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: T0542_Ad2+3.pdb
Database: SCOP1.69 less than 40% identity downloaded from ASTRAL
| SCOP Id | Protein | SCOP Superfamily | SCOP Fold | SCOP Class |
|
|---|---|---|---|---|---|
| Intermediate | d1t57a_ | Hypothetical protein MTH1675 | PK C-terminal domain-like | Pyruvate kinase C-terminal domain-like | α/β |
| Hit | d1l5ja3 | Aconitase B, C-terminal domain | Aconitase iron-sulfur domain | Aconitase iron-sulfur domain | α/β |
Query <-- 0.668 --> IntermediateDALI alignment (Z-score: 4.8 Raw score:501.90) query 1 ---------dadeeVYSALVVGLRAYVAKNGFRSVLIGLSGgidsALVAAIACDALGaQN 51 ::::::::::::::::::::::::::: :::::::::::: :: d1t57a_ 1 mekkicyfeepgkeNTERVLELVGERADQLGIRNFVVASVS----GETALRLSEMVE-GN 55 query 52 VYGVSMPSK---YSSDhSKGD-AAELARRTGLNFRTVSI--ePMFDAYMASLGLtglaEE 105 ::::::::: :::: :::: ::::::::::::::::: :::::::::::: :: d1t57a_ 56 IVSVTHHAGfreKGQL-ELEDeARDALLERGVNVYAGSHalsGVGRGISNRFGG---vTP 111 query 106 NL----------qsrlrgTTLMAISNQ-------eGHIVLAPGnkselavgystlygdsV 148 :: ::::::::: :::::::: : d1t57a_ 112 VEimaetlrmvsqgfkvcVEIAIMAADaglipvdeEVIAIGGT-----------awgadT 160 query 149 GAYgpikdvyktsifrlaewrnraaaergqtppipeasitkpdypvldailelyvdrdtg 208 ::: d1t57a_ 161 ALV--------------------------------------------------------- 163 query 209 adaivaagydrelvvktlrmvdtaeykrrqyPPGTkisakgfgkdrrlpitnrwregh 266 :::: d1t57a_ 164 ----------------ltpahmnsvfdlrihEVIA-------------------mprp 186 FAST alignment (Normalized score: 3.32 Raw score:738.10) query 1 DAD------------EEVYSALVVGLRAYVAKNGFRSVLIGLSGGIDS--ALVAAIACDA 46 ::::::::::::::::::::::::::: :::::::::: d1t57a_ 1 ---MEKKICYFEEPGKENTERVLELVGERADQLGIRNFVVAS------VSGETALRLSEM 51 query 47 LGAQ--NVYGVSMPSKYSSDH-------------SKGDAAELARRTGLNFRTVSI----- 86 : :::::: ::::::::: ::::::::: d1t57a_ 52 V---EGNIVSVT---------HHAGFREKGQLELEDEARDALL-ERGVNVYAG--SHALS 96 query 87 EPMFDAYMASLGLTGLAEENLQ-----------------------SRLRGTTLMAI---- 119 ::::::::: :::::::::: d1t57a_ 97 GVGRGISNR-------------FGGVTPVEIMAETLRMVSQGFKVCVEIAIMAAD-AGLI 142 query 120 SNQEGHIVLAPGNKSELAVGYSTLYGDSVGAYGPIKDVYKTSIFRLAEWRNRAAAERGQT 179 :::::::::: d1t57a_ 143 PVDEEVIAIG-------------------------------------------------- 152 query 180 PPIPEASITKPDYPVLDAILELYVDRDTGADAIVAAGYDRELVVKTLRMVDTAEYKRRQY 239 d1t57a_ 153 ------------------------------------------------------------ 153 query 240 PPGTKISAKGFGKDRRLPITNRWREGH--------------------------------- 266 d1t57a_ 153 ---------------------------GTAWGADTALVLTPAHMNSVFDLRIHEVIAMPR 185 query 267 - 267 d1t57a_ 186 P 186 TMalign alignment (TM-score: 0.36 Raw score:96.37) query 1 ---------------DADEEVYSALVVGLRAYVAKNGFRSVLIGLSGGIDSALVAAIACD 45 :::::::::::::::::::::::::: :: ::::::: d1t57a_ 1 MEKKICYFEEPGKEN------TERVLELVGERADQLGIRNFVVASVS---GE-TALRLSE 50 query 46 ALGAQNVYGVSMPSKYSS--DHSKGD-AAELARRTGLNFRTVSIEPMFDAYMASL-GLTG 101 ::: :::::::::::::: :::::: :::::::::::::::::::::::::::: ::: d1t57a_ 51 MVE-GNIVSVTHHAGFREKGQLELEDEARDALLERGVNVYAGSHALSGVGRGISNRFGG- 108 query 102 LAE--ENL--QSRL---------RG-TTLMA--I----SNQE-GHIVLAPGNKSELAVGY 140 :: : :: :: ::::: : :::: :::::::: d1t57a_ 109 -VTPV--EIM--AETLRMVSQGFKVCVEIAIMAADAGLIPVDEEVIAIGGT--------- 154 query 141 STLYGDSVGAY----------------GPIKDVYKTSIFRLAEWRNRAAAERGQTPPIPE 184 ::: :::::: d1t57a_ 155 -AWG-ADTALVLTPAHMNSVFDLRIHE--------------------------------- 179 query 185 ASITKPDYPVLDAILELYVDRDTGADAIVAAGYDRELVVKTLRMVDTAEYKRRQYPPGTK 244 :::: d1t57a_ 180 ------------------------------------------------------VIAM-- 183 query 245 ISAKGFGKDRRLPITNRWREGH 266 : : : d1t57a_ 184 -----P-R-----P-------- 186 HHsearch alignment (Probability: 0.08 E-value:0.04) query 16 AYVAKNGFRSVLIGLSGGIDSALVAAIACDALGAQNVYGVSMPSKYSSDHSKGDAAELAR 75 :::::::::::::::::: :::::::::: ::::::::::::::::::::::::::: d1t57a_ 25 ERADQLGIRNFVVASVSG----ETALRLSEMV-EGNIVSVTHHAGFREKGQLELEDEARD 79 query 76 RT 77 :: d1t57a_ 80 AL 81
Intermediate <-- 0.623 --> HitDALI alignment (Z-score: 2.4 Raw score:296.10) d1t57a_ 1 ------------------------------------------------------------ 1 d1l5ja3 1 kdvaesdrgfslaqkmvgracgvkgirpgaycepkmtsvgsqdttgpmtrdelkdlaclg 60 d1t57a_ 1 ------------------------------------------------------------ 1 d1l5ja3 61 fsadlvmqsfchtaaypkpvdvnthhtlpdfimnrggvslrpgdgvihswlnrmllpdtv 120 d1t57a_ 1 ------------------------------------------------------------ 1 d1l5ja3 121 gtggdshtrfpigisfpagsglvafaaatgvmpldmpesvlvrfkgkmqpgitlrdlvha 180 d1t57a_ 1 ------------------------------------------------------------ 1 d1l5ja3 181 iplyaikqglltvekkgkknifsgrileieglpdlkveqafeltdasaersaagctikln 240 d1t57a_ 1 ------------------------------------------------------------ 1 d1l5ja3 241 kepiieylnsnivllkwmiaegygdrrtlerriqgmekwlanpelleadadaeyaavidi 300 d1t57a_ 1 ----------------mEKKICYfeepgkentervlelvgeradQLGIRNFVVA-----s 39 :::::: :::::::::: d1l5ja3 301 dladikepilcapndpdDARPLS------------------avqGEKIDEVFIGscmtni 342 d1t57a_ 40 vsGETALRLS----emVEGNIVSVTHHAgfrekgqLELE-DEARDALLERGVNVYAGSHa 94 :::::::: :::::::::::: :::: ::::::::::::::::::: d1l5ja3 343 ghFRAAGKLLdahkgqLPTRLWVAPPTR----mdaAQLTeEGYYSVFGKSGARIEIPGC- 397 d1t57a_ 95 lsgvgrgisnrfggvtpveimaetlrmvsqgfkvcveIAIMaADAGlIPVDEEVIAIGgt 154 :::: :::: ::::::::::: d1l5ja3 398 -------------------------------------SLCM-GNQArVADGATVVSTS-- 417 d1t57a_ 155 awgadtalvltpahmnsVFDL--------------------------------------- 175 :::: d1l5ja3 418 --------------trnFPNRlgtganvflasaelaavaaligklptpeeyqtyvaqvdk 463 d1t57a_ 176 ----------------riheviamprp 186 d1l5ja3 464 tavdtyrylnfnqlsqytekadgvifq 490 FAST alignment (Normalized score: 1.60 Raw score:482.70) d1t57a_ 1 MEKKICYFEEPGKENTERVLELVGERAD-------------------------------- 28 d1l5ja3 1 ----------------------------KDVAESDRGFSLAQKMVGRACGVKGIRPGAYC 32 d1t57a_ 29 QLGIRNFVVASV---SGETALRLSEMV--------EGNIVSV--THHAGFREKGQLEL-- 73 ::::::::: :::::::::: ::::::: :::::: d1l5ja3 33 EPKMTSVGS---QDTTGPMTRDELK--DLACLGFSADLVMQSFCHTAAYP--------KP 79 d1t57a_ 74 -----EDEARDALLERGVNVYAGSHALSGVGRGISNRFGGVTPVEIMAETLRMVSQGFKV 128 :::::::::::::::::: d1l5ja3 80 VDVNTHHTLPDFIMNRGGVSLRP------------------------------------- 102 d1t57a_ 129 CV---EIAIMAADAGLIPVDEEVIAIGGTAWG-ADTALVLTPAHMNSVFDLRIHEVIAMP 184 ::::::: ::::::::::: :::: d1l5ja3 103 --GDGVIHSWLN--RMLLPDTVGTG-------GDSHT----------------------- 128 d1t57a_ 185 RP---------------------------------------------------------- 186 d1l5ja3 129 --RFPIGISFPAGSGLVAFAAATGVMPLDMPESVLVRFKGKMQPGITLRDLVHAIPLYAI 186 d1t57a_ 187 ------------------------------------------------------------ 187 d1l5ja3 187 KQGLLTVEKKGKKNIFSGRILEIEGLPDLKVEQAFELTDASAERSAAGCTIKLNKEPIIE 246 d1t57a_ 187 ------------------------------------------------------------ 187 d1l5ja3 247 YLNSNIVLLKWMIAEGYGDRRTLERRIQGMEKWLANPELLEADADAEYAAVIDIDLADIK 306 d1t57a_ 187 ------------------------------------------------------------ 187 d1l5ja3 307 EPILCAPNDPDDARPLSAVQGEKIDEVFIGSCMTNIGHFRAAGKLLDAHKGQLPTRLWVA 366 d1t57a_ 187 ------------------------------------------------------------ 187 d1l5ja3 367 PPTRMDAAQLTEEGYYSVFGKSGARIEIPGCSLCMGNQARVADGATVVSTSTRNFPNRLG 426 d1t57a_ 187 ------------------------------------------------------------ 187 d1l5ja3 427 TGANVFLASAELAAVAALIGKLPTPEEYQTYVAQVDKTAVDTYRYLNFNQLSQYTEKADG 486 d1t57a_ 187 ---- 187 d1l5ja3 487 VIFQ 490 TMalign alignment (TM-score: 0.41 Raw score:76.69) d1t57a_ 1 ---------------------------MEKKICYFEEPGKENTERVLELVGERADQLGIR 33 :::: : ::::: d1l5ja3 1 KDVAESDRGFSLAQKMVGRACGVKGIRPGAY---------------------C--EPKMT 37 d1t57a_ 34 NFVVASVSGETAL-RLS---E-MVEG-NIVSVTHH-AGFRE--KGQLELEDEARDALLER 84 ::::::::::::: ::: : :::: :::::::: ::::: ::::::::::::::: d1l5ja3 38 SVGSQDTTGPMTRDELKDLACLGFSADLVMQSFCHTAAYPKPV--DVNTHHTLPDFIMNR 95 d1t57a_ 85 GVNVYA--GSHALSGVGRGISNRFGGVTPVEIMAETLRMVSQGFKVCVEIAIMAADAGLI 142 :::::: ::: :::::: ::: d1l5ja3 96 GGVSLRPGDGV--------------------------------------IHSWLN--RML 115 d1t57a_ 143 PVDEEVIAIGG------------TAWGADTA--------L-V------------------ 163 ::::::::::: ::::: : : d1l5ja3 116 LPDTVGTGGDSHTRFPIGISFPA---GSGLVAFAAATGVMPLDMPESVLVRFKGKMQPGI 172 d1t57a_ 164 ---------------------------------L-T-------PAHMNSVFDLR-IH--- 178 : : :::::::::: :: d1l5ja3 173 TLRDLVHAIPLYAIKQGLLTVEKKGKKNIFSGRILEIEGLPDL-KVEQAFELTDASAERS 231 d1t57a_ 179 EVI--------------------------------------------------------- 181 ::: d1l5ja3 232 AAGCTIKLNKEPIIEYLNSNIVLLKWMIAEGYGDRRTLERRIQGMEKWLANPELLEADAD 291 d1t57a_ 182 ------------------------------------------------------------ 182 d1l5ja3 292 AEYAAVIDIDLADIKEPILCAPNDPDDARPLSAVQGEKIDEVFIGSCMTNIGHFRAAGKL 351 d1t57a_ 182 ------------------------------------------------------------ 182 d1l5ja3 352 LDAHKGQLPTRLWVAPPTRMDAAQLTEEGYYSVFGKSGARIEIPGCSLCMGNQARVADGA 411 d1t57a_ 182 ------------------------------------------------------------ 182 d1l5ja3 412 TVVSTSTRNFPNRLGTGANVFLASAELAAVAALIGKLPTPEEYQTYVAQVDKTAVDTYRY 471 d1t57a_ 182 -------------------AMPRP 186 d1l5ja3 472 LNFNQLSQYTEKADGVIFQ----- 490 HHsearch alignment (Probability: 0.01 E-value:0.39) d1t57a_ 32 IRNFVVASVSGETALRLSEMVEGN-------IVSVTHHAGFREKGQLELEDEARDALLER 84 :::::::::::::::::::::::: ::::::::::::::::::::::::::::: d1l5ja3 36 MTSVGSQDTTGPMTRDELKDLACLGFSADLVMQSFCHTAAYPKPVDVNTHHTLPDFIMNR 95 d1t57a_ 85 GVN 87 ::: d1l5ja3 96 GGV 98