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 (d1f89a_) through the intermediate protein (d1uf5a_) by significant HHsearch probability (>0.9).

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

Supporting Alignments

Query <-- 1.000 --> Intermediate
DALI alignment (Z-score: 24.9 Raw score:2592.30) query 1 SLQLRLALNQIDSTV--GDIAGNAEAILRWTRHSAEQGAHLVAFPEMALtGYPVE----- 53 ::::::::::::::: :::::::::::::::::::::::::::::::: ::::: d1uf5a_ 1 TRQMILAVGQQGPIAraETREQVVVRLLDMLTKAASRGANFIVFPELAL-TTFFPrwhft 59 query 54 --dLALRssFVEASRT-ALRELAARLAeegFGELPVLVGYLDRSESAqpkygqPAGAPRN 110 :::: ::::::: :::::::::: ::::::::::::::::: ::::::: d1uf5a_ 60 deaELDS-fYETEMPGpVVRPLFEKAA---ELGIGFNLGYAELVVEG------GVKRRFN 109 query 111 AAAVLH-RGRVALTFAKHHLPNY--------gVFDEFRYFVPGD-TMPIVRLHGVDIALA 160 :::::: :::::::::::::::: :::::::::::: ::::::::::::::: d1uf5a_ 110 TSILVDkSGKIVGKYRKIHLPGHkeyeayrpfQHLEKRYFEPGDlGFPVYDVDAAKMGMF 169 query 161 ICEDLWQDgGRVPAARSAGAGLLLSVNASPYE------RDKD--DTRLELVRKRAQEAGC 212 :::::::: ::::::::::::::::::::::: :::: :::::::::::::::: d1uf5a_ 170 IANDRRWP-EAWRVMGLRGAEIICGGYNTPTHnppvpqHDHLtsFHHLLSMQAGSYQNGA 228 query 213 TTAYLAMIGGQDELVFDGDSIVVDRDGEVVARAPQFSEGCVVLDLDLPaaeaepptgvvd 272 :::::::::::::::::::::::::::::::::::::::::::::::: d1uf5a_ 229 WSAAAGKAGMEENCMLLGHSCIVAPTGEIVALTTTLEDEVITAAVDLD------------ 276 query 273 dglridrlviseeplpayeaelaggyadrl 302 d1uf5a_ 277 ---rcrelrehifnfkqhrqpqhygliael 303 FAST alignment (Normalized score: 18.04 Raw score:5458.00) query 1 SLQLRLALNQ-IDSTVG-DIAGNAEAILRWTRHSAEQGAHLVAFPEMALTGYPVEDLAL- 57 :::::::::: :::::: ::::::::::::::::::::::::::::::::: d1uf5a_ 1 TRQMILAVGQQGPIARAETREQVVVRLLDMLTKAASRGANFIVFPELALTT--------F 52 query 58 -----------RSSFVEAS------RTALRELAARLAEEGFGELPVLVGYLDRSESAQPK 100 :::: ::::::::::::: ::::::::::::: d1uf5a_ 53 FPRWHFTDEAELDSF----YETEMPGPVVRPLFEKAAE---LGIGFNLGYAELV------ 99 query 101 YGQP----AGAPRNAAAV-LHRGRVALTFAKHHLPNYG------------VFDEFRYFVP 143 :::::::::: ::::::::::::::: :::::::::: d1uf5a_ 100 ----VEGGVKRRFNTSILVDKSGKIVGKYRKIHL----PGHKEYEAYRPFQHLEKRYFEP 151 query 144 GD-TMPIVRLHGVDIALAICEDLWQDGGRVPAARSAGAGLLLSVNASPYERDKD------ 196 :: ::::::::::::::::::::::: ::::::::::::::::::::: d1uf5a_ 152 GDLGFPVYDVDAAKMGMFIANDRRWP-EAWRVMGLRGAEIICGGYNTP------THNPPV 204 query 197 --------DTRLELVRKRAQEAGCTTAYLAMIGGQDELVFDGDSIVVDRDGEVVARAPQF 248 :::::::::::::::::::::::::::::::::::::::::::::::::::: d1uf5a_ 205 PQHDHLTSFHHLLSMQAGSYQNGAWSAAAGKAGMEENCMLLGHSCIVAPTGEIVALTTTL 264 query 249 SEGCVVLDLDLPAAEAEPPTGVVDDGLRIDRLVISEEPLPAYEAELAGGYADRL------ 302 :::::::::: d1uf5a_ 265 EDEVITAAVD--------------------------------------------LDRCRE 280 query 303 ----------------------- 303 d1uf5a_ 281 LREHIFNFKQHRQPQHYGLIAEL 303 TMalign alignment (TM-score: 0.73 Raw score:221.60) query 1 SLQLRLALNQID-STVGD-IAGNAEAILRWTRHSAEQGAHLVAFPEMALTGYPV-E-DLA 56 :::::::::::: ::::: ::::::::::::::::::::::::::::::::::: : ::: d1uf5a_ 1 TRQMILAVGQQGPIARAETREQVVVRLLDMLTKAASRGANFIVFPELALTTFFPRWHFTD 60 query 57 LR-SSFVEASRTALRELAARLAEEGFG-ELPVLVGYLDRSESAQPKYGQPAGAPRNAAAV 114 :: ::::: :::::::::::::::::: ::::::::::::::: ::::::::::: d1uf5a_ 61 EAELDSFY-ETEMPGPVVRPLFEKAAELGIGFNLGYAELVVEG------GVKRRFNTSIL 113 query 115 LH-RGRVALTFAKHHLPNYG--------VFDEFRYFVPGDT-MPIVRLHGVDIALAICED 164 :: ::::::::::::::::: ::::::::::::: :::::::::::::::::: d1uf5a_ 114 VDKSGKIVGKYRKIHLPGHKEYEAYRPFQHLEKRYFEPGDLGFPVYDVDAAKMGMFIAND 173 query 165 LWQDGGRVPAARSAGAGLLLSVNASPYE-------RDKD-DTRLELVRKRAQEAGCTTAY 216 ::::: :::::::::::::::::::::: :::: :::::::::::::::::::: d1uf5a_ 174 RRWPE-AWRVMGLRGAEIICGGYNTPTHNPPVPQHDHLTSFHHLLSMQAGSYQNGAWSAA 232 query 217 LAMIGGQDELVFDGDSIVVDRDGEVVARAPQFSEGCVVLDLDLPAAE------------- 263 ::::::::::::::::::::::::::::::::::::::::::::::: d1uf5a_ 233 AGKAGMEENCMLLGHSCIVAPTGEIVALTTTLEDEVITAAVDLDRCRELREHIFNFKQHR 292 query 264 -------AEPPTGVVDDG-LRIDRLVISEEPLPAYEAELAGGYADRL 302 ::: d1uf5a_ 293 QPQHYGL--------IAEL---------------------------- 303 HHsearch alignment (Probability: 1.00 E-value:0.00) query 1 SLQLRLALNQIDST--VGDIAGNAEAILRWTRHSAEQGAHLVAFPEMALTGYPVEDLALR 58 :::::::::::::: :::::::::::::::::::::::::::::::::::::::::::: d1uf5a_ 1 TRQMILAVGQQGPIARAETREQVVVRLLDMLTKAASRGANFIVFPELALTTFFPRWHFTD 60 query 59 SSFVEA---------SRTALRELAARLAEEGFGELPVLVGYLDRSESAQPKYGQPAGAPR 109 :::::: :::::::::::: :::::::::::::: ::::::: d1uf5a_ 61 EAELDSFYETEMPGPVVRPLFEKAAEL------GIGFNLGYAELVVE------GGVKRRF 108 query 110 NAAAVLH-RGRVALTFAKHHLPNYGVFD--------EFRYFVPGDT-MPIVRLHGVDIAL 159 ::::::: :::::::::::::::::::: :::::::::: ::::::::::::: d1uf5a_ 109 NTSILVDKSGKIVGKYRKIHLPGHKEYEAYRPFQHLEKRYFEPGDLGFPVYDVDAAKMGM 168 query 160 AICEDLWQDGGRVPAARSAGAGLLLSVNASPYERDKDDT--------RLELVRKRAQEAG 211 :::::::::: :::::::::::::::::::::::::::: ::::::::::::: d1uf5a_ 169 FIANDRRWPE-AWRVMGLRGAEIICGGYNTPTHNPPVPQHDHLTSFHHLLSMQAGSYQNG 227 query 212 CTTAYLAMIGGQDELVFDGDSIVVDRDGEVVARAPQFSEGCVVLDLDLPAAEAEPPT-GV 270 ::::::::::::::::::::::::::::::::::::::::::::::::::::::::: :: d1uf5a_ 228 AWSAAAGKAGMEENCMLLGHSCIVAPTGEIVALTTTLEDEVITAAVDLDRCRELREHIFN 287 query 271 VDDGLRID 278 :::::::: d1uf5a_ 288 FKQHRQPQ 295
Intermediate <-- 1.000 --> Hit
DALI alignment (Z-score: 30.6 Raw score:3048.70) d1uf5a_ 1 ------TRQMILAVGQQGPIAraETREQVVVRLLDMLTKAASRG--ANFIVFPELALTTF 52 ::::::::::::::: ::::::::::::::::::::: :::::::::::::: d1f89a_ 1 saskilSQKIKVALVQLSGSS--PDKMANLQRAATFIERAMKEQpdTKLVVLPECFNSPY 58 d1uf5a_ 53 FPrwhftdeaelDSFYETEM---PGPVVRPLFEKAAELGIGFNL-GYAELVVEggVKRRF 108 :: :::::::: ::::::::::::::::::::: :::::::: ::::: d1f89a_ 59 ST-------dqfRKYSEVINpkePSTSVQFLSNLANKFKIILVGgTIPELDPK--TDKIY 109 d1uf5a_ 109 NTSILVDKSGKIVGKYRKIHLpghkeyeayrpfqHLEKRYFEPGDlGFPVYDVDAAKMGM 168 ::::::::::::::::::::: ::::::::::: :::::::::::::: d1f89a_ 110 NTSIIFNEDGKLIDKHRKVHL-------------FHESETLSPGE-KSTTIDTKYGKFGV 155 d1uf5a_ 169 FIANDRRWPEAWRVMGLRGAEIICGGYNTPTHnppvpqhdhLTSFHHLLSMQAGSYQNGA 228 :::::::::::::::::::::::::::::::: ::::::::::::::::::: d1f89a_ 156 GICYDMRFPELAMLSARKGAFAMIYPSAFNTV---------TGPLHWHLLARSRAVDNQV 206 d1uf5a_ 229 WSAAAGKAGME-ENCMLLGHSCIVAPTGEIVALTTTLEdEVITAAVDLDRCRELREHiFN 287 ::::::::::: :::::::::::::::::::::::::: :::::::::::::::::: :: d1f89a_ 207 YVMLCSPARNLqSSYHAYGHSIVVDPRGKIVAEAGEGE-EIIYAELDPEVIESFRQA-VP 264 d1uf5a_ 288 FKqhRQPQHygliael 303 :: ::::: d1f89a_ 265 LT--KQRRF------- 271 FAST alignment (Normalized score: 21.00 Raw score:6019.00) d1uf5a_ 1 ------TRQMILAVGQQGPIARAETREQVVVRLLDMLTKAAS--RGANFIVFPELALTTF 52 ::::::::::::::: ::::::::::::::::::: :::::::::::::::: d1f89a_ 1 SASKILSQKIKVALVQLSGSS--PDKMANLQRAATFIERAMKEQPDTKLVVLPECFNSPY 58 d1uf5a_ 53 FPRWHFTDE-AELDSFYETEMPGPV------------VRPLFEKAAELGIGFN-LGYAEL 98 : :::::: :::::::::::::::: :::::: d1f89a_ 59 S--------TDQFRKY---------SEVINPKEPSTSVQFLSNLANKFKIILVGGTIPEL 101 d1uf5a_ 99 VVEG-GVKRRFNTSILVDKSGKIVGKYRKIHLPGHKEYEAYRPFQ-HLEKRYFEPGDLGF 156 : :::::::::::::::::::::::::: ::::::::::: :: d1f89a_ 102 D---PKTDKIYNTSIIFNEDGKLIDKHRKVH--------------LFHESETLSPGE-KS 143 d1uf5a_ 157 PVYDVDAAKMGMFIANDRRWPEAWRVMGLRGAEIICGGYNTPTHNPPVPQHDHLT---SF 213 ::::::::::::::::::::::::::::::::::::::::::: :: d1f89a_ 144 TTIDTKYGKFGVGICYDMRFPELAMLSARKGAFAMIYPSAFNT------------VTGPL 191 d1uf5a_ 214 HHLLSMQAGSYQNGAWSAAAGKAGME----ENCMLLGHSCIVAPTGEIVALTTTLEDEVI 269 ::::::::::::::::::::::: :::::::::::::::::::::: ::::::: d1f89a_ 192 HWHLLARSRAVDNQVYVMLCSPA---RNLQSSYHAYGHSIVVDPRGKIVAEA-GEGEEII 247 d1uf5a_ 270 TAAVDLDRCRELREHIFNFKQHRQPQHYGLIAEL-- 303 :::::::::::::: :::: :::: d1f89a_ 248 YAELDPEVIESFRQ-AVPL--TKQR---------RF 271 TMalign alignment (TM-score: 0.79 Raw score:238.28) d1uf5a_ 1 ------TRQMILAVGQQGPIARAETREQVVVRLLDMLTKAAS-R-GANFIVFPELALTTF 52 ::::::::::::::: : :::::::::::::::::: : ::::::::::::::: d1f89a_ 1 SASKILSQKIKVALVQLSGSS-P-DKMANLQRAATFIERAMKEQPDTKLVVLPECFNSPY 58 d1uf5a_ 53 FPRWHFTDEAELDSFYETEM---PGPVVRPLFEKAAELGIGFNL-GYAELVVEGGVKRRF 108 :: : :::::::::: ::::::::::::::::::::: :::::::: ::::: d1f89a_ 59 ST---D----QFRKYSEVINPKEPSTSVQFLSNLANKFKIILVGGTIPELDPK--TDKIY 109 d1uf5a_ 109 NTSILVDKSGKIVGKYRKIHLPGHKEYEAYRPFQHLEKRYFEPGDLGFPVYDVDAAKMGM 168 ::::::::::::::::::::: : ::::::::::: ::::::::::::: d1f89a_ 110 NTSIIFNEDGKLIDKHRKVHL---F----------HESETLSPGEK-STTIDTKYGKFGV 155 d1uf5a_ 169 FIANDRRWPEAWRVMGLRGAEIICGGYNTPTHNPPVPQHDHLTSFHHLLSMQAGSYQNGA 228 ::::::::::::::::::::::::::::::: : ::::::::::::::::::: d1f89a_ 156 GICYDMRFPELAMLSARKGAFAMIYPSAFNT--------V-TGPLHWHLLARSRAVDNQV 206 d1uf5a_ 229 WSAAAGKAG-MEENCMLLGHSCIVAPTGEIVALTTTLEDEVITAAVDLDRCRELREHIFN 287 ::::::::: :::::::::::::::::::::::::::: ::::::::::::::::::::: d1f89a_ 207 YVMLCSPARNLQSSYHAYGHSIVVDPRGKIVAEAGEGE-EIIYAELDPEVIESFRQAVPL 265 d1uf5a_ 288 FKQHRQPQHYGLIAEL 303 :::: :: d1f89a_ 266 --TKQR-RF------- 271 HHsearch alignment (Probability: 1.00 E-value:0.00) d1uf5a_ 1 TRQMILAVGQQGPIARAETREQVVVRLLDMLTKAASR--GANFIVFPELALTTFFPRWHF 58 :::::::::::::: ::::::::::::::::::::: :::::::::::::::::: d1f89a_ 7 SQKIKVALVQLSGS--SPDKMANLQRAATFIERAMKEQPDTKLVVLPECFNSPYSTD--- 61 d1uf5a_ 59 TDEAELDSFYETEMPGPVVRPLFEKAAELGIGFNLGYAELVVEGGVKRRFNTSILVDKSG 118 ::::::::::::::::::::::::::::::::::::::: ::::::::::::::::::: d1f89a_ 62 -QFRKYSEVINPKEPSTSVQFLSNLANKFKIILVGGTIPE-LDPKTDKIYNTSIIFNEDG 119 d1uf5a_ 119 KIVGKYRKIHLPGHKEYEAYRPFQHLEKRYFEPGDLGFPVYDVDAAKMGMFIANDRRWPE 178 ::::::::::::: :::::::::: ::::::::::::::::::::::: d1f89a_ 120 KLIDKHRKVHLFH-------------ESETLSPGEK-STTIDTKYGKFGVGICYDMRFPE 165 d1uf5a_ 179 AWRVMGLRGAEIICGGYNTPTHNPPVPQHDHLTSFHHLLSMQAGSYQNGAWSAAAGKAGM 238 ::::::::::::::::::::::::: :::::::::::::::::::::::::: d1f89a_ 166 LAMLSARKGAFAMIYPSAFNTVTGP---------LHWHLLARSRAVDNQVYVMLCSPARN 216 d1uf5a_ 239 -EENCMLLGHSCIVAPTGEIVALTTTLEDEVITAAVDLDRCRELREHIFNFKQHRQ 293 :::::::::::::::::::::::: :::::::::::::::::::::::: ::::: d1f89a_ 217 LQSSYHAYGHSIVVDPRGKIVAEAG-EGEEIIYAELDPEVIESFRQAVPL-TKQRR 270