4BUM | Genus

Total Genus 63

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	63
sequence length	283
structure length	283
Chain Sequence	MAVPPAYADLGKSAKDIFNKGYGFGMVKLDVKTKSASGVEFKTSGSSNTDTSKVVGSLETKYKRSEYGLTFTEKWNTDNTLGTEINIEDQIAKGLKLTFDTTFSPNTGKKSGKVKTAYKREFVNLGCDVDFDFAGPTIHGAAVVGYEGWLAGYQMSFDTAKSKMTQNNFAVGYKTGDFQLHTNVNDGSEFGGSIYQKVSDKLETAVNLAWTAGSNSTRFGIAAKYQLDKDASISAKVNNTSLVGVGYTQSLRPGIKLTLSALVDGKSINSGGHKLGLGLELEA

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

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The Resolver thinks Pdb

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Time for openFile(/file/5d0393a2346ed81bcf8bb68f/pdb.gz): 1031 ms

reading 283 atoms

ModelSet: haveSymmetry:false haveUnitcells:false haveFractionalCoord:false

1 model in this collection. Use getProperty "modelInfo" or getProperty "auxiliaryInfo" to inspect them.

Default Van der Waals type for model set to Jmol

283 atoms created

ModelSet: autobonding; use autobond=false to not generate bonds automatically

Time for creating model: 24 ms

Adding embedded #jmolscript: select ({0:282});backbone only;select *;

After clicking on a point (x,y) in the genus matrix above, a subchain from x to y is shown in color.

Genus data interpretation

Chord Diagram

molecule tags	Membrane protein
source organism	Danio rerio
publication title	High-Resolution Structure and Double Electron-Electron Resonance of the Zebrafish Voltage Dependent Anion Channel 2 Reveal an Oligomeric Population. pubmed doi rcsb
molecule keywords	VOLTAGE-DEPENDENT ANION CHANNEL 2
total genus	63
structure length	283
sequence length	283
ec nomenclature
pdb deposition date	2013-06-21

pfam database annotations

chain	Pfam Accession Code	Pfam Family Identifier	Pfam Description
X	PF01459	Porin_3	Eukaryotic porin

Image from the rcsb pdb (www.rcsb.org)

cath code	Class	Architecture	Topology	Homology	Domain
2.40.160.10	Mainly Beta	Beta Barrel	Porin	Porin	4bumX00

3POXA 2ZFGA 1MPFA 2ODJA 4KRAA 1BH3A 1PHOA 3VY9X 4FOZA 2XE1A 3EMNX 5DL7A 4AUIA 2J1NA 4RJWA 4FSOA 2J4UP 2Y0LA 5JDPA 3POUA 3SY7A 2Y2XA 4GCSA 2K4TA 3T24A 1PRNA 1BT9A 1GFNA 3HW9A 3JTYA 4RJXA 4FSPA 5DL5A 2Y0HA 2XE5A 3A2SX 2Y0KA 3VZWX 2FGRA 5FVNA 1H6S1 3PORA 4D5UA 3VY8X 3SY9A 2O4VA 3O0EA 3SYBA 4LSEA 4D64A 4FT6A 3PRNA 8PRNA 2FGQX 3SZDA 1GFQA 4KR8A 3T0SA 3WI4A 1HXXA 3WI5A 5DL8A 3SZVA 1GFOA 3POQA 4LSHA 3FYXA 1GFPA 1HXTA 4GCPA 3UPGA 3HWBA 1GFMA 4LSFA 5PRNA 4FMSA 3VZUX 5DL6A 1HXUA 4BUMX 3NSGA 4FRXA 2OMFA 3VZTX 2XE3A 4FRTA 4JFBA 3K19A 3UU2A 4GCQA 3T20A 4KR4A 4C69X 1OPFA 3SYSA 1E54A 2PRNA 1OSMA 2QTKA 2PORA 2ZLDA 7PRNA 6PRNA 4LSIA 2XG6A 2XE2A 4D65A
chains in the Genus database with same CATH superfamily

3POXA 2ZFGA 1MPFA 2ODJA 5GV0A 3DA3A 5H2FO 4KRAA 4B61A 1BH3A 1ORMA 4C00A 4C4VB 1PHOA 2F1VA 3VY9X 1MM5A 4FOZA 3BS0A 3AA7A 1YS5A 2WJRA 2KXPB 3AA0A 2XE1A 3LK3B 5TISO 1THQA 5B5EO 1G90A 5ADXL 1ZHYA 2IWVA 3EMNX 5DL7A 4AUIA 4FUVA 2R4LA 2WJQA 2J1NA 3AA1A 4RJWA 2IWWA 4O4XA 4FSOA 4U9CA 3GP6A 2J4UP 3JCUO 5E79O 5T5FA 2LHFA 3AAAB 3AAEA 2MHLA 1ZHTA 4O3XB 1P4TA 2Y0LA 4PR7A 5JDPA 3POUA 2F1CX 3HOLA 4O4UA 3AA6B 1S5LO 3KZIO 3NJTA 3SY7A 2Y2XA 4FZNA 4N59A 3PGRA 4GCSA 4AYMC 2K4TA 3T24A 4CTDA 4AFKA 1PRNA 3PF1A 4UB6O 1BT9A 2XTRA 4E1TA 1GFNA 3AA7B 3HW9A 3JTYA 2XMXA 4FQEA 3LK2B 2K0LA 2R4PA 4FSPA 4RJXA 2R4OA 3UAQA 3G7GA 4IL6O 1IZNB 2F1TA 3DZMA 3BRZA 5DL5A 2LFUA 2XE5A 2Y0HA 2Y0KA 3A2SX 4O49A 2YPVA 5KAIO 3VZWX 4E1SA 3PGSA 2KC0A 3AA1B 2FGRA 4JCHA 1H6S1 5FVNA 3PORA 5GTIO 2WVPA 3VE1A 2ERVA 4D5UA 3VY8X 3SY9A 2O4VA 5AFUL 3O0EA 3PQUA 3SYBA 3PQSA 4LSEA 4D64A 1MM4A 2M06A 3AAEB 4FT6A 3PRNA 5G39A 4AYEC 5GTHO 4QQ1A 3DWOX 2GE4A 2W80C 4FESA 4GF4A 4O3WA 1QJPA 8PRNA 2W81C 2FGQX 4RLBA 1GFQA 4KR8A 3SZDA 3T0SA 3WI4A 4O3YA 3V8UA 1T16A 2KZ7A 3DA4A 1HXXA 4N74A 4XNLA 3WI5A 4G75A 4PUXA 5DL8A 3SZVA 3A0HO 2N2MA 1ZHWA 1GFOA 5IYUA 2Y7SA 3C5OA 3KVDD 3POQA 4FZLA 4LSHA 3FYXA 1GFPA 3AA0B 5G3AA 5KAFO 2X27X 1HXTA 1T1LA 4GCPA 3RBHA 3UPGA 2AXTO 3A0BO 3HWBA 3HOEA 2R8AA 2XTQA 2N2LA 3DWNA 4Z3TA 4K3CA 4N75A 1GFMA 1ZHXA 4K3BA 4LSFA 5PRNA 4AKRA 4FZMA 5EE2A 4GHBA 4FMSA 3LK42 5DL6A 3VZUX 4AYDC 1HXUA 4BUMX 1ZHZA 2JQYA 4UB8O 4F4BA 5D5DA 4RL9A 3NSGA 3QRCA 1Q9GA 4C4VA 5B66O 4FRXA 1QJ9A 2OMFA 4RLCA 2R89A 2XE3A 3BRYA 4FRTA 4G76A 4JFBA 4N58A 4PJ0O 3LK2A 2R4NA 1Q9FA 2KXPA 2KZ7B 2YNKA 3K19A 3PGUA 3VE2A 3LK3A 4AKMA 3UU2A 1IZNA 4GCQA 1QJ8A 2KDYA 4KR4A 3T20A 3VZTX 1BXWA 4C69X 1OPFA 3SYSA 2M07A 2JMMA 1E54A 5G38A 2PRNA 5ADXK 1OSMA 2QTKA 3WU2O 4XNKA 2PORA 4AZLA 2ZLDA 7PRNA 2R88A 2X9KA 3AAAA 6PRNA 4LSIA 2XG6A 4AYNA 4O3ZA 2XE2A 5G26A 4AKRB 5AFUK 3LK41 2MNHA 3QRAA 4AYID 3TZGA 4D65A 3AA6A
chains in the Genus database with same CATH topology

3POXA 2ZFGA 1MPFA 2ODJA 5GV0A 3DA3A 4KRAA 4B61A 1BH3A 1ORMA 1PHOA 2F1VA 3VY9X 1MM5A 4FOZA 3AA7A 1YS5A 2KXPB 3AA0A 2XE1A 3LK3B 1THQA 1G90A 5ADXL 1ZHYA 3EMNX 5DL7A 4AUIA 4FUVA 2J1NA 3AA1A 4RJWA 4O4XA 4FSOA 4U9CA 3GP6A 2J4UP 5T5FA 2LHFA 3AAAB 3AAEA 2MHLA 1ZHTA 4O3XB 1P4TA 2Y0LA 5JDPA 3POUA 3HOLA 4O4UA 3SY7A 3AA6B 2Y2XA 4FZNA 4N59A 4GCSA 4AYMC 2K4TA 3T24A 4AFKA 1PRNA 1BT9A 2XTRA 4E1TA 1GFNA 3AA7B 3HW9A 3JTYA 2XMXA 3LK2B 2K0LA 4RJXA 4FSPA 3UAQA 3G7GA 1IZNB 2F1TA 5DL5A 2LFUA 2XE5A 2Y0HA 2Y0KA 3A2SX 4O49A 2YPVA 3VZWX 4E1SA 2KC0A 3AA1B 2FGRA 4JCHA 1H6S1 5FVNA 3PORA 3VE1A 4D5UA 2ERVA 3VY8X 3SY9A 2O4VA 5AFUL 3O0EA 3PQUA 3SYBA 3PQSA 4LSEA 4D64A 1MM4A 2M06A 3AAEB 4FT6A 3PRNA 4AYEC 4QQ1A 2GE4A 2W80C 4FESA 4GF4A 4O3WA 1QJPA 8PRNA 2W81C 2FGQX 4RLBA 1GFQA 4KR8A 3SZDA 3T0SA 3WI4A 4O3YA 3V8UA 2KZ7A 3DA4A 1HXXA 4XNLA 3WI5A 4G75A 4PUXA 5DL8A 3SZVA 2N2MA 1ZHWA 1GFOA 5IYUA 2Y7SA 3C5OA 3KVDD 3POQA 4FZLA 4LSHA 3FYXA 1GFPA 3AA0B 2X27X 1HXTA 4GCPA 3RBHA 3UPGA 3HWBA 3HOEA 2XTQA 4Z3TA 2N2LA 1GFMA 1ZHXA 4LSFA 5PRNA 4AKRA 4FZMA 5EE2A 4GHBA 4FMSA 3LK42 5DL6A 3VZUX 4AYDC 1HXUA 4BUMX 1ZHZA 4F4BA 5D5DA 4RL9A 3NSGA 3QRCA 1Q9GA 4FRXA 1QJ9A 2OMFA 4RLCA 3VZTX 2XE3A 4FRTA 4N58A 4G76A 4JFBA 3LK2A 3K19A 1Q9FA 2KXPA 2KZ7B 2YNKA 4AKMA 3VE2A 3LK3A 3UU2A 1IZNA 4GCQA 1QJ8A 2KDYA 4KR4A 3T20A 1BXWA 4C69X 1OPFA 3SYSA 2M07A 2JMMA 1E54A 2PRNA 5ADXK 1OSMA 2QTKA 4XNKA 2PORA 4AZLA 2ZLDA 7PRNA 3AAAA 6PRNA 4LSIA 2XG6A 4AYNA 4O3ZA 2XE2A 5G26A 4AKRB 5AFUK 3LK41 2MNHA 3QRAA 4AYID 3TZGA 4D65A 3AA6A
chains in the Genus database with same CATH homology

#chains in the Genus database with same CATH superfamily
 3POX A;  2ZFG A;  1MPF A;  2ODJ A;  4KRA A;  1BH3 A;  1PHO A;  3VY9 X;  4FOZ A;  2XE1 A;  3EMN X;  5DL7 A;  4AUI A;  2J1N A;  4RJW A;  4FSO A;  2J4U P;  2Y0L A;  5JDP A;  3POU A;  3SY7 A;  2Y2X A;  4GCS A;  2K4T A;  3T24 A;  1PRN A;  1BT9 A;  1GFN A;  3HW9 A;  3JTY A;  4RJX A;  4FSP A;  5DL5 A;  2Y0H A;  2XE5 A;  3A2S X;  2Y0K A;  3VZW X;  2FGR A;  5FVN A;  1H6S 1;  3POR A;  4D5U A;  3VY8 X;  3SY9 A;  2O4V A;  3O0E A;  3SYB A;  4LSE A;  4D64 A;  4FT6 A;  3PRN A;  8PRN A;  2FGQ X;  3SZD A;  1GFQ A;  4KR8 A;  3T0S A;  3WI4 A;  1HXX A;  3WI5 A;  5DL8 A;  3SZV A;  1GFO A;  3POQ A;  4LSH A;  3FYX A;  1GFP A;  1HXT A;  4GCP A;  3UPG A;  3HWB A;  1GFM A;  4LSF A;  5PRN A;  4FMS A;  3VZU X;  5DL6 A;  1HXU A;  4BUM X;  3NSG A;  4FRX A;  2OMF A;  3VZT X;  2XE3 A;  4FRT A;  4JFB A;  3K19 A;  3UU2 A;  4GCQ A;  3T20 A;  4KR4 A;  4C69 X;  1OPF A;  3SYS A;  1E54 A;  2PRN A;  1OSM A;  2QTK A;  2POR A;  2ZLD A;  7PRN A;  6PRN A;  4LSI A;  2XG6 A;  2XE2 A;  4D65 A; 
#chains in the Genus database with same CATH topology
 3POX A;  2ZFG A;  1MPF A;  2ODJ A;  5GV0 A;  3DA3 A;  5H2F O;  4KRA A;  4B61 A;  1BH3 A;  1ORM A;  4C00 A;  4C4V B;  1PHO A;  2F1V A;  3VY9 X;  1MM5 A;  4FOZ A;  3BS0 A;  3AA7 A;  1YS5 A;  2WJR A;  2KXP B;  3AA0 A;  2XE1 A;  3LK3 B;  5TIS O;  1THQ A;  5B5E O;  1G90 A;  5ADX L;  1ZHY A;  2IWV A;  3EMN X;  5DL7 A;  4AUI A;  4FUV A;  2R4L A;  2WJQ A;  2J1N A;  3AA1 A;  4RJW A;  2IWW A;  4O4X A;  4FSO A;  4U9C A;  3GP6 A;  2J4U P;  3JCU O;  5E79 O;  5T5F A;  2LHF A;  3AAA B;  3AAE A;  2MHL A;  1ZHT A;  4O3X B;  1P4T A;  2Y0L A;  4PR7 A;  5JDP A;  3POU A;  2F1C X;  3HOL A;  4O4U A;  3AA6 B;  1S5L O;  3KZI O;  3NJT A;  3SY7 A;  2Y2X A;  4FZN A;  4N59 A;  3PGR A;  4GCS A;  4AYM C;  2K4T A;  3T24 A;  4CTD A;  4AFK A;  1PRN A;  3PF1 A;  4UB6 O;  1BT9 A;  2XTR A;  4E1T A;  1GFN A;  3AA7 B;  3HW9 A;  3JTY A;  2XMX A;  4FQE A;  3LK2 B;  2K0L A;  2R4P A;  4FSP A;  4RJX A;  2R4O A;  3UAQ A;  3G7G A;  4IL6 O;  1IZN B;  2F1T A;  3DZM A;  3BRZ A;  5DL5 A;  2LFU A;  2XE5 A;  2Y0H A;  2Y0K A;  3A2S X;  4O49 A;  2YPV A;  5KAI O;  3VZW X;  4E1S A;  3PGS A;  2KC0 A;  3AA1 B;  2FGR A;  4JCH A;  1H6S 1;  5FVN A;  3POR A;  5GTI O;  2WVP A;  3VE1 A;  2ERV A;  4D5U A;  3VY8 X;  3SY9 A;  2O4V A;  5AFU L;  3O0E A;  3PQU A;  3SYB A;  3PQS A;  4LSE A;  4D64 A;  1MM4 A;  2M06 A;  3AAE B;  4FT6 A;  3PRN A;  5G39 A;  4AYE C;  5GTH O;  4QQ1 A;  3DWO X;  2GE4 A;  2W80 C;  4FES A;  4GF4 A;  4O3W A;  1QJP A;  8PRN A;  2W81 C;  2FGQ X;  4RLB A;  1GFQ A;  4KR8 A;  3SZD A;  3T0S A;  3WI4 A;  4O3Y A;  3V8U A;  1T16 A;  2KZ7 A;  3DA4 A;  1HXX A;  4N74 A;  4XNL A;  3WI5 A;  4G75 A;  4PUX A;  5DL8 A;  3SZV A;  3A0H O;  2N2M A;  1ZHW A;  1GFO A;  5IYU A;  2Y7S A;  3C5O A;  3KVD D;  3POQ A;  4FZL A;  4LSH A;  3FYX A;  1GFP A;  3AA0 B;  5G3A A;  5KAF O;  2X27 X;  1HXT A;  1T1L A;  4GCP A;  3RBH A;  3UPG A;  2AXT O;  3A0B O;  3HWB A;  3HOE A;  2R8A A;  2XTQ A;  2N2L A;  3DWN A;  4Z3T A;  4K3C A;  4N75 A;  1GFM A;  1ZHX A;  4K3B A;  4LSF A;  5PRN A;  4AKR A;  4FZM A;  5EE2 A;  4GHB A;  4FMS A;  3LK4 2;  5DL6 A;  3VZU X;  4AYD C;  1HXU A;  4BUM X;  1ZHZ A;  2JQY A;  4UB8 O;  4F4B A;  5D5D A;  4RL9 A;  3NSG A;  3QRC A;  1Q9G A;  4C4V A;  5B66 O;  4FRX A;  1QJ9 A;  2OMF A;  4RLC A;  2R89 A;  2XE3 A;  3BRY A;  4FRT A;  4G76 A;  4JFB A;  4N58 A;  4PJ0 O;  3LK2 A;  2R4N A;  1Q9F A;  2KXP A;  2KZ7 B;  2YNK A;  3K19 A;  3PGU A;  3VE2 A;  3LK3 A;  4AKM A;  3UU2 A;  1IZN A;  4GCQ A;  1QJ8 A;  2KDY A;  4KR4 A;  3T20 A;  3VZT X;  1BXW A;  4C69 X;  1OPF A;  3SYS A;  2M07 A;  2JMM A;  1E54 A;  5G38 A;  2PRN A;  5ADX K;  1OSM A;  2QTK A;  3WU2 O;  4XNK A;  2POR A;  4AZL A;  2ZLD A;  7PRN A;  2R88 A;  2X9K A;  3AAA A;  6PRN A;  4LSI A;  2XG6 A;  4AYN A;  4O3Z A;  2XE2 A;  5G26 A;  4AKR B;  5AFU K;  3LK4 1;  2MNH A;  3QRA A;  4AYI D;  3TZG A;  4D65 A;  3AA6 A; 
#chains in the Genus database with same CATH homology
 3POX A;  2ZFG A;  1MPF A;  2ODJ A;  5GV0 A;  3DA3 A;  4KRA A;  4B61 A;  1BH3 A;  1ORM A;  1PHO A;  2F1V A;  3VY9 X;  1MM5 A;  4FOZ A;  3AA7 A;  1YS5 A;  2KXP B;  3AA0 A;  2XE1 A;  3LK3 B;  1THQ A;  1G90 A;  5ADX L;  1ZHY A;  3EMN X;  5DL7 A;  4AUI A;  4FUV A;  2J1N A;  3AA1 A;  4RJW A;  4O4X A;  4FSO A;  4U9C A;  3GP6 A;  2J4U P;  5T5F A;  2LHF A;  3AAA B;  3AAE A;  2MHL A;  1ZHT A;  4O3X B;  1P4T A;  2Y0L A;  5JDP A;  3POU A;  3HOL A;  4O4U A;  3SY7 A;  3AA6 B;  2Y2X A;  4FZN A;  4N59 A;  4GCS A;  4AYM C;  2K4T A;  3T24 A;  4AFK A;  1PRN A;  1BT9 A;  2XTR A;  4E1T A;  1GFN A;  3AA7 B;  3HW9 A;  3JTY A;  2XMX A;  3LK2 B;  2K0L A;  4RJX A;  4FSP A;  3UAQ A;  3G7G A;  1IZN B;  2F1T A;  5DL5 A;  2LFU A;  2XE5 A;  2Y0H A;  2Y0K A;  3A2S X;  4O49 A;  2YPV A;  3VZW X;  4E1S A;  2KC0 A;  3AA1 B;  2FGR A;  4JCH A;  1H6S 1;  5FVN A;  3POR A;  3VE1 A;  4D5U A;  2ERV A;  3VY8 X;  3SY9 A;  2O4V A;  5AFU L;  3O0E A;  3PQU A;  3SYB A;  3PQS A;  4LSE A;  4D64 A;  1MM4 A;  2M06 A;  3AAE B;  4FT6 A;  3PRN A;  4AYE C;  4QQ1 A;  2GE4 A;  2W80 C;  4FES A;  4GF4 A;  4O3W A;  1QJP A;  8PRN A;  2W81 C;  2FGQ X;  4RLB A;  1GFQ A;  4KR8 A;  3SZD A;  3T0S A;  3WI4 A;  4O3Y A;  3V8U A;  2KZ7 A;  3DA4 A;  1HXX A;  4XNL A;  3WI5 A;  4G75 A;  4PUX A;  5DL8 A;  3SZV A;  2N2M A;  1ZHW A;  1GFO A;  5IYU A;  2Y7S A;  3C5O A;  3KVD D;  3POQ A;  4FZL A;  4LSH A;  3FYX A;  1GFP A;  3AA0 B;  2X27 X;  1HXT A;  4GCP A;  3RBH A;  3UPG A;  3HWB A;  3HOE A;  2XTQ A;  4Z3T A;  2N2L A;  1GFM A;  1ZHX A;  4LSF A;  5PRN A;  4AKR A;  4FZM A;  5EE2 A;  4GHB A;  4FMS A;  3LK4 2;  5DL6 A;  3VZU X;  4AYD C;  1HXU A;  4BUM X;  1ZHZ A;  4F4B A;  5D5D A;  4RL9 A;  3NSG A;  3QRC A;  1Q9G A;  4FRX A;  1QJ9 A;  2OMF A;  4RLC A;  3VZT X;  2XE3 A;  4FRT A;  4N58 A;  4G76 A;  4JFB A;  3LK2 A;  3K19 A;  1Q9F A;  2KXP A;  2KZ7 B;  2YNK A;  4AKM A;  3VE2 A;  3LK3 A;  3UU2 A;  1IZN A;  4GCQ A;  1QJ8 A;  2KDY A;  4KR4 A;  3T20 A;  1BXW A;  4C69 X;  1OPF A;  3SYS A;  2M07 A;  2JMM A;  1E54 A;  2PRN A;  5ADX K;  1OSM A;  2QTK A;  4XNK A;  2POR A;  4AZL A;  2ZLD A;  7PRN A;  3AAA A;  6PRN A;  4LSI A;  2XG6 A;  4AYN A;  4O3Z A;  2XE2 A;  5G26 A;  4AKR B;  5AFU K;  3LK4 1;  2MNH A;  3QRA A;  4AYI D;  3TZG A;  4D65 A;  3AA6 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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4BUMX

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations