1OOPD

The crystal structure of swine vesicular disease virus
Total Genus 4
5101520253035404500.511.522.533.54
Genus TraceResidueGenus

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
4
sequence length
68
structure length
58
Chain Sequence
GAQVSTQKTGAHEIHYTNINYYKDAASNSANRQDFTQDPGKFTEPVKDIMVKSMPALN

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
EMPTYTIV1 (11-14)3H1 (36-38)TI1 (42-45)Updating...
connected with : NaN
molecule tags Virus
publication title Crystal Structure of Swine Vesicular Disease Virus and Implications for Host Adaptation
pubmed doi rcsb
molecule keywords Coat protein VP1
total genus 4
structure length 58
sequence length 68
ec nomenclature ec 2.7.7.48: RNA-directed RNA polymerase.
pdb deposition date 2003-03-04

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 1oopD00
2RM24 1COV4 1RUI4 2RR14 4Q4Y4 1HRV4 1HXS4 3J8F4 1BEV4 1NCQD 1VRH4 2X5ID 4Q4W4 2R074 4Q4X4 1VBC4 4RHV4 4PDWD 1ASJ4 1VBE4 1AL24 1RUH4 1VBA4 2R064 1OOPD 2R044 1AR64 2PLV4 1AR84 1EAH4 1EV14 2RMU4 1D4M4 1HRI4 4GB34 2HWC4 1K5MD 1VBD4 2RS54 3JD74 2RS14 1RUC4 1VBB4 1Z7S4 1RUF4 1MQTD 1NA1D 1POV0 1PIV4 1PO24 1RHI4 1AR94 3JBG4 2HWB4 1RUG4 1R094 4Q4V4 1AR74 1H8TD 1RMU4 1RUD4 1PVC4 1PO14 1RVF4 1RUE4 2RS34 1RUJ4 1R084
chains in the Genus database with same CATH superfamily
3AE7A 2RM24 2PY5A 4Q4Y4 2RR14 3SFEA 3AE8A 1BEV4 1VRH4 1NEKA 3AE5A 4PDWD 2WU2A 3AEEA 2PW9A 3P4QA 4YSZA 3VR8A 1AR64 2WP9A 1EAH4 1NENA 2RS14 1XHXA 1RUC4 1VBB4 1RUF4 2B76A 2H88A 3P4SA 1ZP0A 1AR94 2PYJA 2EX3A 2WDQA 4YTNA 3AE4A 1RVF4 2RS34 1RUJ4 2ACZA 1YQ3A 3AEDA 1HRV4 3SUCA 1KFYA 4RHV4 1VBE4 1AL24 2R064 2FBWA 3AE3A 1YQ4A 2PLV4 2R7FA 3AECA 1XI1A 2WS3A 1HRI4 4GB34 3AE9A 2WQYA 3JD74 2WDVA 4YTPA 1Z7S4 1MQTD 1NA1D 1PO24 4YT0A 3JBG4 1AR74 1RMU4 1RUE4 2PZSA 1R084 3SFDA 3GQKA 1RUI4 3AE2A 4Q4W4 2X5ID 1VBC4 1ASJ4 1VBA4 3CIRA 3GQHA 2R044 1AR84 1EV14 4YSYA 1K5MD 3AEBA 1KF6A 1ZOYA 1PIV4 2HWB4 5C3JA 3VRAA 1H8TD 3AE6A 1RUH4 4Q4X4 4YTMA 5C2TA 1COV4 1L0VA 3P4PA 1HXS4 1NCQD 2R074 1XHZA 3AEAA 2WDRA 1OOPD 3ABVA 3FI7A 3AEGA 4YXDA 3P4RA 2RMU4 1D4M4 2HWC4 1VBD4 2RS54 3AE1A 3VRBA 2PYLA 1POV0 1RHI4 4YSXA 1RUG4 2WU5A 1R094 3AEFA 2H89A 4KX6A 4Q4V4 1RUD4 1PVC4 1PO14 3J8F4 3VR9A
chains in the Genus database with same CATH topology
2RM24 1COV4 1RUI4 2RR14 4Q4Y4 1HRV4 1HXS4 3J8F4 1BEV4 1NCQD 1VRH4 2X5ID 4Q4W4 2R074 4Q4X4 1VBC4 4RHV4 4PDWD 1ASJ4 1VBE4 1AL24 1RUH4 1VBA4 2R064 1OOPD 2R044 1AR64 2PLV4 1AR84 1EAH4 1EV14 2RMU4 1D4M4 1HRI4 4GB34 2HWC4 1K5MD 1VBD4 2RS54 3JD74 2RS14 1RUC4 1VBB4 1Z7S4 1RUF4 1MQTD 1NA1D 1POV0 1PIV4 1PO24 1RHI4 1AR94 3JBG4 2HWB4 1RUG4 1R094 4Q4V4 1AR74 1H8TD 1RMU4 1RUD4 1PVC4 1PO14 1RVF4 1RUE4 2RS34 1RUJ4 1R084
chains in the Genus database with same CATH homology


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