1NL0 - 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)

Title :   CRYSTAL STRUCTURE OF HUMAN FACTOR IX GLA DOMAIN IN COMPLEX OF AN INHIBITORY ANTIBODY, 10C12

Authors :   M. Huang, B. C. Furie, B. Furie

Date :   06 Jan 03 (Deposition) - 20 Jan 04 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.20

Chains :   Asym. Unit : G,H,L
Biol. Unit 1: G,H,L  (1x)
Biol. Unit 2: G,H,L  (2x)

Keywords :   Immune System, Antibody, Gla Domain (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   M. Huang, B. C. Furie, B. Furie
Crystal Structure Of The Calcium-Stabilized Human Factor Ix Gla Domain Bound To A Conformation-Specific Anti-Factor Ix Antibody.
J. Biol. Chem. V. 279 14338 2004
PubMed-ID: 14722079 | Reference-DOI: 10.1074/JBC.M314011200
(for further references see the PDB file header)

Molecule 1 - ANTI-FACTOR IX ANTIBODY, 10C12, CHAIN L
	Chains	:	L
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Taxid	:	562
	Gene	:	10C12
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606

Molecule 2 - ANTI-FACTOR IX ANTIBODY, 10C12, CHAIN H
	Chains	:	H
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Taxid	:	562
	Gene	:	10C12
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606

Molecule 3 - FACTOR IX
	Chains	:	G
	Engineered	:	YES
	Fragment	:	GLA DOMAIN
	Other Details	:	THE PROTEIN WAS CHEMICALLY SYNTHESIZED. THE SEQUENCE OF THE PROTEIN IS NATURALLY FOUND IN HOMO SAPIENS.
	Synthetic	:	YES

		1	2	3
Asymmetric Unit	:	G	H	L
Biological Unit 1 (1x)	:	G	H	L
Biological Unit 2 (2x)	:	G	H	L

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (3, 19)

No.	Name	Count	Type	Full Name
1	CA	6	Ligand/Ion	CALCIUM ION
2	CGU	12	Mod. Amino Acid	GAMMA-CARBOXY-GLUTAMIC ACID
3	SO4	1	Ligand/Ion	SULFATE ION

Biological Unit 1 (2, 13)

No.	Name	Count	Type	Full Name
1	CA	-1	Ligand/Ion	CALCIUM ION
2	CGU	12	Mod. Amino Acid	GAMMA-CARBOXY-GLUTAMIC ACID
3	SO4	1	Ligand/Ion	SULFATE ION

Biological Unit 2 (2, 26)

No.	Name	Count	Type	Full Name
1	CA	-1	Ligand/Ion	CALCIUM ION
2	CGU	24	Mod. Amino Acid	GAMMA-CARBOXY-GLUTAMIC ACID
3	SO4	2	Ligand/Ion	SULFATE ION

Asymmetric Unit (7, 7)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	CGU G:26 , CGU G:30	BINDING SITE FOR RESIDUE CA G 901
2	AC2	SOFTWARE	CGU G:8 , CGU G:27 , CGU G:30 , HOH G:921	BINDING SITE FOR RESIDUE CA G 902
3	AC3	SOFTWARE	CGU G:8 , CGU G:17 , CGU G:27 , CGU G:30 , HOH G:917	BINDING SITE FOR RESIDUE CA G 903
4	AC4	SOFTWARE	TYR G:1 , ASN G:2 , CGU G:7 , CGU G:8 , CGU G:17 , CGU G:27	BINDING SITE FOR RESIDUE CA G 904
5	AC5	SOFTWARE	TYR G:1 , CGU G:7 , CGU G:17 , CGU G:21 , HOH G:912	BINDING SITE FOR RESIDUE CA G 905
6	AC6	SOFTWARE	CGU G:15 , CGU G:20	BINDING SITE FOR RESIDUE CA G 907
7	AC7	SOFTWARE	SER L:80 , GLN L:109 , TYR L:141 , LYS L:167 , HOH L:212	BINDING SITE FOR RESIDUE SO4 L 211

Asymmetric Unit

No.	Residues
1	G:18	-	G:23
2	H:22	-	H:92
3	H:140	-	H:196
4	L:23	-	L:88
5	L:135	-	L:194

(no "Cis Peptide Bond" information available for 1NL0)

Asymmetric Unit (19, 19)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
01	UniProt	VAR_006530	N	48	I	FA9_HUMAN	Disease (HEMB)	---	G	N	2	I
02	UniProt	VAR_006531	S	49	P	FA9_HUMAN	Disease (HEMB)	---	G	S	3	P
03	UniProt	VAR_017344	L	52	S	FA9_HUMAN	Disease (HEMB)	---	G	L	6	S
04	UniProt	VAR_006532	E	53	A	FA9_HUMAN	Disease (HEMB)	---	G	E	7	A
05	UniProt	VAR_073976	E	54	D	FA9_HUMAN	Unclassified (HEMB)	---	G	E	8	D
06	UniProt	VAR_006533	E	54	G	FA9_HUMAN	Disease (HEMB)	---	G	E	8	G
07	UniProt	VAR_006534	F	55	C	FA9_HUMAN	Disease (HEMB)	---	G	F	9	C
08	UniProt	VAR_006535	G	58	A	FA9_HUMAN	Disease (HEMB)	---	G	G	12	A
09	UniProt	VAR_073977	G	58	E	FA9_HUMAN	Unclassified (HEMB)	---	G	G	12	E
10	UniProt	VAR_006536	G	58	R	FA9_HUMAN	Disease (HEMB)	---	G	G	12	R
11	UniProt	VAR_006538	E	66	V	FA9_HUMAN	Disease (HEMB)	---	G	E	20	V
12	UniProt	VAR_006539	E	67	K	FA9_HUMAN	Disease (HEMB)	---	G	E	21	K
13	UniProt	VAR_006540	F	71	S	FA9_HUMAN	Disease (HEMB)	---	G	F	25	S
14	UniProt	VAR_006541	E	73	K	FA9_HUMAN	Disease (HEMB)	137852225	G	E	27	K
15	UniProt	VAR_006542	E	73	V	FA9_HUMAN	Disease (HEMB)	137852226	G	E	27	V
16	UniProt	VAR_017308	R	75	Q	FA9_HUMAN	Disease (HEMB)	137852228	G	R	29	Q
17	UniProt	VAR_017309	E	79	D	FA9_HUMAN	Disease (HEMB)	137852229	G	E	33	D
18	UniProt	VAR_017345	T	84	R	FA9_HUMAN	Disease (HEMB)	---	G	T	38	R
19	UniProt	VAR_006543	Y	91	C	FA9_HUMAN	Disease (HEMB)	---	G	Y	45	C

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

Biological Unit 1 (19, 19)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
01	UniProt	VAR_006530	N	48	I	FA9_HUMAN	Disease (HEMB)	---	G	N	2	I
02	UniProt	VAR_006531	S	49	P	FA9_HUMAN	Disease (HEMB)	---	G	S	3	P
03	UniProt	VAR_017344	L	52	S	FA9_HUMAN	Disease (HEMB)	---	G	L	6	S
04	UniProt	VAR_006532	E	53	A	FA9_HUMAN	Disease (HEMB)	---	G	E	7	A
05	UniProt	VAR_073976	E	54	D	FA9_HUMAN	Unclassified (HEMB)	---	G	E	8	D
06	UniProt	VAR_006533	E	54	G	FA9_HUMAN	Disease (HEMB)	---	G	E	8	G
07	UniProt	VAR_006534	F	55	C	FA9_HUMAN	Disease (HEMB)	---	G	F	9	C
08	UniProt	VAR_006535	G	58	A	FA9_HUMAN	Disease (HEMB)	---	G	G	12	A
09	UniProt	VAR_073977	G	58	E	FA9_HUMAN	Unclassified (HEMB)	---	G	G	12	E
10	UniProt	VAR_006536	G	58	R	FA9_HUMAN	Disease (HEMB)	---	G	G	12	R
11	UniProt	VAR_006538	E	66	V	FA9_HUMAN	Disease (HEMB)	---	G	E	20	V
12	UniProt	VAR_006539	E	67	K	FA9_HUMAN	Disease (HEMB)	---	G	E	21	K
13	UniProt	VAR_006540	F	71	S	FA9_HUMAN	Disease (HEMB)	---	G	F	25	S
14	UniProt	VAR_006541	E	73	K	FA9_HUMAN	Disease (HEMB)	137852225	G	E	27	K
15	UniProt	VAR_006542	E	73	V	FA9_HUMAN	Disease (HEMB)	137852226	G	E	27	V
16	UniProt	VAR_017308	R	75	Q	FA9_HUMAN	Disease (HEMB)	137852228	G	R	29	Q
17	UniProt	VAR_017309	E	79	D	FA9_HUMAN	Disease (HEMB)	137852229	G	E	33	D
18	UniProt	VAR_017345	T	84	R	FA9_HUMAN	Disease (HEMB)	---	G	T	38	R
19	UniProt	VAR_006543	Y	91	C	FA9_HUMAN	Disease (HEMB)	---	G	Y	45	C

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

Biological Unit 2 (19, 38)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
01	UniProt	VAR_006530	N	48	I	FA9_HUMAN	Disease (HEMB)	---	G	N	2	I
02	UniProt	VAR_006531	S	49	P	FA9_HUMAN	Disease (HEMB)	---	G	S	3	P
03	UniProt	VAR_017344	L	52	S	FA9_HUMAN	Disease (HEMB)	---	G	L	6	S
04	UniProt	VAR_006532	E	53	A	FA9_HUMAN	Disease (HEMB)	---	G	E	7	A
05	UniProt	VAR_073976	E	54	D	FA9_HUMAN	Unclassified (HEMB)	---	G	E	8	D
06	UniProt	VAR_006533	E	54	G	FA9_HUMAN	Disease (HEMB)	---	G	E	8	G
07	UniProt	VAR_006534	F	55	C	FA9_HUMAN	Disease (HEMB)	---	G	F	9	C
08	UniProt	VAR_006535	G	58	A	FA9_HUMAN	Disease (HEMB)	---	G	G	12	A
09	UniProt	VAR_073977	G	58	E	FA9_HUMAN	Unclassified (HEMB)	---	G	G	12	E
10	UniProt	VAR_006536	G	58	R	FA9_HUMAN	Disease (HEMB)	---	G	G	12	R
11	UniProt	VAR_006538	E	66	V	FA9_HUMAN	Disease (HEMB)	---	G	E	20	V
12	UniProt	VAR_006539	E	67	K	FA9_HUMAN	Disease (HEMB)	---	G	E	21	K
13	UniProt	VAR_006540	F	71	S	FA9_HUMAN	Disease (HEMB)	---	G	F	25	S
14	UniProt	VAR_006541	E	73	K	FA9_HUMAN	Disease (HEMB)	137852225	G	E	27	K
15	UniProt	VAR_006542	E	73	V	FA9_HUMAN	Disease (HEMB)	137852226	G	E	27	V
16	UniProt	VAR_017308	R	75	Q	FA9_HUMAN	Disease (HEMB)	137852228	G	R	29	Q
17	UniProt	VAR_017309	E	79	D	FA9_HUMAN	Disease (HEMB)	137852229	G	E	33	D
18	UniProt	VAR_017345	T	84	R	FA9_HUMAN	Disease (HEMB)	---	G	T	38	R
19	UniProt	VAR_006543	Y	91	C	FA9_HUMAN	Disease (HEMB)	---	G	Y	45	C

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

Asymmetric Unit (2, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	GLA_2	PS50998	Gla domain profile.	FA9_HUMAN	47-93	1	G:1-45
2	GLA_1	PS00011	Vitamin K-dependent carboxylation domain.	FA9_HUMAN	63-88	1	G:17-42

Biological Unit 1 (2, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	GLA_2	PS50998	Gla domain profile.	FA9_HUMAN	47-93	1	G:1-45
2	GLA_1	PS00011	Vitamin K-dependent carboxylation domain.	FA9_HUMAN	63-88	1	G:17-42

Biological Unit 2 (2, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	GLA_2	PS50998	Gla domain profile.	FA9_HUMAN	47-93	2	G:1-45
2	GLA_1	PS00011	Vitamin K-dependent carboxylation domain.	FA9_HUMAN	63-88	2	G:17-42

Asymmetric Unit (2, 2)

	ENSEMBL					UniProtKB			PDB
No.	Transcript ID	Exon	Exon ID	Genome Location	Length	ID	Location	Length	Count	Location	Length
1.1b	ENST00000218099	1b	ENSE00002195519	X:138612917-138613011	95	FA9_HUMAN	1-30	30	0	-	-
1.2b	ENST00000218099	2b	ENSE00000677287	X:138619169-138619332	164	FA9_HUMAN	30-84	55	1	G:1-38	38
1.3	ENST00000218099	3	ENSE00001173335	X:138619521-138619545	25	FA9_HUMAN	85-93	9	1	G:39-45	7
1.4a	ENST00000218099	4a	ENSE00001173327	X:138623235-138623348	114	FA9_HUMAN	93-131	39	0	-	-
1.5b	ENST00000218099	5b	ENSE00001173320	X:138630522-138630650	129	FA9_HUMAN	131-174	44	0	-	-
1.6	ENST00000218099	6	ENSE00001173315	X:138633221-138633423	203	FA9_HUMAN	174-241	68	0	-	-
1.7	ENST00000218099	7	ENSE00001173311	X:138642900-138643014	115	FA9_HUMAN	242-280	39	0	-	-
1.8b	ENST00000218099	8b	ENSE00001029145	X:138643683-138645617	1935	FA9_HUMAN	280-461	182	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 G from PDB  Type:PROTEIN  Length:45
 aligned with FA9_HUMAN | P00740 from UniProtKB/Swiss-Prot  Length:461

    Alignment length:45
                                    56        66        76        86     
           FA9_HUMAN     47 YNSGKLEEFVQGNLERECMEEKCSFEEAREVFENTERTTEFWKQY   91
               SCOP domains d1nl0g_ G: Coagulation factor IX (IXa)        SCOP domains
               CATH domains 1nl0G00 G:1-45 Coagulation Factor IX          CATH domains
               Pfam domains --------------------------------------------- Pfam domains
         Sec.struct. author ............hhhhhhh....hhhhhhh...hhhhhhhhhhhh Sec.struct. author
             SAPs(SNPs) (1) -IP--SADC--A-------VK---S-K-Q---D----R------C SAPs(SNPs) (1)
             SAPs(SNPs) (2) -------G---E--------------V------------------ SAPs(SNPs) (2)
             SAPs(SNPs) (3) -----------R--------------------------------- SAPs(SNPs) (3)
                PROSITE (1) GLA_2  PDB: G:1-45 UniProt: 47-93             PROSITE (1)
                PROSITE (2) ----------------GLA_1  PDB: G:17-42       --- PROSITE (2)
               Transcript 1 Exon 1.2b  PDB: G:1-38 UniProt: 30-84 1.3     Transcript 1
                1nl0 G    1 YNSGKLeeFVQGNLeReCMeeKCSFeeAReVFeNTeRTTeFWKQY   45
                                  ||10    | | 20|    || 30  |  |  40     
                                  7-CGU  15-CGU||    ||  |  |  |   |     
                                   8-CGU   17-CGU    ||  |  |  |   |     
                                              20-CGU ||  |  |  |   |     
                                               21-CGU||  |  |  |   |     
                                                    26-CGU  |  |   |     
                                                     27-CGU |  |   |     
                                                        30-CGU |   |     
                                                           33-CGU  |     
                                                              36-CGU

Chain H from PDB  Type:PROTEIN  Length:216
                                                                                                                                                                                                                                                         
               SCOP domains d1nl0h1 H:1-113 Immunoglobulin heavy chain variable domain, VH                                                          d1nl0h2 H:114-217 Immunoglobulin heavy chain gamma constant domain 1, CH1-gamma                  SCOP domains
               CATH domains 1nl0H01 H:1-113 Immunoglobulins                                                                                         1nl0H02 H:114-214 Immunoglobulins                                                            --- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..eeeee..eee.....eeeeeeee..hhhhh.eeeeee.....eeeeeee......eee.......eeeeee....eeeeee...hhhhheeeeeeeee..eeeeeeee...eeeee........eeeee...eeeeeeeeee.....eeee.hhh....eee...ee.....eeeeeeeeehhhhh.....eeeeeehhhheeeeee....... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                1nl0 H    1 GVQLVESGGGVVQPGRSLRLSCAASGFTFSTYAMHWVRQAPGKGLEWVAIISYDGSKKYYADSVKGRFTISRDNSKNTLYLQMNSLRAEDTAVYYCARASIAAARVLDYWGRGTMVTVSSASTKGPSVFPLAPTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEPKSCD  217
                                    10        20        30        40        50  |     59        69        79   |||  86        96    |||103       113       123  ||   141       151       161       171       181       191       201       211      
                                                                              52A                            82A||               100A||                       126|                                                                                  
                                                                                                              82B|                100B|                        135                                                                                  
                                                                                                               82C                 100C

Chain L from PDB  Type:PROTEIN  Length:213
                                                                                                                                                                                                                                                      
               SCOP domains d1nl0l1 L:1-108 Immunoglobulin light chain lambda variable domain, VL-lambda                                   d1nl0l2 L:109-210 Immunoglobulin light chain lambda constant domain, CL-lambda                         SCOP domains
               CATH domains 1nl0L01 L:1-108 Immunoglobulins                                                                                1nl0L02 L:109-209 Immunoglobulins                                                                    - CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........eeee.....eeeeee....hhhhh..eeeee......eeee.............eeeeee..eeeeee...hhhhheeeeeeeee...........eeeee........eeeee..hhhhhhh..eeeeeeeeee.....eeeeee..ee....eee...ee.....eeeeeeeeehhhhhhhh..eeeeee....eeeeee... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                1nl0 L    1 QSVLTQPPSVSAAPGQKVTISCSGSTSNIGNNYVSWYQQHPGKAPKLMIYDVSKRPSGVPDRFSGSKSGNSASLDISGLQSEDEADYYCAAWDDSLSEFLFGTGTKLTVLGQPKAAPSVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQWKSHKSYSCQVTHEGSTVEKTVAPT  210
                                    11        21      ||29        39        49        59        69        79        89      ||97       107       117       127       137       147       157       167       177       187       197       207   
                                    9|              27A|                                                                  95A|                                                                                                                   
                                    11               27B                                                                   95B

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: Few Secondary Structures (1120)

Architecture: Irregular (1120)

Topology: Coagulation Factor IX (11)

Homologous Superfamily: Coagulation Factor IX (11)

Human (Homo sapiens) (5)

1nl0G00

G:1-45

Class: Mainly Beta (13760)

Architecture: Sandwich (5577)

Topology: Immunoglobulin-like (3897)

Homologous Superfamily: Immunoglobulins (2282)

Human (Homo sapiens) (912)

2a	1nl0H02	H:114-214
2b	1nl0L01	L:1-108
2c	1nl0L02	L:109-209
2d	1nl0H01	H:1-113

(no "Pfam Domain" information available for 1NL0)

Asymmetric Unit(hide GO term definitions)

Chain G (FA9_HUMAN | P00740)

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: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:0008236	serine-type peptidase activity	Catalysis of the hydrolysis of 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).
biological process
	GO:0006888	ER to Golgi vesicle-mediated transport	The directed movement of substances from the endoplasmic reticulum (ER) to the Golgi, mediated by COP II vesicles. Small COP II coated vesicles form from the ER and then fuse directly with the cis-Golgi. Larger structures are transported along microtubules to the cis-Golgi.
	GO:0007596	blood coagulation	The sequential process in which the multiple coagulation factors of the blood interact, ultimately resulting in the formation of an insoluble fibrin clot; it may be divided into three stages: stage 1, the formation of intrinsic and extrinsic prothrombin converting principle; stage 2, the formation of thrombin; stage 3, the formation of stable fibrin polymers.
	GO:0007598	blood coagulation, extrinsic pathway	A protein activation cascade that contributes to blood coagulation and consists of the self-limited process linking exposure and activation of tissue factor to the activation of clotting factor X.
	GO:0007597	blood coagulation, intrinsic pathway	A protein activation cascade that contributes to blood coagulation and consists of the interactions among high molecular weight kininogen, prekallikrein, and factor XII that lead to the activation of clotting factor X.
	GO:0007599	hemostasis	The stopping of bleeding (loss of body fluid) or the arrest of the circulation to an organ or part.
	GO:0017187	peptidyl-glutamic acid carboxylation	The gamma-carboxylation of peptidyl-glutamic acid; catalyzed by the vitamin K dependent gamma-glutamyl carboxylase.
	GO:0006508	proteolysis	The hydrolysis of proteins into smaller polypeptides and/or amino acids by cleavage of their peptide bonds.
	GO:0006465	signal peptide processing	The proteolytic removal of a signal peptide from a protein during or after transport to a specific location in the cell.
	GO:0031638	zymogen activation	The proteolytic processing of an inactive enzyme to an active form.
cellular component
	GO:0005796	Golgi lumen	The volume enclosed by the membranes of any cisterna or subcompartment of the Golgi apparatus, including the cis- and trans-Golgi networks.
	GO:0005788	endoplasmic reticulum lumen	The volume enclosed by the membranes of the endoplasmic reticulum.
	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: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.

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Description

Compounds

Structural Features

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Ligands, Modified Residues, Ions (3, 19)

Sites (7, 7)

SS Bonds (5, 5)

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