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 <-- 0.937 --> Intermediate <-- 0.931 --> Hit

HHsearch
probability
HHsearch
probability

The query (T0542_Ad2+3.pdb) is transitively linked to the hit (d1s3ia2) through the intermediate protein (d1ru8a_) by significant HHsearch probability (>0.9).

  SCOP Id Protein SCOP Superfamily SCOP Fold SCOP
Class
Intermediate d1ru8a_ Putative N-​type ATP pyrophosphatase PF0828Adenine nucleotide alpha hydrolases-​likeAdenine nucleotide alpha hydrolase-​likeα/β
Hit d1s3ia2 10-​formyltetrahydrofolate dehydrogenase domain 2FormyltransferaseFormyltransferaseα/β

Supporting Alignments

Query <-- 0.937 --> Intermediate
DALI alignment (Z-score: 6.9 Raw score:641.00) query 1 dadeevysalvvglrayvaknGFRSVLIGLSGGIDSALVAAIACDALgaqNVYGVSMPSK 60 :::::::::::::::::::::::::: :::::::::: d1ru8a_ 1 ---------------------GLADVAVLYSGGKDSNYALYWAIKNR-fsVKFLVTMVSE 38 query 61 YS-----sDHSKGdAAELARRTGLNFRTVSIEpmfdaymaslgltglaEENLQSRLRGTT 115 :: ::::: :::::::::::::::::: :::::::::::: d1ru8a_ 39 NEesymytINANL-TDLQARALGIPLVKGFTQ---------------gEKEKEVEDLKRV 82 query 116 LMAIsnqEGHIVLAPGnkselavGYSTlyGDSVG------AYGPIKDVYKTSIFRLAEWR 169 :::: ::::::::: :::: ::::: :::::::::::::::::::: d1ru8a_ 83 LSGL---KIQGIVAGA------sKYQRkrIEKVAkelgleVYTPAWGRDAKEYMRELLNL 133 query 170 N------------------------------------raaaergqtppipEASItkpdyp 193 : :::: d1ru8a_ 134 GfkimvvgvsaygldeswlgrildesaleelitlnekykvhvageggefeTFVL------ 187 query 194 vldailelyvdrdtgadaivaagydrelvvktlrmvdtaeykrrqyppgtkisakgfgkd 253 d1ru8a_ 188 ---------------------------------dmplfkykivvdkakkvwepctssgkl 214 query 254 rrlpitnrwregh 266 d1ru8a_ 215 iieeahleskleh 227 FAST alignment (Normalized score: 5.12 Raw score:1259.00) query 1 DADEEVYSALVVGLRAYVAKNGFRSVLIGLSGGIDSALVAAIACDALGAQN-----VYGV 55 :::::::::::::::::::::::: :::: d1ru8a_ 1 ---------------------GLADVAVLYSGGKDSNYALYWAIK------NRFSVKFLV 33 query 56 SMPSKYSSDHS--------KGDAAELARRTGLNFRTVSIEPMFDAYMASLGLTGLA---E 104 ::::::: ::::::::::::::::::: : d1ru8a_ 34 TMVSENE----ESYMYTINANLTDLQARALGIPLVKGF------------------TQGE 71 query 105 ENLQSRLRGTTLMAISNQEGHIVLAPGNKSELAVGYSTLY-----GDSVG---------- 149 :::::::::::::: ::: ::::: :::: d1ru8a_ 72 KEKEVEDLKRVLSG--LKI-QGIVA---------------GASKYQRKR-IEKVAKELGL 112 query 150 -AYGPIKDVYKTSIFRLAEWRNRAAAERGQTPPIPEASITKP------------------ 190 ::::::::::::::::::: d1ru8a_ 113 EVYTPAWGRDAKEYMRELLN----------------------LGFKIMVVGVSAYGLDES 150 query 191 ------------DYPVLDAILELYVDRDTGADAIVAAGYDRELVVKTLRMVDTAEYKRRQ 238 :::::::: d1ru8a_ 151 WLGRILDESALEELITLNEK---------------------------------------- 170 query 239 YPPGTKISAKGFGKDRRLPITNRWREGH-------------------------------- 266 d1ru8a_ 171 ----------------------------YKVHVAGEGGEFETFVLDMPLFKYKIVVDKAK 202 query 267 ------------------------- 267 d1ru8a_ 203 KVWEPCTSSGKLIIEEAHLESKLEH 227 TMalign alignment (TM-score: 0.41 Raw score:109.76) query 1 DADEEVYSALVVGLRAYVAKNGFRSVLIGLSGGIDSALVAAIACDALGAQNVYGVSMPSK 60 ::::::::::::::::::::::::::: ::::::::::: d1ru8a_ 1 ---------------------GLADVAVLYSGGKDSNYALYWAIKNRF-SVKFLVTMVSE 38 query 61 YS-S---DHSKGDAAELARRTGLNFRTVSIEPMFDAYMASLGLTGLAEENLQSRLRGTTL 116 :: : :::::::::::::::::::::::: : : ::::::::::: d1ru8a_ 39 NEESYMYTINANLTDLQARALGIPLVKGFTQ--G-------------E-KEKEVEDLKRV 82 query 117 MAISNQEGHIVLAPGNKSELAVGYSTL-YGDSV-G------AYGPIKDVYKTSIFRLAEW 168 :::: ::::::::: :: : :: :::: : ::::::::::::::::::: d1ru8a_ 83 LSGL--KIQGIVAGA---SK--Y--QRK-RIEKVAKELGLEVYTPAWGRDAKEYMRELLN 132 query 169 RNRAAAERGQTPPIPEASITK---P-DY----------------PVLDAILELYVDRDTG 208 : : : : :::: : :: ::::: d1ru8a_ 133 L-G----------F-K-IMVVGVSAYGLDESWLGRILDESALEELITLN----------- 168 query 209 ADAIVAAGYDRELV---------------------------------------------- 222 ::: :: d1ru8a_ 169 -------EKY--KVHVAGEGGEFETFVLDMPLFKYKIVVDKAKKVWEPCTSSGKLIIEEA 219 query 223 --------VKTLRMVDTAEYKRRQYPPGTKISAKGFGKDRRLPITNRWREGH 266 d1ru8a_ 220 HLESKLEH-------------------------------------------- 227 HHsearch alignment (Probability: 0.94 E-value:0.00) query 22 GFRSVLIGLSGGIDSALVAAIACDALGAQNVYGVSMPSKYSSDHS----KGDAAELARRT 77 ::::::::::::::::::::::::: ::::::::::::::::::: ::::::::::: d1ru8a_ 1 GLADVAVLYSGGKDSNYALYWAIKN-RFSVKFLVTMVSENEESYMYTINANLTDLQARAL 59 query 78 GLNFRTVSIEPMFDAYMASL 97 :::::::::::::::::::: d1ru8a_ 60 GIPLVKGFTQGEKEKEVEDL 79
Intermediate <-- 0.931 --> Hit
DALI alignment (Z-score: 7.5 Raw score:508.10) d1ru8a_ 1 glADVAVLYSGGKdSNYALYWAIKNRFSVKFLVTMVseneesymyTINANLT-DLQARAL 59 ::::::::::: :::::::::::::::::::::: ::::::: ::::::: d1s3ia2 1 --MKIAVIGQSLF-GQEVYCQLRKEGHEVVGVFTIP--------dKDGKADPdGLEAEKD 49 d1ru8a_ 60 GIPLVKGFT-qGEKEkEVEDLKRVLSGLKIQGIVAGaskyqrKRIEKVAKELGLEVYTpA 118 ::::::::: :::: :::::::::::::::::::: :::::::::::::::: : d1s3ia2 50 GVPVFKFPRwrARGQ-ALPEVVAKYQALGAELNVLP--fcsqFIPMEVINAPRHGSII-Y 105 d1ru8a_ 119 WGR---------DAKEymrellnlgfkimvvgvsaygldeswlgrildesaLEELitlnE 169 ::: :::: :::: : d1s3ia2 106 HPSllprhrgasAINW------tlihgdkkggftifwaddgldtgdlllqkECEV----L 155 d1ru8a_ 170 KYKV--HVAGEGgefetfvldmplfkykivvdkakkvwepctssgkliieeahleskleh 227 :::: :::::: d1s3ia2 156 PDDTvsTLYNRF------------lfpegikgmvqavrliaegtaprcpqseegatyegi 203 FAST alignment (Normalized score: 3.68 Raw score:789.10) d1ru8a_ 1 GLADVAVLYSGGKDSNYALYWAIKNRFSVKFLVTMVSENEES---YMYTINANLTDLQAR 57 ::::::: :::::::::::::::::::::::: :::: ::::::::: d1s3ia2 1 --MKIAVIG-QSLFGQEVYCQLRKEGHEVVGVFT--------IPDKDGK--ADPDGLEAE 47 d1ru8a_ 58 ALGIPLVKGFTQGEKEKE---------VEDLKRVLSGLKIQGIVAGASKYQ-------RK 101 ::::::::: :::::::::::::::::: :: d1s3ia2 48 KDGVPVFKF---------PRWRARGQALPEVVAKYQALGAELNVL------PFCSQFIPM 92 d1ru8a_ 102 RIEKVAKELGL---EVYTPAWGRDAKEYMRELLNLGFKIMVVGVSAYGLDESWLGRILDE 158 ::::: :::: d1s3ia2 93 EVINA------PRHGSII------------------------------------------ 104 d1ru8a_ 159 SALEELITLNEKYKVHVAGEGGEFETFVLDMPLFKYKIVVDKAKKVWEPCTSSGKLIIEE 218 d1s3ia2 105 ------------------------------------------------------------ 105 d1ru8a_ 219 AHLESKLEH--------------------------------------------------- 227 d1s3ia2 105 ---------YHPSLLPRHRGASAINWTLIHGDKKGGFTIFWADDGLDTGDLLLQKECEVL 155 d1ru8a_ 228 ------------------------------------------------ 228 d1s3ia2 156 PDDTVSTLYNRFLFPEGIKGMVQAVRLIAEGTAPRCPQSEEGATYEGI 203 TMalign alignment (TM-score: 0.38 Raw score:86.36) d1ru8a_ 1 GLADVAVLYSGGKDSNYALYWAIKNRFSVKFLVTMVSENEESYMYTINANLT-DLQARAL 59 ::::::::::: :::::::::::::::::::::: : : ::: ::: ::::: : d1s3ia2 1 --MKIAVIGQSLF-GQEVYCQLRKEGHEVVGVFTIP---D-K---DGK-ADPDGLEAE-K 48 d1ru8a_ 60 GIPLVKGFTQ-GEKEKEVEDLKRVLSGLKIQGIVAGASKYQRKRIEKVAKELGLEVYTPA 118 :::::::::: :::::::::::::::::::::::::::::: ::::::: ::::::::: d1s3ia2 49 DGVPVFKFPRWRARGQALPEVVAKYQALGAELNVLPFCSQF--IPMEVIN-APRHGSIIY 105 d1ru8a_ 119 WGRD---------A----------KEYM---------------------RELLNLGFKIM 138 :::: : :::: d1s3ia2 106 HPSLLPRHRGASAINWTLIHGDKKGGFTIFWADDGLDTGDLLLQKECEV----------- 154 d1ru8a_ 139 VVGVSAYGLDESWLGRILDES-ALEELITLNEKYKVHVA----GEGGEFET---FVLDMP 190 : :::::: :: : :: d1s3ia2 155 --------------------LP-DDTVST--------LYNRFL-------FPEG----IK 174 d1ru8a_ 191 ----------------------------LFKYKIVVDKAKKVWEPCTSSGKLIIEEAHLE 222 : d1s3ia2 175 GMVQAVRLIAEGTAPRCPQSEEGATYEG--------------------I----------- 203 d1ru8a_ 223 SKLEH 227 d1s3ia2 204 ----- 204 HHsearch alignment (Probability: 0.93 E-value:0.00) d1ru8a_ 8 LYSGGKDSNYALYWAIKNRFSVKFLVTMVSENEESYMYTINANLTDLQARALGIPLVKGF 67 :::::::::::::::::::::::::::::::::: ::::::::::::::::::: d1s3ia2 5 VIGQSLFGQEVYCQLRKEGHEVVGVFTIPDKDGK-------ADPDGLEAEKDGVPVFKFP 57 d1ru8a_ 68 TQGEKEKEVEDLKRVLSGLKIQGIV-AGASKYQRKR 102 ::::::::::::::::::::::::: :::::::::: d1s3ia2 58 RWRARGQALPEVVAKYQALGAELNVLPFCSQFIPME 93