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


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