1OS2 - JenaLib

Asymmetric Unit (Jmol Viewer)

Asym. Unit - sites (Jmol Viewer)

Biological Unit 1 (Jmol Viewer)

Biol. Unit 1 - sites (Jmol Viewer)

Biological Unit 2 (Jmol Viewer)

Biological Unit 3 (Jmol Viewer)

Biological Unit 4 (Jmol Viewer)

Biological Unit 5 (Jmol Viewer)

Biological Unit 6 (Jmol Viewer)

Biological Unit 7 (Jmol Viewer)

Biological Unit 8 (Jmol Viewer)

Biological Unit 9 (Jmol Viewer)

Title :   TERNARY ENZYME-PRODUCT-INHIBITOR COMPLEXES OF HUMAN MMP12

Authors :   I. Bertini, V. Calderone, M. Fragai, C. Luchinat, S. Mangani, B. Terni

Date :   18 Mar 03 (Deposition) - 05 Aug 03 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.15

Chains :   Asym. Unit : A,B,C,D,E,F
Biol. Unit 1: A  (1x)
Biol. Unit 2: B  (1x)
Biol. Unit 3: C  (1x)
Biol. Unit 4: D  (1x)
Biol. Unit 5: E  (1x)
Biol. Unit 6: F  (1x)
Biol. Unit 7: D,E,F  (1x)
Biol. Unit 8: A,B,C  (1x)
Biol. Unit 9: A (1x),C (1x)

Keywords :   Matrix Metalloproteinase, Hydroxamic Acid, Mmp12, Elastase, Complex (Elastase/Inhibitor), Metallo Elastase, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   I. Bertini, V. Calderone, M. Fragai, C. Luchinat, S. Mangani, B. Terni
X-Ray Structures Of Binary And Ternary Enzyme-Product-Inhibitor Complexes Of Matrix Metalloproteinases
Angew. Chem. Int. Ed. Engl. V. 42 2673 2003
PubMed-ID: 12813751 | Reference-DOI: 10.1002/ANIE.200350957
(for further references see the PDB file header)

Molecule 1 - MACROPHAGE METALLOELASTASE
	Chains	:	A, B, C, D, E, F
	EC Number	:	3.4.24.65
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Taxid	:	562
	Gene	:	MMP12 OR HME
	Mutation	:	YES
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606
	Synonym	:	HME, MATRIX METALLOPROTEINASE-12, MMP-12, MACROPHAGE ELASTASE, ME

		1	2	3	4	5	6
Asymmetric Unit	:	A	B	C	D	E	F
Biological Unit 1 (1x)	:	A
Biological Unit 2 (1x)	:		B
Biological Unit 3 (1x)	:			C
Biological Unit 4 (1x)	:				D
Biological Unit 5 (1x)	:					E
Biological Unit 6 (1x)	:						F
Biological Unit 7 (1x)	:				D	E	F
Biological Unit 8 (1x)	:	A	B	C
Biological Unit 9 (1x)	:	A (1x)		C (1x)

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (5, 36)

No.	Name	Count	Type	Full Name
1	ACT	2	Ligand/Ion	ACETATE ION
2	AZI	2	Ligand/Ion	AZIDE ION
3	CA	18	Ligand/Ion	CALCIUM ION
4	HAE	2	Ligand/Ion	ACETOHYDROXAMIC ACID
5	ZN	12	Ligand/Ion	ZINC ION

Biological Unit 1 (1, 1)

No.	Name	Count	Type	Full Name
1	ACT	-1	Ligand/Ion	ACETATE ION
2	AZI	-1	Ligand/Ion	AZIDE ION
3	CA	-1	Ligand/Ion	CALCIUM ION
4	HAE	1	Ligand/Ion	ACETOHYDROXAMIC ACID
5	ZN	-1	Ligand/Ion	ZINC ION

Biological Unit 2 (1, 1)

No.	Name	Count	Type	Full Name
1	ACT	1	Ligand/Ion	ACETATE ION
2	AZI	-1	Ligand/Ion	AZIDE ION
3	CA	-1	Ligand/Ion	CALCIUM ION
4	HAE	-1	Ligand/Ion	ACETOHYDROXAMIC ACID
5	ZN	-1	Ligand/Ion	ZINC ION

Biological Unit 3 (1, 1)

No.	Name	Count	Type	Full Name
1	ACT	-1	Ligand/Ion	ACETATE ION
2	AZI	1	Ligand/Ion	AZIDE ION
3	CA	-1	Ligand/Ion	CALCIUM ION
4	HAE	-1	Ligand/Ion	ACETOHYDROXAMIC ACID
5	ZN	-1	Ligand/Ion	ZINC ION

Biological Unit 4 (1, 1)

No.	Name	Count	Type	Full Name
1	ACT	-1	Ligand/Ion	ACETATE ION
2	AZI	-1	Ligand/Ion	AZIDE ION
3	CA	-1	Ligand/Ion	CALCIUM ION
4	HAE	1	Ligand/Ion	ACETOHYDROXAMIC ACID
5	ZN	-1	Ligand/Ion	ZINC ION

Biological Unit 5 (1, 1)

No.	Name	Count	Type	Full Name
1	ACT	1	Ligand/Ion	ACETATE ION
2	AZI	-1	Ligand/Ion	AZIDE ION
3	CA	-1	Ligand/Ion	CALCIUM ION
4	HAE	-1	Ligand/Ion	ACETOHYDROXAMIC ACID
5	ZN	-1	Ligand/Ion	ZINC ION

Biological Unit 6 (1, 1)

No.	Name	Count	Type	Full Name
1	ACT	-1	Ligand/Ion	ACETATE ION
2	AZI	1	Ligand/Ion	AZIDE ION
3	CA	-1	Ligand/Ion	CALCIUM ION
4	HAE	-1	Ligand/Ion	ACETOHYDROXAMIC ACID
5	ZN	-1	Ligand/Ion	ZINC ION

Biological Unit 7 (3, 3)

No.	Name	Count	Type	Full Name
1	ACT	1	Ligand/Ion	ACETATE ION
2	AZI	1	Ligand/Ion	AZIDE ION
3	CA	-1	Ligand/Ion	CALCIUM ION
4	HAE	1	Ligand/Ion	ACETOHYDROXAMIC ACID
5	ZN	-1	Ligand/Ion	ZINC ION

Biological Unit 8 (3, 3)

No.	Name	Count	Type	Full Name
1	ACT	1	Ligand/Ion	ACETATE ION
2	AZI	1	Ligand/Ion	AZIDE ION
3	CA	-1	Ligand/Ion	CALCIUM ION
4	HAE	1	Ligand/Ion	ACETOHYDROXAMIC ACID
5	ZN	-1	Ligand/Ion	ZINC ION

Biological Unit 9 (1, 1)

No.	Name	Count	Type	Full Name
1	ACT	-1	Ligand/Ion	ACETATE ION
2	AZI	-1	Ligand/Ion	AZIDE ION
3	CA	-1	Ligand/Ion	CALCIUM ION
4	HAE	1	Ligand/Ion	ACETOHYDROXAMIC ACID
5	ZN	-1	Ligand/Ion	ZINC ION

Asymmetric Unit (36, 36)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	HIS A:218 , HIS A:222 , HIS A:228 , HAE A:874	BINDING SITE FOR RESIDUE ZN A 869
02	AC2	SOFTWARE	HIS A:168 , ASP A:170 , HIS A:183 , HIS A:196	BINDING SITE FOR RESIDUE ZN A 870
03	AC3	SOFTWARE	ASP A:175 , GLY A:176 , GLY A:178 , ILE A:180 , ASP A:198 , GLU A:201	BINDING SITE FOR RESIDUE CA A 871
04	AC4	SOFTWARE	ASP A:158 , GLY A:190 , GLY A:192 , ASP A:194	BINDING SITE FOR RESIDUE CA A 872
05	AC5	SOFTWARE	ASP A:124 , GLU A:199 , GLU A:201	BINDING SITE FOR RESIDUE CA A 873
06	AC6	SOFTWARE	HIS B:218 , HIS B:222 , HIS B:228 , ACT B:374	BINDING SITE FOR RESIDUE ZN B 369
07	AC7	SOFTWARE	HIS B:168 , ASP B:170 , HIS B:183 , HIS B:196	BINDING SITE FOR RESIDUE ZN B 370
08	AC8	SOFTWARE	ASP B:175 , GLY B:176 , GLY B:178 , ILE B:180 , ASP B:198 , GLU B:201	BINDING SITE FOR RESIDUE CA B 371
09	AC9	SOFTWARE	ASP B:158 , GLY B:190 , GLY B:192 , ASP B:194 , HOH B:397	BINDING SITE FOR RESIDUE CA B 372
10	BC1	SOFTWARE	ASP B:124 , GLU B:199 , GLU B:201 , HOH B:393 , HOH B:430	BINDING SITE FOR RESIDUE CA B 373
11	BC2	SOFTWARE	MET A:104 , HIS B:222 , HIS B:228 , ZN B:369 , HOH B:434	BINDING SITE FOR RESIDUE ACT B 374
12	BC3	SOFTWARE	MET B:104 , HIS C:218 , HIS C:222 , HIS C:228 , AZI C:474	BINDING SITE FOR RESIDUE ZN C 469
13	BC4	SOFTWARE	HIS C:168 , ASP C:170 , HIS C:183 , HIS C:196	BINDING SITE FOR RESIDUE ZN C 470
14	BC5	SOFTWARE	ASP C:175 , GLY C:176 , GLY C:178 , ILE C:180 , ASP C:198 , GLU C:201	BINDING SITE FOR RESIDUE CA C 471
15	BC6	SOFTWARE	ASP C:158 , GLY C:190 , GLY C:192 , ASP C:194 , HOH C:494 , HOH C:520	BINDING SITE FOR RESIDUE CA C 472
16	BC7	SOFTWARE	HOH A:905 , ASP C:124 , GLU C:199 , GLU C:201 , HOH C:506	BINDING SITE FOR RESIDUE CA C 473
17	BC8	SOFTWARE	MET B:104 , HIS C:218 , GLU C:219 , HIS C:222 , HIS C:228 , ZN C:469	BINDING SITE FOR RESIDUE AZI C 474
18	BC9	SOFTWARE	HIS D:218 , HIS D:222 , HIS D:228 , HAE D:574	BINDING SITE FOR RESIDUE ZN D 569
19	CC1	SOFTWARE	HIS D:168 , ASP D:170 , HIS D:183 , HIS D:196	BINDING SITE FOR RESIDUE ZN D 570
20	CC2	SOFTWARE	ASP D:175 , GLY D:176 , GLY D:178 , ILE D:180 , ASP D:198 , GLU D:201	BINDING SITE FOR RESIDUE CA D 571
21	CC3	SOFTWARE	ASP D:158 , GLY D:190 , GLY D:192 , ASP D:194 , HOH D:598	BINDING SITE FOR RESIDUE CA D 572
22	CC4	SOFTWARE	ASP D:124 , GLU D:199 , GLU D:201	BINDING SITE FOR RESIDUE CA D 573
23	CC5	SOFTWARE	HIS E:218 , HIS E:222 , HIS E:228 , ACT E:674	BINDING SITE FOR RESIDUE ZN E 669
24	CC6	SOFTWARE	HIS E:168 , ASP E:170 , HIS E:183 , HIS E:196	BINDING SITE FOR RESIDUE ZN E 670
25	CC7	SOFTWARE	ASP E:175 , GLY E:176 , GLY E:178 , ILE E:180 , ASP E:198 , GLU E:201	BINDING SITE FOR RESIDUE CA E 671
26	CC8	SOFTWARE	ASP E:158 , GLY E:190 , GLY E:192 , ASP E:194	BINDING SITE FOR RESIDUE CA E 672
27	CC9	SOFTWARE	ASP E:124 , GLU E:199 , GLU E:201 , HOH E:708	BINDING SITE FOR RESIDUE CA E 673
28	DC1	SOFTWARE	MET D:104 , ALA E:182 , HIS E:218 , GLU E:219 , HIS E:222 , HIS E:228 , ZN E:669 , HOH E:722	BINDING SITE FOR RESIDUE ACT E 674
29	DC2	SOFTWARE	MET E:104 , HIS F:218 , HIS F:222 , HIS F:228 , AZI F:774	BINDING SITE FOR RESIDUE ZN F 769
30	DC3	SOFTWARE	HIS F:168 , ASP F:170 , HIS F:183 , HIS F:196	BINDING SITE FOR RESIDUE ZN F 770
31	DC4	SOFTWARE	ASP F:175 , GLY F:176 , GLY F:178 , ILE F:180 , ASP F:198 , GLU F:201	BINDING SITE FOR RESIDUE CA F 771
32	DC5	SOFTWARE	ASP F:158 , GLY F:190 , GLY F:192 , ASP F:194 , HOH F:786 , HOH F:812	BINDING SITE FOR RESIDUE CA F 772
33	DC6	SOFTWARE	ASP F:124 , GLU F:199 , GLU F:201 , HOH F:802	BINDING SITE FOR RESIDUE CA F 773
34	DC7	SOFTWARE	MET E:104 , HIS F:218 , HIS F:222 , HIS F:228 , ZN F:769	BINDING SITE FOR RESIDUE AZI F 774
35	DC8	SOFTWARE	ALA A:182 , HIS A:183 , HIS A:218 , GLU A:219 , HIS A:222 , HIS A:228 , ZN A:869 , HOH A:894 , HOH A:919 , MET C:104	BINDING SITE FOR RESIDUE HAE A 874
36	DC9	SOFTWARE	ALA D:182 , HIS D:183 , HIS D:218 , GLU D:219 , HIS D:222 , HIS D:228 , ZN D:569 , HOH D:586 , HOH D:607 , MET F:104	BINDING SITE FOR RESIDUE HAE D 574

(no "SS Bond" information available for 1OS2)

Asymmetric Unit

No.	Residues
1	Glu A:267	-	Asn A:268
2	Glu B:267	-	Asn B:268
3	Pro C:265	-	Lys C:266
4	Glu C:267	-	Asn C:268
5	Pro D:265	-	Lys D:266
6	Glu D:267	-	Asn D:268
7	Pro E:265	-	Lys E:266
8	Glu E:267	-	Asn E:268
9	Pro F:265	-	Lys F:266
10	Glu F:267	-	Asn F:268

(no "SAP(SNP)/Variant" information available for 1OS2)

Asymmetric Unit (1, 6)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	ZINC_PROTEASE	PS00142	Neutral zinc metallopeptidases, zinc-binding region signature.	MMP12_HUMAN	215-224	6	A:215-224 B:215-224 C:215-224 D:215-224 E:215-224 F:215-224

Biological Unit 1 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	ZINC_PROTEASE	PS00142	Neutral zinc metallopeptidases, zinc-binding region signature.	MMP12_HUMAN	215-224	1	A:215-224 - - - - -

Biological Unit 2 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	ZINC_PROTEASE	PS00142	Neutral zinc metallopeptidases, zinc-binding region signature.	MMP12_HUMAN	215-224	1	- B:215-224 - - - -

Biological Unit 3 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	ZINC_PROTEASE	PS00142	Neutral zinc metallopeptidases, zinc-binding region signature.	MMP12_HUMAN	215-224	1	- - C:215-224 - - -

Biological Unit 4 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	ZINC_PROTEASE	PS00142	Neutral zinc metallopeptidases, zinc-binding region signature.	MMP12_HUMAN	215-224	1	- - - D:215-224 - -

Biological Unit 5 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	ZINC_PROTEASE	PS00142	Neutral zinc metallopeptidases, zinc-binding region signature.	MMP12_HUMAN	215-224	1	- - - - E:215-224 -

Biological Unit 6 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	ZINC_PROTEASE	PS00142	Neutral zinc metallopeptidases, zinc-binding region signature.	MMP12_HUMAN	215-224	1	- - - - - F:215-224

Biological Unit 7 (1, 3)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	ZINC_PROTEASE	PS00142	Neutral zinc metallopeptidases, zinc-binding region signature.	MMP12_HUMAN	215-224	3	- - - D:215-224 E:215-224 F:215-224

Biological Unit 8 (1, 3)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	ZINC_PROTEASE	PS00142	Neutral zinc metallopeptidases, zinc-binding region signature.	MMP12_HUMAN	215-224	3	A:215-224 B:215-224 C:215-224 - - -

Biological Unit 9 (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	ZINC_PROTEASE	PS00142	Neutral zinc metallopeptidases, zinc-binding region signature.	MMP12_HUMAN	215-224	2	A:215-224 - C:215-224 - - -

(no "Exon" information available for 1OS2)

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:165
 aligned with MMP12_HUMAN | P39900 from UniProtKB/Swiss-Prot  Length:470

    Alignment length:183
                                    95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265   
          MMP12_HUMAN    86 MMHAPRCGVPDVHHFREMPGGPVWRKHYITYRINNYTPDMNREDVDYAIRKAFQVWSNVTPLKFSKINTGMADILVVFARGAHGDFHAFDGKGGILAHAFGPGSGIGGDAHFDEDEFWTTHSGGTNLFLTAVHEIGHSLGLGHSSDPKAVMFPTYKYVDINTFRLSADDIRGIQSLYGDPKEN 268
               SCOP domains d1                  os2a_ A: Macrophage elastase (MMP-12)                                                                                                                               SCOP domains
               CATH domains 1o                  s2A00 A:104-268 Collagenase (Catalytic Domain)                                                                                                                      CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..------------------.......eeeeee.......hhhhhhhhhhhhhhhhhh....eeee.......eeeeee.................eee..........eeee....ee.....eehhhhhhhhhhhhh..........................hhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------ZINC_PROTE-------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1os2 A 104 MM------------------GPVWRKHYITYRINNYTPDMNREDVDYAIRKAFQVWSNVTPLKFSKINTGMADILVVFARGAHGDDHAFDGKGGILAHAFGPGSGIGGDAHFDEDEFWTTHSGGTNLFLTAVHEIGHSLGLGHSSDPKAVMFPTYKYVDINTFRLSADDIRGIQSLYGDPKEN 268
                             |       -         -|      115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265   
                             |                106                                                                                                                                                                  
                           105

Chain B from PDB  Type:PROTEIN  Length:165
 aligned with MMP12_HUMAN | P39900 from UniProtKB/Swiss-Prot  Length:470

    Alignment length:183
                                    95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265   
          MMP12_HUMAN    86 MMHAPRCGVPDVHHFREMPGGPVWRKHYITYRINNYTPDMNREDVDYAIRKAFQVWSNVTPLKFSKINTGMADILVVFARGAHGDFHAFDGKGGILAHAFGPGSGIGGDAHFDEDEFWTTHSGGTNLFLTAVHEIGHSLGLGHSSDPKAVMFPTYKYVDINTFRLSADDIRGIQSLYGDPKEN 268
               SCOP domains d1                  os2b_ B: Macrophage elastase (MMP-12)                                                                                                                               SCOP domains
               CATH domains 1o                  s2B00 B:104-268 Collagenase (Catalytic Domain)                                                                                                                      CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..------------------.......eeeeee.......hhhhhhhhhhhhhhhhhh....eeee.......eeeeee.................eee..........eeee....ee.....eehhhhhhhhhhhhh...................hhhhh..hhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------ZINC_PROTE-------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1os2 B 104 MM------------------GPVWRKHYITYRINNYTPDMNREDVDYAIRKAFQVWSNVTPLKFSKINTGMADILVVFARGAHGDDHAFDGKGGILAHAFGPGSGIGGDAHFDEDEFWTTHSGGTNLFLTAVHEIGHSLGLGHSSDPKAVMFPTYKYVDINTFRLSADDIRGIQSLYGDPKEN 268
                             |       -         -|      115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265   
                           105                106

Chain C from PDB  Type:PROTEIN  Length:165
 aligned with MMP12_HUMAN | P39900 from UniProtKB/Swiss-Prot  Length:470

    Alignment length:183
                                    95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265   
          MMP12_HUMAN    86 MMHAPRCGVPDVHHFREMPGGPVWRKHYITYRINNYTPDMNREDVDYAIRKAFQVWSNVTPLKFSKINTGMADILVVFARGAHGDFHAFDGKGGILAHAFGPGSGIGGDAHFDEDEFWTTHSGGTNLFLTAVHEIGHSLGLGHSSDPKAVMFPTYKYVDINTFRLSADDIRGIQSLYGDPKEN 268
               SCOP domains d1                  os2c_ C: Macrophage elastase (MMP-12)                                                                                                                               SCOP domains
               CATH domains 1o                  s2C00 C:104-268 Collagenase (Catalytic Domain)                                                                                                                      CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..------------------.......eeeeee.......hhhhhhhhhhhhhhhhhhh...eeee.......eeeeee.................eee..........eeee....ee.....eehhhhhhhhhhhhh..........................hhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------ZINC_PROTE-------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1os2 C 104 MM------------------GPVWRKHYITYRINNYTPDMNREDVDYAIRKAFQVWSNVTPLKFSKINTGMADILVVFARGAHGDDHAFDGKGGILAHAFGPGSGIGGDAHFDEDEFWTTHSGGTNLFLTAVHEIGHSLGLGHSSDPKAVMFPTYKYVDINTFRLSADDIRGIQSLYGDPKEN 268
                             |       -         -|      115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265   
                           105                106

Chain D from PDB  Type:PROTEIN  Length:165
 aligned with MMP12_HUMAN | P39900 from UniProtKB/Swiss-Prot  Length:470

    Alignment length:183
                                    95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265   
          MMP12_HUMAN    86 MMHAPRCGVPDVHHFREMPGGPVWRKHYITYRINNYTPDMNREDVDYAIRKAFQVWSNVTPLKFSKINTGMADILVVFARGAHGDFHAFDGKGGILAHAFGPGSGIGGDAHFDEDEFWTTHSGGTNLFLTAVHEIGHSLGLGHSSDPKAVMFPTYKYVDINTFRLSADDIRGIQSLYGDPKEN 268
               SCOP domains d1                  os2d_ D: Macrophage elastase (MMP-12)                                                                                                                               SCOP domains
               CATH domains 1o                  s2D00 D:104-268 Collagenase (Catalytic Domain)                                                                                                                      CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..------------------.......eeeeee.......hhhhhhhhhhhhhhhhhh....eeee.......eeeeee.................eee..........eeee....ee.....eehhhhhhhhhhhhh..........................hhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------ZINC_PROTE-------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1os2 D 104 MM------------------GPVWRKHYITYRINNYTPDMNREDVDYAIRKAFQVWSNVTPLKFSKINTGMADILVVFARGAHGDDHAFDGKGGILAHAFGPGSGIGGDAHFDEDEFWTTHSGGTNLFLTAVHEIGHSLGLGHSSDPKAVMFPTYKYVDINTFRLSADDIRGIQSLYGDPKEN 268
                             |       -         -|      115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265   
                           105                106

Chain E from PDB  Type:PROTEIN  Length:165
 aligned with MMP12_HUMAN | P39900 from UniProtKB/Swiss-Prot  Length:470

    Alignment length:183
                                    95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265   
          MMP12_HUMAN    86 MMHAPRCGVPDVHHFREMPGGPVWRKHYITYRINNYTPDMNREDVDYAIRKAFQVWSNVTPLKFSKINTGMADILVVFARGAHGDFHAFDGKGGILAHAFGPGSGIGGDAHFDEDEFWTTHSGGTNLFLTAVHEIGHSLGLGHSSDPKAVMFPTYKYVDINTFRLSADDIRGIQSLYGDPKEN 268
               SCOP domains d1                  os2e_ E: Macrophage elastase (MMP-12)                                                                                                                               SCOP domains
               CATH domains 1o                  s2E00 E:104-268 Collagenase (Catalytic Domain)                                                                                                                      CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .e------------------ee.....eeeeee.......hhhhhhhhhhhhhhhhhh....eeee.......eeeeee.................eee..........eeee....ee.....eehhhhhhhhhhhhh..........................hhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------ZINC_PROTE-------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1os2 E 104 MM------------------GPVWRKHYITYRINNYTPDMNREDVDYAIRKAFQVWSNVTPLKFSKINTGMADILVVFARGAHGDDHAFDGKGGILAHAFGPGSGIGGDAHFDEDEFWTTHSGGTNLFLTAVHEIGHSLGLGHSSDPKAVMFPTYKYVDINTFRLSADDIRGIQSLYGDPKEN 268
                             |       -         -|      115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265   
                           105                106

Chain F from PDB  Type:PROTEIN  Length:165
 aligned with MMP12_HUMAN | P39900 from UniProtKB/Swiss-Prot  Length:470

    Alignment length:183
                                    95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265   
          MMP12_HUMAN    86 MMHAPRCGVPDVHHFREMPGGPVWRKHYITYRINNYTPDMNREDVDYAIRKAFQVWSNVTPLKFSKINTGMADILVVFARGAHGDFHAFDGKGGILAHAFGPGSGIGGDAHFDEDEFWTTHSGGTNLFLTAVHEIGHSLGLGHSSDPKAVMFPTYKYVDINTFRLSADDIRGIQSLYGDPKEN 268
               SCOP domains d1                  os2f_ F: Macrophage elastase (MMP-12)                                                                                                                               SCOP domains
               CATH domains 1o                  s2F00 F:104-268 Collagenase (Catalytic Domain)                                                                                                                      CATH domains
           Pfam domains (1) ----------------------Peptidase_M10-1os2F01 F:108-263                                                                                                                             ----- Pfam domains (1)
           Pfam domains (2) ----------------------Peptidase_M10-1os2F02 F:108-263                                                                                                                             ----- Pfam domains (2)
           Pfam domains (3) ----------------------Peptidase_M10-1os2F03 F:108-263                                                                                                                             ----- Pfam domains (3)
           Pfam domains (4) ----------------------Peptidase_M10-1os2F04 F:108-263                                                                                                                             ----- Pfam domains (4)
           Pfam domains (5) ----------------------Peptidase_M10-1os2F05 F:108-263                                                                                                                             ----- Pfam domains (5)
           Pfam domains (6) ----------------------Peptidase_M10-1os2F06 F:108-263                                                                                                                             ----- Pfam domains (6)
         Sec.struct. author ..------------------.......eeeeee.......hhhhhhhhhhhhhhhhhh....eeee.......eeeeee.................eee..........eeee....ee.....eehhhhhhhhhhhhh..............ee..........hhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------ZINC_PROTE-------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1os2 F 104 MM------------------GPVWRKHYITYRINNYTPDMNREDVDYAIRKAFQVWSNVTPLKFSKINTGMADILVVFARGAHGDDHAFDGKGGILAHAFGPGSGIGGDAHFDEDEFWTTHSGGTNLFLTAVHEIGHSLGLGHSSDPKAVMFPTYKYVDINTFRLSADDIRGIQSLYGDPKEN 268
                             |       -         -|      115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265   
                           105                106

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) (23004)

Fold: Zincin-like (701)

Superfamily: Metalloproteases (zincins), catalytic domain (647)

Family: Matrix metalloproteases, catalytic domain (199)

Protein domain: Macrophage elastase (MMP-12) (34)

Human (Homo sapiens) [TaxId: 9606] (34)

1a	d1os2a_	A:
1b	d1os2b_	B:
1c	d1os2c_	C:
1d	d1os2d_	D:
1e	d1os2e_	E:
1f	d1os2f_	F:

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

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

Topology: Collagenase (Catalytic Domain) (236)

Homologous Superfamily: Collagenase (Catalytic Domain) (234)

Human (Homo sapiens) (153)

1a	1os2A00	A:104-268
1b	1os2B00	B:104-268
1c	1os2C00	C:104-268
1d	1os2D00	D:104-268
1e	1os2E00	E:104-268
1f	1os2F00	F:104-268

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: Peptidase_MA (251)

Family: Peptidase_M10 (85)

Homo sapiens (Human) (82)

1a	Peptidase_M10-1os2F01	F:108-263
1b	Peptidase_M10-1os2F02	F:108-263
1c	Peptidase_M10-1os2F03	F:108-263
1d	Peptidase_M10-1os2F04	F:108-263
1e	Peptidase_M10-1os2F05	F:108-263
1f	Peptidase_M10-1os2F06	F:108-263

Asymmetric Unit(hide GO term definitions)

Chain A,B,C,D,E,F (MMP12_HUMAN | P39900)

molecular function
	GO:0005509	calcium ion binding	Interacting selectively and non-covalently with calcium ions (Ca2+).
	GO:0004175	endopeptidase activity	Catalysis of the hydrolysis of internal, alpha-peptide bonds in a polypeptide chain.
	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:0004222	metalloendopeptidase activity	Catalysis of the hydrolysis of internal, alpha-peptide bonds in a polypeptide chain by a mechanism in which water acts as a nucleophile, one or two metal ions hold the water molecule in place, and charged amino acid side chains are ligands for the metal ions.
	GO:0008237	metallopeptidase activity	Catalysis of the hydrolysis of peptide bonds by a mechanism in which water acts as a nucleophile, one or two metal ions hold the water molecule in place, and charged amino acid side chains are ligands for the metal ions.
	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:0008270	zinc ion binding	Interacting selectively and non-covalently with zinc (Zn) ions.
biological process
	GO:0030574	collagen catabolic process	The proteolytic chemical reactions and pathways resulting in the breakdown of collagen in the extracellular matrix, usually carried out by proteases secreted by nearby cells.
	GO:0022617	extracellular matrix disassembly	A process that results in the breakdown of the extracellular matrix.
	GO:0050679	positive regulation of epithelial cell proliferation	Any process that activates or increases the rate or extent of epithelial cell proliferation.
	GO:0060054	positive regulation of epithelial cell proliferation involved in wound healing	Any process that activates or increases the rate or extent of epithelial cell proliferation, contributing to the restoration of integrity to a damaged tissue following an injury.
	GO:0006508	proteolysis	The hydrolysis of proteins into smaller polypeptides and/or amino acids by cleavage of their peptide bonds.
	GO:0042493	response to drug	Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a drug stimulus. A drug is a substance used in the diagnosis, treatment or prevention of a disease.
	GO:0014070	response to organic cyclic compound	Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an organic cyclic compound stimulus.
	GO:0042060	wound healing	The series of events that restore integrity to a damaged tissue, following an injury.
	GO:0035313	wound healing, spreading of epidermal cells	The migration of an epidermal cell along or through a wound gap that contributes to the reestablishment of a continuous epidermis.
cellular component
	GO:0031012	extracellular matrix	A structure lying external to one or more cells, which provides structural support for cells or tissues.
	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:0005578	proteinaceous extracellular matrix	A layer consisting mainly of proteins (especially collagen) and glycosaminoglycans (mostly as proteoglycans) that forms a sheet underlying or overlying cells such as endothelial and epithelial cells. The proteins are secreted by cells in the vicinity. An example of this component is found in Mus musculus.

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	Cis Peptide Bonds
		Glu A:267 - Asn A:268	[ RasMol ]
		Glu B:267 - Asn B:268	[ RasMol ]
		Glu C:267 - Asn C:268	[ RasMol ]
		Glu D:267 - Asn D:268	[ RasMol ]
		Glu E:267 - Asn E:268	[ RasMol ]
		Glu F:267 - Asn F:268	[ RasMol ]
		Pro C:265 - Lys C:266	[ RasMol ]
		Pro D:265 - Lys D:266	[ RasMol ]
		Pro E:265 - Lys E:266	[ RasMol ]
		Pro F:265 - Lys F:266	[ RasMol ]

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1jk3	CRYSTAL STRUCTURE OF HUMAN MMP-12 (MACROPHAGE ELASTASE) AT TRUE ATOMIC RESOLUTION
1os9	BINARY ENZYME-PRODUCT COMPLEXES OF HUMAN MMP12

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (5, 36)

Sites (36, 36)

SS Bonds (0, 0)

Cis Peptide Bonds (10, 10)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (1, 6)

Exons (0, 0)

Sequences/Alignments

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SCOP Domains (1, 6)

CATH Domains (1, 6)

Pfam Domains (1, 6)

Gene Ontology (21, 21)

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