WORKLIST ENTRIES (1):
GLABLOOD View alignment COAGULATION FACTOR GLA DOMAIN SIGNATURE
Type of fingerprint: COMPOUND with 3 elements
Links:
PRINTS; PR00002 GLABONE
PROSITE; PS00011 GLU_CARBOXYLATION
BLOCKS; BL00011
PRODOM; 616; 4040; 11536
SBASE; FA9_CANFA
NRL; 1APO; 2PF2
PDB; 1APO 3Dinfo; 2PF2 3Dinfo
SCOP; 1APO; 2PF2
CATH; 1APO; 2PF2
Creation date 12-JUL-1991; UPDATE 16-JUN-1995
1. SORIANO-GARCIA, M., CHANG, H.P., TULINSKY, A., RAVICHANDRAN, K.G.
and SKRZYPCZAK-JANKUN, E.
Structure of calcium prothrombin fragment 1 including the conformation
of the Gla domain.
BIOCHEMISTRY 28 6805-6810 (1989).
2. CHURCH, W.R., MESSIER, T., HOWARD, P.R., AMIRAL, J., MEYER, D.
and MANN, K.G.
A conserved epitope on several human vitamin K-dependent proteins.
J.BIOL.CHEM. 263 6259-6267 (1988).
3. FRIEZNER DEGEN, S.J. and DAVIE, E.W.
Nucleotide sequence of the gene for human prothrombin.
BIOCHEMISTRY 26 6165-6177 (1987).
Coagulation proteins, such as factors VII, IX and X, proteins C and S, and
prothrombin, contain gamma-carboxyglutamic acid residues: these vary in
number between 9 and 12, and are produced by post-translational
modification of Glu residues by a vitamin K-dependent carboxylase. Calcium
ions bind to the gamma-carboxyglutamic acid residues of the Gla domain and
support the binding of these vitamin K-dependent proteins to acidic
phospholipid vesicles, resulting in the production of a soluble fibrin clot.
The Gla domain is an N-terminal module of about 48 residues that contains
carboxylated Glu residues responsible for high-affinity calcium binding.
It terminates with a conserved aromatic residue, and at its centre has a
conserved Gla-x(3)-Gla-x-Cys motif, which seems to be important for the
substrate recognition by the carboxylase. The domain is dominated by
secondary structure comprising 3 turns of alpha-helix and 5 short beta-
strands arranged into 2 beta-structural units. Cys residues 18 and 23 of
the Gla domain participate in a disulphide bridge to form a small conserved
loop close to a cluster of conserved aromatic residues.
GLABLOOD is a 3-element fingerprint that provides a signature for the N-
terminal `Gla domain' of coagulation proteins. The fingerprint was derived
from an initial alignment of 6 sequences (after Soriano-Garcia [1]): the
motifs span the region encoded by PROSITE pattern GLU_CARBOXYLATION
(PS00011), 1 and 2 encoding the Gla-x(3)-Gla-x-Cys motif. Four iterations
on OWL11.0 were required to reach convergence, at which point a true set
comprising 29 sequences was identified. A single partial match was also
found, a coagulation factor fragment, which lacks part of motif 3.
An update on OWL26.0 identified a true set of 31 sequences, and 2 fragments.
SUMMARY INFORMATION
31 codes involving 3 elements
2 codes involving 2 elements
COMPOSITE FINGERPRINT INDEX
3| 31 31 31
2| 2 1 1
--+----------------
| 1 2 3
True positives..
FA10_BOVIN S49075 FA9_HUMAN FA9_CANFA
FA9_BOVIN FA9_MOUSE FA10_HUMAN HUMFIX
S56300 PRTS_HUMAN FA10_CHICK PRTS_BOVIN
PRTC_MOUSE FA7_HUMAN THRB_MOUSE THRB_RAT
S35962 PRTC_RAT B48089 THRB_HUMAN
PRTC_BOVIN THRB_BOVIN BOVTHBNM PRTZ_HUMAN
HUMPROZII CHKTHROM FA7_BOVIN PRTZ_BOVIN
A48089 PRTC_HUMAN HUMPRC7
Subfamily: Codes involving 2 elements
Subfamily True positives..
SYNFPFIXGL NRL_2PF2
PROTEIN TITLES
FA10_BOVIN COAGULATION FACTOR X PRECURSOR (EC 3.4.21.6) (STUART FACTOR)
S49075 factor X protein - rat
FA9_HUMAN COAGULATION FACTOR IX PRECURSOR (EC 3.4.21.22) (CHRISTMAS FA
FA9_CANFA COAGULATION FACTOR IX PRECURSOR (EC 3.4.21.22) (CHRISTMAS FA
FA9_BOVIN COAGULATION FACTOR IX (EC 3.4.21.22) (CHRISTMAS FACTOR). - B
FA9_MOUSE COAGULATION FACTOR IX PRECURSOR (EC 3.4.21.22) (CHRISTMAS FA
FA10_HUMAN COAGULATION FACTOR X PRECURSOR (EC 3.4.21.6) (STUART FACTOR)
HUMFIX HUMFIX factor IX (Christmas factor) precursor; NCBI gi: 1826
S56300 S56300 Method: conceptual translation supplied by author. Th
PRTS_HUMAN VITAMIN K-DEPENDENT PROTEIN S PRECURSOR. - HOMO SAPIENS (HUM
FA10_CHICK COAGULATION FACTOR X PRECURSOR (EC 3.4.21.6) (STUART FACTOR)
PRTS_BOVIN VITAMIN K-DEPENDENT PROTEIN S PRECURSOR. - BOS TAURUS (BOVIN
PRTC_MOUSE PROTEIN C PRECURSOR (EC 3.4.21.69) (AUTOPROTHROMBIN IIA). -
FA7_HUMAN COAGULATION FACTOR VII PRECURSOR (EC 3.4.21.21). - HOMO SAPI
THRB_MOUSE PROTHROMBIN PRECURSOR (EC 3.4.21.5). - MUS MUSCULUS (MOUSE).
THRB_RAT PROTHROMBIN PRECURSOR (EC 3.4.21.5). - RATTUS NORVEGICUS (RA
S35962 protein S - mouse
PRTC_RAT PROTEIN C PRECURSOR (EC 3.4.21.69) (AUTOPROTHROMBIN IIA). -
B48089 growth arrest-specific protein gas6 - human
THRB_HUMAN PROTHROMBIN PRECURSOR (EC 3.4.21.5) (COAGULATION FACTOR II).
PRTC_BOVIN PROTEIN C PRECURSOR (EC 3.4.21.69) (AUTOPROTHROMBIN IIA) (FR
THRB_BOVIN PROTHROMBIN PRECURSOR (EC 3.4.21.5). - BOS TAURUS (BOVINE).
BOVTHBNM BOVTHBNM preprothrombin; NCBI gi: 163755 - Bos taurus
PRTZ_HUMAN VITAMIN K-DEPENDENT PROTEIN Z PRECURSOR. - HOMO SAPIENS (HUM
HUMPROZII HUMPROZII NCBI gi: 190466 - Homo sapiens
CHKTHROM CHKTHROM NCBI gi: 289825 - Gallus gallus
FA7_BOVIN COAGULATION FACTOR VII (EC 3.4.21.21). - BOS TAURUS (BOVINE)
PRTZ_BOVIN VITAMIN K-DEPENDENT PROTEIN Z. - BOS TAURUS (BOVINE).
A48089 growth arrest-specific protein gas6 - mouse
PRTC_HUMAN PROTEIN C PRECURSOR (EC 3.4.21.69) (AUTOPROTHROMBIN IIA). -
HUMPRC7 HUMPRC7 Protein C; NCBI gi: 190332 - Homo sapiens
SYNFPFIXGL SYNFPFIXGL E.coli gene 10/human coagulation factor IX fusion
NRL_2PF2 Prothrombin fragment 1 (residues 1 156) complex with Calcium
SCAN HISTORY
OWL11_0 4 50 NSINGLE
OWL17_1 1 70 NSINGLE
OWL18_0 1 50 NSINGLE
OWL19_1 1 50 NSINGLE
OWL26_0 1 100 NSINGLE
INITIAL MOTIF SETS
GLABLOOD1 Length of motif = 14 Motif number = 1
Coagulation factor Gla domain motif I - 1
PCODE ST INT
FLEEVRKGNLEREC EZEC545 5 5
FLEEVRKGNLEREC EZEC546 4 4
FLEELRPGSLEREC FA7$HUMAN 64 64
KLEEFVQGNLEREC KFHU 51 51
FLEEVRKGNLEREC TBHU 40 40
FLEEMKKGHLEREC EXHU 32 32
GLABLOOD2 Length of motif = 14 Motif number = 2
Coagulation factor Gla domain motif II - 1
PCODE ST INT
LEEPCSREEAFEAL EZEC545 19 0
VEETCSYEEAFEAL EZEC546 18 0
KEEQCSFEEAREIF FA7$HUMAN 78 0
MEEKCSFEEAREVF KFHU 65 0
VEETCSYEEAFEAL TBHU 54 0
MEETCSYEEAREVF EXHU 46 0
GLABLOOD3 Length of motif = 15 Motif number = 3
Coagulation factor Gla domain motif III - 1
PCODE ST INT
ESLSATDAFWAKYTA EZEC545 33 0
ESSTATDVFWAKYTA EZEC546 32 0
KDAERTKLFWISYSD FA7$HUMAN 92 0
ENTERTTEFWKQYVD KFHU 79 0
ESSTATDVFWAKYTA TBHU 68 0
EDSDKTNEFWNKYKD EXHU 60 0
FINAL MOTIF SETS
GLABLOOD1 Length of motif = 14 Motif number = 1
Coagulation factor Gla domain motif I - 8
PCODE ST INT
FLEELRKGNLEREC THRB_MOUSE 48 48
FLEELRKGNLEREC THRB_RAT 48 48
FLEEVRKGNLEREC THRB_BOVIN 48 48
FLEEVRKGNLEREC THRB_HUMAN 47 47
FLEEVRKGNLEREC BOVTHBNM 48 48
FLEEVKQGNLEREC FA10_BOVIN 44 44
FLEEMIKGNLEREC CHKTHROM 48 48
FLEELRPGSLEREC FA7_HUMAN 64 64
FLEELRPGSLEREC S56300 43 43
LLEETKKGNLEREC PRTS_BOVIN 45 45
FLEEMKKGHLEREC FA10_HUMAN 44 44
FLEEMRPGSLEREC PRTC_MOUSE 45 45
LLEETKQGNLEREC PRTS_HUMAN 45 45
FLEELLPGSLEREC FA7_BOVIN 4 4
FLEEVRAGSLEREC PRTC_RAT 45 45
FLEELRPGNVEREC PRTC_BOVIN 43 43
FFEEIKKGNLEREC S49075 44 44
FLEEMKQGNIEREC FA10_CHICK 44 44
KLEEFVQGNLEREC FA9_HUMAN 51 51
KLEEFVQGNLEREC HUMFIX 51 51
KLEEFVRGNLEREC FA9_BOVIN 5 5
KLEEFVRGNLEREC FA9_CANFA 44 44
KLEEFVRGNLEREC FA9_MOUSE 39 39
FLEELRHSSLEREC PRTC_HUMAN 46 46
LFEETMKGNLEREC S35962 45 45
FLEELRHSSLEREC HUMPRC7 46 46
LLEELFEGNLEKEC PRTZ_HUMAN 45 45
LLEELFEGNLEKEC HUMPROZII 67 67
LLEELFEGHLEKEC PRTZ_BOVIN 5 5
VFEEAKQGHLEREC B48089 52 52
VFEEAKQGHLEREC A48089 49 49
GLABLOOD2 Length of motif = 14 Motif number = 2
Coagulation factor Gla domain motif II - 8
PCODE ST INT
VEEQCSYEEAFEAL THRB_MOUSE 62 0
VEEQCSYEEAFEAL THRB_RAT 62 0
LEEPCSREEAFEAL THRB_BOVIN 62 0
VEETCSYEEAFEAL THRB_HUMAN 61 0
LEEPCSREEAFEAL BOVTHBNM 62 0
LEEACSLEEAREVF FA10_BOVIN 58 0
LEETCNYEEAFEAL CHKTHROM 62 0
KEEQCSFEEAREIF FA7_HUMAN 78 0
KEELCSFEEAREVF S56300 57 0
IEELCNKEEAREIF PRTS_BOVIN 59 0
MEETCSYEEAREVF FA10_HUMAN 58 0
MEEICDFEEAQEIF PRTC_MOUSE 59 0
IEELCNKEEAREVF PRTS_HUMAN 59 0
REELCSFEEAHEIF FA7_BOVIN 18 0
MEEICDFEEAQEIF PRTC_RAT 59 0
SEEVCEFEEAREIF PRTC_BOVIN 57 0
VEEICSFEEAREVF S49075 58 0
NEERCSKEEAREAF FA10_CHICK 58 0
MEEKCSFEEAREVF FA9_HUMAN 65 0
MEEKCSFEEPREVF HUMFIX 65 0
KEEKCSFEEAREVF FA9_BOVIN 19 0
IEEKCSFEEAREVF FA9_CANFA 58 0
IEERCSFEEAREVF FA9_MOUSE 53 0
IEEICDFEEAKEIF PRTC_HUMAN 60 0
IEELCNKEEAREVF S35962 59 0
IEEICDFEEAKEIF HUMPRC7 60 0
YEEICVYEEAREVF PRTZ_HUMAN 59 0
YEEICVYEEAREVF HUMPROZII 81 0
WEEICVYEEAREVF PRTZ_BOVIN 19 0
VEELCSREEAREVF B48089 66 0
VEEVCSKEEAREVF A48089 63 0
GLABLOOD3 Length of motif = 15 Motif number = 3
Coagulation factor Gla domain motif III - 8
PCODE ST INT
ESPQDTDVFWAKYTV THRB_MOUSE 76 0
ESPQDTDVFWAKYTV THRB_RAT 76 0
ESLSATDAFWAKYTA THRB_BOVIN 76 0
ESSTATDVFWAKYTA THRB_HUMAN 75 0
ESLSATDAFWAKYTA BOVTHBNM 76 0
EDAEQTDEFWSKYKD FA10_BOVIN 72 0
ESTVDTDAFWAKYQV CHKTHROM 76 0
KDAERTKLFWISYSD FA7_HUMAN 92 0
QSTERTKQFWITYND S56300 71 0
ENNPETEYFYPKYLG PRTS_BOVIN 73 0
EDSDKTNEFWNKYKD FA10_HUMAN 72 0
QNVEDTLAFWIKYFD PRTC_MOUSE 73 0
ENDPETDYFYPKYLV PRTS_HUMAN 73 0
RNEERTRQFWVSYND FA7_BOVIN 32 0
QNVEDTLAFWIKYFD PRTC_RAT 73 0
QNTEDTMAFWSFYSD PRTC_BOVIN 71 0
EDNEKTTEFWNKYED S49075 72 0
EDNEKTEEFWNIYVD FA10_CHICK 72 0
ENTERTTEFWKQYVD FA9_HUMAN 79 0
ENTEKTTEFWKQYVD HUMFIX 79 0
ENTEKTTEFWKQYVD FA9_BOVIN 33 0
ENTEKTTEFWKQYVD FA9_CANFA 72 0
ENTEKTTEFWKQYVD FA9_MOUSE 67 0
QNVDDTLAFWSKHVD PRTC_HUMAN 74 0
ENNPETDYFYPKYLG S35962 73 0
QNVDDTLAFWSKHVD HUMPRC7 74 0
ENEVVTDEFWRRYKG PRTZ_HUMAN 73 0
ENEVVTDEFWRRYKG HUMPROZII 95 0
EDDETTDEFWRTYMG PRTZ_BOVIN 33 0
ENDPETDYFYPRYLD B48089 80 0
ENDPETEYFYPRYQE A48089 77 0
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