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 | d1hl2a_ | N-acetylneuraminate lyase | Aldolase | TIM beta/alpha-barrel | α/β |
| Hit | d1ccwb_ | Glutamate mutase, large subunit | Cobalamin (vitamin B12)-dependent enzymes | TIM beta/alpha-barrel | α/β |
Query <-- 1.316 --> IntermediateDALI alignment (Z-score: 8.3 Raw score:892.10) query 1 mietpyylidkakltrnmeriahvreksgaKALLALKCF----------aTWSVFDLMRD 50 ::::::::: :::::::::: d1hl2a_ 1 --------------------------tnlrGVMAALLTPfdqqqaldkasLRRLVQFNIQ 34 query 51 -YMDGTTSS-------------SLFEVRLGRERFG--KETHAYSVA----YGDNEIDEVV 90 :::::::: ::::::::::::: ::::::::: :::::::::: d1hl2a_ 35 qGIDGLYVGgstgeafvqslseREQVLEIVAEEAKgkIKLIAHVGCvstaESQQLAASAK 94 query 91 S-HADKIIFNS-----------ISQLERFADKAAGIARGLRLNPQRL-geWDVPKVERVM 137 : ::::::::: ::::::::::::::::::::::::: :::::::::: d1hl2a_ 95 RyGFDAVSAVTpfyypfsfeehCDHYRAIIDSADGLPMVVYNIPARSgvkLTLDQINTLV 154 query 138 DR--INGFMIHNncenkdfglfdrMLGEIEErFGALIARVdWVSLGGGIhftgddypvda 195 :: :::::::: ::::::: :::::::: :::::::: d1hl2a_ 155 TLpgVGALKQTS-----------gDLYQMEQ-IRREHPDL-VLYNGYDE----------- 190 query 196 fsARLRAFSdrygvqIYLEPGEASITksttlevtvldtlynknlaivdssieahmldlli 255 ::::::: ::::::::::: d1hl2a_ 191 ifASGLLAG-----aDGGIGSTYNIM---------------------------------- 211 query 256 yretakvlpnegshsymicgksclagdvfgefrfaeelkvgdrisfqdaagytmvkknwf 315 d1hl2a_ 212 ---------gwryqgivkalkegdiqtaqklqtecnkvidlliktgvfrglktvlhymdv 262 query 316 ngvkmpaiaireldgsvrtvreftyadyeqsls 348 d1hl2a_ 263 vsvplcrkpfgpvdekylpelkalaqqlmqerg 295 FAST alignment (Normalized score: 3.89 Raw score:1246.00) query 1 MIETP----------------YYLIDKAKLTRNMERIAHVREKSGAKALLALKCFATWSV 44 :::::::::::::::::: d1hl2a_ 1 -----TNLRGVMAALLTPFDQQQALDKASLRRLVQFNIQ--------------------- 34 query 45 FDLMRD-YMDGTTSS---------------SLFEVRLGRERF--GKETHAYSVA--YGDN 84 :::::: :::::::::::: :::::::: :::: d1hl2a_ 35 ------QGIDGLY--VGGSTGEAFVQSLSEREQVLEIVAEEAKGKIKLIAHV--GCVSTA 84 query 85 EIDEVVS-----HADKIIFN------------SISQLERFADKAAGIARGLRLNPQRLGE 127 ::::::: ::::::: ::::::::::::::::::::::: d1hl2a_ 85 ESQQLAASAKRYGFDAVSA-VTPFYYPFSFEEHCDHYRAIIDSADGLPMVVYNIP----- 138 query 128 ------WDVPKVERV--MDRINGFMIHNNCENKDFGLFDRMLGE--IEERFGALIARV-- 175 ::::::::: :::::::::: :::::::::::: d1hl2a_ 139 ARSGVKLTLDQINTLVTLPGVGALKQT-----------------SGDLYQMEQIRREHPD 181 query 176 DWVSLGGGIHFTGDD-----------------------YPVDAFSARLRAFSDRYGVQIY 212 ::::: :::::::::::::: d1hl2a_ 182 LVLYN----------GYDEIFASGLLAGADGGIGSTYNIMGWRYQGIVKALK-------- 223 query 213 LEPGEASITKSTTLEVTVLDTLYNKNLAIVDSSIEAHMLDLLIYRETAKVLPNEGSHSYM 272 d1hl2a_ 224 ------------------------------------------------------------ 224 query 273 ICGKSCLAGDVFGEFRFAEELKVGDRISFQDAAGYTMVKKNWFNGVKMPAIAIRELDGSV 332 d1hl2a_ 224 ------------------------------------------------------------ 224 query 333 RTVREFTYADYEQSLS-------------------------------------------- 348 d1hl2a_ 224 ----------------EGDIQTAQKLQTECNKVIDLLIKTGVFRGLKTVLHYMDVVSVPL 267 query 349 ---------------------------- 349 d1hl2a_ 268 CRKPFGPVDEKYLPELKALAQQLMQERG 295 TMalign alignment (TM-score: 0.43 Raw score:149.67) query 1 ---------------MIETPYYLIDKAKLTRNMERIAHVREKSGAKALLALK--CF--A- 40 :::::::::::::::::::: :: :::::::: :: : d1hl2a_ 1 TNLRGVMAALLTPFD----QQQALDKASLRRLVQFNIQQ--GI-DGLYVGGSTGEAFVQS 53 query 41 --T-WSVFDLMRDYM-----DGTTSSS--L-FEVRLGRER--FGKETHAYSVA------- 80 : ::::::::::: ::::::: : ::::::::: ::::::::::: d1hl2a_ 54 LSEREQVLEIVAEEAKGKIKLIAHVGCVSTAESQQLAASAKRYGFDAVSAVTPFYYPFSF 113 query 81 -YGDNEIDEVVS-H--ADKIIFN--------S-ISQLERFADKAAGIARGLRLNPQRLGE 127 ::::::::::: : ::::::: : ::::::::: :::::::::::: :: d1hl2a_ 114 EEHCDHYRAIIDSADGLPMVVYNIPARSGVKLTLDQINTLVT-LPGVGALKQTSG---DL 169 query 128 WDVPKVERVMDRINGFMIHNNCENKDFGLFDRMLGEIEERFGALIARVDWVSLGGGIHFT 187 ::::::::::: ::::::::: : :::::::::: :::::::::: d1hl2a_ 170 YQMEQIRREHP-DLVLYNGYD-----------E--IFASGLLAGA----DGGIGSTYNI- 210 query 188 GDDYPVDAFSARLRAFSDRYG------------------------VQIYLEPGE-AS--I 220 : ::::::::::::: ::: :: : d1hl2a_ 211 -----M--GWRYQGIVKALKEGDIQTAQKLQTECNKVIDLLIKTG------VFRGLKTVL 257 query 221 T----KSTTLEVTVLDTLYNKNLAIVDSSIEAHMLDLLIYRETAKV-------------- 262 : ::::: ::::: ::::: d1hl2a_ 258 HYMDVVSVPL----------------------CRKPF----GPVDEKYLPELKALAQQLM 291 query 263 ----LPNEGSHSYMICGKSCLAGDVFGEFRFAEELKVGDRISFQDAAGYTMVKKNWFNGV 318 d1hl2a_ 292 QERG-------------------------------------------------------- 295 query 319 KMPAIAIRELDGSVRTVREFTYADYEQSLS 348 d1hl2a_ 296 ------------------------------ 296 HHsearch alignment (Probability: 0.05 E-value:0.04) query 1 MIETPYYL-IDKAKLTRNMERIAHVREKSGAKAL---LALKCFATWSVFDLMRD 50 :::::::: ::::::::::::::::::::::::: ::::::::::::::::: d1hl2a_ 102 SAVTPFYYPFSFEEHCDHYRAIIDSADGLPMVVYNIPARSGVKLTLDQINTLVT 155
Intermediate <-- 1.296 --> HitDALI alignment (Z-score: 12.9 Raw score:1549.30) d1hl2a_ 1 -------------------------------------------------TNLR------- 4 :::: d1ccwb_ 1 melknkkwtdeefhkqreevlqqwptgkevdlqeavdylkkipaeknfaEKLVlakkkgi 60 d1hl2a_ 5 -GVMAALLTpfdqqqaLDKASLRRLVQFNIQ-QGIDGLYVGGstgeAFVQ---------- 52 :::::::: ::::::::::::::: :::::::::: :::: d1ccwb_ 61 tMAQPRAGV-------ALLDEHIELLRYLQDeGGADFLPSTI----DAYTrqnrydecen 109 d1hl2a_ 53 -----------------sLSEREQVLEIVAEEAkgKIKLIAHVGCVStaeSQQLAASAKR 95 ::::::::::::::: :::::::::::: :::::::::: d1ccwb_ 110 gikesekagrsllngfpgVNFGVKGCRKVLEAV--NLPLQARHGTPD---SRLLAEIIHA 164 d1hl2a_ 96 YGFDAVSA---VTPF--YYPFSFEEHCDHYRAIIDSAD-------GLPMVVYNIPAR--s 141 :::::::: :::: ::::::::::::::::::::: :::::::::::: d1ccwb_ 165 GGWTSNEGggiSYNVpyAKNVTIEKSLLDWQYCDRLVGfyeeqgvHINREPFGPLTGtlv 224 d1hl2a_ 142 gvkLTLDQINTLVTLP-----GVGALKQTSG-----DLYQMEQIRREHP----------- 180 ::::::::::::: :::::::::: ::::::::::::: d1ccwb_ 225 ppsMSNAVGITEALLAaeqgvKNITVGYGECgnmiqDIAALRCLEEQTNeylkaygyndv 284 d1hl2a_ 181 DLVLYNGYD----------------EIFASGLLAGADGGIGST------------YNIMG 212 ::::::::: :::::::::::::::::: ::::: d1ccwb_ 285 FVTTVFHQWmggfpqdeskafgvivTATTIAALAGATKVIVKTpheaigiptkeaNAAGI 344 d1hl2a_ 213 WRYQGIVKALKEG----------------------------------------------- 225 ::::::::::::: d1ccwb_ 345 KATKMALNMLEGQrmpmskeletemavikaetkcildkmfelgkgdlaigtvkafetgvm 404 d1hl2a_ 226 --------------------------------------------------diqtaqklqt 235 d1ccwb_ 405 dipfgpskynagkmmpvrdnlgcvrylefgnvpfteeiknynrerlqerakfegrdvsfq 464 d1hl2a_ 236 ecnkviDLLIKTgvfrglktvlhymdvvsvplcrkpfgpvdekylpelkalaqqlmqerg 295 :::::: d1ccwb_ 465 mviddiFAVGKG-----------------------------------------rligrpe 483 FAST alignment (Normalized score: 5.88 Raw score:2222.00) d1hl2a_ 1 TNL--------------------------------------------------------- 3 d1ccwb_ 1 ---MELKNKKWTDEEFHKQREEVLQQWPTGKEVDLQEAVDYLKKIPAEKNFAEKLVLAKK 57 d1hl2a_ 4 ---RGVMAALLTPFDQQQA--LDKASLRRLVQFNI-QQGIDGLYVGGSTGEAFVQSLSE- 56 ::::::: :::::::::::::: :::::::: d1ccwb_ 58 KGITMAQPRA---------GVALLDEHIELLRYLQDEGGADFLP---------------S 93 d1hl2a_ 57 -------------------------------------REQVLEIVAEEAKG-KIKLIAHV 78 ::::::::::: :::::::: d1ccwb_ 94 TIDAYTRQNRYDECENGIKESEKAGRSLLNGFPGVNFGVKGCRKVLEA---VNLPLQARH 150 d1hl2a_ 79 GCVSTAESQQLAASAKRYGFDAVSAVTPFY------------YPFSFEEHCDHYRAIIDS 126 ::: ::::::::::::::::: :::::::::::::::::: d1ccwb_ 151 GTP---DSRLLAEIIHAGGWTSN-------EGGGISYNVPYAKNVTIEKSLLDWQYCDRL 200 d1hl2a_ 127 A--------DGLPMVVYNIPAR---SGVKL---TLDQINTLVT---LPGV--GALKQTSG 167 :::::::::: :::: :::::::::: :::: ::::: d1ccwb_ 201 -VGFYEEQGVHINREPFGP---LTGTLVP-PSMSNAVGITEALLAAEQGVKNITVGY--- 252 d1hl2a_ 168 --------DLYQMEQIRREHP-------------DLVLYNGYDE---------------- 190 ::::::::::: :::::: d1ccwb_ 253 GECGNMIQDIAALRCLEEQ--TNEYLKAYGYNDVFVTTVF----HQWMGGFPQDESKAFG 306 d1hl2a_ 191 ----IFASGLLAGADGGIGSTY-----------NIMGWRYQGIVKALKEGDIQTAQKLQT 235 ::::::::::::::: ::::::::::::::: d1ccwb_ 307 VIVTATTIAALAGATKVIV---KTPHEAIGIPTKEANAAGIKATKMAL------------ 351 d1hl2a_ 236 ECNKVIDLLIKTGVFRGLKTVLHYMDVVSVPLCRKPFGPVDEKYLPELKALAQQLMQERG 295 d1ccwb_ 352 ------------------------------------------------------------ 352 d1hl2a_ 296 ------------------------------------------------------------ 296 d1ccwb_ 352 NMLEGQRMPMSKELETEMAVIKAETKCILDKMFELGKGDLAIGTVKAFETGVMDIPFGPS 411 d1hl2a_ 296 ------------------------------------------------------------ 296 d1ccwb_ 412 KYNAGKMMPVRDNLGCVRYLEFGNVPFTEEIKNYNRERLQERAKFEGRDVSFQMVIDDIF 471 d1hl2a_ 296 ------------ 296 d1ccwb_ 472 AVGKGRLIGRPE 483 TMalign alignment (TM-score: 0.52 Raw score:153.07) d1hl2a_ 1 -------------------------------------------------TNLR-GV---M 7 :::: :: d1ccwb_ 1 MELKNKKWTDEEFHKQREEVLQQWPTGKEVDLQEAVDYLKKIPAEKNFAEKLVLAKKKG- 59 d1hl2a_ 8 AALLTPFDQQQALDKASLRRLVQFNIQQGIDGLYVGGSTGEAFVQSLS-EREQVLEIVAE 66 :::::::: : :::: ::::::::::: d1ccwb_ 60 ----------------------------ITMAQPRA-----G--VALLDEHIELLRYLQD 84 d1hl2a_ 67 EAKGKIKLIAHVGC--V--------------------------S-TAESQ-QLAASAKRY 96 ::: ::::::::: : : ::::: ::::::::: d1ccwb_ 85 EGG--ADFLPSTIDAYTRQNRYDECENGIKESEKAGRSLLNGFPGVNFGVKGCRKVLEAV 142 d1hl2a_ 97 GFDAVSAVTPFYYPFSFEEHCDHYRAIIDSADGLPMVVYN---IPARSG--V-K--LT-- 146 ::::::::::: : :::::::::::: ::::::: :::::: : : :: d1ccwb_ 143 NLPLQARHGTP---D----SRLLAEIIHAGG--WTSNEGGGISYNVPYAKNVTIEKSLLD 193 d1hl2a_ 147 LDQINTLVTLP----GVGALKQTS-----------G--DLYQMEQIRRE-HPDLVLYNGY 188 ::::::::::: ::::::::: : ::::::::::: :::::::::: d1ccwb_ 194 WQYCDRLVGFYEEQGVHINREPFGPLTGTLVPPSMSNAVGITEALLAAEQGVKNITVGYG 253 d1hl2a_ 189 DE--------IFASGLLAG-------------ADGGIGST-------------YNI-MGW 213 :: ::::::::: :::::::: ::: ::: d1ccwb_ 254 ECGNMIQDIAALRCLEEQTNEYLKAYGYNDVFVTTVFHQWMGGFPQDESKAFGVIVTATT 313 d1hl2a_ 214 RYQGIVK------------------------------------ALKEGDIQTA-QK--LQ 234 ::::::: :::::::::: :: : d1ccwb_ 314 IAALAGATKVIVKTPHEAIGIPTKEANAAGIKATKMALNMLEGQRMPMSKELETEMAV-I 372 d1hl2a_ 235 -------------------------------------------------TE-CNKVI--- 241 :: :::: d1ccwb_ 373 KAETKCILDKMFELGKGDLAIGTVKAFETGVMDIPFGPSKYNAGKMMPVRDN-LGCVRYL 431 d1hl2a_ 242 ----------------------------------DLLIKTGVFRGLKTVLHYMDVVSVPL 267 ::::::: : d1ccwb_ 432 EFGNVPFTEEIKNYNRERLQERAKFEGRDVSFQMVIDDIFA---V--------------- 473 d1hl2a_ 268 CRKPFGPVDEKYLPEL-----KALAQQLMQERG 295 : :: :: d1ccwb_ 474 -------G---KG-RLIGRPE------------ 483 HHsearch alignment (Probability: 0.04 E-value:0.72) d1hl2a_ 18 QALDKASLRRLVQFNIQQGIDGLYVGGST 46 ::::::::::::::::::::::::::::: d1ccwb_ 68 GVALLDEHIELLRYLQDEGGADFLPSTID 96