1S28 | Genus

Total Genus 28

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	28
sequence length	130
structure length	130
Chain Sequence	GAMKNSFDRLIDGLAKDYGMPGFPEKKHEHEVYCFEFKEVSIRIYQDKFKWVYFLSDIGVIDNLDSNACQSLLRLNEFNLRTPFFTVGLNEKKDGVVHTRIPLLNLDNVEMRRVFEALLNLSGEVKKTFG

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 130 atoms

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130 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	Crystal Structures of the Type III Effector Protein AvrPphF and Its Chaperone Reveal Residues Required for Plant Pathogenesis pubmed doi rcsb
molecule keywords	ORF1
molecule tags	Chaperone
source organism	Pseudomonas syringae pv. phaseolicola
total genus	28
structure length	130
sequence length	130
chains with identical sequence	B, C, D
ec nomenclature
pdb deposition date	2004-01-08

pfam database annotations

chain	Pfam Accession Code	Pfam Family Identifier	Pfam Description
A	PF05932	CesT	Tir chaperone protein (CesT) family

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

cath code	Class	Architecture	Topology	Homology	Domain
3.30.1460.10	Alpha Beta	2-Layer Sandwich	Yope Regulator; Chain: A,	Yope Regulator; Chain: A,	1s28A00

3KXYA 4G6TA 2PLGA 2FM8A 1JYOA 1XKPC 2BSJA 1K3EA 1K3SA 2BSHA 1RY9A 1K6ZA 3CXJA 3TU3A 1L2WA 2BSIA 4AKXA 2BHOA 1TTWA 1XKPB 1JYAA 1S28A 4JMFB 1N5BA 4GF3A 2XGAA 3EPUA
chains in the Genus database with same CATH superfamily

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

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

#chains in the Genus database with same CATH superfamily
 3KXY A;  4G6T A;  2PLG A;  2FM8 A;  1JYO A;  1XKP C;  2BSJ A;  1K3E A;  1K3S A;  2BSH A;  1RY9 A;  1K6Z A;  3CXJ A;  3TU3 A;  1L2W A;  2BSI A;  4AKX A;  2BHO A;  1TTW A;  1XKP B;  1JYA A;  1S28 A;  4JMF B;  1N5B A;  4GF3 A;  2XGA A;  3EPU A; 
#chains in the Genus database with same CATH topology
 1K8K D;  2P9K D;  3DXM D;  3KXY A;  1TYQ F;  4G6T A;  2PLG A;  2FM8 A;  4H5B A;  3UKU F;  1JYO A;  1XKP C;  3ULE F;  2KC5 A;  2P9L D;  2P9S F;  3UKR D;  1U2V F;  2P9K F;  2BSJ A;  2P9I F;  2LPU A;  1K8K F;  2P9N D;  3DWL D;  3DXK D;  3DXM F;  1K3E A;  1K3S A;  2BSH A;  2P9U D;  4GSL C;  2P9I D;  4XEI D;  4JD2 D;  2P9L F;  3UKR F;  1RY9 A;  3DWL F;  1K6Z A;  2P9N F;  3DXK F;  3EPU A;  2OD0 A;  3CXJ A;  3RSE D;  3TU3 A;  2P9P D;  1L2W A;  2BSI A;  2P9U F;  3VX8 B;  4AKX A;  2BHO A;  1TTW A;  4XEI F;  4JD2 F;  1XKP B;  1JYA A;  2DYT A;  1S28 A;  1TYQ D;  3VX7 B;  4JMF B;  3RSE F;  3UKU D;  1N5B A;  4EBR A;  4GF3 A;  2P9P F;  2XGA A;  3ULE D;  2P9S D;  1U2V D;  2MQD A; 
#chains in the Genus database with same CATH homology
 1K8K D;  2P9K D;  3DXM D;  3KXY A;  1TYQ F;  4G6T A;  2PLG A;  2FM8 A;  4H5B A;  3UKU F;  1JYO A;  1XKP C;  3ULE F;  2KC5 A;  2P9L D;  2P9S F;  3UKR D;  1U2V F;  2P9K F;  2BSJ A;  2P9I F;  2LPU A;  1K8K F;  2P9N D;  3DWL D;  3DXK D;  3DXM F;  1K3E A;  1K3S A;  2BSH A;  2P9U D;  4GSL C;  2P9I D;  4XEI D;  4JD2 D;  2P9L F;  3UKR F;  1RY9 A;  3DWL F;  1K6Z A;  2P9N F;  3DXK F;  3EPU A;  3RSE D;  3CXJ A;  3TU3 A;  2P9P D;  1L2W A;  2BSI A;  2P9U F;  3VX8 B;  4AKX A;  2BHO A;  1TTW A;  4XEI F;  4JD2 F;  1XKP B;  1JYA A;  2DYT A;  1S28 A;  1TYQ D;  3VX7 B;  4JMF B;  3RSE F;  3UKU D;  1N5B A;  4EBR A;  4GF3 A;  2P9P F;  2XGA A;  3ULE D;  2P9S D;  1U2V D;  2MQD 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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1S28A

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations