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


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