4ZBNA

Non-helical dna triplex forms a unique aptamer scaffold for high affinity recognition of nerve growth factor
Total Genus 15
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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
15
sequence length
104
structure length
97
Chain Sequence
EFSVCDSVSVWVGDKTTATDIKGKEVMVLGEVNISVFKQYFFETKCRDSGCRGIDSKHWNSYCTTTHTFVKALTMDGKQAAWRFIRIDTACVCVLSR
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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/dna
molecule keywords DNA (28-MER)
publication title Non-helical DNA Triplex Forms a Unique Aptamer Scaffold for High Affinity Recognition of Nerve Growth Factor.
pubmed doi rcsb
source organism Homo sapiens
total genus 15
structure length 97
sequence length 104
chains with identical sequence B
ec nomenclature
pdb deposition date 2015-04-15

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF00243 NGF Nerve growth factor family
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
2.10.90.10 Mainly Beta Ribbon Cystine Knot Cytokines, subunit B Cystine-knot cytokines 4zbnA00
1B8MA 1JPYA 1ZKZA 2ASKA 4EDWV 5HHXA 2GH0C 5BQEB 4KZNA 1FLTV 2ARPA 4EDXV 3QTKA 4QCIC 3FUBB 4KXZA 3KFDA 2ARVA 1SG1A 1XWDA 3B4VA 4HQUA 3MJGA 1CZ8V 1WWWV 5HK5E 1B98A 1HCNA 2H62A 4ZBNA 1RV6V 2QCWA 2V5EB 1BMPA 1REUA 2GNNA 3V2AA 5E4GA 3BUKA 4LXRJ 1FL7B 5HHDA 1FZVA 3MJKA 1QFWB 5HHCA 2C7WA 1WAQA 2IFGE 4WPBA 4FAOA 1WQ9B 5F3HI 4BV4L 2XV7A 1E9JA 1KLCA 1REWA 5BQ8B 1DZ7A 4GLNE 5JZ7A 1QTYR 1M4UL 2QR0C 1BJ1V 3JVFA 2FJHV 1FL7A 3QB4A 1VPFA 4N1DA 3V6BA 5BQCA 1QFWA 2BHKA 1KLAA 2GYRA 3BMPA 1MKKA 2B0UA 1TGKA 1NT3A 3EVSB 4UI1A 5BQBA 5BQ8A 1NYUB 1LXIA 5HK5A 3HH2A 3S1BV 2R52A 3EO1C 1HD4A 5BQEA 4MQWB 1MJVA 1TZHV 4HQXA 3RJRA 2VXSA 4MPLA 4ZFFC 1AOCA 4EC7A 1PDGA 1MKGA 4LXSJ 4EAXA 1HRPB 4AY9B 2GOOA 2X1WA 5BQ8D 2VPFA 5FV1V 5BPUA 4MQWA 1WQ9A 1WQ8A 5HHVA 3SEKB 2X1XE 1B8MB 2QCQA 2TGIA 4EFVA 4UI2B 3BDYV 1BETA 4MIDA 1HRPA 4AY9A 2FJGV 4XPJA 4X1JA 5AEJA 1VPPV 1B8KA 3BK3A 1NYSB 5HI4A 4GLSE 1KATW 4UI0A 1AGQA 2R53A 4KV5A 3E07A 4HR9A 1BTGA 1TFGA 1M4UA 5F3BC 2GYZA 3IJ2A 3P9WA 1LX5A 2PJYA 1BNDB 2H64A 2P6AA 4YCIC 4QAFC 5HI3A 2QJBA 1KTZA 4QHUC 1TGJA 2QJ9A 1ES7A 2QJAA 4HSAA 4UHYA 1S4YB 2XACA 4UHZA 2VWEA 1HCFA 3S1KV 1SGFB 2KD3A 1TZIV 1XWDB 1BNDA 5HI5A 1HCNB 4YCGC 5FV2V
chains in the Genus database with same CATH superfamily
1B8MA 1JPYA 1ZKZA 2ASKA 4EDWV 5HHXA 2GH0C 5BQEB 4KZNA 1FLTV 2ARPA 4EDXV 3QTKA 4QCIC 3FUBB 4KXZA 3KFDA 2ARVA 1SG1A 1XWDA 3B4VA 4HQUA 3MJGA 1CZ8V 1WWWV 5HK5E 1B98A 1HCNA 2H62A 4ZBNA 1RV6V 2QCWA 2V5EB 1BMPA 1REUA 2GNNA 3V2AA 5E4GA 3BUKA 4LXRJ 1FL7B 5HHDA 1FZVA 3MJKA 1QFWB 5HHCA 2C7WA 1WAQA 2IFGE 4WPBA 4FAOA 1WQ9B 5F3HI 4BV4L 2XV7A 1E9JA 1KLCA 1REWA 5BQ8B 1DZ7A 4GLNE 5JZ7A 1QTYR 1M4UL 2QR0C 1BJ1V 3JVFA 2FJHV 1FL7A 3QB4A 1VPFA 4N1DA 3V6BA 5BQCA 1QFWA 2BHKA 1KLAA 2GYRA 3BMPA 1MKKA 2B0UA 1TGKA 1NT3A 3EVSB 4UI1A 5BQBA 5BQ8A 1NYUB 1LXIA 5HK5A 3HH2A 3S1BV 2R52A 3EO1C 1HD4A 5BQEA 4MQWB 1MJVA 1TZHV 4HQXA 3RJRA 2VXSA 4MPLA 4ZFFC 1AOCA 4EC7A 1PDGA 1MKGA 4LXSJ 4EAXA 1HRPB 4AY9B 2GOOA 2X1WA 5BQ8D 2VPFA 5FV1V 5BPUA 4MQWA 1WQ9A 1WQ8A 5HHVA 3SEKB 2X1XE 1B8MB 2QCQA 2TGIA 4EFVA 4UI2B 3BDYV 1BETA 4MIDA 1HRPA 4AY9A 2FJGV 4XPJA 4X1JA 5AEJA 1VPPV 1B8KA 3BK3A 1NYSB 5HI4A 4GLSE 1KATW 4UI0A 1AGQA 2R53A 4KV5A 3E07A 4HR9A 1BTGA 1TFGA 1M4UA 5F3BC 2GYZA 3IJ2A 3P9WA 1LX5A 2PJYA 1BNDB 2H64A 2P6AA 4YCIC 4QAFC 5HI3A 2QJBA 1KTZA 4QHUC 1TGJA 2QJ9A 1ES7A 2QJAA 4HSAA 4UHYA 1S4YB 2XACA 4UHZA 2VWEA 1HCFA 3S1KV 1SGFB 2KD3A 1TZIV 1XWDB 1BNDA 5HI5A 1HCNB 4YCGC 5FV2V
chains in the Genus database with same CATH topology
1B8MA 1JPYA 1ZKZA 2ASKA 4EDWV 5HHXA 2GH0C 5BQEB 4KZNA 1FLTV 2ARPA 4EDXV 3QTKA 4QCIC 3FUBB 4KXZA 3KFDA 2ARVA 1SG1A 1XWDA 3B4VA 4HQUA 3MJGA 1CZ8V 1WWWV 5HK5E 1B98A 1HCNA 2H62A 4ZBNA 1RV6V 2QCWA 2V5EB 1BMPA 1REUA 2GNNA 3V2AA 5E4GA 3BUKA 4LXRJ 1FL7B 5HHDA 1FZVA 3MJKA 1QFWB 5HHCA 2C7WA 1WAQA 2IFGE 4WPBA 4FAOA 1WQ9B 5F3HI 4BV4L 2XV7A 1E9JA 1KLCA 1REWA 5BQ8B 1DZ7A 4GLNE 5JZ7A 1QTYR 1M4UL 2QR0C 1BJ1V 3JVFA 2FJHV 1FL7A 3QB4A 1VPFA 4N1DA 3V6BA 5BQCA 1QFWA 2BHKA 1KLAA 2GYRA 3BMPA 1MKKA 2B0UA 1TGKA 1NT3A 3EVSB 4UI1A 5BQBA 5BQ8A 1NYUB 1LXIA 5HK5A 3HH2A 3S1BV 2R52A 3EO1C 1HD4A 5BQEA 4MQWB 1MJVA 1TZHV 4HQXA 3RJRA 2VXSA 4MPLA 4ZFFC 1AOCA 4EC7A 1PDGA 1MKGA 4LXSJ 4EAXA 1HRPB 4AY9B 2GOOA 2X1WA 5BQ8D 2VPFA 5FV1V 5BPUA 4MQWA 1WQ9A 1WQ8A 5HHVA 3SEKB 2X1XE 1B8MB 2QCQA 2TGIA 4EFVA 4UI2B 3BDYV 1BETA 4MIDA 1HRPA 4AY9A 2FJGV 4XPJA 4X1JA 5AEJA 1VPPV 1B8KA 3BK3A 1NYSB 5HI4A 4GLSE 1KATW 4UI0A 1AGQA 2R53A 4KV5A 3E07A 4HR9A 1BTGA 1TFGA 1M4UA 5F3BC 2GYZA 3IJ2A 3P9WA 1LX5A 2PJYA 1BNDB 2H64A 2P6AA 4YCIC 4QAFC 5HI3A 2QJBA 1KTZA 4QHUC 1TGJA 2QJ9A 1ES7A 2QJAA 4HSAA 4UHYA 1S4YB 2XACA 4UHZA 2VWEA 1HCFA 3S1KV 1SGFB 2KD3A 1TZIV 1XWDB 1BNDA 5HI5A 1HCNB 4YCGC 5FV2V
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 1B8M A;  1JPY A;  1ZKZ A;  2ASK A;  4EDW V;  5HHX A;  2GH0 C;  5BQE B;  4KZN A;  1FLT V;  2ARP A;  4EDX V;  3QTK A;  4QCI C;  3FUB B;  4KXZ A;  3KFD A;  2ARV A;  1SG1 A;  1XWD A;  3B4V A;  4HQU A;  3MJG A;  1CZ8 V;  1WWW V;  5HK5 E;  1B98 A;  1HCN A;  2H62 A;  4ZBN A;  1RV6 V;  2QCW A;  2V5E B;  1BMP A;  1REU A;  2GNN A;  3V2A A;  5E4G A;  3BUK A;  4LXR J;  1FL7 B;  5HHD A;  1FZV A;  3MJK A;  1QFW B;  5HHC A;  2C7W A;  1WAQ A;  2IFG E;  4WPB A;  4FAO A;  1WQ9 B;  5F3H I;  4BV4 L;  2XV7 A;  1E9J A;  1KLC A;  1REW A;  5BQ8 B;  1DZ7 A;  4GLN E;  5JZ7 A;  1QTY R;  1M4U L;  2QR0 C;  1BJ1 V;  3JVF A;  2FJH V;  1FL7 A;  3QB4 A;  1VPF A;  4N1D A;  3V6B A;  5BQC A;  1QFW A;  2BHK A;  1KLA A;  2GYR A;  3BMP A;  1MKK A;  2B0U A;  1TGK A;  1NT3 A;  3EVS B;  4UI1 A;  5BQB A;  5BQ8 A;  1NYU B;  1LXI A;  5HK5 A;  3HH2 A;  3S1B V;  2R52 A;  3EO1 C;  1HD4 A;  5BQE A;  4MQW B;  1MJV A;  1TZH V;  4HQX A;  3RJR A;  2VXS A;  4MPL A;  4ZFF C;  1AOC A;  4EC7 A;  1PDG A;  1MKG A;  4LXS J;  4EAX A;  1HRP B;  4AY9 B;  2GOO A;  2X1W A;  5BQ8 D;  2VPF A;  5FV1 V;  5BPU A;  4MQW A;  1WQ9 A;  1WQ8 A;  5HHV A;  3SEK B;  2X1X E;  1B8M B;  2QCQ A;  2TGI A;  4EFV A;  4UI2 B;  3BDY V;  1BET A;  4MID A;  1HRP A;  4AY9 A;  2FJG V;  4XPJ A;  4X1J A;  5AEJ A;  1VPP V;  1B8K A;  3BK3 A;  1NYS B;  5HI4 A;  4GLS E;  1KAT W;  4UI0 A;  1AGQ A;  2R53 A;  4KV5 A;  3E07 A;  4HR9 A;  1BTG A;  1TFG A;  1M4U A;  5F3B C;  2GYZ A;  3IJ2 A;  3P9W A;  1LX5 A;  2PJY A;  1BND B;  2H64 A;  2P6A A;  4YCI C;  4QAF C;  5HI3 A;  2QJB A;  1KTZ A;  4QHU C;  1TGJ A;  2QJ9 A;  1ES7 A;  2QJA A;  4HSA A;  4UHY A;  1S4Y B;  2XAC A;  4UHZ A;  2VWE A;  1HCF A;  3S1K V;  1SGF B;  2KD3 A;  1TZI V;  1XWD B;  1BND A;  5HI5 A;  1HCN B;  4YCG C;  5FV2 V; 
#chains in the Genus database with same CATH topology
 1B8M A;  1JPY A;  1ZKZ A;  2ASK A;  4EDW V;  5HHX A;  2GH0 C;  5BQE B;  4KZN A;  1FLT V;  2ARP A;  4EDX V;  3QTK A;  4QCI C;  3FUB B;  4KXZ A;  3KFD A;  2ARV A;  1SG1 A;  1XWD A;  3B4V A;  4HQU A;  3MJG A;  1CZ8 V;  1WWW V;  5HK5 E;  1B98 A;  1HCN A;  2H62 A;  4ZBN A;  1RV6 V;  2QCW A;  2V5E B;  1BMP A;  1REU A;  2GNN A;  3V2A A;  5E4G A;  3BUK A;  4LXR J;  1FL7 B;  5HHD A;  1FZV A;  3MJK A;  1QFW B;  5HHC A;  2C7W A;  1WAQ A;  2IFG E;  4WPB A;  4FAO A;  1WQ9 B;  5F3H I;  4BV4 L;  2XV7 A;  1E9J A;  1KLC A;  1REW A;  5BQ8 B;  1DZ7 A;  4GLN E;  5JZ7 A;  1QTY R;  1M4U L;  2QR0 C;  1BJ1 V;  3JVF A;  2FJH V;  1FL7 A;  3QB4 A;  1VPF A;  4N1D A;  3V6B A;  5BQC A;  1QFW A;  2BHK A;  1KLA A;  2GYR A;  3BMP A;  1MKK A;  2B0U A;  1TGK A;  1NT3 A;  3EVS B;  4UI1 A;  5BQB A;  5BQ8 A;  1NYU B;  1LXI A;  5HK5 A;  3HH2 A;  3S1B V;  2R52 A;  3EO1 C;  1HD4 A;  5BQE A;  4MQW B;  1MJV A;  1TZH V;  4HQX A;  3RJR A;  2VXS A;  4MPL A;  4ZFF C;  1AOC A;  4EC7 A;  1PDG A;  1MKG A;  4LXS J;  4EAX A;  1HRP B;  4AY9 B;  2GOO A;  2X1W A;  5BQ8 D;  2VPF A;  5FV1 V;  5BPU A;  4MQW A;  1WQ9 A;  1WQ8 A;  5HHV A;  3SEK B;  2X1X E;  1B8M B;  2QCQ A;  2TGI A;  4EFV A;  4UI2 B;  3BDY V;  1BET A;  4MID A;  1HRP A;  4AY9 A;  2FJG V;  4XPJ A;  4X1J A;  5AEJ A;  1VPP V;  1B8K A;  3BK3 A;  1NYS B;  5HI4 A;  4GLS E;  1KAT W;  4UI0 A;  1AGQ A;  2R53 A;  4KV5 A;  3E07 A;  4HR9 A;  1BTG A;  1TFG A;  1M4U A;  5F3B C;  2GYZ A;  3IJ2 A;  3P9W A;  1LX5 A;  2PJY A;  1BND B;  2H64 A;  2P6A A;  4YCI C;  4QAF C;  5HI3 A;  2QJB A;  1KTZ A;  4QHU C;  1TGJ A;  2QJ9 A;  1ES7 A;  2QJA A;  4HSA A;  4UHY A;  1S4Y B;  2XAC A;  4UHZ A;  2VWE A;  1HCF A;  3S1K V;  1SGF B;  2KD3 A;  1TZI V;  1XWD B;  1BND A;  5HI5 A;  1HCN B;  4YCG C;  5FV2 V; 
#chains in the Genus database with same CATH homology
 1B8M A;  1JPY A;  1ZKZ A;  2ASK A;  4EDW V;  5HHX A;  2GH0 C;  5BQE B;  4KZN A;  1FLT V;  2ARP A;  4EDX V;  3QTK A;  4QCI C;  3FUB B;  4KXZ A;  3KFD A;  2ARV A;  1SG1 A;  1XWD A;  3B4V A;  4HQU A;  3MJG A;  1CZ8 V;  1WWW V;  5HK5 E;  1B98 A;  1HCN A;  2H62 A;  4ZBN A;  1RV6 V;  2QCW A;  2V5E B;  1BMP A;  1REU A;  2GNN A;  3V2A A;  5E4G A;  3BUK A;  4LXR J;  1FL7 B;  5HHD A;  1FZV A;  3MJK A;  1QFW B;  5HHC A;  2C7W A;  1WAQ A;  2IFG E;  4WPB A;  4FAO A;  1WQ9 B;  5F3H I;  4BV4 L;  2XV7 A;  1E9J A;  1KLC A;  1REW A;  5BQ8 B;  1DZ7 A;  4GLN E;  5JZ7 A;  1QTY R;  1M4U L;  2QR0 C;  1BJ1 V;  3JVF A;  2FJH V;  1FL7 A;  3QB4 A;  1VPF A;  4N1D A;  3V6B A;  5BQC A;  1QFW A;  2BHK A;  1KLA A;  2GYR A;  3BMP A;  1MKK A;  2B0U A;  1TGK A;  1NT3 A;  3EVS B;  4UI1 A;  5BQB A;  5BQ8 A;  1NYU B;  1LXI A;  5HK5 A;  3HH2 A;  3S1B V;  2R52 A;  3EO1 C;  1HD4 A;  5BQE A;  4MQW B;  1MJV A;  1TZH V;  4HQX A;  3RJR A;  2VXS A;  4MPL A;  4ZFF C;  1AOC A;  4EC7 A;  1PDG A;  1MKG A;  4LXS J;  4EAX A;  1HRP B;  4AY9 B;  2GOO A;  2X1W A;  5BQ8 D;  2VPF A;  5FV1 V;  5BPU A;  4MQW A;  1WQ9 A;  1WQ8 A;  5HHV A;  3SEK B;  2X1X E;  1B8M B;  2QCQ A;  2TGI A;  4EFV A;  4UI2 B;  3BDY V;  1BET A;  4MID A;  1HRP A;  4AY9 A;  2FJG V;  4XPJ A;  4X1J A;  5AEJ A;  1VPP V;  1B8K A;  3BK3 A;  1NYS B;  5HI4 A;  4GLS E;  1KAT W;  4UI0 A;  1AGQ A;  2R53 A;  4KV5 A;  3E07 A;  4HR9 A;  1BTG A;  1TFG A;  1M4U A;  5F3B C;  2GYZ A;  3IJ2 A;  3P9W A;  1LX5 A;  2PJY A;  1BND B;  2H64 A;  2P6A A;  4YCI C;  4QAF C;  5HI3 A;  2QJB A;  1KTZ A;  4QHU C;  1TGJ A;  2QJ9 A;  1ES7 A;  2QJA A;  4HSA A;  4UHY A;  1S4Y B;  2XAC A;  4UHZ A;  2VWE A;  1HCF A;  3S1K V;  1SGF B;  2KD3 A;  1TZI V;  1XWD B;  1BND A;  5HI5 A;  1HCN B;  4YCG C;  5FV2 V; 
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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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