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 <-- 0.808 --> Hit

SVM
score
SVM
score

The query (T542_A.pdb A) is transitively linked to the hit (d1itxa1) 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 d1itxa1 Chitinase A1(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 <-- 0.808 --> Hit
DALI alignment (Z-score: 10.8 Raw score:1245.60) d1tx2a_ 1 kwdydlrcgeytlnlNEKTLIMGILNV-TPDSfsdggsynevDAAVRhaKEMRdeGAHII 59 :::::::::::: :::: ::::: :::: ::::: d1itxa1 1 -------lqpataeaADSYKIVGYYPSwAAYG--------rnYNVAD--IDPT--KVTHI 41 d1tx2a_ 60 DIGGE------------------sfAKVSVE-----------eEIKR------------- 77 ::::: :::::: :::: d1itxa1 42 NYAFAdicwngihgnpdpsgpnpvtWTCQNEksqtinvpngtiVLGDpwidtgktfagdt 101 d1tx2a_ 78 ----vvPMIQAVSKEV----KLPISIDT--------------------yKAEVAKQAIE- 108 :::::::::: :::::::: :::::::::: d1itxa1 102 wdqpiaGNINQLNKLKqtnpNLKTIISVggwtwsnrfsdvaataatrevFANSAVDFLRk 161 d1tx2a_ 109 AGAHIINDIW-------------------gaKAEP-KIAEVAAHYD------VPIILMHn 142 :::::::::: :::: :::::::::: ::::::: d1itxa1 162 YNFDGVDLDWeypvsggldgnskrpedkqnyTLLLsKIREKLDAAGavdgkkYLLTIAS- 220 d1tx2a_ 143 rdnmnyrnlMADMI--ADLYDSIKIakdagvrdeNIILDPGIGfAKTP-------EQNL- 192 ::::: ::::::::: ::::::::: :::: :::: d1itxa1 221 -------gaSATYAanTELAKIAAI---------VDWINIMTY-DFNGawqkisaHNAPl 263 d1tx2a_ 193 ----------------EAMRN-LEQLN-VLGY--PVLLGTSRKsfighvldlpveeRLEG 232 ::::: ::::: :::: ::::::::: :::: d1itxa1 264 nydpaasaagvpdantFNVAAgAQGHLdAGVPaaKLVLGVPFD-------------DAES 310 d1tx2a_ 233 TGATVCLGIEKGCEFVRVH---------DVKEMSRMAkmmdamigk 269 ::::::::::::::::::: ::::::::: d1itxa1 311 VGYKTAYIKSKGLGGAMFWelsgdrnktLQNKLKADL--------- 347 FAST alignment (Normalized score: 4.19 Raw score:1281.00) d1tx2a_ 1 KWDYDLRCGEYTLNL--------------------------------------------- 15 d1itxa1 1 ---------------LQPATAEAADSYKIVGYYPSWAAYGRNYNVADIDPTKVTHINYAF 45 d1tx2a_ 16 ------------------------------------------------------------ 16 d1itxa1 46 ADICWNGIHGNPDPSGPNPVTWTCQNEKSQTINVPNGTIVLGDPWIDTGKTFAGDTWDQP 105 d1tx2a_ 16 --------------NEKTLIMGILNVTPDSFSDG--------------GSYNEVDAAVRH 47 ::::::::: :::::::::::: d1itxa1 106 IAGNINQLNKLKQTNPNLKTIIS-----------VGGWTWSNRFSDVAATAATREVFANS 154 d1tx2a_ 48 AKEMR-DEGAHIIDIGGES-----------FAKV--SVEEEIKRVVPMIQAVSKEV---- 89 ::::: :::::::::: :::: :::::::::::::::::: d1itxa1 155 AVDFLRKYNFDGVDLD---WEYPVSGGLDGNSKRPEDKQNYTLLLSKIREKLDA--AGAV 209 d1tx2a_ 90 ---KLPISIDTYKAE-----------VAKQAIEAGAHIINDIWGAKAEPKIAEVAAHYDV 135 ::::::: ::::::: ::::::: d1itxa1 210 DGKKYLLTIA-----SGASATYAANTELAKIAA-IVDWINI------------------- 244 d1tx2a_ 136 PIIL-MHNRDNMNYRNLMADMIA-------------------------------DLYDSI 163 :::: :::::: d1itxa1 245 ----MTYDF--------------NGAWQKISAHNAPLNYDPAASAAGVPDANTFNVAAGA 286 d1tx2a_ 164 KIAKDAGVRDENIILDPGIGFAKTPEQNLE---AMRNLEQLNVLG-------YPVLLGTS 213 ::::::::::::::::: :::::::::: :::::::: d1itxa1 287 QGHLDAGVPAAKLVLGV-------------PFDDAESVGYKTA--YIKSKGLGGAMFWEL 331 d1tx2a_ 214 RKSFIGHVLDLPVEERLEGT-----GATVCLGIEKGCEFVRVHDVKEMSRMAKMMDAMIG 268 ::::::::: d1itxa1 332 --------------------SGDRNKTLQNKLKA-------------------------- 345 d1tx2a_ 269 K-- 269 d1itxa1 346 -DL 347 TMalign alignment (TM-score: 0.58 Raw score:157.23) d1tx2a_ 1 ------KWDYDLRCGEYTLNLNEKTLIMGILNVTPDSFSDGGSYNEVDAAVRHAKEMRDE 54 :::::::::::::::::: :: :::::: :::: d1itxa1 1 LQPATA-------------EAADSYKIVGYYPSWAAY-------GR-NYNVAD--IDPT- 36 d1tx2a_ 55 GAHIIDIGGE---------------SFAKVSVEE--------------EI--K-RVV--- 79 :::::::::: ::::::::: :: : ::: d1itxa1 37 KVTHINYAFADICWNGIHGNPDPSGPNPVTWTCQNEKSQTINVPNGTIVLGDPWIDTGKT 96 d1tx2a_ 80 -----------PMIQAVSKEV--K--LPISIDTY-------K------------AE-VAK 104 :::::::::: : :::::::: : :: ::: d1itxa1 97 FAGDTWDQPIAGNINQLNKLKQTNPNLKTIISVGGWTWSNRFSDVAATAATREVFANSAV 156 d1tx2a_ 105 QAIE-AGAHIINDIW-GA-------------K--AE-PKIAEVAAHYD---------VPI 137 :::: :::::::::: :: : :: ::::::::::: ::: d1itxa1 157 DFLRKYNFDGVDLDWEYPVSGGLDGNSKRPEDKQNYTLLLSKIREKLDAAGAVDGKKYLL 216 d1tx2a_ 138 ILMHNRDNMNYRNLMADMIADLYDSIKIAKDAGVRDENIILDPGIGFAK----------- 186 :::::: ::: :: :: :::::::: : :::::::::::: d1itxa1 217 TIASGA--SAT--YA-AN-TELAKIAA-I--------VDWINIMTYDFNGAWQKISAHNA 261 d1tx2a_ 187 -------------TPE-QNL-EAMRNLEQLNVLG-YPVLLGTSRKSFIGHVLDLPVEERL 230 ::: ::: ::::::::::::: ::::::::: :: d1itxa1 262 PLNYDPAASAAGVPDANTFNVAAGAQGHLDAGVPAAKLVLGVPF--------------DD 307 d1tx2a_ 231 E-GTGATVCLGIEKGCEFVRV-H---DV-KEMSRMAKMMDAMIGK 269 : ::::::::::::::::::: : :: ::::::::::: d1itxa1 308 AESVGYKTAYIKSKGLGGAMFWELSGDRNKTLQNKLKADL----- 347 HHsearch alignment (Probability: 0.06 E-value:0.77) d1tx2a_ 159 LYDSIKIAKDAGVRDENIILDPGIGF 184 :::::::::::::::::::: :::: d1itxa1 282 VAAGAQGHLDAGVPAAKLVL--GVPF 305