2GUMA

Crystal structure of the extracellular domain of glycoprotein b from herpes simplex virus type i
Total Genus 139
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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
139
sequence length
615
structure length
576
Chain Sequence
ANFYVCPPPTGATVVQFEQPRRCPTRPEGQNYTEGIAVVFKENIAPYKFKATMYYKDVTVSQVWFGHRYSQFMGIFEDRAPVPFEEVIDKINAKGVCRSTAKYVRNNLETTAFHRDDHETDMELKPANAATRTSRGWHTTDLKYNPSRVEAFHRYGTTVNCIVEEVDARSVYPYDEFVLATGDFVYMSPFYGYREGSHTEHTTYAADRFKQVDGFYARDLAPTTRNLLTTPKFTVAWDWVPKRPSVCTMTKWQEVDEMLRSEYGGSFRFSSDAISTTFTTNLTEYPLSRVDLGDCIGKDARDAMDRIFARRYNATHIKVGQPQYYQANGGFLIAYQPLLSNTVERIKTTSSIEFARLQFTYNHIQRHVNDMLGRVAIAWCELQNHELTLWNEARKLNPNAIASVTVGRRVSARMLGDVMAVSTCVPVAADNVIVQNSMRISSRPGACYSRPLVSFRYEDQGPLVEGQLGENNELRLTRDAIEPCTVGHRRYFTFGGGYVYFEEYAYSHQLSRADITTVSTFIDLNITMLEDHEFVPLEVYTRHEIKDSGLLDYTEVQRRNQLHDLRFADIDTVIHA
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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 tags Viral protein
molecule keywords Glycoprotein B
publication title Crystal structure of glycoprotein B from herpes simplex virus 1.
pubmed doi rcsb
source organism Human herpesvirus 1
total genus 139
structure length 576
sequence length 615
chains with identical sequence B, C
ec nomenclature
pdb deposition date 2006-05-01

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 2gumA03
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 2gumA01
3NWFA 3NWDA 4L1RA 3NW8A 2GUMA 4OSNA 3NWAA 3FVCA 4OT1A 4HSIA
chains in the Genus database with same CATH superfamily
1T77A 1ZYIA 4KVGB 2FJLA 5IRSA 2DFKA 2N23A 5KQ4A 1MI1A 4F7UP 3U8ZA 4YL8A 1TQZA 1ZC3B 4HAUB 4F7GA 4HHVA 2V76A 3DXCA 2CY4A 4HB4B 3NSUA 3TW1A 2YS1A 2K8EA 3SNHA 3HK0A 4CSQA 1WGQA 3CXBB 4KHAA 2HE7A 5LONB 1J0WA 2GUMA 4QJ3B 5I2MA 4D6WA 2K2UA 1V5UA 2DHIA 1XD4A 1M7EA 2DHKA 2KIGA 2YT1A 2FJUB 2DX1A 2EMSA 2X18A 3TCAA 1XKEA 1PLSA 4K2PA 3F0WA 3N7CA 4HAVB 4DX90 1Z87A 3GYPA 2B5RC 3NWFA 2R0DA 1UNPA 2ZKMX 5EFXA 4DBBA 3A8PA 1RJ2A 3AU5A 5C79A 2W2XD 4QXAB 1P3RA 4TYZA 3SYXA 3G9WA 3TO1A 4GPTB 3A8QA 3NW8A 1X05A 2DX5A 2DA0A 1FGYA 5JHGA 2ELAA 4KHOA 4DM5A 2H7DA 5C16A 4HSIA 2J0MA 1X1FA 2N0YA 2OQBA 4A6KA 2KXXA 2K00A 4HAYB 1MPHA 2LULA 2CY5A 2J0JA 4PQ0A 5HE2A 2GJYA 1NTVA 4C0AA 3GMUB 1I7AA 4GMXB 1P6SA 2QKMA 1W1GA 2DLWA 1XXMC 2OTXA 4CYEA 4HAXB 3BINA 3C4PB 3PVLA 3OHMB 2DKPA 1OQNA 3NWDA 1MIZB 3C7VB 2MDXA 2DYNA 1FHOA 1XR0B 2I1JA 4MT7A 2CAYA 2ROVA 2I5CA 3V5WA 3RCPA 1W1HA 4A6FA 3D8EA 3ZVRA 2YT2A 1MK9B 2M14A 4KAXB 2HTHB 3IVFA 4HATB 2ADZA 1EAZA 1UNRA 4QJ4B 1KI1B 2G35A 1V61A 3ML4A 4K2OA 1DYNA 3P7ZA 5CLQB 3O96A 2MFQA 5DHFB 2Y8FA 2DN6A 2ZPYA 3MDBC 5LG4B 2RLOA 1Y19B 5HE3A 1U29A 2KUPA 5GOWB 3KY9A 2P0FA 5D3VA 5D0QE 1ZSQA 2NBVA 3U7DA 5HE0A 2R2YA 1WJ1A 3AJ4A 3PSCA 4OSNA 2DYQA 2RSGA 1DDMA 4H8SA 1V5PA 5KCVA 2EJ8A 4HAWB 1NI2A 1XX0A 1MK7B 2MWNB 4GNKB 4CHMA 1XODA 4F7HA 1TXDA 2DHJA 2GCLA 2VRWB 2KUQA 4CHJA 1XCGA 2VSZA 3DXDA 5FI1A 4XWXA 2RUKB 4Y94A 4QJ5B 4HDOA 1X11A 1B55A 1SHCA 1OMWA 2YVCA 1OY2A 2Z59A 2D9YA 1MAIA 3ULBA 4DX8A 5DH9B 5C5BA 4B6HA 2IYBA 2KGXB 1K5DB 1ZC4B 3AU4A 1ISNA 3M1IB 3TFMA 5J3QA 4MY6A 5L81A 2D9ZA 2KR0A 1QQGA 1ZM0A 3KRWA 1V5MA 1WVHA 5DI9B 4BBKA 2PXGA 1Y5OA 3QBVB 1EF1A 1QC6A 2H7EA 1EVHA 3QWMA 3U12A 2BCJA 5JLJB 4A6FB 2GS0A 3ULCA 2AL6A 1BAKA 1GC7A 2UZRA 1MKEA 1WJMA 3A98B 2Y8GA 3UZTA 1SGHA 1AQCA 5D3XA 1M7RA 3FSSA 3NWAA 3E2LC 2DTCA 1K5GB 5J3YA 4NSWA 4GN1A 5I2SA 2COFA 2NZ8B 1FAOA 1U27A 1V89A 3D4EA 1NTYA 1BWNA 1AWEA 2LOXA 1P5TA 1DBHA 5AYWE 3DCXA 3FEHA 5J3TA 2J59M 1FHWA 3GYOA 1FOEA 4YONA 1H4RA 2D9WA 1EGXA 1UPRA 5JP4A 4KHBB 5LOPB 3ODXA 3P6AA 3ZDTA 3KRXA 1W1DA 2J0KA 2K49A 2R09A 5D0OE 3B77A 1GC6A 3HW2B 2Z4DA 5FI0A 1LB1A 4IAPA 5D27A 1U5EA 2IFSA 1BTNA 2COCA 2Y7BA 3HSAA 3BJIA 2P8VA 5M4YB 4EMOA 4Z2NA 3D8DA 3C7UB 3KSYA 2D11A 2VKIA 5C5BB 1FHXA 1H10A 1X86A 3VIAA 3SUZA 2CODA 4DIXA 3FVCA 5D3YA 4MK0A 2KIEA 4PNKA 3MPXA 3E2KC 3N4IB 4KHBA 1N3HA 2L2IA 4OT1A 2YH9A 4EKUA 1I2HA 4HAZB 3PP2A 2W2XC 2P0HA 2PZ1A 3DXEA 2Q13A 1V88A 1GG3A 5KQ1A 1U5FA 1J19A 2JP2A 3VOQA 4L6EA 3PVUA 4WSFA 4ZRKA 2D10A 1WG7A 2Z14A 3D8FA 2LKOA 3PZDA 3WA0A 2I5FA 4K17A 1DDWA 1WI1A 2ELBA 3T06A 1UEFA 3PG7A 1U5DA 4WVFB 3HQCA 3OANA 2D9XA 2LOZA 3A58A 2K2JA 4ZRIA 3FM8C 4NY0A 3KZ1A 1KZ7A 2COAA 5HE1A 2G2WB 1UPQA 5C6RA 1RRPB 4A6HA 3TVVA 4GZUA 1TJ6A 3F5RA 4HB0B 4A5KA 2EC1A 5D3WA 2I1KA 3HIEA 3LJUX 2RVBB 4GMVA 1ZVRA 5EKQE 3ODWA 2KCJA 4WJ7A 4HB3B 4IFSA 4HDQA 2YS5A 1NU2A 4ZRJA 2E2XA 1PFJA 4TKNA 2RRFA 1DDVA 2Z13A 5CLLB 2AEHA 2P0DA 1E5WA 2QKLA 1LW3A 3SV1A 2LG1A 5DHAB 4EJNA 2YRYA 1U2BA 4P7IA 3CIKA 2D9VA 2NMBA 2YSZA 2Z0PA 1UNQA 2L1CA 2UVMA 1U5GA 1KZGA 1DROA 3WYFB 4HB2B 2YT0A 2RNRB 1Q67A 2ROZB 3C4OB 3ODOA 2D2QA 2RGNB 4K81A 2KM7A 2Z0OA 2Z0QA 3X23A 2DKQA 3PEGA 3QIJA 1S0WC 2MKRA 1MIXA 1FB8A 3PVWA 2UZSA 2YF0A 2G2UB 1FGZA 4GOUA 4DXAB 4Z2MB 2CRFA 5JHHA 4IOYX 2EMTA 5DIFB 2D4QA 4L1RA 2XQNM 1WGUA 4GXBA 2YS3A 4D0NB 1PMSA 3SO6A 1X1GA 2GCJA 1JTGB 2W2WA 1BTKA 2LYDA 2M38A 1IRSA
chains in the Genus database with same CATH topology
2Z14A 3NWDA 3C7VB 3FSSA 3NWAA 1ZYIA 5IRSA 3E2LC 2YT2A 5I2SA 3A58A 4QJ4B 3D4EA 3TW1A 5AYWE 2K8EA 2G2WB 3TVVA 5LG4B 3GYOA 4CSQA 4KHAA 2GUMA 3HIEA 4KHBB 4QJ3B 5D0QE 5I2MA 4D6WA 2NBVA 5EKQE 2R2YA 5D0OE 2K49A 4OSNA 4IFSA 2Z4DA 2KIGA 2RRFA 2Z13A 2FJUB 4GNKB 5M4YB 2GCLA 2KUQA 4Z2NA 3C7UB 3GYPA 2B5RC 3NWFA 2ZKMX 4QJ5B 4QXAB 2Z59A 4DIXA 3FVCA 3TO1A 2KIEA 3C4OB 3NW8A 3E2KC 3N4IB 4DM5A 4KHOA 4KHBA 2YH9A 4OT1A 4HSIA 2KM7A 2KXXA 1S0WC 2KR0A 4PQ0A 2G2UB 4GOUA 4Z2MB 3GMUB 4IOYX 4L1RA 2PXGA 1XXMC 3U12A 2GCJA 1JTGB 3C4PB 3OHMB
chains in the Genus database with same CATH homology


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