4AKMA

Crystal structure of the human lysosome-associated membrane protein lamp-3 (aka dc-lamp)
Total Genus 22
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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
22
sequence length
155
structure length
155
Chain Sequence
VKTGIYQVLNGSRLCIKAEMGIQLIVQDKESVFSPRRYFNIDPNATQASGNCGTRKSNLLLNFQGGFVNLTFTKDEESYYISEVGAYLTVSDPETVYQGIKHAVVMFQTAVGHSFKCVSEQSLQLSAHLQVKTTDVQLQAFDFEDDHFGNVDECS
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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.

publication title Crystal Structure of the Conserved Domain of the Dc Lysosomal Associated Membrane Protein: Implications for the Lysosomal Glycocalyx.
pubmed doi rcsb
molecule tags Membrane protein
source organism Homo sapiens
molecule keywords LYSOSOME-ASSOCIATED MEMBRANE GLYCOPROTEIN 3
total genus 22
structure length 155
sequence length 155
chains with identical sequence B
ec nomenclature
pdb deposition date 2012-02-24

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF01299 Lamp Lysosome-associated membrane glycoprotein (Lamp)
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
2.40.160.110 Mainly Beta Beta Barrel Porin Porin 4akmA00
4AKMA 5GV0A
chains in the Genus database with same CATH superfamily
3NJTA 3SYSA 2X9KA 2M06A 4LSIA 5G39A 4LSEA 7PRNA 2XE2A 3BRYA 1Q9FA 4B61A 3AA7B 4AUIA 3DA3A 3POQA 5D5DA 3BRZA 2K4TA 4F4BA 5H2FO 4U9CA 2ZLDA 4D65A 2IWWA 2WJRA 3VZUX 5G3AA 5E79O 2YPVA 4K3BA 2YNKA 3JTYA 3AA7A 5DL7A 1P4TA 2Y0KA 4QQ1A 3PGSA 1ZHZA 5EE2A 1ZHXA 4K3CA 4N58A 2KXPB 4AYMC 4N74A 1BH3A 1E54A 2ERVA 2MNHA 3T0SA 3VE2A 1YS5A 1HXXA 3T20A 2GE4A 3VZWX 2FGRA 3DA4A 3LK2B 1H6S1 2Y0HA 3PQUA 4JCHA 3T24A 4FT6A 2KXPA 2KZ7A 4FRXA 4N75A 4XNKA 1ZHYA 2ZFGA 4AKRB 3VZTX 1MPFA 1IZNB 2R4OA 2XE5A 3HWBA 4FQEA 2XE1A 3KZIO 3V8UA 2KDYA 2XG6A 2O4VA 2F1TA 3LK2A 4IL6O 3VY8X 4AYEC 4AKRA 1IZNA 5DL8A 3LK41 2W80C 3SZDA 5TISO 2R89A 4CTDA 2ODJA 4N59A 3DZMA 4Z3TA 3WU2O 4FZNA 5IYUA 1BXWA 4RJXA 1G90A 3HW9A 4O3YA 3SZVA 1GFNA 3NSGA 2X27X 3A0BO 3AA0B 4O4UA 2Y7SA 3LK3B 2KZ7B 2Y2XA 2N2LA 4O49A 2JQYA 4FOZA 4UB8O 1OSMA 3QRAA 3K19A 1PHOA 4O3WA 5G26A 4E1TA 6PRNA 3AA6B 5T5FA 2AXTO 3AA0A 3UU2A 3HOLA 5ADXL 3PORA 3LK3A 2M07A 2XE3A 1ZHWA 2OMFA 2LHFA 4FMSA 1ZHTA 3JCUO 4FUVA 4G75A 4LSFA 4O3XB 3O0EA 5FVNA 5KAIO 3GP6A 4XNLA 4C4VB 1T16A 3AA6A 2WVPA 2IWVA 2JMMA 2XMXA 1T1LA 3FYXA 4GCQA 4GF4A 4AFKA 1Q9GA 4O4XA 2MHLA 5JDPA 1MM5A 1OPFA 2W81C 3PGRA 3PRNA 3PQSA 5DL6A 3SY7A 3PF1A 4C69X 4AYID 4C4VA 3BS0A 2PORA 5B66O 3DWOX 2R88A 2FGQX 2PRNA 5AFUK 3G7GA 4FZMA 3VE1A 5GTIO 4AYDC 4D64A 5G38A 4D5UA 4RJWA 4PUXA 2R4LA 5GV0A 3DWNA 4KRAA 4LSHA 4UB6O 5ADXK 3RBHA 1GFPA 4JFBA 1BT9A 8PRNA 3QRCA 4BUMX 5AFUL 3HOEA 3EMNX 1QJ8A 4KR8A 5DL5A 1GFQA 2QTKA 4G76A 3SY9A 3A2SX 4RLBA 3VY9X 4E1SA 3WI4A 4GCSA 3KVDD 1GFMA 3AAEB 4C00A 3UPGA 2J1NA 2K0LA 3SYBA 2F1VA 3WI5A 1HXTA 2XTRA 2Y0LA 4AKMA 4KR4A 2WJQA 3LK42 5KAFO 2XTQA 3PGUA 3AAAB 4PJ0O 3AAEA 3POXA 4RLCA 4FESA 3AA1B 2R4PA 5PRNA 4GHBA 4PR7A 1QJPA 2F1CX 2R4NA 1ORMA 4FRTA 4FSPA 1MM4A 4FZLA 4O3ZA 3TZGA 4RL9A 5B5EO 3C5OA 4AYNA 5GTHO 4FSOA 2J4UP 1HXUA 3AAAA 3POUA 1THQA 1GFOA 1S5LO 3AA1A 4GCPA 3UAQA 2N2MA 3A0HO 1PRNA 2R8AA 2LFUA 1QJ9A 4AZLA 2KC0A
chains in the Genus database with same CATH topology
3SYSA 2M06A 4LSIA 4LSEA 7PRNA 2XE2A 1Q9FA 4B61A 3AA7B 4AUIA 3DA3A 3POQA 5D5DA 4F4BA 2K4TA 4U9CA 2ZLDA 4D65A 3VZUX 2YPVA 2YNKA 3JTYA 3AA7A 5DL7A 1P4TA 2Y0KA 4QQ1A 4AYMC 1ZHZA 5EE2A 1ZHXA 4N58A 2KXPB 1BH3A 1E54A 2ERVA 2MNHA 3T0SA 3VE2A 1YS5A 1HXXA 3T20A 2GE4A 3VZWX 2FGRA 3DA4A 3LK2B 1H6S1 2Y0HA 3PQUA 4JCHA 3T24A 4FT6A 2KXPA 2KZ7A 4FRXA 4XNKA 1ZHYA 2ZFGA 4AKRB 3VZTX 1MPFA 2XE5A 1IZNB 3HWBA 2XE1A 3V8UA 2KDYA 2XG6A 2O4VA 2F1TA 3LK2A 4AYEC 4AKRA 1IZNA 5DL8A 3LK41 2W80C 3SZDA 5IYUA 2ODJA 4N59A 4Z3TA 4FZNA 1BXWA 4RJXA 1G90A 3HW9A 4O3YA 3SZVA 1GFNA 3NSGA 2X27X 3AA0B 4O4UA 2Y7SA 3LK3B 2KZ7B 2Y2XA 2N2LA 4O49A 4FOZA 1OSMA 3QRAA 3K19A 1PHOA 4O3WA 5G26A 4E1TA 6PRNA 3AA6B 5T5FA 3AA0A 3UU2A 3HOLA 5ADXL 3PORA 3LK3A 2M07A 2XE3A 1ZHWA 2OMFA 2LHFA 4FMSA 1ZHTA 4FUVA 4O3XB 4G75A 4LSFA 5FVNA 3O0EA 3VY8X 3GP6A 4XNLA 3AA6A 2XMXA 2JMMA 3FYXA 4GCQA 4GF4A 4AFKA 1Q9GA 4O4XA 2MHLA 5JDPA 1MM5A 1OPFA 2W81C 3PRNA 3PQSA 5DL6A 3SY7A 4C69X 4AYID 2PORA 2FGQX 2PRNA 5AFUK 3G7GA 4FZMA 3VE1A 4AYDC 4D5UA 4D64A 4RJWA 4PUXA 5GV0A 4KRAA 4LSHA 5ADXK 3RBHA 1GFPA 4JFBA 1BT9A 8PRNA 3QRCA 4BUMX 5AFUL 3HOEA 3EMNX 1QJ8A 4KR8A 5DL5A 1GFQA 2QTKA 4G76A 3SY9A 3A2SX 4RLBA 3VY9X 4E1SA 3WI4A 4GCSA 3KVDD 1GFMA 3AAEB 3UPGA 2J1NA 2K0LA 3SYBA 2F1VA 3WI5A 1HXTA 2XTRA 2Y0LA 4AKMA 4KR4A 3LK42 2XTQA 3AAAB 4RLCA 3AAEA 3POXA 4FESA 3AA1B 5PRNA 4GHBA 1QJPA 1ORMA 4FRTA 4FSPA 1MM4A 4FZLA 4O3ZA 3TZGA 4RL9A 3C5OA 4AYNA 4FSOA 2J4UP 1HXUA 3AAAA 3POUA 1THQA 1GFOA 3AA1A 4GCPA 3UAQA 2N2MA 1PRNA 2LFUA 1QJ9A 4AZLA 2KC0A
chains in the Genus database with same CATH homology


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