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


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