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 | d1kbla1 | Pyruvate phosphate dikinase, C-terminal domain | Phosphoenolpyruvate/pyruvate domain | 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 <-- 2.323 --> HitDALI alignment (Z-score: 13.1 Raw score:1420.20) d1m5wa_ 1 ----------------------aELLLGVNIDhiatlrnargtaypdPVQAAFIAEQAGA 38 ::::::::: ::::::::::::: d1kbla1 1 ietqeasvsgsferimvwadkfrTLKVRTNAD---------------TPEDTLNAVKLGA 45 d1m5wa_ 39 DGI-TVHLR-EDRR---------------------------hiTDRDVRILRQTL-DTRM 68 ::: ::::: :::: :::::::::::: :::: d1kbla1 46 EGIgLCRTEhMFFEadrimkirkmilsdsveareealnelipfQKGDFKAMYKALeGRPM 105 d1m5wa_ 69 NLEMA-----------------------------------------------------vT 75 ::::: : d1kbla1 106 TVRYLdpplhefvphteeeqaelaknmgltlaevkakvdelhefnpmmghrgcrlavtyP 165 d1m5wa_ 76 EEMLAIAVETK--------------pHFCCLVpekrqevtteggLDVAgqRDKMRDACKR 121 ::::::::::: :::::: :::: :::::::::: d1kbla1 166 EIAKMQTRAVMeaaievkeetgidivPEIMIP------------LVGE--KKELKFVKDV 211 d1m5wa_ 122 LADA------------GIQVSLFID---aDEEQiKAAAEvGAPFIEIHTG---------- 156 :::: ::::::::: :::: ::::: :::::::::: d1kbla1 212 VVEVaeqvkkekgsdmQYHIGTMIEipraALTA-DAIAE-EAEFFSFGTNdltqmtfgfs 269 d1m5wa_ 157 --------------------CYADaktdaeQAQELARIAKAATFAASLG--LKVNAGHGL 194 :::: ::::::::::::::::::: ::::::::: d1kbla1 270 rddagkfldsyykakiyesdPFAR----ldQTGVGQLVEMAVKKGRQTRpgLKCGICGEH 325 d1m5wa_ 195 --TYHNVKAIAAIpEMHELNIGhaiigravmtglkDAVAEMKRLMLEARG-- 242 ::::::::::: :::::::: ::::::::::::::: d1kbla1 326 ggDPSSVEFCHKV-GLNYVSCS------------pFRVPIARLAAAQAALnn 364 FAST alignment (Normalized score: 7.94 Raw score:2357.00) d1m5wa_ 1 A-----------------------ELLLGVNIDHIATLRNARGTAYPD-PVQAAFIAEQA 36 :::::::: ::::::::::: d1kbla1 1 -IETQEASVSGSFERIMVWADKFRTLKVRTNA----------------DTPEDTLNAVKL 43 d1m5wa_ 37 GADGITVHLREDRRHI----------------------------------------TDRD 56 ::::: :::: d1kbla1 44 GAEGI-----------GLCRTEHMFFEADRIMKIRKMILSDSVEAREEALNELIPFQKGD 92 d1m5wa_ 57 VRILRQTL-DTRMNLEMAV----------------------------------------- 74 :::::::: ::::::: d1kbla1 93 FKAMYKALEGRPMTVR---YLDPPLHEFVPHTEEEQAELAKNMGLTLAEVKAKVDELHEF 149 d1m5wa_ 75 ------------------TEEMLAIAVETKP--------------HFCCLVPEKRQEVTT 102 :::::::::: ::::: d1kbla1 150 NPMMGHRGCRLAVTYPEIAKMQTRAVME---AAIEVKEETGIDIVPEIMI---------- 196 d1m5wa_ 103 EGGLDV------AGQRDKMRDACKRLAD--------AGIQVSLFIDADEE--------QI 140 :::::::::::::::: :::::::: :: d1kbla1 197 ------PLVGEKKELKFVKDVVVEVAEQVKKEKGSDMQYHIGTM------IEIPRAALTA 244 d1m5wa_ 141 KAAAEVGAPFIEIHTGCYADAKTDAE---------------------------------Q 167 ::::: ::::::::::::: : d1kbla1 245 DAIAE-EAEFFSFGTNDLT-------QMTFGFSRDDAGKFLDSYYKAKIYESDPFARLDQ 296 d1m5wa_ 168 AQELARIAKAATFAAS--LGLKVNAGHG---LTYHNVKAIAAIPEMHELNIGHAIIGRAV 222 :::::::::::::::: ::::::::: ::::::::::: ::::::: d1kbla1 297 TGVGQLVEMAVKKGRQTRPGLKCGICG-EHGGDPSSVEFCHK-VGLNYVS---------- 344 d1m5wa_ 223 MTG-LKDAVAEMKRLMLEARG--- 242 :::::::::::::::: d1kbla1 345 ---CSPFRVPIARLAAAQAA-LNN 364 TMalign alignment (TM-score: 0.69 Raw score:166.34) d1m5wa_ 1 ----------------------AELLLGVNIDHIATLRNARGTAYPDPVQAAFIAEQAGA 38 :::::::::: ::::::::::::: d1kbla1 1 IETQEASVSGSFERIMVWADKFRTLKVRTNAD---------------TPEDTLNAVKLGA 45 d1m5wa_ 39 DGI-TVHLREDRRH--I-------------------------TD-RDVRILRQTLD-TRM 68 ::: :::::::::: : :: ::::::::::: ::: d1kbla1 46 EGIGLCRTEHMFFEADRIMKIRKMILSDSVEAREEALNELIPFQKGDFKAMYKALEGRPM 105 d1m5wa_ 69 NLEMA--------------------------------------------------V---- 74 ::::: : d1kbla1 106 TVRYLDPPLHEFVPHTEEEQAELAKNMGLTLAEVKAKVDELHEFNPMMGHRGCRLAVTYP 165 d1m5wa_ 75 --TEEMLAIAVETK----------PHFCCLVPEKRQEVTTEGGLDVAGQRDKMRDACKRL 122 :::::::::::: :::::::: :::::::::::::::::: d1kbla1 166 EIAKMQTRAVMEAAIEVKEETGIDIVPEIMIP----------LVGEKKELKFVKDVVVEV 215 d1m5wa_ 123 AD---------AGIQVSLFID-A--DEEQIKAAAEVGAPFIEIHTG-CYA-DA------- 161 :: :::::::::: : ::: ::::::: ::::::::: ::: :: d1kbla1 216 AEQVKKEKGSDMQYHIGTMIEIPRAALT-ADAIAEE-AEFFSFGTNDLTQMTFGFSRDDA 273 d1m5wa_ 162 ---K--------TDA-E----Q-AQELARIAKAATFAASLG--LKVNAGHGL-TYHNVKA 201 : ::: : : :::::::::::::::::: ::::::::: ::::::: d1kbla1 274 GKFLDSYYKAKIYESDPFARLDQTGVGQLVEMAVKKGRQTRPGLKCGICGEHGGDPSSVE 333 d1m5wa_ 202 IAAIPEMHELNIGHAIIGRAVMTGLKDAVAEMKRLMLEARG-- 242 ::::::::::::: : : :::::::::::::: d1kbla1 334 FCHKVGLNYVSCS--P--------F--RVPIARLAAAQAALNN 364 HHsearch alignment (Probability: 0.03 E-value:0.21) d1m5wa_ 26 PVQAAFIAEQAGADGITV 43 :::::::::::::::::: d1kbla1 33 TPEDTLNAVKLGAEGIGL 50