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 | d1r30a_ | Biotin synthase | Radical SAM enzymes | 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 <-- 2.079 --> HitDALI alignment (Z-score: 12.7 Raw score:1295.50) d1tqja_ 1 ----------------------------------kNIVVAPSIL---------------- 10 ::::::::: d1r30a_ 1 rprwtlsqvtelfekplldllfeaqqvhrqhfdprQVQVSTLLSiktgacpedckycpqs 60 d1tqja_ 11 -----------sadFSRLGEEIKAVDEAGADWIHVDVMDG-rfvpnitIGPLIVDAIRPL 58 :::::::::::::::::::::::::: :::::::::::: d1r30a_ 61 sryktgleaerlmeVEQVLESARKAKAAGSTRFCMGAAWKnpherdmpYLEQMVQGVKAM 120 d1tqja_ 59 TkKTLDVHLMivEPEK-YVEDFAKAGADIISVHVE-----------hnaSPHLHRTLCQI 106 : :::::::: :::: :::::::::::::::::: ::::::::::: d1r30a_ 121 G-LEACMTLG--TLSEsQAQRLANAGLDYYNHNLDtspefygniittrtYQERLDTLEKV 177 d1tqja_ 107 RELGKKAGAVLNPS------tPLDFLEYVL---PVCDLILIMSVN----------pqsfI 147 :::::::::::::: ::::::::: :::::::::::: : d1r30a_ 178 RDAGIKVCSGGIVGlgetvkdRAGLLLQLAnlpTPPESVPINMLVkvkgtpladnddvdA 237 d1tqja_ 148 PEVLPKIRALRQMCdergLDPWIEVDGGLK---pnnTWQVLEAGANAIVAGSA-vfnapn 203 :::::::::::::: :::::::::::: ::::::::::::::::: d1r30a_ 238 FDFIRTIAVARIMM----PTSYVRLSAGREqmneqtQAMCFMAGANSIFYGCKllttpnp 293 d1tqja_ 204 yAEAIAGvrNSKR------- 216 :::::: :::: d1r30a_ 294 eEDKDLQ-lFRKLglnpqqt 312 FAST alignment (Normalized score: 9.70 Raw score:2518.00) d1tqja_ 1 K-----------------------------------NIVVAPSILSADF----------- 14 ::::::: d1r30a_ 1 -RPRWTLSQVTELFEKPLLDLLFEAQQVHRQHFDPRQVQVSTL------LSIKTGACPED 53 d1tqja_ 15 ----------------------SRLGEEIKAVDEAGADWIHVDVMDGRFVPNITI----- 47 :::::::::::::::::::::: d1r30a_ 54 CKYCPQSSRYKTGLEAERLMEVEQVLESARKAKAAGSTRFCMGA-----------AWKNP 102 d1tqja_ 48 -------GPLIVDAIRPLTKKTLDVHLMIVE---PEKYVEDFAKAGADIISVHVEHNAS- 96 :::::::::: ::::::::: ::::::::::::::::::: d1r30a_ 103 HERDMPYLEQMVQGVKA-MGLEACMTL----GTLSESQAQRLANAGLDYYNHN------L 151 d1tqja_ 97 ----------------PHLHRTLCQIRELGKKAGAVLNPST--------PLDFLEYVLP- 131 ::::::::::::::::::::::: ::::::::: d1r30a_ 152 DTSPEFYGNIITTRTYQERLDTLEKVRDAGIKVCSGGIV--GLGETVKDRAGLLLQLA-N 208 d1tqja_ 132 ---VCDLILIMSVNPQSF----------------IPEVLPKIRALRQMCDERG-LDPWIE 171 ::::::::: :::::::::::::: :::::: d1r30a_ 209 LPTPPESVPINM------LVKVKGTPLADNDDVDAFDFIRTIAVARIM-----MPTSYVR 257 d1tqja_ 172 VDGG---LKPNNTWQVLEAGANAIVAGSAVFNAPNYAE----------AIAGVRNSKR-- 216 :::: ::::::::::::::::::: :::::: d1r30a_ 258 LSAGREQMNEQTQAMCFMAGANSIFY------------GCKLLTTPNPEEDKDL----QL 301 d1tqja_ 217 ----------- 217 d1r30a_ 302 FRKLGLNPQQT 312 TMalign alignment (TM-score: 0.69 Raw score:149.55) d1tqja_ 1 -------------------------------K---NIVVAPSILS--------------- 11 : :::::::::: d1r30a_ 1 RPRWTLSQVTELFEKPLLDLLFEAQQVHRQHFDPRQVQVSTLLSIKTGACPEDCKYCPQS 60 d1tqja_ 12 ------------ADF--SRLGEEIKAVDEAGADWIHVDVMDGRF----VPNITIGP-LIV 52 : :::::::::::::::::::::::: :: :: ::: d1r30a_ 61 SRYKTGLEAERL--MEVEQVLESARKAKAAGSTRFCMGAAW-KNPHER------DMPYLE 111 d1tqja_ 53 DAIRPL--TKKTLDVHLMIVEPEK-YVEDFAKAGADIISVHVE--H---------NASPH 98 :::::: ::::::::: : :::: :::::::::::::::::: : ::::: d1r30a_ 112 QMVQGVKAMGLEACMTL-G-TLSESQAQRLANAGLDYYNHNLDTSPEFYGNIITTRTYQE 169 d1tqja_ 99 LHRTLCQIRELGKKAGAVLNP-S-----TP---LDFLEYVLPVCDLILIMSVNPQ----- 144 ::::::::::::::::::::: : :: :::::::::::::::::::::: d1r30a_ 170 RLDTLEKVRDAGIKVCSGGIVGLGETVKDRAGLLLQLANLPTPPESVPINMLVKVKGTPL 229 d1tqja_ 145 S---FI-P-EVLPKIRALRQMCDERGLDPWIEVDGGLK-PNN--TWQVLEAGANAIVAGS 196 : :: : ::::::::::::: :::::::::::: ::: :::::::::::::::: d1r30a_ 230 ADNDDVDAFDFIRTIAVARIMM----PTSYVRLSAGREQMNEQTQAMCFMAGANSIFYGC 285 d1tqja_ 197 AVF--NA-PNYAEAIAGVRNSKR------ 216 ::: :: :: ::::::::::: d1r30a_ 286 KLLTTPNP-EE-DKDLQLFRKLGLNPQQT 312 HHsearch alignment (Probability: 0.97 E-value:0.00) d1tqja_ 12 ADFSRLGEEIKAVDEAGADWIHVDV-MDGRFVPNITIGPLIVDAIRPLTKKTLDVHLMIV 70 ::::::::::::::::::::::::: ::::::::: :::::::::::::::::::::: d1r30a_ 73 MEVEQVLESARKAKAAGSTRFCMGAAWKNPHERDM---PYLEQMVQGVKAMGLEACMTLG 129 d1tqja_ 71 -EPEKYVEDFAKAGADIISVHVEHNAS-----------PHLHRTLCQIRELGKKAG--AV 116 :::::::::::::::::::::::::: :::::::::::::::::: :: d1r30a_ 130 TLSESQAQRLANAGLDYYNHNLDTSPEFYGNIITTRTYQERLDTLEKVRDAGIKVCSGGI 189 d1tqja_ 117 LNPSTPLDFLEYVLP---V----CDLILIMSVNP--QSF--------IPEVLPKIRALRQ 159 ::::::::::::::: : ::::::::::: ::: ::::::::::::: d1r30a_ 190 VGLGETVKDRAGLLLQLANLPTPPESVPINMLVKVKGTPLADNDDVDAFDFIRTIAVARI 249 d1tqja_ 160 MCDERGLDPWIEVDGG---LKPNNTWQVLEAGANAIVAGSAVFNAPNYA--EAIAGVRNS 214 :: :::::::::: :::::::::::::::::::::::::::::: ::::::::: d1r30a_ 250 MM----PTSYVRLSAGREQMNEQTQAMCFMAGANSIFYGCKLLTTPNPEEDKDLQLFRKL 305