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Title :   COMPLEX OF THE WHEAT SERINE CARBOXYPEPTIDASE, CPDW-II, WITH THE MICROBIAL PEPTIDE ALDEHYDE INHIBITOR, ANTIPAIN, AND ARGININE AT ROOM TEMPERATURE

Authors :   T. L. Bullock, S. J. Remington

Date :   03 Nov 95 (Deposition) - 08 Mar 96 (Release) - 05 Jun 13 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.50

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

Keywords :   Microbial Peptide Aldehyde Inhibitor, Serine Protease-Inhibitor Complex, Hydrolase-Hydrolase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   T. L. Bullock, K. Breddam, S. J. Remington
Peptide Aldehyde Complexes With Wheat Serine Carboxypeptidase Ii: Implications For The Catalytic Mechanism And Substrate Specificity.
J. Mol. Biol. V. 255 714 1996
PubMed-ID: 8636973 | Reference-DOI: 10.1006/JMBI.1996.0058
(for further references see the PDB file header)

Molecule 1 - SERINE CARBOXYPEPTIDASE II
	Chains	:	A
	EC Number	:	3.4.16.6
	Organism Common	:	BREAD WHEAT
	Organism Scientific	:	TRITICUM AESTIVUM
	Organism Taxid	:	4565
	Tissue	:	WHEAT GERM

Molecule 2 - SERINE CARBOXYPEPTIDASE II
	Chains	:	B
	EC Number	:	3.4.16.6
	Organism Common	:	BREAD WHEAT
	Organism Scientific	:	TRITICUM AESTIVUM
	Organism Taxid	:	4565
	Tissue	:	WHEAT GERM

Molecule 3 - ANTIPAIN
	Chains	:	C
	Engineered	:	YES
	Organism Scientific	:	ACTINOBACTERIA
	Organism Taxid	:	1760
	Synthetic	:	YES

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (4, 8)

No.	Name	Count	Type	Full Name
1	ARG	1	Mod. Amino Acid	ARGININE
2	FUC	1	Ligand/Ion	ALPHA-L-FUCOSE
3	NAG	5	Ligand/Ion	N-ACETYL-D-GLUCOSAMINE
4	OAR	1	Mod. Amino Acid	N-(4-AMINO-5-HYDROXY-PENTYL)-GUANIDINE

Biological Unit 1 (4, 16)

No.	Name	Count	Type	Full Name
1	ARG	2	Mod. Amino Acid	ARGININE
2	FUC	2	Ligand/Ion	ALPHA-L-FUCOSE
3	NAG	10	Ligand/Ion	N-ACETYL-D-GLUCOSAMINE
4	OAR	2	Mod. Amino Acid	N-(4-AMINO-5-HYDROXY-PENTYL)-GUANIDINE

Asymmetric Unit (7, 7)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ASN A:113 , HIS A:117	BINDING SITE FOR RESIDUE NAG A 1131
2	AC2	SOFTWARE	NAG A:1133 , NAG A:1134	BINDING SITE FOR RESIDUE FUC A 1132
3	AC3	SOFTWARE	GLY A:27 , TYR A:103 , ASN A:105 , FUC A:1132 , NAG A:1134	BINDING SITE FOR RESIDUE NAG A 1133
4	AC4	SOFTWARE	FUC A:1132 , NAG A:1133	BINDING SITE FOR RESIDUE NAG A 1134
5	AC5	SOFTWARE	ASN A:51 , GLY A:52 , GLY A:53 , GLU A:145 , TYR A:239 , GLU B:398 , OAR C:4	BINDING SITE FOR RESIDUE ARG A 426
6	AC6	SOFTWARE	ARG B:282 , GLN B:285 , ASN B:291 , GLY B:294 , MET B:296 , TYR B:298 , TRP B:300 , NAG B:2912	BINDING SITE FOR RESIDUE NAG B 2911
7	AC7	SOFTWARE	NAG B:2911	BINDING SITE FOR RESIDUE NAG B 2912

Asymmetric Unit

No.	Residues
1	A:56	-	B:303
2	A:210	-	A:222
3	A:246	-	B:268

Asymmetric Unit

No.	Residues
1	Gln A:42	-	Pro A:43
2	Gly A:53	-	Pro A:54
3	Ser A:95	-	Pro A:96

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

Asymmetric Unit (2, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	CARBOXYPEPT_SER_SER	PS00131	Serine carboxypeptidases, serine active site.	CBP2_WHEAT	154-161	1	A:142-149
2	CARBOXYPEPT_SER_HIS	PS00560	Serine carboxypeptidases, histidine active site.	CBP2_WHEAT	403-420	1	B:387-404

Biological Unit 1 (2, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	CARBOXYPEPT_SER_SER	PS00131	Serine carboxypeptidases, serine active site.	CBP2_WHEAT	154-161	2	A:142-149
2	CARBOXYPEPT_SER_HIS	PS00560	Serine carboxypeptidases, histidine active site.	CBP2_WHEAT	403-420	2	B:387-404

(no "Exon" information available for 1BCR)

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:254
 aligned with CBP2_WHEAT | P08819 from UniProtKB/Swiss-Prot  Length:444

    Alignment length:254
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255    
          CBP2_WHEAT      6 HAADRIARLPGQPAVDFDMYSGYITVDEGAGRSLFYLLQEAPEDAQPAPLVLWLNGGPGCSSVAYGASEELGAFRVKPRGAGLVLNEYRWNKVANVLFLDSPAGVGFSYTNTSSDIYTSGDNRTAHDSYAFLAKWFERFPHYKYRDFYIAGESYAGHYVPELSQLVHRSKNPVINLKGFMVGNGLIDDYHDYVGTFEFWWNHGIVSDDTYRRLKEACLHDSFIHPSPACDAATDVATAEQGNIDMYSLYTPVCN  259
               SCOP domains d1bcr.1 A:,B: Serine carboxypeptidase II                                                                                                                                                                                                                       SCOP domains
               CATH domains 1bcrA00 A:-4-247  [code=3.40.50.1820, no name defined]                                                                                                                                                                                                         CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhh.............eeeeeeeee....eeeeeeee..hhhhh...eeeee..........hhhhhh...eee.hhhh.eee...hhhhh.eeeee............hhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhh..eeeeeee.hhhhhhhhhhhhhhhhh....eeeeeeee....hhhhhhhhhhhhhhh....hhhhhhhhhhhhh.......hhhhhhhhhhhhhhhh............. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------CARBOXYP-------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                1bcr A   -4 HAADRIARLPGQPAVDFDMYSGYITVDEGAGRSLFYLLQEAPEDAQPAPLVLWLNGGPGCSSVAYGASEELGAFRVKPRGAGLVLNEYRWNKVANVLFLDSPAGVGFSYTNTSSDIYTSGDNRTAHDSYAFLAKWFERFPHYKYRDFYIAGESYAGHYVPELSQLVHRSKNPVINLKGFMVGNGLIDDYHDYVGTFEFWWNHGIVSDDTYRRLKEACLHDSFIHPSPACDAATDVATAEQGNIDMYSLYTPVCN  247
                                     5     || 17      | 26        36        46        56  |     65        75 |      84        94       104      112B|      121       131  ||   143       153       163       173       183       193       203       213       223       233       243    
                                          11|       23A                                 58A                76A                                 112A||                   134|                                                                                                              
                                           14                                                                                                   112B|                    137                                                                                                              
                                                                                                                                                 112C

Chain B from PDB  Type:PROTEIN  Length:152
 aligned with CBP2_WHEAT | P08819 from UniProtKB/Swiss-Prot  Length:444

    Alignment length:152
                                   296       306       316       326       336       346       356       366       376       386       396       406       416       426       436  
          CBP2_WHEAT    287 SYDPCTERYSTAYYNRRDVQMALHANVTGAMNYTWATCSDTINTHWHDAPRSMLPIYRELIAAGLRIWVFSGDTDAVVPLTATRYSIGALGLPTTTSWYPWYDDQEVGGWSQVYKGLTLVSVRGAGHEVPLHRPRQALVLFQYFLQGKPMPG  438
               SCOP domains d1bcr.1 A:,B: Serine carboxypeptidase II                                                                                                                 SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhh.hhhhhhhhh..............hhhhhhh.......hhhhhhhhhhhh.eeeeeee......hhhhhhhhhhh....eeeeeeeeee..eeeeeeeee..eeeeee.....hhhhhhhhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------CARBOXYPEPT_SER_HI------------------ PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                1bcr B  264 SYDPCTERYSTAYYNRRDVQMALHANVTGAMNYTWATCSDTINTHWHDAPRSMLPIYRELIAAGLRIWVFSGDTDAVVPLTATRYSIGALGLPTTTSWYPWYDDQEVGGWSQVYKGLTLVSVRGAGHEVPLHRPRQALVLFQYFLQGKPMPG  422
                                || 275       285       295      303B     ||310       320   ||  333       343       353|      371    |  380       390       400       410       420  
                              268|                             303A|  308A||             324|                      353|          375A                                               
                               271                              303B   308B|              328                       362                                                             
                                                                        308C

Chain C from PDB  Type:PROTEIN  Length:2
                                   
               SCOP domains -- SCOP domains
               CATH domains -- CATH domains
               Pfam domains -- Pfam domains
         Sec.struct. author .. Sec.struct. author
                 SAPs(SNPs) -- SAPs(SNPs)
                    PROSITE -- PROSITE
                 Transcript -- Transcript
                1bcr C    3 Vr    4
                             |
                             4-OAR

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: alpha/beta-Hydrolases (971)

Superfamily: alpha/beta-Hydrolases (971)

Family: Serine carboxypeptidase-like (15)

Protein domain: Serine carboxypeptidase II (8)

Wheat (Triticum vulgare) [TaxId: 4565] (5)

d1bcr.1

A:,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=3.40.50.1820, no name defined] (692)

Bread wheat (Triticum aestivum) (3)

1bcrA00

A:-4-247

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

Asymmetric Unit(hide GO term definitions)

Chain A,B (CBP2_WHEAT | P08819)

molecular function
	GO:0004180	carboxypeptidase activity	Catalysis of the hydrolysis of the terminal or penultimate peptide bond at the C-terminal end of a peptide or polypeptide.
	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:0004185	serine-type carboxypeptidase activity	Catalysis of the hydrolysis of a peptide bond not more than three residues from the C-terminus of 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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	Cis Peptide Bonds
		Gln A:42 - Pro A:43	[ RasMol ]
		Gly A:53 - Pro A:54	[ RasMol ]
		Ser A:95 - Pro A:96	[ RasMol ]

Biological Unit
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	CBP2_WHEAT \| P08819	:	1bcs 1whs 1wht 3sc2

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

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (4, 8)

Sites (7, 7)

SS Bonds (3, 3)

Cis Peptide Bonds (3, 3)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

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