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 <-- 1.000 --> Intermediate <-- 1.000 --> Hit

HHsearch
probability
HHsearch
probability

The query (T0542_Ad1.pdb) is transitively linked to the hit (d1uf5a_) through the intermediate protein (d1f89a_) by significant HHsearch probability (>0.9).

  SCOP Id Protein SCOP Superfamily SCOP Fold SCOP
Class
Intermediate d1f89a_ hypothetical protein yl85Carbon-​nitrogen hydrolaseCarbon-​nitrogen hydrolaseα+β
Hit d1uf5a_ N-​carbamoyl-​D-​aminoacid amidohydrolaseCarbon-​nitrogen hydrolaseCarbon-​nitrogen hydrolaseα+β

Supporting Alignments

Query <-- 1.000 --> Intermediate
DALI alignment (Z-score: 26.3 Raw score:2649.90) query 1 ------SLQLRLALNQIDSTVGDIAGNAEAILRWTRHSAEQG--AHLVAFPEMALTGYpV 52 :::::::::::::::::::::::::::::::::::: :::::::::::::: : d1f89a_ 1 saskilSQKIKVALVQLSGSSPDKMANLQRAATFIERAMKEQpdTKLVVLPECFNSPY-S 59 query 53 EDLALRssFVEASR----TALRELAARLAeeGFGELPVLV-GYLDRSESaqpkygqpAGA 107 :::::: :::::: ::::::::::: ::::::::: :::::::: ::: d1f89a_ 60 TDQFRK--YSEVINpkepSTSVQFLSNLA--NKFKIILVGgTIPELDPK--------TDK 107 query 108 PRNAAAVLH-RGRVALTFAKHHLpnygvfDEFRYFVPGDTMPIVRLHGVDIALAICEDLW 166 ::::::::: ::::::::::::: ::::::::::::::::::::::::::::::: d1f89a_ 108 IYNTSIIFNeDGKLIDKHRKVHL-----fHESETLSPGEKSTTIDTKYGKFGVGICYDMR 162 query 167 QDgGRVPAARSAGAGLLLSVNASPYErdkDDTRLELVRKRAQEAGCTTAYLAMIGGQ-DE 225 :: ::::::::::::::::::::::: :::::::::::::::::::::::::::: :: d1f89a_ 163 FP-ELAMLSARKGAFAMIYPSAFNTV-tgPLHWHLLARSRAVDNQVYVMLCSPARNLqSS 220 query 226 LVFDGDSIVVDRDGEVVARAPqFSEGCVVLDLDLPaaeaepptgvvddglridrlvisee 285 ::::::::::::::::::::: ::::::::::::: d1f89a_ 221 YHAYGHSIVVDPRGKIVAEAG-EGEEIIYAELDPE------------------------- 254 query 286 plpayeaelaggyadrl 302 d1f89a_ 255 viesfrqavpltkqrrf 271 FAST alignment (Normalized score: 18.48 Raw score:5287.00) query 1 ------SLQLRLALNQIDST--VGDIAGNAEAILRWTRHSAE--QGAHLVAFPEMALTGY 50 :::::::::::: :::::::::::::::::::: :::::::::::::::: d1f89a_ 1 SASKILSQKIKVALVQLS--GSSPDKMANLQRAATFIERAMKEQPDTKLVVLPECFNSPY 58 query 51 PVEDLALRSSFV------------EASRTALRELAARLAEEGFGELPVL-VGYLDRSESA 97 ::::: ::::::::::::: :::::: :::::::: d1f89a_ 59 -STDQF------RKYSEVINPKEPSTSVQFLSNLANK------FKIILVGGTIPELDP-- 103 query 98 QPKYGQP-AGAPRNAAAV-LHRGRVALTFAKHHLPNYGVF--DEFRYFVPGDTMPIVRLH 153 :::::::::: :::::::::::::: :::::::::::::::::: d1f89a_ 104 -------KTDKIYNTSIIFNEDGKLIDKHRKVH-------LFHESETLSPGEKSTTIDTK 149 query 154 GVDIALAICEDLWQDGGRVPAARSAGAGLLLSVNASPYERDKD-----DTRLELVRKRAQ 208 ::::::::::::::: ::::::::::::::::::::: :::::::::::: d1f89a_ 150 YGKFGVGICYDMRFP-ELAMLSARKGAFAMIYPSAFN------TVTGPLHWHLLARSRAV 202 query 209 EAGCTTAYLAMIGGQ-----DELVFDGDSIVVDRDGEVVARAPQFSEGCVVLDLDLPAAE 263 ::::::::::: :::::::::::::::::::::: :::::::::::: d1f89a_ 203 DNQVYVMLCSP----ARNLQSSYHAYGHSIVVDPRGKIVAEA-GEGEEIIYAELD----- 252 query 264 AEPPTGVVDDGLRIDRLVISEEPLPAYEAELAGGYADRL------------------- 302 d1f89a_ 253 ---------------------------------------PEVIESFRQAVPLTKQRRF 271 TMalign alignment (TM-score: 0.72 Raw score:216.57) query 1 S------LQLRLALNQIDSTVGDIAGNAEAILRWTRHSAE-Q-GAHLVAFPEMALTGYPV 52 : ::::::::::::::::::::::::::::::::: : :::::::::::::::: d1f89a_ 1 SASKILSQKIKVALVQLSGSSPDKMANLQRAATFIERAMKEQPDTKLVVLPECFNSPYS- 59 query 53 EDLALRSSFVEASR----TALRELAARLAEEGFGELPVLV-GYLDRSESAQPKYGQPAGA 107 :::::: :::::: :::::::::::: :: :::::: :::::::: ::: d1f89a_ 60 TDQFRK--YSEVINPKEPSTSVQFLSNLAN-KF-KIILVGGTIPELDPK--------TDK 107 query 108 PRNAAAVLH-RGRVALTFAKHHLPNYGVFDEFRYFVPGDTMPIVRLHGVDIALAICEDLW 166 ::::::::: ::::::::::::: :::::::::::::::::::::::::::::::: d1f89a_ 108 IYNTSIIFNEDGKLIDKHRKVHL-----FHESETLSPGEKSTTIDTKYGKFGVGICYDMR 162 query 167 QDGGRVPAARSAGAGLLLSVNASPYERDKDDTRLELVRKRAQEAGCTTAYLAMIGG-QDE 225 ::: :::::::::::::::::::::::: ::::::::::::::::::::::::::: ::: d1f89a_ 163 FPE-LAMLSARKGAFAMIYPSAFNTVTG-PLHWHLLARSRAVDNQVYVMLCSPARNLQSS 220 query 226 LVFDGDSIVVDRDGEVVARAPQFSEGCVVLDLDL--PA--------------AEAEPPTG 269 ::::::::::::::::::::: :::::::::::: :: d1f89a_ 221 YHAYGHSIVVDPRGKIVAEAG-EGEEIIYAELDPEVIESFRQAVPLTKQRRF-------- 271 query 270 VVDDGLRIDRLVISEEPLPAYEAELAGGYADRL 302 d1f89a_ 272 --------------------------------- 272 HHsearch alignment (Probability: 1.00 E-value:0.00) query 1 SLQLRLALNQIDSTVGDIAGNAEAILRWTRHSAEQ--GAHLVAFPEMALTGYPVEDLALR 58 ::::::::::::::::::::::::::::::::::: ::::::::::::::::::::::: d1f89a_ 7 SQKIKVALVQLSGSSPDKMANLQRAATFIERAMKEQPDTKLVVLPECFNSPYSTDQFRKY 66 query 59 SSFVE-----ASRTALRELAARLAEEGFGELPVLVGYLDRSESAQPKYGQPAGAPRNAAA 113 ::::: ::::::::::::: ::::::::::::: ::::::::::: d1f89a_ 67 SEVINPKEPSTSVQFLSNLANKF------KIILVGGTIPELD-------PKTDKIYNTSI 113 query 114 VLH-RGRVALTFAKHHLPNYGVFDEFRYFVPGDTMPIVRLHGVDIALAICEDLWQDGGRV 172 ::: ::::::::::::: ::::::::::::::::::::::::::::::::::: :: d1f89a_ 114 IFNEDGKLIDKHRKVHL-----FHESETLSPGEKSTTIDTKYGKFGVGICYDMRFPE-LA 167 query 173 PAARSAGAGLLLSVNASPYERDKDDTRLELVRKRAQEAGCTTAYLAMIGG-QDELVFDGD 231 :::::::::::::::::::::::: ::::::::::::::::::::::::: ::::::::: d1f89a_ 168 MLSARKGAFAMIYPSAFNTVTGPL-HWHLLARSRAVDNQVYVMLCSPARNLQSSYHAYGH 226 query 232 SIVVDRDGEVVARAPQFSEGCVVLDLDLPAAEAEPPTGVVDDGLR 276 :::::::::::::::: :::::::::::::::::::::::::::: d1f89a_ 227 SIVVDPRGKIVAEAGE-GEEIIYAELDPEVIESFRQAVPLTKQRR 270
Intermediate <-- 1.000 --> Hit
DALI alignment (Z-score: 30.6 Raw score:3048.70) d1f89a_ 1 saskilSQKIKVALVQLSGSS--PDKMANLQRAATFIERAMKEQpdTKLVVLPECFNSPY 58 ::::::::::::::: ::::::::::::::::::::: :::::::::::::: d1uf5a_ 1 ------TRQMILAVGQQGPIAraETREQVVVRLLDMLTKAASRG--ANFIVFPELALTTF 52 d1f89a_ 59 ST-------dqfRKYSEVINpkePSTSVQFLSNLANKFKIILVGgTIPELDPK--TDKIY 109 :: :::::::: ::::::::::::::::::::: :::::::: ::::: d1uf5a_ 53 FPrwhftdeaelDSFYETEM---PGPVVRPLFEKAAELGIGFNL-GYAELVVEggVKRRF 108 d1f89a_ 110 NTSIIFNEDGKLIDKHRKVHL-------------FHESETLSPGE-KSTTIDTKYGKFGV 155 ::::::::::::::::::::: ::::::::::: :::::::::::::: d1uf5a_ 109 NTSILVDKSGKIVGKYRKIHLpghkeyeayrpfqHLEKRYFEPGDlGFPVYDVDAAKMGM 168 d1f89a_ 156 GICYDMRFPELAMLSARKGAFAMIYPSAFNTV---------TGPLHWHLLARSRAVDNQV 206 :::::::::::::::::::::::::::::::: ::::::::::::::::::: d1uf5a_ 169 FIANDRRWPEAWRVMGLRGAEIICGGYNTPTHnppvpqhdhLTSFHHLLSMQAGSYQNGA 228 d1f89a_ 207 YVMLCSPARNLqSSYHAYGHSIVVDPRGKIVAEAGEGE-EIIYAELDPEVIESFRQA-VP 264 ::::::::::: :::::::::::::::::::::::::: :::::::::::::::::: :: d1uf5a_ 229 WSAAAGKAGME-ENCMLLGHSCIVAPTGEIVALTTTLEdEVITAAVDLDRCRELREHiFN 287 d1f89a_ 265 LT--KQRRF------- 271 :: ::::: d1uf5a_ 288 FKqhRQPQHygliael 303 FAST alignment (Normalized score: 21.00 Raw score:6019.00) d1f89a_ 1 SASKILSQKIKVALVQLSGSS--PDKMANLQRAATFIERAMKEQPDTKLVVLPECFNSPY 58 ::::::::::::::: ::::::::::::::::::: :::::::::::::::: d1uf5a_ 1 ------TRQMILAVGQQGPIARAETREQVVVRLLDMLTKAAS--RGANFIVFPELALTTF 52 d1f89a_ 59 ST--------DQFRKYSEVINPKEPSTS---------VQFLSNLANKFKIILVGGTIPEL 101 : :::::: :::::::::::::::: :::::: d1uf5a_ 53 F-PRWHFTDEAELDSF------------YETEMPGPVVRPLFEKAAELGIGFN-LGYAEL 98 d1f89a_ 102 DP---KTDKIYNTSIIFNEDGKLIDKHRKVHL--------------FHESETLSPGE-KS 143 : :::::::::::::::::::::::::: ::::::::::: :: d1uf5a_ 99 V-VEGGVKRRFNTSILVDKSGKIVGKYRKIH-LPGHKEYEAYRPFQHLEKRYFEPGDLGF 156 d1f89a_ 144 TTIDTKYGKFGVGICYDMRFPELAMLSARKGAFAMIYPSAFNTVTG------------PL 191 ::::::::::::::::::::::::::::::::::::::::::: :: d1uf5a_ 157 PVYDVDAAKMGMFIANDRRWPEAWRVMGLRGAEIICGGYNTPT---HNPPVPQHDHLTSF 213 d1f89a_ 192 HWHLLARSRAVDNQVYVMLCSPARNLQ---SSYHAYGHSIVVDPRGKIVAEA-GEGEEII 247 ::::::::::::::::::::::: :::::::::::::::::::::: ::::::: d1uf5a_ 214 HHLLSMQAGSYQNGAWSAAAGKA----GMEENCMLLGHSCIVAPTGEIVALTTTLEDEVI 269 d1f89a_ 248 YAELDPEVIESFRQ-AVPL--TKQRRF--------- 271 :::::::::::::: :::: :::: d1uf5a_ 270 TAAVDLDRCRELREHIFNFKQHRQP--QHYGLIAEL 303 TMalign alignment (TM-score: 0.87 Raw score:236.59) d1f89a_ 1 SASKILSQKIKVALVQLSGSS-P-DKMANLQRAATFIERAMKEQPDTKLVVLPECFNSPY 58 ::::::::::::::: : :::::::::::::::::: : ::::::::::::::: d1uf5a_ 1 ------TRQMILAVGQQGPIARAETREQVVVRLLDMLTKAAS-R-GANFIVFPELALTTF 52 d1f89a_ 59 ST---D----QFRKYSEVINPKEPSTSVQFLSNLANKFKIILVGGTIPELDPK--TDKIY 109 :: : :::::::::: ::::::::::::::::::::: :::::::: ::::: d1uf5a_ 53 FPRWHFTDEAELDSFYETEM---PGPVVRPLFEKAAELGIGFNL-GYAELVVEGGVKRRF 108 d1f89a_ 110 NTSIIFNEDGKLIDKHRKVHL---F----------HESETLSPGEK-STTIDTKYGKFGV 155 ::::::::::::::::::::: : ::::::::::: ::::::::::::: d1uf5a_ 109 NTSILVDKSGKIVGKYRKIHLPGHKEYEAYRPFQHLEKRYFEPGDLGFPVYDVDAAKMGM 168 d1f89a_ 156 GICYDMRFPELAMLSARKGAFAMIYPSAFNT--------V-TGPLHWHLLARSRAVDNQV 206 ::::::::::::::::::::::::::::::: : ::::::::::::::::::: d1uf5a_ 169 FIANDRRWPEAWRVMGLRGAEIICGGYNTPTHNPPVPQHDHLTSFHHLLSMQAGSYQNGA 228 d1f89a_ 207 YVMLCSPARNLQSSYHAYGHSIVVDPRGKIVAEAGEGE-EIIYAELDPEVIESFRQAVPL 265 ::::::::: :::::::::::::::::::::::::::: ::::::::::::::::::::: d1uf5a_ 229 WSAAAGKAG-MEENCMLLGHSCIVAPTGEIVALTTTLEDEVITAAVDLDRCRELREHIFN 287 d1f89a_ 266 --TKQR-RF------- 271 :::: :: d1uf5a_ 288 FKQHRQPQHYGLIAEL 303 HHsearch alignment (Probability: 1.00 E-value:0.00) d1f89a_ 7 SQKIKVALVQLSGS--SPDKMANLQRAATFIERAMKEQPDTKLVVLPECFNSPYSTD--- 61 :::::::::::::: ::::::::::::::::::::: :::::::::::::::::: d1uf5a_ 1 TRQMILAVGQQGPIARAETREQVVVRLLDMLTKAASR--GANFIVFPELALTTFFPRWHF 58 d1f89a_ 62 -QFRKYSEVINPKEPSTSVQFLSNLANKFKIILVGGTIPE-LDPKTDKIYNTSIIFNEDG 119 ::::::::::::::::::::::::::::::::::::::: ::::::::::::::::::: d1uf5a_ 59 TDEAELDSFYETEMPGPVVRPLFEKAAELGIGFNLGYAELVVEGGVKRRFNTSILVDKSG 118 d1f89a_ 120 KLIDKHRKVHLFH-------------ESETLSPGEK-STTIDTKYGKFGVGICYDMRFPE 165 ::::::::::::: :::::::::: ::::::::::::::::::::::: d1uf5a_ 119 KIVGKYRKIHLPGHKEYEAYRPFQHLEKRYFEPGDLGFPVYDVDAAKMGMFIANDRRWPE 178 d1f89a_ 166 LAMLSARKGAFAMIYPSAFNTVTGP---------LHWHLLARSRAVDNQVYVMLCSPARN 216 ::::::::::::::::::::::::: :::::::::::::::::::::::::: d1uf5a_ 179 AWRVMGLRGAEIICGGYNTPTHNPPVPQHDHLTSFHHLLSMQAGSYQNGAWSAAAGKAGM 238 d1f89a_ 217 LQSSYHAYGHSIVVDPRGKIVAEAG-EGEEIIYAELDPEVIESFRQAVPL-TKQRR 270 :::::::::::::::::::::::: :::::::::::::::::::::::: ::::: d1uf5a_ 239 -EENCMLLGHSCIVAPTGEIVALTTTLEDEVITAAVDLDRCRELREHIFNFKQHRQ 293