3LF9A

Crystal structure of hiv epitope-scaffold 4e10_d0_1is1a_001_c
Total Genus 51
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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
51
sequence length
120
structure length
120
Chain Sequence
MINEIKKDAQERMDKSVEALKNNLSKVRTGGGGTEERRKDLVKIVRGEAEGGRVAVRNIARDAANDLAALGKDKEVNWFDISQALWEIQKLTDVAVKKIDEVLAAKEKELMEVLEHHHHH
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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 keywords 4E10_D0_1IS1A_001_C (T161)
publication title Computational Design of Epitope-Scaffolds Allows Induction of Antibodies Specific for a Poorly Immunogenic HIV Vaccine Epitope.
pubmed doi rcsb
source organism Artificial gene
molecule tags Immune system
total genus 51
structure length 120
sequence length 120
ec nomenclature
pdb deposition date 2010-01-16
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
1.10.132.20 Mainly Alpha Orthogonal Bundle Topoisomerase I; Chain A, domain 4 Topoisomerase I; Chain A, domain 4 3lf9A00
1WQHA 1DD5A 4L8IA 4KB2A 1ISEA 5JSNB 4JLRC 1EK8A 3LF9A 4GFQA 1EH1A 4KC6A 1WQGA 5JSBB 1WQFA 1Y698 5MLC9 1GE9A 4KAWX 4KB4A 4KDDA 1IS1A 4OYDB 3LHPS
chains in the Genus database with same CATH superfamily
1SMYD 2PMZA 1A31A 3K5NA 1R9TA 2CW0D 2A6HD 1K4TA 2R92A 1ZYRD 3GTJA 4NOKA 5JSNB 3MAQA 2O5JD 2JA7A 4QIWA 2B9SB 1WQGA 2R93A 1Y698 1RR8C 1T8IA 4AYBA 1IS1A 3DU5A 3GTMA 3CQZA 3K58A 1Y1WA 1Y1VA 2B63A 1A35A 1I3QA 3K59A 1TWHA 2WAQA 2A69D 1EK8A 2Y0SA 3WVOA 3GTPA 4GFQA 2R7ZA 1EH1A 4KC6A 1TWCA 5CQGA 5JSBB 2WB1A 4FGUA 4D3YA 5MLC9 2VUMA 2JA5A 1TGOA 1GE9A 1TWFA 4F3EA 4FXDA 1HQMD 3M4AA 4EJ3A 1SEUA 2R4GA 1Q8IA 3K5OA 4NOLA 1WQHA 2JA6A 1R49A 3GTOA 1YNJD 2A68D 1YNND 3DU6A 4L8IA 3GTLA 4FYDA 4KB2A 1ISEA 4D3ZA 1MIUA 3GTKA 1RRJA 4JLRC 3K5MA 3IAYA 4AHCA 2YU9A 1A36A 1WCMA 4Q5GA 1K4SA 3GTQA 3FKIA 3GTGA 3HKZA 2NVYA 1LPQA 1SFOA 2NVXA 1K83A 4OYDB 1I6VD 1R5ZA 1TL8A 1NH3A 1TWGA 2E2HA 3H0GA 2F4QA 2A6ED 3K57A 1DD5A 1IW7D 3KYLA 4QCLA 4O26A 5C9HA 4IP9A 1I50A 1SC7A 3LF9A 4AN8A 4C2MA 4IP8A 1EJ9A 2E2IA 3SJRA 3K5LA 1WQFA 2BE5D 4NOMA 4KAWX 4H3TA 4KB4A 1V9MA 1TWAA 4KDDA 4LMOA 4Q5VA 3LHPS 3P9AA
chains in the Genus database with same CATH topology
1SMYD 2PMZA 1A31A 3K5NA 1R9TA 2CW0D 2A6HD 1K4TA 2R92A 1ZYRD 3GTJA 4NOKA 5JSNB 3MAQA 2O5JD 2JA7A 4QIWA 2B9SB 1WQGA 2R93A 1Y698 1RR8C 1T8IA 4AYBA 1IS1A 3DU5A 3GTMA 3CQZA 3K58A 1Y1WA 1Y1VA 2B63A 1A35A 1I3QA 3K59A 1TWHA 2WAQA 2A69D 1EK8A 2Y0SA 3WVOA 3GTPA 4GFQA 2R7ZA 1EH1A 4KC6A 1TWCA 5CQGA 5JSBB 2WB1A 4FGUA 4D3YA 5MLC9 2VUMA 2JA5A 1TGOA 1GE9A 1TWFA 4F3EA 4FXDA 1HQMD 3M4AA 4EJ3A 1SEUA 2R4GA 1Q8IA 3K5OA 4NOLA 1WQHA 2JA6A 1R49A 3GTOA 1YNJD 2A68D 1YNND 3DU6A 4L8IA 3GTLA 4FYDA 4KB2A 1ISEA 4D3ZA 1MIUA 3GTKA 1RRJA 4JLRC 3K5MA 3IAYA 4AHCA 2YU9A 1A36A 1WCMA 4Q5GA 1K4SA 3GTQA 3FKIA 3GTGA 3HKZA 2NVYA 1LPQA 1SFOA 2NVXA 1K83A 4OYDB 1I6VD 1R5ZA 1TL8A 1NH3A 1TWGA 2E2HA 3H0GA 2F4QA 2A6ED 3K57A 1DD5A 1IW7D 3KYLA 4QCLA 4O26A 5C9HA 4IP9A 1I50A 1SC7A 3LF9A 4AN8A 4C2MA 4IP8A 1EJ9A 2E2IA 3SJRA 3K5LA 1WQFA 2BE5D 4NOMA 4KAWX 4H3TA 4KB4A 1V9MA 1TWAA 4KDDA 4LMOA 4Q5VA 3LHPS 3P9AA
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 1WQH A;  1DD5 A;  4L8I A;  4KB2 A;  1ISE A;  5JSN B;  4JLR C;  1EK8 A;  3LF9 A;  4GFQ A;  1EH1 A;  4KC6 A;  1WQG A;  5JSB B;  1WQF A;  1Y69 8;  5MLC 9;  1GE9 A;  4KAW X;  4KB4 A;  4KDD A;  1IS1 A;  4OYD B;  3LHP S; 
#chains in the Genus database with same CATH topology
 1SMY D;  2PMZ A;  1A31 A;  3K5N A;  1R9T A;  2CW0 D;  2A6H D;  1K4T A;  2R92 A;  1ZYR D;  3GTJ A;  4NOK A;  5JSN B;  3MAQ A;  2O5J D;  2JA7 A;  4QIW A;  2B9S B;  1WQG A;  2R93 A;  1Y69 8;  1RR8 C;  1T8I A;  4AYB A;  1IS1 A;  3DU5 A;  3GTM A;  3CQZ A;  3K58 A;  1Y1W A;  1Y1V A;  2B63 A;  1A35 A;  1I3Q A;  3K59 A;  1TWH A;  2WAQ A;  2A69 D;  1EK8 A;  2Y0S A;  3WVO A;  3GTP A;  4GFQ A;  2R7Z A;  1EH1 A;  4KC6 A;  1TWC A;  5CQG A;  5JSB B;  2WB1 A;  4FGU A;  4D3Y A;  5MLC 9;  2VUM A;  2JA5 A;  1TGO A;  1GE9 A;  1TWF A;  4F3E A;  4FXD A;  1HQM D;  3M4A A;  4EJ3 A;  1SEU A;  2R4G A;  1Q8I A;  3K5O A;  4NOL A;  1WQH A;  2JA6 A;  1R49 A;  3GTO A;  1YNJ D;  2A68 D;  1YNN D;  3DU6 A;  4L8I A;  3GTL A;  4FYD A;  4KB2 A;  1ISE A;  4D3Z A;  1MIU A;  3GTK A;  1RRJ A;  4JLR C;  3K5M A;  3IAY A;  4AHC A;  2YU9 A;  1A36 A;  1WCM A;  4Q5G A;  1K4S A;  3GTQ A;  3FKI A;  3GTG A;  3HKZ A;  2NVY A;  1LPQ A;  1SFO A;  2NVX A;  1K83 A;  4OYD B;  1I6V D;  1R5Z A;  1TL8 A;  1NH3 A;  1TWG A;  2E2H A;  3H0G A;  2F4Q A;  2A6E D;  3K57 A;  1DD5 A;  1IW7 D;  3KYL A;  4QCL A;  4O26 A;  5C9H A;  4IP9 A;  1I50 A;  1SC7 A;  3LF9 A;  4AN8 A;  4C2M A;  4IP8 A;  1EJ9 A;  2E2I A;  3SJR A;  3K5L A;  1WQF A;  2BE5 D;  4NOM A;  4KAW X;  4H3T A;  4KB4 A;  1V9M A;  1TWA A;  4KDD A;  4LMO A;  4Q5V A;  3LHP S;  3P9A A; 
#chains in the Genus database with same CATH homology
 1SMY D;  2PMZ A;  1A31 A;  3K5N A;  1R9T A;  2CW0 D;  2A6H D;  1K4T A;  2R92 A;  1ZYR D;  3GTJ A;  4NOK A;  5JSN B;  3MAQ A;  2O5J D;  2JA7 A;  4QIW A;  2B9S B;  1WQG A;  2R93 A;  1Y69 8;  1RR8 C;  1T8I A;  4AYB A;  1IS1 A;  3DU5 A;  3GTM A;  3CQZ A;  3K58 A;  1Y1W A;  1Y1V A;  2B63 A;  1A35 A;  1I3Q A;  3K59 A;  1TWH A;  2WAQ A;  2A69 D;  1EK8 A;  2Y0S A;  3WVO A;  3GTP A;  4GFQ A;  2R7Z A;  1EH1 A;  4KC6 A;  1TWC A;  5CQG A;  5JSB B;  2WB1 A;  4FGU A;  4D3Y A;  5MLC 9;  2VUM A;  2JA5 A;  1TGO A;  1GE9 A;  1TWF A;  4F3E A;  4FXD A;  1HQM D;  3M4A A;  4EJ3 A;  1SEU A;  2R4G A;  1Q8I A;  3K5O A;  4NOL A;  1WQH A;  2JA6 A;  1R49 A;  3GTO A;  1YNJ D;  2A68 D;  1YNN D;  3DU6 A;  4L8I A;  3GTL A;  4FYD A;  4KB2 A;  1ISE A;  4D3Z A;  1MIU A;  3GTK A;  1RRJ A;  4JLR C;  3K5M A;  3IAY A;  4AHC A;  2YU9 A;  1A36 A;  1WCM A;  4Q5G A;  1K4S A;  3GTQ A;  3FKI A;  3GTG A;  3HKZ A;  2NVY A;  1LPQ A;  1SFO A;  2NVX A;  1K83 A;  4OYD B;  1I6V D;  1R5Z A;  1TL8 A;  1NH3 A;  1TWG A;  2E2H A;  3H0G A;  2F4Q A;  2A6E D;  3K57 A;  1DD5 A;  1IW7 D;  3KYL A;  4QCL A;  4O26 A;  5C9H A;  4IP9 A;  1I50 A;  1SC7 A;  3LF9 A;  4AN8 A;  4C2M A;  4IP8 A;  1EJ9 A;  2E2I A;  3SJR A;  3K5L A;  1WQF A;  2BE5 D;  4NOM A;  4KAW X;  4H3T A;  4KB4 A;  1V9M A;  1TWA A;  4KDD A;  4LMO A;  4Q5V A;  3LHP S;  3P9A 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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