4FOZA

Crystal structure of occd1 (oprd) y282r/d307h
Total Genus 108
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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
108
sequence length
420
structure length
377
Chain Sequence
DAFVSDQAEAKGFIEDSSLDLLLRNYYFNRDDRVDWTQGFLTTYESGFTQGTVGFGVDAFGYLGLKLDGTGNLPVPRDDYSRAGGAVKVRISKTMLKWGEMQPTAPVFARLFPQTATGFQLQSSEFEGLDLEAGHFTEELYATYAGETAKSADFIGGRYAITDNLSASLYGAELEDIYRQYYLNSNYTIPLASDQSLGFDFNIYRTNDEGKAKAGDISNTTWSLAVAYTLDAHTFTLAYQKVHGDQPFDRIGFIFLANSVQYSHFNGPGEKSWQARYDLNLASYGVPGLTFMVRYINGKDIDGTKMSDNNVGYKNYGYGEDGKHHETNLEAKYVVQSGPAKDLSFRIRQAWHRANADQGEGDQNEFRLIVDYPLSIL
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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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molecule tags Protein transport
source organism Pseudomonas aeruginosa
publication title Toward Understanding the Outer Membrane Uptake of Small Molecules by Pseudomonas aeruginosa.
pubmed doi rcsb
molecule keywords Porin D
total genus 108
structure length 377
sequence length 420
ec nomenclature ec 3.4.21.-:
pdb deposition date 2012-06-21

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 4fozA01
2Y0HA 1E54A 4KR4A 2XE3A 3UU2A 1GFMA 3WI5A 2PRNA 2XE1A 4LSHA 7PRNA 3A2SX 3SYBA 4RJXA 4C69X 1GFOA 2XE2A 2J1NA 4FSPA 4FRTA 8PRNA 4FSOA 2O4VA 2ODJA 3UPGA 3HWBA 1BH3A 3O0EA 3T20A 3VZWX 1OSMA 3PRNA 3POQA 1BT9A 4JFBA 4D5UA 2Y2XA 3SY7A 4LSFA 2XG6A 5FVNA 5PRNA 1GFNA 4FOZA 4GCQA 1HXXA 5DL5A 1OPFA 2OMFA 5DL7A 2FGRA 2QTKA 3FYXA 5DL6A 3SZVA 6PRNA 2ZFGA 4FMSA 3VZUX 3WI4A 4BUMX 3K19A 4FRXA 1MPFA 3POXA 1HXUA 3NSGA 3T24A 3EMNX 2XE5A 4LSIA 2Y0KA 3VZTX 3SYSA 4KR8A 2PORA 3VY8X 1H6S1 4D65A 3POUA 3PORA 2Y0LA 1GFPA 5JDPA 4GCPA 1HXTA 4FT6A 4GCSA 2J4UP 3SZDA 4LSEA 1GFQA 5DL8A 3JTYA 3T0SA 2ZLDA 2FGQX 2K4TA 4RJWA 1PHOA 3SY9A 4KRAA 1PRNA 4D64A 3VY9X 3HW9A 4AUIA
chains in the Genus database with same CATH superfamily
2Y0HA 3AA6A 4AYDC 1E54A 3LK2A 2XTRA 4GHBA 4KR4A 2XE3A 4XNKA 3NJTA 4E1SA 4K3CA 3UU2A 1GFMA 2F1CX 3DWNA 3RBHA 3WI5A 5GV0A 2IWWA 4N58A 2PRNA 4RL9A 3QRCA 2W80C 2XE1A 1IZNA 3AA1B 4LSHA 7PRNA 3A2SX 3AAEA 3SYBA 4RJXA 4C69X 4F4BA 2MHLA 2KC0A 4B61A 1GFOA 1YS5A 2XE2A 3AA6B 3VE2A 4Z3TA 4UB8O 2F1TA 2F1VA 5KAFO 4AYID 2YNKA 2J1NA 4FSPA 5G39A 4CTDA 4FQEA 4FRTA 8PRNA 4AFKA 4FSOA 2O4VA 2ODJA 2X9KA 3UPGA 1ZHXA 3HWBA 4O3YA 3AAEB 3PQUA 2R89A 2N2LA 2XMXA 4FZNA 3AA7B 4AZLA 1BH3A 2KDYA 1ZHTA 1ZHYA 4JCHA 4O4UA 4O3ZA 5T5FA 4GF4A 4RLCA 3O0EA 4PUXA 3T20A 3VZWX 1OSMA 3PRNA 3GP6A 2LFUA 3POQA 4IL6O 1BT9A 4FZLA 3QRAA 4JFBA 4D5UA 5G3AA 2ERVA 3BS0A 3PGSA 4UB6O 2Y2XA 4AKMA 1Q9FA 3SY7A 4LSFA 2WVPA 2KXPA 3PQSA 2XG6A 4AKRA 5G38A 3LK2B 3LK41 4QQ1A 5EE2A 5FVNA 5PRNA 2Y7SA 3PGUA 5B66O 2XTQA 1GFNA 4PJ0O 4FOZA 5ADXL 4GCQA 1HXXA 3G7GA 4N75A 5DL5A 1OPFA 2OMFA 4O3WA 5DL7A 4AYEC 2R8AA 1IZNB 4C4VA 5AFUK 2FGRA 2QTKA 3DZMA 3FYXA 5DL6A 3SZVA 2N2MA 2R4NA 3A0HO 6PRNA 2R4OA 1ORMA 2ZFGA 3DA4A 1QJ9A 2JMMA 3LK3A 4FMSA 4FUVA 3VZUX 3WI4A 4BUMX 3K19A 1S5LO 2KZ7A 4N59A 4FRXA 4AYMC 1MM5A 1T16A 5D5DA 4FZMA 4C00A 3AA0A 3A0BO 1MPFA 3POXA 1HXUA 3NSGA 3T24A 3PF1A 3EMNX 4O3XB 2XE5A 4LSIA 2MNHA 3HOLA 3UAQA 4RLBA 2M06A 2IWVA 2Y0KA 3JCUO 3KVDD 1MM4A 3WU2O 3C5OA 5GTHO 3VZTX 3SYSA 4KR8A 2PORA 3HOEA 4G75A 3VY8X 1H6S1 4D65A 3DWOX 3AA1A 1BXWA 3POUA 5B5EO 3V8UA 2X27X 3VE1A 1G90A 3PORA 1GFPA 2Y0LA 4U9CA 2R4LA 2M07A 1QJPA 5H2FO 2K0LA 4E1TA 3BRYA 3KZIO 5JDPA 3BRZA 1ZHWA 2KXPB 3TZGA 5GTIO 4GCPA 1HXTA 2JQYA 4FT6A 4AKRB 4AYNA 5IYUA 4GCSA 5ADXK 2J4UP 3AAAA 5TISO 1T1LA 4N74A 4O4XA 3SZDA 4PR7A 4LSEA 2R88A 1GFQA 5DL8A 5KAIO 3JTYA 5G26A 3AA7A 4XNLA 2R4PA 2WJRA 3T0SA 5AFUL 2YPVA 2ZLDA 4C4VB 3LK42 2WJQA 1ZHZA 4O49A 3PGRA 4K3BA 2FGQX 2K4TA 2GE4A 4RJWA 1PHOA 3LK3B 3SY9A 3AAAB 1PRNA 4KRAA 2AXTO 1P4TA 4D64A 2KZ7B 2W81C 4FESA 1QJ8A 3VY9X 3DA3A 1Q9GA 3HW9A 2LHFA 1THQA 3AA0B 4G76A 4AUIA 5E79O
chains in the Genus database with same CATH topology
2Y0HA 3AA6A 4AYDC 1E54A 3LK2A 2XTRA 4GHBA 4KR4A 2XE3A 4XNKA 4E1SA 3UU2A 1GFMA 3RBHA 3WI5A 5GV0A 4N58A 2PRNA 4RL9A 3QRCA 2W80C 2XE1A 1IZNA 3AA1B 4LSHA 7PRNA 3A2SX 3AAEA 3SYBA 4RJXA 4C69X 4F4BA 2MHLA 2KC0A 4B61A 1GFOA 1YS5A 2XE2A 3AA6B 3VE2A 4Z3TA 2F1TA 2F1VA 4AYID 2YNKA 2J1NA 4FSPA 4FRTA 8PRNA 4AFKA 4FSOA 2O4VA 2ODJA 3UPGA 1ZHXA 3HWBA 4O3YA 3AAEB 3PQUA 2N2LA 2XMXA 4FZNA 3AA7B 4AZLA 1BH3A 2KDYA 1ZHTA 1ZHYA 4JCHA 4O4UA 4O3ZA 5T5FA 4GF4A 4RLCA 3O0EA 4PUXA 3T20A 3VZWX 1OSMA 3PRNA 3GP6A 2LFUA 3POQA 1BT9A 4FZLA 3QRAA 4JFBA 4D5UA 2ERVA 4AKMA 2Y2XA 1Q9FA 3SY7A 4LSFA 2KXPA 3PQSA 2XG6A 4AKRA 3LK2B 3LK41 4QQ1A 5EE2A 5FVNA 5PRNA 2Y7SA 2XTQA 1GFNA 5ADXL 4FOZA 4GCQA 1HXXA 3G7GA 5DL5A 1OPFA 2OMFA 4O3WA 5DL7A 4AYEC 1IZNB 5AFUK 2FGRA 2QTKA 3FYXA 5DL6A 3SZVA 2N2MA 6PRNA 1ORMA 2ZFGA 3DA4A 1QJ9A 2JMMA 3LK3A 4FMSA 4FUVA 3VZUX 3WI4A 4BUMX 3K19A 2KZ7A 4N59A 4FRXA 4AYMC 1MM5A 5D5DA 4FZMA 3AA0A 1MPFA 3POXA 1HXUA 3NSGA 3T24A 3EMNX 4O3XB 2XE5A 4LSIA 2MNHA 3HOLA 3UAQA 4RLBA 2M06A 2Y0KA 3KVDD 1MM4A 3C5OA 3VZTX 3SYSA 4KR8A 2PORA 3HOEA 4G75A 3VY8X 1H6S1 4D65A 3AA1A 1BXWA 3POUA 3V8UA 2X27X 3VE1A 1G90A 3PORA 1GFPA 2Y0LA 4U9CA 2M07A 1QJPA 2K0LA 4E1TA 5JDPA 1ZHWA 2KXPB 3TZGA 4GCPA 1HXTA 4FT6A 4AKRB 4AYNA 5IYUA 4GCSA 5ADXK 2J4UP 3AAAA 4O4XA 3SZDA 4LSEA 1GFQA 5DL8A 3JTYA 5G26A 3AA7A 4XNLA 3T0SA 5AFUL 2YPVA 2ZLDA 3LK42 1ZHZA 4O49A 2FGQX 2K4TA 2GE4A 4RJWA 1PHOA 3LK3B 3SY9A 3AAAB 1PRNA 4KRAA 4D64A 1P4TA 2KZ7B 2W81C 4FESA 1QJ8A 3VY9X 3DA3A 1Q9GA 3HW9A 2LHFA 1THQA 3AA0B 4G76A 4AUIA
chains in the Genus database with same CATH homology


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