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PR00925

Identifier
NONHISHMG17  [View Relations]  [View Alignment]  
Accession
PR00925
No. of Motifs
4
Creation Date
20-JUL-1998  (UPDATE 27-JUN-1999)
Title
Nonhistone chromosomal protein HMG17 family signature
Database References

PROSITE; PS00355 HMG14_17
BLOCKS; BL00355
PFAM; PF01101 HMG14_17
INTERPRO; IPR000079
Literature References
1. DODGSON, J.B., BROWNE, D.L. AND BLACK, A.J.
Chicken chromosomal protein HMG-14 and HMG-17 cDNA clones: isolation,
characterization and sequence comparison. 
GENE 63 287-295 (1988). 
 
2. LANDSMAN, D., MCBRIDE, O.W., SOARES, N., CRIPPA, M.P., SRIKANTHA, T.
AND BUSTIN, M.
Chromosomal protein HMG-14. Identification, characterization, and
chromosome localization of a functional gene from the large human 
multigene family. 
J.BIOL.CHEM. 264 3421-3427 (1989). 
 
3. LANDSMAN D., SOARES N., GONZALEZ F.J. AND BUSTIN M.
Chromosomal protein HMG-17. Complete human cDNA sequence and evidence
for a multigene family. 
J.BIOL.CHEM. 261 7479-7484 (1986). 
 
4. WATSON, D.C., WONG, N.C. AND DIXON, G.H.
The complete amino-acid sequence of a trout testis non-histone protein, H6, 
localized in a subset of nucleosomes and its similarity to calf thymus
non-histone proteins HMG-14 and HMG-17. 
EUR.J.BIOCHEMISTRY 95 193-202 (1979). 

Documentation
High mobility group (HMG) proteins constitute a family of relatively low 
molecular weight non-histone components in chromatin. HMG14 and HMG17 are
highly-similar proteins of about 100 amino acid residues; the sequence of
chicken HMG14 is almost as similar to chicken HMG17 as it is to mammalian
HMG14 polypeptides [1]. The proteins bind to the inner side of the nucleo-
somal DNA, altering the interaction between the DNA and the histone octamer
[1,2]. It is thought that they may be involved in the process that confers
specific chromatin conformations to transcribable regions in the genome [3].
 
H6 (histone T) is a basic non-histone protein isolated from the chromatin of
rainbow trout [4]. Protein H6 possesses 69 residues and, in spite of its 
shorter length, shows considerable similarities to the 89-residue calf 
thymus HMG17 protein family [4].
 
NONHISHMG17 is a 4-element fingerprint that provides a signature for the
non-histone chromosomal HMG-17 protein family. The fingerprint was derived
from an initial alignment of 12 sequences: the motifs were drawn from
short conserved regions spanning virtually the full alignment length. Two
iterations on OWL30.2 were required to reach convergence, at which point
a true set comprising 13 sequences was identified. Two partial matches
were also found: HG17_BOVIN is a bovine non-histone chromosomal protein 
whose sequence is poorly defined in the region of motif 4; and HSU90549 
is a human non-histone chromosomal protein that fails to make a significant
match with motif 4.
 
An update on SPTR37_9f identified a true set of 13 sequences, and 2
partial matches.
Summary Information
  13 codes involving  4 elements
1 codes involving 3 elements
1 codes involving 2 elements
Composite Feature Index
413131313
31110
21001
1234
True Positives
H6_ONCMY      HG14_BOVIN    HG14_CHICK    HG14_HUMAN    
HG14_MOUSE HG15_CHICK HG17_CHICK HG17_HUMAN
HG17_MOUSE HG17_PIG HG17_RAT O00479
O43727
True Positive Partials
Codes involving 3 elements
HG17_BOVIN
Codes involving 2 elements
O88832
Sequence Titles
H6_ONCMY    NONHISTONE CHROMOSOMAL PROTEIN H6 (HISTONE T) - ONCORHYNCHUS MYKISS (RAINBOW TROUT) (SALMO GAIRDNERI). 
HG14_BOVIN NONHISTONE CHROMOSOMAL PROTEIN HMG-14 - BOS TAURUS (BOVINE).
HG14_CHICK NONHISTONE CHROMOSOMAL PROTEIN HMG-14B - GALLUS GALLUS (CHICKEN).
HG14_HUMAN NONHISTONE CHROMOSOMAL PROTEIN HMG-14 - HOMO SAPIENS (HUMAN).
HG14_MOUSE NONHISTONE CHROMOSOMAL PROTEIN HMG-14 - MUS MUSCULUS (MOUSE).
HG15_CHICK NONHISTONE CHROMOSOMAL PROTEIN HMG-14A - GALLUS GALLUS (CHICKEN).
HG17_CHICK NONHISTONE CHROMOSOMAL PROTEIN HMG-17 - GALLUS GALLUS (CHICKEN).
HG17_HUMAN NONHISTONE CHROMOSOMAL PROTEIN HMG-17 - HOMO SAPIENS (HUMAN).
HG17_MOUSE NONHISTONE CHROMOSOMAL PROTEIN HMG-17 - MUS MUSCULUS (MOUSE).
HG17_PIG NONHISTONE CHROMOSOMAL PROTEIN HMG-17 - SUS SCROFA (PIG).
HG17_RAT NONHISTONE CHROMOSOMAL PROTEIN HMG-17 - RATTUS NORVEGICUS (RAT).
O00479 NON-HISTONE CHROMOSOMAL PROTEIN - HOMO SAPIENS (HUMAN).
O43727 DJ388M5.2 (CHROMOSOMAL PROTEIN HMG-17 LIKE PROTEIN) - HOMO SAPIENS (HUMAN).

HG17_BOVIN NONHISTONE CHROMOSOMAL PROTEIN HMG-17 - BOS TAURUS (BOVINE).

O88832 GARP34 PROTEIN - MUS MUSCULUS (MOUSE).
Scan History
OWL30_2    2  100  NSINGLE    
SPTR37_9f 3 100 NSINGLE
Initial Motifs
Motif 1  width=15
Element Seqn Id St Int Rpt
KAEPKRRSARLSAKP HG14_MOUSE 12 12 -
EEVPKRRSARLSAKP HG14_CHICK 13 13 -
KQEPTRRSARLSAKP TRI7_HUMAN 41 41 -
GDEPARRSARLSARP H6_ONCMY 9 9 -
KDEPQRRSARLSAKP HG17_HUMAN 17 17 -
KDEPQRRSARLSAKP HG17_MOUSE 17 17 -
KDEPQRRSARLSAKP HG17_PIG 17 17 -
KDEPQRRSARLSAKP HG17_CHICK 17 17 -
KDEPQRRSARLSAKP HG17_RAT 17 17 -
KEEPKRRSARLSAKP HG15_CHICK 12 12 -
KEEPKRRSARLSAKP HG14_HUMAN 13 13 -
KEEPKRRSARLSAKP HG14_BOVIN 13 13 -

Motif 2 width=13
Element Seqn Id St Int Rpt
PPKPEPKPKKAAP HG17_CHICK 33 1 -
PPKPEPKPRKTSA TRI7_HUMAN 57 1 -
PPKPEPKPKKAPA HG17_HUMAN 33 1 -
PPKPEPKPKKAPA HG17_MOUSE 33 1 -
PPKPEPKPKKAPA HG17_PIG 33 1 -
PPKPEPKPKKAPA HG17_RAT 33 1 -
PPKPEPKPKKAAP HG15_CHICK 28 1 -
PAKVEAKPKKAAA HG14_HUMAN 28 0 -
PAKVETKPKKAAG HG14_BOVIN 29 1 -
PAKVDAKPKKAAG HG14_MOUSE 28 1 -
PDKAEPKAKALAA HG14_CHICK 29 1 -
VPKPAAKPKKAAA H6_ONCMY 24 0 -

Motif 3 width=11
Element Seqn Id St Int Rpt
APKKAVKGKKA H6_ONCMY 36 -1 -
KVPKGKKGKAD HG17_HUMAN 50 4 -
KVPKGKKGKAD HG17_MOUSE 50 4 -
KVPKGKKGKAD HG17_PIG 50 4 -
KVPKGKKGKAD HG17_CHICK 50 4 -
KVPKGKKGKAD HG17_RAT 50 4 -
KISRGAKGKKE TRI7_HUMAN 76 6 -
KGKKGAKGKDE HG15_CHICK 58 17 -
KGKRGAKGKQA HG14_HUMAN 52 11 -
KGKRGAKGKQA HG14_BOVIN 53 11 -
KGKRGAKGKQA HG14_MOUSE 52 11 -
KGKKGPKGKQT HG14_CHICK 53 11 -

Motif 4 width=11
Element Seqn Id St Int Rpt
AENGETENQSP HG14_MOUSE 74 11 -
AENGDAKAEAK H6_ONCMY 47 0 -
AENGDAKTDQA HG17_HUMAN 69 8 -
SENGETKAEEA TRI7_HUMAN 99 12 -
AENGDAKTDQA HG17_MOUSE 69 8 -
AENGDAKTDQA HG17_PIG 69 8 -
AENGDAKTDQA HG17_CHICK 69 8 -
AEDGDAKTDQA HG17_RAT 69 8 -
SENGDTKTNEA HG15_CHICK 80 11 -
AENGETKTEES HG14_HUMAN 75 12 -
AENGETKNEES HG14_BOVIN 76 12 -
AENGETKSEET HG14_CHICK 77 13 -
Final Motifs
Motif 1  width=15
Element Seqn Id St Int Rpt
KDEPQRRSARLSAKP HG17_HUMAN 17 17 -
KDEPQRRSARLSAKP HG17_MOUSE 17 17 -
KDEPQRRSARLSAKP HG17_PIG 17 17 -
KDEPQRRSARLSAKP HG17_CHICK 17 17 -
KDEPQRRSARLSAKP HG17_RAT 17 17 -
KEEPKRRSARLSAKP HG15_CHICK 12 12 -
KEEPKRRSARLSAKP HG14_HUMAN 13 13 -
KEEPKRRSARLSAKP HG14_BOVIN 13 13 -
KDEPQRRSARLSAKP O00479 18 18 -
MKDKSQRSASLSAKP O43727 1 1 -
KAEPKRRSARLSAKP HG14_MOUSE 12 12 -
EEVPKRRSARLSAKP HG14_CHICK 13 13 -
GDEPARRSARLSARP H6_ONCMY 9 9 -

Motif 2 width=13
Element Seqn Id St Int Rpt
PPKPEPKPKKAPA HG17_HUMAN 33 1 -
PPKPEPKPKKAPA HG17_MOUSE 33 1 -
PPKPEPKPKKAPA HG17_PIG 33 1 -
PPKPEPKPKKAAP HG17_CHICK 33 1 -
PPKPEPKPKKAPA HG17_RAT 33 1 -
PPKPEPKPKKAAP HG15_CHICK 28 1 -
PAKVEAKPKKAAA HG14_HUMAN 28 0 -
PAKVETKPKKAAG HG14_BOVIN 29 1 -
PPKPEPRPKKASA O00479 34 1 -
PPKPEPKPKRAPT O43727 17 1 -
PAKVDAKPKKAAG HG14_MOUSE 28 1 -
PDKAEPKAKALAA HG14_CHICK 29 1 -
VPKPAAKPKKAAA H6_ONCMY 24 0 -

Motif 3 width=11
Element Seqn Id St Int Rpt
KVPKGKKGKAD HG17_HUMAN 50 4 -
KVPKGKKGKAD HG17_MOUSE 50 4 -
KVPKGKKGKAD HG17_PIG 50 4 -
KVPKGKKGKAD HG17_CHICK 50 4 -
KVPKGKKGKAD HG17_RAT 50 4 -
KGKKGAKGKDE HG15_CHICK 58 17 -
KGKRGAKGKQA HG14_HUMAN 52 11 -
KGKRGAKGKQA HG14_BOVIN 53 11 -
KLPKGRKGKAD O00479 51 4 -
KVHKGKKGKAD O43727 34 4 -
KGKRGAKGKQA HG14_MOUSE 52 11 -
KGKKGPKGKQT HG14_CHICK 53 11 -
APKKAVKGKKA H6_ONCMY 36 -1 -

Motif 4 width=11
Element Seqn Id St Int Rpt
AENGDAKTDQA HG17_HUMAN 69 8 -
AENGDAKTDQA HG17_MOUSE 69 8 -
AENGDAKTDQA HG17_PIG 69 8 -
AENGDAKTDQA HG17_CHICK 69 8 -
AEDGDAKTDQA HG17_RAT 69 8 -
SENGDTKTNEA HG15_CHICK 80 11 -
AENGETKTEES HG14_HUMAN 75 12 -
AENGETKNEES HG14_BOVIN 76 12 -
AKNRDASTLQS O00479 70 8 -
AQHGDAKTDRA O43727 53 8 -
AENGETENQSP HG14_MOUSE 74 11 -
AENGETKSEET HG14_CHICK 77 13 -
AENGDAKAEAK H6_ONCMY 47 0 -