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


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