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


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