RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy9231
(134 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 = 135 bits (343), Expect = 4e-43
Identities = 43/76 (56%), Positives = 54/76 (71%)
Query: 58 TSMDVLCKVCGDKASGKHYGVPSCDGCRGFFKRSIRRNLEYVCKERGHCIVDVTRRNQCQ 117
S + C VCGDK+SGKHYG +C+GC+ FFKRS+RRNL Y C+ +C +D RNQCQ
Sbjct: 4 GSSGIECVVCGDKSSGKHYGQFTCEGCKSFFKRSVRRNLTYTCRANRNCPIDQHHRNQCQ 63
Query: 118 ACRFSKCLQVKMNRDA 133
CR KCL+V M R+A
Sbjct: 64 YCRLKKCLKVGMRREA 79
>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 = 134 bits (338), Expect = 3e-42
Identities = 42/77 (54%), Positives = 59/77 (76%)
Query: 57 ITSMDVLCKVCGDKASGKHYGVPSCDGCRGFFKRSIRRNLEYVCKERGHCIVDVTRRNQC 116
++ LC +CGD+ASGKHYGV SC+GC+GFFKR++R++L Y C+E +CI+D +RN+C
Sbjct: 6 LSGSKHLCSICGDRASGKHYGVYSCEGCKGFFKRTVRKDLTYACRENRNCIIDKRQRNRC 65
Query: 117 QACRFSKCLQVKMNRDA 133
Q CR+ KCL M R+A
Sbjct: 66 QYCRYQKCLTCGMKREA 82
>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 = 132 bits (334), Expect = 1e-41
Identities = 38/71 (53%), Positives = 57/71 (80%)
Query: 63 LCKVCGDKASGKHYGVPSCDGCRGFFKRSIRRNLEYVCKERGHCIVDVTRRNQCQACRFS 122
+C +CGD++SGKHYGV SC+GC+GFFKR++R++L Y C++ C++D +RN+CQ CR+
Sbjct: 5 ICAICGDRSSGKHYGVYSCEGCKGFFKRTVRKDLTYTCRDNKDCLIDKRQRNRCQYCRYQ 64
Query: 123 KCLQVKMNRDA 133
KCL + M R+A
Sbjct: 65 KCLAMGMKREA 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 = 131 bits (332), Expect = 2e-41
Identities = 38/76 (50%), Positives = 58/76 (76%)
Query: 58 TSMDVLCKVCGDKASGKHYGVPSCDGCRGFFKRSIRRNLEYVCKERGHCIVDVTRRNQCQ 117
+ +C +CGD++SGKHYGV SC+GC+GFFKR++R++L Y C++ C++D +RN+CQ
Sbjct: 2 SFTKHICAICGDRSSGKHYGVYSCEGCKGFFKRTVRKDLTYTCRDNKDCLIDKRQRNRCQ 61
Query: 118 ACRFSKCLQVKMNRDA 133
CR+ KCL + M R+A
Sbjct: 62 YCRYQKCLAMGMKREA 77
>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 = 131 bits (332), Expect = 2e-41
Identities = 44/80 (55%), Positives = 59/80 (73%), Gaps = 1/80 (1%)
Query: 55 TGITSMDVLCKVCGDKASGKHYGVPSCDGCRGFFKRSIRRNLEYV-CKERGHCIVDVTRR 113
T + M +LCKVCGD ASG HYGV +C+GC+GFF+RSI++N++Y C + +C + R
Sbjct: 1 TKLNGMVLLCKVCGDVASGFHYGVLACEGCKGFFRRSIQQNIQYKRCLKNENCSIVRINR 60
Query: 114 NQCQACRFSKCLQVKMNRDA 133
N+CQ CRF KCL V M+RDA
Sbjct: 61 NRCQQCRFKKCLSVGMSRDA 80
>3cbb_A HNF-4-alpha, hepatocyte nuclear factor 4-alpha, DNA binding domain,
nuclear; zinc finger; 2.00A {Homo sapiens}
Length = 78
Score = 131 bits (331), Expect = 2e-41
Identities = 38/71 (53%), Positives = 52/71 (73%)
Query: 63 LCKVCGDKASGKHYGVPSCDGCRGFFKRSIRRNLEYVCKERGHCIVDVTRRNQCQACRFS 122
LC +CGD+A+GKHYG SCDGC+GFF+RS+R+N Y C+ C+VD +RNQC+ CR
Sbjct: 2 LCAICGDRATGKHYGASSCDGCKGFFRRSVRKNHMYSCRFSRQCVVDKDKRNQCRYCRLK 61
Query: 123 KCLQVKMNRDA 133
KC + M ++A
Sbjct: 62 KCFRAGMKKEA 72
>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 = 131 bits (331), Expect = 3e-41
Identities = 35/71 (49%), Positives = 52/71 (73%)
Query: 63 LCKVCGDKASGKHYGVPSCDGCRGFFKRSIRRNLEYVCKERGHCIVDVTRRNQCQACRFS 122
C VC DK+SG HYGV +C+GC+GFF+RSI++N+ Y C +CI++ RN+CQ CR
Sbjct: 6 PCFVCQDKSSGYHYGVSACEGCKGFFRRSIQKNMVYTCHRDKNCIINKVTRNRCQYCRLQ 65
Query: 123 KCLQVKMNRDA 133
KC +V M++++
Sbjct: 66 KCFEVGMSKES 76
>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 = 129 bits (326), Expect = 2e-40
Identities = 36/71 (50%), Positives = 45/71 (63%)
Query: 63 LCKVCGDKASGKHYGVPSCDGCRGFFKRSIRRNLEYVCKERGHCIVDVTRRNQCQACRFS 122
C VC D ASG HYGV SC+GC+ FFKRSI+ + +Y+C C +D RR CQACR
Sbjct: 6 YCAVCNDYASGYHYGVWSCEGCKAFFKRSIQGHNDYMCPATNQCTIDKNRRKSCQACRLR 65
Query: 123 KCLQVKMNRDA 133
KC +V M +
Sbjct: 66 KCYEVGMMKGG 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 = 129 bits (326), Expect = 3e-40
Identities = 38/79 (48%), Positives = 53/79 (67%)
Query: 56 GITSMDVLCKVCGDKASGKHYGVPSCDGCRGFFKRSIRRNLEYVCKERGHCIVDVTRRNQ 115
G ++ LC VCGDK SG HYG+ +C+ C+GFFKR+++ N Y C E +C +D T+R +
Sbjct: 4 GDEDLEELCPVCGDKVSGYHYGLLTCESCKGFFKRTVQNNKRYTCIENQNCQIDKTQRKR 63
Query: 116 CQACRFSKCLQVKMNRDAM 134
C CRF KCL V M +A+
Sbjct: 64 CPYCRFQKCLSVGMKLEAV 82
>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 = 127 bits (322), Expect = 7e-40
Identities = 36/72 (50%), Positives = 46/72 (63%)
Query: 63 LCKVCGDKASGKHYGVPSCDGCRGFFKRSIRRNLEYVCKERGHCIVDVTRRNQCQACRFS 122
+C VC D+ASG HYGV +C C+ FFKR++ Y+C R CI+D RR C ACR+
Sbjct: 4 MCLVCSDEASGCHYGVLTCGSCKVFFKRAVEGQHNYLCAGRNDCIIDKIRRKNCPACRYR 63
Query: 123 KCLQVKMNRDAM 134
KCLQ MN +A
Sbjct: 64 KCLQAGMNLEAR 75
>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 = 126 bits (319), Expect = 2e-39
Identities = 37/70 (52%), Positives = 51/70 (72%)
Query: 64 CKVCGDKASGKHYGVPSCDGCRGFFKRSIRRNLEYVCKERGHCIVDVTRRNQCQACRFSK 123
C VCGD AS +HYGV +C+GC+GFFKR+++++ +Y+C C VD RRN+CQ CRF K
Sbjct: 3 CAVCGDNASCQHYGVRTCEGCKGFFKRTVQKSAKYICLANKDCPVDKRRRNRCQFCRFQK 62
Query: 124 CLQVKMNRDA 133
CL V M ++
Sbjct: 63 CLAVGMVKEV 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 = 126 bits (319), Expect = 2e-39
Identities = 38/72 (52%), Positives = 48/72 (66%)
Query: 63 LCKVCGDKASGKHYGVPSCDGCRGFFKRSIRRNLEYVCKERGHCIVDVTRRNQCQACRFS 122
LC VCGD ASG HYGV SC+ C+ FFKR+I+ N+EY C C + RR CQACRF
Sbjct: 6 LCLVCGDIASGYHYGVASCEACKAFFKRTIQGNIEYSCPATNECEITKRRRKSCQACRFM 65
Query: 123 KCLQVKMNRDAM 134
K L+V M ++ +
Sbjct: 66 KALKVGMLKEGV 77
>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 = 124 bits (312), Expect = 4e-38
Identities = 34/71 (47%), Positives = 46/71 (64%)
Query: 63 LCKVCGDKASGKHYGVPSCDGCRGFFKRSIRRNLEYVCKERGHCIVDVTRRNQCQACRFS 122
LC VCGD+ASG HY +C+GC+GFF+RS+ ++ Y CK C +D+ R +CQ CR
Sbjct: 10 LCLVCGDRASGYHYNALTCEGCKGFFRRSVTKSAVYCCKFGRACEMDMYMRRKCQECRLK 69
Query: 123 KCLQVKMNRDA 133
KCL V M +
Sbjct: 70 KCLAVGMRPEC 80
>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 = 122 bits (309), Expect = 9e-38
Identities = 30/71 (42%), Positives = 40/71 (56%)
Query: 63 LCKVCGDKASGKHYGVPSCDGCRGFFKRSIRRNLEYVCKERGHCIVDVTRRNQCQACRFS 122
C +CGD+ASG HYG +C C+ FFKR+ +Y+C R C +D RR C +CR
Sbjct: 9 TCLICGDEASGAHYGALTCGSCKVFFKRAAEGKQKYLCASRNDCTIDKFRRKNCPSCRLR 68
Query: 123 KCLQVKMNRDA 133
KC + M A
Sbjct: 69 KCYEAGMTLGA 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 = 130 bits (327), Expect = 5e-37
Identities = 38/74 (51%), Positives = 58/74 (78%)
Query: 61 DVLCKVCGDKASGKHYGVPSCDGCRGFFKRSIRRNLEYVCKERGHCIVDVTRRNQCQACR 120
+C +CGD++SGKHYGV SC+GC+GFFKR++R++L Y C++ C++D +RN+CQ CR
Sbjct: 137 KHICAICGDRSSGKHYGVYSCEGCKGFFKRTVRKDLTYTCRDNKDCLIDKRQRNRCQYCR 196
Query: 121 FSKCLQVKMNRDAM 134
+ KCL + M R+A+
Sbjct: 197 YQKCLAMGMKREAV 210
>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 = 118 bits (298), Expect = 4e-36
Identities = 28/71 (39%), Positives = 45/71 (63%)
Query: 63 LCKVCGDKASGKHYGVPSCDGCRGFFKRSIRRNLEYVCKERGHCIVDVTRRNQCQACRFS 122
+C VCGD+A+G H+ +C+GC+GFF+RS++R + C G C + R CQACR
Sbjct: 8 ICGVCGDRATGFHFNAMTCEGCKGFFRRSMKRKALFTCPFNGDCRITKDNRRHCQACRLK 67
Query: 123 KCLQVKMNRDA 133
+C+ + M ++
Sbjct: 68 RCVDIGMMKEF 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 = 116 bits (293), Expect = 2e-35
Identities = 41/75 (54%), Positives = 52/75 (69%), Gaps = 2/75 (2%)
Query: 61 DVLCKVCGDKASGKHYGVPSCDGCRGFFKRSIRRNLE--YVCKERGHCIVDVTRRNQCQA 118
D LC VCGDKA+G HY +C+GC+GFF+R+I++NL Y CK G C++D RNQCQ
Sbjct: 1 DELCVVCGDKATGYHYRCITCEGCKGFFRRTIQKNLHPSYSCKYEGKCVIDKVTRNQCQE 60
Query: 119 CRFSKCLQVKMNRDA 133
CRF KC+ V M D
Sbjct: 61 CRFKKCIYVGMATDL 75
>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 = 119 bits (298), Expect = 4e-33
Identities = 39/77 (50%), Positives = 54/77 (70%), Gaps = 1/77 (1%)
Query: 58 TSMDVLCKVCGDKASGKHYGVPSCDGCRGFFKRSIRRNLEYVCKERGHCIVDVTRRNQCQ 117
+ M + C+VCGDKASG HYGV +C+GC+GFF+R+IR L Y + +C + RN+CQ
Sbjct: 47 SLMAIECRVCGDKASGFHYGVHACEGCKGFFRRTIRLKLIYDRCD-LNCRIHKKSRNKCQ 105
Query: 118 ACRFSKCLQVKMNRDAM 134
CRF KCL V M+ +A+
Sbjct: 106 YCRFQKCLAVGMSHNAI 122
>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 = 30.1 bits (68), Expect = 0.14
Identities = 2/21 (9%), Positives = 6/21 (28%), Gaps = 3/21 (14%)
Query: 113 RNQCQACRFSKCLQVKMNRDA 133
+ + + R+A
Sbjct: 7 HHHHSSGLVPR---GSHKREA 24
>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 = 30.2 bits (68), Expect = 0.18
Identities = 2/23 (8%), Positives = 7/23 (30%)
Query: 112 RRNQCQACRFSKCLQVKMNRDAM 134
+ + Q + + D +
Sbjct: 28 KEKKAQKDKDKPNSTTSCSPDGI 50
Score = 29.4 bits (66), Expect = 0.35
Identities = 5/33 (15%), Positives = 10/33 (30%)
Query: 99 VCKERGHCIVDVTRRNQCQACRFSKCLQVKMNR 131
V ++ D + N +C Q +
Sbjct: 25 VKRKEKKAQKDKDKPNSTTSCSPDGIKQEIDPQ 57
Score = 26.3 bits (58), Expect = 3.7
Identities = 6/23 (26%), Positives = 7/23 (30%), Gaps = 1/23 (4%)
Query: 110 VTRRNQCQACRFSK-CLQVKMNR 131
V QC R K + K
Sbjct: 17 VVPEFQCAVKRKEKKAQKDKDKP 39
>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 = 29.4 bits (66), Expect = 0.31
Identities = 2/21 (9%), Positives = 6/21 (28%)
Query: 113 RNQCQACRFSKCLQVKMNRDA 133
+ RF ++ +
Sbjct: 26 DSYSDFVRFRPPVREGPVTRS 46
>2yt5_A Metal-response element-binding transcription factor 2;
zinc-regulated factor 1, ZIRF1, metal-response element
DNA-binding protein M96; NMR {Mus musculus}
Length = 66
Score = 26.0 bits (57), Expect = 1.5
Identities = 7/29 (24%), Positives = 13/29 (44%)
Query: 56 GITSMDVLCKVCGDKASGKHYGVPSCDGC 84
G + +C +C ++ S + CD C
Sbjct: 1 GSSGSSGVCTICQEEYSEAPNEMVICDKC 29
>1wev_A Riken cDNA 1110020M19; structural genomics, PHD domain, riken
structural genomics/proteomics initiative, RSGI, gene
regulation; NMR {Mus musculus} SCOP: g.50.1.2
Length = 88
Score = 25.8 bits (56), Expect = 2.3
Identities = 6/25 (24%), Positives = 8/25 (32%)
Query: 60 MDVLCKVCGDKASGKHYGVPSCDGC 84
M + C VC + C C
Sbjct: 15 MGLACVVCRQMTVASGNQLVECQEC 39
>2l09_A ASR4154 protein; proto-chlorophyllide reductase 57 KD subunit
superfamily, ST genomics, PSI-2, protein structure
initiative; NMR {Nostoc SP}
Length = 62
Score = 25.5 bits (56), Expect = 2.3
Identities = 7/25 (28%), Positives = 12/25 (48%), Gaps = 1/25 (4%)
Query: 87 FFKRS-IRRNLEYVCKERGHCIVDV 110
FF RS + +E + ++ IV
Sbjct: 18 FFARSQAKARIEQLARQAEQDIVTP 42
>2kru_A Light-independent protochlorophyllide reductase subunit B; NESG,
PSI, BCHB, bacteriochlorophyll biosynthesis, chlorophyll
biosynthesis; NMR {Chlorobaculum tepidum}
Length = 63
Score = 25.1 bits (55), Expect = 2.7
Identities = 8/25 (32%), Positives = 13/25 (52%), Gaps = 1/25 (4%)
Query: 87 FFKRS-IRRNLEYVCKERGHCIVDV 110
FF R +R+N + +E G +V
Sbjct: 19 FFVRKKVRKNTDNYAREIGEPVVTA 43
>2csv_A Tripartite motif protein 29; ZF-B_BOX domain, TRIM29,
ataxia-telangiectasia group D-associated protein, ATDC,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
g.43.1.1
Length = 72
Score = 24.3 bits (53), Expect = 6.6
Identities = 7/32 (21%), Positives = 11/32 (34%), Gaps = 8/32 (25%)
Query: 93 RRNLEYVCKERGHCIVDVTRRNQCQACRFSKC 124
+ +E C+ CI C C F +
Sbjct: 25 GKTMELFCQTDQTCI--------CYLCMFQEH 48
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
0.329 0.140 0.455
Gapped
Lambda K H
0.267 0.0745 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,015,594
Number of extensions: 108257
Number of successful extensions: 339
Number of sequences better than 10.0: 1
Number of HSP's gapped: 334
Number of HSP's successfully gapped: 52
Length of query: 134
Length of database: 6,701,793
Length adjustment: 83
Effective length of query: 51
Effective length of database: 4,384,350
Effective search space: 223601850
Effective search space used: 223601850
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 (21.8 bits)
S2: 52 (23.8 bits)