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 | d1b5ta_ | Methylenetetrahydrofolate reductase | FAD-linked oxidoreductase | TIM beta/alpha-barrel | α/β |
| Hit | d1ny1a_ | Probable polysaccharide deacetylase PdaA | Glycoside hydrolase/deacetylase | 7-stranded beta/alpha barrel | α/β |
Query <-- 1.178 --> IntermediateDALI alignment (Z-score: 9.2 Raw score:937.50) query 1 mietpyylidkakltrnmeriahvreksGAKALLALK-------cfaTWSVFDLMRDYMD 53 ::::::::: ::::::::::::: d1b5ta_ 1 ---------------------------gQINVSFEFFpprtsemeqtLWNSIDRLSSLKP 33 query 54 -GTTSSS----------LFEVRLGRERFGKETHAYSVA------yGDNEIDEVV-SHADK 95 :::::: ::::::::::::::::::::: ::::::::: ::::: d1b5ta_ 34 kFVSVTYgansgerdrtHSIIKGIKDRTGLEAAPHLTCidatpdeLRTIARDYWnNGIRH 93 query 96 IIFN--------------SISQLERFADKAAgIARGLRLNPQ-----rlgewDVPKVERV 136 :::: ::::::::::::: :::::::::: :::::::: d1b5ta_ 94 IVALrgdlppgsgkpemyASDLVTLLKEVAD-FDISVAAYPEvhpeaksaqaDLLNLKRK 152 query 137 MD-RINGFMIHNNcenkdfgLFDRMLGEIEERFGALiARVDwVSLGGgIHFT-------- 187 :: :::::::::: :::::::::::::::: :::: ::::: :::: d1b5ta_ 153 VDaGANRAITQFF-------FDVESYLRFRDRCVSAgIDVE-IIPGI-LPVSnfkqakkf 203 query 188 -----------------------------GDDYPVDaFSARLRAFSdrygvQIYLEPGE- 217 ::::::: ::::::::: :::::::: d1b5ta_ 204 admtnvripawmaqmfdgldddaetrklvGANIAMDmVKILSREGV-----KDFHFYTLn 258 query 218 ASITksttlevtvldtlynknlaivdssieahmldlliyretakvlpnegshsymicgks 277 :::: d1b5ta_ 259 RAEM-------------------------------------------------------- 262 query 278 clagdvfgefrfaeelkvgdrisfqdaagytmvkknwfngvkmpaiaireldgsvrtvre 337 d1b5ta_ 263 ----------------------------------------------------------sy 264 query 338 ftyadyeqsls 348 d1b5ta_ 265 aichtlgvrpa 275 FAST alignment (Normalized score: 5.01 Raw score:1550.00) query 1 MIETPYYLIDKAKLTRNMERIAHVREKS-GAKALLALKCFA------------TWSVFDL 47 ::::::: ::::::: d1b5ta_ 1 ----------------------------GQINVSFE-----FFPPRTSEMEQTLWNSIDR 27 query 48 MRD-YMDGTTSS-----------SLFEVRLGRERFGKETHAYSVAY---------GDNEI 86 ::: ::::::: :::::::::::::::::::: ::::: d1b5ta_ 28 LSSLKPKFVSV-TYGANSGERDRTHSIIKGIKDRTGLEAAPHL---TCIDATPDELRTIA 83 query 87 DEVVS-HADKIIFN---------------SISQLERFADKAAGIARGLRLNPQRLGEW-- 128 ::::: ::::::: ::::::::::: ::::::::::: d1b5ta_ 84 RDYWNNGIRHIVA-LRGDLPPGSGKPEMYASDLVTLLKEV-ADFDISVAAYP------EV 135 query 129 ---------DVPKVERVMD-RINGFMIHNNCE--NKDFGLFDRMLGEIEERFGALIARV- 175 :::::::::: ::::::: :::::::::::::::: d1b5ta_ 136 HPEAKSAQADLLNLKRKVDAGANRAIT-----QFFFDVESYLRFRDRCVS---------A 181 query 176 ---DWVSLGGGIHFTGDDY-------------------------------------PVDA 195 ::::::: :::: d1b5ta_ 182 GIDVEIIPGI---------LPVSNFKQAKKFADMTNVRIPAWMAQMFDGLDDDAETRKLV 232 query 196 FSARLRAFSDRYGVQ------IYLEPGEASITKSTTLEVTVLDTLYNKNLAIVDSSIEAH 249 ::::::::::: :::: d1b5ta_ 233 GANIAMDMVKI----LSREGVKDFH----------------------------------- 253 query 250 MLDLLIYRETAKVLPNEGSHSYMICGKSCLAGDVFGEFRFAEELKVGDRISFQDAAGYTM 309 d1b5ta_ 254 ------------------------------------------------------------ 254 query 310 VKKNWFNGVKMPAIAIRELDGSVRTVREFTYADYEQSLS--------------------- 348 d1b5ta_ 254 ---------------------------------------FYTLNRAEMSYAICHTLGVRP 274 query 349 - 349 d1b5ta_ 275 A 275 TMalign alignment (TM-score: 0.43 Raw score:148.07) query 1 MIETPYYLIDKAKLTRNMERIAHVREKSGAKALLALKC----FAT-WSV-FDLMRDYMD- 53 : ::::::::::: ::: ::: ::::::::: d1b5ta_ 1 -------------------------G-QINVSFEFFPPRTSEMEQTLWNSIDRLSSLKPK 34 query 54 GTTSS----------SLFEVRLGRERFGKETHAYSVA--Y----GDNEIDEVV-SHADKI 96 ::::: :::::::::::::::::::::: : ::::::::: :::::: d1b5ta_ 35 FVSVTYGANSGERDRTHSIIKGIKDRTGLEAAPHLTCIDATPDELRTIARDYWNNGIRHI 94 query 97 IFN--------------SISQLERFADKAAGIARGLRLN-PQRLGE----WDVPKVERVM 137 ::: ::::::::::::: :::::::: :::::: :::::::::: d1b5ta_ 95 VALRGDLPPGSGKPEMYASDLVTLLKEVAD-FDISVAAYPEVHPEAKSAQADLLNLKRKV 153 query 138 D-RINGFMIHNNCENKDFGLFDRMLGEIEERFGALI---ARVDWVSLGGGIHF------- 186 : :::::::::: : : :::::::::::: ::::::::: :::: d1b5ta_ 154 DAGANRAITQFF--------F-D-VESYLRFRDRCVSAGIDVEIIPGI-LPVSNFKQAKK 202 query 187 --------------------------TGDD-YP-VDAFSARLRAFSDRYGVQIYLEPGEA 218 :::: :: ::::::::::: :: :::::::::: d1b5ta_ 203 FADMTNVRIPAWMAQMFDGLDDDAETRKLVGANIAMDMVKILSRE-GV--KDFHFYTLNR 259 query 219 SIT-------------KSTTLEVTVLDTLYNKNLAIVDSSIEAHMLDLLIYRETAKVLPN 265 ::: d1b5ta_ 260 AEMSYAICHTLGVRPA-------------------------------------------- 275 query 266 EGSHSYMICGKSCLAGDVFGEFRFAEELKVGDRISFQDAAGYTMVKKNWFNGVKMPAIAI 325 d1b5ta_ 276 ------------------------------------------------------------ 276 query 326 RELDGSVRTVREFTYADYEQSLS 348 d1b5ta_ 276 ----------------------- 276 HHsearch alignment (Probability: 0.02 E-value:0.67) query 98 FNSISQLERFADKAAGIARGLRLNPQRLGEWD--VPKVERVMDRIN-GFMIHNNCENKDF 154 :::::::::::::::::::::::::::::::: :::::::::::: ::::::::::::: d1b5ta_ 109 EMYASDLVTLLKEVADFDISVAAYPEVHPEAKSAQADLLNLKRKVDAGANRAITQFFFDV 168 query 155 GLFDRMLGEIEE 166 :::::::::::: d1b5ta_ 169 ESYLRFRDRCVS 180
Intermediate <-- 1.315 --> HitDALI alignment (Z-score: 5.8 Raw score:676.70) d1b5ta_ 1 ------------------------------------------GQINVSFEFFPPrtsemE 18 :::::::::::: : d1ny1a_ 1 vpnepinwgfkrsvnhqppdagkqlnsliekydafylgntkeKTIYLTFDNGYE-----N 55 d1b5ta_ 19 QTLWNSIDRLS--SLKPkFVSVTYGansgerDRTHSIIKGIKDrTGLEAAPHL----TCI 72 ::::::::::: :::: ::::::: :::::::::::: ::::::::: ::: d1ny1a_ 56 GYTPKVLDVLKkhRVTG-TFFVTGH----fvKDQPQLIKRMSD-EGHIIGNHSfhhpDLT 109 d1b5ta_ 73 DATPDELRTIARDYWN--------NGIRHIVALrgdlppgsgkpemYASDLVTLLKEVaD 124 :::::::::::::::: ::::::::: :::::::::::: : d1ny1a_ 110 TKTADQIQDELDSVNEevykitgkQDNLYLRPP----------rgvFSEYVLKETKRL-G 158 d1b5ta_ 125 FDISVaaypevhpeaksaqadllnlkrkvdaganraitqfffdvesylrfrdrcvsagid 184 ::::: d1ny1a_ 159 YQTVF------------------------------------------------------- 163 d1b5ta_ 185 veiIPGILPvsNFKQAkkfadmtnvripawmaqmfdgldddaetrKLVGANIAMDMVkil 244 :::::: ::::: :::::::::::: d1ny1a_ 164 --wSVAFVD-wKINNQ---------------------------kgKKYAYDHMIKQA--- 190 d1b5ta_ 245 sreGVKDFHFYTL--nRAEMSYAICHTLG--------------vrpa 275 :::::::::: ::::::::::::: d1ny1a_ 191 --hPGAIYLLHTVsrdNAEALDDAITDLKkqgytfksiddlmfekem 235 FAST alignment (Normalized score: 4.63 Raw score:1176.00) d1b5ta_ 1 ----------------------------------------GQINVSFEFFPPRTSEM--- 17 ::::::::: d1ny1a_ 1 VPNEPINWGFKRSVNHQPPDAGKQLNSLIEKYDAFYLGNTKEKTIYLTF--------DNG 52 d1b5ta_ 18 --EQTLWNSIDRLSSLKPKFVSVTYGANSGERDR-------THSIIKGIKDRTGLEAAPH 68 ::::::::::::::: ::::::: ::::::::: :::::::: d1ny1a_ 53 YENGYTPKVLDVLKKHR-VTGTFFV---------TGHFVKDQPQLIKRMS-DEGHIIGN- 100 d1b5ta_ 69 LT-------CIDATPDELRTIARDYWNNG----------IRHIVALRGDLPPGSGKPEMY 111 :::::::::::::::::: ::::: d1ny1a_ 101 --HSFHHPDLTTKTADQIQDELDSVNE--EVYKITGKQDNLYLR---------------- 140 d1b5ta_ 112 ------ASDLVTLLKEVADFDISVAAYPEVHPEAKSAQADLLNLKRKVDAGANRAITQFF 165 :::::::::: ::::::: d1ny1a_ 141 PPRGVFSEYVLKETKR-LGYQTVF------------------------------------ 163 d1b5ta_ 166 FDVESYLRFRDRCVSAGIDVEIIPGILPVSNFKQAKKFADMTNVRIPAWMAQMFDGLDDD 225 d1ny1a_ 164 ------------------------------------------------------------ 164 d1b5ta_ 226 AETRKLV--------------GANIAMDMVKILSREG--VKDFHFYTLN------RAEMS 263 ::::::::::: :::::::: ::::: d1ny1a_ 164 -------WSVAFVDWKINNQKGKKYAYDHMIK-----QAHPGAIYLL--HTVSRDNAEAL 209 d1b5ta_ 264 YAICHTLGVRPA-------------------- 275 :::::: d1ny1a_ 210 DDAITD------LKKQGYTFKSIDDLMFEKEM 235 TMalign alignment (TM-score: 0.37 Raw score:100.78) d1b5ta_ 1 -------------------------------------GQINV--SFEFFPPRTSEMEQTL 21 ::: d1ny1a_ 1 VPNEPINWGFKRSVNHQPPDAGKQLNSLIEKYDAFYL--GNTKE---------------- 42 d1b5ta_ 22 WNSIDRLSSLKPKFVSVTYGANSGERDRTHSIIKGIKDRTGLEAAPHLTCIDATPDELRT 81 ::: :::::::: :: :::::::::::: ::::::::::::::: :::: d1ny1a_ 43 ---------KTI-YLTFDNGY-EN--GYTPKVLDVLKK-HRVTGTFFVTGHFVK--DQPQ 86 d1b5ta_ 82 IARDYWNNGIRHIVALR-GDLP-------PGSGKPE-MYASDLVTLLKE--VADFDISVA 130 ::::::: ::::::::: :::: :: :::::::::::: ::::::::: d1ny1a_ 87 LIKRMSD-EGHIIGNHSFHHPDLTTKTAD-----QIQDELDSVNEEVYKITGKQDNLYLR 140 d1b5ta_ 131 AY-PEVHPEAKSAQADLLNLKRKVDAGANRAITQFFFDVESYLRFRDRCVSAGIDVEIIP 189 :: ::: ::: ::::::::: : :::: d1ny1a_ 141 PPR-GVF----SEY-VLKETKRLG---Y-QTVF--------------------------- 163 d1b5ta_ 190 GILPVSNFKQ-----------AKKFADMTNVRIPAWMAQMFDGLDDDAETRKLVGANIAM 238 ::::: : d1ny1a_ 164 WSVAF----VDWKINNQKGKK--------------------------------------- 180 d1b5ta_ 239 DMVKILSREGVKDFHFYTLN-RAEMSYAICHT----------------------LGV-RP 274 ::: :::::: :::: : :: d1ny1a_ 181 -----------------YAYDHMIKQA-HPGAIYLLHTVSRDNAEALDDAITDL--KKQG 220 d1b5ta_ 275 A-------------- 275 : d1ny1a_ 221 YTFKSIDDLMFEKEM 235 HHsearch alignment (Probability: 0.79 E-value:0.00) d1b5ta_ 65 AAPHLTCIDATPD-ELRTIARDYWNNGIRHIVALRGDLPPGSGKPEMYASDLVTLLKEVA 123 ::::::::::::: ::::::::::::::::::::::::::: :::::::::::: d1ny1a_ 43 KTIYLTFDNGYENGYTPKVLDVLKKHRVTGTFFVTGHFVKD-------QPQLIKRMSDEG 95 d1b5ta_ 124 DFDISVAAYPEVHPEAKSA 142 :: :::::::::::::: d1ny1a_ 96 -HI--IGNHSFHHPDLTTK 111