4LSIA

Ion selectivity of ompf porin soaked in 0.3m kbr
Total Genus 100
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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
100
sequence length
334
structure length
334
Chain Sequence
b'DGNKVDLYGKAVGLHYFSKGNGENSYGGNGDMTYARLGFKGETQINSDLTGYGQWEYNFQGNNSEGADAQTGNKTRLAFAGLKYADVGSFDYGRNYGVVYDALGYTDMLPEFGGDTAYSDDFFVGRVGGVATYRNSNFFGLVDGLNFAVQYLGKNERDTARRSNGDGVGGSISYEYEGFGIVGAYGAADRTNLQEAQPLGNGKKAEQWATGLKYDANNIYLAANYGETRNATPITNKFTNTSGFANKTQDVLLVAQYQFDFGLRPSIAYTKSKAKDVEGIGDVDLVNYFEVGATYYFNKNMSTYVDYIINQIDSDNKLGVGSDDTVAVGIVYQF'
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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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publication title A structural study of ion permeation in OmpF porin from anomalous X-ray diffraction and molecular dynamics simulations.
pubmed doi rcsb
molecule keywords Outer membrane protein F
source organism Escherichia coli
molecule tags Transport protein
total genus 100
structure length 334
sequence length 334
chains with identical sequence B, C
ec nomenclature
pdb deposition date 2013-07-22

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF00267 Porin_1 Gram-negative porin
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
2.40.160.10 Mainly Beta Beta Barrel Porin Porin 4lsiA00
2XE5A 4D65A 1BH3A 1GFOA 4LSIA 1MPFA 3POUA 3T20A 3VY9X 5DL5A 1GFNA 3SYSA 2PORA 3K19A 1HXUA 4AUIA 4LSFA 3NSGA 2K4TA 3SY7A 2FGRA 3O0EA 3VZWX 1PHOA 1GFMA 1BT9A 2O4VA 4C69X 1HXTA 4FOZA 2Y0LA 2ODJA 1OSMA 2ZFGA 3A2SX 4GCQA 3EMNX 4LSHA 5JDPA 4KR4A 4KRAA 2J1NA 3T0SA 1OPFA 8PRNA 2Y0KA 2OMFA 2XG6A 3SY9A 3PORA 5DL6A 2J4UP 2ZLDA 1GFQA 1H6S1 2XE1A 2Y0HA 3JTYA 3HWBA 2Y2XA 4FSPA 3SZVA 6PRNA 4FSOA 4JFBA 2XE3A 3POXA 4D64A 3FYXA 2XE2A 4FRTA 3HW9A 4FT6A 5DL8A 3WI4A 4FRXA 2PRNA 1GFPA 7PRNA 3VY8X 4KR8A 1HXXA 4RJWA 5DL7A 3VZUX 1E54A 2QTKA 4BUMX 3SZDA 4RJXA 4D5UA 3PRNA 3UU2A 1PRNA 4LSEA 4FMSA 3SYBA 2FGQX 5FVNA 4GCSA 3UPGA 3POQA 4GCPA 5PRNA 3VZTX 3T24A 3WI5A
chains in the Genus database with same CATH superfamily
3VE1A 2XE5A 4K3CA 2KZ7A 3DA4A 5TISO 1BH3A 2YPVA 1GFOA 4D65A 4LSIA 1MPFA 2R8AA 3POUA 4FZNA 5GTIO 5B5EO 3T20A 3VY9X 5DL5A 4AKRA 1ZHWA 2R88A 1GFNA 3SYSA 2N2LA 3V8UA 2PORA 3K19A 1HXUA 3LK2A 4GHBA 4AUIA 4LSFA 3KVDD 2F1CX 5B66O 2M06A 1Q9FA 2Y7SA 3AAAB 4N59A 3LK3B 5H2FO 3HOLA 2K4TA 3NSGA 3SY7A 2FGRA 3O0EA 3VZWX 5GTHO 1PHOA 3LK41 4AYEC 2JQYA 3BRZA 2WJQA 1T1LA 3C5OA 4AKRB 1YS5A 1GFMA 5G39A 4XNLA 2XTQA 1BT9A 1BXWA 4O3WA 2R4OA 2O4VA 3LK3A 4O3YA 3LK2B 4C69X 1HXTA 3AA0A 4FOZA 4FZMA 1S5LO 2ODJA 1OSMA 2Y0LA 2KXPB 2YNKA 2ZFGA 2WJRA 5IYUA 2IWVA 2WVPA 3A2SX 4GCQA 4AZLA 4F4BA 3EMNX 4LSHA 4G75A 4O4UA 5G38A 1ZHXA 4AFKA 3PGSA 5JDPA 4FZLA 4KR4A 3LK42 2J1NA 4KRAA 2R4PA 3AA6A 3T0SA 4AKMA 1P4TA 4C4VA 2R4NA 4C00A 1T16A 3TZGA 4GF4A 1OPFA 3GP6A 3PQUA 3QRCA 4O3ZA 2F1TA 2KXPA 2LFUA 4RLBA 2Y0KA 8PRNA 3NJTA 2OMFA 2X9KA 2XG6A 2KC0A 2XTRA 3AA0B 3PGUA 5E79O 5G3AA 3HOEA 5T5FA 3PORA 3SY9A 4UB6O 3PQSA 4RLCA 5AFUL 1ORMA 4N74A 3G7GA 5DL6A 2J4UP 3BRYA 2ZLDA 1GFQA 2GE4A 1H6S1 4O4XA 1MM4A 2XE1A 2Y0HA 3DWOX 3DWNA 4PR7A 5KAIO 3AA6B 4FESA 1ZHTA 2N2MA 4FUVA 4C4VB 1THQA 3HWBA 3JTYA 1MM5A 4XNKA 4Z3TA 2Y2XA 3DZMA 3WU2O 4AYID 4E1SA 3PGRA 4FQEA 3A0HO 3DA3A 4FSPA 3SZVA 6PRNA 2W80C 2R4LA 4FSOA 5AFUK 4JFBA 5D5DA 5G26A 4N58A 2XE3A 3POXA 4U9CA 3VE2A 3FYXA 4D64A 2XMXA 2XE2A 1QJ9A 4FRTA 3HW9A 3JCUO 4K3BA 2R89A 4FT6A 2ERVA 3RBHA 3AA1A 4CTDA 4IL6O 5DL8A 4JCHA 2IWWA 3WI4A 4RL9A 4AYDC 5ADXL 3PF1A 4UB8O 4FRXA 1QJPA 3AAEB 1IZNB 2K0LA 4AYNA 2PRNA 1GFPA 7PRNA 3VY8X 4KR8A 4B61A 1HXXA 4RJWA 5DL7A 3VZUX 1E54A 2MNHA 2QTKA 2KDYA 3AA7A 4PUXA 4BUMX 3SZDA 4RJXA 4N75A 5EE2A 3UAQA 4D5UA 1G90A 2MHLA 3AAEA 3AA1B 1IZNA 3PRNA 3UU2A 1PRNA 3BS0A 4LSEA 1ZHZA 3A0BO 4PJ0O 4AYMC 5ADXK 4FMSA 2F1VA 2KZ7B 2FGQX 2JMMA 2W81C 4GCSA 5FVNA 3SYBA 4O3XB 2AXTO 5KAFO 3UPGA 1Q9GA 2LHFA 3POQA 4GCPA 3KZIO 4E1TA 5GV0A 2M07A 5PRNA 1QJ8A 3QRAA 3VZTX 3AAAA 2X27X 3T24A 3AA7B 4G76A 1ZHYA 4O49A 4QQ1A 3WI5A
chains in the Genus database with same CATH topology
3VE1A 2XE5A 2KZ7A 3DA4A 4D65A 1BH3A 2YPVA 1GFOA 4LSIA 1MPFA 3POUA 4FZNA 3T20A 3VY9X 5DL5A 4AKRA 1ZHWA 1GFNA 3SYSA 2N2LA 3V8UA 2PORA 3K19A 1HXUA 3LK2A 4GHBA 4AUIA 4LSFA 3KVDD 2M06A 1Q9FA 2Y7SA 3AAAB 4N59A 3LK3B 3HOLA 2K4TA 3NSGA 3SY7A 2FGRA 3O0EA 3VZWX 1PHOA 3LK41 4AYEC 3C5OA 4AKRB 1YS5A 1GFMA 4XNLA 2XTQA 1BT9A 1BXWA 4O3WA 2O4VA 3LK3A 4O3YA 3LK2B 4C69X 1HXTA 3AA0A 4FOZA 4FZMA 2Y0LA 2ODJA 1OSMA 2YNKA 2KXPB 2ZFGA 5IYUA 4AZLA 3A2SX 4GCQA 4F4BA 3EMNX 4LSHA 4G75A 4O4UA 1ZHXA 4AFKA 5JDPA 4FZLA 4KR4A 3LK42 2J1NA 4KRAA 3AA6A 3T0SA 4AKMA 1P4TA 3TZGA 4GF4A 1OPFA 3GP6A 3PQUA 3QRCA 4O3ZA 2F1TA 2KXPA 2LFUA 4RLBA 2Y0KA 8PRNA 2OMFA 2XG6A 2KC0A 2XTRA 3AA0B 3HOEA 5T5FA 3PORA 3SY9A 3PQSA 4RLCA 5AFUL 1ORMA 5DL6A 3G7GA 2J4UP 2ZLDA 1GFQA 2GE4A 1H6S1 4O4XA 2XE1A 1MM4A 2Y0HA 3AA6B 4FESA 1ZHTA 2N2MA 4FUVA 1THQA 3HWBA 3JTYA 1MM5A 4XNKA 4Z3TA 2Y2XA 4AYID 4E1SA 3DA3A 4FSPA 3SZVA 6PRNA 2W80C 4FSOA 5AFUK 4JFBA 5D5DA 5G26A 4N58A 2XE3A 3POXA 4U9CA 3VE2A 3FYXA 4D64A 2XMXA 2XE2A 1QJ9A 4FRTA 3HW9A 4FT6A 2ERVA 3RBHA 3AA1A 5DL8A 4JCHA 3WI4A 4RL9A 4AYDC 5ADXL 4FRXA 1QJPA 3AAEB 1IZNB 2K0LA 4AYNA 2PRNA 1GFPA 7PRNA 3VY8X 4KR8A 4B61A 1HXXA 4RJWA 5DL7A 3VZUX 1E54A 2MNHA 2QTKA 2KDYA 3AA7A 4PUXA 4BUMX 3SZDA 4RJXA 5EE2A 4D5UA 3UAQA 1G90A 2MHLA 3AAEA 3AA1B 1IZNA 3PRNA 3UU2A 1PRNA 4LSEA 1ZHZA 4AYMC 5ADXK 4FMSA 2F1VA 2KZ7B 2FGQX 2JMMA 2W81C 4GCSA 5FVNA 3SYBA 4O3XB 3UPGA 1Q9GA 2LHFA 3POQA 4GCPA 4E1TA 5GV0A 2M07A 5PRNA 1QJ8A 3QRAA 3VZTX 3AAAA 2X27X 3T24A 3AA7B 4G76A 1ZHYA 4O49A 4QQ1A 3WI5A
chains in the Genus database with same CATH homology


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