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: T0542_Ad2+3.pdb
Database: SCOP1.69 less than 40% identity downloaded from ASTRAL
| SCOP Id | Protein | SCOP Superfamily | SCOP Fold | SCOP Class |
|
|---|---|---|---|---|---|
| Intermediate | d1nnla_ | Phosphoserine phosphatase | HAD-like | HAD-like | α/β |
| Hit | d1c4xa_ | 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate hydrolase (BPHD) | alpha/beta-Hydrolases | alpha/beta-Hydrolases | α/β |
Query <-- 0.606 --> IntermediateDALI alignment (Z-score: 3.0 Raw score:421.70) query 1 dadeevysalvvglrAYVAknGFRSVLIGLSggiDSAL---------------------- 38 :::: :::::::::: :::: d1nnla_ 1 -----------selrKLFY--SADAVCFDVD---STVIreegidelakicgvedavpfka 44 query 39 -----------------------------vaAIACDALG--aqNVYGVSMPskyssdhSK 67 :::::::: :::::::: :: d1nnla_ 45 alterlaliqpsreqvqrliaeqpphltpgiRELVSRLQernvQVFLISGG-------FR 97 query 68 GDAAELARRTGL---NFRT------------------VSIEpmfdaymaslgltglaeen 106 :::::::::::: :::: :::: d1nnla_ 98 SIVEHVASKLNIpatNVFAnrlkfyfngeyagfdetqPTAE------------------- 138 query 107 lqsRLRGTTLMAISNQE----GHIVLAPGnkselavgystlyGDSV------gAYGPiKD 156 :::::::::::::: :::::::: :::: :::: :: d1nnla_ 139 ---SGGKGKVIKLLKEKfhfkKIIMIGDG------------aTDMEacppadaFIGF-GG 182 query 157 VYktsifrlaewrnraaaergqtppipeasitkpdypvldailelyvdrdtgadaivaag 216 :: d1nnla_ 183 NV---------------------------------------------------------- 184 query 217 ydrelvvktlrmvdtaeykRRQY-PPGTkisakgfgkdrrlpitnrwregh 266 :::: :::: d1nnla_ 185 --------------irqqvKDNAkWYIT----------------dfvellg 205 FAST alignment (Normalized score: 1.83 Raw score:427.80) query 1 DADEEVYSALVVGLRAYVAKNGFRSVLIGLSGGI-DSALVAAIACDALGAQN-VYGVSMP 58 :::::::: :::::: d1nnla_ 1 ----------------------------------SELRKLFYS---------ADAVCFD- 16 query 59 S----------------------------------------------------KYSSDHS 66 ::::::: d1nnla_ 17 -VDSTVIREEGIDELAKICGVEDAVPFKAALTERLALIQPSREQVQRLIAEQPPHLTPGI 75 query 67 KGDAAELARRTGLNFRTVSIE--------------------------------------- 87 :::::::: ::::::::::: d1nnla_ 76 RELVSRLQ-ERNVQVFLISG-GFRSIVEHVASKLNIPATNVFANRLKFYFNGEYAGFDET 133 query 88 PMFDAYMASLGLTGLAEENLQS--RLRGTTLMAISNQEGH-IVLAPGNKSELAVGYSTLY 144 :::: :::::::::::::::: :::: d1nnla_ 134 QPTA------------------ESGGKGKVIKLLKEKFHFKKIIM--------------- 160 query 145 ---------GDSVGAYGPIKDVYKTSIFRLAEWRNRAAAERGQTPPIPEASITKPDYPVL 195 :::::::: d1nnla_ 161 IGDGATDMEACPPADAF------------------------------------------- 177 query 196 DAILELYVDRDTGADAIVAAGYDRELVVKTLRMVDTAEYKRRQYPPGTKISAKGFGKDRR 255 d1nnla_ 178 ------------------------------------------------------------ 178 query 256 LPITNRWREGH---------------------------- 266 d1nnla_ 178 -----------IGFGGNVIRQQVKDNAKWYITDFVELLG 205 TMalign alignment (TM-score: 0.36 Raw score:94.46) query 1 DADEEVYSALVVGLRAYVAKNGFRSVLIGLSGGIDSA----------------------- 37 :::::::: : :::::::: ::::: d1nnla_ 1 -----------SELRKLFY-S-ADAVCFDV--DSTVIREEGIDELAKICGVEDAVPFKAA 45 query 38 --------------------------L-VAAIACDALGA-QNVYGVSMPSKYSSDHSKGD 69 : ::::::::::: ::::::::: : :::: d1nnla_ 46 LTERLALIQPSREQVQRLIAEQPPHLTPGIRELVSRLQERNVQVFLISG---G---FRSI 99 query 70 AAELARRTGLNFR-TV-S-------------IEPMF-DAYMASLGLTGLAEENLQSRLRG 113 ::::::::::::: :: : ::::: ::::::: d1nnla_ 100 VEHVASKLNIPATNVFANRLKFYFNGEYAGFDETQPT----------------AESGGKG 143 query 114 TTLMAISNQE-G-HIVLAPGNKSELAVGYSTLYGDSVG----AYGPIKDVYKTSIFRLAE 167 :::::::::: : ::::::: : : :::::: :::::: ::: d1nnla_ 144 KVIKLLKEKFHFKKIIMIGD---G------A-TDMEACPPADAFIGFG-GNV-------- 184 query 168 WRNRAAAERGQTPPIPEASITKPDYPVLDAILELYVDRDTGADAIVAAGYDRELVVKTLR 227 : : d1nnla_ 185 ----------------------------I--R---------------------------- 186 query 228 MVDTAEYKRRQYPPGTKI------SAKGFGKDRRLPITNRWREGH 266 : :: ::: ::::::: d1nnla_ 187 -Q--QV-KDN-AKWYITDFVELLG--------------------- 205 HHsearch alignment (Probability: 0.01 E-value:0.18) query 144 YGDSVGAYGPIK 155 :::::::::::: d1nnla_ 161 IGDGATDMEACP 172
Intermediate <-- 1.099 --> HitDALI alignment (Z-score: 3.2 Raw score:445.60) d1nnla_ 1 ----------------selrklfysaDAVCFDVDstvireEGIDelakicgvedavpfka 44 :::::::: :::: d1c4xa_ 1 tveiiekrfpsgtlashalvagdpqsPAVVLLHG------AGPG---------------- 38 d1nnla_ 45 alterlaliqpsreqvqrliaeqpphltpgIRELVSRLQeRNVQVFLI-SGGFRSivehv 103 ::::::::: :::::::: :::::: d1c4xa_ 39 ------------------------ahaasnWRPIIPDLA-ENFFVVAPdLIGFGQ----- 68 d1nnla_ 104 asklnipatnvfANRLkfyfngeyagFDET-qptAESGGKGKVIKLLKEKFHFKKIIMIG 162 :::: :::: :::::::::::::::::::::::::: d1c4xa_ 69 ------------SEYP----------ETYPghimSWVGMRVEQILGLMNHFGIEKSHIVG 106 d1nnla_ 163 D---GATDMEAC----pPADAFIGFGgnvIRQQ--------------------------- 188 : :::::::: ::::::::: :::: d1c4xa_ 107 NsmgGAVTLQLVveapeRFDKVALMG--sVGAPmnarppelarllafyadprltpyreli 164 d1nnla_ 189 -------------------------------------------------------vkdna 193 d1c4xa_ 165 hsfvydpenfpgmeeivksrfevandpevrriqevmfesmkagmeslvippatlgrlphd 224 d1nnla_ 194 KWYI---------------------------------TDFV----ELLG-------- 205 :::: :::: :::: d1c4xa_ 225 VLVFhgrqdrivpldtslyltkhlkhaelvvldrcghWAQLerwdAMGPmlmehfra 281 FAST alignment (Normalized score: 2.89 Raw score:693.90) d1nnla_ 1 SELRKLFYSA--------------------------DAVCFDVDSTVIREEGIDELAKIC 34 :::::: d1c4xa_ 1 ----------TVEIIEKRFPSGTLASHALVAGDPQSPAVVLL------------------ 32 d1nnla_ 35 GVEDAVPFKAALTERLALIQPSREQVQRLIAEQPPHLTPG------------IRELVSRL 82 :::::::: d1c4xa_ 33 ----------------------------------------HGAGPGAHAASNWRPIIPDL 52 d1nnla_ 83 QERNVQVFLISGGFRSIVEHVASKLNIPATNVFANRLKFYFNGEYAGFDETQPTAES--- 139 :: ::::::: d1c4xa_ 53 AE-NFFVVAP-----------------------------------------------DLI 64 d1nnla_ 140 -------------------GGKGKVIKLLKEKFHFKKIIMIGD---GATDME----ACPP 173 :::::::::::::::::::::::: :::::: :::: d1c4xa_ 65 GFGQSEYPETYPGHIMSWVGMRVEQILGLMNHFGIEKSHIVGNSMGGAVTLQLVVEAPER 124 d1nnla_ 174 ADAFIGFGGNVI------------------------------------------------ 185 :::::: d1c4xa_ 125 FDKVAL------MGSVGAPMNARPPELARLLAFYADPRLTPYRELIHSFVYDPENFPGME 178 d1nnla_ 186 ------------------------------------------------------------ 186 d1c4xa_ 179 EIVKSRFEVANDPEVRRIQEVMFESMKAGMESLVIPPATLGRLPHDVLVFHGRQDRIVPL 238 d1nnla_ 186 --RQQVKDNAKWYIT------------------DFVELLG------ 205 :::::::::::: ::::: d1c4xa_ 239 DTSLYLTKHLKHAE-LVVLDRCGHWAQLERWDAMGPML--MEHFRA 281 TMalign alignment (TM-score: 0.37 Raw score:75.13) d1nnla_ 1 --SE-L--------------RKLFYSADAVCFDVD-----S------------------- 19 : : ::::::::::::::: : d1c4xa_ 1 TV-EIIEKRFPSGTLASHALVAGDPQSPAVVLLHGAGPGAHAASNWRPIIPDLAENFFVV 59 d1nnla_ 20 -TVIREE---------GIDELAKICGVEDAVPFKAALTERLALIQPSREQVQRLIAEQPP 69 :::::: :: ::: :::: d1c4xa_ 60 APDLIGFGQSEYPETY------PG----------------------------HIM-SWVG 84 d1nnla_ 70 HL--TP-GIRELVSRLQERNVQVFLISGGFRSIVEHVASKLN-IPATNVFANRL--KFYF 123 :: :: :::::: ::: : ::::::::::::::::::::: ::::::::::: ::: d1c4xa_ 85 MRVEQILGLMNHF-GIE--K-SHIVGNSMGGAVTLQLVVEAPERFDKVALMGSVGAPMN- 139 d1nnla_ 124 NGEYA------------------------------------------------------- 128 ::: d1c4xa_ 140 --ARPPELARLLAFYADPRLTPYRELIHSFVYDPENFPGMEEIVKSRFEVANDPEVRRIQ 197 d1nnla_ 129 --------------------------------------GFD--E-------------TQ- 134 ::: : :: d1c4xa_ 198 EVMFESMKAGMESLVIPPATLGRLPHDVLVFHGRQDRIVPLDTSLYLTKHLKHAELVVLD 257 d1nnla_ 135 -PTAES-GGKG-KVIKLLKEKFHFKKIIMIGDGATDMEACPPADAFIGFGGNVIRQQVKD 191 ::::: :::: :::::::::::: d1c4xa_ 258 RCGHWAQLERWDAMGPMLMEHFRA------------------------------------ 281 d1nnla_ 192 NAKWYITDFVELLG 205 d1c4xa_ 282 -------------- 282 HHsearch alignment (Probability: 0.01 E-value:0.61) d1nnla_ 9 SADAVCFDVDS 19 ::::::::::: d1c4xa_ 55 NFFVVAPDLIG 65