4H3X - JenaLib

Title :   CRYSTAL STRUCTURE OF AN MMP BROAD SPECTRUM HYDROXAMATE BASED INHIBITOR CC27 IN COMPLEX WITH THE MMP-9 CATALYTIC DOMAIN

Authors :   E. A. Stura, L. Vera, E. Cassar-Lajeunesse, E. Nuti, V. Dive, A. Rossell

Date :   14 Sep 12 (Deposition) - 24 Apr 13 (Release) - 31 May 17 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.76

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

Keywords :   Hydrolase/Hydroxamate Inhibitor, Zincin-Like, Gelatinase, Collagenase (Catalytic Domain), Hydrolase-Hydrolase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   C. Antoni, L. Vera, L. Devel, M. P. Catalani, B. Czarny, E. Cassar-Lajeunesse, E. Nuti, A. Rossello, V. Dive, E. A. Stura
Crystallization Of Bi-Functional Ligand Protein Complexes.
J. Struct. Biol. V. 182 246 2013
PubMed-ID: 23567804 | Reference-DOI: 10.1016/J.JSB.2013.03.015
(for further references see the PDB file header)

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (6, 22)

Asymmetric Unit (6, 22)

No.	Name	Count	Type	Full Name
1	10B	2	Ligand/Ion	N-2-(BIPHENYL-4-YLSULFONYL)-N-2-(ISOPROPYLOXY)-ACETOHYDROXAMIC ACID
2	CA	6	Ligand/Ion	CALCIUM ION
3	GOL	7	Ligand/Ion	GLYCEROL
4	PEG	2	Ligand/Ion	DI(HYDROXYETHYL)ETHER
5	PGO	1	Ligand/Ion	S-1,2-PROPANEDIOL
6	ZN	4	Ligand/Ion	ZINC ION

Biological Unit 1 (3, 8)

No.	Name	Count	Type	Full Name
1	10B	1	Ligand/Ion	N-2-(BIPHENYL-4-YLSULFONYL)-N-2-(ISOPROPYLOXY)-ACETOHYDROXAMIC ACID
2	CA	-1	Ligand/Ion	CALCIUM ION
3	GOL	6	Ligand/Ion	GLYCEROL
4	PEG	-1	Ligand/Ion	DI(HYDROXYETHYL)ETHER
5	PGO	1	Ligand/Ion	S-1,2-PROPANEDIOL
6	ZN	-1	Ligand/Ion	ZINC ION

Biological Unit 2 (3, 4)

No.	Name	Count	Type	Full Name
1	10B	1	Ligand/Ion	N-2-(BIPHENYL-4-YLSULFONYL)-N-2-(ISOPROPYLOXY)-ACETOHYDROXAMIC ACID
2	CA	-1	Ligand/Ion	CALCIUM ION
3	GOL	1	Ligand/Ion	GLYCEROL
4	PEG	2	Ligand/Ion	DI(HYDROXYETHYL)ETHER
5	PGO	-1	Ligand/Ion	S-1,2-PROPANEDIOL
6	ZN	-1	Ligand/Ion	ZINC ION

Sites (22, 22)

Asymmetric Unit (22, 22)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	HIS A:226 , HIS A:230 , HIS A:236 , 10B A:306	BINDING SITE FOR RESIDUE ZN A 301
02	AC2	SOFTWARE	HIS A:175 , ASP A:177 , HIS A:190 , HIS A:203	BINDING SITE FOR RESIDUE ZN A 302
03	AC3	SOFTWARE	ASP A:182 , GLY A:183 , ASP A:185 , LEU A:187 , ASP A:205 , GLU A:208	BINDING SITE FOR RESIDUE CA A 303
04	AC4	SOFTWARE	ASP A:131 , ASP A:206 , GLU A:208 , HOH A:452 , HOH A:453	BINDING SITE FOR RESIDUE CA A 304
05	AC5	SOFTWARE	ASP A:165 , GLY A:197 , GLN A:199 , ASP A:201 , HOH A:406 , HOH A:411	BINDING SITE FOR RESIDUE CA A 305
06	AC6	SOFTWARE	GLY A:186 , LEU A:187 , LEU A:188 , ALA A:189 , LEU A:222 , HIS A:226 , GLU A:227 , HIS A:230 , HIS A:236 , LEU A:243 , TYR A:245 , MET A:247 , ZN A:301 , HOH A:415 , HOH A:492 , TYR B:245 , PRO B:246	BINDING SITE FOR RESIDUE 10B A 306
07	AC7	SOFTWARE	PRO A:254 , HOH A:421 , PRO B:254 , PRO B:255 , HOH B:448 , HOH B:451	BINDING SITE FOR RESIDUE GOL A 307
08	AC8	SOFTWARE	ASP A:177 , GLY A:178 , GOL A:311 , HOH A:476 , HOH A:515 , HOH A:553 , HOH A:559 , HOH A:560 , HOH A:590	BINDING SITE FOR RESIDUE GOL A 308
09	AC9	SOFTWARE	TYR A:179 , LEU A:187 , HIS A:190 , HOH A:594 , HOH A:595 , PRO B:240 , TYR B:245	BINDING SITE FOR RESIDUE GOL A 309
10	BC1	SOFTWARE	ALA A:173 , GLU A:174	BINDING SITE FOR RESIDUE PGO A 310
11	BC2	SOFTWARE	GOL A:308 , HOH A:480 , HOH A:515 , HOH A:529 , HOH A:553	BINDING SITE FOR RESIDUE GOL A 311
12	BC3	SOFTWARE	ASN A:120 , THR A:122 , THR A:157 , HOH A:536	BINDING SITE FOR RESIDUE GOL A 312
13	BC4	SOFTWARE	HOH A:434 , HOH A:483	BINDING SITE FOR RESIDUE GOL A 313
14	BC5	SOFTWARE	HIS B:226 , HIS B:230 , HIS B:236 , 10B B:306	BINDING SITE FOR RESIDUE ZN B 301
15	BC6	SOFTWARE	HIS B:175 , ASP B:177 , HIS B:190 , HIS B:203	BINDING SITE FOR RESIDUE ZN B 302
16	BC7	SOFTWARE	ASP B:182 , GLY B:183 , ASP B:185 , LEU B:187 , ASP B:205 , GLU B:208	BINDING SITE FOR RESIDUE CA B 303
17	BC8	SOFTWARE	ASP B:131 , ASP B:206 , GLU B:208 , HOH B:468 , HOH B:529	BINDING SITE FOR RESIDUE CA B 304
18	BC9	SOFTWARE	ASP B:165 , GLY B:197 , GLN B:199 , ASP B:201 , HOH B:401 , HOH B:405	BINDING SITE FOR RESIDUE CA B 305
19	CC1	SOFTWARE	TYR A:245 , PRO A:246 , MET A:247 , GLY B:186 , LEU B:187 , LEU B:188 , ALA B:189 , LEU B:222 , HIS B:226 , GLU B:227 , HIS B:230 , HIS B:236 , LEU B:243 , TYR B:245 , MET B:247 , TYR B:248 , ZN B:301 , HOH B:444	BINDING SITE FOR RESIDUE 10B B 306
20	CC2	SOFTWARE	PHE B:250 , THR B:251 , HOH B:423 , HOH B:515 , HOH B:546	BINDING SITE FOR RESIDUE GOL B 307
21	CC3	SOFTWARE	PEG B:309 , HOH B:442 , HOH B:443 , HOH B:480	BINDING SITE FOR RESIDUE PEG B 308
22	CC4	SOFTWARE	TYR B:179 , PEG B:308 , HOH B:442	BINDING SITE FOR RESIDUE PEG B 309

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

Sequences/Alignments

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
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Chain A from PDB  Type:PROTEIN  Length:164
                                                                                                                                                                                                    
               SCOP domains d4h3xa_ A: Gelatinase B (MMP-9)                                                                                                                                      SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..ee..........eeeeee.......hhhhhhhhhhhhhhhhhhh...eeee.......eeeeee.................eee..........eeee....ee......eehhhhhhhhhhhhh.ee.....................hhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4h3x A 106 GFQTFEGDLKWHHHNITYWIQNYSEDLPRAVIDDAFARAFALWSAVTPLTFTRVYSRDADIVIQFGVAEHGDGYPFDGKDGLLAHAFPPGPGIQGDAHFDDDELWSLGKGVGYSLFLVAAHEFGHALGLDHSSVPEALMYPMYRFTEGPPLHKDDVNGIRHLYG 269
                                   115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265

Chain B from PDB  Type:PROTEIN  Length:164
                                                                                                                                                                                                    
               SCOP domains d4h3xb_ B: Gelatinase B (MMP-9)                                                                                                                                      SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..............eeeeee.......hhhhhhhhhhhhhhhhhh....eeee.......eeeeee.................eee..........eeee....ee......eehhhhhhhhhhhhhh.......................hhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4h3x B 106 GFQTFEGDLKWHHHNITYWIQNYSEDLPRAVIDDAFARAFALWSAVTPLTFTRVYSRDADIVIQFGVAEHGDGYPFDGKDGLLAHAFPPGPGIQGDAHFDDDELWSLGKGVGYSLFLVAAHEFGHALGLDHSSVPEALMYPMYRFTEGPPLHKDDVNGIRHLYG 269
                                   115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265

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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 '\|'

Classification and Annotation

SCOP Domains (1, 2)

CATH Domains (0, 0)

Pfam Domains (0, 0)

Gene Ontology (38, 38)

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	Ligands, Modified Residues, Ions
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	Cis Peptide Bonds
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