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


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