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PR00270

Identifier
CALCITONINA  [View Relations]  [View Alignment]  
Accession
PR00270
No. of Motifs
3
Creation Date
15-SEP-1993  (UPDATE 14-JUN-1999)
Title
Alpha-type calcitonin signature
Database References

PROSITE; PS00258 CALCITONIN
BLOCKS; BL00258
INTERPRO; IPR001935
Literature References
1. STEENBERGH, P.H., HOPPENER, J.W., ZANDBERG, J., LIPS, C.J. AND JANSZ, H.S.
A second human calcitonin/CGRP gene. 
FEBS LETT. 183 403-407 (1985). 
 
2. BREIMER, L.H., MCINTYRE, I. AND ZAIDI, M.
Peptides from the calcitonin genes - Molecular genetics, structure
and function.
BIOCHEM.J. 255(2) 377-390 (1988).
 
3. MOTTA, A., PASTORE, A., GOUD, N.A. AND CASTIGLIONE MORELLI, M.A. 
Solution conformation of salmon calcitonin in sodium dodecyl sulfate
micelles as determined by two-dimensional NMR and distance geometry
calculations. 
BIOCHEMISTRY 30 10444-10450 (1991). 

Documentation
The calcitonin (CT) gene is alternatively expressed in a tissue-specific
manner, producing either the calcium regulatory hormone CT in the thyroid,
or the neuropeptide calcitonin gene related peptide (CGRP) in the brain [1].
In medullary carcinoma of the thyroid, both peptides are produced [1]. 
 
The calcitonin regulatory hormone is a peptide of 32 residues that causes a
rapid but short-lived drop in calcium and phosphate levels in the blood by
promoting the incorporation of these ions in the bones [2]. The structure
of salmon calcitonin has been studied by 2D NMR in SDS micelles [3]. The
main conformational feature of the hormone is an alpha-helix from residues
6-22, which includes an amphipathic segment. Two cysteine residues (at 
positions 1 and 7) form an N-terminal loop, and a C-terminal decapeptide
forms a loop that folds back towards the helix [3]. 
 
CALCITONINA is a 3-element fingerprint that provides a signature for alpha-
type calcitonin peptides. The fingerprint was derived from an initial
alignment of 11 sequences: the motifs span the full length of the peptide -
motifs 1 and 2 span the alpha-helix, motif 1 also including the two Cys
residues known to be involved in disulphide bond formation [3] (these motifs
also include the region encoded by PROSITE pattern CALCITONIN (PS00258)); 
motif 3 encompasses the C-terminal loop. Two iterations on OWL30.0 were
required to reach convergence, at which point a true set comprising 14
sequences was identified. A single partial match was also found, SYNCALAA,
a synthetic human calcitonin fragment.
 
An update on SPTR37_9f identified a true set of 12 sequences.
Summary Information
12 codes involving  3 elements
0 codes involving 2 elements
Composite Feature Index
3121212
2000
123
True Positives
CAL0_HUMAN    CAL0_MOUSE    CAL0_RAT      CAL1_ONCKE    
CAL2_ONCKE CAL3_ONCKI CAL_ANGJA CAL_BOVIN
CAL_CHICK CAL_PIG CAL_SHEEP Q13937
Sequence Titles
CAL0_HUMAN  CALCITONIN PRECURSOR - HOMO SAPIENS (HUMAN).  
CAL0_MOUSE CALCITONIN PRECURSOR - MUS MUSCULUS (MOUSE).
CAL0_RAT CALCITONIN PRECURSOR - RATTUS NORVEGICUS (RAT).
CAL1_ONCKE CALCITONIN 1 PRECURSOR - ONCORHYNCHUS KETA (CHUM SALMON).
CAL2_ONCKE CALCITONIN 2 - ONCORHYNCHUS KETA (CHUM SALMON), ONCORHYNCHUS NERKA (SOCKEYE SALMON), AND ONCORHYNCHUS GORBUSCHA (PINK SALMON) (HUMPBACK SALMON).
CAL3_ONCKI CALCITONIN 3 - ONCORHYNCHUS KISUTCH (COHO SALMON).
CAL_ANGJA CALCITONIN - ANGUILLA JAPONICA (JAPANESE EEL).
CAL_BOVIN CALCITONIN - BOS TAURUS (BOVINE).
CAL_CHICK CALCITONIN PRECURSOR - GALLUS GALLUS (CHICKEN).
CAL_PIG CALCITONIN - SUS SCROFA (PIG).
CAL_SHEEP CALCITONIN PRECURSOR - OVIS ARIES (SHEEP).
Q13937 CALCITONIN PRECURSOR - HOMO SAPIENS (HUMAN).
Scan History
OWL30_0    2  100  NSINGLE    
SPTR37_9f 1 100 NSINGLE
Initial Motifs
Motif 1  width=10
Element Seqn Id St Int Rpt
CGNLSTCMLG CAL0_HUMAN 85 85 -
CSNLSTCVLS CAL_BOVIN 1 1 -
CSNLSTCVLS CAL_PIG 1 1 -
CGNLSTCMLG A35934 81 81 -
CSNLSTCVLG CAL_CANFA 47 47 -
CSNLSTCVLS CAL_SHEEP 87 87 -
CSNLSTCVLG CAL2_ONCKE 1 1 -
CSNLSTCMLG CAL3_ONCKI 1 1 -
CGNLSTCMLG CAL0_RAT 85 85 -
CSNLSTCVLG CAL_ANGJA 1 1 -
CSNLSTCVLG CAL1_ONCKE 83 83 -

Motif 2 width=13
Element Seqn Id St Int Rpt
GKLSQDLHKLQTF CAL3_ONCKI 10 -1 -
GTYSKDLNNFHTF CAL_CANFA 56 -1 -
GTYTQDLNKFHTF A35934 90 -1 -
GKLSQDLHKLQTF CAL2_ONCKE 10 -1 -
GTYTQDLNKFHTF CAL0_RAT 94 -1 -
GKLSQELHKLQTY CAL_ANGJA 10 -1 -
GKLSQELHKLQTY CAL1_ONCKE 92 -1 -
GTYTQDFNKFHTF CAL0_HUMAN 94 -1 -
SAYWKDLNNYHRF CAL_BOVIN 10 -1 -
SAYWRNLNNFHRF CAL_PIG 10 -1 -
SAYWKDLNNYHRY CAL_SHEEP 96 -1 -

Motif 3 width=10
Element Seqn Id St Int Rpt
FSGMGFGPET CAL_PIG 22 -1 -
YSGMGFGPET CAL_SHEEP 108 -1 -
FPRTNTGAGV CAL2_ONCKE 22 -1 -
FPQTAIGVVA A35934 102 -1 -
FPRTNTGAGV CAL3_ONCKI 22 -1 -
FSGIGFGAET CAL_CANFA 68 -1 -
FPQTSIGVGA CAL0_RAT 106 -1 -
YPRTDVGAGT CAL_ANGJA 22 -1 -
YPRTNTGSGT CAL1_ONCKE 104 -1 -
FPQTAIGVGA CAL0_HUMAN 106 -1 -
FSGMGFGPET CAL_BOVIN 22 -1 -
Final Motifs
Motif 1  width=10
Element Seqn Id St Int Rpt
CSNLSTCVLG CAL2_ONCKE 1 1 -
CSNLSTCMLG CAL3_ONCKI 1 1 -
CGNLSTCMLG CAL0_RAT 85 85 -
CSNLSTCVLG CAL_ANGJA 1 1 -
CGNLSTCMLG CAL0_MOUSE 85 85 -
CSNLSTCVLG CAL1_ONCKE 83 83 -
CGNLSTCMLG CAL0_HUMAN 85 85 -
CGNLSTCMLG Q13937 85 85 -
CASLSTCVLG CAL_CHICK 82 82 -
CSNLSTCVLS CAL_BOVIN 1 1 -
CSNLSTCVLS CAL_PIG 1 1 -
CSNLSTCVLS CAL_SHEEP 87 87 -

Motif 2 width=13
Element Seqn Id St Int Rpt
GKLSQDLHKLQTF CAL2_ONCKE 10 -1 -
GKLSQDLHKLQTF CAL3_ONCKI 10 -1 -
GTYTQDLNKFHTF CAL0_RAT 94 -1 -
GKLSQELHKLQTY CAL_ANGJA 10 -1 -
GTYTQDLNKFHTF CAL0_MOUSE 94 -1 -
GKLSQELHKLQTY CAL1_ONCKE 92 -1 -
GTYTQDFNKFHTF CAL0_HUMAN 94 -1 -
GTYTQDFNKFHTF Q13937 94 -1 -
GKLSQELHKLQTY CAL_CHICK 91 -1 -
SAYWKDLNNYHRF CAL_BOVIN 10 -1 -
SAYWRNLNNFHRF CAL_PIG 10 -1 -
SAYWKDLNNYHRY CAL_SHEEP 96 -1 -

Motif 3 width=10
Element Seqn Id St Int Rpt
FPRTNTGAGV CAL2_ONCKE 22 -1 -
FPRTNTGAGV CAL3_ONCKI 22 -1 -
FPQTSIGVGA CAL0_RAT 106 -1 -
YPRTDVGAGT CAL_ANGJA 22 -1 -
FPQTSIGVEA CAL0_MOUSE 106 -1 -
YPRTNTGSGT CAL1_ONCKE 104 -1 -
FPQTAIGVGA CAL0_HUMAN 106 -1 -
FPQTAIGVGA Q13937 106 -1 -
YPRTDVGAGT CAL_CHICK 103 -1 -
FSGMGFGPET CAL_BOVIN 22 -1 -
FSGMGFGPET CAL_PIG 22 -1 -
YSGMGFGPET CAL_SHEEP 108 -1 -