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


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