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"