3JTYA

Crystal structure of a benf-like porin from pseudomonas fluorescens pf-5
Total Genus 97
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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
97
sequence length
388
structure length
388
Chain Sequence
GFLEDAQANLTLRNFYFNRNFTNPTKAQGKAEEWTQSFILDAKSGFTQGTVGFGMDVLGLYSLKLDGGKGTGGTQLLPLDHDGRPADNFGRLGVAFKARLSQTEVKVGEWMPVLPILRSDDGRSLPQTFRGGQITSKEIAGLTLYGGQFRANSPRDDSSMSDMSMFGKAAFTSDRFNFQGAEYAFNDKRTQIALWNAQLKDIYSQQFINLIHSQPLGDWTLGANLGFFYGKEDGSARAGDMENRTWSGLFSAKYGGNTFYVGLQKLTGDSAWMRVNGTSGGTLANDSYNASYDNAKEKSWQVRHDYNFAALGVPGLTLMNRYISGSNVHTATVSDGKEWGRESEVAYTVQSGTLKNLNLKWRNSTMRRDFSNNEFDENRLIISYPLSL
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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 Transport protein
molecule keywords BenF-like porin
publication title Structure of a putative BenF-like porin from Pseudomonas fluorescens Pf-5 at 2.6 A resolution.
pubmed doi rcsb
source organism Pseudomonas fluorescens pf-5
total genus 97
structure length 388
sequence length 388
chains with identical sequence B, C, D
ec nomenclature
pdb deposition date 2009-09-14

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 3jtyA01
3SZVA 3VZUX 3VY9X 3VZTX 3UU2A 2OMFA 1OPFA 1HXUA 4FOZA 2J1NA 3POUA 3UPGA 2ZFGA 3K19A 3SYBA 2O4VA 2QTKA 3SZDA 1BH3A 1E54A 5FVNA 4LSHA 1HXXA 2XE1A 4FRXA 4BUMX 1PHOA 3SYSA 3EMNX 5DL6A 4LSEA 2Y0KA 2XE5A 3WI4A 4GCQA 3JTYA 2Y0HA 1GFNA 4GCSA 4GCPA 5DL8A 2XG6A 8PRNA 4FSOA 3HWBA 5DL5A 4D65A 2Y0LA 4KR8A 1GFQA 1OSMA 3SY9A 2XE3A 2J4UP 3FYXA 3POXA 4D5UA 3SY7A 6PRNA 3PRNA 1HXTA 4FT6A 2ODJA 2PORA 3NSGA 1PRNA 3O0EA 4FRTA 4RJXA 7PRNA 1GFOA 4KRAA 3T20A 3T0SA 2XE2A 5JDPA 5PRNA 3T24A 3PORA 1BT9A 2FGRA 1MPFA 2Y2XA 5DL7A 3A2SX 4FMSA 4C69X 1GFMA 3VZWX 2ZLDA 4JFBA 1GFPA 2K4TA 4RJWA 2PRNA 3WI5A 4LSIA 3HW9A 4FSPA 4LSFA 3VY8X 4D64A 1H6S1 3POQA 4KR4A 4AUIA 2FGQX
chains in the Genus database with same CATH superfamily
2M06A 4G76A 3GP6A 5GTHO 3SZVA 4FZMA 2Y7SA 3AA6B 2AXTO 3VZUX 4O4XA 4K3CA 3AAEA 3VY9X 4O4UA 3VZTX 3JCUO 3UU2A 2OMFA 1S5LO 1OPFA 1HXUA 1IZNB 2KXPB 1QJ9A 3AA1B 4FOZA 5B66O 2J1NA 3BRYA 4AFKA 3POUA 2JQYA 4UB6O 3UPGA 3AAAA 2ZFGA 2JMMA 2WJRA 2KC0A 2F1VA 3K19A 3SYBA 4GF4A 3DA3A 5G38A 2O4VA 4U9CA 2M07A 2QTKA 1YS5A 3SZDA 2R8AA 2X9KA 4O3ZA 1BH3A 3AA6A 2YPVA 4O3XB 1E54A 5FVNA 3UAQA 4LSHA 1HXXA 2XE1A 3RBHA 4FRXA 2KXPA 3AA1A 1IZNA 2WVPA 4BUMX 2KZ7B 2F1CX 3LK2B 7PRNA 1PHOA 3LK42 3SYSA 1BXWA 3EMNX 4AZLA 1THQA 5DL6A 3C5OA 5E79O 3VE1A 1T16A 1ZHTA 1ZHZA 4LSEA 3AA7B 3HOEA 1ZHXA 2XE5A 2Y0KA 4FUVA 3WI4A 5IYUA 2R4PA 4GCQA 2WJQA 3DWOX 3JTYA 1T1LA 4N58A 2Y0HA 1GFNA 4FZLA 4GCPA 2X27X 2W81C 4GCSA 5DL8A 2XG6A 5D5DA 8PRNA 4FSOA 3G7GA 3HWBA 5DL5A 4D65A 1QJ8A 4N74A 2KZ7A 5B5EO 3BRZA 2ERVA 3LK2A 4AYEC 2IWVA 2Y0LA 4KR8A 1GFQA 3AA0A 1MM5A 2GE4A 1OSMA 1MM4A 4PUXA 3SY9A 2XE3A 1ORMA 3AA7A 2J4UP 3FYXA 3PF1A 3POXA 5KAFO 4C00A 5AFUK 1QJPA 4D5UA 5GTIO 2R4OA 3SY7A 6PRNA 4AYID 4AKRB 4E1SA 3PRNA 3PQSA 4E1TA 1HXTA 3BS0A 5T5FA 4F4BA 4FT6A 2ODJA 2PORA 3NSGA 1PRNA 3O0EA 3KVDD 4FRTA 2K0LA 4RJXA 4XNLA 1GFOA 4KRAA 3T20A 2R88A 4GHBA 5EE2A 3T0SA 1Q9FA 4FZNA 2XE2A 2F1TA 2KDYA 2MNHA 4UB8O 5JDPA 3DZMA 5ADXL 3DA4A 4AYMC 4AYNA 1ZHYA 4IL6O 3DWNA 4JCHA 5PRNA 4C4VB 4O3YA 3T24A 3PORA 3LK41 2N2MA 1BT9A 2FGRA 2YNKA 3LK3B 3PGSA 5KAIO 2R4NA 4CTDA 4XNKA 4AKRA 1MPFA 3PGUA 5G3AA 4K3BA 2Y2XA 5DL7A 3WU2O 3A2SX 4FMSA 4C69X 4Z3TA 1GFMA 4G75A 3VZWX 2IWWA 3A0HO 3QRCA 2ZLDA 4JFBA 4QQ1A 3AA0B 3HOLA 3V8UA 1GFPA 5TISO 2K4TA 1P4TA 2LHFA 2MHLA 3QRAA 4AKMA 4B61A 2XMXA 5G39A 4O3WA 5GV0A 4PR7A 2XTRA 4C4VA 4RJWA 3AAEB 3NJTA 5AFUL 4RLCA 4RL9A 4FESA 2PRNA 5ADXK 3WI5A 2R4LA 3LK3A 4LSIA 2LFUA 3HW9A 4FSPA 2XTQA 3TZGA 4AYDC 4RLBA 3PQUA 2N2LA 4LSFA 3PGRA 4N59A 3VY8X 2R89A 4D64A 3AAAB 4FQEA 4O49A 1H6S1 3A0BO 3POQA 4N75A 5H2FO 1G90A 5G26A 3VE2A 4KR4A 4AUIA 4PJ0O 1Q9GA 3KZIO 2W80C 1ZHWA 2FGQX
chains in the Genus database with same CATH topology
2M06A 4G76A 3GP6A 3SZVA 4FZMA 2Y7SA 3AA6B 3VZUX 4O4XA 3AAEA 3VY9X 4O4UA 3VZTX 3UU2A 2OMFA 1OPFA 1HXUA 1IZNB 2KXPB 1QJ9A 3AA1B 4FOZA 2J1NA 4AFKA 3POUA 3UPGA 3AAAA 2ZFGA 2JMMA 2KC0A 2F1VA 3K19A 3SYBA 4GF4A 3DA3A 2O4VA 4U9CA 2M07A 2QTKA 1YS5A 3SZDA 4O3ZA 1BH3A 3AA6A 2YPVA 4O3XB 1E54A 5FVNA 3UAQA 4LSHA 1HXXA 2XE1A 3RBHA 4FRXA 2KXPA 3AA1A 1IZNA 4BUMX 5ADXL 2KZ7B 3LK2B 7PRNA 1PHOA 3LK42 3SYSA 1BXWA 3EMNX 4AZLA 1THQA 5DL6A 3C5OA 3VE1A 4LSEA 1ZHTA 1ZHZA 4RL9A 3AA7B 3HOEA 1ZHXA 2XE5A 2Y0KA 4FUVA 3WI4A 5IYUA 4GCQA 3JTYA 4N58A 2Y0HA 1GFNA 4FZLA 4GCPA 2X27X 2W81C 4GCSA 5DL8A 2XG6A 5D5DA 8PRNA 4FSOA 3G7GA 3HWBA 5DL5A 4D65A 1QJ8A 2KZ7A 2ERVA 3LK2A 4AYEC 2Y0LA 4KR8A 1GFQA 3AA0A 1MM5A 2GE4A 1OSMA 1MM4A 4PUXA 3SY9A 2XE3A 1ORMA 3AA7A 2J4UP 3FYXA 3POXA 5AFUK 1QJPA 4D5UA 3SY7A 6PRNA 4AYID 4AKRB 4E1SA 3PRNA 3PQSA 4E1TA 1HXTA 5T5FA 4F4BA 4FT6A 2ODJA 2PORA 3NSGA 1PRNA 3O0EA 3KVDD 4FRTA 2K0LA 4RJXA 4XNLA 1GFOA 4KRAA 3T20A 5EE2A 4GHBA 3T0SA 1Q9FA 4FZNA 2XE2A 2F1TA 2KDYA 2MNHA 5JDPA 3DA4A 4AYMC 4AYNA 1ZHYA 4JCHA 5PRNA 4O3YA 3T24A 3PORA 3LK41 2N2MA 1BT9A 2FGRA 2YNKA 3LK3B 4XNKA 4AKRA 1MPFA 2Y2XA 5DL7A 4Z3TA 3A2SX 4FMSA 4C69X 1GFMA 4G75A 3VZWX 3QRCA 2ZLDA 4JFBA 4QQ1A 3AA0B 3HOLA 3V8UA 1GFPA 2K4TA 1P4TA 2LHFA 2MHLA 3QRAA 4AKMA 4B61A 2XMXA 4O3WA 5GV0A 2XTRA 4RJWA 3AAEB 5AFUL 4RLCA 4FESA 2PRNA 5ADXK 3WI5A 3LK3A 4LSIA 2LFUA 3HW9A 4FSPA 2XTQA 3TZGA 4AYDC 4RLBA 3PQUA 2N2LA 4LSFA 4N59A 3VY8X 4D64A 3AAAB 4O49A 1H6S1 1G90A 3POQA 5G26A 3VE2A 4KR4A 4AUIA 1Q9GA 2W80C 1ZHWA 2FGQX
chains in the Genus database with same CATH homology


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