2Y2XA

Crystal structure of pseudomonas aeruginosa opdk with vanillate
Total Genus 101
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
101
sequence length
387
structure length
374
Chain Sequence
GFLEDAKTDLVLRNYYFNRDFLVDEWAQGFILKFSSGYTPGTVGVGLDAIGLFGVKLNSNSELLPLHDDGRAADNYGRVGVAAKLRVSASELKIGEMLPDIPLLRYDDGRLLPQTFRGFAVVSRELPGLALQAGRFDAVSLRNSADMQDLSAWSAPTQKSDGFNYAGAEYRFNRERTQLGLWHGQLEDVYRQSYANLLHKQRVGDWTLGANLGLFVDRDDGAARAGEIDSHTVYGLFSAGIGLHTFYLGLQKVGGDSGWQSVYGSSGRSMGNDMFNGNFTNADERSWQVRYDYDFVGLGWPGLIGMVRYGHGSNATTKAGSGGKEWERDVELGYTVQSGPLARLNVRLNHASNRRSFNSDFDQTRLVVSYPLSW
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 Membrane protein
molecule keywords VANILLATE PORIN OPDK
publication title Pseudomonas Aeruginosa Opdk with Vanillate
rcsb
source organism Pseudomonas aeruginosa pa01
total genus 101
structure length 374
sequence length 387
chains with identical sequence B
ec nomenclature
pdb deposition date 2010-12-16

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF03573 OprD outer membrane porin, OprD family
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
2.40.160.10 Mainly Beta Beta Barrel Porin Porin 2y2xA01
4D5UA 1HXTA 3JTYA 3SY9A 3UPGA 3SYBA 5DL6A 3UU2A 2J4UP 1MPFA 2K4TA 4RJXA 2Y2XA 1BH3A 1E54A 4LSIA 3SY7A 2XE5A 4KRAA 3EMNX 1OSMA 2XE2A 4BUMX 4FMSA 3PORA 3O0EA 4FSOA 2J1NA 4KR4A 3HWBA 7PRNA 2PORA 3WI5A 5JDPA 3SYSA 3HW9A 2FGRA 4LSHA 4FT6A 2Y0KA 5DL8A 3NSGA 4GCSA 4JFBA 2ODJA 3T0SA 2PRNA 3FYXA 5DL5A 1GFOA 1PRNA 6PRNA 8PRNA 4FSPA 5FVNA 1PHOA 3VY9X 1GFQA 4LSFA 2ZFGA 1BT9A 3VY8X 3PRNA 4GCPA 3POQA 4KR8A 1GFPA 3VZTX 1HXUA 2O4VA 2ZLDA 3SZVA 2XG6A 4RJWA 5DL7A 1H6S1 3T20A 4GCQA 2Y0LA 2Y0HA 4C69X 3POXA 4LSEA 3SZDA 3T24A 1GFMA 3VZUX 4D64A 2XE1A 1GFNA 2QTKA 2FGQX 3K19A 3WI4A 1HXXA 4AUIA 2OMFA 4FRXA 2XE3A 4D65A 4FOZA 3POUA 1OPFA 3A2SX 3VZWX 5PRNA 4FRTA
chains in the Genus database with same CATH superfamily
5G3AA 3VE2A 3AA7B 2MHLA 4GF4A 4N74A 4D5UA 4QQ1A 1HXTA 4XNLA 5G38A 3JTYA 3SY9A 2XTQA 5G26A 3BS0A 3UPGA 3SYBA 4AYDC 5DL6A 3BRZA 3UU2A 4AYMC 2J4UP 1MPFA 2KZ7A 3PF1A 4FZLA 4G75A 2R4PA 1QJPA 2K4TA 1QJ8A 1QJ9A 2AXTO 2Y2XA 1BH3A 3DA3A 3PQSA 2WJQA 1E54A 4LSIA 3SY7A 3DZMA 4K3BA 4RL9A 2XE5A 3PGSA 4FRTA 4KRAA 3UAQA 3EMNX 1OSMA 2XE2A 4FQEA 1IZNB 1ZHXA 2X27X 3AA1B 3AA0A 3PORA 4FMSA 3V8UA 2W81C 3O0EA 2X9KA 1ZHZA 2ERVA 2J1NA 3LK42 4FSOA 4KR4A 3HWBA 7PRNA 3LK3B 4O3ZA 4B61A 4E1TA 4RLBA 2PORA 2M07A 2R4NA 2KXPA 1ZHTA 4FZMA 3WI5A 5JDPA 5B5EO 3SYSA 3HW9A 3AA7A 2IWVA 4AYEC 4AKMA 3BRYA 2FGRA 4LSHA 4K3CA 2KC0A 4FT6A 2Y0KA 5DL8A 3NSGA 4UB8O 5T5FA 3WU2O 4GCSA 2R8AA 2N2MA 4JFBA 4AYID 2ODJA 3QRAA 2PRNA 3AAAB 4UB6O 3T0SA 4O49A 3FYXA 3PQUA 4O4UA 5DL5A 1GFOA 4O3YA 4E1SA 4FZNA 1PRNA 4O3WA 1T1LA 6PRNA 4N59A 8PRNA 4FSPA 4AKRA 5FVNA 2R88A 4F4BA 2IWWA 4PR7A 4XNKA 5B66O 4C4VA 1IZNA 1PHOA 2XTRA 1GFQA 2LFUA 3A0BO 3AA1A 4JCHA 3VY9X 4Z3TA 1P4TA 5ADXK 5TISO 3HOEA 2ZFGA 4FUVA 4LSFA 1YS5A 2YPVA 3KZIO 3LK2A 4N75A 3G7GA 4O3XB 1BT9A 4BUMX 2XMXA 1ORMA 3C5OA 2F1VA 3VY8X 5ADXL 1G90A 1T16A 3AA6B 3PRNA 4GCPA 2MNHA 3PGUA 3POQA 4KR8A 1MM5A 2JMMA 3A0HO 2JQYA 5H2FO 4CTDA 4PJ0O 1GFPA 2N2LA 1HXUA 5KAIO 3VZTX 2K0LA 1S5LO 2O4VA 1THQA 2ZLDA 3AAAA 4N58A 4AZLA 3DWOX 3SZVA 1MM4A 2XG6A 3RBHA 5EE2A 4GHBA 3LK41 4RJWA 1ZHWA 2GE4A 5DL7A 1H6S1 2R4LA 2YNKA 5E79O 5GV0A 1Q9FA 3AAEB 4U9CA 3T20A 4GCQA 3PGRA 2Y0LA 3GP6A 5KAFO 3VE1A 3LK3A 3HOLA 4AYNA 3AA6A 2WVPA 3TZGA 2Y0HA 5GTHO 3JCUO 2F1TA 4AFKA 4C69X 3POXA 4LSEA 4IL6O 3DA4A 3SZDA 1GFMA 3T24A 4G76A 3VZUX 4D64A 1Q9GA 2KDYA 4C00A 3QRCA 2XE1A 2KZ7B 1GFNA 2R89A 2Y7SA 2QTKA 5AFUK 2WJRA 3KVDD 4RLCA 5GTIO 4AKRB 2FGQX 3K19A 2F1CX 1HXXA 3WI4A 4AUIA 4O4XA 5IYUA 2OMFA 3NJTA 4C4VB 5AFUL 3AA0B 2M06A 4FRXA 2XE3A 4D65A 4FOZA 3DWNA 3POUA 3AAEA 2LHFA 3LK2B 1OPFA 4PUXA 2W80C 3A2SX 5D5DA 3VZWX 5PRNA 2R4OA 2KXPB 1BXWA 5G39A 1ZHYA 4FESA 4RJXA
chains in the Genus database with same CATH topology
3VE2A 3AA7B 2MHLA 4GF4A 4D5UA 4QQ1A 1HXTA 4XNLA 3JTYA 3SY9A 2XTQA 5G26A 3UPGA 3SYBA 4AYDC 5DL6A 3UU2A 4AYMC 2J4UP 1MPFA 2KZ7A 4FZLA 4G75A 1QJPA 2K4TA 1QJ8A 1QJ9A 2Y2XA 3DA3A 1BH3A 3PQSA 4RJXA 4AYID 1E54A 4LSIA 3SY7A 4RL9A 2XE5A 4KRAA 4FRTA 3UAQA 3EMNX 1OSMA 2XE2A 4BUMX 1IZNB 1ZHXA 2X27X 3AA1B 3AA0A 3PORA 4FMSA 3V8UA 2W81C 3O0EA 1ZHZA 2ERVA 2J1NA 3LK42 4FSOA 4KR4A 3HWBA 7PRNA 3LK3B 4O3ZA 4B61A 4E1TA 4RLBA 2PORA 2M07A 1ZHTA 2KXPA 4FZMA 3WI5A 5JDPA 3SYSA 3HW9A 3AA7A 4AYEC 4AKMA 2FGRA 4LSHA 2KC0A 4FT6A 2Y0KA 5DL8A 3NSGA 5T5FA 4GCSA 2N2MA 4JFBA 2ODJA 3QRAA 2PRNA 3AAAB 3T0SA 4O49A 3FYXA 3PQUA 4O4UA 5DL5A 1GFOA 4O3YA 4E1SA 4FZNA 1PRNA 4O3WA 6PRNA 4N59A 8PRNA 4FSPA 4AKRA 5FVNA 4F4BA 4XNKA 1IZNA 1PHOA 2XTRA 1GFQA 2LFUA 3AA1A 4JCHA 3VY9X 4Z3TA 1P4TA 5ADXK 3HOEA 2ZFGA 4FUVA 4LSFA 1YS5A 2YPVA 3LK2A 4O3XB 3G7GA 1BT9A 5ADXL 2XMXA 1ORMA 3C5OA 2F1VA 3VY8X 1G90A 3PRNA 3AA6B 4GCPA 2MNHA 3POQA 4KR8A 1MM5A 2JMMA 1GFPA 2N2LA 1HXUA 3VZTX 2K0LA 2O4VA 4N58A 1THQA 2ZLDA 3AAAA 4AZLA 3SZVA 1MM4A 2XG6A 3RBHA 5EE2A 4GHBA 3LK41 4RJWA 1ZHWA 2GE4A 5DL7A 1H6S1 2YNKA 1Q9FA 3AAEB 4U9CA 3T20A 4GCQA 3VE1A 2Y0LA 3GP6A 3LK3A 3HOLA 4AYNA 3AA6A 3TZGA 2Y0HA 2F1TA 4AFKA 4C69X 3POXA 4LSEA 3SZDA 3DA4A 3T24A 1GFMA 4G76A 3VZUX 4D64A 1Q9GA 2KDYA 3QRCA 2XE1A 2KZ7B 1GFNA 2Y7SA 2QTKA 5AFUK 3KVDD 4RLCA 4AKRB 2FGQX 3K19A 3WI4A 1HXXA 4AUIA 5IYUA 4O4XA 2OMFA 5AFUL 3AA0B 2M06A 4FRXA 2XE3A 4D65A 4FOZA 3POUA 3AAEA 2LHFA 3LK2B 1OPFA 4PUXA 2W80C 3A2SX 5D5DA 3VZWX 5PRNA 2KXPB 1BXWA 5GV0A 1ZHYA 4FESA
chains in the Genus database with same CATH homology


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