3PF1 | Genus

Total Genus 117

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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	117
sequence length	424
structure length	424
Chain Sequence	AGFQLNEFSSSGLGRAYSGEGAIADDAGNVSRNPALITMFDRPTFSAGAVYIDPDVNISGTSPSGRSLKADNIAPTAWVPNMHFVAPINDQFGWGASITSNYGLATEFNDTYAGGSVGGTTDLETMNLNLSGAYRLNNAWSFGLGFNAVYARAKIERFAGDLGQLVAGQIMQSPAGQTQQGQALAATANGIDSNTKIAHLNGNQWGFGWNAGILYELDKNNRYALTYRSEVKIDFKGNYSSDLNRAFNNYGLPIPTATGGATQSGYLTLNLPEMWEVSGYNRVDPQWAIHYSLAYTSWSQFQQLKATSTSGDTLFQKHEGFKDAYRIALGTTYYYDDNWTFRTGIAFADSPVPAQNRSISIPDQDRFWLSAGTTYAFNKDASVDVGVSYMHGQSVKINEGPYQFESEGKAWLFGTNFNYAFHHH

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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

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After clicking on a point (x,y) in the genus matrix above, a subchain from x to y is shown in color.

Genus data interpretation

Chord Diagram

molecule tags	Lipid transport
source organism	Escherichia coli
publication title	From the Cover: Ligand-gated diffusion across the bacterial outer membrane. pubmed doi rcsb
molecule keywords	Long-chain fatty acid transport protein
total genus	117
structure length	424
sequence length	424
chains with identical sequence	B
ec nomenclature
pdb deposition date	2010-10-27

Image from the rcsb pdb (www.rcsb.org)

cath code	Class	Architecture	Topology	Homology	Domain
2.40.160.60	Mainly Beta	Beta Barrel	Porin	Outer membrane protein transport protein (OMPP1/FadL/TodX)	3pf1A00

2R4PA 3DWOX 1T16A 2R4LA 1T1LA 2R89A 3DWNA 3PGUA 3PGSA 2R4OA 2R8AA 2R88A 2R4NA 3BRZA 3PGRA 3PF1A 3BRYA 3BS0A
chains in the Genus database with same CATH superfamily

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

2R4PA 3DWOX 1T16A 2R4LA 1T1LA 2R89A 3DWNA 3PGUA 3PGSA 2R4OA 2R8AA 2R88A 2R4NA 3BRZA 3PGRA 3PF1A 3BRYA 3BS0A
chains in the Genus database with same CATH homology

#chains in the Genus database with same CATH superfamily
 2R4P A;  3DWO X;  1T16 A;  2R4L A;  1T1L A;  2R89 A;  3DWN A;  3PGU A;  3PGS A;  2R4O A;  2R8A A;  2R88 A;  2R4N A;  3BRZ A;  3PGR A;  3PF1 A;  3BRY A;  3BS0 A; 
#chains in the Genus database with same CATH topology
 4AYM C;  4FQE A;  5GTH O;  5G26 A;  2XE3 A;  4G76 A;  4FZN A;  5FVN A;  3SZD A;  1Q9F A;  1BH3 A;  3HW9 A;  3LK3 A;  4FSP A;  4E1T A;  2KDY A;  2K0L A;  1GFM A;  2MNH A;  2N2L A;  4KRA A;  2Y7S A;  3PF1 A;  3SY9 A;  4B61 A;  3PGS A;  2XE1 A;  2Y0H A;  1S5L O;  3T0S A;  4BUM X;  3HOL A;  2XMX A;  1OSM A;  4O49 A;  5T5F A;  4AKR A;  2YNK A;  2KZ7 A;  4FSO A;  2X27 X;  5DL6 A;  4AYI D;  4AYD C;  2KXP A;  3PGU A;  5KAF O;  1BXW A;  2F1C X;  5PRN A;  2XTQ A;  1ZHW A;  1ZHX A;  3AAA B;  2JMM A;  2K4T A;  2R4P A;  2ZLD A;  4K3C A;  4AKR B;  1YS5 A;  4RL9 A;  4O4X A;  2FGR A;  3POX A;  1Q9G A;  3UU2 A;  2KXP B;  3DA4 A;  3PQU A;  4C4V A;  5IYU A;  3KVD D;  4Z3T A;  2M07 A;  2WJR A;  4G75 A;  4PUX A;  4AFK A;  4D65 A;  4GCS A;  4N75 A;  3SYS A;  4AYN A;  4LSI A;  4LSE A;  5B66 O;  1G90 A;  1MPF A;  2M06 A;  2XG6 A;  3LK2 A;  3KZI O;  2WVP A;  4C69 X;  1QJ8 A;  4FZM A;  5DL7 A;  3AA7 A;  2X9K A;  4FZL A;  5G3A A;  3PQS A;  5DL5 A;  3SYB A;  3BS0 A;  3HOE A;  3AA6 A;  2Y0K A;  1GFO A;  5H2F O;  2LHF A;  3VZU X;  3QRC A;  4FMS A;  4FOZ A;  5EE2 A;  3GP6 A;  3LK2 B;  2POR A;  3HWB A;  3NJT A;  4RLC A;  4XNL A;  5GV0 A;  3DWO X;  1E54 A;  1T16 A;  3T24 A;  3LK3 B;  3TZG A;  2R4O A;  4O4U A;  3AA6 B;  3C5O A;  4C00 A;  4JCH A;  2JQY A;  3VY9 X;  2O4V A;  1GFQ A;  2OMF A;  4IL6 O;  4JFB A;  4N59 A;  3SZV A;  3AAE A;  1T1L A;  7PRN A;  8PRN A;  2KZ7 B;  2R8A A;  3FYX A;  4FUV A;  2AXT O;  2R4N A;  3AA0 A;  4AZL A;  4CTD A;  5ADX K;  4E1S A;  1ZHZ A;  4GF4 A;  3WI5 A;  4N74 A;  4FRT A;  4RJW A;  4PR7 A;  3VE2 A;  5E79 O;  3UAQ A;  4XNK A;  5D5D A;  3RBH A;  1ZHY A;  3QRA A;  3T20 A;  2R88 A;  1H6S 1;  4QQ1 A;  1IZN A;  5KAI O;  1BT9 A;  3BRY A;  3LK4 2;  4K3B A;  3DA3 A;  3AA0 B;  3LK4 1;  4C4V B;  4UB6 O;  1PHO A;  3O0E A;  1OPF A;  2J1N A;  2XE5 A;  3BRZ A;  4O3Y A;  2GE4 A;  4LSH A;  2LFU A;  1PRN A;  2R4L A;  2N2M A;  3WI4 A;  1IZN B;  3POR A;  3WU2 O;  3EMN X;  3AA1 A;  2W80 C;  3AA7 B;  1QJ9 A;  3V8U A;  2KC0 A;  2MHL A;  1P4T A;  2W81 C;  3K19 A;  1ZHT A;  4O3W A;  4FES A;  2ZFG A;  3A0B O;  4O3X B;  5AFU L;  4D64 A;  1HXT A;  4KR8 A;  1MM5 A;  3G7G A;  2WJQ A;  3JCU O;  5AFU K;  3AA1 B;  3VY8 X;  2IWV A;  4AKM A;  5G39 A;  5JDP A;  2XTR A;  3A2S X;  3POQ A;  4N58 A;  1HXX A;  4LSF A;  2XE2 A;  5ADX L;  4KR4 A;  3PRN A;  2ERV A;  3PGR A;  5TIS O;  4RJX A;  3AAE B;  4F4B A;  2Y0L A;  3POU A;  5G38 A;  3SY7 A;  4GCQ A;  1QJP A;  1ORM A;  4FRX A;  3AAA A;  2IWW A;  2PRN A;  2QTK A;  3A0H O;  4D5U A;  4FT6 A;  3VZW X;  4GHB A;  3JTY A;  3NSG A;  1GFP A;  4RLB A;  1HXU A;  6PRN A;  3UPG A;  5DL8 A;  1THQ A;  5GTI O;  5B5E O;  4GCP A;  3VZT X;  4AYE C;  1GFN A;  2R89 A;  1MM4 A;  3VE1 A;  2J4U P;  4AUI A;  4U9C A;  2YPV A;  4PJ0 O;  2ODJ A;  3DWN A;  2F1V A;  3DZM A;  2F1T A;  4UB8 O;  4O3Z A;  2Y2X A;  2FGQ X; 
#chains in the Genus database with same CATH homology
 2R4P A;  3DWO X;  1T16 A;  2R4L A;  1T1L A;  2R89 A;  3DWN A;  3PGU A;  3PGS A;  2R4O A;  2R8A A;  2R88 A;  2R4N A;  3BRZ A;  3PGR A;  3PF1 A;  3BRY A;  3BS0 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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3PF1A

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN