3VX8 | Genus

Total Genus 44

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	44
sequence length	282
structure length	175
Chain Sequence	PHMAFKEKGVLSVSEFVLAGDNLVSKCPTWSWESGDASKRKPYLPSDKQFLITRNVPCLRRAASLRTRTYDLSITYDKYYQTPRVWLTGYDESRMLLQPELVMEDVSQDTVTIEDHPHLPGKHASVHPCRHGAVMKKIIDVLMSRGVEPEVDKYLFLFLKFMASVIPTIEYDYTM

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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reading 175 atoms

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175 atoms created

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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	Non-canonical recognition and ambiguous Ubl-loading of two distinct E2s by autophagy-essential E1, Atg7 rcsb
molecule keywords	Ubiquitin-like modifier-activating enzyme atg7
molecule tags	Ligase
source organism	Arabidopsis thaliana
total genus	44
structure length	175
sequence length	282
chains with identical sequence	C
ec nomenclature
pdb deposition date	2012-09-11

pfam database annotations

chain	Pfam Accession Code	Pfam Family Identifier	Pfam Description
B	PF03987	Autophagy_act_C	Autophagocytosis associated protein, active-site domain
B	PF10381	Autophagy_C	Autophagocytosis associated protein C-terminal

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

cath code	Class	Architecture	Topology	Homology	Domain
3.30.1460.50	Alpha Beta	2-Layer Sandwich	Yope Regulator; Chain: A,	Yope Regulator; Chain: A,	3vx8B00

3VX7B 3VX8B 4GSLC 2LPUA 2DYTA 4EBRA
chains in the Genus database with same CATH superfamily

2P9KF 3DWLD 3DWLF 1S28A 2P9KD 1JYAA 3DXKD 3DXKF 2P9PD 1N5BA 2P9UF 2P9PF 2P9UD 3DXMF 3DXMD 3KXYA 4GF3A 1K8KF 1K8KD 1K6ZA 3ULED 3RSED 3CXJA 3RSEF 3ULEF 2P9SD 2P9SF 4GSLC 2P9IF 2P9ID 3UKUD 4JMFB 4AKXA 2DYTA 4G6TA 1RY9A 2OD0A 2BSJA 2MQDA 3UKUF 4H5BA 3VX8B 1K3EA 3UKRF 2BSIA 1L2WA 4JD2D 4JD2F 3UKRD 4EBRA 1JYOA 2P9LF 2FM8A 1TTWA 2P9LD 4XEID 4XEIF 3VX7B 3EPUA 2PLGA 2P9ND 2P9NF 2BSHA 1TYQF 1XKPC 2LPUA 1U2VF 1U2VD 2BHOA 1XKPB 1TYQD 3TU3A 1K3SA 2XGAA 2KC5A
chains in the Genus database with same CATH topology

2P9KF 3DWLD 3DWLF 1S28A 2P9KD 1JYAA 3DXKD 3DXKF 2P9PD 1N5BA 2P9UF 2P9PF 2P9UD 3DXMF 3DXMD 3KXYA 4GF3A 1K8KF 1K8KD 1K6ZA 3ULED 3RSED 3CXJA 3RSEF 3ULEF 2P9SD 2P9SF 4GSLC 2P9IF 2P9ID 3UKUD 4JMFB 4AKXA 2DYTA 4G6TA 1RY9A 2BSJA 2MQDA 3UKUF 4H5BA 3VX8B 1K3EA 3UKRF 2BSIA 1L2WA 4JD2D 4JD2F 3UKRD 4EBRA 1JYOA 2P9LF 2FM8A 1TTWA 2P9LD 4XEID 4XEIF 3VX7B 3EPUA 2PLGA 2P9ND 2P9NF 2BSHA 1TYQF 1XKPC 2LPUA 1U2VF 1U2VD 2BHOA 1XKPB 1TYQD 3TU3A 1K3SA 2XGAA 2KC5A
chains in the Genus database with same CATH homology

#chains in the Genus database with same CATH superfamily
 3VX7 B;  3VX8 B;  4GSL C;  2LPU A;  2DYT A;  4EBR A; 
#chains in the Genus database with same CATH topology
 2P9K F;  3DWL D;  3DWL F;  1S28 A;  2P9K D;  1JYA A;  3DXK D;  3DXK F;  2P9P D;  1N5B A;  2P9U F;  2P9P F;  2P9U D;  3DXM F;  3DXM D;  3KXY A;  4GF3 A;  1K8K F;  1K8K D;  1K6Z A;  3ULE D;  3RSE D;  3CXJ A;  3RSE F;  3ULE F;  2P9S D;  2P9S F;  4GSL C;  2P9I F;  2P9I D;  3UKU D;  4JMF B;  4AKX A;  2DYT A;  4G6T A;  1RY9 A;  2OD0 A;  2BSJ A;  2MQD A;  3UKU F;  4H5B A;  3VX8 B;  1K3E A;  3UKR F;  2BSI A;  1L2W A;  4JD2 D;  4JD2 F;  3UKR D;  4EBR A;  1JYO A;  2P9L F;  2FM8 A;  1TTW A;  2P9L D;  4XEI D;  4XEI F;  3VX7 B;  3EPU A;  2PLG A;  2P9N D;  2P9N F;  2BSH A;  1TYQ F;  1XKP C;  2LPU A;  1U2V F;  1U2V D;  2BHO A;  1XKP B;  1TYQ D;  3TU3 A;  1K3S A;  2XGA A;  2KC5 A; 
#chains in the Genus database with same CATH homology
 2P9K F;  3DWL D;  3DWL F;  1S28 A;  2P9K D;  1JYA A;  3DXK D;  3DXK F;  2P9P D;  1N5B A;  2P9U F;  2P9P F;  2P9U D;  3DXM F;  3DXM D;  3KXY A;  4GF3 A;  1K8K F;  1K8K D;  1K6Z A;  3ULE D;  3RSE D;  3CXJ A;  3RSE F;  3ULE F;  2P9S D;  2P9S F;  4GSL C;  2P9I F;  2P9I D;  3UKU D;  4JMF B;  4AKX A;  2DYT A;  4G6T A;  1RY9 A;  2BSJ A;  2MQD A;  3UKU F;  4H5B A;  3VX8 B;  1K3E A;  3UKR F;  2BSI A;  1L2W A;  4JD2 D;  4JD2 F;  3UKR D;  4EBR A;  1JYO A;  2P9L F;  2FM8 A;  1TTW A;  2P9L D;  4XEI D;  4XEI F;  3VX7 B;  3EPU A;  2PLG A;  2P9N D;  2P9N F;  2BSH A;  1TYQ F;  1XKP C;  2LPU A;  1U2V F;  1U2V D;  2BHO A;  1XKP B;  1TYQ D;  3TU3 A;  1K3S A;  2XGA A;  2KC5 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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3VX8B

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations