4YIVA

Crystal structure of engineered tgama1 lacking the dii loop
Total Genus 101
Loading diagram...

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
101
sequence length
388
structure length
374
Chain Sequence
GNPFQANVEMKTFMERFNLTHHHQSGIYVDLGQDKEVDGTLYREPAGLCPIWGKHIELQQPDRPPYRNNFLEDVPTEKEYKQSGNPLPGGFNLNFVTPSGQRISPFPMELLEKNSNIKASTDLGRCAEFAFKTVAMDKNNKATKYRYPFVYDSKKRLCHILYVSMQLMEGKKYCSVKGEPPDLTWYCFKPRKSVTENHHLIYGSAYVGENPDAFISKCPNQALRGYRFGVWKKGRCLDYTELTDTVIERVESKAQCWVKTFENDGVASDQPGQPHSGGVGRNYGFYYVDTTGEGKCALSDQVPDCLVSDSAAVSYTAAGSLSEETPNFIIPSNPSVTPPTTALQCPDSFGACDVQACKRQKTSCVGGQIQSTSV
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
{{ tooltip.sname }} connected with {{ tooltip.tname }} : {{qFormat(tooltip.svalue) }}
publication title An Extended Surface Loop on Toxoplasma gondii Apical Membrane Antigen 1 (AMA1) Governs Ligand Binding Selectivity.
pubmed doi rcsb
molecule tags Immune system
source organism Toxoplasma gondii me49
molecule keywords Apical membrane antigen AMA1
total genus 101
structure length 374
sequence length 388
ec nomenclature
pdb deposition date 2015-03-02

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF02430 AMA-1 Apical membrane antigen 1
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
3.50.4.30 Alpha Beta 3-Layer(bba) Sandwich Hepatocyte Growth Factor Hepatocyte Growth Factor 4yivA01
4YIZA 4YIVA
chains in the Genus database with same CATH superfamily
3HN4A 5CT1A 1BHTA 2HGFA 2F83A 1W8KA 5COEA 5CS9A 5CS5A 2QJ2A 2Z8VA 4UAOA 3HMSA 4Z0EA 5CS1A 2YIPA 4Z0DA 1I8NA 3SRIA 3ZWZA 2YIOA 4R19A 2YILA 2K13X 3HMTA 5CP9A 4YIZA 4R1CA 4Z09A 5CT2A 1NK1A 2LL3A 2J8LA 4Z0FA 5CS3A 4R1BA 2J8JA 1GP9A 2Q8AA 4YIVA 2Y8RA 4DURA 5I25A 4IUAA 2Q8BA 5EOKA 3HMRA 3MKPA 2QJ4A 5CSQA 1GMOA 4UV6A 3SRJA 2X2ZA 5CT3A 1W81A 2LL4M 3ZLEA 3SP8A 4R1AA 1HKYA 1GMNA 2Z8WA 4APLA 1Z40A 5EODA 4A5TS 4APMA 1YXEA 2KL5A
chains in the Genus database with same CATH topology
3HN4A 5CT1A 1BHTA 2HGFA 2F83A 1W8KA 5COEA 5CS9A 5CS5A 2QJ2A 2Z8VA 4UAOA 3HMSA 4Z0EA 5CS1A 2YIPA 4Z0DA 1I8NA 3SRIA 3ZWZA 2YIOA 4R19A 2YILA 2K13X 3HMTA 5CP9A 4YIZA 4R1CA 4Z09A 5CT2A 1NK1A 2LL3A 2J8LA 4Z0FA 5CS3A 4R1BA 2J8JA 1GP9A 2Q8AA 4YIVA 2Y8RA 4DURA 5I25A 4IUAA 2Q8BA 5EOKA 3HMRA 3MKPA 2QJ4A 5CSQA 1GMOA 4UV6A 3SRJA 2X2ZA 5CT3A 1W81A 2LL4M 3ZLEA 3SP8A 4R1AA 1HKYA 1GMNA 2Z8WA 4APLA 1Z40A 5EODA 4A5TS 4APMA 1YXEA 2KL5A
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 4YIZ A;  4YIV A; 
#chains in the Genus database with same CATH topology
 3HN4 A;  5CT1 A;  1BHT A;  2HGF A;  2F83 A;  1W8K A;  5COE A;  5CS9 A;  5CS5 A;  2QJ2 A;  2Z8V A;  4UAO A;  3HMS A;  4Z0E A;  5CS1 A;  2YIP A;  4Z0D A;  1I8N A;  3SRI A;  3ZWZ A;  2YIO A;  4R19 A;  2YIL A;  2K13 X;  3HMT A;  5CP9 A;  4YIZ A;  4R1C A;  4Z09 A;  5CT2 A;  1NK1 A;  2LL3 A;  2J8L A;  4Z0F A;  5CS3 A;  4R1B A;  2J8J A;  1GP9 A;  2Q8A A;  4YIV A;  2Y8R A;  4DUR A;  5I25 A;  4IUA A;  2Q8B A;  5EOK A;  3HMR A;  3MKP A;  2QJ4 A;  5CSQ A;  1GMO A;  4UV6 A;  3SRJ A;  2X2Z A;  5CT3 A;  1W81 A;  2LL4 M;  3ZLE A;  3SP8 A;  4R1A A;  1HKY A;  1GMN A;  2Z8W A;  4APL A;  1Z40 A;  5EOD A;  4A5T S;  4APM A;  1YXE A;  2KL5 A; 
#chains in the Genus database with same CATH homology
 3HN4 A;  5CT1 A;  1BHT A;  2HGF A;  2F83 A;  1W8K A;  5COE A;  5CS9 A;  5CS5 A;  2QJ2 A;  2Z8V A;  4UAO A;  3HMS A;  4Z0E A;  5CS1 A;  2YIP A;  4Z0D A;  1I8N A;  3SRI A;  3ZWZ A;  2YIO A;  4R19 A;  2YIL A;  2K13 X;  3HMT A;  5CP9 A;  4YIZ A;  4R1C A;  4Z09 A;  5CT2 A;  1NK1 A;  2LL3 A;  2J8L A;  4Z0F A;  5CS3 A;  4R1B A;  2J8J A;  1GP9 A;  2Q8A A;  4YIV A;  2Y8R A;  4DUR A;  5I25 A;  4IUA A;  2Q8B A;  5EOK A;  3HMR A;  3MKP A;  2QJ4 A;  5CSQ A;  1GMO A;  4UV6 A;  3SRJ A;  2X2Z A;  5CT3 A;  1W81 A;  2LL4 M;  3ZLE A;  3SP8 A;  4R1A A;  1HKY A;  1GMN A;  2Z8W A;  4APL A;  1Z40 A;  5EOD A;  4A5T S;  4APM A;  1YXE A;  2KL5 A; 
...loading similar chains, please wait...
similar chains in the Genus database (?% sequence similarity)
...loading similar chains, please wait...
similar chains in the pdb database (?% sequence similarity)

 
#similar chains in the Genus database (?% sequence similarity)
...loading similar chains, please wait...
#similar chains, but unknotted
...loading similar chains, please wait...
#similar chains in the pdb database (?% sequence similarity)
...loading similar chains, please wait...