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


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