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: T542_A.pdb A
Database: SCOP1.69 less than 40% identity downloaded from ASTRAL
| SCOP Id | Protein | SCOP Superfamily | SCOP Fold | SCOP Class |
|
|---|---|---|---|---|---|
| Intermediate | d1sura_ | Phosphoadenylyl sulphate (PAPS) reductase | Adenine nucleotide alpha hydrolases-like | Adenine nucleotide alpha hydrolase-like | α/β |
| Hit | d1e8ca2 | UDP-N-acetylmuramyl tripeptide synthetase MurE | MurD-like peptide ligases, peptide-binding domain | MurD-like peptide ligases, peptide-binding domain | α/β |
Query <-- 1.838 --> IntermediateDALI alignment (Z-score: 11.1 Raw score:952.40) query 1 slqlrlalnqidstvgdiagnaeailrwtrhsaeqgahlvafpemaltgypvedlalrss 60 d1sura_ 1 ------------------------------------------------------------ 1 query 61 fveasrtalrelaarlaeegfgelpvlvgyldrsesaqpkygqpagaprnaaavlhrgrv 120 d1sura_ 1 ------------------------------------------------------------ 1 query 121 altfakhhlpnygvfdefryfvpgdtmpivrlhgvdialaicedlwqdggrvpaarsaga 180 d1sura_ 1 ------------------------------------------------------------ 1 query 181 glllsvnaspyerdkddtrlelvrkraqeagcttaylamiggqdelvfdgdsivvdrdge 240 d1sura_ 1 ------------------------------------------------------------ 1 query 241 vvarapqfsegcvvldldlpaaeaepptgvvddglridrlviseeplpayeaelaggyad 300 d1sura_ 1 ----------------------------------------skldlnalnelpkvdrilal 20 query 301 rldadeevysALVVGLRAYVAKNGFrSVLIGLSGGIDSALVAAIACDALGAqnVYGVSMP 360 ::::::::::::::: ::::::::::::::::::::::::: ::::::: d1sura_ 21 aetnaeleklDAEGRVAWALDNLPG-EYVLSSSFGIQAAVSLHLVNQIRPD--IPVILTD 77 query 361 SKYSSDHSKGDAAELARRTGLNFRTVSIEPMFDAYMASLGL---TGLAEENLQSR-LRGT 416 ::::::::::::::::::::::::::::::::::::::::: ::::::::::: :::: d1sura_ 78 TGYLFPETYRFIDELTDKLKLNLKVYRATESAAWQEARYGKlweQGVEGIEKYNDiNKVE 137 query 417 TLMAISNQEGH-IVLAPGNKSElAVGY----stlygdsvgAYGPIKDVYKTSIFRLAEWR 471 ::::::::::: :::::::::: :::: :::::::::::::::::::: d1sura_ 138 PMNRALKELNAqTWFAGLRREQ-SGSRanlpvlaiqrgvfKVLPIIDWDNRTIYQYLQKH 196 query 472 NraaaergqtppipEASITKpdypvldailelyvdrdtgadaivaagydrelvvktlrmv 531 : :::::: d1sura_ 197 G------------lKYHPLW---------------------------------------- 204 query 532 dtaeykrrqyppgtkisakgfgkdrrlpitnrwregh 568 d1sura_ 205 --------------------------degylsvgdth 215 FAST alignment (Normalized score: 5.43 Raw score:1897.00) query 1 SLQLRLALNQIDSTVGDIAGNAEAILRWTRHSAEQGAHLVAFPEMALTGYPVEDLALRSS 60 d1sura_ 1 ------------------------------------------------------------ 1 query 61 FVEASRTALRELAARLAEEGFGELPVLVGYLDRSESAQPKYGQPAGAPRNAAAVLHRGRV 120 d1sura_ 1 ------------------------------------------------------------ 1 query 121 ALTFAKHHLPNYGVFDEFRYFVPGDTMPIVRLHGVDIALAICEDLWQDGGRVPAARSAGA 180 d1sura_ 1 ------------------------------------------------------------ 1 query 181 GLLLSVNASPYERDKDDTRLELVRKRAQEAGCTTAYLAMIGGQDELVFDGDSIVVDRDGE 240 d1sura_ 1 ------------------------------------------------------------ 1 query 241 VVARAPQFSEGCVVLDLDLPAAEAEPPTGVVDDGLRIDRLVISEEPLPAYEAELAGGYAD 300 d1sura_ 1 ------------------------------------------------------------ 1 query 301 RLDADEEVYS------------------------------ALVVGLRAYVAKNGFRSVLI 330 ::::::::::::: :::::: d1sura_ 1 ----------SKLDLNALNELPKVDRILALAETNAELEKLDAEGRVAWALDNL-PGEYVL 49 query 331 GLSGGIDSALVAAIACDALGAQ-NVYGVSMPSKYSSDHSKGDAAELARRTGLNFRTVSIE 389 ::::::::::::::::::: ::::::::::::::::::::::::::::::::::: d1sura_ 50 SSSFGIQAAVSLHLVNQIR---PDIPVILTDTGYLFPETYRFIDELTDKLKLNLKVYR-- 104 query 390 P---MFDAYMASLGL-----TGLAEENLQSR-LRGTTLMAISNQEG-HIVLAPGNKSELA 439 ::::::::: ::::::::::: :::::::::::::: ::::::::: d1sura_ 105 -ATESAAWQEARY--GKLWEQGVEGIEKYNDINKVEPMNRALKELNAQTWFAGLRR---- 157 query 440 VGYSTLYGDSVG-------------------AYGPIKDVYKTSIFRLAEWRNRAAAERGQ 480 ::::::::::::::::::: d1sura_ 158 ------------EQSGSRANLPVLAIQRGVFKVLPIIDWDNRTIYQYLQK---------- 195 query 481 TP---PIPEASITKPDYPVLDAILELYVDRDTGADAIVAAGYDRELVVKTLRMVDTAEYK 537 :::: d1sura_ 196 --HGLKYHP--------------------------------------------------- 202 query 538 RRQYPPGTKISAKGFGKDRRLPITNRWREGH------------- 568 d1sura_ 203 -------------------------------LWDEGYLSVGDTH 215 TMalign alignment (TM-score: 0.27 Raw score:151.47) query 1 SLQLRLALNQIDSTVGD---------------IAGNAEAILRWTRHSAEQGAHLVAFPEM 45 :: d1sura_ 1 ---------------SKLDLNALNELPKVDRI---------------------------- 17 query 46 ALTGYPVED-LALRSSFVEASRTALRELAARLAEEGFGELPVLVGYLDRSESAQPKYGQP 104 :: d1sura_ 18 -------LAL-------------------------------------------------- 20 query 105 AGAPRNAAAVLHRGRVALTFAKHHLPNYGVFDEFRYFVPGDTMPIVRLHGVDIALAICED 164 :: d1sura_ 21 -----------------------------AE----------------------------- 22 query 165 LWQDGGRVPAARSAGAGLLLSVNASPYERDKDDTRLELVRKRAQEAGCTTAYLAMIGGQD 224 :: d1sura_ 23 ----------------------------------------------------------TN 24 query 225 ELVFDGDSIVVDRDGEVVARAPQFSEGCVVLDLDLPAAEAEPPTGVVDDGLRIDRLVISE 284 ::::: : d1sura_ 25 AELEK------------------L------------------------------------ 30 query 285 EPLPAYEAELAGGYADRLDADEEVYSALVVGLRAYVAKNGFRSVLIGLSGGIDSALVAAI 344 :::::::::::::::::::: ::::::::::::: d1sura_ 31 --------------------------DAEGRVAWALDNLPGEYVLS-SSFGIQAAVSLHL 63 query 345 ACDALGAQNVYGVSMPSKYSSDHSKGDAAELARRTGLNFRTVSIEPMF-DAYMASLGL-- 401 ::::: :: ::::::::::::::::::::::::::::::::::::::: ::::::::: d1sura_ 64 VNQIR-PD-IPVILTDTGYLFPETYRFIDELTDKLKLNLKVYRATESAAWQEARYGKLWE 121 query 402 TGLAEENLQSR-LRGTTLMAISNQEGH-IVLAPGNKS--E-LAVG-----YSTLYGDSV- 450 ::::::::::: ::::::::::::::: ::::::::: : :::: :: d1sura_ 122 QGVEGIEKYNDINKVEPMNRALKELNAQTWFAGLRREQSGSRANLPVLAI-------QRG 174 query 451 GAYGPIKDVYKTSIFRLAEWRNRAAAERGQTPPIPEASITK---PDY------PVLDAIL 501 :::::::::: : ::::::::::: : :::::::: : d1sura_ 175 VFKVLPIIDW--D-NRTIYQYLQKH------G-LKYHPLWDEGY--LSVGDTH------- 215 query 502 ELYVDRDTGADAIVAAGYDRELVVKTLRMVDTAEYKRRQYPPGTKISAKGFGKDRRLPIT 561 d1sura_ 216 ------------------------------------------------------------ 216 query 562 NRWREGH 568 d1sura_ 216 ------- 216 HHsearch alignment (Probability: 0.95 E-value:0.00) query 305 DEEVYSALVVGLRAYVAKNGFRSVLIGLSGGIDSALVAAIACDALGAQNVYGVSMPSKYS 364 :::::::::::::::::::::::::::::::::::::::::::: :::::::::::::: d1sura_ 24 NAELEKLDAEGRVAWALDNLPGEYVLSSSFGIQAAVSLHLVNQI--RPDIPVILTDTGYL 81 query 365 SDHSKGDAAELARRTGLNFRTVSIEPMFDAYMASLG-----LTGLAEENLQSRLRGTTLM 419 :::::::::::::::::::::::::::::::::::: ::::::::::::::::::: d1sura_ 82 FPETYRFIDELTDKLKLNLKVYRATESAAWQEARYGKLWEQGVEGIEKYNDINKVEPMNR 141 query 420 AISNQEGHIVLAPGNKSELAVGYSTLYGDSVGAYG---PIKDVYKTSIFRLAEWRN 472 ::::::::::::::::::::::::::::::::::: :::::::::::::::::: d1sura_ 142 ALKELNAQTWFAGLRREQSGSRANLPVLAIQRGVFKVLPIIDWDNRTIYQYLQKHG 197
Intermediate <-- 0.981 --> HitDALI alignment (Z-score: 3.0 Raw score:340.30) d1sura_ 1 ----skldLNALnelpkvdrilalaetnaeleklDAEGRVAWALDNLPGEYVLSSSFG-- 54 :::: :::::::::::::::::::::::: d1e8ca2 1 vcgrmevfTAPG---------kptvvvdyahtpdALEKALQAARLHCAGKLWCVFGCGgd 51 d1sura_ 55 ---iQAAVSLHLVNQIRpdIPVILTdtgyLFPETYRFIDELTD-KLKL-NLKVYRatesa 109 ::::::::::::: :::::: :::::::::::::: :::: :::::: d1e8ca2 52 rdkgKRPLMGAIAEEFA--DVAVVTddnpRTEEPRAIINDILAgMLDAgHAKVME----- 104 d1sura_ 110 awqearygklweqgvegiekyndiNKVEPMNRALKELN-aQTWF-AGLRrEQSGsranlp 167 :::::::::::::: :::: :::: :::: d1e8ca2 105 ------------------------GRAEAVTCAVMQAKenDVVLvAGKG-HEDY------ 133 d1sura_ 168 vlaiqrgvfkvlpiidwdnrtiyqylqkhglkyhplwdegylsvGDTH------------ 215 :::: d1e8ca2 134 -------------------------------------------qIVGNqrldysdrvtva 150 d1sura_ 216 ---------- 216 d1e8ca2 151 rllgviarsh 160 FAST alignment (Normalized score: 3.37 Raw score:625.10) d1sura_ 1 SKLDLNALNELPKVDRILALAETNAELEKL-------------------------DAEGR 35 ::::: d1e8ca2 1 ------------------------------VCGRMEVFTAPGKPTVVVDYAHTPDALEKA 30 d1sura_ 36 VAWALDNLPGEYVLSSSF------GIQAAVSLHLVNQIRPDIPVILTDTGYLF------P 83 ::::::::::::::::: ::::::::::::::: :::::: : d1e8ca2 31 LQAARLHCAGKLWCVFG-CGGDRDKGKRPLMGAIAEEFA--DVAVVT------DDNPRTE 81 d1sura_ 84 ETYRFIDELTDKLK-----LNLKVYRATESAAWQEARYGKLWEQGVEGIEKYNDI-NKVE 137 ::::::::::: :::::: :::: d1e8ca2 82 EPRAIINDILA---GMLDAGHAKVM------------------------------EGRAE 108 d1sura_ 138 PMNRALKELNA----QTWF-AGLRREQSGSRANLPVLAIQRGVFKVLPIIDWDNRTIYQY 192 :::::::: :::: :::: d1e8ca2 109 AVTCAVMQ---AKENDVVLVAGKG------------------------------------ 129 d1sura_ 193 LQKHGLKYHPLWDEGYLSVGDTH------------------------------- 215 d1e8ca2 130 -----------------------HEDYQIVGNQRLDYSDRVTVARLLGVIARSH 160 TMalign alignment (TM-score: 0.35 Raw score:74.65) d1sura_ 1 ----SKLDLNALNELPKVDRILALAETNAELEKLDAEGRVAWALDNLPGEYVLSS-SFG- 54 : :: :: :::::::::: ::: d1e8ca2 1 VCGR-------------------------------M--EV-FT--APGKPTVVVDYAHTP 24 d1sura_ 55 IQAAVSLHLVNQIR-PDIPVILTDTGYLFPETYRFIDELTDKLKLNLKVYRA---TESAA 110 :::::::::::::: ::::::::::::::::::::::::::::::::::::: ::: d1e8ca2 25 DALEKALQAARLHCAGKLWCVFGCGGDRDKGKRPLMGAIAEEFADVAVVTDDNPR--TEE 82 d1sura_ 111 WQ-------------------EARYGKLWEQGVEGIEKYNDINKVEPMNRALKEL-NAQ- 149 :: :::::::::: ::: d1e8ca2 83 PRAIINDILAGMLDAGHAKVM------------------------EGRAEAVTCAVMQAK 118 d1sura_ 150 ---TWFAGL-RREQSGS-------------RANLPVLAIQR--GV--FKVLPIIDWDNRT 188 :::::: : : :: ::: :: ::::: : d1e8ca2 119 ENDVVLVAGK-G-H-EDYQIVGNQRLDYSD--------RVTVARLLGVIARS-H------ 160 d1sura_ 189 IYQYLQKHGLKYHPLWDEGYLSVGDTH 215 d1e8ca2 161 --------------------------- 161 HHsearch alignment (Probability: 0.25 E-value:0.02) d1sura_ 42 NLPGEY--VLSSSFGIQAAVSLHLVNQIRPDIPVILTDTGYLF-PETYRFIDELTD 94 :::::: ::::::::::::::::::::::::::::::::::: :::::::::::: d1e8ca2 37 HCAGKLWCVFGCGGDRDKGKRPLMGAIAEEFADVAVVTDDNPRTEEPRAIINDILA 92