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: T0542_Ad1.pdb
Database: SCOP1.69 less than 40% identity downloaded from ASTRAL


Query <-- 1.956 --> Intermediate <-- 2.517 --> Hit

SVM
score
SVM
score

The query (T0542_Ad1.pdb) is transitively linked to the hit (d4kbpa2) through the intermediate protein (d1s3la_) by significant SVM score (>0.4).

  SCOP Id Protein SCOP Superfamily SCOP Fold SCOP
Class
Intermediate d1s3la_ Putative phosphodiesterase MJ0936Metallo-​dependent phosphatasesMetallo-​dependent phosphatasesα+β
Hit d4kbpa2 Plant purple acid phosphatase,​ catalytic domainMetallo-​dependent phosphatasesMetallo-​dependent phosphatasesα+β

Supporting Alignments

Query <-- 1.956 --> Intermediate
DALI alignment (Z-score: 6.1 Raw score:664.70) query 1 slqLRLALNqidstvgdiagNAEAILRWTRHSAEQGAHLVAFPEMALTgypvedlalrss 60 :::::: :::::::::::::::::::::::::::: d1s3la_ 1 ---MKIGIM------sdthdHLPNIRKAIEIFNDENVETVIHCGDFVS------------ 39 query 61 fveasrtalRELAARLaeEGFGeLPVLV---gYLDRsesaqpkygqpagaprnaaavlhR 117 ::::::: :::: ::::: :::: : d1s3la_ 40 ---------LFVIKEF--ENLN-ANIIAtygnNDGE-------------rcklkewlkdI 74 query 118 GRVALTFAkhhlpnygvfdefryfvpgdtmPIVRLHGVDIALAICEDLwqdgGRVPAAR- 176 :::::::: :::::::::::::::::: ::::::: d1s3la_ 75 NEENIIDD---------------------fISVEIDDLKFFITHGHHQ----SVLEMAIk 109 query 177 SAGAGLLLSVNASpyerdkddtrlelvrkRAQEaGCTTAYLAM-IGGQdelvfdgdsivv 235 ::::::::::::: :::: ::::::::: :::: d1s3la_ 110 SGLYDVVIYGHTH------------ervfEEVD-DVLVINPGEcCGYL------------ 144 query 236 drdgevvarapQFSEGCVVLDLDLpaaeaepptgvvddglridrlviseeplpayeaela 295 ::::::::::::: d1s3la_ 145 -----------TGIPTIGILDTEK-----------------------------------k 158 query 296 ggyadrl 302 d1s3la_ 159 eyreivl 165 FAST alignment (Normalized score: 4.01 Raw score:894.50) query 1 SLQL-RLALNQIDSTVGDIAG-----NAEAILRWTRHSAEQGAHLVAFPEMALTGYPVED 54 ::::: ::::::::::::::::::::: d1s3la_ 1 ----MKIGIM-----------SDTHDHLPNIRKAIEIFNDENVETVI------------- 32 query 55 LALRSSFVEASRT------------------------------ALRELAARLAEEGFGEL 84 ::::::::::: d1s3la_ 33 -------------HCGDFVSLFVIKEFENLNANIIATYGNNDGERCKLKEWLKD------ 73 query 85 PVLVGYLDRSESAQPKYGQPAGAPRNAAAVLHRGRVALTFAKHHLPNYGVFDEFRYFVPG 144 d1s3la_ 74 ------------------------------------------------------------ 74 query 145 D--------TMPIVRLHGVDIALAICEDLWQDGGRVPAARSA-GAGLLLSVNASPYERDK 195 :::::::::::::::: :::: ::::::::: ::::::::: d1s3la_ 74 -INEENIIDDFISVEIDDLKFFITH---GHHQ-SVLEMAIKSGLYDVVIYGH-------- 120 query 196 DDTRLELVRKRAQE---------AGCTTAYLAMIGGQDELVFDGDSIVVDRDGEVVARAP 246 :::::::: d1s3la_ 121 --------------THERVFEEVDDVLVINP----------------------------- 137 query 247 -------QFSEGCVVLDLDLPAAEAEPPTGVVDDGLRIDRLVISEEPLPAYEAELAGGYA 299 :::::::::: d1s3la_ 138 GECCGYLTGIPTIGILD------------------------------------------- 154 query 300 DRL----------- 302 d1s3la_ 155 ---TEKKEYREIVL 165 TMalign alignment (TM-score: 0.40 Raw score:119.85) query 1 SLQLRLALNQIDSTVGDIAGNAEAILRWTRHSAEQGAHLVAFPEMALTGYPVEDLALRSS 60 ::::::::::: :: :::::::::::::::::::::::::: d1s3la_ 1 ---MKIGIMSDTHD-----HL-PNIRKAIEIFNDENVETVIHCGDFVS------------ 39 query 61 FVEASRTALRELAARLAEEGFGELPVLVGY--LDRSE-SAQPKYGQPAGAPRNAAA-VLH 116 : :: ::: :: ::: :::::::: ::::: ::: :: d1s3la_ 40 ----L--FV-IKE-FE--NLN-ANIIATYGNNDGERCK---------------LKEW-LK 72 query 117 -RGRVALTFAKHHLPNYGVFDEFRYFVPGDTMPIVRLHGVDIALAICEDLWQDGGRVPAA 175 ::::::::: :::::::::::::::::: :: :::::: d1s3la_ 73 DINEENIIDD---------------------FISVEIDDLKFFITHGHH-QS--VLEMAI 108 query 176 RSAGAGLLLSVNASPYERDKDDTRLELVRKRAQEAGCTTAYLAM-IGGQDELVFDGDSIV 234 :::::::::::::: :: ::: ::: ::::::::: ::: :: d1s3la_ 109 KSGLYDVVIYGHTH---------ER-VFE--EVD-DVLVINPGECCGY-----LT----- 145 query 235 VDRDGEVVARAPQFSEGCVVLDL-DLPAAEAEPPTGVVDDGLRIDRLVISEEPLPAYEAE 293 :::::::::: :: d1s3la_ 146 -------------GIPTIGILDTEKK---------------------------------- 158 query 294 LAGGYA-DRL 302 :::::: d1s3la_ 159 EYREIVL--- 165 HHsearch alignment (Probability: 0.38 E-value:0.00) query 4 LRLALNQIDSTVGDIAGNAEAILRWTRHSAEQGAHLVAF 42 ::::::: :::::::::::::::::::::::::: d1s3la_ 1 MKIGIMS------DTHDHLPNIRKAIEIFNDENVETVIH 33
Intermediate <-- 2.517 --> Hit
DALI alignment (Z-score: 11.3 Raw score:1059.80) d1s3la_ 1 -------MKIGIMSDTHDHlPNIRKAIEIFNDE--NVETVIHCGDFVSL----------- 40 :::::::::::: ::::::::::::: :::::::::::::: d4kbpa2 1 qtgldvpYTFGLIGDLGQS-FDSNTTLSHYELSpkKGQTVLFVGDLSYAdrypnhdnvrw 59 d1s3la_ 41 -FVIKEFENL--NANIIATYGNNDGE----------RCKLKEWLK--dineeniidDFIS 85 ::::::::: :::::::::::::: ::::::::: :::: d4kbpa2 60 dTWGRFTERSvaYQPWIWTAGNHEIEfapeinetepFKPFSYRYHvpyeasqstspFWYS 119 d1s3la_ 86 VEIDD-----------------------------------LKFFITHGH----------- 99 ::::: ::::::::: d4kbpa2 120 IKRASahiivlssysaygrgtpqytwlkkelrkvkrsetpWLIVLMHSPlynsynhhfme 179 d1s3la_ 100 HQSV---lEMAIKSGLYDVVIYGHTHERVFEEVD-------------------DVLVINP 137 :::: :::::::::::::::::::::::::: ::::::: d4kbpa2 180 GEAMrtkfEAWFVKYKVDVVFAGHVHAYERSERVsniaykitdglctpvkdqsAPVYITI 239 d1s3la_ 138 GECC--gYLTG---------------IPTIGILDTE---KKEYREIVL------------ 165 :::: :::: :::::::::: ::::::::: d4kbpa2 240 GDAGnygVIDSnmiqpqpeysafreaSFGHGMFDIKnrtHAHFSWNRNqdgvaveadsvw 299 d1s3la_ 166 ------------- 166 d4kbpa2 300 ffnrhwypvddst 312 FAST alignment (Normalized score: 8.03 Raw score:1821.00) d1s3la_ 1 -------MKIGIMSDTHDHLPNIRKAIEIFND--ENVETVIHCGDFV------------- 38 ::::::::::: ::::::::::::: ::::::::::: d4kbpa2 1 QTGLDVPYTFGLIGDLGQ-SFDSNTTLSHYELSPKKGQTVLFVGD--LSYADRYPNHDNV 57 d1s3la_ 39 -SLFVIKEFEN---LNANIIATYGNNDG------------ERCKLKEWLKDINEENII-- 80 ::::::::: :::::::::::: :::::::: d4kbpa2 58 RWDTWGRFTE-RSVAYQPWIWTAGNH--EIEFAPEINETEPFKPFSYR----------YH 104 d1s3la_ 81 ----------DDFISVEIDD-----------------------------------LKFFI 95 :::::::::: ::::: d4kbpa2 105 VPYEASQSTSPFWYSIKRASAHIIVLSSYSAYGRGTPQYTWLKKELRKVKRSETPWLIVL 164 d1s3la_ 96 THGH--------------HQSVLEMAIK---SGLYDVVIYGHT--HERVFEEVD------ 130 : :::::::::: :::::::::: :::::: d4kbpa2 165 M---HSPLYNSYNHHFMEGEAMRTKFEAWFVKYKVDVVFAG--HVHAYERS---ERVSNI 216 d1s3la_ 131 ----------------DVLVINPGECCGYL----------------------TGIPTIGI 152 ::::::::: :::::::: d4kbpa2 217 AYKITDGLCTPVKDQSAPVYITIGD-----AGNYGVIDSNMIQPQPEYSAFREASFGHGM 271 d1s3la_ 153 LDTE----KKEYREIVL--------------------------- 165 ::: ::::::: d4kbpa2 272 FDI-KNRTHAHFSWN--RNQDGVAVEADSVWFFNRHWYPVDDST 312 TMalign alignment (TM-score: 0.76 Raw score:126.20) d1s3la_ 1 -------MKIGIMSDTHDHLPNIRKAIEIFNDE--NVETVIHCGDF-VS----------L 40 :::::::::::: ::::::::::::: ::::::::::: :: : d4kbpa2 1 QTGLDVPYTFGLIGDLGQS-FDSNTTLSHYELSPKKGQTVLFVGDLSYADRYPNHDNVRW 59 d1s3la_ 41 -FVIKEFENL--NANIIATYGNND-G---------ERCKLKEWLKDINEEN------IID 81 ::::::::: :::::::::::: : :::::::::: ::: :: d4kbpa2 60 DTWGRFTERSVAYQPWIWTAGNHEIEFAPEINETEPFKPFSYRYH---VPYEASQST-SP 115 d1s3la_ 82 DFISVEI-D---------------------------------D-LKFFITHG-------- 98 ::::::: : : :::::::: d4kbpa2 116 FWYSIKRASAHIIVLSSYSAYGRGTPQYTWLKKELRKVKRSETPWLIVLMHSPLYNSYNH 175 d1s3la_ 99 ---HHQSVL---EMAIKSGLYDVVIYGHTHERVFEEV-------------------DDVL 133 :::::: ::::::::::::::::::::::::: :::: d4kbpa2 176 HFMEGEAMRTKFEAWFVKYKVDVVFAGHVHAYERSERVSNIAYKITDGLCTPVKDQSAPV 235 d1s3la_ 134 VINPGECC--GYLT---------------GIPTIGILDTE---KKEYREIVL-------- 165 :::::::: :::: ::::::::::: ::::::::: d4kbpa2 236 YITIGDAGNYGVIDSNMIQPQPEYSAFREASFGHGMFDIKNRTHAHFSWNRNQDGVAVEA 295 d1s3la_ 166 ----------------- 166 d4kbpa2 296 DSVWFFNRHWYPVDDST 312 HHsearch alignment (Probability: 0.99 E-value:0.00) d1s3la_ 2 KIGIMSDTHDHLPNIRKAIEI-FNDENVETVIHCGDFVSLF------------VIKEFEN 48 ::::::::::::::::::::: ::::::::::::::::::: ::::::: d4kbpa2 9 TFGLIGDLGQSFDSNTTLSHYELSPKKGQTVLFVGDLSYADRYPNHDNVRWDTWGRFTER 68 d1s3la_ 49 L--NANIIATYGNNDGERCKL-------KEWLKDI-------------------NE---- 76 : :::::::::::::::::: ::::::: :: d4kbpa2 69 SVAYQPWIWTAGNHEIEFAPEINETEPFKPFSYRYHVPYEASQSTSPFWYSIKRASAHII 128 d1s3la_ 77 -----EN---------IIDDFIS---VEIDDLKFFITHGHHQ--------------SVLE 105 :: ::::::: :::::::::::::::: :::: d4kbpa2 129 VLSSYSAYGRGTPQYTWLKKELRKVKRSETPWLIVLMHSPLYNSYNHHFMEGEAMRTKFE 188 d1s3la_ 106 MAIKSGLYDVVIYGHTHERVF 126 ::::::::::::::::::::: d4kbpa2 189 AWFVKYKVDVVFAGHVHAYER 209