4PDWD

A benzonitrile analogue inhibits rhinovirus replication
Total Genus 2
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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
2
sequence length
41
structure length
41
Chain Sequence
VINYYKDAASTSSAGQSLSMDPSKFTEPVKDLMLKGAPALN
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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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molecule tags Virus
publication title A novel benzonitrile analogue inhibits rhinovirus replication.
pubmed doi rcsb
molecule keywords Genome polyprotein
total genus 2
structure length 41
sequence length 41
ec nomenclature
pdb deposition date 2014-04-22

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
D PF02226 Pico_P1A Picornavirus coat protein (VP4)
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
4.10.80.10 Few Secondary Structures Irregular Rhinovirus 14, subunit 4 Picornavirus coat protein VP4 4pdwD00
2RS34 1RMU4 1RUF4 1RUC4 1AL24 1PIV4 1VBC4 2R074 2R044 2RR14 3J8F4 1MQTD 1RUD4 1RVF4 3JBG4 1VBB4 4PDWD 1VBA4 1H8TD 1PO14 1RHI4 1AR64 4Q4Y4 1RUI4 1EV14 1EAH4 2R064 1AR74 1R094 1POV0 1AR94 1RUJ4 1HRV4 2RMU4 4Q4X4 4Q4W4 1COV4 1OOPD 1HRI4 1RUE4 1RUH4 2RM24 1PO24 1R084 2RS54 4GB34 2RS14 4RHV4 2HWC4 1K5MD 4Q4V4 1NCQD 1PVC4 2HWB4 3JD74 1BEV4 1ASJ4 2PLV4 2X5ID 1VBE4 1Z7S4 1AR84 1RUG4 1VBD4 1D4M4 1NA1D 1HXS4 1VRH4
chains in the Genus database with same CATH superfamily
1RUC4 1PIV4 1VBC4 2R074 4YSXA 1NENA 3FI7A 4PDWD 3P4PA 4Q4Y4 1RUI4 1EAH4 1POV0 3AECA 1COV4 1ZP0A 1RUE4 1HRI4 5C3JA 2RS14 4Q4V4 2PLV4 2X5ID 3P4QA 1AR84 1RUG4 1XHZA 3CIRA 2PW9A 2FBWA 3AEBA 1XHXA 1VRH4 2WS3A 1AL24 4YXDA 3ABVA 3JBG4 1YQ4A 3AE2A 1VBB4 2H89A 3VR9A 2PZSA 3AEGA 1H8TD 3SFDA 1L0VA 1R094 1AR94 1HRV4 1KFYA 3AEFA 4Q4W4 1OOPD 2RM24 2RS54 1RUH4 2WU2A 2EX3A 2WU5A 2WP9A 3AEDA 4RHV4 1K5MD 2ACZA 1BEV4 1VBD4 3AE8A 3VRAA 1D4M4 3AE5A 1RUF4 1KF6A 2B76A 2H88A 1ZOYA 4YSYA 3VR8A 1RUD4 1RVF4 3P4RA 1VBA4 2WQYA 1AR64 1EV14 4Q4X4 5C2TA 4YTPA 3SFEA 2WDVA 1PO24 2HWC4 3AE7A 2HWB4 1ASJ4 1Z7S4 3AE9A 2PYJA 2PY5A 3AE1A 1XI1A 3VRBA 3AEAA 1YQ3A 4KX6A 1NA1D 3AE3A 4YT0A 2RS34 1RMU4 3GQKA 4YTMA 2PYLA 3P4SA 3SUCA 2R044 2RR14 3J8F4 1MQTD 4YSZA 2R7FA 1NEKA 1PO14 1RHI4 2R064 3AEEA 1AR74 1RUJ4 2RMU4 4YTNA 4GB34 1R084 3AE6A 1NCQD 3GQHA 1PVC4 3JD74 1VBE4 2WDRA 3AE4A 1HXS4 2WDQA
chains in the Genus database with same CATH topology
2RS34 1RMU4 1RUF4 1RUC4 1AL24 1PIV4 1VBC4 2R074 2R044 2RR14 3J8F4 1MQTD 1RUD4 1RVF4 3JBG4 1VBB4 4PDWD 1VBA4 1H8TD 1PO14 1RHI4 1AR64 4Q4Y4 1RUI4 1EV14 1EAH4 2R064 1AR74 1R094 1POV0 1AR94 1RUJ4 1HRV4 2RMU4 4Q4X4 4Q4W4 1COV4 1OOPD 1HRI4 1RUE4 1RUH4 2RM24 1PO24 1R084 2RS54 4GB34 2RS14 4RHV4 2HWC4 1K5MD 4Q4V4 1NCQD 1PVC4 2HWB4 3JD74 1BEV4 1ASJ4 2PLV4 2X5ID 1VBE4 1Z7S4 1AR84 1RUG4 1VBD4 1D4M4 1NA1D 1HXS4 1VRH4
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 2RS3 4;  1RMU 4;  1RUF 4;  1RUC 4;  1AL2 4;  1PIV 4;  1VBC 4;  2R07 4;  2R04 4;  2RR1 4;  3J8F 4;  1MQT D;  1RUD 4;  1RVF 4;  3JBG 4;  1VBB 4;  4PDW D;  1VBA 4;  1H8T D;  1PO1 4;  1RHI 4;  1AR6 4;  4Q4Y 4;  1RUI 4;  1EV1 4;  1EAH 4;  2R06 4;  1AR7 4;  1R09 4;  1POV 0;  1AR9 4;  1RUJ 4;  1HRV 4;  2RMU 4;  4Q4X 4;  4Q4W 4;  1COV 4;  1OOP D;  1HRI 4;  1RUE 4;  1RUH 4;  2RM2 4;  1PO2 4;  1R08 4;  2RS5 4;  4GB3 4;  2RS1 4;  4RHV 4;  2HWC 4;  1K5M D;  4Q4V 4;  1NCQ D;  1PVC 4;  2HWB 4;  3JD7 4;  1BEV 4;  1ASJ 4;  2PLV 4;  2X5I D;  1VBE 4;  1Z7S 4;  1AR8 4;  1RUG 4;  1VBD 4;  1D4M 4;  1NA1 D;  1HXS 4;  1VRH 4; 
#chains in the Genus database with same CATH topology
 1RUC 4;  1PIV 4;  1VBC 4;  2R07 4;  4YSX A;  1NEN A;  3FI7 A;  4PDW D;  3P4P A;  4Q4Y 4;  1RUI 4;  1EAH 4;  1POV 0;  3AEC A;  1COV 4;  1ZP0 A;  1RUE 4;  1HRI 4;  5C3J A;  2RS1 4;  4Q4V 4;  2PLV 4;  2X5I D;  3P4Q A;  1AR8 4;  1RUG 4;  1XHZ A;  3CIR A;  2PW9 A;  2FBW A;  3AEB A;  1XHX A;  1VRH 4;  2WS3 A;  1AL2 4;  4YXD A;  3ABV A;  3JBG 4;  1YQ4 A;  3AE2 A;  1VBB 4;  2H89 A;  3VR9 A;  2PZS A;  3AEG A;  1H8T D;  3SFD A;  1L0V A;  1R09 4;  1AR9 4;  1HRV 4;  1KFY A;  3AEF A;  4Q4W 4;  1OOP D;  2RM2 4;  2RS5 4;  1RUH 4;  2WU2 A;  2EX3 A;  2WU5 A;  2WP9 A;  3AED A;  4RHV 4;  1K5M D;  2ACZ A;  1BEV 4;  1VBD 4;  3AE8 A;  3VRA A;  1D4M 4;  3AE5 A;  1RUF 4;  1KF6 A;  2B76 A;  2H88 A;  1ZOY A;  4YSY A;  3VR8 A;  1RUD 4;  1RVF 4;  3P4R A;  1VBA 4;  2WQY A;  1AR6 4;  1EV1 4;  4Q4X 4;  5C2T A;  4YTP A;  3SFE A;  2WDV A;  1PO2 4;  2HWC 4;  3AE7 A;  2HWB 4;  1ASJ 4;  1Z7S 4;  3AE9 A;  2PYJ A;  2PY5 A;  3AE1 A;  1XI1 A;  3VRB A;  3AEA A;  1YQ3 A;  4KX6 A;  1NA1 D;  3AE3 A;  4YT0 A;  2RS3 4;  1RMU 4;  3GQK A;  4YTM A;  2PYL A;  3P4S A;  3SUC A;  2R04 4;  2RR1 4;  3J8F 4;  1MQT D;  4YSZ A;  2R7F A;  1NEK A;  1PO1 4;  1RHI 4;  2R06 4;  3AEE A;  1AR7 4;  1RUJ 4;  2RMU 4;  4YTN A;  4GB3 4;  1R08 4;  3AE6 A;  1NCQ D;  3GQH A;  1PVC 4;  3JD7 4;  1VBE 4;  2WDR A;  3AE4 A;  1HXS 4;  2WDQ A; 
#chains in the Genus database with same CATH homology
 2RS3 4;  1RMU 4;  1RUF 4;  1RUC 4;  1AL2 4;  1PIV 4;  1VBC 4;  2R07 4;  2R04 4;  2RR1 4;  3J8F 4;  1MQT D;  1RUD 4;  1RVF 4;  3JBG 4;  1VBB 4;  4PDW D;  1VBA 4;  1H8T D;  1PO1 4;  1RHI 4;  1AR6 4;  4Q4Y 4;  1RUI 4;  1EV1 4;  1EAH 4;  2R06 4;  1AR7 4;  1R09 4;  1POV 0;  1AR9 4;  1RUJ 4;  1HRV 4;  2RMU 4;  4Q4X 4;  4Q4W 4;  1COV 4;  1OOP D;  1HRI 4;  1RUE 4;  1RUH 4;  2RM2 4;  1PO2 4;  1R08 4;  2RS5 4;  4GB3 4;  2RS1 4;  4RHV 4;  2HWC 4;  1K5M D;  4Q4V 4;  1NCQ D;  1PVC 4;  2HWB 4;  3JD7 4;  1BEV 4;  1ASJ 4;  2PLV 4;  2X5I D;  1VBE 4;  1Z7S 4;  1AR8 4;  1RUG 4;  1VBD 4;  1D4M 4;  1NA1 D;  1HXS 4;  1VRH 4; 
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similar chains in the Genus database (?% sequence similarity)
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similar chains in the pdb database (?% sequence similarity)

 
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#similar chains, but unknotted
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