDGGLKPNNTWQVLE-AGANAIVAGSAVFNAP--NYAEAIAGVRNSKR 216 ::::::::::::::::::::: ::::::::::::: ::::::: d1n55a_ 197 IGTDVAAKLRILYGGSVNAANAATLYAKPDINGFLVGGASL---KPEFRDIID------- 246 d1tqja_ 217 --- 217 d1n55a_ 247 ATR 249 TMalign alignment (TM-score: 0.71 Raw score:152.80) d1tqja_ 1 --KNIVVAPSILSADF-SRLGEEIKAVDEA-G---ADWIHVDVMDGRFVPNITIGPLIVD 53 :::::::::::::: ::::::::::::: : ::::::: : ::::: d1n55a_ 1 AKPQPIAAANWKCNGTTASIEKLVQVFNEHTISHDVQCVVAP-----------T-FVHIP 48 d1tqja_ 54 AIRPLTK---KTLDVHLMIVEPE-------KYVE-DFAKAGADIISVHV---EH--NAS- 96 ::::::: ::::::: ::: :::: :::::::::::::: :: ::: d1n55a_ 49 LVQAKLRNPKYVISAQN---AIAKSGAFTGEVSMPILKDIGVHWVILGHSERRTYYGETD 105 d1tqja_ 97 PHLHRTLCQIRELGKKAGAVLNPS-----------TPLDFLEY-V--L-P-VC--DLILI 138 :::::::::::::::::::::::: :::::::: : : : :: ::::: d1n55a_ 106 EIVAQKVSEACKQGFMVIACIGETLQQREANQTAKVVLSQTSAIAAKLTKDAWNQVVLAY 165 d1tqja_ 139 MS--VNPQ-SFIP--EVLPKIRALRQMCDE--RG-L--DPWIEVDGGLKPNNT-WQVLEA 187 :: :::: :::: ::::::::::::::: :: : ::::::::::::::: :::::: d1n55a_ 166 EPVWAIGTGKVATPEQAQEVHLLLRKWVSENIGTDVAAKLRILYGGSVNAANAATLYAKP 225 d1tqja_ 188 GANAIVA-GSAVFNAPNYAEAIAGVRNSKR 216 ::::::: ::::::: :::::: ::: d1n55a_ 226 DINGFLVGGASLKPE--FRDIID-ATR--- 249 HHsearch alignment (Probability: 0.92 E-value:0.00) d1tqja_ 40 RFVPNITIGPLIVDAIRPLTKKTLDVHLMIVEPEKY-----VEDFAKAGADIISV-HVE- 92 :::::::::::::::: ::::::::::::::::::: :::::::::::::: ::: d1n55a_ 39 VVAPTFVHIPLVQAKL-RNPKYVISAQNAIAKSGAFTGEVSMPILKDIGVHWVILGHSER 97 d1tqja_ 93 ----HNASPHLHRTLCQIRELGKKAGAVLNPSTP-------LDF----LEYVLPVCDL-- 135 :::::::::::::::::::::::::::::: ::: :::::::::: d1n55a_ 98 RTYYGETDEIVAQKVSEACKQGFMVIACIGETLQQREANQTAKVVLSQTSAIAAKLTKDA 157 d1tqja_ 136 --ILIMSVNPQ-----------SFIPEVLPKIRAL-RQMCD-ERGLDPWIEVDGGLKPNN 180 ::::::::: ::::::::::::: ::::: :::::::::::::::::: d1n55a_ 158 WNQVVLAYEPVWAIGTGKVATPEQAQEVHLLLRKWVSENIGTDVAAKLRILYGGSVNAAN 217 d1tqja_ 181 TWQVLEA-GANAIVAGSAVFNAPNYAEAIAGV 211 ::::::: ::::::::::::: :::::::::: d1n55a_ 218 AATLYAKPDINGFLVGGASLK-PEFRDIIDAT 248