6SMW
A. thaliana serine hydroxymethyltransferase isoform 2 (AtSHMT2) in complex with pemetrexed
Functional Information from GO Data
| Chain | GOid | namespace | contents |
| A | 0004372 | molecular_function | glycine hydroxymethyltransferase activity |
| A | 0005739 | cellular_component | mitochondrion |
| A | 0005747 | cellular_component | obsolete mitochondrial respiratory chain complex I |
| A | 0006544 | biological_process | glycine metabolic process |
| A | 0006563 | biological_process | L-serine metabolic process |
| A | 0006730 | biological_process | one-carbon metabolic process |
| A | 0008270 | molecular_function | zinc ion binding |
| A | 0009536 | cellular_component | plastid |
| A | 0016740 | molecular_function | transferase activity |
| A | 0019264 | biological_process | glycine biosynthetic process from serine |
| A | 0030170 | molecular_function | pyridoxal phosphate binding |
| A | 0035999 | biological_process | tetrahydrofolate interconversion |
| A | 0050897 | molecular_function | cobalt ion binding |
| B | 0004372 | molecular_function | glycine hydroxymethyltransferase activity |
| B | 0005739 | cellular_component | mitochondrion |
| B | 0005747 | cellular_component | obsolete mitochondrial respiratory chain complex I |
| B | 0006544 | biological_process | glycine metabolic process |
| B | 0006563 | biological_process | L-serine metabolic process |
| B | 0006730 | biological_process | one-carbon metabolic process |
| B | 0008270 | molecular_function | zinc ion binding |
| B | 0009536 | cellular_component | plastid |
| B | 0016740 | molecular_function | transferase activity |
| B | 0019264 | biological_process | glycine biosynthetic process from serine |
| B | 0030170 | molecular_function | pyridoxal phosphate binding |
| B | 0035999 | biological_process | tetrahydrofolate interconversion |
| B | 0050897 | molecular_function | cobalt ion binding |
| C | 0004372 | molecular_function | glycine hydroxymethyltransferase activity |
| C | 0005739 | cellular_component | mitochondrion |
| C | 0005747 | cellular_component | obsolete mitochondrial respiratory chain complex I |
| C | 0006544 | biological_process | glycine metabolic process |
| C | 0006563 | biological_process | L-serine metabolic process |
| C | 0006730 | biological_process | one-carbon metabolic process |
| C | 0008270 | molecular_function | zinc ion binding |
| C | 0009536 | cellular_component | plastid |
| C | 0016740 | molecular_function | transferase activity |
| C | 0019264 | biological_process | glycine biosynthetic process from serine |
| C | 0030170 | molecular_function | pyridoxal phosphate binding |
| C | 0035999 | biological_process | tetrahydrofolate interconversion |
| C | 0050897 | molecular_function | cobalt ion binding |
| D | 0004372 | molecular_function | glycine hydroxymethyltransferase activity |
| D | 0005739 | cellular_component | mitochondrion |
| D | 0005747 | cellular_component | obsolete mitochondrial respiratory chain complex I |
| D | 0006544 | biological_process | glycine metabolic process |
| D | 0006563 | biological_process | L-serine metabolic process |
| D | 0006730 | biological_process | one-carbon metabolic process |
| D | 0008270 | molecular_function | zinc ion binding |
| D | 0009536 | cellular_component | plastid |
| D | 0016740 | molecular_function | transferase activity |
| D | 0019264 | biological_process | glycine biosynthetic process from serine |
| D | 0030170 | molecular_function | pyridoxal phosphate binding |
| D | 0035999 | biological_process | tetrahydrofolate interconversion |
| D | 0050897 | molecular_function | cobalt ion binding |
Functional Information from PDB Data
| site_id | AC1 |
| Number of Residues | 21 |
| Details | binding site for residue PLS A 701 |
| Chain | Residue |
| A | SER82 |
| A | HIS260 |
| A | THR283 |
| A | HIS285 |
| A | LYS286 |
| A | ARG430 |
| A | HOH874 |
| B | TYR102 |
| B | GLU104 |
| B | TYR112 |
| B | GLY330 |
| A | SER148 |
| B | GLY331 |
| B | HOH842 |
| A | GLY149 |
| A | SER150 |
| A | HIS177 |
| A | ALA231 |
| A | SER232 |
| A | ASP257 |
| A | ALA259 |
| site_id | AC2 |
| Number of Residues | 7 |
| Details | binding site for residue EDO A 702 |
| Chain | Residue |
| A | GLN126 |
| A | LEU130 |
| A | GLY141 |
| A | VAL142 |
| A | HOH816 |
| A | HOH872 |
| A | HOH933 |
| site_id | AC3 |
| Number of Residues | 8 |
| Details | binding site for residue EDO A 703 |
| Chain | Residue |
| A | PRO151 |
| A | PHE154 |
| A | HOH824 |
| A | HOH829 |
| A | HOH887 |
| A | HOH1115 |
| B | PRO151 |
| B | PHE154 |
| site_id | AC4 |
| Number of Residues | 5 |
| Details | binding site for residue EDO A 704 |
| Chain | Residue |
| A | GLN322 |
| A | ALA323 |
| A | HOH953 |
| B | LYS188 |
| B | ILE189 |
| site_id | AC5 |
| Number of Residues | 4 |
| Details | binding site for residue EDO A 705 |
| Chain | Residue |
| A | GLU61 |
| A | ASP64 |
| A | HOH976 |
| A | HOH1012 |
| site_id | AC6 |
| Number of Residues | 6 |
| Details | binding site for residue EDO A 706 |
| Chain | Residue |
| A | GLU509 |
| A | LYS510 |
| A | GLU511 |
| A | HOH923 |
| D | LYS307 |
| D | GLY309 |
| site_id | AC7 |
| Number of Residues | 5 |
| Details | binding site for residue EDO A 707 |
| Chain | Residue |
| A | ALA159 |
| A | LEU160 |
| A | LEU161 |
| A | ARG319 |
| A | HOH990 |
| site_id | AC8 |
| Number of Residues | 5 |
| Details | binding site for residue EDO A 708 |
| Chain | Residue |
| A | TYR375 |
| A | LYS394 |
| A | ASP454 |
| A | LYS458 |
| A | LEU461 |
| site_id | AC9 |
| Number of Residues | 6 |
| Details | binding site for residue EDO A 709 |
| Chain | Residue |
| A | LYS188 |
| A | ILE189 |
| A | HOH1021 |
| B | GLN322 |
| B | ALA323 |
| B | HOH859 |
| site_id | AD1 |
| Number of Residues | 13 |
| Details | binding site for residue LYA A 710 |
| Chain | Residue |
| A | TYR111 |
| A | HOH801 |
| A | HOH806 |
| A | HOH882 |
| A | HOH914 |
| A | HOH956 |
| A | HOH1118 |
| B | LEU172 |
| B | LEU178 |
| B | THR184 |
| B | LYS187 |
| B | MET424 |
| B | HOH923 |
| site_id | AD2 |
| Number of Residues | 4 |
| Details | binding site for residue EDO A 711 |
| Chain | Residue |
| A | GLY95 |
| A | HOH907 |
| A | HOH1136 |
| B | GLY95 |
| site_id | AD3 |
| Number of Residues | 23 |
| Details | binding site for residue PLS B 601 |
| Chain | Residue |
| B | ALA259 |
| B | HIS260 |
| B | THR283 |
| B | HIS285 |
| B | LYS286 |
| B | ARG430 |
| B | HOH862 |
| B | HOH1005 |
| A | TYR102 |
| A | GLU104 |
| A | TYR112 |
| A | GLY330 |
| A | GLY331 |
| A | HOH910 |
| A | HOH1005 |
| B | SER82 |
| B | SER148 |
| B | GLY149 |
| B | SER150 |
| B | HIS177 |
| B | ALA231 |
| B | SER232 |
| B | ASP257 |
| site_id | AD4 |
| Number of Residues | 6 |
| Details | binding site for residue EDO B 602 |
| Chain | Residue |
| B | ALA159 |
| B | LEU160 |
| B | LEU161 |
| B | LYS162 |
| B | ARG319 |
| B | HOH808 |
| site_id | AD5 |
| Number of Residues | 7 |
| Details | binding site for residue EDO B 603 |
| Chain | Residue |
| B | GLN126 |
| B | LEU130 |
| B | GLY141 |
| B | VAL142 |
| B | HOH756 |
| B | HOH774 |
| B | HOH788 |
| site_id | AD6 |
| Number of Residues | 4 |
| Details | binding site for residue EDO B 604 |
| Chain | Residue |
| B | TYR375 |
| B | LYS394 |
| B | ASP454 |
| B | LYS458 |
| site_id | AD7 |
| Number of Residues | 5 |
| Details | binding site for residue EDO B 605 |
| Chain | Residue |
| A | MET120 |
| B | GLU61 |
| B | ASP64 |
| B | ILE65 |
| B | LEU68 |
| site_id | AD8 |
| Number of Residues | 3 |
| Details | binding site for residue EDO B 606 |
| Chain | Residue |
| A | LYS414 |
| B | ALA109 |
| B | ARG110 |
| site_id | AD9 |
| Number of Residues | 3 |
| Details | binding site for residue EDO B 607 |
| Chain | Residue |
| B | TRP140 |
| B | PHE274 |
| B | HOH1007 |
| site_id | AE1 |
| Number of Residues | 6 |
| Details | binding site for residue EDO B 608 |
| Chain | Residue |
| B | ALA169 |
| B | HIS180 |
| B | GLY181 |
| B | THR198 |
| B | MET199 |
| B | PRO200 |
| site_id | AE2 |
| Number of Residues | 5 |
| Details | binding site for residue EDO B 609 |
| Chain | Residue |
| B | LEU55 |
| B | ALA63 |
| B | GLU67 |
| B | HOH715 |
| B | HOH828 |
| site_id | AE3 |
| Number of Residues | 1 |
| Details | binding site for residue EDO B 610 |
| Chain | Residue |
| A | GLU311 |
| site_id | AE4 |
| Number of Residues | 22 |
| Details | binding site for residue PLS C 601 |
| Chain | Residue |
| C | SER82 |
| C | SER148 |
| C | GLY149 |
| C | SER150 |
| C | HIS177 |
| C | ALA231 |
| C | SER232 |
| C | ASP257 |
| C | ALA259 |
| C | HIS260 |
| C | THR283 |
| C | HIS285 |
| C | LYS286 |
| C | ARG430 |
| C | HOH826 |
| D | TYR102 |
| D | GLU104 |
| D | TYR112 |
| D | GLY330 |
| D | GLY331 |
| D | HOH1427 |
| D | HOH1565 |
| site_id | AE5 |
| Number of Residues | 6 |
| Details | binding site for residue EDO C 602 |
| Chain | Residue |
| C | THR505 |
| C | GLU509 |
| C | LYS510 |
| C | GLU511 |
| C | HOH754 |
| C | HOH758 |
| site_id | AE6 |
| Number of Residues | 5 |
| Details | binding site for residue EDO C 603 |
| Chain | Residue |
| C | TRP140 |
| C | PHE274 |
| C | ARG299 |
| C | HOH769 |
| C | HOH953 |
| site_id | AE7 |
| Number of Residues | 3 |
| Details | binding site for residue EDO C 604 |
| Chain | Residue |
| C | GLU61 |
| C | ASP64 |
| C | HOH797 |
| site_id | AE8 |
| Number of Residues | 4 |
| Details | binding site for residue EDO C 605 |
| Chain | Residue |
| C | LYS471 |
| C | LEU472 |
| C | LYS473 |
| C | HOH778 |
| site_id | AE9 |
| Number of Residues | 7 |
| Details | binding site for residue EDO C 606 |
| Chain | Residue |
| A | GLU368 |
| A | THR369 |
| C | VAL269 |
| C | ASP357 |
| C | HOH786 |
| C | HOH831 |
| C | HOH1010 |
| site_id | AF1 |
| Number of Residues | 2 |
| Details | binding site for residue EDO C 607 |
| Chain | Residue |
| C | ARG236 |
| C | HOH1017 |
| site_id | AF2 |
| Number of Residues | 13 |
| Details | binding site for residue LYA C 608 |
| Chain | Residue |
| C | LEU172 |
| C | LEU178 |
| C | THR184 |
| C | LYS187 |
| C | THR416 |
| C | MET424 |
| C | HOH705 |
| C | HOH721 |
| C | HOH740 |
| C | HOH900 |
| C | HOH932 |
| C | HOH962 |
| D | TYR111 |
| site_id | AF3 |
| Number of Residues | 4 |
| Details | binding site for residue EDO C 609 |
| Chain | Residue |
| C | TYR375 |
| C | ASP454 |
| C | LYS458 |
| C | HOH709 |
| site_id | AF4 |
| Number of Residues | 4 |
| Details | binding site for residue EDO C 610 |
| Chain | Residue |
| C | GLY95 |
| C | HOH796 |
| D | MET91 |
| D | GLY95 |
| site_id | AF5 |
| Number of Residues | 5 |
| Details | binding site for residue EDO C 611 |
| Chain | Residue |
| C | ALA159 |
| C | LEU160 |
| C | LEU161 |
| C | ARG319 |
| C | HOH939 |
| site_id | AF6 |
| Number of Residues | 8 |
| Details | binding site for residue EDO C 612 |
| Chain | Residue |
| C | ALA169 |
| C | LEU170 |
| C | ASP171 |
| C | LEU172 |
| C | GLY181 |
| C | MET199 |
| C | PRO200 |
| C | HOH710 |
| site_id | AF7 |
| Number of Residues | 10 |
| Details | binding site for residue SER C 613 |
| Chain | Residue |
| C | TYR102 |
| C | GLU104 |
| C | TYR112 |
| D | SER82 |
| D | SER232 |
| D | HIS260 |
| D | LYS286 |
| D | ARG430 |
| D | LYA1305 |
| D | PLP1310 |
| site_id | AF8 |
| Number of Residues | 9 |
| Details | binding site for residue EDO C 614 |
| Chain | Residue |
| C | PRO151 |
| C | PHE154 |
| C | LEU328 |
| C | HOH722 |
| C | HOH824 |
| C | HOH1002 |
| D | PRO151 |
| D | PHE154 |
| D | HOH1454 |
| site_id | AF9 |
| Number of Residues | 5 |
| Details | binding site for residue EDO C 615 |
| Chain | Residue |
| C | ILE189 |
| C | HOH935 |
| D | GLN322 |
| D | ALA323 |
| D | HOH1519 |
| site_id | AG1 |
| Number of Residues | 6 |
| Details | binding site for residue EDO D 1301 |
| Chain | Residue |
| C | GLN322 |
| C | PRO326 |
| C | HOH869 |
| D | LYS188 |
| D | ILE189 |
| D | HOH1587 |
| site_id | AG2 |
| Number of Residues | 7 |
| Details | binding site for residue EDO D 1302 |
| Chain | Residue |
| D | GLN126 |
| D | LEU130 |
| D | GLY141 |
| D | VAL142 |
| D | HOH1473 |
| D | HOH1514 |
| D | HOH1598 |
| site_id | AG3 |
| Number of Residues | 3 |
| Details | binding site for residue EDO D 1303 |
| Chain | Residue |
| D | TRP140 |
| D | HOH1409 |
| D | HOH1614 |
| site_id | AG4 |
| Number of Residues | 9 |
| Details | binding site for residue EDO D 1304 |
| Chain | Residue |
| D | ASN206 |
| D | THR207 |
| D | GLY208 |
| D | VAL378 |
| D | SER379 |
| D | GLY380 |
| D | HOH1504 |
| D | HOH1555 |
| D | HOH1596 |
| site_id | AG5 |
| Number of Residues | 11 |
| Details | binding site for residue LYA D 1305 |
| Chain | Residue |
| C | GLU104 |
| C | TYR111 |
| C | SER613 |
| D | LEU178 |
| D | LYS187 |
| D | ILE189 |
| D | MET424 |
| D | HOH1547 |
| D | HOH1587 |
| D | HOH1599 |
| D | HOH1645 |
| site_id | AG6 |
| Number of Residues | 6 |
| Details | binding site for residue EDO D 1306 |
| Chain | Residue |
| D | ALA159 |
| D | LEU160 |
| D | LEU161 |
| D | LYS162 |
| D | ARG319 |
| D | HOH1520 |
| site_id | AG7 |
| Number of Residues | 9 |
| Details | binding site for residue EDO D 1307 |
| Chain | Residue |
| D | ALA169 |
| D | ASP171 |
| D | HIS180 |
| D | GLY181 |
| D | THR198 |
| D | MET199 |
| D | PRO200 |
| D | HOH1483 |
| D | HOH1657 |
| site_id | AG8 |
| Number of Residues | 6 |
| Details | binding site for residue EDO D 1308 |
| Chain | Residue |
| D | TYR276 |
| D | ALA277 |
| D | ARG299 |
| D | TYR314 |
| D | HOH1402 |
| D | HOH1404 |
| site_id | AG9 |
| Number of Residues | 6 |
| Details | binding site for residue EDO D 1309 |
| Chain | Residue |
| C | ASN100 |
| D | ARG72 |
| D | GLU78 |
| D | GLU83 |
| D | ASN84 |
| D | PHE85 |
| site_id | AH1 |
| Number of Residues | 25 |
| Details | binding site for Di-peptide PLP D 1310 and LYS D 286 |
| Chain | Residue |
| C | TYR102 |
| C | GLY330 |
| C | GLY331 |
| C | SER613 |
| C | HOH774 |
| C | HOH864 |
| D | SER82 |
| D | ASN84 |
| D | SER148 |
| D | GLY149 |
| D | SER150 |
| D | HIS177 |
| D | SER179 |
| D | SER232 |
| D | ASP257 |
| D | ALA259 |
| D | HIS260 |
| D | THR283 |
| D | HIS285 |
| D | SER287 |
| D | LEU288 |
| D | ARG289 |
| D | HOH1501 |
| D | HOH1517 |
| D | HOH1718 |
Functional Information from PROSITE/UniProt
| site_id | PS00096 |
| Number of Residues | 17 |
| Details | SHMT Serine hydroxymethyltransferase pyridoxal-phosphate attachment site. DVvTTTTHKSLrGPRGA |
| Chain | Residue | Details |
| A | ASP278-ALA294 |
Functional Information from SwissProt/UniProt
| site_id | SWS_FT_FI1 |
| Number of Residues | 40 |
| Details | BINDING: BINDING => ECO:0000269|PubMed:31873125, ECO:0007744|PDB:6SMN, ECO:0007744|PDB:6SMW |
| Chain | Residue | Details |
| A | SER82 | |
| A | ARG430 | |
| B | SER82 | |
| B | TYR102 | |
| B | GLU104 | |
| B | TYR112 | |
| B | SER148 | |
| B | SER232 | |
| B | HIS260 | |
| B | GLY331 | |
| B | LYS414 | |
| A | TYR102 | |
| B | ARG430 | |
| C | SER82 | |
| C | TYR102 | |
| C | GLU104 | |
| C | TYR112 | |
| C | SER148 | |
| C | SER232 | |
| C | HIS260 | |
| C | GLY331 | |
| C | LYS414 | |
| A | GLU104 | |
| C | ARG430 | |
| D | SER82 | |
| D | TYR102 | |
| D | GLU104 | |
| D | TYR112 | |
| D | SER148 | |
| D | SER232 | |
| D | HIS260 | |
| D | GLY331 | |
| D | LYS414 | |
| A | TYR112 | |
| D | ARG430 | |
| A | SER148 | |
| A | SER232 | |
| A | HIS260 | |
| A | GLY331 | |
| A | LYS414 |
| site_id | SWS_FT_FI2 |
| Number of Residues | 8 |
| Details | BINDING: BINDING => ECO:0000269|PubMed:31873125, ECO:0007744|PDB:6SMN |
| Chain | Residue | Details |
| A | HIS177 | |
| A | THR184 | |
| B | HIS177 | |
| B | THR184 | |
| C | HIS177 | |
| C | THR184 | |
| D | HIS177 | |
| D | THR184 |
| site_id | SWS_FT_FI3 |
| Number of Residues | 4 |
| Details | BINDING: BINDING => ECO:0000269|PubMed:31873125, ECO:0007744|PDB:6SMW |
| Chain | Residue | Details |
| A | LYS286 | |
| B | LYS286 | |
| C | LYS286 | |
| D | LYS286 |
| site_id | SWS_FT_FI4 |
| Number of Residues | 4 |
| Details | MOD_RES: N6-(pyridoxal phosphate)lysine => ECO:0000250 |
| Chain | Residue | Details |
| A | LYS286 | |
| B | LYS286 | |
| C | LYS286 | |
| D | LYS286 |
