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


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