2Q3U | Genus

Total Genus 111

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	111
sequence length	372
structure length	365
Chain Sequence	RESPAEHGYYMPAEWDSHAQTWIGWPERQDNWRHNALPAQRVFAGVAKAISKFEPVTVCASPAQWENARKQLPEDIRVVEMSMNDSWFRDSGPTFIVRKRNRNIAGIDWNFNAWGGANDGCYNDWSHDLLVSRKILALERIPRFQHSMILEGGSIHVDGEGTCLVTEECLLNKNRNPHMSKEQIEEELKKYLGVQSFIWLPRGLYGDEDTNGHIDNMCCFARPGVVLLSWTDDETDPQYERSVEALSVLSNSIDARGRKIQVIKLYIPEPLYMTEEESSGITQDGEAIPRLAGTRLAASYVNFYIANGGIIAPQFGDPIRDKEAIRVLSDTFPHHSVVGIENAREIVLAGGNIHCITQQQPAEPT

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

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After clicking on a point (x,y) in the genus matrix above, a subchain from x to y is shown in color.

Genus data interpretation

Chord Diagram

molecule tags	Hydrolase
source organism	Arabidopsis thaliana
publication title	Ensemble refinement of protein crystal structures: validation and application. pubmed doi rcsb
molecule keywords	Agmatine deiminase
total genus	111
structure length	365
sequence length	372
chains with identical sequence	B
ec nomenclature	ec 3.5.3.12: Agmatine deiminase.
pdb deposition date	2007-05-30

pfam database annotations

chain	Pfam Accession Code	Pfam Family Identifier	Pfam Description
A	PF04371	PAD_porph	Porphyromonas-type peptidyl-arginine deiminase

Image from the rcsb pdb (www.rcsb.org)

cath code	Class	Architecture	Topology	Homology	Domain
3.75.10.10	Alpha Beta	5-stranded Propeller	L-arginine/glycine Amidinotransferase; Chain A	L-arginine/glycine Amidinotransferase; Chain A	2q3uA00

2ACIA 4N2KA 4N2MA 7JDWA 2CI5A 9JDWA 1H70A 4N2LA 3I4AA 2C6ZA 4DKTA 4N2NA 3APMA 2JAJA 2DEXX 6JDWA 1WD8A 5JDWA 1G61A 2JERA 3RHYA 3P8PA 3P8EA 1JDXA 2ABRA 4N2GA 1JDWA 3H7CX 3JDWA 4N25A 1G62A 4N20A 2DEWX 2JAIA 4X8CA 4E4JA 5AK7A 3H7KA 1RXXA 3B1UA 5AK8A 4N2DA 2CI7A 2CI1A 4N2FA 2JDWA 1BWDA 4N22A 4N28A 4YTBA 1LXYA 5M3QA 2EWOA 1WDAA 3HVMA 3APNA 4X8GA 1ZBRA 4N2BA 4N2IA 8JDWA 2AAFA 5HP5A 2DW5A 4N2AA 3BPBA 4N24A 4N2EA 1WD9A 4N2CA 4N26A 4YT9A 2Q3UA 1XKNA 4BOFA 4N2HA 2CI3A 4YTGA 1S9RA 5AN9I 2DEYX 2CMUA 2CI4A 1VKPA 3B1TA 3I2EA 2A9GA 4JDWA 2JDXA 2CI6A
chains in the Genus database with same CATH superfamily

1YNFA 2ACIA 4N2KA 4N2MA 7JDWA 2CI5A 9JDWA 1H70A 4N2LA 3I4AA 2C6ZA 4DKTA 4N2NA 3APMA 2JAJA 2DEXX 6JDWA 1WD8A 5JDWA 1G61A 2JERA 3RHYA 3P8PA 3P8EA 1JDXA 2ABRA 4N2GA 1JDWA 3H7CX 3JDWA 4N25A 1G62A 4N20A 2DEWX 2JAIA 4X8CA 4E4JA 5AK7A 3H7KA 1RXXA 3B1UA 5AK8A 4N2DA 2CI7A 2CI1A 4N2FA 2JDWA 1BWDA 4N22A 4N28A 4YTBA 1LXYA 5M3QA 2EWOA 1WDAA 3HVMA 3APNA 4X8GA 1ZBRA 4N2BA 4N2IA 8JDWA 2AAFA 5HP5A 2DW5A 4N2AA 3BPBA 4N24A 4N2EA 1WD9A 1YNIA 4N2CA 4N26A 4YT9A 2Q3UA 1XKNA 4BOFA 4N2HA 2CI3A 4YTGA 1S9RA 1YNHA 5AN9I 2DEYX 2CMUA 2CI4A 1VKPA 3B1TA 3I2EA 2A9GA 4JDWA 2JDXA 2CI6A
chains in the Genus database with same CATH topology

#chains in the Genus database with same CATH superfamily
 2ACI A;  4N2K A;  4N2M A;  7JDW A;  2CI5 A;  9JDW A;  1H70 A;  4N2L A;  3I4A A;  2C6Z A;  4DKT A;  4N2N A;  3APM A;  2JAJ A;  2DEX X;  6JDW A;  1WD8 A;  5JDW A;  1G61 A;  2JER A;  3RHY A;  3P8P A;  3P8E A;  1JDX A;  2ABR A;  4N2G A;  1JDW A;  3H7C X;  3JDW A;  4N25 A;  1G62 A;  4N20 A;  2DEW X;  2JAI A;  4X8C A;  4E4J A;  5AK7 A;  3H7K A;  1RXX A;  3B1U A;  5AK8 A;  4N2D A;  2CI7 A;  2CI1 A;  4N2F A;  2JDW A;  1BWD A;  4N22 A;  4N28 A;  4YTB A;  1LXY A;  5M3Q A;  2EWO A;  1WDA A;  3HVM A;  3APN A;  4X8G A;  1ZBR A;  4N2B A;  4N2I A;  8JDW A;  2AAF A;  5HP5 A;  2DW5 A;  4N2A A;  3BPB A;  4N24 A;  4N2E A;  1WD9 A;  4N2C A;  4N26 A;  4YT9 A;  2Q3U A;  1XKN A;  4BOF A;  4N2H A;  2CI3 A;  4YTG A;  1S9R A;  5AN9 I;  2DEY X;  2CMU A;  2CI4 A;  1VKP A;  3B1T A;  3I2E A;  2A9G A;  4JDW A;  2JDX A;  2CI6 A; 
#chains in the Genus database with same CATH topology
 1YNF A;  2ACI A;  4N2K A;  4N2M A;  7JDW A;  2CI5 A;  9JDW A;  1H70 A;  4N2L A;  3I4A A;  2C6Z A;  4DKT A;  4N2N A;  3APM A;  2JAJ A;  2DEX X;  6JDW A;  1WD8 A;  5JDW A;  1G61 A;  2JER A;  3RHY A;  3P8P A;  3P8E A;  1JDX A;  2ABR A;  4N2G A;  1JDW A;  3H7C X;  3JDW A;  4N25 A;  1G62 A;  4N20 A;  2DEW X;  2JAI A;  4X8C A;  4E4J A;  5AK7 A;  3H7K A;  1RXX A;  3B1U A;  5AK8 A;  4N2D A;  2CI7 A;  2CI1 A;  4N2F A;  2JDW A;  1BWD A;  4N22 A;  4N28 A;  4YTB A;  1LXY A;  5M3Q A;  2EWO A;  1WDA A;  3HVM A;  3APN A;  4X8G A;  1ZBR A;  4N2B A;  4N2I A;  8JDW A;  2AAF A;  5HP5 A;  2DW5 A;  4N2A A;  3BPB A;  4N24 A;  4N2E A;  1WD9 A;  1YNI A;  4N2C A;  4N26 A;  4YT9 A;  2Q3U A;  1XKN A;  4BOF A;  4N2H A;  2CI3 A;  4YTG A;  1S9R A;  1YNH A;  5AN9 I;  2DEY X;  2CMU A;  2CI4 A;  1VKP A;  3B1T A;  3I2E A;  2A9G A;  4JDW A;  2JDX A;  2CI6 A; 
#chains in the Genus database with same CATH homology
 2ACI A;  4N2K A;  4N2M A;  7JDW A;  2CI5 A;  9JDW A;  1H70 A;  4N2L A;  3I4A A;  2C6Z A;  4DKT A;  4N2N A;  3APM A;  2JAJ A;  2DEX X;  6JDW A;  1WD8 A;  5JDW A;  1G61 A;  2JER A;  3RHY A;  3P8P A;  3P8E A;  1JDX A;  2ABR A;  4N2G A;  1JDW A;  3H7C X;  3JDW A;  4N25 A;  1G62 A;  4N20 A;  2DEW X;  2JAI A;  4X8C A;  4E4J A;  5AK7 A;  3H7K A;  1RXX A;  3B1U A;  5AK8 A;  4N2D A;  2CI7 A;  2CI1 A;  4N2F A;  2JDW A;  1BWD A;  4N22 A;  4N28 A;  4YTB A;  1LXY A;  5M3Q A;  2EWO A;  1WDA A;  3HVM A;  3APN A;  4X8G A;  1ZBR A;  4N2B A;  4N2I A;  8JDW A;  2AAF A;  5HP5 A;  2DW5 A;  4N2A A;  3BPB A;  4N24 A;  4N2E A;  1WD9 A;  4N2C A;  4N26 A;  4YT9 A;  2Q3U A;  1XKN A;  4BOF A;  4N2H A;  2CI3 A;  4YTG A;  1S9R A;  5AN9 I;  2DEY X;  2CMU A;  2CI4 A;  1VKP A;  3B1T A;  3I2E A;  2A9G A;  4JDW A;  2JDX A;  2CI6 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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2Q3UA

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations