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 | d1i1wa_ | Xylanase A, catalytic core | (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 <-- 1.554 --> HitDALI alignment (Z-score: 12.6 Raw score:1318.10) d1m5wa_ 1 -------------AELLLGVNIDhiatlrnargtaypDPVQ--aaFIAEQAGADGITVH- 44 :::::::::: :::: :::::::::::::: d1i1wa_ 1 xaaqsvdqlikarGKVYFGVATD-------------qNRLTtgknAAIIQANFGQVTPEn 47 d1m5wa_ 45 -LREDR-----rhitDRDVRILRQTL---DTRMNLEMAV--------------------- 74 ::::: ::::::::::: :::::::::: d1i1wa_ 48 sMKWDAtepsqgnfnFAGADYLVNWAqqnGKLIRGHTLVwhsqlpswvssitdkntltnv 107 d1m5wa_ 75 -TEEMLAIAVETK--PHFCCLVPekrqevtteggLDVA-------------gqRDKMRDA 118 :::::::::::: :::::::: :::: ::::::: d1i1wa_ 108 mKNHITTLMTRYKgkIRAWDVVN-----------EAFNedgslrqtvflnvigEDYIPIA 156 d1m5wa_ 119 CKRLAD--AGIQVSLFIDA--------DEEQIKAAAE-----VGAPFIEIHTGcYADAkt 163 :::::: ::::::::::: :::::::::: ::::::::::: :::: d1i1wa_ 157 FQTARAadPNAKLYINDYNldsasypkTQAIVNRVKKwraagVPIDGIGSQTH-LSAG-- 213 d1m5wa_ 164 daeqaqELARIAKAATFAASLGL-KVNA-GHGL---tYHNVKAIAAIP----EMHELNIG 214 ::::::::::::::::: :::: :::: ::::::::::: :::::::: d1i1wa_ 214 ------QGASVLQALPLLASAGTpEVAItELDVagasSTDYVNVVNAClnvsSCVGITVW 267 d1m5wa_ 215 HaIIGR-----------AVMTGlkdavaemKRLMLEARG- 242 : :::: ::::: ::::::::: d1i1wa_ 268 G-VADPdswrasttpllFDGNF---npkpaYNAIVQNLQq 303 FAST alignment (Normalized score: 7.21 Raw score:1952.00) d1m5wa_ 1 AE---------------LLLGVNIDHIATLRNARGTAY-------PDPVQAAFIAEQAGA 38 ::::::: :::::::: ::: d1i1wa_ 1 --AAAQSVDQLIKARGKVYFGVAT--------------DQNRLTTGKNAAIIQ----ANF 40 d1m5wa_ 39 DGITVHLR---------------EDRRHITDRDVRILRQTLDTRMNLEMAV--------- 74 ::::: ::::: :::::::::: ::::::::: d1i1wa_ 41 GQVTP---ENSMKWDATEPSQGNFNFAG-ADYLVNWAQQ-NGKLIRGHT--LVWHSQLPS 93 d1m5wa_ 75 ------------------TEEMLAIAVET---KPHFCCLVPEKRQEVTTEGGLDVAG--- 110 ::::::: :::::: d1i1wa_ 94 WVSSITDKNTLTNVMKNHITTLMTR----YKGKIRAWD-------------------VVN 130 d1m5wa_ 111 ------------------QRDKMRDACKRLAD--AGIQVSLFIDA----------DEEQI 140 :::::::::::::: ::::::::: ::::: d1i1wa_ 131 EAFNEDGSLRQTVFLNVIGEDYIPIAFQTARAADPNAKLYIND--YNLDSASYPKTQAIV 188 d1m5wa_ 141 KAAAE-----VGAPFIEIHTGCYADAKTDAEQA----QELARIAKAATFAASLG-LKVNA 190 ::::: :::::::::: ::::::::::::::::: ::::: d1i1wa_ 189 NRVKKWRAAGVPIDGIGSQT-------------HLSAGQGASVLQALPLLASAGTPEVAI 235 d1m5wa_ 191 GHGL-------TYHNVKAIA----AIPEMHELNIGHAIIGRAVMTGLKDAV--------- 230 : ::::::::: ::::::::: d1i1wa_ 236 T---ELDVAGASSTDYVNVVNACLNVSSCVGIT------------------VWGVADPDS 274 d1m5wa_ 231 ----------------AEMKRLMLEARG--- 242 :::::::::: d1i1wa_ 275 WRASTTPLLFDGNFNPKPAYNAIVQN--LQQ 303 TMalign alignment (TM-score: 0.67 Raw score:163.34) d1m5wa_ 1 ------------AEL-LLGVNIDHIATLRNARGTAYPDPVQAAFIAEQAGADGITV-H-L 45 ::: ::::::: :: : :::::: ::::::::::::: : : d1i1wa_ 1 AAAQSVDQLIKARGKVYFGVATD-QN--R-------LTTGKN-AAIIQANFGQVTPENSM 49 d1m5wa_ 46 REDRR-------HITDRDVRILRQTL---DTRMNLEMAV--------------------- 74 ::::: :::::::::::: :::::::::: d1i1wa_ 50 KWDATEPSQGNF--NFAGADYLVNWAQQNGKLIRGHTLVWHSQLPSWVSSITDKNTLTNV 107 d1m5wa_ 75 T-EEMLAIAVETK-PH-FCCLVPEKRQEVTTEG-GLDV--------AG-QRDKMRDACKR 121 : ::::::::::: :: :::::::: ::: :::: :: ::::::::::: d1i1wa_ 108 MKNHITTLMTRYKGKIRAWDVVNEA-----FNEDGSLRQTVFLNVIGEDYIPIAFQTARA 162 d1m5wa_ 122 LADAGIQVSLFI--D-------AD--EEQIKAAAE--VGAPFIEIHTGCYADAKTDAEQA 168 ::: :::::::: : :: ::::::::: ::::::::::: ::: : :: d1i1wa_ 163 ADP-NAKLYINDYNLDSASYPKTQAIVNRVKKWRAAGVPIDGIGSQTH--LSA--G--QG 215 d1m5wa_ 169 QELARIAKAATFAASLGLKVNAGHGLT--YH--NVKAIAAI--PE--MHELNIGHAIIG- 219 ::::::::::::: :::::::::::: :: :::::::: :: :::::::: ::: d1i1wa_ 216 ASVLQALPLLASA--GTPEVAITELDVAGASSTDYVNVVNACLNVSSCVGITVWG-VADP 272 d1m5wa_ 220 ---------R-AVMTGLKDAVAEMKRLMLEARG- 242 : ::::: :::::: :::::::: d1i1wa_ 273 DSWRASTTPLLFDGNF--NPKPAY-NAIVQNLQQ 303 HHsearch alignment (Probability: 0.01 E-value:0.26) d1m5wa_ 76 EEMLAIAVETK 86 ::::::::::: d1i1wa_ 67 DYLVNWAQQNG 77