2XDEA

Crystal structure of the complex of pf-3450074 with an engineered hiv capsid n terminal domain
Total Genus 47
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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
47
sequence length
136
structure length
136
Chain Sequence
PIVQNLQGQMVHQAISPRTLNAWVKVVEEKAFSPEVIPMFSALSEGATPQDLNTMLNTVGGHQAAMQMLKETINEEAAEWDRLHPVGEPRGSDIAGTTSTLQEQIGWMTHNPPIPVGEIYKRWIILGLNKIVRMYS
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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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publication title HIV Capsid is a Tractable Target for Small Molecule Therapeutic Intervention.
pubmed doi rcsb
molecule tags Viral protein
source organism Human immunodeficiency virus 1
molecule keywords GAG POLYPROTEIN
total genus 47
structure length 136
sequence length 136
chains with identical sequence B
ec nomenclature ec 2.7.7.49: RNA-directed DNA polymerase.
pdb deposition date 2010-04-30
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 2xdeA00
4XFXA 2Y4ZA 5HGNA 1G03A 3BP9A 2XGVA 1M9EC 4U0BA 4WYMA 4QNBA 5JPAA 5HGKA 4LQWC 4PH0A 4J93A 4B4NA 4XFYA 4E92A 2JPRA 4U0FA 1M9XC 2GONA 4U0EA 4E91A 2PXRC 5HGLA 2X2DD 2M8PA 1E6JP 2XGUA 2XGYA 4DGEC 2M8NA 1EM9A 4U0DA 4XFZA 1U7KA 2X83A 3H47A 2LF4A 1AK4C 4U0CA 2PWMA 1M9CC 1M9FC 2KGFA 3H4EA 5HGOA 2XDEA 4DGAC 4XROA 4PH3A 1L6NA 2PWOA 2EIAA 4NX4C 5HGMA 3P05A 2WLVA 4PH2A 1M9DC 2X82A 1D1DA 4INBA 1P7NA 4U0AA 1QRJA 1EIAA 1AFVA 2V4XA 4XRQA 2WLVB 2GOLB 1M9YC 3MGEA 3NTEA 4HTWA 1GWPA 2M8LA
chains in the Genus database with same CATH superfamily
4XFXA 2Y4ZA 5HGNA 1G03A 3BP9A 2XGVA 1M9EC 4U0BA 4WYMA 4QNBA 5JPAA 5HGKA 4LQWC 4PH0A 4J93A 4B4NA 4XFYA 4E92A 2JPRA 4U0FA 1M9XC 2GONA 4U0EA 4E91A 2PXRC 5HGLA 2X2DD 2M8PA 1E6JP 2XGUA 2XGYA 4DGEC 2M8NA 1EM9A 4U0DA 4XFZA 1U7KA 2X83A 3H47A 2LF4A 1AK4C 4U0CA 2PWMA 1M9CC 1M9FC 2KGFA 3H4EA 5HGOA 2XDEA 4DGAC 4XROA 4PH3A 1L6NA 2PWOA 2EIAA 4NX4C 5HGMA 3P05A 2WLVA 4PH2A 1M9DC 2X82A 1D1DA 4INBA 1P7NA 4U0AA 1QRJA 1EIAA 1AFVA 2V4XA 4XRQA 2WLVB 2GOLB 1M9YC 3MGEA 3NTEA 4HTWA 1GWPA 2M8LA
chains in the Genus database with same CATH topology
4XFXA 2Y4ZA 5HGNA 1G03A 3BP9A 2XGVA 1M9EC 4U0BA 4WYMA 4QNBA 5JPAA 5HGKA 4LQWC 4PH0A 4J93A 4B4NA 4XFYA 4E92A 2JPRA 4U0FA 1M9XC 2GONA 4U0EA 4E91A 2PXRC 5HGLA 2X2DD 2M8PA 1E6JP 2XGUA 2XGYA 4DGEC 2M8NA 1EM9A 4U0DA 4XFZA 1U7KA 2X83A 3H47A 2LF4A 1AK4C 4U0CA 2PWMA 1M9CC 1M9FC 2KGFA 3H4EA 5HGOA 2XDEA 4DGAC 4XROA 4PH3A 1L6NA 2PWOA 2EIAA 4NX4C 5HGMA 3P05A 2WLVA 4PH2A 1M9DC 2X82A 1D1DA 4INBA 1P7NA 4U0AA 1QRJA 1EIAA 1AFVA 2V4XA 4XRQA 2WLVB 2GOLB 1M9YC 3MGEA 3NTEA 4HTWA 1GWPA 2M8LA
chains in the Genus database with same CATH homology


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