4EDXV

Nerve growth factor in complex with fab from mouse mab 911
Total Genus 8
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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
8
sequence length
107
structure length
101
Chain Sequence
GEFSVCDSVSVWVGDKTTATDIKGKEVMVLGEVNINNSVFKQYFFETKCRDGCRGIDSKHWNSYCTTTHTFVKALTMDGKQAAWRFIRIDTACVCVLSRKA
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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 Beta-nerve growth factor
publication title Generation of a high-fidelity antibody against nerve growth factor using library scanning mutagenesis and validation with structures of the initial and optimized Fab-antigen complexes.
pubmed rcsb
source organism Homo sapiens
total genus 8
structure length 101
sequence length 107
chains with identical sequence W
ec nomenclature
pdb deposition date 2012-03-27

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
V 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 4edxV00
4EFVA 4HR9A 2VXSA 4FAOA 4EDWV 2V5EB 4BV4L 1BMPA 2KD3A 2B0UA 3EO1C 1LX5A 3BUKA 4KXZA 4QAFC 4ZBNA 4X1JA 4WPBA 4UHYA 2GNNA 2XACA 5BQCA 2PJYA 1B8KA 3MJGA 5FV1V 1QFWA 1QFWB 3KFDA 3V6BA 1FZVA 3P9WA 3S1KV 5AEJA 2GOOA 5F3BC 1AGQA 4GLNE 5BQEA 5BQEB 3BDYV 5HI3A 1NT3A 2X1XE 4YCIC 1TFGA 3E07A 2R53A 3BK3A 5JZ7A 1KLAA 1KLCA 4EAXA 3QB4A 4N1DA 1ES7A 5BPUA 1BTGA 3EVSB 1WQ9A 1WQ9B 4KZNA 4LXSJ 3JVFA 4KV5A 2P6AA 2QJAA 1KATW 2XV7A 5FV2V 1HD4A 5HHDA 1B98A 2QCQA 5BQ8B 1REUA 5BQ8A 1MKGA 1AOCA 1M4UA 1MJVA 1TGKA 5HHXA 1KTZA 2TGIA 3B4VA 1BJ1V 1QTYR 1TZIV 2C7WA 1XWDA 1XWDB 1E9JA 4EC7A 1WQ8A 2QJBA 5HI4A 1CZ8V 4QCIC 1TZHV 3BMPA 1BETA 3QTKA 3SEKB 5HI5A 2ASKA 2FJGV 1DZ7A 1MKKA 4LXRJ 4HSAA 4UHZA 2FJHV 5HK5A 4GLSE 2QCWA 1WAQA 1HCFA 1S4YB 1REWA 4MPLA 4AY9A 4AY9B 2R52A 1FLTV 1VPPV 5HHVA 4EDXV 4UI2B 4UI0A 1JPYA 4HQUA 2H64A 4UI1A 4MIDA 2VPFA 2X1WA 3MJKA 4XPJA 4MQWA 1SGFB 4MQWB 1NYUB 4ZFFC 3RJRA 2IFGE 1HCNA 1HCNB 5BQBA 1ZKZA 5E4GA 3V2AA 2ARVA 2GYZA 1LXIA 5F3HI 3FUBB 4YCGC 2BHKA 5HK5E 1TGJA 4HQXA 1M4UL 2ARPA 2QJ9A 5HHCA 2QR0C 1B8MA 1B8MB 3IJ2A 2GH0C 1NYSB 2H62A 3S1BV 2VWEA 3HH2A 1WWWV 1PDGA 1FL7A 1FL7B 4QHUC 1RV6V 2GYRA 5BQ8D 1SG1A 1BNDA 1BNDB 1VPFA 1HRPA 1HRPB
chains in the Genus database with same CATH superfamily
4EFVA 4HR9A 2VXSA 4FAOA 4EDWV 2V5EB 4BV4L 1BMPA 2KD3A 2B0UA 3EO1C 1LX5A 3BUKA 4KXZA 4QAFC 4ZBNA 4X1JA 4WPBA 4UHYA 2GNNA 2XACA 5BQCA 2PJYA 1B8KA 3MJGA 5FV1V 1QFWA 1QFWB 3KFDA 3V6BA 1FZVA 3P9WA 3S1KV 5AEJA 2GOOA 5F3BC 1AGQA 4GLNE 5BQEA 5BQEB 3BDYV 5HI3A 1NT3A 2X1XE 4YCIC 1TFGA 3E07A 2R53A 3BK3A 5JZ7A 1KLAA 1KLCA 4EAXA 3QB4A 4N1DA 1ES7A 5BPUA 1BTGA 3EVSB 1WQ9A 1WQ9B 4KZNA 4LXSJ 3JVFA 4KV5A 2P6AA 2QJAA 1KATW 2XV7A 5FV2V 1HD4A 5HHDA 1B98A 2QCQA 5BQ8B 1REUA 5BQ8A 1MKGA 1AOCA 1M4UA 1MJVA 1TGKA 5HHXA 1KTZA 2TGIA 3B4VA 1BJ1V 1QTYR 1TZIV 2C7WA 1XWDA 1XWDB 1E9JA 4EC7A 1WQ8A 2QJBA 5HI4A 1CZ8V 4QCIC 1TZHV 3BMPA 1BETA 3QTKA 3SEKB 5HI5A 2ASKA 2FJGV 1DZ7A 1MKKA 4LXRJ 4HSAA 4UHZA 2FJHV 5HK5A 4GLSE 2QCWA 1WAQA 1HCFA 1S4YB 1REWA 4MPLA 4AY9A 4AY9B 2R52A 1FLTV 1VPPV 5HHVA 4EDXV 4UI2B 4UI0A 1JPYA 4HQUA 2H64A 4UI1A 4MIDA 2VPFA 2X1WA 3MJKA 4XPJA 4MQWA 1SGFB 4MQWB 1NYUB 4ZFFC 3RJRA 2IFGE 1HCNA 1HCNB 5BQBA 1ZKZA 5E4GA 3V2AA 2ARVA 2GYZA 1LXIA 5F3HI 3FUBB 4YCGC 2BHKA 5HK5E 1TGJA 4HQXA 1M4UL 2ARPA 2QJ9A 5HHCA 2QR0C 1B8MA 1B8MB 3IJ2A 2GH0C 1NYSB 2H62A 3S1BV 2VWEA 3HH2A 1WWWV 1PDGA 1FL7A 1FL7B 4QHUC 1RV6V 2GYRA 5BQ8D 1SG1A 1BNDA 1BNDB 1VPFA 1HRPA 1HRPB
chains in the Genus database with same CATH topology
4EFVA 4HR9A 2VXSA 4FAOA 4EDWV 2V5EB 4BV4L 1BMPA 2KD3A 2B0UA 3EO1C 1LX5A 3BUKA 4KXZA 4QAFC 4ZBNA 4X1JA 4WPBA 4UHYA 2GNNA 2XACA 5BQCA 2PJYA 1B8KA 3MJGA 5FV1V 1QFWA 1QFWB 3KFDA 3V6BA 1FZVA 3P9WA 3S1KV 5AEJA 2GOOA 5F3BC 1AGQA 4GLNE 5BQEA 5BQEB 3BDYV 5HI3A 1NT3A 2X1XE 4YCIC 1TFGA 3E07A 2R53A 3BK3A 5JZ7A 1KLAA 1KLCA 4EAXA 3QB4A 4N1DA 1ES7A 5BPUA 1BTGA 3EVSB 1WQ9A 1WQ9B 4KZNA 4LXSJ 3JVFA 4KV5A 2P6AA 2QJAA 1KATW 2XV7A 5FV2V 1HD4A 5HHDA 1B98A 2QCQA 5BQ8B 1REUA 5BQ8A 1MKGA 1AOCA 1M4UA 1MJVA 1TGKA 5HHXA 1KTZA 2TGIA 3B4VA 1BJ1V 1QTYR 1TZIV 2C7WA 1XWDA 1XWDB 1E9JA 4EC7A 1WQ8A 2QJBA 5HI4A 1CZ8V 4QCIC 1TZHV 3BMPA 1BETA 3QTKA 3SEKB 5HI5A 2ASKA 2FJGV 1DZ7A 1MKKA 4LXRJ 4HSAA 4UHZA 2FJHV 5HK5A 4GLSE 2QCWA 1WAQA 1HCFA 1S4YB 1REWA 4MPLA 4AY9A 4AY9B 2R52A 1FLTV 1VPPV 5HHVA 4EDXV 4UI2B 4UI0A 1JPYA 4HQUA 2H64A 4UI1A 4MIDA 2VPFA 2X1WA 3MJKA 4XPJA 4MQWA 1SGFB 4MQWB 1NYUB 4ZFFC 3RJRA 2IFGE 1HCNA 1HCNB 5BQBA 1ZKZA 5E4GA 3V2AA 2ARVA 2GYZA 1LXIA 5F3HI 3FUBB 4YCGC 2BHKA 5HK5E 1TGJA 4HQXA 1M4UL 2ARPA 2QJ9A 5HHCA 2QR0C 1B8MA 1B8MB 3IJ2A 2GH0C 1NYSB 2H62A 3S1BV 2VWEA 3HH2A 1WWWV 1PDGA 1FL7A 1FL7B 4QHUC 1RV6V 2GYRA 5BQ8D 1SG1A 1BNDA 1BNDB 1VPFA 1HRPA 1HRPB
chains in the Genus database with same CATH homology


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