3F7O - JenaLib

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Title :   CRYSTAL STRUCTURE OF CUTICLE-DEGRADING PROTEASE FROM PAECILOMYCES LILACINUS (PL646)

Authors :   L. Liang, Z. Lou, Z. Meng, Z. Rao, K. Zhang

Date :   10 Nov 08 (Deposition) - 17 Nov 09 (Release) - 02 Apr 14 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.20

Chains :   Asym. Unit : A,B,X,Y
Biol. Unit 1: A,X  (1x)
Biol. Unit 2: B,Y  (1x)

Keywords :   Cuticle-Degrading Protease, Paecilomyces Lilacinus, Hydrolase, Protease, Serine Protease (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   L. Liang, Z. Meng, F. Ye, J. Yang, S. Liu, Y. Sun, Y. Guo, Q. Mi, X. Huang, C. Zou, Z. Rao, Z. Lou, K. Q. Zhang
The Crystal Structures Of Two Cuticle-Degrading Proteases From Nematophagous Fungi And Their Contribution To Infectio Against Nematodes.
Faseb J. V. 24 1391 2010
PubMed-ID: 20007510 | Reference-DOI: 10.1096/FJ.09-136408

Molecule 1 - SERINE PROTEASE
	Chains	:	A, B
	Collection	:	SUPERNATANT
	EC Number	:	3.4.21.-
	Organism Common	:	NEMATODE EGG-PARASITIC FUNGUS
	Organism Scientific	:	PAECILOMYCES LILACINUS
	Organism Taxid	:	33203
	Plasmid	:	PMD18-T

Molecule 2 - (ALA)(ALA)(PRO)(VAL)
	Chains	:	X, Y
	Engineered	:	YES
	Other Details	:	THE PEPTIDE WAS CHEMICALLY SYNTHESIZED.
	Synthetic	:	YES

		1	2	3	4
Asymmetric Unit	:	A	B	X	Y
Biological Unit 1 (1x)	:	A		X
Biological Unit 2 (1x)	:		B		Y

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (2, 4)

No.	Name	Count	Type	Full Name
1	CA	2	Ligand/Ion	CALCIUM ION
2	HMB	2	Ligand/Ion	(4S)-4-HYDROXY-4-METHOXYBUTANOIC ACID

Biological Unit 1 (1, 1)

No.	Name	Count	Type	Full Name
1	CA	-1	Ligand/Ion	CALCIUM ION
2	HMB	1	Ligand/Ion	(4S)-4-HYDROXY-4-METHOXYBUTANOIC ACID

Biological Unit 2 (1, 1)

No.	Name	Count	Type	Full Name
1	CA	-1	Ligand/Ion	CALCIUM ION
2	HMB	1	Ligand/Ion	(4S)-4-HYDROXY-4-METHOXYBUTANOIC ACID

Asymmetric Unit (4, 4)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	GLY A:105 , TYR A:107 , HOH A:542 , ALA X:2	BINDING SITE FOR RESIDUE HMB A 285
2	AC2	SOFTWARE	GLU A:177 , VAL A:180 , THR A:182 , LEU A:201 , ASP A:203 , HOH A:287	BINDING SITE FOR RESIDUE CA A 286
3	AC3	SOFTWARE	GLY B:105 , SER B:106 , TYR B:107 , SER B:108 , ALA Y:2	BINDING SITE FOR RESIDUE HMB B 285
4	AC4	SOFTWARE	GLU B:177 , VAL B:180 , THR B:182 , LEU B:201 , ASP B:203	BINDING SITE FOR RESIDUE CA B 286

Asymmetric Unit

No.	Residues
1	A:36	-	A:126
2	A:181	-	A:253
3	B:36	-	B:126
4	B:181	-	B:253

Asymmetric Unit

No.	Residues
1	Ser A:173	-	Pro A:174
2	Ser B:173	-	Pro B:174

(no "SAP(SNP)/Variant" information available for 3F7O)

(no "PROSITE Motif" information available for 3F7O)

(no "Exon" information available for 3F7O)

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:284
 aligned with Q01471_9HYPO | Q01471 from UniProtKB/TrEMBL  Length:367

    Alignment length:284
                                    93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363    
         Q01471_9HYPO    84 AYTQQPGAPWGLGRISHRSKGSTTYEYDTSGGSGTCAYVIDTGVEASHPEFEGRASQIKSFISGQNTDGNGHGTHCAGTIGSKTYGVAKKTKIYGVKVLDNSGSGSYSGIISGMDFAVQDSKSRSCPKGVVANMSLGGGKAQSVNDGAAAMIRAGVFLAVAAGNDNANAANYSPASEPTVCTVGATTSSDARSSFSNYGNLVDIFAPGSNILSTWIGGTTNTISGTSMATPHIVGLGAYLAGLEGFPGAQALCKRIQTLSTKNVLTGIPSGTVNYLAFNGNPSG 367
               SCOP domains d3f7oa_ A: automated matches                                                                                                                                                                                                                                                                 SCOP domains
               CATH domains 3f7oA00 A:1-284  [code=3.40.50.200, no name defined]                                                                                                                                                                                                                                         CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeee...hhhhhhhh........eeee.......eeeeee......hhhhh..eeeeee..........hhhhhhhhhhhh.........eeeeee........hhhhhhhhhhhhhhhhh.......eeeee.eeee.hhhhhhhhhhhhhh..eeeee......hhh.ee.......eeeeee.................eeee...eeeee...eeeee.hhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhee............ee........ Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3f7o A   1 AYTQQPGAPWGLGRISHRSKGSTTYEYDTSGGSGTCAYVIDTGVEASHPEFEGRASQIKSFISGQNTDGNGHGTHCAGTIGSKTYGVAKKTKIYGVKVLDNSGSGSYSGIISGMDFAVQDSKSRSCPKGVVANMSLGGGKAQSVNDGAAAMIRAGVFLAVAAGNDNANAANYSPASEPTVCTVGATTSSDARSSFSNYGNLVDIFAPGSNILSTWIGGTTNTISGTSMATPHIVGLGAYLAGLEGFPGAQALCKRIQTLSTKNVLTGIPSGTVNYLAFNGNPSG 284
                                    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

Chain B from PDB  Type:PROTEIN  Length:284
 aligned with Q01471_9HYPO | Q01471 from UniProtKB/TrEMBL  Length:367

    Alignment length:284
                                    93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363    
         Q01471_9HYPO    84 AYTQQPGAPWGLGRISHRSKGSTTYEYDTSGGSGTCAYVIDTGVEASHPEFEGRASQIKSFISGQNTDGNGHGTHCAGTIGSKTYGVAKKTKIYGVKVLDNSGSGSYSGIISGMDFAVQDSKSRSCPKGVVANMSLGGGKAQSVNDGAAAMIRAGVFLAVAAGNDNANAANYSPASEPTVCTVGATTSSDARSSFSNYGNLVDIFAPGSNILSTWIGGTTNTISGTSMATPHIVGLGAYLAGLEGFPGAQALCKRIQTLSTKNVLTGIPSGTVNYLAFNGNPSG 367
               SCOP domains d3f7ob_ B: automated matches                                                                                                                                                                                                                                                                 SCOP domains
               CATH domains 3f7oB00 B:1-284  [code=3.40.50.200, no name defined]                                                                                                                                                                                                                                         CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeee...hhhhhhhh........eeee.......eeeeee......hhhhh..eeeeee..........hhhhhhhhhhhh.........eeeeee........hhhhhhhhhhhhhhhhhhh.....eeeee.eeee.hhhhhhhhhhhhhh..eeeee......hhh.ee.......eeeeee.................eeee...eeeee...eeeee.hhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhee............ee........ Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3f7o B   1 AYTQQPGAPWGLGRISHRSKGSTTYEYDTSGGSGTCAYVIDTGVEASHPEFEGRASQIKSFISGQNTDGNGHGTHCAGTIGSKTYGVAKKTKIYGVKVLDNSGSGSYSGIISGMDFAVQDSKSRSCPKGVVANMSLGGGKAQSVNDGAAAMIRAGVFLAVAAGNDNANAANYSPASEPTVCTVGATTSSDARSSFSNYGNLVDIFAPGSNILSTWIGGTTNTISGTSMATPHIVGLGAYLAGLEGFPGAQALCKRIQTLSTKNVLTGIPSGTVNYLAFNGNPSG 284
                                    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

Chain X from PDB  Type:PROTEIN  Length:4
                                    
               SCOP domains ---- SCOP domains
               CATH domains ---- CATH domains
               Pfam domains ---- Pfam domains
         Sec.struct. author .ee. Sec.struct. author
                 SAPs(SNPs) ---- SAPs(SNPs)
                    PROSITE ---- PROSITE
                 Transcript ---- Transcript
                 3f7o X   2 AAPV   5

Chain Y from PDB  Type:PROTEIN  Length:4
                                    
               SCOP domains ---- SCOP domains
               CATH domains ---- CATH domains
               Pfam domains ---- Pfam domains
         Sec.struct. author .ee. Sec.struct. author
                 SAPs(SNPs) ---- SAPs(SNPs)
                    PROSITE ---- PROSITE
                 Transcript ---- Transcript
                 3f7o Y   2 AAPV   5

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: Subtilisin-like (227)

Superfamily: Subtilisin-like (227)

Family: automated matches (15)

Protein domain: automated matches (15)

Paecilomyces lilacinus [TaxId: 33203] (1)

1a	d3f7oa_	A:
1b	d3f7ob_	B:

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

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

Topology: Rossmann fold (7312)

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

Nematode egg-parasitic fungus (Paecilomyces lilacinus) (1)

1a	3f7oA00	A:1-284
1b	3f7oB00	B:1-284

(no "Pfam Domain" information available for 3F7O)

Asymmetric Unit(hide GO term definitions)

Chain A,B (Q01471_9HYPO | Q01471)

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.

Asymmetric Unit
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	Ligands, Modified Residues, Ions
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	Cis Peptide Bonds
		Ser A:173 - Pro A:174	[ RasMol ]
		Ser B:173 - Pro B:174	[ RasMol ]

Biological Units
	Complete Structure
		Biological Unit 1	[ Jena3D ]
		Biological Unit 2	[ Jena3D ]

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	3f7o
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	3.4.21.-
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(no "Entries Sharing at Least One Protein Chain" available for 3F7O)

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (2, 4)

Sites (4, 4)

SS Bonds (4, 4)

Cis Peptide Bonds (2, 2)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

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