3NWAA

Glycoprotein b from herpes simplex virus type 1, w174r mutant, low-ph
Total Genus 146
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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
146
sequence length
622
structure length
608
Chain Sequence
DIKAENTDANFYVCPPPTGATVVQFEQPRRCPTRPEGQNYTEGIAVVFKENIAPYKFKATMYYKDVTVSQVRFGHRYSQFMGIFEDRAPVPFEEVIDKINAKGVCRSTAKYVRNNLETTAFHRDDHETDMELKPANAATRTSRGWHTTDLKYNPSRVEAFHRYGTTVNCIVEEVDARSVYPYDEFVLATGDFVYMSPFYGYREGSHTEHTSYAADRFKQVDGFYARDLTTKARATAPTTRNLLTTPKFTVAWDWVPKRPSVCTMTKWQEVDEMLRSEYGGSFRFSSDAISTTFTTNLTEYPLSRVDLGDCIGKDARDAMDRIFARRYNATHIKVGQPQYYLANGGFLIAYQPLLSNTLAELYVREHLREQSRKPPVERIKTTSSIEFARLQFTYNHIQRHVNDMLGRVAIAWCELQNHELTLWNEARKLNPNAIASVTVGRRVSARMLGDVMAVSTCVPVAADNVIVQNSMRISSRPGACYSRPLVSFRYEDQGPLVEGQLGENNELRLTRDAIEPCTVGHRRYFTFGGGYVYFEEYAYSHQLSRADITTVSTFIDLNITMLEDHEFVPLEVYTRHEIKDSGLLDYTEVQRRNQLHDLRFADIDTVIH
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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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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
molecule keywords Envelope glycoprotein B
total genus 146
structure length 608
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 3nwaA03
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 3nwaA01
3NWFA 3FVCA 3NWDA 4L1RA 4OT1A 2GUMA 4OSNA 4HSIA 3NWAA 3NW8A
chains in the Genus database with same CATH superfamily
3C7VB 1OMWA 3WA0A 2PZ1A 2DYNA 2RSGA 1KI1B 4D6WA 2ROZB 1WGQA 4ZRJA 3E2LC 3C4PB 3HIEA 5GOWB 4GPTB 1MI1A 3MPXA 3NSUA 4TKNA 2DKQA 4Y94A 4KHOA 1XXMC 2Q13A 5HE3A 2FJUB 1X1GA 2D9YA 4WVFB 2R0DA 4HATB 1GG3A 1W1HA 2NMBA 2MWNB 4EJNA 2NBVA 3D8EA 4K81A 4K2PA 2D2QA 4OSNA 4HB0B 2DX1A 2YRYA 1B55A 2VRWB 3OHMB 5LG4B 1U5GA 4HB3B 2UZSA 1X1FA 2Z13A 4HHVA 4GN1A 1MPHA 3F5RA 2W2XC 1ZYIA 5D3YA 3RCPA 1FHOA 3G9WA 1EF1A 2OTXA 2BCJA 2K8EA 1PLSA 1LW3A 2UZRA 2CY4A 3DXDA 2ROVA 4A5KA 2N0YA 2LOXA 2EC1A 1BAKA 2K00A 1S0WC 1ZSQA 3HSAA 4DIXA 5C79A 1FOEA 1IRSA 4P7IA 2KUQA 2HTHB 2KR0A 3A8PA 1V89A 4B6HA 4CHMA 2COAA 1RJ2A 1Y19B 2Z4DA 2KCJA 3NWDA 5J3TA 5JLJB 3KZ1A 3HW2B 5D0QE 4EKUA 3D8DA 5C16A 2VSZA 3P6AA 2DTCA 2KIEA 2I5CA 3TCAA 4YL8A 4ZRIA 1J0WA 2R2YA 5L81A 5C5BB 2RGNB 4L6EA 2J0MA 3GYOA 2X18A 2DHJA 3PSCA 2YF0A 2DFKA 2EMSA 4KVGB 4A6KA 3NWAA 1DDVA 1K5GB 2YS3A 4GOUA 5M4YB 1XD4A 3PVWA 4L1RA 3ODOA 2CAYA 4WJ7A 4HAVB 1U2BA 1ZC3B 4HB4B 2D4QA 3TW1A 1P3RA 1I7AA 2AEHA 1DROA 5J3QA 1N3HA 2GS0A 1JTGB 3KY9A 2DHKA 3GMUB 3AU4A 3PVLA 4OT1A 4F7GA 1RRPB 4QJ5B 2LG1A 2ELAA 3UZTA 3D4EA 5KQ1A 3A8QA 2W2XD 2KXXA 3O96A 4HAXB 4TYZA 1SGHA 4PQ0A 4ZRKA 3ULBA 2I1JA 1T77A 3CIKA 2NZ8B 3MDBC 3PG7A 5D27A 3PEGA 3KRXA 1PMSA 1ZC4B 1WGUA 1TJ6A 2RVBB 5I2SA 4WSFA 2LKOA 2DN6A 1LB1A 4HB2B 1BTKA 1M7EA 4A6FA 2D9ZA 3TFMA 3DXCA 3FSSA 4QJ3B 3KSYA 1DDWA 2DYQA 1PFJA 3U7DA 4K2OA 2IFSA 4BBKA 1U29A 2EMTA 4K17A 1DDMA 1SHCA 2CODA 2K49A 1V5UA 2HE7A 1H4RA 1TQZA 2UVMA 2G2UB 3NWFA 2KM7A 2DLWA 1QC6A 1QQGA 1WJMA 1J19A 2YVCA 2Z0PA 1Y5OA 1UPRA 3KRWA 4F7HA 4CHJA 1ZVRA 4IOYX 2RLOA 4GMVA 2OQBA 2Y8GA 3BINA 2QKLA 5JHHA 1MK9B 3ZVRA 2P8VA 3FVCA 4IFSA 1V5MA 2N23A 2I5FA 2LOZA 4GXBA 2W2WA 4HAUB 2M38A 3FEHA 1BWNA 4CYEA 3BJIA 3C7UB 1WI1A 1WJ1A 3U12A 1XODA 1W1DA 4DBBA 2LULA 5DH9B 2J0KA 1UNPA 1H10A 2YS1A 2LYDA 1U27A 2P0FA 1FAOA 2GCLA 3SYXA 3ULCA 3WYFB 2FJLA 3TO1A 5AYWE 2D9VA 4XWXA 1WG7A 1FB8A 2Y7BA 1AQCA 5EKQE 1U5EA 2GUMA 1MKEA 3F0WA 3DXEA 2ADZA 4DXAB 1UNRA 4F7UP 3V5WA 4HAYB 2G35A 1E5WA 2M14A 4CSQA 2D11A 5IRSA 1UNQA 2KGXB 4KHBA 4QXAB 2D10A 4MY6A 1X86A 3VIAA 2DHIA 3VOQA 2P0DA 4EMOA 5DHFB 4PNKA 1Z87A 1OQNA 1FHXA 4DX90 2YS5A 3QIJA 4MT7A 1V61A 4KAXB 1UEFA 4A6FB 5LONB 2L2IA 3ZDTA 1DBHA 2RNRB 2GJYA 5D3WA 3AJ4A 4Z2NA 3FM8C 5KQ4A 2G2WB 1X05A 1K5DB 3SUZA 1KZ7A 2KUPA 3GYPA 1MIXA 5J3YA 3HK0A 1XKEA 4HDQA 1U5FA 3E2KC 1V5PA 4QJ4B 1MAIA 2COCA 3DCXA 2V76A 5KCVA 3PVUA 5DI9B 1V88A 3OANA 1BTNA 2YT1A 3QWMA 1FHWA 3NW8A 2CY5A 3AU5A 5D3VA 4GMXB 4HDOA 1NTVA 1KZGA 4KHBB 2DA0A 2ELBA 2MFQA 2H7EA 2RUKB 2RRFA 2Z14A 2H7DA 3X23A 4GNKB 2Y8FA 2MKRA 1FGYA 1W1GA 1GC6A 1U5DA 1TXDA 2COFA 4C0AA 5C6RA 4NY0A 2K2UA 3SO6A 5FI0A 3SV1A 1ZM0A 5D0OE 3M1IB 3IVFA 1X11A 5HE1A 4HAWB 2J59M 1EAZA 2K2JA 2R09A 3PZDA 5D3XA 2QKMA 3B77A 2E2XA 1P5TA 5I2MA 5LOPB 3QBVB 1MK7B 4Z2MB 5EFXA 1UPQA 4YONA 1WVHA 3U8ZA 3HQCA 5HE0A 3PP2A 4HSIA 3T06A 1MIZB 2D9XA 2L1CA 5JHGA 1OY2A 5HE2A 5DIFB 2IYBA 2DKPA 2J0JA 2Z0QA 4D0NB 5JP4A 2P0HA 2ZKMX 1NI2A 2I1KA 3D8FA 5FI1A 1Q67A 1ISNA 3LJUX 3CXBB 3TVVA 2YT2A 2AL6A 2Z59A 1M7RA 2DX5A 4A6HA 3C4OB 2B5RC 2Z0OA 5DHAB 2JP2A 2ZPYA 1AWEA 4HAZB 1EGXA 4NSWA 1I2HA 3A58A 2D9WA 3ODWA 4IAPA 2CRFA 1GC7A 2YT0A 3P7ZA 2YH9A 2PXGA 3N4IB 1DYNA 2GCJA 5C5BA 1P6SA 3ODXA 1NU2A 1NTYA 2KIGA 2EJ8A 3N7CA 5CLLB 4MK0A 4H8SA 5CLQB 2XQNM 2VKIA 3A98B 2MDXA 2YSZA 1XX0A 4DM5A 1EVHA 1XCGA 4GZUA 1FGZA 1XR0B 3SNHA 4KHAA 4DX8A 3ML4A
chains in the Genus database with same CATH topology
3TW1A 3C7VB 3C7UB 3U12A 5D0OE 4D6WA 1JTGB 2GCLA 5AYWE 3TO1A 3GMUB 5I2MA 3E2LC 4OT1A 4QJ5B 3C4PB 3HIEA 5EKQE 4Z2MB 2GUMA 4KHOA 1XXMC 2FJUB 3D4EA 2KXXA 4PQ0A 4HSIA 4CSQA 2NBVA 5IRSA 4OSNA 4KHBA 3OHMB 5LG4B 4QXAB 2Z13A 2ZKMX 5I2SA 1ZYIA 2K8EA 3TVVA 2YT2A 2Z59A 3FSSA 3C4OB 4QJ3B 1S0WC 2B5RC 4DIXA 2KUQA 2KR0A 3A58A 4Z2NA 2Z4DA 2G2WB 2K49A 3NWDA 3GYPA 5D0QE 2G2UB 3N4IB 2YH9A 2PXGA 3NWFA 3E2KC 2GCJA 4QJ4B 2KM7A 2KIEA 2KIGA 2R2YA 3GYOA 4IOYX 3NW8A 4DM5A 4KHBB 3NWAA 4IFSA 3FVCA 4GOUA 4KHAA 5M4YB 4L1RA 2RRFA 2Z14A 4GNKB
chains in the Genus database with same CATH homology


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