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 | d7odca2 | Eukaryotic ornithine decarboxylase | PLP-binding barrel | TIM beta/alpha-barrel | α/β |
| Hit | d1jqna_ | Phosphoenolpyruvate carboxylase | Phosphoenolpyruvate/pyruvate domain | TIM beta/alpha-barrel | α/β |
Query <-- 2.100 --> IntermediateDALI alignment (Z-score: 19.4 Raw score:1731.40) query 1 mietpyyliDKAKLTRNMERIAHVREksGAKALLALKCFATWSVFDLMRDYMDGTTSSSL 60 ::::::::::::::::: :::::::::::::::::::::::::::::::: d7odca2 1 ---------DLGDILKKHLRWLKALP--RVTPFYAVKCNDSRAIVSTLAAIGTGFDCASK 49 query 61 FEVRLGRE-RFGK-ETHAYSVAYGDNEIDEVV-SHADKIIFNSISQLERFADKAAGIARG 117 :::::::: :::: :::::::::::::::::: ::::::::::::::::::::::::::: d7odca2 50 TEIQLVQGlGVPAeRVIYANPCKQVSQIKYAAsNGVQMMTFDSEIELMKVARAHPKAKLV 109 query 118 LRLNPqRLGEW--DVPKVERVMD----RINGFMIHNNCENkdfGLFDrMLGEIEERFGAL 171 ::::: ::::: :::::::::: ::::::::::::: :::: :::::::::::: d7odca2 110 LRIAT-KFGATlkTSRLLLERAKelniDVIGVSFHVGSGC---TDPD-TFVQAVSDARCV 164 query 172 IA-------RVDWVSLGGGIHfTGDDY--PVDAFSARLRAFSDRYG-----VQIYLEPGE 217 :: :::::::::::: ::::: ::::::::::::::::: ::::::::: d7odca2 165 FDmatevgfSMHLLDIGGGFP-GSEDTklKFEEITSVINPALDKYFpsdsgVRIIAEPGR 223 query 218 ASITKSttlevtvldtlynknlaivdssieahmldlliyretakvlpnegshsymicgks 277 :::::: d7odca2 224 YYVASA------------------------------------------------------ 229 query 278 clagdvfgefrfaeelkvgdrisfqdaagytmvkknwfngvkmpaiaireldgsvrtvre 337 d7odca2 230 ------------------------------------------------------------ 230 query 338 ftyadyeqsls 348 d7odca2 230 ----------- 230 FAST alignment (Normalized score: 11.24 Raw score:3173.00) query 1 MIETPYYLIDKAKLTRNMERIAHVREK--SGAKALLALKCFATWSVFDLMRDYM--DGTT 56 :::::::::::::: ::::::::::::::::::::::: :::: d7odca2 1 ---------DLGDILKKHLRWLK----ALPRVTPFYAVKCNDSRAIVSTLAA--IGTGFD 45 query 57 SSSLFEVRLGRERFGK------ETHAYSVAYGDNEIDEVVS-HADKIIFNSISQLERFAD 109 :::::::::::: ::::::::::::::::::: :::::::::::::::::: d7odca2 46 CASKTEIQLVQG----LGVPAERVIYANPCKQVSQIKYAASNGVQMMTFDSEIELMKVAR 101 query 110 KAAGIARGLRLNPQRLGEWDVPKVERVMD-------RINGFMIHNN--CENKDFGLFDRM 160 :::::::::::: :::: ::::::::::: :::::::: :::::::::::: d7odca2 102 AHPKAKLVLRIA-TKFG-ATLKTSRLLLERAKELNIDVIGVSFH--VGSGCTDPDTFVQA 157 query 161 LGEIEERFGALIA----------RVDWVSLGGGIHFTG------DDYPVDAFSARLRAFS 204 :::::: :::::::::: :::::::::::::::: d7odca2 158 VSDARC-------VFDMATEVGFSMHLLDIGGG-----FPGSEDTKLKFEEITSVINPAL 205 query 205 DR-----YGVQIYLEPGEASITKSTTLEVTVLDTLYNKNLAIVDSSIEAHMLDLLIYRET 259 :: :::::::::::::::: d7odca2 206 DKYFPSDSGVRIIAEPGRYYVAS------------------------------------- 228 query 260 AKVLPNEGSHSYMICGKSCLAGDVFGEFRFAEELKVGDRISFQDAAGYTMVKKNWFNGVK 319 d7odca2 229 ------------------------------------------------------------ 229 query 320 MPAIAIRELDGSVRTVREFTYADYEQSLS- 348 d7odca2 229 -----------------------------A 229 TMalign alignment (TM-score: 0.53 Raw score:182.79) query 1 MIETPYYLIDKAKLTRNMERIAHVREKSGAKALLALKCFATWSVFDLMRDYMDGTTSSSL 60 :::::::::::::::: :: ::::::::::::::::::::::::::::::: d7odca2 1 ---------DLGDILKKHLRWLKAL-PR-VTPFYAVKCNDSRAIVSTLAAIGTGFDCASK 49 query 61 FEVRLGRERFGK--ETHAYSVAYGDNEIDEVVSH-ADKIIFNSISQLERFADKAAGIARG 117 :::::::::::: :::::::::::::::::::: ::::::::::::::::::::::::: d7odca2 50 TEIQLVQGLGVPAERVIYANPCKQVSQIKYAASNGVQMMTFDSEIELMKVARAHPKAKLV 109 query 118 LRLNPQRLGEW--DVPKVERVMD---R-INGFMIHNNCENKDFGLFDRMLGEIEERFGAL 171 ::::: ::::: :::::::::: : ::::::::::::::::::::::::::: :::: d7odca2 110 LRIAT-KFGATLKTSRLLLERAKELNIDVIGVSFHVGSGCTDPDTFVQAVSDARC-VFDM 167 query 172 IA----RVDWVSLGGGIHFTG----DDYP-VDAFSARLRAFSDR-YGVQIYLEPGEASIT 221 :: ::::::::::::::: :::: :::::::::::::: ::::::::::::::: d7odca2 168 ATEVGFSMHLLDIGGGFPGSEDTKLKFEEITSVINPALDKYFPSDSGVRIIAEPGRYYVA 227 query 222 KSTTLEVTVLDTLYNKNLAIVDSSIEAHMLDLLIYRETAKVLPNEGSHSYMICGKSCLAG 281 :: d7odca2 228 SA---------------------------------------------------------- 229 query 282 DVFGEFRFAEELKVGDRISFQDAAGYTMVKKNWFNGVKMPAIAIRELDGSVRTVREFTYA 341 d7odca2 230 ------------------------------------------------------------ 230 query 342 DYEQSLS 348 d7odca2 230 ------- 230 HHsearch alignment (Probability: 1.00 E-value:0.00) query 10 DKAKLTRNMERIAHVREKSGAKALLALKCFATWSVFDLMRDYMDGTTSSSLFEVRLGRER 69 :::::::::::::::: :::::::::::::::::::::::::::::::::::::::::: d7odca2 1 DLGDILKKHLRWLKAL--PRVTPFYAVKCNDSRAIVSTLAAIGTGFDCASKTEIQLVQGL 58 query 70 FGKETHAYSVA--YGDNEIDEVVSHAD-KIIFNSISQLERFADKAAGIARGLRLNPQRLG 126 ::::::::::: :::::::::::::: :::::::::::::::::::::::::::: ::: d7odca2 59 GVPAERVIYANPCKQVSQIKYAASNGVQMMTFDSEIELMKVARAHPKAKLVLRIAT-KFG 117 query 127 EWDVPKVERVMDR------INGFMIHNNCENKDFGLFDRMLGEIEE---RFGALIARVDW 177 ::::::::::::: ::::::::::::::::::::::::::: ::::::::::: d7odca2 118 ATLKTSRLLLERAKELNIDVIGVSFHVGSGCTDPDTFVQAVSDARCVFDMATEVGFSMHL 177 query 178 VSLGGGIHFTGDD-YPVDAFSARLRAFSDRY-----GVQIYLEPGEASITKS 223 ::::::::::::: ::::::::::::::::: :::::::::::::::: d7odca2 178 LDIGGGFPGSEDTKLKFEEITSVINPALDKYFPSDSGVRIIAEPGRYYVASA 229
Intermediate <-- 1.012 --> HitDALI alignment (Z-score: 7.7 Raw score:809.40) d7odca2 1 ------------------------------------------------------------ 1 d1jqna_ 1 qysalrsnvsmlgkvlgetikdalgehilervetirklskssragndanrqellttlqnl 60 d7odca2 1 -------------------------------------------------dlgdilkkhlr 11 d1jqna_ 61 sndellpvarafsqflnlantaeqyhsispkgeaasnpeviartlrklknqpelsedtik 120 d7odca2 12 wlkalpRVTPFYAvkCNDS----------------------------------------- 30 ::::::: :::: d1jqna_ 121 kaveslSLELVLT--AHPTeitrrtlihkmvevnaclkqldnkdiadyehnqlmrrlrql 178 d7odca2 31 ----------------------------------------------------raivstla 38 d1jqna_ 179 iaqswhtdeirklrpspvdeakwgfavvenslwqgvpnylrelneqleenlgyklpvefv 238 d7odca2 39 aiGTGFD---------caSKTEIQLVQ--------------------------------- 56 ::::: ::::::::: d1jqna_ 239 pvRFTSWmggdrdgnpnvTADITRHVLllsrwkatdlflkdiqvlvselsmveatpella 298 d7odca2 57 ------------------------------------------------------------ 57 d1jqna_ 299 lvgeegaaepyrylmknlrsrlmatqawlearlkgeelpkpeglltqneelweplyacyq 358 d7odca2 57 -----------------------glgvpaeRVIYANPC---------------------- 71 :::::::: d1jqna_ 359 slqacgmgiiangdlldtlrrvkcfgvplvRIDIRQEStrhtealgeltrylgigdyesw 418 d7odca2 72 -------------------------------kQVSQIKYAASN---GVQMMTF---DSEI 94 ::::::::::: ::::::: :::: d1jqna_ 419 seadkqaflirelnskrpllprnwqpsaetreVLDTCQVIAEApqgSIAAYVIsmaKTPS 478 d7odca2 95 ELMKVARAH------pKAKLVLRIAT--kfgaTLKTSRLLL-eraKELNI-dvIGVSFHV 144 ::::::::: :::::::::: ::::::::: ::::: ::::::: d1jqna_ 479 DVLAVHLLLkeagigfAMPVAPLFETlddlnnANDVMTQLLnidwYRGLIqgkQMVMIGY 538 d7odca2 145 G--sGCTDP-DTFVQAVSDARCVFDMATEVGFSMhLLDIGGGfpgsedtklkfeeitsvi 201 : ::::: :::::::::::::::::::::::: ::::::: d1jqna_ 539 SdsaKDAGVmAASWAQYQAQDALIKTCEKAGIEL-TLFHGRG-----gsigrggapahaa 592 d7odca2 202 npaLDKYFpsdsGVRIIAEPGRYYVASA-------------------------------- 229 ::::: :::::::::::::::: d1jqna_ 593 llsQPPGS---lKGGLRVTEQGEMIRFKyglpeitvsslslytgaileanllpppepkes 649 d7odca2 230 ------------------------------------------------------------ 230 d1jqna_ 650 wrrimdelsviscdvyrgyvrenkdfvpyfrsatpeqelgklplgsrpggveslraipwi 709 d7odca2 230 ------------------------------------------------------------ 230 d1jqna_ 710 fawtqnrlmlpawlgagtalqkvvedgkqseleamcrdwpffstrlgmlemvfakadlwl 769 d7odca2 230 ------------------------------------------------------------ 230 d1jqna_ 770 aeyydqrlvdkalwplgkelrnlqeedikvvlaiandshlmadlpwiaesiqlrniytdp 829 d7odca2 230 --------------------------------------------- 230 d1jqna_ 830 lnvlqaellhrsrqaekegqepdprveqalmvtiagiaagmrntg 874 FAST alignment (Normalized score: 3.32 Raw score:1485.00) d7odca2 1 DLGDILKKHLRWLKALP------------------------------------------- 17 d1jqna_ 1 -----------------QYSALRSNVSMLGKVLGETIKDALGEHILERVETIRKLSKSSR 43 d7odca2 18 ------------------------------------------------------------ 18 d1jqna_ 44 AGNDANRQELLTTLQNLSNDELLPVARAFSQFLNLANTAEQYHSISPKGEAASNPEVIAR 103 d7odca2 18 -----------------------RVTPFYAVKCNDSRA---------------------- 32 ::::::: d1jqna_ 104 TLRKLKNQPELSEDTIKKAVESLSLELVLT--------AHPTEITRRTLIHKMVEVNACL 155 d7odca2 33 --------------------------------------IVSTLAAIGTGFDC-------- 46 ::::::: d1jqna_ 156 KQLDNKDIADYEHNQLMRRLRQLIAQSWHTDEIRKLRPSPVDEAK-------WGFAVVEN 208 d7odca2 47 -----------------------------------------------ASKTEIQLVQGLG 59 ::::::::::: d1jqna_ 209 SLWQGVPNYLRELNEQLEENLGYKLPVEFVPVRFTSWMGGDRDGNPNVTADITRHVLL-- 266 d7odca2 60 VPAE-------------------------------------------------------- 63 d1jqna_ 267 ----LSRWKATDLFLKDIQVLVSELSMVEATPELLALVGEEGAAEPYRYLMKNLRSRLMA 322 d7odca2 64 ------------------------------------------------------------ 64 d1jqna_ 323 TQAWLEARLKGEELPKPEGLLTQNEELWEPLYACYQSLQACGMGIIANGDLLDTLRRVKC 382 d7odca2 64 ------RVIYANPCK--------------------------------------------- 72 ::::: d1jqna_ 383 FGVPLVRIDIR----QESTRHTEALGELTRYLGIGDYESWSEADKQAFLIRELNSKRPLL 438 d7odca2 73 --------QVSQIKYAASN--------GVQMMT---FDSEIELMKVARAHP--------K 105 :::::::::: :::::: ::::::::::::: : d1jqna_ 439 PRNWQPSAETREVLDTCQ-VIAEAPQGSIAAYVISMAKTPSDVLAVHLL--LKEAGIGFA 495 d7odca2 106 AKLVLRIATKFGA-----TLKTSRLLLERAKELNIDV----------IGVSFHVGSGCTD 150 :::::: ::::::::::::::: :::::: d1jqna_ 496 MPVAPL-------FETLDDLNNANDVMTQLLNI----DWYRGLIQGKQMVMIG------- 537 d7odca2 151 ----------PDTFVQAVSDARCVFDMATEVGFSMHLLDIGGGFPGSEDTKLKFEEI--- 197 :::::::::::::::::::::::: :::::: d1jqna_ 538 YSDSAKDAGVMAASWAQYQAQDALIKTCEKAGIE-LTLFHG----------------RGG 580 d7odca2 198 -----TSVINPALDKYFPSDS-------GVRIIAE-PGRYYVASA--------------- 229 ::::::::: ::::::: ::::: d1jqna_ 581 SIGRGGAPAHAALL-------SQPPGSLKGGLRVTEQGEMI----RFKYGLPEITVSSLS 629 d7odca2 230 ------------------------------------------------------------ 230 d1jqna_ 630 LYTGAILEANLLPPPEPKESWRRIMDELSVISCDVYRGYVRENKDFVPYFRSATPEQELG 689 d7odca2 230 ------------------------------------------------------------ 230 d1jqna_ 690 KLPLGSRPGGVESLRAIPWIFAWTQNRLMLPAWLGAGTALQKVVEDGKQSELEAMCRDWP 749 d7odca2 230 ------------------------------------------------------------ 230 d1jqna_ 750 FFSTRLGMLEMVFAKADLWLAEYYDQRLVDKALWPLGKELRNLQEEDIKVVLAIANDSHL 809 d7odca2 230 ------------------------------------------------------------ 230 d1jqna_ 810 MADLPWIAESIQLRNIYTDPLNVLQAELLHRSRQAEKEGQEPDPRVEQALMVTIAGIAAG 869 d7odca2 230 ----- 230 d1jqna_ 870 MRNTG 874 TMalign alignment (TM-score: 0.58 Raw score:132.15) d7odca2 1 ------------------------------------------------------------ 1 d1jqna_ 1 QYSALRSNVSMLGKVLGETIKDALGEHILERVETIRKLSKSSRAGNDANRQELLTTLQNL 60 d7odca2 1 ---------------D---L--G------------------------------------- 3 : : : d1jqna_ 61 SNDELLPVARAFSQFLNLANTAEQYHSISPKGEAASNPEVIARTLRKLKNQPELSEDTIK 120 d7odca2 4 ------DILKKHLRWLKALPRVTPFYAVKCNDSR----AIVS------------------ 35 :::::::::::::: : d1jqna_ 121 KAVESL--------------SLELVLTAHPTEITRRTL---IHKMVEVNACLKQLDNKDI 163 d7odca2 36 ------------------------------TLAAIGTGFDCASKTEIQLVQGLG---VP- 61 ::::::::::::: :: d1jqna_ 164 ADYEHNQLMRRLRQLIAQSWHTDEIRKLRP-----------SPVDEAKWGFAVVENSLWQ 212 d7odca2 62 ---------------------------AERVIY--ANP-----CKQVSQIKYAASN---- 83 :::::: ::: ::::::::::::: d1jqna_ 213 GVPNYLRELNEQLEENLGYKLPVEFVPVRFTSWMGGDRDGNPNVTADITRHVLLLSRWKA 272 d7odca2 84 ------------------------------------------------------------ 84 d1jqna_ 273 TDLFLKDIQVLVSELSMVEATPELLALVGEEGAAEPYRYLMKNLRSRLMATQAWLEARLK 332 d7odca2 84 -----------------------------------------------------G-VQMMT 89 : ::::: d1jqna_ 333 GEELPKPEGLLTQNEELWEPLYACYQSLQACGMGIIANGDLLDTLRRVKCFGVPLVRIDI 392 d7odca2 90 F-----D---------------------------------------------------SE 93 : : :: d1jqna_ 393 RQESTRHTEALGELTRYLGIGDYESWSEADKQAFLIRELNSKRPLLPRNWQPSAETREVL 452 d7odca2 94 IELMKVARAHPK--AKLVLRI-AT-KFGATLKTSRLLLERAKELNIDVIGVSFHVGSGCT 149 :::::::: ::: ::::::: :: :::::::::::::: ::::::::::::: : d1jqna_ 453 DTCQVIAE-APQGSIAAYVISMAKT--PSDVLAVHLLLKEA-GIGFAMPVAPLFE---T- 504 d7odca2 150 DPDTFVQAVSDARCVF-D-MATEVGFS-MHLLDIG-GGFPG-SEDTKLK-FEEITSVINP 203 : :::::::::::::: : :::: ::: ::::::: ::::: :::: :::::::::: d1jqna_ 505 L-DDLNNANDVMTQLLNIDWYRG-LIQGKQMVMIGYSDSAKD---AGVMAASWAQYQAQD 559 d7odca2 204 ALDKYFPS-DSGVRIIAEPGRY-Y----------------------------V------- 226 :::::::: ::::::::::::: : : d1jqna_ 560 ALIKTCEKAGIELTLFHGRGGSIGRGGAPAHAALLSQPPGSLKGGLRVTEQGEMIRFKYG 619 d7odca2 227 ------------------------------------------------------------ 227 d1jqna_ 620 LPEITVSSLSLYTGAILEANLLPPPEPKESWRRIMDELSVISCDVYRGYVRENKDFVPYF 679 d7odca2 227 -----------------------------A--------S--------------------- 228 : : d1jqna_ 680 RSATPEQELGKLPLGSRPGGVESLRAIPWIFAWTQNRLMLPAWLGAGTALQKVVEDGKQS 739 d7odca2 229 ------------------------------------------------------------ 229 d1jqna_ 740 ELEAMCRDWPFFSTRLGMLEMVFAKADLWLAEYYDQRLVDKALWPLGKELRNLQEEDIKV 799 d7odca2 229 ------------------------------------------------------------ 229 d1jqna_ 800 VLAIANDSHLMADLPWIAESIQLRNIYTDPLNVLQAELLHRSRQAEKEGQEPDPRVEQAL 859 d7odca2 229 ----------A---- 229 : d1jqna_ 860 MVTIAGIAAGMRNTG 874 HHsearch alignment (Probability: 0.02 E-value:0.39) d7odca2 119 TLKTSRLLLERAKEL 133 ::::::::::::::: d1jqna_ 447 ETREVLDTCQVIAEA 461