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 | d1m5wa_ | Pyridoxine 5'-phosphate synthase | Pyridoxine 5'-phosphate synthase | TIM beta/alpha-barrel | α/β |
| Hit | d1xyza_ | Xylanase | (Trans)glycosidases | TIM beta/alpha-barrel | α/β |
Query <-- 1.875 --> IntermediateDALI alignment (Z-score: 11.1 Raw score:1066.10) query 1 mietpyylidkakltrnmeriahvreksGAKALLALKCFA------------TWSVFDLM 48 :::::::::::: :::::::: d1m5wa_ 1 ---------------------------aELLLGVNIDHIAtlrnargtaypdPVQAAFIA 33 query 49 RD-YMDGTTSSS--------LFEVRLGRERFGKETHAYSVaYGDNEIDEVVSH-ADKIIF 98 :: ::::::::: :::::::::::::::::::: :::::::::::: :::::: d1m5wa_ 34 EQaGADGITVHLredrrhitDRDVRILRQTLDTRMNLEMA-VTEEMLAIAVETkPHFCCL 92 query 99 N-----------------sISQLERFADKAA--GIARGLRLNPqrlgewDVPKVERVMD- 138 : :::::::::::: :::::::::: :::::::::: d1m5wa_ 93 VpekrqevtteggldvagqRDKMRDACKRLAdaGIQVSLFIDA------DEEQIKAAAEv 146 query 139 RINGFMIHNNceNKDFG--LFDRMLGEIEERFGALIARVDWVSLGGGIHFtgddypvdaF 196 :::::::::: ::::: ::::::::::::::::::::::::::::::: : d1m5wa_ 147 GAPFIEIHTGcyADAKTdaEQAQELARIAKAATFAASLGLKVNAGHGLTY--------hN 198 query 197 SARLRAFSdrygVQIYLEPGEASITKSTtlevtvldtlynknlaivdssieahmldlliy 256 :::::::: :::::::::::::::: d1m5wa_ 199 VKAIAAIP----EMHELNIGHAIIGRAV-------------------------------- 222 query 257 retakvlpnegshsymicgksclagdvfgefrfaeelkvgdrisfQDAAgytmvkknwfn 316 :::: d1m5wa_ 223 ---------------------------------------------MTGL----------- 226 query 317 gvkmpaiaireldgsvrtvreftyadyeqsls 348 d1m5wa_ 227 ----------------kdavaemkrlmlearg 242 FAST alignment (Normalized score: 6.41 Raw score:1859.00) query 1 MIETPYYLIDKAKLTRNMERIAHVREKS-GAKALLALKCFA--------------TWSVF 45 :::::::::: ::::: d1m5wa_ 1 ----------------------------AELLLGVNIDH--IATLRNARGTAYPDPVQAA 30 query 46 DLMR-DYMDGTTS--------SSLFEVRLGRERFGKETHAYSVAYGDNEIDEVVS-HADK 95 :::: :::::::: ::::::::::::::::::::: :::::::::::: :::: d1m5wa_ 31 FIAEQAGADGITVHLREDRRHITDRDVRILRQTLDTRMNLEM-AVTEEMLAIAVETKPHF 89 query 96 IIFN------------------SISQLERFADKA---AGIARGLRLNPQRLGEW----DV 130 ::: ::::::::::: :::::::::: :: d1m5wa_ 90 CCL-VPEKRQEVTTEGGLDVAGQRDKMRDACKR-LADAGIQVSLFID-------ADEEQI 140 query 131 PKVERVMD-RINGFMI--HNNCENKDFGLFDRMLGEIEERFGALIARV--DWVSLGGGIH 185 ::::: ::::::: :::::::::::::::::::::::::::: ::::::::: d1m5wa_ 141 KAAAE---VGAPFIEIHTGCYADAKTDAEQAQELARIAKAATFAAS--LGLKVNAGHGL- 194 query 186 FTGDDYPVDA---FSARLRAFSDRYGVQ----IYLEPGEASITKSTTLEVTVLDTLYNKN 238 ::::::: ::::::::: d1m5wa_ 195 ----------TYHNVKAIAA--------IPEMHELNIGHAI------------------- 217 query 239 LAIVDSSIEAHMLDLLIYRETAKVLPNEGSHSYMICGKSCLAGDVFGEFRFAEELKVGDR 298 d1m5wa_ 218 ------------------------------------------------------------ 218 query 299 ISFQDAAGYTMVKKNWFNGVKMPAIAIRELDGSVRTVREFTYADYEQSLS---------- 348 d1m5wa_ 218 --------------------------------------------------IGRAVMTGLK 227 query 349 --------------- 349 d1m5wa_ 228 DAVAEMKRLMLEARG 242 TMalign alignment (TM-score: 0.43 Raw score:150.40) query 1 MIETPYYLIDKAKLTRNMERIAHVREKSGAKALLALKCFA------------TWSVFDLM 48 ::::::::::::: :::::::: d1m5wa_ 1 ---------------------------AELLLGVNIDHIATLRNARGTAYPDPVQAAFIA 33 query 49 RD-YMDGTTSSS-------LF-EVRLGRERFGKETHAYSVAYGDNEIDEVV-SHADKIIF 98 :: ::::::::: :: :::::::::::::::::::: :::::::: :::::::: d1m5wa_ 34 EQAGADGITVHLREDRRHITDRDVRILRQTLDTRMNLEMAVT-EEMLAIAVETKPHFCCL 92 query 99 -------------NSI--S--QLERFADKAA--GIARGLRLNPQRLGEWDVPKVERVMDR 139 ::: : :::::::::: :::::::::: :::::::::::: d1m5wa_ 93 VPEKRQEVTTEGGLDVAGQRDKMRDACKRLADAGIQVSLFIDA-----DEEQIKAAAEVG 147 query 140 INGFMIHNNCENKD--FG-LFDRMLGEIEERFGALIARVDWVSLGGGIHFTGDDYPVDAF 196 :::::::::::::: : ::::::::::::::::::::::::::::::: ::: : d1m5wa_ 148 APFIEIHTGCYADAKT-DAEQAQELARIAKAATFAASLGLKVNAGHGLTY----HNV--K 200 query 197 SARLRAFSDRYGVQIYLEPGEASITKSTTLEVTVLDTLYNKNLAIVDSSIEAHMLDLLIY 256 : ::: :: : ::::::::::::::: d1m5wa_ 201 A-IAA-IP--E--MHELNIGHAIIGRAV-------------------------------- 222 query 257 RETAKVLPNEGSHSYMICGKSCLAGDVFGEFRFAEELKVGDRISFQDAAG---------- 306 :::: d1m5wa_ 223 ----------------------------------------------MTGLKDAVAEMKRL 236 query 307 ------YTMVKKNWFNGVKMPAIAIRELDGSVRTVREFTYADYEQSLS 348 d1m5wa_ 237 MLEARG------------------------------------------ 242 HHsearch alignment (Probability: 0.05 E-value:0.11) query 110 KAAGIARGLRLNPQRLGEWDVPKVERVMDRINGFMIHNNCENKDFGLF-----DRMLGEI 164 :::::::::::::: ::::::::::::::::::::::::::::: ::::::: d1m5wa_ 123 ADAGIQVSLFIDAD-----EEQIKAAAEVGAPFIEIHTGCYADAKTDAEQAQELARIAKA 177 query 165 EERFGALIARVDWVSLGGGI 184 ::::::::::: :::::: d1m5wa_ 178 ATFAASLGLKV---NAGHGL 194
Intermediate <-- 1.831 --> HitDALI alignment (Z-score: 13.0 Raw score:1376.20) d1m5wa_ 1 ---------AELLLGVNIDHIAtlrnargtAYPDpvQAAFIAEQaGADGITVH--LREDR 49 ::::::::::::: :::: :::::::: :::::::: ::::: d1xyza_ 1 nalrdyaeaRGIKIGTCVNYPF-------yNNSD-pTYNSILQR-EFSMVVCEneMKFDA 51 d1m5wa_ 50 -----rhitDRDVRILRQTLD---TRMNLEMAV-----------------------TEEM 78 :::::::::::: ::::::::: :::: d1xyza_ 52 lqprqnvfdFSKGDQLLAFAErngMQMRGHTLIwhnqnpswltngnwnrdsllavmKNHI 111 d1m5wa_ 79 LAIAVETK--PHFCCLVPekrqevtteggLDVA--------------gqrDKMRDACKRL 122 :::::::: :::::::: :::: :::::::::: d1xyza_ 112 TTVMTHYKgkIVEWDVAN-----------ECMDdsgnglrssiwrnvigqDYLDYAFRYA 160 d1m5wa_ 123 AD--AGIQVSLFI--DADE-----EQIKAAAEV-----GAPFIEIHTGcyADAKtdaEQA 168 :: ::::::::: :::: ::::::::: :::::::::: :::: ::: d1xyza_ 161 REadPDALLFYNDynIEDLgpksnAVFNMIKSMkergvPIDGVGFQCH--FING---MSP 215 d1m5wa_ 169 QELARIAKAATFAASLGLKVNAGHGLT---------------YHNVKAIAAIP----EMH 209 ::::::::::::::::::::::::::: ::::::::::: ::: d1xyza_ 216 EYLASIDQNIKRYAEIGVIVSFTEIDIripqsenpatafqvqANNYKELMKIClanpNCN 275 d1m5wa_ 210 ELNIGHaIIGR-----------------AVMTGlkdavaEMKRLMLEARG 242 :::::: :::: ::::: ::::::::::: d1xyza_ 276 TFVMWG-FTDKytwipgtfpgygnpliyDSNYN----pkPAYNAIKEALM 320 FAST alignment (Normalized score: 8.16 Raw score:2272.00) d1m5wa_ 1 A----------ELLLGVNIDHIATLRNARGTAYP-----------DPVQAAFIAEQAGAD 39 ::::::: ::::::: :::: d1xyza_ 1 -NALRDYAEARGIKIGTC----------------VNYPFYNNSDPTYNSILQ----REFS 39 d1m5wa_ 40 GITVHLREDRRHI----------------TDRDVRILRQT---LDTRMNLEMAV------ 74 :::: ::::::::::: ::::::::: d1xyza_ 40 MVVC---------ENEMKFDALQPRQNVFDFSKGDQLLAFAERNGMQMRGHT--LIWHNQ 88 d1m5wa_ 75 ------------------TEEM-LAIAVET--KPHFCCLVPEKRQEVTTEGGLDVAGQ-- 111 :::: ::::::: :::::: d1xyza_ 89 NPSWLTNGNWNRDSLLAVMKNHITTVMTHYKGKIVEWD--------------------VA 128 d1m5wa_ 112 ---------------------RDKMRDACKRLAD--AGIQVSLFIDA---------DEEQ 139 ::::::::::::: ::::::::: :::: d1xyza_ 129 NECMDDSGNGLRSSIWRNVIGQDYLDYAFRYAREADPDALLFYND--YNIEDLGPKSNAV 186 d1m5wa_ 140 IKAAAE-----VGAPFIEIHTGCYADAKTDAE--QAQELARIAKAATFAASLGLKVNAGH 192 :::::: :::::::::: :::: ::::::::::::::::::::::::: d1xyza_ 187 FNMIKSMKERGVPIDGVGFQC----HFIN---GMSPEYLASIDQNIKRYAEIGVIVSFT- 238 d1m5wa_ 193 GL------------------TYHNVKAIA----AIPEMHELNIGHAIIGRAVMTGLKDAV 230 ::::::::: ::::::::: d1xyza_ 239 --EIDIRIPQSENPATAFQVQANNYKELMKICLANPNCNTFV------------------ 278 d1m5wa_ 231 ------------------------------AEMKRLMLEARG- 242 ::::::::::: d1xyza_ 279 MWGFTDKYTWIPGTFPGYGNPLIYDSNYNPKPAYNAIKEAL-M 320 TMalign alignment (TM-score: 0.68 Raw score:165.57) d1m5wa_ 1 ---------AELLLGVNIDHIATLRNARGTAYPDP-VQAAFIAEQAGADGITVH--LRED 48 ::::::::: :: :: :::::: :: :::::: ::::::: :::: d1xyza_ 1 NALRDYAEARGIKIGTCV--NY-PF----YNNSDPT-YN-SILQRE-FSMVVCENEMKFD 50 d1m5wa_ 49 RR-------HITDRDVRILRQTL---DTRMNLEMAV----------------------T- 75 :: :::::::::::: :::::::::: : d1xyza_ 51 ALQPRQNVF--DFSKGDQLLAFAERNGMQMRGHTLIWHNQNPSWLTNGNWNRDSLLAVMK 108 d1m5wa_ 76 EEMLAIAVETK--PHFCCLVPEK--RQEVTTE-GG-LDV---------AGQRDKMRDACK 120 ::::::::::: :::::::::: : : ::: :::::::::::: d1xyza_ 109 NHITTVMTHYKGKIVEWDVANECMD------DS-GNGLRSSIWRNVIGQDYLDYAFRYAR 161 d1m5wa_ 121 RLADAGIQVSLFI--DA-----D---EEQIKAAAE--VGAPFIEIHTGCYADAKTDAEQA 168 :::: :::::::: :: : ::::::::: ::::::::::: ::: :: :: d1xyza_ 162 EADP-DALLFYNDYNIEDLGPKSNAVFNMIKSMKERGVPIDGVGFQCH--FIN-GM--SP 215 d1m5wa_ 169 QELARIAKAATFAASLGLKVNAGHGLT--------------YH-NVKAIAAI--PE--MH 209 ::::::::::::::::::::::::::: :: :::::::: :: :: d1xyza_ 216 EYLASIDQNIKRYAEIGVIVSFTEIDIRIPQSENPATAFQVQANNYKELMKICLANPNCN 275 d1m5wa_ 210 ELNIGHAIIG-----------------RAVMTGLKDAVAEMKRLMLEARG 242 :::::: ::: :::::: :: ::: :::::::: d1xyza_ 276 TFVMWG-FTDKYTWIPGTFPGYGNPLIYDSNYN--PK-PAY-NAIKEALM 320 HHsearch alignment (Probability: 0.01 E-value:0.59) d1m5wa_ 141 KAAAEVGAPF 150 :::::::::: d1xyza_ 158 RYAREADPDA 167