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 |
129
|
Knots found |
|
sequence length |
388
|
structure length |
379
|
Chain Sequence |
SEYLFTSESVSEGHPDKVADQVSDAILDAILAQDPKARVAAETLVNTGLCVLAGEITTTAQVDYIKVARETIKRIGYNSSELGFDANGCAVGVYYDQQSPDIADLNQGAGDQGLMFGYACDETPTLMPFAIYYSHRLMQRQSELRKDGRLPWLRPDAKAQLTVVYDSETGKVKRIDTVVLSTQHDPAISQEELSKAVIEQIIKPVLPPELLTDETKYLINPTGRFVIGGPQGDCGLTGRKIIVDTYGGAAPHGGGAFSGKDPSKVDRSAAYACRYVAKNIVAAGLATQCQIQVSYAIGVAEPTSISIDTFGTGKISEEKLIALVCEHFDLRPKGIVQMLDLLRPIYGKSAAYGHFGREEPEFTWERTDKAASLKAAAGL
|
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.
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 a S-adenosylmethionine Synthase from Neisseria gonorrhoeae with bound AMP and Magnesium
rcsb |
| source organism |
Neisseria gonorrhoeae (strain atcc 700825 / fa 1090)
|
| molecule tags |
Transferase
|
| molecule keywords |
S-adenosylmethionine synthase
|
| total genus |
129
|
| structure length |
379
|
| sequence length |
388
|
| chains with identical sequence |
B
|
| other databases |
 KnotProt 2.0: K +31
|
| ec nomenclature |
ec
2.5.1.6: Methionine adenosyltransferase. |
| pdb deposition date | 2016-09-08 |
| chain | Pfam Accession Code | Pfam Family Identifier | Pfam Description |
|---|---|---|---|
| A | PF00438 | S-AdoMet_synt_N | S-adenosylmethionine synthetase, N-terminal domain |
| A | PF02772 | S-AdoMet_synt_M | S-adenosylmethionine synthetase, central domain |
| A | PF02773 | S-AdoMet_synt_C | S-adenosylmethionine synthetase, C-terminal domain |
Image from the rcsb pdb (www.rcsb.org)
cath code
| Class | Architecture | Topology | Homology | Domain |
|---|---|---|---|---|---|
| Alpha Beta | 2-Layer Sandwich | GMP Synthetase; Chain A, domain 3 | GMP Synthetase; Chain A, domain 3 | ||
| Alpha Beta | 2-Layer Sandwich | GMP Synthetase; Chain A, domain 3 | GMP Synthetase; Chain A, domain 3 | ||
| Alpha Beta | 2-Layer Sandwich | GMP Synthetase; Chain A, domain 3 | GMP Synthetase; Chain A, domain 3 |
#chains in the Genus database with same CATH superfamily 4HPV A; 3A4I A; 4ODJ A; 5T8S A; 4KTT A; 4WS9 A; 2YWC A; 2OBV A; 1XRA A; 1FUG A; 1MXB A; 5H9U A; 3S82 A; 3SO4 A; 4LE5 A; 4L7I A; 4K0B A; 4L4Q A; 3TQI A; 1MXC A; 3UOW A; 1XRB A; 5A19 A; 1RG9 A; 5A1G A; 3TDE A; 5A1I A; 1P7L A; 1MXA A; 1GPM A; 2YWB A; 3IML A; 5T8T A; 3RV2 A; 4NDN A; 1O9T A; 1O93 A; 1O92 A; 2DPL A; 1O90 A; 1QM4 A; 4KTV A; 4L2Z A; 2P02 A; 1XRC A; #chains in the Genus database with same CATH topology 1BA3 A; 4HPV A; 1N34 C; 3N2Q A; 4BC7 A; 2YWC A; 1FUG A; 4LF6 C; 2QVZ X; 2YX1 A; 1PG4 A; 4ISB A; 1UWD A; 4X64 C; 2KZF A; 2AYA A; 2BJO A; 4PRO C; 2YWB A; 4OXI A; 4JI0 C; 4RM2 A; 2P02 A; 2QVX X; 2XR1 A; 1ULT A; 1HNZ C; 3N54 B; 4EAT A; 2E8E A; 5LCI A; 2OPL B; 2ZZM A; 3DAY A; 4B3S C; 4LFB C; 4JI7 C; 1LQL A; 2MM9 A; 4FTF A; 3G7S A; 2CU6 A; 1O9T A; 5BSU A; 3VNS A; 4DCU A; 2F4V C; 4JYA C; 1T5H X; 3UEB A; 3ETC A; 5GTD A; 1HNW C; 4WS9 A; 4NXM C; 4RLF A; 4JI3 C; 4MTN A; 1PG3 A; 1VLA A; 1J5E C; 5A19 A; 2UU9 C; 3FCC A; 2V7B A; 3A25 A; 4DR1 C; 2QL8 A; 1PU1 A; 1V60 A; 4U5Y D; 1GPM A; 4DV2 C; 5CZV A; 4DV6 C; 4DUY C; 2CY1 A; 4DV5 C; 4I9G A; 3A4I A; 4X62 C; 3AF5 A; 1V25 A; 3R9X A; 4BCA A; 1MKY A; 4LF4 C; 4L4Q A; 3C5E A; 1MXC A; 4G1I A; 3CQ3 A; 2D1T A; 4BC9 A; 4D4G A; 3AY0 A; 2UXC C; 5KEI A; 1JOS A; 4B3M C; 4RLQ A; 1IBK C; 1ZB9 A; 4BBY A; 5LMN C; 3I07 A; 1O90 A; 4NOZ A; 3T1H C; 1P4E C; 4ZJZ A; 4DUZ C; 3CQ1 A; 2KZ0 A; 3VNR A; 1QWI A; 3OTO C; 2VQF C; 2D1R A; 3KXW A; 2Z51 A; 5IFI A; 2UUB C; 3EER A; 4GS5 A; 3DLP X; 5DV9 A; 4DV3 C; 5FLX D; 2DHM A; 1XHJ A; 4R0M A; 4D57 A; 4BSZ A; 4YHH C; 3DHV A; 4GXR A; 1HNX C; 1HR0 C; 4JI8 C; 4R1L A; 2P2M A; 1WCJ A; 3TUF A; 3B7W A; 1XS3 A; 4XX2 A; 3EQ6 A; 4L7I A; 4LF7 C; 5BUR A; 3NI2 A; 4RMN A; 2E5L C; 5A1G A; 1RY2 A; 2WD9 A; 3A9U A; 4DG9 A; 3RV2 A; 4FUT A; 4DR3 C; 5E7Q A; 1USP B; 5KYT A; 3RG2 A; 4DR7 C; 3CQ2 A; 3L95 X; 4G37 A; 4JI6 C; 2ZM6 C; 3LNV A; 1MXB A; 5BUQ A; 4DR4 C; 2BH1 X; 3A26 A; 4DV4 C; 3J80 D; 1KKG A; 4X65 C; 4B3R C; 3JAM D; 1HH2 P; 2CXC A; 4R1M A; 4NDN A; 2DPL A; 2ONF A; 3NPD A; 3K6R A; 3R9W A; 1N32 C; 4ODJ A; 4I9F A; 1WF3 A; 4GKK C; 2NCL A; 1MDB A; 4LE5 A; 1WH9 A; 5AE1 A; 1MDF A; 1VEH A; 4MH4 A; 1N33 C; 2JMP A; 4LF9 C; 2PRO A; 1ML8 A; 4PZP A; 4G36 A; 3UZ0 A; 2MMA B; 1NY8 A; 4JV5 C; 3CW9 A; 1YJ7 A; 2ZZN A; 4TPS B; 2D28 C; 4JI5 C; 3IEV A; 2E8F A; 1IBL C; 5ADZ A; 5BSV A; 1QM4 A; 3NYR A; 5BSR A; 4JI2 C; 1USP A; 2MCQ A; 3SO4 A; 3S82 A; 4PUH A; 2HJG A; 3TQI A; 5LMU C; 3GR1 A; 4DV0 C; 1I94 C; 4GKJ C; 1K0R A; 4X66 C; 1AMU A; 3L8C A; 3T1Y C; 3LGX A; 3ETO A; 1TH5 A; 5BUS A; 4ZLP A; 5BSW A; 4IR7 A; 4RVO A; 4KHP C; 3FCE A; 4L2Z A; 5JRH A; 2UXB C; 3GKU A; 5AE3 A; 2Y4O A; 4KTT A; 4K0K C; 5BR8 C; 5CZX A; 4DCT A; 1XRB A; 2P2B A; 2EGT A; 3PBK A; 1P7L A; 3AF6 A; 4RVN A; 5BST A; 1FLO A; 5K8F A; 2M5H A; 1XNQ C; 2OO4 A; 4LFA C; 1MD9 A; 2QW0 X; 2Y27 A; 3E7W A; 1N36 C; 4PUI A; 4RM3 A; 2Y4N A; 1FJG C; 4LF8 C; 1M6X C; 1M6X A; 2VQE C; 1NYE A; 1XMO C; 4DCS A; 4DG8 A; 4PUG A; 2P2J A; 2P2F A; 2PN2 A; 1O93 A; 1P4E A; 3CJE A; 5A2Q D; 3TR3 A; 1EGA A; 1XRA A; 2WP0 C; 4JI1 C; 2D27 A; 1LCI A; 3PRO C; 2D7V A; 2D1S A; 2OPL A; 4DR6 C; 3IPL A; 1MXA A; 1IB8 A; 2DYJ A; 4JM1 A; 1PA4 A; 3IML A; 3IEU A; 3UX3 A; 4YY3 C; 2E8C A; 4DV7 C; 3A9V A; 4IZ6 A; 4KTV A; 1XRC A; 3J81 D; 2D1Q A; 1V26 A; 3H2T A; 2JNV A; 1UKK A; 2OBV A; 5H9U A; 4K0B A; 2ATW A; 3TDE A; 5A1I A; 4OX9 C; 3UX2 A; 3CW8 X; 3LNO A; 5T8T A; 5AE2 A; 2E0G A; 4FUQ A; 2VZE A; 4NXN C; 2VSQ A; 4B3T C; 2YCB A; 3PES A; 2ASB A; 5BSM A; 3I08 A; 4DR5 C; 5T8S A; 1L2F A; 4DCV A; 5K85 A; 3NYQ A; 3LAX A; 3GR0 A; 5KYV A; 4DR2 C; 4OYC A; 1RG9 A; 4D4I A; 4LFC C; 2P2Q A; 1IBM C; 1O92 A; 4D56 A; 2M5O A; 3LUS A; 3GPC A; 3O2E A; 4WV3 A; 3R44 A; 4AQY C; 4GXQ A; 2QVY X; 1N2F A; 2KDN A; 4JI4 C; 4PHT A; 2UXD C; 3E7X A; 1ZB8 A; 1T5D X; 3UOW A; 4LF5 C; 2PT7 G; 2UUC C; 1XNR C; 2E7G A; 2HHH C; 5IWA C; 5IT9 D; 3VNQ A; 2UUA C; 4DV1 C; 2P20 A; 1XMQ C; #chains in the Genus database with same CATH homology 1BA3 A; 4HPV A; 1N34 C; 3N2Q A; 4BC7 A; 2YWC A; 1FUG A; 4LF6 C; 2QVZ X; 1PG4 A; 4ISB A; 4X64 C; 2KZF A; 2AYA A; 2BJO A; 4PRO C; 2YWB A; 4OXI A; 4JI0 C; 4RM2 A; 2P02 A; 2QVX X; 2XR1 A; 1ULT A; 1HNZ C; 3N54 B; 4EAT A; 2E8E A; 2OPL B; 3DAY A; 4B3S C; 4LFB C; 4JI7 C; 1LQL A; 4FTF A; 3G7S A; 1O9T A; 5BSU A; 3VNS A; 4DCU A; 2F4V C; 4JYA C; 1T5H X; 3ETC A; 5GTD A; 1HNW C; 4WS9 A; 4NXM C; 4RLF A; 4JI3 C; 4MTN A; 1PG3 A; 1VLA A; 1J5E C; 5A19 A; 2UU9 C; 3FCC A; 2V7B A; 4DR1 C; 2QL8 A; 4U5Y D; 1GPM A; 4DV2 C; 5CZV A; 4DV6 C; 4DUY C; 2CY1 A; 4DV5 C; 4I9G A; 3A4I A; 4X62 C; 3AF5 A; 1V25 A; 3R9X A; 4BCA A; 1MKY A; 4LF4 C; 4L4Q A; 3C5E A; 1MXC A; 4G1I A; 2D1T A; 4BC9 A; 4D4G A; 2UXC C; 5KEI A; 1JOS A; 4B3M C; 4RLQ A; 1IBK C; 1ZB9 A; 4BBY A; 5LMN C; 3I07 A; 1O90 A; 4NOZ A; 3T1H C; 4ZJZ A; 4DUZ C; 3VNR A; 1QWI A; 3OTO C; 2VQF C; 2D1R A; 3KXW A; 5IFI A; 2UUB C; 3EER A; 4GS5 A; 3DLP X; 5DV9 A; 4DV3 C; 5FLX D; 4R0M A; 4D57 A; 4BSZ A; 4YHH C; 3DHV A; 4GXR A; 1HNX C; 1HR0 C; 4JI8 C; 4R1L A; 2P2M A; 3TUF A; 3B7W A; 4XX2 A; 3EQ6 A; 4L7I A; 4LF7 C; 5BUR A; 3NI2 A; 4RMN A; 2E5L C; 5A1G A; 1RY2 A; 2WD9 A; 3A9U A; 4DG9 A; 3RV2 A; 4FUT A; 4DR3 C; 5E7Q A; 1USP B; 5KYT A; 3RG2 A; 4DR7 C; 3L95 X; 4G37 A; 4JI6 C; 3LNV A; 2ZM6 C; 1MXB A; 5BUQ A; 4DR4 C; 2BH1 X; 4DV4 C; 3J80 D; 1KKG A; 4X65 C; 4B3R C; 3JAM D; 1HH2 P; 2CXC A; 4R1M A; 4NDN A; 2DPL A; 2ONF A; 3NPD A; 3R9W A; 1N32 C; 4ODJ A; 4I9F A; 1WF3 A; 4GKK C; 1MDB A; 4LE5 A; 1WH9 A; 5AE1 A; 1MDF A; 4MH4 A; 1N33 C; 2JMP A; 4LF9 C; 2PRO A; 1ML8 A; 4PZP A; 4G36 A; 3UZ0 A; 4JV5 C; 3CW9 A; 1YJ7 A; 4TPS B; 2D28 C; 4JI5 C; 3IEV A; 2E8F A; 1IBL C; 5ADZ A; 5BSV A; 1QM4 A; 3NYR A; 5BSR A; 4JI2 C; 1USP A; 3SO4 A; 3S82 A; 2HJG A; 3TQI A; 5LMU C; 3GR1 A; 4DV0 C; 1I94 C; 4GKJ C; 1K0R A; 4X66 C; 1AMU A; 3L8C A; 3T1Y C; 3LGX A; 3ETO A; 5BUS A; 4ZLP A; 5BSW A; 4IR7 A; 4RVO A; 4KHP C; 3FCE A; 4L2Z A; 5JRH A; 2UXB C; 3GKU A; 5AE3 A; 2Y4O A; 4KTT A; 4K0K C; 5BR8 C; 5CZX A; 4DCT A; 1XRB A; 2P2B A; 2EGT A; 3PBK A; 1P7L A; 3AF6 A; 4RVN A; 5BST A; 5K8F A; 1XNQ C; 2OO4 A; 4LFA C; 1MD9 A; 2QW0 X; 2Y27 A; 3E7W A; 1N36 C; 4RM3 A; 2Y4N A; 1FJG C; 4LF8 C; 2VQE C; 1NYE A; 1XMO C; 4DCS A; 4DG8 A; 2P2J A; 2P2F A; 2PN2 A; 1O93 A; 3CJE A; 5A2Q D; 1EGA A; 1XRA A; 2WP0 C; 4JI1 C; 2D27 A; 1LCI A; 3PRO C; 2D7V A; 2D1S A; 2OPL A; 4DR6 C; 3IPL A; 1MXA A; 2DYJ A; 4JM1 A; 1PA4 A; 3IML A; 3IEU A; 4YY3 C; 2E8C A; 4DV7 C; 3A9V A; 4IZ6 A; 4KTV A; 1XRC A; 3J81 D; 2D1Q A; 1V26 A; 3H2T A; 1UKK A; 2OBV A; 5H9U A; 4K0B A; 2ATW A; 3TDE A; 5A1I A; 4OX9 C; 3CW8 X; 5T8T A; 5AE2 A; 2E0G A; 4FUQ A; 2VZE A; 4NXN C; 2VSQ A; 4B3T C; 2YCB A; 3PES A; 2ASB A; 5BSM A; 3I08 A; 4DR5 C; 5T8S A; 1L2F A; 4DCV A; 5K85 A; 3NYQ A; 3LAX A; 3GR0 A; 5KYV A; 4DR2 C; 4OYC A; 1RG9 A; 4D4I A; 4LFC C; 2P2Q A; 1IBM C; 1O92 A; 4D56 A; 3LUS A; 3GPC A; 4WV3 A; 3R44 A; 4AQY C; 4GXQ A; 2QVY X; 1N2F A; 4JI4 C; 4PHT A; 2UXD C; 3E7X A; 1ZB8 A; 1T5D X; 3UOW A; 4LF5 C; 2PT7 G; 2UUC C; 1XNR C; 2E7G A; 2HHH C; 5IWA C; 5IT9 D; 3VNQ A; 2UUA C; 4DV1 C; 2P20 A; 1XMQ C;
#similar chains in the Genus database (?% sequence similarity) ...loading similar chains, please wait... #similar chains, but unknotted ...loading similar chains, please wait... #similar chains in the pdb database (?% sequence similarity) ...loading similar chains, please wait...
