RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy16825
(183 letters)
>1lo1_A Steroid hormone receptor ERR2; estrogen related receptor 2, DNA
binding domain, HERR2, hormone nuclear receptor; NMR
{Homo sapiens} SCOP: g.39.1.2
Length = 98
Score = 161 bits (409), Expect = 3e-52
Identities = 77/93 (82%), Positives = 87/93 (93%)
Query: 8 LPRRLCLVCGDVASGFHYGVASCEACKAFFKRTIQGNIEYTCPASNDCEINKRRRKACQA 67
+P+RLCLVCGD+ASG+HYGVASCEACKAFFKRTIQGNIEY+CPA+N+CEI KRRRK+CQA
Sbjct: 2 IPKRLCLVCGDIASGYHYGVASCEACKAFFKRTIQGNIEYSCPATNECEITKRRRKSCQA 61
Query: 68 CRFQKCLRKGMLKEGVRLDRVRGGRQKYRRNPD 100
CRF K L+ GMLKEGVRLDRVRGGRQKY+R D
Sbjct: 62 CRFMKALKVGMLKEGVRLDRVRGGRQKYKRRLD 94
>2a66_A Orphan nuclear receptor NR5A2; protein-DNA complex, zinc finger,
DNA- binding domain, transcription factor, FTZ-F1,
C-terminal extension; 2.20A {Homo sapiens} PDB: 2ff0_A
Length = 113
Score = 152 bits (386), Expect = 1e-48
Identities = 53/111 (47%), Positives = 68/111 (61%)
Query: 2 GIKEEELPRRLCLVCGDVASGFHYGVASCEACKAFFKRTIQGNIEYTCPASNDCEINKRR 61
G +E LC VCGD SG+HYG+ +CE+CK FFKRT+Q N YTC + +C+I+K +
Sbjct: 1 GEFGDEDLEELCPVCGDKVSGYHYGLLTCESCKGFFKRTVQNNKRYTCIENQNCQIDKTQ 60
Query: 62 RKACQACRFQKCLRKGMLKEGVRLDRVRGGRQKYRRNPDLLSQQWPPNKSI 112
RK C CRFQKCL GM E VR DR+RGGR K+ K++
Sbjct: 61 RKRCPYCRFQKCLSVGMKLEAVRADRMRGGRNKFGPMYKRDRALKQQKKAL 111
>1cit_A NGFI-B, protein (orphan nuclear receptor NGFI-B); early immediate
response gene product, transcription factor, monomeric
protein-DNA complex; HET: DNA; 2.70A {Rattus
norvegicus} SCOP: g.39.1.2
Length = 89
Score = 149 bits (378), Expect = 1e-47
Identities = 49/87 (56%), Positives = 60/87 (68%)
Query: 13 CLVCGDVASGFHYGVASCEACKAFFKRTIQGNIEYTCPASNDCEINKRRRKACQACRFQK 72
C VCGD AS HYGV +CE CK FFKRT+Q + +Y C A+ DC ++KRRR CQ CRFQK
Sbjct: 3 CAVCGDNASCQHYGVRTCEGCKGFFKRTVQKSAKYICLANKDCPVDKRRRNRCQFCRFQK 62
Query: 73 CLRKGMLKEGVRLDRVRGGRQKYRRNP 99
CL GM+KE VR D ++G R + P
Sbjct: 63 CLAVGMVKEVVRTDSLKGRRGRLPSKP 89
>1r4i_A Androgen receptor; AR, steroid receptor, protein-DNA complex,
transcription/DNA complex; 3.10A {Rattus norvegicus}
SCOP: g.39.1.2
Length = 105
Score = 149 bits (377), Expect = 2e-47
Identities = 38/92 (41%), Positives = 54/92 (58%)
Query: 9 PRRLCLVCGDVASGFHYGVASCEACKAFFKRTIQGNIEYTCPASNDCEINKRRRKACQAC 68
P++ CL+CGD ASG HYG +C +CK FFKR +G +Y C + NDC I+K RRK C +C
Sbjct: 6 PQKTCLICGDEASGAHYGALTCGSCKVFFKRAAEGKQKYLCASRNDCTIDKFRRKNCPSC 65
Query: 69 RFQKCLRKGMLKEGVRLDRVRGGRQKYRRNPD 100
R +KC GM +L ++ + +
Sbjct: 66 RLRKCYEAGMTLGARKLKKLGNLKLQEEGENS 97
>3g9m_A Glucocorticoid receptor; glucocorticoid, DNA-binding, allostery,
lever ARM, transcription, hormone; HET: DNA; 1.61A
{Rattus norvegicus} PDB: 3g6p_A* 3g6q_B* 3g6r_B*
3g6u_A* 3g8u_A* 3g8x_A* 3g97_B* 3g99_A* 3g9i_A* 3g9j_A*
3fyl_A* 3g9o_B* 3g9p_B* 3g6t_A* 1r4o_A 1r4r_A 1glu_A*
1gdc_A 2gda_A 1rgd_A ...
Length = 90
Score = 144 bits (366), Expect = 8e-46
Identities = 42/86 (48%), Positives = 54/86 (62%)
Query: 11 RLCLVCGDVASGFHYGVASCEACKAFFKRTIQGNIEYTCPASNDCEINKRRRKACQACRF 70
+CLVC D ASG HYGV +C +CK FFKR ++G Y C NDC I+K RRK C ACR+
Sbjct: 3 HMCLVCSDEASGCHYGVLTCGSCKVFFKRAVEGQHNYLCAGRNDCIIDKIRRKNCPACRY 62
Query: 71 QKCLRKGMLKEGVRLDRVRGGRQKYR 96
+KCL+ GM E + + G Q+
Sbjct: 63 RKCLQAGMNLEARKTKKKIKGIQQAT 88
>1hcq_A Protein (estrogen receptor); protein-DNA complex, complexed with
drug, transcription/DNA complex; HET: DNA; 2.40A {Homo
sapiens} SCOP: g.39.1.2 PDB: 1hcp_A 4aa6_A
Length = 84
Score = 144 bits (365), Expect = 8e-46
Identities = 51/82 (62%), Positives = 61/82 (74%)
Query: 9 PRRLCLVCGDVASGFHYGVASCEACKAFFKRTIQGNIEYTCPASNDCEINKRRRKACQAC 68
R C VC D ASG+HYGV SCE CKAFFKR+IQG+ +Y CPA+N C I+K RRK+CQAC
Sbjct: 3 ETRYCAVCNDYASGYHYGVWSCEGCKAFFKRSIQGHNDYMCPATNQCTIDKNRRKSCQAC 62
Query: 69 RFQKCLRKGMLKEGVRLDRVRG 90
R +KC GM+K G+R DR G
Sbjct: 63 RLRKCYEVGMMKGGIRKDRRGG 84
>1ynw_B Retinoic acid receptor RXR-alpha, retinoid X receptor; VDR, nuclear
receptor, protein-DNA complex, transcripti complex;
3.00A {Homo sapiens} SCOP: g.39.1.2
Length = 99
Score = 143 bits (363), Expect = 3e-45
Identities = 45/98 (45%), Positives = 61/98 (62%)
Query: 8 LPRRLCLVCGDVASGFHYGVASCEACKAFFKRTIQGNIEYTCPASNDCEINKRRRKACQA 67
+ +C +CGD +SG HYGV SCE CK FFKRT++ ++ YTC + DC I+KR+R CQ
Sbjct: 1 FTKHICAICGDRSSGKHYGVYSCEGCKGFFKRTVRKDLTYTCRDNKDCLIDKRQRNRCQY 60
Query: 68 CRFQKCLRKGMLKEGVRLDRVRGGRQKYRRNPDLLSQQ 105
CR+QKCL GM +E V+ +R RG + S
Sbjct: 61 CRYQKCLAMGMKREAVQEERQRGKDRNENEVESTSSAN 98
>3dzy_A Retinoic acid receptor RXR-alpha; DNA-binding, HOST-virus
interaction, metal-binding, nucleus, receptor,
transcription, transcription regulation, zinc-FIN
activator; HET: DNA REA BRL; 3.10A {Homo sapiens} PDB:
3dzu_A* 3e00_A*
Length = 467
Score = 152 bits (385), Expect = 1e-44
Identities = 46/115 (40%), Positives = 67/115 (58%), Gaps = 2/115 (1%)
Query: 9 PRRLCLVCGDVASGFHYGVASCEACKAFFKRTIQGNIEYTCPASNDCEINKRRRKACQAC 68
+ +C +CGD +SG HYGV SCE CK FFKRT++ ++ YTC + DC I+KR+R CQ C
Sbjct: 136 TKHICAICGDRSSGKHYGVYSCEGCKGFFKRTVRKDLTYTCRDNKDCLIDKRQRNRCQYC 195
Query: 69 RFQKCLRKGMLKEGVRLDRVRGGRQKYRRNPDLLSQQWPPNKSIPSLEDLERNTE 123
R+QKCL GM +E V+ +R RG + + + + + + E E
Sbjct: 196 RYQKCLAMGMKREAVQEERQRGKDRNENEVES--TSSANEDMPVERILEAELAVE 248
Score = 37.4 bits (86), Expect = 0.002
Identities = 13/53 (24%), Positives = 27/53 (50%), Gaps = 1/53 (1%)
Query: 128 QVIDRLEHVAVSKEEYYFLKALVLANSDVK-LDEFSSLKKFRNSILSSLGDCI 179
+++ ++ + + K E L+A+VL N D K L + ++ R + +SL
Sbjct: 357 ELVSKMRDMQMDKTELGCLRAIVLFNPDSKGLSNPAEVEALREKVYASLEAYC 409
>1kb2_A Vitamin D3 receptor; VDR, nuclear receptor, protein-DNA complex,
transcription/DNA complex; 2.70A {Homo sapiens} SCOP:
g.39.1.2 PDB: 1kb4_A 1kb6_A 1ynw_A
Length = 110
Score = 141 bits (358), Expect = 2e-44
Identities = 40/109 (36%), Positives = 62/109 (56%), Gaps = 3/109 (2%)
Query: 6 EELPRRLCLVCGDVASGFHYGVASCEACKAFFKRTIQGNIEYTCPASNDCEINKRRRKAC 65
+ R+C VCGD A+GFH+ +CE CK FF+R+++ +TCP + DC I K R+ C
Sbjct: 2 DRNVPRICGVCGDRATGFHFNAMTCEGCKGFFRRSMKRKALFTCPFNGDCRITKDNRRHC 61
Query: 66 QACRFQKCLRKGMLKEGVRLDRVRGGRQKY---RRNPDLLSQQWPPNKS 111
QACR ++C+ GM+KE + D +++ R+ + L P S
Sbjct: 62 QACRLKRCVDIGMMKEFILTDEEVQRKREMILKRKEEEALKDSLRPKLS 110
>1dsz_B RXR-alpha, retinoic acid receptor RXR-alpha; RAR, nuclear
receptor, protein-DNA, transcription/DNA complex; HET:
DNA; 1.70A {Homo sapiens} SCOP: g.39.1.2 PDB: 1by4_A*
1rxr_A 1r0n_A 1r0o_A 2nll_A*
Length = 85
Score = 140 bits (356), Expect = 2e-44
Identities = 44/83 (53%), Positives = 59/83 (71%)
Query: 8 LPRRLCLVCGDVASGFHYGVASCEACKAFFKRTIQGNIEYTCPASNDCEINKRRRKACQA 67
+ +C +CGD +SG HYGV SCE CK FFKRT++ ++ YTC + DC I+KR+R CQ
Sbjct: 3 FTKHICAICGDRSSGKHYGVYSCEGCKGFFKRTVRKDLTYTCRDNKDCLIDKRQRNRCQY 62
Query: 68 CRFQKCLRKGMLKEGVRLDRVRG 90
CR+QKCL GM +E V+ +R RG
Sbjct: 63 CRYQKCLAMGMKREAVQEERQRG 85
>2han_A Protein ultraspiracle; transcription regulation, transcription
factor, DNA-binding, nuclear protein, nuclear receptor,
zinc finger; 1.95A {Drosophila melanogaster} SCOP:
g.39.1.2
Length = 93
Score = 139 bits (353), Expect = 7e-44
Identities = 43/84 (51%), Positives = 57/84 (67%)
Query: 9 PRRLCLVCGDVASGFHYGVASCEACKAFFKRTIQGNIEYTCPASNDCEINKRRRKACQAC 68
+ LC +CGD ASG HYGV SCE CK FFKRT++ ++ Y C + +C I+KR+R CQ C
Sbjct: 9 SKHLCSICGDRASGKHYGVYSCEGCKGFFKRTVRKDLTYACRENRNCIIDKRQRNRCQYC 68
Query: 69 RFQKCLRKGMLKEGVRLDRVRGGR 92
R+QKCL GM +E V+ +R R
Sbjct: 69 RYQKCLTCGMKREAVQEERQGIHR 92
>1dsz_A RAR-alpha, retinoic acid receptor alpha; RAR, nuclear receptor,
protein-DNA, transcription/DNA complex; HET: DNA; 1.70A
{Homo sapiens} SCOP: g.39.1.2 PDB: 1hra_A
Length = 86
Score = 138 bits (349), Expect = 3e-43
Identities = 43/84 (51%), Positives = 54/84 (64%)
Query: 9 PRRLCLVCGDVASGFHYGVASCEACKAFFKRTIQGNIEYTCPASNDCEINKRRRKACQAC 68
+ C VC D +SG+HYGV++CE CK FF+R+IQ N+ YTC +C INK R CQ C
Sbjct: 3 IYKPCFVCQDKSSGYHYGVSACEGCKGFFRRSIQKNMVYTCHRDKNCIINKVTRNRCQYC 62
Query: 69 RFQKCLRKGMLKEGVRLDRVRGGR 92
R QKC GM KE VR DR + +
Sbjct: 63 RLQKCFEVGMSKESVRNDRNKKKK 86
>1a6y_A Orphan nuclear receptor NR1D1; orphan receptor, DNA-binding,
reverb, REV- ERB, transcription regulation,
transcription/DNA complex; HET: DNA 5IU; 2.30A {Homo
sapiens} SCOP: g.39.1.2 PDB: 1ga5_A* 1hlz_A
Length = 94
Score = 133 bits (337), Expect = 2e-41
Identities = 47/89 (52%), Positives = 59/89 (66%), Gaps = 2/89 (2%)
Query: 9 PRRLCLVCGDVASGFHYGVASCEACKAFFKRTIQGNIEYT-CPASNDCEINKRRRKACQA 67
LC VCGDVASGFHYGV +CE CK FF+R+IQ NI+Y C + +C I + R CQ
Sbjct: 6 MVLLCKVCGDVASGFHYGVLACEGCKGFFRRSIQQNIQYKRCLKNENCSIVRINRNRCQQ 65
Query: 68 CRFQKCLRKGMLKEGVRLDRVRGGRQKYR 96
CRF+KCL GM ++ VR R+ R+K R
Sbjct: 66 CRFKKCLSVGMSRDAVRFGRIP-KREKQR 93
>2han_B Ecdysone receptor; transcription regulation, transcription factor,
DNA-binding, nuclear protein, nuclear receptor, zinc
finger; 1.95A {Drosophila melanogaster} SCOP: g.39.1.2
PDB: 1r0o_B 1r0n_B
Length = 119
Score = 133 bits (337), Expect = 4e-41
Identities = 37/109 (33%), Positives = 56/109 (51%), Gaps = 3/109 (2%)
Query: 11 RLCLVCGDVASGFHYGVASCEACKAFFKRTIQGNIEYTCPASNDCEINKRRRKACQACRF 70
LCLVCGD ASG+HY +CE CK FF+R++ + Y C CE++ R+ CQ CR
Sbjct: 9 ELCLVCGDRASGYHYNALTCEGCKGFFRRSVTKSAVYCCKFGRACEMDMYMRRKCQECRL 68
Query: 71 QKCLRKGMLKEGVRLDRVRGGRQKYR---RNPDLLSQQWPPNKSIPSLE 116
+KCL GM E V + +++ + + D ++ P +
Sbjct: 69 KKCLAVGMRPECVVPENQCAMKRREKKAQKEKDKMTTSPSSQHGSPGIH 117
>2ebl_A COUP transcription factor 1; DNA-binding, metal-binding, nuclear
protein, receptor, transcription regulation, zinc,
EAR3, erbal3 tfcoup1; NMR {Homo sapiens}
Length = 89
Score = 127 bits (321), Expect = 6e-39
Identities = 37/80 (46%), Positives = 53/80 (66%)
Query: 9 PRRLCLVCGDVASGFHYGVASCEACKAFFKRTIQGNIEYTCPASNDCEINKRRRKACQAC 68
C+VCGD +SG HYG +CE CK+FFKR+++ N+ YTC A+ +C I++ R CQ C
Sbjct: 6 SGIECVVCGDKSSGKHYGQFTCEGCKSFFKRSVRRNLTYTCRANRNCPIDQHHRNQCQYC 65
Query: 69 RFQKCLRKGMLKEGVRLDRV 88
R +KCL+ GM +E V+
Sbjct: 66 RLKKCLKVGMRREAVQRGSG 85
>2nll_B Protein (thyroid hormone receptor); complex (transcription
regulation/DNA), DNA-binding, nuclear protein, zinc-
finger, multigene family; HET: DNA 5IU; 1.90A {Homo
sapiens} SCOP: g.39.1.2 PDB: 3m9e_A*
Length = 103
Score = 125 bits (315), Expect = 6e-38
Identities = 40/85 (47%), Positives = 53/85 (62%), Gaps = 2/85 (2%)
Query: 12 LCLVCGDVASGFHYGVASCEACKAFFKRTIQGNIE--YTCPASNDCEINKRRRKACQACR 69
LC+VCGD A+G+HY +CE CK FF+RTIQ N+ Y+C C I+K R CQ CR
Sbjct: 3 LCVVCGDKATGYHYRCITCEGCKGFFRRTIQKNLHPSYSCKYEGKCVIDKVTRNQCQECR 62
Query: 70 FQKCLRKGMLKEGVRLDRVRGGRQK 94
F+KC+ GM + V D R ++K
Sbjct: 63 FKKCIYVGMATDLVLDDSKRLAKRK 87
>3cbb_A HNF-4-alpha, hepatocyte nuclear factor 4-alpha, DNA binding
domain, nuclear; zinc finger; 2.00A {Homo sapiens}
Length = 78
Score = 124 bits (313), Expect = 6e-38
Identities = 36/76 (47%), Positives = 52/76 (68%)
Query: 12 LCLVCGDVASGFHYGVASCEACKAFFKRTIQGNIEYTCPASNDCEINKRRRKACQACRFQ 71
LC +CGD A+G HYG +SC+ CK FF+R+++ N Y+C S C ++K +R C+ CR +
Sbjct: 2 LCAICGDRATGKHYGASSCDGCKGFFRRSVRKNHMYSCRFSRQCVVDKDKRNQCRYCRLK 61
Query: 72 KCLRKGMLKEGVRLDR 87
KC R GM KE V+ +R
Sbjct: 62 KCFRAGMKKEAVQNER 77
>3dzy_D Peroxisome proliferator-activated receptor gamma; DNA-binding,
HOST-virus interaction, metal-binding, nucleus,
receptor, transcription, transcription regulation,
zinc-FIN activator; HET: DNA REA BRL; 3.10A {Homo
sapiens} PDB: 3dzu_D* 3e00_D* 2env_A
Length = 419
Score = 131 bits (331), Expect = 4e-37
Identities = 41/89 (46%), Positives = 51/89 (57%), Gaps = 1/89 (1%)
Query: 9 PRRLCLVCGDVASGFHYGVASCEACKAFFKRTIQGNIEYTCPASNDCEINKRRRKACQAC 68
C VCGD ASGFHYGV +CE CK FF+RTI+ + Y N C I+K+ R CQ C
Sbjct: 49 MAIECRVCGDKASGFHYGVHACEGCKGFFRRTIRLKLIYDRCDLN-CRIHKKSRNKCQYC 107
Query: 69 RFQKCLRKGMLKEGVRLDRVRGGRQKYRR 97
RFQKCL GM +R R+ ++
Sbjct: 108 RFQKCLAVGMSHNAIRFGRMPQAEKEKLL 136
Score = 36.2 bits (83), Expect = 0.004
Identities = 5/53 (9%), Positives = 22/53 (41%), Gaps = 1/53 (1%)
Query: 128 QVIDRLEHVAVSKEEYYFLKALVLANSDVK-LDEFSSLKKFRNSILSSLGDCI 179
+ + + + + A+++ + D L ++ ++++L +L +
Sbjct: 311 EFAVKFNALELDDSDLAIFIAVIILSGDRPGLLNVKPIEDIQDNLLQALELQL 363
>3k6p_A Steroid hormone receptor ERR1; estrogen related receptor alpha,
DNA-binding, isopeptide BON binding, nucleus,
phosphoprotein, transcription; HET: 5FB; 2.00A {Homo
sapiens} PDB: 1xb7_A 2pjl_A* 3d24_A
Length = 248
Score = 49.7 bits (119), Expect = 7e-08
Identities = 17/56 (30%), Positives = 35/56 (62%), Gaps = 1/56 (1%)
Query: 125 SCTQVIDRLEHVAVSKEEYYFLKALVLANSDVK-LDEFSSLKKFRNSILSSLGDCI 179
+ Q++ RL+ + + +EEY LKAL LANSD +++ ++++ R ++ +L +
Sbjct: 133 ALLQLVRRLQALRLEREEYVLLKALALANSDSVHIEDAEAVEQLREALHEALLEYE 188
>3ltx_A Estrogen receptor; constitutive, nuclear receptor, DNA-binding,
metal-binding, nucleus, transcription, transcription
regulation, zinc-finger; 2.60A {Crassostrea gigas}
Length = 243
Score = 48.5 bits (116), Expect = 2e-07
Identities = 13/53 (24%), Positives = 30/53 (56%), Gaps = 1/53 (1%)
Query: 128 QVIDRLEHVAVSKEEYYFLKALVLANSDVK-LDEFSSLKKFRNSILSSLGDCI 179
V +++ + K+E L+A+VL N++V+ L ++ + + S+L ++ D
Sbjct: 125 AVSEQMMQNHLHKDELLLLQAMVLVNAEVRRLASYNQIFNMQQSLLDAIVDTA 177
>2e2r_A Estrogen-related receptor gamma; ERR gamma, BPA, nuclear receptor,
transcription; HET: 2OH; 1.60A {Homo sapiens} SCOP:
a.123.1.1 PDB: 2zas_A* 2zbs_A 2zkc_A* 2p7g_A* 1vjb_A*
1tfc_A 2p7a_A* 2p7z_A* 2gpu_A* 1kv6_A 2gp7_A 2gpp_A*
2gpo_A* 2gpv_A* 1s9q_A* 1s9p_A* 2ewp_A*
Length = 244
Score = 47.8 bits (114), Expect = 3e-07
Identities = 15/53 (28%), Positives = 33/53 (62%), Gaps = 1/53 (1%)
Query: 128 QVIDRLEHVAVSKEEYYFLKALVLANSDVK-LDEFSSLKKFRNSILSSLGDCI 179
Q++ + + + + KEE+ LKA+ LANSD +++ +++K ++ + +L D
Sbjct: 136 QLVKKYKSMKLEKEEFVTLKAIALANSDSMHIEDVEAVQKLQDVLHEALQDYE 188
>1z5x_E Ecdysone receptor ligand binding domain; ponasterone A, nuclear
receptor, ECR, USP, hormone/growth factor receptor
complex; HET: P1A; 3.07A {Bemisia tabaci}
Length = 310
Score = 47.5 bits (113), Expect = 5e-07
Identities = 13/99 (13%), Positives = 29/99 (29%), Gaps = 16/99 (16%)
Query: 53 NDCEINKRRRKACQACRFQKCLRKGMLKEGVRLDRVRGGRQKYRR------NPDLLSQQW 106
C + KR+ K Q + + +G++ + + + +Q
Sbjct: 21 FQCAV-KRKEKKAQKDKDKPNSTTSCSPDGIKQEIDPQRLDTDSQLLSVNGVKPITPEQE 79
Query: 107 PPNKSI---------PSLEDLERNTEISCTQVIDRLEHV 136
+ PS ED++R + + E
Sbjct: 80 ELIHRLVYFQNEYEHPSPEDIKRIVNAAPEEENVAEERF 118
>3tx7_B Nuclear receptor subfamily 5 group A member 2; LRH-1, beta-catenin,
armadillo repeat, nuclear receptor LIGA binding domain,
protein binding; HET: P6L; 2.76A {Homo sapiens}
Length = 352
Score = 47.3 bits (112), Expect = 6e-07
Identities = 14/55 (25%), Positives = 29/55 (52%), Gaps = 1/55 (1%)
Query: 126 CTQVIDRLEHVAVSKEEYYFLKALVLANSDVK-LDEFSSLKKFRNSILSSLGDCI 179
+++ +L + + E+ LK LVL + DVK L+ F ++ + + ++L D
Sbjct: 242 AQELVAKLRSLQFDQREFVCLKFLVLFSLDVKNLENFQLVEGVQEQVNAALLDYT 296
>3plz_A FTZ-F1 related protein; alpha helical sandwhich, family five, TRAN
factor, transcription-receptor-agonist comple; HET: 470;
1.75A {Homo sapiens} PDB: 1yok_A* 1yuc_A* 4dor_A*
1zdu_A* 4dos_A* 1zh7_A 1pk5_A 3f5c_A
Length = 257
Score = 46.3 bits (110), Expect = 1e-06
Identities = 14/55 (25%), Positives = 29/55 (52%), Gaps = 1/55 (1%)
Query: 126 CTQVIDRLEHVAVSKEEYYFLKALVLANSDVK-LDEFSSLKKFRNSILSSLGDCI 179
+++ +L + + E+ LK LVL + DVK L+ F ++ + + ++L D
Sbjct: 147 AQELVAKLRSLQFDQREFVCLKFLVLFSLDVKNLENFQLVEGVQEQVNAALLDYT 201
>1ovl_A Orphan nuclear receptor NURR1 (MSe 414, 496, 511); NUUR1, LBD,
transcription; 2.20A {Homo sapiens} SCOP: a.123.1.1
Length = 271
Score = 46.2 bits (110), Expect = 1e-06
Identities = 12/41 (29%), Positives = 20/41 (48%)
Query: 78 MLKEGVRLDRVRGGRQKYRRNPDLLSQQWPPNKSIPSLEDL 118
M+KE VR D ++G R + P + PP+ + + L
Sbjct: 1 MVKEVVRTDSLKGRRGRLPSKPKSPQEPSPPSPPVSLISAL 41
Score = 39.3 bits (92), Expect = 3e-04
Identities = 9/52 (17%), Positives = 24/52 (46%)
Query: 128 QVIDRLEHVAVSKEEYYFLKALVLANSDVKLDEFSSLKKFRNSILSSLGDCI 179
+ L+++ + + + AL + L E +++ +N I++ L D +
Sbjct: 161 EFSSNLQNMNIDISAFSCIAALAMVTERHGLKEPKRVEELQNKIVNCLKDHV 212
>1pzl_A Hepatocyte nuclear factor 4-alpha; transcription; HET: MYR; 2.10A
{Homo sapiens} SCOP: a.123.1.1 PDB: 3fs1_A* 1m7w_A*
1lv2_A*
Length = 237
Score = 45.5 bits (108), Expect = 2e-06
Identities = 19/80 (23%), Positives = 39/80 (48%), Gaps = 1/80 (1%)
Query: 101 LLSQQWPPNKSIPSLEDLERNTEISCTQVIDRLEHVAVSKEEYYFLKALVLANSDVK-LD 159
LL + + P L ++ R + +++ + + + EY +LKA++ + D K L
Sbjct: 103 LLGNDYIVPRHCPELAEMSRVSIRILDELVLPFQELQIDDNEYAYLKAIIFFDPDAKGLS 162
Query: 160 EFSSLKKFRNSILSSLGDCI 179
+ +K+ R+ + SL D I
Sbjct: 163 DPGKIKRLRSQVQVSLEDYI 182
>1g2n_A Ultraspiracle protein; antiparallel alpha-helical sandwich,
structural proteomics in europe, spine, structural
genomics, gene regulation; HET: EPH; 1.65A {Heliothis
virescens} SCOP: a.123.1.1 PDB: 2r40_A* 1r20_A* 1r1k_A*
3ixp_A*
Length = 264
Score = 45.2 bits (107), Expect = 3e-06
Identities = 15/80 (18%), Positives = 34/80 (42%), Gaps = 1/80 (1%)
Query: 101 LLSQQWPPNKSIPSLEDLERNTEISCTQVIDRLEHVAVSKEEYYFLKALVLANSDVK-LD 159
L +++ + + + +++ ++ + V + EY LKA++L N DVK L
Sbjct: 122 CLMPGMTLHRNSALQAGVGQIFDRVLSELSLKMRTLRVDQAEYVALKAIILLNPDVKGLK 181
Query: 160 EFSSLKKFRNSILSSLGDCI 179
++ R + L +
Sbjct: 182 NRQEVEVLREKMFLCLDEYC 201
>1ymt_A Steroidogenic factor 1; SF-1, ligand-binding domain, ligand,
phosphatidyl glycerol, CO-repressor peptide,
transcription; HET: DR9; 1.20A {Mus musculus} PDB:
3f7d_A* 1yp0_A* 1yow_A* 1zdt_A*
Length = 246
Score = 44.8 bits (106), Expect = 4e-06
Identities = 16/83 (19%), Positives = 33/83 (39%), Gaps = 6/83 (7%)
Query: 98 NPDLLSQQWPPNKSIPSLEDLERNTEISCTQVIDRLEHVAVSKEEYYFLKALVLANSDVK 157
++ + R E+ +L + + ++E+ LK L+L + DVK
Sbjct: 113 GQEVELSTVAVQAGSLLHSLVLRAQELVL-----QLHALQLDRQEFVCLKFLILFSLDVK 167
Query: 158 -LDEFSSLKKFRNSILSSLGDCI 179
L+ S +K + ++L D
Sbjct: 168 FLNNHSLVKDAQEKANAALLDYT 190
>2nxx_A Ultraspiracle (USP, NR2B4); hormone receptor, APO and holo ligand
binding pocket, hormone/growth factor complex; HET: P1A;
2.75A {Tribolium castaneum}
Length = 235
Score = 43.5 bits (103), Expect = 9e-06
Identities = 11/53 (20%), Positives = 28/53 (52%), Gaps = 1/53 (1%)
Query: 128 QVIDRLEHVAVSKEEYYFLKALVLANSDVK-LDEFSSLKKFRNSILSSLGDCI 179
+++++++ + + K E L+A++L N DV+ + ++ R I L +
Sbjct: 126 ELVNKMKEMKMDKTELGCLRAIILYNPDVRGIKSVQEVEMLREKIYGVLEEYT 178
>3vhv_A Mineralocorticoid receptor; nuclear receptor, transcription factor,
activating mutation, hypertension, non-steroidal
antagonist; HET: LD1 LD2; 1.35A {Homo sapiens} PDB:
2aax_A* 2aa6_A* 2ab2_A* 2aa2_A* 2aa5_A* 2aa7_A* 2a3i_A*
1y9r_A* 1ya3_A* 2oax_A* 2abi_A* 2q1h_A* 2q1v_A* 2q3y_A*
3ry9_A*
Length = 260
Score = 43.8 bits (103), Expect = 9e-06
Identities = 11/56 (19%), Positives = 27/56 (48%), Gaps = 2/56 (3%)
Query: 126 CTQVIDRLEHVAVSKEEYYFLKALVLANSDVK--LDEFSSLKKFRNSILSSLGDCI 179
Q+ + + ++ EEY +K L+L ++ K L ++ ++ R + + L +
Sbjct: 128 MHQISLQFVRLQLTFEEYTIMKVLLLLSTIPKDGLKSQAAFEEMRTNYIKELRKMV 183
>2iz2_A FTZ-F1 alpha, nuclear hormone receptor FTZ-F1; nuclear protein,
phosphorylation, PAIR-RULE protein; 2.8A {Drosophila
melanogaster} PDB: 2xhs_A
Length = 243
Score = 43.2 bits (102), Expect = 1e-05
Identities = 9/55 (16%), Positives = 28/55 (50%), Gaps = 1/55 (1%)
Query: 126 CTQVIDRLEHVAVSKEEYYFLKALVLANSDVK-LDEFSSLKKFRNSILSSLGDCI 179
++ ++L+ + +Y +K L+L N V+ + ++ + +++ ++L D
Sbjct: 134 FNELQNKLQDLKFDMGDYVCMKFLILLNPSVRGIVNRKTVSEGHDNVQAALLDYT 188
>3mnp_A Glucocorticoid receptor; protein-ligand complex, steroid nuclear
receptor, mouse GR, hormone receptor; HET: DEX; 1.50A
{Mus musculus} PDB: 3mno_A* 3mne_A* 1m2z_A* 3k22_A*
3cld_A* 3k23_A* 3e7c_A* 1nhz_A* 1p93_A* 3bqd_A* 3h52_A*
3gn8_A* 4e2j_A*
Length = 261
Score = 43.4 bits (102), Expect = 1e-05
Identities = 16/54 (29%), Positives = 25/54 (46%), Gaps = 2/54 (3%)
Query: 128 QVIDRLEHVAVSKEEYYFLKALVLANSDVK--LDEFSSLKKFRNSILSSLGDCI 179
+ L+ + VS EEY +K L+L +S K L + R + + LG I
Sbjct: 132 FISTELQRLQVSYEEYLCMKTLLLLSSVPKEGLKSQELFDEIRMTYIKELGKAI 185
>1lbd_A RXR_LBD, retinoid X receptor; transcription factor, nuclear
receptor, structural proteomic europe, spine, structural
genomics; 2.70A {Homo sapiens} SCOP: a.123.1.1 PDB:
1z5x_U* 2q60_A
Length = 282
Score = 42.9 bits (101), Expect = 2e-05
Identities = 7/62 (11%), Positives = 18/62 (29%), Gaps = 5/62 (8%)
Query: 62 RKACQACRFQKCLRKGMLKEGVRLDRVRGGRQKYRRNPDLLSQQWPPNKSIPSLEDLERN 121
+ + +E V+ +R RG + + + + + + E
Sbjct: 7 HHHHSSGLVPRG---SHKREAVQEERQRGKDRNENEVE--STSSANEDMPVERILEAELA 61
Query: 122 TE 123
E
Sbjct: 62 VE 63
Score = 39.0 bits (91), Expect = 3e-04
Identities = 13/53 (24%), Positives = 27/53 (50%), Gaps = 1/53 (1%)
Query: 128 QVIDRLEHVAVSKEEYYFLKALVLANSDVK-LDEFSSLKKFRNSILSSLGDCI 179
+++ ++ + + K E L+A+VL N D K L + ++ R + +SL
Sbjct: 172 ELVSKMRDMQMDKTELGCLRAIVLFNPDSKGLSNPAEVEALREKVYASLEAYC 224
>3vhu_A Mineralocorticoid receptor; nuclear receptor, transcription factor,
activating mutation, hypertension, antagonist,
spironolactone; HET: SNL; 2.11A {Homo sapiens}
Length = 294
Score = 43.0 bits (101), Expect = 2e-05
Identities = 11/56 (19%), Positives = 27/56 (48%), Gaps = 2/56 (3%)
Query: 126 CTQVIDRLEHVAVSKEEYYFLKALVLANSDVK--LDEFSSLKKFRNSILSSLGDCI 179
Q+ + + ++ EEY +K L+L ++ K L ++ ++ R + + L +
Sbjct: 162 MHQISLQFVRLQLTFEEYTIMKVLLLLSTIPKDGLKSQAAFEEMRTNYIKELRKMV 217
>1sqn_A PR, progesterone receptor; nuclear receptor, steroid receptor,
norethindrone, birth control, hormone/growth factor
receptior complex; HET: NDR; 1.45A {Homo sapiens} SCOP:
a.123.1.1 PDB: 3g8o_A* 3g8n_A* 3d90_A* 1e3k_A* 1sr7_A*
1zuc_B* 3zr7_A* 2w8y_A* 3zra_A* 3zrb_A* 4a2j_A* 4apu_A*
1a28_A* 2ovh_A* 2ovm_A* 3hq5_A* 3kba_A*
Length = 261
Score = 42.2 bits (99), Expect = 3e-05
Identities = 14/54 (25%), Positives = 26/54 (48%), Gaps = 2/54 (3%)
Query: 128 QVIDRLEHVAVSKEEYYFLKALVLANSDVK--LDEFSSLKKFRNSILSSLGDCI 179
Q+ + VS+EE+ +K L+L N+ L + ++ R+S + L I
Sbjct: 131 QIPQEFVKLQVSQEEFLCMKVLLLLNTIPLEGLRSQTQFEEMRSSYIRELIKAI 184
>3oll_A Estrogen receptor beta; steroid binding, phosphorylation, hormone
receptor-activator; HET: PTR EST; 1.50A {Homo sapiens}
PDB: 1u3s_A* 1u3q_A* 1x78_A* 1x7b_A* 1x7j_A* 1x76_A*
2yjd_A* 3ols_A* 3omo_A* 3omp_A* 3omq_A* 1u3r_A* 1u9e_A*
1qkm_A* 2giu_A* 1nde_A* 2jj3_A* 2i0g_A* 2qtu_A* 2z4b_A*
...
Length = 240
Score = 40.9 bits (96), Expect = 8e-05
Identities = 13/60 (21%), Positives = 23/60 (38%), Gaps = 8/60 (13%)
Query: 128 QVIDRLEHVAVSKEEYYFLKALVLANSDVK--------LDEFSSLKKFRNSILSSLGDCI 179
R + + +EY +KA++L NS + D L N++ +L I
Sbjct: 122 ATTSRFRELKLQHKEYLCVKAMILLNSSMYPLVTATQDADSSRKLAHLLNAVTDALVWVI 181
>1xpc_A Estrogen receptor; nuclear receptor, transcription factor,
ER-alpha, antagonist hormone-growth factor receptor
complex; HET: AIT; 1.60A {Homo sapiens} SCOP: a.123.1.1
PDB: 1sj0_A* 1xp1_A* 1xp9_A* 1xp6_A* 1yim_A* 1yin_A*
3ert_A* 1r5k_A* 3erd_A* 1l2i_A* 2iok_A* 1a52_A* 2ouz_A*
1ere_A* 1err_A* 2qxs_A* 3q95_A* 3q97_A* 2b1z_A* 1zky_A*
...
Length = 248
Score = 40.9 bits (96), Expect = 8e-05
Identities = 13/61 (21%), Positives = 25/61 (40%), Gaps = 9/61 (14%)
Query: 128 QVIDRLEHVAVSKEEYYFLKALVLANSDVK---------LDEFSSLKKFRNSILSSLGDC 178
R + + EE+ LK+++L NS V L+E + + + I +L
Sbjct: 124 ATSSRFRMMNLQGEEFVCLKSIILLNSGVYTFLSSTLKSLEEKDHIHRVLDKITDTLIHL 183
Query: 179 I 179
+
Sbjct: 184 M 184
>1t7r_A Androgen receptor; nuclear receptor, transcription factor, ligand
binding domain, AF-2, androgen, testosterone, DHT,
alpha-helical sandwich; HET: DHT; 1.40A {Pan
troglodytes} SCOP: a.123.1.1 PDB: 1t73_A* 1t76_A*
1t74_A* 1t79_A* 1t7m_A* 1t7f_A* 1t7t_A* 2am9_A* 2ama_A*
2amb_A* 2pnu_A* 1e3g_A* 2q7i_A* 1xj7_A* 2q7j_A* 3g0w_A*
2ihq_A* 2nw4_A* 1i37_A* 2q7k_A* ...
Length = 269
Score = 40.7 bits (95), Expect = 8e-05
Identities = 10/58 (17%), Positives = 22/58 (37%), Gaps = 2/58 (3%)
Query: 128 QVIDRLEHVAVSKEEYYFLKALVLANSDVK--LDEFSSLKKFRNSILSSLGDCIYVLR 183
+ + ++ +E+ +KAL+L + L + R + + L I R
Sbjct: 139 HLSQEFGWLQITPQEFLCMKALLLFSIIPVDGLKNQKFFDELRMNYIKELDRIIACKR 196
>2p1t_A Retinoic acid receptor RXR-alpha; protein-ligand complex, hormone
receptor; HET: 3TN; 1.80A {Homo sapiens} SCOP: a.123.1.1
PDB: 1mvc_A* 1mzn_A* 1mv9_A* 2p1u_A* 2p1v_A* 2zxz_A*
2zy0_A* 3fug_A* 3nsp_A 3nsq_A* 3r29_A 3r2a_A* 3r5m_A*
3e94_A* 3kwy_A* 1fby_A* 3uvv_B* 3fc6_A* 1rdt_A* 3fal_A*
...
Length = 240
Score = 40.1 bits (94), Expect = 1e-04
Identities = 13/53 (24%), Positives = 27/53 (50%), Gaps = 1/53 (1%)
Query: 128 QVIDRLEHVAVSKEEYYFLKALVLANSDVK-LDEFSSLKKFRNSILSSLGDCI 179
+++ ++ + + K E L+A+VL N D K L + ++ R + +SL
Sbjct: 130 ELVSKMRDMQMDKTELGCLRAIVLFNPDSKGLSNPAEVEALREKVYASLEAYC 182
>2ocf_A Estrogen receptor; estrogen receptor, LBD, monobody, estradiol,
hormone-growth complex; HET: CME EST; 2.95A {Homo
sapiens}
Length = 298
Score = 39.1 bits (91), Expect = 4e-04
Identities = 13/61 (21%), Positives = 25/61 (40%), Gaps = 9/61 (14%)
Query: 128 QVIDRLEHVAVSKEEYYFLKALVLANSDVK---------LDEFSSLKKFRNSILSSLGDC 178
R + + EE+ LK+++L NS V L+E + + + I +L
Sbjct: 133 ATSSRFRMMNLQGEEFVCLKSIILLNSGVYTFLSSTLKSLEEKDHIHRVLDKITDTLIHL 192
Query: 179 I 179
+
Sbjct: 193 M 193
>1hg4_A Ultraspiracle; nuclear hormone receptor, transcription factor,
ligand binding; HET: LPP; 2.4A {Drosophila melanogaster}
SCOP: a.123.1.1
Length = 279
Score = 38.0 bits (88), Expect = 7e-04
Identities = 11/80 (13%), Positives = 38/80 (47%), Gaps = 1/80 (1%)
Query: 101 LLSQQWPPNKSIPSLEDLERNTEISCTQVIDRLEHVAVSKEEYYFLKALVLANSDVK-LD 159
L+Q + +++ + + +++ +++ + + + E LKA++L N D++ +
Sbjct: 136 FLNQSFSYHRNSAIKAGVSAIFDRILSELSVKMKRLNLDRRELSCLKAIILYNPDIRGIK 195
Query: 160 EFSSLKKFRNSILSSLGDCI 179
+ ++ R + + L +
Sbjct: 196 SRAEIEMCREKVYACLDEHC 215
>3cjw_A COUP transcription factor 2; COUP-TFII, nuclear receptor, ligand
binding domain, orphan receptor, three-layered helical
sandwich, DNA-binding; 1.48A {Homo sapiens}
Length = 244
Score = 37.8 bits (88), Expect = 7e-04
Identities = 13/53 (24%), Positives = 28/53 (52%), Gaps = 1/53 (1%)
Query: 128 QVIDRLEHVAVSKEEYYFLKALVLANSDVK-LDEFSSLKKFRNSILSSLGDCI 179
+ +++L+ + V EY LKA+VL SD L + + ++ + +L + +
Sbjct: 127 EQVEKLKALHVDSAEYSCLKAIVLFTSDACGLSDVAHVESLQEKSQCALEEYV 179
>2hc4_A Vitamin D receptor; alpha helical sandwich, gene regulation; HET:
VDX; 2.20A {Danio rerio} PDB: 2hbh_A* 2hcd_A* 3dr1_A*
3o1d_A* 3o1e_A*
Length = 302
Score = 37.9 bits (88), Expect = 8e-04
Identities = 4/28 (14%), Positives = 8/28 (28%)
Query: 65 CQACRFQKCLRKGMLKEGVRLDRVRGGR 92
RF+ +R+G +
Sbjct: 29 SDFVRFRPPVREGPVTRSASRAASLHSL 56
Score = 30.9 bits (70), Expect = 0.18
Identities = 9/53 (16%), Positives = 24/53 (45%), Gaps = 1/53 (1%)
Query: 128 QVIDRLEHVAVSKEEYYFLKALVLANSDVK-LDEFSSLKKFRNSILSSLGDCI 179
+ L+ + + +EE+ L A+ L + D + + ++ ++ + L I
Sbjct: 192 KFQVGLKKLKLHEEEHVLLMAICLLSPDRPGVQDHVRIEALQDRLCDVLQAYI 244
>1l2j_A Estrogen receptor beta; nuclear receptor, transcription factor,
antagonist transcription receptor; HET: ETC; 2.95A {Homo
sapiens} SCOP: a.123.1.1
Length = 271
Score = 36.9 bits (85), Expect = 0.002
Identities = 13/60 (21%), Positives = 23/60 (38%), Gaps = 8/60 (13%)
Query: 128 QVIDRLEHVAVSKEEYYFLKALVLANSDVK--------LDEFSSLKKFRNSILSSLGDCI 179
R + + +EY +KA++L NS + D L N++ +L I
Sbjct: 148 ATTSRFRELKLQHKEYLCVKAMILLNSSMYPLVTATQDADSSRKLAHLLNAVTDALVWVI 207
>1yye_A ER-beta, estrogen receptor beta; ER-beta, nuclear receptor,
transcription factor, agonist; HET: 196; 2.03A {Homo
sapiens} SCOP: a.123.1.1 PDB: 1yy4_A*
Length = 268
Score = 36.4 bits (84), Expect = 0.003
Identities = 13/60 (21%), Positives = 23/60 (38%), Gaps = 8/60 (13%)
Query: 128 QVIDRLEHVAVSKEEYYFLKALVLANSDVK--------LDEFSSLKKFRNSILSSLGDCI 179
R + + +EY +KA++L NS + D L N++ +L I
Sbjct: 120 ATTSRFRELKLQHKEYLCVKAMILLNSSMYPLVTATQDADSSRKLAHLLNAVTDALVWVI 179
>3f5c_B Nuclear receptor subfamily 0 group B member 1; transcriptional
corepressor, regulatory complex, DNA-binding,
lipid-binding, metal-binding; 3.00A {Mus musculus}
Length = 268
Score = 35.6 bits (81), Expect = 0.005
Identities = 11/54 (20%), Positives = 21/54 (38%), Gaps = 1/54 (1%)
Query: 127 TQVIDRLEHVAVSKEEYYFLKALVLANSDVK-LDEFSSLKKFRNSILSSLGDCI 179
+ + + +EY +LK VL N D+ L ++ + L + I
Sbjct: 160 KSFFFKCWSLNIDTKEYAYLKGTVLFNPDLPGLQCVKYIEGLQWRTQQILTEHI 213
>3n00_A REV-ERBA-alpha; reverba ncorid1, anti-parallel B-sheet,
transcription regula; 2.60A {Homo sapiens}
Length = 245
Score = 34.4 bits (79), Expect = 0.011
Identities = 11/53 (20%), Positives = 31/53 (58%), Gaps = 1/53 (1%)
Query: 128 QVIDRLEHVAVSKEEYYFLKALVLANSDVK-LDEFSSLKKFRNSILSSLGDCI 179
++L +A+++EE A+VL ++D ++ +S+++ + ++L +L +
Sbjct: 153 DFSEKLNSLALTEEELGLFTAVVLVSADRSGMENSASVEQLQETLLRALRALV 205
>3kmr_A Retinoic acid receptor alpha; nuclear receptor transcription factor
ligand binding domain, binding, metal-binding, nucleus,
phosphoprotein; HET: EQN; 1.80A {Homo sapiens} PDB:
3kmz_B* 3a9e_B* 4dm6_A* 1xap_A* 4dm8_A* 2lbd_A* 3lbd_A*
4lbd_A*
Length = 266
Score = 34.3 bits (79), Expect = 0.013
Identities = 9/49 (18%), Positives = 21/49 (42%), Gaps = 1/49 (2%)
Query: 132 RLEHVAVSKEEYYFLKALVLANSDVK-LDEFSSLKKFRNSILSSLGDCI 179
+L + + E L A+ L D + L++ + + +L +L +
Sbjct: 160 QLLPLEMDDAETGLLSAICLICGDRQDLEQPDRVDMLQEPLLEALKVYV 208
>2o4j_A Vitamin D3 receptor; nuclear receptor-ligand complex,
hormone/growth factor receptor complex; HET: VD4; 1.74A
{Rattus norvegicus} SCOP: a.123.1.1 PDB: 1rk3_A* 1rjk_A*
1rkh_A* 1rkg_A* 2o4r_A*
Length = 292
Score = 34.4 bits (79), Expect = 0.014
Identities = 7/43 (16%), Positives = 22/43 (51%), Gaps = 1/43 (2%)
Query: 138 VSKEEYYFLKALVLANSDVK-LDEFSSLKKFRNSILSSLGDCI 179
+ +EE+ L A+ + + D + + ++ ++ + ++L I
Sbjct: 159 LHEEEHVLLMAICIVSPDRPGVQDAKLVEAIQDRLSNTLQTYI 201
>1xdk_B RAR-beta, retinoic acid receptor, beta; nuclear receptor,
coactivator, ligand, hormone/growth factor receptor
complex; HET: REA; 2.90A {Mus musculus} SCOP: a.123.1.1
Length = 303
Score = 34.0 bits (78), Expect = 0.019
Identities = 10/52 (19%), Positives = 18/52 (34%), Gaps = 1/52 (1%)
Query: 78 MLKEGVRLDRVRGGRQKY-RRNPDLLSQQWPPNKSIPSLEDLERNTEISCTQ 128
M KE VR DR + ++ + + + + + T S Q
Sbjct: 1 MSKESVRNDRNKKKKEPSKQECTESYEMTAELDDLTEKIRKAHQETFPSLCQ 52
Score = 34.0 bits (78), Expect = 0.020
Identities = 12/49 (24%), Positives = 23/49 (46%), Gaps = 1/49 (2%)
Query: 132 RLEHVAVSKEEYYFLKALVLANSDVK-LDEFSSLKKFRNSILSSLGDCI 179
+L + + E L A+ L D + L+E + + K + +L +L I
Sbjct: 163 QLLPLEMDDTETGLLSAICLICGDRQDLEEPTKVDKLQEPLLEALKIYI 211
>3cqv_A Nuclear receptor subfamily 1 group D member 2; reverb beta, heme,
NR1D2, DNA-binding, metal-binding, nucleus, repressor,
transcription; HET: HEM; 1.90A {Homo sapiens} PDB:
2v7c_A 2v0v_A
Length = 199
Score = 33.5 bits (77), Expect = 0.023
Identities = 11/53 (20%), Positives = 29/53 (54%), Gaps = 1/53 (1%)
Query: 128 QVIDRLEHVAVSKEEYYFLKALVLANSDVK-LDEFSSLKKFRNSILSSLGDCI 179
+ ++L + +S EE A+VL ++D ++ +S++ + +++ +L I
Sbjct: 108 EFSEKLNALQLSDEEMSLFTAVVLVSADRSGIENVNSVEALQETLIRALRTLI 160
>3p0u_A Nuclear receptor subfamily 2 group C member 2; ligand binding
domain, orphan nuclear receptor, testicular R 4,
signaling protein; 3.00A {Homo sapiens}
Length = 249
Score = 33.4 bits (76), Expect = 0.024
Identities = 14/53 (26%), Positives = 27/53 (50%), Gaps = 1/53 (1%)
Query: 128 QVIDRLEHVAVSKEEYYFLKALVLANSDVK-LDEFSSLKKFRNSILSSLGDCI 179
+ + + + + EY +LKA+VL + D L S ++KF+ + L D +
Sbjct: 130 EFCNSMAKLDIDGYEYAYLKAIVLFSPDHPGLTSTSQIEKFQEAAQMELQDYV 182
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 33.9 bits (77), Expect = 0.025
Identities = 34/174 (19%), Positives = 55/174 (31%), Gaps = 48/174 (27%)
Query: 32 ACKAFFKRTIQGNIEYTC---PASNDCEI---NKRRRKAC----QA-CRFQKCLRKGMLK 80
+ + +Q + T PA EI N + Q+ LRK
Sbjct: 340 SISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAP 399
Query: 81 EGVRLDRVRGGRQK----YRRNP-------DLLSQQWPPNKSIPSLEDLERNTEISCTQV 129
G+ R+ +K R P LL P + I +DL +N
Sbjct: 400 SGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLV---PASDLI--NKDLVKN-------- 446
Query: 130 IDRLEHVAVSKEEYYFLKALVLANSDVKLDEFSSLKKFRNSILSSLGDCIYVLR 183
+V+ + ++ ++ V D D L+ SI + DCI L
Sbjct: 447 -----NVSFNAKD---IQIPVYDTFDGS-D----LRVLSGSISERIVDCIIRLP 487
Score = 32.7 bits (74), Expect = 0.064
Identities = 24/109 (22%), Positives = 34/109 (31%), Gaps = 52/109 (47%)
Query: 103 SQQWPPNKSIPS--LEDLERNTE------ISCT-----QVIDRLE----------HVAVS 139
+ PN S+P LED N E +S + QV D + V +S
Sbjct: 310 CYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEIS 369
Query: 140 KEEYYFLKALVLANSDVKLDEFSSLKKFRNSILS----SL-GDCIYVLR 183
L N +N ++S SL G + LR
Sbjct: 370 -----------LVNGA------------KNLVVSGPPQSLYGLNLT-LR 394
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 33.7 bits (76), Expect = 0.030
Identities = 36/235 (15%), Positives = 70/235 (29%), Gaps = 79/235 (33%)
Query: 2 GIKEEELPRRLC----LVCGDVASGFHYGVA--------SCEACKAFFKRTIQGNIEYTC 49
+ ++LPR + +A G+A +C+ I+ ++
Sbjct: 312 DCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDK----LTTIIESSLNVLE 367
Query: 50 PASNDCEINKRRRKACQACRFQKCLRKGMLKEGVR-----LDRVRGGRQKYR-------- 96
PA E RK F + + L + K
Sbjct: 368 PA----EY----RK-----MFDRL---SVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKL 411
Query: 97 RNPDLLSQQWPPNK-SIPSLE-DLERNTEISCT---QVIDR--------LEHVAVSKEEY 143
L+ +Q + SIPS+ +L+ E ++D + + +
Sbjct: 412 HKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQ 471
Query: 144 YFLKALV--LANSDV--KLDEFSSL--------KKFRN---------SILSSLGD 177
YF + L N + ++ F + +K R+ SIL++L
Sbjct: 472 YFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQ 526
>1fcy_A RAR-gamma-1, retinoic acid receptor gamma-1; isotype selectivity,
retinoid ligand complexes, drug design, antiparallel
alpha-helical sandwich fold; HET: 564 LMU; 1.30A {Homo
sapiens} SCOP: a.123.1.1 PDB: 1fcz_A* 1fcx_A* 1fd0_A*
1exa_A* 1exx_A* 1dkf_B*
Length = 236
Score = 32.3 bits (74), Expect = 0.052
Identities = 11/49 (22%), Positives = 20/49 (40%), Gaps = 1/49 (2%)
Query: 132 RLEHVAVSKEEYYFLKALVLANSDVK-LDEFSSLKKFRNSILSSLGDCI 179
+L + + E L A+ L D L+E + K + +L +L
Sbjct: 136 QLLPLEMDDTETGLLSAICLICGDRMDLEEPEKVDKLQEPLLEALRLYA 184
>1yje_A Orphan nuclear receptor NR4A1; NGFI-B, NUR77, ligand-binding
domain, novel coregulator interface, cell-specific;
2.40A {Rattus norvegicus} PDB: 2qw4_A
Length = 264
Score = 32.4 bits (74), Expect = 0.054
Identities = 12/52 (23%), Positives = 21/52 (40%)
Query: 128 QVIDRLEHVAVSKEEYYFLKALVLANSDVKLDEFSSLKKFRNSILSSLGDCI 179
L + V + L ALVL L + +++ +N I S L + +
Sbjct: 154 AFSRSLHSLGVDVPAFACLSALVLITDRHGLQDPRRVEELQNRIASCLKEHM 205
>1osh_A BIle acid receptor; nuclear receptor, ligand binding domain,
transcription; HET: FEX; 1.80A {Homo sapiens} SCOP:
a.123.1.1 PDB: 3l1b_A* 3bej_A* 3fli_A* 3hc5_A* 3rvf_A*
3dct_A* 3dcu_A* 3ruu_A* 3rut_A* 3olf_A* 3okh_A* 3fxv_A*
3oki_A* 3omk_A* 3omm_A* 3oof_A* 3ook_A* 3hc6_A* 3p89_A*
3p88_A* ...
Length = 232
Score = 31.9 bits (73), Expect = 0.068
Identities = 10/43 (23%), Positives = 24/43 (55%), Gaps = 1/43 (2%)
Query: 138 VSKEEYYFLKALVLANSDVK-LDEFSSLKKFRNSILSSLGDCI 179
+++EEY L A+V+ + D + + + +++K + +L L
Sbjct: 137 MTQEEYALLTAIVILSPDRQYIKDREAVEKLQEPLLDVLQKLC 179
>3ilz_A Thyroid hormone receptor, alpha isoform 1 variant; nuclear
receptor, signaling protein; HET: B72; 1.85A {Homo
sapiens} PDB: 3jzb_A* 3hzf_A* 2h79_A* 2h77_A* 1nav_A*
3uvv_A* 1xzx_X* 1y0x_X* 1nq1_A* 3jzc_A* 1nuo_A* 3imy_A*
1nq0_A* 1bsx_A* 1r6g_A* 1nq2_A* 3gws_X* 1n46_A* 2h6w_X*
2j4a_A* ...
Length = 267
Score = 31.3 bits (71), Expect = 0.12
Identities = 9/49 (18%), Positives = 21/49 (42%), Gaps = 1/49 (2%)
Query: 132 RLEHVAVSKEEYYFLKALVLANSDVK-LDEFSSLKKFRNSILSSLGDCI 179
L + E L+A++L ++D L ++K + + L + +
Sbjct: 162 SLSAFNLDDTEVALLQAVLLMSTDRSGLLXVDKIEKSQEAYLLAFEHYV 210
>1nrl_A Orphan nuclear receptor PXR; PXR, xenobiotic, SRC-1, ligand binding
domain, transcription; HET: SRL; 2.00A {Homo sapiens}
SCOP: a.123.1.1 PDB: 1ilh_A* 1ilg_A* 1m13_A* 2qnv_A*
3r8d_A* 3ctb_A 3ctc_A 3hvl_A* 1skx_A* 2o9i_A*
Length = 316
Score = 31.4 bits (71), Expect = 0.12
Identities = 8/43 (18%), Positives = 20/43 (46%), Gaps = 1/43 (2%)
Query: 138 VSKEEYYFLKALVLANSDVK-LDEFSSLKKFRNSILSSLGDCI 179
+ +EEY ++A+ L + D + + + + + +L I
Sbjct: 217 LHEEEYVLMQAISLFSPDRPGVLQHRVVDQLQEQFAITLKSYI 259
>1xvp_B Orphan nuclear receptor NR1I3; CAR, RXR, citco, SRC1, DNA binding
protein; HET: F15 CID; 2.60A {Homo sapiens} SCOP:
a.123.1.1 PDB: 1xv9_B* 1xnx_A* 1xls_E*
Length = 246
Score = 30.8 bits (70), Expect = 0.19
Identities = 9/49 (18%), Positives = 21/49 (42%), Gaps = 1/49 (2%)
Query: 132 RLEHVAVSKEEYYFLKALVLANSDVK-LDEFSSLKKFRNSILSSLGDCI 179
L + + + EY L A+ L + D + + + + + + +L I
Sbjct: 146 TLRKLQLQEPEYVLLAAMALFSPDRPGVTQRDEIDQLQEEMALTLQSYI 194
>3ipq_A Oxysterols receptor LXR-alpha; LXR homodimer, LXR signaling,
alternative DNA-binding, metal-binding, nucleus,
polymorphism, receptor transcription; HET: 965; 2.00A
{Homo sapiens} PDB: 3ips_A* 3ipu_A* 3fc6_B* 3fal_B*
1uhl_B* 2acl_B* 1upv_A* 1upw_A* 1p8d_A* 1pq9_A* 1pq6_A*
1pqc_A* 3kfc_A* 4dk7_A* 4dk8_A* 3l0e_A*
Length = 283
Score = 30.1 bits (68), Expect = 0.30
Identities = 5/43 (11%), Positives = 23/43 (53%), Gaps = 1/43 (2%)
Query: 138 VSKEEYYFLKALVLANSDVK-LDEFSSLKKFRNSILSSLGDCI 179
++ E+ L A+ + ++D + + +++ +++ + +L +
Sbjct: 187 LNDAEFALLIAISIFSADRPNVQDQLQVERLQHTYVEALHAYV 229
>3u9q_A Peroxisome proliferator-activated receptor gamma; nuclear receptor,
adipogenesis, RXRA, nucleus, transcription; HET: DKA;
1.52A {Homo sapiens} PDB: 1i7i_A* 3ty0_A* 1zeo_A*
2p4y_A* 3et3_A* 3et0_A* 2hwq_A* 2ath_A* 2f4b_A* 2g0g_A*
2g0h_A* 2gtk_A* 2fvj_A* 2hwr_A* 2prg_A* 2q8s_A* 3fej_A*
3g9e_A* 3gbk_A* 3ia6_A* ...
Length = 269
Score = 29.3 bits (66), Expect = 0.60
Identities = 5/43 (11%), Positives = 19/43 (44%), Gaps = 1/43 (2%)
Query: 138 VSKEEYYFLKALVLANSDVK-LDEFSSLKKFRNSILSSLGDCI 179
+ + A+++ + D L ++ ++++L +L +
Sbjct: 172 LDDSDLAIFIAVIILSGDRPGLLNVKPIEDIQDNLLQALELQL 214
>3b0t_A Vitamin D3 receptor; nuclear receptor, transcription, gene
regulation; HET: MCZ; 1.30A {Homo sapiens} PDB: 3a40_X*
1s0z_A* 1s19_A* 2ham_A* 2har_A* 2has_A* 1txi_A* 2hb8_A*
2hb7_A* 3a3z_X* 3a78_A* 3auq_A* 3aur_A* 3ax8_A* 3cs4_A*
3cs6_A* 1ie9_A* 1db1_A* 1ie8_A* 3kpz_A* ...
Length = 254
Score = 28.6 bits (64), Expect = 0.90
Identities = 7/43 (16%), Positives = 23/43 (53%), Gaps = 1/43 (2%)
Query: 138 VSKEEYYFLKALVLANSDVK-LDEFSSLKKFRNSILSSLGDCI 179
+ +EE+ L A+ + + D + + + ++ ++ + ++L I
Sbjct: 156 LHEEEHVLLMAICIVSPDRPGVQDAALIEAIQDRLSNTLQTYI 198
>1nq7_A Nuclear receptor ROR-beta; ligand-binding domain, retinoids,
retinoic acid, synthetic ligand, antagonist,
transcription; HET: ARL; 1.50A {Rattus norvegicus} SCOP:
a.123.1.1 PDB: 1k4w_A* 1n4h_A*
Length = 244
Score = 28.7 bits (64), Expect = 0.99
Identities = 12/53 (22%), Positives = 22/53 (41%), Gaps = 1/53 (1%)
Query: 128 QVIDRLEHVAVSKEEYYFLKALVLANSDVK-LDEFSSLKKFRNSILSSLGDCI 179
L + +++EE + VL + D L E ++K + I +L I
Sbjct: 137 DFAKNLCSLQLTEEEIALFSSAVLISPDRAWLLEPRKVQKLQEKIYFALQHVI 189
>1pdu_A DHR38, nuclear hormone receptor HR38; nuclear receptor,
ligand-binding domain, hormone/growth factor receptor
complex; 2.30A {Drosophila melanogaster} SCOP: a.123.1.1
Length = 244
Score = 28.1 bits (63), Expect = 1.6
Identities = 11/48 (22%), Positives = 21/48 (43%)
Query: 132 RLEHVAVSKEEYYFLKALVLANSDVKLDEFSSLKKFRNSILSSLGDCI 179
L ++ + + L AL L L E +++ + I+ SL D +
Sbjct: 138 SLHNLEIDISAFACLCALTLITERHGLREPKKVEQLQMKIIGSLRDHV 185
>3up3_A Acedaf-12; ligand binding domain, nematode, steroid binding
protein- transcription complex; HET: XCA; 1.25A
{Ancylostoma ceylanicum} PDB: 3up0_A*
Length = 243
Score = 27.9 bits (62), Expect = 1.6
Identities = 3/45 (6%), Positives = 13/45 (28%), Gaps = 3/45 (6%)
Query: 138 VSKEEYYFLKALVLANSD---VKLDEFSSLKKFRNSILSSLGDCI 179
+ + +VL + ++ + + + L +
Sbjct: 146 SNDLVISMIMLIVLFSPRDSITDPEDRRIIARHHEQFSALLNRYL 190
>3l0l_A Nuclear receptor ROR-gamma; nuclear receptor, rorgamma, alternative
splicing, DNA-bindin binding, nucleus, receptor,
zinc-finger, acetylation, activator; HET: HC3; 1.74A
{Homo sapiens} PDB: 3b0w_A* 3kyt_A* 3l0j_A*
Length = 248
Score = 28.0 bits (62), Expect = 1.7
Identities = 10/49 (20%), Positives = 21/49 (42%), Gaps = 1/49 (2%)
Query: 128 QVIDRLEHVAVSKEEYYFLKALVLANSDVK-LDEFSSLKKFRNSILSSL 175
L + S++E ALVL N+ L E +++ + ++ +
Sbjct: 143 DFSHSLSALHFSEDEIALYTALVLINAHRPGLQEKRKVEQLQYNLELAF 191
>2p54_A PPAR-alpha, peroxisome proliferator-activated receptor alpha; PPAR
alpha GW735 SRC1 agonist HDLC, transcription; HET: 735;
1.79A {Homo sapiens} SCOP: a.123.1.1 PDB: 3fei_A*
1i7g_A* 3kdu_A* 3kdt_A* 2rew_A* 1kkq_A* 3g8i_A* 3et1_A*
2znn_A* 3sp6_A* 1k7l_A* 2npa_A* 2xyj_A* 2xyw_A* 2xyx_A*
2q5g_A* 3gwx_A* 3dy6_A* 1gwx_A* 3peq_A* ...
Length = 267
Score = 28.0 bits (62), Expect = 1.8
Identities = 6/49 (12%), Positives = 17/49 (34%), Gaps = 1/49 (2%)
Query: 132 RLEHVAVSKEEYYFLKALVLANSDVK-LDEFSSLKKFRNSILSSLGDCI 179
+ + + + A ++ D L ++K + I+ L +
Sbjct: 163 KFNALELDDSDISLFVAAIICCGDRPGLLNVGHIEKMQEGIVHVLRLHL 211
>2nxx_E Ecdysone receptor (ECR, NRH1); hormone receptor, APO and holo
ligand binding pocket, hormone/growth factor complex;
HET: P1A; 2.75A {Tribolium castaneum}
Length = 248
Score = 27.7 bits (62), Expect = 2.1
Identities = 11/42 (26%), Positives = 19/42 (45%)
Query: 138 VSKEEYYFLKALVLANSDVKLDEFSSLKKFRNSILSSLGDCI 179
V EY L A+V+ + L E ++K + L +L +
Sbjct: 150 VDNAEYALLTAIVIFSERPALIEGWKVEKIQEIYLEALRAYV 191
>1ybe_A Naprtase, nicotinate phosphoribosyltransferase; structural
genomics, protein structure initiative, NYSGXRC, PSI;
2.50A {Agrobacterium tumefaciens} SCOP: c.1.17.2
d.41.2.2
Length = 449
Score = 28.0 bits (62), Expect = 2.2
Identities = 7/43 (16%), Positives = 16/43 (37%), Gaps = 2/43 (4%)
Query: 128 QVIDRLEHVAVSKEEYYFLKALVLANSDVKLDE--FSSLKKFR 168
+ +D + +SK+E +L + S L ++
Sbjct: 78 EQLDHARTLRLSKKENIWLAGNTFYGRSQIFEPEFLSWLSSYQ 120
>1u0s_A Chemotaxis protein CHEA; protein-protein complex, alpha/beta
sandwich, signaling complex, transient interaction;
1.90A {Thermotoga maritima} SCOP: d.58.24.1
Length = 86
Score = 26.2 bits (58), Expect = 2.6
Identities = 9/48 (18%), Positives = 24/48 (50%), Gaps = 6/48 (12%)
Query: 110 KSIPSLEDLERNTEISCTQVIDRLEHVAVSKEEYYFLKALVLANSDVK 157
++IPS+E++E + + +E +S + L + + +D++
Sbjct: 38 RTIPSVEEIEEE------KFENEVELFVISPVDLEKLSEALSSIADIE 79
>1n83_A Nuclear receptor ROR-alpha; three-layered alpha helical sandwich,
transcription regulation, nuclear protein, DNA binding,
lipid binding protein; HET: CLR; 1.63A {Homo sapiens}
SCOP: a.123.1.1 PDB: 1s0x_A*
Length = 270
Score = 27.1 bits (60), Expect = 3.1
Identities = 10/43 (23%), Positives = 21/43 (48%), Gaps = 1/43 (2%)
Query: 138 VSKEEYYFLKALVLANSDVK-LDEFSSLKKFRNSILSSLGDCI 179
++++E A VL ++D L E ++K + I +L +
Sbjct: 162 LTEDEIALFSAFVLMSADRSWLQEKVKIEKLQQKIQLALQHVL 204
>3gyt_A Nuclear hormone receptor of the steroid/thyroid hormone receptors
superfamily; nuclear receptor, ligand binding domain,
dafachronic acid, nematode, DNA-binding, metal-binding,
nucleus, receptor; HET: DL4; 2.40A {Strongyloides
stercoralis} PDB: 3gyu_A*
Length = 244
Score = 26.9 bits (59), Expect = 3.8
Identities = 7/46 (15%), Positives = 17/46 (36%), Gaps = 4/46 (8%)
Query: 138 VSKEEYYFLKALVLANSD----VKLDEFSSLKKFRNSILSSLGDCI 179
+ + +VL +S V + +++K + S L +
Sbjct: 145 KNDLAIDIIVLMVLFDSKREGLVSQQDKETVEKLHRNYESLLHRYL 190
>3os4_A Naprtase, nicotinate phosphoribosyltransferase; structural
genomics, center for structural genomics of infec
diseases, csgid, TIM barrel; HET: MSE; 1.60A {Yersinia
pestis}
Length = 407
Score = 25.8 bits (57), Expect = 9.5
Identities = 8/42 (19%), Positives = 19/42 (45%), Gaps = 6/42 (14%)
Query: 128 QVIDRLEHVAVSKEEYYFLKALVLANSDVKLDEF-SSLKKFR 168
+ + +A++ +E+ +L +L D + L+ FR
Sbjct: 56 HQVTLMGQLALTSDEFIYLSSLPFFQDD-----YLHWLRDFR 92
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.322 0.138 0.419
Gapped
Lambda K H
0.267 0.0589 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,844,064
Number of extensions: 160552
Number of successful extensions: 601
Number of sequences better than 10.0: 1
Number of HSP's gapped: 591
Number of HSP's successfully gapped: 100
Length of query: 183
Length of database: 6,701,793
Length adjustment: 88
Effective length of query: 95
Effective length of database: 4,244,745
Effective search space: 403250775
Effective search space used: 403250775
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 54 (24.9 bits)