2JO0A

The solution structure of the monomeric species of the c terminal domain of the ca protein of hiv-1
Total Genus 19
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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
19
sequence length
87
structure length
87
Chain Sequence
MSPTSILDIRQGPKEPFRDYVDRFYKTLRAEQASQEVKNAMTETLLVQNANPDCKTILKALGPAATLEEMMTACQGVGGPGHKARVL
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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 Viral protein
molecule keywords Gag-Pol polyprotein
publication title Flexibility in HIV-1 Assembly Subunits: Solution Structure of the Monomeric C-Terminal Domain of the Capsid Protein
pubmed doi rcsb
source organism Human immunodeficiency virus 1
total genus 19
structure length 87
sequence length 87
ec nomenclature ec 3.4.23.16: HIV-1 retropepsin.
pdb deposition date 2007-02-17
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
1.10.1200.30 Mainly Alpha Orthogonal Bundle Non-ribosomal Peptide Synthetase Peptidyl Carrier Protein; Chain A Non-ribosomal Peptide Synthetase Peptidyl Carrier Protein; Chain A 2jo0A00
2KODA 2JYLA 3DS0A 2L6EA 4COPA 3DTJA 2ONTA 4IPYA 3G1GA 4PH0A 2M8PA 2M8NA 2XXMA 3DPHA 4U0AA 1QRJA 2JYGA 3DS5A 2XT1A 3H4EA 3MGEA 1BAJA 5JPAA 1A43A 3G1IA 3G26A 3VRLC 3DS2A 4XRQA 4PH1A 3G0VA 4M0IA 4QNBA 4XFYA 3DS4A 1EIAA 4U0EA 3DS1A 3LRYA 5DCKA 4COCA 3G29A 2JO0A 5HGMA 3G28A 2M8LA 2XV6A 4U0DA 3P05A 1EOQA 4U0FA 4XROA 1A8OA 5I4TG 1D1DA 4XFXA 4U0CA 5HGNA 2LF4A 3G21A 4WYMA 5HGLA 5HGOA 1E6JP 1AUMA 2EIAA 3H47A 4U0BA 2BUOA 4XFZA 3DS3A 3NTEA
chains in the Genus database with same CATH superfamily
3CC7P 2PEMA 2GDYA 2LOLA 2M8NA 4XFYA 1BXIA 2CG5B 3CD6P 4GR6A 2VLPA 1ZNVA 3HZQA 2KR5A 2N50A 1ACPA 4U0FA 2MR7A 2K94A 2KOQA 2KGCA 1E6JP 3CC4P 2KGEA 5EJDA 2KORA 1Q7YQ 3DTJA 3CCUP 2OTLP 3H4EA 3CCVP 2XZ1C 4BPFA 4QNBA 2DGYA 2MR8A 3I56P 2FADA 2KW2A 2L9FA 5KP7B 1D1DA 4U0CA 1VQLP 3U43A 1AUMA 2NO8A 1VQ9P 2PENA 3CPWO 3DS2A 1YIJP 3CCSP 2AVAA 2M5RA 2K0XA 3B5IA 1A8OA 1F80D 1IUQA 2GZGA 5HGLA 3B4QA 1K9MQ 4U0BA 3DS3A 1AF8A 2KODA 4HKGA 4U0AA 3RG2A 2K5XA 1VQ7P 3NY7B 1EMVA 2JGPA 2E1MA 2FACA 4PH1A 1Q86Q 1DV5A 1UJZA 1GXGA 2ROQA 4U0DA 3CCEP 2KWLA 2N5IA 1NJIQ 2KG9A 1DNYA 4H2WC 2LF4A 2BUOA 4CA3A 1VQ4P 1QRJA 2KG8A 1OR5A 3Q20A 2EFJA 3VRLC 1JJ2O 2MVVA 1HQBA 2EHTA 2FHSC 5HVCA 2DNWA 2GZFA 2JQ4A 2K0YA 1KLPA 2JU1A 1YJWP 1KQSO 3LMOA 3H0DA 2LKIA 4WYMA 2JBGA 1YI2P 1KC8Q 2PEOA 2LPKA 2L6EA 3G1GA 1VQNP 1RO0A 2LL8A 3G4SP 5F2KA 2AFDA 2FQ2A 3G29A 1N8RQ 3GJNA 4DG9A 4XROA 3CCRP 2KOOA 4M0IA 3OW2O 1YITP 2VSQA 2LMLA 2CWOA 2KOSA 2MF4A 2LTEA 3CE7A 3DS4A 3HYBA 3G28A 2LIWA 2M8LA 2KOPA 2XV6A 5KP6B 1NQ4A 2X2BA 1K73Q 4MRTC 1HY8A 2JB0A 2K2QA 2PNGA 2K93A 3DS0A 4COPA 1Q81Q 4IPYA 2FVFA 1W2BO 3G26A 4BPGA 2N5HA 1IMQA 1VQMP 3CC2P 1X3OA 2GZIA 1YJ9P 3CMAP 1M6NA 5I4TG 3GZMA 5HGNA 2KGDA 2GDXA 2ONTA 1VQ6P 2XXMA 2N6ZA 2CQ8A 1IMPA 2XT1A 4XRQA 4U0EA 5F2OA 2JO0A 2Z45A 2VLNA 1EOQA 1AYIA 4PXHB 1YHQP 4QKOA 4H2XC 1M90Q 2M8PA 2LIUA 2GZJA 1BAJA 2OTJP 3EJEA 5HV8A 2QNWA 5DCKA 2FVAA 2N6YA 2ERHA 1RNIA 3P05A 1MZ8A 1FR2A 1RO2A 2P9XA 2GDWA 2PEJA 2JU2A 2JYLA 5BS2A 4BPHA 4PH0A 3DPHA 3GZLA 3DS5A 4GR2A 2QA4P 1T8KA 2FVEA 3G0VA 2JAZA 1VQOP 3G71P 2K92A 5F2NA 2WPTA 1GXHA 2K0DX 5HGOA 2AF8A 3CXCO 2N98A 2KG6A 3I55P 2EIAA 4XFZA 7CEIA 2EG5A 1L0IA 3MGEA 3CCQP 2KGAA 1VQPP 2PEQA 2L22A 3H47A 2CGQA 3EJDA 2VLOA 1S72P 5BS1A 3G1IA 2GZEA 1E0HA 2L0QA 1Q82Q 3CCMP 3DS1A 1VQ8P 1M6EX 2Z44A 1VQ5P 2XZ0D 2MVUA 3CCLP 3GKLC 5KP8B 1VQKP 2VLQA 2PEKA 4F37A 1M74A 4R0MA 4COCA 2GYKA 2FQ1A 2AFEA 1K30A 3M1MA 1L0HA 1M1KQ 3RG6C 3G6EP 2PY8A 5EW5E 2JYGA 5JPAA 2OARA 1A43A 2L4BA 1EIAA 3LRYA 1K8AQ 5HGMA 2QEXP 2CNRA 1KD1Q 4PWVB 2EHSA 2BHVA 2MY5A 2Z46A 1CEIA 2MD9A 2PEIA 1Z6MA 4NEOA 3CCJP 3CMEP 3EJBA 1VKUA 1QVGO 1UNKA 2FQ0A 1GPJA 1ZMBA 1YJNP 4IZ6A 4UHPB 1QVFO 4XFXA 3E2DA 2FAEA 3G21A 5CZDB 1VHNA 3WBHA 4H2YC 3NTEA
chains in the Genus database with same CATH topology
3CC7P 2ONTA 2PEMA 1VQ6P 1VQ4P 2M8NA 2XXMA 1QRJA 2XT1A 1S72P 3Q20A 5BS1A 3G1IA 2EFJA 3VRLC 1JJ2O 4XRQA 4XFYA 4U0EA 1Q82Q 3CCMP 3DS1A 1VQ8P 4GR6A 5F2OA 3CD6P 2JO0A 2Z45A 3HZQA 1M6EX 1YJWP 1EOQA 4U0FA 1KQSO 2Z44A 1VQ5P 1YHQP 3H0DA 4WYMA 1E6JP 3CC4P 3CCLP 1M90Q 1YI2P 1KC8Q 2PEOA 1VQKP 2L6EA 1Q7YQ 3DTJA 3G1GA 3CCUP 2M8PA 2PEKA 1VQNP 2OTLP 1RO0A 3H4EA 1BAJA 3CCVP 2OTJP 3G4SP 5F2KA 4QNBA 2DGYA 1M74A 5DCKA 4COCA 3G29A 1N8RQ 3I56P 1K30A 1RNIA 3M1MA 3P05A 1RO2A 4XROA 2P9XA 1D1DA 1M1KQ 4U0CA 3RG6C 1VQLP 3G6EP 2PY8A 1AUMA 2PEJA 3CCRP 1VQ9P 2PENA 4M0IA 3CPWO 3DS2A 3OW2O 2JYLA 1YITP 5BS2A 1YIJP 4PH0A 3DPHA 3CCSP 2CWOA 2JYGA 3DS5A 5JPAA 2OARA 4GR2A 2QA4P 1A43A 3G0VA 3DS4A 1EIAA 3HYBA 3LRYA 1VQOP 3G71P 1K8AQ 5HGMA 3G28A 2QEXP 2M8LA 3B5IA 2XV6A 1KD1Q 2BHVA 5F2NA 1K73Q 2Z46A 1A8OA 1IUQA 5HGLA 5HGOA 3CXCO 2PEIA 1K9MQ 3I55P 2EIAA 4U0BA 4XFZA 3DS3A 2KODA 3DS0A 4COPA 3CCJP 1Q81Q 3CMEP 4IPYA 4U0AA 2EG5A 1W2BO 3MGEA 3G26A 1VQ7P 4PH1A 2E1MA 1Q86Q 1QVGO 3CCQP 1ZMBA 1VQMP 3CC2P 1YJNP 1VQPP 2PEQA 4U0DA 3CCEP 1QVFO 1YJ9P 3CMAP 1M6NA 1NJIQ 5I4TG 4XFXA 3E2DA 5HGNA 2LF4A 3G21A 3WBHA 3H47A 2BUOA 3NTEA
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 2KOD A;  2JYL A;  3DS0 A;  2L6E A;  4COP A;  3DTJ A;  2ONT A;  4IPY A;  3G1G A;  4PH0 A;  2M8P A;  2M8N A;  2XXM A;  3DPH A;  4U0A A;  1QRJ A;  2JYG A;  3DS5 A;  2XT1 A;  3H4E A;  3MGE A;  1BAJ A;  5JPA A;  1A43 A;  3G1I A;  3G26 A;  3VRL C;  3DS2 A;  4XRQ A;  4PH1 A;  3G0V A;  4M0I A;  4QNB A;  4XFY A;  3DS4 A;  1EIA A;  4U0E A;  3DS1 A;  3LRY A;  5DCK A;  4COC A;  3G29 A;  2JO0 A;  5HGM A;  3G28 A;  2M8L A;  2XV6 A;  4U0D A;  3P05 A;  1EOQ A;  4U0F A;  4XRO A;  1A8O A;  5I4T G;  1D1D A;  4XFX A;  4U0C A;  5HGN A;  2LF4 A;  3G21 A;  4WYM A;  5HGL A;  5HGO A;  1E6J P;  1AUM A;  2EIA A;  3H47 A;  4U0B A;  2BUO A;  4XFZ A;  3DS3 A;  3NTE A; 
#chains in the Genus database with same CATH topology
 3CC7 P;  2PEM A;  2GDY A;  2LOL A;  2M8N A;  4XFY A;  1BXI A;  2CG5 B;  3CD6 P;  4GR6 A;  2VLP A;  1ZNV A;  3HZQ A;  2KR5 A;  2N50 A;  1ACP A;  4U0F A;  2MR7 A;  2K94 A;  2KOQ A;  2KGC A;  1E6J P;  3CC4 P;  2KGE A;  5EJD A;  2KOR A;  1Q7Y Q;  3DTJ A;  3CCU P;  2OTL P;  3H4E A;  3CCV P;  2XZ1 C;  4BPF A;  4QNB A;  2DGY A;  2MR8 A;  3I56 P;  2FAD A;  2KW2 A;  2L9F A;  5KP7 B;  1D1D A;  4U0C A;  1VQL P;  3U43 A;  1AUM A;  2NO8 A;  1VQ9 P;  2PEN A;  3CPW O;  3DS2 A;  1YIJ P;  3CCS P;  2AVA A;  2M5R A;  2K0X A;  3B5I A;  1A8O A;  1F80 D;  1IUQ A;  2GZG A;  5HGL A;  3B4Q A;  1K9M Q;  4U0B A;  3DS3 A;  1AF8 A;  2KOD A;  4HKG A;  4U0A A;  3RG2 A;  2K5X A;  1VQ7 P;  3NY7 B;  1EMV A;  2JGP A;  2E1M A;  2FAC A;  4PH1 A;  1Q86 Q;  1DV5 A;  1UJZ A;  1GXG A;  2ROQ A;  4U0D A;  3CCE P;  2KWL A;  2N5I A;  1NJI Q;  2KG9 A;  1DNY A;  4H2W C;  2LF4 A;  2BUO A;  4CA3 A;  1VQ4 P;  1QRJ A;  2KG8 A;  1OR5 A;  3Q20 A;  2EFJ A;  3VRL C;  1JJ2 O;  2MVV A;  1HQB A;  2EHT A;  2FHS C;  5HVC A;  2DNW A;  2GZF A;  2JQ4 A;  2K0Y A;  1KLP A;  2JU1 A;  1YJW P;  1KQS O;  3LMO A;  3H0D A;  2LKI A;  4WYM A;  2JBG A;  1YI2 P;  1KC8 Q;  2PEO A;  2LPK A;  2L6E A;  3G1G A;  1VQN P;  1RO0 A;  2LL8 A;  3G4S P;  5F2K A;  2AFD A;  2FQ2 A;  3G29 A;  1N8R Q;  3GJN A;  4DG9 A;  4XRO A;  3CCR P;  2KOO A;  4M0I A;  3OW2 O;  1YIT P;  2VSQ A;  2LML A;  2CWO A;  2KOS A;  2MF4 A;  2LTE A;  3CE7 A;  3DS4 A;  3HYB A;  3G28 A;  2LIW A;  2M8L A;  2KOP A;  2XV6 A;  5KP6 B;  1NQ4 A;  2X2B A;  1K73 Q;  4MRT C;  1HY8 A;  2JB0 A;  2K2Q A;  2PNG A;  2K93 A;  3DS0 A;  4COP A;  1Q81 Q;  4IPY A;  2FVF A;  1W2B O;  3G26 A;  4BPG A;  2N5H A;  1IMQ A;  1VQM P;  3CC2 P;  1X3O A;  2GZI A;  1YJ9 P;  3CMA P;  1M6N A;  5I4T G;  3GZM A;  5HGN A;  2KGD A;  2GDX A;  2ONT A;  1VQ6 P;  2XXM A;  2N6Z A;  2CQ8 A;  1IMP A;  2XT1 A;  4XRQ A;  4U0E A;  5F2O A;  2JO0 A;  2Z45 A;  2VLN A;  1EOQ A;  1AYI A;  4PXH B;  1YHQ P;  4QKO A;  4H2X C;  1M90 Q;  2M8P A;  2LIU A;  2GZJ A;  1BAJ A;  2OTJ P;  3EJE A;  5HV8 A;  2QNW A;  5DCK A;  2FVA A;  2N6Y A;  2ERH A;  1RNI A;  3P05 A;  1MZ8 A;  1FR2 A;  1RO2 A;  2P9X A;  2GDW A;  2PEJ A;  2JU2 A;  2JYL A;  5BS2 A;  4BPH A;  4PH0 A;  3DPH A;  3GZL A;  3DS5 A;  4GR2 A;  2QA4 P;  1T8K A;  2FVE A;  3G0V A;  2JAZ A;  1VQO P;  3G71 P;  2K92 A;  5F2N A;  2WPT A;  1GXH A;  2K0D X;  5HGO A;  2AF8 A;  3CXC O;  2N98 A;  2KG6 A;  3I55 P;  2EIA A;  4XFZ A;  7CEI A;  2EG5 A;  1L0I A;  3MGE A;  3CCQ P;  2KGA A;  1VQP P;  2PEQ A;  2L22 A;  3H47 A;  2CGQ A;  3EJD A;  2VLO A;  1S72 P;  5BS1 A;  3G1I A;  2GZE A;  1E0H A;  2L0Q A;  1Q82 Q;  3CCM P;  3DS1 A;  1VQ8 P;  1M6E X;  2Z44 A;  1VQ5 P;  2XZ0 D;  2MVU A;  3CCL P;  3GKL C;  5KP8 B;  1VQK P;  2VLQ A;  2PEK A;  4F37 A;  1M74 A;  4R0M A;  4COC A;  2GYK A;  2FQ1 A;  2AFE A;  1K30 A;  3M1M A;  1L0H A;  1M1K Q;  3RG6 C;  3G6E P;  2PY8 A;  5EW5 E;  2JYG A;  5JPA A;  2OAR A;  1A43 A;  2L4B A;  1EIA A;  3LRY A;  1K8A Q;  5HGM A;  2QEX P;  2CNR A;  1KD1 Q;  4PWV B;  2EHS A;  2BHV A;  2MY5 A;  2Z46 A;  1CEI A;  2MD9 A;  2PEI A;  1Z6M A;  4NEO A;  3CCJ P;  3CME P;  3EJB A;  1VKU A;  1QVG O;  1UNK A;  2FQ0 A;  1GPJ A;  1ZMB A;  1YJN P;  4IZ6 A;  4UHP B;  1QVF O;  4XFX A;  3E2D A;  2FAE A;  3G21 A;  5CZD B;  1VHN A;  3WBH A;  4H2Y C;  3NTE A; 
#chains in the Genus database with same CATH homology
 3CC7 P;  2ONT A;  2PEM A;  1VQ6 P;  1VQ4 P;  2M8N A;  2XXM A;  1QRJ A;  2XT1 A;  1S72 P;  3Q20 A;  5BS1 A;  3G1I A;  2EFJ A;  3VRL C;  1JJ2 O;  4XRQ A;  4XFY A;  4U0E A;  1Q82 Q;  3CCM P;  3DS1 A;  1VQ8 P;  4GR6 A;  5F2O A;  3CD6 P;  2JO0 A;  2Z45 A;  3HZQ A;  1M6E X;  1YJW P;  1EOQ A;  4U0F A;  1KQS O;  2Z44 A;  1VQ5 P;  1YHQ P;  3H0D A;  4WYM A;  1E6J P;  3CC4 P;  3CCL P;  1M90 Q;  1YI2 P;  1KC8 Q;  2PEO A;  1VQK P;  2L6E A;  1Q7Y Q;  3DTJ A;  3G1G A;  3CCU P;  2M8P A;  2PEK A;  1VQN P;  2OTL P;  1RO0 A;  3H4E A;  1BAJ A;  3CCV P;  2OTJ P;  3G4S P;  5F2K A;  4QNB A;  2DGY A;  1M74 A;  5DCK A;  4COC A;  3G29 A;  1N8R Q;  3I56 P;  1K30 A;  1RNI A;  3M1M A;  3P05 A;  1RO2 A;  4XRO A;  2P9X A;  1D1D A;  1M1K Q;  4U0C A;  3RG6 C;  1VQL P;  3G6E P;  2PY8 A;  1AUM A;  2PEJ A;  3CCR P;  1VQ9 P;  2PEN A;  4M0I A;  3CPW O;  3DS2 A;  3OW2 O;  2JYL A;  1YIT P;  5BS2 A;  1YIJ P;  4PH0 A;  3DPH A;  3CCS P;  2CWO A;  2JYG A;  3DS5 A;  5JPA A;  2OAR A;  4GR2 A;  2QA4 P;  1A43 A;  3G0V A;  3DS4 A;  1EIA A;  3HYB A;  3LRY A;  1VQO P;  3G71 P;  1K8A Q;  5HGM A;  3G28 A;  2QEX P;  2M8L A;  3B5I A;  2XV6 A;  1KD1 Q;  2BHV A;  5F2N A;  1K73 Q;  2Z46 A;  1A8O A;  1IUQ A;  5HGL A;  5HGO A;  3CXC O;  2PEI A;  1K9M Q;  3I55 P;  2EIA A;  4U0B A;  4XFZ A;  3DS3 A;  2KOD A;  3DS0 A;  4COP A;  3CCJ P;  1Q81 Q;  3CME P;  4IPY A;  4U0A A;  2EG5 A;  1W2B O;  3MGE A;  3G26 A;  1VQ7 P;  4PH1 A;  2E1M A;  1Q86 Q;  1QVG O;  3CCQ P;  1ZMB A;  1VQM P;  3CC2 P;  1YJN P;  1VQP P;  2PEQ A;  4U0D A;  3CCE P;  1QVF O;  1YJ9 P;  3CMA P;  1M6N A;  1NJI Q;  5I4T G;  4XFX A;  3E2D A;  5HGN A;  2LF4 A;  3G21 A;  3WBH A;  3H47 A;  2BUO A;  3NTE 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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#similar chains in the pdb database (?% sequence similarity)
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