2GONA

Xray structure of gag133-278
Total Genus 41
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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
41
sequence length
135
structure length
127
Chain Sequence
HQAISPRTLNAWVKVVEEKAFSPEVIPMFSALSEGATPQDLNTMLNTVGGHQAAMQMLKETINEEAAEWDRLHPVHMREPRGSDIAGTTSTLQEQIGWMTHNPPIPVGEIYKRWIILGLNKIVRMYS
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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.

molecule tags Viral protein
molecule keywords Capsid protein p24 (CA)
publication title Implications for Viral Capsid Assembly from Crystal Structures of HIV-1 Gag 1-278 and CAN 133-278.
pubmed doi rcsb
source organism Human immunodeficiency virus 1
total genus 41
structure length 127
sequence length 135
chains with identical sequence B, C, D
ec nomenclature ec 2.7.7.49: RNA-directed DNA polymerase.
pdb deposition date 2006-04-13
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
1.10.375.10 Mainly Alpha Orthogonal Bundle Human Immunodeficiency Virus Type 1 Capsid Protein Human Immunodeficiency Virus Type 1 Capsid Protein 2gonA00
2KGFA 4U0EA 4DGAC 3P05A 2Y4ZA 4DGEC 2XGUA 1M9CC 1EM9A 2X83A 2X82A 5HGMA 2EIAA 3BP9A 4U0AA 1M9DC 4HTWA 2WLVA 1AFVA 2V4XA 2WLVB 1M9EC 5HGNA 5HGOA 4U0CA 4U0DA 4LQWC 2M8LA 3MGEA 4U0FA 1AK4C 4XFYA 4B4NA 4XRQA 5HGKA 3NTEA 3H4EA 1M9FC 1E6JP 2PWOA 2PWMA 1D1DA 4XFXA 1GWPA 4NX4C 4PH3A 4J93A 2PXRC 4PH0A 2X2DD 4E92A 2JPRA 4QNBA 2M8PA 3H47A 2GONA 1L6NA 5HGLA 2XGVA 4PH2A 1M9YC 1P7NA 1EIAA 1M9XC 4E91A 4XFZA 4XROA 2XGYA 1U7KA 4WYMA 5JPAA 1G03A 2LF4A 2M8NA 2GOLB 4INBA 1QRJA 4U0BA 2XDEA
chains in the Genus database with same CATH superfamily
2KGFA 4U0EA 4DGAC 3P05A 2Y4ZA 4DGEC 2XGUA 1M9CC 1EM9A 2X83A 2X82A 5HGMA 2EIAA 3BP9A 4U0AA 1M9DC 4HTWA 2WLVA 1AFVA 2V4XA 2WLVB 1M9EC 5HGNA 5HGOA 4U0CA 4U0DA 4LQWC 2M8LA 3MGEA 4U0FA 1AK4C 4XFYA 4B4NA 4XRQA 5HGKA 3NTEA 3H4EA 1M9FC 1E6JP 2PWOA 2PWMA 1D1DA 4XFXA 1GWPA 4NX4C 4PH3A 4J93A 2PXRC 4PH0A 2X2DD 4E92A 2JPRA 4QNBA 2M8PA 3H47A 2GONA 1L6NA 5HGLA 2XGVA 4PH2A 1M9YC 1P7NA 1EIAA 1M9XC 4E91A 4XFZA 4XROA 2XGYA 1U7KA 4WYMA 5JPAA 1G03A 2LF4A 2M8NA 2GOLB 4INBA 1QRJA 4U0BA 2XDEA
chains in the Genus database with same CATH topology
2KGFA 4U0EA 4DGAC 3P05A 2Y4ZA 4DGEC 2XGUA 1M9CC 1EM9A 2X83A 2X82A 5HGMA 2EIAA 3BP9A 4U0AA 1M9DC 4HTWA 2WLVA 1AFVA 2V4XA 2WLVB 1M9EC 5HGNA 5HGOA 4U0CA 4U0DA 4LQWC 2M8LA 3MGEA 4U0FA 1AK4C 4XFYA 4B4NA 4XRQA 5HGKA 3NTEA 3H4EA 1M9FC 1E6JP 2PWOA 2PWMA 1D1DA 4XFXA 1GWPA 4NX4C 4PH3A 4J93A 2PXRC 4PH0A 2X2DD 4E92A 2JPRA 4QNBA 2M8PA 3H47A 2GONA 1L6NA 5HGLA 2XGVA 4PH2A 1M9YC 1P7NA 1EIAA 1M9XC 4E91A 4XFZA 4XROA 2XGYA 1U7KA 4WYMA 5JPAA 1G03A 2LF4A 2M8NA 2GOLB 4INBA 1QRJA 4U0BA 2XDEA
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 2KGF A;  4U0E A;  4DGA C;  3P05 A;  2Y4Z A;  4DGE C;  2XGU A;  1M9C C;  1EM9 A;  2X83 A;  2X82 A;  5HGM A;  2EIA A;  3BP9 A;  4U0A A;  1M9D C;  4HTW A;  2WLV A;  1AFV A;  2V4X A;  2WLV B;  1M9E C;  5HGN A;  5HGO A;  4U0C A;  4U0D A;  4LQW C;  2M8L A;  3MGE A;  4U0F A;  1AK4 C;  4XFY A;  4B4N A;  4XRQ A;  5HGK A;  3NTE A;  3H4E A;  1M9F C;  1E6J P;  2PWO A;  2PWM A;  1D1D A;  4XFX A;  1GWP A;  4NX4 C;  4PH3 A;  4J93 A;  2PXR C;  4PH0 A;  2X2D D;  4E92 A;  2JPR A;  4QNB A;  2M8P A;  3H47 A;  2GON A;  1L6N A;  5HGL A;  2XGV A;  4PH2 A;  1M9Y C;  1P7N A;  1EIA A;  1M9X C;  4E91 A;  4XFZ A;  4XRO A;  2XGY A;  1U7K A;  4WYM A;  5JPA A;  1G03 A;  2LF4 A;  2M8N A;  2GOL B;  4INB A;  1QRJ A;  4U0B A;  2XDE A; 
#chains in the Genus database with same CATH topology
 2KGF A;  4U0E A;  4DGA C;  3P05 A;  2Y4Z A;  4DGE C;  2XGU A;  1M9C C;  1EM9 A;  2X83 A;  2X82 A;  5HGM A;  2EIA A;  3BP9 A;  4U0A A;  1M9D C;  4HTW A;  2WLV A;  1AFV A;  2V4X A;  2WLV B;  1M9E C;  5HGN A;  5HGO A;  4U0C A;  4U0D A;  4LQW C;  2M8L A;  3MGE A;  4U0F A;  1AK4 C;  4XFY A;  4B4N A;  4XRQ A;  5HGK A;  3NTE A;  3H4E A;  1M9F C;  1E6J P;  2PWO A;  2PWM A;  1D1D A;  4XFX A;  1GWP A;  4NX4 C;  4PH3 A;  4J93 A;  2PXR C;  4PH0 A;  2X2D D;  4E92 A;  2JPR A;  4QNB A;  2M8P A;  3H47 A;  2GON A;  1L6N A;  5HGL A;  2XGV A;  4PH2 A;  1M9Y C;  1P7N A;  1EIA A;  1M9X C;  4E91 A;  4XFZ A;  4XRO A;  2XGY A;  1U7K A;  4WYM A;  5JPA A;  1G03 A;  2LF4 A;  2M8N A;  2GOL B;  4INB A;  1QRJ A;  4U0B A;  2XDE A; 
#chains in the Genus database with same CATH homology
 2KGF A;  4U0E A;  4DGA C;  3P05 A;  2Y4Z A;  4DGE C;  2XGU A;  1M9C C;  1EM9 A;  2X83 A;  2X82 A;  5HGM A;  2EIA A;  3BP9 A;  4U0A A;  1M9D C;  4HTW A;  2WLV A;  1AFV A;  2V4X A;  2WLV B;  1M9E C;  5HGN A;  5HGO A;  4U0C A;  4U0D A;  4LQW C;  2M8L A;  3MGE A;  4U0F A;  1AK4 C;  4XFY A;  4B4N A;  4XRQ A;  5HGK A;  3NTE A;  3H4E A;  1M9F C;  1E6J P;  2PWO A;  2PWM A;  1D1D A;  4XFX A;  1GWP A;  4NX4 C;  4PH3 A;  4J93 A;  2PXR C;  4PH0 A;  2X2D D;  4E92 A;  2JPR A;  4QNB A;  2M8P A;  3H47 A;  2GON A;  1L6N A;  5HGL A;  2XGV A;  4PH2 A;  1M9Y C;  1P7N A;  1EIA A;  1M9X C;  4E91 A;  4XFZ A;  4XRO A;  2XGY A;  1U7K A;  4WYM A;  5JPA A;  1G03 A;  2LF4 A;  2M8N A;  2GOL B;  4INB A;  1QRJ A;  4U0B A;  2XDE 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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