3VRLC

Crystal structure of bmj4 p24 capsid protein in complex with a10f9 fab
Total Genus 23

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
73
structure length
73
Chain Sequence
SILDIKQGPKESFRDYVDRFFKTLRAEQCTQDVKNWMTDTLLVQNANPDCKTILRALGPGATLEEMMTACQGV

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
EMPTYO1 (22-96)Updating...
connected with : NaN
molecule tags Immune system/viral protein
source organism Human immunodeficiency virus 1
publication title Structure of the HIV-1 capsid protein p24 in complex with the broad-spectrum antibody A10F9
rcsb
molecule keywords A10F9 Fab heavy chain
total genus 23
structure length 73
sequence length 73
chains with identical sequence D
ec nomenclature
pdb deposition date 2012-04-12

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
C PF00607 Gag_p24 gag gene protein p24 (core nucleocapsid protein)
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 3vrlC00
4M0IA 2JYLA 3VRLC 2EIAA 2ONTA 2L6EA 1BAJA 3NTEA 4U0FA 4PH1A 4IPYA 1A8OA 3G26A 3H47A 4QNBA 3DS3A 2XV6A 3DS5A 5DCKA 4U0EA 4WYMA 5JPAA 4U0DA 3G1IA 5HGMA 2M8PA 5HGNA 1D1DA 4XRQA 2M8LA 3H4EA 3G29A 3DPHA 4XFXA 3G28A 3DS0A 4COPA 4XROA 2M8NA 3DS2A 2KODA 2BUOA 5HGOA 2XXMA 3G0VA 4PH0A 2JYGA 4XFZA 2JO0A 2XT1A 4COCA 3DS4A 3G21A 3DS1A 3G1GA 3MGEA 3P05A 4U0BA 3DTJA 4U0AA 1A43A 2LF4A 1EOQA 5HGLA 1E6JP 3LRYA 4XFYA 1QRJA 1AUMA 5I4TG 4U0CA 1EIAA
chains in the Genus database with same CATH superfamily
1IMPA 2K0YA 1UNKA 1DV5A 3DS5A 4U0EA 2EHTA 5F2KA 2OARA 2K94A 4XROA 1OR5A 3LMOA 3WBHA 2JO0A 4R0MA 1E6JP 2PNGA 2KGEA 2LTEA 1QVFO 2KOQA 5F2NA 5CZDB 2K93A 2KGCA 3I55P 2KGDA 2PEQA 1KC8Q 2N5HA 3CXCO 2PEJA 3G21A 3DS1A 3G1GA 4U0BA 1T8KA 4M0IA 3CCLP 2ONTA 1YI2P 4PH1A 2CGQA 2Z46A 2JQ4A 2FAEA 1YIJP 4H2YC 3G71P 2Z44A 2JU2A 2KODA 2AFDA 4MRTC 2FADA 2P9XA 2L9FA 2VLPA 1VQ4P 2GZJA 4U0CA 2JYLA 1VQNP 1M90Q 2EG5A 2JU1A 2EHSA 4XRQA 3H0DA 3CC7P 2N98A 2K2QA 3RG2A 1IUQA 2QEXP 2N50A 2LOLA 4COCA 4F37A 4GR6A 1F80D 4U0AA 5EJDA 2MR7A 7CEIA 3CCMP 1ZNVA 2EFJA 2N6ZA 2GDYA 3CCJP 1UJZA 3DS0A 1GXGA 1X3OA 4PH0A 2GZEA 2GZFA 4QKOA 3DTJA 2LF4A 4PWVB 1L0HA 1KD1Q 5HVCA 2KORA 1ACPA 3VRLC 1L0IA 1AYIA 2GYKA 4QNBA 4HKGA 4H2WC 1BXIA 2NO8A 5DCKA 2JBGA 2WPTA 3CCEP 2M8LA 1ZMBA 2GZGA 1RO2A 2PY8A 3CD6P 2PEMA 4UHPB 2Z45A 3CPWO 2XT1A 5EW5E 3EJDA 2KR5A 3CMEP 2VLOA 2K92A 4IPYA 2AFEA 2JAZA 2KW2A 5BS2A 1YJWP 3G1IA 5HGNA 3CCUP 3U43A 2FVFA 2QNWA 2GDWA 1NJIQ 5KP6B 1IMQA 2KG9A 3RG6C 2PEIA 2OTLP 3M1MA 1FR2A 1VQ8P 2FQ1A 2ROQA 3HZQA 2X2BA 4XFYA 2E1MA 2L6EA 1VHNA 1S72P 4U0FA 2QA4P 2LIUA 2XV6A 3CE7A 2CNRA 1M74A 5HGMA 1KQSO 2L4BA 2MY5A 1GXHA 5KP7B 4H2XC 1YJNP 1K30A 2K0XA 1HY8A 5HGLA 1EIAA 2M5RA 2MR8A 1A8OA 4IZ6A 2M8PA 2XZ1C 1VQOP 1K8AQ 3GKLC 2VLQA 1Q7YQ 2VLNA 3B4QA 3MGEA 4BPFA 1VQKP 3HYBA 1YITP 2FVAA 1QVGO 2L0QA 1GPJA 1W2BO 1K9MQ 1D1DA 2K0DX 2N5IA 1HQBA 2GZIA 1CEIA 2LPKA 3DS2A 4DG9A 3OW2O 2OTJP 2FHSC 3EJBA 2PENA 3G6EP 1M6NA 1BAJA 2KG6A 1JJ2O 1VQPP 1VQ5P 2CG5B 2CWOA 3H4EA 2M8NA 2L22A 1YHQP 1YJ9P 2JB0A 1N8RQ 2JYGA 2MVVA 2PEOA 4GR2A 1AUMA 2GDXA 3H47A 2PEKA 1Q86Q 3B5IA 2FACA 3EJEA 3G29A 3DPHA 4XFXA 3CCVP 4COPA 2CQ8A 5HGOA 1VQMP 4BPGA 3CC2P 1RO0A 3CCSP 2LKIA 2MVUA 1NQ4A 2KOSA 3CCRP 1MZ8A 5F2OA 1VQ6P 3P05A 2DGYA 1EOQA 3GZLA 3NTEA 1DNYA 4BPHA 3CCQP 2LL8A 3E2DA 5BS1A 3CMAP 4NEOA 4WYMA 2AVAA 2VSQA 3G28A 2BUOA 2XXMA 1Q82Q 1E0HA 3I56P 2DNWA 4PXHB 2LMLA 1A43A 1Q81Q 2KGAA 5KP8B 1QRJA 5HV8A 1Z6MA 2KWLA 3G26A 2JGPA 2MF4A 5JPAA 1AF8A 1EMVA 2KOOA 2XZ0D 2FQ0A 1M6EX 2KOPA 1M1KQ 3GJNA 3DS4A 3GZMA 2FQ2A 3CC4P 3LRYA 3Q20A 3G0VA 3DS3A 1VQ7P 2EIAA 2FVEA 2LIWA 2AF8A 2K5XA 2MD9A 4U0DA 3G4SP 4CA3A 1VQLP 1VKUA 1KLPA 4XFZA 1VQ9P 2N6YA 2BHVA 2ERHA 2KG8A 5I4TG 3NY7B 1RNIA 1K73Q
chains in the Genus database with same CATH topology
3CCRP 3CCMP 1A8OA 2EFJA 3DS5A 4U0EA 2M8PA 5F2KA 3CCJP 2OARA 5F2OA 3DS0A 1VQOP 1K8AQ 4XROA 3WBHA 1VQ6P 4PH0A 2JO0A 1Q7YQ 3MGEA 3P05A 3DTJA 2LF4A 2DGYA 1EOQA 1VQKP 1E6JP 3HYBA 1YITP 1KD1Q 1QVGO 3VRLC 1QVFO 1W2BO 3NTEA 1K9MQ 4QNBA 5F2NA 3CCQP 3E2DA 5BS1A 5DCKA 3CMAP 4WYMA 1D1DA 3CCEP 2M8LA 1ZMBA 3I55P 2PEQA 3G28A 1RO2A 2PY8A 3CD6P 2PEMA 3DS2A 2BUOA 1KC8Q 2XXMA 3CXCO 2Z45A 1Q82Q 3CPWO 2XT1A 3I56P 2PEJA 3OW2O 3G21A 3DS1A 3G1GA 2OTJP 3CMEP 1A43A 1Q81Q 2PENA 1QRJA 4U0BA 3G6EP 4M0IA 3CCLP 2ONTA 1M6NA 1BAJA 1YI2P 4PH1A 4IPYA 1JJ2O 3G26A 1VQPP 1VQ5P 2Z46A 5BS2A 1YJWP 5JPAA 3G1IA 2CWOA 5HGNA 3H4EA 3CCUP 1YIJP 1NJIQ 3G71P 2Z44A 3RG6C 2M8NA 2KODA 1M6EX 2PEIA 1YHQP 2OTLP 3M1MA 1YJ9P 1N8RQ 1M1KQ 2JYGA 3DS4A 1VQ8P 2P9XA 2PEOA 3CC4P 3LRYA 3Q20A 4GR2A 3HZQA 3G0VA 3DS3A 1AUMA 4XFYA 1VQ4P 1VQ7P 4U0CA 2JYLA 1VQNP 2EIAA 2E1MA 1M90Q 2L6EA 1S72P 4U0FA 3H47A 2QA4P 2PEKA 1Q86Q 2XV6A 3B5IA 2EG5A 1M74A 4U0DA 5HGMA 1KQSO 3G4SP 4XRQA 3H0DA 3CC7P 3G29A 1VQLP 3DPHA 4XFXA 3CCVP 4COPA 5HGOA 1IUQA 2QEXP 1VQMP 1YJNP 1K30A 4XFZA 1VQ9P 4COCA 4GR6A 4U0AA 3CC2P 1RO0A 5HGLA 3CCSP 2BHVA 5I4TG 1RNIA 1K73Q 1EIAA
chains in the Genus database with same CATH homology


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

 
#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...

Application loaded.