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 | d1k92a1 | Argininosuccinate synthetase, N-terminal domain | Adenine nucleotide alpha hydrolases-like | Adenine nucleotide alpha hydrolase-like | α/β |
| Hit | d1dv1a2 | Biotin carboxylase (BC), N-terminal domain | PreATP-grasp domain | PreATP-grasp domain | α/β |
Query <-- 1.735 --> IntermediateDALI alignment (Z-score: 11.0 Raw score:898.40) query 1 slqlrlalnqidstvgdiagnaeailrwtrhsaeqgahlvafpemaltgypvedlalrss 60 d1k92a1 1 ------------------------------------------------------------ 1 query 61 fveasrtalrelaarlaeegfgelpvlvgyldrsesaqpkygqpagaprnaaavlhrgrv 120 d1k92a1 1 ------------------------------------------------------------ 1 query 121 altfakhhlpnygvfdefryfvpgdtmpivrlhgvdialaicedlwqdggrvpaarsaga 180 d1k92a1 1 ------------------------------------------------------------ 1 query 181 glllsvnaspyerdkddtrlelvrkraqeagcttaylamiggqdelvfdgdsivvdrdge 240 d1k92a1 1 ------------------------------------------------------------ 1 query 241 vvarapqfsegcvvldldlpaaeaepptgvvddglridrlviseeplpayeaelaggyad 300 d1k92a1 1 ------------------------------------------------------------ 1 query 301 rldadeevysalvvGLRAyvakngfRSVLIGLSGGIDSALVAAIACDALGaqNVYGVSMP 360 :::: ::::::::::::::::::::::::: :::::::: d1k92a1 1 ---------ttilkHLPV------gQRIGIAFSGGLDTSAALLWMRQKGA--VPYAYTAN 43 query 361 SKY-SSDHsKGDAAELARRTGL-NFRTVSIEPMFDAYMASLG-----------ltGLAEE 407 ::: :::: ::::::::::::: ::::::::::::::::::: ::::: d1k92a1 44 LGQpDEED-YDAIPRRAMEYGAeNARLIDCRKQLVAEGIAAIqcgafhnttggltYFNTT 102 query 408 NLQSRLRGTTLMAISNQEGH-IVLAPGnkselaVGYST-lyGDSV--------gAYGPIK 457 :::::::::::::::::::: :::::: ::::: :::: :::::: d1k92a1 103 PLGRAVTGTMLVAAMKEDGVnIWGDGS-----tYKGNDierFYRYglltnaelqIYKPWL 157 query 458 -------dVYKTSIFRLAEWRNRaaaergqtppipeasITKPDypvldailelyvdrdtg 510 ::::::::::::::: ::::: d1k92a1 158 dtdfidelGGRHEMSEFMIACGF-------------dyKMSVE----------------- 187 query 511 adaivaagydrelvvktlrmvdtaeykrrqyppgtkisakgfgkdrrlpitnrwregh 568 d1k92a1 188 ---------------------------------------------------------k 188 FAST alignment (Normalized score: 4.46 Raw score:1458.00) query 1 SLQLRLALNQIDSTVGDIAGNAEAILRWTRHSAEQGAHLVAFPEMALTGYPVEDLALRSS 60 d1k92a1 1 ------------------------------------------------------------ 1 query 61 FVEASRTALRELAARLAEEGFGELPVLVGYLDRSESAQPKYGQPAGAPRNAAAVLHRGRV 120 d1k92a1 1 ------------------------------------------------------------ 1 query 121 ALTFAKHHLPNYGVFDEFRYFVPGDTMPIVRLHGVDIALAICEDLWQDGGRVPAARSAGA 180 d1k92a1 1 ------------------------------------------------------------ 1 query 181 GLLLSVNASPYERDKDDTRLELVRKRAQEAGCTTAYLAMIGGQDELVFDGDSIVVDRDGE 240 d1k92a1 1 ------------------------------------------------------------ 1 query 241 VVARAPQFSEGCVVLDLDLPAAEAEPPTGVVDDGLRIDRLVISEEPLPAYEAELAGGYAD 300 d1k92a1 1 ------------------------------------------------------------ 1 query 301 RLDADEEVYSALVVGLRAYVAKNGF----------RSVLIGLSGGIDSALVAAIACDALG 350 :::::::::::::::::::::: d1k92a1 1 -------------------------TTILKHLPVGQRIGIAFSGGLDTSAALLWMRQ--- 32 query 351 AQ---NVYGVSMPSKYSSDH------SKGDAAELARRTGL-NFRTVSIEPMFDAYMASLG 400 ::::::::: :::::::::::::: ::::::::::::::::: d1k92a1 33 --KGAVPYAYTANL------GQPDEEDYDAIPRRAMEYGAENARLIDCRKQLVAEGIA-- 82 query 401 LTG----------------LAEENLQSRLRGTTLMAISNQEG-HIVLAPGNKSELAVGYS 443 ::::::::::::::::::::::: :::::::::: d1k92a1 83 ---AIQCGAFHNTTGGLTYFNTTPLGRAVTGTMLVAAMKEDGVNIWGDGSTYK------- 132 query 444 TLY------GDSVG---------AYGPIKDVYKTS-----------IFRLAEWRNRAAAE 477 :::: :::: ::::::::::: d1k92a1 133 ---GNDIERFYRY-GLLTNAELQIYKP--------WLDTDFIDELGGRHEMSEFMIA--- 177 query 478 RGQTPPIPEASITKPDYPVLDAILELYVDRDTGADAIVAAGYDRELVVKTLRMVDTAEYK 537 d1k92a1 178 ------------------------------------------------------------ 178 query 538 RRQYPPGTKISAKGFGKDRRLPITNRWREGH----------- 568 d1k92a1 178 -------------------------------CGFDYKMSVEK 188 TMalign alignment (TM-score: 0.25 Raw score:141.19) query 1 ---SLQLRLALNQIDSTVGDIAGNAEAILRWTRHSAEQGAHLVAFPEMALTGYPVEDLAL 57 d1k92a1 1 TTI--------------------------------------------------------- 3 query 58 RSSFVEASRTALRELAARLAEEGFGELPVLVGYLDRSESAQPKYGQPAGAPRNAAAVLHR 117 d1k92a1 4 ------------------------------------------------------------ 4 query 118 GRVALTFAKHHLPNYGVFDEFRYFVPGDTMPIVRLHGVDIALAICEDLWQDGGRVPAARS 177 d1k92a1 4 ------------------------------------------------------------ 4 query 178 AGAGLLLSVNASPYERDKDDTRLELVRKRAQEAGCTTAYLAMIGGQDELVFDGDSIVVDR 237 :: d1k92a1 4 ----------------------------------------------LK------------ 5 query 238 DGEVVARAPQFSEGCVVLDLDLPAAEAEPPTGVVDDGLRIDRLVISEEPLPAYEAELAGG 297 d1k92a1 6 ------------------------------------------------------------ 6 query 298 YADRLDADEEVYSALVVGLRAYVAKNGFRSVLIGLSGGIDSALVAAIACDALGAQNVYGV 357 :: ::: ::::::::::::::::::::::::: ::::: d1k92a1 6 -----------------HL--PVG----QRIGIAFSGGLDTSAALLWMRQKGA--VPYAY 40 query 358 SMPSKYSSDHSKGDAAELARRTGL-NFRTVSIEPMFDAYMASLG---LT--------GLA 405 :::::::::::::::::::::::: ::::::::::::::::::: :: ::: d1k92a1 41 TANLGQPDEEDYDAIPRRAMEYGAENARLIDCRKQLVAEGIAAIQCGAFHNTTGGLTYFN 100 query 406 EENLQSRLRGTTLMAISNQEGH-IVLAPGNKSELAVGYSTL-YGDS--V-------GAYG 454 :::::::::::::::::::::: :::::: :: ::::: ::: : :::: d1k92a1 101 TTPLGRAVTGTMLVAAMKEDGVNIWGDGS---TY--KGNDIE-RFYRYGLLTNAELQIYK 154 query 455 PIKD---VY-KTSIFRLAEWRNRAAAERGQTPPIPEASITKPDYPVLDAILELYVDRDTG 510 :::: :: ::::::::::::::: : ::: ::: :: d1k92a1 155 PWLDTDFIDE-LGGRHEMSEFMIACG-----F-DYK--MSV-EK---------------- 188 query 511 ADAIVAAGYDRELVVKTLRMVDTAEYKRRQYPPGTKISAKGFGKDRRLPITNRWREGH 568 d1k92a1 189 ---------------------------------------------------------- 189 HHsearch alignment (Probability: 0.96 E-value:0.00) query 326 RSVLIGLSGGIDSALVAAIACDALGAQNVYGVSMPSKYSSDHSKGDAAELARRTGL-NFR 384 ::::::::::::::::::::::: ::::::::::::::::::::::::::::::: ::: d1k92a1 11 QRIGIAFSGGLDTSAALLWMRQK--GAVPYAYTANLGQPDEEDYDAIPRRAMEYGAENAR 68 query 385 TVSIEPMFDAYMASLGLTGLAEENLQSR-----------LRGTTLMAISNQEGHIVLAPG 433 :::::::::::::::::::::::::::: ::::::::::::::::::::: d1k92a1 69 LIDCRKQLVAEGIAAIQCGAFHNTTGGLTYFNTTPLGRAVTGTMLVAAMKEDGVNIWGDG 128 query 434 ------NKSELAVGYSTLYGDSVGAYGPIKDVY-------KTSIFRLAEWRN 472 ::::::::::::::: ::::::::::: :::::::::::: d1k92a1 129 STYKGNDIERFYRYGLLTNAE-LQIYKPWLDTDFIDELGGRHEMSEFMIACG 179
Intermediate <-- 2.033 --> HitDALI alignment (Z-score: 7.6 Raw score:537.40) d1k92a1 1 ttilkhlpvGQRIGIAFSGGlDTSAALLWMRQKGAVPYAYTANlgqpdeedYDAIprRAM 60 ::::::::::: :::::::::::::::::::::: :::: ::: d1dv1a2 1 ---------LDKIVIANRGE-IALRILRACKELGIKTVAVHSS-------aDRDL--KHV 41 d1k92a1 61 EYgAENARLIDC-RKQLvaegiaaiqcgafhnttggltyfnttplgraVTGTMLVAAMKE 119 :: ::::::::: :::: :::::::::::: d1dv1a2 42 LL-ADETVCIGPaPSVK-----------------------------syLNIPAIISAAEI 71 d1k92a1 120 DGVNIWGDGSTykgnDIERFYRYGLLTnaELQIYKpwldtdfidelggrhemsefmiacg 179 ::::::::::: :::::::::::: :::::: d1dv1a2 72 TGAVAIHPGYG-flsENANFAEQVERS--GFIFIG------------------------p 104 d1k92a1 180 fdykmsvek 188 d1dv1a2 105 kaetirlmg 113 FAST alignment (Normalized score: 6.61 Raw score:963.10) d1k92a1 1 TTILKHLPVGQRIGIAFSGGLDTSAALLWMRQKGAVPYAYTANLGQPDEEDYDAIP-RRA 59 ::::::::: ::::::::::::::::::::::: :::: ::: d1dv1a2 1 ---------LDKIVIANR-GEIALRILRACKELGIKTVAVHS----------SADRDLKH 40 d1k92a1 60 MEYGAENARLIDCRKQLVAEGIAAIQCGAFHNTTGGLTYFN----TTPLGRAV-TGTMLV 114 :: ::::::: :::::: :::::: d1dv1a2 41 VL-LADETVC-------------------------------IGPAPSVKSY--LNIPAII 66 d1k92a1 115 AAMKEDGVNIWGDGSTYKGND-------IERFYRYGLLTNAELQIYKPWLDTDFIDELGG 167 ::::::::::::: :::::::::: ::::: d1dv1a2 67 SAAEITGAVAIHP--------GYGFLSENANFAEQVER--SGFIF--------------- 101 d1k92a1 168 RHEMSEFMIACGFDYKMSVEK------------ 188 d1dv1a2 102 ---------------------IGPKAETIRLMG 113 TMalign alignment (TM-score: 0.44 Raw score:83.22) d1k92a1 1 TTILKHLPVGQRIGIAFSGGLDTSAALLWMRQKGAVPYAYTANLGQPDEEDYDAIPRRAM 60 : :::::::: :::::::::::::::::::::::: ::::: :::: d1dv1a2 1 -------L--DKIVIANR-GEIALRILRACKELGIKTVAVHSS-------ADRDL-KHVL 42 d1k92a1 61 EYGAENARLIDCRKQLVAEGIAAIQCGAFHNTTGGLTYFNTTPLGR-AVTGTMLVAAMKE 119 : :::::::::: : : :: ::::::::::::: d1dv1a2 43 L--ADETVCIGPA--P-------------------------S--VKSYLNIPAIISAAEI 71 d1k92a1 120 DGVNIWGDGSTYKGNDIER-FYRYGLLTNAELQIYK----------PWLDTDFIDELGGR 168 ::::::::::: :::::: ::::::: : :::::: d1dv1a2 72 TGAVAIHPGYG--FLSENANFAEQVER-S-GFIFIGPKAETIRLMG-------------- 113 d1k92a1 169 HEMSEFMIACGFDYKMSVEK 188 d1dv1a2 114 -------------------- 114 HHsearch alignment (Probability: 0.08 E-value:0.03) d1k92a1 107 AVTGTMLVAAMKEDGVNIWGDGSTYKGNDIERFYRYGLLTNAELQIYKP 155 :::::::::::::::::::::: :::::::::::::::::::::::: d1dv1a2 59 YLNIPAIISAAEITGAVAIHPG---YGFLSENANFAEQVERSGFIFIGP 104