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Biological Unit 1 (Jmol Viewer)

Biol. Unit 1 - sites (Jmol Viewer)

Biological Unit 2 (Jmol Viewer)

Title :   SERINE HYDROXYMETHYLTRANSFERASE FROM STAPHYLOCOCCUS AUREUS, S95P MUTANT.

Authors :   J. Osipiuk, M. Makowska-Grzyska, K. Kwon, W. F. Anderson, A. Joachimia For Structural Genomics Of Infectious Diseases (Csgid)

Date :   02 Nov 10 (Deposition) - 17 Nov 10 (Release) - 17 Nov 10 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.92

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

Keywords :   Structural Genomics, Idp00749, Center For Structural Genomics Of Infectious Diseases, Csgid, Serine Hydroxymethyltransferase, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   J. Osipiuk, M. Makowska-Grzyska, K. Kwon, W. F. Anderson, A. Joachimiak
Serine Hydroxymethyltransferase From Staphylococcus Aureus, S95P Mutant
To Be Published
PubMed: search

Molecule 1 - SERINE HYDROXYMETHYLTRANSFERASE
	Chains	:	A, B, C, D
	EC Number	:	2.1.2.1
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PMCSG7
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	469008
	Expression System Vector Type	:	PLASMID
	Gene	:	GLYA
	Mutation	:	YES
	Organism Scientific	:	STAPHYLOCOCCUS AUREUS
	Organism Taxid	:	93062
	Strain	:	COL
	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 (3, 13)

No.	Name	Count	Type	Full Name
1	CIT	8	Ligand/Ion	CITRIC ACID
2	EDO	2	Ligand/Ion	1,2-ETHANEDIOL
3	GLY	3	Mod. Amino Acid	GLYCINE

Biological Unit 1 (2, 7)

No.	Name	Count	Type	Full Name
1	CIT	4	Ligand/Ion	CITRIC ACID
2	EDO	-1	Ligand/Ion	1,2-ETHANEDIOL
3	GLY	3	Mod. Amino Acid	GLYCINE

Biological Unit 2 (2, 6)

No.	Name	Count	Type	Full Name
1	CIT	4	Ligand/Ion	CITRIC ACID
2	EDO	2	Ligand/Ion	1,2-ETHANEDIOL
3	GLY	-1	Mod. Amino Acid	GLYCINE

Asymmetric Unit (13, 13)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	TYR A:51 , GLY A:256 , GLY A:257 , GLY B:94 , PRO B:95 , THR B:223 , HIS B:225 , LYS B:226 , ARG B:232 , HOH B:424 , HOH B:791	BINDING SITE FOR RESIDUE CIT B 501
02	AC2	SOFTWARE	ILE B:75 , LYS B:79 , GLU B:85 , HIS B:86 , VAL B:87 , GLU B:240 , LYS B:243	BINDING SITE FOR RESIDUE CIT B 502
03	AC3	SOFTWARE	GLY C:94 , PRO C:95 , THR C:223 , HIS C:225 , LYS C:226 , ARG C:232 , HOH C:493 , TYR D:51 , GLU D:53 , GLY D:256 , GLY D:257 , HOH D:447 , HOH D:526	BINDING SITE FOR RESIDUE CIT D 503
04	AC4	SOFTWARE	ILE D:75 , LYS D:79 , GLU D:85 , HIS D:86 , VAL D:87 , GLU D:240 , LYS D:243 , HOH D:898 , HOH D:1055	BINDING SITE FOR RESIDUE CIT D 504
05	AC5	SOFTWARE	ILE A:75 , LYS A:79 , GLU A:85 , HIS A:86 , VAL A:87 , GLU A:240 , LYS A:243	BINDING SITE FOR RESIDUE CIT A 505
06	AC6	SOFTWARE	GLY A:94 , PRO A:95 , THR A:223 , HIS A:225 , LYS A:226 , ARG A:232 , TYR B:51 , GLU B:53 , GLY B:256 , GLY B:257 , HOH B:417 , HOH B:438 , HOH B:468 , HOH B:522	BINDING SITE FOR RESIDUE CIT B 506
07	AC7	SOFTWARE	GLU C:53 , GLY C:256 , GLY C:257 , GLY D:94 , PRO D:95 , THR D:223 , HIS D:225 , LYS D:226 , ARG D:232 , HOH D:438 , HOH D:643 , HOH D:800	BINDING SITE FOR RESIDUE CIT D 507
08	AC8	SOFTWARE	ILE C:75 , LYS C:79 , GLU C:85 , HIS C:86 , VAL C:87 , GLU C:240 , LYS C:243 , HOH C:801	BINDING SITE FOR RESIDUE CIT C 508
09	AC9	SOFTWARE	THR B:366 , LEU B:410 , TYR B:411 , HOH B:992	BINDING SITE FOR RESIDUE GLY B 509
10	BC1	SOFTWARE	GLU A:27 , ASN A:33 , PHE A:34 , ALA A:363 , HOH A:469 , HOH A:804 , ASN B:49	BINDING SITE FOR RESIDUE GLY A 510
11	BC2	SOFTWARE	SER B:334 , GLU B:391 , LEU B:394 , GLN B:395 , LYS B:398	BINDING SITE FOR RESIDUE GLY B 511
12	BC3	SOFTWARE	ALA C:30 , SER C:31 , GLU C:32 , HIS C:200 , LYS C:226 , TYR D:51	BINDING SITE FOR RESIDUE EDO C 512
13	BC4	SOFTWARE	ASP A:153 , GLU C:299 , SER C:382 , LEU C:383 , LYS C:386 , HOH C:446 , HOH C:492	BINDING SITE FOR RESIDUE EDO C 513

(no "SS Bond" information available for 3PGY)

Asymmetric Unit

No.	Residues
1	Phe A:251	-	Pro A:252
2	Phe B:251	-	Pro B:252
3	Phe C:251	-	Pro C:252
4	Phe D:251	-	Pro D:252

(no "SAP(SNP)/Variant" information available for 3PGY)

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_STAAC	218-234	4	A:218-234 B:218-234 C:218-234 D:218-234

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_STAAC	218-234	2	A:218-234 B:218-234 - -

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_STAAC	218-234	2	- - C:218-234 D:218-234

(no "Exon" information available for 3PGY)

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:402
 aligned with GLYA_STAAC | Q5HE87 from UniProtKB/Swiss-Prot  Length:412

    Alignment length:412
                                    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_STAAC     1 MSYITKQDKVIAEAIEREFQRQNSNIELIASENFVSEAVMEAQGSVLTNKYAEGYPGRRYYGGCEFVDVTESIAIDRAKALFGAEHVNVQPHSGSQANMAVYLVALEMGDTVLGMNLSHGGHLTHGAPVNFSGKFYNFVEYGVDKDTERINYDEVRKLALEHKPKLIVAGASAYSRTIDFKKFKEIADEVNAKLMVDMAHIAGLVAAGLHPNPVEYADFVTTTTHKTLRGPRGGMILCKEEYKKDIDKTIFPGIQGGPLEHVIAAKAVAFGEALENNFKTYQQQVVKNAKVLAEALINEGFRIVSGGTDNHLVAVDVKGSIGLTGKEAEETLDSVGITCNKNTIPFDQEKPFVTSGIRLGTPAATTRGFDEKAFEEVAKIISLALKNSKDEEKLQQAKERVAKLTAEYPLYQ 412
               SCOP domains d3pgya_ A: automated matches                                                                                                                                                                                                                                                                                                                                                                                                 SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhhee........hhhhhhhhhhhhhhh.........--..hhhhhhhhhhhhhhhhhhhh..eee....hhhhhhhhhhhhhh....eeee.....--------..hhhhhh.eeee..........hhhhhhhhhhhhh..eeeee........hhhhhhhhhhhhh.eeeee...hhhhhhh....hhhhh..eeeee..........eeeee...hhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..ee.hhh....eeeeehhhhhh.hhhhhhhhhhhh.ee.eee.............eeeeehhhhhhh..hhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------SHMT             ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3pgy A   1 MSYITKQDKVIAEAIEREFQRQNSNIELIASENFVSEAVMEAQGSVLTNKYAEGYPGRR--GGCEFVDVTESIAIDRAKALFGAEHVNVQPHSGPQANMAVYLVALEMGDTVLGMNLSH--------PVNFSGKFYNFVEYGVDKDTERINYDEVRKLALEHKPKLIVAGASAYSRTIDFKKFKEIADEVNAKLMVDMAHIAGLVAAGLHPNPVEYADFVTTTTHKTLRGPRGGMILCKEEYKKDIDKTIFPGIQGGPLEHVIAAKAVAFGEALENNFKTYQQQVVKNAKVLAEALINEGFRIVSGGTDNHLVAVDVKGSIGLTGKEAEETLDSVGITCNKNTIPFDQEKPFVTSGIRLGTPAATTRGFDEKAFEEVAKIISLALKNSKDEEKLQQAKERVAKLTAEYPLYQ 412
                                    10        20        30        40        50        |- |      70        80        90       100       110        |-       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  
                                                                                     59 62                                                      119      128

Chain B from PDB  Type:PROTEIN  Length:404
 aligned with GLYA_STAAC | Q5HE87 from UniProtKB/Swiss-Prot  Length:412

    Alignment length:411
                                    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_STAAC     1 MSYITKQDKVIAEAIEREFQRQNSNIELIASENFVSEAVMEAQGSVLTNKYAEGYPGRRYYGGCEFVDVTESIAIDRAKALFGAEHVNVQPHSGSQANMAVYLVALEMGDTVLGMNLSHGGHLTHGAPVNFSGKFYNFVEYGVDKDTERINYDEVRKLALEHKPKLIVAGASAYSRTIDFKKFKEIADEVNAKLMVDMAHIAGLVAAGLHPNPVEYADFVTTTTHKTLRGPRGGMILCKEEYKKDIDKTIFPGIQGGPLEHVIAAKAVAFGEALENNFKTYQQQVVKNAKVLAEALINEGFRIVSGGTDNHLVAVDVKGSIGLTGKEAEETLDSVGITCNKNTIPFDQEKPFVTSGIRLGTPAATTRGFDEKAFEEVAKIISLALKNSKDEEKLQQAKERVAKLTAEYPLY 411
               SCOP domains d3pgyb_ B: automated matches                                                                                                                                                                                                                                                                                                                                                                                                SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhhee........hhhhhhhhhhhhhhh...ee..ee....hhhhhhhhhhhhhhhhhhhh..eee....hhhhhhhhhhhhhh....eeeee....-------...hhhhhh.eeeee.........hhhhhhhhhhhhh..eeeee........hhhhhhhhhhhhh.eeeee...hhhhhhh....hhhhh..eeeee.hhhhh....eeeee...hhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..ee.hhh....eeeeehhhhhh.hhhhhhhhhhhh.ee.eee.............eeeeehhhhhhh..hhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------SHMT             --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3pgy B   1 MSYITKQDKVIAEAIEREFQRQNSNIELIASENFVSEAVMEAQGSVLTNKYAEGYPGRRYYGGCEFVDVTESIAIDRAKALFGAEHVNVQPHSGPQANMAVYLVALEMGDTVLGMNLSH-------APVNFSGKFYNFVEYGVDKDTERINYDEVRKLALEHKPKLIVAGASAYSRTIDFKKFKEIADEVNAKLMVDMAHIAGLVAAGLHPNPVEYADFVTTTTHKTLRGPRGGMILCKEEYKKDIDKTIFPGIQGGPLEHVIAAKAVAFGEALENNFKTYQQQVVKNAKVLAEALINEGFRIVSGGTDNHLVAVDVKGSIGLTGKEAEETLDSVGITCNKNTIPFDQEKPFVTSGIRLGTPAATTRGFDEKAFEEVAKIISLALKNSKDEEKLQQAKERVAKLTAEYPLY 411
                                    10        20        30        40        50        60        70        80        90       100       110        |-      |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 
                                                                                                                                                119     127

Chain C from PDB  Type:PROTEIN  Length:398
 aligned with GLYA_STAAC | Q5HE87 from UniProtKB/Swiss-Prot  Length:412

    Alignment length:412
                             1                                                                                                                                                                                                                                                                                                                                                                                                                          
                             |       9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339       349       359       369       379       389       399       409  
           GLYA_STAAC     - -MSYITKQDKVIAEAIEREFQRQNSNIELIASENFVSEAVMEAQGSVLTNKYAEGYPGRRYYGGCEFVDVTESIAIDRAKALFGAEHVNVQPHSGSQANMAVYLVALEMGDTVLGMNLSHGGHLTHGAPVNFSGKFYNFVEYGVDKDTERINYDEVRKLALEHKPKLIVAGASAYSRTIDFKKFKEIADEVNAKLMVDMAHIAGLVAAGLHPNPVEYADFVTTTTHKTLRGPRGGMILCKEEYKKDIDKTIFPGIQGGPLEHVIAAKAVAFGEALENNFKTYQQQVVKNAKVLAEALINEGFRIVSGGTDNHLVAVDVKGSIGLTGKEAEETLDSVGITCNKNTIPFDQEKPFVTSGIRLGTPAATTRGFDEKAFEEVAKIISLALKNSKDEEKLQQAKERVAKLTAEYPLY 411
               SCOP domains d3pgyc_ C: automated matches                                                                                                                                                                                                                                                                                                                                                                                                 SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhhee........hhhhhhhhhhhhhhh.........--..hhhhhhhhhhhhhhhhhhhh..eee....hhhhhhhhhhhhhh....eeeee.------------.hhhhhh.eeeee.........hhhhhhhhhhhhh..eeeee........hhhhhhhhhhhhh.eeeee...hhhhhhh....hhhhh..eeeee.hhhhh....eeeee...hhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...ee.hhh....eeeeehhhhhh.hhhhhhhhhhhh.ee.eee.............eeeeehhhhhhh..hhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------SHMT             --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3pgy C   0 AMSYITKQDKVIAEAIEREFQRQNSNIELIASENFVSEAVMEAQGSVLTNKYAEGYPGRR--GGCEFVDVTESIAIDRAKALFGAEHVNVQPHSGPQANMAVYLVALEMGDTVLGMN------------VNFSGKFYNFVEYGVDKDTERINYDEVRKLALEHKPKLIVAGASAYSRTIDFKKFKEIADEVNAKLMVDMAHIAGLVAAGLHPNPVEYADFVTTTTHKTLRGPRGGMILCKEEYKKDIDKTIFPGIQGGPLEHVIAAKAVAFGEALENNFKTYQQQVVKNAKVLAEALINEGFRIVSGGTDNHLVAVDVKGSIGLTGKEAEETLDSVGITCNKNTIPFDQEKPFVTSGIRLGTPAATTRGFDEKAFEEVAKIISLALKNSKDEEKLQQAKERVAKLTAEYPLY 411
                                     9        19        29        39        49        59  |     69        79        89        99       109      |  -       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339       349       359       369       379       389       399       409  
                                                                                      59 62                                                   116          129

Chain D from PDB  Type:PROTEIN  Length:402
 aligned with GLYA_STAAC | Q5HE87 from UniProtKB/Swiss-Prot  Length:412

    Alignment length:413
                              1                                                                                                                                                                                                                                                                                                                                                                                                                          
                              |      8        18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288       298       308       318       328       338       348       358       368       378       388       398       408   
           GLYA_STAAC     - --MSYITKQDKVIAEAIEREFQRQNSNIELIASENFVSEAVMEAQGSVLTNKYAEGYPGRRYYGGCEFVDVTESIAIDRAKALFGAEHVNVQPHSGSQANMAVYLVALEMGDTVLGMNLSHGGHLTHGAPVNFSGKFYNFVEYGVDKDTERINYDEVRKLALEHKPKLIVAGASAYSRTIDFKKFKEIADEVNAKLMVDMAHIAGLVAAGLHPNPVEYADFVTTTTHKTLRGPRGGMILCKEEYKKDIDKTIFPGIQGGPLEHVIAAKAVAFGEALENNFKTYQQQVVKNAKVLAEALINEGFRIVSGGTDNHLVAVDVKGSIGLTGKEAEETLDSVGITCNKNTIPFDQEKPFVTSGIRLGTPAATTRGFDEKAFEEVAKIISLALKNSKDEEKLQQAKERVAKLTAEYPLY 411
               SCOP domains d3pgyd_ D: automated matches                                                                                                                                                                                                                                                                                                                                                                                                  SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) -----SHMT-3pgyD01 D:4-381                                                                                                                                                                                                                                                                                                                                                                      ------------------------------ Pfam domains (1)
           Pfam domains (2) -----SHMT-3pgyD02 D:4-381                                                                                                                                                                                                                                                                                                                                                                      ------------------------------ Pfam domains (2)
           Pfam domains (3) -----SHMT-3pgyD03 D:4-381                                                                                                                                                                                                                                                                                                                                                                      ------------------------------ Pfam domains (3)
           Pfam domains (4) -----SHMT-3pgyD04 D:4-381                                                                                                                                                                                                                                                                                                                                                                      ------------------------------ Pfam domains (4)
         Sec.struct. author ..hhhhhhhhhhhhhhhhhhhhhhhhhee........hhhhhhhhhhhhhhh...ee..ee....hhhhhhhhhhhhhhhhhhhh..eee....hhhhhhhhhhhhhh....eeeee.-----------..hhhhhh.eeeee.........hhhhhhhhhhhhh..eeeee........hhhhhhhhhhhh..eeeee...hhhhhhh....hhhhh..eeeee.hhhhh....eeeee...hhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..ee.hhh....eeeeehhhhhh.hhhhhhhhhhhh.ee.eee.............eeeeehhhhhhhh.hhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------SHMT             --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3pgy D  -1 NAMSYITKQDKVIAEAIEREFQRQNSNIELIASENFVSEAVMEAQGSVLTNKYAEGYPGRRYYGGCEFVDVTESIAIDRAKALFGAEHVNVQPHSGPQANMAVYLVALEMGDTVLGMN-----------PVNFSGKFYNFVEYGVDKDTERINYDEVRKLALEHKPKLIVAGASAYSRTIDFKKFKEIADEVNAKLMVDMAHIAGLVAAGLHPNPVEYADFVTTTTHKTLRGPRGGMILCKEEYKKDIDKTIFPGIQGGPLEHVIAAKAVAFGEALENNFKTYQQQVVKNAKVLAEALINEGFRIVSGGTDNHLVAVDVKGSIGLTGKEAEETLDSVGITCNKNTIPFDQEKPFVTSGIRLGTPAATTRGFDEKAFEEVAKIISLALKNSKDEEKLQQAKERVAKLTAEYPLY 411
                                     8        18        28        38        48        58        68        78        88        98       108       | -       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288       298       308       318       328       338       348       358       368       378       388       398       408   
                                                                                                                                               116         128

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: automated matches (28)

Staphylococcus aureus [TaxId: 93062] (1)

1a	d3pgya_	A:
1b	d3pgyb_	B:
1c	d3pgyc_	C:
1d	d3pgyd_	D:

(no "CATH Domain" information available for 3PGY)

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: PLP_aminotran (240)

Family: SHMT (45)

Staphylococcus aureus (strain COL) (1)

1a	SHMT-3pgyD01	D:4-381
1b	SHMT-3pgyD02	D:4-381
1c	SHMT-3pgyD03	D:4-381
1d	SHMT-3pgyD04	D:4-381

Asymmetric Unit(hide GO term definitions)

Chain A,B,C,D (GLYA_STAAC | Q5HE87)

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: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.
biological process
	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: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.

Asymmetric Unit
	Complete Structure
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	Cis Peptide Bonds
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		Phe D:251 - Pro D:252	[ RasMol ]

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		Biological Unit 2	[ Jena3D ]

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	protein, nucleic acid: cartoon; ligands: spacefill; active site: ball and stick [ mono PDF format \| stereo PDF format ](default orientation, automatically generated)

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	3pgy
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Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 13)

Sites (13, 13)

SS Bonds (0, 0)

Cis Peptide Bonds (4, 4)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (1, 4)

Exons (0, 0)

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SCOP Domains (1, 4)

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Pfam Domains (1, 4)

Gene Ontology (12, 12)

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