RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy11507
(113 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 = 77.8 bits (192), Expect = 2e-20
Identities = 31/35 (88%), Positives = 35/35 (100%)
Query: 37 LPRRLCLVCGDVASGFHYGVASCEACKAFFKRTIQ 71
+P+RLCLVCGD+ASG+HYGVASCEACKAFFKRTIQ
Sbjct: 2 IPKRLCLVCGDIASGYHYGVASCEACKAFFKRTIQ 36
>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 = 74.8 bits (184), Expect = 3e-19
Identities = 19/34 (55%), Positives = 25/34 (73%)
Query: 38 PRRLCLVCGDVASGFHYGVASCEACKAFFKRTIQ 71
P++ CL+CGD ASG HYG +C +CK FFKR +
Sbjct: 6 PQKTCLICGDEASGAHYGALTCGSCKVFFKRAAE 39
>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 = 74.3 bits (183), Expect = 4e-19
Identities = 24/34 (70%), Positives = 26/34 (76%)
Query: 38 PRRLCLVCGDVASGFHYGVASCEACKAFFKRTIQ 71
R C VC D ASG+HYGV SCE CKAFFKR+IQ
Sbjct: 3 ETRYCAVCNDYASGYHYGVWSCEGCKAFFKRSIQ 36
>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 = 74.0 bits (182), Expect = 7e-19
Identities = 20/35 (57%), Positives = 26/35 (74%)
Query: 37 LPRRLCLVCGDVASGFHYGVASCEACKAFFKRTIQ 71
+ +C +CGD +SG HYGV SCE CK FFKRT++
Sbjct: 1 FTKHICAICGDRSSGKHYGVYSCEGCKGFFKRTVR 35
>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 = 72.7 bits (179), Expect = 1e-18
Identities = 20/35 (57%), Positives = 26/35 (74%)
Query: 37 LPRRLCLVCGDVASGFHYGVASCEACKAFFKRTIQ 71
+ +C +CGD +SG HYGV SCE CK FFKRT++
Sbjct: 3 FTKHICAICGDRSSGKHYGVYSCEGCKGFFKRTVR 37
>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 = 72.8 bits (179), Expect = 2e-18
Identities = 24/34 (70%), Positives = 27/34 (79%)
Query: 38 PRRLCLVCGDVASGFHYGVASCEACKAFFKRTIQ 71
LC VCGDVASGFHYGV +CE CK FF+R+IQ
Sbjct: 6 MVLLCKVCGDVASGFHYGVLACEGCKGFFRRSIQ 39
>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 = 77.8 bits (191), Expect = 2e-18
Identities = 20/34 (58%), Positives = 26/34 (76%)
Query: 38 PRRLCLVCGDVASGFHYGVASCEACKAFFKRTIQ 71
+ +C +CGD +SG HYGV SCE CK FFKRT++
Sbjct: 136 TKHICAICGDRSSGKHYGVYSCEGCKGFFKRTVR 169
>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 = 72.9 bits (179), Expect = 2e-18
Identities = 23/41 (56%), Positives = 29/41 (70%)
Query: 31 GIKEEELPRRLCLVCGDVASGFHYGVASCEACKAFFKRTIQ 71
G +E LC VCGD SG+HYG+ +CE+CK FFKRT+Q
Sbjct: 1 GEFGDEDLEELCPVCGDKVSGYHYGLLTCESCKGFFKRTVQ 41
>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 = 71.6 bits (176), Expect = 5e-18
Identities = 22/34 (64%), Positives = 26/34 (76%)
Query: 38 PRRLCLVCGDVASGFHYGVASCEACKAFFKRTIQ 71
+ LC +CGD ASG HYGV SCE CK FFKRT++
Sbjct: 9 SKHLCSICGDRASGKHYGVYSCEGCKGFFKRTVR 42
>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 = 71.2 bits (175), Expect = 7e-18
Identities = 19/34 (55%), Positives = 26/34 (76%)
Query: 38 PRRLCLVCGDVASGFHYGVASCEACKAFFKRTIQ 71
+ C VC D +SG+HYGV++CE CK FF+R+IQ
Sbjct: 3 IYKPCFVCQDKSSGYHYGVSACEGCKGFFRRSIQ 36
>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 = 71.4 bits (175), Expect = 9e-18
Identities = 17/37 (45%), Positives = 26/37 (70%)
Query: 35 EELPRRLCLVCGDVASGFHYGVASCEACKAFFKRTIQ 71
+ R+C VCGD A+GFH+ +CE CK FF+R+++
Sbjct: 2 DRNVPRICGVCGDRATGFHFNAMTCEGCKGFFRRSMK 38
>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 = 70.5 bits (173), Expect = 1e-17
Identities = 19/32 (59%), Positives = 24/32 (75%)
Query: 40 RLCLVCGDVASGFHYGVASCEACKAFFKRTIQ 71
+CLVC D ASG HYGV +C +CK FFKR ++
Sbjct: 3 HMCLVCSDEASGCHYGVLTCGSCKVFFKRAVE 34
>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 = 70.1 bits (172), Expect = 2e-17
Identities = 21/30 (70%), Positives = 23/30 (76%)
Query: 42 CLVCGDVASGFHYGVASCEACKAFFKRTIQ 71
C VCGD AS HYGV +CE CK FFKRT+Q
Sbjct: 3 CAVCGDNASCQHYGVRTCEGCKGFFKRTVQ 32
>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 = 68.1 bits (167), Expect = 1e-16
Identities = 18/34 (52%), Positives = 25/34 (73%)
Query: 38 PRRLCLVCGDVASGFHYGVASCEACKAFFKRTIQ 71
C+VCGD +SG HYG +CE CK+FFKR+++
Sbjct: 6 SGIECVVCGDKSSGKHYGQFTCEGCKSFFKRSVR 39
>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 = 68.4 bits (167), Expect = 2e-16
Identities = 19/32 (59%), Positives = 24/32 (75%)
Query: 40 RLCLVCGDVASGFHYGVASCEACKAFFKRTIQ 71
LCLVCGD ASG+HY +CE CK FF+R++
Sbjct: 9 ELCLVCGDRASGYHYNALTCEGCKGFFRRSVT 40
>3cbb_A HNF-4-alpha, hepatocyte nuclear factor 4-alpha, DNA binding
domain, nuclear; zinc finger; 2.00A {Homo sapiens}
Length = 78
Score = 66.9 bits (164), Expect = 3e-16
Identities = 17/31 (54%), Positives = 25/31 (80%)
Query: 41 LCLVCGDVASGFHYGVASCEACKAFFKRTIQ 71
LC +CGD A+G HYG +SC+ CK FF+R+++
Sbjct: 2 LCAICGDRATGKHYGASSCDGCKGFFRRSVR 32
>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 = 67.5 bits (165), Expect = 3e-16
Identities = 20/31 (64%), Positives = 25/31 (80%)
Query: 41 LCLVCGDVASGFHYGVASCEACKAFFKRTIQ 71
LC+VCGD A+G+HY +CE CK FF+RTIQ
Sbjct: 3 LCVVCGDKATGYHYRCITCEGCKGFFRRTIQ 33
>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 = 66.2 bits (161), Expect = 3e-14
Identities = 24/54 (44%), Positives = 30/54 (55%)
Query: 18 TYTVEQKFRGSTDGIKEEELPRRLCLVCGDVASGFHYGVASCEACKAFFKRTIQ 71
Y+ + + L C VCGD ASGFHYGV +CE CK FF+RTI+
Sbjct: 29 YYSEKTQLYNKPHEEPSNSLMAIECRVCGDKASGFHYGVHACEGCKGFFRRTIR 82
>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 = 30.6 bits (68), Expect = 0.087
Identities = 16/83 (19%), Positives = 28/83 (33%), Gaps = 27/83 (32%)
Query: 31 GIKEEELPRRLC----LVCGDVASGFHYGVA--------SCEACKAFFKRTIQARASLVS 78
+ ++LPR + +A G+A +C+ I+ +SL
Sbjct: 312 DCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDK----LTTIIE--SSLNV 365
Query: 79 LRGHEPQK---------KSSQIP 92
L E +K S+ IP
Sbjct: 366 LEPAEYRKMFDRLSVFPPSAHIP 388
>3mp6_A MBP, SGF29, maltose-binding periplasmic protein, linker, SAGA
associated factor 29; histone, tudor domain, histone
binding protei; HET: MLY MAL; 1.48A {Escherichia coli}
PDB: 3mp1_A* 3mp8_A*
Length = 522
Score = 27.2 bits (60), Expect = 1.4
Identities = 10/32 (31%), Positives = 14/32 (43%)
Query: 20 TVEQKFRGSTDGIKEEELPRRLCLVCGDVASG 51
T +F G + KE E+ RRL L +
Sbjct: 487 TCRLRFDGEEEVDKETEVTRRLVLPSPTALAN 518
>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 = 26.6 bits (58), Expect = 2.2
Identities = 10/54 (18%), Positives = 17/54 (31%), Gaps = 14/54 (25%)
Query: 32 IKEEELPRRLCLVCGDVASGFH----YGVASCEACKAFFKRTIQARASLVSLRG 81
+K + L G H Y + A +I++ +V RG
Sbjct: 1747 LKSKGLIPADATFAG------HSLGEYAALASLA-DVM---SIESLVEVVFYRG 1790
>1v5n_A PDI-like hypothetical protein AT1G60420; DC1 domain, zinc binding
domain, PDI-like protein, structural genomics; NMR
{Arabidopsis thaliana} SCOP: g.49.1.3
Length = 89
Score = 24.9 bits (54), Expect = 4.3
Identities = 5/26 (19%), Positives = 9/26 (34%), Gaps = 3/26 (11%)
Query: 38 PRRLCLVCGDVASGFHYGVASCEACK 63
C C + + + Y C+ C
Sbjct: 46 QVYTCDKCEEEGTIWSY---HCDECD 68
>1iw4_A Trypsin inhibitor; solution structure, ascidian,
cystine-stabilized alpha-helical motif, disulfide bond,
kazal-type inhibitor; NMR {Halocynthia roretzi} SCOP:
g.68.1.1
Length = 55
Score = 23.8 bits (51), Expect = 5.8
Identities = 11/28 (39%), Positives = 14/28 (50%), Gaps = 2/28 (7%)
Query: 33 KEEELPRRLCLVCGDVASGFHYGVASCE 60
KEE R +C +C + GF Y CE
Sbjct: 30 KEEH--RNMCALCCEHPGGFEYSNGPCE 55
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
0.320 0.132 0.388
Gapped
Lambda K H
0.267 0.0603 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,617,792
Number of extensions: 79976
Number of successful extensions: 152
Number of sequences better than 10.0: 1
Number of HSP's gapped: 152
Number of HSP's successfully gapped: 25
Length of query: 113
Length of database: 6,701,793
Length adjustment: 77
Effective length of query: 36
Effective length of database: 4,551,876
Effective search space: 163867536
Effective search space used: 163867536
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 (21.8 bits)
S2: 51 (23.7 bits)