2GUDA

Crystal structure of a complex of griffithsin with mannose at 0.94 a resolution
Total Genus 19

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
19
sequence length
121
structure length
121
Chain Sequence
SLTHRKFGGSGGSPFSGLSSIAVRSGSYLDAIIIDGVHHGGSGGNLSPTFTFGSGEYISNMTIRSGDYIDNISFETNMGRRFGPYGGSGGSANTLSNVKVIQINGSAGDYLDSLDIYYEQY

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
EMPTYTIV3 (33-36)S1 (20-25)S5 (50-51)S4 (45-46)TIV1 (25-28)S2 (29-34)S7 (69-76)S11 (111-120)S3 (37-40)TII1 (53-56)TI1 (76-79)S6 (58-65)TIV6 (95-98)TIV4 (65-68)S10 (98-107)TIV7 (107-110)S8 (81-86)S9 (91-95)Updating...
connected with : NaN
molecule tags Sugar binding protein
source organism Griffithsia
publication title Domain-swapped structure of the potent antiviral protein griffithsin and its mode of carbohydrate binding.
pubmed doi rcsb
molecule keywords griffithsin
total genus 19
structure length 121
sequence length 121
chains with identical sequence B
ec nomenclature
pdb deposition date 2006-04-29

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF01419 Jacalin Jacalin-like lectin domain
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
2.100.10.30 Mainly Beta Aligned Prism Vitelline Membrane Outer Layer Protein I, subunit A Jacalin-like lectin domain 2gudA01
2BMYA 1WS4C 5JM1A 4R6RA 1OUWA 1PXDA 1J4TA 1UH0A 1UH1A 1KUJA 1C3KA 2NU5A 4GX7A 5J4XA 3APAA 1X1VA 3LKYA 1UGWA 3WOCA 4AKBA 3MITA 3WOBA 5J4TA 4MQ0A 1J4UA 1JACA 1UGWC 2GUXA 3LM1A 1ZGRA 3LLZA 1VBOA 1M26A 1C3MA 1JOTA 1XXQA 2GUDA 5J51A 4AKCA 3O44A 3R51A 3R52A 3LL0A 2HYRA 1UGXA 1XEZA 5J50A 3MIVA 2BN0A 4R6OA 3VZEA 1J4SA 2GUEA 2NUOA 4PIKA 4WOGA 2GTYA 1TOQA 1ZGSA 5AV7A 2HYQA 1WS5C 4AK4A 1XXRA 4PITA 4R6PA 3LLYA 3LL2A 3AQGA 3R50A 3VZGA 1KU8A 1VBPA 1UGYA 5EXGA 4DDNA 4PIUA 3VY6A 4AKDA 3VY7A 4R6QA 1UGYC 1C3NA 2GUCA 1WS5A 2JZ4A 5BN6E 3LL1A 3P8SA 4R6NA 2BMZA 4PIFA 3MIUA 3VZFA 1WS4A 1TP8A
chains in the Genus database with same CATH superfamily
1VMOA 2BMYA 1WS4C 5JM1A 4R6RA 1OUWA 1PXDA 4ARYA 1J4TA 1UH0A 1UH1A 1KUJA 1C3KA 4W8JA 2NU5A 4GX7A 5J4XA 3APAA 1X1VA 3LKYA 1UGWA 3WOCA 4AKBA 3MITA 3WOBA 5J4TA 4MQ0A 1J4UA 1JACA 4MOAA 1I5PA 1UGWC 1JI6A 3TOWA 2GUXA 1CIYA 3LM1A 1ZGRA 3EB7A 3LLZA 1VBOA 1M26A 4QX3A 1C3MA 1JOTA 1XXQA 4QX2A 2GUDA 5J51A 4AKCA 3O44A 3R51A 3R52A 3LL0A 2HYRA 1UGXA 1XEZA 5J50A 3MIVA 2BN0A 4R6OA 3VZEA 1W99A 1J4SA 2GUEA 2NUOA 4PIKA 4QX1A 4WOGA 2GTYA 1TOQA 1ZGSA 5AV7A 2HYQA 1WS5C 4AK4A 1XXRA 4PITA 4R6PA 3LLYA 3LL2A 3AQGA 3R50A 3VZGA 1KU8A 1VBPA 1UGYA 5EXGA 4DDNA 1DLCA 4PIUA 3VY6A 4AKDA 2QP2A 3VY7A 4R6QA 1UGYC 1C3NA 2GUCA 1WS5A 2JZ4A 5BN6E 3LL1A 3P8SA 4ARXA 2C9KA 4D8MA 4R6NA 2BMZA 4PIFA 3MIUA 3VZFA 1WS4A 4QX0A 1TP8A
chains in the Genus database with same CATH topology
2BMYA 1WS4C 5JM1A 4R6RA 1OUWA 1PXDA 1J4TA 1UH0A 1UH1A 1KUJA 1C3KA 2NU5A 4GX7A 5J4XA 3APAA 1X1VA 3LKYA 1UGWA 3WOCA 4AKBA 3MITA 3WOBA 5J4TA 4MQ0A 1J4UA 1JACA 1UGWC 2GUXA 3LM1A 1ZGRA 3LLZA 1VBOA 1M26A 1C3MA 1JOTA 1XXQA 2GUDA 5J51A 4AKCA 3O44A 3R51A 3R52A 3LL0A 2HYRA 1UGXA 1XEZA 5J50A 3MIVA 2BN0A 4R6OA 3VZEA 1J4SA 2GUEA 2NUOA 4PIKA 4WOGA 2GTYA 1TOQA 1ZGSA 5AV7A 2HYQA 1WS5C 4AK4A 1XXRA 4PITA 4R6PA 3LLYA 3LL2A 3AQGA 3R50A 3VZGA 1KU8A 1VBPA 1UGYA 5EXGA 4DDNA 4PIUA 3VY6A 4AKDA 3VY7A 4R6QA 1UGYC 1C3NA 2GUCA 1WS5A 2JZ4A 5BN6E 3LL1A 3P8SA 4R6NA 2BMZA 4PIFA 3MIUA 3VZFA 1WS4A 1TP8A
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 2BMY A;  1WS4 C;  5JM1 A;  4R6R A;  1OUW A;  1PXD A;  1J4T A;  1UH0 A;  1UH1 A;  1KUJ A;  1C3K A;  2NU5 A;  4GX7 A;  5J4X A;  3APA A;  1X1V A;  3LKY A;  1UGW A;  3WOC A;  4AKB A;  3MIT A;  3WOB A;  5J4T A;  4MQ0 A;  1J4U A;  1JAC A;  1UGW C;  2GUX A;  3LM1 A;  1ZGR A;  3LLZ A;  1VBO A;  1M26 A;  1C3M A;  1JOT A;  1XXQ A;  2GUD A;  5J51 A;  4AKC A;  3O44 A;  3R51 A;  3R52 A;  3LL0 A;  2HYR A;  1UGX A;  1XEZ A;  5J50 A;  3MIV A;  2BN0 A;  4R6O A;  3VZE A;  1J4S A;  2GUE A;  2NUO A;  4PIK A;  4WOG A;  2GTY A;  1TOQ A;  1ZGS A;  5AV7 A;  2HYQ A;  1WS5 C;  4AK4 A;  1XXR A;  4PIT A;  4R6P A;  3LLY A;  3LL2 A;  3AQG A;  3R50 A;  3VZG A;  1KU8 A;  1VBP A;  1UGY A;  5EXG A;  4DDN A;  4PIU A;  3VY6 A;  4AKD A;  3VY7 A;  4R6Q A;  1UGY C;  1C3N A;  2GUC A;  1WS5 A;  2JZ4 A;  5BN6 E;  3LL1 A;  3P8S A;  4R6N A;  2BMZ A;  4PIF A;  3MIU A;  3VZF A;  1WS4 A;  1TP8 A; 
#chains in the Genus database with same CATH topology
 1VMO A;  2BMY A;  1WS4 C;  5JM1 A;  4R6R A;  1OUW A;  1PXD A;  4ARY A;  1J4T A;  1UH0 A;  1UH1 A;  1KUJ A;  1C3K A;  4W8J A;  2NU5 A;  4GX7 A;  5J4X A;  3APA A;  1X1V A;  3LKY A;  1UGW A;  3WOC A;  4AKB A;  3MIT A;  3WOB A;  5J4T A;  4MQ0 A;  1J4U A;  1JAC A;  4MOA A;  1I5P A;  1UGW C;  1JI6 A;  3TOW A;  2GUX A;  1CIY A;  3LM1 A;  1ZGR A;  3EB7 A;  3LLZ A;  1VBO A;  1M26 A;  4QX3 A;  1C3M A;  1JOT A;  1XXQ A;  4QX2 A;  2GUD A;  5J51 A;  4AKC A;  3O44 A;  3R51 A;  3R52 A;  3LL0 A;  2HYR A;  1UGX A;  1XEZ A;  5J50 A;  3MIV A;  2BN0 A;  4R6O A;  3VZE A;  1W99 A;  1J4S A;  2GUE A;  2NUO A;  4PIK A;  4QX1 A;  4WOG A;  2GTY A;  1TOQ A;  1ZGS A;  5AV7 A;  2HYQ A;  1WS5 C;  4AK4 A;  1XXR A;  4PIT A;  4R6P A;  3LLY A;  3LL2 A;  3AQG A;  3R50 A;  3VZG A;  1KU8 A;  1VBP A;  1UGY A;  5EXG A;  4DDN A;  1DLC A;  4PIU A;  3VY6 A;  4AKD A;  2QP2 A;  3VY7 A;  4R6Q A;  1UGY C;  1C3N A;  2GUC A;  1WS5 A;  2JZ4 A;  5BN6 E;  3LL1 A;  3P8S A;  4ARX A;  2C9K A;  4D8M A;  4R6N A;  2BMZ A;  4PIF A;  3MIU A;  3VZF A;  1WS4 A;  4QX0 A;  1TP8 A; 
#chains in the Genus database with same CATH homology
 2BMY A;  1WS4 C;  5JM1 A;  4R6R A;  1OUW A;  1PXD A;  1J4T A;  1UH0 A;  1UH1 A;  1KUJ A;  1C3K A;  2NU5 A;  4GX7 A;  5J4X A;  3APA A;  1X1V A;  3LKY A;  1UGW A;  3WOC A;  4AKB A;  3MIT A;  3WOB A;  5J4T A;  4MQ0 A;  1J4U A;  1JAC A;  1UGW C;  2GUX A;  3LM1 A;  1ZGR A;  3LLZ A;  1VBO A;  1M26 A;  1C3M A;  1JOT A;  1XXQ A;  2GUD A;  5J51 A;  4AKC A;  3O44 A;  3R51 A;  3R52 A;  3LL0 A;  2HYR A;  1UGX A;  1XEZ A;  5J50 A;  3MIV A;  2BN0 A;  4R6O A;  3VZE A;  1J4S A;  2GUE A;  2NUO A;  4PIK A;  4WOG A;  2GTY A;  1TOQ A;  1ZGS A;  5AV7 A;  2HYQ A;  1WS5 C;  4AK4 A;  1XXR A;  4PIT A;  4R6P A;  3LLY A;  3LL2 A;  3AQG A;  3R50 A;  3VZG A;  1KU8 A;  1VBP A;  1UGY A;  5EXG A;  4DDN A;  4PIU A;  3VY6 A;  4AKD A;  3VY7 A;  4R6Q A;  1UGY C;  1C3N A;  2GUC A;  1WS5 A;  2JZ4 A;  5BN6 E;  3LL1 A;  3P8S A;  4R6N A;  2BMZ A;  4PIF A;  3MIU A;  3VZF A;  1WS4 A;  1TP8 A; 
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similar chains in the Genus database (?% sequence similarity)
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