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


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