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 | d1twda_ | Copper homeostasis protein CutC | CutC-like (Pfam 03932) | TIM beta/alpha-barrel | α/β |
| Hit | d7reqa2 | Methylmalonyl-CoA mutase alpha subunit, C-terminal domain | Cobalamin (vitamin B12)-binding domain | Flavodoxin-like | α/β |
Query <-- 1.289 --> IntermediateDALI alignment (Z-score: 8.2 Raw score:868.70) query 1 mietpyylidkakltrnmeriahvreksgAKALLALkcFATWsvFDLMRD-YMDGTTS-- 57 ::::::: :::: :::::: ::::::: d1twda_ 1 -----------------------------ALLEICC--YSME-cALTAQQnGADRVELca 28 query 58 -------SSLF-EVRLGRERFGKETHAYSVA-------------yGDNEIDEVVS-HADK 95 :::: ::::::::::::::::::: :::::::::: :::: d1twda_ 29 apkegglTPSLgVLKSVRQRVTIPVHPIIRPrggdfcysdgefaaILEDVRTVRElGFPG 88 query 96 IIFNS--------ISQLERFADKAAGIARGLR-LNPQrlgEWDVPKV-ERVMD-RINGFM 144 ::::: ::::::::::::::::::: :::: ::::::: ::::: :::::: d1twda_ 89 LVTGVldvdgnvdMPRMEKIMAAAGPLAVTFHrAFDM---CANPLYTlNNLAElGIARVL 145 query 145 IHnncenkdfglfDRMLGEIEErFGALiARVDWVSLGGGIHFtgddypvdaFSARLRAFS 204 :: ::::::::: :::: :::::::::::::: ::::::::: d1twda_ 146 TS-----gqksdaLQGLSKIME-LIAH-RDAPIIMAGAGVRA--------eNLHHFLDAG 190 query 205 drygvqIYLEPGeaSITKsTTLE-VTVLdtlynknlaivdssieahmldlliyretakvl 263 :::::: :::: :::: :::: d1twda_ 191 -----vLEVHSS--AGAW-QASPmRYRN-------------------------------- 210 query 264 pnegshsymicgksclagdvfgefrfaeelkvgdrisfqDAAGYtmvkknwfngvkmpai 323 ::::: d1twda_ 211 ---------------------------------------YSRYI---------------- 215 query 324 aireldgsvrtvreftyadyeqsls 348 d1twda_ 216 ------vdgaavaemkgiierhqak 234 FAST alignment (Normalized score: 4.77 Raw score:1361.00) query 1 MIETPYYLIDKAKLTRNMERIAHVREKSGAKALLALKCFA--TWSVFDLMRD-YMDGTTS 57 :::::: :::::::::: ::::::: d1twda_ 1 -----------------------------ALLEIC-----CYSMECALTAQQNGADRVEL 26 query 58 ----------SSLFEVRLGRERFGKETHAYSVAY----------------GDNEIDEVVS 91 ::::::::::::::::::::: :::::::::: d1twda_ 27 CAAPKEGGLTPSLGVLKSVRQRVTIPVHPII---RPRGGDFCYSDGEFAAILEDVRTVRE 83 query 92 -HADKIIFN---------SISQLERFADKAAGIARGLRLNPQRLGEW---------DVPK 132 ::::::: ::::::::::::::::::: :::: d1twda_ 84 LGFPGLVT-GVLDVDGNVDMPRMEKIMAAAGPLAVTF----------HRAFDMCANPLYT 132 query 133 VERVMD-RINGFMIHNNCENKDFG--------LFDRMLGEIEERFGALIARV----DWVS 179 :::::: ::::::: ::::::::::: :::: d1twda_ 133 LNNLAELGIARVLT----------SGQKSDALQGLSKIMELIA---------HRDAPIIM 173 query 180 LGGGIHFTGDD--YPVDAFSARLRAFSDRYGVQ---IYLEPGEASITK----STTLEVTV 230 ::::: :::::::: ::::: :::::::: d1twda_ 174 AGAGV------RAENLHHFLD------------AGVLEVHS-------SAGAWQASPMRY 208 query 231 LDTLYNKNLAIVDSSIEAHMLDLLIYRETAKVLPNEGSHSYMICGKSCLAGDVFGEFRFA 290 d1twda_ 209 ------------------------------------------------------------ 209 query 291 EELKVGDRISFQDAAGYTMVKKNWFNGVKMPAIAIRELDGSVRTVREFTYADYEQSLS-- 348 d1twda_ 209 ----------------------------------------------------------RN 210 query 349 ------------------------ 349 d1twda_ 211 YSRYIVDGAAVAEMKGIIERHQAK 234 TMalign alignment (TM-score: 0.42 Raw score:146.57) query 1 MIETPYYLIDKAKLTRNMERIAHVREKSGAKALLALKCFATWSVFDLMRDYMDGTTSS-- 58 ::::: ::: ::::::::::::::::::: d1twda_ 1 ----------------------------ALLEI-CCY--SMECALTAQQNGADRVELCAA 29 query 59 ------SLF--EVRLGRERFGKETHAYSVA-------------YGDNEIDEVVS-HADKI 96 ::: ::::::::::::::::::: ::::::::::: ::::: d1twda_ 30 PKEGGLTPSLGVLKSVRQRVTIPVHPIIRPRGGDFCYSDGEFAAILEDVRTVRELGFPGL 89 query 97 IFNS------IS--QLERFADKAAGIARGLRLNPQRLGEWD-VPKVERVMD-RINGFMIH 146 :::: :: ::::::::::::::::::::: :::: ::::::::: :::::::: d1twda_ 90 VTGVLDVDGNVDMPRMEKIMAAAGPLAVTFHRAFD--MCANPLYTLNNLAELGIARVLTS 147 query 147 -NNCENKDFGLFDRMLGEIEERFGALIARVDWVSLGGGIHFTGDDYPVDAFSARLRAFSD 205 ::: : :::::::::: :::: :::::::::::::: :: ::::::::: d1twda_ 148 GQKS-D-----ALQGLSKIME-LIAH-RDAPIIMAGAGVRA----EN---LHHFLDAGV- 191 query 206 RYGVQIYLEPGEASITKSTTLEVTVLDTLYNKNLAIVDSSIEAHMLDLLIYRETAKVLPN 265 :::: :: : ::: ::::: :: d1twda_ 192 ----LEVH-SS-A-GAW-QASPM--------------RY--------------------- 208 query 266 EGSHSYMICGKSCLAGDVFGEFRFAEELKVGDRISFQDAAGYTM---------------- 309 :: :::::: d1twda_ 209 ----------RN--------------------------YSRYIVDGAAVAEMKGIIERHQ 232 query 310 --VKKNWFNGVKMPAIAIRELDGSVRTVREFTYADYEQSLS 348 d1twda_ 233 AK--------------------------------------- 234 HHsearch alignment (Probability: 0.20 E-value:0.04) query 45 FDLMRDYMDGTTSSSLFEVRLGRERFGKETHAYSVAYG-------------DNEIDEVVS 91 :::::::::::::::::::::::::::::::::::::: ::::::::: d1twda_ 24 VELCAAPKEGGLTPSLGVLKSVRQRVTIPVHPIIRPRGGDFCYSDGEFAAILEDVRTVRE 83 query 92 HADKIIF---------NSISQLERFADKAAGIARGLRLNPQRLGEWDVPKVERVMDRING 142 ::::::: :::::::::::::::::::: ::::::::::::::::::: d1twda_ 84 LGFPGLVTGVLDVDGNVDMPRMEKIMAAAGPLAVTF-----HRAFDMCANPLYTLNNLAE 138 query 143 FMI-HNNCENKDFGLFDRMLGEIEERFGALIARVDWVSLGGGI 184 ::: ::::::::::: :::::::::::::::::: ::::::: d1twda_ 139 LGIARVLTSGQKSDA-LQGLSKIMELIAHRDAPI--IMAGAGV 178
Intermediate <-- 1.129 --> HitDALI alignment (Z-score: 4.6 Raw score:472.20) d1twda_ 1 --------------alleiccysmeCALTAQQngadrvelcaapkeggltpslgvlksvr 46 ::::::: d7reqa2 1 aqirtisgvyskevkntpeveeareLVEEFEQ---------------------------- 32 d1twda_ 47 QRVTIPVHPIIR---pRGGD--------------fcysdgEFAAILEDVRTVRELGFPGL 89 :::::::::::: :::: :::::::::::::::::::: d7reqa2 33 AEGRRPRILLAKmgqdGHDRgqkviatayadlgfdvdvgpLFQTPEETARQAVEADVHVV 92 d1twda_ 90 VTGVLDvdgNVDMPRMEKIMAAAG-----PLAVTFHRAFdmcanPLYTLNNLAELGIARV 144 :::::: ::::::::::::::: :::::::::: :::::::::::::::: d7reqa2 93 GVSSLA---GGHLTLVPALRKELDklgrpDILITVGGVI-----PEQDFDELRKDGAVEI 144 d1twda_ 145 LTSGqksdalqglskimeliahrdapiimAGAGvraenlhhfldagvleVHSSagawqas 204 :::: :::: :::: d7reqa2 145 YTPG-------------------------TVIP----------------ESAI------- 156 d1twda_ 205 pmryrnysryivdgaavaemkgiierhqak 234 d7reqa2 157 ------------------slvkklraslda 168 FAST alignment (Normalized score: 3.30 Raw score:654.20) d1twda_ 1 ALLEICCYSMECALTAQQNGADRVELCAAPKEGGLTP----------------------S 38 : d7reqa2 1 -------------------------------------AQIRTISGVYSKEVKNTPEVEEA 23 d1twda_ 39 LGVLKSVRQRVTIPVHPIIRPRGGDFCYSDGEFAA--------------------ILEDV 78 :::::::::: ::::: d7reqa2 24 RELVEEFEQA-------------------------EGRRPRILLAKMGQDGHDRGQKVIA 58 d1twda_ 79 RTVRELGFPGLVTGVLDVDGNVDMPRMEKIMAAAGPLAVTFHRAFDMC---ANPLYTLNN 135 :::::::: ::::: ::::::::: d7reqa2 59 TAYADLGF-DVDVG----------------------------------PLFQTPEETARQ 83 d1twda_ 136 LAELGIARVLTSGQKSDALQ-------GLSKIMELIAHRD--------APIIMAGAGVRA 180 :::::::::: :::::::::: :::::::::::: d7reqa2 84 AVEADVHVVG----------VSSLAGGHLTLVPALRK---ELDKLGRPDILITVGGVIPE 130 d1twda_ 181 ENLHHFLDAGVLEVHSSAGAWQASPMRYRNYSRYIVDGAAVAEMKGIIERHQAK------ 234 :::::::::::::::: d7reqa2 131 QDFDELRKDGAVEIYT--------------------------------------PGTVIP 152 d1twda_ 235 ---------------- 235 d7reqa2 153 ESAISLVKKLRASLDA 168 TMalign alignment (TM-score: 0.36 Raw score:83.64) d1twda_ 1 -----ALLEICCYSMECALTAQQNGADRVELCAAPKE--GGLTPS-LGVLKSVRQRVTIP 52 : :::: :::: :::: : d7reqa2 1 AQIRT-------------------------------ISG--VYSKEVKNT-PEVE-E--- 22 d1twda_ 53 VHPIIRPRGGDFCYSDGEFAAILEDVRTVR-ELGFPG---LVTGVLDVDGNVDMPRMEKI 108 : :: ::::: d7reqa2 23 A---------------------------REL-VEEFEQAE-------------------- 34 d1twda_ 109 MAAAGPLAVTFHR--------------------------AFDMCANPLYTLNNLAELGIA 142 ::::::::: ::::::::::::::::::::: d7reqa2 35 ----GRRPRILLAKMGQDGHDRGQKVIATAYADLGFDVDVGPLFQTPEETARQAVEADVH 90 d1twda_ 143 RVLTSGQKSDALQGLSKIMELIAH-R--DA--PIIMAGAGVRAENLHHFLDAGVLEVHSS 197 :::::: ::: :::::::::::: : :: :::::::::::::::::: ::::::::: d7reqa2 91 VVGVSS-LAG--GHLTLVPALRKELDKLGRPDILITVGGVIPEQDFDELR-KDGAVEIYT 146 d1twda_ 198 AGAWQASPMRYRNYSRYIV---DGAAV--------------AEMKGIIERHQAK 234 :: :: : d7reqa2 147 PG---------------TVIPE----SAISLVKKLRASLDA------------- 168 HHsearch alignment (Probability: 0.97 E-value:0.00) d1twda_ 67 SDGEFAAILEDVRTV-RELGFPG-LVTGVLDVDGNVDMPRMEKIMAAAGPLAVTFHRAFD 124 ::::::::::::::: ::::::: ::::::::::::::::::::::::::::::::::: d7reqa2 16 NTPEVEEARELVEEFEQAEGRRPRILLAKMGQDGHDRGQKVIATAYADLGFDVDVGPLF- 74 d1twda_ 125 MCANPLYTLNNLAELGIARVLTSGQKSDALQGLSKIMELIAHR--DAPIIMAGAGVRAEN 182 ::::::::::::::::::::::::::::::::::::::::: ::::::::::::::: d7reqa2 75 --QTPEETARQAVEADVHVVGVSSLAGGHLTLVPALRKELDKLGRPDILITVGGVIPEQD 132 d1twda_ 183 LHHFLDAGVLEVH 195 ::::::::::::: d7reqa2 133 FDELRKDGAVEIY 145