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(-) Description

Title :  X-RAY CRYSTAL STRUCTURE OF HUMAN FXA IN COMPLEX WITH (S)-N-((2-METHYLBENZOFURAN-5-YLAMINO)(2-OXO-1-(2-OXO-2- (PYRROLIDIN-1-YL) ETHYL)AZEPAN-3- YLAMINO)METHYLENE)NICOTINAMIDE
 
Authors :  H. E. Klei, K. Kish, K. Ghosh, A. Rushith
Date :  16 Oct 09  (Deposition) - 15 Dec 09  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.90
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  C,D  (1x)
Keywords :  Serine Protease, Hydrolase, Epidermal Growth Factor Like Domain, Blood Coagulation Factor, Cleavage On Pair Of Basic Residues, Egf- Like Domain, Gamma-Carboxyglutamic Acid, Glycoprotein, Hydroxylation, Zymogen, Blood Clotting, Blood Coagulation, Disulfide Bond, Protease, Secreted (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  Y. Shi, C. Li, S. P. O'Connor, J. Zhang, M. Shi, S. N. Bisaha, Y. Wang, D. Sitkoff, A. T. Pudzianowski, C. Huang, H. E. Klei, K. Kish, J. Yanchunas, E. C. Liu, K. S. Hartl, S. M. Seiler, T. E. Steinbacher, W. A. Schumacher, K. S. Atwal, P. D. Stein
Aroylguanidine-Based Factor Xa Inhibitors: The Discovery Of Bms-344577
Bioorg. Med. Chem. Lett. V. 19 6882 2009
PubMed-ID: 19896847  |  Reference-DOI: 10.1016/J.BMCL.2009.10.084

(-) Compounds

Molecule 1 - PROTEIN (COAGULATION FACTOR X)
    ChainsA, C
    EC Number3.4.21.6
    FragmentEGF-LIKE DOMAINS (UNP RESIDUES 85 TO 178)
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SecretionBLOOD
    SynonymSTUART FACTOR, STUART-PROWER FACTOR, FACTOR X LIGHT CHAIN, FACTOR X HEAVY CHAIN, ACTIVATED FACTOR XA HEAVY CHAIN
 
Molecule 2 - PROTEIN (COAGULATION FACTOR X)
    ChainsB, D
    EC Number3.4.21.6
    FragmentCATALYTIC DOMAINS (UNP RESIDUES 235 TO 472)
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SecretionBLOOD
    SynonymSTUART FACTOR, STUART-PROWER FACTOR, FACTOR X LIGHT CHAIN, FACTOR X HEAVY CHAIN, ACTIVATED FACTOR XA HEAVY CHAIN

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit ABCD
Biological Unit 1 (1x)AB  
Biological Unit 2 (1x)  CD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 12)

Asymmetric Unit (4, 12)
No.NameCountTypeFull Name
1CA2Ligand/IonCALCIUM ION
2GOL6Ligand/IonGLYCEROL
3MBM2Ligand/IonN-{N'-(2-METHYL-1-BENZOFURAN-5-YL)-N-[(3S)-2-OXO-1-(2-OXO-2-PYRROLIDIN-1-YLETHYL)AZEPAN-3-YL]CARBAMIMIDOYL}PYRIDINE-3-CARBOXAMIDE
4NA2Ligand/IonSODIUM ION
Biological Unit 1 (2, 6)
No.NameCountTypeFull Name
1CA-1Ligand/IonCALCIUM ION
2GOL5Ligand/IonGLYCEROL
3MBM1Ligand/IonN-{N'-(2-METHYL-1-BENZOFURAN-5-YL)-N-[(3S)-2-OXO-1-(2-OXO-2-PYRROLIDIN-1-YLETHYL)AZEPAN-3-YL]CARBAMIMIDOYL}PYRIDINE-3-CARBOXAMIDE
4NA-1Ligand/IonSODIUM ION
Biological Unit 2 (2, 2)
No.NameCountTypeFull Name
1CA-1Ligand/IonCALCIUM ION
2GOL1Ligand/IonGLYCEROL
3MBM1Ligand/IonN-{N'-(2-METHYL-1-BENZOFURAN-5-YL)-N-[(3S)-2-OXO-1-(2-OXO-2-PYRROLIDIN-1-YLETHYL)AZEPAN-3-YL]CARBAMIMIDOYL}PYRIDINE-3-CARBOXAMIDE
4NA-1Ligand/IonSODIUM ION

(-) Sites  (12, 12)

Asymmetric Unit (12, 12)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREVAL A:148 , CYS A:149 , LEU A:157 , HOH A:198 , HOH A:406 , HOH A:598BINDING SITE FOR RESIDUE GOL A 6
02AC2SOFTWAREGOL A:9 , SER A:150 , CYS A:151 , TYR A:155 , THR A:156 , LEU A:157 , HOH A:406BINDING SITE FOR RESIDUE GOL A 7
03AC3SOFTWAREGOL A:7 , GLY A:154 , TYR A:155 , THR A:156 , THR A:167BINDING SITE FOR RESIDUE GOL A 9
04AC4SOFTWARETHR B:98 , TYR B:99 , GLU B:147 , PHE B:174 , ALA B:190 , GLN B:192 , SER B:195 , VAL B:213 , TRP B:215 , GLY B:216 , GLY B:218 , CYS B:220 , GLY B:226 , ILE B:227 , TYR B:228 , HOH B:262 , HOH B:273 , HOH B:287 , HOH B:454 , GLN C:96BINDING SITE FOR RESIDUE MBM B 1
05AC5SOFTWAREASP B:70 , ASN B:72 , GLN B:75 , GLU B:80 , HOH B:567BINDING SITE FOR RESIDUE CA B 249
06AC6SOFTWARETYR B:185 , ASP B:185A , ARG B:222 , LYS B:224 , HOH B:304 , HOH B:504BINDING SITE FOR RESIDUE NA B 3
07AC7SOFTWARELEU B:123 , PRO B:124 , HOH B:252 , HOH B:379BINDING SITE FOR RESIDUE GOL B 8
08AC8SOFTWARETHR B:132 , VAL D:88 , ILE D:89 , HOH D:647BINDING SITE FOR RESIDUE GOL B 14
09AC9SOFTWARETHR A:92 , SER A:93 , GLN A:96 , ASN A:120 , HOH D:11 , THR D:98 , TYR D:99 , GLU D:147 , ALA D:190 , GLN D:192 , VAL D:213 , TRP D:215 , GLY D:216 , GLY D:218 , CYS D:220 , GLY D:226 , ILE D:227 , TYR D:228 , HOH D:260 , HOH D:282BINDING SITE FOR RESIDUE MBM D 2
10BC1SOFTWAREASP D:70 , ASN D:72 , GLN D:75 , GLU D:80 , HOH D:662 , HOH D:882BINDING SITE FOR RESIDUE CA D 249
11BC2SOFTWARETYR D:185 , ASP D:185A , ARG D:222 , LYS D:224 , HOH D:271 , HOH D:399BINDING SITE FOR RESIDUE NA D 4
12BC3SOFTWAREHOH C:620 , PRO D:124 , HOH D:268BINDING SITE FOR RESIDUE GOL D 5

(-) SS Bonds  (21, 21)

Asymmetric Unit
No.Residues
1A:90 -A:101
2A:95 -A:110
3A:112 -A:121
4A:129 -A:140
5A:136 -A:149
6A:151 -A:164
7A:172 -B:122
8B:22 -B:27
9B:42 -B:58
10B:168 -B:182
11B:191 -B:220
12C:95 -C:110
13C:112 -C:121
14C:129 -C:140
15C:136 -C:149
16C:151 -C:164
17C:172 -D:122
18D:22 -D:27
19D:42 -D:58
20D:168 -D:182
21D:191 -D:220

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3K9X)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (24, 47)

Asymmetric Unit (24, 47)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
01UniProtVAR_075213G262DFA10_HUMANUnclassified (FA10D)  ---B/DG43D
02UniProtVAR_065437G289RFA10_HUMANDisease (FA10D)121964946B/DG69R
03UniProtVAR_065438E304KFA10_HUMANDisease (FA10D)747292771B/DE84K
04UniProtVAR_065433E91KFA10_HUMANDisease (FA10D)  ---AE91K
05UniProtVAR_065439D322NFA10_HUMANDisease (FA10D)121964942B/DD102N
06UniProtVAR_065440R327WFA10_HUMANDisease (FA10D)770119164B/DR107W
07UniProtVAR_065441V338MFA10_HUMANDisease (FA10D)121964947B/DV118M
08UniProtVAR_065442E350KFA10_HUMANDisease (FA10D)372309538B/DE129K
09UniProtVAR_065443T358MFA10_HUMANDisease (FA10D)768222784B/DT135M
10UniProtVAR_065444G363SFA10_HUMANDisease (FA10D)  ---B/DG140S
11UniProtVAR_065434E142KFA10_HUMANUnclassified (FA10D)61753266A/CE142K
12UniProtVAR_065445R366CFA10_HUMANDisease (FA10D)104894392B/DR143C
13UniProtVAR_065435C149YFA10_HUMANDisease (FA10D)  ---A/CC149Y
14UniProtVAR_065436C151YFA10_HUMANDisease (FA10D)  ---A/CC151Y
15UniProtVAR_065446S374PFA10_HUMANDisease (FA10D)121964941B/DS152P
16UniProtVAR_020176A152TFA10_HUMANPolymorphism3211772A/CA152T
17UniProtVAR_072751V382AFA10_HUMANDisease (FA10D)  ---B/DV160A
18UniProtVAR_065447P383SFA10_HUMANDisease (FA10D)121964940B/DP161S
19UniProtVAR_065448C390FFA10_HUMANDisease (FA10D)199778916B/DC168F
20UniProtVAR_065449C404RFA10_HUMANDisease (FA10D)  ---B/DC182R
21UniProtVAR_065450G406SFA10_HUMANDisease (FA10D)376163818B/DG184S
22UniProtVAR_065451G420RFA10_HUMANDisease (FA10D)750759634B/DG196R
23UniProtVAR_072752G421DFA10_HUMANDisease (FA10D)758726161B/DG197D
24UniProtVAR_065452K448NFA10_HUMANDisease (FA10D)  ---B/DK224N

  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)
Biological Unit 1 (24, 24)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
01UniProtVAR_075213G262DFA10_HUMANUnclassified (FA10D)  ---BG43D
02UniProtVAR_065437G289RFA10_HUMANDisease (FA10D)121964946BG69R
03UniProtVAR_065438E304KFA10_HUMANDisease (FA10D)747292771BE84K
04UniProtVAR_065433E91KFA10_HUMANDisease (FA10D)  ---AE91K
05UniProtVAR_065439D322NFA10_HUMANDisease (FA10D)121964942BD102N
06UniProtVAR_065440R327WFA10_HUMANDisease (FA10D)770119164BR107W
07UniProtVAR_065441V338MFA10_HUMANDisease (FA10D)121964947BV118M
08UniProtVAR_065442E350KFA10_HUMANDisease (FA10D)372309538BE129K
09UniProtVAR_065443T358MFA10_HUMANDisease (FA10D)768222784BT135M
10UniProtVAR_065444G363SFA10_HUMANDisease (FA10D)  ---BG140S
11UniProtVAR_065434E142KFA10_HUMANUnclassified (FA10D)61753266AE142K
12UniProtVAR_065445R366CFA10_HUMANDisease (FA10D)104894392BR143C
13UniProtVAR_065435C149YFA10_HUMANDisease (FA10D)  ---AC149Y
14UniProtVAR_065436C151YFA10_HUMANDisease (FA10D)  ---AC151Y
15UniProtVAR_065446S374PFA10_HUMANDisease (FA10D)121964941BS152P
16UniProtVAR_020176A152TFA10_HUMANPolymorphism3211772AA152T
17UniProtVAR_072751V382AFA10_HUMANDisease (FA10D)  ---BV160A
18UniProtVAR_065447P383SFA10_HUMANDisease (FA10D)121964940BP161S
19UniProtVAR_065448C390FFA10_HUMANDisease (FA10D)199778916BC168F
20UniProtVAR_065449C404RFA10_HUMANDisease (FA10D)  ---BC182R
21UniProtVAR_065450G406SFA10_HUMANDisease (FA10D)376163818BG184S
22UniProtVAR_065451G420RFA10_HUMANDisease (FA10D)750759634BG196R
23UniProtVAR_072752G421DFA10_HUMANDisease (FA10D)758726161BG197D
24UniProtVAR_065452K448NFA10_HUMANDisease (FA10D)  ---BK224N

  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)
Biological Unit 2 (23, 23)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
01UniProtVAR_075213G262DFA10_HUMANUnclassified (FA10D)  ---DG43D
02UniProtVAR_065437G289RFA10_HUMANDisease (FA10D)121964946DG69R
03UniProtVAR_065438E304KFA10_HUMANDisease (FA10D)747292771DE84K
05UniProtVAR_065439D322NFA10_HUMANDisease (FA10D)121964942DD102N
06UniProtVAR_065440R327WFA10_HUMANDisease (FA10D)770119164DR107W
07UniProtVAR_065441V338MFA10_HUMANDisease (FA10D)121964947DV118M
08UniProtVAR_065442E350KFA10_HUMANDisease (FA10D)372309538DE129K
09UniProtVAR_065443T358MFA10_HUMANDisease (FA10D)768222784DT135M
10UniProtVAR_065444G363SFA10_HUMANDisease (FA10D)  ---DG140S
11UniProtVAR_065434E142KFA10_HUMANUnclassified (FA10D)61753266CE142K
12UniProtVAR_065445R366CFA10_HUMANDisease (FA10D)104894392DR143C
13UniProtVAR_065435C149YFA10_HUMANDisease (FA10D)  ---CC149Y
14UniProtVAR_065436C151YFA10_HUMANDisease (FA10D)  ---CC151Y
15UniProtVAR_065446S374PFA10_HUMANDisease (FA10D)121964941DS152P
16UniProtVAR_020176A152TFA10_HUMANPolymorphism3211772CA152T
17UniProtVAR_072751V382AFA10_HUMANDisease (FA10D)  ---DV160A
18UniProtVAR_065447P383SFA10_HUMANDisease (FA10D)121964940DP161S
19UniProtVAR_065448C390FFA10_HUMANDisease (FA10D)199778916DC168F
20UniProtVAR_065449C404RFA10_HUMANDisease (FA10D)  ---DC182R
21UniProtVAR_065450G406SFA10_HUMANDisease (FA10D)376163818DG184S
22UniProtVAR_065451G420RFA10_HUMANDisease (FA10D)750759634DG196R
23UniProtVAR_072752G421DFA10_HUMANDisease (FA10D)758726161DG197D
24UniProtVAR_065452K448NFA10_HUMANDisease (FA10D)  ---DK224N

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

(-) PROSITE Motifs  (6, 12)

Asymmetric Unit (6, 12)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1ASX_HYDROXYLPS00010 Aspartic acid and asparagine hydroxylation site.FA10_HUMAN101-112
 
  2A:101-112
C:101-112
2EGF_1PS00022 EGF-like domain signature 1.FA10_HUMAN110-121
 
  2A:110-121
C:110-121
3EGF_2PS01186 EGF-like domain signature 2.FA10_HUMAN110-121
 
149-164
 
  4A:110-121
C:110-121
A:149-164
C:149-164
4TRYPSIN_DOMPS50240 Serine proteases, trypsin domain profile.FA10_HUMAN235-467
 
  2B:16-243
D:16-243
5TRYPSIN_HISPS00134 Serine proteases, trypsin family, histidine active site.FA10_HUMAN272-277
 
  2B:53-58
D:53-58
6TRYPSIN_SERPS00135 Serine proteases, trypsin family, serine active site.FA10_HUMAN413-424
 
  2B:189-200
D:189-200
Biological Unit 1 (6, 7)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1ASX_HYDROXYLPS00010 Aspartic acid and asparagine hydroxylation site.FA10_HUMAN101-112
 
  1A:101-112
-
2EGF_1PS00022 EGF-like domain signature 1.FA10_HUMAN110-121
 
  1A:110-121
-
3EGF_2PS01186 EGF-like domain signature 2.FA10_HUMAN110-121
 
149-164
 
  2A:110-121
-
A:149-164
-
4TRYPSIN_DOMPS50240 Serine proteases, trypsin domain profile.FA10_HUMAN235-467
 
  1B:16-243
-
5TRYPSIN_HISPS00134 Serine proteases, trypsin family, histidine active site.FA10_HUMAN272-277
 
  1B:53-58
-
6TRYPSIN_SERPS00135 Serine proteases, trypsin family, serine active site.FA10_HUMAN413-424
 
  1B:189-200
-
Biological Unit 2 (6, 7)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1ASX_HYDROXYLPS00010 Aspartic acid and asparagine hydroxylation site.FA10_HUMAN101-112
 
  1-
C:101-112
2EGF_1PS00022 EGF-like domain signature 1.FA10_HUMAN110-121
 
  1-
C:110-121
3EGF_2PS01186 EGF-like domain signature 2.FA10_HUMAN110-121
 
149-164
 
  2-
C:110-121
-
C:149-164
4TRYPSIN_DOMPS50240 Serine proteases, trypsin domain profile.FA10_HUMAN235-467
 
  1-
D:16-243
5TRYPSIN_HISPS00134 Serine proteases, trypsin family, histidine active site.FA10_HUMAN272-277
 
  1-
D:53-58
6TRYPSIN_SERPS00135 Serine proteases, trypsin family, serine active site.FA10_HUMAN413-424
 
  1-
D:189-200

(-) Exons   (5, 12)

Asymmetric Unit (5, 12)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1bENST000003755591bENSE00001885902chr13:113777132-113777239108FA10_HUMAN1-24240--
1.2ENST000003755592ENSE00001757906chr13:113783766-113783926161FA10_HUMAN24-77540--
1.4ENST000003755594ENSE00001666002chr13:113792771-11379279525FA10_HUMAN78-8690--
1.5ENST000003755595ENSE00001614193chr13:113793671-113793784114FA10_HUMAN86-124392A:90-124 (gaps)
-
C:94-124 (gaps)
-
35
-
31
-
1.6cENST000003755596cENSE00000862532chr13:113795233-113795364132FA10_HUMAN124-168452A:124-168
-
C:124-168
-
45
-
45
-
1.7aENST000003755597aENSE00001710199chr13:113798165-113798409245FA10_HUMAN168-249824A:168-178
B:16-30
C:168-178
D:16-30
11
15
11
15
1.8eENST000003755598eENSE00000862534chr13:113801693-113801810118FA10_HUMAN250-289402-
B:31-69
-
D:31-69
-
40
-
40
1.9cENST000003755599cENSE00001616173chr13:113803230-113803843614FA10_HUMAN289-4882002-
B:69-248 (gaps)
-
D:69-248 (gaps)
-
186
-
186

(-) Sequences/Alignments

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:86
 aligned with FA10_HUMAN | P00742 from UniProtKB/Swiss-Prot  Length:488

    Alignment length:89
                                    99       109       119       129       139       149       159       169         
          FA10_HUMAN     90 CETSPCQNQGKCKDGLGEYTCTCLEGFEGKNCELFTRKLCSLDNGDCDQFCHEEQNSVVCSCARGYTLADNGKACIPTGPYPCGKQTLE  178
               SCOP domains d3k9xa1 A:90-1   26 automated matchesd3k9xa2 A:127-178 automated matches                  SCOP domains
               CATH domains ----------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........eee.---..eee....ee.....ee......hhhhhh..eeeee..eeeee....eee......eee............ Sec.struct. author
                 SAPs(SNPs) -K--------------------------------------------------K------Y-YT-------------------------- SAPs(SNPs)
                PROSITE (1) -----------ASX_HYDROXYL------------------------------------EGF_2           -------------- PROSITE (1)
                PROSITE (2) --------------------EGF_1       --------------------------------------------------------- PROSITE (2)
                PROSITE (3) --------------------EGF_2       --------------------------------------------------------- PROSITE (3)
           Transcript 1 (1) Exon 1.5  PDB: A:90-124 (gaps)     -------------------------------------------Exon 1.7a   Transcript 1 (1)
           Transcript 1 (2) ----------------------------------Exon 1.6c  PDB: A:124-168 UniProt: 124-168   ---------- Transcript 1 (2)
                3k9x A   90 CETSPCQNQGKCKD---EYTCTCLEGFEGKNCELFTRKLCSLDNGDCDQFCHEEQNSVVCSCARGYTLADNGKACIPTGPYPCGKQTLE  178
                                    99   |   109       119       129       139       149       159       169         
                                       103 107                                                                       

Chain B from PDB  Type:PROTEIN  Length:238
 aligned with FA10_HUMAN | P00742 from UniProtKB/Swiss-Prot  Length:488

    Alignment length:238
                                   244       254       264       274       284       294       304       314       324       334       344       354       364       374       384       394       404       414       424       434       444       454       464        
          FA10_HUMAN    235 IVGGQECKDGECPWQALLINEENEGFCGGTILSEFYILTAAHCLYQAKRFKVRVGDRNTEQEEGGEAVHEVEVVIKHNRFTKETYDFDIAVLRLKTPITFRMNVAPACLPERDWAESTLMTQKTGIVSGFGRTHEKGRQSTRLKMLEVPYVDRNSCKLSSSFIITQNMFCAGYDTKQEDACQGDSGGPHVTRFKDTYFVTGIVSWGEGCARKGKYGIYTKVTAFLKWIDRSMKTRGLP  472
               SCOP domains d3k9xb_ B: automated matches                                                                                                                                                                                                                   SCOP domains
               CATH domains 3k9xB01     3k9xB02 B:28-120,B:233-248 Trypsin-like serine proteases                                      3k9xB01 B:16-27,B:121-232 Trypsin-like serine proteases                                                             3k9xB02          CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....ee........eeeee.....eeeeeee....eeeehhhhhhh....eeee............eee.eeeeee.............eeeee................hhhhhhhhh....eeeeee..............eeeeeeeehhhhhhhhh.......eeee................eeeeee..eeeeeeeeee..........eeeee...hhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ---------------------------D--------------------------R--------------K-----------------N----W----------M-----------K-------M----S--C-------P-------AS------F-------------R-S-------------RD--------------------------N------------------------ SAPs(SNPs)
                PROSITE (1) TRYPSIN_DOM  PDB: B:16-243 UniProt: 235-467                                                                                                                                                                                              ----- PROSITE (1)
                PROSITE (2) -------------------------------------TRYPSI---------------------------------------------------------------------------------------------------------------------------------------TRYPSIN_SER ------------------------------------------------ PROSITE (2)
                PROSITE (3) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (3)
           Transcript 1 (1) Exon 1.7a      Exon 1.8e  PDB: B:31-69 UniProt: 250-289--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript 1 (1)
           Transcript 1 (2) ------------------------------------------------------Exon 1.9c  PDB: B:69-248 (gaps) UniProt: 289-488 [INCOMPLETE]                                                                                                                            Transcript 1 (2)
                3k9x B   16 IVGGQECKDGECPWQALLINEENEGFCGGTILSEFYILTAAHCLYQAKRFKVRVGDRNTEQEEGGEAVHEVEVVIKHNRFTKETYDFDIAVLRLKTPITFRMNVAPACLPERDWAESTLMTQKTGIVSGFGRTHEKGRQSTRLKMLEVPYVDRNSCKLSSSFIITQNMFCAGYDTKQEDACQGDSGGPHVTRFKDTYFVTGIVSWGEGCARKGKYGIYTKVTAFLKWIDRSMKTRGLP  248
                                    25        35        45        55      | 64        74        84        94       104       114       124|     131B       141   ||  152       162       172       182   ||  190       200       210       221  |    230       240        
                                                                        61A                                                            124A    131A|           145|                                   185A|                              218|   |                         
                                                                                                                                                131B            147                                    185B                               220   |                         
                                                                                                                                                                                                                                             223A                         

Chain C from PDB  Type:PROTEIN  Length:81
 aligned with FA10_HUMAN | P00742 from UniProtKB/Swiss-Prot  Length:488

    Alignment length:85
                                   103       113       123       133       143       153       163       173     
          FA10_HUMAN     94 PCQNQGKCKDGLGEYTCTCLEGFEGKNCELFTRKLCSLDNGDCDQFCHEEQNSVVCSCARGYTLADNGKACIPTGPYPCGKQTLE  178
               SCOP domains d3k9xc1 C:    94-126             d3k9xc2 C:127-178 automated matches                  SCOP domains
               CATH domains ------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) EGF-3k9xC0    1 C:94-120   ---------------------------------------------------------- Pfam domains (1)
           Pfam domains (2) EGF-3k9xC0    2 C:94-120   ---------------------------------------------------------- Pfam domains (2)
         Sec.struct. author ......eee.----.eee....ee.....ee......hhhhhh..eeeee..eeeee....eee......eee............ Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------K------Y-YT-------------------------- SAPs(SNPs)
                PROSITE (1) -------ASX_HYDROXYL------------------------------------EGF_2           -------------- PROSITE (1)
                PROSITE (2) ----------------EGF_1       --------------------------------------------------------- PROSITE (2)
                PROSITE (3) ----------------EGF_2       --------------------------------------------------------- PROSITE (3)
           Transcript 1 (1) Exon 1.5  PDB: C:94-124 (gaps) -------------------------------------------Exon 1.7a   Transcript 1 (1)
           Transcript 1 (2) ------------------------------Exon 1.6c  PDB: C:124-168 UniProt: 124-168   ---------- Transcript 1 (2)
                3k9x C   94 PCQNQGKCKD----YTCTCLEGFEGKNCELFTRKLCSLDNGDCDQFCHEEQNSVVCSCARGYTLADNGKACIPTGPYPCGKQTLE  178
                                   103    |  113       123       133       143       153       163       173     
                                   103  108                                                                      

Chain D from PDB  Type:PROTEIN  Length:238
 aligned with FA10_HUMAN | P00742 from UniProtKB/Swiss-Prot  Length:488

    Alignment length:238
                                   244       254       264       274       284       294       304       314       324       334       344       354       364       374       384       394       404       414       424       434       444       454       464        
          FA10_HUMAN    235 IVGGQECKDGECPWQALLINEENEGFCGGTILSEFYILTAAHCLYQAKRFKVRVGDRNTEQEEGGEAVHEVEVVIKHNRFTKETYDFDIAVLRLKTPITFRMNVAPACLPERDWAESTLMTQKTGIVSGFGRTHEKGRQSTRLKMLEVPYVDRNSCKLSSSFIITQNMFCAGYDTKQEDACQGDSGGPHVTRFKDTYFVTGIVSWGEGCARKGKYGIYTKVTAFLKWIDRSMKTRGLP  472
               SCOP domains d3k9xd_ D: Coagulation factor Xa, protease domain                                                                                                                                                                                              SCOP domains
               CATH domains 3k9xD01     3k9xD02 D:28-120,D:233-248 Trypsin-like serine proteases                                      3k9xD01 D:16-27,D:121-232 Trypsin-like serine proteases                                                             3k9xD02          CATH domains
           Pfam domains (1) Trypsin-3k9xD01 D:16-238                                                                                                                                                                                                            ---------- Pfam domains (1)
           Pfam domains (2) Trypsin-3k9xD02 D:16-238                                                                                                                                                                                                            ---------- Pfam domains (2)
         Sec.struct. author ....ee........eeeee.....eeeeeee....eeeehhhhhhhh...eeee............eee.eeeeee.............eeeee................hhhhhhhhh....eeeeee..............eeeeeeeehhhhhhhhh.......eeee................eeeeee..eeeeeeeeee..........eeeee...hhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ---------------------------D--------------------------R--------------K-----------------N----W----------M-----------K-------M----S--C-------P-------AS------F-------------R-S-------------RD--------------------------N------------------------ SAPs(SNPs)
                PROSITE (1) TRYPSIN_DOM  PDB: D:16-243 UniProt: 235-467                                                                                                                                                                                              ----- PROSITE (1)
                PROSITE (2) -------------------------------------TRYPSI---------------------------------------------------------------------------------------------------------------------------------------TRYPSIN_SER ------------------------------------------------ PROSITE (2)
                PROSITE (3) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (3)
           Transcript 1 (1) Exon 1.7a      Exon 1.8e  PDB: D:31-69 UniProt: 250-289--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript 1 (1)
           Transcript 1 (2) ------------------------------------------------------Exon 1.9c  PDB: D:69-248 (gaps) UniProt: 289-488 [INCOMPLETE]                                                                                                                            Transcript 1 (2)
                3k9x D   16 IVGGQECKDGECPWQALLINEENEGFCGGTILSEFYILTAAHCLYQAKRFKVRVGDRNTEQEEGGEAVHEVEVVIKHNRFTKETYDFDIAVLRLKTPITFRMNVAPACLPERDWAESTLMTQKTGIVSGFGRTHEKGRQSTRLKMLEVPYVDRNSCKLSSSFIITQNMFCAGYDTKQEDACQGDSGGPHVTRFKDTYFVTGIVSWGEGCARKGKYGIYTKVTAFLKWIDRSMKTRGLP  248
                                    25        35        45        55      | 64        74        84        94       104       114       124|     131B       141   ||  152       162       172       182   ||  190       200       210       221  |    230       240        
                                                                        61A                                                            124A    131A|           145|                                   185A|                              218|   |                         
                                                                                                                                                131B            147                                    185B                               220   |                         
                                                                                                                                                                                                                                             223A                         

   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 '|'

 Classification and Annotation

(-) SCOP Domains  (3, 6)

Asymmetric Unit

(-) CATH Domains  (1, 4)

Asymmetric Unit
(-)
Class: Mainly Beta (13760)
1a3k9xB01B:16-27,B:121-232
1b3k9xD01D:16-27,D:121-232
1c3k9xB02B:28-120,B:233-248
1d3k9xD02D:28-120,D:233-248

(-) Pfam Domains  (2, 4)

Asymmetric Unit
(-)
Clan: EGF (60)
(-)
Family: EGF (31)
1aEGF-3k9xC01C:94-120
1bEGF-3k9xC02C:94-120

(-) Gene Ontology  (22, 22)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C,D   (FA10_HUMAN | P00742)
molecular function
    GO:0005509    calcium ion binding    Interacting selectively and non-covalently with calcium ions (Ca2+).
    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: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:0005543    phospholipid binding    Interacting selectively and non-covalently with phospholipids, a class of lipids containing phosphoric acid as a mono- or diester.
    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: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:0030335    positive regulation of cell migration    Any process that activates or increases the frequency, rate or extent of cell migration.
    GO:0051897    positive regulation of protein kinase B signaling    Any process that activates or increases the frequency, rate or extent of protein kinase B signaling, a series of reactions mediated by the intracellular serine/threonine kinase protein kinase B.
    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.
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: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:0031233    intrinsic component of external side of plasma membrane    The component of a plasma membrane consisting of gene products and protein complexes that penetrate the external side of the plasma membrane only, either directly or via some covalently attached hydrophobic anchor.
    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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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        FA10_HUMAN | P007421c5m 1ezq 1f0r 1f0s 1fax 1fjs 1fxy 1g2l 1g2m 1hcg 1ioe 1iqe 1iqf 1iqg 1iqh 1iqi 1iqj 1iqk 1iql 1iqm 1iqn 1ksn 1lpg 1lpk 1lpz 1lqd 1mq5 1mq6 1msx 1nfu 1nfw 1nfx 1nfy 1nl8 1p0s 1v3x 1wu1 1xka 1xkb 1z6e 2bmg 2boh 2bok 2bq6 2bq7 2bqw 2cji 2d1j 2ei6 2ei7 2ei8 2fzz 2g00 2gd4 2h9e 2j2u 2j34 2j38 2j4i 2j94 2j95 2jkh 2p16 2p3f 2p3t 2p3u 2p93 2p94 2p95 2phb 2pr3 2q1j 2ra0 2uwl 2uwo 2uwp 2vh0 2vh6 2vvc 2vvu 2vvv 2vwl 2vwm 2vwn 2vwo 2w26 2w3i 2w3k 2wyg 2wyj 2xbv 2xbw 2xbx 2xby 2xc0 2xc4 2xc5 2y5f 2y5g 2y5h 2y7x 2y7z 2y80 2y81 2y82 3cen 3cs7 3ens 3ffg 3hpt 3iit 3kl6 3kqb 3kqc 3kqd 3kqe 3liw 3m36 3m37 3q3k 3sw2 3tk5 3tk6 4a7i 4bti 4btt 4btu 4y6d 4y71 4y76 4y79 4y7a 4y7b 4zh8 4zha 5jqy 5jtc 5jz8 5jzu 5k0h

(-) Related Entries Specified in the PDB File

3ecn X-RAY CRYSTAL STRUCTURE OF HUMAN FXA IN COMPLEX WITH (S,E)- METHYL 3-(3-CHLORO-1H-INDOL-7-YLAMINO)-2-CYANO-3-(2-OXO-1- (2-OXO-2-(PYRROLIDIN-1-YL)ETHYL)AZEPAN-3-YLAMINO)ACRYLATE