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


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