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 tags Immune system
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
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
1Y698 3LF9A 1WQHA 1WQFA 5JSNB 1EK8A 4OYDB 5MLC9 1IS1A 1ISEA 4KB2A 3LHPS 4KC6A 4GFQA 4KDDA 4KB4A 1GE9A 4KAWX 5JSBB 1DD5A 4JLRC 4L8IA 1WQGA 1EH1A
chains in the Genus database with same CATH superfamily
1TWCA 3K5OA 4AN8A 2E2IA 2A68D 1WCMA 1NH3A 4IP9A 2VUMA 1A31A 1V9MA 5MLC9 2B63A 3LHPS 3DU5A 4KC6A 1R9TA 4GFQA 1K4TA 1SEUA 3M4AA 1Q8IA 3GTQA 1T8IA 4NOKA 4QCLA 2NVXA 3SJRA 3DU6A 2JA7A 4IP8A 2YU9A 4Q5VA 1EH1A 1Y698 2A69D 1TWHA 4QIWA 3K5LA 3GTGA 3LF9A 3K5MA 3K59A 1I50A 4H3TA 4FYDA 1EK8A 1YNND 3H0GA 3GTJA 1TGOA 2R92A 2A6ED 1ISEA 1MIUA 3K5NA 2JA6A 2E2HA 4FGUA 1RRJA 4Q5GA 2R7ZA 4AYBA 1R5ZA 4KAWX 1K83A 3K58A 3IAYA 1A36A 4C2MA 1I3QA 1TL8A 1DD5A 4NOLA 2JA5A 3WVOA 2A6HD 1HQMD 1ZYRD 2CW0D 1A35A 1Y1WA 2NVYA 1WQFA 5CQGA 1IW7D 4OYDB 2WB1A 1IS1A 2Y0SA 4KB2A 1Y1VA 4NOMA 3GTMA 3GTLA 2BE5D 1LPQA 4O26A 2O5JD 2WAQA 3KYLA 1GE9A 4EJ3A 5JSBB 4D3ZA 1TWAA 4L8IA 1WQGA 3GTKA 4F3EA 1WQHA 1K4SA 4FXDA 1I6VD 1R49A 1SMYD 3FKIA 5JSNB 4AHCA 5C9HA 3P9AA 1SFOA 2F4QA 2R93A 2PMZA 2R4GA 1TWGA 4KDDA 1SC7A 3K57A 2B9SB 1TWFA 1YNJD 3HKZA 4KB4A 4LMOA 3GTOA 3GTPA 1EJ9A 3CQZA 3MAQA 4JLRC 1RR8C 4D3YA
chains in the Genus database with same CATH topology
1TWCA 3K5OA 4AN8A 2E2IA 2A68D 1WCMA 1NH3A 4IP9A 2VUMA 1A31A 1V9MA 5MLC9 2B63A 3LHPS 3DU5A 4KC6A 1R9TA 4GFQA 1K4TA 1SEUA 3M4AA 1Q8IA 3GTQA 1T8IA 4NOKA 4QCLA 2NVXA 3SJRA 3DU6A 2JA7A 4IP8A 2YU9A 4Q5VA 1EH1A 1Y698 2A69D 1TWHA 4QIWA 3K5LA 3GTGA 3LF9A 3K5MA 3K59A 1I50A 4H3TA 4FYDA 1EK8A 1YNND 3H0GA 3GTJA 1TGOA 2R92A 2A6ED 1ISEA 1MIUA 3K5NA 2JA6A 2E2HA 4FGUA 1RRJA 4Q5GA 2R7ZA 4AYBA 1R5ZA 4KAWX 1K83A 3K58A 3IAYA 1A36A 4C2MA 1I3QA 1TL8A 1DD5A 4NOLA 2JA5A 3WVOA 2A6HD 1HQMD 1ZYRD 2CW0D 1A35A 1Y1WA 2NVYA 1WQFA 5CQGA 1IW7D 4OYDB 2WB1A 1IS1A 2Y0SA 4KB2A 1Y1VA 4NOMA 3GTMA 3GTLA 2BE5D 1LPQA 4O26A 2O5JD 2WAQA 3KYLA 1GE9A 4EJ3A 5JSBB 4D3ZA 1TWAA 4L8IA 1WQGA 3GTKA 4F3EA 1WQHA 1K4SA 4FXDA 1I6VD 1R49A 1SMYD 3FKIA 5JSNB 4AHCA 5C9HA 3P9AA 1SFOA 2F4QA 2R93A 2PMZA 2R4GA 1TWGA 4KDDA 1SC7A 3K57A 2B9SB 1TWFA 1YNJD 3HKZA 4KB4A 4LMOA 3GTOA 3GTPA 1EJ9A 3CQZA 3MAQA 4JLRC 1RR8C 4D3YA
chains in the Genus database with same CATH homology


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