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 | d1im5a_ | Pyrazinamidase/nicotinamidase | Isochorismatase-like hydrolases | Isochorismatase-like hydrolases | α/β |
| Hit | d1nbaa_ | N-carbamoylsarcosine amidohydrolase | Isochorismatase-like hydrolases | Isochorismatase-like hydrolases | α/β |
Query <-- 0.845 --> IntermediateDALI alignment (Z-score: 2.3 Raw score:295.90) query 1 ------------------------------------------------------------ 1 d1im5a_ 1 peealivvdmqrdfmpggalpvpegdkiipkvneyirkfkekgalivatrdwhpenhisf 60 query 1 -------------------------------------DADE-evYSALvvGLRAYVAKNG 22 :::: :::: :::::::::: d1im5a_ 61 rerggpwprhcvqntpgaefvvdlpedaviiskatepDKEAysgFEGT--DLAKILRGNG 118 query 23 FRSVLIG-lsGGIDSALVAAIACDALGaqNVYGVSMpskySSDHSKGDAAELARRTGLNF 81 ::::::: ::::::::::::::::: ::::::: :::::::::::::::::::: d1im5a_ 119 VKRVYICgvaTEYCVRATALDALKHGF--EVYLLRDavkgIKPEDEERALEEMKSRGIKI 176 query 82 RTVsiepmfdaymaslgltglaeenlqsrlrgttlmaisnqeghivlapgnkselavgys 141 ::: d1im5a_ 177 VQF--------------------------------------------------------- 179 query 142 tlygdsvgaygpikdvyktsifrlaewrnraaaergqtppipeasitkpdypvldailel 201 d1im5a_ 180 ------------------------------------------------------------ 180 query 202 yvdrdtgadaivaagydrelvvktlrmvdtaeykrrqyppgtkisakgfgkdrrlpitnr 261 d1im5a_ 180 ------------------------------------------------------------ 180 query 262 wregh 266 d1im5a_ 180 ----- 180 FAST alignment (Normalized score: 2.15 Raw score:469.10) query 1 DADEEVYSALV------------------------------------------------- 11 d1im5a_ 1 -----------PEEALIVVDMQRDFMPGGALPVPEGDKIIPKVNEYIRKFKEKGALIVAT 49 query 12 ----------------------------------------------------------VG 13 :: d1im5a_ 50 RDWHPENHISFRERGGPWPRHCVQNTPGAEFVVDLPEDAVIISKATEPDKEAYSGFEGTD 109 query 14 LRAYVAKNGFRSVLIGLS----GGIDSALVAAIACDALGAQ---NVYGVSMPSKY----- 61 ::::::::::::::: :::::::::::::: ::::: d1im5a_ 110 LAKILRGNGVKRVYI---CGVATEYCVRATALDALK-----HGFEVYLL------RDAVK 155 query 62 -SSDHSKGDAAELARRTGLNFRTVSIEPMFDAYMASLGLTGLAEENLQSRLRGTTLMAIS 120 ::::::::::::::::::::: d1im5a_ 156 GIKPEDEERALEEMKSRGIKIV-------------------------------------- 177 query 121 NQEGHIVLAPGNKSELAVGYSTLYGDSVGAYGPIKDVYKTSIFRLAEWRNRAAAERGQTP 180 d1im5a_ 178 ------------------------------------------------------------ 178 query 181 PIPEASITKPDYPVLDAILELYVDRDTGADAIVAAGYDRELVVKTLRMVDTAEYKRRQYP 240 d1im5a_ 178 ------------------------------------------------------------ 178 query 241 PGTKISAKGFGKDRRLPITNRWREGH-- 266 d1im5a_ 178 --------------------------QF 179 TMalign alignment (TM-score: 0.30 Raw score:81.01) query 1 --------------DADE------EVYSALVVGLRAYVAKN-G-FRSVLIGLSGG----- 33 ::: ::: ::::::::::::: : ::::::::::: d1im5a_ 1 PEEALIVVDMQRDF-MPGGALPVPEGD-KIIPKVNEYIRKFKEKGALIVATRDWHPENHI 58 query 34 -----------ID-SA---LVAAIACDALGAQNVYGVSMPSKYSSDHSK---GDAAELAR 75 :: : :::::: ::: :::::::: :::::: d1im5a_ 59 SFRERGGPWPRHCV-QNTPGAEFVV--DLP-EDAVIISK----ATEPDKEAY-------- 102 query 76 RTGLNFRTVSIEPMFDAYMASLGLTGLAEEN-LQSRLRGTTLMAISNQ--EGHIVLAPGN 132 : ::::::::::::::: ::::::: d1im5a_ 103 ------------------------------SG-FEGTDLAKILRGNGVKR---VYICGVA 128 query 133 KSELAVGYSTLYGDS---V-GAYGPIKDVYKTSIFRLAEWRNRAAAERGQTPPIPEASIT 188 :::: ::::::::: : ::::::::::: d1im5a_ 129 TEYC--VRATALDALKHGFEVYLLRDAVKGI----------------------------- 157 query 189 KPDYPVLDAILELYVDRDTGADAIVAAGYDRELVVKTLRMVDTAEYKRRQYPPGTKISAK 248 :: :: :: : :::::::: ::::::: d1im5a_ 158 -------KP-ED-EE----------------------R-ALEEMKSR-GIKIVQF----- 179 query 249 GFGKDRRLPITNRWREGH 266 d1im5a_ 180 ------------------ 180 HHsearch alignment (Probability: 0.10 E-value:0.05) query 13 GLRAYVAKNGFRSVLIGL---SGGIDSALVAAIACDALGAQNVYGVSMPSKYSSDHSKGD 69 :::::::::::::::::: ::::::::::::: :::: :::::::::::::::::: d1im5a_ 109 DLAKILRGNGVKRVYICGVATEYCVRATALDALK---HGFE-VYLLRDAVKGIKPEDEER 164 query 70 AAELARRTGLN 80 ::::::::::: d1im5a_ 165 ALEEMKSRGIK 175
Intermediate <-- 1.352 --> HitDALI alignment (Z-score: 22.5 Raw score:1743.90) d1im5a_ 1 ------------------------------------pEEALIVVDMQRDFM-PGGALPVP 23 :::::::::::::: :::::::: d1nbaa_ 1 tfndiearlaavleeafeagtsiynergfkrrigygnRPAVIHIDLANAWTqPGHPFSCP 60 d1im5a_ 24 EGDKIIPKVNEYIRKFKEKGALIVATRDWHPEN---------HISFrergGPWP-RHCVQ 73 ::::::::::::::::::::::::::::::::: :::: :::: ::::: d1nbaa_ 61 GMETIIPNVQRINEAARAKGVPVFYTTNVYRNRdassgtndmGLWY----SKIPtETLPA 116 d1im5a_ 74 NTPGAEFV--VDLPEDAVIISKAtepdkeAYSGFEGTDLAKILRGNGVKRVYICGVATEY 131 :::::::: ::::::::::::: ::::::::::::::::::::::::::::::: d1nbaa_ 117 DSYWAQIDdrIAPADGEVVIEKN------RASAFPGTNLELFLTSNRIDTLIVTGATAAG 170 d1im5a_ 132 CVRATALDALKHGFEVYLLRDAVKGIKPEDEERALEEMKSRGIKIVQF------------ 179 :::::::::::::::::::::::::::::::::::::::::::::::: d1nbaa_ 171 CVRHTVEDAIAKGFRPIIPRETIGDRVPGVVQWNLYDIDNKFGDVESTdsvvqyldalpq 230 d1im5a_ 180 ----------------------- 180 d1nbaa_ 231 fedtvpktlsdpqpeveapadpv 253 FAST alignment (Normalized score: 16.30 Raw score:3469.00) d1im5a_ 1 ------------------------------------PEEALIVVDMQRDF-MPGGALPVP 23 :::::::::::::: ::::::::: d1nbaa_ 1 TFNDIEARLAAVLEEAFEAGTSIYNERGFKRRIGYGNRPAVIHIDLANAWTQPGHPFSCP 60 d1im5a_ 24 EGDKIIPKVNEYIRKFKEKGALIVATRDWHPENHISFRERGGPWP--------------- 68 ::::::::::::::::::::::::::::::: d1nbaa_ 61 GMETIIPNVQRINEAARAKGVPVFYTTNVYR--------------NRDASSGTNDMGLWY 106 d1im5a_ 69 -----RHCVQNTPGAE--FVVDLPEDAVIISKATEPDK-EAYSGFEGTDLAKILRGNGVK 120 ::::::::::: ::::::::::::: ::::::::::::::::::::: d1nbaa_ 107 SKIPTETLPADSYWAQIDDRIAPADGEVVIE-------KNRASAFPGTNLELFLTSNRID 159 d1im5a_ 121 RVYICGVATEYCVRATALDALKHGFEVYLLRDAVKGIKPEDEERALEEMKSRGIKIVQF- 179 ::::::::::::::::::::::::::::::::::::::::::::::::::::::::: d1nbaa_ 160 TLIVTGATAAGCVRHTVEDAIAKGFRPIIPRETIGDRVPGVVQWNLYDIDNKFGDVE--S 217 d1im5a_ 180 ------------------------------------ 180 d1nbaa_ 218 TDSVVQYLDALPQFEDTVPKTLSDPQPEVEAPADPV 253 TMalign alignment (TM-score: 0.86 Raw score:154.41) d1im5a_ 1 ------------------------------------PEEALIVVDMQRDFMPGGA-LPVP 23 ::::::::::::::::::: :::: d1nbaa_ 1 TFNDIEARLAAVLEEAFEAGTSIYNERGFKRRIGYGNRPAVIHIDLANAWTQPGHPFSCP 60 d1im5a_ 24 EGDKIIPKVNEYIRKFKEKGALIVATRDWHPENHI------SF--RERGGPWPRHCVQNT 75 ::::::::::::::::::::::::::::::::::: :: ::::::::::::: d1nbaa_ 61 GMETIIPNVQRINEAARAKGVPVFYTTNVYRNRDASSGTNDMGLW--YSKIPTETLPADS 118 d1im5a_ 76 PGAEFV--VDLPEDAVIISKATEPDKEAYSGFEGTDLAKILRGNGVKRVYICGVATEYCV 133 :::::: ::::::::::::: ::::::::::::::::::::::::::::::::: d1nbaa_ 119 YWAQIDDRIAPADGEVVIEKN------RASAFPGTNLELFLTSNRIDTLIVTGATAAGCV 172 d1im5a_ 134 RATALDALKHGFEVYLLRDAVKGIKPEDEERALEEMKSRGIKIVQ-F------------- 179 ::::::::::::::::::::::::::::::::::::::::::::: : d1nbaa_ 173 RHTVEDAIAKGFRPIIPRETIGDRVPGVVQWNLYDIDNKFGDVESTDSVVQYLDALPQFE 232 d1im5a_ 180 --------------------- 180 d1nbaa_ 233 DTVPKTLSDPQPEVEAPADPV 253 HHsearch alignment (Probability: 1.00 E-value:0.00) d1im5a_ 1 PEEALIVVDMQRDFMPGG-ALPVPEGDKIIPKVNEYIRKFKEKGALIVATRDWHPENHIS 59 :::::::::::::::::: ::::::::::::::::::::::::::::::::::::::::: d1nbaa_ 37 NRPAVIHIDLANAWTQPGHPFSCPGMETIIPNVQRINEAARAKGVPVFYTTNVYRNRDAS 96 d1im5a_ 60 FRERG------GPWPRHCVQNTPGAEFVVDLPEDAVIISKATEPDKEAYSGFEGTDLAKI 113 ::::: :::::::::::::::::::::: ::::::::::::::::::::::: d1nbaa_ 97 SGTNDMGLWYSKIPTETLPADSYWAQIDDRIAP----ADGEVVIEKNRASAFPGTNLELF 152 d1im5a_ 114 LRGNGVKRVYICGVATEYCVRATALDALKHGFEVYLLRDAVKGIKPEDEERALEEMKSRG 173 :::::::::::::::::::::::::::::::::::::::::::::::::::::::::::: d1nbaa_ 153 LTSNRIDTLIVTGATAAGCVRHTVEDAIAKGFRPIIPRETIGDRVPGVVQWNLYDIDNKF 212 d1im5a_ 174 IKIVQ 178 ::::: d1nbaa_ 213 GDVES 217