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 | d1f2va_ | Precorrin-8x methylmutase | Precorrin-8X methylmutase CbiC/CobH | Flavodoxin-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 <-- 0.685 --> HitDALI alignment (Z-score: 3.3 Raw score:393.30) d1nnla_ 1 --------------------------------------------------------SELR 4 :::: d1f2va_ 1 peydyirdgnaiyersfaiiraeadlsrfseeeadlavrmvhacgsveatrqfvfsPDFV 60 d1nnla_ 5 KLFYSA----DAVCFDVDSTVIreegidelakicgvedavpfkaalterlaliqpsreqv 60 :::::: :::::::::::: d1f2va_ 61 SSARAAlkagAPILCDAEMVAH-------------------------------------- 82 d1nnla_ 61 qrliaeqpphltpGIRElvSRLQeRNVQVFLISggfrsivehvasklnipatnvFANRlk 120 :::: :::: ::::::::: :::: d1f2va_ 83 -------------GVTR--ARLP-AGNEVICTL---------------------RDPR-- 103 d1nnla_ 121 fyfngeyagfdetqpTAES---------gGKGKVIKLLkekfhfkKIIMIG-DGATDMEA 170 :::: ::::::::: :::::: :::::::: d1f2va_ 104 ---------------TPALaaeigntrsaAALKLWSER-----laGSVVAIgNAPTALFF 143 d1nnla_ 171 C--------pPADAFIGFGG-nviRQQVKDNA--------KWYI--------TDFVELLG 205 : :::::::::: :::::::: :::: :::::::: d1f2va_ 144 LlemlrdgapKPAAILGMPVgfvgAAESKDALaensygvpFAIVrgrlggsaMTAAALNS 203 d1nnla_ 206 ------ 206 d1f2va_ 204 larpgl 209 FAST alignment (Normalized score: 1.24 Raw score:256.00) d1nnla_ 1 SELRKLFYSADAVCFDVDSTVIREEGIDELAKICGVEDAVPFKAALTERLALIQPSREQV 60 d1f2va_ 1 ------------------------------------------------------------ 1 d1nnla_ 61 QRLIAEQPPHL------------------------------------------------- 71 d1f2va_ 1 -----------PEYDYIRDGNAIYERSFAIIRAEADLSRFSEEEADLAVRMVHACGSVEA 49 d1nnla_ 72 ------TPGIRELVSRLQERNVQVFLISGGFR--SIVEHVASKLNIPAT----------- 112 :::::::::::::::::::: :::::: d1f2va_ 50 TRQFVFSPDFVSSARAALKAGAPILC------DAEMVAHG---------VTRARLPAGNE 94 d1nnla_ 113 -NVFANRLKFYFNGEYAGFDETQPTAES-------------------------------- 139 ::::: d1f2va_ 95 VICTLR----------------------DPRTPALAAEIGNTRSAAALKLWSERLAGSVV 132 d1nnla_ 140 -----GGKGKVIKLLKEKFHFK---KIIMIGDG-ATDMEACPPADAFIGFGGNVIRQQVK 190 :::::::::::: :::: :::::::: ::::::::: d1f2va_ 133 AIGNAPTALFFLLEMLR-DGAPKPAAILGMPVGFVGAAESKDA----------------- 174 d1nnla_ 191 DNAKWYITDFVELLG----------------------------------- 205 d1f2va_ 175 ---------------LAENSYGVPFAIVRGRLGGSAMTAAALNSLARPGL 209 TMalign alignment (TM-score: 0.36 Raw score:73.73) d1nnla_ 1 -------------------------------SE--L-----------------------R 4 :: : : d1f2va_ 1 PEYDYIRDGNAIYERSFAIIRAEADLSRFSEEEADLAVRMVHACGSVEATRQFVFSPDFV 60 d1nnla_ 5 KLFYSA----DAVCFDVDSTVIREEGIDELAKICGVEDAVPFKAALTERLALIQPSREQV 60 :::::: ::::::::::: d1f2va_ 61 SSARAALKAGAPILCDAEMVA--------------------------------------- 81 d1nnla_ 61 QRLIAEQPPHLTPGIRELVSRLQERNVQVFLISGGFRSIVEHVASKLNIPATNVFANRLK 120 ::::::::::::: ::::: ::: ::::: d1f2va_ 82 ----------HGVTRARLPAGNE-----VICTL--RDP-----------------RTPAL 107 d1nnla_ 121 FYFNGEYAGFDETQPTA-E--------------------SGGKGKVIKLLK-EKFHFKKI 158 :::::::: : :::::::::::: ::: :::: d1f2va_ 108 ---------AAEIGNTRSAAALKLWSERLAGSVVAIGNAPTALFFLLEMLRDGAP-KPAA 157 d1nnla_ 159 IMIGDGA--TDM-EA--CP-PA--D-AFIGFGGNVIRQQVK---DNAKWYITDFVELLG- 205 ::::::: ::: :: :: :: : :::: ::::: ::::::::::: d1f2va_ 158 ILGMPVGFVGAAESKDALAENSYGVPFAIV------RGRLGGSA----MTAAALNSLARP 207 d1nnla_ 206 -- 206 d1f2va_ 208 GL 209 HHsearch alignment (Probability: 0.08 E-value:0.36) d1nnla_ 18 DSTVIREEGIDELAKICGVEDAVPFKAALTERLALIQPSREQVQRLIAEQPPHLTPGIRE 77 :::::::::::::::::::::::::::::::::::::::::: :::::::::::: d1f2va_ 8 DGNAIYERSFAIIRAEADLSRFSEEEADLAVRMVHACGSVEA------TRQFVFSPDFVS 61 d1nnla_ 78 LVSRLQERNVQVFLI 92 ::::::::::::::: d1f2va_ 62 SARAALKAGAPILCD 76