2P8O - JenaLib

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Title :   CRYSTAL STRUCTURE OF A BENZOHYDROXAMIC ACID/VANADATE COMPLEX BOUND TO CHYMOTRYPSIN A

Authors :   A. Moulin, J. H. Bell, R. F. Pratt, D. Ringe

Date :   22 Mar 07 (Deposition) - 08 May 07 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.50

Chains :   Asym. Unit : A,B,C
Biol. Unit 1: A,B,C  (1x)
Biol. Unit 2: A,B,C  (2x)
Biol. Unit 3: A (2x),B (2x),C (2x)

Keywords :   Protein-Inhibitor Complex, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   A. Moulin, J. H. Bell, R. F. Pratt, D. Ringe
Inhibition Of Chymotrypsin By A Complex Of Ortho-Vanadate And Benzohydroxamic Acid: Structure Of The Inert Complex And Its Mechanistic Interpretation.
Biochemistry V. 46 5982 2007
PubMed-ID: 17469803 | Reference-DOI: 10.1021/BI6025209
(for further references see the PDB file header)

Molecule 1 - CHYMOTRYPSIN A CHAIN A
	Chains	:	A
	Organism Common	:	CATTLE
	Organism Scientific	:	BOS TAURUS
	Organism Taxid	:	9913

Molecule 2 - CHYMOTRYPSIN A CHAIN B
	Chains	:	B
	EC Number	:	3.4.21.1
	Organism Common	:	CATTLE
	Organism Scientific	:	BOS TAURUS
	Organism Taxid	:	9913

Molecule 3 - CHYMOTRYPSIN A CHAIN C
	Chains	:	C
	EC Number	:	3.4.21.1
	Organism Common	:	CATTLE
	Organism Scientific	:	BOS TAURUS
	Organism Taxid	:	9913

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (2, 2)

No.	Name	Count	Type	Full Name
1	BVA	1	Ligand/Ion	TRIHYDROXY[(N-HYDROXYBENZAMIDATO)OXO]VANADATE
2	SO4	1	Ligand/Ion	SULFATE ION

Biological Unit 1 (2, 2)

No.	Name	Count	Type	Full Name
1	BVA	1	Ligand/Ion	TRIHYDROXY[(N-HYDROXYBENZAMIDATO)OXO]VANADATE
2	SO4	1	Ligand/Ion	SULFATE ION

Biological Unit 2 (2, 4)

No.	Name	Count	Type	Full Name
1	BVA	2	Ligand/Ion	TRIHYDROXY[(N-HYDROXYBENZAMIDATO)OXO]VANADATE
2	SO4	2	Ligand/Ion	SULFATE ION

Biological Unit 3 (0, 0)

No.	Name	Count	Type	Full Name
1	BVA	-1	Ligand/Ion	TRIHYDROXY[(N-HYDROXYBENZAMIDATO)OXO]VANADATE
2	SO4	-1	Ligand/Ion	SULFATE ION

Asymmetric Unit (2, 2)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	VAL A:3 , HOH A:451 , LYS B:36 , LYS B:90 , SER B:92 , HOH B:412 , HOH B:530 , HOH B:547 , TRP C:237 , HOH C:535	BINDING SITE FOR RESIDUE SO4 B 301
2	AC2	SOFTWARE	HIS B:57 , SER C:190 , CYS C:191 , MET C:192 , GLY C:193 , ASP C:194 , SER C:195 , SER C:214 , TRP C:215 , GLY C:216 , HOH C:549 , HOH C:555 , HOH C:582	BINDING SITE FOR RESIDUE BVA C 300

Asymmetric Unit

No.	Residues
1	A:1	-	B:122
2	B:42	-	B:58
3	B:136	-	C:201
4	C:168	-	C:182
5	C:191	-	C:220

(no "Cis Peptide Bond" information available for 2P8O)

(no "SAP(SNP)/Variant" information available for 2P8O)

Asymmetric Unit (3, 3)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	TRYPSIN_DOM	PS50240	Serine proteases, trypsin domain profile.	CTRA_BOVIN	16-243	1	B:16-146
2	TRYPSIN_HIS	PS00134	Serine proteases, trypsin family, histidine active site.	CTRA_BOVIN	53-58	1	B:53-58
3	TRYPSIN_SER	PS00135	Serine proteases, trypsin family, serine active site.	CTRA_BOVIN	189-200	1	C:189-200

Biological Unit 1 (3, 3)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	TRYPSIN_DOM	PS50240	Serine proteases, trypsin domain profile.	CTRA_BOVIN	16-243	1	B:16-146
2	TRYPSIN_HIS	PS00134	Serine proteases, trypsin family, histidine active site.	CTRA_BOVIN	53-58	1	B:53-58
3	TRYPSIN_SER	PS00135	Serine proteases, trypsin family, serine active site.	CTRA_BOVIN	189-200	1	C:189-200

Biological Unit 2 (3, 6)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	TRYPSIN_DOM	PS50240	Serine proteases, trypsin domain profile.	CTRA_BOVIN	16-243	2	B:16-146
2	TRYPSIN_HIS	PS00134	Serine proteases, trypsin family, histidine active site.	CTRA_BOVIN	53-58	2	B:53-58
3	TRYPSIN_SER	PS00135	Serine proteases, trypsin family, serine active site.	CTRA_BOVIN	189-200	2	C:189-200

Biological Unit 3 (3, 6)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	TRYPSIN_DOM	PS50240	Serine proteases, trypsin domain profile.	CTRA_BOVIN	16-243	2	B:16-146
2	TRYPSIN_HIS	PS00134	Serine proteases, trypsin family, histidine active site.	CTRA_BOVIN	53-58	2	B:53-58
3	TRYPSIN_SER	PS00135	Serine proteases, trypsin family, serine active site.	CTRA_BOVIN	189-200	2	C:189-200

(no "Exon" information available for 2P8O)

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:10
 aligned with CTRA_BOVIN | P00766 from UniProtKB/Swiss-Prot  Length:245

    Alignment length:10
                                    10
           CTRA_BOVIN     1 CGVPAIQPVL  10
               SCOP domains ---------- SCOP domains
               CATH domains ---------- CATH domains
               Pfam domains ---------- Pfam domains
         Sec.struct. author .......... Sec.struct. author
                 SAPs(SNPs) ---------- SAPs(SNPs)
                PROSITE (1) ---------- PROSITE (1)
                PROSITE (2) ---------- PROSITE (2)
                 Transcript ---------- Transcript
                 2p8o A   1 CGVPAIQPVL  10
                                    10

Chain B from PDB  Type:PROTEIN  Length:131
 aligned with CTRA_BOVIN | P00766 from UniProtKB/Swiss-Prot  Length:245

    Alignment length:131
                                    25        35        45        55        65        75        85        95       105       115       125       135       145 
           CTRA_BOVIN    16 IVNGEEAVPGSWPWQVSLQDKTGFHFCGGSLINENWVVTAAHCGVTTSDVVVAGEFDQGSSSEKIQKLKIAKVFKNSKYNSLTINNDITLLKLSTAASFSQTVSAVCLPSASDDFAAGTTCVTTGWGLTRY 146
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 2p8oB00 B:16-146 Trypsin-like serine proteases                                                                                      CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....ee........eeeee.....eeeeeeeee..eeeehhhhh.....eeee............eeeeeeeeee.............eeeee..........................eeeeee...... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) TRYPSIN_DOM  PDB: B:16-146 UniProt: 16-243                                                                                          PROSITE (1)
                PROSITE (2) -------------------------------------TRYPSI---------------------------------------------------------------------------------------- PROSITE (2)
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2p8o B  16 IVNGEEAVPGSWPWQVSLQDKTGFHFCGGSLINENWVVTAAHCGVTTSDVVVAGEFDQGSSSEKIQKLKIAKVFKNSKYNSLTINNDITLLKLSTAASFSQTVSAVCLPSASDDFAAGTTCVTTGWGLTRY 146
                                    25        35        45        55        65        75        85        95       105       115       125       135       145

Chain C from PDB  Type:PROTEIN  Length:95
 aligned with CTRA_BOVIN | P00766 from UniProtKB/Swiss-Prot  Length:245

    Alignment length:95
                                   160       170       180       190       200       210       220       230       240     
           CTRA_BOVIN   151 TPDRLQQASLPLLSNTNCKKYWGTKIKDAMICAGASGVSSCMGDSGGPLVCKKNGAWTLVGIVSWGSSTCSTSTPGVYARVTALVNWVQQTLAAN 245
               SCOP domains ----------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 2p8oC00 C:151-245 Trypsin-like serine proteases                                                 CATH domains
           Pfam domains (1) Trypsin-2p8oC01 C:151-238                                                               ------- Pfam domains (1)
           Pfam domains (2) Trypsin-2p8oC02 C:151-238                                                               ------- Pfam domains (2)
         Sec.struct. author .....eeeeee..hhhhhhhhhhhhh...eeeee.............eeeeee..eeeeeeeeee.........eeeeee...hhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) TRYPSIN_DOM  PDB: - UniProt: 16-243                                                          -- PROSITE (1)
                PROSITE (2) --------------------------------------TRYPSIN_SER --------------------------------------------- PROSITE (2)
                 Transcript ----------------------------------------------------------------------------------------------- Transcript
                 2p8o C 151 TPDRLQQASLPLLSNTNCKKYWGTKIKDAMICAGASGVSSCMGDSGGPLVCKKNGAWTLVGIVSWGSSTCSTSTPGVYARVTALVNWVQQTLAAN 245
                                   160       170       180       190       200       210       220       230       240

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 '\|'

(no "SCOP Domain" information available for 2P8O)

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Mainly Beta (13760)

Architecture: Beta Barrel (4804)

Topology: Thrombin, subunit H (1535)

Homologous Superfamily: Trypsin-like serine proteases (1488)

Cattle (Bos taurus) (308)

1a	2p8oC00	C:151-245
1b	2p8oB00	B:16-146

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: Peptidase_PA (797)

Family: Trypsin (679)

Bos taurus (Bovine) (190)

1a	Trypsin-2p8oC01	C:151-238
1b	Trypsin-2p8oC02	C:151-238

Asymmetric Unit(hide GO term definitions)

Chain A,B,C (CTRA_BOVIN | P00766)

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: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: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: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:0007586	digestion	The whole of the physical, chemical, and biochemical processes carried out by multicellular organisms to break down ingested nutrients into components that may be easily absorbed and directed into metabolism.
	GO:0006508	proteolysis	The hydrolysis of proteins into smaller polypeptides and/or amino acids by cleavage of their peptide bonds.
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.
	GO:0005615	extracellular space	That part of a multicellular organism outside the cells proper, usually taken to be outside the plasma membranes, and occupied by fluid.

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(no "Related Entries Specified in the PDB File" available for 2P8O)

Description

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Ligands, Modified Residues, Ions (2, 2)

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SS Bonds (5, 5)

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