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PR01287

Identifier
NURRNUCRCPTR  [View Relations]  [View Alignment]  
Accession
PR01287
No. of Motifs
12
Creation Date
16-FEB-2000
Title
Orphan nuclear receptor NURR signature
Database References
PRINTS; PR00398 STRDHORMONER; PR01284 NUCLEARECPTR
Literature References
1. NUCLEAR RECEPTORS NOMENCLATURE COMMITTEE
A unified nomenclature system for the nuclear receptor superfamily.
CELL 97 161-163 (1999).
 
2. NISHIKAWA, J-I., KITAURA, M., IMAGAWA, M. AND NISHIHARA, T.
Vitamin D receptor contains multiple dimerisation interfaces that
are functionally different.
NUCLEIC ACIDS RES. 23(4) 606-611 (1995).
 
3. DE VOS, P., SCHMITT, J., VERHOEVEN, G. AND STUNNENBERG, G.
Human androgen receptor expressed in HeLa cells activates transcription
in vitro.
NUCLEIC ACIDS RES. 22(7) 1161-1166 (1994).
 
4. XING, G., ZHANG, L., ZHANG, L., HEYNEN, T., LI, X.L., SMITH, M.A.,
WEISS S.R., FELDMAN, A.N., DETERA-WADLEIGH, S., CHUANG, D.M. AND POST, R.M.
Rat nurr1 is prominently expressed in perirhinal cortex, and differentially
induced in the hippocampal dentate gyrus by electroconvulsive vs. kindled
BRAIN RES.MOL.BRAIN RES. 47 251-261 (1997). 
 
5. LAW, S.W., CONNEELY, O.M., DEMAYO, F.J. AND O'MALLEY, B.W.
Identification of a new brain-specific transcription factor, NURR1.
MOL.ENDOCRINOL. 2129-2135 (1992). 

Documentation
seizures.
Steroid or nuclear hormone receptors (NRs) constitute an important super-
family of transcription regulators that are involved in widely diverse 
physiological functions, including control of embryonic development, cell
differentiation and homeostasis [1]. Members of the superfamily include the
steroid hormone receptors and receptors for thyroid hormone, retinoids, 
1,25-dihydroxy-vitamin D3 and a variety of other ligands. The proteins 
function as dimeric molecules in nuclei to regulate the transcription of 
target genes in a ligand-responsive manner [2,3]. In addition to C-terminal
ligand-binding domains, these nuclear receptors contain a highly-conserved,
N-terminal zinc-finger that mediates specific binding to target DNA 
sequences, termed ligand-responsive elements. In the absence of ligand,
steroid hormone receptors are thought to be weakly associated with nuclear
components; hormone binding greatly increases receptor affinity.
 
NRs are extremely important in medical research, a large number of them
being implicated in diseases such as cancer, diabetes, hormone resistance
syndromes, etc. [1]. While several NRs act as ligand-inducible transcription
factors, many do not yet have a defined ligand and are accordingly termed 
"orphan" receptors. During the last decade, more than 300 NRs have been
described, many of which are orphans, which cannot easily be named due to 
current nomenclature confusions in the literature. However, a new system 
has recently been introduced in an attempt to rationalise the increasingly 
complex set of names used to describe superfamily members [1].
 
A rat orphan nuclear hormone receptor, designated Nurr1 (Nur-related factor
1), has been isolated from a brain cortex cDNA library [4,5]. The protein
contains 598 amino acids and has a predicted molecular mass of 65kDa. The
deduced sequence shows strong similarity to the mouse Nurr1 and human NOT1
orphan nuclear hormone receptors of the NGFI-B/Nur77/NAK1 gene subfamily [4]. 
 
Rat nurr1 is thought to be an immediate-early gene that is differentially
induced by electroconvulsive seizure vs. kindled seizures [4]. As Nurr1 
appears to be predominantly located in brain tissue, it may have a role 
in regulation of gene expression in the central nervous system [5]. 
Moreover, given that Nurr1 is prominently expressed in specific brain sites 
associated with memory acquisition and consolidation, it may be involved
in memory processing [4].
 
NURRNUCRCPTR is a 12-element fingerprint that provides a signature for the
Nurr orphan nuclear receptors. The fingerprint was derived from an initial
alignment of 3 sequences: the motifs were drawn from conserved regions
spanning virtually the full alignment length, focusing on those sections
that characterise the Nurr nuclear receptors but distinguish them from the
rest of the nuclear receptor family - motifs 1-9 lie N-terminal to the zinc
finger domain; motifs 10 and 11 span a proline-rich region following the 
zinc fingers; and motif 12 resides at the C-terminus. A single iteration on 
SPTR37_10f was required to reach convergence, no further sequences being 
identified beyond the starting set. Several partial matches were found: 
Q16311 is a beta-type transcription factor homologue that lacks the first
motif; the rest are NOR nuclear receptors that match motifs 2 and 10. 
Summary Information
   3 codes involving 12 elements
0 codes involving 11 elements
0 codes involving 10 elements
0 codes involving 9 elements
0 codes involving 8 elements
0 codes involving 7 elements
0 codes involving 6 elements
0 codes involving 5 elements
0 codes involving 4 elements
0 codes involving 3 elements
5 codes involving 2 elements
Composite Feature Index
12333333333333
11000000000000
10000000000000
9000000000000
8000000000000
7000000000000
6000000000000
5000000000000
4000000000000
3000000000000
2050000000500
123456789101112
True Positives
NR42_HUMAN    NR42_MOUSE    NR42_RAT      
True Positive Partials
Codes involving 2 elements
NOR2_RAT NR43_HUMAN NR43_RAT O97726
O97727
Codes involving 1 elements
Q16311
Sequence Titles
NR42_HUMAN  ORPHAN NUCLEAR RECEPTOR NURR1 (IMMEDIATE-EARLY RESPONSE PROTEIN NOT) (TRANSCRIPT 
NR42_MOUSE ORPHAN NUCLEAR RECEPTOR NURR1 (NUR-RELATED FACTOR 1) - MUS MUSCULUS (MOUSE).
NR42_RAT ORPHAN NUCLEAR RECEPTOR NURR1 (NUR-RELATED FACTOR 1) (REGENERATING LIVER NUCLEAR

NOR2_RAT NUCLEAR HORMONE RECEPTOR NOR-2 (NEURON-DERIVED ORPHAN RECEPTOR 2) - RATTUS NORVE
NR43_HUMAN NUCLEAR HORMONE RECEPTOR NOR-1 (NEURON-DERIVED ORPHAN RECEPTOR 1) (MITOGEN INDUC
NR43_RAT NUCLEAR HORMONE RECEPTOR NOR-1 (NEURON-DERIVED ORPHAN RECEPTOR 1) - RATTUS NORVE
O97726 NEURON-DERIVED ORPHAN RECEPTOR-1 ALFA - SUS SCROFA (PIG).
O97727 NEURON-DERIVED ORPHAN RECEPTOR-1 BETA - SUS SCROFA (PIG).

Q16311 TINUR= NGFI-B/NUR77 BETA-TYPE TRANSCRIPTION FACTOR HOMOLOG - HOMO SAPIENS (HUMAN
Scan History
SPTR37_10f 1  50   NSINGLE    
Initial Motifs
Motif 1  width=21
Element Seqn Id St Int Rpt
SSPQGASPASQSYSYHSSGEY NR42_MOUSE 10 10 -
SSPQGASPASQSYSYHSSGEY NR42_RAT 10 10 -
SSPQGASPASQSYSYHSSGEY NR42_HUMAN 10 10 -

Motif 2 width=21
Element Seqn Id St Int Rpt
NYSTGYDVKPPCLYQMPLSGQ NR42_MOUSE 66 35 -
NYSTGYDVKPPCLYQMPLSGQ NR42_RAT 66 35 -
NYSTGYDVKPPCLYQMPLSGQ NR42_HUMAN 66 35 -

Motif 3 width=18
Element Seqn Id St Int Rpt
DIQMHNYQQHSHLPPQSE NR42_MOUSE 94 7 -
DIQMHNYQQHSHLPPQSE NR42_RAT 94 7 -
DIQMHNYQQHSHLPPQSE NR42_HUMAN 94 7 -

Motif 4 width=18
Element Seqn Id St Int Rpt
EMMPHSGSVYYKPSSPPT NR42_MOUSE 112 0 -
EMMPHSGSVYYKPSSPPT NR42_RAT 112 0 -
EMMPHSGSVYYKPSSPPT NR42_HUMAN 112 0 -

Motif 5 width=18
Element Seqn Id St Int Rpt
QVQHSPMWDDPGSLHNFH NR42_MOUSE 136 6 -
QVQHSPMWDDPGSLHNFH NR42_RAT 136 6 -
QVQHSPMWDDPGSLHNFH NR42_HUMAN 136 6 -

Motif 6 width=21
Element Seqn Id St Int Rpt
YVATTHMIEQRKTPVSRLSLF NR42_MOUSE 156 2 -
YVATTHMIEQRKTPVSRLSLF NR42_RAT 156 2 -
YVATTHMIEQRKTPVSRLSLF NR42_HUMAN 156 2 -

Motif 7 width=23
Element Seqn Id St Int Rpt
PVSSCQMRFDGPLHVPMNPEPAG NR42_MOUSE 186 9 -
PVSSCQMRFDGPLHVPMNPEPAG NR42_RAT 186 9 -
PVSSCQMRFDGPLHVPMNPEPAG NR42_HUMAN 186 9 -

Motif 8 width=21
Element Seqn Id St Int Rpt
HHVVDGQTFAVPNPIRKPASM NR42_MOUSE 210 1 -
HHVVDGQTFAVPNPIRKPASM NR42_RAT 210 1 -
HHVVDGQTFAVPNPIRKPASM NR42_HUMAN 210 1 -

Motif 9 width=16
Element Seqn Id St Int Rpt
GLQIGHASQLLDTQVP NR42_MOUSE 234 3 -
GLQIGHASQLLDTQVP NR42_RAT 234 3 -
GLQIGHASQLLDTQVP NR42_HUMAN 234 3 -

Motif 10 width=18
Element Seqn Id St Int Rpt
KSPQDPSPPSPPVSLISA NR42_MOUSE 350 100 -
KSPQDPSPPSPPVSLISA NR42_RAT 350 100 -
KSPQEPSPPSPPVSLISA NR42_HUMAN 350 100 -

Motif 11 width=17
Element Seqn Id St Int Rpt
QANPDYQMSGDDTQHIQ NR42_MOUSE 388 20 -
QANPDYQMSGDDTQHIQ NR42_RAT 388 20 -
QANPDYQMSGDDTQHIQ NR42_HUMAN 388 20 -

Motif 12 width=17
Element Seqn Id St Int Rpt
HVTFNNGGLNRPNYLSK NR42_MOUSE 538 133 -
HVTFNNGGLNRPNYLSK NR42_RAT 538 133 -
HVTFNNGGLNRPNYLSK NR42_HUMAN 538 133 -
Final Motifs
Motif 1  width=21
Element Seqn Id St Int Rpt
SSPQGASPASQSYSYHSSGEY NR42_MOUSE 10 10 -
SSPQGASPASQSYSYHSSGEY NR42_RAT 10 10 -
SSPQGASPASQSYSYHSSGEY NR42_HUMAN 10 10 -

Motif 2 width=21
Element Seqn Id St Int Rpt
NYSTGYDVKPPCLYQMPLSGQ NR42_MOUSE 66 35 -
NYSTGYDVKPPCLYQMPLSGQ NR42_RAT 66 35 -
NYSTGYDVKPPCLYQMPLSGQ NR42_HUMAN 66 35 -

Motif 3 width=18
Element Seqn Id St Int Rpt
DIQMHNYQQHSHLPPQSE NR42_MOUSE 94 7 -
DIQMHNYQQHSHLPPQSE NR42_RAT 94 7 -
DIQMHNYQQHSHLPPQSE NR42_HUMAN 94 7 -

Motif 4 width=18
Element Seqn Id St Int Rpt
EMMPHSGSVYYKPSSPPT NR42_MOUSE 112 0 -
EMMPHSGSVYYKPSSPPT NR42_RAT 112 0 -
EMMPHSGSVYYKPSSPPT NR42_HUMAN 112 0 -

Motif 5 width=18
Element Seqn Id St Int Rpt
QVQHSPMWDDPGSLHNFH NR42_MOUSE 136 6 -
QVQHSPMWDDPGSLHNFH NR42_RAT 136 6 -
QVQHSPMWDDPGSLHNFH NR42_HUMAN 136 6 -

Motif 6 width=21
Element Seqn Id St Int Rpt
YVATTHMIEQRKTPVSRLSLF NR42_MOUSE 156 2 -
YVATTHMIEQRKTPVSRLSLF NR42_RAT 156 2 -
YVATTHMIEQRKTPVSRLSLF NR42_HUMAN 156 2 -

Motif 7 width=23
Element Seqn Id St Int Rpt
PVSSCQMRFDGPLHVPMNPEPAG NR42_MOUSE 186 9 -
PVSSCQMRFDGPLHVPMNPEPAG NR42_RAT 186 9 -
PVSSCQMRFDGPLHVPMNPEPAG NR42_HUMAN 186 9 -

Motif 8 width=21
Element Seqn Id St Int Rpt
HHVVDGQTFAVPNPIRKPASM NR42_MOUSE 210 1 -
HHVVDGQTFAVPNPIRKPASM NR42_RAT 210 1 -
HHVVDGQTFAVPNPIRKPASM NR42_HUMAN 210 1 -

Motif 9 width=16
Element Seqn Id St Int Rpt
GLQIGHASQLLDTQVP NR42_MOUSE 234 3 -
GLQIGHASQLLDTQVP NR42_RAT 234 3 -
GLQIGHASQLLDTQVP NR42_HUMAN 234 3 -

Motif 10 width=18
Element Seqn Id St Int Rpt
KSPQDPSPPSPPVSLISA NR42_MOUSE 350 100 -
KSPQDPSPPSPPVSLISA NR42_RAT 350 100 -
KSPQEPSPPSPPVSLISA NR42_HUMAN 350 100 -

Motif 11 width=17
Element Seqn Id St Int Rpt
QANPDYQMSGDDTQHIQ NR42_MOUSE 388 20 -
QANPDYQMSGDDTQHIQ NR42_RAT 388 20 -
QANPDYQMSGDDTQHIQ NR42_HUMAN 388 20 -

Motif 12 width=17
Element Seqn Id St Int Rpt
HVTFNNGGLNRPNYLSK NR42_MOUSE 538 133 -
HVTFNNGGLNRPNYLSK NR42_RAT 538 133 -
HVTFNNGGLNRPNYLSK NR42_HUMAN 538 133 -