3NWFA

Glycoprotein b from herpes simplex virus type 1, low-ph
Total Genus 142
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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
142
sequence length
622
structure length
605
Chain Sequence
DIKAENTDANFYVCPPPTGATVVQFEQPRRCPTRPEGQNYTEGIAVVFKENIAPYKFKATMYYKDVTVSQVWFGHRYSQFMGIFEDRAPVPFEEVIDKINAKGVCRSTAKYVRNNLETTAFHRDDHETDMELKPANAATRTSRGWHTTDLKYNPSRVEHRYGTTVNCIVEEVDARSVYPYDEFVLATGDFVYMSPFYGYREGSHTEHTSYAADRFKQVDGFYARDLTTKARATAPTTRNLLTTPKFTVAWDWVPKRPSVCTMTKWQEVDEMLRSEYGGSFRFSSDAISTTFTTNLTEYPLSRVDLGDCIGKDARDAMDRIFARRYNATHIKVGQPQYYLANGGFLIAYQPLLSNTLAELYVREHLREQSRKPVERIKTTSSIEFARLQFTYNHIQRHVNDMLGRVAIAWCELQNHELTLWNEARKLNPNAIASVTVGRRVSARMLGDVMAVSTCVPVAADNVIVQNSMRISSRPGACYSRPLVSFRYEDQGPLVEGQLGENNELRLTRDAIEPCTVGHRRYFTFGGGYVYFEEYAYSHQLSRADITTVSTFIDLNITMLEDHEFVPLEVYTRHEIKDSGLLDYTEVQRRNQLHDLRFADIDTVIH
Loading diagram...

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 142
structure length 605
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 3nwfA03
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 3nwfA01
3NWDA 3NWFA 3NW8A 3FVCA 4OT1A 4HSIA 4OSNA 4L1RA 3NWAA 2GUMA
chains in the Genus database with same CATH superfamily
2CY5A 5HE0A 2VKIA 2YS1A 4A6HA 1DDMA 3RCPA 4PQ0A 3PZDA 5M4YB 2DHIA 2Q13A 1OY2A 4CSQA 3CXBB 1WGUA 2N23A 4GN1A 4P7IA 1FHOA 4OSNA 1W1GA 2RLOA 1OMWA 1XR0B 1I7AA 2DN6A 3N4IB 4BBKA 5C6RA 2R2YA 2D10A 4KHOA 5EFXA 3B77A 4HATB 1UPQA 5EKQE 4KHBB 4K2PA 4DX8A 2OQBA 2KGXB 3KRWA 3TO1A 2GCLA 1DDWA 2G2WB 3P6AA 2BCJA 1JTGB 4CYEA 2YS5A 1WI1A 2COFA 4WJ7A 1KZ7A 5DIFB 4H8SA 2D9YA 3A8QA 1UNQA 2AEHA 2RSGA 4HB4B 1X1FA 1UNPA 4GXBA 4HAXB 3N7CA 4MT7A 3CIKA 2MKRA 2CRFA 3HIEA 1EF1A 3SNHA 2P0DA 2LOXA 3OANA 2YH9A 3C7UB 5KCVA 1FHXA 1J19A 5FI0A 1IRSA 4KHAA 2I1KA 2ROZB 1PLSA 2RRFA 1UEFA 1XKEA 2KUQA 4EJNA 1U2BA 2MFQA 2CODA 3PP2A 4DBBA 3FEHA 4YL8A 1NU2A 1QQGA 1Y19B 2JP2A 2NBVA 3D8EA 4Z2NA 1SGHA 2W2XC 2ROVA 5I2MA 3G9WA 1RJ2A 1KZGA 1I2HA 1DYNA 1WGQA 3FSSA 4HAWB 2UVMA 2YS3A 4F7UP 4GPTB 5GOWB 1RRPB 5D3WA 1X11A 4HDQA 4L6EA 2P0FA 1QC6A 4GOUA 5J3QA 4WSFA 5FI1A 1FGZA 1LB1A 1J0WA 1MK9B 3DXEA 3C4PB 4KHBA 1TQZA 2YRYA 2KXXA 1ZM0A 2K8EA 2K00A 1H4RA 3HW2B 2KIGA 4QJ4B 2IYBA 1PMSA 4HAVB 2YF0A 1MKEA 3AU5A 5KQ4A 4QJ3B 2YSZA 4A6FB 3OHMB 2MWNB 1N3HA 2Z13A 2IFSA 4L1RA 3GYOA 2Y7BA 2K49A 3HQCA 5C5BB 3BJIA 3TW1A 2D4QA 2XQNM 3F0WA 3MDBC 2K2JA 4GMVA 5D27A 5I2SA 5D0QE 3WA0A 2G2UB 1DDVA 2PXGA 4TYZA 2DKQA 3D8DA 3ODWA 4MK0A 3PVWA 1NTVA 3DXDA 2DHJA 2YVCA 1TXDA 5DH9B 2X18A 2HTHB 4IFSA 1X05A 5C16A 4HB3B 4DX90 3ODOA 2DTCA 3C7VB 2ELBA 2GUMA 3NWDA 1T77A 1XODA 1V88A 2V76A 2J0MA 3TCAA 3QWMA 4IOYX 2EJ8A 3F5RA 4GZUA 2LOZA 2DHKA 2EMSA 1MAIA 2Z59A 3C4OB 2DA0A 1Q67A 2D2QA 2FJUB 2K2UA 1MI1A 4DIXA 3D4EA 1W1DA 1WVHA 1GG3A 4HDOA 5J3TA 2LKOA 3KSYA 3BINA 3WYFB 2DLWA 3MPXA 5HE2A 2YT1A 2P8VA 1FOEA 4NY0A 3U7DA 1X1GA 2COCA 4KAXB 1UNRA 5JHGA 3A8PA 1Y5OA 2RNRB 3ML4A 4EKUA 4CHMA 5CLLB 2B5RC 1P6SA 1AQCA 4A6FA 2KIEA 3ODXA 4D0NB 3PEGA 2KCJA 2Z0QA 2YT2A 4EMOA 1K5DB 2DFKA 5CLQB 2GCJA 1FAOA 1WJ1A 1TJ6A 3KZ1A 1V5PA 5C5BA 1XD4A 1BTKA 2E2XA 1FGYA 1U29A 4PNKA 2CAYA 1MPHA 5DHFB 3ZDTA 4NSWA 4K2OA 5D3YA 4DXAB 2HE7A 1U5FA 2KR0A 5LOPB 2LULA 2OTXA 3NW8A 4K81A 1P5TA 2CY4A 1OQNA 3QBVB 3PVLA 3SV1A 3PG7A 3U8ZA 1XXMC 2Z0OA 4QJ5B 2L1CA 4F7GA 2QKMA 2PZ1A 2Z4DA 3AU4A 5HE1A 1PFJA 4OT1A 5HE3A 1K5GB 1B55A 1U27A 1EGXA 2COAA 3KY9A 1EAZA 2UZSA 2Z14A 4HSIA 2I1JA 3T06A 1ISNA 1MK7B 3ZVRA 4HAYB 1M7RA 1M7EA 1X86A 1U5DA 1MIXA 1E5WA 4HAZB 1AWEA 1V5UA 3FVCA 3VIAA 5LONB 2RUKB 2AL6A 1NI2A 3E2LC 4XWXA 2R09A 3V5WA 5DI9B 4HAUB 1BWNA 3NWAA 4MY6A 3PVUA 1V61A 2VSZA 3FM8C 2DYQA 5J3YA 2J0KA 2D9ZA 4ZRKA 2EC1A 1S0WC 1DROA 2DX1A 4Z2MB 5KQ1A 2DX5A 5JLJB 2H7DA 5AYWE 4TKNA 3DCXA 3UZTA 5C79A 2L2IA 2P0HA 1XX0A 4IAPA 4KVGB 3TFMA 5IRSA 4F7HA 1DBHA 1LW3A 1V5MA 4A5KA 2D9VA 4DM5A 2ZPYA 2EMTA 2KM7A 2I5CA 1V89A 4ZRJA 2N0YA 2Y8GA 2J59M 1P3RA 3GYPA 3SUZA 1W1HA 3ULBA 2ELAA 3HSAA 5L81A 2G35A 2UZRA 3TVVA 2J0JA 2LYDA 1ZC3B 3GMUB 4YONA 5JP4A 4QXAB 2W2XD 2NMBA 1NTYA 1ZVRA 5LG4B 3M1IB 4CHJA 3NWFA 1UPRA 4HHVA 1FB8A 4C0AA 3U12A 3KRXA 3PSCA 2GJYA 2H7EA 2KUPA 4ZRIA 1BAKA 4WVFB 4K17A 3O96A 3VOQA 4Y94A 2FJLA 1WG7A 2QKLA 3ULCA 5D3XA 2VRWB 3NSUA 2MDXA 5D0OE 3A58A 1ZC4B 2RVBB 1ZSQA 4D6WA 3X23A 2DKPA 1H10A 1BTNA 3DXCA 4HB2B 2I5FA 3E2KC 1KI1B 4B6HA 3AJ4A 4HB0B 3IVFA 2Y8FA 4GNKB 2R0DA 1U5EA 1Z87A 2W2WA 3LJUX 2Z0PA 2DYNA 1FHWA 4A6KA 2LG1A 5JHHA 2D9WA 1WJMA 2ADZA 4GMXB 3D8FA 5D3VA 5DHAB 1U5GA 2ZKMX 2NZ8B 2D9XA 3SO6A 3A98B 1EVHA 1GC7A 3P7ZA 1XCGA 3HK0A 3SYXA 2GS0A 2RGNB 2YT0A 2M14A 2M38A 3QIJA 1GC6A 1SHCA 2D11A 1MIZB 1ZYIA
chains in the Genus database with same CATH topology
2KIEA 4DM5A 2YT2A 4GOUA 2GCJA 4PQ0A 2KM7A 5M4YB 3C4PB 4KHBA 4CSQA 2KXXA 3GYPA 4OSNA 2K8EA 2KIGA 4QJ4B 3N4IB 4QJ3B 3TVVA 2KR0A 3OHMB 3NW8A 2Z13A 3GMUB 2R2YA 4QXAB 4KHOA 4L1RA 3GYOA 5LG4B 2K49A 3NWFA 3TW1A 1XXMC 5EKQE 4QJ5B 4KHBB 3U12A 2Z4DA 3TO1A 5I2SA 4OT1A 5D0QE 2GCLA 2G2UB 2G2WB 2PXGA 1JTGB 2Z14A 5D0OE 3A58A 4HSIA 4D6WA 4IFSA 3C7VB 3E2KC 3HIEA 2GUMA 3NWDA 3FVCA 2YH9A 3C7UB 4GNKB 4IOYX 4KHAA 2RRFA 3E2LC 2Z59A 3C4OB 2KUQA 2FJUB 3NWAA 4DIXA 3D4EA 2ZKMX 1S0WC 4Z2MB 2NBVA 4Z2NA 5I2MA 5AYWE 3FSSA 2B5RC 5IRSA 1ZYIA
chains in the Genus database with same CATH homology


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