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


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