2J0T - 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)

Title :   CRYSTAL STRUCTURE OF THE CATALYTIC DOMAIN OF MMP-1 IN COMPLEX WITH THE INHIBITORY DOMAIN OF TIMP-1

Authors :   S. Iyer, S. Wei, K. Brew, K. R. Acharya

Date :   04 Aug 06 (Deposition) - 18 Oct 06 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.54

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

Keywords :   Extracellular Matrix, Erythrocyte Maturation, Autocatalytic Cleavage, Collagen Degradation, Hydrolase, (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   S. Iyer, S. Wei, K. Brew, K. R. Acharya
Crystal Structure Of The Catalytic Domain Of Matrix Metalloproteinase-1 In Complex With The Inhibitory Domain Of Tissue Inhibitor Of Metalloproteinase-1.
J. Biol. Chem. V. 282 364 2007
PubMed-ID: 17050530 | Reference-DOI: 10.1074/JBC.M607625200

Molecule 1 - INTERSTITIAL COLLAGENASE
	Chains	:	A, B, C
	EC Number	:	3.4.24.7
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	469008
	Fragment	:	CATALYTIC DOMAIN, RESIDUES 101-269
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606
	Synonym	:	MATRIX METALLOPROTEINASE-1, MMP-1, FIBROBLAST COLLAGENASE

Molecule 2 - METALLOPROTEINASE INHIBITOR 1
	Chains	:	D, E, F
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	469008
	Fragment	:	N-TERMINAL INHIBITORY DOMAIN, RESIDUES 24-149
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606
	Synonym	:	TIMP-1, ERYTHROID POTENTIATING ACTIVITY, EPA, TISSUE INHIBITOR OF METALLOPROTEINASES, FIBROBLAST COLLAGENASE INHIBITOR, COLLAGENASE INHIBITOR, TISSUE INHIBITOR OF METALLOPROTEINASE-1

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (2, 15)

No.	Name	Count	Type	Full Name
1	CA	9	Ligand/Ion	CALCIUM ION
2	ZN	6	Ligand/Ion	ZINC ION

Biological Unit 1 (0, 0)

No.	Name	Count	Type	Full Name
1	CA	-1	Ligand/Ion	CALCIUM ION
2	ZN	-1	Ligand/Ion	ZINC ION

Biological Unit 2 (0, 0)

No.	Name	Count	Type	Full Name
1	CA	-1	Ligand/Ion	CALCIUM ION
2	ZN	-1	Ligand/Ion	ZINC ION

Biological Unit 3 (0, 0)

No.	Name	Count	Type	Full Name
1	CA	-1	Ligand/Ion	CALCIUM ION
2	ZN	-1	Ligand/Ion	ZINC ION

Asymmetric Unit (15, 15)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	HIS A:168 , ASP A:170 , HIS A:183 , HIS A:196	BINDING SITE FOR RESIDUE ZN A1266
02	AC2	SOFTWARE	HIS A:218 , HIS A:222 , HIS A:228 , CYS D:1	BINDING SITE FOR RESIDUE ZN A1267
03	AC3	SOFTWARE	ASP A:158 , GLY A:190 , GLY A:192 , ASP A:194	BINDING SITE FOR RESIDUE CA A1268
04	AC4	SOFTWARE	ASP A:175 , GLY A:176 , GLY A:178 , ASN A:180 , ASP A:198 , GLU A:201	BINDING SITE FOR RESIDUE CA A1269
05	AC5	SOFTWARE	ASP A:124 , GLU A:199 , GLU A:201	BINDING SITE FOR RESIDUE CA A1270
06	AC6	SOFTWARE	HIS B:168 , ASP B:170 , HIS B:183 , HIS B:196	BINDING SITE FOR RESIDUE ZN B1267
07	AC7	SOFTWARE	HIS B:218 , HIS B:222 , HIS B:228 , CYS E:1	BINDING SITE FOR RESIDUE ZN B1268
08	AC8	SOFTWARE	ASP B:158 , GLY B:190 , GLY B:192 , ASP B:194	BINDING SITE FOR RESIDUE CA B1269
09	AC9	SOFTWARE	ASP B:175 , GLY B:176 , GLY B:178 , ASN B:180 , ASP B:198 , GLU B:201	BINDING SITE FOR RESIDUE CA B1270
10	BC1	SOFTWARE	ASP B:124 , GLU B:199 , GLU B:201	BINDING SITE FOR RESIDUE CA B1271
11	BC2	SOFTWARE	HIS C:168 , ASP C:170 , HIS C:183 , HIS C:196	BINDING SITE FOR RESIDUE ZN C1264
12	BC3	SOFTWARE	HIS C:218 , HIS C:222 , HIS C:228 , CYS F:1	BINDING SITE FOR RESIDUE ZN C1265
13	BC4	SOFTWARE	ASP C:158 , GLY C:190 , GLY C:192 , ASP C:194	BINDING SITE FOR RESIDUE CA C1266
14	BC5	SOFTWARE	ASP C:175 , GLY C:176 , GLY C:178 , ASN C:180 , ASP C:198 , GLU C:201	BINDING SITE FOR RESIDUE CA C1267
15	BC6	SOFTWARE	ASP C:124 , GLU C:199 , GLU C:201	BINDING SITE FOR RESIDUE CA C1268

Asymmetric Unit

No.	Residues
1	D:1	-	D:70
2	D:3	-	D:99
3	D:13	-	D:124
4	E:1	-	E:70
5	E:3	-	E:99
6	E:13	-	E:124
7	F:1	-	F:70
8	F:3	-	F:99
9	F:13	-	F:124

(no "Cis Peptide Bond" information available for 2J0T)

Asymmetric Unit (3, 9)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_021024	I	191	V	MMP1_HUMAN	Polymorphism	17879973	A/B/C	I	191	V
2	UniProt	VAR_011970	D	252	G	MMP1_HUMAN	Polymorphism	513964	A/B/C	D	252	G
3	UniProt	VAR_054005	R	262	S	MMP1_HUMAN	Polymorphism	12282811	A/B/C	R	262	S

SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

Biological Unit 1 (3, 3)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_021024	I	191	V	MMP1_HUMAN	Polymorphism	17879973	A	I	191	V
2	UniProt	VAR_011970	D	252	G	MMP1_HUMAN	Polymorphism	513964	A	D	252	G
3	UniProt	VAR_054005	R	262	S	MMP1_HUMAN	Polymorphism	12282811	A	R	262	S

SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

Biological Unit 2 (3, 3)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_021024	I	191	V	MMP1_HUMAN	Polymorphism	17879973	B	I	191	V
2	UniProt	VAR_011970	D	252	G	MMP1_HUMAN	Polymorphism	513964	B	D	252	G
3	UniProt	VAR_054005	R	262	S	MMP1_HUMAN	Polymorphism	12282811	B	R	262	S

SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

Biological Unit 3 (3, 3)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_021024	I	191	V	MMP1_HUMAN	Polymorphism	17879973	C	I	191	V
2	UniProt	VAR_011970	D	252	G	MMP1_HUMAN	Polymorphism	513964	C	D	252	G
3	UniProt	VAR_054005	R	262	S	MMP1_HUMAN	Polymorphism	12282811	C	R	262	S

SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

Asymmetric Unit (3, 9)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	NTR	PS50189	NTR domain profile.	TIMP1_HUMAN	24-147	3	D:1-124 E:1-124 F:1-124
2	TIMP	PS00288	Tissue inhibitors of metalloproteinases signature.	TIMP1_HUMAN	24-36	3	D:1-13 E:1-13 F:1-13
3	ZINC_PROTEASE	PS00142	Neutral zinc metallopeptidases, zinc-binding region signature.	MMP1_HUMAN	215-224	3	A:215-224 B:215-224 C:215-224

Biological Unit 1 (3, 3)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	NTR	PS50189	NTR domain profile.	TIMP1_HUMAN	24-147	1	D:1-124 - -
2	TIMP	PS00288	Tissue inhibitors of metalloproteinases signature.	TIMP1_HUMAN	24-36	1	D:1-13 - -
3	ZINC_PROTEASE	PS00142	Neutral zinc metallopeptidases, zinc-binding region signature.	MMP1_HUMAN	215-224	1	A:215-224 - -

Biological Unit 2 (3, 3)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	NTR	PS50189	NTR domain profile.	TIMP1_HUMAN	24-147	1	- E:1-124 -
2	TIMP	PS00288	Tissue inhibitors of metalloproteinases signature.	TIMP1_HUMAN	24-36	1	- E:1-13 -
3	ZINC_PROTEASE	PS00142	Neutral zinc metallopeptidases, zinc-binding region signature.	MMP1_HUMAN	215-224	1	- B:215-224 -

Biological Unit 3 (3, 3)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	NTR	PS50189	NTR domain profile.	TIMP1_HUMAN	24-147	1	- - F:1-124
2	TIMP	PS00288	Tissue inhibitors of metalloproteinases signature.	TIMP1_HUMAN	24-36	1	- - F:1-13
3	ZINC_PROTEASE	PS00142	Neutral zinc metallopeptidases, zinc-binding region signature.	MMP1_HUMAN	215-224	1	- - C:215-224

Asymmetric Unit (9, 27)

	ENSEMBL					UniProtKB			PDB
No.	Transcript ID	Exon	Exon ID	Genome Location	Length	ID	Location	Length	Count	Location	Length
1.1a	ENST00000218388	1a	ENSE00001472535	X:47441712-47441873	162	TIMP1_HUMAN	-	0	0	-	-
1.3	ENST00000218388	3	ENSE00002188016	X:47442807-47442935	129	TIMP1_HUMAN	1-41	41	3	D:1-18 E:1-18 F:1-18	18 18 18
1.4a	ENST00000218388	4a	ENSE00001687541	X:47444335-47444414	80	TIMP1_HUMAN	41-67	27	3	D:18-44 E:18-44 F:18-44	27 27 27
1.4d	ENST00000218388	4d	ENSE00002194942	X:47444604-47444730	127	TIMP1_HUMAN	68-110	43	3	D:45-87 E:45-87 F:45-87	43 43 43
1.4g	ENST00000218388	4g	ENSE00001622276	X:47444942-47445066	125	TIMP1_HUMAN	110-151	42	3	D:87-124 E:87-124 F:87-124	38 38 38
1.5b	ENST00000218388	5b	ENSE00001472498	X:47445920-47446188	269	TIMP1_HUMAN	152-207	56	0	-	-

2.1	ENST00000315274	1	ENSE00001234609	chr11:102668891-102668719	173	MMP1_HUMAN	1-35	35	0	-	-
2.2	ENST00000315274	2	ENSE00000993211	chr11:102668231-102667987	245	MMP1_HUMAN	36-117	82	3	A:105-117 B:105-117 C:105-117	13 13 13
2.3	ENST00000315274	3	ENSE00000993213	chr11:102667893-102667745	149	MMP1_HUMAN	117-167	51	3	A:117-167 B:117-167 C:117-167	51 51 51
2.4	ENST00000315274	4	ENSE00001105440	chr11:102667520-102667395	126	MMP1_HUMAN	167-209	43	3	A:167-209 B:167-209 C:167-209	43 43 43
2.5	ENST00000315274	5	ENSE00000993197	chr11:102666338-102666183	156	MMP1_HUMAN	209-261	53	3	A:209-261 B:209-261 C:209-261	53 53 53
2.6	ENST00000315274	6	ENSE00000993183	chr11:102666022-102665905	118	MMP1_HUMAN	261-300	40	3	A:261-265 B:261-266 C:261-263	5 6 3
2.7	ENST00000315274	7	ENSE00000993195	chr11:102663469-102663336	134	MMP1_HUMAN	300-345	46	0	-	-
2.8	ENST00000315274	8	ENSE00000993199	chr11:102662226-102662064	163	MMP1_HUMAN	345-399	55	0	-	-
2.9	ENST00000315274	9	ENSE00000993204	chr11:102661537-102661434	104	MMP1_HUMAN	399-434	36	0	-	-
2.10	ENST00000315274	10	ENSE00001234621	chr11:102661252-102660651	602	MMP1_HUMAN	434-469	36	0	-	-

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:161
 aligned with MMP1_HUMAN | P03956 from UniProtKB/Swiss-Prot  Length:469

    Alignment length:161
                                   114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264 
           MMP1_HUMAN   105 GNPRWEQTHLTYRIENYTPDLPRADVDHAIEKAFQLWSNVTPLTFTKVSEGQADIMISFVRGDHRDNSPFDGPGGNLAHAFQPGPGIGGDAHFDEDERWTNNFREYNLHRVAAHELGHSLGLSHSTDIGALMYPSYTFSGDVQLAQDDIDGIQAIYGRSQN 265
               SCOP domains d2j0ta_ A: Fibroblast collagenase (MMP-1)                                                                                                                         SCOP domains
               CATH domains 2j0tA00 A:105-265 Collagenase (Catalytic Domain)                                                                                                                  CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........eeeeee.......hhhhhhhhhhhhhhhhhh....eeee.......eeeeee...............eeeee..........eeee............hhhhhhhhhhhhhhh.......................hhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------V------------------------------------------------------------G---------S--- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------ZINC_PROTE----------------------------------------- PROSITE
           Transcript 2 (1) Exon 2.2     -------------------------------------------------Exon 2.4  PDB: A:167-209 UniProt: 167-209  ---------------------------------------------------2.6   Transcript 2 (1)
           Transcript 2 (2) ------------Exon 2.3  PDB: A:117-167 UniProt: 117-167          -----------------------------------------Exon 2.5  PDB: A:209-261 UniProt: 209-261            ---- Transcript 2 (2)
                 2j0t A 105 GNPRWEQTHLTYRIENYTPDLPRADVDHAIEKAFQLWSNVTPLTFTKVSEGQADIMISFVRGDHRDNSPFDGPGGNLAHAFQPGPGIGGDAHFDEDERWTNNFREYNLHRVAAHELGHSLGLSHSTDIGALMYPSYTFSGDVQLAQDDIDGIQAIYGRSQN 265
                                   114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264

Chain B from PDB  Type:PROTEIN  Length:162
 aligned with MMP1_HUMAN | P03956 from UniProtKB/Swiss-Prot  Length:469

    Alignment length:162
                                   114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264  
           MMP1_HUMAN   105 GNPRWEQTHLTYRIENYTPDLPRADVDHAIEKAFQLWSNVTPLTFTKVSEGQADIMISFVRGDHRDNSPFDGPGGNLAHAFQPGPGIGGDAHFDEDERWTNNFREYNLHRVAAHELGHSLGLSHSTDIGALMYPSYTFSGDVQLAQDDIDGIQAIYGRSQNP 266
               SCOP domains d2j0tb_ B: Fibroblast collagenase (MMP-1)                                                                                                                          SCOP domains
               CATH domains 2j0tB00 B:105-266 Collagenase (Catalytic Domain)                                                                                                                   CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ........eeeeee.......hhhhhhhhhhhhhhhhhh....eeee.......eeeeee...............eeeee..........eeee............hhhhhhhhhhhhhh........................hhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------V------------------------------------------------------------G---------S---- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------ZINC_PROTE------------------------------------------ PROSITE
           Transcript 2 (1) Exon 2.2     -------------------------------------------------Exon 2.4  PDB: B:167-209 UniProt: 167-209  ---------------------------------------------------2.6    Transcript 2 (1)
           Transcript 2 (2) ------------Exon 2.3  PDB: B:117-167 UniProt: 117-167          -----------------------------------------Exon 2.5  PDB: B:209-261 UniProt: 209-261            ----- Transcript 2 (2)
                 2j0t B 105 GNPRWEQTHLTYRIENYTPDLPRADVDHAIEKAFQLWSNVTPLTFTKVSEGQADIMISFVRGDHRDNSPFDGPGGNLAHAFQPGPGIGGDAHFDEDERWTNNFREYNLHRVAAHELGHSLGLSHSTDIGALMYPSYTFSGDVQLAQDDIDGIQAIYGRSQNP 266
                                   114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264

Chain C from PDB  Type:PROTEIN  Length:159
 aligned with MMP1_HUMAN | P03956 from UniProtKB/Swiss-Prot  Length:469

    Alignment length:159
                                   114       124       134       144       154       164       174       184       194       204       214       224       234       244       254         
           MMP1_HUMAN   105 GNPRWEQTHLTYRIENYTPDLPRADVDHAIEKAFQLWSNVTPLTFTKVSEGQADIMISFVRGDHRDNSPFDGPGGNLAHAFQPGPGIGGDAHFDEDERWTNNFREYNLHRVAAHELGHSLGLSHSTDIGALMYPSYTFSGDVQLAQDDIDGIQAIYGRS 263
               SCOP domains d2j0tc_ C: Fibroblast collagenase (MMP-1)                                                                                                                       SCOP domains
               CATH domains 2j0tC00 C:105-263 Collagenase (Catalytic Domain)                                                                                                                CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........eeeeee.......hhhhhhhhhhhhhhhhhhh...eeee.......eeeeee...............eeeee..........eeee............hhhhhhhhhhhhhh........................hhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------V------------------------------------------------------------G---------S- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------ZINC_PROTE--------------------------------------- PROSITE
           Transcript 2 (1) Exon 2.2     -------------------------------------------------Exon 2.4  PDB: C:167-209 UniProt: 167-209  ---------------------------------------------------2.6 Transcript 2 (1)
           Transcript 2 (2) ------------Exon 2.3  PDB: C:117-167 UniProt: 117-167          -----------------------------------------Exon 2.5  PDB: C:209-261 UniProt: 209-261            -- Transcript 2 (2)
                 2j0t C 105 GNPRWEQTHLTYRIENYTPDLPRADVDHAIEKAFQLWSNVTPLTFTKVSEGQADIMISFVRGDHRDNSPFDGPGGNLAHAFQPGPGIGGDAHFDEDERWTNNFREYNLHRVAAHELGHSLGLSHSTDIGALMYPSYTFSGDVQLAQDDIDGIQAIYGRS 263
                                   114       124       134       144       154       164       174       184       194       204       214       224       234       244       254

Chain D from PDB  Type:PROTEIN  Length:124
 aligned with TIMP1_HUMAN | P01033 from UniProtKB/Swiss-Prot  Length:207

    Alignment length:124
                                    33        43        53        63        73        83        93       103       113       123       133       143    
          TIMP1_HUMAN    24 CTCVPPHPQTAFCNSDLVIRAKFVGTPEVNQTTLYQRYEIKMTKMYKGFQALGDAADIRFVYTPAMESVCGYFHRSHNRSEEFLIAGKLQDGLLHITTCSFVAPWNSLSLAQRRGFTKTYTVGC 147
               SCOP domains d2j0td_ D: TIMP-1                                                                                                            SCOP domains
               CATH domains 2j0tD00 D:1-124  [code=2.40.50.120, no name defined]                                                                         CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .ee...hhhhhhhhh.eeeeeee....ee.....eeeeeeeeee...............eeeee.hhhhh...........eeeeeeeee..eee..........hhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) TIMP         --------------------------------------------------------------------------------------------------------------- PROSITE (1)
                PROSITE (2) NTR  PDB: D:1-124 UniProt: 24-147                                                                                            PROSITE (2)
           Transcript 1 (1) Exon 1.3          --------------------------Exon 1.4d  PDB: D:45-87 UniProt: 68-110    ------------------------------------- Transcript 1 (1)
           Transcript 1 (2) -----------------Exon 1.4a  PDB: D:18-44    ------------------------------------------Exon 1.4g  PDB: D:87-124 [INCOMPLETE]  Transcript 1 (2)
                 2j0t D   1 CTCVPPHPQTAFCNSDLVIRAKFVGTPEVNQTTLYQRYEIKMTKMYKGFQALGDAADIRFVYTPAMESVCGYFHRSHNRSEEFLIAGKLQDGLLHITTCSFVAPWNSLSLAQRRGFTKTYTVGC 124
                                    10        20        30        40        50        60        70        80        90       100       110       120

Chain E from PDB  Type:PROTEIN  Length:124
 aligned with TIMP1_HUMAN | P01033 from UniProtKB/Swiss-Prot  Length:207

    Alignment length:124
                                    33        43        53        63        73        83        93       103       113       123       133       143    
          TIMP1_HUMAN    24 CTCVPPHPQTAFCNSDLVIRAKFVGTPEVNQTTLYQRYEIKMTKMYKGFQALGDAADIRFVYTPAMESVCGYFHRSHNRSEEFLIAGKLQDGLLHITTCSFVAPWNSLSLAQRRGFTKTYTVGC 147
               SCOP domains d2j0te_ E: TIMP-1                                                                                                            SCOP domains
               CATH domains 2j0tE00 E:1-124  [code=2.40.50.120, no name defined]                                                                         CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .ee...hhhhhhhhh.eeeeeee...........eeeeeeeeeee..............eeeee.hhhhh...........eeeeeeeee..eee..........hhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) TIMP         --------------------------------------------------------------------------------------------------------------- PROSITE (1)
                PROSITE (2) NTR  PDB: E:1-124 UniProt: 24-147                                                                                            PROSITE (2)
           Transcript 1 (1) Exon 1.3          --------------------------Exon 1.4d  PDB: E:45-87 UniProt: 68-110    ------------------------------------- Transcript 1 (1)
           Transcript 1 (2) -----------------Exon 1.4a  PDB: E:18-44    ------------------------------------------Exon 1.4g  PDB: E:87-124 [INCOMPLETE]  Transcript 1 (2)
                 2j0t E   1 CTCVPPHPQTAFCNSDLVIRAKFVGTPEVNQTTLYQRYEIKMTKMYKGFQALGDAADIRFVYTPAMESVCGYFHRSHNRSEEFLIAGKLQDGLLHITTCSFVAPWNSLSLAQRRGFTKTYTVGC 124
                                    10        20        30        40        50        60        70        80        90       100       110       120

Chain F from PDB  Type:PROTEIN  Length:124
 aligned with TIMP1_HUMAN | P01033 from UniProtKB/Swiss-Prot  Length:207

    Alignment length:124
                                    33        43        53        63        73        83        93       103       113       123       133       143    
          TIMP1_HUMAN    24 CTCVPPHPQTAFCNSDLVIRAKFVGTPEVNQTTLYQRYEIKMTKMYKGFQALGDAADIRFVYTPAMESVCGYFHRSHNRSEEFLIAGKLQDGLLHITTCSFVAPWNSLSLAQRRGFTKTYTVGC 147
               SCOP domains d2j0tf_ F: TIMP-1                                                                                                            SCOP domains
               CATH domains 2j0tF00 F:1-124  [code=2.40.50.120, no name defined]                                                                         CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .ee...hhhhhhhhh............ee.....eeeeeeeeeeeee..................hhhhh...........eeeeeeeee...........eee.hhh...hhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) TIMP         --------------------------------------------------------------------------------------------------------------- PROSITE (1)
                PROSITE (2) NTR  PDB: F:1-124 UniProt: 24-147                                                                                            PROSITE (2)
           Transcript 1 (1) Exon 1.3          --------------------------Exon 1.4d  PDB: F:45-87 UniProt: 68-110    ------------------------------------- Transcript 1 (1)
           Transcript 1 (2) -----------------Exon 1.4a  PDB: F:18-44    ------------------------------------------Exon 1.4g  PDB: F:87-124 [INCOMPLETE]  Transcript 1 (2)
                 2j0t F   1 CTCVPPHPQTAFCNSDLVIRAKFVGTPEVNQTTLYQRYEIKMTKMYKGFQALGDAADIRFVYTPAMESVCGYFHRSHNRSEEFLIAGKLQDGLLHITTCSFVAPWNSLSLAQRRGFTKTYTVGC 124
                                    10        20        30        40        50        60        70        80        90       100       110       120

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(

)

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	2j0tB00	B:105-266
1b	2j0tA00	A:105-265
1c	2j0tC00	C:105-263

Class: Mainly Beta (13760)

Architecture: Beta Barrel (4804)

Topology: OB fold (Dihydrolipoamide Acetyltransferase, E2P) (1040)

Homologous Superfamily: [code=2.40.50.120, no name defined] (16)

Human (Homo sapiens) (12)

2a	2j0tD00	D:1-124
2b	2j0tE00	E:1-124
2c	2j0tF00	F:1-124

(no "Pfam Domain" information available for 2J0T)

Asymmetric Unit(hide GO term definitions)

Chain A,B,C (MMP1_HUMAN | P03956)

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:0044267	cellular protein metabolic process	The chemical reactions and pathways involving a specific protein, rather than of proteins in general, occurring at the level of an individual cell. Includes cellular protein modification.
	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:0050900	leukocyte migration	The movement of a leukocyte within or between different tissues and organs of the body.
	GO:0032461	positive regulation of protein oligomerization	Any process that activates or increases the frequency, rate or extent of protein oligomerization.
	GO:0006508	proteolysis	The hydrolysis of proteins into smaller polypeptides and/or amino acids by cleavage of their peptide bonds.
	GO:0016032	viral process	A multi-organism process in which a virus is a participant. The other participant is the host. Includes infection of a host cell, replication of the viral genome, and assembly of progeny virus particles. In some cases the viral genetic material may integrate into the host genome and only subsequently, under particular circumstances, 'complete' its life cycle.
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.

Chain D,E,F (TIMP1_HUMAN | P01033)

molecular function
	GO:0005125	cytokine activity	Functions to control the survival, growth, differentiation and effector function of tissues and cells.
	GO:0004857	enzyme inhibitor activity	Binds to and stops, prevents or reduces the activity of an enzyme.
	GO:0008083	growth factor activity	The function that stimulates a cell to grow or proliferate. Most growth factors have other actions besides the induction of cell growth or proliferation.
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
	GO:0008191	metalloendopeptidase inhibitor activity	Stops, prevents or reduces the activity of metalloendopeptidases, enzymes that catalyze the hydrolysis of nonterminal peptide bonds in a polypeptide chain and contain a chelated metal ion at their active sites which is essential to their catalytic activity.
	GO:0030414	peptidase inhibitor activity	Stops, prevents or reduces the activity of a peptidase, any enzyme that catalyzes the hydrolysis peptide bonds.
	GO:0002020	protease binding	Interacting selectively and non-covalently with any protease or peptidase.
	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).
biological process
	GO:0007568	aging	A developmental process that is a deterioration and loss of function over time. Aging includes loss of functions such as resistance to disease, homeostasis, and fertility, as well as wear and tear. Aging includes cellular senescence, but is more inclusive. May precede death and may succeed developmental maturation (GO:0021700).
	GO:0051216	cartilage development	The process whose specific outcome is the progression of a cartilage element over time, from its formation to the mature structure. Cartilage elements are skeletal elements that consist of connective tissue dominated by extracellular matrix containing collagen type II and large amounts of proteoglycan, particularly chondroitin sulfate.
	GO:0001775	cell activation	A change in the morphology or behavior of a cell resulting from exposure to an activating factor such as a cellular or soluble ligand.
	GO:0022617	extracellular matrix disassembly	A process that results in the breakdown of the extracellular matrix.
	GO:0043066	negative regulation of apoptotic process	Any process that stops, prevents, or reduces the frequency, rate or extent of cell death by apoptotic process.
	GO:0043086	negative regulation of catalytic activity	Any process that stops or reduces the activity of an enzyme.
	GO:0010951	negative regulation of endopeptidase activity	Any process that decreases the frequency, rate or extent of endopeptidase activity, the endohydrolysis of peptide bonds within proteins.
	GO:0051045	negative regulation of membrane protein ectodomain proteolysis	Any process that stops, prevents, or reduces the frequency, rate or extent of membrane protein ectodomain proteolysis.
	GO:0010466	negative regulation of peptidase activity	Any process that stops or reduces the rate of peptidase activity, the hydrolysis of peptide bonds within proteins.
	GO:1901164	negative regulation of trophoblast cell migration	Any process that stops, prevents or reduces the frequency, rate or extent of trophoblast cell migration.
	GO:0002576	platelet degranulation	The regulated exocytosis of secretory granules containing preformed mediators such as histamine and serotonin by a platelet.
	GO:0008284	positive regulation of cell proliferation	Any process that activates or increases the rate or extent of cell proliferation.
	GO:2001044	regulation of integrin-mediated signaling pathway	Any process that modulates the frequency, rate or extent of integrin-mediated signaling pathway.
	GO:0034097	response to cytokine	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 cytokine stimulus.
	GO:0009725	response to hormone	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 hormone stimulus.
	GO:0010033	response to organic substance	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 substance stimulus.
	GO:0043434	response to peptide hormone	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 peptide hormone stimulus. A peptide hormone is any of a class of peptides that are secreted into the blood stream and have endocrine functions in living animals.
	GO:0042060	wound healing	The series of events that restore integrity to a damaged tissue, following an injury.
cellular component
	GO:0005604	basement membrane	A thin layer of dense material found in various animal tissues interposed between the cells and the adjacent connective tissue. It consists of the basal lamina plus an associated layer of reticulin fibers.
	GO:0070062	extracellular exosome	A vesicle that is released into the extracellular region by fusion of the limiting endosomal membrane of a multivesicular body with the plasma membrane. Extracellular exosomes, also simply called exosomes, have a diameter of about 40-100 nm.
	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: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.
	GO:0031093	platelet alpha granule lumen	The volume enclosed by the membrane of the platelet alpha granule.
	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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	2j0t
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	3.4.24.7
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1ayk	INHIBITOR-FREE CATALYTIC FRAGMENT OF HUMAN FIBROBLAST COLLAGENASE, NMR, 30 STRUCTURES
1cge	COLLAGENASE (CATALYTIC DOMAIN) CRYSTAL FORM I
1cgf	FIBROBLAST COLLAGENASE (CATALYTIC DOMAIN) BINARY COMPLEX (CRYSTAL FORM II)
1cgl	COLLAGENASE (CATALYTIC DOMAIN)
1d2b	THE MMP-INHIBITORY, N-TERMINAL DOMAIN OF HUMAN TISSUEINHIBITOR OF METALLOPROTEINASES-1 ( N-TIMP-1), SOLUTION NMR,29 STRUCTURES
1hfc	FIBROBLAST COLLAGENASE
1lqn	THEORITICAL MODEL OF HUMAN METALLOPROTEINASE INHIBITOR 1
1oo9	ORIENTATION IN SOLUTION OF MMP-3 CATALYTIC DOMAIN AND N-TIMP-1 FROM RESIDUAL DIPOLAR COUPLINGS
1su3	X-RAY STRUCTURE OF HUMAN PROMMP-1: NEW INSIGHTS INTOCOLLAGENASE ACTION
1uea	MMP-3/TIMP-1 COMPLEX
2ayk	INHIBITOR-FREE CATALYTIC FRAGMENT OF HUMAN FIBROBLAST COLLAGENASE, NMR, MINIMIZED AVERAGE STRUCTURE
2clt	CRYSTAL STRUCTURE OF THE ACTIVE FORM (FULL- LENGTH) OF HUMAN FIBROBLAST COLLAGENASE.
2tcl	MOL_ID: 1; MOLECULE: FIBROBLAST COLLAGENASE; CHAIN: NULL; FRAGMENT: CATALYTIC DOMAIN; HETEROGEN: SYNTHETIC INHIBITOR
3ayk	CATALYTIC FRAGMENT OF HUMAN FIBROBLAST COLLAGENASE COMPLEXED WITH CGS-27023A, NMR, MINIMIZED AVERAGE STRUCTURE
4ayk	CATALYTIC FRAGMENT OF HUMAN FIBROBLAST COLLAGENASE COMPLEXED WITH CGS-27023A, NMR, 30 STRUCTURES
966c	CRYSTAL STRUCTURE OF FIBROBLAST COLLAGENASE-1 COMPLEXED TO A DIPHENYL-ETHER SULPHONE BASED HYDROXAMIC ACID

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (2, 15)

Sites (15, 15)

SS Bonds (9, 9)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (3, 9)

PROSITE Motifs (3, 9)

Exons (9, 27)

Sequences/Alignments

Classification and Annotation

SCOP Domains (2, 6)

CATH Domains (2, 6)

Pfam Domains (0, 0)

Gene Ontology (47, 52)

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Related Entries

Entries Sharing at Least One Protein Chain (UniProt ID)

Related Entries Specified in the PDB File