WORKLIST ENTRIES (1):
RORNUCRECPTR View alignment View Structure Nuclear receptor ROR family signature
Type of fingerprint: COMPOUND with 5 elements
Links:
PRINTS; PR00047 STROIDFINGER; PR00398 STRDHORMONER
PRINTS; PR00521 ANDROGENR; PR01282 COUPTNFACTOR; PR01283 ECDYSTEROIDR
PRINTS; PR00528 GLCORTICOIDR; PR01284 NUCLEARECPTR; PR00350 VITAMINDR
PRINTS; PR00544 PROGESTRONER; PR01288 PROXISOMEPAR; PR00545 RETINOIDXR
PRINTS; PR00543 OESTROGENR; PR00546 THYROIDHORMR; PR02034 LIVERXRECPTR
PDB; 1K4W 3Dinfo; 1N4H 3Dinfo; 1N83 3Dinfo; 1NQ7 3Dinfo; 1S0X 3Dinfo
SCOP; 1K4W; 1N4H; 1N83; 1NQ7; 1S0X
CATH; 1K4W; 1N4H; 1N83; 1NQ7; 1S0X
MIM; 600825; 601972; 602943
Creation date 13-FEB-2000; UPDATE 09-JUL-2010
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. GIGUERE, V., TINI, M., FLOCK, G., ONG, E., EVANS, R.M. AND OTULAKOWSKI, G.
Isoform-specific amino-terminal domains dictate DNA-binding properties of
ROR alpha, a novel family of orphan hormone nuclear receptors.
GENES DEV. 8 538-553 (1994).
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].
Three isoforms of a novel member of the steroid hormone nuclear receptor
superfamily related to retinoic acid receptors have been identified [4].
The isoforms (designated ROR alpha 1, ROR alpha 2 and ROR alpha 3) share
common DNA- and putative ligand-binding domains but are characterised by
distinct N-terminal domains generated by alternative RNA processing [4].
These differences in the N-terminal domains result in differential DNA-
binding activity for the different isoforms: ROR alpha 1 binds to and
constitutively activates transcription from a large subset of ROR elements,
while ROR alpha 2 recognises ROR elements with strict specificity and
displays weaker transcriptional activity [4]. The N-terminal domain and
zinc finger region work in concert to confer high affinity and specific
DNA-binding properties to the ROR isoforms and suggest a novel strategy
to control DNA-binding activity of nuclear receptors [4].
RORNUCRECPTR is a 5-element fingerprint that provides a signature for the
nuclear receptor ROR family. The fingerprint was derived from an initial
alignment of 6 sequences: the motifs were drawn from conserved regions
spanning the C-terminal half of the alignment, focusing on those sections
that characterise the ROR receptors but distinguish them from the rest of
the steroid hormone receptor superfamily - motif 1 lies at the C-terminal
extremity of the hinge region, and motifs 2-5 reside in the ligand-binding
domain. Two iterations on SPTR37_10f were required to reach convergence,
at which point a true set comprising 13 sequences was identified. Five
partial matches were also found, all of which are related steroid hormone
receptors.
An update on SPTR57.15_40.15f identified a true set of 24 sequences, and
twelve partial matches, all of which are translated genomic sequences that
fail to match one or more motifs.
SUMMARY INFORMATION
24 codes involving 5 elements
5 codes involving 4 elements
5 codes involving 3 elements
2 codes involving 2 elements
COMPOSITE FINGERPRINT INDEX
5| 24 24 24 24 24
4| 3 5 5 2 5
3| 2 5 5 3 0
2| 0 0 1 2 1
--+--------------------------
| 1 2 3 4 5
True positives..
Q98934_CHICK B3F205_SHEEP RORB_RAT RORB_MOUSE
B6ZGS5_HUMAN RORB_HUMAN Q58EY0_HUMAN B2RDT1_HUMAN
RORG_HUMAN Q6I9R9_HUMAN B4DPR1_HUMAN RORG_PONAB
B1B189_MOUSE RORA_MOUSE RORA_HUMAN Q495X4_HUMAN
Q3U1P4_MOUSE B6ZGS4_HUMAN A7VL70_DANRE B2KI74_RHIFE
B3KUU9_HUMAN Q3TVH3_MOUSE RORG_MOUSE A3R3J9_DANRE
Subfamily: Codes involving 4 elements
Subfamily True positives..
B6ZGS6_HUMAN A3QU33_BOVIN Q3U513_MOUSE B0JZJ5_DANRE
Q7ZU39_DANRE
Subfamily: Codes involving 3 elements
Subfamily True positives..
Q08D40_XENTR Q3UUW3_MOUSE B8JJ08_DANRE A3R3K0_DANRE
B8JI61_DANRE
Subfamily: Codes involving 2 elements
Subfamily True positives..
B5DFL4_RAT Q5XG07_XENLA
PROTEIN TITLES
Q98934_CHICK Nuclear orphan receptor ROR-beta - Gallus gallus
B3F205_SHEEP Retinoid-related orphan receptor beta - Ovis aries
RORB_RAT Nuclear receptor ROR-beta - Rattus norvegicus
RORB_MOUSE Nuclear receptor ROR-beta - Mus musculus
B6ZGS5_HUMAN Retinoid-related orphan receptor beta - Homo sapiens
RORB_HUMAN Nuclear receptor ROR-beta - Homo sapiens
Q58EY0_HUMAN RAR-related orphan receptor B - Homo sapiens
B2RDT1_HUMAN cDNA, FLJ96754, highly similar to Homo sapiens RAR-related o
RORG_HUMAN Nuclear receptor ROR-gamma - Homo sapiens
Q6I9R9_HUMAN RAR-related orphan receptor C - Homo sapiens
B4DPR1_HUMAN cDNA FLJ58518, highly similar to Nuclear receptor ROR-gamma
RORG_PONAB Nuclear receptor ROR-gamma - Pongo abelii
B1B189_MOUSE RAR-related orphan receptor alpha - Mus musculus
RORA_MOUSE Nuclear receptor ROR-alpha - Mus musculus
RORA_HUMAN Nuclear receptor ROR-alpha - Homo sapiens
Q495X4_HUMAN RAR-related orphan receptor A - Homo sapiens
Q3U1P4_MOUSE Putative uncharacterized protein - Mus musculus
B6ZGS4_HUMAN Retinoid-related orphan receptor alpha - Homo sapiens
A7VL70_DANRE Retinoid-related orphan receptor alpha 2 - Danio rerio
B2KI74_RHIFE RAR-related orphan receptor C isoform a (Predicted) - Rhinol
B3KUU9_HUMAN cDNA FLJ40675 fis, clone THYMU2021714, highly similar to NUC
Q3TVH3_MOUSE Putative uncharacterized protein - Mus musculus
RORG_MOUSE Nuclear receptor ROR-gamma - Mus musculus
A3R3J9_DANRE Retinoid-related orphan receptor b - Danio rerio
B6ZGS6_HUMAN Retinoid-related orphan receptor gamma - Homo sapiens
A3QU33_BOVIN RAR-related orphan receptor C - Bos taurus
Q3U513_MOUSE Putative uncharacterized protein - Mus musculus
B0JZJ5_DANRE Rorab protein - Danio rerio
Q7ZU39_DANRE RAR-related orphan receptor A, paralog b - Danio rerio
Q08D40_XENTR RAR-related orphan receptor A - Xenopus tropicalis
Q3UUW3_MOUSE Putative uncharacterized protein - Mus musculus
B8JJ08_DANRE Novel protein similar to vertebrate RAR-related orphan recep
A3R3K0_DANRE Retinoid-related orphan receptor c - Danio rerio
B8JI61_DANRE RAR-related orphan receptor G - Danio rerio
B5DFL4_RAT Rorc protein - Rattus norvegicus
Q5XG07_XENLA LOC495242 protein - Xenopus laevis
SCAN HISTORY
SPTR37_10f 1 50 NSINGLE
SPTR57.15_40.15f 3 300 NSINGLE
INITIAL MOTIF SETS
RORNUCRECPTR1 Length of motif = 22 Motif number = 1
Nuclear receptor ROR family motif I - 1
PCODE ST INT
SFTNGETSPTVSMAELEHLAQN ROR3_HUMAN 283 283
SFTNGETSPTVSMAELEHLAQN ROR2_HUMAN 291 291
SFTNGETSPTVSMAELEHLAQN ROR1_MOUSE 258 258
SFTNGETSPTVSMAELEHLAQN ROR4_HUMAN 203 203
SFNNGQLAPGITMSEIDRIAQN RORB_RAT 197 197
SFCSAPEVPYASLTDIEYLVQN RORG_MOUSE 253 253
RORNUCRECPTR2 Length of motif = 14 Motif number = 2
Nuclear receptor ROR family motif II - 1
PCODE ST INT
KSHLETCQYLREEL ROR3_HUMAN 307 2
KSHLETCQYLREEL ROR2_HUMAN 315 2
KSHLETCQYLREEL ROR1_MOUSE 282 2
KSHLETCQYLREEL ROR4_HUMAN 227 2
KSHLETCQYTMEEL RORB_RAT 221 2
KSFRETCQLRLEDL RORG_MOUSE 277 2
RORNUCRECPTR3 Length of motif = 18 Motif number = 3
Nuclear receptor ROR family motif III - 1
PCODE ST INT
FLQEEIENYQNKQREVMW ROR3_HUMAN 328 7
FLQEEIENYQNKQREVMW ROR2_HUMAN 336 7
FLQEEIENYQNKQREVMW ROR1_MOUSE 303 7
FLQEEIENYQNKQREVMW ROR4_HUMAN 248 7
HTYEEIKAYQSKSREALW RORB_RAT 242 7
FSREEVTSYQRKSMWEMW RORG_MOUSE 298 7
RORNUCRECPTR4 Length of motif = 18 Motif number = 4
Nuclear receptor ROR family motif IV - 1
PCODE ST INT
TVYFDGKYASPDVFKSLG ROR3_HUMAN 403 57
TVYFDGKYASPDVFKSLG ROR2_HUMAN 411 57
TVYFDGKYASPDVFKSLG ROR1_MOUSE 378 57
TVYFDGKYASPDVFKSLG ROR4_HUMAN 323 57
TVLFEGKYGGMQMFKALG RORB_RAT 317 57
TVFFEGKYGGVELFRALG RORG_MOUSE 373 57
RORNUCRECPTR5 Length of motif = 11 Motif number = 5
Nuclear receptor ROR family motif V - 1
PCODE ST INT
PDIVRLHFPPL ROR3_HUMAN 521 4
PDIVRLHFPPL ROR2_HUMAN 529 4
PDIVRLHFPPL ROR1_MOUSE 496 4
PDIVRLHFPPL ROR4_HUMAN 441 4
PDIVNTLFPPL RORB_RAT 435 4
PIVVQAAFPPL RORG_MOUSE 489 4
FINAL MOTIF SETS
RORNUCRECPTR1 Length of motif = 22 Motif number = 1
Nuclear receptor ROR family motif I - 3
PCODE ST INT
SFNNGQLAPGISMTEIDRIAQN Q98934_CHICK 197 197
SFNNGQLAPGITMSEIDRIAQN B3F205_SHEEP 197 197
SFNNGQLAPGITMSEIDRIAQN RORB_RAT 208 208
SFNNGQLAPGITMSEIDRIAQN RORB_MOUSE 208 208
SFNNGQLAPGITMTEIDRIAQN B6ZGS5_HUMAN 197 197
SFNNGQLAPGITMTEIDRIAQN RORB_HUMAN 208 208
SFNNGQLAPGITMTEIDRIAQN Q58EY0_HUMAN 197 197
SFRSTPEAPYASLTEIEHLVQS B2RDT1_HUMAN 255 255
SFRSTPEAPYASLTEIEHLVQS RORG_HUMAN 255 255
SFRSTPEAPYASLTEIEHLVQS Q6I9R9_HUMAN 255 255
SFRSTPEAPYASLTEIEHLVQS B4DPR1_HUMAN 309 309
SFRSTPEAPYASLTEIEHLVQS RORG_PONAB 255 255
SFTNGETSPTVSMAELEHLAQN B1B189_MOUSE 258 258
SFTNGETSPTVSMAELEHLAQN RORA_MOUSE 258 258
SFTNGETSPTVSMAELEHLAQN RORA_HUMAN 291 291
SFTNGETSPTVSMAELEHLAQN Q495X4_HUMAN 203 203
SFTNGETSPTVSMAELEHLAQN Q3U1P4_MOUSE 202 202
SFTNGETSPTVSMAELEHLAQN B6ZGS4_HUMAN 258 258
SFTNGETSPTVSMAELEHLAQN A7VL70_DANRE 203 203
SFRSTPEAPYASLTEIEHLLQN B2KI74_RHIFE 254 254
SFRSTPEAPYASLTEIEHLVQS B3KUU9_HUMAN 234 234
SFCSAPEVPYASLTDIEYLVQN Q3TVH3_MOUSE 253 253
SFCSAPEVPYASLTDIEYLVQN RORG_MOUSE 253 253
SYQDSQLAPGVSMGELDRIAQN A3R3J9_DANRE 203 203
RORNUCRECPTR2 Length of motif = 14 Motif number = 2
Nuclear receptor ROR family motif II - 3
PCODE ST INT
KSHLETCQYTMEEL Q98934_CHICK 221 2
KSHLETCQYTMEEL B3F205_SHEEP 221 2
KSHLETCQYTMEEL RORB_RAT 232 2
KSHLETCQYTMEEL RORB_MOUSE 232 2
KSHLETCQYTMEEL B6ZGS5_HUMAN 221 2
KSHLETCQYTMEEL RORB_HUMAN 232 2
KSHLETCQYTMEEL Q58EY0_HUMAN 221 2
KSYRETCQLRLEDL B2RDT1_HUMAN 279 2
KSYRETCQLRLEDL RORG_HUMAN 279 2
KSYRETCQLRLEDL Q6I9R9_HUMAN 279 2
KSYRETCQLRLEDL B4DPR1_HUMAN 333 2
KSYRETCQLRLEDL RORG_PONAB 279 2
KSHLETCQYLREEL B1B189_MOUSE 282 2
KSHLETCQYLREEL RORA_MOUSE 282 2
KSHLETCQYLREEL RORA_HUMAN 315 2
KSHLETCQYLREEL Q495X4_HUMAN 227 2
KSHLETCQYLREEL Q3U1P4_MOUSE 226 2
KSHLETCQYLREEL B6ZGS4_HUMAN 282 2
KSHMETCQYLREEL A7VL70_DANRE 227 2
KSYRETCQLRLEDL B2KI74_RHIFE 278 2
KSYRETCQLRLEDL B3KUU9_HUMAN 258 2
KSFRETCQLRLEDL Q3TVH3_MOUSE 277 2
KSFRETCQLRLEDL RORG_MOUSE 277 2
KSHLETCQYTAEEL A3R3J9_DANRE 227 2
RORNUCRECPTR3 Length of motif = 18 Motif number = 3
Nuclear receptor ROR family motif III - 3
PCODE ST INT
HTYEEIKVYQSKTREALW Q98934_CHICK 242 7
HTYEEIKAYQSKSREALW B3F205_SHEEP 242 7
HTYEEIKAYQSKSREALW RORB_RAT 253 7
HTYEEIKAYQSKSREALW RORB_MOUSE 253 7
HTYEEIKAYQSKSREALW B6ZGS5_HUMAN 242 7
HTYEEIKAYQSKSREALW RORB_HUMAN 253 7
HTYEEIKAYQSKSREALW Q58EY0_HUMAN 242 7
FSREEVTGYQRKSMWEMW B2RDT1_HUMAN 300 7
FSREEVTGYQRKSMWEMW RORG_HUMAN 300 7
FSREEVTGYQRKSMWEMW Q6I9R9_HUMAN 300 7
FSREEVTGYQRKSMWEMW B4DPR1_HUMAN 354 7
FSREEVTGYQRKSMWEMW RORG_PONAB 300 7
FLQEEIENYQNKQREVMW B1B189_MOUSE 303 7
FLQEEIENYQNKQREVMW RORA_MOUSE 303 7
FLQEEIENYQNKQREVMW RORA_HUMAN 336 7
FLQEEIENYQNKQREVMW Q495X4_HUMAN 248 7
FLQEEIENYQNKQREVMW Q3U1P4_MOUSE 247 7
FLQEEIENYQNKQREVMW B6ZGS4_HUMAN 303 7
FLQEEVENYQSKPREVMW A7VL70_DANRE 248 7
FSREEVASYQRKSVWEMW B2KI74_RHIFE 299 7
FSREEVTGYQRKSMWEMW B3KUU9_HUMAN 279 7
FSREEVTSYQRKSMWEMW Q3TVH3_MOUSE 298 7
FSREEVTSYQRKSMWEMW RORG_MOUSE 298 7
HSYEEVKMYQSKTRDVLW A3R3J9_DANRE 248 7
RORNUCRECPTR4 Length of motif = 18 Motif number = 4
Nuclear receptor ROR family motif IV - 3
PCODE ST INT
TVLFEGKYGGMQMFKALG Q98934_CHICK 317 57
TVLFEGKYGGMQMFKALG B3F205_SHEEP 317 57
TVLFEGKYGGMQMFKALG RORB_RAT 328 57
TVLFEGKYGGMQMFKALG RORB_MOUSE 328 57
TVLFEGKYGGMQMFKALG B6ZGS5_HUMAN 317 57
TVLFEGKYGGMQMFKALG RORB_HUMAN 328 57
TVLFEGKYGGMQMFKALG Q58EY0_HUMAN 317 57
TVFFEGKYGGMELFRALG B2RDT1_HUMAN 375 57
TVFFEGKYGGMELFRALG RORG_HUMAN 375 57
TVFFEGKYGGMELFRALG Q6I9R9_HUMAN 375 57
TVFFEGKYGGMELFRALG B4DPR1_HUMAN 429 57
TVFFEGKYGGMELFRALG RORG_PONAB 375 57
TVYFDGKYASPDVFKSLG B1B189_MOUSE 378 57
TVYFDGKYASPDVFKSLG RORA_MOUSE 378 57
TVYFDGKYASPDVFKSLG RORA_HUMAN 411 57
TVYFDGKYASPDVFKSLG Q495X4_HUMAN 323 57
TVYFDGKYASPDVFKSLG Q3U1P4_MOUSE 322 57
TVYFDGKYASPDVFKSLG B6ZGS4_HUMAN 378 57
TVYFDGKYAGPDVFKSLG A7VL70_DANRE 323 57
TVFFEGKYGGVELFRALG B2KI74_RHIFE 374 57
TVFFEGKYGGMELFRALG B3KUU9_HUMAN 354 57
TVFFEGKYGGVELFRALG Q3TVH3_MOUSE 373 57
TVFFEGKYGGVELFRALG RORG_MOUSE 373 57
TVLFEGKYGGMQIFKTLG A3R3J9_DANRE 323 57
RORNUCRECPTR5 Length of motif = 11 Motif number = 5
Nuclear receptor ROR family motif V - 3
PCODE ST INT
PDIVNTLFPPL Q98934_CHICK 435 100
PDIVNTLFPPL B3F205_SHEEP 435 100
PDIVNTLFPPL RORB_RAT 446 100
PDIVNTLFPPL RORB_MOUSE 446 100
PEIVNTLFPPL B6ZGS5_HUMAN 435 100
PEIVNTLFPPL RORB_HUMAN 446 100
PEIVNTLFPPL Q58EY0_HUMAN 435 100
PIVVQAAFPPL B2RDT1_HUMAN 491 98
PIVVQAAFPPL RORG_HUMAN 491 98
PIVVQAAFPPL Q6I9R9_HUMAN 491 98
PIVVQAAFPPL B4DPR1_HUMAN 545 98
PIVVQATFPPL RORG_PONAB 491 98
PDIVRLHFPPL B1B189_MOUSE 496 100
PDIVRLHFPPL RORA_MOUSE 496 100
PDIVRLHFPPL RORA_HUMAN 529 100
PDIVRLHFPPL Q495X4_HUMAN 441 100
PDIVRLHFPPL Q3U1P4_MOUSE 440 100
PDIVRLHFPPL B6ZGS4_HUMAN 496 100
PDIVRAHFPPL A7VL70_DANRE 441 100
PIVVQAAFPPL B2KI74_RHIFE 490 98
PIVAQAAFPPL B3KUU9_HUMAN 470 98
PIVVQAAFPPL Q3TVH3_MOUSE 489 98
PIVVQAAFPPL RORG_MOUSE 489 98
PETVNMLFPPL A3R3J9_DANRE 441 100
User query: Display/Full Code "RORNUCRECPTR"