4YIVA

Crystal structure of engineered tgama1 lacking the dii loop
Total Genus 101
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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
101
sequence length
388
structure length
374
Chain Sequence
GNPFQANVEMKTFMERFNLTHHHQSGIYVDLGQDKEVDGTLYREPAGLCPIWGKHIELQQPDRPPYRNNFLEDVPTEKEYKQSGNPLPGGFNLNFVTPSGQRISPFPMELLEKNSNIKASTDLGRCAEFAFKTVAMDKNNKATKYRYPFVYDSKKRLCHILYVSMQLMEGKKYCSVKGEPPDLTWYCFKPRKSVTENHHLIYGSAYVGENPDAFISKCPNQALRGYRFGVWKKGRCLDYTELTDTVIERVESKAQCWVKTFENDGVASDQPGQPHSGGVGRNYGFYYVDTTGEGKCALSDQVPDCLVSDSAAVSYTAAGSLSEETPNFIIPSNPSVTPPTTALQCPDSFGACDVQACKRQKTSCVGGQIQSTSV
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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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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
4Z09A 1W81A 3ZWZA 5CS3A 4R1CA 1GMOA 2X2ZA 2Z8WA 4R1AA 2YIPA 2Q8BA 2LL3A 4UV6A 3HN4A 4Z0DA 5CP9A 5CS5A 1W8KA 1NK1A 2J8LA 4APMA 5COEA 4Z0EA 5EODA 2YIOA 1YXEA 2F83A 2Z8VA 4YIVA 1HKYA 4YIZA 1I8NA 2LL4M 4R1BA 3SP8A 4A5TS 4UAOA 2QJ4A 4R19A 4Z0FA 2YILA 4APLA 2HGFA 2Y8RA 5CT1A 1BHTA 5EOKA 3SRIA 2K13X 2J8JA 1GMNA 5CT2A 3HMTA 2Q8AA 3HMSA 1GP9A 2KL5A 3MKPA 5I25A 1Z40A 2QJ2A 4IUAA 5CS1A 3HMRA 5CT3A 3SRJA 3ZLEA 5CS9A 4DURA 5CSQA
chains in the Genus database with same CATH topology
4Z09A 1W81A 3ZWZA 5CS3A 4R1CA 1GMOA 2X2ZA 2Z8WA 4R1AA 2YIPA 2Q8BA 2LL3A 4UV6A 3HN4A 4Z0DA 5CP9A 5CS5A 1W8KA 1NK1A 2J8LA 4APMA 5COEA 4Z0EA 5EODA 2YIOA 1YXEA 2F83A 2Z8VA 4YIVA 1HKYA 4YIZA 1I8NA 2LL4M 4R1BA 3SP8A 4A5TS 4UAOA 2QJ4A 4R19A 4Z0FA 2YILA 4APLA 2HGFA 2Y8RA 5CT1A 1BHTA 5EOKA 3SRIA 2K13X 2J8JA 1GMNA 5CT2A 3HMTA 2Q8AA 3HMSA 1GP9A 2KL5A 3MKPA 5I25A 1Z40A 2QJ2A 4IUAA 5CS1A 3HMRA 5CT3A 3SRJA 3ZLEA 5CS9A 4DURA 5CSQA
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
 4Z09 A;  1W81 A;  3ZWZ A;  5CS3 A;  4R1C A;  1GMO A;  2X2Z A;  2Z8W A;  4R1A A;  2YIP A;  2Q8B A;  2LL3 A;  4UV6 A;  3HN4 A;  4Z0D A;  5CP9 A;  5CS5 A;  1W8K A;  1NK1 A;  2J8L A;  4APM A;  5COE A;  4Z0E A;  5EOD A;  2YIO A;  1YXE A;  2F83 A;  2Z8V A;  4YIV A;  1HKY A;  4YIZ A;  1I8N A;  2LL4 M;  4R1B A;  3SP8 A;  4A5T S;  4UAO A;  2QJ4 A;  4R19 A;  4Z0F A;  2YIL A;  4APL A;  2HGF A;  2Y8R A;  5CT1 A;  1BHT A;  5EOK A;  3SRI A;  2K13 X;  2J8J A;  1GMN A;  5CT2 A;  3HMT A;  2Q8A A;  3HMS A;  1GP9 A;  2KL5 A;  3MKP A;  5I25 A;  1Z40 A;  2QJ2 A;  4IUA A;  5CS1 A;  3HMR A;  5CT3 A;  3SRJ A;  3ZLE A;  5CS9 A;  4DUR A;  5CSQ A; 
#chains in the Genus database with same CATH homology
 4Z09 A;  1W81 A;  3ZWZ A;  5CS3 A;  4R1C A;  1GMO A;  2X2Z A;  2Z8W A;  4R1A A;  2YIP A;  2Q8B A;  2LL3 A;  4UV6 A;  3HN4 A;  4Z0D A;  5CP9 A;  5CS5 A;  1W8K A;  1NK1 A;  2J8L A;  4APM A;  5COE A;  4Z0E A;  5EOD A;  2YIO A;  1YXE A;  2F83 A;  2Z8V A;  4YIV A;  1HKY A;  4YIZ A;  1I8N A;  2LL4 M;  4R1B A;  3SP8 A;  4A5T S;  4UAO A;  2QJ4 A;  4R19 A;  4Z0F A;  2YIL A;  4APL A;  2HGF A;  2Y8R A;  5CT1 A;  1BHT A;  5EOK A;  3SRI A;  2K13 X;  2J8J A;  1GMN A;  5CT2 A;  3HMT A;  2Q8A A;  3HMS A;  1GP9 A;  2KL5 A;  3MKP A;  5I25 A;  1Z40 A;  2QJ2 A;  4IUA A;  5CS1 A;  3HMR A;  5CT3 A;  3SRJ A;  3ZLE A;  5CS9 A;  4DUR A;  5CSQ 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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