3NWFA

Glycoprotein b from herpes simplex virus type 1, low-ph
Total Genus 142
Loading diagram...

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


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

 
#similar chains in the Genus database (?% sequence similarity)
...loading similar chains, please wait...
#similar chains, but unknotted
...loading similar chains, please wait...
#similar chains in the pdb database (?% sequence similarity)
...loading similar chains, please wait...