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 <-- 1.501 --> Intermediate <-- 1.302 --> Hit

SVM
score
SVM
score

The query (T542_A.pdb A) is transitively linked to the hit (d4kbpa2) through the intermediate protein (d1emsa2) by significant SVM score (>0.4).

  SCOP Id Protein SCOP Superfamily SCOP Fold SCOP
Class
Intermediate d1emsa2 NIT-​FHIT fusion protein,​ N-​terminal domainCarbon-​nitrogen hydrolaseCarbon-​nitrogen hydrolaseα+β
Hit d4kbpa2 Plant purple acid phosphatase,​ catalytic domainMetallo-​dependent phosphatasesMetallo-​dependent phosphatasesα+β

Supporting Alignments

Query <-- 1.501 --> Intermediate
DALI alignment (Z-score: 25.8 Raw score:2601.40) query 1 --SLQLRLALNQIDSTvGDIAGNAEAILRWTRHSAEQGAHLVAFPEMALTGyPVED-LAL 57 :::::::::::::: :::::::::::::::::::::::::::::::::: :::: ::: d1emsa2 1 maTGRHFIAVCQMTSD-NDLEKNFQAAKNMIERAGEKKCEMVFLPECFDFI-GLNKnEQI 58 query 58 RssFVEASR-TALRELAARLAeegFGELPVLV-GYLDRSEsaqpkygqPAGA-PRNAAAV 114 : :::::: ::::::::::: :::::::: ::::::: :::: ::::::: d1emsa2 59 D--LAMATDcEYMEKYRELAR---KHNIWLSLgGLHHKDP--------SDAAhPWNTHLI 105 query 115 LH-RGRVALTFAKHHLPNY-----gvFDEFRYFVPG-DTMPIVRLHGVDIALAICEDLWQ 167 :: :::::::::::::::: :::::::::: ::::::::::::::::::::::: d1emsa2 106 IDsDGVTRAEYNKLHLFDLeipgkvrLMESEFSKAGtEMIPPVDTPIGRLGLSICYDVRF 165 query 168 DGgRVPAARSAGAGLLLSVNASPYErdkdDTRLELVRKRAQEAGCTTAYLAMIGG-QDEL 226 :: :::::::::::::::::::::: :::::::::::::::::::::::::: :::: d1emsa2 166 PE-LSLWNRKRGAQLLSFPSAFTLN-tglAHWETLLRARAIENQCYVVAAAQTGAhNPKR 223 query 227 VFDGDSIVVDRDGEVVARAPQfSEGCVVLDLDLPaaeaepptgvvddglridrlviseep 286 ::::::::::::::::::::: :::::::::::: d1emsa2 224 QSYGHSMVVDPWGAVVAQCSE-RVDMCFAEIDLS-------------------------- 256 query 287 lpayeaelaggyadrldadeevysalvvglrayvakngfrsvliglsggidsalvaaiac 346 d1emsa2 257 ------------------------------------------------------------ 257 query 347 dalgaqnvygvsmpskyssdhskgdaaelarrtglnfrtvsiepmfdaymaslgltglae 406 d1emsa2 257 ------------------------------------------------------------ 257 query 407 enlqsrlrgttlmaisnqeghivlapgnkselavgystlygdsvgaygpikdvyktsifr 466 d1emsa2 257 ------------------------------------------------------------ 257 query 467 laewrnraaaergqtppipeasitkpdypvldailelyvdrdtgadaivaagydrelvvk 526 d1emsa2 257 ------------------------------------------------------------ 257 query 527 tlrmvdtaeykrrqyppgtkisakgfgkdrrlpitnrwregh 568 d1emsa2 257 ---------------------------yvdtlremqpvfshr 271 FAST alignment (Normalized score: 13.47 Raw score:5286.00) query 1 --SLQLRLALNQIDSTVGDIAGNAEAILRWTRHSAEQGAHLVAFPEMALTGYPVEDLAL- 57 ::::::::::::: ::::::::::::::::::::::::::::::::: d1emsa2 1 MATGRHFIAVCQMTS-DNDLEKNFQAAKNMIERAGEKKCEMVFLPECFD----------F 49 query 58 -------RSSFVEASR-TALRELAARLAEEGFGELPVLV-GYLDRSESAQPKYGQPA--- 105 ::::::::: :::::::::::: ::::::: ::::::: d1emsa2 50 IGLNKNEQIDLAMATDCEYMEKYRELARK---HNIWLSLGGLHHKDP----------SDA 96 query 106 GAPRNAAAVL-HRGRVALTFAKHHLPNYGV---------FDEFRYFVPGDTM-PIVRLHG 154 :::::::::: ::::::::::::::: ::::::::::::: ::::: d1emsa2 97 AHPWNTHLIIDSDGVTRAEYNKLHLF----DLEIPGKVRLMESEFSKAGTEMIPPVDT-- 150 query 155 --VDIALAICEDLWQDGGRVPAARSAGAGLLLSVNASPYERDKD-----DTRLELVRKRA 207 :::::::::::::: ::::::::::::::::::::: ::::::::::: d1emsa2 151 PIGRLGLSICYDVRFP-ELSLWNRKRGAQLLSFPSAFT------LNTGLAHWETLLRARA 203 query 208 QEAGCTTAYLAMIGG-QDELVFDGDSIVVDRDGEVVARAPQFSEGCVVLDLDLPAAEAEP 266 ::::::::::::::: :::::::::::::::::::::::: ::::::::::: d1emsa2 204 IENQCYVVAAAQTGAHNPKRQSYGHSMVVDPWGAVVAQCS-ERVDMCFAEID-------- 254 query 267 PTGVVDDGLRIDRLVISEEPLPAYEAELAGGYADRLDADEEVYSALVVGLRAYVAKNGFR 326 d1emsa2 255 ------------------------------------------------------------ 255 query 327 SVLIGLSGGIDSALVAAIACDALGAQNVYGVSMPSKYSSDHSKGDAAELARRTGLNFRTV 386 d1emsa2 255 ------------------------------------------------------------ 255 query 387 SIEPMFDAYMASLGLTGLAEENLQSRLRGTTLMAISNQEGHIVLAPGNKSELAVGYSTLY 446 d1emsa2 255 ------------------------------------------------------------ 255 query 447 GDSVGAYGPIKDVYKTSIFRLAEWRNRAAAERGQTPPIPEASITKPDYPVLDAILELYVD 506 d1emsa2 255 ------------------------------------------------------------ 255 query 507 RDTGADAIVAAGYDRELVVKTLRMVDTAEYKRRQYPPGTKISAKGFGKDRRLPITNRWRE 566 d1emsa2 255 ------------------------------------------------------------ 255 query 567 GH----------------- 568 d1emsa2 255 --LSYVDTLREMQPVFSHR 271 TMalign alignment (TM-score: 0.40 Raw score:226.65) query 1 --SLQLRLALNQIDSTVGDIAGNAEAILRWTRHSAEQGAHLVAFPEMALTGYPVEDLALR 58 :::::::::::::: :::::::::::::::::::::::::::::::::: :::::::: d1emsa2 1 MATGRHFIAVCQMTSD-NDLEKNFQAAKNMIERAGEKKCEMVFLPECFDFI-GLNKNEQI 58 query 59 SSFVEASRTALRELAARLAEEGFGELPVLV-GYLDRSESAQPKYGQPAG-APRNAAAVLH 116 ::::::::::::::::::: :: :::::: :::::::: :: :::::::::: d1emsa2 59 -DLAMATDCEYMEKYRELAR-KH-NIWLSLGGLHHKDPS--------DAAHPWNTHLIID 107 query 117 -RGRVALTFAKHHLPNY-----GVFDEFRYFVPG-DTMPIVRLHGVDIALAICEDLWQDG 169 :::::::::::::::: :::::::::::: ::::::::::::::::::::::::: d1emsa2 108 SDGVTRAEYNKLHLFDLEIPGKVRLMESEFSKAGTEMIPPVDTPIGRLGLSICYDVRFPE 167 query 170 GRVPAARSAGAGLLLSVNASPYERDKDDTRLELVRKRAQEAGCTTAYLAMIGGQ-DELVF 228 : ::::::::::::::::::::::: :::::::::::::::::::::::::::: ::::: d1emsa2 168 L-SLWNRKRGAQLLSFPSAFTLNTG-LAHWETLLRARAIENQCYVVAAAQTGAHNPKRQS 225 query 229 DGDSIVVDRDGEVVARAPQFSEGCVVLDLDLPAAE------------AEPPTGVVDDGLR 276 :::::::::::::::::: :::::::::::::::: d1emsa2 226 YGHSMVVDPWGAVVAQCS-ERVDMCFAEIDLSYVDTLREMQPVFSHR------------- 271 query 277 IDRLVISEEPLPAYEAELAGGYADRLDADEEVYSALVVGLRAYVAKNGFRSVLIGLSGGI 336 d1emsa2 272 ------------------------------------------------------------ 272 query 337 DSALVAAIACDALGAQNVYGVSMPSKYSSDHSKGDAAELARRTGLNFRTVSIEPMFDAYM 396 d1emsa2 272 ------------------------------------------------------------ 272 query 397 ASLGLTGLAEENLQSRLRGTTLMAISNQEGHIVLAPGNKSELAVGYSTLYGDSVGAYGPI 456 d1emsa2 272 ------------------------------------------------------------ 272 query 457 KDVYKTSIFRLAEWRNRAAAERGQTPPIPEASITKPDYPVLDAILELYVDRDTGADAIVA 516 d1emsa2 272 ------------------------------------------------------------ 272 query 517 AGYDRELVVKTLRMVDTAEYKRRQYPPGTKISAKGFGKDRRLPITNRWREGH 568 d1emsa2 272 ---------------------------------------------------- 272 HHsearch alignment (Probability: 1.00 E-value:0.00) query 1 SLQLRLALNQIDSTVGDIAGNAEAILRWTRHSAEQGAHLVAFPEMALTGYPVEDLALRSS 60 :::::::::::::: ::::::::::::::::::::::::::::::::::::::::::::: d1emsa2 3 TGRHFIAVCQMTSD-NDLEKNFQAAKNMIERAGEKKCEMVFLPECFDFIGLNKNEQIDLA 61 query 61 FVE--ASRTALRELAARLAEEGFGELPVLVGYLDRSESAQPKYGQPAGAPRNAAAVL-HR 117 ::: :::::::::::: ::::::::::::::: ::::::::::::: :: d1emsa2 62 MATDCEYMEKYRELARK------HNIWLSLGGLHHKDP------SDAAHPWNTHLIIDSD 109 query 118 GRVALTFAKHHL-----PNYGVFDEFRYFVPGDTM-PIVRLHGVDIALAICEDLWQDGGR 171 :::::::::::: :::::::::::::::::: :::::::::::::::::::::: : d1emsa2 110 GVTRAEYNKLHLFDLEIPGKVRLMESEFSKAGTEMIPPVDTPIGRLGLSICYDVRFPE-L 168 query 172 VPAARSAGAGLLLSVNASPYERDKDDTRLELVRKRAQEAGCTTAYLAMIGG-QDELVFDG 230 ::::::::::::::::::::::: ::::::::::::::::::::::::::: :::::::: d1emsa2 169 SLWNRKRGAQLLSFPSAFTLNTG-LAHWETLLRARAIENQCYVVAAAQTGAHNPKRQSYG 227 query 231 DSIVVDRDGEVVARAPQFSEGCVVLDLDLPAAEAEPPTGVVDDGL 275 ::::::::::::::::: ::::::::::::::::::::::::::: d1emsa2 228 HSMVVDPWGAVVAQCSE-RVDMCFAEIDLSYVDTLREMQPVFSHR 271
Intermediate <-- 1.302 --> Hit
DALI alignment (Z-score: 7.8 Raw score:937.00) d1emsa2 1 -MATG-RHFIAVCQMtsdndlekNFQA-AKNMIERAGEK--KCEMVFLPECFDFIGLnkn 55 :::: ::::::::: :::: ::::::::::: :::::::::::::::: d4kbpa2 1 qTGLDvPYTFGLIGD-------lGQSFdSNTTLSHYELSpkKGQTVLFVGDLSYADR--y 51 d1emsa2 56 EQIDlaMATDCEYMEKYRELARkhNIWLSLGG--lHHKDPS--DAAHPWnthliidsdgv 111 :::: :::::::::::::::: :::::::: :::::: :::::: d4kbpa2 52 PNHD--NVRWDTWGRFTERSVA--YQPWIWTAgnhEIEFAPeiNETEPF----kpfsyry 103 d1emsa2 112 TRAE------YNKLhlfdleipgkvrlmesefskagtemipPVDTPIGRLGLSICYD--- 162 :::: :::: :::::::::::::::: d4kbpa2 104 HVPYeasqstSPFW--------------------------ySIKRASAHIIVLSSYSayg 137 d1emsa2 163 --vrFPELSLWNRKRG------aQLLSfPSAF-------TLNTGlAHWETLLRARAIENQ 207 :::::::::::: :::: :::: ::::: ::::::::::::::: d4kbpa2 138 rgtpQYTWLKKELRKVkrsetpwLIVL-MHSPlynsynhHFMEG-EAMRTKFEAWFVKYK 195 d1emsa2 208 CYVVAAAQTG---------ahnpkrqsyghsmvvdpWGAVVAQC---------------- 242 :::::::::: :::::::: d4kbpa2 196 VDVVFAGHVHayerservsniaykitdglctpvkdqSAPVYITIgdagnygvidsnmiqp 255 d1emsa2 243 --------SERVDMCFAEIDLS------------------------YVDTLREMqpvfsh 270 :::::::::::::: :::::::: d4kbpa2 256 qpeysafrEASFGHGMFDIKNRthahfswnrnqdgvaveadsvwffNRHWYPVD----ds 311 d1emsa2 271 r 271 d4kbpa2 312 t 312 FAST alignment (Normalized score: 4.19 Raw score:1219.00) d1emsa2 1 MA----TGRHFIAVCQMTSDNDLEKN-----FQAAKNMIERAG--EKKCEMVFLPECFDF 49 ::::::::: :::::::::::: ::::::::::::: d4kbpa2 1 --QTGLDVPYTFGLI-----------GDLGQSFDSNTTLSHYELSPKKGQTVLFVGDL-- 45 d1emsa2 50 IGLNKNEQIDLAMAT-------------DCEYMEKYRELARKHNIWLSLGGLHHKDPSDA 96 :::::::::::: :::::::: d4kbpa2 46 ---------------SYADRYPNHDNVRWDTWGRFTERSV--AYQPWIWT---------- 78 d1emsa2 97 AHPWNTHLIIDSDGVTRAEYNKLH----LFDLEIPGKVRLMESEFSKAGTEM-------- 144 ::::: d4kbpa2 79 ------------------------AGNHEIEFA-------------------PEINETEP 95 d1emsa2 145 ---------------------IPPVDTPI--GRLGLSICYDVR---------FPELSLWN 172 :::::: :::::::: :::::::: d4kbpa2 96 FKPFSYRYHVPYEASQSTSPFWYSIKR--ASAHIIVLSS----YSAYGRGTPQYTWLKKE 149 d1emsa2 173 RKR-----GAQLLSFPSAF----------TLNTGLAHWETLLRARAIENQC-YVVAAAQT 216 :: ::::::::: :::::: ::::::::::::::: :::: d4kbpa2 150 LR-KVKRSETPWLIVLM--HSPLYNSYNHHFMEGE-AMRTKFEAWFVKYKVDVVFA---- 201 d1emsa2 217 GAHNPKRQSYGHSMVVDPWGAVVAQC---------------------------------- 242 d4kbpa2 202 --------------------------GHVHAYERSERVSNIAYKITDGLCTPVKDQSAPV 235 d1emsa2 243 ----------------------------SERVDMCFAEIDLSYVDTLREMQPVFSHR--- 271 ::::::::::: d4kbpa2 236 YITIGDAGNYGVIDSNMIQPQPEYSAFREASFGHGMFDI------------------KNR 277 d1emsa2 272 ----------------------------------- 272 d4kbpa2 278 THAHFSWNRNQDGVAVEADSVWFFNRHWYPVDDST 312 TMalign alignment (TM-score: 0.55 Raw score:149.50) d1emsa2 1 MAT-G-RHFIAVCQMTSDNDLEKNFQAAKNMIERAGEKKCEMVFLPECFDFIGLNKNEQI 58 ::: : ::::::::::: ::::::::::::::: :::::::::::::::::: :::: d4kbpa2 1 QTGLDVPYTFGLIGDLG---QSFDSNTTLSHYELS-PKKGQTVLFVGDLSYADR--YPNH 54 d1emsa2 59 DLAMATDCEYMEKYRELARKHNIWLSLGGL--HHKD----PSDAAHPWN-THL-IIDSDG 110 : ::::::::::::::::: :::::::: :::: ::::::: ::: : d4kbpa2 55 D--NVRWDTWGRFTERSVAY--QPWIWTAGNHEIEFAPEI--NETEPFKPFSYR-Y---- 103 d1emsa2 111 VTRAEY---NKLHLFDLEIPGKVRLMESEFSKAGTEM-IPPVDTPIGRLGLSICYDVRF- 165 ::::: :::: ::::::::::::::::::::: d4kbpa2 104 -HVPYEASQ------------------------STSPFWYSIKRASAHIIVLSSYSAYGR 138 d1emsa2 166 ----PELSLWNRKRGA------QLLSFPSAF-----TLNTGLAHWETLLRARAIENQCYV 210 :::::::::::: ::::::::: :::::::::::::::::::::::: d4kbpa2 139 GTPQYTWLKKELRKVKRSETPWLIVLMHSPLYNSYNHHFMEGEAMRTKFEAWFVKYKVDV 198 d1emsa2 211 VAAAQTGAHNPKRQSYGHSMVVD-----------------PWGAVVAQC----------- 242 ::::::: :::::::: ::::::::: d4kbpa2 199 VFAGHVH--------AYERSERVSNIAYKITDGLCTPVKDQSAPVYITIGDAGNYGVIDS 250 d1emsa2 243 -------------SERVDMCFAEIDLSY----------------------VDTLREM--- 264 ::::::::::::::: ::::::: d4kbpa2 251 NMIQPQPEYSAFREASFGHGMFDIKNRTHAHFSWNRNQDGVAVEADSVWFFNRHWYPVDD 310 d1emsa2 265 --QPVFSHR 271 d4kbpa2 311 ST------- 312 HHsearch alignment (Probability: 0.08 E-value:0.07) d1emsa2 33 AGEKKCEMVFLPECFDFIGLNKNEQIDLAMATDCEYMEKYRELARKHNIWLSLGGLHH 90 :::::::::::::: :::::::: :::::::::::::::::::::::::::::::: d4kbpa2 31 LSPKKGQTVLFVGD--LSYADRYP--NHDNVRWDTWGRFTERSVAYQPWIWTAGNHEI 84