WORKLIST ENTRIES (1):
GLCORTICOIDR View alignment Glucocorticoid receptor (3C nuclear receptor) signature
Type of fingerprint: COMPOUND with 6 elements
Links:
PRINTS; PR00047 STROIDFINGER; PR00398 STRDHORMONER
INTERPRO; IPR001409
PDB; 1GDC 3Dinfo
SCOP; 1GDC
Creation date 07-JUN-1996; UPDATE 07-JUN-1999
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. MING-JER, T. AND O'MALLEY, B.
Molecular mechanisms of action of steroid/thyroid receptor superfamily
members.
ANNU.REV.BIOCHEM. 63 451-486 (1994).
5. BEATO, M., HERRLICH, P. AND SCHUTZ, G.
Steroid hormone receptors: many actors in search of a plot.
CELL 83 851-857 (1995).
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 [1-5]. 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].
The glucocorticoid receptor consists of 3 functional and structural
domains: an N-terminal (modulatory) domain; a DNA binding domain that
mediates specific binding to target DNA sequences (ligand-responsive
elements); and a hormone binding domain. The N-terminal domain is unique
to the glucocorticoid receptors; it spans the first 440 residues, and is
primarily responsible for transcriptional activation. The smaller (around
65 residues), highly-conserved central portion of the protein is the DNA
binding domain, which plays a role in DNA binding specificity, homo-
dimerisation and in interactions with other proteins. The hormone binding
domain comprises approximately 250 residues at the C-terminus of the
receptor. This domain mediates receptor activity via interaction with heat
shock proteins and cyclophilins, or with hormone. For more information, see
the GRR resource at http://biochem1.basic-sci.georgetown.edu/GRR/GRR.html.
GLCORTICOIDR is a 6-element fingerprint that provides a signature for the
glucocorticoid receptors. The fingerprint was derived from an initial
alignment of 5 sequences: the motifs span the N-terminal modulatory domain
preceding the highly-conserved zinc-binding region shared by the steroid
hormone receptor family. Two iterations on OWL28.0 were required to reach
convergence, at which point a true set comprising 9 sequences was
identified. Two partial matches were also found (GCR_SHEEP and S76851),
both of which are fragments.
An update on SPTR37_9f identified a true set of 11 sequences.
SUMMARY INFORMATION
11 codes involving 6 elements
0 codes involving 5 elements
0 codes involving 4 elements
0 codes involving 3 elements
0 codes involving 2 elements
COMPOSITE FINGERPRINT INDEX
6| 11 11 11 11 11 11
5| 0 0 0 0 0 0
4| 0 0 0 0 0 0
3| 0 0 0 0 0 0
2| 0 0 0 0 0 0
--+-------------------------------
| 1 2 3 4 5 6
True positives..
GCR_HUMAN GCR_SAGOE GCR_SAIBB O46567
GCR_RAT O08624 GCR_AOTNA GCR_MOUSE
GCR_CAVPO GCR_TUPGB GCR_XENLA
PROTEIN TITLES
GCR_HUMAN GLUCOCORTICOID RECEPTOR (GR) - HOMO SAPIENS (HUMAN).
GCR_SAGOE GLUCOCORTICOID RECEPTOR (GR) - SAGUINUS OEDIPUS (COTTON-TOP
GCR_SAIBB GLUCOCORTICOID RECEPTOR (GR) - SAIMIRI BOLIVIENSIS BOLIVIENS
O46567 GLUCOCORTICOID RECEPTOR (GR) - SAIMIRI SCIUREUS (COMMON SQUI
GCR_RAT GLUCOCORTICOID RECEPTOR (GR) - RATTUS NORVEGICUS (RAT).
O08624 GLUCOCORTICOID RECEPTOR - RATTUS NORVEGICUS (RAT).
GCR_AOTNA GLUCOCORTICOID RECEPTOR (GR) - AOTUS NANCYMAAE (OWL MONKEY).
GCR_MOUSE GLUCOCORTICOID RECEPTOR (GR) - MUS MUSCULUS (MOUSE).
GCR_CAVPO GLUCOCORTICOID RECEPTOR (GR) - CAVIA PORCELLUS (GUINEA PIG).
GCR_TUPGB GLUCOCORTICOID RECEPTOR (GR) - TUPAIA GLIS BELANGERI (COMMON
GCR_XENLA GLUCOCORTICOID RECEPTOR (GR) - XENOPUS LAEVIS (AFRICAN CLAWE
SCAN HISTORY
OWL28_0 2 50 NSINGLE
SPTR37_9f 2 12 NSINGLE
INITIAL MOTIF SETS
GLCORTICOIDR1 Length of motif = 21 Motif number = 1
Glucocorticoid receptor motif I - 1
PCODE ST INT
VMDFYKTLRGGATVKVSASSP GCRA_HUMAN 26 26
VMDFYKTLRGGATVKVSASSP GCRB_HUMAN 26 26
VMDFYKSLRGGATVKVSASSP GCR_RAT 27 27
VMDLYKTLRGGATVKVSASSP GCR_MOUSE 27 27
VIDFYKTVRGGATVKVSASSP GCR_CAVPO 25 25
GLCORTICOIDR2 Length of motif = 21 Motif number = 2
Glucocorticoid receptor motif II - 1
PCODE ST INT
PDLSKAVSLSMGLYMGETETK GCRA_HUMAN 76 29
PDLSKAVSLSMGLYMGETETK GCRB_HUMAN 76 29
PDLSKAVSLSMGLYMGETETK GCR_RAT 97 49
PDLSKAVSLSMGLYMGETETK GCR_MOUSE 85 37
PDLSKAVSLSMGLYMGETETK GCR_CAVPO 75 29
GLCORTICOIDR3 Length of motif = 21 Motif number = 3
Glucocorticoid receptor motif III - 1
PCODE ST INT
QISLSSGETDLKLLEESIANL GCRA_HUMAN 109 12
QISLSSGETDLKLLEESIANL GCRB_HUMAN 109 12
QLGLSSGETDFRLLEESIANL GCR_RAT 130 12
QLGLSSGETDFRLLEESIANL GCR_MOUSE 118 12
QISLPSGETDFRLLEESIANL GCR_CAVPO 108 12
GLCORTICOIDR4 Length of motif = 22 Motif number = 4
Glucocorticoid receptor motif IV - 1
PCODE ST INT
QVKTEKEDFIELCTPGVIKQEK GCRA_HUMAN 275 145
QVKTEKEDFIELCTPGVIKQEK GCRB_HUMAN 275 145
QVKTEKDDFIELCTPGVIKQEK GCR_RAT 295 144
QVKTEKDDFIELCTPGVIKQEK GCR_MOUSE 283 144
QVKIGKEDFIELCTPGVIKQEK GCR_CAVPO 271 142
GLCORTICOIDR5 Length of motif = 19 Motif number = 5
Glucocorticoid receptor motif V - 1
PCODE ST INT
HGVSTSGGQMYHYDMNTAS GCRA_HUMAN 322 25
HGVSTSGGQMYHYDMNTAS GCRB_HUMAN 322 25
HGVSTSGGQMYHYDMNTAS GCR_RAT 342 25
HGVSTSGGQMYHYDMNTAS GCR_MOUSE 330 25
HGVSTSGGQMYHYDMNTAS GCR_CAVPO 318 25
GLCORTICOIDR6 Length of motif = 20 Motif number = 6
Glucocorticoid receptor motif VI - 1
PCODE ST INT
NFPGRTVFSNGYSSPSMRPD GCRA_HUMAN 382 41
NFPGRTVFSNGYSSPSMRPD GCRB_HUMAN 382 41
NFPGRSVFSNGYSSPGMRPD GCR_RAT 402 41
NFAGRSVFSNGYSSPGMRPD GCR_MOUSE 390 41
NFPGRSVFSNGYSSPGLRPD GCR_CAVPO 378 41
FINAL MOTIF SETS
GLCORTICOIDR1 Length of motif = 21 Motif number = 1
Glucocorticoid receptor motif I - 2
PCODE ST INT
VMDFYKTLRGGATVKVSASSP GCR_HUMAN 26 26
VMDFCKILRGGATLKVSVSST GCR_SAGOE 26 26
VMDFCKILRGGATLKVSVSST GCR_SAIBB 26 26
VMDFCKILRGGATLKVSVSST O46567 26 26
VMDFYKSLRGGATVKVSASSP GCR_RAT 27 27
VMDFYKSLRGGATVKVSASSP O08624 27 27
VMDFSKILRGGATLKVSVSST GCR_AOTNA 26 26
VMDLYKTLRGGATVKVSASSP GCR_MOUSE 27 27
VIDFYKTVRGGATVKVSASSP GCR_CAVPO 25 25
VMDFYKTRRGGATVKVFMPSP GCR_TUPGB 26 26
VIEFFGNYRGGVSVSVSASCP GCR_XENLA 29 29
GLCORTICOIDR2 Length of motif = 21 Motif number = 2
Glucocorticoid receptor motif II - 2
PCODE ST INT
PDLSKAVSLSMGLYMGETETK GCR_HUMAN 76 29
PDLSKAVSLSMGLYMGETETK GCR_SAGOE 76 29
PDLSKAVSLSMGLYMGETETK GCR_SAIBB 76 29
PDLSKAVSLSMGLYMGETETK O46567 76 29
PDLSKAVSLSMGLYMGETETK GCR_RAT 97 49
PDLSKAVSLSMGLYMGETETK O08624 97 49
PDLSKAVSLSMGLYMGETETK GCR_AOTNA 76 29
PDLSKAVSLSMGLYMGETETK GCR_MOUSE 85 37
PDLSKAVSLSMGLYMGETETK GCR_CAVPO 75 29
PDLSKAVSLSMGLYMGETETK GCR_TUPGB 76 29
PDLSKAVSLSMGLYMGESDTK GCR_XENLA 85 35
GLCORTICOIDR3 Length of motif = 21 Motif number = 3
Glucocorticoid receptor motif III - 2
PCODE ST INT
QISLSSGETDLKLLEESIANL GCR_HUMAN 109 12
QISLSSGETDLQLLEESIANL GCR_SAGOE 109 12
QISLSSGETDLQLLEESIANL GCR_SAIBB 109 12
QISLSSGETDLQLLEESIANL O46567 109 12
QLGLSSGETDFRLLEESIANL GCR_RAT 130 12
QLGLSSGETDFRLLEESIANL O08624 130 12
QISLSSGETDLQLLEESIANL GCR_AOTNA 109 12
QLGLSSGETDFRLLEESIANL GCR_MOUSE 118 12
QISLPSGETDFRLLEESIANL GCR_CAVPO 108 12
QITLSSGETNLQLLEESIANL GCR_TUPGB 109 12
QIGISTGETDFSLLEESIANL GCR_XENLA 118 12
GLCORTICOIDR4 Length of motif = 22 Motif number = 4
Glucocorticoid receptor motif IV - 2
PCODE ST INT
QVKTEKEDFIELCTPGVIKQEK GCR_HUMAN 275 145
QVKTEKEDFIELCTPGVIKQEK GCR_SAGOE 275 145
QVKTEKEDFIELCTPGVIKQEK GCR_SAIBB 275 145
QVKTEKEDFIELCTPGVIKQEK O46567 275 145
QVKTEKDDFIELCTPGVIKQEK GCR_RAT 295 144
QVKTEKDDFIELCTPGVIKQEK O08624 295 144
QVKTEKEDFIELCTPGVIKQEK GCR_AOTNA 275 145
QVKTEKDDFIELCTPGVIKQEK GCR_MOUSE 283 144
QVKIGKEDFIELCTPGVIKQEK GCR_CAVPO 271 142
QVKTEKEDFIELCTPGVIKQEK GCR_TUPGB 275 145
QVKTEKEDYIELCTPGVVNEEK GCR_XENLA 276 137
GLCORTICOIDR5 Length of motif = 19 Motif number = 5
Glucocorticoid receptor motif V - 2
PCODE ST INT
HGVSTSGGQMYHYDMNTAS GCR_HUMAN 322 25
HGVSTSGGQMYHYDMNTAS GCR_SAGOE 322 25
HGVSTSGGQMYHYDMNTAS GCR_SAIBB 322 25
HGVSTSGGQMYHYDMNTAS O46567 322 25
HGVSTSGGQMYHYDMNTAS GCR_RAT 342 25
HGVSTSGGQMYHYDMNTAS O08624 342 25
HGVSTSGGQMYHYDMNTAS GCR_AOTNA 322 25
HGVSTSGGQMYHYDMNTAS GCR_MOUSE 330 25
HGVSTSGGQMYHYDMNTAS GCR_CAVPO 318 25
HGVSTSGGQMYHYDMNTAT GCR_TUPGB 322 25
HGVSTSGGQMYHYDLNTAT GCR_XENLA 323 25
GLCORTICOIDR6 Length of motif = 20 Motif number = 6
Glucocorticoid receptor motif VI - 2
PCODE ST INT
NFPGRTVFSNGYSSPSMRPD GCR_HUMAN 382 41
NFPGRTVFSNGYSSPSMRPD GCR_SAGOE 382 41
NFPGRTVFSNGYSSPSMRPD GCR_SAIBB 382 41
NFPGRTVFSNGYSSPSMRPD O46567 382 41
NFPGRSVFSNGYSSPGMRPD GCR_RAT 402 41
NFPGRSVFSNGYSSPGMRPD O08624 402 41
NFPGRTVFSNGYSSPSMRPD GCR_AOTNA 382 41
NFAGRSVFSNGYSSPGMRPD GCR_MOUSE 390 41
NFPGRSVFSNGYSSPGLRPD GCR_CAVPO 378 41
NFSGRSVFSNGYSSPGMRPD GCR_TUPGB 382 41
NFPNRSVFSNGYSSPGIRSD GCR_XENLA 382 40
User query: Display/Full Code "GLCORTICOIDR"