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 | d1gkra2 | L-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 <-- 1.058 --> HitDALI alignment (Z-score: 8.9 Raw score:991.60) d1ct5a_ 1 -----------------------------------tgitydedrktqLIAQYESVREVVN 25 ::::::::::::: d1gkra2 1 gvvdehvhiidmdlknrygrfeldsesaavggittiiempitfppttTLDAFLEKKKQAG 60 d1ct5a_ 26 AEAKnVKILLLVVSKLKPASDIQILYDHGVREFGENY------------VQELIEKAKL- 72 :::: :::::::::::::::::::::::::::::::: :::::::::: d1gkra2 61 QRLK-VDFALYGGGVPGNLPEIRKMHDAGAVGFXSMMaasvpgmfdavsDGELFEIFQEi 119 d1ct5a_ 73 LPDDIKWHFIGG------------------------------lQTNKCKDLAKV----PN 98 :::::::::::: ::::::::::: :: d1gkra2 120 AACGSVIVVHAEnetiiqalqkqikaaggkdmaayeasqpvfqENEAIQRALLLqkeaGC 179 d1ct5a_ 99 LYSVETIDSLKKAKKLNESRAkfqPDCNpILCNVQIN------------tsHEDQKSGLN 146 ::::::::::::::::::::: :::: :::::::: ::::::::: d1gkra2 180 RLIVLHVSNPDGVELIHQAQS---EGQD-VHCESGPQylnittddaerigpYMKVAPPVR 235 d1ct5a_ 147 NEAEIFEVIDFFLSeeckyiKLNGLMTIGSW-------------------nRDFATLVEW 187 :::::::::::::: ::::::::::: ::::::::: d1gkra2 236 SAEMNIRLWEQLEN-----gLIDTLGSDHGGhpvedkepgwkdvwkagngaLGLETSLPM 290 d1ct5a_ 188 K-KKID--AKFG---TSLKLsmgmsadfreairqgtaevrigtdifg 228 : :::: :::: ::::: d1gkra2 291 MlTNGVnkGRLSlerLVEVM------------cekpaklfgiypqkg 325 FAST alignment (Normalized score: 5.69 Raw score:1549.00) d1ct5a_ 1 TGITYDEDRKTQ-----------------------------------------------L 13 : d1gkra2 1 ------------GVVDEHVHIIDMDLKNRYGRFELDSESAAVGGITTIIEMPITFPPTTT 48 d1ct5a_ 14 IAQYESVREVVNAEAKNVKILLLVVSKLK--PASDIQILYDHGVREFGE----------- 60 :::::::::::::: :::::::::::: :::::::::::::::::: d1gkra2 49 LDAFLEKKKQAGQR-LKVDFALYGGGV--PGNLPEIRKMHDAGAVGFASMMAASVPGMFD 105 d1ct5a_ 61 -NYVQELIEKAKLLP---DDIKWHFIGGL------------------------------- 85 :::::::::::: :::::::: d1gkra2 106 AVSDGELFEIFQE--IAACGSVIVVH---AENETIIQALQKQIKAAGGKDMAAYEASQPV 160 d1ct5a_ 86 --QTNKCKDLAKVPNL--------YSVETIDSLKKAKKLNESRAKFQPDCN---PILCNV 132 :::::::::: :::::::::::::::::::: :::::: d1gkra2 161 FQENEAIQRALL----LQKEAGCRLIVLHVSNPDGVELIHQAQS-------EGQDVHCES 209 d1ct5a_ 133 QINTSHEDQKSGL------------------------NNEAEIFEVIDFFLSEECKYI-- 166 : ::::::::::::: d1gkra2 210 G------------PQYLNITTDDAERIGPYMKVAPPVRSAEMNIRLWEQL--------EN 249 d1ct5a_ 167 -KLNGLMTIGSWNR-----------------------DFATLVEWK-KKIDAKFGTSLKL 201 ::::::::: ::::::::: ::::: d1gkra2 250 GLIDTLGSDH----GGHPVEDKEPGWKDVWKAGNGALGLETSLPMMLTNGVN-------- 297 d1ct5a_ 202 SMGMSADFREAIRQGTAEVRIGTDIFG---------------------------- 228 d1gkra2 298 ---------------------------KGRLSLERLVEVMCEKPAKLFGIYPQKG 325 TMalign alignment (TM-score: 0.62 Raw score:141.98) d1ct5a_ 1 ----------------------------------------------TGITYDEDRKTQLI 14 ::: d1gkra2 1 GVVDEHVHIIDMDLKNRYGRFELDSESAAVGGITTIIEMPITFPPT-----------TTL 49 d1ct5a_ 15 AQYESVREVVNAEAKNVKILLLVVSKLKPASDIQILYDHGVREFGENY-----------V 63 ::::::::::::::: :::::::::::::::::::::::::::::::: : d1gkra2 50 DAFLEKKKQAGQRLK-VDFALYGGGVPGNLPEIRKMHDAGAVGFASMMAASVPGMFDAVS 108 d1ct5a_ 64 Q-ELIEKAKLL-PDDIKWHFIGGL------------------------------QTNKCK 91 : ::::::::: :::::::::::: :::::: d1gkra2 109 DGELFEIFQEIAACGSVIVVHAENETIIQALQKQIKAAGGKDMAAYEASQPVFQENEAIQ 168 d1ct5a_ 92 DLAK-V---PNLYSVETIDSLKKAKKLNESRAKFQPDCNPILCNVQIN--T--------- 136 :::: : :::::::::::::::::::::::::: : ::::::::: : d1gkra2 169 RALLLQKEAGCRLIVLHVSNPDGVELIHQAQSEGQ--D-VHCESGPQYLNITTDDAERIG 225 d1ct5a_ 137 SHEDQKSGLNNEAEIFEVIDFFLSEECKYIKLNGLMTIGSWN---------------RDF 181 ::::::::::::::::::::::::: : ::::::::::::: ::: d1gkra2 226 PYMKVAPPVRSAEMNIRLWEQLENG-L--IDTLGSDHGGHPVEDKEPGWKDVWKAGNGAL 282 d1ct5a_ 182 ATLVEWKKKIDA-K-----F-G--TS-LKL---SMGMSADFREAIRQGTA---------- 218 ::::::::::: : : : :: ::: : d1gkra2 283 -GLETSLPMMLTNGVNKGRLSLERLVEVMCEKP----------------AKLFGIYPQKG 325 d1ct5a_ 219 EVRIGTDIFG 228 d1gkra2 326 ---------- 326 HHsearch alignment (Probability: 0.04 E-value:0.15) d1ct5a_ 41 LKPASDIQILYDHGVREFGE---------------NYVQELIEKAKLLPDDIKWH 80 :::::::::::::::::::: :::::::::::::::::::: d1gkra2 75 PGNLPEIRKMHDAGAVGFXSMMAASVPGMFDAVSDGELFEIFQEIAACGSVIVVH 129