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 | d1t8qa_ | Glycerophosphodiester phosphodiesterase GlpQ | PLC-like phosphodiesterases | 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 <-- 1.424 --> HitDALI alignment (Z-score: 11.4 Raw score:1214.80) d1m5wa_ 1 AELLLGVNIdhiatlrnargtaypdPVQAAFIAEQAGADGITVHLR-----------EDR 49 ::::::::: ::::::::::::::::::::: ::: d1t8qa_ 1 NEKIVIAHR-------gasgylpehTLPAKAMAYAQGADYLEQDLVmtkddnlvvlhDHY 53 d1m5wa_ 50 R----------------------------------------------------------- 50 : d1t8qa_ 54 Ldrvtdvadrfpdrarkdgryyaidftldeikslkftegfdiengkkvqtypgrfpmgks 113 d1m5wa_ 51 hitdRDVRILRQTL---------DTRMNLEMAVTE-------EMLAIAVETK-------- 86 :::::::::: :::::::::::: :::::::::: d1t8qa_ 114 dfrvHTFEEEIEFVqglnhstgkNIGIYPEIKAPWfhhqegkDIAAKTLEVLkkygytgk 173 d1m5wa_ 87 --pHFCCLVPekrqevtteggldvagqrDKMRDACKR---laDAGIQVSLFI-------- 133 ::::::: ::::::::: :::::::::: d1t8qa_ 174 ddkVYLQCFD-----------------aDELKRIKNElepkmGMELNLVQLIaytdwnet 216 d1m5wa_ 134 ----------------DADEEQIKAAAEvGAPFIEIHTGCyadAKTDAEQaqELARiaKA 177 :::::::::::: ::::::::::: ::::::: :::: :: d1t8qa_ 217 qqkqpdgswvnynydwMFKPGAMKQVAE-YADGIGPDYHMlieETSQPGN--IKLT--GM 271 d1m5wa_ 178 ATFAASLGLKVNAGHgLTYH-----------NVKAIAAIPEMHELNIGhaiigravmtgl 226 ::::::::::::::: :::: ::::::::::::::::: d1t8qa_ 272 VQDAQQNKLVVHPYT-VRSDklpeytpdvnqLYDALYNKAGVNGLFTD------------ 318 d1m5wa_ 227 kdAVAEMKRLMLearg 242 :::::::::: d1t8qa_ 319 --FPDKAVKFLN---- 328 FAST alignment (Normalized score: 7.52 Raw score:2120.00) d1m5wa_ 1 AELLLGVNIDHIATLRNARGTAYPD-----------PVQAAFIAEQAGADGITVHLREDR 49 ::::::: ::::::::::::::::::::: d1t8qa_ 1 NEKIVIA------------------HRGASGYLPEHTLPAKAMAYAQGADYLEQDLV--- 39 d1m5wa_ 50 RHI--------------------------------------------------------- 52 d1t8qa_ 40 ---MTKDDNLVVLHDHYLDRVTDVADRFPDRARKDGRYYAIDFTLDEIKSLKFTEGFDIE 96 d1m5wa_ 53 -----------------------TDRDVRILRQTL-------DTRMNLEMAV-------- 74 :::::::::: :::::::: d1t8qa_ 97 NGKKVQTYPGRFPMGKSDFRVHTFEEEIEFVQG--LNHSTGKNIGIYPEI--KAPWFHHQ 152 d1m5wa_ 75 -----TEEMLAIAVETKP--------HFCCLVPEKRQEVTTEGGLDVAG-QRDKMRDAC- 119 ::::::::::: ::::: ::::::::: d1t8qa_ 153 EGKDIAAKTLEVLKKY--GYTGKDDKVYLQC------------------FDADELKRIKN 192 d1m5wa_ 120 KRLAD--AGIQVSLFI-------------------------DADEEQIKAAAEVGAPFIE 152 ::::: :::::::: :::::::::::: :::::: d1t8qa_ 193 ELEPKMGMELNLVQL-IAYTDWNETQQKQPDGSWVNYNYDWMFKPGAMKQVAE-YADGIG 250 d1m5wa_ 153 IHTGCYADAKTDAEQAQELARI----------------AKAATFAASLGLKVNAGHGL-- 194 :: ::::::::::::::::: d1t8qa_ 251 PD--------------------YHMLIEETSQPGNIKLTGMVQDAQQNKLVVHPY---TV 287 d1m5wa_ 195 -----------TYHNVKAI-AAIPEMHELNIGHAIIGRAVMTGLKD-AVAEMKRLMLEAR 241 :::::::: ::: ::::::: :::::::: d1t8qa_ 288 RSDKLPEYTPDVNQLYDALYNKA-GVNGLFT---------------DFPDKAVKF----- 326 d1m5wa_ 242 G-- 242 d1t8qa_ 327 -LN 328 TMalign alignment (TM-score: 0.57 Raw score:138.41) d1m5wa_ 1 AELLLGVNIDHIATLRNARGTAYPDPVQAAFIAEQAGADGITVHL-R--EDRRHITDRDV 57 : : :::::::: : ::::::::: d1t8qa_ 1 -N-E---------------------------------KIVIAHRGASGY--LPEHTLPAK 23 d1m5wa_ 58 RILRQTLDTRMNLEMAV------TE----------------------------------- 76 ::::::: ::::::::: :: d1t8qa_ 24 AMAYAQG-ADYLEQDLVMTKDDNLVVLHDHYLDRVTDVADRFPDRARKDGRYYAIDFTLD 82 d1m5wa_ 77 ------------------------------------EMLAIAVETK--------PHFCCL 92 :::::::::: :::::: d1t8qa_ 83 EIKSLKFTEGFDIENGKKVQTYPGRFPMGKSDFRVHTFEEEIEFVQGLNHSTGKNIGIYP 142 d1m5wa_ 93 VPEKRQEVTTEGGLDV---AGQRDKMRDACKRLADA--GIQVSLFI-DAD--EEQIKAAA 144 ::: :::::: ::::::::::::::::: :::::::: ::: :::::::: d1t8qa_ 143 EIK-------APWFHHQEGKDIAAKTLEVLKKYGYTGKDDKVYLQCFDADELKRIKNELE 195 d1m5wa_ 145 E-V-GAPFIEIHTGCYADA--------------KTDAEQAQEL--ARIAKAATFAASLGL 186 : : ::::::::::::::: ::: ::: ::::::: ::: d1t8qa_ 196 PKMGMELNLVQLIAYTDWNETQQKQPDGSWVNY---NYD-WMFKPGAMKQVA-EYA---- 246 d1m5wa_ 187 KVNAGHGLT--YHN--------VKAIAA-I--PEMHELNIGHAIIGRAV-MTGLKDAVAE 232 :::::::: ::: :::::: : ::::::::::::::::: :::::::::: d1t8qa_ 247 -DGIGPDYHMLIEETSQPGNIKLTGMVQDAQQNKLVVHPYTVRSDKLPEYTPDVNQLYDA 305 d1m5wa_ 233 MKRLMLE----------------ARG 242 ::::::: d1t8qa_ 306 LYNKAGVNGLFTDFPDKAVKFLN--- 328 HHsearch alignment (Probability: 0.20 E-value:0.01) d1m5wa_ 23 YP-DPVQAAFIAEQAGADGI--TVHLREDRRHITDRD 56 :: ::::::::::::::::: ::::::::::::::: d1t8qa_ 15 LPEHTLPAKAMAYAQGADYLEQDLVMTKDDNLVVLHD 51