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PR01172

Identifier
BLCTOGLOBULN  [View Relations]  [View Alignment]  
Accession
PR01172
No. of Motifs
6
Creation Date
30-NOV-1999
Title
Beta-lactoglobulin signature
Database References
PRINTS; PR00179 LIPOCALIN
INTERPRO; IPR002447
PDB; 1BEB
SCOP; 1BEB
CATH; 1BEB
Literature References
1. PERVAIS, S. AND BREW, K. 
Homology of beta-lactoglobulin, serum retinol-binding protein and 
protein HC.
SCIENCE 228 335-337 (1985).
 
2. FLOWER, D.R.
The Lipocalin protein family: structure and function.
BIOCHEM.J. 318 1-14 (1996).
 
3. FLOWER, D.R., NORTH, A.C.T. AND ATTWOOD, T.K.
Structural and sequence relationships in the lipocalins and related
proteins.
PROTEIN SCI. 2 753-761 (1993). 
 
4. FLOWER, D.R.
Multiple molecular recognition properties of the lipocalin protein family.
J.MOL.REC. 8 185-195 (1995).
 
5. HAMBLING, S.G., MCALPINE, A.S. AND SAWYER, L.
Beta-Lactoglobulin.
ADVANCED DIARY CHEMISTRY (FOX, P.F. ED) 140-190, ELSEVIER (1992).
 
6. BROWNLOW, S., CABRAL, J.H.M., COOPER, R., FLOWER, D.R., YEWDALL, S.J., 
POLIKARPOV, I., NORTH, A.C.T., SAWYER, L. 
Bovine beta-lactoglobulin at 1.8 angstrom resolution - Still an enigmatic 
lipocalin.
STRUCTURE 5 481-495 (1997).

Documentation
The lipocalins are a diverse, interesting, yet poorly understood family of 
proteins composed, in the main, of extracellular ligand-binding proteins
displaying high specificity for small hydrophobic molecules [1,2]. Functions
of these proteins include transport of nutrients, control of cell regula-
tion, pheromone transport, cryptic colouration and the enzymatic synthesis
of prostaglandins.
   
The crystal structures of several lipocalins have been solved and show a 
novel 8-stranded anti-parallel beta-barrel fold well conserved within the
family. Sequence similarity within the family is at a much lower level and
would seem to be restricted to conserved disulphides and 3 motifs, which
form a juxtaposed cluster that may act as a common cell surface receptor
site [2]. By contrast, at the more variable end of the fold are found an 
internal ligand binding site and a putative surface for the formation of 
macromolecular complexes [4]. The anti-parallel beta-barrel fold is also
exploited by the fatty acid-binding proteins (which function similarly by
binding small hydrophobic molecules), by avidin and the closely related
metalloprotease inhibitors, and by triabin. Similarity at the sequence 
level, however, is less obvious, being confined to a single short 
N-terminal motif.
 
The lipocalin family can be subdivided into kernal and outlier sets. The
kernal lipocalins form the largest self-consistent group (see LIPOCALIN
signature). The outlier lipocalins form several smaller distinct subgroups: 
the OBPs, the von Ebner's gland proteins, alpha-1-acid glycoproteins, 
tick histamine binding proteins and the nitrophorins.
 
Beta-lactoglobulin (Blg) is the major protein component of milk from a wide  
range of species but not human [5]. Glycodelin or PP14 protein is the human 
equivalent of Blg and is secreted into the endometrium. Blg binds a wide 
variety of hydrophobic ligands but its function remains unknown. The crystal
structure of Blg has been solved [6], confirming membership of the lipocalin
protein family.
 
BLCTOGLOBULN is a 6-element fingerprint that provides a signature for  
beta-lactoglobulins. The fingerprint was derived from an initial alignment
of 5 sequences: the motifs were drawn from conserved regions spanning
virtually the full alignment length - motif 1, which includes the region
encoded by PROSITE pattern LIPOCALIN (PS00213) and corresponds to the first
motif of the lipocalin fingerprint, spans the first alpha-helix and the 
first beta-strand; motif 2 spans the C-terminus of strand 2 and the second
helix; motif 3 encodes the C-terminal half of strand 3 and the N-terminal
portion of strand 4; motif 4 encodes the C-terminus of strand 5 and strand 6;
motif 5, which spans the C-terminus of strand 7 and strand 8, corresponds to
the second motif of the lipocalin fingerprint; and motif 6, which spans
strand 9 and the N-terminus of helix 4, is similar to the third lipocalin
motif. Two iterations on SPRT37_10f were required to reach convergence,
at which point a true set of 17 sequences was identified. Three partial
matches were also found, all of which are strongly divergent marsupial
lactoglobulins that match only motif 5 and either motif 4 or 3.
Summary Information
  17 codes involving  6 elements
0 codes involving 5 elements
0 codes involving 4 elements
0 codes involving 3 elements
3 codes involving 2 elements
Composite Feature Index
6171717171717
5000000
4000000
3000000
2002130
123456
True Positives
LACA_CANFA    LACA_EQUAS    LACA_FELCA    LACA_HORSE    
LACB_BOVIN LACB_BUBAR LACB_CAPHI LACB_EQUAS
LACB_FELCA LACB_HORSE LACB_PIG LACB_SHEEP
LACC_CANFA LACC_FELCA O62822 O77511
PP14_HUMAN
True Positive Partials
Codes involving 2 elements
LACB_MACEU LACB_MACGI LACB_TRIVU
Sequence Titles
LACA_CANFA  BETA-LACTOGLOBULIN I - CANIS FAMILIARIS (DOG). 
LACA_EQUAS BETA-LACTOGLOBULIN II, MINOR MONOMERIC - EQUUS ASINUS (DONKEY).
LACA_FELCA BETA-LACTOGLOBULIN II - FELIS SILVESTRIS CATUS (CAT).
LACA_HORSE BETA-LACTOGLOBULIN II PRECURSOR, MINOR MONOMERIC (BLGII) - EQUUS CABALLUS (HORSE).
LACB_BOVIN BETA-LACTOGLOBULIN PRECURSOR (BETA-LG) (ALLERGEN BOS D 5) - BOS TAURUS (BOVINE).
LACB_BUBAR BETA-LACTOGLOBULIN - BUBALUS ARNEE BUBALIS (DOMESTIC WATER BUFFALO).
LACB_CAPHI BETA-LACTOGLOBULIN PRECURSOR - CAPRA HIRCUS (GOAT).
LACB_EQUAS BETA-LACTOGLOBULIN I, MAJOR MONOMERIC - EQUUS ASINUS (DONKEY).
LACB_FELCA BETA-LACTOGLOBULIN I - FELIS SILVESTRIS CATUS (CAT).
LACB_HORSE BETA-LACTOGLOBULIN I PRECURSOR (BLGI) - EQUUS CABALLUS (HORSE).
LACB_PIG BETA-LACTOGLOBULIN IA AND IC PRECURSOR - SUS SCROFA (PIG).
LACB_SHEEP BETA-LACTOGLOBULIN 1/B, 2/A, AND 3/C PRECURSOR - OVIS ARIES (SHEEP), AND OVIS ORIENTALIS MUSIMON (MOUFLON).
LACC_CANFA BETA-LACTOGLOBULIN III - CANIS FAMILIARIS (DOG).
LACC_FELCA BETA-LACTOGLOBULIN III - FELIS SILVESTRIS CATUS (CAT).
O62822 BETA-LACTOGLOBULIN - BUBALUS ARNEE BUBALIS (DOMESTIC WATER BUFFALO).
O77511 BETA-LACTOGLOBULIN I - PAPIO CYNOCEPHALUS (YELLOW BABOON).
PP14_HUMAN PREGNANCY-ASSOCIATED ENDOMETRIAL ALPHA-2 GLOBULIN PRECURSOR (PEG) (PLACENTAL PROTEIN 14) (PROGESTAGEN-ASSOCIATED ENDOMETRIAL PROTEIN) - HOMO SAPIENS (HUMAN).

LACB_MACEU BETA-LACTOGLOBULIN PRECURSOR - MACROPUS EUGENII (TAMMAR WALLABY).
LACB_MACGI BETA-LACTOGLOBULIN - MACROPUS GIGANTEUS (EASTERN GRAY KANGAROO).
LACB_TRIVU BETA-LACTOGLOBULIN PRECURSOR (BETA-LG) - TRICHOSURUS VULPECULA (BRUSH-TAILED POS
Scan History
SPTR37_10f 2  30   NSINGLE    
Initial Motifs
Motif 1  width=14
Element Seqn Id St Int Rpt
TMKGLDIQKVAGTW LACB_BUBAR 6 6 -
TMQDLDLQEVAGRW LACA_HORSE 24 24 -
IMTELDTQKVAGTW LACB_PIG 24 24 -
TMQDVELPKLAGTW O77511 24 24 -
TKQDLELPKLAGTW PP14_HUMAN 24 24 -

Motif 2 width=11
Element Seqn Id St Int Rpt
AMAASDISLLD LACB_BUBAR 23 3 -
AMVASDISLLD LACA_HORSE 41 3 -
AMAVSDVSLLD LACB_PIG 41 3 -
AMAASDFSLLE O77511 41 3 -
AMATNNISLMA PP14_HUMAN 41 3 -

Motif 3 width=15
Element Seqn Id St Int Rpt
EELKPTPEGDLEILL LACB_BUBAR 44 10 -
EELRPTPEGNLEIIL LACA_HORSE 62 10 -
EGLKPTPEGDLEILL LACB_PIG 62 10 -
SSLQPTPEGNLEIVL O77511 62 10 -
TSLLPTPEDNLEIVL PP14_HUMAN 62 10 -

Motif 4 width=15
Element Seqn Id St Int Rpt
IIAEKTKIPAVFKID LACB_BUBAR 71 12 -
IVAQKTEDPAVFTVN LACA_HORSE 89 12 -
LLAKKTDIPAVFKIN LACB_PIG 89 12 -
IIAEKTENPIEFKIN O77511 97 20 -
VLGEKTENPKKFKIN PP14_HUMAN 89 12 -

Motif 5 width=16
Element Seqn Id St Int Rpt
VLVLDTDYKKYLLFCM LACB_BUBAR 92 6 -
ISVLDTDYAHYMFFCV LACA_HORSE 110 6 -
LFLLDTDYDSHLLLCM LACB_PIG 110 6 -
IYLFNTDGSKYLFLCL O77511 118 6 -
ATLLDTDYDNFLFLCL PP14_HUMAN 110 6 -

Motif 6 width=20
Element Seqn Id St Int Rpt
LACQCLVRTPEVDDEALEKF LACB_BUBAR 117 9 -
MVCQYLARTQKVDEEVMEKF LACA_HORSE 136 10 -
LVCQSLARTLEVDDQIREKF LACB_PIG 135 9 -
LACQYLARTLEVDDKVMAEF O77511 141 7 -
MMCQYLARVLVEDDEIMQGF PP14_HUMAN 135 9 -
Final Motifs
Motif 1  width=14
Element Seqn Id St Int Rpt
TMKGLDIQKVAGTW LACB_SHEEP 24 24 -
TMKGLDIQKVAGTW LACB_CAPHI 24 24 -
TMKGLDIQKVAGTW LACB_BOVIN 22 22 -
TMKGLDIQKVAGTW LACB_BUBAR 6 6 -
TMKGLDIQKVAGTW O62822 24 24 -
TMEDLDLQKVAGTW LACA_CANFA 6 6 -
TMQDLDLQEVAGKW LACB_HORSE 24 24 -
TMDGLDLQKVAGTW LACC_FELCA 6 6 -
TMQDLDLQEVAGKW LACB_EQUAS 6 6 -
TMEDLDLQKVAGTW LACC_CANFA 6 6 -
TMDGLDLQKVAGMW LACB_FELCA 6 6 -
TMQDLDLQEVAGRW LACA_EQUAS 6 6 -
TMQDLDLQEVAGRW LACA_HORSE 24 24 -
TMEDLDIRQVAGTW LACA_FELCA 6 6 -
IMTELDTQKVAGTW LACB_PIG 24 24 -
TMQDVELPKLAGTW O77511 24 24 -
TKQDLELPKLAGTW PP14_HUMAN 24 24 -

Motif 2 width=11
Element Seqn Id St Int Rpt
AMAASDISLLD LACB_SHEEP 41 3 -
AMAASDISLLD LACB_CAPHI 41 3 -
AMAASDISLLD LACB_BOVIN 39 3 -
AMAASDISLLD LACB_BUBAR 23 3 -
AMAASDISLLD O62822 41 3 -
AMAASDISLLD LACA_CANFA 23 3 -
AMAASDISLLD LACB_HORSE 41 3 -
AMAASDISLLD LACC_FELCA 23 3 -
AMAASDISLLD LACB_EQUAS 23 3 -
AMAASDISLLD LACC_CANFA 23 3 -
AMAASDISLLD LACB_FELCA 23 3 -
AMVASDISLLD LACA_EQUAS 23 3 -
AMVASDISLLD LACA_HORSE 41 3 -
AMAASDISLLD LACA_FELCA 23 3 -
AMAVSDVSLLD LACB_PIG 41 3 -
AMAASDFSLLE O77511 41 3 -
AMATNNISLMA PP14_HUMAN 41 3 -

Motif 3 width=15
Element Seqn Id St Int Rpt
EELKPTPEGNLEILL LACB_SHEEP 62 10 -
EELKPTPEGNLEILL LACB_CAPHI 62 10 -
EELKPTPEGDLEILL LACB_BOVIN 60 10 -
EELKPTPEGDLEILL LACB_BUBAR 44 10 -
EELKPTPEGDLEILL O62822 62 10 -
QELRPTPQDNLEIVL LACA_CANFA 44 10 -
EKLRPTPEDNLEIIL LACB_HORSE 62 10 -
QELRPTPRDNLEIIL LACC_FELCA 44 10 -
EKLRPTPEDNLEIIL LACB_EQUAS 44 10 -
QELRPTPQDNLEIVL LACC_CANFA 44 10 -
QELRPTPRDNLEIIL LACB_FELCA 44 10 -
EELRPTPEGNLEIIL LACA_EQUAS 44 10 -
EELRPTPEGNLEIIL LACA_HORSE 62 10 -
QELRPTPRDNLEIIL LACA_FELCA 44 10 -
EGLKPTPEGDLEILL LACB_PIG 62 10 -
SSLQPTPEGNLEIVL O77511 62 10 -
TSLLPTPEDNLEIVL PP14_HUMAN 62 10 -

Motif 4 width=15
Element Seqn Id St Int Rpt
IIAEKTKIPAVFKID LACB_SHEEP 89 12 -
IIAEKTKIPAVFKID LACB_CAPHI 89 12 -
IIAEKTKIPAVFKID LACB_BOVIN 87 12 -
IIAEKTKIPAVFKID LACB_BUBAR 71 12 -
IIAEKTKIPAVFKID O62822 89 12 -
VLAEKTEVPAEFKIN LACA_CANFA 71 12 -
IFAEKTESPAEFKIN LACB_HORSE 89 12 -
ILAQKTELPAEFKIS LACC_FELCA 71 12 -
IFAEKTESPAEFKIN LACB_EQUAS 71 12 -
VFAEKTELAAXFSIN LACC_CANFA 71 12 -
VLAEKTECAAKFNIN LACB_FELCA 71 12 -
IVAQKTEDPAVFTVN LACA_EQUAS 71 12 -
IVAQKTEDPAVFTVN LACA_HORSE 89 12 -
IMAQRTEDPAVFMVD LACA_FELCA 71 12 -
LLAKKTDIPAVFKIN LACB_PIG 89 12 -
IIAEKTENPIEFKIN O77511 97 20 -
VLGEKTENPKKFKIN PP14_HUMAN 89 12 -

Motif 5 width=16
Element Seqn Id St Int Rpt
VLVLDTDYKKYLLFCM LACB_SHEEP 110 6 -
VLVLDTDYKKYLLFCM LACB_CAPHI 110 6 -
VLVLDTDYKKYLLFCM LACB_BOVIN 108 6 -
VLVLDTDYKKYLLFCM LACB_BUBAR 92 6 -
VLVLDTDYKKYLLFCM O62822 110 6 -
IFLLDTDYDNYLFFCE LACA_CANFA 92 6 -
VFALDTDYKNYLFLCM LACB_HORSE 110 6 -
LIVLDTDYENYLFFCL LACC_FELCA 92 6 -
VFALDSDYKNYLFLCM LACB_EQUAS 92 6 -
IFLLDTDYDNYLFFCM LACC_CANFA 92 6 -
LIVLDTDYENYLFFCL LACB_FELCA 92 6 -
ISVLDTDYAHYMFFCV LACA_EQUAS 92 6 -
ISVLDTDYAHYMFFCV LACA_HORSE 110 6 -
ISVLDTDYTHYMFFCM LACA_FELCA 92 6 -
LFLLDTDYDSHLLLCM LACB_PIG 110 6 -
IYLFNTDGSKYLFLCL O77511 118 6 -
ATLLDTDYDNFLFLCL PP14_HUMAN 110 6 -

Motif 6 width=20
Element Seqn Id St Int Rpt
LACQCLVRTPEVDNEALEKF LACB_SHEEP 135 9 -
LACQCLVRTPEVDKEALEKF LACB_CAPHI 135 9 -
LACQCLVRTPEVDDEALEKF LACB_BOVIN 133 9 -
LACQCLVRTPEVDDEALEKF LACB_BUBAR 117 9 -
LACQCLVRTPEVDDEALEKF O62822 135 9 -
LMCQCLARTLEVDNEVMEKF LACA_CANFA 117 9 -
LVCQYLARTQMVDEEIMEKF LACB_HORSE 135 9 -
LVCQCLTRTLKADNEVMEKF LACC_FELCA 117 9 -
LVCQYLARTQMVDEEIMEKF LACB_EQUAS 117 9 -
LMCQCLARTLEVNNEVIGKF LACC_CANFA 117 9 -
LVCQCLTRTLKADNEVMEKF LACB_FELCA 117 9 -
MVCQYLARTQKVDEEVMEKF LACA_EQUAS 118 10 -
MVCQYLARTQKVDEEVMEKF LACA_HORSE 136 10 -
MMCQYLARTLKADNEVMEKF LACA_FELCA 118 10 -
LVCQSLARTLEVDDQIREKF LACB_PIG 135 9 -
LACQYLARTLEVDDKVMAEF O77511 141 7 -
MMCQYLARVLVEDDEIMQGF PP14_HUMAN 135 9 -