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 | d1qq5a_ | L-2-Haloacid dehalogenase, HAD | HAD-like | HAD-like | 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 <-- 2.237 --> HitDALI alignment (Z-score: 10.2 Raw score:966.70) d1nnla_ 1 selrklfySADAVCFDVDSTVIREE----------------------------------- 25 ::::::::::::::::: d1qq5a_ 1 --------MIKAVVFDAYGTLFDVQsvadateraypgrgeyitqvwrqkqleyswlralm 52 d1nnla_ 26 ------GIDELAKICGVEDAvpfkaalterlaliqpSREQVQRLiAEQP-PHLTPGIREL 78 :::::::::::::: :::::::: :::: :::::::::: d1qq5a_ 53 gryadfWSVTREALAYTLGT----------lglepdESFLADMA-QAYNrLTPYPDAAQC 101 d1nnla_ 79 VSRLQerNVQVFLISGGFRSIVEHVAS--KLNIpaTNVFANRlkfyfngeyagfdetQPT 136 ::::: :::::::::::::::::::: :::: ::::::: ::: d1qq5a_ 102 LAELA--PLKRAILSNGAPDMLQALVAnaGLTDsfDAVISVD---------------AKR 144 d1nnla_ 137 AE--SGGKGKVIKLLkekFHFK--KIIMIGDGATDM-EACPPADAFIGFGGN-------- 183 :: ::::::::::: :::: :::::::::::: ::::::::::::::: d1qq5a_ 145 VFkpHPDSYALVEEV---LGVTpaEVLFVSSNGFDVgGAKNFGFSVARVARLsqealare 201 d1nnla_ 184 ---------------VIRQQ-vkDNAKWYITDFVELLG------ 205 ::::: ::::::::::::::: d1qq5a_ 202 lvsgtiapltmfkalRMREEtyaEAPDFVVPALGDLPRlvrgma 245 FAST alignment (Normalized score: 7.35 Raw score:1648.00) d1nnla_ 1 SELRKLFYSADAVCFDVDSTVIREEGIDELAKICGVEDAVPF------------------ 42 :::::::::::::: :::::::: d1qq5a_ 1 --------MIKAVVFDAYGTLF---DVQSVADA---------TERAYPGRGEYITQVWRQ 40 d1nnla_ 43 ------------------KAALTERLALIQP-------------SREQVQRLIAEQ-PPH 70 :::::::::: :::::::: ::: d1qq5a_ 41 KQLEYSWLRALMGRYADFWSVTREALAY---TLGTLGLEPDESFLADMAQAY----NRLT 93 d1nnla_ 71 LTPGIRELVSRLQE-RNVQVFLISGGFRSIVEHVASKLNIPAT------NVFANRLKFYF 123 ::::::::::: :::::::::::::::::::::::: :::: d1qq5a_ 94 PYPDAAQCLAE---LAPLKRAILSNGAPDMLQALVANAG----LTDSFDAVIS------- 139 d1nnla_ 124 NGEYAGFDETQPTAESGG---------KGKVIKLLKEKFHFK---KIIMIGDGATDM-EA 170 :::::::::::::: :::::::::::: :: d1qq5a_ 140 ------------------VDAKRVFKPHPDSYALVEEVLGV-TPAEVLFVSSNGFDVGGA 180 d1nnla_ 171 CPPA--DAFIGFGGNVIRQQVKD-------------------------------NAKWYI 197 :: :::::: :::: :::::: d1qq5a_ 181 KN--FGFSVARV-ARLS------QEALARELVSGTIAPLTMFKALRMREETYAEAPDFVV 231 d1nnla_ 198 TDFVELLG-------- 205 :::::: d1qq5a_ 232 PALGDL--PRLVRGMA 245 TMalign alignment (TM-score: 0.63 Raw score:129.86) d1nnla_ 1 SELRKLFYSADAVCFDVDSTVIREEGIDELAKICGV------ED-AV-------PFKAA- 45 :::::::::::::::::: ::::::::: :: :: ::::: d1qq5a_ 1 --------MIKAVVFDAYGTLFDVQS-VADATERAYPGRGEYITQVWRQKQLEYSWLRAL 51 d1nnla_ 46 ------L-TERLA--LI----------QPSREQVQRLIAEQPPHLTPGIRELVSRLQERN 86 : ::::: :: ::::::::::: ::::::::::::::::: : d1qq5a_ 52 MGRYADFWSVTREALAYTLGTLGLEPDESFLADMAQAY--NRLTPYPDAAQCLAELA-P- 107 d1nnla_ 87 VQVFLISGGFRSIVEHVAS--KL-NIPATNVFANRLKFYFNGEYAGFDETQPTAESGGKG 143 ::::::::::::::::::: :: ::: :::::: ::::::::: : d1qq5a_ 108 LKRAILSNGAPDMLQALVANAGLTDSF-DAVISV---------------DAKRVFKPH-P 150 d1nnla_ 144 KVIKLLKEKFHFK--KIIMIGDGATDM-EACPPADAFIGFGGN----------------- 183 ::::::::::::: :::::::::::: ::::::::::::::: d1qq5a_ 151 DSYALVEEVLGVTPAEVLFVSSNGFDVGGAKNFGFSVARVARLSQEALARELVSGTIAPL 210 d1nnla_ 184 ---V--IRQQVK--DNAKWYITDFVELLG------ 205 : :::::: ::::::::::::::: d1qq5a_ 211 TMFKALRMREETYAEAPDFVVPALGDLPRLVRGMA 245 HHsearch alignment (Probability: 1.00 E-value:0.00) d1nnla_ 10 ADAVCFDVDSTVIREEGIDELAKICGVE------------------------DAVPFKAA 45 :::::::::::::::::::::::::::: :::::::: d1qq5a_ 2 IKAVVFDAYGTLFDVQSVADATERAYPGRGEYITQVWRQKQLEYSWLRALMGRYADFWSV 61 d1nnla_ 46 LTERLA-----LIQPSREQVQRLIAEQPPHLTPGIRELVSRLQERNVQVFLISGGFRSIV 100 :::::: ::::::::::::::::::::::::::::::::::::::::::::::::: d1qq5a_ 62 TREALAYTLGTLGLEPDESFLADMAQAYNRLTPYPDAAQCLAELAPLKRAILSNGAPDML 121 d1nnla_ 101 EHVASKLNIPATNVFANRLKFYFNGEYAGFDETQPTAESGGKGKVIKLLKEKFHFKKIIM 160 :::::::::::: : ::::: :::::::::::::::::::::::::::::: d1qq5a_ 122 QALVANAGLTDS--F--------DAVIS--VDAKRVFKPHPDSYALVEEVLGVTPAEVLF 169 d1nnla_ 161 IGDGATDMEACPPADAFIGFGGNV-------------------------IRQQVKDNAKW 195 :::::::::::::::::::::::: ::::::::::: d1qq5a_ 170 VSSNGFDVGGAKNFGFSVARVARLSQEALARELVSGTIAPLTMFKALRMREETYAEAPDF 229 d1nnla_ 196 YITDFVELL 204 ::::::::: d1qq5a_ 230 VVPALGDLP 238