3KICA

Crystal structure of adeno-associated virus serotype 3b
Total Genus 71
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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
71
sequence length
520
structure length
520
Chain Sequence
GADGVGNSSGNWHCDSQWLGDRVITTSTRTWALPTYNNHLYKQISSQSGASNDNHYFGYSTPWGYFDFNRFHCHFSPRDWQRLINNNWGFRPKKLSFKLFNIQVKEVTQNDGTTTIANNLTSTVQVFTDSEYQLPYVLGSAHQGCLPPFPADVFMVPQYGYLTLNNGSQAVGRSSFYCLEYFPSQMLRTGNNFQFSYTFEDVPFHSSYAHSQSLDRLMNPLIDQYLYYLNRTQGTTSGTTNQSRLLFSQAGPQSMSLQARNWLPGPCYRQQRLSKTANDNNNSNFPWTAASKYHLNGRDSLVNPGPAMASHKDDEEKFFPMHGNLIFGKEGTTASNAELDNVMITDEEEIRTTNPVATEQYGTVANNLQSSNTAPTTRTVNDQGALPGMVWQDRDVYLQGPIWAKIPHTDGHFHPSPLMGGFGLKHPPPQIMIKNTPVPANPPTTFSPAKFASFITQYSTGQVSVEIEWELQKENSKRWNPEIQYTSNYNKSVNVDFTVDTNGVYSEPRPIGTRYLTRNL
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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
molecule keywords Capsid protein VP1
publication title The structure of adeno-associated virus serotype 3B (AAV-3B): insights into receptor binding and immune evasion.
pubmed doi rcsb
source organism Adeno-associated virus 3b
total genus 71
structure length 520
sequence length 520
chains with identical sequence B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R, S, T
ec nomenclature
pdb deposition date 2009-11-01

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF00740 Parvo_coat Parvovirus coat protein VP2
A PF08398 Parvo_coat_N Parvovirus coat protein VP1
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
2.170.30.10 Mainly Beta Beta Complex Empty Capsid Viral Protein 2 Parvovirus coat protein VP1/VP2 3kicA00
2QA0A 3RA4A 2CASA 3RA9A 4IOVA 1IJSP 2G8GA 1C8DA 5EGCA 3RA8A 3RAAA 1LP3A 4GBTA 4RSOA 3SHMA 3NTTA 1C8HA 3NG9A 1P5WA 4DPVZ 1MVMA 3UX1A 3OAHA 3RA2A 3KIEA 1S58A 1K3VA 1C8EA 4QC8A 1Z1CA 1FPVA 1P5YA 4G0RA 1Z14A 3KICA 1C8GA 1C8FA
chains in the Genus database with same CATH superfamily
2QA0A 3RA4A 2CASA 3RA9A 4IOVA 1IJSP 2G8GA 1C8DA 5EGCA 3RA8A 3RAAA 1LP3A 4GBTA 4RSOA 3SHMA 3NTTA 1C8HA 3NG9A 1P5WA 4DPVZ 1MVMA 3UX1A 3OAHA 3RA2A 3KIEA 1S58A 1K3VA 1C8EA 4QC8A 1Z1CA 1FPVA 1P5YA 4G0RA 1Z14A 3KICA 1C8GA 1C8FA
chains in the Genus database with same CATH topology
2QA0A 3RA4A 2CASA 3RA9A 4IOVA 1IJSP 2G8GA 1C8DA 5EGCA 3RA8A 3RAAA 1LP3A 4GBTA 4RSOA 3SHMA 3NTTA 1C8HA 3NG9A 1P5WA 4DPVZ 1MVMA 3UX1A 3OAHA 3RA2A 3KIEA 1S58A 1K3VA 1C8EA 4QC8A 1Z1CA 1FPVA 1P5YA 4G0RA 1Z14A 3KICA 1C8GA 1C8FA
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 2QA0 A;  3RA4 A;  2CAS A;  3RA9 A;  4IOV A;  1IJS P;  2G8G A;  1C8D A;  5EGC A;  3RA8 A;  3RAA A;  1LP3 A;  4GBT A;  4RSO A;  3SHM A;  3NTT A;  1C8H A;  3NG9 A;  1P5W A;  4DPV Z;  1MVM A;  3UX1 A;  3OAH A;  3RA2 A;  3KIE A;  1S58 A;  1K3V A;  1C8E A;  4QC8 A;  1Z1C A;  1FPV A;  1P5Y A;  4G0R A;  1Z14 A;  3KIC A;  1C8G A;  1C8F A; 
#chains in the Genus database with same CATH topology
 2QA0 A;  3RA4 A;  2CAS A;  3RA9 A;  4IOV A;  1IJS P;  2G8G A;  1C8D A;  5EGC A;  3RA8 A;  3RAA A;  1LP3 A;  4GBT A;  4RSO A;  3SHM A;  3NTT A;  1C8H A;  3NG9 A;  1P5W A;  4DPV Z;  1MVM A;  3UX1 A;  3OAH A;  3RA2 A;  3KIE A;  1S58 A;  1K3V A;  1C8E A;  4QC8 A;  1Z1C A;  1FPV A;  1P5Y A;  4G0R A;  1Z14 A;  3KIC A;  1C8G A;  1C8F A; 
#chains in the Genus database with same CATH homology
 2QA0 A;  3RA4 A;  2CAS A;  3RA9 A;  4IOV A;  1IJS P;  2G8G A;  1C8D A;  5EGC A;  3RA8 A;  3RAA A;  1LP3 A;  4GBT A;  4RSO A;  3SHM A;  3NTT A;  1C8H A;  3NG9 A;  1P5W A;  4DPV Z;  1MVM A;  3UX1 A;  3OAH A;  3RA2 A;  3KIE A;  1S58 A;  1K3V A;  1C8E A;  4QC8 A;  1Z1C A;  1FPV A;  1P5Y A;  4G0R A;  1Z14 A;  3KIC A;  1C8G A;  1C8F 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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