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Title :   CRYSTAL STRUCTURE OF SUBTILISIN-PROPEPTIDE COMPLEX

Authors :   H. M. Berman, S. C. Jain

Date :   29 Apr 98 (Deposition) - 09 Dec 98 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.00

Chains :   Asym./Biol. Unit : A,B

Keywords :   Hydrolase, Subtilisin E - Propeptide, Serine Protease (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   S. C. Jain, U. Shinde, Y. Li, M. Inouye, H. M. Berman
The Crystal Structure Of An Autoprocessed Ser221Cys-Subtilisin E-Propeptide Complex At 2. 0 A Resolution.
J. Mol. Biol. V. 284 137 1998
PubMed-ID: 9811547 | Reference-DOI: 10.1006/JMBI.1998.2161
(for further references see the PDB file header)

Molecule 1 - SUBTILISIN E
	Chains	:	A
	EC Number	:	3.4.21.62
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET11A
	Expression System Strain	:	DE3-BL2
	Expression System Taxid	:	562
	Mutation	:	YES
	Organism Scientific	:	BACILLUS SUBTILIS
	Organism Taxid	:	1423
	Strain	:	168
	Synonym	:	SERINE PROTEASE

Molecule 2 - SUBTILISIN E
	Chains	:	B
	EC Number	:	3.4.21.62
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET11A
	Expression System Strain	:	DE3-BL2
	Expression System Taxid	:	562
	Mutation	:	YES
	Organism Scientific	:	BACILLUS SUBTILIS
	Organism Taxid	:	1423
	Strain	:	168
	Synonym	:	SERINE PROTEASE

		1	2
Asymmetric/Biological Unit	:	A	B

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (1, 2)

No.	Name	Count	Type	Full Name
1	CA	2	Ligand/Ion	CALCIUM ION

Asymmetric Unit (3, 3)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	GLN A:2 , ASP A:41 , LEU A:75 , ASN A:77 , ILE A:79 , VAL A:81	BINDING SITE FOR RESIDUE CA A 381
2	AC2	SOFTWARE	ALA A:169 , TYR A:171 , THR A:174 , ALA A:176 , ASP A:197 , HOH A:401	BINDING SITE FOR RESIDUE CA A 382
3	AVE	UNKNOWN	CYS A:221 , HIS A:64 , ASP A:32	ACTIVE SITE MUTATION IS SER 221 CYS THAT BLOCKS THE PROTEOLYTIC ACTIVITY.

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

Asymmetric/Biological Unit

No.	Residues
1	Tyr A:167	-	Pro A:168

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

Asymmetric/Biological Unit (3, 3)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	SUBTILASE_ASP	PS00136	Serine proteases, subtilase family, aspartic acid active site.	SUBT_BACSU	134-145	1	A:28-39
2	SUBTILASE_HIS	PS00137	Serine proteases, subtilase family, histidine active site.	SUBT_BACSU	170-180	1	A:64-74
3	SUBTILASE_SER	PS00138	Serine proteases, subtilase family, serine active site.	SUBT_BACSU	325-335	1	A:219-229

(no "Exon" information available for 1SCJ)

Asymmetric/Biological 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:275
 aligned with SUBT_BACSU | P04189 from UniProtKB/Swiss-Prot  Length:381

    Alignment length:275
                                   116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306       316       326       336       346       356       366       376     
           SUBT_BACSU   107 AQSVPYGISQIKAPALHSQGYTGSNVKVAVIDSGIDSSHPDLNVRGGASFVPSETNPYQDGSSHGTHVAGTIAALNNSIGVLGVAPSASLYAVKVLDSTGSGQYSWIINGIEWAISNNMDVINMSLGGPTGSTALKTVVDKAVSSGIVVAAAAGNEGSSGSTSTVGYPAKYPSTIAVGAVNSSNQRASFSSAGSELDVMAPGVSIQSTLPGGTYGAYNGTSMATPHVAGAAALILSKHPTWTNAQVRDRLESTATYLGNSFYYGKGLINVQAAAQ 381
               SCOP domains d1scja_ A: Subtilisin                                                                                                                                                                                                                                                               SCOP domains
               CATH domains 1scjA00 A:1-275  [code=3.40.50.200, no name defined]                                                                                                                                                                                                                                CATH domains
               Pfam domains --------------------------Peptidase_S8-1scjA01 A:27-275                                                                                                                                                                                                                             Pfam domains
         Sec.struct. author .....hhhhh..hhhhhhh.......eeeeee...........eeeeee..............hhhhhhhhhh...............eeeeee.........hhhhhhhhhhhhh....eeee........hhhhhhhhhhhh...eeeee......................eeeeee.................eeee...eeeee...eeeee..hhhhhhhhhhhhhhhhhh.....hhhhhhhhhh.......hhhh......hhhh.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------SUBTILASE_AS------------------------SUBTILASE_H------------------------------------------------------------------------------------------------------------------------------------------------SUBTILASE_S---------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1scj A   1 AQSVPYGISQIKAPALHSQGYTGSNVKVAVIDSGIDSSHPDLNVRGGASFVPSETNPYQDGSSHGTHVAGTIAALNNSIGVLGVSPSASLYAVKVLDSTGSGQYSWIINGIEWAISNNMDVINMSLGGPTGSTALKTVVDKAVSSGIVVAAAAGNEGSSGSTSTVGYPAKYPSTIAVGAVNSSNQRASFSSAGSELDVMAPGVSIQSTLPGGTYGAYNGTCMATPHVAGAAALILSKHPTWTNAQVRDRLESTATYLGNSFYYGKGLINVQAAAQ 275
                                    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

Chain B from PDB  Type:PROTEIN  Length:71
 aligned with SUBT_BACSU | P04189 from UniProtKB/Swiss-Prot  Length:381

    Alignment length:71
                                    45        55        65        75        85        95       105 
           SUBT_BACSU    36 EKKYIVGFKQTMSAMSSAKKKDVISEKGGKVQKQFKYVNAAAATLDEKAVKELKKDPSVAYVEEDHIAHEY 106
               SCOP domains d1scjb_ B: Subtilisin prosegment                                        SCOP domains
               CATH domains 1scjB00 B:307-377  [code=3.30.70.80, no name defined]                   CATH domains
               Pfam domains --Inhibitor_I9-1scjB01 B:309-376                                      - Pfam domains
         Sec.struct. author .eeeeeee........hhhhhhhhhhh..eeeee.....eeeeee.hhhhhhhh....eeeeee....... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------- Transcript
                 1scj B 307 EKKYIVGFKQTMSAMSSAKKKDVISQKGGKVEKQFKYVNAAAATLDEKAVKELKKDPSVAYVEEDHIAHEY 377
                                   316       326       336       346       356       366       376

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/Biological Unit

Classes(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: Alpha and beta proteins (a+b) (23004)

Fold: Ferredoxin-like (1795)

Superfamily: Protease propeptides/inhibitors (19)

Family: Subtilase propeptides/inhibitors (8)

Protein domain: Subtilisin prosegment (2)

Bacillus subtilis [TaxId: 1423] (1)

d1scjb_

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

Fold: Subtilisin-like (227)

Superfamily: Subtilisin-like (227)

Family: Subtilases (190)

Protein domain: Subtilisin (91)

Bacillus subtilis, E [TaxId: 1423] (1)

d1scja_

Asymmetric/Biological Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: 2-Layer Sandwich (8480)

Topology: Alpha-Beta Plaits (1688)

Homologous Superfamily: [code=3.30.70.80, no name defined] (8)

Bacillus subtilis. Organism_taxid: 1423. Strain: 168. (1)

1scjB00

B:307-377

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

Topology: Rossmann fold (7312)

Homologous Superfamily: [code=3.40.50.200, no name defined] (198)

Bacillus subtilis. Organism_taxid: 1423. Strain: 168. (1)

1scjA00

A:1-275

Asymmetric/Biological Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: no clan defined [family: Inhibitor_I9] (12)

Family: Inhibitor_I9 (12)

Bacillus subtilis (1)

Inhibitor_I9-1scjB01

B:309-376

Clan: no clan defined [family: Peptidase_S8] (104)

Family: Peptidase_S8 (104)

Bacillus subtilis (1)

Peptidase_S8-1scjA01

A:27-275

Asymmetric/Biological Unit(hide GO term definitions)

Chain A,B (SUBT_BACSU | P04189)

molecular function
	GO:0016787	hydrolase activity	Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
	GO:0008233	peptidase activity	Catalysis of the hydrolysis of a peptide bond. A peptide bond is a covalent bond formed when the carbon atom from the carboxyl group of one amino acid shares electrons with the nitrogen atom from the amino group of a second amino acid.
	GO:0004252	serine-type endopeptidase activity	Catalysis of the hydrolysis of internal, alpha-peptide bonds in a polypeptide chain by a catalytic mechanism that involves a catalytic triad consisting of a serine nucleophile that is activated by a proton relay involving an acidic residue (e.g. aspartate or glutamate) and a basic residue (usually histidine).
	GO:0008236	serine-type peptidase activity	Catalysis of the hydrolysis of peptide bonds in a polypeptide chain by a catalytic mechanism that involves a catalytic triad consisting of a serine nucleophile that is activated by a proton relay involving an acidic residue (e.g. aspartate or glutamate) and a basic residue (usually histidine).
biological process
	GO:0006508	proteolysis	The hydrolysis of proteins into smaller polypeptides and/or amino acids by cleavage of their peptide bonds.
	GO:0030435	sporulation resulting in formation of a cellular spore	The process in which a relatively unspecialized cell acquires the specialized features of a cellular spore, a cell form that can be used for dissemination, for survival of adverse conditions because of its heat and dessication resistance, and/or for reproduction.
cellular component
	GO:0005576	extracellular region	The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite.

Asymmetric/Biological Unit
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	Cis Peptide Bonds
		Tyr A:167 - Pro A:168	[ RasMol ]

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Description

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Ligands, Modified Residues, Ions (1, 2)

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