3SYB | Genus

Total Genus 118

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	118
sequence length	452
structure length	408
Chain Sequence	PAPDNPSYAAEVQSIPSVAKPIKGQAGATGLVEGQSLTLTTRNFYSRENQRNAWVQGTVLKYSSGYTQGTVGFGFDVAAFNEIALGEWSKLGVANIRLRASNTEFKAGRFLVNTPVFSYIDNRALPSSFTGFAVTSEELDNLSLQAGSFRKVSPRTGSGDEDMTTEYGTRQVKGDRLNYLGGNYKPLDGLEISLYGSHFQDVWNQYYLGVTHDIGLENGIALRTAFNGYHTGDTGAREAGYIDNDTWSLAFTLGHRAHALTLAYQQVDGNEYFDYVHETSAIFLANSMLADYNSPNEKSAQIRYETDWSYYGVPGLSTGVWYVKGWDIDGTHYDGDRNGAYGNYAEVRAQDGEKHHELGLMAAYKVQNGPIKDSTFKLTYMMHKASQNQIDGSVNELRLVSTFPFNLL

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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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	Pseudomonas aeruginosa
publication title	Substrate Specificity within a Family of Outer Membrane Carboxylate Channels. pubmed doi rcsb
molecule keywords	Glycine-glutamate dipeptide porin OpdP
total genus	118
structure length	408
sequence length	452
ec nomenclature
pdb deposition date	2011-07-16

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	Class	Architecture	Topology	Homology	Domain
2.40.160.10	Mainly Beta	Beta Barrel	Porin	Porin	3sybA00

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

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

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

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

3SYBA

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations