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 | d1kqpa_ | NH3-dependent NAD+-synthetase | Adenine nucleotide alpha hydrolases-like | Adenine nucleotide alpha hydrolase-like | α/β |
| Hit | d1ll2a_ | Glycogenin | Nucleotide-diphospho-sugar transferases | Nucleotide-diphospho-sugar transferases | α/β |
Query <-- 0.730 --> IntermediateDALI alignment (Z-score: 22.6 Raw score:2213.70) query 1 ---------------dADEEVYSALVVGLRAYVAKNGFRSVLIGLSGGIDSALVAAIACD 45 :::::::::::::::::::::::::::::::::::::::::::: d1kqpa_ 1 smqekimrelhvkpsiDPKQEIEDRVNFLKQYVKKTGAKGFVLGISGGQDSTLAGRLAQL 60 query 46 ALG-------aqNVYGVSMPSKySSDHsKGDAAELARRTGL-NFRTVSIEPMFDAYMASL 97 ::: :::::::::: :::: ::::::::::::: :::::::::::::::::: d1kqpa_ 61 AVEsireeggdaQFIAVRLPHG-TQQD-EDDAQLALKFIKPdKSWKFDIKSTVSAFSDQY 118 query 98 ------GLTGLAEENLQSRLRGTTLMAISNQEGHIVLAPGNKSELAVGYSTlyGDSVGAY 151 ::::::::::::::::::::::::::::::::::::::::::::: ::::::: d1kqpa_ 119 qqetgdQLTDFNKGNVKARTRMIAQYAIGGQEGLLVLGTDHAAEAVTGFFTkyGDGGADL 178 query 152 GPIKDVYKTSIFRLAEWRNraaaergqtppIPEASITK--------------------PD 191 ::::::::::::::::::: :::::::: :: d1kqpa_ 179 LPLTGLTKRQGRTLLKELG-----------APERLYLKeptadlldekpqqsdetelgIS 227 query 192 YPVLDAILELyvdrdtgadaivaaGYDRELVVKTLRMVDTAEYKRRQyppgtkisakgfg 251 :::::::::: ::::::::::::::::::::::: d1kqpa_ 228 YDEIDDYLEG-------------kEVSAKVSEALEKRYSMTEHKRQV------------p 262 query 252 kdrrlPITNrwregh 266 :::: d1kqpa_ 263 asmfdDWWK------ 271 FAST alignment (Normalized score: 16.90 Raw score:4537.00) query 1 D----------------ADEEVYSALVVGLRAYVAKNGFRSVLIGLSGGIDSALVAAIAC 44 ::::::::::::::::::::::::::::::::::::::::::: d1kqpa_ 1 -SMQEKIMRELHVKPSIDPKQEIEDRVNFLKQYVKKTGAKGFVLGISGGQDSTLAGRLAQ 59 query 45 DALGAQ-----------NVYGVSMPSKYSSDH-SKGDAAELARRTG-LNFRTVSIEPMFD 91 :: :::::::::::: ::::::::::::: ::::::::::::: d1kqpa_ 60 LA----VESIREEGGDAQFIAVRLPHGTQ---QDEDDAQLALKFIKPDKSWKFDIKSTVS 112 query 92 AYMAS------LGLTGLAEENLQSRLRGTTLMAISNQEGHIVLAPGNKSELAVGYSTLY- 144 ::::: ::::::::::::::::::::::::::::::::::::::::::: d1kqpa_ 113 AFSDQYQQETGDQLTDFNKGNVKARTRMIAQYAIGGQEGLLVLGTDHAAEAVTG-----F 167 query 145 ----GDSVGAYGPIKDVYKTSIFRLAEWRNRAAAERGQTP-PIPEASITK---------- 189 :::::::::::::::::::::::: :::::::: d1kqpa_ 168 FTKYGDGGADLLPLTGLTKRQGRTLLKE------------LGAPERLYL-KEPTADLLDE 214 query 190 -----------PDYPVLDAILELYVDRDTGADAIVA--AGYDRELVVKTLRMVDTAEYKR 236 :::::::::: :::::::::::::::::::::: d1kqpa_ 215 KPQQSDETELGISYDEIDDYL---------------EGKEVSAKVSEALEKRYSMTEHKR 259 query 237 RQYPPGTKISAKGFGKDRRLPITNRWREGH------------ 266 d1kqpa_ 260 ------------------------------QVPASMFDDWWK 271 TMalign alignment (TM-score: 0.75 Raw score:199.93) query 1 ---------------DADEEVYSALVVGLRAYVAKNGFRSVLIGLSGGIDSALVAAIACD 45 ::::::::::::::::::::::::::::::::::::::::::::: d1kqpa_ 1 SMQEKIMRELHVKPSIDPKQEIEDRVNFLKQYVKKTGAKGFVLGISGGQDSTLAGRLAQL 60 query 46 ALGA-------QNVYGVSMPSKYSSDHSKGDAAELARRTGL-NFRTVSIEPMFDAYMASL 97 :::: :::::::::::::: : ::::::::::::: :::::::::::::::::: d1kqpa_ 61 AVESIREEGGDAQFIAVRLPHGTQQ-D-EDDAQLALKFIKPDKSWKFDIKSTVSAFSDQY 118 query 98 ------GLTGLAEENLQSRLRGTTLMAISNQEGHIVLAPGNKSELAVGYSTLYGDSVGAY 151 :::::::::::::::::::::::::::::::::::::::::::::::::::::: d1kqpa_ 119 QQETGDQLTDFNKGNVKARTRMIAQYAIGGQEGLLVLGTDHAAEAVTGFFTKYGDGGADL 178 query 152 GPIKDVYKTSIFRLAEWRNRAAAERGQTPPIPEASITK--------------------PD 191 ::::::::::::::::::: :::::::: :: d1kqpa_ 179 LPLTGLTKRQGRTLLKELG-----------APERLYLKEPTADLLDEKPQQSDETELGIS 227 query 192 YPVLDAILELYVDRDTGADAIVAAGYDRELVVKTLRMVDTAEYKRRQY----PPGTKISA 247 :::::::::: : : ::::::::::::::::::::::: d1kqpa_ 228 YDEIDDYLEG----------K--E-VSAKVSEALEKRYSMTEHKRQVPASMF-------- 266 query 248 KGFGKDRRLPITNRWREGH 266 ::::: d1kqpa_ 267 -------DDWWK------- 271 HHsearch alignment (Probability: 1.00 E-value:0.00) query 1 DADEEVYSALVVGLRAYVAKNGFRSVLIGLSGGIDSALVAAIACDALGAQNVYGV----- 55 :::::: :::::::::::::::::::::::::::::::::::::::::::::::: d1kqpa_ 17 DPKQEI-EDRVNFLKQYVKKTGAKGFVLGISGGQDSTLAGRLAQLAVESIREEGGDAQFI 75 query 56 SMPSKYSSDHSKGDAAELARRTGLNFR-TVSIEPMFDAYMASLGL------TGLAEENLQ 108 ::::::::::::::::::::::::::: ::::::::::::::::: ::::::::: d1kqpa_ 76 AVRLPHGTQQDEDDAQLALKFIKPDKSWKFDIKSTVSAFSDQYQQETGDQLTDFNKGNVK 135 query 109 SRLRGTTLMAISNQEGHIVLAPGNKSELAVGYSTLYGDSVGAYGPIKDVYKTSIFRLAEW 168 :::::::::::::::::::::::::::::::::::::::::::::::::::::::::::: d1kqpa_ 136 ARTRMIAQYAIGGQEGLLVLGTDHAAEAVTGFFTKYGDGGADLLPLTGLTKRQGRTLLKE 195 query 169 RN--RAAAERGQTPPIPEASITK-------PDYPVLDAILELYVDRDTGADAIVAAGYDR 219 :: ::::::::::::::::::: ::::::::::: :::::: d1kqpa_ 196 LGAPERLYLKEPTADLLDEKPQQSDETELGISYDEIDDYLE-------------GKEVSA 242 query 220 ELVVKTLRMVDTAEYKRRQYPPGTKISAKGFGKDRR 255 ::::::::::::::::: :::::: :::::: d1kqpa_ 243 KVSEALEKRYSMTEHKR-QVPASM------FDDWWK 271
Intermediate <-- 0.820 --> HitDALI alignment (Z-score: 4.1 Raw score:536.00) d1kqpa_ 1 smqekimrelhvkpsidpkqeiedrvnflkqyvkktgAKGFVLGI---sgGQDSTLAGRL 57 :::::::: :::::::::: d1ll2a_ 1 -----------------------------------mtDQAFVTLTtndayAKGALVLGSS 25 d1kqpa_ 58 AQLAVEsireeggDAQFIAVRLPhgtqqdEDDAQLALKFIkPDKSWKFDIKS----TVSA 113 :::::: :::::::::: ::::::::::: ::::::::::: :::: d1ll2a_ 26 LKQHRT-------SRRLAVLTTP----qvSDTMRKALEIV-FDEVITVDILDsgdsAHLT 73 d1kqpa_ 114 FSDqyqqetgdqltdfnKGNVKARTRMIAQYAigGQEG--LLVLGTD------------- 158 ::: ::::::::::::::: :::: ::::::: d1ll2a_ 74 LMK--------------RPELGVTLTKLHCWS--LTQYskCVFMDADtlvlaniddlfer 117 d1kqpa_ 159 ---haaeAVTGfftkygdgGADL------------------------------------- 178 :::: :::: d1ll2a_ 118 eelsaapDPGW---pdcfnSGVFvyqpsvetynqllhvaseqgsfdggdqgllntffnsw 174 d1kqpa_ 179 ----------------------------------lPLTG--------------------- 183 :::: d1ll2a_ 175 attdirkhlpfiynlssisiysylpafkafganakVVHFlgqtkpwnytydtktksvrth 234 d1kqpa_ 184 -ltkRQGRTLLKEL--GAPERlylkeptadlldekpqqsdetelgisydeiddylegkev 240 :::::::::: ::::: d1ll2a_ 235 pqflNVWWDIFTTSvvPLLQQ--------------------------------------- 255 d1kqpa_ 241 sakvsealekrysmtehkrqvpasmfddwwk 271 d1ll2a_ 256 ------------------------------- 256 FAST alignment (Normalized score: 2.75 Raw score:722.80) d1kqpa_ 1 SMQEKIMRELHVKPSIDPKQEIEDRVNFLKQYVKKTG--AKGFVLGISGGQDSTLAGRLA 58 :::::::: :::::::::::: d1ll2a_ 1 -------------------------------------MTDQAFVTLT-TNDAYAKGALVL 22 d1kqpa_ 59 QLAVESIREEGG---DAQFIAVRLPHGTQQD----EDDAQLALKFIKPDKSWKFDI---- 107 :::::: :::::::: :::::::::: :::::::::: d1ll2a_ 23 GSSLKQ------HRTSRRLAVLT--------TPQVSDTMRKALEI-VFDEVITVDILDSG 67 d1kqpa_ 108 KSTVSAFSDQYQQETGDQLTDFN-KGNVKARTRMIAQYAIGGQE-GLLVLGTDHAAEAVT 165 :::::::: :::::::::::::: ::::: :::::: d1ll2a_ 68 DSAHLTLM---------------KRPELGVTLTKLHCW-SLTQYSKCVFMD--------- 102 d1kqpa_ 166 GFFTKYGDGGADLLPLTGLTKRQGRTLLKELGAPERLYLKEPTADLLDEKPQQSDETELG 225 d1ll2a_ 103 ------------------------------------------------------------ 103 d1kqpa_ 226 ISYDEIDDYLEGKEVSAKVSEALEKRYSMTEHKRQVPASMFDDWWK-------------- 271 d1ll2a_ 103 ----------------------------------------------ADTLVLANIDDLFE 116 d1kqpa_ 272 ------------------------------------------------------------ 272 d1ll2a_ 117 REELSAAPDPGWPDCFNSGVFVYQPSVETYNQLLHVASEQGSFDGGDQGLLNTFFNSWAT 176 d1kqpa_ 272 ------------------------------------------------------------ 272 d1ll2a_ 177 TDIRKHLPFIYNLSSISIYSYLPAFKAFGANAKVVHFLGQTKPWNYTYDTKTKSVRTHPQ 236 d1kqpa_ 272 ------------------- 272 d1ll2a_ 237 FLNVWWDIFTTSVVPLLQQ 255 TMalign alignment (TM-score: 0.25 Raw score:66.98) d1kqpa_ 1 ------------SMQEKIMRELHV----------------------KPSIDPKQEIEDRV 26 :::: :: d1ll2a_ 1 MTDQAFVTLTTN--------DAYAKGALVLGSSLKQHRTSRRLAVL------------TT 40 d1kqpa_ 27 NFLKQY-----------VKKTGAKGFVLGISGGQDSTLAGRLAQLAVESIR-E------- 67 ::: :: ::: : ::::::::: : d1ll2a_ 41 PQV-SDTMRKALEIVFD--------EVI-----------T--VDILDSGDSAHLTLMKRP 78 d1kqpa_ 68 ---------EGGDAQFI-AVR-L-PH----------------GTQQDED----------- 88 :: ::: : :: ::::::: d1ll2a_ 79 ELGVTLTKL------HCWSLTQYSKCVFMDADTLVLANIDDLFEREELSAAPDPGWPDCF 132 d1kqpa_ 89 ------DA-Q-LAL-KFIK--------PDKSWKFDIKSTVSAFSDQYQQETGDQLTDFNK 131 :: : ::: :::: d1ll2a_ 133 NSGVFVYQPSVETYNQLLHVASEQGSF--------------------------------- 159 d1kqpa_ 132 GNVKARTRMIAQYAIGGQEGLLVLGTDHAAEAVTGFFTKYGDGGADLLPLTGLTKRQGRT 191 :: d1ll2a_ 160 ----------------------------------------------------------DG 161 d1kqpa_ 192 LLKELGAPERLYL-K--------EPTADLLDEKPQQSDE------------------TEL 224 ::: :::::::: : ::::::: ::: d1ll2a_ 162 GDQ--GLLNTFFNSWATTDIRKH---------LPFIYNLSSISIYSYLPAFKAFGANAKV 210 d1kqpa_ 225 GISYDEIDDYLE-GK---------EVSAKVSEALEKRYSMTEHKRQVPASMFDDWWK 271 :::: ::::: :: ::::::::::::::::::::::: : d1ll2a_ 211 -VHFL--GQTKPWNYTYDTKTKSV---RTHPQFLNVWWDIFTTSVVPLLQ--Q---- 255 HHsearch alignment (Probability: 0.01 E-value:0.66) d1kqpa_ 19 KQEIEDRVNFLKQYVKKTGAKGFVLGISGGQDSTLAGRL 57 ::::::::::::::::::::::::::::::::::::::: d1ll2a_ 13 DAYAKGALVLGSSLKQHRTSRRLAVLTTPQVSDTMRKAL 51