4UJ0A

Crystal structure of the tomato defensin tpp3
Total Genus 11
Loading diagram...

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
Loading diagram...

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


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

 
#similar chains in the Genus database (?% sequence similarity)
...loading similar chains, please wait...
#similar chains, but unknotted
...loading similar chains, please wait...
#similar chains in the pdb database (?% sequence similarity)
...loading similar chains, please wait...