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 | d1rvka1 | Hypothetical protein Atu3453 | Enolase C-terminal domain-like | 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 <-- 2.003 --> HitDALI alignment (Z-score: 12.6 Raw score:1204.30) d1tqja_ 1 --knIVVAPSIL-----sADFS---RLGEEIKAVDEAGADWIHVDVMDGrfvPNIT--IG 48 :::::::: :::: :::::::::::::::::::::::: :::: :: d1rvka1 1 yrdkVLAYGSIMcgdeleGGLAtpeDYGRFAETLVKRGYKGIKLHTWMPpvsWAPDvkMD 60 d1tqja_ 49 PLIVDAIRPLT--KKTLDVHLMIVE----PEKYVEDFAKAGADIISV--HVEHnaSPHLH 100 ::::::::::: :::::::::::: :::::::::::::::::: :::: ::::: d1rvka1 61 LKACAAVREAVgpDIRLMIDAFHWYsrtdALALGRGLEKLGFDWIEEpmDEQS--LSSYK 118 d1tqja_ 101 RTLCQIrelGKKAGAVLNpSTPLDFLEYVL--PVCDLILIMSVnpqsfipEVLPKIRALR 158 :::::: ::::::::: ::::::::::: ::::::::::: :::::::::: d1rvka1 119 WLSDNL---DIPVVGPESaAGKHWHRAEWIkaGACDILRTGVN-----dvGGITPALKTM 170 d1tqja_ 159 QMCDErgLDPWIEVDGGLkpnnTWQVLEAG-ANAIVAGS--avfNAPN-----------y 204 ::::: ::::::::::: :::::::: :::::::: :::: d1rvka1 171 HLAEA--FGMECEVHGNT-amnLHVVAATKnCRWYERGLlhpflEYDDghdylkslsdpm 227 d1tqja_ 205 AEAIAgvRNSKR------------------ 216 ::::: ::::: d1rvka1 228 DRDGF--VHVPDrpglgedidftfidnnrv 255 FAST alignment (Normalized score: 7.95 Raw score:1865.00) d1tqja_ 1 K---NIVVAPSILSADFS---------------RLGEEIKAVDEAGADWIHVDVMDGRFV 42 ::::::: :::::::::::::::::::::: d1rvka1 1 -YRDKVLAYGS-------IMCGDELEGGLATPEDYGRFAETLVKRGYKGIKLHTW----- 47 d1tqja_ 43 PNITI------------GPLIVDAIRPL--TKKTLDVHLMIV--------EPEKYVEDFA 80 ::::::::::: :::::::: :::::::::: d1rvka1 48 -----MPPVSWAPDVKMDLKACAAVREAVGPDIRLMID----AFHWYSRTDALALGRGLE 98 d1tqja_ 81 KAGADIISVHVEHNAS---------PHLHRTLCQIRELGKKAGAVLNPS------TPLDF 125 ::::::: ::::::::: :::::: ::::: d1rvka1 99 KLGFDWI---------EEPMDEQSLSSYKWLSDN---LDIPVV------GPESAAGKHWH 140 d1tqja_ 126 LEYVL--PVCDLILIMSVNPQSFIPE----VLPKIRALRQMCDERGLDPWIEVDGGLKPN 179 ::::: :::::::::: ::::::::::::::: ::::::: d1rvka1 141 RAEWIKAGACDILRTGV---------NDVGGITPALKTMHLAEAF--GMECEVH------ 183 d1tqja_ 180 N--TWQVLE-----AGANAIVAGSAVFNA-------PNYAEAIAGV-------------- 211 :::::: ::::::: :::: d1rvka1 184 -GNTAMNLHVVAATKNCRWYE--------RGLLHPFLEYD------DGHDYLKSLSDPMD 228 d1tqja_ 212 ----RNSKR------------------- 216 :::: d1rvka1 229 RDGFVHVP-DRPGLGEDIDFTFIDNNRV 255 TMalign alignment (TM-score: 0.70 Raw score:150.51) d1tqja_ 1 KN--IVVAPSILSA-----DFS---RLGEEIKAVDEAGADWIHVDVMDGRFVPN--IT-- 46 :: :::::::::: ::: :::::::::::::::::::::::: :: :: d1rvka1 1 YRDKVLAYGSIMCGDELEGGLATPEDYGRFAETLVKRGYKGIKLHTWMP---PVSWAPDV 57 d1tqja_ 47 -IGPLIVDAIRPLT--KKTLDVHL-MIVE---PEKYVEDFAKAGADIISV-HVEHNASPH 98 ::::::::::::: :::::::: :::: :::::::::::::::::: ::::: ::: d1rvka1 58 KMDLKACAAVREAVGPDIRLMIDAFHWYSRTDALALGRGLEKLGFDWIEEPMDEQS-LSS 116 d1tqja_ 99 LHRTLCQIRELGKKAGAVLNPSTPLDFLEYVLP-V-CDLILIMSVNPQSFIPEVLPKIRA 156 :::::::: : ::::::::::::::::::::: : :::::::: ::::::::::: d1rvka1 117 YKWLSDNL--D-IPVVGPESAAGKHWHRAEWIKAGACDILRTGV-----NDVGGITPALK 168 d1tqja_ 157 LRQMCDERGLDPWIEVDGGLKPNNTWQVLEAG--ANAIVAGSAV--FNAPN--------- 203 :::::::: ::: ::::: :: :::::::::: :::::::::: ::::: d1rvka1 169 TMHLAEAF-GME-CEVHG-NT-AMNLHVVAATKNCRWYERGLLHPFLEYDDGHDYLKSLS 224 d1tqja_ 204 YAEAIA--GVRNSK-----R------------- 216 :::: :::::: : d1rvka1 225 --DPMDRDGFVHVPDRPGLGEDIDFTFIDNNRV 255 HHsearch alignment (Probability: 0.79 E-value:0.00) d1tqja_ 1 KNIVVAPSILSA--------DFSRLGEEIKAVDEAGADWIHVDVMDGR--FVPNITIGPL 50 :::::::::::: :::::::::::::::::::::::::::: :::::::::: d1rvka1 3 DKVLAYGSIMCGDELEGGLATPEDYGRFAETLVKRGYKGIKLHTWMPPVSWAPDVKMDLK 62 d1tqja_ 51 IVDAIRPLTKKTLDVHLMIV--------EPEKYVEDFAKAGADIISVHVEHNASPHLHRT 102 ::::::::::: ::::::: :::::::::::::::::: :::::::::: d1rvka1 63 ACAAVREAVGP--DIRLMIDAFHWYSRTDALALGRGLEKLGFDWIE----EPMDEQSLSS 116 d1tqja_ 103 LCQIRELGKKAGAVL--NPSTPLDFLEYVLP--VCDLILIMSVNPQSFIPEVLPKIRALR 158 ::::::: ::::::: :::::::::::::: ::::::: ::: :::::::::::: d1rvka1 117 YKWLSDN-LDIPVVGPESAAGKHWHRAEWIKAGACDILRT---GVN--DVGGITPALKTM 170 d1tqja_ 159 QMCDERGLDPWIEVDGGLK 177 ::::::::::::::::::: d1rvka1 171 HLAEAFGMECEVHGNTAMN 189