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 | d1kkoa1 | beta-Methylaspartase | Enolase C-terminal domain-like | 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 <-- 1.631 --> HitDALI alignment (Z-score: 14.6 Raw score:1404.60) d1m5wa_ 1 ----AELLLGVNIDHIatlrnargtaypdPVQAAFIAEQAGADGI-TVHLREDRRH---- 51 :::::::::::: :::::::::::::::: :::::::::: d1kkoa1 1 pcvpEAIPLFGQSGDD-------------RYIAVDKMILKGVDVLpHALINNVEEKlgfk 47 d1m5wa_ 52 --iTDRDVRILRQTL---------DTRMNLEMA--VTEE-------MLAIAVETK----- 86 :::::::::::: ::::::::: :::: ::::::::: d1kkoa1 48 gekLREYVRWLSDRIlslrsspryHPTLHIDVYgtIGLIfdmdpvrCAEYIASLEkeaqg 107 d1m5wa_ 87 -pHFCCLVPEkrqevttegglDVAGQRDKMRDACKRLA--DAGIQVSLF--IDADEeQIK 141 :::::::: ::::::::::::::::: ::::::::: ::::: ::: d1kkoa1 108 lpLYIEGPVD---------agNKPDQIRMLTAITKELTrlGSGVKIVADewCNTYQ-DIV 157 d1m5wa_ 142 AAA-EVGAPFIEIHTGCYadaktdaeqaQELARIAKAATFAASLGLKVNAGHG--LTYHN 198 ::: :::::::::::::: ::::::::::::::::::::::::: ::::: d1kkoa1 158 DFTdAGSCHMVQIKTPDL----------GGIHNIVDAVLYCNKHGMEAYQGGTcnETEIS 207 d1m5wa_ 199 VKAIAAI---PEMHELNIghAIIGravmtgLKDAVAEMKRLMLEARG---- 242 ::::::: :::::::: :::: ::::::::::::::::: d1kkoa1 208 ARTCVHValaARPMRMLI-kPGMG------FDEGLNIVFNEMNRTIAllqt 251 FAST alignment (Normalized score: 9.21 Raw score:2270.00) d1m5wa_ 1 ----AELLLGVNIDHIATLRNARGTAYP---DPVQAAFIAEQAGAD-GITVHLREDRRHI 52 :::::::: ::::::::::::::: :::::: d1kkoa1 1 PCVPEAIPLFGQ----------------SGDDRYIAVDKMILKGVDVLPHALI------- 37 d1m5wa_ 53 -------------TDRDVRILRQTL----------DTRMNLEMAV---------TEEMLA 80 ::::::::::: :::::::::: :::::: d1kkoa1 38 NNVEEKLGFKGEKLREYVRWLSDR-ILSLRSSPRYHPTLHIDVYGTIGLIFDMDPVRCAE 96 d1m5wa_ 81 IAVETKPHFCCLVPEKRQEVTTEGG------------------LDVAGQRDKMRDACKRL 122 :::: ::::::::::::::::: d1kkoa1 97 YIAS---------------------LEKEAQGLPLYIEGPVDAGNKPDQIRMLTAITKEL 135 d1m5wa_ 123 A--DAGIQVSLFID----ADEEQIKAAAEV-GAPFIEIHTGCYADAKTDAEQAQ----EL 171 : :::::::: :::::::::::: ::::::::: :: d1kkoa1 136 TRLGSGVKIVA---DEWCNTYQDIVDFTDAGSCHMVQIKT--------------PDLGGI 178 d1m5wa_ 172 ARIAKAATFAASLGLKVNAG--HGLTYHNVKAIAAI----PEMHELNIGHAIIGRAVMTG 225 :::::::::::::::::::: ::::::::::::: ::::::: d1kkoa1 179 HNIVDAVLYCNKHGMEAYQGGTCNETEISARTCVH-VALAARPMRML------------- 224 d1m5wa_ 226 LKD-----AVAEMKRLMLEARG---------- 242 :::::::::::: d1kkoa1 225 ---IKPGMGFDEGLNIVFNE--MNRTIALLQT 251 TMalign alignment (TM-score: 0.68 Raw score:163.84) d1m5wa_ 1 ----AELLLGVNIDHIATLRNARGTAYPDPVQAAFIAEQAGADGI-TVHLREDRRHI--- 52 :::::::::::: :::::::::::::::: ::::::::::: d1kkoa1 1 PCVPEAIPLFGQSGDD-------------RYIAVDKMILKGVDVLPHALINNVEEKLGFK 47 d1m5wa_ 53 --TD-RDVRILRQTLD---------TRMNLEM-A-VTEEM------L-AIAVETK--P-- 87 :: ::::::::::: ::::::: : ::::: : ::::::: : d1kkoa1 48 GEKLREYVRWLSDRILSLRSSPRYHPTLHIDVYGTIGLIFDMDPVRCAEYIASLEKEAQG 107 d1m5wa_ 88 --HFCCLVPEKRQEVTTEGGLDVAGQRDKMRDACKRLA--DAGIQVSLF--IDADEEQIK 141 ::::::::: ::: ::::::::::::::: ::::::::: ::::::::: d1kkoa1 108 LPLYIEGPVDA--------GNK-PDQIRMLTAITKELTRLGSGVKIVADEWCNTYQDIVD 158 d1m5wa_ 142 AAAEVGAPFIEIHTGCYADAKTDAEQAQELARIAKAATFAASLGLKVNAGHG--LTYHNV 199 ::::::::::::::::: ::::::::::::::::::::::::: :::::: d1kkoa1 159 FTDAGSCHMVQIKTPDL----------GGIHNIVDAVLYCNKHGMEAYQGGTCNETEISA 208 d1m5wa_ 200 KAIAAI---PEMHELNIGHAIIGRAVMTGLKDAVAEMKRLMLEAR--G-- 242 :::::: ::::::::::::: : : :::::::::::::: : d1kkoa1 209 RTCVHVALAARPMRMLIKPGMG--F----D-EGLNIVFNEMNRTIALLQT 251 HHsearch alignment (Probability: 0.28 E-value:0.03) d1m5wa_ 109 AGQRDKMRDACKRLADAGIQVSLFIDADEE---QIKAAAEVG-APFIEIHTGCYADAKTD 164 :::::::::::::::::::::::::::::: ::::::::: ::::::::::: d1kkoa1 122 PDQIRMLTAITKELTRLGSGVKIVADEWCNTYQDIVDFTDAGSCHMVQIKTPDL------ 175 d1m5wa_ 165 AEQAQELARIAKAATFAASLGLKVNAGHGLTYHNVKAIA 203 ::::::::::::::::::::::::::::::::::: d1kkoa1 176 ----GGIHNIVDAVLYCNKHGMEAYQGGTCNETEISART 210