4UJ0A

Crystal structure of the tomato defensin tpp3
Total Genus 11
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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
11
sequence length
48
structure length
48
Chain Sequence
QQICKAPSQTFPGLCFMDSSCRKYCIKEKFTGGHCSKLQRKCLCTKPC
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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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publication title The Tomato Defensin Tpp3 Binds Phosphatidylinositol (4,5)-Bisphosphate Via a Conserved Dimeric Cationic Grip Conformation to Mediate Cell Lysis.
pubmed doi rcsb
molecule tags Antibiotic
source organism Solanum lycopersicum
molecule keywords FLOWER-SPECIFIC GAMMA-THIONIN-LIKE PROTEIN/ACIDIC PROTEIN
total genus 11
structure length 48
sequence length 48
chains with identical sequence B
ec nomenclature
pdb deposition date 2015-04-07

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF00304 Gamma-thionin Gamma-thionin family
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
3.30.30.10 Alpha Beta 2-Layer Sandwich Defensin A-like Knottin, scorpion toxin-like 4uj0A00
1ZVGA 1OZZA 2ATBA 1B3CA 3E7RL 4V1DC 1ZYVA 2MZ0A 1WMTA 1WWNA 1ZVEA 1T1TA 2KBKA 1ZYWA 1P0AA 2GL1A 2SN3A 1CN2A 2YC1C 2KJAA 2LR3A 1JZAA 2N2QA 1NE5A 1MYNA 1SN1A 2LY6A 1LQIA 2KYQA 5KK4A 2N66A 2KGQA 1NPIA 2E3GA 1WT7A 1DJTA 1KV0A 1I2VA 2YBRC 3PSMA 1P00A 2LJMA 1JKZA 1GPTA 1C56A 2KBJA 1JZBA 1TI5A 4UJ0A 4HE7A 2LT8A 1CHZA 1I2UA 1ZU3A 1AYJA 2B3CA 1LQHA 2KBHA 1NRAA 1PTXA 1LQQA 1SEGA 1GPSA 4AB0A 3E7UX 1DQ7A 1NH5A 2I61A 2NY9X 1I6FA 1BMRA 1FH3A 1B7DA 2N69A 1ICAA 1SNBA 1VNBA 2LKBA 2YEOA 1I6GA 2E3FA 2B68A 1VNAA 4AAZA 1ZUTA 1L4VA 1T7AA 4AEIA 4KYPA 4HHFA 1T7BA 1PX9A 2N2RA 1PE4A 1OMYA 4CQKA 1NRBA 1AHOA 2A7TA 1BK8A 2LI7A 1C55A 2KSKA 2E0HA 2ASCA 1T0ZA 2KPYA 2NY8X 2M8BB 2BRZA 1SN4A 5CY0A 1BRZA 1N4NA 2LY5A 1T7EA 1BCGA 1ZFUA 2LJ7A 1MR4A 1JXCA
chains in the Genus database with same CATH superfamily
2E8AA 3L4IA 1ZVGA 4H5VA 1QQMA 1OZZA 1DKGD 2ATBA 1NGAA 3IUCA 3QMLA 5AQXA 3D2EA 3QFUA 1UGLA 1B3CA 3FZLA 1QQOA 2MN5A 4KBOA 3E7RL 2QXLA 4V1DC 2KHOA 1ZYVA 4GNIA 2MZ0A 5F0XA 1WMTA 1WWNA 1ZVEA 1T1TA 4H5TA 2KBKA 1ZYWA 1BA0A 1P0AA 2GL1A 1NGHA 1NGCA 2SN3A 3KP0A 5AQLA 1CN2A 2YC1C 5AQPA 2KJAA 2LR3A 1JZAA 2N2QA 2V7ZA 1NE5A 3BK3C 2E88A 3ATUA 2G2KA 1HJOA 4IO8A 5AQJA 2D56A 1MYNA 3LDQA 1SN1A 2LY6A 1LQIA 5FPDA 2KYQA 2QWPA 5KK4A 2QWOA 2N66A 2KGQA 4FSVA 1NPIA 3D2FB 3KOWA 2E3GA 1WT7A 1DJTA 1XRSB 4FL9A 1KV0A 2LN8A 3FZFA 1I2VA 1KAXA 1POIA 3KHWA 5AQQA 3A8YA 2QW9A 2YBRC 3I33A 5AQNA 1YUWA 5BN8A 1NGFA 3HSCA 1NGGA 4UADE 5EVZA 3M3ZA 1P00A 2LJMA 1ATSA 2MBKA 3PSMA 1C56A 2KBJA 1JKZA 1GPTA 1JZBA 5FPEA 1TI5A 4UJ0A 4HE7A 5F1XA 2LT8A 2QWLA 1CHZA 5F2RA 5AQKA 1I2UA 3CW4A 1ZU3A 3D2EB 2QWMA 2B3CA 1LQHA 2YIOA 5AQFA 5BPLA 1AYJA 1NGJA 3GDQA 5AQUA 2BUPA 2KBHA 1NRAA 1PTXA 1LQQA 3GKUA 1SEGA 3KOZA 1GPSA 4UAEF 5BPNA 5EXWA 4AB0A 3L56A 3E7UX 3FZMA 1DQ7A 1NH5A 3QI7A 2I61A 5AR0A 2NY9X 1I6FA 3SF4D 3C7NB 1B7DA 2N69A 1BMRA 1FH3A 1ICAA 3GL1A 5AQOA 5FPNA 1NGDA 1SNBA 5AQVA 3KVGA 1VNBA 2LKBA 3KOXA 4H5RA 2YEOA 4UAFE 5BN9A 1I6GA 3D2FA 3QFPA 2E3FA 2VY6A 3LDLA 5AQSA 2B68A 5AQGA 4H5NA 5BPMA 1VNAA 4AAZA 2K35A 1NGIA 5AQWA 1ZUTA 5FPMA 1L4VA 1T7AA 4AEIA 3ATVA 1QQNA 4KYPA 5AQIA 4HHFA 2JDQD 1KAZA 1T7BA 1KAYA 1PX9A 1HX1A 2N2RA 3CQXA 1ATRA 1PE4A 1OMYA 3LDPA 4CQKA 1BA1A 1BUPA 3R2VA 2YIPA 3FZKA 5AQHA 1NRBA 1AHOA 2A7TA 1BK8A 2LI7A 1HPMA 1NGBA 4HWIA 1C55A 2KSKA 2QWQA 2E0HA 1K8BA 2ASCA 1T0ZA 3FZHA 2QWRA 2KPYA 3C7NA 2NY8X 3LDOA 5AQTA 5AQYA 2M8BB 2BRZA 1SN4A 2QWNA 5EX5A 5EY4A 3FE1A 1S3XA 5CY0A 1BRZA 1N4NA 1NGEA 3AY9A 2LY5A 3KOYA 3L6QA 3KC6A 3LDNA 5AQMA 2YILA 3JXUA 5AQZA 5AQRA 1T7EA 3KP1A 1BCGA 1ZFUA 2LJ7A 1MR4A 2GMOA 4H5WA 1JXCA 2E2FA
chains in the Genus database with same CATH topology
1ZVGA 1OZZA 2ATBA 1B3CA 3E7RL 4V1DC 1ZYVA 2MZ0A 1WMTA 1WWNA 1ZVEA 1T1TA 2KBKA 1ZYWA 1P0AA 2GL1A 2SN3A 1CN2A 2YC1C 2KJAA 2LR3A 1JZAA 2N2QA 1NE5A 1MYNA 1SN1A 2LY6A 1LQIA 2KYQA 5KK4A 2N66A 2KGQA 1NPIA 2E3GA 1WT7A 1DJTA 1KV0A 1I2VA 2YBRC 3PSMA 1P00A 2LJMA 1JKZA 1GPTA 1C56A 2KBJA 1JZBA 1TI5A 4UJ0A 4HE7A 2LT8A 1CHZA 1I2UA 1ZU3A 1AYJA 2B3CA 1LQHA 2KBHA 1NRAA 1PTXA 1LQQA 1SEGA 1GPSA 4AB0A 3E7UX 1DQ7A 1NH5A 2I61A 2NY9X 1I6FA 1BMRA 1FH3A 1B7DA 2N69A 1ICAA 1SNBA 1VNBA 2LKBA 2YEOA 1I6GA 2E3FA 2B68A 1VNAA 4AAZA 1ZUTA 1L4VA 1T7AA 4AEIA 4KYPA 4HHFA 1T7BA 1PX9A 2N2RA 1PE4A 1OMYA 4CQKA 1NRBA 1AHOA 2A7TA 1BK8A 2LI7A 1C55A 2KSKA 2E0HA 2ASCA 1T0ZA 2KPYA 2NY8X 2M8BB 2BRZA 1SN4A 5CY0A 1BRZA 1N4NA 2LY5A 1T7EA 1BCGA 1ZFUA 2LJ7A 1MR4A 1JXCA
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 1ZVG A;  1OZZ A;  2ATB A;  1B3C A;  3E7R L;  4V1D C;  1ZYV A;  2MZ0 A;  1WMT A;  1WWN A;  1ZVE A;  1T1T A;  2KBK A;  1ZYW A;  1P0A A;  2GL1 A;  2SN3 A;  1CN2 A;  2YC1 C;  2KJA A;  2LR3 A;  1JZA A;  2N2Q A;  1NE5 A;  1MYN A;  1SN1 A;  2LY6 A;  1LQI A;  2KYQ A;  5KK4 A;  2N66 A;  2KGQ A;  1NPI A;  2E3G A;  1WT7 A;  1DJT A;  1KV0 A;  1I2V A;  2YBR C;  3PSM A;  1P00 A;  2LJM A;  1JKZ A;  1GPT A;  1C56 A;  2KBJ A;  1JZB A;  1TI5 A;  4UJ0 A;  4HE7 A;  2LT8 A;  1CHZ A;  1I2U A;  1ZU3 A;  1AYJ A;  2B3C A;  1LQH A;  2KBH A;  1NRA A;  1PTX A;  1LQQ A;  1SEG A;  1GPS A;  4AB0 A;  3E7U X;  1DQ7 A;  1NH5 A;  2I61 A;  2NY9 X;  1I6F A;  1BMR A;  1FH3 A;  1B7D A;  2N69 A;  1ICA A;  1SNB A;  1VNB A;  2LKB A;  2YEO A;  1I6G A;  2E3F A;  2B68 A;  1VNA A;  4AAZ A;  1ZUT A;  1L4V A;  1T7A A;  4AEI A;  4KYP A;  4HHF A;  1T7B A;  1PX9 A;  2N2R A;  1PE4 A;  1OMY A;  4CQK A;  1NRB A;  1AHO A;  2A7T A;  1BK8 A;  2LI7 A;  1C55 A;  2KSK A;  2E0H A;  2ASC A;  1T0Z A;  2KPY A;  2NY8 X;  2M8B B;  2BRZ A;  1SN4 A;  5CY0 A;  1BRZ A;  1N4N A;  2LY5 A;  1T7E A;  1BCG A;  1ZFU A;  2LJ7 A;  1MR4 A;  1JXC A; 
#chains in the Genus database with same CATH topology
 2E8A A;  3L4I A;  1ZVG A;  4H5V A;  1QQM A;  1OZZ A;  1DKG D;  2ATB A;  1NGA A;  3IUC A;  3QML A;  5AQX A;  3D2E A;  3QFU A;  1UGL A;  1B3C A;  3FZL A;  1QQO A;  2MN5 A;  4KBO A;  3E7R L;  2QXL A;  4V1D C;  2KHO A;  1ZYV A;  4GNI A;  2MZ0 A;  5F0X A;  1WMT A;  1WWN A;  1ZVE A;  1T1T A;  4H5T A;  2KBK A;  1ZYW A;  1BA0 A;  1P0A A;  2GL1 A;  1NGH A;  1NGC A;  2SN3 A;  3KP0 A;  5AQL A;  1CN2 A;  2YC1 C;  5AQP A;  2KJA A;  2LR3 A;  1JZA A;  2N2Q A;  2V7Z A;  1NE5 A;  3BK3 C;  2E88 A;  3ATU A;  2G2K A;  1HJO A;  4IO8 A;  5AQJ A;  2D56 A;  1MYN A;  3LDQ A;  1SN1 A;  2LY6 A;  1LQI A;  5FPD A;  2KYQ A;  2QWP A;  5KK4 A;  2QWO A;  2N66 A;  2KGQ A;  4FSV A;  1NPI A;  3D2F B;  3KOW A;  2E3G A;  1WT7 A;  1DJT A;  1XRS B;  4FL9 A;  1KV0 A;  2LN8 A;  3FZF A;  1I2V A;  1KAX A;  1POI A;  3KHW A;  5AQQ A;  3A8Y A;  2QW9 A;  2YBR C;  3I33 A;  5AQN A;  1YUW A;  5BN8 A;  1NGF A;  3HSC A;  1NGG A;  4UAD E;  5EVZ A;  3M3Z A;  1P00 A;  2LJM A;  1ATS A;  2MBK A;  3PSM A;  1C56 A;  2KBJ A;  1JKZ A;  1GPT A;  1JZB A;  5FPE A;  1TI5 A;  4UJ0 A;  4HE7 A;  5F1X A;  2LT8 A;  2QWL A;  1CHZ A;  5F2R A;  5AQK A;  1I2U A;  3CW4 A;  1ZU3 A;  3D2E B;  2QWM A;  2B3C A;  1LQH A;  2YIO A;  5AQF A;  5BPL A;  1AYJ A;  1NGJ A;  3GDQ A;  5AQU A;  2BUP A;  2KBH A;  1NRA A;  1PTX A;  1LQQ A;  3GKU A;  1SEG A;  3KOZ A;  1GPS A;  4UAE F;  5BPN A;  5EXW A;  4AB0 A;  3L56 A;  3E7U X;  3FZM A;  1DQ7 A;  1NH5 A;  3QI7 A;  2I61 A;  5AR0 A;  2NY9 X;  1I6F A;  3SF4 D;  3C7N B;  1B7D A;  2N69 A;  1BMR A;  1FH3 A;  1ICA A;  3GL1 A;  5AQO A;  5FPN A;  1NGD A;  1SNB A;  5AQV A;  3KVG A;  1VNB A;  2LKB A;  3KOX A;  4H5R A;  2YEO A;  4UAF E;  5BN9 A;  1I6G A;  3D2F A;  3QFP A;  2E3F A;  2VY6 A;  3LDL A;  5AQS A;  2B68 A;  5AQG A;  4H5N A;  5BPM A;  1VNA A;  4AAZ A;  2K35 A;  1NGI A;  5AQW A;  1ZUT A;  5FPM A;  1L4V A;  1T7A A;  4AEI A;  3ATV A;  1QQN A;  4KYP A;  5AQI A;  4HHF A;  2JDQ D;  1KAZ A;  1T7B A;  1KAY A;  1PX9 A;  1HX1 A;  2N2R A;  3CQX A;  1ATR A;  1PE4 A;  1OMY A;  3LDP A;  4CQK A;  1BA1 A;  1BUP A;  3R2V A;  2YIP A;  3FZK A;  5AQH A;  1NRB A;  1AHO A;  2A7T A;  1BK8 A;  2LI7 A;  1HPM A;  1NGB A;  4HWI A;  1C55 A;  2KSK A;  2QWQ A;  2E0H A;  1K8B A;  2ASC A;  1T0Z A;  3FZH A;  2QWR A;  2KPY A;  3C7N A;  2NY8 X;  3LDO A;  5AQT A;  5AQY A;  2M8B B;  2BRZ A;  1SN4 A;  2QWN A;  5EX5 A;  5EY4 A;  3FE1 A;  1S3X A;  5CY0 A;  1BRZ A;  1N4N A;  1NGE A;  3AY9 A;  2LY5 A;  3KOY A;  3L6Q A;  3KC6 A;  3LDN A;  5AQM A;  2YIL A;  3JXU A;  5AQZ A;  5AQR A;  1T7E A;  3KP1 A;  1BCG A;  1ZFU A;  2LJ7 A;  1MR4 A;  2GMO A;  4H5W A;  1JXC A;  2E2F A; 
#chains in the Genus database with same CATH homology
 1ZVG A;  1OZZ A;  2ATB A;  1B3C A;  3E7R L;  4V1D C;  1ZYV A;  2MZ0 A;  1WMT A;  1WWN A;  1ZVE A;  1T1T A;  2KBK A;  1ZYW A;  1P0A A;  2GL1 A;  2SN3 A;  1CN2 A;  2YC1 C;  2KJA A;  2LR3 A;  1JZA A;  2N2Q A;  1NE5 A;  1MYN A;  1SN1 A;  2LY6 A;  1LQI A;  2KYQ A;  5KK4 A;  2N66 A;  2KGQ A;  1NPI A;  2E3G A;  1WT7 A;  1DJT A;  1KV0 A;  1I2V A;  2YBR C;  3PSM A;  1P00 A;  2LJM A;  1JKZ A;  1GPT A;  1C56 A;  2KBJ A;  1JZB A;  1TI5 A;  4UJ0 A;  4HE7 A;  2LT8 A;  1CHZ A;  1I2U A;  1ZU3 A;  1AYJ A;  2B3C A;  1LQH A;  2KBH A;  1NRA A;  1PTX A;  1LQQ A;  1SEG A;  1GPS A;  4AB0 A;  3E7U X;  1DQ7 A;  1NH5 A;  2I61 A;  2NY9 X;  1I6F A;  1BMR A;  1FH3 A;  1B7D A;  2N69 A;  1ICA A;  1SNB A;  1VNB A;  2LKB A;  2YEO A;  1I6G A;  2E3F A;  2B68 A;  1VNA A;  4AAZ A;  1ZUT A;  1L4V A;  1T7A A;  4AEI A;  4KYP A;  4HHF A;  1T7B A;  1PX9 A;  2N2R A;  1PE4 A;  1OMY A;  4CQK A;  1NRB A;  1AHO A;  2A7T A;  1BK8 A;  2LI7 A;  1C55 A;  2KSK A;  2E0H A;  2ASC A;  1T0Z A;  2KPY A;  2NY8 X;  2M8B B;  2BRZ A;  1SN4 A;  5CY0 A;  1BRZ A;  1N4N A;  2LY5 A;  1T7E A;  1BCG A;  1ZFU A;  2LJ7 A;  1MR4 A;  1JXC 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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