4P5F | Genus

Total Genus 125

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	125
sequence length	367
structure length	355
Chain Sequence	LTPTEAAVLRELRLHRPQLPLDTLLFTDPNKDPDDVVTYTIAKQLQADGFLRLTDVVVTLGDADMRSQRAQLAKGVFDRLALPDVRVARGQDYPMTSTQAREHSKFLAEGAALRAAPDAVHTDGVRAMCERLATSPHKLGMVVIAGMTDASALLAEAGDLVREKVASITIMGGIDPARDADGLVQPDTRAYNNATDIHAARALYRRAQQLGIPLRILTKEAAYKAAVPPAFYEGIARNGHPVGEYLRDVQKNALKGLWEGIQANLIPGLDTAWFFRTFVAGALSFDAIWPQVTKLNLYDPLTLLAALPGTARLLFQPTPMHREGASPVEHVGHAEVVRPEKARLLLSALAKAALV

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

publication title	The crystal structure of type III effector protein XopQ from Xanthomonas oryzae complexed with adenosine diphosphate ribose. pubmed doi rcsb
molecule keywords	Inosine-uridine nucleoside N-ribohydrolase
molecule tags	Hydrolase
source organism	Xanthomonas oryzae pv. oryzae
total genus	125
structure length	355
sequence length	367
chains with identical sequence	B
ec nomenclature
pdb deposition date	2014-03-17

pfam database annotations

chain	Pfam Accession Code	Pfam Family Identifier	Pfam Description
A	PF01156	IU_nuc_hydro	Inosine-uridine preferring nucleoside hydrolase

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

cath code	Class	Architecture	Topology	Homology	Domain
3.90.245.10	Alpha Beta	Alpha-Beta Complex	Inosine-uridine Nucleoside N-ribohydrolase; Chain A	Ribonucleoside hydrolase-like	4p5fA00

3B9GA 1HOZA 4I72A 4KL0A 4I73A 3MKMA 1HP0A 4I70A 4I71A 2MASA 4KPOA 3EPWA 1R4FA 1Q8FA 1KICA 3B9XA 5TSQA 3EPXA 1EZRA 4WR2A 1KIEA 4P5FA 2C40A 4I74A 2FF1A 4KPNA 1MASA 3MKNA 2YHGA 2FF2A 3T8JA 1YOEA 3T8IA 3FZ0A 4I75A 3G5IA
chains in the Genus database with same CATH superfamily

#chains in the Genus database with same CATH superfamily
 3B9G A;  1HOZ A;  4I72 A;  4KL0 A;  4I73 A;  3MKM A;  1HP0 A;  4I70 A;  4I71 A;  2MAS A;  4KPO A;  3EPW A;  1R4F A;  1Q8F A;  1KIC A;  3B9X A;  5TSQ A;  3EPX A;  1EZR A;  4WR2 A;  1KIE A;  4P5F A;  2C40 A;  4I74 A;  2FF1 A;  4KPN A;  1MAS A;  3MKN A;  2YHG A;  2FF2 A;  3T8J A;  1YOE A;  3T8I A;  3FZ0 A;  4I75 A;  3G5I A; 
#chains in the Genus database with same CATH topology
 3B9G A;  1HOZ A;  4I72 A;  4KL0 A;  4I73 A;  3MKM A;  1HP0 A;  4I70 A;  4I71 A;  2MAS A;  4KPO A;  3EPW A;  1R4F A;  1Q8F A;  1KIC A;  3B9X A;  5TSQ A;  3EPX A;  1EZR A;  4WR2 A;  1KIE A;  4P5F A;  2C40 A;  4I74 A;  2FF1 A;  4KPN A;  1MAS A;  3MKN A;  2YHG A;  2FF2 A;  3T8J A;  1YOE A;  3T8I A;  3FZ0 A;  4I75 A;  3G5I A; 
#chains in the Genus database with same CATH homology
 3B9G A;  1HOZ A;  4I72 A;  4KL0 A;  4I73 A;  3MKM A;  1HP0 A;  4I70 A;  4I71 A;  2MAS A;  4KPO A;  3EPW A;  1R4F A;  1Q8F A;  1KIC A;  3B9X A;  5TSQ A;  3EPX A;  1EZR A;  4WR2 A;  1KIE A;  4P5F A;  2C40 A;  4I74 A;  2FF1 A;  4KPN A;  1MAS A;  3MKN A;  2YHG A;  2FF2 A;  3T8J A;  1YOE A;  3T8I A;  3FZ0 A;  4I75 A;  3G5I 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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4P5FA

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations