2KSKA

Solution structure of sugarcane defensin 5
Total Genus 5

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
5
sequence length
71
structure length
71
Chain Sequence
HTPTPTPICKSRSHEYKGRCIQDMDCNAACVKESESYTGGFCNGRPPFKQCFCTKPCKRERAAATLRWPGL

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
O2 (9-57)AH1 (23-33)S2 (39-44)S3 (49-55)TIV5 (34-37)S1 (9-12)Updating...
connected with : NaN
molecule tags Antimicrobial protein
source organism Saccharum officinarum
publication title Portrayal of Complex Dynamic Properties of Sugarcane Defensin 5 by NMR: Multiple Motions Associated with Membrane Interaction.
pubmed doi rcsb
molecule keywords Sugarcane defensin 5
total genus 5
structure length 71
sequence length 71
ec nomenclature
pdb deposition date 2010-01-06

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 2kskA00
1DQ7A 1AHOA 1SN1A 1LQHA 2ASCA 2LJMA 4AB0A 2I61A 1SN4A 2N69A 2N2QA 2YC1C 2A7TA 2BRZA 2KSKA 1T1TA 2KYQA 1T7BA 3E7RL 4HHFA 1AYJA 4AAZA 4CQKA 4HE7A 2E3FA 1C56A 5CY0A 1DJTA 4UJ0A 2KBKA 1ICAA 1B7DA 1ZVEA 2YEOA 4V1DC 1FH3A 1PTXA 2SN3A 1WMTA 2KJAA 1ZFUA 1ZUTA 2LY5A 1P0AA 1MR4A 3E7UX 1ZVGA 1BMRA 3PSMA 1C55A 1ZYWA 2LKBA 2B68A 1JKZA 1T0ZA 1CHZA 2KBJA 1PX9A 1NE5A 1P00A 4AEIA 1SEGA 1I2UA 1NRAA 1GPTA 1OMYA 2LR3A 1B3CA 1ZU3A 1SNBA 2NY9X 1NRBA 2N2RA 1BK8A 2LJ7A 1NH5A 1T7EA 1JZAA 1JXCA 1MYNA 2ATBA 1BCGA 1NPIA 1VNBA 2LI7A 2GL1A 2E0HA 1I6GA 1KV0A 2MZ0A 1WT7A 1T7AA 1GPSA 1BRZA 1I6FA 2KBHA 1WWNA 2LY6A 2KPYA 2M8BB 1L4VA 1ZYVA 2NY8X 1TI5A 2YBRC 1I2VA 1LQQA 2E3GA 1CN2A 2KGQA 5KK4A 4KYPA 2N66A 2LT8A 1N4NA 2B3CA 1PE4A 1JZBA 1VNAA 1LQIA 1OZZA
chains in the Genus database with same CATH superfamily
5AQZA 5AQFA 3D2FA 3QFPA 5AQYA 3GL1A 5AQVA 1DQ7A 1AHOA 1SN1A 1LQHA 2ASCA 2LJMA 1NGDA 3LDQA 4AB0A 2I61A 5AQMA 1SN4A 3CQXA 1NGHA 1NGEA 3C7NA 4H5WA 2N69A 2N2QA 2YC1C 1NGGA 2A7TA 2BRZA 2KSKA 1T1TA 2KYQA 5AQXA 5AQIA 1T7BA 3E7RL 1KAZA 4H5TA 4HHFA 1AYJA 4AAZA 4CQKA 1NGIA 2QWOA 4HE7A 1HX1A 2E3FA 3QFUA 1C56A 3ATUA 3D2EB 4FL9A 5AQUA 5CY0A 1YUWA 1DJTA 3BK3C 1QQNA 2QWPA 4H5NA 2QWNA 4UJ0A 3A8YA 2KBKA 3CW4A 4H5VA 1ICAA 5AQWA 1B7DA 1ZVEA 2YEOA 4V1DC 3FZKA 1PTXA 1FH3A 1NGFA 1HPMA 1WMTA 2SN3A 1NGJA 3LDOA 3LDLA 5AQQA 3FE1A 3M3ZA 2KJAA 3FZHA 1ZFUA 1ZUTA 2YIPA 4UAFE 2QWMA 3HSCA 2BUPA 2LY5A 1P0AA 1MR4A 3E7UX 1ZVGA 1BMRA 3PSMA 4GNIA 1ZYWA 5EX5A 1C55A 2GMOA 2LKBA 2B68A 3KP0A 1BUPA 2D56A 3L56A 2YILA 1JKZA 1T0ZA 5AQSA 2QXLA 2MN5A 2G2KA 1CHZA 2KBJA 2KHOA 3R2VA 5AQOA 1PX9A 1NE5A 5F0XA 2JDQD 3KP1A 5EY4A 1P00A 2YIOA 4AEIA 5F1XA 2VY6A 5BN9A 1SEGA 4HWIA 3JXUA 1I2UA 5AQPA 3KOXA 3L4IA 1NRAA 3IUCA 1GPTA 2K35A 3L6QA 1OMYA 2LR3A 1B3CA 3QMLA 1ZU3A 3KOYA 3GKUA 5EVZA 5AR0A 1ATSA 1BA0A 1SNBA 1NRBA 1XRSB 2MBKA 2N2RA 2NY9X 4KBOA 5FPEA 2LJ7A 1NH5A 3FZFA 1T7EA 3LDNA 4UADE 1JZAA 1JXCA 1BK8A 2V7ZA 1MYNA 5FPMA 5BN8A 2ATBA 1BCGA 1NPIA 1VNBA 2LI7A 3FZMA 2GL1A 2QWQA 5AQRA 1KAYA 2E0HA 1I6GA 1QQOA 3KOZA 5EXWA 3KHWA 1KV0A 2MZ0A 3KC6A 1WT7A 5AQJA 1T7AA 3D2EA 2QWRA 5F2RA 3KOWA 1K8BA 1GPSA 3SF4D 4FSVA 2LN8A 1BRZA 3I33A 3D2FB 5AQLA 5AQKA 2QW9A 1I6FA 2E2FA 5BPMA 3ATVA 2E88A 3KVGA 2KBHA 4UAEF 1WWNA 2LY6A 1POIA 2KPYA 2M8BB 3GDQA 1L4VA 1ZYVA 3C7NB 2NY8X 3LDPA 3FZLA 5FPDA 1NGAA 1BA1A 1TI5A 2YBRC 3QI7A 5AQGA 2E8AA 1HJOA 1UGLA 4H5RA 1NGBA 2QWLA 1I2VA 1LQQA 2E3GA 1CN2A 2KGQA 5KK4A 4KYPA 2N66A 5AQNA 5BPLA 2LT8A 1DKGD 1N4NA 1NGCA 2B3CA 5BPNA 5AQHA 4IO8A 1QQMA 5AQTA 1PE4A 1JZBA 1ATRA 1KAXA 1VNAA 3AY9A 1LQIA 1OZZA 1S3XA 5FPNA
chains in the Genus database with same CATH topology
1DQ7A 1AHOA 1SN1A 1LQHA 2ASCA 2LJMA 4AB0A 2I61A 1SN4A 2N69A 2N2QA 2YC1C 2A7TA 2BRZA 2KSKA 1T1TA 2KYQA 1T7BA 3E7RL 4HHFA 1AYJA 4AAZA 4CQKA 4HE7A 2E3FA 1C56A 5CY0A 1DJTA 4UJ0A 2KBKA 1ICAA 1B7DA 1ZVEA 2YEOA 4V1DC 1FH3A 1PTXA 2SN3A 1WMTA 2KJAA 1ZFUA 1ZUTA 2LY5A 1P0AA 1MR4A 3E7UX 1ZVGA 1BMRA 3PSMA 1C55A 1ZYWA 2LKBA 2B68A 1JKZA 1T0ZA 1CHZA 2KBJA 1PX9A 1NE5A 1P00A 4AEIA 1SEGA 1I2UA 1NRAA 1GPTA 1OMYA 2LR3A 1B3CA 1ZU3A 1SNBA 2NY9X 1NRBA 2N2RA 1BK8A 2LJ7A 1NH5A 1T7EA 1JZAA 1JXCA 1MYNA 2ATBA 1BCGA 1NPIA 1VNBA 2LI7A 2GL1A 2E0HA 1I6GA 1KV0A 2MZ0A 1WT7A 1T7AA 1GPSA 1BRZA 1I6FA 2KBHA 1WWNA 2LY6A 2KPYA 2M8BB 1L4VA 1ZYVA 2NY8X 1TI5A 2YBRC 1I2VA 1LQQA 2E3GA 1CN2A 2KGQA 5KK4A 4KYPA 2N66A 2LT8A 1N4NA 2B3CA 1PE4A 1JZBA 1VNAA 1LQIA 1OZZA
chains in the Genus database with same CATH homology


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

 
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#similar chains, but unknotted
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