1Y61 - JenaLib

Theor.Model - manually (Jmol Viewer)

Theoretical Model (Jmol Viewer)

Title :   COAGULATION FACTOR VA MODEL

Authors :   T. Orban, M. Kalafatis, V. Gogonea

Date :   03 Dec 04 (Deposition) - 20 Sep 05 (Release) - 18 Oct 05 (Revision)

Method :   THEORETICAL MODEL

Resolution :   NOT APPLICABLE

Chains :   Theor. Model : H,L,_^#
( ^#: chains that contain no standard or modified protein/DNA/RNA residue)

Keywords :   Factor Va Model, Molecular Dynamics, Peptide Folding (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   T. Orban, M. Kalafatis, V. Gogonea
Completed Three-Dimensional Model Of Human Coagulation Factor Va. Molecular Dynamics Simulations And Structural Analyses
Biochemistry V. 44 13082 2005
PubMed: search
(for further references see the PDB file header)

Molecule 1 - COAGULATION FACTOR VA HEAVY CHAIN
	Chains	:	H
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Synonym	:	ACTIVATED PROTEIN C COFACTOR

Molecule 2 - COAGULATION FACTOR VA LIGHT CHAIN
	Chains	:	L
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Synonym	:	ACTIVATED PROTEIN C COFACTOR


Theoretical Model	:

( ^#: chains that contain no standard or modified protein/DNA/RNA residue)

Summary Information (see also Sequences/Alignments below)

Theoretical Model (2, 3)

No.	Name	Count	Type	Full Name
1	CA	2	Ligand/Ion	CALCIUM ION
2	CU	1	Ligand/Ion	COPPER (II) ION

(no "Site" information available for 1Y61)

Theoretical Model

No.	Residues
1	H:139	-	H:165
2	H:220	-	H:301
3	H:472	-	H:498
4	H:575	-	H:656
5	L:1697	-	L:1723
6	L:1879	-	L:2033
7	L:2038	-	L:2193

Theoretical Model

No.	Residues
1	Ser L:1662	-	Pro L:1663
2	Gln L:1673	-	Pro L:1674

Theoretical Model (18, 18)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
01	UniProt	VAR_013886	D	107	H	FA5_HUMAN	Polymorphism	6019	H	D	79	H
02	UniProt	VAR_013620	R	334	G	FA5_HUMAN	Polymorphism	118203905	H	R	306	G
03	UniProt	VAR_013621	R	334	T	FA5_HUMAN	Disease (THPH2)	118203906	H	R	306	T
04	UniProt	VAR_032698	I	387	T	FA5_HUMAN	Disease (THPH2)	118203911	H	I	359	T
05	UniProt	VAR_013887	M	413	T	FA5_HUMAN	Polymorphism	6033	H	M	385	T
06	UniProt	VAR_013622	R	513	K	FA5_HUMAN	Polymorphism	6020	H	R	485	K
07	UniProt	VAR_001213	R	534	Q	FA5_HUMAN	Polymorphism	6025	H	R	506	Q
08	UniProt	VAR_032699	C	613	R	FA5_HUMAN	Disease (THPH2)	---	H	C	585	R
09	UniProt	VAR_013895	T	1685	S	FA5_HUMAN	Polymorphism	6011	L	T	1657	S
10	UniProt	VAR_032700	Y	1730	C	FA5_HUMAN	Disease (FA5D)	118203907	L	Y	1702	C
11	UniProt	VAR_013896	L	1749	V	FA5_HUMAN	Polymorphism	6034	L	L	1721	V
12	UniProt	VAR_013897	M	1764	V	FA5_HUMAN	Polymorphism	6030	L	V	1736	V
13	UniProt	VAR_013898	M	1820	I	FA5_HUMAN	Polymorphism	6026	L	M	1792	I
14	UniProt	VAR_032701	R	2102	C	FA5_HUMAN	Disease (FA5D)	118203910	L	R	2074	C
15	UniProt	VAR_017329	R	2102	H	FA5_HUMAN	Disease (THPH2)	---	L	R	2074	H
16	UniProt	VAR_021302	M	2148	T	FA5_HUMAN	Polymorphism	9332701	L	M	2120	T
17	UniProt	VAR_034603	K	2185	R	FA5_HUMAN	Polymorphism	6679078	L	K	2157	R
18	UniProt	VAR_013899	D	2222	G	FA5_HUMAN	Polymorphism	6027	L	D	2194	G

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

Theoretical Model (4, 8)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	MULTICOPPER_OXIDASE1	PS00079	Multicopper oxidases signature 1.	FA5_HUMAN	304-324 1880-1900	2	H:276-296 L:1852-1872
2	FA58C_3	PS50022	Coagulation factors 5/8 type C domain (FA58C) profile.	FA5_HUMAN	1907-2061 2066-2221	2	L:1879-2033 L:2038-2193
3	FA58C_1	PS01285	Coagulation factors 5/8 type C domain (FA58C) signature 1.	FA5_HUMAN	1947-1980 2111-2140	2	L:1919-1952 L:2083-2112
4	FA58C_2	PS01286	Coagulation factors 5/8 type C domain (FA58C) signature 2.	FA5_HUMAN	2045-2061 2205-2221	2	L:2017-2033 L:2177-2193

Theoretical Model (25, 26)

	ENSEMBL					UniProtKB			PDB
No.	Transcript ID	Exon	Exon ID	Genome Location	Length	ID	Location	Length	Count	Location	Length
1.1	ENST00000367797	1	ENSE00001673787	chr1:169555826-169555467	360	FA5_HUMAN	1-53	53	1	H:1-25 -	25 -
1.2	ENST00000367797	2	ENSE00000789613	chr1:169551760-169551669	92	FA5_HUMAN	53-84	32	1	H:25-56 -	32 -
1.3	ENST00000367797	3	ENSE00000789612	chr1:169541581-169541459	123	FA5_HUMAN	84-125	42	1	H:56-97 -	42 -
1.4	ENST00000367797	4	ENSE00000789611	chr1:169530004-169529792	213	FA5_HUMAN	125-196	72	1	H:97-168 -	72 -
1.5	ENST00000367797	5	ENSE00000789610	chr1:169528534-169528391	144	FA5_HUMAN	196-244	49	1	H:168-216 -	49 -
1.6	ENST00000367797	6	ENSE00001435704	chr1:169526105-169525884	222	FA5_HUMAN	244-318	75	1	H:216-290 -	75 -
1.7	ENST00000367797	7	ENSE00001435673	chr1:169524585-169524420	166	FA5_HUMAN	318-373	56	1	H:290-345 -	56 -
1.8	ENST00000367797	8	ENSE00000789607	chr1:169521972-169521795	178	FA5_HUMAN	373-432	60	1	H:345-404 -	60 -
1.9	ENST00000367797	9	ENSE00000789606	chr1:169519977-169519878	100	FA5_HUMAN	433-466	34	1	H:405-438 -	34 -
1.10	ENST00000367797	10	ENSE00000789605	chr1:169519253-169519039	215	FA5_HUMAN	466-537	72	1	H:438-509 -	72 -
1.11	ENST00000367797	11	ENSE00000789604	chr1:169515830-169515680	151	FA5_HUMAN	538-588	51	1	H:510-560 -	51 -
1.12b	ENST00000367797	12b	ENSE00000789603	chr1:169513746-169513534	213	FA5_HUMAN	588-659	72	1	H:560-631 -	72 -
1.13	ENST00000367797	13	ENSE00000814494	chr1:169512352-169509532	2821	FA5_HUMAN	659-1599	941	2	H:631-709 L:1546-1571	79 26
1.14	ENST00000367797	14	ENSE00000814495	chr1:169505918-169505744	175	FA5_HUMAN	1599-1657	59	1	- L:1571-1629	- 59
1.15	ENST00000367797	15	ENSE00000814496	chr1:169500260-169500024	237	FA5_HUMAN	1658-1736	79	1	- L:1630-1708	- 79
1.16	ENST00000367797	16	ENSE00001376235	chr1:169499056-169498846	211	FA5_HUMAN	1737-1807	71	1	- L:1709-1779	- 71
1.17	ENST00000367797	17	ENSE00001388919	chr1:169497332-169497153	180	FA5_HUMAN	1807-1867	61	1	- L:1779-1839	- 61
1.18	ENST00000367797	18	ENSE00001367181	chr1:169495255-169495139	117	FA5_HUMAN	1867-1906	40	1	- L:1839-1878	- 40
1.19	ENST00000367797	19	ENSE00001168291	chr1:169494146-169494075	72	FA5_HUMAN	1906-1930	25	1	- L:1878-1902	- 25
1.20	ENST00000367797	20	ENSE00001168281	chr1:169493142-169493039	104	FA5_HUMAN	1930-1964	35	1	- L:1902-1936	- 35
1.21	ENST00000367797	21	ENSE00000814502	chr1:169492590-169492435	156	FA5_HUMAN	1965-2016	52	1	- L:1937-1988	- 52
1.22	ENST00000367797	22	ENSE00000814503	chr1:169489902-169489758	145	FA5_HUMAN	2017-2065	49	1	- L:1989-2037	- 49
1.23	ENST00000367797	23	ENSE00001168273	chr1:169487801-169487650	152	FA5_HUMAN	2065-2115	51	1	- L:2037-2087	- 51
1.24b	ENST00000367797	24b	ENSE00000814505	chr1:169484864-169484682	183	FA5_HUMAN	2116-2176	61	1	- L:2088-2148	- 61
1.25	ENST00000367797	25	ENSE00001627321	chr1:169483697-169483404	294	FA5_HUMAN	2177-2224	48	1	- L:2149-2196	- 48

Theoretical Model

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 H from PDB  Type:PROTEIN  Length:709
 aligned with FA5_HUMAN | P12259 from UniProtKB/Swiss-Prot  Length:2224

    Alignment length:709
                                    38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288       298       308       318       328       338       348       358       368       378       388       398       408       418       428       438       448       458       468       478       488       498       508       518       528       538       548       558       568       578       588       598       608       618       628       638       648       658       668       678       688       698       708       718       728         
           FA5_HUMAN     29 AQLRQFYVAAQGISWSYRPEPTNSSLNLSVTSFKKIVYREYEPYFKKEKPQSTISGLLGPTLYAEVGDIIKVHFKNKADKPLSIHPQGIRYSKLSEGASYLDHTFPAEKMDDAVAPGREYTYEWSISEDSGPTHDDPPCLTHIYYSHENLIEDFNSGLIGPLLICKKGTLTEGGTQKTFDKQIVLLFAVFDESKSWSQSSSLMYTVNGYVNGTMPDITVCAHDHISWHLLGMSSGPELFSIHFNGQVLEQNHHKVSAITLVSATSTTANMTVGPEGKWIISSLTPKHLQAGMQAYIDIKNCPKKTRNLKKITREQRRHMKRWEYFIAAEEVIWDYAPVIPANMDKKYRSQHLDNFSNQIGKHYKKVMYTQYEDESFTKHTVNPNMKEDGILGPIIRAQVRDTLKIVFKNMASRPYSIYPHGVTFSPYEDEVNSSFTSGRNNTMIRAVQPGETYTYKWNILEFDEPTENDAQCLTRPYYSDVDIMRDIASGLIGLLLICKSRSLDRRGIQRAADIEQQAVFAVFDENKSWYLEDNINKFCENPDEVKRDDPKFYESNIMSTINGYVPESITTLGFCFDDTVQWHFCSVGTQNEILTIHFTGHSFIYGKRHEDTLTLFPMRGESVTVTMDNVGTWMLTSMNSSPRSKKLRLKFRDVKCIPDDDEDSYEIFEPPESTVMATRKMHDRLEPEDEESDADYDYQNRLAAALGIR  737
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeeeeeeeee.................eeeeeeee.....................ee.....eeeeeeee........ee..................hhhhhh........eeeeee..hhhhh.......eeeeeee.............eeeeeee....eee..ee....eeeeeeeeeee..........eeee..................eeeeeeeee......eee................eee....eeeeeee....eee.....hhhhhhhh....eee...hhhhhhhhh..........eeeeeeeeeeeeee...........................eeeeeeeeee......................eeeee...eeeeeeee........ee.....................hhhhhh....eeeeeeee.............eeeeeee...hhhhhhhhh..eeeeee..................eeeeeeee.hhh.hhhhhhhhhh.........hhhhhhh.eeeee...........eee..eeeeeeeee.........eeee...ee....ee.ee.....eeeeeeeee.....eeee..hhhhhhhh..eeeeee................ee....ee............................... Sec.struct. author
             SAPs(SNPs) (1) ------------------------------------------------------------------------------H----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------G----------------------------------------------------T-------------------------T---------------------------------------------------------------------------------------------------K--------------------Q------------------------------------------------------------------------------R---------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs) (1)
             SAPs(SNPs) (2) -----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------T------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs) (2)
                PROSITE (1) -----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------MULTICOPPER_OXIDASE1 ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (1)
                PROSITE (2) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (2)
           Transcript 1 (1) Exon 1.1  PDB: H:1-25    ------------------------------Exon 1.3  PDB: H:56-97 UniProt: 84-125    ----------------------------------------------------------------------Exon 1.5  PDB: H:168-216 UniProt: 196-244        -------------------------------------------------------------------------Exon 1.7  PDB: H:290-345 UniProt: 318-373               --------------------------------------------------------------------------------------------Exon 1.10  PDB: H:438-509 UniProt: 466-537                              Exon 1.11  PDB: H:510-560 UniProt: 538-588         ----------------------------------------------------------------------Exon 1.13  PDB: H:631-709 UniProt: 659-1599 [INCOMPLETE]                        Transcript 1 (1)
           Transcript 1 (2) ------------------------Exon 1.2  PDB: H:25-56          ----------------------------------------Exon 1.4  PDB: H:97-168 UniProt: 125-196                                -----------------------------------------------Exon 1.6  PDB: H:216-290 UniProt: 244-318                                  ------------------------------------------------------Exon 1.8  PDB: H:345-404 UniProt: 373-432                   Exon 1.9  PDB: H:405-438          -------------------------------------------------------------------------------------------------------------------------Exon 1.12b  PDB: H:560-631 UniProt: 588-659                             ------------------------------------------------------------------------------ Transcript 1 (2)
                1y61 H    1 AQLRQFYVAAQGISWSYRPEPTNSSLNLSVTSFKKIVYREYEPYFKKEKPQSTISGLLGPTLYAEVGDIIKVHFKNKADKPLSIHPQGIRYSKLSEGASYLDHTFPAEKMDDAVAPGREYTYEWSISEDSGPTHDDPPCLTHIYYSHENLIEDFNSGLIGPLLICKKGTLTEGGTQKTFDKQIVLLFAVFDESKSWSQSSSLMYTVNGYVNGTMPDITVCAHDHISWHLLGMSSGPELFSIHFNGQVLEQNHHKVSAITLVSATSTTANMTVGPEGKWIISSLTPKHLQAGMQAYIDIKNCPKKTRNLKKITREQRRHMKRWEYFIAAEEVIWDYAPVIPANMDKKYRSQHLDNFSNQIGKHYKKVMYTQYEDESFTKHTVNPNMKEDGILGPIIRAQVRDTLKIVFKNMASRPYSIYPHGVTFSPYEDEVNSSFTSGRNNTMIRAVQPGETYTYKWNILEFDEPTENDAQCLTRPYYSDVDIMRDIASGLIGLLLICKSRSLDRRGIQRAADIEQQAVFAVFDENKSWYLEDNINKFCENPDEVKRDDPKFYESNIMSTINGYVPESITTLGFCFDDTVQWHFCSVGTQNEILTIHFTGHSFIYGKRHEDTLTLFPMRGESVTVTMDNVGTWMLTSMNSSPRSKKLRLKFRDVKCIPDDDEDSYEIFEPPESTVMATRKMHDRLEPEDEESDADYDYQNRLAAALGIR  709
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430       440       450       460       470       480       490       500       510       520       530       540       550       560       570       580       590       600       610       620       630       640       650       660       670       680       690       700

Chain L from PDB  Type:PROTEIN  Length:651
 aligned with FA5_HUMAN | P12259 from UniProtKB/Swiss-Prot  Length:2224

    Alignment length:651
                                  1583      1593      1603      1613      1623      1633      1643      1653      1663      1673      1683      1693      1703      1713      1723      1733      1743      1753      1763      1773      1783      1793      1803      1813      1823      1833      1843      1853      1863      1873      1883      1893      1903      1913      1923      1933      1943      1953      1963      1973      1983      1993      2003      2013      2023      2033      2043      2053      2063      2073      2083      2093      2103      2113      2123      2133      2143      2153      2163      2173      2183      2193      2203      2213      2223 
           FA5_HUMAN   1574 SNNGNRRNYYIAAEEISWDYSEFVQRETDIEDSDDIPEDTTYKKVVFRKYLDSTFTKRDPRGEYEEHLGILGPIIRAEVDDVIQVRFKNLASRPYSLHAHGLSYEKSSEGKTYEDDSPEWFKEDNAVQPNSSYTYVWHATERSGPESPGSACRAWAYYSAVNPEKDIHSGLIGPLLICQKGILHKDSNMPMDMREFVLLFMTFDEKKSWYYEKKSRSSWRLTSSEMKKSHEFHAINGMIYSLPGLKMYEQEWVRLHLLNIGGSQDIHVVHFHGQTLLENGNKQHQLGVWPLLPGSFKTLEMKASKPGWWLLNTEVGENQRAGMQTPFLIMDRDCRMPMGLSTGIISDSQIKASEFLGYWEPRLARLNNGGSYNAWSVEKLAAEFASKPWIQVDMQKEVIITGIQTQGAKHYLKSCYTTEFYVAYSSNQINWQIFKGNSTRNVMYFNGNSDASTIKENQFDPPIVARYIRISPTRAYNRPTLRLELQGCEVNGCSTPLGMENGKIENKQITASSFKKSWWGDYWEPFRARLNAQGRVNAWQAKANNNKQWLEIDLLKIKKITAIITQGCKSLSSEMYVKSYTIHYSEQGVEWKPYRLKSSMVDKIFEGNTNTKGHVKNFFNPPIISRFIRVIPKTWNQSIALRLELFGCDIY 2224
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeeeeeeeeeee....hhhhhhhhh..........eeeeeeee............hhhhh...............eeeeeeee.............ee.............................eeeee.......hhhhh.eeeeeee.....hhhhhhh.eeeeeee...............eeeeeeeeeee.....hhhhhh.........hhhhh.eeeee..........ee....eeeeeeee.....................................eeeeee....eeeeee..hhhhhhhh.eeeeee................hhh.eee.......hhhhh..........ee.............eeeeeeeeeeeeeeeee.ee....eeeeeeeeeeee......ee..........eee........eeee.....eeeeeeeeeeeee...eeeeeeeee......ee........hhh.eee...eee...eeehhhhh..........ee.........eeeeeeeeeeeeeeeee.eee..eeeeeeeeeeeee......ee...........ee........eeeeeeeeeeeeeeeeeeeeee...eeeeeeeee... Sec.struct. author
             SAPs(SNPs) (1) ---------------------------------------------------------------------------------------------------------------S--------------------------------------------C------------------V--------------V-------------------------------------------------------I-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------C---------------------------------------------T------------------------------------R------------------------------------G-- SAPs(SNPs) (1)
             SAPs(SNPs) (2) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------H-------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs) (2)
                PROSITE (1) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------MULTICOPPER_OXIDASE1 ------FA58C_3  PDB: L:1879-2033 UniProt: 1907-2061                                                                                                               ----FA58C_3  PDB: L:2038-2193 UniProt: 2066-2221                                                                                                                --- PROSITE (1)
                PROSITE (2) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------FA58C_1  PDB: L:1919-1952         ----------------------------------------------------------------FA58C_2          -------------------------------------------------FA58C_1  PDB: L:2083-2112     ----------------------------------------------------------------FA58C_2          --- PROSITE (2)
           Transcript 1 (1) Exon 1.13  PDB: L:1546-157----------------------------------------------------------Exon 1.15  PDB: L:1630-1708 UniProt: 1658-1736                                 Exon 1.16  PDB: L:1709-1779 UniProt: 1737-1807                         -----------------------------------------------------------Exon 1.18  PDB: L:1839-1878             -----------------------Exon 1.20  PDB: L:1902-1936        Exon 1.21  PDB: L:1937-1988 UniProt: 1965-2016      Exon 1.22  PDB: L:1989-2037 UniProt: 2017-2065   --------------------------------------------------Exon 1.24b  PDB: L:2088-2148 UniProt: 2116-2176              Exon 1.25  PDB: L:2149-2196 UniProt: 2177-2224   Transcript 1 (1)
           Transcript 1 (2) -------------------------Exon 1.14  PDB: L:1571-1629 UniProt: 1599-1657             -----------------------------------------------------------------------------------------------------------------------------------------------------Exon 1.17  PDB: L:1779-1839 UniProt: 1807-1867               --------------------------------------Exon 1.19                --------------------------------------------------------------------------------------------------------------------------------------Exon 1.23  PDB: L:2037-2087 UniProt: 2065-2115     ------------------------------------------------------------------------------------------------------------- Transcript 1 (2)
                1y61 L 1546 SNNGNRRNYYIAAEEISWDYSEFVQRETDIEDSDDIPEDTTYKKVVFRKYLDSTFTKRDPRGEYEEHLGILGPIIRAEVDDVIQVRFKNLASRPYSLHAHGLSYEKSSEGKTYEDDSPEWFKEDNAVQPNSSYTYVWHATERSGPESPGSACRAWAYYSAVNPEKDIHSGLIGPLLICQKGILHKDSNMPVDMREFVLLFMTFDEKKSWYYEKKSRSSWRLTSSEMKKSHEFHAINGMIYSLPGLKMYEQEWVRLHLLNIGGSQDIHVVHFHGQTLLENGNKQHQLGVWPLLPGSFKTLEMKASKPGWWLLNTEVGENQRAGMQTPFLIMDRDCRMPMGLSTGIISDSQIKASEFLGYWEPRLARLNNGGSYNAWSVEKLAAEFASKPWIQVDMQKEVIITGIQTQGAKHYLKSCYTTEFYVAYSSNQINWQIFKGNSTRNVMYFNGNSDASTIKENQFDPPIVARYIRISPTRAYNRPTLRLELQGCEVNGCSTPLGMENGKIENKQITASSFKKSWWGDYWEPFRARLNAQGRVNAWQAKANNNKQWLEIDLLKIKKITAIITQGCKSLSSEMYVKSYTIHYSEQGVEWKPYRLKSSMVDKIFEGNTNTKGHVKNFFNPPIISRFIRVIPKTWNQSITLRLELFGCDIY 2196
                                  1555      1565      1575      1585      1595      1605      1615      1625      1635      1645      1655      1665      1675      1685      1695      1705      1715      1725      1735      1745      1755      1765      1775      1785      1795      1805      1815      1825      1835      1845      1855      1865      1875      1885      1895      1905      1915      1925      1935      1945      1955      1965      1975      1985      1995      2005      2015      2025      2035      2045      2055      2065      2075      2085      2095      2105      2115      2125      2135      2145      2155      2165      2175      2185      2195

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 '\|'

(no "SCOP Domain" information available for 1Y61)

(no "CATH Domain" information available for 1Y61)

(no "Pfam Domain" information available for 1Y61)

Theoretical Model(hide GO term definitions)

Chain H,L (FA5_HUMAN | P12259)

molecular function
	GO:0005507	copper ion binding	Interacting selectively and non-covalently with copper (Cu) ions.
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
	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:0048208	COPII vesicle coating	The addition of COPII proteins and adaptor proteins to ER membranes during the formation of transport vesicles, forming a vesicle coat.
	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:0008015	blood circulation	The flow of blood through the body of an animal, enabling the transport of nutrients to the tissues and the removal of waste products.
	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:0007599	hemostasis	The stopping of bleeding (loss of body fluid) or the arrest of the circulation to an organ or part.
	GO:0030168	platelet activation	A series of progressive, overlapping events triggered by exposure of the platelets to subendothelial tissue. These events include shape change, adhesiveness, aggregation, and release reactions. When carried through to completion, these events lead to the formation of a stable hemostatic plug.
	GO:0002576	platelet degranulation	The regulated exocytosis of secretory granules containing preformed mediators such as histamine and serotonin by a platelet.
cellular component
	GO:0030134	COPII-coated ER to Golgi transport vesicle	A vesicle with a coat formed of the COPII coat complex proteins. The COPII coat complex is formed by the Sec23p/Sec24p and the Sec13p/Sec31p heterodimers. COPII-associated vesicles transport proteins from the rough endoplasmic reticulum to the Golgi apparatus (anterograde transport).
	GO:0000139	Golgi membrane	The lipid bilayer surrounding any of the compartments of the Golgi apparatus.
	GO:0005788	endoplasmic reticulum lumen	The volume enclosed by the membranes of the endoplasmic reticulum.
	GO:0033116	endoplasmic reticulum-Golgi intermediate compartment membrane	The lipid bilayer surrounding any of the compartments of the endoplasmic reticulum (ER)-Golgi intermediate compartment system.
	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:1903561	extracellular vesicle	Any vesicle that is part of the extracellular region.
	GO:0016020	membrane	A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
	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:0031091	platelet alpha granule	A secretory organelle found in blood platelets, which is unique in that it exhibits further compartmentalization and acquires its protein content via two distinct mechanisms: (1) biosynthesis predominantly at the megakaryocyte (MK) level (with some vestigial platelet synthesis) (e.g. platelet factor 4) and (2) endocytosis and pinocytosis at both the MK and circulating platelet levels (e.g. fibrinogen (Fg) and IgG).
	GO:0031093	platelet alpha granule lumen	The volume enclosed by the membrane of the platelet alpha granule.

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	1y61
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	227400
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	FA5_HUMAN \| P12259	:	1czs 1czt 1czv 1fv4 3p6z 3p70 3s9c

1fv4	HOMOLOGY MODEL OF HUMAN FACTOR VA
1sdd	CRYSTAL STRUCTURE OF BOVINE FACTOR VAI

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (2, 3)

Sites (0, 0)

SS Bonds (7, 7)

Cis Peptide Bonds (2, 2)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (18, 18)

PROSITE Motifs (4, 8)

Exons (25, 26)

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Gene Ontology (21, 21)

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