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 | d1f74a_ | N-acetylneuraminate lyase | Aldolase | TIM beta/alpha-barrel | α/β |
| Hit | d1q3qa2 | Thermosome, A-domain | GroEL apical domain-like | The (swivelling( beta/beta/alpha domain | α/β |
Query <-- 0.996 --> IntermediateDALI alignment (Z-score: 8.7 Raw score:972.80) query 1 mietpyylidkakltrnmeriahvreksgAKALLALKCF----------aTWSVFDLMRD 50 :::::::::: :::::::::: d1f74a_ 1 -------------------------mrdlKGIFSALLVSfnedgtinekgLRQIIRHNID 35 query 51 --YMDGTTSS-------------SLFEVRLGRERFG--KETHAYSVA----YGDNEIDEV 89 :::::::: ::::::::::::: ::::::::: ::::::::: d1f74a_ 36 kmKVDGLYVGgstgenfmlsteeKKEIFRIAKDEAKdqIALIAQVGSvnlkEAVELGKYA 95 query 90 VS-HADKIIFNS-----------ISQLERFADKAAgIARGLRLNPQ-rlgewDVPKVERV 136 :: ::::::::: :::::::::::: :::::::::: :::::::: d1f74a_ 96 TElGYDCLSAVTpfyykfsfpeiKHYYDTIIAETG-SNMIVYSIPFltgvnmGIEQFGEL 154 query 137 MDR--INGFMIHNncenkdfglfdrMLGEIEeRFGALIARVdWVSLGGGIhftgddypvd 194 ::: :::::::: :::::: ::::::::: :::::::: d1f74a_ 155 YKNpkVLGVKFTA-----------gDFYLLE-RLKKAYPNH-LIWAGFDE---------- 191 query 195 aFSARLRAFSdrygvqIYLEPGEASIT--------------------------------- 221 ::::::::: ::::::::::: d1f74a_ 192 -MMLPAASLG-----vDGAIGSTFNVNgvrarqifeltkagklkealeiqhvtndliegi 245 query 222 -----------KSTTlevtvldtlynknlaivdssiEAHMLDLliyretAKVLpnegshs 270 :::: ::::::: :::: d1f74a_ 246 langlyltikeLLKL------------egvdagycrEPMTSKA---taeQVAK------- 283 query 271 ymicgksclagdvfgefrfaeelkvgdrisfqdaagytmvkknwfngvkmpaiaireldg 330 d1f74a_ 284 ------------------------------------------------------------ 284 query 331 svrtvreftyadyeqsls 348 d1f74a_ 284 --------akdlkakfls 293 FAST alignment (Normalized score: 4.62 Raw score:1476.00) query 1 MIETPYYLIDKAKLTRNMERIAHVREKSGA-----KALLALKCFA--------------- 40 ::::: d1f74a_ 1 ------------------------------MRDLKGIFSA-----LLVSFNEDGTINEKG 25 query 41 TWSVFDLMRD--YMDGTTSS---------------SLFEVRLGRERF--GKETHAYSVAY 81 :::::::::: :::::: :::::::::::: ::::::: d1f74a_ 26 LRQIIRHNIDKMKVDGLY--VGGSTGENFMLSTEEKKEIFRIAKDEAKDQIALIAQ---- 79 query 82 --------GDNEIDEVVS-HADKIIFN------------SISQLERFADKAAGIARGLRL 120 :::::::::: ::::::: ::::::::::: :::::::: d1f74a_ 80 VGSVNLKEAVELGKYATELGYDCLSA-VTPFYYKFSFPEIKHYYDTIIAE-TGSNMIVY- 136 query 121 NPQRLGEW----------DVPKVERVM--DRINGFMIHNNCENKDFGL--FDRMLGEIEE 166 ::::::::: ::::::::: :::::::::: d1f74a_ 137 --------SIPFLTGVNMGIEQFGELYKNPKVLGVKFT----------AGDFYLLERLKK 178 query 167 RFGALIARVDWVSLGGGIHFTGDDY----PVDAFSARLRAFSDRYGVQ---IYLEPGEAS 219 :::: ::::: ::::::: ::::::::: d1f74a_ 179 AYPN-----HLIWA-----------GFDEMMLPAAS------------LGVDGAIGSTFN 210 query 220 ITKSTTLEVTVLDTLYNKNLAIVDSSIEAHMLDLLIYRETAKVLPNEGSHSYMICGKSCL 279 d1f74a_ 211 ------------------------------------------------------------ 211 query 280 AGDVFGEFRFAEELKVGDRISFQDAAGYTMVKKNWFNGVKMPAIAIRELDGSVRTVREFT 339 d1f74a_ 211 ------------------------------------------------------------ 211 query 340 YADYEQSLS--------------------------------------------------- 348 d1f74a_ 211 ---------VNGVRARQIFELTKAGKLKEALEIQHVTNDLIEGILANGLYLTIKELLKLE 261 query 349 -------------------------------- 349 d1f74a_ 262 GVDAGYCREPMTSKATAEQVAKAKDLKAKFLS 293 TMalign alignment (TM-score: 0.40 Raw score:138.54) query 1 ----------------MIETP-Y-YLID-KAKLTRNMERIAHVREKSGAKALLALK-C-- 38 :: : :::: ::::::::::: ::: ::::::: : d1f74a_ 1 MRDLKGIFSALLVSFN---EDGTINEKGLRQIIRHNIDKM-KVD-----GLYVGGSTGEN 51 query 39 -------F-AT-WSVFDLMRDYMDG-TTSS------SLFEVRLGRERFGKETHAYSVAY- 81 : :: ::::::::::::: :::: ::::::::::: ::::::::::: d1f74a_ 52 FMLSTEEKKEIFRIAKDEAKDQIALIAQVGSVNLKEAVELGKYATEL-GYDCLSAVTPFY 110 query 82 --GDNEIDEVVSHADKIIFNSISQLERFADK-AA--GIARGLRLNPQRLGEWDVPKVERV 136 :::::::::::: :: ::::::::: :::::::::::: d1f74a_ 111 YK-----------------FSFPEIKHYYDTIIAETGSNMIVYSI---PFLTGVNMGIEQ 150 query 137 -MDRI-----NGFMIHNNCENKDFGLFDRMLGEIEERFGALIARV--DWVSLG------- 181 :::: ::::::: ::::::::::::: :::::: d1f74a_ 151 FGELYKNPKVLGVKFTA---------------GDFYLLERLKKAYPNHLIWAGFDEMMLP 195 query 182 ---------GGIHFTGDDYPVDAFSARLRAF------------------------SDRYG 208 :::::::::::::::::::::: d1f74a_ 196 AASLGVDGAIGSTFNVNGVRARQIFELTKAGKLKEALEIQHVTNDLIEGILANGL----- 250 query 209 VQIYLEPGE--AS-ITK---STTLEVTVLDTLYNKNLAIVDSSIEAHMLDLLIYRETAKV 262 : :: ::: :::: :::: :::::::: d1f74a_ 251 --------YLTIKELLKLEGVDAG----------------------YCRE--PMTSKATA 278 query 263 --LPNE-----------GSHSYMICGKSCLAGDVFGEFRFAEELKVGDRISFQDAAGYTM 309 :: d1f74a_ 279 EQ--VAKAKDLKAKFLS------------------------------------------- 293 query 310 VKKNWFNGVKMPAIAIRELDGSVRTVREFTYADYEQSLS 348 d1f74a_ 294 --------------------------------------- 294 HHsearch alignment (Probability: 0.07 E-value:0.07) query 1 MIETPYYL-IDKAKLTRNMERIAHVREKSGAKA-----------------------LLAL 36 :::::::: :::::::::::::::::::::::: :::: d1f74a_ 104 SAVTPFYYKFSFPEIKHYYDTIIAETGSNMIVYSIPFLTGVNMGIEQFGELYKNPKVLGV 163 query 37 K-CFATWSVFDLMRDYMDGTTSSSLFEVRL--GRERFGKETHAYSVAYGDNEIDEVVSHA 93 : :::::::::::::::::::::::::::: :::::::::::::::::::::::::::: d1f74a_ 164 KFTAGDFYLLERLKKAYPNHLIWAGFDEMMLPAASLGVDGAIGSTFNVNGVRARQIFELT 223 query 94 DKIIFNSISQLER 106 ::::::::::::: d1f74a_ 224 KAGKLKEALEIQH 236
Intermediate <-- 0.645 --> HitDALI alignment (Z-score: 1.5 Raw score:283.90) d1f74a_ 1 ----------------mrdlkgIFSA--lLVSFNED----------------gtiNEKGL 26 :::: ::::::: ::::: d1q3qa2 1 rgvvidkevvhprmpkrvenakIALIneaLEVKKTEtdakinitspdqlmsfleqEEKML 60 d1f74a_ 27 RQIIRHNIDkMKVDGLYVggstgenfmlsteekkeiFRIAKDEA-KDQIALIAQvgsvnl 85 ::::::::: :::::::: :::::::: ::::::::: d1q3qa2 61 KDMVDHIAQ-TGANVVFV--------------qkgiDDLAQHYLaKYGIMAVRR------ 99 d1f74a_ 86 keavelgkyatelgydclSAVTpfyykfsfpeikhyydtiiaetgsnmivysipfltgvn 145 :::: d1q3qa2 100 ------------------VKKS-------------------------------------- 103 d1f74a_ 146 mgieqfgelyknpkvlgVKFTagdfyllerlkkaypnhliwagfdemmlpaaslgVDGA- 204 :::: :::: d1q3qa2 104 -----------------DMEK-------------------------------lakATGAk 115 d1f74a_ 205 IGSTfNVNGVRAR----------------qifeLTKAgklkealeiqhvtndliegilan 248 :::: :::::::: :::: d1q3qa2 116 IVTNvKDLTPEDLgyaevveerklagenmifveGCKN----------------------- 152 d1f74a_ 249 glyltikellklegvdagycrepmtskataeqvakakdlkakfls 293 d1q3qa2 153 --------------------------------------------p 153 FAST alignment (Normalized score: 1.18 Raw score:248.70) d1f74a_ 1 MRDLKGIFSALLVSFNEDGTINEKGLRQIIRHNIDKMKVDGLYVGGSTGENFMLSTEEKK 60 d1q3qa2 1 ------------------------------------------------------------ 1 d1f74a_ 61 EIFRIAKDEAKDQIALIAQVGSV------------------------------------- 83 d1q3qa2 1 -----------------------RGVVIDKEVVHPRMPKRVENAKIALINEALEVKKTET 37 d1f74a_ 84 ------------------NLKEAVELGKYATELGYDCLSAVTPFYYKFSFPEIKHY---- 121 :::::::::::::::::::::: d1q3qa2 38 DAKINITSPDQLMSFLEQEEKMLKDMVDHIAQTGANVVFV----------------QKGI 81 d1f74a_ 122 YDTIIAE---TGSNMIVYSIPFLTGVNMGIEQFGELYKNPKVLGVKFTAG---DFYLLER 175 ::::::: :::::: ::::::: d1q3qa2 82 DDLAQHYLAKYGIMAV----------------------------------RRVKKSDMEK 107 d1f74a_ 176 LKKAYPNHLIWAGFDEMMLPAASLGVDGAIGSTFNVNGVRARQIFELTKAGKLKEALEIQ 235 :::: d1q3qa2 108 LAKA-------------------------------------------------------- 111 d1f74a_ 236 HVTNDLIEGILANGLYLTIKELLKLEGVDAGYCREPMTSKATAEQVAKAKDLKAKFLS-- 293 d1q3qa2 112 ----------------------------------------------------------TG 113 d1f74a_ 294 ---------------------------------------- 294 d1q3qa2 114 AKIVTNVKDLTPEDLGYAEVVEERKLAGENMIFVEGCKNP 153 TMalign alignment (TM-score: 0.19 Raw score:56.86) d1f74a_ 1 MRDLKGIFSALLVSFNEDGTINEKGLRQIIRHNIDKMKVDGLYVGGSTGENFML------ 54 ::: ::: : :: ::: ::: :::: d1q3qa2 1 ---------------RGV--VID--K--EV-----------VHP-RMP--KRVENAKIAL 25 d1f74a_ 55 --STEEKKEIFRIAKDEAKDQIALIAQVGSVNLKEAVELGKYATELGYDCLSAVTPFYYK 112 d1q3qa2 26 IN---------------------------------------------------------- 27 d1f74a_ 113 FSFPEIKHYYDTIIAETGSNMIVYSIPFLTGVNMGIEQFGELYKNPKVLGVKFTAGDFYL 172 d1q3qa2 28 ------------------------------------------------------------ 28 d1f74a_ 173 LERLKKAYPNHLIWAGFDEMMLPAASLGVDGAIGSTFNVNGVR---------------AR 217 ::: :: d1q3qa2 28 -------------------------------------EAL-EVKKTETDAKINITSPD-- 47 d1f74a_ 218 QIFELTKAGKLKEALEIQHVTNDLIEGILAN-GLYLTIKELLK----------------- 259 ::::::::::::::::::::::: ::: :: ::: d1q3qa2 48 --------QLMSFLEQEEKMLKDMVDHIAQTGANV--VF-VQKGIDDLAQHYLAKYGIMA 96 d1f74a_ 260 ---LEGVDA-GYC-REPMTSKATAEQVAKAKDLKAK------------------------ 290 :::::: ::: :::: :: ::::::: d1q3qa2 97 VRRVKKSDMEKLAK-----ATGA---KI-VTNVKDLTPEDLGYAEVVEERKLAGENMIFV 147 d1f74a_ 291 ------FLS 293 d1q3qa2 148 EGCKNP--- 153 HHsearch alignment (Probability: 0.02 E-value:0.10) d1f74a_ 47 STGENFMLSTEEKKEIFRIAKDEAKDQIALIAQVGSV 83 ::::::::::::::::::::::::::::::::::::: d1q3qa2 45 SPDQLMSFLEQEEKMLKDMVDHIAQTGANVVFVQKGI 81