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 |
220
|
structure length |
216
|
Chain Sequence |
PIVQQMVHQAISPRTLNAWVKVVEEKAFSPEVIPMFSALSEGATPQDLNTMLNTVGGHQAAMQMLKETINEEAAEWDRLHPVHAGPIAPGQMREPRGSDIAGTTSTLQEQIGWMTHNPPIPVGEIYKRWIILGLNKIVRMYSPTSILDIRQGPKEPFRDYVDRFYKTLRAEQASQEVKNWMTETLLVQNANPDCKTILKALGPGATLEEMMTACQG
|
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.
After clicking on a point (x,y) in the genus matrix above, a subchain from x to y is shown in color.
| publication title |
STRUCTURAL VIROLOGY. X-ray crystal structures of native HIV-1 capsid protein reveal conformational variability.
pubmed doi rcsb |
| molecule tags |
Viral protein
|
| source organism |
Human immunodeficiency virus type 1 group m subtype b (isolate ny5)
|
| molecule keywords |
HIV-1 capsid protein
|
| total genus |
71
|
| structure length |
216
|
| sequence length |
220
|
| ec nomenclature | |
| pdb deposition date | 2014-12-29 |
| chain | Pfam Accession Code | Pfam Family Identifier | Pfam Description |
|---|---|---|---|
| A | PF00607 | Gag_p24 | gag gene protein p24 (core nucleocapsid protein) |
Image from the rcsb pdb (www.rcsb.org)
cath code
| Class | Architecture | Topology | Homology | Domain |
|---|---|---|---|---|---|
| Mainly Alpha | Orthogonal Bundle | Human Immunodeficiency Virus Type 1 Capsid Protein | Human Immunodeficiency Virus Type 1 Capsid Protein | ||
| Mainly Alpha | Orthogonal Bundle | Non-ribosomal Peptide Synthetase Peptidyl Carrier Protein; Chain A | Non-ribosomal Peptide Synthetase Peptidyl Carrier Protein; Chain A |
#chains in the Genus database with same CATH superfamily 4HTW A; 4XFY A; 4QNB A; 2PXR C; 4XRQ A; 2WLV A; 4PH3 A; 2XT1 A; 4NX4 C; 1M9X C; 1M9D C; 4J93 A; 5DCK A; 1M9C C; 4U0D A; 2GON A; 4LQW C; 2XV6 A; 3G26 A; 4WYM A; 2KOD A; 2LF4 A; 3DS3 A; 1BAJ A; 3BP9 A; 2XGV A; 3G1I A; 3DS4 A; 2X2D D; 1QRJ A; 1M9E C; 3DTJ A; 4COP A; 2XGY A; 2XGU A; 3H47 A; 2JPR A; 4COC A; 2M8L A; 4PH1 A; 2Y4Z A; 5HGN A; 2JYG A; 1A8O A; 4XRO A; 5HGO A; 2L6E A; 1AFV A; 2V4X A; 3DS2 A; 3VRL C; 4PH0 A; 1G03 A; 4U0A A; 5HGK A; 4M0I A; 1AUM A; 1L6N A; 3MGE A; 4PH2 A; 1EIA A; 5HGM A; 3DPH A; 1GWP A; 5I4T G; 3DS5 A; 3LRY A; 4INB A; 5HGL A; 2EIA A; 2X83 A; 3NTE A; 4U0B A; 1U7K A; 1EOQ A; 4XFX A; 4U0F A; 1A43 A; 3G0V A; 4U0C A; 2KGF A; 2M8N A; 2WLV B; 4E91 A; 2PWM A; 4U0E A; 2GOL B; 5JPA A; 1EM9 A; 4DGE C; 3G29 A; 1M9Y C; 2M8P A; 3H4E A; 2ONT A; 2JYL A; 4E92 A; 3DS1 A; 2JO0 A; 2XXM A; 2BUO A; 4B4N A; 1M9F C; 2PWO A; 2X82 A; 4XFZ A; 1D1D A; 3G1G A; 1P7N A; 4IPY A; 3G21 A; 1AK4 C; 3G28 A; 1E6J P; 3DS0 A; 4DGA C; 3P05 A; 2XDE A; #chains in the Genus database with same CATH topology 2FAC A; 3CCJ P; 1OR5 A; 4CA3 A; 2PEN A; 2PEM A; 1ZMB A; 2PXR C; 1GXG A; 2JGP A; 4XRQ A; 4PH3 A; 4QKO A; 1M9D C; 2AF8 A; 2EHT A; 3CCL P; 1K30 A; 2XV6 A; 1KLP A; 1DV5 A; 5F2O A; 2JQ4 A; 1ZNV A; 2P9X A; 2GZE A; 3DTJ A; 2FVE A; 2XGY A; 2KOO A; 3G6E P; 4HKG A; 3H47 A; 3WBH A; 2JPR A; 2K94 A; 2JYG A; 1A8O A; 2LOL A; 2L6E A; 3CME P; 2GDY A; 5BS1 A; 3EJD A; 1L6N A; 3EJB A; 1KQS O; 5HGM A; 3U43 A; 1VHN A; 2ERH A; 2FVF A; 1M6N A; 5HVC A; 4PXH B; 2PEI A; 1VQN P; 2AFD A; 1A43 A; 1L0I A; 3G0V A; 2OTL P; 3CCU P; 2M8N A; 2Z46 A; 5BS2 A; 2GOL B; 5JPA A; 1Q81 Q; 1EM9 A; 2GZI A; 2M8P A; 2GZJ A; 2X2B A; 1RO2 A; 2VLN A; 2XXM A; 4B4N A; 1YI2 P; 1M6E X; 2EG5 A; 2JB0 A; 2KOQ A; 2PWO A; 1KC8 Q; 4XFZ A; 1KD1 Q; 1IMP A; 2JBG A; 2KOS A; 2GZG A; 2LML A; 3G21 A; 3CD6 P; 5F2N A; 3DS0 A; 2LPK A; 4UHP B; 2XDE A; 2OTJ P; 2FQ2 A; 3CCM P; 3CXC O; 1MZ8 A; 1Q7Y Q; 3NY7 B; 3CC4 P; 1CEI A; 2ROQ A; 2N5H A; 1VQ6 P; 2XT1 A; 1VQ7 P; 1RO0 A; 2PEO A; 1M9X C; 2CWO A; 3HZQ A; 1YJ9 P; 4F37 A; 1JJ2 O; 3G26 A; 1M74 A; 3RG6 C; 2KOD A; 2LF4 A; 3DS3 A; 1AF8 A; 3BP9 A; 3G4S P; 2KG8 A; 3G1I A; 2AFE A; 1VQL P; 1YIT P; 1YHQ P; 1M9E C; 4COP A; 2DNW A; 2KG6 A; 2VLP A; 2GZF A; 2K0Y A; 2N6Z A; 2QNW A; 2GYK A; 2Y4Z A; 2AVA A; 2L4B A; 1AFV A; 2WPT A; 2N5I A; 4PH0 A; 4BPF A; 2KGE A; 3CCV P; 2JAZ A; 3MGE A; 4PH2 A; 2N98 A; 2QA4 P; 3DPH A; 2CQ8 A; 2Z44 A; 3B4Q A; 3LRY A; 4INB A; 5HGL A; 3CCR P; 2PEJ A; 1K9M Q; 2KWL A; 1NQ4 A; 2CG5 B; 4U0C A; 2KGC A; 1S72 P; 1AYI A; 2LIU A; 2KGF A; 3CCS P; 2E1M A; 2PWM A; 1DNY A; 1T8K A; 1M9Y C; 2ONT A; 2JU2 A; 3I55 P; 3GZL A; 3DS1 A; 1M9F C; 2GDX A; 2X82 A; 2L9F A; 1IUQ A; 1D1D A; 1P7N A; 2KW2 A; 2EHS A; 2FAE A; 4NEO A; 1E6J P; 2VSQ A; 1Z6M A; 1M90 Q; 1Q82 Q; 2L0Q A; 5KP8 B; 2FQ1 A; 2N6Y A; 4HTW A; 1QVG O; 1F80 D; 2KGD A; 2WLV A; 1L0H A; 2JU1 A; 1BXI A; 3LMO A; 1K73 Q; 3CCQ P; 4J93 A; 5DCK A; 1M9C C; 4U0D A; 2GON A; 1RNI A; 1UJZ A; 2VLO A; 2FHS C; 4DG9 A; 1VQO P; 4LQW C; 1BAJ A; 3DS4 A; 2QEX P; 2X2D D; 1QRJ A; 1FR2 A; 3EJE A; 2LTE A; 2MVU A; 2CNR A; 2DGY A; 2CGQ A; 2LKI A; 4XRO A; 1YIJ P; 3DS2 A; 3E2D A; 3VRL C; 1G03 A; 4U0A A; 4R0M A; 3HYB A; 4M0I A; 3G71 P; 1VQ4 P; 1GWP A; 2BHV A; 2EIA A; 2X83 A; 3CE7 A; 1EMV A; 2LL8 A; 4IZ6 A; 1EOQ A; 1IMQ A; 4U0F A; 3CMA P; 4GR2 A; 4E91 A; 1VKU A; 4U0E A; 2PEQ A; 4DGE C; 2KG9 A; 3B5I A; 3G29 A; 3H4E A; 3CC7 P; 1M1K Q; 4E92 A; 2K5X A; 1YJN P; 5KP6 B; 2BUO A; 4GR6 A; 1W2B O; 3GJN A; 3OW2 O; 3M1M A; 2NO8 A; 5EJD A; 1GPJ A; 3CPW O; 1AK4 C; 3G28 A; 2PNG A; 3CCE P; 2FVA A; 2GDW A; 3GZM A; 2MF4 A; 2FQ0 A; 2XZ1 C; 3RG2 A; 1VQP P; 4XFY A; 4QNB A; 2N50 A; 4NX4 C; 2MR8 A; 3Q20 A; 4H2W C; 2K0D X; 2KGA A; 5EW5 E; 3CC2 P; 1QVF O; 1YJW P; 1VQ5 P; 4H2Y C; 4WYM A; 2K0X A; 2L22 A; 7CEI A; 2Z45 A; 2XGV A; 2KOR A; 2XGU A; 1N8R Q; 1E0H A; 2LIW A; 1X3O A; 2VLQ A; 4COC A; 2M8L A; 1NJI Q; 4PH1 A; 2XZ0 D; 5HGN A; 2MVV A; 5HGO A; 2V4X A; 3I56 P; 2MD9 A; 5HGK A; 2PY8 A; 4BPG A; 1AUM A; 1HY8 A; 2PEK A; 1EIA A; 5I4T G; 1VQM P; 3DS5 A; 2KR5 A; 4PWV B; 3NTE A; 4U0B A; 1Q86 Q; 1U7K A; 4XFX A; 2M5R A; 2K92 A; 1HQB A; 1K8A Q; 5HV8 A; 1ACP A; 2WLV B; 2OAR A; 1VQ9 P; 2EFJ A; 2KOP A; 4BPH A; 4MRT C; 2FAD A; 2JYL A; 1VQK P; 2K2Q A; 2JO0 A; 2MY5 A; 1UNK A; 4H2X C; 3GKL C; 1GXH A; 3H0D A; 3G1G A; 5KP7 B; 5F2K A; 4IPY A; 2MR7 A; 2K93 A; 1VQ8 P; 4DGA C; 3P05 A; 5CZD B; #chains in the Genus database with same CATH homology 2OTJ P; 3CCJ P; 3CCM P; 4HTW A; 1VQP P; 3CXC O; 1QVG O; 2PEN A; 4XFY A; 4QNB A; 2PEM A; 1ZMB A; 2PXR C; 1Q7Y Q; 3CC4 P; 4XRQ A; 2WLV A; 4PH3 A; 1VQ6 P; 2XT1 A; 1VQ7 P; 4NX4 C; 1RO0 A; 2PEO A; 1M9X C; 2CWO A; 1M9D C; 1K73 Q; 3HZQ A; 3CCQ P; 4J93 A; 1YJ9 P; 3Q20 A; 5DCK A; 1M9C C; 4U0D A; 2GON A; 1RNI A; 1VQO P; 3CC2 P; 1JJ2 O; 4LQW C; 3CCL P; 1K30 A; 2XV6 A; 3G26 A; 1VQ5 P; 1YJW P; 1QVF O; 1M74 A; 4WYM A; 3RG6 C; 5F2O A; 2KOD A; 2LF4 A; 2Z45 A; 3DS3 A; 1BAJ A; 3BP9 A; 3G4S P; 2P9X A; 2XGV A; 3G1I A; 3DS4 A; 2QEX P; 1VQL P; 2X2D D; 1YIT P; 1QRJ A; 1YHQ P; 1M9E C; 3DTJ A; 4COP A; 2XGY A; 3G6E P; 2XGU A; 1N8R Q; 3H47 A; 3WBH A; 2JPR A; 4COC A; 2M8L A; 1NJI Q; 4PH1 A; 2DGY A; 2Y4Z A; 5HGN A; 2JYG A; 1A8O A; 4XRO A; 5HGO A; 2L6E A; 1YIJ P; 3CME P; 1AFV A; 2V4X A; 3I56 P; 3DS2 A; 3E2D A; 3VRL C; 4PH0 A; 1G03 A; 5BS1 A; 4U0A A; 5HGK A; 2PY8 A; 3HYB A; 4M0I A; 1AUM A; 3G71 P; 1L6N A; 3CCV P; 2PEK A; 1KQS O; 3MGE A; 4PH2 A; 2QA4 P; 1VQ4 P; 1EIA A; 5HGM A; 3DPH A; 1GWP A; 5I4T G; 2Z44 A; 1VQM P; 3DS5 A; 3LRY A; 4INB A; 1M6N A; 5HGL A; 2BHV A; 2EIA A; 2X83 A; 3NTE A; 4U0B A; 2PEI A; 1VQN P; 3CCR P; 1Q86 Q; 1U7K A; 1EOQ A; 4XFX A; 4U0F A; 1A43 A; 2PEJ A; 1K9M Q; 3CMA P; 3G0V A; 4U0C A; 1S72 P; 4GR2 A; 2OTL P; 1K8A Q; 3CCU P; 2KGF A; 3CCS P; 2E1M A; 2M8N A; 2WLV B; 4E91 A; 2Z46 A; 2OAR A; 5BS2 A; 2PWM A; 4U0E A; 2GOL B; 5JPA A; 1Q81 Q; 2EFJ A; 2PEQ A; 1VQ9 P; 1EM9 A; 4DGE C; 3B5I A; 3G29 A; 1M9Y C; 2M8P A; 3H4E A; 2ONT A; 3CC7 P; 1RO2 A; 3I55 P; 2JYL A; 1M1K Q; 4E92 A; 1VQK P; 1YJN P; 3DS1 A; 2JO0 A; 2XXM A; 2BUO A; 4B4N A; 1YI2 P; 1M6E X; 1M9F C; 2EG5 A; 4GR6 A; 1W2B O; 2PWO A; 3OW2 O; 2X82 A; 3M1M A; 3H0D A; 1IUQ A; 1KC8 Q; 4XFZ A; 1D1D A; 3G1G A; 1P7N A; 1KD1 Q; 5F2K A; 4IPY A; 3CPW O; 3G21 A; 1AK4 C; 3G28 A; 3CD6 P; 5F2N A; 1E6J P; 3DS0 A; 1VQ8 P; 4DGA C; 3CCE P; 3P05 A; 1M90 Q; 2XDE A; 1Q82 Q;
#similar chains in the Genus database (?% sequence similarity) ...loading similar chains, please wait... #similar chains, but unknotted ...loading similar chains, please wait... #similar chains in the pdb database (?% sequence similarity) ...loading similar chains, please wait...
