4ZBNA

Non-helical dna triplex forms a unique aptamer scaffold for high affinity recognition of nerve growth factor
Total Genus 15

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

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
EMPTYS4 (41-42)S3 (35-38)TVIII1 (13-16)TIV2 (43-48)S2 (27-29)S1 (17-22)TI1 (30-33)TIV3 (72-75)S7 (77-93)S6 (53-58)S8 (96-113)TII'1 (93-96)TI2 (73-76)TIV1 (22-25)TII1 (68-71)Updating...
connected with : NaN
publication title Non-helical DNA Triplex Forms a Unique Aptamer Scaffold for High Affinity Recognition of Nerve Growth Factor.
pubmed doi rcsb
molecule keywords DNA (28-MER)
molecule tags Immune system/dna
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
3BUKA 4MPLA 3S1KV 4EAXA 1REUA 4X1JA 1FLTV 1HCFA 1WQ8A 5BQBA 4AY9B 2R52A 5BQ8A 1HCNA 1QFWA 4MIDA 3MJKA 5HHXA 4YCIC 5HI3A 1HRPB 1B98A 4BV4L 5BQCA 5FV2V 1M4UL 3EO1C 3BDYV 2R53A 4AY9A 2VWEA 2B0UA 3B4VA 2H64A 1B8MB 5BPUA 3P9WA 1WQ9B 1TZIV 1FL7B 1HRPA 2QJAA 3MJGA 3RJRA 1TGKA 4EFVA 4LXRJ 4EC7A 1DZ7A 2PJYA 2QJ9A 5E4GA 1BNDA 5HK5A 1B8MA 1TFGA 5FV1V 2QJBA 1WQ9A 2XACA 5HHVA 2ARPA 1FL7A 3S1BV 4HQUA 1KATW 4KZNA 5F3HI 2TGIA 1LXIA 4YCGC 4FAOA 2QCWA 5HI4A 4UHZA 4HSAA 1KTZA 1BTGA 1VPPV 2VPFA 3FUBB 5HK5E 3QTKA 1BNDB 1TGJA 4WPBA 3V6BA 1JPYA 5JZ7A 1BJ1V 2V5EB 2BHKA 1REWA 1MKGA 4ZBNA 1TZHV 4KV5A 2QR0C 1AOCA 4HR9A 1ES7A 1PDGA 1RV6V 2ASKA 2QCQA 3E07A 4HQXA 1SG1A 1E9JA 4UI1A 5BQEB 1ZKZA 4UI2B 3IJ2A 1MKKA 3QB4A 2GOOA 3JVFA 4KXZA 4UI0A 4MQWB 1XWDB 2FJHV 3EVSB 4EDWV 5BQEA 2H62A 4ZFFC 2GNNA 1WWWV 1HD4A 1KLAA 4UHYA 2GYZA 2C7WA 2XV7A 4MQWA 1XWDA 2VXSA 1BMPA 3KFDA 5HHDA 2X1XE 2ARVA 5AEJA 4GLNE 3BMPA 1BETA 1M4UA 4EDXV 2FJGV 4QHUC 1CZ8V 1NYUB 1NYSB 2X1WA 5F3BC 3V2AA 3HH2A 1QTYR 2GYRA 1LX5A 3BK3A 1SGFB 1AGQA 2P6AA 2KD3A 1S4YB 4LXSJ 5HI5A 4QCIC 2GH0C 1VPFA 1NT3A 1B8KA 2IFGE 4XPJA 4GLSE 1MJVA 1WAQA 3SEKB 5BQ8D 5BQ8B 1HCNB 1QFWB 5HHCA 4QAFC 1FZVA 1KLCA 4N1DA
chains in the Genus database with same CATH superfamily
3BUKA 4MPLA 3S1KV 4EAXA 1REUA 4X1JA 1FLTV 1HCFA 1WQ8A 5BQBA 4AY9B 2R52A 5BQ8A 1HCNA 1QFWA 4MIDA 3MJKA 5HHXA 4YCIC 5HI3A 1HRPB 1B98A 4BV4L 5BQCA 5FV2V 1M4UL 3EO1C 3BDYV 2R53A 4AY9A 2VWEA 2B0UA 3B4VA 2H64A 1B8MB 5BPUA 3P9WA 1WQ9B 1TZIV 1FL7B 1HRPA 2QJAA 3MJGA 3RJRA 1TGKA 4EFVA 4LXRJ 4EC7A 1DZ7A 2PJYA 2QJ9A 5E4GA 1BNDA 5HK5A 1B8MA 1TFGA 5FV1V 2QJBA 1WQ9A 2XACA 5HHVA 2ARPA 1FL7A 3S1BV 4HQUA 1KATW 4KZNA 5F3HI 2TGIA 1LXIA 4YCGC 4FAOA 2QCWA 5HI4A 4UHZA 4HSAA 1KTZA 1BTGA 1VPPV 2VPFA 3FUBB 5HK5E 3QTKA 1BNDB 1TGJA 4WPBA 3V6BA 1JPYA 5JZ7A 1BJ1V 2V5EB 2BHKA 1REWA 1MKGA 4ZBNA 1TZHV 4KV5A 2QR0C 1AOCA 4HR9A 1ES7A 1PDGA 1RV6V 2ASKA 2QCQA 3E07A 4HQXA 1SG1A 1E9JA 4UI1A 5BQEB 1ZKZA 4UI2B 3IJ2A 1MKKA 3QB4A 2GOOA 3JVFA 4KXZA 4UI0A 4MQWB 1XWDB 2FJHV 3EVSB 4EDWV 5BQEA 2H62A 4ZFFC 2GNNA 1WWWV 1HD4A 1KLAA 4UHYA 2GYZA 2C7WA 2XV7A 4MQWA 1XWDA 2VXSA 1BMPA 3KFDA 5HHDA 2X1XE 2ARVA 5AEJA 4GLNE 3BMPA 1BETA 1M4UA 4EDXV 2FJGV 4QHUC 1CZ8V 1NYUB 1NYSB 2X1WA 5F3BC 3V2AA 3HH2A 1QTYR 2GYRA 1LX5A 3BK3A 1SGFB 1AGQA 2P6AA 2KD3A 1S4YB 4LXSJ 5HI5A 4QCIC 2GH0C 1VPFA 1NT3A 1B8KA 2IFGE 4XPJA 4GLSE 1MJVA 1WAQA 3SEKB 5BQ8D 5BQ8B 1HCNB 1QFWB 5HHCA 4QAFC 1FZVA 1KLCA 4N1DA
chains in the Genus database with same CATH topology
3BUKA 4MPLA 3S1KV 4EAXA 1REUA 4X1JA 1FLTV 1HCFA 1WQ8A 5BQBA 4AY9B 2R52A 5BQ8A 1HCNA 1QFWA 4MIDA 3MJKA 5HHXA 4YCIC 5HI3A 1HRPB 1B98A 4BV4L 5BQCA 5FV2V 1M4UL 3EO1C 3BDYV 2R53A 4AY9A 2VWEA 2B0UA 3B4VA 2H64A 1B8MB 5BPUA 3P9WA 1WQ9B 1TZIV 1FL7B 1HRPA 2QJAA 3MJGA 3RJRA 1TGKA 4EFVA 4LXRJ 4EC7A 1DZ7A 2PJYA 2QJ9A 5E4GA 1BNDA 5HK5A 1B8MA 1TFGA 5FV1V 2QJBA 1WQ9A 2XACA 5HHVA 2ARPA 1FL7A 3S1BV 4HQUA 1KATW 4KZNA 5F3HI 2TGIA 1LXIA 4YCGC 4FAOA 2QCWA 5HI4A 4UHZA 4HSAA 1KTZA 1BTGA 1VPPV 2VPFA 3FUBB 5HK5E 3QTKA 1BNDB 1TGJA 4WPBA 3V6BA 1JPYA 5JZ7A 1BJ1V 2V5EB 2BHKA 1REWA 1MKGA 4ZBNA 1TZHV 4KV5A 2QR0C 1AOCA 4HR9A 1ES7A 1PDGA 1RV6V 2ASKA 2QCQA 3E07A 4HQXA 1SG1A 1E9JA 4UI1A 5BQEB 1ZKZA 4UI2B 3IJ2A 1MKKA 3QB4A 2GOOA 3JVFA 4KXZA 4UI0A 4MQWB 1XWDB 2FJHV 3EVSB 4EDWV 5BQEA 2H62A 4ZFFC 2GNNA 1WWWV 1HD4A 1KLAA 4UHYA 2GYZA 2C7WA 2XV7A 4MQWA 1XWDA 2VXSA 1BMPA 3KFDA 5HHDA 2X1XE 2ARVA 5AEJA 4GLNE 3BMPA 1BETA 1M4UA 4EDXV 2FJGV 4QHUC 1CZ8V 1NYUB 1NYSB 2X1WA 5F3BC 3V2AA 3HH2A 1QTYR 2GYRA 1LX5A 3BK3A 1SGFB 1AGQA 2P6AA 2KD3A 1S4YB 4LXSJ 5HI5A 4QCIC 2GH0C 1VPFA 1NT3A 1B8KA 2IFGE 4XPJA 4GLSE 1MJVA 1WAQA 3SEKB 5BQ8D 5BQ8B 1HCNB 1QFWB 5HHCA 4QAFC 1FZVA 1KLCA 4N1DA
chains in the Genus database with same CATH homology


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