1DVM - 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)

Title :   ACTIVE FORM OF HUMAN PAI-1

Authors :   T. J. Stout, H. Graham, D. I. Buckley, D. J. Matthews

Date :   21 Jan 00 (Deposition) - 06 Sep 00 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.40

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

Keywords :   Serpin, Pai-1, Inhibitor, Blood Clotting (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   T. J. Stout, H. Graham, D. I. Buckley, D. J. Matthews
Structures Of Active And Latent Pai-1: A Possible Stabilizing Role For Chloride Ions.
Biochemistry V. 39 8460 2000
PubMed-ID: 10913251 | Reference-DOI: 10.1021/BI000290W
(for further references see the PDB file header)

Molecule 1 - PLASMINOGEN ACTIVATOR INHIBITOR-1
	Chains	:	A, B, C, D
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PTRCHIS2A
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Gene	:	UMBILICAL VEIN ENDOTHELIUM LIBRARY
	Mutation	:	YES
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (1, 4)

No.	Name	Count	Type	Full Name
1	CL	4	Ligand/Ion	CHLORIDE ION

Biological Unit 1 (0, 0)

No.	Name	Count	Type	Full Name
1	CL	-1	Ligand/Ion	CHLORIDE ION

Biological Unit 2 (0, 0)

No.	Name	Count	Type	Full Name
1	CL	-1	Ligand/Ion	CHLORIDE ION

Biological Unit 3 (0, 0)

No.	Name	Count	Type	Full Name
1	CL	-1	Ligand/Ion	CHLORIDE ION

Biological Unit 4 (0, 0)

No.	Name	Count	Type	Full Name
1	CL	-1	Ligand/Ion	CHLORIDE ION

Asymmetric Unit (4, 4)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	SER A:149 , HIS A:150 , LYS A:323 , LYS A:325	BINDING SITE FOR RESIDUE CL A 1001
2	AC2	SOFTWARE	ILE D:148 , SER D:149 , HIS D:150 , LYS D:323 , LYS D:325	BINDING SITE FOR RESIDUE CL D 1002
3	AC3	SOFTWARE	ILE C:148 , SER C:149 , HIS C:150 , LYS C:323 , HOH C:1235	BINDING SITE FOR RESIDUE CL C 1003
4	AC4	SOFTWARE	ILE B:148 , SER B:149 , HIS B:150 , LYS B:323 , LYS B:325	BINDING SITE FOR RESIDUE CL B 1004

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

Asymmetric Unit

No.	Residues
1	Glu D:313	-	Pro D:314

Asymmetric Unit (2, 8)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_013087	R	209	H	PAI1_HUMAN	Polymorphism	2227669	A/B/C/D	R	186	H
2	UniProt	VAR_013088	T	255	N	PAI1_HUMAN	Polymorphism	2227685	A/B/C/D	T	232	N

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

Biological Unit 1 (2, 2)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_013087	R	209	H	PAI1_HUMAN	Polymorphism	2227669	A	R	186	H
2	UniProt	VAR_013088	T	255	N	PAI1_HUMAN	Polymorphism	2227685	A	T	232	N

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

Biological Unit 2 (2, 2)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_013087	R	209	H	PAI1_HUMAN	Polymorphism	2227669	B	R	186	H
2	UniProt	VAR_013088	T	255	N	PAI1_HUMAN	Polymorphism	2227685	B	T	232	N

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

Biological Unit 3 (2, 2)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_013087	R	209	H	PAI1_HUMAN	Polymorphism	2227669	C	R	186	H
2	UniProt	VAR_013088	T	255	N	PAI1_HUMAN	Polymorphism	2227685	C	T	232	N

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

Biological Unit 4 (2, 2)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_013087	R	209	H	PAI1_HUMAN	Polymorphism	2227669	D	R	186	H
2	UniProt	VAR_013088	T	255	N	PAI1_HUMAN	Polymorphism	2227685	D	T	232	N

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

Asymmetric Unit (1, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	SERPIN	PS00284	Serpins signature.	PAI1_HUMAN	375-385	4	A:352-362 B:352-362 C:352-362 D:352-362

Biological Unit 1 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	SERPIN	PS00284	Serpins signature.	PAI1_HUMAN	375-385	1	A:352-362 - - -

Biological Unit 2 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	SERPIN	PS00284	Serpins signature.	PAI1_HUMAN	375-385	1	- B:352-362 - -

Biological Unit 3 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	SERPIN	PS00284	Serpins signature.	PAI1_HUMAN	375-385	1	- - C:352-362 -

Biological Unit 4 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	SERPIN	PS00284	Serpins signature.	PAI1_HUMAN	375-385	1	- - - D:352-362

Asymmetric Unit (8, 32)

	ENSEMBL					UniProtKB			PDB
No.	Transcript ID	Exon	Exon ID	Genome Location	Length	ID	Location	Length	Count	Location	Length
1.1a	ENST00000223095	1a	ENSE00001714420	chr7:100770370-100770525	156	PAI1_HUMAN	-	0	0	-	-
1.2b	ENST00000223095	2b	ENSE00000881563	chr7:100771674-100771945	272	PAI1_HUMAN	1-91	91	4	A:4-68 B:4-68 C:5-68 D:4-68	65 65 64 65
1.3b	ENST00000223095	3b	ENSE00000712140	chr7:100773702-100773935	234	PAI1_HUMAN	91-169	79	4	A:68-146 B:68-146 C:68-146 D:68-146	79 79 79 79
1.4	ENST00000223095	4	ENSE00000712144	chr7:100775156-100775350	195	PAI1_HUMAN	169-234	66	4	A:146-211 B:146-211 C:146-211 D:146-211	66 66 66 66
1.5a	ENST00000223095	5a	ENSE00000712149	chr7:100776976-100777174	199	PAI1_HUMAN	234-300	67	4	A:211-277 B:211-277 C:211-277 D:211-277	67 67 67 67
1.6	ENST00000223095	6	ENSE00000712153	chr7:100778775-100778875	101	PAI1_HUMAN	300-334	35	4	A:277-311 B:277-311 C:277-311 D:277-311	35 35 35 35
1.7	ENST00000223095	7	ENSE00000712158	chr7:100778996-100779082	87	PAI1_HUMAN	334-363	30	4	A:311-340 (gaps) B:311-335 C:311-332 D:311-340 (gaps)	30 25 22 30
1.8	ENST00000223095	8	ENSE00000712164	chr7:100780282-100780365	84	PAI1_HUMAN	363-391	29	4	A:340-368 B:347-368 C:344-368 D:340-368	29 22 25 29
1.9a	ENST00000223095	9a	ENSE00001055519	chr7:100780686-100782547	1862	PAI1_HUMAN	391-402	12	4	A:368-379 B:368-379 C:368-379 D:368-379	12 12 12 12

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:375
 aligned with PAI1_HUMAN | P05121 from UniProtKB/Swiss-Prot  Length:402

    Alignment length:376
                                    36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306       316       326       336       346       356       366       376       386       396      
           PAI1_HUMAN    27 PPSYVAHLASDFGVRVFQQVAQASKDRNVVFSPYGVASVLAMLQLTTGGETQQQIQAAMGFKIDDKGMAPALRHLYKELMGPWNKDEISTTDAIFVQRDLKLVQGFMPHFFRLFRSTVKQVDFSEVERARFIINDWVKTHTKGMISNLLGKGAVDQLTRLVLVNALYFNGQWKTPFPDSSTHRRLFHKSDGSTVSVPMMAQTNKFNYTEFTTPDGHYYDILELPYHGDTLSMFIAAPYEKEVPLSALTNILSAQLISHWKGNMTRLPRLLVLPKFSLETEVDLRKPLENLGMTDMFRQFQADFTSLSDQEPLHVAQALQKVKIEVNESGTVASSSTAVIVSARMAPEEIIMDRPFLFVVRHNPTGTVLFMGQVMEP 402
               SCOP domains d1dvma_ A: Plasminogen activator inhibitor-1                                                                                                                                                                                                                                                                                                                                             SCOP domains
               CATH domains -----------------------------1dvmA01 A:33-170,A:281-325,A:336-346 Antithrombin, subunit I, domain 2                                                                    1dvmA02 A:171-280,A:326-335 Alpha-1-antitrypsin, domain 1                                                     1dvmA01 A:33-170,A:281-325,A:336-346         1dvmA02   1dv mA01   --------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhh...eee..hhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhh.......eeeeeeeeee.......hhhhhhhhhhh...eee...hhhhhhhhhhhhhhhh........hhhhhh.....eeeeeeeeee............eeeeee.....eeeeeeeeeeeeeeeeeee.....eeeeeeee.hhh.eeeeeeee......hhhhhh..hhhhhhhhhhhheeeeeeeeee.eeeeeee.hhhhhhh...hhhhh..................eeeeeeeeee..........-..........eeee....eeeeeee....eeeeeeee... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------H---------------------------------------------N--------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------SERPIN     ----------------- PROSITE
           Transcript 1 (1) Exon 1.2b  PDB: A:4-68 UniProt: 1-91 [INCOMPLETE]                -----------------------------------------------------------------------------Exon 1.4  PDB: A:146-211 UniProt: 169-234                         -----------------------------------------------------------------Exon 1.6  PDB: A:277-311           ----------------------------Exon 1.8  PDB: A:340-368     ----------- Transcript 1 (1)
           Transcript 1 (2) ----------------------------------------------------------------Exon 1.3b  PDB: A:68-146 UniProt: 91-169                                       ----------------------------------------------------------------Exon 1.5a  PDB: A:211-277 UniProt: 234-300                         ---------------------------------Exon 1.7  PDB: A:311-340 (gaps---------------------------Exon 1.9a    Transcript 1 (2)
                 1dvm A   4 PPSYVAHLASDFGVRVFQQVAQASKDRNVVFSPYGVASVLAMLQLTTGGETQQQIQAAMGFKIDDKGMAPALRHLYKELMGPWNKDEISTTDAIFVQRDLKLVQGFMPHFFRLFRSTVKQVDFSEVERARFIINDWVKTHTKGMISHLLGTGAVQQLTRLVLVNALYFNGQWKTPFPDSSTHRRLFHKSDGSTVSVPMMAQTNKFNYTEFTTPDGHYYDILELPYHGDTLSMFIAAPYEKEVPLSALTNILSAQLISHWKGNMTRLPRLLVLPKFSLETEVDLRKPLENLGMTDMFRQFQADFTSLSDQEPLHVALALQKVKIEVNESGTVASSS-AVIVSARMAPEEIIIDRPFLFVVRHNPTGTVLFMGQVMEP 379
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333    | |343       353       363       373      
                                                                                                                                                                                                                                                                                                                                                                        338 |                                       
                                                                                                                                                                                                                                                                                                                                                                          340

Chain B from PDB  Type:PROTEIN  Length:365
 aligned with PAI1_HUMAN | P05121 from UniProtKB/Swiss-Prot  Length:402

    Alignment length:376
                                    36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306       316       326       336       346       356       366       376       386       396      
           PAI1_HUMAN    27 PPSYVAHLASDFGVRVFQQVAQASKDRNVVFSPYGVASVLAMLQLTTGGETQQQIQAAMGFKIDDKGMAPALRHLYKELMGPWNKDEISTTDAIFVQRDLKLVQGFMPHFFRLFRSTVKQVDFSEVERARFIINDWVKTHTKGMISNLLGKGAVDQLTRLVLVNALYFNGQWKTPFPDSSTHRRLFHKSDGSTVSVPMMAQTNKFNYTEFTTPDGHYYDILELPYHGDTLSMFIAAPYEKEVPLSALTNILSAQLISHWKGNMTRLPRLLVLPKFSLETEVDLRKPLENLGMTDMFRQFQADFTSLSDQEPLHVAQALQKVKIEVNESGTVASSSTAVIVSARMAPEEIIMDRPFLFVVRHNPTGTVLFMGQVMEP 402
               SCOP domains d1dvmb_ B: Plasminogen activator inhibitor-1                                                                                                                                                                                                                                                                                                                                             SCOP domains
               CATH domains -----------------------------1dvmB01 B:33-170,B:281-325,B:347-356 Antithrombin, subunit I, domain 2                                                                    1dvmB02 B:171-280,B:326-335 Alpha-1-antitrypsin, domain 1                                                     1dvmB01 B:33-170,B:281-325,B:347-356         1dvmB02   -----------1dvmB01   ----------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhh......eeehhhhhhhhhhhhh...hhhhhhhhhhhhh......hhhhhhhhhhhhhh.......eeeeeeeeee.......hhhhhhhhhhh...eee...hhhhhhhhhhhhhhhh.......hhhhhhh.....eeeeeeeeee............eeeeee.....eeeeeeeeeeeeeeeeeee.....eeeeeeee.hhh.eeeeeeee......hhhhhh..hhhhhhhhhhh.eeeeeeeeee.eeeeeeeehhhhhhhh..hhhhh..................eeeeeeeeee.......-----------.....ee....eeeeeee.....eeeeeee... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------H---------------------------------------------N--------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------SERPIN     ----------------- PROSITE
           Transcript 1 (1) Exon 1.2b  PDB: B:4-68 UniProt: 1-91 [INCOMPLETE]                -----------------------------------------------------------------------------Exon 1.4  PDB: B:146-211 UniProt: 169-234                         -----------------------------------------------------------------Exon 1.6  PDB: B:277-311           ----------------------------Exon 1.8  PDB: B:347-368     ----------- Transcript 1 (1)
           Transcript 1 (2) ----------------------------------------------------------------Exon 1.3b  PDB: B:68-146 UniProt: 91-169                                       ----------------------------------------------------------------Exon 1.5a  PDB: B:211-277 UniProt: 234-300                         ---------------------------------Exon 1.7  PDB: B:311-335      ---------------------------Exon 1.9a    Transcript 1 (2)
                 1dvm B   4 PPSYVAHLASDFGVRVFQQVAQASKDRNVVFSPYGVASVLAMLQLTTGGETQQQIQAAMGFKIDDKGMAPALRHLYKELMGPWNKDEISTTDAIFVQRDLKLVQGFMPHFFRLFRSTVKQVDFSEVERARFIINDWVKTHTKGMISHLLGTGAVQQLTRLVLVNALYFNGQWKTPFPDSSTHRRLFHKSDGSTVSVPMMAQTNKFNYTEFTTPDGHYYDILELPYHGDTLSMFIAAPYEKEVPLSALTNILSAQLISHWKGNMTRLPRLLVLPKFSLETEVDLRKPLENLGMTDMFRQFQADFTSLSDQEPLHVALALQKVKIEVNESGTVA-----------MAPEEIIIDRPFLFVVRHNPTGTVLFMGQVMEP 379
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333 |       -   |   353       363       373      
                                                                                                                                                                                                                                                                                                                                                                     335         347

Chain C from PDB  Type:PROTEIN  Length:364
 aligned with PAI1_HUMAN | P05121 from UniProtKB/Swiss-Prot  Length:402

    Alignment length:375
                                    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     
           PAI1_HUMAN    28 PSYVAHLASDFGVRVFQQVAQASKDRNVVFSPYGVASVLAMLQLTTGGETQQQIQAAMGFKIDDKGMAPALRHLYKELMGPWNKDEISTTDAIFVQRDLKLVQGFMPHFFRLFRSTVKQVDFSEVERARFIINDWVKTHTKGMISNLLGKGAVDQLTRLVLVNALYFNGQWKTPFPDSSTHRRLFHKSDGSTVSVPMMAQTNKFNYTEFTTPDGHYYDILELPYHGDTLSMFIAAPYEKEVPLSALTNILSAQLISHWKGNMTRLPRLLVLPKFSLETEVDLRKPLENLGMTDMFRQFQADFTSLSDQEPLHVAQALQKVKIEVNESGTVASSSTAVIVSARMAPEEIIMDRPFLFVVRHNPTGTVLFMGQVMEP 402
               SCOP domains d1dvmc_ C: Plasminogen activator inhibitor-1                                                                                                                                                                                                                                                                                                                                            SCOP domains
               CATH domains ----------------------------1dvmC01 C:33-170,C:281-325,C:347-356 Antithrombin, subunit I, domain 2                                                                    1dvmC02 C:171-280,C:326-346 Alpha-1-antitrypsin, domain 1                                                     1dvmC01 C:33-170,C:281-325,C:347-356         1dvmC02              1dvmC01   ----------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhh......eeehhhhhhhhhhhhh...hhhhhhhhhhhhh......hhhhhhhhhhhhhh.......eeeeeeeeee.......hhhhhhhhhhh...eee...hhhhhhhhhhhhhhhhh......hhhhhh......eeeeeeeeee...............eee.....eee..eeeeeeeeeeeeee.....eeeeeeee.....eeeeeeee......hhhhhh..hhhhhhhhhhh.eeeeeeeeee.eeeeeeeehhhhhhh...hhhhh..................eeeeeeeeee....-----------.......eee....eeeeeee.....eeeeeee... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------H---------------------------------------------N--------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------SERPIN     ----------------- PROSITE
           Transcript 1 (1) Exon 1.2b  PDB: C:5-68 UniProt: 1-91 [INCOMPLETE]               -----------------------------------------------------------------------------Exon 1.4  PDB: C:146-211 UniProt: 169-234                         -----------------------------------------------------------------Exon 1.6  PDB: C:277-311           ----------------------------Exon 1.8  PDB: C:344-368     ----------- Transcript 1 (1)
           Transcript 1 (2) ---------------------------------------------------------------Exon 1.3b  PDB: C:68-146 UniProt: 91-169                                       ----------------------------------------------------------------Exon 1.5a  PDB: C:211-277 UniProt: 234-300                         ---------------------------------Exon 1.7  PDB: C:311-332      ---------------------------Exon 1.9a    Transcript 1 (2)
                 1dvm C   5 PSYVAHLASDFGVRVFQQVAQASKDRNVVFSPYGVASVLAMLQLTTGGETQQQIQAAMGFKIDDKGMAPALRHLYKELMGPWNKDEISTTDAIFVQRDLKLVQGFMPHFFRLFRSTVKQVDFSEVERARFIINDWVKTHTKGMISHLLGTGAVQQLTRLVLVNALYFNGQWKTPFPDSSTHRRLFHKSDGSTVSVPMMAQTNKFNYTEFTTPDGHYYDILELPYHGDTLSMFIAAPYEKEVPLSALTNILSAQLISHWKGNMTRLPRLLVLPKFSLETEVDLRKPLENLGMTDMFRQFQADFTSLSDQEPLHVALALQKVKIEVNESG-----------SARMAPEEIIIDRPFLFVVRHNPTGTVLFMGQVMEP 379
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       | -       344       354       364       374     
                                                                                                                                                                                                                                                                                                                                                                 332         344

Chain D from PDB  Type:PROTEIN  Length:372
 aligned with PAI1_HUMAN | P05121 from UniProtKB/Swiss-Prot  Length:402

    Alignment length:376
                                    36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306       316       326       336       346       356       366       376       386       396      
           PAI1_HUMAN    27 PPSYVAHLASDFGVRVFQQVAQASKDRNVVFSPYGVASVLAMLQLTTGGETQQQIQAAMGFKIDDKGMAPALRHLYKELMGPWNKDEISTTDAIFVQRDLKLVQGFMPHFFRLFRSTVKQVDFSEVERARFIINDWVKTHTKGMISNLLGKGAVDQLTRLVLVNALYFNGQWKTPFPDSSTHRRLFHKSDGSTVSVPMMAQTNKFNYTEFTTPDGHYYDILELPYHGDTLSMFIAAPYEKEVPLSALTNILSAQLISHWKGNMTRLPRLLVLPKFSLETEVDLRKPLENLGMTDMFRQFQADFTSLSDQEPLHVAQALQKVKIEVNESGTVASSSTAVIVSARMAPEEIIMDRPFLFVVRHNPTGTVLFMGQVMEP 402
               SCOP domains d1dvmd_ D: Plasminogen activator inhibitor-1                                                                                                                                                                                                                                                                                                                                             SCOP domains
               CATH domains -----------------------------1dvmD01 D:33-170,D:281-325,D:340-349 Antithrombin, subunit I, domain 2                                                                    1dvmD02 D:171-280,D:326-339 Alpha-1-antitrypsin, domain 1                                                     1dvmD01 D:33-170,D:281-325,D:340-349         1dvmD02       1dvmD01   ------------------------------ CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhhhhhh......eeehhhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhh.......eeeeeeeeee.......hhhhhhhhhhh...eee...hhhhhhhhhhhhhhhhh......hhhhhh......eeeeeeeee........hhhhhee..ee.....ee..eeeeeeeeeeeeeee.....eeeeeeee.hhh.eeeeeee.......hhhhhh..hhhhhhhhhh...eeeeeeeee.eeeeeeeehhhhhhh...hhhhh..................eeeeeeeeee.....----....eeeee...eeee....eeeeeee....eeeeeeee... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------H---------------------------------------------N--------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------SERPIN     ----------------- PROSITE
           Transcript 1 (1) Exon 1.2b  PDB: D:4-68 UniProt: 1-91 [INCOMPLETE]                -----------------------------------------------------------------------------Exon 1.4  PDB: D:146-211 UniProt: 169-234                         -----------------------------------------------------------------Exon 1.6  PDB: D:277-311           ----------------------------Exon 1.8  PDB: D:340-368     ----------- Transcript 1 (1)
           Transcript 1 (2) ----------------------------------------------------------------Exon 1.3b  PDB: D:68-146 UniProt: 91-169                                       ----------------------------------------------------------------Exon 1.5a  PDB: D:211-277 UniProt: 234-300                         ---------------------------------Exon 1.7  PDB: D:311-340 (gaps---------------------------Exon 1.9a    Transcript 1 (2)
                 1dvm D   4 PPSYVAHLASDFGVRVFQQVAQASKDRNVVFSPYGVASVLAMLQLTTGGETQQQIQAAMGFKIDDKGMAPALRHLYKELMGPWNKDEISTTDAIFVQRDLKLVQGFMPHFFRLFRSTVKQVDFSEVERARFIINDWVKTHTKGMISHLLGTGAVQQLTRLVLVNALYFNGQWKTPFPDSSTHRRLFHKSDGSTVSVPMMAQTNKFNYTEFTTPDGHYYDILELPYHGDTLSMFIAAPYEKEVPLSALTNILSAQLISHWKGNMTRLPRLLVLPKFSLETEVDLRKPLENLGMTDMFRQFQADFTSLSDQEPLHVALALQKVKIEVNESGT----STAVIVSARMAPEEIIIDRPFLFVVRHNPTGTVLFMGQVMEP 379
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333    |  343       353       363       373      
                                                                                                                                                                                                                                                                                                                                                                   333  338

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(

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Folds(

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Superfamilies( (-)

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Families(

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Protein Domains( (-)

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Organisms( (-)

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Class: Multi-domain proteins (alpha and beta) (2421)

Fold: Serpins (120)

Superfamily: Serpins (120)

Family: Serpins (100)

Protein domain: Plasminogen activator inhibitor-1 (16)

Human (Homo sapiens) [TaxId: 9606] (14)

1a	d1dvma_	A:
1b	d1dvmb_	B:
1c	d1dvmc_	C:
1d	d1dvmd_	D:

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: 2-Layer Sandwich (8480)

Topology: Antithrombin; Chain I, domain 2 (100)

Homologous Superfamily: Antithrombin, subunit I, domain 2 (100)

Human (Homo sapiens) (80)

1a	1dvmA01	A:33-170,A:281-325,A:336-346
1b	1dvmD01	D:33-170,D:281-325,D:340-349
1c	1dvmB01	B:33-170,B:281-325,B:347-356
1d	1dvmC01	C:33-170,C:281-325,C:347-356

Class: Mainly Beta (13760)

Architecture: Roll (1513)

Topology: Alpha-1-antitrypsin; domain 1 (101)

Homologous Superfamily: Alpha-1-antitrypsin, domain 1 (101)

Human (Homo sapiens) (81)

2a	1dvmA02	A:171-280,A:326-335
2b	1dvmB02	B:171-280,B:326-335
2c	1dvmC02	C:171-280,C:326-346
2d	1dvmD02	D:171-280,D:326-339

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

Asymmetric Unit(hide GO term definitions)

Chain A,B,C,D (PAI1_HUMAN | P05121)

molecular function
	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).
	GO:0005102	receptor binding	Interacting selectively and non-covalently with one or more specific sites on a receptor molecule, a macromolecule that undergoes combination with a hormone, neurotransmitter, drug or intracellular messenger to initiate a change in cell function.
	GO:0004867	serine-type endopeptidase inhibitor activity	Stops, prevents or reduces the activity of serine-type endopeptidases, enzymes that catalyze the hydrolysis of nonterminal peptide bonds in a polypeptide chain; a serine residue (and a histidine residue) are at the active center of the enzyme.
biological process
	GO:0001525	angiogenesis	Blood vessel formation when new vessels emerge from the proliferation of pre-existing blood vessels.
	GO:0071222	cellular response to lipopolysaccharide	Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a lipopolysaccharide stimulus; lipopolysaccharide is a major component of the cell wall of gram-negative bacteria.
	GO:0001300	chronological cell aging	The process associated with progression of the cell from its inception to the end of its lifespan that occurs when the cell is in a non-dividing, or quiescent, state.
	GO:0007623	circadian rhythm	Any biological process in an organism that recurs with a regularity of approximately 24 hours.
	GO:0050829	defense response to Gram-negative bacterium	Reactions triggered in response to the presence of a Gram-negative bacterium that act to protect the cell or organism.
	GO:0030198	extracellular matrix organization	A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of an extracellular matrix.
	GO:0042730	fibrinolysis	A process that solubilizes fibrin in the bloodstream of a multicellular organism, chiefly by the proteolytic action of plasmin.
	GO:0030195	negative regulation of blood coagulation	Any process that stops, prevents, or reduces the frequency, rate or extent of blood coagulation.
	GO:0033629	negative regulation of cell adhesion mediated by integrin	Any process that stops, prevents, or reduces the frequency, rate, or extent of cell adhesion mediated by integrin.
	GO:0030336	negative regulation of cell migration	Any process that stops, prevents, or reduces the frequency, rate or extent of cell migration.
	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:2000352	negative regulation of endothelial cell apoptotic process	Any process that stops, prevents or reduces the frequency, rate or extent of endothelial cell apoptotic process.
	GO:1902042	negative regulation of extrinsic apoptotic signaling pathway via death domain receptors	Any process that stops, prevents or reduces the frequency, rate or extent of extrinsic apoptotic signaling pathway via death domain receptors.
	GO:0051918	negative regulation of fibrinolysis	Any process that stops, prevents, or reduces the frequency, rate or extent of fibrinolysis, an ongoing process that solubilizes fibrin, resulting in the removal of small blood clots.
	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:0010757	negative regulation of plasminogen activation	Any process that decreases the rate, frequency or extent of plasminogen activation. Plasminogen activation is the process in which plasminogen is processed to plasmin.
	GO:0014912	negative regulation of smooth muscle cell migration	Any process that stops, prevents, or reduces the frequency, rate or extent of smooth muscle cell migration.
	GO:2000098	negative regulation of smooth muscle cell-matrix adhesion	Any process that stops, prevents, or reduces the frequency, rate or extent of smooth muscle cell-matrix adhesion.
	GO:0061044	negative regulation of vascular wound healing	Any process that decreases the rate, frequency, or extent of blood vessel formation when new vessels emerge from the proliferation of pre-existing blood vessels and contribute to the series of events that restore integrity to damaged vasculature.
	GO:0061045	negative regulation of wound healing	Any process that decreases the rate, frequency, or extent of the series of events that restore integrity to a damaged tissue, following an injury.
	GO:0002576	platelet degranulation	The regulated exocytosis of secretory granules containing preformed mediators such as histamine and serotonin by a platelet.
	GO:0045766	positive regulation of angiogenesis	Any process that activates or increases angiogenesis.
	GO:0030194	positive regulation of blood coagulation	Any process that activates or increases the frequency, rate or extent of blood coagulation.
	GO:0050729	positive regulation of inflammatory response	Any process that activates or increases the frequency, rate or extent of the inflammatory response.
	GO:0032757	positive regulation of interleukin-8 production	Any process that activates or increases the frequency, rate, or extent of interleukin-8 production.
	GO:0035491	positive regulation of leukotriene production involved in inflammatory response	Any process that increases the rate, frequency or extent of the synthesis or release of any leukotriene following a stimulus as part of an inflammatory response.
	GO:0090026	positive regulation of monocyte chemotaxis	Any process that increases the frequency, rate, or extent of monocyte chemotaxis.
	GO:0048260	positive regulation of receptor-mediated endocytosis	Any process that activates or increases the frequency, rate or extent of receptor mediated endocytosis, the uptake of external materials by cells, utilizing receptors to ensure specificity of transport.
	GO:0045944	positive regulation of transcription from RNA polymerase II promoter	Any process that activates or increases the frequency, rate or extent of transcription from an RNA polymerase II promoter.
	GO:0010469	regulation of receptor activity	Any process that modulates the frequency, rate or extent of receptor activity. Receptor activity is when a molecule combines with an extracellular or intracellular messenger to initiate a change in cell activity.
cellular component
	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:0005886	plasma membrane	The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.
	GO:0031093	platelet alpha granule lumen	The volume enclosed by the membrane of the platelet alpha granule.

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	1dvm
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	PAI1_HUMAN \| P05121
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1a7c	PLASMINOGEN ACTIVATOR INHIBITOR TYPE 1 COMPLEX (PROTEASE INHIBITOR/PEPTIDE)
1b3k	PLASMINOGEN ACTIVATOR INHIBITOR-1
1c5g	PLASMINOGEN ACTIVATOR INHIBITOR-1
1db2	PLASMINOGEN ACTIVATOR INHIBITOR-1
1dvn	LATENT FORM OF PAI-1

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (1, 4)

Sites (4, 4)

SS Bonds (0, 0)

Cis Peptide Bonds (1, 1)

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Exons (8, 32)

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