4Q65A

Structure of the e. coli peptide transporter ybgh
Total Genus 153
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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
153
sequence length
476
structure length
437
Chain Sequence
SQPRAIYYVVALQIWEYFSFYGMRALLILYLTNQLKYNDTHAYELFSAYCSLVYVTPILGGFLADKVLGNRMAVMLGALLMAIGHVVLGASEIHPSFLYLSLAIIVCGYGLFKSNVSCLLGELYEPTDPRRDGGFSLMYAAGNVGSIIAPIACGYAQEEYSWAMGFGLAAVGMIAGLVIFLCGNRHFTHTRGVRATNFLLPNWGWLLVLLVATPALITILFWKEWSVYALIVATIIGLGVLAKIYENQKQRELGLIVTLTFFSMLFWAFAQQGGSSISLYIDRFVNTVPTAMFQSINAFAVMLCGVFLAWVVNRTVRIWGKFALGLGLMSAGFCILTLSARWSAMYGLPLMVLGLAVMGFAELFIDPVAMSQITRIEVTGVLTGIYMLLSGAIANYLAGVIADQTSSINAYIEVFDQITWGALACVGVVLMIWLYQA
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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 Crystal Structure of the E. coli Peptide Transporter YbgH
pubmed doi rcsb
molecule keywords Dipeptide permease D
molecule tags Transport protein
source organism Escherichia coli
total genus 153
structure length 437
sequence length 476
ec nomenclature
pdb deposition date 2014-04-21

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF00854 PTR2 POT family
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
1.20.1250.20 Mainly Alpha Up-down Bundle Growth Hormone; Chain: A; MFS general substrate transporter like domains 4q65A00
4LEPA 2XUTA 3O7PA 4ZW9A 4IKYA 3O7QA 4D2BA 4TPJA 5D6KA 4XNIA 4JREA 4J05A 4U4TA 4QIQA 4TPGA 5GXBA 4OH3A 4IKVA 4JA3A 5D58A 2CFPA 2CFQA 4IKZA 1PW4A 5EQHA 5EQGA 4OAAA 2Y5YA 4GBZA 1PV6A 4YBQA 4IKXA 3WDOA 5A2NA 4ZWBA 4JR9A 4ZWCA 4Q65A 4TPHA 5A2OA 4APSA 4GC0A 4D2CA 5EQIA 5C65A 1PV7A 4LDSA 4U4WA 4IU8A 4U4VA 4ZYRA 4W6VA 5D59A 4XNJA 4IU9A 4YB9D 4GBYA 2V8NA 4PYPA 4UVMA 4IKWA 4D2DA
chains in the Genus database with same CATH superfamily
4ZW9A 5FLMD 3QAZA 1Y14A 3BPOA 4RS1A 1EKUA 5IP9D 4WRLB 1CSGA 4Q65A 3SE4B 4APSA 4ZF7A 3UF2A 4LRLA 4BY7D 1Y6NL 3L5WI 3PIVA 1Z92A 4DOHA 4ZYRA 3DGCL 3INKC 3N06A 3O7QA 4TPJA 2C35A 4NI9A 1RHGA 5EQGA 4EXNA 2ILKA 4IKXA 4GRWA 5D22A 5C7XA 2B90A 1VLKA 1I1RB 1A22A 4IU8A 3LB6A 1V7MV 1PY2A 1HIJA 1IARA 5E4EA 4FA8E 3PO2D 3I4MD 3NCFA 5D58A 1Y1WD 2Q98A 3BPNA 5C4XD 4O6KA 1PW6A 2D48A 4LDSA 3HOWD 3QB1A 4NEJA 1ALUA 4LEPA 2XUTA 5C3ED 1RW5A 4I77Z 4A3DD 1HWGA 3IRHA 1PV6A 2VUMD 3TGXB 3L5XA 1LK3A 3NCCA 3HHRA 1PV7A 1V7NV 2L3YA 4NN5A 4GBYA 3WCYI 3HOXD 2V8NA 1NBPA 1HGUA 4DKEA 4D2BA 5D6KA 1ITMA 4J05A 1F45B 4OAAA 4A3ID 2Q7NB 3HOVD 1AXIA 1PVHB 4Z5RD 1PGRA 3D85C 2LMSA 4D2CA 4YQXA 1ITFA 3FKID 4YB9D 4BBRD 1CYLA 4UVMA 4J4LC 3UX9A 5IYBD 1RCBA 2LAGA 2O26A 3I4ND 3PIWA 2L3OA 1IJZA 2B8ZA 3HOYD 1AX8A 4DKCA 4ZS7A 4A3KD 5A2OA 2JA7D 5D70A 3LB6B 3N0PA 1LQSL 2D9QA 3WDOA 1M4RA 1BP3A 3HOZD 2B8UA 5LQBA 1BGEA 5D72A 4GS7A 1AU1A 2GMFA 2O6IA 3SE3B 3QWRB 3S9DA 5IYDD 5IYCD 4BY1D 4IKZA 3NCEA 2Y5YA 5C44D 3OG6A 4ZWBA 3QT2C 4X51A 4DKFA 2XQBA 4BBSD 3DLQI 1M47A 4NN7A 4U4VA 5D59A 2B91A 4XNJA 2CYKA 2O27A 1EXZA 2PSMA 3MZGA 4OH3A 4YUEC 2CFQA 1A7MA 2JA8D 3H3VE 5A2NA 1M49A 2Q14A 3H0GD 5D71A 5L6YC 1B5LA 3HHCA 2INTA 1ILKA 4IU9A 1YKBA 4MHLA 3D48P 3O7PA 1CD9A 1D9CA 1P9MB 2H24A 3DI2A 3EW3A 4A3MD 4NI7A 1EERA 3AYHA 1M4CA 3G6DA 3G9VB 3PO3D 4A3GD 4PYPA 4IKYA 1KF9A 3OG4A 2R7ZD 1EVSA 2KZ1A 1WCMD 3UEZE 1J7VL 4GC0A 2IL6A 2R92D 1SCFA 3UF5A 5D28B 1LKIA 2ERJD 3NCBA 1ETEA 2B8YA 4QIQA 5GXBA 3HOUD 2CFPA 1BGCA 4A3JD 4NKQC 3OQ3A 1M4BA 4ZWCA 4TPHA 4O9HA 5FHXA 1INRA 4NN6A 1EMRA 1Z7CA 1ITLA 3BESL 1BUYA 2JA6D 4DKDA 4TPGA 4IKVA 3QB7A 1HUWA 4A3BD 1HZIA 1HULA 2Z3RA 4EXPA 2JA5D 4NEMA 3VA2A 2OQPA 1RFBA 1IK0A 1D9GA 1FG9A 4IKWA 4D2DA 4PS4A 4A93D 3DUHC 4JA3A 5FUCA 4JR9A 1M4AA 3HMXB 4YDYI 4A3CD 1Y1VD 2B5IA 3D87A 1HIKA 1QVNA 1JLIA 1CN4C 1GNCA 3EJJA 4JREA 3DI3A 4A3FD 1GA3A 1PW4A 3Q1SI 5EQHA 4A3LD 2HYMB 4CNIC 1F6FA 2Z3QA 5EQIA 5C65A 5KNHI 1Y6ML 1M48A 2B63D 1BCNA 5TS9A 1WU3I 2R93D 1IL6A 4XNIA 4U4TA 1BBNA 3NPZA 1FYHA 3B5KA 4GBZA 4YBQA 1BGDA 1ITIA 1IRLA 1CNT1 2E9WC 1Y6KL 5IP7D 3BPLA 1HWHA 1N1FA 4YPGC 4U4WA 4A3ED 2B8XA 4BXXD 4W6VA
chains in the Genus database with same CATH topology
4LEPA 2XUTA 3O7PA 4ZW9A 4IKYA 3O7QA 4D2BA 4TPJA 5D6KA 4XNIA 4JREA 4J05A 4U4TA 4QIQA 4TPGA 5GXBA 4OH3A 4IKVA 4JA3A 5D58A 2CFPA 2CFQA 4IKZA 1PW4A 5EQHA 5EQGA 4OAAA 2Y5YA 4GBZA 1PV6A 4YBQA 4IKXA 3WDOA 5A2NA 4ZWBA 4JR9A 4ZWCA 4Q65A 4TPHA 5A2OA 4APSA 4GC0A 4D2CA 5EQIA 5C65A 1PV7A 4LDSA 4U4WA 4IU8A 4U4VA 4ZYRA 4W6VA 5D59A 4XNJA 4IU9A 4YB9D 4GBYA 2V8NA 4PYPA 4UVMA 4IKWA 4D2DA
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 4LEP A;  2XUT A;  3O7P A;  4ZW9 A;  4IKY A;  3O7Q A;  4D2B A;  4TPJ A;  5D6K A;  4XNI A;  4JRE A;  4J05 A;  4U4T A;  4QIQ A;  4TPG A;  5GXB A;  4OH3 A;  4IKV A;  4JA3 A;  5D58 A;  2CFP A;  2CFQ A;  4IKZ A;  1PW4 A;  5EQH A;  5EQG A;  4OAA A;  2Y5Y A;  4GBZ A;  1PV6 A;  4YBQ A;  4IKX A;  3WDO A;  5A2N A;  4ZWB A;  4JR9 A;  4ZWC A;  4Q65 A;  4TPH A;  5A2O A;  4APS A;  4GC0 A;  4D2C A;  5EQI A;  5C65 A;  1PV7 A;  4LDS A;  4U4W A;  4IU8 A;  4U4V A;  4ZYR A;  4W6V A;  5D59 A;  4XNJ A;  4IU9 A;  4YB9 D;  4GBY A;  2V8N A;  4PYP A;  4UVM A;  4IKW A;  4D2D A; 
#chains in the Genus database with same CATH topology
 4ZW9 A;  5FLM D;  3QAZ A;  1Y14 A;  3BPO A;  4RS1 A;  1EKU A;  5IP9 D;  4WRL B;  1CSG A;  4Q65 A;  3SE4 B;  4APS A;  4ZF7 A;  3UF2 A;  4LRL A;  4BY7 D;  1Y6N L;  3L5W I;  3PIV A;  1Z92 A;  4DOH A;  4ZYR A;  3DGC L;  3INK C;  3N06 A;  3O7Q A;  4TPJ A;  2C35 A;  4NI9 A;  1RHG A;  5EQG A;  4EXN A;  2ILK A;  4IKX A;  4GRW A;  5D22 A;  5C7X A;  2B90 A;  1VLK A;  1I1R B;  1A22 A;  4IU8 A;  3LB6 A;  1V7M V;  1PY2 A;  1HIJ A;  1IAR A;  5E4E A;  4FA8 E;  3PO2 D;  3I4M D;  3NCF A;  5D58 A;  1Y1W D;  2Q98 A;  3BPN A;  5C4X D;  4O6K A;  1PW6 A;  2D48 A;  4LDS A;  3HOW D;  3QB1 A;  4NEJ A;  1ALU A;  4LEP A;  2XUT A;  5C3E D;  1RW5 A;  4I77 Z;  4A3D D;  1HWG A;  3IRH A;  1PV6 A;  2VUM D;  3TGX B;  3L5X A;  1LK3 A;  3NCC A;  3HHR A;  1PV7 A;  1V7N V;  2L3Y A;  4NN5 A;  4GBY A;  3WCY I;  3HOX D;  2V8N A;  1NBP A;  1HGU A;  4DKE A;  4D2B A;  5D6K A;  1ITM A;  4J05 A;  1F45 B;  4OAA A;  4A3I D;  2Q7N B;  3HOV D;  1AXI A;  1PVH B;  4Z5R D;  1PGR A;  3D85 C;  2LMS A;  4D2C A;  4YQX A;  1ITF A;  3FKI D;  4YB9 D;  4BBR D;  1CYL A;  4UVM A;  4J4L C;  3UX9 A;  5IYB D;  1RCB A;  2LAG A;  2O26 A;  3I4N D;  3PIW A;  2L3O A;  1IJZ A;  2B8Z A;  3HOY D;  1AX8 A;  4DKC A;  4ZS7 A;  4A3K D;  5A2O A;  2JA7 D;  5D70 A;  3LB6 B;  3N0P A;  1LQS L;  2D9Q A;  3WDO A;  1M4R A;  1BP3 A;  3HOZ D;  2B8U A;  5LQB A;  1BGE A;  5D72 A;  4GS7 A;  1AU1 A;  2GMF A;  2O6I A;  3SE3 B;  3QWR B;  3S9D A;  5IYD D;  5IYC D;  4BY1 D;  4IKZ A;  3NCE A;  2Y5Y A;  5C44 D;  3OG6 A;  4ZWB A;  3QT2 C;  4X51 A;  4DKF A;  2XQB A;  4BBS D;  3DLQ I;  1M47 A;  4NN7 A;  4U4V A;  5D59 A;  2B91 A;  4XNJ A;  2CYK A;  2O27 A;  1EXZ A;  2PSM A;  3MZG A;  4OH3 A;  4YUE C;  2CFQ A;  1A7M A;  2JA8 D;  3H3V E;  5A2N A;  1M49 A;  2Q14 A;  3H0G D;  5D71 A;  5L6Y C;  1B5L A;  3HHC A;  2INT A;  1ILK A;  4IU9 A;  1YKB A;  4MHL A;  3D48 P;  3O7P A;  1CD9 A;  1D9C A;  1P9M B;  2H24 A;  3DI2 A;  3EW3 A;  4A3M D;  4NI7 A;  1EER A;  3AYH A;  1M4C A;  3G6D A;  3G9V B;  3PO3 D;  4A3G D;  4PYP A;  4IKY A;  1KF9 A;  3OG4 A;  2R7Z D;  1EVS A;  2KZ1 A;  1WCM D;  3UEZ E;  1J7V L;  4GC0 A;  2IL6 A;  2R92 D;  1SCF A;  3UF5 A;  5D28 B;  1LKI A;  2ERJ D;  3NCB A;  1ETE A;  2B8Y A;  4QIQ A;  5GXB A;  3HOU D;  2CFP A;  1BGC A;  4A3J D;  4NKQ C;  3OQ3 A;  1M4B A;  4ZWC A;  4TPH A;  4O9H A;  5FHX A;  1INR A;  4NN6 A;  1EMR A;  1Z7C A;  1ITL A;  3BES L;  1BUY A;  2JA6 D;  4DKD A;  4TPG A;  4IKV A;  3QB7 A;  1HUW A;  4A3B D;  1HZI A;  1HUL A;  2Z3R A;  4EXP A;  2JA5 D;  4NEM A;  3VA2 A;  2OQP A;  1RFB A;  1IK0 A;  1D9G A;  1FG9 A;  4IKW A;  4D2D A;  4PS4 A;  4A93 D;  3DUH C;  4JA3 A;  5FUC A;  4JR9 A;  1M4A A;  3HMX B;  4YDY I;  4A3C D;  1Y1V D;  2B5I A;  3D87 A;  1HIK A;  1QVN A;  1JLI A;  1CN4 C;  1GNC A;  3EJJ A;  4JRE A;  3DI3 A;  4A3F D;  1GA3 A;  1PW4 A;  3Q1S I;  5EQH A;  4A3L D;  2HYM B;  4CNI C;  1F6F A;  2Z3Q A;  5EQI A;  5C65 A;  5KNH I;  1Y6M L;  1M48 A;  2B63 D;  1BCN A;  5TS9 A;  1WU3 I;  2R93 D;  1IL6 A;  4XNI A;  4U4T A;  1BBN A;  3NPZ A;  1FYH A;  3B5K A;  4GBZ A;  4YBQ A;  1BGD A;  1ITI A;  1IRL A;  1CNT 1;  2E9W C;  1Y6K L;  5IP7 D;  3BPL A;  1HWH A;  1N1F A;  4YPG C;  4U4W A;  4A3E D;  2B8X A;  4BXX D;  4W6V A; 
#chains in the Genus database with same CATH homology
 4LEP A;  2XUT A;  3O7P A;  4ZW9 A;  4IKY A;  3O7Q A;  4D2B A;  4TPJ A;  5D6K A;  4XNI A;  4JRE A;  4J05 A;  4U4T A;  4QIQ A;  4TPG A;  5GXB A;  4OH3 A;  4IKV A;  4JA3 A;  5D58 A;  2CFP A;  2CFQ A;  4IKZ A;  1PW4 A;  5EQH A;  5EQG A;  4OAA A;  2Y5Y A;  4GBZ A;  1PV6 A;  4YBQ A;  4IKX A;  3WDO A;  5A2N A;  4ZWB A;  4JR9 A;  4ZWC A;  4Q65 A;  4TPH A;  5A2O A;  4APS A;  4GC0 A;  4D2C A;  5EQI A;  5C65 A;  1PV7 A;  4LDS A;  4U4W A;  4IU8 A;  4U4V A;  4ZYR A;  4W6V A;  5D59 A;  4XNJ A;  4IU9 A;  4YB9 D;  4GBY A;  2V8N A;  4PYP A;  4UVM A;  4IKW A;  4D2D 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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