4GCQA

Crystal structure of e. coli ompf porin in complex with carbenicillin
Total Genus 98
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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
98
sequence length
333
structure length
333
Chain Sequence
GNKVDLYGKAVGLHYFSKGNGENSYGGNGDMTYARLGFKGETQINSDLTGYGQWEYNFQGNNSEGADAQTGNKTRLAFAGLKYADVGSFDYGRNYGVVYDALGYTDMLPEFGGDTAYSDDFFVGRVGGVATYRNSNFFGLVDGLNFAVQYLGKNERDTARRSNGDGVGGSISYEYEGFGIVGAYGAADRTNLQEAQPLGNGKKAEQWATGLKYDANNIYLAANYGETRNATPITNKFTNTSGFANKTQDVLLVAQYQFDFGLRPSIAYTKSKAKDVEGIGDVDLVNYFEVGATYYFNKNMSTYVDYIINQIDSDNKLGVGSDDTVAVGIVYQF
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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 Membrane protein/antibiotic
source organism Escherichia coli
publication title The Binding of Antibiotics in OmpF Porin.
pubmed doi rcsb
molecule keywords Outer membrane protein F
total genus 98
structure length 333
sequence length 333
chains with identical sequence B
ec nomenclature
pdb deposition date 2012-07-30

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 4gcqA00
2Y0HA 3EMNX 1GFMA 1GFPA 3WI4A 1PHOA 4FOZA 2Y0LA 3UU2A 3VZTX 3POUA 2J4UP 3VY9X 4LSHA 4GCPA 4FSPA 4LSEA 4RJWA 1GFNA 2OMFA 1E54A 2FGQX 1GFOA 3SY9A 6PRNA 2XE5A 2J1NA 2O4VA 2ZFGA 3UPGA 4GCQA 2PRNA 1OPFA 2PORA 2XG6A 4FMSA 2XE1A 2QTKA 3JTYA 3A2SX 4FT6A 5FVNA 5DL6A 4BUMX 4FRXA 2K4TA 2XE3A 7PRNA 3SY7A 3POXA 2ZLDA 4JFBA 3O0EA 3NSGA 4AUIA 8PRNA 3VZWX 3T0SA 4D64A 1BH3A 2ODJA 3SZVA 3POQA 1PRNA 1H6S1 2Y0KA 3PRNA 1OSMA 2XE2A 3FYXA 3HW9A 5PRNA 5DL5A 4KR8A 4KR4A 4KRAA 1GFQA 1HXTA 4D65A 4LSFA 3T24A 3SYSA 5JDPA 3K19A 2FGRA 3VZUX 4D5UA 4FSOA 5DL7A 4C69X 1HXUA 3SZDA 3T20A 3SYBA 3PORA 3VY8X 3WI5A 5DL8A 3HWBA 2Y2XA 4FRTA 1HXXA 4GCSA 1MPFA 4LSIA 1BT9A 4RJXA
chains in the Genus database with same CATH superfamily
2Y0HA 3EMNX 1GFMA 1GFPA 2MHLA 3VE2A 3WI4A 4RLBA 1PHOA 1MM5A 2XTRA 5G39A 3PGRA 4FOZA 2Y0LA 4GHBA 2W81C 4K3BA 3POUA 3UU2A 3VZTX 2J4UP 4AKRA 3AA0B 3VY9X 3LK41 4C4VB 5EE2A 3BRZA 5TISO 4O4UA 5ADXK 4LSHA 4GCPA 4O3YA 5G26A 3AAAA 4FSPA 4LSEA 4RJWA 1GFNA 2JQYA 2OMFA 5B66O 1T16A 2ERVA 2K0LA 2IWWA 1E54A 4E1SA 2FGQX 3DA4A 1GFOA 3SY9A 4N59A 4AYMC 6PRNA 3AA6A 2KC0A 3UAQA 4XNKA 2XE5A 3WU2O 8PRNA 4PUXA 5G38A 4AKRB 2J1NA 2O4VA 4PJ0O 2ZFGA 2R4OA 4GCQA 4JCHA 2PRNA 3UPGA 1OPFA 2PORA 2XG6A 2XMXA 3AAAB 4O3ZA 3A0HO 3PGSA 4FMSA 3BRYA 2XE1A 2X27X 1YS5A 4FZNA 3PQUA 4O3XB 2R89A 4RJXA 1G90A 2QTKA 3LK3A 3JTYA 3A2SX 4FT6A 5FVNA 4AYEC 2LFUA 5AFUL 2R4LA 1ZHXA 2KZ7A 3DA3A 5DL6A 4FZLA 5GTIO 2YNKA 4BUMX 2Y7SA 3AA6B 3NJTA 5AFUK 2JMMA 4FZMA 1S5LO 2R4NA 4FRXA 2F1VA 2K4TA 3DZMA 4Z3TA 2MNHA 2XE3A 7PRNA 4G75A 3SY7A 3DWNA 4N74A 3QRAA 5B5EO 3POXA 2ZLDA 4FUVA 4O4XA 1Q9GA 3A0BO 3RBHA 4JFBA 4AYDC 3LK2A 3O0EA 4AFKA 2LHFA 3KZIO 3LK3B 3NSGA 4PR7A 5ADXL 3GP6A 2AXTO 2KZ7B 1IZNA 4UB6O 4FESA 4AUIA 3VE1A 3HOLA 1THQA 3KVDD 3AA7A 2N2MA 1BXWA 2KDYA 3VZWX 1QJ9A 3PGUA 4GF4A 5T5FA 3BS0A 2XTQA 3T0SA 4CTDA 3AA1A 4D64A 1BH3A 2ODJA 2WJQA 1ZHZA 3SZVA 3POQA 1PRNA 3PQSA 2GE4A 1P4TA 2X9KA 4B61A 3LK2B 2KXPA 5GV0A 4E1TA 1ORMA 1H6S1 3V8UA 3AAEA 1Q9FA 1T1LA 2Y0KA 3PRNA 1OSMA 2F1TA 2XE2A 1QJPA 1IZNB 4FQEA 3FYXA 4IL6O 3HW9A 2W80C 5E79O 5PRNA 5DL5A 5KAIO 3JCUO 4AKMA 4KR8A 3AA7B 4KR4A 3DWOX 4KRAA 5KAFO 2WJRA 2R8AA 1ZHTA 4U9CA 1QJ8A 3AA1B 1GFQA 3PF1A 1HXTA 4N75A 4O3WA 2YPVA 3HOEA 4RLCA 4RL9A 4UB8O 4LSFA 3T24A 4AYNA 4D65A 4F4BA 1MM4A 3LK42 2KXPB 3SYSA 2M07A 5JDPA 4N58A 3K19A 2WVPA 4G76A 3AAEB 2FGRA 3VZUX 4D5UA 4FSOA 2M06A 3G7GA 1ZHYA 5H2FO 2R4PA 4O49A 1ZHWA 5DL7A 5G3AA 2IWVA 4C00A 4C69X 3C5OA 1HXUA 3SZDA 3TZGA 3SYBA 5IYUA 3T20A 5D5DA 4AZLA 5GTHO 3PORA 2R88A 3QRCA 4XNLA 3AA0A 3VY8X 4AYID 3WI5A 2N2LA 5DL8A 4C4VA 3HWBA 2Y2XA 4FRTA 2F1CX 4K3CA 1HXXA 4GCSA 1MPFA 4QQ1A 1BT9A 4LSIA
chains in the Genus database with same CATH topology
2Y0HA 3EMNX 1GFMA 1GFPA 2MHLA 3VE2A 3WI4A 4RLBA 1PHOA 1MM5A 2XTRA 4FOZA 2Y0LA 4GHBA 2W81C 3UU2A 3POUA 3VZTX 2J4UP 4AKRA 3AA0B 3VY9X 3LK41 5EE2A 4O4UA 5ADXK 4LSHA 4GCPA 4O3YA 5G26A 3AAAA 4FSPA 4LSEA 4RJWA 1GFNA 2OMFA 2ERVA 2K0LA 1E54A 4E1SA 2FGQX 3DA4A 1GFOA 3SY9A 4N59A 4AYMC 6PRNA 3AA6A 2KC0A 3UAQA 4XNKA 2XE5A 4PUXA 4AKRB 2J1NA 2O4VA 2ZFGA 3UPGA 4GCQA 4JCHA 2PRNA 1OPFA 2PORA 2XG6A 2XMXA 3AAAB 4O3ZA 4FMSA 2XE1A 2X27X 1YS5A 4FZNA 3PQUA 4O3XB 1G90A 4RJXA 2QTKA 3LK3A 3JTYA 3A2SX 4FT6A 5FVNA 4AYEC 2LFUA 3DA3A 1ZHXA 2KZ7A 5DL6A 5AFUK 4FZLA 5GV0A 2YNKA 4BUMX 2Y7SA 3AA6B 2JMMA 4FZMA 4FRXA 2F1VA 2K4TA 4Z3TA 2MNHA 2XE3A 7PRNA 4G75A 3SY7A 3QRAA 3POXA 2ZLDA 4FUVA 4O4XA 1Q9GA 3RBHA 4JFBA 4AYDC 3LK2A 3O0EA 4AFKA 2LHFA 3LK3B 3NSGA 5ADXL 3GP6A 2KZ7B 1IZNA 4FESA 4AUIA 3VE1A 3HOLA 1THQA 3KVDD 3AA7A 2N2MA 1BXWA 2KDYA 3VZWX 1QJ9A 4GF4A 5T5FA 8PRNA 3T0SA 2XTQA 3AA1A 4D64A 1BH3A 2ODJA 1ZHZA 3SZVA 3POQA 1PRNA 3PQSA 2GE4A 1P4TA 4B61A 3LK2B 2KXPA 4E1TA 1ORMA 1H6S1 3V8UA 3AAEA 1Q9FA 2Y0KA 3PRNA 1OSMA 2F1TA 2XE2A 1QJPA 1IZNB 3FYXA 3HW9A 2W80C 5PRNA 5DL5A 4AKMA 4KR8A 3AA7B 4KR4A 4KRAA 1ZHTA 4U9CA 1QJ8A 3AA1B 1GFQA 4RL9A 1HXTA 4O3WA 5AFUL 2YPVA 3HOEA 4RLCA 4AYNA 4D65A 4LSFA 3T24A 4F4BA 1MM4A 3LK42 2KXPB 3SYSA 2M07A 5JDPA 4N58A 3K19A 4G76A 3AAEB 2FGRA 3VZUX 4D5UA 4FSOA 2M06A 3G7GA 1ZHYA 4O49A 1ZHWA 5DL7A 4C69X 3C5OA 1HXUA 3SZDA 3TZGA 3SYBA 5IYUA 3T20A 5D5DA 4AZLA 3PORA 3QRCA 4XNLA 3AA0A 3VY8X 4AYID 3WI5A 2N2LA 5DL8A 3HWBA 2Y2XA 4FRTA 1HXXA 4GCSA 1MPFA 4QQ1A 1BT9A 4LSIA
chains in the Genus database with same CATH homology


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