1BAJA

Hiv-1 capsid protein c-terminal fragment plus gag p2 domain
Total Genus 23
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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
23
sequence length
71
structure length
71
Chain Sequence
TSILDIRQGPKEPFRDYVDRFYKTLRAEQASQEVKNWMTETLLVQNANPDCKTILKALGPGATLEEMMTAC
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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.

publication title Structures of the HIV-1 capsid protein dimerization domain at 2.6 A resolution.
pubmed doi rcsb
source organism Human immunodeficiency virus 1
molecule tags Viral protein
molecule keywords GAG POLYPROTEIN
total genus 23
structure length 71
sequence length 71
ec nomenclature ec 2.7.7.49: RNA-directed DNA polymerase.
pdb deposition date 1998-04-17
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 1bajA00
1EIAA 3G28A 3LRYA 3DS4A 4XRQA 1A8OA 3DS0A 3G1IA 4U0CA 2XXMA 2XT1A 1E6JP 1QRJA 2KODA 3DS2A 3P05A 3H47A 4PH1A 4U0EA 3G29A 4XFXA 3MGEA 4PH0A 2EIAA 4IPYA 1BAJA 5HGNA 4WYMA 5HGOA 2JYGA 5I4TG 1A43A 3G1GA 2JYLA 2M8NA 3NTEA 4COPA 2JO0A 3DS3A 5JPAA 3DS5A 4U0BA 3H4EA 1EOQA 2M8PA 4U0FA 4XROA 3DTJA 2LF4A 3G26A 4XFYA 3DS1A 2ONTA 5HGLA 2L6EA 4XFZA 3DPHA 2XV6A 3G0VA 4U0DA 5HGMA 4U0AA 2M8LA 4COCA 1D1DA 2BUOA 3G21A 4M0IA 5DCKA 3VRLC 1AUMA 4QNBA
chains in the Genus database with same CATH superfamily
2EG5A 1KQSO 1NQ4A 1YJWP 2QA4P 3WBHA 2CGQA 2MR8A 2FVFA 1BAJA 1M6EX 2FADA 2JYLA 1VQ7P 2M5RA 2PEMA 3CPWO 1YHQP 3CCMP 4U0DA 3GZMA 2FQ2A 3CCLP 3CC4P 2L4BA 1VQ6P 2AF8A 1VKUA 2KOSA 5CZDB 3NTEA 2MVVA 2KOOA 5JPAA 2EFJA 2MD9A 1RO0A 2LF4A 3DTJA 1RO2A 3G0VA 2LIWA 4U0AA 5BS1A 2EHSA 1KD1Q 2DNWA 2E1MA 2PEJA 2PEOA 3CMAP 2KOPA 5EJDA 1MZ8A 3MGEA 2LMLA 5HV8A 3CCJP 2PENA 4BPGA 2GYKA 2FAEA 5KP7B 3CC2P 3DS3A 2CG5B 2PEQA 1ACPA 3Q20A 2L0QA 3I55P 2N6YA 4XFZA 3DPHA 2M8LA 1UNKA 1AF8A 2JU1A 2FACA 5DCKA 2LIUA 2NO8A 2OTLP 1HQBA 1ZNVA 4U0EA 2PY8A 3B5IA 5HVCA 1YITP 1IMPA 3CCVP 2GZEA 2PNGA 2L6EA 2K94A 1YI2P 2AVAA 2VSQA 2KGDA 3CD6P 1E6JP 3P05A 5KP8B 2EHTA 3I56P 3CE7A 5HGNA 2FQ0A 1YIJP 2JYGA 2KW2A 2GZFA 3G1GA 2FVEA 3DS5A 1JJ2O 3HYBA 2L9FA 1N8RQ 3GKLC 2FVAA 2KGEA 1K30A 2X2BA 3VRLC 4GR2A 2JGPA 1A8OA 3GZLA 1UJZA 3G1IA 4PH1A 5F2KA 3G29A 1VQ4P 2GDWA 5KP6B 1YJNP 2FQ1A 1W2BO 2K5XA 2PEIA 1M90Q 5HGLA 1VQ5P 3G21A 1M6NA 2K0XA 3EJDA 1GXGA 1HY8A 1K9MQ 2MR7A 4XFXA 1IMQA 4WYMA 1KLPA 1NJIQ 3EJBA 1L0IA 3H4EA 1QVFO 1DV5A 1VHNA 4U0FA 2JQ4A 5HGMA 2BHVA 1VQ9P 2N5HA 2KG9A 3G6EP 2LPKA 1QVGO 3DS0A 4U0CA 2KORA 1K8AQ 1VQOP 2AFDA 2Z44A 4R0MA 1VQLP 3CC7P 2GZGA 2LOLA 2DGYA 1M74A 2P9XA 3GJNA 3RG2A 4XROA 4XFYA 4COCA 4PWVB 2L22A 2JBGA 4UHPB 2LL8A 4H2YC 5F2OA 1Q86Q 2GZJA 3H47A 5HGOA 1CEIA 1KC8Q 3CCEP 2M8NA 4HKGA 2N6ZA 2KG8A 1RNIA 3E2DA 1ZMBA 1L0HA 2N5IA 1VQNP 1Z6MA 4XRQA 2XT1A 2KODA 2EIAA 4IPYA 2KGAA 2JAZA 4BPHA 2KGCA 2GZIA 1VQ8P 2LTEA 1Q82Q 3DS4A 2K92A 2KG6A 2Z45A 1K73Q 2N50A 1VQMP 1A43A 4PXHB 1VQKP 3G26A 4CA3A 3OW2O 3CCUP 3G71P 2XZ1C 1EIAA 3NY7B 4BPFA 2K93A 2N98A 2VLOA 1OR5A 1YJ9P 5I4TG 3G4SP 4DG9A 2KOQA 1X3OA 1AYIA 3U43A 4IZ6A 2MF4A 2Z46A 2VLNA 4H2XC 2K0YA 1S72P 2XXMA 1QRJA 3RG6C 2MY5A 2KWLA 2CQ8A 4U0BA 2K0DX 1EOQA 2JU2A 2FHSC 2ONTA 2XV6A 2PEKA 2OARA 1DNYA 7CEIA 3CCQP 3CCRP 2MVUA 4QNBA 3M1MA 3HZQA 2LKIA 2ERHA 2ROQA 3B4QA 1VQPP 4QKOA 3CMEP 4COPA 1E0HA 2JO0A 3EJEA 2XZ0D 2QNWA 2QEXP 2VLPA 5F2NA 1M1KQ 2BUOA 5EW5E 3G28A 3CXCO 4H2WC 4F37A 3CCSP 1BXIA 5BS2A 4GR6A 1IUQA 1EMVA 2CWOA 2M8PA 3DS1A 4NEOA 4M0IA 1AUMA 2VLQA 3LRYA 2GDYA 1FR2A 3DS2A 1Q7YQ 1GPJA 4PH0A 2K2QA 1T8KA 2CNRA 2WPTA 2AFEA 4MRTC 1GXHA 1Q81Q 3LMOA 1F80D 2JB0A 2GDXA 2KR5A 1D1DA 3H0DA 2OTJP
chains in the Genus database with same CATH topology
2EG5A 1KQSO 1YJWP 5F2OA 1Q86Q 2XXMA 1E6JP 1QRJA 3P05A 3RG6C 3WBHA 3H47A 3I56P 2QA4P 1BAJA 5HGNA 5HGOA 1YIJP 2JYGA 1M6EX 3G1GA 1KC8Q 3CCEP 2JYLA 2M8NA 3DS5A 4U0BA 3HYBA 1JJ2O 1VQ7P 2PEMA 1EOQA 3CPWO 1RNIA 1YHQP 1N8RQ 3CCMP 3E2DA 2ONTA 4U0DA 2XV6A 2PEKA 1K30A 2OARA 1ZMBA 3VRLC 4GR2A 3CCQP 3CCRP 3CCLP 3CC4P 4QNBA 1VQNP 3M1MA 1VQ6P 4XRQA 1A8OA 3HZQA 3G1IA 2XT1A 4PH1A 2KODA 5F2KA 3G29A 1VQ4P 2EIAA 4IPYA 1VQPP 3CMEP 3NTEA 1YJNP 4COPA 2JO0A 5JPAA 2EFJA 1W2BO 2QEXP 2PEIA 5F2NA 1M90Q 3DTJA 1RO0A 2LF4A 1M1KQ 1RO2A 5HGLA 3G0VA 4U0AA 1VQ5P 5BS1A 2BUOA 3G21A 1KD1Q 1VQ8P 2E1MA 2PEJA 3G28A 2PEOA 1M6NA 3CXCO 3CMAP 1Q82Q 3DS4A 1K9MQ 2Z45A 4XFXA 1K73Q 3CCSP 3MGEA 1VQMP 4WYMA 3CCJP 2PENA 1A43A 5BS2A 1NJIQ 3CC2P 3CD6P 3DS3A 4GR6A 1IUQA 1VQKP 2PEQA 3H4EA 1QVFO 3Q20A 2CWOA 2M8PA 4U0FA 3G26A 3I55P 3DS1A 5HGMA 4XFZA 3DPHA 2M8LA 3OW2O 3CCUP 2BHVA 1VQ9P 4M0IA 3G71P 5DCKA 1AUMA 1EIAA 3LRYA 3G6EP 2OTLP 1QVGO 3DS0A 4U0CA 3DS2A 4U0EA 2PY8A 1Q7YQ 3B5IA 4PH0A 1K8AQ 1VQOP 1YJ9P 5I4TG 3G4SP 1Q81Q 2Z44A 1VQLP 3CC7P 1YITP 2DGYA 1M74A 2P9XA 3CCVP 4XROA 4XFYA 2Z46A 2L6EA 1D1DA 4COCA 1YI2P 3H0DA 1S72P 2OTJP
chains in the Genus database with same CATH homology


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