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: T592_B.pdb B
Database: SCOP1.69 less than 40% identity downloaded from ASTRAL
| SCOP Id | Protein | SCOP Superfamily | SCOP Fold | SCOP Class |
|
|---|---|---|---|---|---|
| Intermediate | d1t6t1_ | Hypothetical protein aq 2086 | Toprim domain (Pfam 01751) | Toprim domain (Pfam 01751) | α/β |
| Hit | d1dd9a_ | DNA primase DnaG catalytic core | DNA primase core | DNA primase core | multi |
Query <-- 0.610 --> IntermediateDALI alignment (Z-score: 4.8 Raw score:306.10) query 1 npneayrhymkklsyetDIADLSIDikkgyEGIIVVDvRDAEaYKECH----IPTAISIP 56 :::::::: ::::::: :::: ::::: :::::::: d1t6t1_ 1 -----------prnlseWIKELKKA----sREAVILV-EGKN-DKKALskfsIKNVIDLS 43 query 57 gnKINEdTTKRLSKEK-VIITYCWGPA--CNGATKAAAKFAQLGFRVKE------liggi 107 :::: ::::::::: :::::::::: :::::::::::::::::::: d1t6t1_ 44 gkRYAD-VVDMLEGKWeKVILLFDLDThgERINQKMKELLSSQGFLVDEnfrnflkkwni 102 query 108 EYWRkengevegtlgakadlfwnmkkesle 137 :::: d1t6t1_ 103 IHIE------------------------ei 108 FAST alignment (Normalized score: 4.56 Raw score:554.40) query 1 NPNEAYRHYMKKLSYET------DIADLSIDIKKGYEGIIVVDVRDAEAYKECH------ 48 ::::::::: ::::::: ::::::: d1t6t1_ 1 -----------------PRNLSEWIKELKKAS----REAVILV-EGKNDKK---ALSKFS 35 query 49 IPTAISIPGNKI-----NEDTTKRLSKE--KVIITYCWGPA---CNGATKAAAKFAQLGF 98 :::::: ::::::: ::: :::::::::: :::::::::::::::: d1t6t1_ 36 IKNVID------LSGKRYADVVDM-LEGKWEKVILLFDLD-THGERINQKMKELLSSQGF 87 query 99 RVKELIGGIEYWRKENGEVEGTLGAKADLFWNMKKESLE------------------ 137 ::: d1t6t1_ 88 LVD------------------------------------ENFRNFLKKWNIIHIEEI 108 TMalign alignment (TM-score: 0.48 Raw score:65.09) query 1 --NPNEAYRHYMKKLSYETDIA-DLS-IDIKKGYEGIIVVDVRDAEAYKECHI--P---- 50 :: ::: ::: :::::::::: : :: ::: : d1t6t1_ 1 PR------------------NLSEWIKELK-KASREAVILV-E----GK-NDKKALSKFS 35 query 51 -T-AISIPGNKINEDTTKRL--SKEKVIITYCWGPA--CNGATKAAAKFAQLGFRVKE-- 102 : :::::::::: :::::: ::: :::::::::: :::::::::::::::::::: d1t6t1_ 36 IKNVIDLSGKRYA-DVVDMLEGKWE-KVILLFDLDTHGERINQKMKELLSSQGFLVDENF 93 query 103 LI-GG---IEYWRKENGEVEGTLGAKADLFWNMKKESLE 137 :: :: :::::: : d1t6t1_ 94 RNFLKKWNIIHIEE--I---------------------- 108 HHsearch alignment (Probability: 0.05 E-value:0.04) query 49 IPTAISIPGNKINEDTTKRLSKEKVIITYCWGPACNGATKAAA----KFAQLGFRV 100 ::::::::::::::::::::::::::::::::: :::::::: ::::::::: d1t6t1_ 36 IKNVIDLSGKRYADVVDMLEGKWEKVILLFDLD--THGERINQKMKELLSSQGFLV 89
Intermediate <-- 1.141 --> HitDALI alignment (Z-score: 7.3 Raw score:441.10) d1t6t1_ 1 ------------------------------------------------------------ 1 d1dd9a_ 1 tlyqlmdglntfyqqslqqpvatsarqylekrglsheviarfaigfappgwdnvlkrfgg 60 d1t6t1_ 1 ------------------------------------------------------------ 1 d1dd9a_ 61 npenrqslidagmlvtnrsydrfrervmfpirdkrgrvigfggrvlgndtpkylnspetd 120 d1t6t1_ 1 -----prnlsewikelkkasREAVILVEGKNDKKALSKFSIKNVIDLSGKrYADVVDMLE 55 :::::::::::::::::::::::::::::: ::::::::: d1dd9a_ 121 ifhkgrqlyglyeaqqdnaePNRLLVVEGYMDVVALAQYGINYAVASLGStTADHIQLLF 180 d1t6t1_ 56 GKWEKVILLFDLDTHGERINQKMKELLSSQG---FLVDEnfRNFLkkwNIIHIEEI---- 108 ::::::::::::::::::::::::::::::: ::::: :::: :::::::: d1dd9a_ 181 RATNNVICCYDGDRAGRDAAWRALETALPYMtdgRQLRF--MFLP---DGEDPDTLvrke 235 d1t6t1_ 109 ------------------------------------------------------------ 109 d1dd9a_ 236 gkeafearmeqamplsaflfnslmpqvdlstpdgrarlstlalplisqvpgetlriylrq 295 d1t6t1_ 109 --------------- 109 d1dd9a_ 296 elgnklgilddsqle 310 FAST alignment (Normalized score: 4.64 Raw score:848.50) d1t6t1_ 1 PRNLSEWIKELKKAS--------------------------------------------- 15 d1dd9a_ 1 ---------------TLYQLMDGLNTFYQQSLQQPVATSARQYLEKRGLSHEVIARFAIG 45 d1t6t1_ 16 ------------------------------------------------------------ 16 d1dd9a_ 46 FAPPGWDNVLKRFGGNPENRQSLIDAGMLVTNRSYDRFRERVMFPIRDKRGRVIGFGGRV 105 d1t6t1_ 16 -----------------------------------REAVILVEGKNDKKALSKFSIKNVI 40 ::::::::::::::::::::::::: d1dd9a_ 106 LGNDTPKYLNSPETDIFHKGRQLYGLYEAQQDNAEPNRLLVVEGYMDVVALAQYGINYAV 165 d1t6t1_ 41 DLSGKR---YADVVDMLEGKWEKVILLFDLDTHGERINQKMKELLSS---QGFLVDENFR 94 ::: :::::::::::::::::::::::::::::::::::::: :::::: d1dd9a_ 166 ASL---GSTTADHIQLLFRATNNVICCYDGDRAGRDAAWRALETALPYMTDGRQLR---- 218 d1t6t1_ 95 NFLKKWNI-------IHIEEI--------------------------------------- 108 ::::: d1dd9a_ 219 --------FMFLPDGEDPDT-LVRKEGKEAFEARMEQAMPLSAFLFNSLMPQVDLSTPDG 269 d1t6t1_ 109 ----------------------------------------- 109 d1dd9a_ 270 RARLSTLALPLISQVPGETLRIYLRQELGNKLGILDDSQLE 310 TMalign alignment (TM-score: 0.63 Raw score:67.55) d1t6t1_ 1 ------------------------------------------------------------ 1 d1dd9a_ 1 TLYQLMDGLNTFYQQSLQQPVATSARQYLEKRGLSHEVIARFAIGFAPPGWDNVLKRFGG 60 d1t6t1_ 1 ------------------------------------------------------------ 1 d1dd9a_ 61 NPENRQSLIDAGMLVTNRSYDRFRERVMFPIRDKRGRVIGFGGRVLGNDTPKYLNSPETD 120 d1t6t1_ 1 --------------------PRNLSEWIKELKKASREAVILVEGKNDKKALSKFSIKNVI 40 ::::::::::::::::::::::::: d1dd9a_ 121 IFHKGRQLYGLYEAQQDNAE---------------PNRLLVVEGYMDVVALAQYGINYAV 165 d1t6t1_ 41 DLSGKRYADVVDMLEGKWEKVILLFDLDTHGERINQKMKELLSSQG---FLVDENFRNFL 97 :::::::::::::::::::::::::::::::::::::::::::::: ::::: :: : d1dd9a_ 166 ASLGSTTADHIQLLFRATNNVICCYDGDRAGRDAAWRALETALPYMTDGRQLRF--MF-L 222 d1t6t1_ 98 KKWNIIHIEEI------------------------------------------------- 108 : :::::::: d1dd9a_ 223 P--DGEDPDTLVRKEGKEAFEARMEQAMPLSAFLFNSLMPQVDLSTPDGRARLSTLALPL 280 d1t6t1_ 109 ------------------------------ 109 d1dd9a_ 281 ISQVPGETLRIYLRQELGNKLGILDDSQLE 310 HHsearch alignment (Probability: 1.00 E-value:0.00) d1t6t1_ 2 RNLSEWIKELKKASREAVILVEGKNDKKALSKFSIKNVIDLSGKRYADVVDMLEGKWEKV 61 ::::::::::::: ::::::::::::::::::::::::::::::::::::::::::::: d1dd9a_ 129 YGLYEAQQDNAEP--NRLLVVEGYMDVVALAQYGINYAVASLGSTTADHIQLLFRATNNV 186 d1t6t1_ 62 ILLFDLDTHGERINQKMKELLS--------------SQGFLVDENFRNF 96 :::::::::::::::::::::: ::::::::::::: d1dd9a_ 187 ICCYDGDRAGRDAAWRALETALPYMTDGRQLRFMFLPDGEDPDTLVRKE 235