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: T517_A.pdb A
Database: SCOP1.69 less than 40% identity downloaded from ASTRAL
| SCOP Id | Protein | SCOP Superfamily | SCOP Fold | SCOP Class |
|
|---|---|---|---|---|---|
| Intermediate | d1qyca_ | Phenylcoumaran benzylic ether reductase | NAD(P)-binding Rossmann-fold domains | NAD(P)-binding Rossmann-fold domains | α/β |
| Hit | d1q7ra_ | Hypothetical protein YaaE | Class I glutamine amidotransferase-like | Flavodoxin-like | α/β |
Query <-- 0.813 --> IntermediateDALI alignment (Z-score: 4.9 Raw score:359.30) query 1 gMENKKMNLLLfsgdydkALASLIIANAAREMEIEVTIFCAfwglllLRDPekasqedks 60 :::::::::: ::::::::::::::::::::::: :::: d1qyca_ 1 -GSRSRILLIG-----atGYIGRHVAKASLDLGHPTFLLVR-----eSTAS--------- 40 query 61 lyeqafssltpREAEelplskmnlggigkkmllemmkeekapkLSDLLSGARKKEVKFY- 119 :::: :::::::::::::::: d1qyca_ 41 -----------SNSE----------------------------KAQLLESFKASGANIVh 61 query 120 AXQLsveimgfkkeelfpevqimDVKEYLKNALESDLQLFI------------------- 160 :::: :::::::::::::::::: d1qyca_ 62 GSID-------------------DHASLVEAVKNVDVVISTvgslqiesqvniikaikev 102 query 161 ------------------------------------------------------------ 161 d1qyca_ 103 gtvkrffpsefgndvdnvhavepaksvfevkakvrraieaegipytyvssncfagyflrs 162 query 161 ------------------------------------------------------------ 161 d1qyca_ 163 laqagltapprdkvvilgdgnarvvfvkeedigtftikavddprtlnktlylrlpantls 222 query 161 ------------------------------------------------------------ 161 d1qyca_ 223 lnelvalwekkidktlekayvpeeevlkliadtpfpanisiaishsifvkgdqtnfeigp 282 query 161 ------------------------- 161 d1qyca_ 283 agveasqlypdvkyttvdeylsnfv 307 FAST alignment (Normalized score: 3.09 Raw score:685.40) query 1 GMENKKMNLLLFSGDYDK----ALASLIIANAAREMEIEVTIFCAFWGLLLLRDPEKASQ 56 :::::::: ::::::::::::::::::::::: d1qyca_ 1 -GSRSRILL---------IGATGYIGRHVAKASLDLGHPTFLLVR--------------- 35 query 57 EDKSLYEQAFSSLTPREAEELPLSKMNLGGIGKKMLLEMMKEEKAP--------KLSDLL 108 :::::: d1qyca_ 36 ----------------------------------------------ESTASSNSEKAQLL 49 query 109 SGARKKEVKFYAXQLSVEIMGFKKEELFPEVQI----MDVKEYLKNALESDLQLFI---- 160 ::::::::::: ::::::::::::::::: d1qyca_ 50 ESFKASGANIV----------------------HGSIDDHASLVEAVKNVDVVI--STVG 85 query 161 ------------------------------------------------------------ 161 d1qyca_ 86 SLQIESQVNIIKAIKEVGTVKRFFPSEFGNDVDNVHAVEPAKSVFEVKAKVRRAIEAEGI 145 query 161 ------------------------------------------------------------ 161 d1qyca_ 146 PYTYVSSNCFAGYFLRSLAQAGLTAPPRDKVVILGDGNARVVFVKEEDIGTFTIKAVDDP 205 query 161 ------------------------------------------------------------ 161 d1qyca_ 206 RTLNKTLYLRLPANTLSLNELVALWEKKIDKTLEKAYVPEEEVLKLIADTPFPANISIAI 265 query 161 ------------------------------------------ 161 d1qyca_ 266 SHSIFVKGDQTNFEIGPAGVEASQLYPDVKYTTVDEYLSNFV 307 TMalign alignment (TM-score: 0.36 Raw score:58.19) query 1 GMENKKMNLLLFSGDYDKALASLIIANAAREMEIEVTIFCAFWGLLLLRDPEKASQEDKS 60 :: ::::::::::::::::::::::::: : ::::::: :: d1qyca_ 1 GS--RSRILLIGATGYIGRHVAKASLDLG----H-PTFLLVR--ES-------------- 37 query 61 LYEQAFSSLTPR-EAEELPLSKMNLGGIGKKMLLEMMKEEKAPKLSDLLSGARKKEVKFY 119 ::::::: ::: : :: ::::: :::: d1qyca_ 38 -----TASSNSEKAQL-L--------------------------ES-FKASG----ANIV 60 query 120 AXQLSVE-IMGFKKEELFPEVQIMDVKEYLKNALESDLQLFI------------------ 160 ::::: : :::::::::: : ::::: d1qyca_ 61 HGSID-DH---------------ASLVEAVKNV--D-VVISTVGSLQIESQVNIIKAIKE 101 query 161 ------------------------------------------------------------ 161 d1qyca_ 102 VGTVKRFFPSEFGNDVDNVHAVEPAKSVFEVKAKVRRAIEAEGIPYTYVSSNCFAGYFLR 161 query 161 ------------------------------------------------------------ 161 d1qyca_ 162 SLAQAGLTAPPRDKVVILGDGNARVVFVKEEDIGTFTIKAVDDPRTLNKTLYLRLPANTL 221 query 161 ------------------------------------------------------------ 161 d1qyca_ 222 SLNELVALWEKKIDKTLEKAYVPEEEVLKLIADTPFPANISIAISHSIFVKGDQTNFEIG 281 query 161 -------------------------- 161 d1qyca_ 282 PAGVEASQLYPDVKYTTVDEYLSNFV 307 HHsearch alignment (Probability: 0.02 E-value:0.33) query 89 KKMLLEMMKEEKAPKLSDLLSGARKKEVKFYAXQLSVEIMGFKKEELFPEVQIMDVKEYL 148 ::::::::::::: :::::::::::::::::::::::::::::::::::::::::::::: d1qyca_ 245 EEEVLKLIADTPF-PANISIAISHSIFVKGDQTNFEIGPAGVEASQLYPDVKYTTVDEYL 303 query 149 KN 150 :: d1qyca_ 304 SN 305
Intermediate <-- 0.825 --> HitDALI alignment (Z-score: 3.7 Raw score:516.90) d1qyca_ 1 ---gSRSRILLIGATGYiGRHVAKASLDLGHPTFLLVrestassnsekaqllesfkasga 57 ::::::::::::: ::::::::::::::::::: d1q7ra_ 1 lyfqSNMKIGVLGLQGA-VREHVRAIEACGAEAVIVK----------------------- 36 d1qyca_ 58 nivhgsiddhasLVEAVKNVDVVISTVGSL-QIES---qvNIIKAIKEV-GTVKRFFPSE 112 :::::::::::::::::: :::: ::::::::: :::::::::: d1q7ra_ 37 ------------KSEQLEGLDGLVLPGGEStTMRRlidryGLMEPLKQFaAAGKPMFGTC 84 d1qyca_ 113 fgndvdnvhavepAKSVfevkakvrrAIEA------------------------------ 142 :::: :::: d1q7ra_ 85 ---aglillakriVGYD-----ephlGLMDitvernsfgrqresfeaelsikgvgdgfvg 136 d1qyca_ 143 ----------------------------egiPYTYVSSncfagyflrslaqagltapprd 174 ::::::: d1q7ra_ 137 vfiraphiveagdgvdvlatyndrivaarqgQFLGCSF---------------------- 174 d1qyca_ 175 kvvilgdgnarvvfvKEEDigTFTIKAVDDprtlnktlylrlpantlslnelvalwekki 234 :::: ::::::::: d1q7ra_ 175 ------------hpeLTDD--HRLMQYFLN------------------------------ 190 d1qyca_ 235 dktlekayvpeeevlkliadtpfpanisiaishsifvkgdqtnfeigpagveasqlypdv 294 d1q7ra_ 191 ------------------------------------------------------------ 191 d1qyca_ 295 kyttvdeylsnfv 307 d1q7ra_ 191 -mvkeakmasslk 202 FAST alignment (Normalized score: 3.10 Raw score:771.40) d1qyca_ 1 GS-----RSRILLIGATGY-----IGRHVAKASLDLGHPTFLLVRESTASSNSEKAQLLE 50 :::::: :::::::::::::::::: d1q7ra_ 1 --LYFQSNMKIGV------LGLQGAVREHVRAIEACGAEAVI------------------ 34 d1qyca_ 51 SFKASGANIVHGSIDDHAS--LVEAVKNVDVVISTV-GSLQIESQV-----NIIKAIKEV 102 ::::::::::::::: ::::::: :::::::: d1q7ra_ 35 -------------------VKKSEQLEGLDGLVLPGGESTTMRR--LIDRYGLMEPLKQ- 72 d1qyca_ 103 GTV-----KRFFPSEFGND---------VDNVHAVEPAKSVFEVKAKVRRAIEAEGI--- 145 :::: :::: d1q7ra_ 73 ---FAAAGKPMF-------GTCAGLILLAKRI-------------------------VGY 97 d1qyca_ 146 ------------------------------------------------------------ 146 d1q7ra_ 98 DEPHLGLMDITVERNSFGRQRESFEAELSIKGVGDGFVGVFIRAPHIVEAGDGVDVLATY 157 d1qyca_ 146 ----------PYTYVSSNCFAGYFLRSLAQAGLTAPPRDKVVILGDGNARVVFVK----- 190 ::::: d1q7ra_ 158 NDRIVAARQGQFLGC----------------------------------------SFHPE 177 d1qyca_ 191 ---EEDIGTFTIKAVDDPRTLNKTLYLRLPANTLSLNELVALWEKKIDKTLEKAYVPEEE 247 :::::::::::: d1q7ra_ 178 LTDDHRLMQYFLNMV--------------------------------------------- 192 d1qyca_ 248 VLKLIADTPFPANISIAISHSIFVKGDQTNFEIGPAGVEASQLYPDVKYTTVDEYLSNFV 307 d1q7ra_ 193 ------------------------------------------------------------ 193 d1qyca_ 308 ---------- 308 d1q7ra_ 193 KEAKMASSLK 202 TMalign alignment (TM-score: 0.30 Raw score:93.48) d1qyca_ 1 ---GSRSRILLIG-ATGYIGRHVAKASLDLGHPTFLLVRESTASSNSEKAQLLESFKASG 56 :::::::::: ::: :::::::::::::::::: d1q7ra_ 1 LYFQSNMKIGVLGLQGA--VREHVRAIEACGAEAVIV----------------------- 35 d1qyca_ 57 ANIVHGSIDDHASLVEAVKNVDVVISTVGS-LQIE-SQV--NIIKAIKEV-GTVKRFFPS 111 : :: ::::::::::::::: :::: ::: ::::::::: :::::::: d1q7ra_ 36 -----K------KS-EQLEGLDGLVLPGGESTTMRRLIDRYGLMEPLKQFAAAGKPMFG- 82 d1qyca_ 112 EFGNDV------DNVHAVEPAKSVFEVKAKVRRAIEA--EGIPYTY---------VSSNC 154 :::::: ::: :: :::: ::: : d1q7ra_ 83 TCAGLILLAKRI---------VGY-DE--PHLG-LMDIT------VERNSFGRQR----- 118 d1qyca_ 155 FAGYFLRSLAQAGLTAPPRDKVVILGDGNARVVFV-KEEDIGTF-TIKAVDDPRTLNKTL 212 ::: :::: : : d1q7ra_ 119 ---ESF-------------------------EAELS-------IK--------G------ 129 d1qyca_ 213 YLRLPANT---LSLNELVALWEKKIDKTLEKAYVPEEEVLKLIADTPFPANISIAISHS- 268 ::::::: : :: : d1q7ra_ 130 -VGDGFVGVFI-----------------------------------------R--AP-HI 144 d1qyca_ 269 -----------IFVKGDQTNFEIGPAG---VEA------SQLYPDVKYT----------- 297 ::::::::::: ::: :::: d1q7ra_ 145 VEAGDGVDVLA-----TYNDRIVAARQGQFLGCSFHPEL------TDDHRLMQYFLNMVK 193 d1qyca_ 298 ---------TVDEYLSNFV 307 d1q7ra_ 194 EAKMASSLK---------- 202 HHsearch alignment (Probability: 0.23 E-value:0.02) d1qyca_ 2 SRSRILLIGATGYIGRHVAKASLDLGHPTFLLVR 35 :::::::::::::::: ::::::::::::::::: d1q7ra_ 5 SNMKIGVLGLQGAVRE-HVRAIEACGAEAVIVKK 37