4L1RA

Glycoprotein b from herpes simplex virus type 1, a549t rate-of-entry mutant, low-ph
Total Genus 136
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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
136
sequence length
622
structure length
608
Chain Sequence
DIKAENTDANFYVCPPPTGATVVQFEQPRRCPTRPEGQNYTEGIAVVFKENIAPYKFKATMYYKDVTVSQVWFGHRYSQFMGIFEDRAPVPFEEVIDKINAKGVCRSTAKYVRNNLETTAFHRDDHETDMELKPANAATRTSRGWHTTDLKYNPSRVEAFHRYGTTVNCIVEEVDARSVYPYDEFVLATGDFVYMSPFYGYREGSHTEHTSYAADRFKQVDGFYARDLTTKARATAPTTRNLLTTPKFTVAWDWVPKRPSVCTMTKWQEVDEMLRSEYGGSFRFSSDAISTTFTTNLTEYPLSRVDLGDCIGKDARDAMDRIFARRYNATHIKVGQPQYYLANGGFLIAYQPLLSNTLAELYVREHLREQSRKPPVERIKTTSSIEFARLQFTYNHIQRHVNDMLGRVAIAWCELQNHELTLWNEARKLNPNTIASVTVGRRVSARMLGDVMAVSTCVPVAADNVIVQNSMRISSRPGACYSRPLVSFRYEDQGPLVEGQLGENNELRLTRDAIEPCTVGHRRYFTFGGGYVYFEEYAYSHQLSRADITTVSTFIDLNITMLEDHEFVPLEVYTRHEIKDSGLLDYTEVQRRNQLHDLRFADIDTVIH
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
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molecule keywords Envelope glycoprotein B
source organism Human herpesvirus 1
molecule tags Viral protein
total genus 136
structure length 608
sequence length 622
chains with identical sequence B
ec nomenclature
pdb deposition date 2013-06-03

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 4l1rA03
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 4l1rA01
3FVCA 3NWFA 3NWDA 3NWAA 4OSNA 4HSIA 3NW8A 4OT1A 2GUMA 4L1RA
chains in the Genus database with same CATH superfamily
3ODWA 4PNKA 1FHOA 3AU4A 2W2XD 4KHOA 1LB1A 2I1KA 1XX0A 3G9WA 4GZUA 5D3WA 1I7AA 4CHMA 4MT7A 5JHGA 1T77A 2AEHA 1KZGA 2J0JA 1X1FA 2HTHB 4F7HA 3O96A 1S0WC 3BJIA 5EFXA 1N3HA 2CODA 2XQNM 5D3XA 1TJ6A 4Z2NA 1PMSA 2DX1A 2J0MA 2NBVA 1BWNA 1TXDA 3AU5A 2RUKB 4GN1A 2H7EA 5JP4A 3GYPA 3UZTA 2NZ8B 3QBVB 4DIXA 2QKLA 1V5UA 4D6WA 1V5PA 4WVFB 2GJYA 4K2PA 4HAWB 3HQCA 4IFSA 1OMWA 4HHVA 1UEFA 2RGNB 1DBHA 2LYDA 1WGQA 1EF1A 3PSCA 4QXAB 3RCPA 1H4RA 2D10A 2UZRA 3HSAA 3TW1A 5HE2A 4GNKB 1OY2A 5J3TA 2M14A 1PFJA 1QC6A 2COAA 1XR0B 2P0HA 5D3YA 2D9ZA 1UPRA 2Z0OA 1FOEA 5D27A 5EKQE 3MPXA 2H7DA 1DROA 4PQ0A 2X18A 3NW8A 4TKNA 1TQZA 3A98B 2Z0QA 2KGXB 1LW3A 4XWXA 1DDMA 3OANA 3M1IB 2G2UB 2ELBA 1WGUA 4H8SA 4K17A 1X11A 2W2WA 2K2UA 2Z59A 3SNHA 2OQBA 1ZC3B 4GPTB 5CLQB 1WG7A 5IRSA 1BAKA 1KI1B 3GYOA 3QWMA 4YL8A 5C6RA 5KQ1A 5FI1A 3TFMA 4HATB 1X1GA 4K81A 1EAZA 2V76A 3V5WA 2N23A 2ROZB 5HE1A 1U5DA 2I5FA 2JP2A 1X05A 1U29A 4F7GA 3IVFA 3P6AA 3KY9A 1U2BA 2DLWA 2YT2A 5I2MA 2G35A 4GMXB 4YONA 1MK9B 2KXXA 1V5MA 3LJUX 4Z2MB 2MFQA 4MY6A 4ZRIA 5HE0A 2K49A 1SHCA 5D3VA 4DX8A 1H10A 2J59M 5DHFB 5DH9B 1EVHA 5J3YA 2LOZA 4F7UP 2EJ8A 2CY5A 5CLLB 1Q67A 1E5WA 1W1DA 1MKEA 4HAYB 3X23A 1GC7A 4KHAA 4DM5A 2KIGA 4CYEA 1J19A 4GOUA 3P7ZA 2YRYA 1XODA 5LOPB 3DXDA 4P7IA 3DCXA 4HAVB 4HAXB 3SO6A 3ML4A 2L1CA 2ZPYA 4KVGB 3CXBB 1M7RA 3PVLA 2Z0PA 1FGYA 1ZSQA 2R09A 1XKEA 2RVBB 4HB3B 3TO1A 2IFSA 1DYNA 1XXMC 1NI2A 3ULCA 1GG3A 4EMOA 3FM8C 1UNPA 3PP2A 2EC1A 3A8QA 3A8PA 3F0WA 4KHBA 2IYBA 2Y7BA 3A58A 3SUZA 5LG4B 4HB2B 3C7VB 2RLOA 4L1RA 4A6HA 2MDXA 2YS5A 3ZDTA 3HW2B 3WA0A 4HAUB 2LOXA 1NTYA 5LONB 2D11A 3KRWA 3NWAA 1XCGA 2DYNA 2EMSA 2E2XA 2K8EA 4EJNA 2DTCA 2YF0A 1SGHA 3VIAA 2Q13A 1WJ1A 1UPQA 4KHBB 1V61A 2UZSA 3VOQA 1MPHA 1ZYIA 2DYQA 2YSZA 2KM7A 2GS0A 5FI0A 4QJ4B 2CY4A 3PVUA 1V88A 2FJUB 3WYFB 2EMTA 4QJ3B 1FHXA 2KIEA 1OQNA 1IRSA 2Z4DA 1WVHA 1K5DB 5I2SA 3TCAA 1WI1A 5C79A 1GC6A 1PLSA 4HB4B 3E2KC 5AYWE 3C4PB 5GOWB 3B77A 2DFKA 2GUMA 2K00A 2D9YA 1RJ2A 4IAPA 2YS1A 2GCJA 1Y5OA 1W1GA 1ZC4B 2Y8FA 1EGXA 2Y8GA 2I5CA 2DHKA 4L6EA 2LG1A 3D8EA 1Y19B 2HE7A 4IOYX 2DN6A 1DDWA 3C7UB 4OT1A 2ZKMX 1I2HA 2PXGA 4HSIA 3PEGA 2DX5A 5KQ4A 2ELAA 2N0YA 2KCJA 4TYZA 4CHJA 2YH9A 3BINA 3KZ1A 2D4QA 2DHJA 3QIJA 2YS3A 2ROVA 1KZ7A 1P6SA 1X86A 3SV1A 2OTXA 3OHMB 3ODXA 3FSSA 1M7EA 3FVCA 3D4EA 3DXCA 4KAXB 2D9WA 5J3QA 3CIKA 2FJLA 5C16A 2VRWB 2Z13A 1FB8A 2MWNB 3ULBA 4A6KA 3MDBC 2D9VA 3N4IB 3PZDA 2RSGA 3U8ZA 3KRXA 4NSWA 4DBBA 1W1HA 3SYXA 2MKRA 4CSQA 3ZVRA 2AL6A 3NWDA 1FHWA 1QQGA 5D0QE 2LULA 4D0NB 1MIXA 2UVMA 3N7CA 3DXEA 3TVVA 4ZRKA 3F5RA 4WSFA 3ODOA 1AQCA 2COCA 1WJMA 4DX90 1B55A 5DIFB 1AWEA 1U5EA 2VSZA 1FAOA 1U5FA 3NWFA 1FGZA 4BBKA 1XD4A 4K2OA 4EKUA 4GMVA 3AJ4A 5D0OE 4Y94A 2BCJA 1ISNA 3PVWA 1V89A 5L81A 2LKOA 1J0WA 4NY0A 4GXBA 5C5BA 2COFA 2RNRB 1JTGB 5HE3A 5DI9B 2QKMA 2DHIA 2CRFA 2RRFA 2P0DA 2W2XC 1NU2A 3PG7A 4A5KA 2DKPA 3GMUB 2NMBA 1P3RA 1MK7B 3FEHA 4A6FA 2J0KA 2P0FA 5JHHA 1BTNA 2G2WB 3D8FA 5C5BB 1NTVA 1BTKA 3KSYA 1Z87A 2VKIA 5DHAB 4HDQA 5JLJB 2GCLA 4DXAB 2KUQA 1MAIA 2K2JA 2Z14A 3HK0A 3HIEA 2L2IA 1K5GB 4A6FB 2B5RC 2YT0A 4MK0A 2D2QA 2KUPA 2KR0A 2YVCA 4HB0B 3E2LC 4WJ7A 2ADZA 2I1JA 3C4OB 5M4YB 4HAZB 3D8DA 1MI1A 1UNRA 2R2YA 1U27A 4C0AA 1DDVA 2R0DA 2P8VA 2D9XA 1ZM0A 1U5GA 1UNQA 4B6HA 3NSUA 2DKQA 4HDOA 2DA0A 3U12A 2M38A 1P5TA 1RRPB 2YT1A 2PZ1A 3U7DA 4OSNA 5KCVA 2CAYA 3T06A 4ZRJA 4QJ5B 1ZVRA 1MIZB
chains in the Genus database with same CATH topology
2KIEA 5D0QE 2Z4DA 4KHOA 5I2SA 3TVVA 2YT2A 5I2MA 3E2KC 5AYWE 3C4PB 3NWFA 2KXXA 4Z2MB 2GUMA 1S0WC 2K49A 4Z2NA 2GCJA 5D0OE 2NBVA 3GYPA 4IOYX 1JTGB 3C7UB 4DIXA 4OT1A 4D6WA 4KHAA 2ZKMX 2RRFA 4DM5A 2PXGA 2KIGA 4GOUA 4HSIA 3GMUB 4IFSA 4QJ5B 2G2WB 2YH9A 4QXAB 3TO1A 1XXMC 3TW1A 4GNKB 2GCLA 2KUQA 2Z14A 3HIEA 2B5RC 3OHMB 4KHBA 3FSSA 3A58A 2KR0A 5LG4B 3C7VB 4L1RA 3E2LC 3C4OB 5EKQE 3FVCA 5M4YB 4PQ0A 3D4EA 3NW8A 2R2YA 3NWAA 2K8EA 2Z13A 2G2UB 4KHBB 3N4IB 1ZYIA 2KM7A 2Z59A 3U12A 4CSQA 5IRSA 3GYOA 3NWDA 4OSNA 2FJUB 4QJ4B 4QJ3B
chains in the Genus database with same CATH homology


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