HorA Server Transitive Detail

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


Query <-- 1.453 --> Intermediate <-- 0.593 --> Hit

SVM
score
SVM
score

The query (T542_A.pdb A) is transitively linked to the hit (d1m6ia2) through the intermediate protein (d1ni5a1) by significant SVM score (>0.4).

  SCOP Id Protein SCOP Superfamily SCOP Fold SCOP
Class
Intermediate d1ni5a1 Putative cell cycle protein MesJ,​ N-​terminal domainAdenine nucleotide alpha hydrolases-​likeAdenine nucleotide alpha hydrolase-​likeα/β
Hit d1m6ia2 Apoptosis-​inducing factor (AIF)FAD/​NAD(P)-​binding domainFAD/​NAD(P)-​binding domainα/β

Supporting Alignments

Query <-- 1.453 --> Intermediate
DALI alignment (Z-score: 13.9 Raw score:1146.20) query 1 slqlrlalnqidstvgdiagnaeailrwtrhsaeqgahlvafpemaltgypvedlalrss 60 d1ni5a1 1 ------------------------------------------------------------ 1 query 61 fveasrtalrelaarlaeegfgelpvlvgyldrsesaqpkygqpagaprnaaavlhrgrv 120 d1ni5a1 1 ------------------------------------------------------------ 1 query 121 altfakhhlpnygvfdefryfvpgdtmpivrlhgvdialaicedlwqdggrvpaarsaga 180 d1ni5a1 1 ------------------------------------------------------------ 1 query 181 glllsvnaspyerdkddtrlelvrkraqeagcttaylamiggqdelvfdgdsivvdrdge 240 d1ni5a1 1 ------------------------------------------------------------ 1 query 241 vvarapqfsegcvvldldlpaaeaepptgvvddglridrlviseeplpayeaelaggyad 300 d1ni5a1 1 ------------------------------------------------------------ 1 query 301 rldadeevysALVVGLRAYVAknGFRSVLIGLSGGIDSALVAAIACDALG---aQNVYGV 357 ::::::::::: ::::::::::::::::::::::::::: :::::: d1ni5a1 1 ----------SMTLTLNRQLL--TSRQILVAFSGGLDSTVLLHQLVQWRTenpgVALRAI 48 query 358 SMPSKYS--SDHSKGDAAELARRTGLNFRTVSIEpmFDAYMaslgltglAEEN-LQSRLR 414 ::::::: ::::::::::::::::::::::::: ::::: :::: :::::: d1ni5a1 49 HVHHGLSanADAWVTHCENVCQQWQVPLVVERVQ--LAQEG--------LGIEaQARQAR 98 query 415 GTTLMAISNqEGHIVLAPGNKSELAVG-----------------ystlygdsvgAYGPIK 457 ::::::::: ::::::::::::::::: :::::: d1ni5a1 99 YQAFARTLL-PGEVLVTAQHLDDQCETfllalkrgsgpaglsamaevsefagtrLIRPLL 157 query 458 DVYKTSIFRLAEWRNraaaergqtppIPEAS------------------------itkPD 493 ::::::::::::::: ::::: :: d1ni5a1 158 ARTRGELVQWARQYD-----------LRWIEdesnqddsydrnflrlrvvpllqqrwpHF 206 query 494 YPVLDAIlELYVdRDTGadaivaagydrelvvktlrmvdtaeykrrqyppgtkisakgfg 553 ::::::: :::: :::: d1ni5a1 207 AEATARSaALCA-EQES------------------------------------------- 222 query 554 kdrrlpitnrwregh 568 d1ni5a1 223 ----------lldel 227 FAST alignment (Normalized score: 6.05 Raw score:2174.00) query 1 SLQLRLALNQIDSTVGDIAGNAEAILRWTRHSAEQGAHLVAFPEMALTGYPVEDLALRSS 60 d1ni5a1 1 ------------------------------------------------------------ 1 query 61 FVEASRTALRELAARLAEEGFGELPVLVGYLDRSESAQPKYGQPAGAPRNAAAVLHRGRV 120 d1ni5a1 1 ------------------------------------------------------------ 1 query 121 ALTFAKHHLPNYGVFDEFRYFVPGDTMPIVRLHGVDIALAICEDLWQDGGRVPAARSAGA 180 d1ni5a1 1 ------------------------------------------------------------ 1 query 181 GLLLSVNASPYERDKDDTRLELVRKRAQEAGCTTAYLAMIGGQDELVFDGDSIVVDRDGE 240 d1ni5a1 1 ------------------------------------------------------------ 1 query 241 VVARAPQFSEGCVVLDLDLPAAEAEPPTGVVDDGLRIDRLVISEEPLPAYEAELAGGYAD 300 d1ni5a1 1 ------------------------------------------------------------ 1 query 301 RLDADEEVYSA-LVVGLRAYVAKNGFRSVLIGLSGGIDSALVAAIACDALGAQ------- 352 ::::::::: :::::::::::::::::::::::::: d1ni5a1 1 -----------SMTLTLNRQL--LTSRQILVAFSGGLDSTVLLHQLVQW----RTENPGV 43 query 353 NVYGVSMPSKYS--SDHSKGDAAELARRTGLNFRTVSIEPMFDAYMASLGLTGLAE---- 406 :::::::::::: :::::::::::::::::::::::: d1ni5a1 44 ALRAIHVHHGLSANADAWVTHCENVCQQWQVPLVVERV------------------QLAQ 85 query 407 -----ENLQSRLRGTTLMAISNQ--EGHIVLAPGNKSELAVGYSTLYGDSVG-------- 451 ::::::::::::::: ::::::::::::::: d1ni5a1 86 EGLGIEAQARQARYQAFART---LLPGEVLVTAQHLDDQC------------ETFLLALK 130 query 452 ---------------------AYGPIKDVYKTSIFRLAEWRNRAAAERGQTPPIPEASIT 490 ::::::::::::::::::: d1ni5a1 131 RGSGPAGLSAMAEVSEFAGTRLIRPLLARTRGELVQWARQ-------------------- 170 query 491 KP-----------------------------------DYPVLDAILELYVDRDTGADAIV 515 :::::::::::::: d1ni5a1 171 --YDLRWIEDESNQDDSYDRNFLRLRVVPLLQQRWPHFAEATARSAALCAE--------- 219 query 516 AAGYDRELVVKTLRMVDTAEYKRRQYPPGTKISAKGFGKDRRLPITNRWREGH------- 568 d1ni5a1 220 -----------------------------------------------------QESLLDE 226 query 569 - 569 d1ni5a1 227 L 227 TMalign alignment (TM-score: 0.28 Raw score:157.99) query 1 SLQLRLALNQIDSTVGDIAGNAEAILRWTRHSAEQGAHLVAFPEMALTGYPVEDLALRSS 60 d1ni5a1 1 ------------------------------------------------------------ 1 query 61 FVEASRTALRELAARLAEEGFGELPVLVGYLDRSESAQPKYGQPAGAPRNAAAVLHRGRV 120 d1ni5a1 1 ------------------------------------------------------------ 1 query 121 ALTFAKHHLPNYGVFDEFRYFVPGDTMPIVRLHGVDIALAICEDLWQDGGRVPAARSAGA 180 d1ni5a1 1 ------------------------------------------------------------ 1 query 181 GLLLSVNASPYERDKDDTRLELVRKRAQEAGCTTAYLAMIGGQDELVFDGDSIVVDRDGE 240 d1ni5a1 1 ------------------------------------------------------------ 1 query 241 VVARAPQFSEGCVVLDLDLPAAEAEPPTGVVDDGLRIDRLVISEEPLPAYEAELAGGYAD 300 d1ni5a1 1 ------------------------------------------------------------ 1 query 301 RLDADEEVYSALVVGLRAYVAKNGFRSVLIGLSGGIDSALVAAIACDALG--A-QNVYGV 357 ::::::::::: : :::::::::::::::::::::::::: : :::::: d1ni5a1 1 ----------SMTLTLNRQLL-T-SRQILVAFSGGLDSTVLLHQLVQWRTENPGVALRAI 48 query 358 SMPSKYS--SDHSKGDAAELARRTGLNFRTVSIEPMFDAYMASLGLTGLAEE-NLQSRLR 414 ::::::: ::::::::::::::::::::::::: : : ::: ::: ::::::: d1ni5a1 49 HVHHGLSANADAWVTHCENVCQQWQVPLVVERVQ--L---A----QEG-LGIEAQARQAR 98 query 415 GTTLMAISNQEGHIVLAPGNKSELAVG-YS-----------------TLYGDS-V---GA 452 :::::::: :::::::::::::::::: :: : : :: d1ni5a1 99 YQAFARTL-LPGEVLVTAQHLDDQCETFLLALKRGSGPAGLSAMAEV-----SEFAGTRL 152 query 453 YGPIKDVYKTSIFRLAEWRNRAAAERGQTPPIPEASITK-------------PD-YPVLD 498 :::::::::::::::::::: : :::::: :: ::::: d1ni5a1 153 IRPLLARTRGELVQWARQYD-----------L-RWIEDESNQDDSYDRNFLRLRVVPLLQ 200 query 499 AILELYVDRDTGADAIVAAGYDRELVVKTLRMVDTAEYKRRQYPPGTKISAKGFGKDRRL 558 :::::::: : : ::::::::: d1ni5a1 201 QRWPHFAE-A----------------------T------------------ARSAALCAE 219 query 559 P-------ITNRWREGH 568 : d1ni5a1 220 QESLLDEL--------- 227 HHsearch alignment (Probability: 0.96 E-value:0.00) query 326 RSVLIGLSGGIDSALVAAIACDALGAQ---NVYGVSMPSKYSS--DHSKGDAAELARRTG 380 ::::::::::::::::::::::::::: ::::::::::::: ::::::::::::::: d1ni5a1 14 RQILVAFSGGLDSTVLLHQLVQWRTENPGVALRAIHVHHGLSANADAWVTHCENVCQQWQ 73 query 381 LNFRTVSIEPMFDAYMASLGLTGLAEENLQSRLRGTTLMAISNQEGHIVLA--------- 431 ::::::::: ::::::::::::::::::::::::::::::::: d1ni5a1 74 VPLVVERVQ---------LAQEGLGIEAQARQARYQAFARTLLPGEVLVTAQHLDDQCET 124 query 432 ------PGNKSELAVGYSTLYGDSVGAYG-PIKDVYKTSIFRLAEWRN 472 ::::::::::::::::::::::: :::::::::::::::::: d1ni5a1 125 FLLALKRGSGPAGLSAMAEVSEFAGTRLIRPLLARTRGELVQWARQYD 172
Intermediate <-- 0.593 --> Hit
DALI alignment (Z-score: 5.2 Raw score:400.60) d1ni5a1 1 ------------------------SMTLTLNRQLLTSRQILVAFSgGLDSTVLLHQLVQW 36 ::::::::::::::::::::: :::::::::::::: d1m6ia2 1 prslsaidragaevksrttlfrkiGDFRSLEKISREVKSITIIGG-GFLGSELACALGRK 59 d1ni5a1 37 RTENPgVALRAIHVH--hglsaNADAWVTHCENVCQQWQVPLVVErvqlaqeglgieaqa 94 ::::: ::::::::: ::::::::::::::::::::::: d1m6ia2 60 ARALG-TEVIQLFPEkgnmgkiLPEYLSNWTMEKVRREGVKVMPN--------------- 103 d1ni5a1 95 rqaRYQA-------------faRTLLpGEVLVTAQHLddqcetfllalkrgsgpaglsam 141 :::: :::: :::::::::: d1m6ia2 104 --aIVQSvgvssgklliklkdgRKVE-TDHIVAAVGL----------------------- 137 d1ni5a1 142 aevsefagtrlirpllartrgelvqwarqydlrwiedesnqddsydrnflrlrvvpllqq 201 d1m6ia2 138 ------------------------------------------------------------ 138 d1ni5a1 202 rwphfaeatarsaalcaeqeslldel 227 d1m6ia2 138 -------------------------- 138 FAST alignment (Normalized score: 3.96 Raw score:698.90) d1ni5a1 1 S-------------------------MTLTLNRQLLTSRQILVAFSGGLDSTVLLHQLVQ 35 ::::::::::::::::: :::::::::::::::: d1m6ia2 1 -PRSLSAIDRAGAEVKSRTTLFRKIGDFRSLEKISREVKSITI-IGGGFLGSELACALGR 58 d1ni5a1 36 WRTENPGVALRAIHVHHGLSAN----------ADAWVTHCENVCQQWQVPLVVERVQLAQ 85 :::: ::::::::: :::::::::::::::::::: d1m6ia2 59 KARA-LGTEVIQLF--------PEKGNMGKILPEYLSNWTMEKVRREGVKVM-------- 101 d1ni5a1 86 EGLGIEAQARQARYQAFARTLLPG---------------------------EVLVTAQHL 118 :::::::: d1m6ia2 102 ------------------------PNAIVQSVGVSSGKLLIKLKDGRKVETDHIVAAVG- 136 d1ni5a1 119 DDQCETFLLALKRGSGPAGLSAMAEVSEFAGTRLIRPLLARTRGELVQWARQYDLRWIED 178 d1m6ia2 137 ------------------------------------------------------------ 137 d1ni5a1 179 ESNQDDSYDRNFLRLRVVPLLQQRWPHFAEATARSAALCAEQESLLDEL- 227 d1m6ia2 137 -------------------------------------------------L 137 TMalign alignment (TM-score: 0.33 Raw score:75.33) d1ni5a1 1 -----------------------SMTLT-LNRQLLTSRQILVAFSGGLDSTVLLHQLVQW 36 ::::: :::::::::::::::::: :::::::::::: d1m6ia2 1 PRSLSAIDRAGAEVKSRTTLFRKIGDFRSLEKISREVKSITIIGGGF-LGSELACALGRK 59 d1ni5a1 37 RTENPGVALRAIHVHH---GLSANADAWVTHCENVCQQWQVPLVVERVQLAQEGLGIEAQ 93 ::::: :::::::::: ::::::::::::::::::::::::::: d1m6ia2 60 ARALG-TEVIQLFPEKGNM-GKILPEYLSNWTMEKVRREGVKVMPNA------------- 104 d1ni5a1 94 ARQARYQA---------FAR---TLLPGEVLVTAQHLDDQCETFLLALKRGSGPAGLSAM 141 :::: ::: ::::::::::::: : d1m6ia2 105 ----IVQSVGVSSGKLLIKLKDGRKVETDHIVAAVG--L--------------------- 137 d1ni5a1 142 AEVSEFAGTRLIRPLLARTRGELVQWARQYDLRWIEDESNQDDSYDRNFLRLRVVPLLQQ 201 d1m6ia2 138 ------------------------------------------------------------ 138 d1ni5a1 202 RWPHFAEATARSAALCAEQESLLDEL 227 d1m6ia2 138 -------------------------- 138 HHsearch alignment (Probability: 0.30 E-value:0.01) d1ni5a1 7 NRQLLTSRQILVAFSGGLDSTVLLHQLVQWRTENPGVALRAIHVHHGLSAN--ADAWVTH 64 :::::::::::: :::::::::::::::::: ::::::::::::::::::: ::::::: d1m6ia2 31 EKISREVKSITI-IGGGFLGSELACALGRKA-RALGTEVIQLFPEKGNMGKILPEYLSNW 88 d1ni5a1 65 CENVCQQWQVPLVVER 80 :::::::::::::::: d1m6ia2 89 TMEKVRREGVKVMPNA 104