1DFO - JenaLib

Asymmetric Unit (Jmol Viewer)

Asym. Unit - sites (Jmol Viewer)

Biological Unit 1 (Jmol Viewer)

Biol. Unit 1 - sites (Jmol Viewer)

Biological Unit 2 (Jmol Viewer)

Title :   CRYSTAL STRUCTURE AT 2.4 ANGSTROM RESOLUTION OF E. COLI SERINE HYDROXYMETHYLTRANSFERASE IN COMPLEX WITH GLYCINE AND 5-FORMYL TETRAHYDROFOLATE

Authors :   J. N. Scarsdale, S. Radaev, G. Kazanina, V. Schirch, H. T. Wright

Date :   20 Nov 99 (Deposition) - 10 Dec 99 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.40

Chains :   Asym. Unit : A,B,C,D
Biol. Unit 1: A,B  (1x)
Biol. Unit 2: C,D  (1x)

Keywords :   Alpha Plp Aspartate, Amino Transferase, (Aat)-Like Fold (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   J. N. Scarsdale, S. Radaev, G. Kazanina, V. Schirch, H. T. Wright
Crystal Structure At 2. 4 A Resolution Of E. Coli Serine Hydroxymethyltransferase In Complex With Glycine Substrate And 5-Formyl Tetrahydrofolate.
J. Mol. Biol. V. 296 155 2000
PubMed-ID: 10656824 | Reference-DOI: 10.1006/JMBI.1999.3453
(for further references see the PDB file header)

Molecule 1 - SERINE HYDROXYMETHYLTRANSFERASE
	Chains	:	A, B, C, D
	EC Number	:	2.1.2.1
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PBR322
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Organism Scientific	:	ESCHERICHIA COLI
	Organism Taxid	:	562
	Synonym	:	SHMT, SERINE METHYLASE

		1	2	3	4
Asymmetric Unit	:	A	B	C	D
Biological Unit 1 (1x)	:	A	B
Biological Unit 2 (1x)	:			C	D

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (2, 8)

No.	Name	Count	Type	Full Name
1	FFO	4	Ligand/Ion	5-FORMYL-6-HYDROFOLIC ACID
2	PLG	4	Ligand/Ion	N-GLYCINE-[3-HYDROXY-2-METHYL-5-PHOSPHONOOXYMETHYL-PYRIDIN-4-YL-METHANE]

Biological Unit 1 (2, 4)

No.	Name	Count	Type	Full Name
1	FFO	2	Ligand/Ion	5-FORMYL-6-HYDROFOLIC ACID
2	PLG	2	Ligand/Ion	N-GLYCINE-[3-HYDROXY-2-METHYL-5-PHOSPHONOOXYMETHYL-PYRIDIN-4-YL-METHANE]

Biological Unit 2 (2, 4)

No.	Name	Count	Type	Full Name
1	FFO	2	Ligand/Ion	5-FORMYL-6-HYDROFOLIC ACID
2	PLG	2	Ligand/Ion	N-GLYCINE-[3-HYDROXY-2-METHYL-5-PHOSPHONOOXYMETHYL-PYRIDIN-4-YL-METHANE]

Asymmetric Unit (8, 8)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	SER A:35 , SER A:97 , GLY A:98 , SER A:99 , HIS A:126 , PHE A:174 , SER A:175 , ASP A:200 , ALA A:202 , HIS A:203 , THR A:226 , HIS A:228 , LYS A:229 , ARG A:363 , FFO A:1002 , TYR B:55 , TYR B:65 , GLY B:262 , GLY B:263 , HOH B:500	BINDING SITE FOR RESIDUE PLG A 1001
2	AC2	SOFTWARE	LEU A:121 , GLY A:125 , HIS A:126 , LEU A:127 , SER A:175 , ASN A:347 , SER A:355 , PRO A:356 , PHE A:357 , HOH A:664 , HOH A:694 , HOH A:787 , HOH A:859 , PLG A:1001 , GLU B:57 , TYR B:64 , TYR B:65 , PHE B:257 , HOH B:530 , HOH B:961 , SER D:245 , GLU D:246 , GLU D:247	BINDING SITE FOR RESIDUE FFO A 1002
3	AC3	SOFTWARE	TYR A:55 , TYR A:65 , GLY A:262 , GLY A:263 , HOH A:506 , HOH A:548 , SER B:35 , SER B:97 , GLY B:98 , SER B:99 , HIS B:126 , PHE B:174 , SER B:175 , ASP B:200 , ALA B:202 , HIS B:203 , THR B:226 , HIS B:228 , LYS B:229 , ARG B:363 , FFO B:2002	BINDING SITE FOR RESIDUE PLG B 2001
4	AC4	SOFTWARE	GLU A:57 , TYR A:64 , TYR A:65 , PHE A:257 , HOH A:548 , LEU B:121 , GLY B:125 , HIS B:126 , LEU B:127 , SER B:175 , ASN B:347 , SER B:355 , PRO B:356 , PHE B:357 , HOH B:763 , HOH B:791 , PLG B:2001	BINDING SITE FOR RESIDUE FFO B 2002
5	AC5	SOFTWARE	SER C:35 , SER C:97 , GLY C:98 , SER C:99 , HIS C:126 , PHE C:174 , SER C:175 , ASP C:200 , ALA C:202 , HIS C:203 , THR C:226 , HIS C:228 , LYS C:229 , ARG C:363 , FFO C:3002 , TYR D:55 , TYR D:65 , GLY D:262 , GLY D:263 , HOH D:504	BINDING SITE FOR RESIDUE PLG C 3001
6	AC6	SOFTWARE	SER B:245 , GLU B:246 , GLU B:247 , LEU C:121 , GLY C:125 , HIS C:126 , LEU C:127 , SER C:175 , ASN C:347 , SER C:355 , PRO C:356 , PHE C:357 , HOH C:656 , PLG C:3001 , GLU D:57 , TYR D:64 , TYR D:65 , PHE D:257	BINDING SITE FOR RESIDUE FFO C 3002
7	AC7	SOFTWARE	TYR C:55 , TYR C:65 , GLY C:262 , GLY C:263 , HOH C:505 , SER D:35 , SER D:97 , GLY D:98 , SER D:99 , HIS D:126 , PHE D:174 , SER D:175 , ASP D:200 , ALA D:202 , HIS D:203 , THR D:226 , HIS D:228 , LYS D:229 , ARG D:363 , FFO D:4002	BINDING SITE FOR RESIDUE PLG D 4001
8	AC8	SOFTWARE	GLU C:57 , TYR C:64 , TYR C:65 , PHE C:257 , HOH C:525 , LEU D:121 , GLY D:125 , HIS D:126 , LEU D:127 , SER D:175 , ASN D:347 , SER D:355 , PRO D:356 , PHE D:357 , HOH D:674 , HOH D:675 , HOH D:1027 , PLG D:4001	BINDING SITE FOR RESIDUE FFO D 4002

(no "SS Bond" information available for 1DFO)

Asymmetric Unit

No.	Residues
1	Phe A:257	-	Pro A:258
2	Phe B:257	-	Pro B:258
3	Phe C:257	-	Pro C:258
4	Phe D:257	-	Pro D:258

(no "SAP(SNP)/Variant" information available for 1DFO)

Asymmetric Unit (1, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	SHMT	PS00096	Serine hydroxymethyltransferase pyridoxal-phosphate attachment site.	GLYA_ECOLI	221-237	4	A:221-237 B:221-237 C:221-237 D:221-237

Biological Unit 1 (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	SHMT	PS00096	Serine hydroxymethyltransferase pyridoxal-phosphate attachment site.	GLYA_ECOLI	221-237	2	A:221-237 B:221-237 - -

Biological Unit 2 (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	SHMT	PS00096	Serine hydroxymethyltransferase pyridoxal-phosphate attachment site.	GLYA_ECOLI	221-237	2	- - C:221-237 D:221-237

(no "Exon" information available for 1DFO)

Asymmetric Unit

Reformat:	Number of residues per line = ('0' or empty: single-line sequence representation)
	Number of residues per labelling interval =
	UniProt sequence: complete aligned part

Show mapping:	SCOP domains	CATH domains	Pfam domains	Secondary structure (by author)
	SAPs(SNPs)	PROSITE motifs	Exons
	(details for a mapped element are shown in a popup box when the mouse pointer rests over it)

Chain A from PDB  Type:PROTEIN  Length:416
 aligned with GLYA_ECOLI | P0A825 from UniProtKB/Swiss-Prot  Length:417

    Alignment length:416
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411      
           GLYA_ECOLI     2 LKREMNIADYDAELWQAMEQEKVRQEEHIELIASENYTSPRVMQAQGSQLTNKYAEGYPGKRYYGGCEYVDIVEQLAIDRAKELFGADYANVQPHSGSQANFAVYTALLEPGDTVLGMNLAHGGHLTHGSPVNFSGKLYNIVPYGIDATGHIDYADLEKQAKEHKPKMIIGGFSAYSGVVDWAKMREIADSIGAYLFVDMAHVAGLVAAGVYPNPVPHAHVVTTTTHKTLAGPRGGLILAKGGSEELYKKLNSAVFPGGQGGPLMHVIAGKAVALKEAMEPEFKTYQQQVAKNAKAMVEVFLERGYKVVSGGTDNHLFLVDLVDKNLTGKEADAALGRANITVNKNSVPNDPKSPFVTSGIRVGTPAITRRGFKEAEAKELAGWMCDVLDSINDEAVIERIKGKVLDICARYPVYA 417
               SCOP domains d1dfoa_ A: Serine hydroxymethyltransferase                                                                                                                                                                                                                                                                                                                                                                                       SCOP domains
               CATH domains --------------------------------------1dfoA01 A:40-280 Type I PLP-dependent aspartate aminotransferase-like (Major domain)                                                                                                                                                             1dfoA02 A:281-417 Aspartate Aminotransferase, domain 1                                                                                    CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....hhhhhhhhhhhhhhhhhhhhhhhee........hhhhhhhhhhhhhhh...ee..ee....hhhhhhhhhhhhhhhhhhhh..eee....hhhhhhhhhhhhhh....eeeee......hhhhh...hhhhhhheeeee........hhhhhhhhhhhhh..eeeee........hhhhhhhhhhhh..eeeee...hhhhhhh...........eeeee..........eeeee...hhhhhhhhhhhhh.......hhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhh..ee.hhh....eeeee.hhhh.hhhhhhhhhhhh.ee.ee..............eeeeehhhhhhh..hhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhh..ee Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------SHMT             ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1dfo A   2 LKREMNIADYDAELWQAMEQEKVRQEEHIELIASENYTSPRVMQAQGSQLTNKYAEGYPGKRYYGGCEYVDIVEQLAIDRAKELFGADYANVQPHSGSQANFAVYTALLEPGDTVLGMNLAHGGHLTHGSPVNFSGKLYNIVPYGIDATGHIDYADLEKQAKEHKPKMIIGGFSAYSGVVDWAKMREIADSIGAYLFVDMAHVAGLVAAGVYPNPVPHAHVVTTTTHKTLAGPRGGLILAKGGSEELYKKLNSAVFPGGQGGPLMHVIAGKAVALKEAMEPEFKTYQQQVAKNAKAMVEVFLERGYKVVSGGTDNHLFLVDLVDKNLTGKEADAALGRANITVNKNSVPNDPKSPFVTSGIRVGTPAITRRGFKEAEAKELAGWMCDVLDSINDEAVIERIKGKVLDICARYPVYA 417
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411

Chain B from PDB  Type:PROTEIN  Length:417
 aligned with GLYA_ECOLI | P0A825 from UniProtKB/Swiss-Prot  Length:417

    Alignment length:417
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       
           GLYA_ECOLI     1 MLKREMNIADYDAELWQAMEQEKVRQEEHIELIASENYTSPRVMQAQGSQLTNKYAEGYPGKRYYGGCEYVDIVEQLAIDRAKELFGADYANVQPHSGSQANFAVYTALLEPGDTVLGMNLAHGGHLTHGSPVNFSGKLYNIVPYGIDATGHIDYADLEKQAKEHKPKMIIGGFSAYSGVVDWAKMREIADSIGAYLFVDMAHVAGLVAAGVYPNPVPHAHVVTTTTHKTLAGPRGGLILAKGGSEELYKKLNSAVFPGGQGGPLMHVIAGKAVALKEAMEPEFKTYQQQVAKNAKAMVEVFLERGYKVVSGGTDNHLFLVDLVDKNLTGKEADAALGRANITVNKNSVPNDPKSPFVTSGIRVGTPAITRRGFKEAEAKELAGWMCDVLDSINDEAVIERIKGKVLDICARYPVYA 417
               SCOP domains d1dfob_ B: Serine hydroxymethyltransferase                                                                                                                                                                                                                                                                                                                                                                                        SCOP domains
               CATH domains ---------------------------------------1dfoB01 B:40-280 Type I PLP-dependent aspartate aminotransferase-like (Major domain)                                                                                                                                                             1dfoB02 B:281-417 Aspartate Aminotransferase, domain 1                                                                                    CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .ee........hhhhhhhhhhhhhhhhhhee........hhhhhhhhhhhhhhh...ee..ee....hhhhhhhhhhhhhhhhhhhh..eee....hhhhhhhhhhhhhh....eeeee......hhhhh...hhhhhhheeeee........hhhhhhhhhhhhh..eeeee........hhhhhhhhhhhh..eeeee...hhhhhhh...........eeeee..........eeeee...hhhhhhhhhhhhh.......hhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhh..ee.hhh....eeeee.hhhh.hhhhhhhhhhhh.ee.ee..............eeeeehhhhhhh..hhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------SHMT             ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1dfo B   1 MLKREMNIADYDAELWQAMEQEKVRQEEHIELIASENYTSPRVMQAQGSQLTNKYAEGYPGKRYYGGCEYVDIVEQLAIDRAKELFGADYANVQPHSGSQANFAVYTALLEPGDTVLGMNLAHGGHLTHGSPVNFSGKLYNIVPYGIDATGHIDYADLEKQAKEHKPKMIIGGFSAYSGVVDWAKMREIADSIGAYLFVDMAHVAGLVAAGVYPNPVPHAHVVTTTTHKTLAGPRGGLILAKGGSEELYKKLNSAVFPGGQGGPLMHVIAGKAVALKEAMEPEFKTYQQQVAKNAKAMVEVFLERGYKVVSGGTDNHLFLVDLVDKNLTGKEADAALGRANITVNKNSVPNDPKSPFVTSGIRVGTPAITRRGFKEAEAKELAGWMCDVLDSINDEAVIERIKGKVLDICARYPVYA 417
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410

Chain C from PDB  Type:PROTEIN  Length:417
 aligned with GLYA_ECOLI | P0A825 from UniProtKB/Swiss-Prot  Length:417

    Alignment length:417
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       
           GLYA_ECOLI     1 MLKREMNIADYDAELWQAMEQEKVRQEEHIELIASENYTSPRVMQAQGSQLTNKYAEGYPGKRYYGGCEYVDIVEQLAIDRAKELFGADYANVQPHSGSQANFAVYTALLEPGDTVLGMNLAHGGHLTHGSPVNFSGKLYNIVPYGIDATGHIDYADLEKQAKEHKPKMIIGGFSAYSGVVDWAKMREIADSIGAYLFVDMAHVAGLVAAGVYPNPVPHAHVVTTTTHKTLAGPRGGLILAKGGSEELYKKLNSAVFPGGQGGPLMHVIAGKAVALKEAMEPEFKTYQQQVAKNAKAMVEVFLERGYKVVSGGTDNHLFLVDLVDKNLTGKEADAALGRANITVNKNSVPNDPKSPFVTSGIRVGTPAITRRGFKEAEAKELAGWMCDVLDSINDEAVIERIKGKVLDICARYPVYA 417
               SCOP domains d1dfoc_ C: Serine hydroxymethyltransferase                                                                                                                                                                                                                                                                                                                                                                                        SCOP domains
               CATH domains ---------------------------------------1dfoC01 C:40-280 Type I PLP-dependent aspartate aminotransferase-like (Major domain)                                                                                                                                                             1dfoC02 C:281-417 Aspartate Aminotransferase, domain 1                                                                                    CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......hhhhhhhhhhhhhhhhhhhhhhhee........hhhhhhhhhhhhhhh...ee..ee....hhhhhhhhhhhhhhhhhhhh..eee....hhhhhhhhhhhhhh....eeeee......hhhhh...hhhhhhheeeee........hhhhhhhhhhhhh..eeeee........hhhhhhhhhhhh..eeeee...hhhhhhh...........eeeee..........eeeee...hhhhhhhhhhhhh.......hhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhh..ee.hhh....eeeee.hhhh.hhhhhhhhhhhh.ee.ee..............eeeeehhhhhhh..hhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------SHMT             ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1dfo C   1 MLKREMNIADYDAELWQAMEQEKVRQEEHIELIASENYTSPRVMQAQGSQLTNKYAEGYPGKRYYGGCEYVDIVEQLAIDRAKELFGADYANVQPHSGSQANFAVYTALLEPGDTVLGMNLAHGGHLTHGSPVNFSGKLYNIVPYGIDATGHIDYADLEKQAKEHKPKMIIGGFSAYSGVVDWAKMREIADSIGAYLFVDMAHVAGLVAAGVYPNPVPHAHVVTTTTHKTLAGPRGGLILAKGGSEELYKKLNSAVFPGGQGGPLMHVIAGKAVALKEAMEPEFKTYQQQVAKNAKAMVEVFLERGYKVVSGGTDNHLFLVDLVDKNLTGKEADAALGRANITVNKNSVPNDPKSPFVTSGIRVGTPAITRRGFKEAEAKELAGWMCDVLDSINDEAVIERIKGKVLDICARYPVYA 417
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410

Chain D from PDB  Type:PROTEIN  Length:416
 aligned with GLYA_ECOLI | P0A825 from UniProtKB/Swiss-Prot  Length:417

    Alignment length:416
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411      
           GLYA_ECOLI     2 LKREMNIADYDAELWQAMEQEKVRQEEHIELIASENYTSPRVMQAQGSQLTNKYAEGYPGKRYYGGCEYVDIVEQLAIDRAKELFGADYANVQPHSGSQANFAVYTALLEPGDTVLGMNLAHGGHLTHGSPVNFSGKLYNIVPYGIDATGHIDYADLEKQAKEHKPKMIIGGFSAYSGVVDWAKMREIADSIGAYLFVDMAHVAGLVAAGVYPNPVPHAHVVTTTTHKTLAGPRGGLILAKGGSEELYKKLNSAVFPGGQGGPLMHVIAGKAVALKEAMEPEFKTYQQQVAKNAKAMVEVFLERGYKVVSGGTDNHLFLVDLVDKNLTGKEADAALGRANITVNKNSVPNDPKSPFVTSGIRVGTPAITRRGFKEAEAKELAGWMCDVLDSINDEAVIERIKGKVLDICARYPVYA 417
               SCOP domains d1dfod_ D: Serine hydroxymethyltransferase                                                                                                                                                                                                                                                                                                                                                                                       SCOP domains
               CATH domains --------------------------------------1dfoD01 D:40-280 Type I PLP-dependent aspartate aminotransferase-like (Major domain)                                                                                                                                                             1dfoD02 D:281-417 Aspartate Aminotransferase, domain 1                                                                                    CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........hhhhhhhhhhhhhhhhhhee........hhhhhhhhhhhhhhh...ee..ee....hhhhhhhhhhhhhhhhhhhh..eee....hhhhhhhhhhhhhh....eeeee......hhhhh...hhhhhhheeeee........hhhhhhhhhhhhh..eeeee........hhhhhhhhhhhh..eeeee...hhhhhhh...........eeeee..........eeeee...hhhhhhhhhhhhh.......hhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhh..ee.hhh....eeeee.hhhh.hhhhhhhhhhh..ee.ee..............eeeeehhhhhhh..hhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------SHMT             ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1dfo D   2 LKREMNIADYDAELWQAMEQEKVRQEEHIELIASENYTSPRVMQAQGSQLTNKYAEGYPGKRYYGGCEYVDIVEQLAIDRAKELFGADYANVQPHSGSQANFAVYTALLEPGDTVLGMNLAHGGHLTHGSPVNFSGKLYNIVPYGIDATGHIDYADLEKQAKEHKPKMIIGGFSAYSGVVDWAKMREIADSIGAYLFVDMAHVAGLVAAGVYPNPVPHAHVVTTTTHKTLAGPRGGLILAKGGSEELYKKLNSAVFPGGQGGPLMHVIAGKAVALKEAMEPEFKTYQQQVAKNAKAMVEVFLERGYKVVSGGTDNHLFLVDLVDKNLTGKEADAALGRANITVNKNSVPNDPKSPFVTSGIRVGTPAITRRGFKEAEAKELAGWMCDVLDSINDEAVIERIKGKVLDICARYPVYA 417
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411

Legend:		→ Mismatch	(orange background)
	-	→ Gap	(green background, '-', border residues have a numbering label)
		→ Modified Residue	(blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
	x	→ Chemical Group	(purple background, 'x', labelled with number + name, e.g. ACE or NH2)
	extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '\|'

Asymmetric Unit

Classes(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: Alpha and beta proteins (a/b) (23833)

Fold: PLP-dependent transferase-like (627)

Superfamily: PLP-dependent transferases (625)

Family: GABA-aminotransferase-like (167)

Protein domain: Serine hydroxymethyltransferase (50)

Escherichia coli [TaxId: 562] (2)

1a	d1dfoa_	A:
1b	d1dfob_	B:
1c	d1dfoc_	C:
1d	d1dfod_	D:

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: 3-Layer(aba) Sandwich (12045)

Topology: Aspartate Aminotransferase; domain 2 (384)

Homologous Superfamily: Type I PLP-dependent aspartate aminotransferase-like (Major domain) (384)

Escherichia coli. Organism_taxid: 562. (56)

1a	1dfoA01	A:40-280
1b	1dfoB01	B:40-280
1c	1dfoC01	C:40-280
1d	1dfoD01	D:40-280

Architecture: Alpha-Beta Complex (3881)

Topology: Aspartate Aminotransferase, domain 1 (355)

Homologous Superfamily: Aspartate Aminotransferase, domain 1 (354)

Escherichia coli. Organism_taxid: 562. (56)

2a	1dfoA02	A:281-417
2b	1dfoB02	B:281-417
2c	1dfoC02	C:281-417
2d	1dfoD02	D:281-417

(no "Pfam Domain" information available for 1DFO)

Asymmetric Unit(hide GO term definitions)

Chain A,B,C,D (GLYA_ECOLI | P0A825)

molecular function
	GO:0003824	catalytic activity	Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic.
	GO:0004372	glycine hydroxymethyltransferase activity	Catalysis of the reaction: 5,10-methylenetetrahydrofolate + glycine + H2O = tetrahydrofolate + L-serine.
	GO:0042802	identical protein binding	Interacting selectively and non-covalently with an identical protein or proteins.
	GO:0005515	protein binding	Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
	GO:0030170	pyridoxal phosphate binding	Interacting selectively and non-covalently with pyridoxal 5' phosphate, 3-hydroxy-5-(hydroxymethyl)-2-methyl4-pyridine carboxaldehyde 5' phosphate, the biologically active form of vitamin B6.
	GO:0016740	transferase activity	Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.
	GO:0008270	zinc ion binding	Interacting selectively and non-covalently with zinc (Zn) ions.
biological process
	GO:0006565	L-serine catabolic process	The chemical reactions and pathways resulting in the breakdown of L-serine, the L-enantiomer of serine, i.e. (2S)-2-amino-3-hydroxypropanoic acid.
	GO:0006563	L-serine metabolic process	The chemical reactions and pathways involving L-serine, the L-enantiomer of serine, i.e. (2S)-2-amino-3-hydroxypropanoic acid.
	GO:0008652	cellular amino acid biosynthetic process	The chemical reactions and pathways resulting in the formation of amino acids, organic acids containing one or more amino substituents.
	GO:0006545	glycine biosynthetic process	The chemical reactions and pathways resulting in the formation of glycine, aminoethanoic acid.
	GO:0019264	glycine biosynthetic process from serine	The chemical reactions and pathways resulting in the formation of glycine from other compounds, including serine.
	GO:0006546	glycine catabolic process	The chemical reactions and pathways resulting in the breakdown of glycine, aminoethanoic acid.
	GO:0006544	glycine metabolic process	The chemical reactions and pathways involving glycine, aminoethanoic acid.
	GO:0006730	one-carbon metabolic process	The chemical reactions and pathways involving the transfer of one-carbon units in various oxidation states.
	GO:0035999	tetrahydrofolate interconversion	The chemical reactions and pathways by which one-carbon (C1) units are transferred between tetrahydrofolate molecules, to synthesise other tetrahydrofolate molecules.
cellular component
	GO:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
	GO:0005829	cytosol	The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
	GO:0016020	membrane	A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.

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	1dfo
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	GLYA_ECOLI \| P0A825	:	1eqb 3g8m

(no "Related Entries Specified in the PDB File" available for 1DFO)

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (2, 8)

Sites (8, 8)

SS Bonds (0, 0)

Cis Peptide Bonds (4, 4)

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Exons (0, 0)

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