3NWAA

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


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