3NWAA

Glycoprotein b from herpes simplex virus type 1, w174r mutant, low-ph
Total Genus 146
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The genus trace: a function that shows values of genus (vertical axis) for subchains spanned between the first residue, and all other residues (shown on horizontal axis). The number of the latter residue and the genus of a given subchain are shown interactively.

Total Genus
146
sequence length
622
structure length
608
Chain Sequence
DIKAENTDANFYVCPPPTGATVVQFEQPRRCPTRPEGQNYTEGIAVVFKENIAPYKFKATMYYKDVTVSQVRFGHRYSQFMGIFEDRAPVPFEEVIDKINAKGVCRSTAKYVRNNLETTAFHRDDHETDMELKPANAATRTSRGWHTTDLKYNPSRVEAFHRYGTTVNCIVEEVDARSVYPYDEFVLATGDFVYMSPFYGYREGSHTEHTSYAADRFKQVDGFYARDLTTKARATAPTTRNLLTTPKFTVAWDWVPKRPSVCTMTKWQEVDEMLRSEYGGSFRFSSDAISTTFTTNLTEYPLSRVDLGDCIGKDARDAMDRIFARRYNATHIKVGQPQYYLANGGFLIAYQPLLSNTLAELYVREHLREQSRKPPVERIKTTSSIEFARLQFTYNHIQRHVNDMLGRVAIAWCELQNHELTLWNEARKLNPNAIASVTVGRRVSARMLGDVMAVSTCVPVAADNVIVQNSMRISSRPGACYSRPLVSFRYEDQGPLVEGQLGENNELRLTRDAIEPCTVGHRRYFTFGGGYVYFEEYAYSHQLSRADITTVSTFIDLNITMLEDHEFVPLEVYTRHEIKDSGLLDYTEVQRRNQLHDLRFADIDTVIH
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The genus matrix. At position (x,y) a genus value for a subchain spanned between x’th and y’th residue is shown. Values of the genus are represented by color, according to the scale given on the right.

Structure visualization

After clicking on a point (x,y) in the genus matrix above, a subchain from x to y is shown in color.

Chord Diagram
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molecule tags Viral protein
source organism Human herpesvirus 1
publication title Structural basis of local, pH-dependent conformational changes in glycoprotein B from herpes simplex virus type 1.
pubmed doi rcsb
molecule keywords Envelope glycoprotein B
total genus 146
structure length 608
sequence length 622
chains with identical sequence B, C, D
ec nomenclature
pdb deposition date 2010-07-09

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF00606 Glycoprotein_B Herpesvirus Glycoprotein B ectodomain
A PF17416 Glycoprot_B_PH1 Herpesvirus Glycoprotein B
A PF17417 Glycoprot_B_PH2 Herpesvirus Glycoprotein B PH-like domain
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
2.30.29.100 Mainly Beta Roll PH-domain like PH-domain like 3nwaA03
3.30.1450.20 Alpha Beta 2-Layer Sandwich Beta-lactamase Inhibitory Protein; Chain:B, domain 1 Beta-lactamase Inhibitory Protein; Chain:B, domain 1 3nwaA01
2GUMA 4L1RA 3NW8A 3NWFA 4HSIA 3NWAA 4OSNA 3FVCA 4OT1A 3NWDA
chains in the Genus database with same CATH superfamily
4IOYX 3D8EA 4ZRIA 5J3YA 2M38A 4HDOA 1MKEA 1K5DB 1MK9B 3ODXA 3OANA 2COFA 1V61A 1LB1A 4F7HA 3U7DA 3C4OB 2DKQA 2QKMA 1LW3A 1X1GA 3HK0A 3TFMA 4HHVA 3SNHA 2GS0A 4EMOA 4H8SA 4HB4B 2AEHA 4KHBA 2GJYA 5D0QE 1RJ2A 2KXXA 3NWAA 2RGNB 2J0JA 4K17A 1X86A 2NZ8B 2DN6A 2R09A 2KIGA 2EJ8A 2ZPYA 4A6HA 1OY2A 3QWMA 4NSWA 1XODA 2KIEA 2LULA 4K2PA 4D0NB 1GG3A 1U5DA 5DHAB 4YL8A 1U29A 3ODWA 4Y94A 1U5FA 2D9ZA 4GMXB 3RCPA 2K8EA 4EKUA 1NI2A 3HQCA 1X11A 4Z2MB 1OQNA 2GCLA 2YT2A 3U8ZA 2Q13A 4F7UP 1MAIA 2YVCA 3T06A 2P0DA 1WGUA 4A6KA 1N3HA 3ZDTA 1WJ1A 1DDWA 2Z13A 1XKEA 2DHKA 1EF1A 3P6AA 1ZC4B 3QIJA 3PVUA 1BTNA 1U27A 2I5CA 3BINA 1V5UA 2Y8FA 3C7UB 1MIZB 4L6EA 4CHJA 2RRFA 1XX0A 1SGHA 3FVCA 3DXDA 4GPTB 5J3TA 5D27A 2XQNM 1DDMA 5LONB 1AWEA 4CSQA 2Z59A 1Z87A 2ELAA 4A6FA 2KGXB 5GOWB 2GUMA 2MDXA 2EMSA 4CHMA 2DHIA 2Z4DA 3GMUB 1ISNA 4ZRKA 1EVHA 1MPHA 3NSUA 2Z0PA 2R2YA 5AYWE 2UZRA 2L2IA 5HE3A 3A8QA 3QBVB 3O96A 2J0MA 4TKNA 5EKQE 2YF0A 1W1GA 3UZTA 3PG7A 4YONA 3PVWA 4ZRJA 5LG4B 1PFJA 3D4EA 2DHJA 1JTGB 1UEFA 1FHXA 2OQBA 5I2SA 3GYPA 1ZSQA 2R0DA 1BWNA 3PEGA 5FI1A 2H7DA 3A8PA 2JP2A 4KAXB 2RSGA 2PZ1A 3KSYA 3AJ4A 1X1FA 4HB0B 4GXBA 2B5RC 3ML4A 4HAYB 2G2UB 3KRXA 1W1HA 5JHHA 1P5TA 1UNQA 4HAUB 3DXEA 2D4QA 4DX8A 1NTVA 4KHBB 1KZ7A 3N4IB 2DFKA 1V5MA 1UPRA 1GC7A 4QXAB 3TCAA 2D11A 5C5BB 3BJIA 4HAXB 1V89A 2G35A 1XD4A 1UNPA 5JLJB 2LOZA 3AU4A 4BBKA 1FHOA 2K00A 1DYNA 1Y5OA 1AQCA 3E2KC 4HAZB 1U5EA 2DYNA 2D9VA 1U5GA 1T77A 1ZM0A 2VSZA 4DXAB 2Z14A 2YT1A 2DLWA 3FM8C 4CYEA 2K2JA 2KR0A 4KHOA 1DBHA 4PNKA 2D9WA 3HW2B 1UNRA 5D3XA 2CY4A 4P7IA 5I2MA 3TVVA 1WJMA 1P3RA 2J0KA 3M1IB 4QJ3B 1BAKA 3DXCA 5DH9B 1EGXA 2MFQA 2YS3A 4MY6A 3OHMB 4D6WA 3KZ1A 2UZSA 4HSIA 2KCJA 4WVFB 5D3YA 2OTXA 2ADZA 2HTHB 1J19A 1U2BA 2P8VA 3CXBB 5D0OE 5DHFB 1OMWA 3N7CA 4HAVB 5FI0A 2K49A 1WI1A 4MK0A 2DKPA 3SV1A 3ULCA 2VRWB 4KHAA 1TXDA 5HE2A 1GC6A 4Z2NA 2Z0OA 1E5WA 3D8DA 3DCXA 4A6FB 4HATB 3X23A 5JP4A 1V5PA 2W2XC 3E2LC 1FGYA 3B77A 2LYDA 2FJLA 4QJ4B 1KI1B 4GN1A 5D3VA 2H7EA 3FEHA 3NW8A 3SO6A 3WA0A 2E2XA 4GZUA 1PLSA 2Y7BA 3P7ZA 2RLOA 1X05A 1QQGA 3G9WA 2RUKB 3F0WA 2M14A 2BCJA 3SYXA 2D2QA 5HE0A 2HE7A 1UPQA 1ZYIA 3MPXA 1FOEA 3HSAA 1W1DA 3PVLA 4B6HA 2DTCA 2KUPA 1XR0B 2P0FA 5LOPB 2NMBA 1XXMC 5KQ1A 1IRSA 2YRYA 1FAOA 3PZDA 2DX1A 2N0YA 2I1KA 2J59M 1BTKA 4OSNA 2CY5A 3C4PB 4IAPA 1DROA 4C0AA 2K2UA 2DX5A 4GNKB 4TYZA 4DBBA 2LKOA 2YH9A 5IRSA 2W2XD 1Q67A 3TO1A 1M7RA 2Z0QA 4QJ5B 4F7GA 1TQZA 2COCA 3ULBA 2FJUB 1WG7A 2I5FA 4EJNA 2GCJA 3IVFA 3ZVRA 2CAYA 4PQ0A 2G2WB 2COAA 1J0WA 2YSZA 5HE1A 3VIAA 4XWXA 2X18A 3MDBC 3TW1A 2V76A 4K2OA 2CODA 2RNRB 1M7EA 5CLQB 3LJUX 3SUZA 2YS5A 2ZKMX 3GYOA 5KQ4A 2EC1A 3NWFA 2IFSA 2W2WA 2RVBB 4KVGB 4MT7A 2AL6A 1V88A 2MWNB 1QC6A 1WGQA 5C5BA 2D10A 4IFSA 2LG1A 4GOUA 4DIXA 1MIXA 2D9XA 2CRFA 3HIEA 5DI9B 3A58A 3U12A 1EAZA 5CLLB 3F5RA 2NBVA 1MK7B 1B55A 2YS1A 4DX90 3AU5A 2L1CA 5KCVA 5L81A 5J3QA 1Y19B 1XCGA 3FSSA 4HB2B 5C6RA 2VKIA 4NY0A 3C7VB 4OT1A 4HDQA 5EFXA 2N23A 1SHCA 1RRPB 2IYBA 2D9YA 3VOQA 4K81A 1I7AA 5DIFB 2DYQA 2ELBA 2ROZB 2UVMA 2MKRA 1MI1A 2I1JA 1NU2A 4WSFA 2KM7A 3A98B 3CIKA 4WJ7A 1ZVRA 3PSCA 1H10A 3PP2A 3D8FA 2P0HA 2PXGA 1ZC3B 1TJ6A 5C79A 2ROVA 3WYFB 4L1RA 2KUQA 1S0WC 1H4RA 1I2HA 1FB8A 4DM5A 3ODOA 1DDVA 4HAWB 2QKLA 2EMTA 5D3WA 1FGZA 2YT0A 3KY9A 1PMSA 2DA0A 3NWDA 3V5WA 3KRWA 2LOXA 4HB3B 5JHGA 1KZGA 5C16A 1FHWA 4A5KA 5M4YB 2Y8GA 1NTYA 4GMVA 1WVHA 1K5GB 1P6SA
chains in the Genus database with same CATH topology
4IOYX 5D0OE 2R2YA 5AYWE 2K49A 4IFSA 4GOUA 4KHAA 4DIXA 4Z2NA 3HIEA 5EKQE 3A58A 3C4OB 3E2LC 5LG4B 3U12A 4QJ4B 2NBVA 3D4EA 3NW8A 1JTGB 5I2SA 3GYPA 4KHBA 5D0QE 2KXXA 3NWAA 3FSSA 2KIGA 2B5RC 3C7VB 4OT1A 2G2UB 1ZYIA 2KIEA 4KHBB 3N4IB 2K8EA 1XXMC 4QXAB 4Z2MB 2GCLA 2YT2A 4OSNA 2KM7A 3C4PB 3E2KC 4GNKB 2Z13A 2YH9A 5IRSA 2PXGA 3TO1A 4QJ5B 2Z14A 4L1RA 2KUQA 1S0WC 2KR0A 4KHOA 4DM5A 2FJUB 3C7UB 2GCJA 2RRFA 4PQ0A 2G2WB 3FVCA 5I2MA 3TVVA 4QJ3B 4CSQA 3NWDA 3TW1A 2Z59A 5M4YB 3OHMB 4D6WA 2ZKMX 2GUMA 3GYOA 3NWFA 4HSIA 3GMUB 2Z4DA
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 2GUM A;  4L1R A;  3NW8 A;  3NWF A;  4HSI A;  3NWA A;  4OSN A;  3FVC A;  4OT1 A;  3NWD A; 
#chains in the Genus database with same CATH topology
 4IOY X;  3D8E A;  4ZRI A;  5J3Y A;  2M38 A;  4HDO A;  1MKE A;  1K5D B;  1MK9 B;  3ODX A;  3OAN A;  2COF A;  1V61 A;  1LB1 A;  4F7H A;  3U7D A;  3C4O B;  2DKQ A;  2QKM A;  1LW3 A;  1X1G A;  3HK0 A;  3TFM A;  4HHV A;  3SNH A;  2GS0 A;  4EMO A;  4H8S A;  4HB4 B;  2AEH A;  4KHB A;  2GJY A;  5D0Q E;  1RJ2 A;  2KXX A;  3NWA A;  2RGN B;  2J0J A;  4K17 A;  1X86 A;  2NZ8 B;  2DN6 A;  2R09 A;  2KIG A;  2EJ8 A;  2ZPY A;  4A6H A;  1OY2 A;  3QWM A;  4NSW A;  1XOD A;  2KIE A;  2LUL A;  4K2P A;  4D0N B;  1GG3 A;  1U5D A;  5DHA B;  4YL8 A;  1U29 A;  3ODW A;  4Y94 A;  1U5F A;  2D9Z A;  4GMX B;  3RCP A;  2K8E A;  4EKU A;  1NI2 A;  3HQC A;  1X11 A;  4Z2M B;  1OQN A;  2GCL A;  2YT2 A;  3U8Z A;  2Q13 A;  4F7U P;  1MAI A;  2YVC A;  3T06 A;  2P0D A;  1WGU A;  4A6K A;  1N3H A;  3ZDT A;  1WJ1 A;  1DDW A;  2Z13 A;  1XKE A;  2DHK A;  1EF1 A;  3P6A A;  1ZC4 B;  3QIJ A;  3PVU A;  1BTN A;  1U27 A;  2I5C A;  3BIN A;  1V5U A;  2Y8F A;  3C7U B;  1MIZ B;  4L6E A;  4CHJ A;  2RRF A;  1XX0 A;  1SGH A;  3FVC A;  3DXD A;  4GPT B;  5J3T A;  5D27 A;  2XQN M;  1DDM A;  5LON B;  1AWE A;  4CSQ A;  2Z59 A;  1Z87 A;  2ELA A;  4A6F A;  2KGX B;  5GOW B;  2GUM A;  2MDX A;  2EMS A;  4CHM A;  2DHI A;  2Z4D A;  3GMU B;  1ISN A;  4ZRK A;  1EVH A;  1MPH A;  3NSU A;  2Z0P A;  2R2Y A;  5AYW E;  2UZR A;  2L2I A;  5HE3 A;  3A8Q A;  3QBV B;  3O96 A;  2J0M A;  4TKN A;  5EKQ E;  2YF0 A;  1W1G A;  3UZT A;  3PG7 A;  4YON A;  3PVW A;  4ZRJ A;  5LG4 B;  1PFJ A;  3D4E A;  2DHJ A;  1JTG B;  1UEF A;  1FHX A;  2OQB A;  5I2S A;  3GYP A;  1ZSQ A;  2R0D A;  1BWN A;  3PEG A;  5FI1 A;  2H7D A;  3A8P A;  2JP2 A;  4KAX B;  2RSG A;  2PZ1 A;  3KSY A;  3AJ4 A;  1X1F A;  4HB0 B;  4GXB A;  2B5R C;  3ML4 A;  4HAY B;  2G2U B;  3KRX A;  1W1H A;  5JHH A;  1P5T A;  1UNQ A;  4HAU B;  3DXE A;  2D4Q A;  4DX8 A;  1NTV A;  4KHB B;  1KZ7 A;  3N4I B;  2DFK A;  1V5M A;  1UPR A;  1GC7 A;  4QXA B;  3TCA A;  2D11 A;  5C5B B;  3BJI A;  4HAX B;  1V89 A;  2G35 A;  1XD4 A;  1UNP A;  5JLJ B;  2LOZ A;  3AU4 A;  4BBK A;  1FHO A;  2K00 A;  1DYN A;  1Y5O A;  1AQC A;  3E2K C;  4HAZ B;  1U5E A;  2DYN A;  2D9V A;  1U5G A;  1T77 A;  1ZM0 A;  2VSZ A;  4DXA B;  2Z14 A;  2YT1 A;  2DLW A;  3FM8 C;  4CYE A;  2K2J A;  2KR0 A;  4KHO A;  1DBH A;  4PNK A;  2D9W A;  3HW2 B;  1UNR A;  5D3X A;  2CY4 A;  4P7I A;  5I2M A;  3TVV A;  1WJM A;  1P3R A;  2J0K A;  3M1I B;  4QJ3 B;  1BAK A;  3DXC A;  5DH9 B;  1EGX A;  2MFQ A;  2YS3 A;  4MY6 A;  3OHM B;  4D6W A;  3KZ1 A;  2UZS A;  4HSI A;  2KCJ A;  4WVF B;  5D3Y A;  2OTX A;  2ADZ A;  2HTH B;  1J19 A;  1U2B A;  2P8V A;  3CXB B;  5D0O E;  5DHF B;  1OMW A;  3N7C A;  4HAV B;  5FI0 A;  2K49 A;  1WI1 A;  4MK0 A;  2DKP A;  3SV1 A;  3ULC A;  2VRW B;  4KHA A;  1TXD A;  5HE2 A;  1GC6 A;  4Z2N A;  2Z0O A;  1E5W A;  3D8D A;  3DCX A;  4A6F B;  4HAT B;  3X23 A;  5JP4 A;  1V5P A;  2W2X C;  3E2L C;  1FGY A;  3B77 A;  2LYD A;  2FJL A;  4QJ4 B;  1KI1 B;  4GN1 A;  5D3V A;  2H7E A;  3FEH A;  3NW8 A;  3SO6 A;  3WA0 A;  2E2X A;  4GZU A;  1PLS A;  2Y7B A;  3P7Z A;  2RLO A;  1X05 A;  1QQG A;  3G9W A;  2RUK B;  3F0W A;  2M14 A;  2BCJ A;  3SYX A;  2D2Q A;  5HE0 A;  2HE7 A;  1UPQ A;  1ZYI A;  3MPX A;  1FOE A;  3HSA A;  1W1D A;  3PVL A;  4B6H A;  2DTC A;  2KUP A;  1XR0 B;  2P0F A;  5LOP B;  2NMB A;  1XXM C;  5KQ1 A;  1IRS A;  2YRY A;  1FAO A;  3PZD A;  2DX1 A;  2N0Y A;  2I1K A;  2J59 M;  1BTK A;  4OSN A;  2CY5 A;  3C4P B;  4IAP A;  1DRO A;  4C0A A;  2K2U A;  2DX5 A;  4GNK B;  4TYZ A;  4DBB A;  2LKO A;  2YH9 A;  5IRS A;  2W2X D;  1Q67 A;  3TO1 A;  1M7R A;  2Z0Q A;  4QJ5 B;  4F7G A;  1TQZ A;  2COC A;  3ULB A;  2FJU B;  1WG7 A;  2I5F A;  4EJN A;  2GCJ A;  3IVF A;  3ZVR A;  2CAY A;  4PQ0 A;  2G2W B;  2COA A;  1J0W A;  2YSZ A;  5HE1 A;  3VIA A;  4XWX A;  2X18 A;  3MDB C;  3TW1 A;  2V76 A;  4K2O A;  2COD A;  2RNR B;  1M7E A;  5CLQ B;  3LJU X;  3SUZ A;  2YS5 A;  2ZKM X;  3GYO A;  5KQ4 A;  2EC1 A;  3NWF A;  2IFS A;  2W2W A;  2RVB B;  4KVG B;  4MT7 A;  2AL6 A;  1V88 A;  2MWN B;  1QC6 A;  1WGQ A;  5C5B A;  2D10 A;  4IFS A;  2LG1 A;  4GOU A;  4DIX A;  1MIX A;  2D9X A;  2CRF A;  3HIE A;  5DI9 B;  3A58 A;  3U12 A;  1EAZ A;  5CLL B;  3F5R A;  2NBV A;  1MK7 B;  1B55 A;  2YS1 A;  4DX9 0;  3AU5 A;  2L1C A;  5KCV A;  5L81 A;  5J3Q A;  1Y19 B;  1XCG A;  3FSS A;  4HB2 B;  5C6R A;  2VKI A;  4NY0 A;  3C7V B;  4OT1 A;  4HDQ A;  5EFX A;  2N23 A;  1SHC A;  1RRP B;  2IYB A;  2D9Y A;  3VOQ A;  4K81 A;  1I7A A;  5DIF B;  2DYQ A;  2ELB A;  2ROZ B;  2UVM A;  2MKR A;  1MI1 A;  2I1J A;  1NU2 A;  4WSF A;  2KM7 A;  3A98 B;  3CIK A;  4WJ7 A;  1ZVR A;  3PSC A;  1H10 A;  3PP2 A;  3D8F A;  2P0H A;  2PXG A;  1ZC3 B;  1TJ6 A;  5C79 A;  2ROV A;  3WYF B;  4L1R A;  2KUQ A;  1S0W C;  1H4R A;  1I2H A;  1FB8 A;  4DM5 A;  3ODO A;  1DDV A;  4HAW B;  2QKL A;  2EMT A;  5D3W A;  1FGZ A;  2YT0 A;  3KY9 A;  1PMS A;  2DA0 A;  3NWD A;  3V5W A;  3KRW A;  2LOX A;  4HB3 B;  5JHG A;  1KZG A;  5C16 A;  1FHW A;  4A5K A;  5M4Y B;  2Y8G A;  1NTY A;  4GMV A;  1WVH A;  1K5G B;  1P6S A; 
#chains in the Genus database with same CATH homology
 4IOY X;  5D0O E;  2R2Y A;  5AYW E;  2K49 A;  4IFS A;  4GOU A;  4KHA A;  4DIX A;  4Z2N A;  3HIE A;  5EKQ E;  3A58 A;  3C4O B;  3E2L C;  5LG4 B;  3U12 A;  4QJ4 B;  2NBV A;  3D4E A;  3NW8 A;  1JTG B;  5I2S A;  3GYP A;  4KHB A;  5D0Q E;  2KXX A;  3NWA A;  3FSS A;  2KIG A;  2B5R C;  3C7V B;  4OT1 A;  2G2U B;  1ZYI A;  2KIE A;  4KHB B;  3N4I B;  2K8E A;  1XXM C;  4QXA B;  4Z2M B;  2GCL A;  2YT2 A;  4OSN A;  2KM7 A;  3C4P B;  3E2K C;  4GNK B;  2Z13 A;  2YH9 A;  5IRS A;  2PXG A;  3TO1 A;  4QJ5 B;  2Z14 A;  4L1R A;  2KUQ A;  1S0W C;  2KR0 A;  4KHO A;  4DM5 A;  2FJU B;  3C7U B;  2GCJ A;  2RRF A;  4PQ0 A;  2G2W B;  3FVC A;  5I2M A;  3TVV A;  4QJ3 B;  4CSQ A;  3NWD A;  3TW1 A;  2Z59 A;  5M4Y B;  3OHM B;  4D6W A;  2ZKM X;  2GUM A;  3GYO A;  3NWF A;  4HSI A;  3GMU B;  2Z4D A; 
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similar chains in the Genus database (?% sequence similarity)
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similar chains in the pdb database (?% sequence similarity)

 
#similar chains in the Genus database (?% sequence similarity)
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#similar chains, but unknotted
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#similar chains in the pdb database (?% sequence similarity)
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