HorA Server Transitive Detail

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


Query <-- 0.687 --> Intermediate <-- 1.245 --> Hit

SVM
score
SVM
score

The query (T542_A.pdb A) is transitively linked to the hit (d1h1na_) through the intermediate protein (d1tx2a_) by significant SVM score (>0.4).

  SCOP Id Protein SCOP Superfamily SCOP Fold SCOP
Class
Intermediate d1tx2a_ Dihydropteroate synthetaseDihydropteroate synthetase-​likeTIM beta/​alpha-​barrelα/β
Hit d1h1na_ Endocellulase EngI(Trans)glycosidasesTIM beta/​alpha-​barrelα/β

Supporting Alignments

Query <-- 0.687 --> Intermediate
DALI alignment (Z-score: 2.9 Raw score:483.20) query 1 ---------------SLQLRLALN----qidstvgdiagnAEAILRWTRHSAEQGAHLVA 41 ::::::::: :::::::::::::::::::: d1tx2a_ 1 kwdydlrcgeytlnlNEKTLIMGIlnvtpdsfsdggsyneVDAAVRHAKEMRDEGAHIID 60 query 42 fpemALTGypvedlalrSSFVEASRTALRELAARLAeEGFGeLPVLVGYldrsesaqpky 101 :::: ::::::::::::::::::: :::: ::::::: d1tx2a_ 61 ---iGGES-------faKVSVEEEIKRVVPMIQAVS-KEVK-LPISIDT----------- 97 query 102 gqpagaprnaaavlhrGRVALT-FAKHhlpnygvfdefryfvPGDT-mpivrlhgvdiaL 159 :::::: :::: :::: : d1tx2a_ 98 -----ykaevakqaieAGAHIInDIWG--------------aKAEPkiaevaahydvpiI 138 query 160 AICE---------dlwQDGGR----vpaarsagaglllsvnaspyerdkDDTRLELVRKR 206 :::: ::::: ::::::::::: d1tx2a_ 139 LMHNrdnmnyrnlmadMIADLydsikiakdagvrdeniildpgigfaktPEQNLEAMRNL 198 query 207 aQEAG---ctTAYLAmiggqdelvFDGD------------------sivVDRDGevvara 245 :::: ::::: :::: ::::: d1tx2a_ 199 -EQLNvlgypVLLGT-------srKSFIghvldlpveerlegtgatvclGIEKG------ 244 query 246 pqfsegCVVLdldlpaaeaepptgvvddglridrlviseeplpayeaeLAGGyadrldad 305 :::: :::: d1tx2a_ 245 cefvrvHDVK-----------------------------------emsRMAK-------- 261 query 306 eevysalvvglrayvakngfrsvliglsggidsalvaaiacdalgaqnvygvsmpskyss 365 d1tx2a_ 262 ------------------------------------------------------------ 262 query 366 dhskgdaaelarrtglnfrtvsiepmfdaymaslgltglaeenlqsrlrgttlmaisnqe 425 d1tx2a_ 262 ------------------------------------------------------------ 262 query 426 ghivlapgnkselavgystlygdsvgaygpikdvyktsifrlaewrnraaaergqtppip 485 d1tx2a_ 262 ------------------------------------------------------------ 262 query 486 easitkpdypvldailelyvdrdtgadaivaagydrelvvktlrmvdtaeykrrqyppgt 545 d1tx2a_ 262 ------------------------------------------------------------ 262 query 546 kisakgfgkdrrlpitnrwregh 568 d1tx2a_ 262 ---------------mmdamigk 269 FAST alignment (Normalized score: 1.23 Raw score:478.70) query 1 ----------------SLQLRLALNQIDSTVGD---IAGNAEAILRWTRHSAEQGAHLVA 41 ::::::::::::::::: :::::::::::::::::::::::: d1tx2a_ 1 KWDYDLRCGEYTLNLNEKTLIMGILNVTPDSFSDGGSYNEVDAAVRHAKEMRDEGAHIID 60 query 42 FPEMALTGYPVEDLALRSSFVEASRTALRELAARLAEEGF-------------------- 81 :: d1tx2a_ 61 IG--------------------------------------GESFAKVSVEEEIKRVVPMI 82 query 82 ------GELPVLVGYLDRSESAQPKYGQPAGAPRNAAAVLHRGRVALTFAKHHLPNYGVF 135 ::::::: d1tx2a_ 83 QAVSKEVKLPISI----------------------------------------------- 95 query 136 DEFRYFVPGDTMPIVRLHGVDIALAICEDLWQDGGRVPAARSAGAGLLLSVNASPYERDK 195 d1tx2a_ 96 ------------------------------------------------------------ 96 query 196 DDTRLELVRKRAQEAGCTTAYLAMIGGQDELVFDGDSIVVDRDGEVVARAPQFSEGCVVL 255 d1tx2a_ 96 ------------------------------------------------------------ 96 query 256 DLDLPAAEAEPPTGVVDDGLRIDRLVISEEPLPAYEAELAGGYADRLDADEEVYSALVVG 315 d1tx2a_ 96 ------------------------------------------------------------ 96 query 316 LRAYVAKNGFRSVLIGLSGGIDSALVAAIACDALGAQNVYGVS----------------- 358 d1tx2a_ 96 -------------------------------------------DTYKAEVAKQAIEAGAH 112 query 359 ----------------------------MPSKYSSDHSKGDAAELARRTGLNFRTVSIEP 390 :::: d1tx2a_ 113 IINDIWGAKAEPKIAEVAAHYDVPIILMHNRD---------------------------- 144 query 391 MFDAYMASLG----LTGLAEENLQSRLRGTTLMAISNQEGHIVLAPGNKSELAVGYSTLY 446 :::::::::::::::::::: d1tx2a_ 145 ----------NMNYRNLMADMIADLYDSIKIAKD-------------------------- 168 query 447 GDSVGAYGPIKDVYKTSIFRLAEWRNRAAAERGQTPPIPEASITKPDYPVLDAILELYVD 506 d1tx2a_ 169 ------------------------------------------------------------ 169 query 507 RDTGADAIVAAGYDRELVVKTLRMVDTAEYKRRQYPPGTKISAKGFGKDRRLPITNRWRE 566 d1tx2a_ 169 ------------------------------------------------------------ 169 query 567 GH---------------------------------------------------------- 568 d1tx2a_ 169 --AGVRDENIILDPGIGFAKTPEQNLEAMRNLEQLNVLGYPVLLGTSRKSFIGHVLDLPV 226 query 569 ------------------------------------------- 569 d1tx2a_ 227 EERLEGTGATVCLGIEKGCEFVRVHDVKEMSRMAKMMDAMIGK 269 TMalign alignment (TM-score: 0.25 Raw score:142.24) query 1 --SLQL------RLALNQIDSTVGDIAGNAEAILRWTRHSAEQGAHLVAFPEMALTGYPV 52 :::: ::: : :::: :::: ::: d1tx2a_ 1 KWDYDLRCGEYTLNL------------------------N-EKTL--IMGI--LNV---- 27 query 53 EDLALRSSFV--E-ASRTALRELAARLAEEGFGELPVLVGYLDR---SESAQPKYGQPAG 106 :: ::::: : :::::::::::::: ::: :::::::::: :: : : d1tx2a_ 28 --TP-DSFSDGGSYNEVDAAVRHAKEMR-DEG--AHIIDIGGESFAK---VS--V-E--- 72 query 107 APR-NAA-AV--LHRGRV-ALTFAKHHLPNYGVFDEFRYFVPGDTMPIV-RLHGVDIALA 160 ::: ::: :: :::::: ::::::::: :::::::: : ::::: d1tx2a_ 73 EEIKRVVPMIQAVSKEVKLPISIDTYKA-------------EVAKQAIEA-G---AHIIN 115 query 161 ICEDLWQDGGRVPAARSAGAGLLLSVNASP-YERD-K---DD-TRLELVRKRAQE--AGC 212 :::::::::::::::::: : ::::::::: :::: : :: :::::::::::: ::: d1tx2a_ 116 DIWGAKAEPKIAEVAAHY-D-VPIILMHNRDNMNYRNLMADMIADLYDSIKIAKDAGVRD 173 query 213 T-TAYLAMIGG-QDELV-FD--GD--SIVVDRDGEVVARAPQFSE-GCVVLDLDLPAAEA 264 : ::::::::: ::: :: :: ::::: :::::::: ::: d1tx2a_ 174 ENIILDPGIGFA--KTPEQNLEAMRNLEQLN--VLGYPVLL-GTSR-------------- 214 query 265 EPPTGVVDDGLRIDRLVISEEPLPAYEAELAGGYADRLDADEEVYSALVVGLRAYVAKNG 324 :::::::: ::::: d1tx2a_ 215 ----------------------------------------------KSFIGHVL-DLPVE 227 query 325 FR----------------------------------------SVLIGLSGGIDSALVAAI 344 :: d1tx2a_ 228 ERLEGTGATVCLGIEKGCEFVRVHDVKEMSRMAKMMDAMIGK------------------ 269 query 345 ACDALGAQNVYGVSMPSKYSSDHSKGDAAELARRTGLNFRTVSIEPMFDAYMASLGLTGL 404 d1tx2a_ 270 ------------------------------------------------------------ 270 query 405 AEENLQSRLRGTTLMAISNQEGHIVLAPGNKSELAVGYSTLYGDSVGAYGPIKDVYKTSI 464 d1tx2a_ 270 ------------------------------------------------------------ 270 query 465 FRLAEWRNRAAAERGQTPPIPEASITKPDYPVLDAILELYVDRDTGADAIVAAGYDRELV 524 d1tx2a_ 270 ------------------------------------------------------------ 270 query 525 VKTLRMVDTAEYKRRQYPPGTKISAKGFGKDRRLPITNRWREGH 568 d1tx2a_ 270 -------------------------------------------- 270 HHsearch alignment (Probability: 0.05 E-value:0.02) query 494 YPVLDAILELYVDRDTGADAIV---AAGYDRELVVKTLRMVDTAEYKRRQYPPGTKISAK 550 :::::::::::::::::::::: ::::::::::::::::::::::::::::::::::: d1tx2a_ 156 IADLYDSIKIAKDAGVRDENIILDPGIGFAKTPEQNLEAMRNLEQLNVLGYPVLLGTSRK 215 query 551 GF 552 :: d1tx2a_ 216 SF 217
Intermediate <-- 1.245 --> Hit
DALI alignment (Z-score: 11.4 Raw score:1256.80) d1tx2a_ 1 kwdydlrcgeytlnlNEKT-LIMGILNVT---------pDSFSdggsynevdAAVRHAKE 50 :::: ::::::::: :::: :::::::: d1h1na_ 1 ---------------AKVFqWFGSNESGAefgsqnlpgvEGKD------yiwPDPNTIDT 39 d1tx2a_ 51 MRDEGAHIIDIGGEsfaKVSV---------EEEIKRVVPMIQAVSKeVKLPISIDT---- 97 :::::::::::::: :::: :::::::::::::::: ::::::::: d1h1na_ 40 LISKGMNIFRVPFM--mERLVpnsmtgspdPNYLADLIATVNAITQ-KGAYAVVDPhnyg 96 d1tx2a_ 98 ---------------yKAEVAKQaIEAG-AHIINDIW--------gaKAEP-KIAEVAAH 132 ::::::: :::: :::::::: :::: :::::::: d1h1na_ 97 ryynsiisspsdfetfWKTVASQ-FASNpLVIFDTDNeyhdmdqtlvLNLNqAAIDGIRS 155 d1tx2a_ 133 ---YDVPIILMHNRdnmnyrnlmaDMIADLYDSIKIAkdagVRDENIILDPGIGfakTPE 189 ::::::::::: ::::::::::::: ::::::::::::: ::: d1h1na_ 156 agaTSQYIFVEGNS-----wtgawTWTNVNDNMKSLT----DPSDKIIYEMHQYldsDGS 206 d1tx2a_ 190 Q----------nlEAMRNLEQ-LNVLGYPVLL-GTSRksfighvldlPVEE-RLEGTGAT 236 : :::::::: :::::::::: :::: :::: :::::::: d1h1na_ 207 GtsatcvsstigqERITSATQwLRANGKKGIIgEFAG----------GADNvCETAITGM 256 d1tx2a_ 237 VCLGIEKG--CEFVRVH----------------------dvKEMSRMAkmmdamigk 269 :::::::: ::::::: ::::::: d1h1na_ 257 LDYMAQNTdvWTGAIWWaagpwwgdyifsmepdngiayqqiLPILTPY--------- 304 FAST alignment (Normalized score: 5.64 Raw score:1612.00) d1tx2a_ 1 KWDYDLRCGEYTLNLNEK------------------------------------------ 18 d1h1na_ 1 ------------------AKVFQWFGSNESGAEFGSQNLPGVEGKDYIWPDPNTIDTLIS 42 d1tx2a_ 19 ---TLIMGILNVTPDSFS----------DGGSYNEVDAAVRHAKEMRDEGAHIIDIGGES 65 :::::::: :::::::::::::::::::::: :::::: d1h1na_ 43 KGMNIFRVPFM-------MERLVPNSMTGSPDPNYLADLIATVNAITQKG-AYAVVD--- 91 d1tx2a_ 66 --------FAKV-SVEEEIKRVVPMIQAVSKEVK-LPISIDTY------------KAEVA 103 :::: :::::::::::::::: :::: :::: ::::: d1h1na_ 92 PHNYGRYYNSIISSPSDFETFWKTVASQF-ASNPLVIFD----TDNEYHDMDQTLVLNLN 146 d1tx2a_ 104 KQAIEAGA-----------HIINDI--------WGAKAEPKIAEVA---AHYD-VPIILM 140 ::::: :::: :::::::::: :::: :::::: d1h1na_ 147 QAAID---GIRSAGATSQYIFVE--GNSWTGAWTWTNVNDNMK---SLTDPSDKIIYEMH 198 d1tx2a_ 141 HN------RDNMNYRNLM-ADMIADLYDSIKIAKDAGVRDENIILDPGIGFAK------- 186 :: :::::::: ::::::::::::::::::: :::: d1h1na_ 199 QYLDSDGSGTSATCVS--STIGQERITSATQWLRANGK---KGII--------GEFAGGA 245 d1tx2a_ 187 ---TPEQNLEAMRNLEQLNVLGY------PVLLGTSRKSFIGHVLDLPV----------- 226 :::::::: :::::: :::::: d1h1na_ 246 DNVCETAITGM---LDYMAQ---NTDVWTGAIWWA--------------AGPWWGDYIFS 285 d1tx2a_ 227 -----EERLEGTGATVCLGIEKGCEFVRVHDVKEMSRMAKMMDAMIGK-- 269 :::::::::::: d1h1na_ 286 MEPDNGIAYQQILPILT-------------------------------PY 304 TMalign alignment (TM-score: 0.61 Raw score:165.07) d1tx2a_ 1 KWDYDLRCGEYTLNLNEKTLIMGILNVTP-DS-----FSDGGS-YNEVDAAVRHAKEMRD 53 :::::::::::::: :: :::: : ::: ::::::::::: d1h1na_ 1 ---------------AKVFQWFGSNESGAEFGSQNLPGVEG-KD-YIW-PDPNTIDTLIS 42 d1tx2a_ 54 EGAHIIDIGGESFAKVSVE-------E--EIKRVVPMIQAVSKEVKLPISIDT-Y----- 98 :::::::::::: ::::: : :::::::::::::: ::::::::: : d1h1na_ 43 KGMNIFRVPFMM--ERLVPNSMTGSPDPNYLADLIATVNAITQ-KGAYAVVDPHNYGRYY 99 d1tx2a_ 99 ---------K--AE-VAKQAIEAG-AHIIND-I-W-------GAKAEPKIAEVAAH--YD 134 : :: ::::::::: :::::: : : :::::::::::::: :: d1h1na_ 100 NSIISSPSDFETFWKTVASQFASNPLVIFDTDNEYHDMDQTLVLNLNQAAIDGIRSAGAT 159 d1tx2a_ 135 -VPIILMHNRDNM-NYRNLMADMIADLYDSIKIAKDAGVRDENIILDPGIGF-AKTP--- 188 :::::::::::: :::::::::::: : : :::: :::::::::: ::: d1h1na_ 160 SQYIFVEGNSWTGA---WTWTNVNDNMKS-L---T--DPSD-KIIYEMHQYLD-SDGSGT 208 d1tx2a_ 189 ----E---QNLEAMRNLEQ-LNVLGYPVLLGTSRKSFIGHVLDLPVEE--RLEGTGATVC 238 : ::::::::::: :::::::::::::: : ::: :::::::::: d1h1na_ 209 SATCVSSTIGQERITSATQWLRANGKKGIIGEFA---G-------GADNVCETAITGMLD 258 d1tx2a_ 239 LGIEKG--CEFVRV-H-----------D-------V---KEMSRMAKMMDAMIGK 269 :::::: :::::: : : : ::::::: d1h1na_ 259 YMAQNTDVWTGAIWWAAGPWWGDYIFSMEPDNGIAYQQILPILTPY--------- 304 HHsearch alignment (Probability: 0.37 E-value:0.03) d1tx2a_ 45 VRHAKEMRDEGAHIIDIGGE-----SF--AKVSVEEEIKRVVPMIQAVSKEVKLPISIDT 97 :::::::::::::::::::: :: :::::::::::::::::::::: :::::::: d1h1na_ 34 PNTIDTLISKGMNIFRVPFMMERLVPNSMTGSPDPNYLADLIATVNAITQK-GAYAVVDP 92 d1tx2a_ 98 YKAEVAKQAIEAGAHIINDIWGAK--AEPKIAEVAAHYDVPIILMHNRDNMNYRNLMADM 155 :::::: :::::::: :::::::::::::::::::::::::::::::::: d1h1na_ 93 HNYGRY----------YNSIISSPSDFETFWKTVASQFASNPLVIFDTDNEYHDMDQTLV 142 d1tx2a_ 156 IADLYDSIKIAKDAGVRDENIILDPGIGFA 185 ::::::::::::::::: :::::::::::: d1h1na_ 143 LNLNQAAIDGIRSAGAT-SQYIFVEGNSWT 171