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_Ad2+3.pdb
Database: SCOP1.69 less than 40% identity downloaded from ASTRAL


Query <-- 1.476 --> Intermediate <-- 1.539 --> Hit

SVM
score
SVM
score

The query (T0542_Ad2+3.pdb) is transitively linked to the hit (d1te2a_) through the intermediate protein (d1jmva_) by significant SVM score (>0.4).

  SCOP Id Protein SCOP Superfamily SCOP Fold SCOP
Class
Intermediate d1jmva_ Universal stress protein A,​ UspAAdenine nucleotide alpha hydrolases-​likeAdenine nucleotide alpha hydrolase-​likeα/β
Hit d1te2a_ Phosphatase YniCHAD-​likeHAD-​likeα/β

Supporting Alignments

Query <-- 1.476 --> Intermediate
DALI alignment (Z-score: 6.4 Raw score:517.70) query 1 dadeevysalvvglrayvaknGFRSVLIGLSGGIDSALVAAIACDALG--aqNVYGVSMP 58 ::::::::::::::::::::::::::: :::::::: d1jmva_ 1 ---------------------MYKHILVAVDLSEESPILLKKAVGIAKrhdaKLSIIHVD 39 query 59 S------------------kysSDHSKGDAAELARRTG---lNFRTVSIepmfdaymasl 97 : :::::::::::::::: ::::::: d1jmva_ 40 VnfsdlytglidvnmssmqdriSTETQKALLDLAESVDypisEKLSGSG----------- 88 query 98 gltglaeenlqsrLRGTTLMAISNQEGH-IVLAPGNKseLAVG--YSTL----ygdsvgA 150 ::::::::::::::: :::::::: :::: :::: : d1jmva_ 89 -------------DLGQVLSDAIEQYDVdLLVTGHHQ--DFWSklMSSTrqvmntikidM 133 query 151 YGPiKDVYktsifrlaewrnraaaergqtppipeasitkpdypvldailelyvdrdtgad 210 ::: :::: d1jmva_ 134 LVV-PLRD---------------------------------------------------- 140 query 211 aivaagydrelvvktlrmvdtaeykrrqyppgtkisakgfgkdrrlpitnrwregh 266 d1jmva_ 141 -------------------------------------------------------- 141 FAST alignment (Normalized score: 4.82 Raw score:930.50) query 1 DADEEVYSALVVGLRAYVAKNGFRSVLIGLSGGIDSALVAAIACDALGAQ------NVYG 54 ::::::::::::::::::::::::: :::: d1jmva_ 1 ---------------------MYKHILVAVDLSEESPILLKKAVGI----AKRHDAKLSI 35 query 55 VSMPSKYSS-----------------------DHSKGDAAELAR--RTGL-NFRTVSIEP 88 :::: :::::::::::: :::: ::::: d1jmva_ 36 IHVD-----VNFSDLYTGLIDVNMSSMQDRISTETQKALLDLAESVDYPISEKLSG---- 86 query 89 MFDAYMASLGLTGLAEENLQSR--LRGTTLMAISNQEG-HIVLAPGNKSELAVGYSTLY- 144 :::::::::::::: :::::::: d1jmva_ 87 ----------------------SGDLGQVLSDAIEQYDVDLLVTGHH------------Q 112 query 145 ------------GDSVGAYGPIKDVYKTSIFRLAEWRNRAAAERGQTPPIPEASITKPDY 192 :::::: d1jmva_ 113 DFWSKLMSSTRQVMNTIK------------------------------------------ 130 query 193 PVLDAILELYVDRDTGADAIVAAGYDRELVVKTLRMVDTAEYKRRQYPPGTKISAKGFGK 252 d1jmva_ 131 ------------------------------------------------------------ 131 query 253 DRRLPITNRWREGH---------- 266 d1jmva_ 131 --------------IDMLVVPLRD 140 TMalign alignment (TM-score: 0.33 Raw score:88.21) query 1 DADEEVYSALVVGLRAYVAKNGFRSVLIGLSGGIDSALVAAIACDALG--AQNVYGVSMP 58 ::::::::::::::::::::::::::: :::::::::: d1jmva_ 1 ---------------------MYKHILVAVDLSEESPILLKKAVGIAKRHDAKLSIIHVD 39 query 59 SK---------------------YSSDHSKGDAAELARRT--GLNFRTVSIEPMFDAYMA 95 :: :: :::::::::::: ::::::::: d1jmva_ 40 VNFSDLYTGLIDVNMSSMQDRIS--TE-TQKALLDLAESVDYPISEKLSGS--------- 87 query 96 SLGLTGLAEENLQSRLRGTTLMAISNQEGH-IVLAPGNKSELAVGYSTLYGDS-VG---- 149 : ::::::::::::::: ::::::: ::::::::: ::: :: d1jmva_ 88 ------------G--DLGQVLSDAIEQYDVDLLVTGHH-QDFWSKLMS--STRQVMNTIK 130 query 150 --AYGPIKDVYKTSIFRLAEWRNRAAAERGQTPPIPEASITKPDYPVLDAILELYVDRDT 207 ::: :: : :: d1jmva_ 131 IDMLV-VP-L-RD----------------------------------------------- 140 query 208 GADAIVAAGYDRELVVKTLRMVDTAEYKRRQYPPGTKISAKGFGKDRRLPITNRWREGH 266 d1jmva_ 141 ----------------------------------------------------------- 141 HHsearch alignment (Probability: 0.05 E-value:0.16) query 1 DADEEVYSALVVGLRAYVAKNGFRSVLIGLSGGIDSALVAAIACDALGAQNVYGVSMPSK 60 :::::::::::::::::::::::::::::::::::::::::::::: ::::: :::::: d1jmva_ 56 SMQDRISTETQKALLDLAESVDYPISEKLSGSGDLGQVLSDAIEQY-DVDLL--VTGHHQ 112 query 61 YSSDHSKGDAAELARRTGLNFRTVSIEP 88 :::::::::::::::::::::::::::: d1jmva_ 113 DFWSKLMSSTRQVMNTIKIDMLVVPLRD 140
Intermediate <-- 1.539 --> Hit
DALI alignment (Z-score: 6.4 Raw score:475.20) d1jmva_ 1 -MYKHILVAVD---LSEE------------------------------------------ 14 :::::::::: :::: d1te2a_ 1 rQILAAIFDMDgllIDSEplwdraeldvmaslgvdisrrnelpdtlglridmvvdlwyar 60 d1jmva_ 15 ----------------------------spilLKKAVGIAKRHDAKLSIIHVDvnfsdly 46 ::::::::::::::::::::: d1te2a_ 61 qpwngpsrqevverviaraislveetrpllpgVREAVALCKEQGLLVGLASAS------- 113 d1jmva_ 47 tglidvnmssmqdristeTQKALLDLAE--SVDYPISEKLSGS---GDLG--QVLSDAIE 99 :::::::::: ::::::::::::: :::: :::::::: d1te2a_ 114 ------------------PLHMLEKVLTmfDLRDSFDALASAEklpYSKPhpQVYLDCAA 155 d1jmva_ 100 QYDV----DLLVTGHhqdfwsklmsstrQVMNTIKIDMLVVPLRD--------------- 140 :::: ::::::: ::::::::::::::::: d1te2a_ 156 KLGVdpltCVALEDS---------vngmIASKAARMRSIVVPAPEaqndprfvlanvkls 206 d1jmva_ 141 ------------ 141 d1te2a_ 207 slteltakdllg 218 FAST alignment (Normalized score: 4.81 Raw score:840.30) d1jmva_ 1 -MYKHILVAVD------------------------------------------------- 10 :::::::: d1te2a_ 1 RQILAAIFD--MDGLLIDSEPLWDRAELDVMASLGVDISRRNELPDTLGLRIDMVVDLWY 58 d1jmva_ 11 ------------------------------LSEESPILLKKAVGIAKRHDAKLSIIHVDV 40 :::::::::::::: :::::::: d1te2a_ 59 ARQPWNGPSRQEVVERVIARAISLVEETRPLLPGVREAVALCKE----QGLLVGLA---- 110 d1jmva_ 41 NFSDLYTGLIDVNMSSMQDRISTE---TQKALLDLAESVDY---PISEKLSGSGD----- 89 ::::::::::::: ::::::::: d1te2a_ 111 ------------------------SASPLHMLEKVLTMFD-LRDSFDALASAE--KLPYS 143 d1jmva_ 90 --LGQVLSDAIEQYDV----DLLVTGHHQDFWSK-LMSSTRQVMNTIKIDMLVVPLRD-- 140 :::::::::::::: ::::: ::::::::: :::::::::: d1te2a_ 144 KPHPQVYLDCAAKLGVDPLTCVALE---------DSVNGMIASK-AARMRSIVVP---AP 190 d1jmva_ 141 ---------------------------- 141 d1te2a_ 191 EAQNDPRFVLANVKLSSLTELTAKDLLG 218 TMalign alignment (TM-score: 0.56 Raw score:78.75) d1jmva_ 1 -MYKHILVAVDLS-EES------------------------------------------- 15 :::::::::::: ::: d1te2a_ 1 RQILAAIFDMDGLLIDSEPLWDRAELDVMASLGVDISRRNELPDTLGLRIDMVVDLWYAR 60 d1jmva_ 16 ----------------------------PILLK-KAVGIAKRHDAKLSIIHVDVNFSDLY 46 ::::: ::::::::::::::::::: d1te2a_ 61 QPWNGPSRQEVVERVIARAISLVEETRPLLPGVREAVALCKEQGLLVGLASAS------- 113 d1jmva_ 47 TGLIDVNMSSMQDRISTETQKALLDLAE-S-VDYPISEKLSGS---GDL-GQVLSDAIEQ 100 :::::::::: : :::::::::::: ::: :::::::::: d1te2a_ 114 ------------------PLHMLEKVLTMFDLRDSFDALASAEKLPYSKPHPQVYLDCAA 155 d1jmva_ 101 -Y-D-V--DLLVTGHHQDFWSKLMSSTRQVMNTIKIDMLVVPLRD--------------- 140 : : : ::::::: : :::::::::::::::::::: d1te2a_ 156 KLGVDPLTCVALEDS-------V--NGMIASKAARMRSIVVPAPEAQNDPRFVLANVKLS 206 d1jmva_ 141 ------------ 141 d1te2a_ 207 SLTELTAKDLLG 218 HHsearch alignment (Probability: 0.01 E-value:0.08) d1jmva_ 1 MYKHILVAVDLSE 13 ::::::::::::: d1te2a_ 2 QILAAIFDMDGLL 14