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: T0582_Ad1.pdb
Database: SCOP1.69 less than 40% identity downloaded from ASTRAL
| SCOP Id | Protein | SCOP Superfamily | SCOP Fold | SCOP Class |
|
|---|---|---|---|---|---|
| Intermediate | d1sfna_ | Hypothetical protein DR1152 | RmlC-like cupins | Double-stranded beta-helix | All β |
| Hit | d1x8ma_ | 5-keto-4-deoxyuronate isomerase KduI | RmlC-like cupins | Double-stranded beta-helix | All β |
Query <-- 0.963 --> IntermediateDALI alignment (Z-score: 10.4 Raw score:726.80) query 1 -----meinadfTKPVVIDTDQLEWRPSP-MKGVERRMLDRIG--gevARATSIVRYAPG 52 ::::::::::::::::: ::::::::::::: :::::::::::: d1sfna_ 1 mkhlgqtrsalhGSHAVITPETFVRTALAeWPGSAIVLHIAPVvglgaRFVQFTAEMPAG 60 query 53 SRfsaHTHDGGEEFIVLDGVFQDE----HGDYPAGTYVRNPPTTSHVPGSAEGCTIFVKL 108 :: ::::::::::::::::::: :::::::::::::::::::::::::::::::: d1sfna_ 61 AQ--aTESVYQRFAFVLSGEVDVAvggeTRTLREYDYVYLPAGEKHMLTAKTDARVSVFE 118 query 109 WqFDPA-----DRTQFSKNM---------------------------------------- 123 : :::: ::::::::: d1sfna_ 119 K-PYQTvegvqAPGVYWGNErenpgypfegddhliarkllpdepafdfmvstmsfapgas 177 query 124 ------------------------------------------------------------ 124 d1sfna_ 178 lpyaevhymehgllmlegeglykleenyypvtagdiiwmgahcpqwygalgrnwskylly 237 query 124 -------- 124 d1sfna_ 238 kdmnrhpl 245 FAST alignment (Normalized score: 7.10 Raw score:1232.00) query 1 MEINADF------------TKPVVIDTDQLEWRPS-PMKGVERRMLDRIGGEVA------ 41 :::::::::::::::: ::::::::::: d1sfna_ 1 -------MKHLGQTRSALHGSHAVITPETFVRTALAEWPGSAIVLHI-------APVVGL 46 query 42 ---RATSIVRYAPGSRFSAHTHDGGEEFIVLDGVFQDE-----HGDYPAGTYVRNPPTTS 93 :::::::::::::::: :::::::::::::::: ::::::::::::::::: d1sfna_ 47 GARFVQFTAEMPAGAQATE--SVYQRFAFVLSGEVDV-AVGGETRTLREYDYVYLPAGEK 103 query 94 HVPGSAEGCTIFVKLWQFDP----------ADRTQFSKNM-------------------- 123 :::::::::::::: :::::::: d1sfna_ 104 HMLTAKTDARVSVF------EKPYQTVEGVQAPGVYWG--NERENPGYPFEGDDHLIARK 155 query 124 ------------------------------------------------------------ 124 d1sfna_ 156 LLPDEPAFDFMVSTMSFAPGASLPYAEVHYMEHGLLMLEGEGLYKLEENYYPVTAGDIIW 215 query 124 ------------------------------ 124 d1sfna_ 216 MGAHCPQWYGALGRNWSKYLLYKDMNRHPL 245 TMalign alignment (TM-score: 0.75 Raw score:91.78) query 1 ----------MEINADFTKPVVIDTDQ-LEWRPSP-MKGVERRMLDRIG-----GEVARA 43 ::::::::: :: ::::::: ::::::::::::: ::: d1sfna_ 1 MKHLGQTRSA-----LHGSHAVIT-PETFVRTALAEWPGSAIVLHIAPVVGLGA---RFV 51 query 44 TSIVRYAPGSRFSAHTHDGGEEFIVLDGVFQDE----HGDYPAGTYVRNPPTTSHVPGSA 99 :::::::::::: :: ::::::::::::::::: ::::::::::::::::::::::: d1sfna_ 52 QFTAEMPAGAQA-TE-SVYQRFAFVLSGEVDVAVGGETRTLREYDYVYLPAGEKHMLTAK 109 query 100 EGCTIFVKLWQFDP----ADRTQFSKNM-------------------------------- 123 :::::::::::::: :::::::::: d1sfna_ 110 TDARVSVFEKPYQTVEGVQAPGVYWGNERENPGYPFEGDDHLIARKLLPDEPAFDFMVST 169 query 124 ------------------------------------------------------------ 124 d1sfna_ 170 MSFAPGASLPYAEVHYMEHGLLMLEGEGLYKLEENYYPVTAGDIIWMGAHCPQWYGALGR 229 query 124 ---------------- 124 d1sfna_ 230 NWSKYLLYKDMNRHPL 245 HHsearch alignment (Probability: 0.96 E-value:0.00) query 11 VVIDTDQLEWRPSPM-KGVERRMLDRI--GGEVARATSIVRYAPGSRFSAHTHDGGEEFI 67 ::::::::::::::: ::::::::::: ::::::::::::::::::::::::: :::: d1sfna_ 16 AVITPETFVRTALAEWPGSAIVLHIAPVVGLGARFVQFTAEMPAGAQATESVYQ--RFAF 73 query 68 VLDGVFQ----DEHGDYPAGTYVRNPPTTSHVPGSAEGCTIFVKLWQFDPAD 115 ::::::: ::::::::::::::::::::::::::::::::::::::::: d1sfna_ 74 VLSGEVDVAVGGETRTLREYDYVYLPAGEKHMLTAKTDARVSVFEKPYQTVE 125
Intermediate <-- 0.964 --> HitDALI alignment (Z-score: 18.2 Raw score:1736.50) d1sfna_ 1 -------------mkhlgQTRSALhgshAVITPetfvrtalaewpGSAIVLhIAPVvglG 47 :::::: ::::: :::::: :::: : d1x8ma_ 1 sldvrqsihsahaktldtQGLRNE----FLVEK---------vfvADEYTM-VYSH---I 43 d1sfna_ 48 ARFVQFTAEMPaGAQATES--------------VYQRFAFVLSGEVDVAVGGETRTLREY 93 ::::::::::: ::::::: ::::::::::::::::::::::::::: d1x8ma_ 44 DRIIVGGIMPI-TKTVSVGgevgkqlgvsyfleRRELGVINIGGAGTITVDGQCYEIGHR 102 d1sfna_ 94 DYVYLPAGE-KHMLTAKT---DARVSVFEKPYQTvegvqAPGVYWGNERENPGYPFEGD- 148 ::::::::: :::::::: ::::::::::::: :::::::::::::::::::: d1x8ma_ 103 DALYVGKGAkEVVFASIDtgtPAKFYYNCAPAHT-----TYPTKKVTPDEVSPVTLGDNl 157 d1sfna_ 149 --dHLIARKLLPDE-pAFDF-MVSTMSFAP-GASLPyaevhyMEHGLLMLEG----EGLY 199 ::::::::::: :::: ::::::::: ::::: :::::::::: :::: d1x8ma_ 158 tsnRRTINKYFVPDvlETCQlSMGLTELAPgNLWNT------RMEVYFYFNMdddaCVFH 211 d1sfna_ 200 KLE----ENYYPVTAGDIIWMGAHCPQWYGALGrnWSKYLLYKDMNRhpl 245 ::: :::::::::::::::::::::::::: :::::::::::: d1x8ma_ 212 MMGqpqeTRHIVMHNEQAVISPSWSIHSGVGTK--AYTFIWGMVGENqvf 259 FAST alignment (Normalized score: 10.89 Raw score:2743.00) d1sfna_ 1 MKHLGQTRSALHGSHAVITPETFVRTALAEWPG--------------------------- 33 d1x8ma_ 1 ---------------------------------SLDVRQSIHSAHAKTLDTQGLRNEFLV 27 d1sfna_ 34 ------SAIVLHIAPVVGLG-----ARFVQFTAEMPAGAQATE----------------S 66 ::::: :::::::::: ::::: : d1x8ma_ 28 EKVFVADEYTM---------VYSHIDRIIVGGIMP-ITKTV--SVGGEVGKQLGVSYFLE 75 d1sfna_ 67 VYQRFAFVLSGEVDVAVGGETRTLREYDYVYLPAGE-KHMLTAK---TDARVSVFEKPYQ 122 :::::::::::::::::::::::::::::::::::: ::::::: :::::::::::: d1x8ma_ 76 RRELGVINIGGAGTITVDGQCYEIGHRDALYVGKGAKEVVFASIDTGTPAKFYYNCAPA- 134 d1sfna_ 123 TVEGVQAPGVYWGNERENPGYPFEGDD------HLIARKLLPDEPA--------FDFMVS 168 :::::::::::::::::::: ::::::: :::::: d1x8ma_ 135 ----HTTYPTKKVTPDEVSPVTLG---DNLTSNRRTINKY------FVPDVLETCQLSMG 181 d1sfna_ 169 TMSFAPGASLPYAEVHY-----MEHGLLMLE-----GEGLYKLE------ENYYPVTAGD 212 ::::::: :::::::: :::::: :::::::::: d1x8ma_ 182 LTELAPG----------NLWNTRMEVYFYF-NMDDDACVFHM--MGQPQETRHIVMHNEQ 228 d1sfna_ 213 IIWMGAHCPQWYGALGRNWSKYLLYKDMNRHPL------ 245 :::::::::::::: ::::::::::: d1x8ma_ 229 AVISPSWSIHSGVG--TKAYTFIWGMV------GENQVF 259 TMalign alignment (TM-score: 0.69 Raw score:169.90) d1sfna_ 1 -----------------MKHLGQTRSALHGSHAVITPETFVRTALAEWPGSAIVLHIAPV 43 :::::::::::: ::: :::::: :::: d1x8ma_ 1 SLDVRQSIHSAHAKTLD--------TQGLRNEFLVEK--VFV-------ADEYTM-VYSH 42 d1sfna_ 44 VGLGARFVQFTAEMPAGAQATE-----------S-V-YQRFAFVLSGEVDVAVGGETRTL 90 ::::::::::::::::::: : : ::::::::::::::::::::::: d1x8ma_ 43 ---IDRIIVGGIMPITKTVSVGGEVGKQLGVSYFLERRELGVINIGGAGTITVDGQCYEI 99 d1sfna_ 91 REYDYVYLPAGEKHMLTA-KTD--A-RVSVFEKPYQTVEGVQAPGVYWGNERENPGYPFE 146 :::::::::::::::::: ::: : ::::::::::: :::::::::::::::::: d1x8ma_ 100 GHRDALYVGKGAKEVVFASIDTGTPAKFYYNCAPAHT-----TYPTKKVTPDEVSPVTLG 154 d1sfna_ 147 GD---DHLIARKLLPDE-PAF-DFMVSTMSFA-PGASLPYAEVHYMEHGLLMLEG----E 196 :: :::::::::::: ::: :::::::::: :::::: :::::::::: : d1x8ma_ 155 DNLTSNRRTINKYFVPDVLETCQLSMGLTELAPGNLWNT------RMEVYFYFNMDDDAC 208 d1sfna_ 197 GLYKLE----ENYYPVTAGDIIWMGAHCPQWYGALGRNWSKYLLYKDMNRH--PL 245 :::::: :::::::::::::::::::::::::: ::::::::::::: d1x8ma_ 209 VFHMMGQPQETRHIVMHNEQAVISPSWSIHSGVGTK--AYTFIWGMVGENQVF-- 259 HHsearch alignment (Probability: 0.96 E-value:0.00) d1sfna_ 65 ESVYQRFAFVLSGEVDVAVGGETRTLREYDYVYLPAGEKH-MLTA---KTDARVSVFEKP 120 :::::::::::::::::::::::::::::::::::::::: :::: :::::::::::: d1x8ma_ 74 LERRELGVINIGGAGTITVDGQCYEIGHRDALYVGKGAKEVVFASIDTGTPAKFYYNCAP 133 d1sfna_ 121 YQTVEGVQAPGVYWGNERENPGYPFEGD----DHLIARKLLPDE-PAFDFMVSTMSFAPG 175 ::: :::::::::: :::::::::: :::::::::::: ::::::::::::::: d1x8ma_ 134 AHT----TYPTKKVTPD-EVSPVTLGDNLTSNRRTINKYFVPDVLETCQLSMGLTELAPG 188 d1sfna_ 176 ASLPYAEVHYMEHGLLM--LEGEGLYKLEENYY-----PVTAGDIIWMGAHCPQW 223 :::: ::::::::: :::::::::::::: ::::::::::::::::: d1x8ma_ 189 NLWN----TRMEVYFYFNMDDDACVFHMMGQPQETRHIVMHNEQAVISPSWSIHS 239