3DS2 | Genus

Total Genus 27

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	27
sequence length	84
structure length	84
Chain Sequence	TSILDIRQGPKEPFRDYVDRFAKTLRAEQASQEVKNWMTETLLVQNANPDCKTILKALGPGATLEEMMTACQGVGGPGHKARVL

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

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After clicking on a point (x,y) in the genus matrix above, a subchain from x to y is shown in color.

Genus data interpretation

molecule tags	Viral protein
source organism	Human immunodeficiency virus 1
publication title	Residues in the HIV-1 Capsid Assembly Inhibitor Binding Site Are Essential for Maintaining the Assembly-competent Quaternary Structure of the Capsid Protein. pubmed doi rcsb
molecule keywords	HIV-1 CAPSID PROTEIN
total genus	27
structure length	84
sequence length	84
chains with identical sequence	B
ec nomenclature	ec 2.7.7.49: RNA-directed DNA polymerase.
pdb deposition date	2008-07-11

Image from the rcsb pdb (www.rcsb.org)

cath code	Class	Architecture	Topology	Homology	Domain
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	3ds2A00

3P05A 3VRLC 4XFYA 1EOQA 1BAJA 3H47A 3G26A 4XFZA 3G1GA 4PH1A 2JYGA 1A43A 3DS2A 3DTJA 5HGOA 2BUOA 1AUMA 2XXMA 3H4EA 4U0CA 4XROA 5HGLA 5HGMA 1A8OA 4QNBA 2M8LA 2XV6A 3MGEA 3DS3A 3G1IA 2ONTA 3G28A 3G29A 2KODA 2JO0A 5I4TG 3G0VA 5JPAA 2M8NA 2EIAA 3DPHA 5DCKA 2XT1A 4U0FA 4PH0A 4COCA 1QRJA 3G21A 4U0AA 1D1DA 2M8PA 1EIAA 4IPYA 2L6EA 3DS1A 1E6JP 3NTEA 2JYLA 4U0BA 4COPA 3LRYA 5HGNA 4XRQA 2LF4A 3DS5A 4M0IA 3DS0A 4U0DA 4XFXA 3DS4A 4WYMA 4U0EA
chains in the Genus database with same CATH superfamily

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

2PY8A 2Z46A 1KC8Q 1NJIQ 1Q86Q 1ZMBA 2JYGA 3CPWO 1A43A 1IUQA 3B5IA 3DS2A 2BUOA 3DTJA 3M1MA 2XXMA 1QVFO 1JJ2O 4XROA 1K30A 5HGMA 1A8OA 2E1MA 2M8LA 4GR2A 3CCRP 2BHVA 2ONTA 5JPAA 3G0VA 4COCA 3CCMP 2PENA 1M6EX 3HZQA 3CCEP 3H0DA 1YJWP 3DS1A 3RG6C 3I55P 1YJNP 2PEQA 3LRYA 2PEIA 3G4SP 4WYMA 4U0EA 3P05A 3CCUP 2P9XA 1VQMP 3G26A 1M90Q 3OW2O 1K8AQ 3CCLP 1W2BO 3G71P 3CD6P 2PEKA 1RO2A 1YI2P 5HGOA 2DGYA 1RO0A 4U0CA 3CMAP 1YJ9P 2XV6A 3MGEA 3DS3A 2KODA 3Q20A 2EIAA 1M1KQ 1K9MQ 5DCKA 4U0FA 4PH0A 1Q82Q 1QRJA 3HYBA 1D1DA 1VQNP 1VQ5P 2M8PA 4IPYA 1VQ7P 2JYLA 1S72P 1YITP 1KQSO 2LF4A 4M0IA 1VQLP 5BS1A 3CC7P 4XFYA 1K73Q 1EOQA 1N8RQ 3H47A 1QVGO 4GR6A 2PEMA 3CCQP 5F2KA 3G29A 2OTJP 2Z44A 2PEOA 2M8NA 2OTLP 4U0AA 3G21A 3CCVP 2CWOA 1VQPP 3CC4P 1YHQP 2PEJA 3CCSP 2L6EA 3NTEA 4COPA 2EFJA 4U0BA 2QEXP 1YIJP 1RNIA 3G6EP 5HGNA 4XRQA 4XFXA 5F2OA 3DS4A 3VRLC 1BAJA 4XFZA 3I56P 3G1GA 3CC2P 4PH1A 3CXCO 1AUMA 3WBHA 3H4EA 5HGLA 1Q7YQ 4QNBA 3CCJP 1VQ8P 3G1IA 1VQ9P 1M6NA 3G28A 2JO0A 3E2DA 5I4TG 3DPHA 1VQKP 1Q81Q 2XT1A 1VQOP 1VQ4P 3CMEP 1EIAA 1E6JP 1M74A 5BS2A 2EG5A 2Z45A 2OARA 3DS5A 3DS0A 1KD1Q 4U0DA 2QA4P 1VQ6P 5F2NA
chains in the Genus database with same CATH homology

#chains in the Genus database with same CATH superfamily
 3P05 A;  3VRL C;  4XFY A;  1EOQ A;  1BAJ A;  3H47 A;  3G26 A;  4XFZ A;  3G1G A;  4PH1 A;  2JYG A;  1A43 A;  3DS2 A;  3DTJ A;  5HGO A;  2BUO A;  1AUM A;  2XXM A;  3H4E A;  4U0C A;  4XRO A;  5HGL A;  5HGM A;  1A8O A;  4QNB A;  2M8L A;  2XV6 A;  3MGE A;  3DS3 A;  3G1I A;  2ONT A;  3G28 A;  3G29 A;  2KOD A;  2JO0 A;  5I4T G;  3G0V A;  5JPA A;  2M8N A;  2EIA A;  3DPH A;  5DCK A;  2XT1 A;  4U0F A;  4PH0 A;  4COC A;  1QRJ A;  3G21 A;  4U0A A;  1D1D A;  2M8P A;  1EIA A;  4IPY A;  2L6E A;  3DS1 A;  1E6J P;  3NTE A;  2JYL A;  4U0B A;  4COP A;  3LRY A;  5HGN A;  4XRQ A;  2LF4 A;  3DS5 A;  4M0I A;  3DS0 A;  4U0D A;  4XFX A;  3DS4 A;  4WYM A;  4U0E A; 
#chains in the Genus database with same CATH topology
 2FQ0 A;  2PY8 A;  3EJB A;  2Z46 A;  2FHS C;  2JQ4 A;  2AFE A;  4XRO A;  4BPG A;  2M8L A;  4GR2 A;  2VLN A;  3CCM P;  3H0D A;  3I55 P;  1YJN P;  2K0D X;  2PEI A;  5CZD B;  4WYM A;  2P9X A;  1VQM P;  3CD6 P;  3GKL C;  1YI2 P;  2KOS A;  2K93 A;  1F80 D;  2MVV A;  2XV6 A;  3DS3 A;  2KOO A;  2KOD A;  2EIA A;  4PH0 A;  1Q82 Q;  2M8P A;  4IPY A;  2LIW A;  1S72 P;  4CA3 A;  2VLQ A;  4M0I A;  3GZM A;  5BS1 A;  2KW2 A;  1N8R Q;  2LKI A;  4MRT C;  5F2K A;  4DG9 A;  2KOP A;  2M8N A;  2OTL P;  3NY7 B;  4QKO A;  3CCV P;  2CWO A;  2PEJ A;  2MR8 A;  2EFJ A;  1RNI A;  3G6E P;  7CEI A;  2VLO A;  2KGE A;  2FVF A;  2KG8 A;  4QNB A;  2CGQ A;  3G1I A;  2MVU A;  1VQ4 P;  3U43 A;  2GZF A;  3DS0 A;  4U0D A;  2GZG A;  2PNG A;  2JAZ A;  2JU2 A;  1Q86 Q;  1ZMB A;  1IUQ A;  3DTJ A;  3M1M A;  1ZNV A;  1JJ2 O;  1A8O A;  2MD9 A;  2E1M A;  3CCR P;  2ONT A;  1BXI A;  3G0V A;  4COC A;  1M6E X;  2CG5 B;  3CCE P;  3DS1 A;  3B4Q A;  2FAE A;  3LRY A;  5KP6 B;  3G4S P;  2VLP A;  4U0E A;  1MZ8 A;  2FVA A;  1W2B O;  3G71 P;  2PEK A;  2X2B A;  5HVC A;  2DGY A;  1RO0 A;  4IZ6 A;  3LMO A;  2AF8 A;  3MGE A;  2XZ1 C;  3Q20 A;  1M1K Q;  2AFD A;  5DCK A;  1QRJ A;  1GXG A;  2AVA A;  2K0X A;  3EJE A;  4PXH B;  2JYL A;  2KGD A;  1HY8 A;  1VKU A;  1T8K A;  2ERH A;  3CC7 P;  2GZI A;  2K94 A;  2MF4 A;  1QVG O;  2KWL A;  3CCQ P;  2EHT A;  2OTJ P;  2LOL A;  3G21 A;  4HKG A;  3CCS P;  3NTE A;  4COP A;  1FR2 A;  1UJZ A;  2CNR A;  5HGN A;  3DS4 A;  3VRL C;  5HV8 A;  2VSQ A;  1AUM A;  2KGA A;  5HGL A;  1AYI A;  1OR5 A;  3G28 A;  3E2D A;  5I4T G;  3DPH A;  1VQK P;  1Q81 Q;  3EJD A;  5BS2 A;  1NQ4 A;  3DS5 A;  2QA4 P;  5F2N A;  1VHN A;  1KC8 Q;  4F37 A;  1NJI Q;  3CPW O;  1A43 A;  3DS2 A;  3B5I A;  2BUO A;  2XXM A;  5HGM A;  2K92 A;  2KG9 A;  5JPA A;  4H2X C;  2KG6 A;  1HQB A;  3RG6 C;  2FVE A;  5KP7 B;  2NO8 A;  1EMV A;  1DNY A;  2GYK A;  3P05 A;  3CCU P;  2MR7 A;  4BPH A;  1M90 Q;  1K8A Q;  2GDX A;  3CCL P;  5HGO A;  3RG2 A;  4U0C A;  1YJ9 P;  1CEI A;  2N5H A;  1K9M Q;  4U0F A;  2EHS A;  2M5R A;  2LL8 A;  1KQS O;  1K73 Q;  1EOQ A;  1X3O A;  5KP8 B;  2PEM A;  3G29 A;  2JU1 A;  1DV5 A;  2CQ8 A;  4U0A A;  1VQP P;  3CC4 P;  2GZE A;  3CE7 A;  2QEX P;  4XRQ A;  1BAJ A;  1ACP A;  3I56 P;  4PH1 A;  2L4B A;  2XZ0 D;  1Q7Y Q;  1UNK A;  2KR5 A;  1VQ8 P;  1VQ9 P;  1M6N A;  2XT1 A;  1VQO P;  1EIA A;  2K0Y A;  2K2Q A;  1E6J P;  4H2W C;  5EJD A;  1M74 A;  1GXH A;  2EG5 A;  2Z45 A;  2OAR A;  1KD1 Q;  1VQ6 P;  2N98 A;  2L9F A;  2KGC A;  2JYG A;  2L0Q A;  1QVF O;  1K30 A;  2LIU A;  2BHV A;  3GJN A;  2KOQ A;  2PEN A;  3HZQ A;  2DNW A;  1YJW P;  2GDY A;  2PEQ A;  2L22 A;  2N50 A;  3G26 A;  3OW2 O;  1RO2 A;  3CMA P;  1L0I A;  4R0M A;  3HYB A;  1D1D A;  1VQN P;  2MY5 A;  1VQ5 P;  1VQ7 P;  2N5I A;  3GZL A;  2JGP A;  2JB0 A;  2WPT A;  1YIT P;  2LF4 A;  1VQL P;  2JBG A;  4XFY A;  4PWV B;  3H47 A;  4UHP B;  2K5X A;  4GR6 A;  1KLP A;  1E0H A;  2N6Z A;  1IMP A;  1IMQ A;  2Z44 A;  4H2Y C;  1Z6M A;  2PEO A;  1AF8 A;  2ROQ A;  4BPF A;  1YHQ P;  2L6E A;  2FAD A;  4U0B A;  1YIJ P;  2FQ2 A;  1GPJ A;  2N6Y A;  1L0H A;  5EW5 E;  4XFX A;  5F2O A;  2GDW A;  2KOR A;  2FAC A;  4XFZ A;  2LTE A;  3G1G A;  3CC2 P;  3CXC O;  3WBH A;  3H4E A;  2GZJ A;  3CCJ P;  4NEO A;  2JO0 A;  3CME P;  2LML A;  2LPK A;  2QNW A;  2FQ1 A; 
#chains in the Genus database with same CATH homology
 2PY8 A;  2Z46 A;  1KC8 Q;  1NJI Q;  1Q86 Q;  1ZMB A;  2JYG A;  3CPW O;  1A43 A;  1IUQ A;  3B5I A;  3DS2 A;  2BUO A;  3DTJ A;  3M1M A;  2XXM A;  1QVF O;  1JJ2 O;  4XRO A;  1K30 A;  5HGM A;  1A8O A;  2E1M A;  2M8L A;  4GR2 A;  3CCR P;  2BHV A;  2ONT A;  5JPA A;  3G0V A;  4COC A;  3CCM P;  2PEN A;  1M6E X;  3HZQ A;  3CCE P;  3H0D A;  1YJW P;  3DS1 A;  3RG6 C;  3I55 P;  1YJN P;  2PEQ A;  3LRY A;  2PEI A;  3G4S P;  4WYM A;  4U0E A;  3P05 A;  3CCU P;  2P9X A;  1VQM P;  3G26 A;  1M90 Q;  3OW2 O;  1K8A Q;  3CCL P;  1W2B O;  3G71 P;  3CD6 P;  2PEK A;  1RO2 A;  1YI2 P;  5HGO A;  2DGY A;  1RO0 A;  4U0C A;  3CMA P;  1YJ9 P;  2XV6 A;  3MGE A;  3DS3 A;  2KOD A;  3Q20 A;  2EIA A;  1M1K Q;  1K9M Q;  5DCK A;  4U0F A;  4PH0 A;  1Q82 Q;  1QRJ A;  3HYB A;  1D1D A;  1VQN P;  1VQ5 P;  2M8P A;  4IPY A;  1VQ7 P;  2JYL A;  1S72 P;  1YIT P;  1KQS O;  2LF4 A;  4M0I A;  1VQL P;  5BS1 A;  3CC7 P;  4XFY A;  1K73 Q;  1EOQ A;  1N8R Q;  3H47 A;  1QVG O;  4GR6 A;  2PEM A;  3CCQ P;  5F2K A;  3G29 A;  2OTJ P;  2Z44 A;  2PEO A;  2M8N A;  2OTL P;  4U0A A;  3G21 A;  3CCV P;  2CWO A;  1VQP P;  3CC4 P;  1YHQ P;  2PEJ A;  3CCS P;  2L6E A;  3NTE A;  4COP A;  2EFJ A;  4U0B A;  2QEX P;  1YIJ P;  1RNI A;  3G6E P;  5HGN A;  4XRQ A;  4XFX A;  5F2O A;  3DS4 A;  3VRL C;  1BAJ A;  4XFZ A;  3I56 P;  3G1G A;  3CC2 P;  4PH1 A;  3CXC O;  1AUM A;  3WBH A;  3H4E A;  5HGL A;  1Q7Y Q;  4QNB A;  3CCJ P;  1VQ8 P;  3G1I A;  1VQ9 P;  1M6N A;  3G28 A;  2JO0 A;  3E2D A;  5I4T G;  3DPH A;  1VQK P;  1Q81 Q;  2XT1 A;  1VQO P;  1VQ4 P;  3CME P;  1EIA A;  1E6J P;  1M74 A;  5BS2 A;  2EG5 A;  2Z45 A;  2OAR A;  3DS5 A;  3DS0 A;  1KD1 Q;  4U0D A;  2QA4 P;  1VQ6 P;  5F2N 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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3DS2A

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization