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 <-- 0.929 --> Hit

HHsearch
probability
HHsearch
probability

The query (T0542_Ad2+3.pdb) is transitively linked to the hit (d1uana_) 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 d1uana_ Hypothetical protein TT1542LmbE-​likeLmbE-​likeα/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 <-- 0.929 --> Hit
DALI alignment (Z-score: 5.8 Raw score:535.80) d1ru8a_ 1 glaDVAVLY-SGGKdSNYALYWAIKNR---fSVKFLVTMV-seNEESymYTINAN-LTDL 54 :::::: :::: :::::::::::: ::::::::: :::: :::::: :::: d1uana_ 1 -mlDLLVVApHPDD-GELGCGGTLARAkaegLSTGILDLTrgeMGSK-gTPEEREkEVAE 57 d1ru8a_ 55 QARALGI-PLVKGFTQ----geKEKEVEDLKRVLSGLKIQGIVAGAS-------KYQRKR 102 ::::::: :::::::: ::::::::::::::::::::::::: :::::: d1uana_ 58 ASRILGLdFRGNLGFPdggladVPEQRLKLAQALRRLRPRVVFAPLEadrhpdhTAASRL 117 d1ru8a_ 103 IEKVAKE------------LGLE-VYTPAWGRD--------------------------- 122 ::::::: :::: ::::::::: d1uana_ 118 AVAAVHLaglrkaplegepFRVErLFFYPGNHPfapsflvkisafidqweaavlayrsqf 177 d1ru8a_ 123 ---aKEYMRELLNLGfkimvvgvsaygldeswlgrildesaleelitlnekykvhvageg 179 ::::::::::: d1uana_ 178 tvgpKGVEARKAMRR--------------------------------------------- 192 d1ru8a_ 180 gefetfvldmplfkykivvdkakkvwepctssgkliieeahleskleh 227 d1uana_ 193 --------------------ywgnylgvdyaepfvsplpvlyvpwsra 220 FAST alignment (Normalized score: 4.32 Raw score:965.50) d1ru8a_ 1 GLA--DVAVLYSG------GKDSNYALYWAIKNRFSVKFLVT-MVSENEESYMY------ 45 :::::: ::::::::::::::::: ::::: :::: d1uana_ 1 ---MLDLLVVA--PHPDDGELGCGGTLARAKAEGLS-TGILDLTRGE-------MGSKGT 47 d1ru8a_ 46 TINA-NLTDLQARALG-IPLVKGFTQGE------KEKEVEDLKRVLSGLKIQGIVAGA-- 95 :::: ::::::::::: ::::::::: ::::::::::::::::::::::: d1uana_ 48 PEEREKEVAEASRILGLDFRGNLGFP--DGGLADVPEQRLKLAQALRRLRPRVVFAP-LE 104 d1ru8a_ 96 ------SKYQRKRIEKVAKELG---------------LEVYTPAWGRDAKEYMRELLNLG 134 :::::::::::::: ::::: d1uana_ 105 ADRHPDHTAASRLAVAAVHL--AGLRKAPLEGEPFRVERLFF------------------ 144 d1ru8a_ 135 FKIMVVGVSAYGLDESWLGRILDESALEELITLNEKYKVHVAGEGGEFETFVLDMPLFKY 194 d1uana_ 145 ------------------------------------------------------------ 145 d1ru8a_ 195 KIVVDKAKKVWEPCTSSGKLIIEEAHLESKLEH--------------------------- 227 d1uana_ 145 ---------------------------------YPGNHPFAPSFLVKISAFIDQWEAAVL 171 d1ru8a_ 228 ------------------------------------------------- 228 d1uana_ 172 AYRSQFTVGPKGVEARKAMRRYWGNYLGVDYAEPFVSPLPVLYVPWSRA 220 TMalign alignment (TM-score: 0.46 Raw score:104.09) d1ru8a_ 1 GLADVAVLY--SG--GKDSNYALYWAIKNRFSVKFLVTMVSENEES-YMYTINANLTDLQ 55 : ::::::: :: ::::::::::::: ::::::::::::::::: ::::::::::::: d1uana_ 1 M-LDLLVVAPHPDDGELGCGGTLARAKA-EGLSTGILDLTRGEMGSKGTPEEREKEVAEA 58 d1ru8a_ 56 ARA-LGIPLVKGFTQG-EKE---KEVEDLKRVLSGLKIQGIVAGASK------Y-QRKRI 103 ::: :::::::::::: ::: :::::::::::::::::::::::: : ::::: d1uana_ 59 SRILGLDFRGNLGFPDGGLADVPEQRLKLAQALRRLRPRVVFAPLEADRHPDHTAASRLA 118 d1ru8a_ 104 EKVAKELG------------LEVYTPAW-----GRDAKEYMRELLNLGF--K--IM---- 138 :::::::: :::::::: ::: ::: ::::::: : :: d1uana_ 119 VAAVHLAGLRKAPLEGEPFRVERLFFYPGNHPFAPS--FLV-KISAFIDQWEAAVLAYRS 175 d1ru8a_ 139 VVGVSAYGLDESWLGR-ILDESALE--ELI----------TLNEKYKVHVA--------- 176 :::: ::: :::: ::: : : d1uana_ 176 QFTV---------GPKGVEAR-KAMRR--YWGNYLGVDYA----------EPFVSPLPVL 213 d1ru8a_ 177 -------GEGGEFETFVLDMPLFKYKIVVDKAKKVWEPCTSSGKLIIEEAHLESKLEH 227 d1uana_ 214 YVPWSRA--------------------------------------------------- 220 HHsearch alignment (Probability: 0.93 E-value:0.00) d1ru8a_ 2 LADVAVLYSGGKDSNY----ALYWAIKNRFSVKFLVTMVSENEESYMYTINANLTDLQAR 57 :::::::::::::::: :::::::::::::::::::::::::::::::::::::::: d1uana_ 1 MLDLLVVAPHPDDGELGCGGTLARAKAEGLSTGILDLTRGEMGSKGTPEEREKEVAEASR 60 d1ru8a_ 58 ALGIPLVK-GFTQG----EKEKEVEDLKRVLSGLKIQGIVA 93 :::::::: ::::: ::::::::::::::::::::::: d1uana_ 61 ILGLDFRGNLGFPDGGLADVPEQRLKLAQALRRLRPRVVFA 101