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: T542_A.pdb A
Database: SCOP1.69 less than 40% identity downloaded from ASTRAL
| SCOP Id | Protein | SCOP Superfamily | SCOP Fold | SCOP Class |
|
|---|---|---|---|---|---|
| Intermediate | d1tq8a_ | Hypothetical protein Rv1636 | Adenine nucleotide alpha hydrolases-like | Adenine nucleotide alpha hydrolase-like | α/β |
| Hit | d1gpja2 | Glutamyl tRNA-reductase middle domain | NAD(P)-binding Rossmann-fold domains | NAD(P)-binding Rossmann-fold domains | α/β |
Query <-- 0.952 --> IntermediateDALI alignment (Z-score: 8.5 Raw score:517.50) query 1 slqlrlalnqidstvgdiagnaeailrwtrhsaeqgahlvafpemaltgypvedlalrss 60 d1tq8a_ 1 ------------------------------------------------------------ 1 query 61 fveasrtalrelaarlaeegfgelpvlvgyldrsesaqpkygqpagaprnaaavlhrgrv 120 d1tq8a_ 1 ------------------------------------------------------------ 1 query 121 altfakhhlpnygvfdefryfvpgdtmpivrlhgvdialaicedlwqdggrvpaarsaga 180 d1tq8a_ 1 ------------------------------------------------------------ 1 query 181 glllsvnaspyerdkddtrlelvrkraqeagcttaylamiggqdelvfdgdsivvdrdge 240 d1tq8a_ 1 ------------------------------------------------------------ 1 query 241 vvarapqfsegcvvldldlpaaeaepptgvvddglridrlviseeplpayeaelaggyad 300 d1tq8a_ 1 ------------------------------------------------------------ 1 query 301 rldadeevysalvvglrayvaKNGFRSVLIGLSGGIDSALVAAIACDALG-aQNVYGVSM 359 ::::::::::::::::::::::::::::: :::::::: d1tq8a_ 1 --------------------sLSAYKTVVVGTDGSDSSMRAVDRAAQIAGadAKLIIASA 40 query 360 PSKysSDHSKGDAAELARRTG------LNFRTVSIepmfdaymaslgltglaeenlqsrL 413 ::: :::::::::::::::: :::::::: : d1tq8a_ 41 YLP--TAPIYEILHDAKERAHnagaknVEERPIVG------------------------A 74 query 414 RGTTLMAISNQEGH-IVLAPGNksELAVgystlygdsvgaygpikdvyktsifrlaewrn 472 :::::::::::::: ::::::: :::: d1tq8a_ 75 PVDALVNLADEEKAdLLVVGNV--GLST-------------------------------- 100 query 473 raaaergqtppipeasitkpdypvldailelyvdrdtgadaivaagydrelvvktlrmVD 532 :: d1tq8a_ 101 ----------------------------------------------------------IA 102 query 533 TAEYKRRQYppGTKIsakgfgkdrrlpitnrwregh 568 ::::::::: :::: d1tq8a_ 103 GRLLGSVPAnvSRRA-----------kvdvlivhtt 127 FAST alignment (Normalized score: 1.46 Raw score:391.50) query 1 SLQL-RLALNQIDSTVGD--IAGNAEAILRWTRHSAEQGA----HLVAFPEMALTGYPVE 53 :::: ::::::: :::::::::::::: ::::: d1tq8a_ 1 SLSAYKTVVVGT------DGSDSSMRAVDRAAQI------AGADAKLII----------- 37 query 54 DLALRSSFV-------EASRTALRELAARLAEEGFGELPVLVGYLDRSESAQPKYGQPAG 106 ::::::::::::::::::: ::::: d1tq8a_ 38 ---------ASAYLPTAPIYEILHDAKERAHNAGA--KNVEE------------------ 68 query 107 APRNAAAVLHRGRVALTFAKHHLPNYGVFDEFRYFVPGDTMPIVRLHGVDIALAICEDLW 166 d1tq8a_ 69 ------------------------------------------------------------ 69 query 167 QDGGRVPAARSAGAGLLLSVNASPYERDKDDTRLELVRKRAQEAGCTTAYLAMIGGQDEL 226 d1tq8a_ 69 ------------------------------------------------------------ 69 query 227 VFDGDSIVVDRDGEVVARAPQFSEGCVVLDLDLPAAEAEPPTGVVDDGLRIDRLVISEEP 286 d1tq8a_ 69 ------------------------------------------------------------ 69 query 287 LPAYEAELAGGYADRLDADEEVYSALVVGLRAYVAKNGFRSVLIGLSGGIDSALVAAIAC 346 d1tq8a_ 69 ------------------------------------------------------------ 69 query 347 DALGAQNVYGVSMPSKYSSDHSKGDAAELARRTGLNFRTVSIEPMFDAYMASLGLTGLAE 406 d1tq8a_ 69 ------------------------------------------------------------ 69 query 407 ENLQSRLRGTTLMAISNQEGHIVLAPGNKSELAVGYSTLYGDSVGAYGPIKDVYKTSIFR 466 d1tq8a_ 69 ------------------------------------------------------------ 69 query 467 LAEWRNRAAAERGQTPPIPEASITKPDYPVLDAILELYVDRDTGADAIVAAGYDRELVVK 526 d1tq8a_ 69 ------------------------------------------------------------ 69 query 527 TLRMVDTAEYKRRQYPPGTKISAKGFGKDRRLPITNRWREGH------------------ 568 d1tq8a_ 69 ------------------------------------------RPIVGAPVDALVNLADEE 86 query 569 ----------------------------------------- 569 d1tq8a_ 87 KADLLVVGNVGLSTIAGRLLGSVPANVSRRAKVDVLIVHTT 127 TMalign alignment (TM-score: 0.17 Raw score:96.95) query 1 SLQLRLALNQIDSTVGDIAGNAEAILRWTRHSAEQGAHLVAFPEMALTGYPVEDLALRSS 60 : d1tq8a_ 1 -------------------S---------------------------------------- 1 query 61 FVEASRTALRELAARLAEEGFGELPVLVGYLDRSESAQPKYGQPAGAPRNAAAVLHRGRV 120 d1tq8a_ 2 ------------------------------------------------------------ 2 query 121 ALTFAKHHLPNYGVFDEFRYFVPGDTMPIVRLHGVDIALAICEDLWQDGGRVPAARSAGA 180 d1tq8a_ 2 ------------------------------------------------------------ 2 query 181 GLLLSVNASPYERDKDDTRLELVRKRAQEAGCTTAYLAMIGGQDELVFDGDSIVVDRDGE 240 d1tq8a_ 2 ------------------------------------------------------------ 2 query 241 VVARAPQFSEGCVVLDLDLPAAEAEPPTGVVDDGLRIDRLVISEEPLPAYEAELAGGYAD 300 d1tq8a_ 2 ------------------------------------------------------------ 2 query 301 RLDADEEVYSALVVGLRAYVAKNGFRSVLIGLSGGIDSALVAAIACDALGA-QNVYGVSM 359 :::::::::::::::::::::::::::::: :::::::: d1tq8a_ 2 ---------------------LSAYKTVVVGTDGSDSSMRAVDRAAQIAGADAKLIIASA 40 query 360 PSK-YSSDHSKGDAAELARRTG------LNFRTVSIEPMFDAYMASLGLTGLAEENLQSR 412 ::: :: ::::::::::::: :::::: : : d1tq8a_ 41 YLPT--AP-IYEILHDAKERAHNAGAKNVEERPI-V--G--------------------- 73 query 413 LRGTTLMAISNQEGH-IVLAPGNKSELAVGYSTLYGDSVGAYGPIKDVYKTSIFRLAEWR 471 ::::::::::::::: ::::::: : : d1tq8a_ 74 APVDALVNLADEEKADLLVVGNV--G----L----------------------------- 98 query 472 NRAAAERGQTPPIPEASITKPDYPVLDAILELYVDRDTGADAIVAAGYDRELVVKTLRMV 531 : ::: d1tq8a_ 99 -------------------------------------------------------S-TIA 102 query 532 DTAEYKRRQYPPGTKISAKG-FG------KDRRLPITNRWREGH 568 ::::::: ::::::::: : : d1tq8a_ 103 -GRLLGSV-PANVSRRAK-VD-VLIVHTT--------------- 127 HHsearch alignment (Probability: 0.08 E-value:0.10) query 323 NGFRSVLIGLSGGIDSALVAAIACDAL--GAQNVYGVSMPSKYSSDHSKGDAAELARRTG 380 ::::::::::::::::::::::::::: ::::::::::::::::::::::::::::::: d1tq8a_ 3 SAYKTVVVGTDGSDSSMRAVDRAAQIAGADAKLIIASAYLPTAPIYEILHDAKERAHNAG 62 query 381 LNFRTVSI 388 :::::::: d1tq8a_ 63 AKNVEERP 70
Intermediate <-- 0.972 --> HitDALI alignment (Z-score: 4.9 Raw score:361.70) d1tq8a_ 1 ------------------sLSAY-KTVVVGTDgsdsSMRAVDRAAQIAGADA-KLIIASA 40 :::: :::::::: :::::::::::::::: ::::::: d1gpja2 1 segavsigsaavelaerelGSLHdKTVLVVGA----GEMGKTVAKSLVDRGVrAVLVANR 56 d1tq8a_ 41 ylptapIYEILHDAKERAHnagaknVEERPIVgapvdALVNLADeeKADLLVVG------ 94 ::::::::::::: ::::::: ::::::: :::::::: d1gpja2 57 ------TYERAVELARDLG------GEAVRFD-----ELVDHLA--RSDVVVSAtaaphp 97 d1tq8a_ 95 -------------------------NVGL----stiagrllgsvPANVSRRAKvdvlivh 125 :::: ::::::::: d1gpja2 98 vihvddvrealrkrdrrspiliidiANPRdveegveniedvevrTIDDLRVIArenlerr 157 d1tq8a_ 126 tt 127 d1gpja2 158 rk 159 FAST alignment (Normalized score: 3.21 Raw score:456.70) d1tq8a_ 1 SLSAYK-----------------------TVVVG-TDGSDSSMRAVDRAAQIAGADAK-- 34 ::::: :::::::::::::::: d1gpja2 1 ------SEGAVSIGSAAVELAERELGSLHDKTVLVVGAGEMGKTVAKSLVD-------RG 47 d1tq8a_ 35 -LIIASAYLPT--APIYEILHDAKERAHNAGAK-NVEERPIVGAPV-DALVNLADEEKAD 89 :::::::: ::::::::: :::::: :::::::: ::: d1gpja2 48 VRAVLVANR--TYERAVELARD-----------LGGEAVR------FDELVDHLA--RSD 86 d1tq8a_ 90 LLVVGNVGLSTIAGRLLGSV---------------------------------------- 109 ::: d1gpja2 87 VVV-----------------SATAAPHPVIHVDDVREALRKRDRRSPILIIDIANPRDVE 129 d1tq8a_ 110 ------------PANVSRRAKVDVLIVHTT----------- 127 ::::::: d1gpja2 130 EGVENIEDVEVRTIDDLRV-----------IARENLERRRK 159 TMalign alignment (TM-score: 0.50 Raw score:64.01) d1tq8a_ 1 -------------------SLSAYKTVVVGTDGSDSSMRAVDRAAQ-IAGADAKLIIASA 40 :::::::::::::::::::::::::: :: ::::::: d1gpja2 1 SEGAVSIGSAAVELAEREL-GSLHDKTVLVVGAGEMGKTVAKSLVDRGV---RAVLVAN- 55 d1tq8a_ 41 YLPTAPIYEILHDAKERAHNAGAKNVEERPIVGAPVDALVNLADEEKADLLVV-G----- 94 : ::::::::::::: :::::::: :: :::: : : :::: : d1gpja2 56 R-----TYERAVELARDLG------GEAVRFDE----LV-DHLA-R-S-DVVVSATAAPH 96 d1tq8a_ 95 -------------------------NVGLS---TIAGRLLG-S------VPA-NVSRRAK 118 ::::: :: : ::: ::::::: d1gpja2 97 PVIHVDDVREALRKRDRRSPILIIDIANPRDVE------EGVENIEDVEVRTIDDLRVIA 150 d1tq8a_ 119 V--------DVLIVHTT 127 : d1gpja2 151 RENLERRRK-------- 159 HHsearch alignment (Probability: 0.04 E-value:0.16) d1tq8a_ 18 SMRAVDRAAQIAGA-DAKLIIASAYLPTAPIYEILHDAKERAHNAGAKNVEERPIVGAPV 76 :::::::::::::: ::::::::::: :::::::::::::::::::::::::::: d1gpja2 8 GSAAVELAERELGSLHDKTVLVVGAG------EMGKTVAKSLVDRGVRAVLVANRTYERA 61 d1tq8a_ 77 DALVNLA------------DEEKADLLVVGNVGLSTIAGRLLGSVPANVSR--RAKVDVL 122 ::::::: :::::::::::::::::::: ::::::::: ::::::: d1gpja2 62 VELARDLGGEAVRFDELVDHLARSDVVVSATAAPHPVIH---VDDVREALRKRDRRSPIL 118 d1tq8a_ 123 IV 124 :: d1gpja2 119 II 120