3QTKA

The crystal structure of chemically synthesized vegf-a
Total Genus 17
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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
17
sequence length
96
structure length
96
Chain Sequence
VVKFMDVYQRSYCHPIETLVDIFQEYPDEIEYIFKPSCVPLMRCGGCCNDEGLECVPTEESNITMQIMRIKPHQGQHIGEMSFLQHNKCECRPKKD
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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 Hormone
molecule keywords Vascular endothelial growth factor A
publication title Total chemical synthesis of biologically active vascular endothelial growth factor.
pubmed doi rcsb
total genus 17
structure length 96
sequence length 96
chains with identical sequence B, C, D, E, F
ec nomenclature
pdb deposition date 2011-02-22

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF00341 PDGF PDGF/VEGF domain
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 3qtkA00
2QJAA 3BDYV 4MQWB 3BMPA 1TGJA 5BPUA 2ASKA 3E07A 4HQXA 1AGQA 2R52A 4QCIC 1JPYA 2H62A 2BHKA 1XWDB 4BV4L 5AEJA 1KATW 5HK5E 4KXZA 3EO1C 5HHCA 5BQ8B 4LXRJ 5BQ8D 1VPPV 2FJHV 2VXSA 1XWDA 4MIDA 2GNNA 1WQ9B 4QHUC 4N1DA 3S1BV 4KV5A 1TFGA 1MKKA 1TZHV 5BQEB 5BQ8A 5BQBA 1BMPA 1FZVA 3MJGA 1HCNB 4YCGC 1WQ9A 1M4UA 5FV2V 5BQEA 5F3BC 2QJ9A 3IJ2A 1RV6V 1TGKA 4EAXA 4YCIC 1E9JA 1ES7A 2PJYA 3V2AA 1LX5A 1HCNA 4UHZA 5JZ7A 2X1XE 3QB4A 1M4UL 5HHXA 1SGFB 3EVSB 3SEKB 5HHDA 2P6AA 2IFGE 3P9WA 2R53A 4ZBNA 1KLAA 1REWA 3KFDA 3BK3A 4UI1A 5HHVA 2FJGV 2QJBA 1REUA 4HQUA 1WAQA 2B0UA 2GH0C 4WPBA 1WQ8A 2V5EB 4AY9A 4UI2B 4UHYA 2XV7A 1ZKZA 1QTYR 2ARVA 1HD4A 3QTKA 1FLTV 2ARPA 2GYZA 5HI4A 1BETA 2QR0C 1HCFA 2TGIA 1KLCA 2QCWA 1AOCA 4ZFFC 1B8KA 1FL7B 2GYRA 4FAOA 1S4YB 1CZ8V 1SG1A 4MPLA 1BJ1V 3BUKA 4KZNA 4AY9B 5HI5A 1B98A 3FUBB 1MJVA 2VWEA 3MJKA 4HSAA 1FL7A 4EC7A 3V6BA 1HRPA 2KD3A 1B8MB 1WWWV 1BNDB 5F3HI 1LXIA 3B4VA 4EFVA 2H64A 2GOOA 5E4GA 2VPFA 4MQWA 4GLSE 1NT3A 4UI0A 1QFWB 1B8MA 1BNDA 5HI3A 3JVFA 5HK5A 4EDWV 1NYSB 4XPJA 1PDGA 1TZIV 2X1WA 1NYUB 4QAFC 4EDXV 5BQCA 1HRPB 4LXSJ 4X1JA 3S1KV 1QFWA 5FV1V 3RJRA 2XACA 1DZ7A 3HH2A 1BTGA 2QCQA 4GLNE 4HR9A 2C7WA 1VPFA 1KTZA 1MKGA
chains in the Genus database with same CATH superfamily
2QJAA 3BDYV 4MQWB 3BMPA 1TGJA 5BPUA 2ASKA 3E07A 4HQXA 1AGQA 2R52A 4QCIC 1JPYA 2H62A 2BHKA 1XWDB 4BV4L 5AEJA 1KATW 5HK5E 4KXZA 3EO1C 5HHCA 5BQ8B 4LXRJ 5BQ8D 1VPPV 2FJHV 2VXSA 1XWDA 4MIDA 2GNNA 1WQ9B 4QHUC 4N1DA 3S1BV 4KV5A 1TFGA 1MKKA 1TZHV 5BQEB 5BQ8A 5BQBA 1BMPA 1FZVA 3MJGA 1HCNB 4YCGC 1WQ9A 1M4UA 5FV2V 5BQEA 5F3BC 2QJ9A 3IJ2A 1RV6V 1TGKA 4EAXA 4YCIC 1E9JA 1ES7A 2PJYA 3V2AA 1LX5A 1HCNA 4UHZA 5JZ7A 2X1XE 3QB4A 1M4UL 5HHXA 1SGFB 3EVSB 3SEKB 5HHDA 2P6AA 2IFGE 3P9WA 2R53A 4ZBNA 1KLAA 1REWA 3KFDA 3BK3A 4UI1A 5HHVA 2FJGV 2QJBA 1REUA 4HQUA 1WAQA 2B0UA 2GH0C 4WPBA 1WQ8A 2V5EB 4AY9A 4UI2B 4UHYA 2XV7A 1ZKZA 1QTYR 2ARVA 1HD4A 3QTKA 1FLTV 2ARPA 2GYZA 5HI4A 1BETA 2QR0C 1HCFA 2TGIA 1KLCA 2QCWA 1AOCA 4ZFFC 1B8KA 1FL7B 2GYRA 4FAOA 1S4YB 1CZ8V 1SG1A 4MPLA 1BJ1V 3BUKA 4KZNA 4AY9B 5HI5A 1B98A 3FUBB 1MJVA 2VWEA 3MJKA 4HSAA 1FL7A 4EC7A 3V6BA 1HRPA 2KD3A 1B8MB 1WWWV 1BNDB 5F3HI 1LXIA 3B4VA 4EFVA 2H64A 2GOOA 5E4GA 2VPFA 4MQWA 4GLSE 1NT3A 4UI0A 1QFWB 1B8MA 1BNDA 5HI3A 3JVFA 5HK5A 4EDWV 1NYSB 4XPJA 1PDGA 1TZIV 2X1WA 1NYUB 4QAFC 4EDXV 5BQCA 1HRPB 4LXSJ 4X1JA 3S1KV 1QFWA 5FV1V 3RJRA 2XACA 1DZ7A 3HH2A 1BTGA 2QCQA 4GLNE 4HR9A 2C7WA 1VPFA 1KTZA 1MKGA
chains in the Genus database with same CATH topology
2QJAA 3BDYV 4MQWB 3BMPA 1TGJA 5BPUA 2ASKA 3E07A 4HQXA 1AGQA 2R52A 4QCIC 1JPYA 2H62A 2BHKA 1XWDB 4BV4L 5AEJA 1KATW 5HK5E 4KXZA 3EO1C 5HHCA 5BQ8B 4LXRJ 5BQ8D 1VPPV 2FJHV 2VXSA 1XWDA 4MIDA 2GNNA 1WQ9B 4QHUC 4N1DA 3S1BV 4KV5A 1TFGA 1MKKA 1TZHV 5BQEB 5BQ8A 5BQBA 1BMPA 1FZVA 3MJGA 1HCNB 4YCGC 1WQ9A 1M4UA 5FV2V 5BQEA 5F3BC 2QJ9A 3IJ2A 1RV6V 1TGKA 4EAXA 4YCIC 1E9JA 1ES7A 2PJYA 3V2AA 1LX5A 1HCNA 4UHZA 5JZ7A 2X1XE 3QB4A 1M4UL 5HHXA 1SGFB 3EVSB 3SEKB 5HHDA 2P6AA 2IFGE 3P9WA 2R53A 4ZBNA 1KLAA 1REWA 3KFDA 3BK3A 4UI1A 5HHVA 2FJGV 2QJBA 1REUA 4HQUA 1WAQA 2B0UA 2GH0C 4WPBA 1WQ8A 2V5EB 4AY9A 4UI2B 4UHYA 2XV7A 1ZKZA 1QTYR 2ARVA 1HD4A 3QTKA 1FLTV 2ARPA 2GYZA 5HI4A 1BETA 2QR0C 1HCFA 2TGIA 1KLCA 2QCWA 1AOCA 4ZFFC 1B8KA 1FL7B 2GYRA 4FAOA 1S4YB 1CZ8V 1SG1A 4MPLA 1BJ1V 3BUKA 4KZNA 4AY9B 5HI5A 1B98A 3FUBB 1MJVA 2VWEA 3MJKA 4HSAA 1FL7A 4EC7A 3V6BA 1HRPA 2KD3A 1B8MB 1WWWV 1BNDB 5F3HI 1LXIA 3B4VA 4EFVA 2H64A 2GOOA 5E4GA 2VPFA 4MQWA 4GLSE 1NT3A 4UI0A 1QFWB 1B8MA 1BNDA 5HI3A 3JVFA 5HK5A 4EDWV 1NYSB 4XPJA 1PDGA 1TZIV 2X1WA 1NYUB 4QAFC 4EDXV 5BQCA 1HRPB 4LXSJ 4X1JA 3S1KV 1QFWA 5FV1V 3RJRA 2XACA 1DZ7A 3HH2A 1BTGA 2QCQA 4GLNE 4HR9A 2C7WA 1VPFA 1KTZA 1MKGA
chains in the Genus database with same CATH homology


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