RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy13208
(120 letters)
>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 = 56.2 bits (136), Expect = 7e-12
Identities = 18/35 (51%), Positives = 23/35 (65%)
Query: 37 GTGRCIVDKAHRNQCQACRLKKCLNMGMNKDDAQH 71
C +D+ HRNQCQ CRLKKCL +GM ++ Q
Sbjct: 48 ANRNCPIDQHHRNQCQYCRLKKCLKVGMRREAVQR 82
Score = 53.1 bits (128), Expect = 9e-11
Identities = 17/28 (60%), Positives = 22/28 (78%)
Query: 89 RCIVDKAHRNQCQACRLKKCLNMGMNKD 116
C +D+ HRNQCQ CRLKKCL +GM ++
Sbjct: 51 NCPIDQHHRNQCQYCRLKKCLKVGMRRE 78
>3cbb_A HNF-4-alpha, hepatocyte nuclear factor 4-alpha, DNA binding
domain, nuclear; zinc finger; 2.00A {Homo sapiens}
Length = 78
Score = 54.6 bits (132), Expect = 2e-11
Identities = 20/45 (44%), Positives = 28/45 (62%), Gaps = 1/45 (2%)
Query: 27 HRNQCQACQAGTGRCIVDKAHRNQCQACRLKKCLNMGMNKDDAQH 71
+N +C+ +C+VDK RNQC+ CRLKKC GM K+ Q+
Sbjct: 32 RKNHMYSCRFS-RQCVVDKDKRNQCRYCRLKKCFRAGMKKEAVQN 75
Score = 51.1 bits (123), Expect = 4e-10
Identities = 17/28 (60%), Positives = 21/28 (75%)
Query: 89 RCIVDKAHRNQCQACRLKKCLNMGMNKD 116
+C+VDK RNQC+ CRLKKC GM K+
Sbjct: 44 QCVVDKDKRNQCRYCRLKKCFRAGMKKE 71
>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 = 55.1 bits (133), Expect = 2e-11
Identities = 15/45 (33%), Positives = 25/45 (55%)
Query: 27 HRNQCQACQAGTGRCIVDKAHRNQCQACRLKKCLNMGMNKDDAQH 71
+N C + + +RN+CQ CR KKCL++GM++D +
Sbjct: 39 QQNIQYKRCLKNENCSIVRINRNRCQQCRFKKCLSVGMSRDAVRF 83
Score = 51.2 bits (123), Expect = 6e-10
Identities = 14/28 (50%), Positives = 22/28 (78%)
Query: 90 CIVDKAHRNQCQACRLKKCLNMGMNKDG 117
C + + +RN+CQ CR KKCL++GM++D
Sbjct: 53 CSIVRINRNRCQQCRFKKCLSVGMSRDA 80
>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 = 53.9 bits (130), Expect = 6e-11
Identities = 16/35 (45%), Positives = 21/35 (60%)
Query: 37 GTGRCIVDKAHRNQCQACRLKKCLNMGMNKDDAQH 71
CI+DK RN+CQ CR +KCL GM ++ Q
Sbjct: 51 ENRNCIIDKRQRNRCQYCRYQKCLTCGMKREAVQE 85
Score = 51.6 bits (124), Expect = 5e-10
Identities = 15/28 (53%), Positives = 20/28 (71%)
Query: 90 CIVDKAHRNQCQACRLKKCLNMGMNKDG 117
CI+DK RN+CQ CR +KCL GM ++
Sbjct: 55 CIIDKRQRNRCQYCRYQKCLTCGMKREA 82
>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 = 53.5 bits (129), Expect = 7e-11
Identities = 15/35 (42%), Positives = 24/35 (68%)
Query: 37 GTGRCIVDKAHRNQCQACRLKKCLNMGMNKDDAQH 71
CI++K RN+CQ CRL+KC +GM+K+ ++
Sbjct: 45 RDKNCIINKVTRNRCQYCRLQKCFEVGMSKESVRN 79
Score = 50.8 bits (122), Expect = 8e-10
Identities = 15/29 (51%), Positives = 22/29 (75%)
Query: 89 RCIVDKAHRNQCQACRLKKCLNMGMNKDG 117
CI++K RN+CQ CRL+KC +GM+K+
Sbjct: 48 NCIINKVTRNRCQYCRLQKCFEVGMSKES 76
>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 = 53.2 bits (128), Expect = 1e-10
Identities = 16/35 (45%), Positives = 22/35 (62%)
Query: 37 GTGRCIVDKAHRNQCQACRLKKCLNMGMNKDDAQH 71
C++DK RN+CQ CR +KCL MGM ++ Q
Sbjct: 44 DNKDCLIDKRQRNRCQYCRYQKCLAMGMKREAVQE 78
Score = 50.9 bits (122), Expect = 8e-10
Identities = 15/29 (51%), Positives = 21/29 (72%)
Query: 89 RCIVDKAHRNQCQACRLKKCLNMGMNKDG 117
C++DK RN+CQ CR +KCL MGM ++
Sbjct: 47 DCLIDKRQRNRCQYCRYQKCLAMGMKREA 75
>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 = 52.7 bits (127), Expect = 1e-10
Identities = 16/35 (45%), Positives = 22/35 (62%)
Query: 37 GTGRCIVDKAHRNQCQACRLKKCLNMGMNKDDAQH 71
C++DK RN+CQ CR +KCL MGM ++ Q
Sbjct: 46 DNKDCLIDKRQRNRCQYCRYQKCLAMGMKREAVQE 80
Score = 50.4 bits (121), Expect = 1e-09
Identities = 15/28 (53%), Positives = 21/28 (75%)
Query: 90 CIVDKAHRNQCQACRLKKCLNMGMNKDG 117
C++DK RN+CQ CR +KCL MGM ++
Sbjct: 50 CLIDKRQRNRCQYCRYQKCLAMGMKREA 77
>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 = 52.4 bits (126), Expect = 2e-10
Identities = 16/36 (44%), Positives = 21/36 (58%)
Query: 36 AGTGRCIVDKAHRNQCQACRLKKCLNMGMNKDDAQH 71
T +C +DK R CQACRL+KC +GM K +
Sbjct: 44 PATNQCTIDKNRRKSCQACRLRKCYEVGMMKGGIRK 79
Score = 50.1 bits (120), Expect = 1e-09
Identities = 16/28 (57%), Positives = 19/28 (67%)
Query: 90 CIVDKAHRNQCQACRLKKCLNMGMNKDG 117
C +DK R CQACRL+KC +GM K G
Sbjct: 49 CTIDKNRRKSCQACRLRKCYEVGMMKGG 76
>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 = 52.0 bits (125), Expect = 2e-10
Identities = 17/36 (47%), Positives = 21/36 (58%)
Query: 36 AGTGRCIVDKAHRNQCQACRLKKCLNMGMNKDDAQH 71
AG CI+DK R C ACR +KCL GMN + +
Sbjct: 42 AGRNDCIIDKIRRKNCPACRYRKCLQAGMNLEARKT 77
Score = 49.7 bits (119), Expect = 2e-09
Identities = 15/29 (51%), Positives = 18/29 (62%)
Query: 89 RCIVDKAHRNQCQACRLKKCLNMGMNKDG 117
CI+DK R C ACR +KCL GMN +
Sbjct: 46 DCIIDKIRRKNCPACRYRKCLQAGMNLEA 74
>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 = 51.2 bits (123), Expect = 6e-10
Identities = 16/35 (45%), Positives = 21/35 (60%)
Query: 37 GTGRCIVDKAHRNQCQACRLKKCLNMGMNKDDAQH 71
C VDK RN+CQ CR +KCL +GM K+ +
Sbjct: 41 ANKDCPVDKRRRNRCQFCRFQKCLAVGMVKEVVRT 75
Score = 49.6 bits (119), Expect = 2e-09
Identities = 16/28 (57%), Positives = 20/28 (71%)
Query: 90 CIVDKAHRNQCQACRLKKCLNMGMNKDG 117
C VDK RN+CQ CR +KCL +GM K+
Sbjct: 45 CPVDKRRRNRCQFCRFQKCLAVGMVKEV 72
>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 = 51.3 bits (123), Expect = 7e-10
Identities = 14/35 (40%), Positives = 18/35 (51%)
Query: 37 GTGRCIVDKAHRNQCQACRLKKCLNMGMNKDDAQH 71
T C + K R CQACR K L +GM K+ +
Sbjct: 45 ATNECEITKRRRKSCQACRFMKALKVGMLKEGVRL 79
Score = 49.3 bits (118), Expect = 3e-09
Identities = 14/28 (50%), Positives = 17/28 (60%)
Query: 90 CIVDKAHRNQCQACRLKKCLNMGMNKDG 117
C + K R CQACR K L +GM K+G
Sbjct: 49 CEITKRRRKSCQACRFMKALKVGMLKEG 76
>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 = 50.5 bits (121), Expect = 2e-09
Identities = 12/35 (34%), Positives = 19/35 (54%)
Query: 37 GTGRCIVDKAHRNQCQACRLKKCLNMGMNKDDAQH 71
C +DK R +C CR +KCL++GM + +
Sbjct: 50 ENQNCQIDKTQRKRCPYCRFQKCLSVGMKLEAVRA 84
Score = 49.4 bits (118), Expect = 4e-09
Identities = 12/28 (42%), Positives = 18/28 (64%)
Query: 90 CIVDKAHRNQCQACRLKKCLNMGMNKDG 117
C +DK R +C CR +KCL++GM +
Sbjct: 54 CQIDKTQRKRCPYCRFQKCLSVGMKLEA 81
>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 = 52.4 bits (125), Expect = 3e-09
Identities = 20/63 (31%), Positives = 30/63 (47%), Gaps = 6/63 (9%)
Query: 5 HDGMTDHPTCQAGTERCIVDKAHRNQCQACQAGTGRCIVDKAHRNQCQACRLKKCLNMGM 64
H G+ C+ R I K ++C C + K RN+CQ CR +KCL +GM
Sbjct: 64 HYGVHACEGCKGFFRRTIRLKLIYDRCD------LNCRIHKKSRNKCQYCRFQKCLAVGM 117
Query: 65 NKD 67
+ +
Sbjct: 118 SHN 120
Score = 51.6 bits (123), Expect = 5e-09
Identities = 13/28 (46%), Positives = 19/28 (67%)
Query: 90 CIVDKAHRNQCQACRLKKCLNMGMNKDG 117
C + K RN+CQ CR +KCL +GM+ +
Sbjct: 94 CRIHKKSRNKCQYCRFQKCLAVGMSHNA 121
>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 = 49.4 bits (118), Expect = 3e-09
Identities = 13/36 (36%), Positives = 17/36 (47%)
Query: 36 AGTGRCIVDKAHRNQCQACRLKKCLNMGMNKDDAQH 71
A C +DK R C +CRL+KC GM +
Sbjct: 47 ASRNDCTIDKFRRKNCPSCRLRKCYEAGMTLGARKL 82
Score = 48.2 bits (115), Expect = 1e-08
Identities = 12/28 (42%), Positives = 15/28 (53%)
Query: 90 CIVDKAHRNQCQACRLKKCLNMGMNKDG 117
C +DK R C +CRL+KC GM
Sbjct: 52 CTIDKFRRKNCPSCRLRKCYEAGMTLGA 79
>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 = 49.5 bits (118), Expect = 4e-09
Identities = 14/35 (40%), Positives = 18/35 (51%)
Query: 37 GTGRCIVDKAHRNQCQACRLKKCLNMGMNKDDAQH 71
C +D R +CQ CRLKKCL +GM +
Sbjct: 49 FGRACEMDMYMRRKCQECRLKKCLAVGMRPECVVP 83
Score = 48.3 bits (115), Expect = 1e-08
Identities = 14/27 (51%), Positives = 18/27 (66%)
Query: 90 CIVDKAHRNQCQACRLKKCLNMGMNKD 116
C +D R +CQ CRLKKCL +GM +
Sbjct: 53 CEMDMYMRRKCQECRLKKCLAVGMRPE 79
>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 = 51.3 bits (122), Expect = 7e-09
Identities = 17/44 (38%), Positives = 26/44 (59%), Gaps = 1/44 (2%)
Query: 28 RNQCQACQAGTGRCIVDKAHRNQCQACRLKKCLNMGMNKDDAQH 71
++ C+ C++DK RN+CQ CR +KCL MGM ++ Q
Sbjct: 170 KDLTYTCRDN-KDCLIDKRQRNRCQYCRYQKCLAMGMKREAVQE 212
Score = 48.6 bits (115), Expect = 5e-08
Identities = 15/28 (53%), Positives = 21/28 (75%)
Query: 90 CIVDKAHRNQCQACRLKKCLNMGMNKDG 117
C++DK RN+CQ CR +KCL MGM ++
Sbjct: 182 CLIDKRQRNRCQYCRYQKCLAMGMKREA 209
>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 = 47.9 bits (114), Expect = 1e-08
Identities = 15/31 (48%), Positives = 22/31 (70%)
Query: 37 GTGRCIVDKAHRNQCQACRLKKCLNMGMNKD 67
G C + K +R CQACRLK+C+++GM K+
Sbjct: 47 FNGDCRITKDNRRHCQACRLKRCVDIGMMKE 77
Score = 46.7 bits (111), Expect = 4e-08
Identities = 14/28 (50%), Positives = 21/28 (75%)
Query: 90 CIVDKAHRNQCQACRLKKCLNMGMNKDG 117
C + K +R CQACRLK+C+++GM K+
Sbjct: 51 CRITKDNRRHCQACRLKRCVDIGMMKEF 78
>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 = 47.4 bits (113), Expect = 2e-08
Identities = 17/31 (54%), Positives = 22/31 (70%)
Query: 37 GTGRCIVDKAHRNQCQACRLKKCLNMGMNKD 67
G+C++DK RNQCQ CR KKC+ +GM D
Sbjct: 44 YEGKCVIDKVTRNQCQECRFKKCIYVGMATD 74
Score = 46.3 bits (110), Expect = 5e-08
Identities = 16/28 (57%), Positives = 21/28 (75%)
Query: 89 RCIVDKAHRNQCQACRLKKCLNMGMNKD 116
+C++DK RNQCQ CR KKC+ +GM D
Sbjct: 47 KCVIDKVTRNQCQECRFKKCIYVGMATD 74
>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 = 37.9 bits (88), Expect = 3e-04
Identities = 1/26 (3%), Positives = 7/26 (26%), Gaps = 3/26 (11%)
Query: 92 VDKAHRNQCQACRLKKCLNMGMNKDG 117
H + + + + ++
Sbjct: 2 GSSHHHHHHSSGLVPRG---SHKREA 24
Score = 37.5 bits (87), Expect = 4e-04
Identities = 1/25 (4%), Positives = 7/25 (28%), Gaps = 3/25 (12%)
Query: 43 VDKAHRNQCQACRLKKCLNMGMNKD 67
H + + + + ++
Sbjct: 2 GSSHHHHHHSSGLVPRG---SHKRE 23
>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 = 32.5 bits (74), Expect = 0.020
Identities = 5/31 (16%), Positives = 9/31 (29%), Gaps = 5/31 (16%)
Query: 94 KAHR-----NQCQACRLKKCLNMGMNKDGKS 119
+AH + R + + G S
Sbjct: 18 EAHHKTYDDSYSDFVRFRPPVREGPVTRSAS 48
Score = 31.7 bits (72), Expect = 0.034
Identities = 4/27 (14%), Positives = 8/27 (29%), Gaps = 5/27 (18%)
Query: 45 KAHR-----NQCQACRLKKCLNMGMNK 66
+AH + R + + G
Sbjct: 18 EAHHKTYDDSYSDFVRFRPPVREGPVT 44
>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 = 30.5 bits (69), Expect = 0.088
Identities = 6/44 (13%), Positives = 10/44 (22%), Gaps = 11/44 (25%)
Query: 28 RNQCQACQAGTGRCIVDKAHRNQCQACRLKKCLNMGMNKDDAQH 71
QC K + Q + K + D +
Sbjct: 20 EFQCAV-----------KRKEKKAQKDKDKPNSTTSCSPDGIKQ 52
Score = 29.8 bits (67), Expect = 0.16
Identities = 5/24 (20%), Positives = 8/24 (33%)
Query: 94 KAHRNQCQACRLKKCLNMGMNKDG 117
K + Q + K + DG
Sbjct: 26 KRKEKKAQKDKDKPNSTTSCSPDG 49
Score = 27.8 bits (62), Expect = 0.76
Identities = 8/68 (11%), Positives = 12/68 (17%), Gaps = 30/68 (44%)
Query: 48 RNQCQACRLKKCLNMGMNKDDAQHLKNSLLYEFACTNLVELRCIVDKAHRNQCQACRLKK 107
QC R +K + DK N +C
Sbjct: 20 EFQCAVKRKEK------------------------------KAQKDKDKPNSTTSCSPDG 49
Query: 108 CLNMGMNK 115
+
Sbjct: 50 IKQEIDPQ 57
>2q1z_B Anti-sigma factor CHRR, transcriptional activator; ECF sigma
factor, cupin fold, zinc bindin transcription factor;
2.40A {Rhodobacter sphaeroides} PDB: 2z2s_B
Length = 195
Score = 26.9 bits (58), Expect = 1.8
Identities = 11/34 (32%), Positives = 17/34 (50%)
Query: 71 HLKNSLLYEFACTNLVELRCIVDKAHRNQCQACR 104
H+ ++LL +A L E +V H + C CR
Sbjct: 6 HVSDALLTAYAAGTLSEAFSLVVATHLSLCDECR 39
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
0.326 0.133 0.442
Gapped
Lambda K H
0.267 0.0482 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,785,221
Number of extensions: 92933
Number of successful extensions: 367
Number of sequences better than 10.0: 1
Number of HSP's gapped: 354
Number of HSP's successfully gapped: 94
Length of query: 120
Length of database: 6,701,793
Length adjustment: 82
Effective length of query: 38
Effective length of database: 4,412,271
Effective search space: 167666298
Effective search space used: 167666298
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 51 (24.0 bits)