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 | d1i4na_ | Indole-3-glycerophosphate synthase, IPGS | Ribulose-phoshate binding barrel | TIM beta/alpha-barrel | α/β |
| Hit | d1ml4a1 | Aspartate carbamoyltransferase catalytic subunit | Aspartate/ornithine carbamoyltransferase | ATC-like | α/β |
Query <-- 1.586 --> IntermediateDALI alignment (Z-score: 10.4 Raw score:1010.00) query 1 -----------mietpyylidkakltrnmeriahvrekSGAKALLALKC----------f 39 ::::::::::: d1i4na_ 1 rrlweiveakkkdileidgenlivqrrnhrflevlsgkERVKIIAEFKKaspsagdinad 60 query 40 aTWSV-FDLMRDYMDGTTSSS--------LFEVRLGRERFGKETHAYSVAYGDNEIDEVV 90 :::: ::::::::::::::: ::::::::::::::::::::::::::::::: d1i4na_ 61 aSLEDfIRMYDELADAISILTekhyfkgdPAFVRAARNLTCRPILAKDFYIDTVQVKLAS 120 query 91 S-HADKIIFNS----ISQLERFADKAA--GIARGLRLNPQrlgEWDVpkVERVMdrINGF 143 : ::::::::: :::::::::::: ::::::::::: :::: ::::: :::: d1i4na_ 121 SvGADAILIIAriltAEQIKEIYEAAEelGMDSLVEVHSR--eDLEK-vFSVIR--PKII 175 query 144 MIHNNcenkdfglFDRMLGEIEERFgalIARVdWVSLGGGIHFTgddypvdAFSARLRAF 203 ::::: :::::::::::: :::: ::::::::::: ::::::::: d1i4na_ 176 GINTR-dldtfeiKKNVLWELLPLV---PDDT-VVVAESGIKDP-------RELKDLRGK 223 query 204 SdrygvqIYLEPGEASITKSTtlevtvldtlynknlaivdssieahmldlliyretakvl 263 : :::::::::::::: d1i4na_ 224 V------NAVLVGTSIMKAEN--------------------------------------- 238 query 264 pnegshsymicgksclagdvfgefrfaeelkvgdrisfqdaagytmvkknwfngvkmpai 323 d1i4na_ 239 ------------------------------------------------------------ 239 query 324 aireldgsvrtvreftyadyeqsls 348 d1i4na_ 239 ------------prrfleemrawse 251 FAST alignment (Normalized score: 5.64 Raw score:1667.00) query 1 MIETPYYLIDKAKLTRNMERIAHVREKS-------------------------------- 28 d1i4na_ 1 ----------------------------RRLWEIVEAKKKDILEIDGENLIVQRRNHRFL 32 query 29 -------GAKALLALKCFATWS------------------VFDLMRDYMDGTTS------ 57 :::::::: :::::::::::::: d1i4na_ 33 EVLSGKERVKIIAEF-------KKASPSAGDINADASLEDFIRMYDELADAISILTEKHY 85 query 58 --SSLFEVRLGRERFGKETHAYSVA--YGDNEIDEVVS-HADKIIF----NSISQLERFA 108 ::::::::::::::::::::: ::::::::::: ::::::: :::::::::: d1i4na_ 86 FKGDPAFVRAARNLTCRPILAKD--FYIDTVQVKLASSVGADAILIIARILTAEQIKEIY 143 query 109 DKA--AGIARGLRLNPQRLGEW----DVPKVERVMD--RINGFMIHNNCENKDFGL---- 156 ::: ::::::::: ::::::: :::::::: d1i4na_ 144 EAAEELGMDSLVEV--------HSREDLEKVFS---VIRPKIIGIN----------TRDL 182 query 157 -----FDRMLGEIEERFGALIARV----DWVSLGGGIHFTGDDYPVDAFSARLRAFSDRY 207 ::::::::::: :::::::::: :::::::::: d1i4na_ 183 DTFEIKKNVLWELLPL--------VPDDTVVVAESGIK-------DPRELKDLRG----- 222 query 208 GVQ--IYLEPGEASITKSTTLEVTVLDTLYNKNLAIVDSSIEAHMLDLLIYRETAKVLPN 265 ::::::::: d1i4na_ 223 ---KVNAVLVGTSI---------------------------------------------- 233 query 266 EGSHSYMICGKSCLAGDVFGEFRFAEELKVGDRISFQDAAGYTMVKKNWFNGVKMPAIAI 325 d1i4na_ 234 ------------------------------------------------------------ 234 query 326 RELDGSVRTVREFTYADYEQSLS------------------ 348 d1i4na_ 234 -----------------------MKAENPRRFLEEMRAWSE 251 TMalign alignment (TM-score: 0.41 Raw score:143.58) query 1 ----------------------------------------------------------MI 2 d1i4na_ 1 RRLWEIVEAKKKDILEIDGENLIVQRRNHRFLEVLSGKERVKIIAEFKKASPSAGDIN-- 58 query 3 ETPYYLIDKAKLTRNMERIAHVREKSGAKALLALK---CFATWSVFDLMRDYM---DGTT 56 :::::::::::::: :::::::::: ::::::::::::::: :::: d1i4na_ 59 ----------ADASLEDFIRMYDE-LADAISILTEKHYFKGDPAFVRAARNLTCRPILAK 107 query 57 SSSLF-EVRLGRERFGKETHAYS-VAYGDNEIDEVVS-H-----ADKIIFNSISQLERFA 108 ::::: ::::::::::::::::: ::::::::::::: : :::::::::::::::: d1i4na_ 108 DFYIDTVQVKLASSVGADAILIIARILTAEQIKEIYEAAEELGMDSLVEVHSREDLEKVF 167 query 109 DKAAGIARGLRLNP---QRLGEWDVPKVERVMDR-INGFMIHNNCENKDFGLFDRMLGEI 164 :::::::::::::: ::::::::::::::::: ::::::::: : : :: : d1i4na_ 168 SVIRPKIIGINTRDLDTFEIKKNVLWELLPLVPDDTVVVAESGI--------K-D-PR-E 216 query 165 EERFGALIARVDWVSLGGGIHFTGDDYPVDAFSARLRAFSDRYGVQIYLEPGEASITKST 224 :: :: ::::::::: ::::: : ::::::::::::::: : d1i4na_ 217 LK--DL-RGKVNAVLV-GTSIM-K-AENPRRFLEEMRAWS-E------------------ 251 query 225 TLEVTVLDTLYNKNLAIVDSSIEAHMLDLLIYRETAKVLPNEGSHSYMICGKSCLAGDVF 284 d1i4na_ 252 ------------------------------------------------------------ 252 query 285 GEFRFAEELKVGDRISFQDAAGYTMVKKNWFNGVKMPAIAIRELDGSVRTVREFTYADYE 344 d1i4na_ 252 ------------------------------------------------------------ 252 query 345 QSLS 348 d1i4na_ 252 ---- 252 HHsearch alignment (Probability: 0.22 E-value:0.02) query 57 SSSLFEVRLGRERFGKETHAYSVAYGDNEIDEVVSHADKIIFN------SISQLERFADK 110 ::::::::::::::::::::::::::::::::::::::::::: ::::::::::: d1i4na_ 110 YIDTVQVKLASSVGADAILIIARILTAEQIKEIYEAAEELGMDSLVEVHSREDLEKVFSV 169 query 111 AAGIARGLRLNPQRLGEWDVPKVERVMDRI-NGFMIHNNCENKDFGLFDRM 160 :::::::::::::::::::::::::::::: :::::::::::::::::::: d1i4na_ 170 IRPKIIGINTRDLDTFEIKKNVLWELLPLVPDDTVVVAESGIKDPRELKDL 220
Intermediate <-- 0.798 --> HitDALI alignment (Z-score: 2.6 Raw score:319.90) d1i4na_ 1 rrlweiveakkkdileidgenlivqrRNHRF--------------------------lev 34 ::::: d1ml4a1 1 --------------------------DWKGRdvisirdfskedietvlataerlerelke 34 d1i4na_ 35 lsgKERV--KIIAEFKKASPS------------------agdINADA------SLEDFIR 68 :::: :::::::::::: ::::: ::::::: d1ml4a1 35 kgqLEYAkgKILATLFFEPSTrtrlsfesamhrlggavigfaEASTSsvkkgeSLRDTIK 94 d1i4na_ 69 MYDELADAISILTekhyfkGDPAFVRAARNLTCRPILAKDfyidtvqvklassvgadaIL 128 ::::::::::::: ::::::::::::::::::::: :: d1ml4a1 95 TVEQYCDVIVIRH------PKEGAARLAAEVAEVPVINAG------------dgsnqhPT 136 d1i4na_ 129 IIariltaeqikeiyeaaeelgmdslVEVHsreDLEKVFSvirpkiigintrdldtfeik 188 :: :::: ::::::: d1ml4a1 137 QT------------------------LLDL--yTIKKEFG-------------------- 150 d1i4na_ 189 knvlwellplvpddtvvvaesgikdprelkdlrgkvnavlvgtsimkaenprrfleemra 248 d1ml4a1 151 ------------------------------------------------------------ 151 d1i4na_ 249 wse 251 d1ml4a1 151 --- 151 FAST alignment (Normalized score: 1.22 Raw score:237.40) d1i4na_ 1 RR-------------LWEIVEAKKKDILEIDGENLIVQRRNHRFLEVLSGKERVKIIAEF 47 :::::::::::::: d1ml4a1 1 --DWKGRDVISIRDFSKEDIETVLATAER------------------------------- 27 d1i4na_ 48 KKASPSAGDINADASLEDFIRMYDELADAISILTEKHYFKGDPAFVRAARNLTCRPILAK 107 d1ml4a1 28 ------------------------------------------------------------ 28 d1i4na_ 108 DFYI------------------------------DTVQVKLASSVGADAILIIARILTAE 137 :::::::::::: :::: d1ml4a1 28 ----LERELKEKGQLEYAKGKILATLFFEPSTRTRLSFESAMHRLG-GAVI--------- 73 d1i4na_ 138 QIKEIYEAAEELGMDSLVEVH-------------------SREDLEKVFSVI-RPKIIGI 177 ::::: ::::::: d1ml4a1 74 ---------------------GFAEASTSSVKKGESLRDTIKTVE-------QYCDVIVI 105 d1i4na_ 178 NTRDLDTFE--IKKNVLWELLPLVPDDTVVVAESGIKDPRELKDLRGKVNAVLVGTSIMK 235 :::::::::::: :::::::: d1ml4a1 106 ---------RHPKEGAARLAAEV--AEVPVINA--------------------------- 127 d1i4na_ 236 AENPRRFLEEMRAWSE----------------------- 251 d1ml4a1 128 ----------------GDGSNQHPTQTLLDLYTIKKEFG 150 TMalign alignment (TM-score: 0.25 Raw score:61.78) d1i4na_ 1 RRLWEIVEAKKKDILEIDGENLIVQRRNHRFLEVLSGKERVKIIA--EFKKASPSAGDIN 58 :: :: :::::: d1ml4a1 1 --------------------------------DW-KG--RDVISIRD------------- 12 d1i4na_ 59 ADASLEDFIRMYDELADA-ISILTEKHYFKGDPAFVRAARNLTCRPI-LAKDFYIDTVQV 116 ::::::: : ::::: d1ml4a1 13 -----------FSKEDIET--------------------V--LATAER------------ 27 d1i4na_ 117 KLASSVGADA--ILIIARILTAEQIKEIYEAAEELGMDSLVEVHSREDLEKVFSVIRPKI 174 : :::: ::::::: ::::: d1ml4a1 28 ---L--ERELKE--------------------KGQLEYA----------------KGKIL 46 d1i4na_ 175 IGINTRD----------------------LDTF---EIK---KNVLWELLPLVPDDTVVV 206 ::::::: :::: : :::::::::::::::::: d1ml4a1 47 ATLFFEPSTRTRLSFESAMHRLGGAVIGFAEASTSS--VKKGESLRDTIKTVEQYCDVIV 104 d1i4na_ 207 AESGIKDPRELKDLRGK-VNA-VLVGTSIMK---AENP------------RRFLEEMRAW 249 :::::::: :::::::: ::: ::::::::: : d1ml4a1 105 IRHPKEGA-ARLAAEVAEVPVINAGDGSNQHPTQ---TLLDLYTIKKEFG---------- 150 d1i4na_ 250 SE 251 d1ml4a1 151 -- 151 HHsearch alignment (Probability: 0.34 E-value:0.01) d1i4na_ 30 RFLEVLSGKERVKI-IAEFKKASPSAGDINADASLEDFIRMYDELADAISILTEKHYFKG 88 :::::::::::::: :::::::::::: :::::::::::::::::::::: d1ml4a1 60 SFESAMHRLGGAVIGFAEASTSSVKKG-----ESLRDTIKTVEQYCDVIVIRHP------ 108 d1i4na_ 89 DPAFVRAARNLTCRPILAK-D-FYIDTVQVK 117 ::::::::::::::::::: : ::::::::: d1ml4a1 109 KEGAARLAAEVAEVPVINAGDGSNQHPTQTL 139