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
Loading diagram...

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


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