4EBB - JenaLib

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Biological Unit 3 (Jmol Viewer)

Biological Unit 4 (Jmol Viewer)

Title :   STRUCTURE OF DPP2

Authors :   L. M. Shewchuk, A. H. Hassell, S. M. Sweitzer, T. D. Sweitzer, P. J. Mcdev K. M. Kennedy-Wilson, K. O. Johanson

Date :   23 Mar 12 (Deposition) - 19 Sep 12 (Release) - 19 Sep 12 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.00

Chains :   Asym. Unit : A,B
Biol. Unit 1: A  (1x)
Biol. Unit 2: B  (1x)
Biol. Unit 3: A (1x),B (1x)
Biol. Unit 4: A (1x),B (1x)

Keywords :   Peptidase, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   G. A. Bezerra, E. Dobrovetsky, A. Dong, A. Seitova, L. Crombett, L. M. Shewchuk, A. M. Hassell, S. M. Sweitzer, T. D. Sweitzer, P. J. Mcdevitt, K. O. Johanson, K. M. Kennedy-Wilson, D. Cossar, A. Bochkarev, K. Gruber, S. Dhe-Paganon
Structures Of Human Dpp7 Reveal The Molecular Basis Of Specific Inhibition And The Architectural Diversity Of Proline-Specific Peptidases.
Plos One V. 7 43019 2012
PubMed-ID: 22952628 | Reference-DOI: 10.1371/JOURNAL.PONE.0043019

Molecule 1 - DIPEPTIDYL PEPTIDASE 2
	Chains	:	A, B
	EC Number	:	3.4.14.2
	Engineered	:	YES
	Expression System	:	CRICETULUS GRISEUS
	Expression System Common	:	CHINESE HAMSTER
	Expression System Plasmid	:	PDEST
	Expression System Taxid	:	10029
	Fragment	:	DIPEPTIDYL PEPTIDASE 7 (UNP RESIDUES 27-492)
	Gene	:	DPP7, DPP2, QPP
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606
	Synonym	:	DIPEPTIDYL AMINOPEPTIDASE II, DIPEPTIDYL PEPTIDASE 7, DIPEPTIDYL PEPTIDASE II, DPP II, QUIESCENT CELL PROLINE DIPEPTIDASE

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (3, 18)

No.	Name	Count	Type	Full Name
1	MSE	12	Mod. Amino Acid	SELENOMETHIONINE
2	NAG	3	Ligand/Ion	N-ACETYL-D-GLUCOSAMINE
3	ZN	3	Ligand/Ion	ZINC ION

Biological Unit 1 (2, 8)

No.	Name	Count	Type	Full Name
1	MSE	6	Mod. Amino Acid	SELENOMETHIONINE
2	NAG	2	Ligand/Ion	N-ACETYL-D-GLUCOSAMINE
3	ZN	-1	Ligand/Ion	ZINC ION

Biological Unit 2 (2, 7)

No.	Name	Count	Type	Full Name
1	MSE	6	Mod. Amino Acid	SELENOMETHIONINE
2	NAG	1	Ligand/Ion	N-ACETYL-D-GLUCOSAMINE
3	ZN	-1	Ligand/Ion	ZINC ION

Biological Unit 3 (2, 8)

No.	Name	Count	Type	Full Name
1	MSE	6	Mod. Amino Acid	SELENOMETHIONINE
2	NAG	2	Ligand/Ion	N-ACETYL-D-GLUCOSAMINE
3	ZN	-1	Ligand/Ion	ZINC ION

Biological Unit 4 (2, 8)

No.	Name	Count	Type	Full Name
1	MSE	6	Mod. Amino Acid	SELENOMETHIONINE
2	NAG	2	Ligand/Ion	N-ACETYL-D-GLUCOSAMINE
3	ZN	-1	Ligand/Ion	ZINC ION

Asymmetric Unit (6, 6)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ARG A:307 , ASN A:315 , GLY A:318 , GLU A:320 , TYR A:323 , HOH A:716 , HOH A:764 , HOH A:871	BINDING SITE FOR RESIDUE NAG A 501
2	AC2	SOFTWARE	PHE A:224 , ARG A:225 , LYS A:228 , ASN A:363 , HOH A:615 , HOH A:781 , HOH A:829	BINDING SITE FOR RESIDUE NAG A 502
3	AC3	SOFTWARE	GLN A:119 , HIS A:125 , ASP B:279 , HOH B:810	BINDING SITE FOR RESIDUE ZN A 503
4	AC4	SOFTWARE	HIS A:321 , HIS A:451 , GLU A:453 , HOH A:851	BINDING SITE FOR RESIDUE ZN A 504
5	AC5	SOFTWARE	ASP A:251	BINDING SITE FOR RESIDUE ZN A 505
6	AC6	SOFTWARE	PHE B:224 , ARG B:225 , LYS B:228 , ASN B:363 , HOH B:732 , HOH B:786	BINDING SITE FOR RESIDUE NAG B 501

Asymmetric Unit

No.	Residues
1	A:216	-	A:293
2	A:246	-	A:322
3	A:332	-	A:338
4	A:352	-	A:382
5	B:216	-	B:293
6	B:246	-	B:322
7	B:332	-	B:338
8	B:352	-	B:382

(no "Cis Peptide Bond" information available for 4EBB)

(no "SAP(SNP)/Variant" information available for 4EBB)

(no "PROSITE Motif" information available for 4EBB)

(no "Exon" information available for 4EBB)

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:450
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ....eeeeeeee............eeeeeeeee..........eeeee....hhhhhhhhhhhhhhhhhhhh.eeeee..........hhhhhhh.......hhhhhhhhhhhhhhhhhhhh......eeeeeehhhhhhhhhhhhhh.....eeeee....hhhhh....hhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhh.....ee...ee..hhhhhhhhhhhh..hhhhhhhhhhhhhhh........hhhhhh...........hhhhhhhhhhhh.....................hhhhhhhhhhhhhh.....hhhhhhhh.........eeeeee....hhhhh........eeeeee.....hhhhh......hhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4ebb A  28 DPGFQERFFQQRLDHFNFERFGNKTFPQRFLVSDRFWVRGEGPIFFYTGNEGDVWAFANNSAFVAELAAERGALLVFAEHRYYGKSLPFGAQSTQRGHTELLTVEQALADFAELLRALRRDLGAQDAPAIAFGGSYGGmLSAYLRmKYPHLVAGALAASAPVLAVAGLGDSNQFFRDVTADFEGQSPKCTQGVREAFRQIKDLFLQGAYDTVRWEFGTCQPLSDEKDLTQLFmFARNAFTVLAmmDYPYPTDFLGPLPANPVKVGCDRLLSEAQRITGLRALAGLVYNASGSEHCYDIYRLYHSCADPTGCGTGPDARAWDYQACTEINLTFASNNVTDmFPDLPFTDELRQRYCLDTWGVWPRPDWLLTSFWGGDLRAASNIIFSNGNLDPWAGGGIRRNLSASVIAVTIQGGAHHLDLRASHPEDPASVVEARKLEATIIGEWVKAAR 477
                                    37        47        57        67        77        87        97       107       117       127       137       147       157       167     | 177       187       197       207       217       227       237       247       257  |    267   ||  277       287       297       307       317       327       337       347       357       367       377       387       397       407       417       427       437       447       457       467       477
                                                                                                                                                                    166-MSE  |                                                                                    260-MSE    271-MSE                                                                                         367-MSE                                                                                                          
                                                                                                                                                                           173-MSE                                                                                            272-MSE

Chain B from PDB  Type:PROTEIN  Length:449
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                 
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeeeeee............eeeeeeeee........eeeee....hhhhhhhhhhhhhhhhhhhh.eeeee..........hhhhhhh.......hhhhhhhhhhhhhhhhhhhh......eeeeeehhhhhhhhhhhhhh.....eeeee....hhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhh.....ee...ee..hhhhhhhhhhhh..hhhhhhhhhhhhhhh........hhhhhh...........hhhhhhhhhhhh.....................hhhhhhhhhhhhhh.....hhhhhhhh.........eeeeee....hhhhh........eeeeee.....hhhhh......hhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4ebb B  27 PDPGFQERFFQQRLDHFNFERFGNKTFPQRFLVSDRFWVRGPIFFYTGNEGDVWAFANNSAFVAELAAERGALLVFAEHRYYGKSLPFGAQSTQRGHTELLTVEQALADFAELLRALRRDLGAQDAPAIAFGGSYGGmLSAYLRmKYPHLVAGALAASAPVLAVAGLGDSNQFFRDVTADFEGQSPKCTQGVREAFRQIKDLFLQGAYDTVRWEFGTCQPLSDEKDLTQLFmFARNAFTVLAmmDYPYPTDFLGPLPANPVKVGCDRLLSEAQRITGLRALAGLVYNASGSEHCYDIYRLYHSCADPTGCGTGPDARAWDYQACTEINLTFASNNVTDmFPDLPFTDELRQRYCLDTWGVWPRPDWLLTSFWGGDLRAASNIIFSNGNLDPWAGGGIRRNLSASVIAVTIQGGAHHLDLRASHPEDPASVVEARKLEATIIGEWVKAAR 477
                                    36        46        56        66|       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       418       428       438       448       458       468         
                                                                  66|                                                                                              166-MSE  |                                                                                    260-MSE    271-MSE                                                                                         367-MSE                                                                                                          
                                                                   69                                                                                                     173-MSE                                                                                            272-MSE

Legend:		→ Mismatch	(orange background)
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	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 4EBB)

(no "CATH Domain" information available for 4EBB)

(no "Pfam Domain" information available for 4EBB)

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	DPP2_HUMAN \| Q9UHL4	:	3jyh 3n0t

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 18)

Sites (6, 6)

SS Bonds (8, 8)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

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