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 | d1gpma1 | GMP synthetase, central domain | Adenine nucleotide alpha hydrolases-like | Adenine nucleotide alpha hydrolase-like | α/β |
Query <-- 1.000 --> 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 <-- 1.000 --> HitDALI alignment (Z-score: 14.5 Raw score:1288.10) d1kqpa_ 1 smqekimrelhvkpsIDPKQEIEDRVNFLKQYVKktgAKGFVLGISGGQDSTLAGRLAQL 60 ::::::::::::::::::: ::::::::::::::::::::::: d1gpma1 1 ---------------WTPAKIIDDAVARIREQVG---DDKVILGLSGGVDSSVTAMLLHR 42 d1kqpa_ 61 AVEsireeggdAQFIAVRLPHGTQQ--DEDDAQLALK-fIKPDkSWKFDIKSTVSAFSDQ 117 ::: :::::::::::::: :::::::::: :::: :::::::::::::::: d1gpma1 43 AIG--------KNLTCVFVDNGLLRlnEAEQVLDMFGdhFGLN-IVHVPAEDRFLSALAG 93 d1kqpa_ 118 YqqetgdqLTDFNKGNVKARTRMIAQYAIGGQE--GLLVLGTDHAAEAVTGfftkygdgg 175 : ::::::::::::::::::::::::: :::::::::::::::: d1gpma1 94 E-------NDPEAKRKIIGRVFVEVFDEEALKLedVKWLAQGTIYPDVIES-----aakm 141 d1kqpa_ 176 aDLLPLTGLTKRQGRTLLKELGAPERLYLKEPTAdlldekpqqsdetelgisydeiddyl 235 ::::::::::::::::::::::::::::::::: d1gpma1 142 gLVEPLKELFKDEVRKIGLELGLPYDMLYRHPFP-------------------------- 175 d1kqpa_ 236 egkevsakvsealekrysmtehkrqvpasmfddwwk 271 d1gpma1 176 ------------------------------------ 176 FAST alignment (Normalized score: 12.55 Raw score:2733.00) d1kqpa_ 1 SMQEKIMRELHVKPSI-DPKQEIEDRVNFLKQYVKKTGAKGFVLGISGGQDSTLAGRLAQ 59 ::::::::::::::::: ::: :::::::::::::::::::: d1gpma1 1 ----------------WTPAKIIDDAVARIREQV--GDD-KVILGLSGGVDSSVTAMLLH 41 d1kqpa_ 60 LAVESIREEGGDA---QFIAVRLPHGTQ---QDEDDA-QLALKFIKPDKSWKFDIKSTVS 112 :: ::::::::::: :::::: :::::::: ::::::::::::: d1gpma1 42 RA-----------IGKNLTCVFVDNGL-LRLNEAEQVLDMFGDHFG-LNIVHVPAEDRFL 88 d1kqpa_ 113 AFSDQYQQETGDQ-LTDFNKGNVKARTRMIAQYAIGGQEG----LLVLGTDHAAEAVTGF 167 ::::: :::::::::::::::::::::::: ::::::::::::: d1gpma1 89 SALAG--------ENDPEAKRKIIGRVFVEVFDEEALK--LEDVKWLAQGTIYPDVI--- 135 d1kqpa_ 168 FTKYGDGGA-------DLLPLTGLTKRQGRTLLKELGAPERLYLKEPTADLLDEKPQQSD 220 :::::::::::::::::::::::::::::::: d1gpma1 136 ---------ESAAKMGLVEPLKELFKDEVRKIGLELGLPYDMLYRHPF------------ 174 d1kqpa_ 221 ETELGISYDEIDDYLEGKEVSAKVSEALEKRYSMTEHKRQVPASMFDDWWK- 271 d1gpma1 175 ---------------------------------------------------P 175 TMalign alignment (TM-score: 0.52 Raw score:141.32) d1kqpa_ 1 SMQEKIMRELHVKPSIDPKQEIEDRVNFLKQYVKKTGAKGFVLGISGGQDSTLAGRLAQL 60 ::::::::::::::::::: :: ::::::::::::::::::::: d1gpma1 1 ---------------WTPAKIIDDAVARIREQVG--DD-KVILGLSGGVDSSVTAMLLHR 42 d1kqpa_ 61 AVESIREEGGDAQFIAVRLPHGTQQ--DEDDAQLAL-KFIKPDKSWKFDIKSTVSAFSDQ 117 ::: :::::::::::::: ::::::::: ::::: :::::::::::::::: d1gpma1 43 AIG--------KNLTCVFVDNGLLRLNEAEQVLDMFGDHFGL-NIVHVPAEDRFLSALA- 92 d1kqpa_ 118 YQQETGDQLTDFNKGNVKARTRMIAQYAIGGQE-GL-LVLGTDHAAEAVTG---FFTKYG 172 : :::::::::::::::::::::::::: :: :::::::::::::: d1gpma1 93 -G-----ENDPEAKRKIIGRVFVEVFDEEALKLEDVKWLAQGTIYPDVIESAAK------ 140 d1kqpa_ 173 DGGADLLPLTGLTKRQGRTLLKELGAPERLYLKEPTADLLDEKPQQSDETELGISYDEID 232 ::::::::::::::::::::::::::::::::::: d1gpma1 141 --MGLVEPLKELFKDEVRKIGLELGLPYDMLYRHPFP----------------------- 175 d1kqpa_ 233 DYLEGKEVSAKVSEALEKRYSMTEHKRQVPASMFDDWWK 271 d1gpma1 176 --------------------------------------- 176 HHsearch alignment (Probability: 1.00 E-value:0.00) d1kqpa_ 16 IDPKQEIEDRVNFLKQYVKKTGAKGFVLGISGGQDSTLAGRLAQLAVESIREEGGDAQFI 75 :::::::::::::::::: :::::::::::::::::::::::::::: ::::: d1gpma1 1 WTPAKIIDDAVARIREQV---GDDKVILGLSGGVDSSVTAMLLHRAIGK------NLTCV 51 d1kqpa_ 76 AVRLPH-GTQQDEDDAQLALKFIKPDKSWKFDIKSTVSAFSDQYQQETGDQLTDFNKGNV 134 :::::: ::::::::::::::::::::: :::::::::::::: :::::::::: d1gpma1 52 FVDNGLLRLNEAEQVLDMFGDHFGLNIV-HVPAEDRFLSALAG-------ENDPEAKRKI 103 d1kqpa_ 135 KARTRMIAQYAIGGQEG-LLVLGTDHAAEAVTGFFTKYGDGGADLLPLTGLTKRQGRTLL 193 ::::::::::::::::: :::::::::::::::::::::: :::::::::::::::: d1gpma1 104 IGRVFVEVFDEEALKLEDVKWLAQGTIYPDVIESAAKMGL----VEPLKELFKDEVRKIG 159 d1kqpa_ 194 KELGAPERLYLKEPTA 209 :::::::::::::::: d1gpma1 160 LELGLPYDMLYRHPFP 175