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: T515_B.pdb B
Database: SCOP1.69 less than 40% identity downloaded from ASTRAL
| SCOP Id | Protein | SCOP Superfamily | SCOP Fold | SCOP Class |
|
|---|---|---|---|---|---|
| Intermediate | d1ct5a_ | (Hypothetical( protein ybl036c | PLP-binding barrel | TIM beta/alpha-barrel | α/β |
| Hit | d1gkpa2 | D-hydantoinase | Metallo-dependent hydrolases | TIM beta/alpha-barrel | α/β |
Query <-- 1.881 --> IntermediateDALI alignment (Z-score: 13.8 Raw score:1257.60) query 1 mietpyyLIDK-AKLTRNMERIAHVREKS----GAKALLALKcFATWSVFDLMR-DYMDG 54 :::: ::::::::::::::::: ::::::::: ::::::::::: ::::: d1ct5a_ 1 --tgityDEDRkTQLIAQYESVREVVNAEaknvKILLLVVSK-LKPASDIQILYdHGVRE 57 query 55 TTSSSLFEVRLGRERFG--KETHAYSVAYGDnEIDEVVSH--ADKII-FNSISQLERFAD 109 ::::::::::::::::: :::::::::::: :::::::: ::::: :::::::::::: d1ct5a_ 58 FGENYVQELIEKAKLLPddIKWHFIGGLQTN-KCKDLAKVpnLYSVEtIDSLKKAKKLNE 116 query 110 KAA-------GIARGLRLNPQ----RLGEWDVPKVER-VMDR---------INGFMIHNN 148 ::: ::::::::::: :::::::::::: :::: ::::::::: d1ct5a_ 117 SRAkfqpdcnPILCNVQINTShedqKSGLNNEAEIFEvIDFFlseeckyikLNGLMTIGS 176 query 149 CenkdfglfDRMLGEIEERFGALI---aRVDWVSLGGGIhftgddypvdafsARLRAFSd 205 : ::::::::::::::: ::::::::::: ::::::: d1ct5a_ 177 W--------NRDFATLVEWKKKIDakfgTSLKLSMGMSA-----------dfREAIRQG- 216 query 206 rygvqIYLEPGEASITksttlevtvldtlynknlaivdssieahmldlliyretakvlpn 265 ::::::::::: d1ct5a_ 217 ----tAEVRIGTDIFG-------------------------------------------- 228 query 266 egshsymicgksclagdvfgefrfaeelkvgdrisfqdaagytmvkknwfngvkmpaiai 325 d1ct5a_ 229 ------------------------------------------------------------ 229 query 326 reldgsvrtvreftyadyeqsls 348 d1ct5a_ 229 ----------------------- 229 FAST alignment (Normalized score: 7.94 Raw score:2236.00) query 1 MIETPYYLI--------DKAKLTRNMERIAHVREK----SGAKALLALKCFATWSVFDLM 48 :::::::::::::::::: ::::::::::: ::::::::: d1ct5a_ 1 ---------TGITYDEDRKTQLIAQYESVREVVNAEAKNVKILLLVVSKL-KPASDIQIL 50 query 49 RD-YMDGTTSSSLFEVRLGRERFG---KETHAYSVAYGDNEIDEVV--SHADKI-IFNSI 101 :: :::::::::::::::::::: ::::::: ::::::::::: :::::: ::::: d1ct5a_ 51 YDHGVREFGENYVQELIEKAKLL-PDDIKWHFIG-GLQTNKCKDLAKVPNLYSVETIDSL 108 query 102 SQLERFADKAA--------GIARGLRLNP-----QRLGEWDVPKVERVMD---------- 138 :::::::::: ::::::::: :::::::::::::::: d1ct5a_ 109 KKAKKLNESR-AKFQPDCNPILCNVQIN-TSHEDQKSGLNNEAEIFEVIDFFLSEECKYI 166 query 139 RINGFMIHNNCENKDFGL-FDRMLGEIEERFGALIARVDWV---------SLGGGIHFTG 188 ::::::::: ::::::::::::::::: :::: d1ct5a_ 167 KLNGLMTIG---------SWNRDFATLVEWKKKIDA-----KFGTSLKLSMGMS------ 206 query 189 DDYPVDAFSA-RLRAFSDRYGVQIYLEPGEASITKSTTLEVTVLDTLYNKNLAIVDSSIE 247 ::::::: ::: :::::::::: d1ct5a_ 207 ----------ADFREAIR-QGT-AEVRIGTDIF--------------------------- 227 query 248 AHMLDLLIYRETAKVLPNEGSHSYMICGKSCLAGDVFGEFRFAEELKVGDRISFQDAAGY 307 d1ct5a_ 228 ------------------------------------------------------------ 228 query 308 TMVKKNWFNGVKMPAIAIRELDGSVRTVREFTYADYEQSLS- 348 d1ct5a_ 228 -----------------------------------------G 228 TMalign alignment (TM-score: 0.46 Raw score:159.99) query 1 -----MIETPYYLIDKAKLTRNMERIAHVREK-S---GAKALLALKCFATWSVFDLMR-D 50 ::::::::::::::::::::: : ::::::::::: ::::::::: : d1ct5a_ 1 TGITY------DEDRKTQLIAQYESVREVVNAEAKNVKILLLVVSKLK-PASDIQILYDH 53 query 51 YMDGTTSS-SLFEVRLGRERF-GKETHAY-SVAY-GDNEIDEVVSHADKII-FNSISQLE 105 :::::::: :::::::::::: ::::::: :::: :::::::: ::::::: :::::::: d1ct5a_ 54 GVREFGENYVQELIEKAKLLPDDIKWHFIGGLQTNKCKDLAKV-PNLYSVETIDSLKKAK 112 query 106 RFADKAA-------GIARGLRLNPQ----RLGEWDVPKVERVMD-R---------INGFM 144 ::::::: ::::::::::: ::::::::::::::: : ::::: d1ct5a_ 113 KLNESRAKFQPDCNPILCNVQINTSHEDQKSGLNNEAEIFEVIDFFLSEECKYIKLNGLM 172 query 145 IHNNCENKDFGLFDRMLGEIEERFGALIA---RVDWVSLGGGIHFTGDDYPVDAFSARLR 201 ::::: :::::::::::::::: ::::::::::::: :: ::: d1ct5a_ 173 TIGSW--------NRDFATLVEWKKKIDAKFGTSLKLSMGMSADF---------RE-AIR 214 query 202 AFSDRYGVQIYLEPGEASITKSTTLEVTVLDTLYNKNLAIVDSSIEAHMLDLLIYRETAK 261 ::: ::::::::::: d1ct5a_ 215 QGT------AEVRIGTDIFG---------------------------------------- 228 query 262 VLPNEGSHSYMICGKSCLAGDVFGEFRFAEELKVGDRISFQDAAGYTMVKKNWFNGVKMP 321 d1ct5a_ 229 ------------------------------------------------------------ 229 query 322 AIAIRELDGSVRTVREFTYADYEQSLS 348 d1ct5a_ 229 --------------------------- 229 HHsearch alignment (Probability: 0.69 E-value:0.00) query 11 KAKLTRNMERIAHVRE----KSGAKALLALKCFATWSVFDLMRDYMDGTTSSSLFEVRLG 66 :::::::::::::::: :::::::::::::::::::::::::::::::::::::::: d1ct5a_ 10 KTQLIAQYESVREVVNAEAKNVKILLLVVSKLKPASDIQILYDHGVREFGENYVQELIEK 69 query 67 RERFGKETHAYSVA----YGDNEIDEVVSHADKIIFNSISQLERFADKAAGIA------- 115 :::::::::::::: ::::::::::::::::::::::::::::::::::: d1ct5a_ 70 AKLLPDDIKWHFIGGLQTNKCKDLAKVPNLYSVETIDSLKKAKKLNESRAKFQPDCNPIL 129 query 116 RGLRLN----PQRLGEWDVPKVERVM-----DRINGFMIHNNCENKDFGLFDRMLGEIEE 166 :::::: :::::::::::::::: ::::::::::::::::::::::::::::: d1ct5a_ 130 CNVQINTSHEDQKSGLNNEAEIFEVIDFFLSEECKYIKLNGLMTIGSWNRDFATLVEWKK 189 query 167 RFGALIARVDWVSLG 181 ::::::::::::::: d1ct5a_ 190 KIDAKFGTSLKLSMG 204
Intermediate <-- 1.116 --> HitDALI alignment (Z-score: 9.0 Raw score:1006.90) d1ct5a_ 1 -----------------------------------tgitydedrktQLIAQYESVREVVN 25 :::::::::::::: d1gkpa2 1 fidphvhiylpfmatfakdthetgskaalmggtttyiemccpsrndDALEGYQLWKSKAE 60 d1ct5a_ 26 AEAKnVKILLLVVSKLK---PASDIQILYDHGVREFGENY---------vQELIEKAKL- 72 :::: :::::::::::: :::::::::::::::::::: ::::::::: d1gkpa2 61 GNSY-CDYTFHMAVSKFdekTEGQLREIVADGISSFXIFLsyknffgvddGEMYQTLRLa 119 d1ct5a_ 73 LPDDIKWHFIGG------------------------------lQTNKCKDLAKVP----N 98 :::::::::::: :::::::::::: : d1gkpa2 120 KELGVIVTAHCEnaelvgrlqqkllsegktgpewhepsrpeavEAEGTARFATFLettgA 179 d1ct5a_ 99 LYSVETIDSLKKAKKLNESRAKFQpdcnPILCNVQIN--------------tshEDQKS- 143 :::::::::::::::::::::::: ::::::::: ::::: d1gkpa2 180 TGYVVHLSCKPALDAAMAAKARGV----PIYIESVIPhflldktyaerggveamKYIMSp 235 d1ct5a_ 144 GLNNEAEIFEVIDFFLSeeckyiKLNGLMTIGSW-------------------nrDFATL 184 ::::::::::::::::: ::::::::::: ::::: d1gkpa2 236 PLRDKRNQKVLWDALAQ-----gFIDTVGTDHCPfdteqkllgkeaftaipngipAIEDR 290 d1ct5a_ 185 VEWKKKID---AKFG----TSLKlsmgmsadfreairqgtaevrigtdifg 228 :::::::: :::: :::: d1gkpa2 291 VNLLYTYGvsrGRLDihrfVDAA------stkaaklfglfprkgtiavgsd 335 FAST alignment (Normalized score: 5.69 Raw score:1572.00) d1ct5a_ 1 TGITYDEDRKT----------------------------------------------QLI 14 ::: d1gkpa2 1 -----------FIDPHVHIYLPFMATFAKDTHETGSKAALMGGTTTYIEMCCPSRNDDAL 49 d1ct5a_ 15 AQYESVREVVNAEAKNVKILLLVVSKLK-----PASDIQILYDHGVREFGE--------- 60 ::::::::::::: :::::::::::: :::::::::::::::::: d1gkpa2 50 EGYQLWKSKAEGN-SYCDYTFHMAVS--KFDEKTEGQLREIVADGISSFAIFLSYKNFFG 106 d1ct5a_ 61 NYVQELIEKAKLLP---DDIKWHFIGGL-------------------------------- 85 :::::::::::: :::::::: d1gkpa2 107 VDDGEMYQTLRL--AKELGVIVTAH---CENAELVGRLQQKLLSEGKTGPEWHEPSRPEA 161 d1ct5a_ 86 -QTNKCKDL----AKVPN-LYSVETIDSLKKAKKLNESRAKFQPDCN--PILCNVQINTS 137 :::::::: :::: :::::::::::::::::::::: ::::::: d1gkpa2 162 VEAEGTARFATFLETTG-ATGYVVHLSCKPALDAAMAAKAR------GVPIYIESV---- 210 d1ct5a_ 138 HEDQKSGLN-------------------------------NEAEIFEVIDFFLSEECKYI 166 :::::::::: d1gkpa2 211 ---------IPHFLLDKTYAERGGVEAMKYIMSPPLRDKRNQKVLWDALA---------- 251 d1ct5a_ 167 --KLNGLMTIGSWNR-----------------------DFATLVEWK-KKIDAKFGTSLK 200 ::::::::: ::::::::: ::::: d1gkpa2 252 QGFIDTVGTDH----CPFDTEQKLLGKEAFTAIPNGIPAIEDRVNLLYTYGVS------- 300 d1ct5a_ 201 LSMGMSADFREAIRQGTAEVRIGTDIFG-------------------------------- 228 d1gkpa2 301 ----------------------------RGRLDIHRFVDAASTKAAKLFGLFPRKGTIAV 332 d1ct5a_ 229 --- 229 d1gkpa2 333 GSD 335 TMalign alignment (TM-score: 0.61 Raw score:138.49) d1ct5a_ 1 ----------------------------------------------TGITYDEDRKTQLI 14 ::: d1gkpa2 1 FIDPHVHIYLPFMATFAKDTHETGSKAALMGGTTTYIEMCCPSRND-----------DAL 49 d1ct5a_ 15 AQYESVREVVNAEAKNVKILLLVVSKLKP--AS-DIQILYDHGVREFGENY-------V- 63 ::::::::::::::: ::::::::::::: :: ::::::::::::::::: : d1gkpa2 50 EGYQLWKSKAEGNSY-CDYTFHMAVSKFDEKTEGQLREIVADGISSFAIFLSYKNFFGVD 108 d1ct5a_ 64 Q-ELIEKAKLL-PDDIKWHFIGG------------------------------LQTNKCK 91 : ::::::::: ::::::::::: ::::::: d1gkpa2 109 DGEMYQTLRLAKELGVIVTAHCENAELVGRLQQKLLSEGKTGPEWHEPSRPEAVEAEGTA 168 d1ct5a_ 92 DLAK-V---PNLYSVETIDSLKKAKKLNESRAKFQPDCNPILCNVQIN--T--------- 136 :::: : :::::::::::::::::::::::::: : ::::::::: : d1gkpa2 169 RFATFLETTGATGYVVHLSCKPALDAAMAAKARGV--P-IYIESVIPHFLLDKTYAERGG 225 d1ct5a_ 137 ---SHEDQKSGLNNEAEIFEVIDFFLSEECKYIKLNGLMTIGS---------------W- 177 ::::::::::::::::::::::::: : ::::::::::: : d1gkpa2 226 VEAMKYIMSPPLRDKRNQKVLWDALAQG-F--IDTVGTDHCPFDTEQKLLGKEAFTAIPN 282 d1ct5a_ 178 NRDFATLVEWKKKIDAKFG---------TS--LK---------------------LSMGM 205 ::: :::::::::::::: :: :: d1gkpa2 283 -GIP-AIEDRVNLLYTYGVSRGRLDIHRFVDAASTKAAKLFGLFPRKGTIAVGSD----- 335 d1ct5a_ 206 SADFREAIRQGTAEVRIGTDIFG 228 d1gkpa2 336 ----------------------- 336 HHsearch alignment (Probability: 0.02 E-value:0.07) d1ct5a_ 31 VKILLL-VVSKLK--PASDIQILYDHGVREFG------ENY------VQELIEKAKLLPD 75 :::::: :::::: ::::::::::::::::: ::: ::::::::::::: d1gkpa2 65 CDYTFHMAVSKFDEKTEGQLREIVADGISSFXIFLSYKNFFGVDDGEMYQTLRLAKELGV 124 d1ct5a_ 76 DIKWH 80 ::::: d1gkpa2 125 IVTAH 129