RPS-BLAST 2.2.26 [Sep-21-2011]
Database: scop70_1_75
13,730 sequences; 2,407,596 total letters
Searching..................................................done
Query= psy6599
(93 letters)
>d1dszb_ g.39.1.2 (B:) Retinoid X receptor (RXR-alpha) DNA-binding
domain {Human (Homo sapiens) [TaxId: 9606]}
Length = 84
Score = 69.2 bits (169), Expect = 6e-18
Identities = 37/76 (48%), Positives = 50/76 (65%), Gaps = 4/76 (5%)
Query: 18 CKVCGDRSSGKHYGIYSCDGCSGFFKRSIHRNRVYTCKAQGDLKGHCPIDKTHRNQCRAC 77
C +CGDRSSGKHYG+YSC+GC GFFKR++ ++ YTC+ C IDK RN+C+ C
Sbjct: 8 CAICGDRSSGKHYGVYSCEGCKGFFKRTVRKDLTYTCRDN----KDCLIDKRQRNRCQYC 63
Query: 78 RLNKCFMSAMNKDDFK 93
R KC M ++ +
Sbjct: 64 RYQKCLAMGMKREAVQ 79
>d1kb2a_ g.39.1.2 (A:) Vitamin D3 receptor, VDR, DNA-binding
domain {Human (Homo sapiens) [TaxId: 9606]}
Length = 89
Score = 67.4 bits (164), Expect = 4e-17
Identities = 32/76 (42%), Positives = 45/76 (59%), Gaps = 4/76 (5%)
Query: 18 CKVCGDRSSGKHYGIYSCDGCSGFFKRSIHRNRVYTCKAQGDLKGHCPIDKTHRNQCRAC 77
C VCGDR++G H+ +C+GC GFF+RS+ R ++TC G C I K +R C+AC
Sbjct: 3 CGVCGDRATGFHFNAMTCEGCKGFFRRSMKRKALFTCPFN----GDCRITKDNRRHCQAC 58
Query: 78 RLNKCFMSAMNKDDFK 93
RL +C M K+
Sbjct: 59 RLKRCVDIGMMKEFIL 74
>d1lo1a_ g.39.1.2 (A:) Steroid hormone receptor Err2 DNA-binding
domain {Human (Homo sapiens) [TaxId: 9606]}
Length = 90
Score = 66.6 bits (162), Expect = 9e-17
Identities = 33/77 (42%), Positives = 42/77 (54%), Gaps = 4/77 (5%)
Query: 17 PCKVCGDRSSGKHYGIYSCDGCSGFFKRSIHRNRVYTCKAQGDLKGHCPIDKTHRNQCRA 76
C VCGD +SG HYG+ SC+ C FFKR+I N Y+C A + C I K R C+A
Sbjct: 6 LCLVCGDIASGYHYGVASCEACKAFFKRTIQGNIEYSCPATNE----CEITKRRRKSCQA 61
Query: 77 CRLNKCFMSAMNKDDFK 93
CR K M K+ +
Sbjct: 62 CRFMKALKVGMLKEGVR 78
>d1dsza_ g.39.1.2 (A:) Retinoic acid receptor DNA-binding domain
{Human (Homo sapiens) [TaxId: 9606]}
Length = 75
Score = 65.5 bits (159), Expect = 1e-16
Identities = 39/77 (50%), Positives = 52/77 (67%), Gaps = 4/77 (5%)
Query: 17 PCKVCGDRSSGKHYGIYSCDGCSGFFKRSIHRNRVYTCKAQGDLKGHCPIDKTHRNQCRA 76
PC VC D+SSG HYG+ +C+GC GFF+RSI +N VYTC +C I+K RN+C+
Sbjct: 1 PCFVCQDKSSGYHYGVSACEGCKGFFRRSIQKNMVYTCHRD----KNCIINKVTRNRCQY 56
Query: 77 CRLNKCFMSAMNKDDFK 93
CRL KCF M+K+ +
Sbjct: 57 CRLQKCFEVGMSKESVR 73
>d1lata_ g.39.1.2 (A:) Glucocorticoid receptor DNA-binding domain
{Rat (Rattus norvegicus) [TaxId: 10116]}
Length = 71
Score = 65.5 bits (159), Expect = 1e-16
Identities = 34/74 (45%), Positives = 43/74 (58%), Gaps = 4/74 (5%)
Query: 17 PCKVCGDRSSGKHYGIYSCDGCSGFFKRSIHRNRVYTCKAQGDLKGHCPIDKTHRNQCRA 76
PC VC D +SG HYG+ +C+GC FFKR++ Y CK + G C IDK R C A
Sbjct: 2 PCLVCSDEASGCHYGVLTCEGCKAFFKRAVEGQHNYLCKYE----GKCIIDKIRRKNCPA 57
Query: 77 CRLNKCFMSAMNKD 90
CR KC + MN +
Sbjct: 58 CRYRKCLQAGMNLE 71
>d1cita_ g.39.1.2 (A:) Orphan nuclear receptor NGFI-B DNA-binding
domain {Rat (Rattus norvegicus) [TaxId: 10116]}
Length = 89
Score = 65.9 bits (160), Expect = 2e-16
Identities = 34/77 (44%), Positives = 48/77 (62%), Gaps = 4/77 (5%)
Query: 17 PCKVCGDRSSGKHYGIYSCDGCSGFFKRSIHRNRVYTCKAQGDLKGHCPIDKTHRNQCRA 76
C VCGD +S +HYG+ +C+GC GFFKR++ ++ Y C A D CP+DK RN+C+
Sbjct: 2 RCAVCGDNASCQHYGVRTCEGCKGFFKRTVQKSAKYICLANKD----CPVDKRRRNRCQF 57
Query: 77 CRLNKCFMSAMNKDDFK 93
CR KC M K+ +
Sbjct: 58 CRFQKCLAVGMVKEVVR 74
>d1a6ya_ g.39.1.2 (A:) Orphan nuclear receptor reverb DNA-binding
domain {Human (Homo sapiens) [TaxId: 9606]}
Length = 78
Score = 65.4 bits (159), Expect = 2e-16
Identities = 33/76 (43%), Positives = 48/76 (63%), Gaps = 3/76 (3%)
Query: 18 CKVCGDRSSGKHYGIYSCDGCSGFFKRSIHRNRVYTCKAQGDLKGHCPIDKTHRNQCRAC 77
CKVCGD +SG HYG+ +C+GC GFF+RSI +N Y + +C I + +RN+C+ C
Sbjct: 3 CKVCGDVASGFHYGVLACEGCKGFFRRSIQQNIQYKRCLKN---ENCSIVRINRNRCQQC 59
Query: 78 RLNKCFMSAMNKDDFK 93
R KC M++D +
Sbjct: 60 RFKKCLSVGMSRDAVR 75
>d1r4ia_ g.39.1.2 (A:) Androgen receptor {Rat (Rattus norvegicus)
[TaxId: 10116]}
Length = 74
Score = 65.5 bits (159), Expect = 2e-16
Identities = 29/74 (39%), Positives = 39/74 (52%), Gaps = 4/74 (5%)
Query: 17 PCKVCGDRSSGKHYGIYSCDGCSGFFKRSIHRNRVYTCKAQGDLKGHCPIDKTHRNQCRA 76
C +CGD +SG HYG +C C FFKR+ + Y C + + C IDK R C +
Sbjct: 4 TCLICGDEASGAHYGALTCGSCKVFFKRAAEGKQKYLCAS----RNDCTIDKFRRKNCPS 59
Query: 77 CRLNKCFMSAMNKD 90
CRL KC+ + M
Sbjct: 60 CRLRKCYEAGMTLG 73
>d2hanb1 g.39.1.2 (B:5-87) Ecdysone receptor DNA-binding domain
{Fruit fly (Drosophila melanogaster) [TaxId: 7227]}
Length = 83
Score = 65.0 bits (158), Expect = 3e-16
Identities = 32/73 (43%), Positives = 43/73 (58%), Gaps = 4/73 (5%)
Query: 18 CKVCGDRSSGKHYGIYSCDGCSGFFKRSIHRNRVYTCKAQGDLKGHCPIDKTHRNQCRAC 77
C VCGDR+SG HY +C+GC GFF+RS+ ++ VY CK C +D R +C+ C
Sbjct: 3 CLVCGDRASGYHYNALTCEGCKGFFRRSVTKSAVYCCKFGRA----CEMDMYMRRKCQEC 58
Query: 78 RLNKCFMSAMNKD 90
RL KC M +
Sbjct: 59 RLKKCLAVGMRPE 71
>d2nllb_ g.39.1.2 (B:) Thyroid hormone receptor (TR-beta)
DNA-binding domain {Human (Homo sapiens) [TaxId: 9606]}
Length = 103
Score = 63.3 bits (153), Expect = 2e-15
Identities = 32/73 (43%), Positives = 44/73 (60%), Gaps = 2/73 (2%)
Query: 18 CKVCGDRSSGKHYGIYSCDGCSGFFKRSIHRNRVYTCKAQGDLKGHCPIDKTHRNQCRAC 77
C VCGD+++G HY +C+GC GFF+R+I +N + + + G C IDK RNQC+ C
Sbjct: 4 CVVCGDKATGYHYRCITCEGCKGFFRRTIQKNLHPSYSCKYE--GKCVIDKVTRNQCQEC 61
Query: 78 RLNKCFMSAMNKD 90
R KC M D
Sbjct: 62 RFKKCIYVGMATD 74
>d1hcqa_ g.39.1.2 (A:) Estrogen receptor DNA-binding domain {Human
and chicken (Homo sapiens) and (Gallus gallus) [TaxId:
9606]}
Length = 74
Score = 60.5 bits (146), Expect = 1e-14
Identities = 36/73 (49%), Positives = 43/73 (58%), Gaps = 4/73 (5%)
Query: 17 PCKVCGDRSSGKHYGIYSCDGCSGFFKRSIHRNRVYTCKAQGDLKGHCPIDKTHRNQCRA 76
C VC D +SG HYG++SC+GC FFKRSI + Y C A C IDK R C+A
Sbjct: 6 YCAVCNDYASGYHYGVWSCEGCKAFFKRSIQGHNDYMCPAT----NQCTIDKNRRKSCQA 61
Query: 77 CRLNKCFMSAMNK 89
CRL KC+ M K
Sbjct: 62 CRLRKCYEVGMMK 74
>d1jwyb_ c.37.1.8 (B:) Dynamin G domain {Dictyostelium discoideum
[TaxId: 44689]}
Length = 306
Score = 25.9 bits (56), Expect = 0.78
Identities = 12/23 (52%), Positives = 15/23 (65%), Gaps = 1/23 (4%)
Query: 7 NSLGDRLLDIPC-KVCGDRSSGK 28
N+LG LD+P V G +SSGK
Sbjct: 15 NTLGSDPLDLPQIVVVGSQSSGK 37
>d1iznb_ e.43.1.2 (B:) Capz beta-1 subunit {Chicken (Gallus
gallus) [TaxId: 9031]}
Length = 270
Score = 25.1 bits (55), Expect = 1.6
Identities = 11/26 (42%), Positives = 14/26 (53%), Gaps = 3/26 (11%)
Query: 8 SLGDRLL---DIPCKVCGDRSSGKHY 30
SL + LL D P K+ D+ GK Y
Sbjct: 33 SLCEDLLSSVDQPLKIARDKVVGKDY 58
>d1weva_ g.50.1.2 (A:) PHD finger protein 22 {Mouse (Mus musculus)
[TaxId: 10090]}
Length = 88
Score = 23.6 bits (50), Expect = 2.8
Identities = 5/29 (17%), Positives = 10/29 (34%)
Query: 14 LDIPCKVCGDRSSGKHYGIYSCDGCSGFF 42
+ + C VC + + C C +
Sbjct: 15 MGLACVVCRQMTVASGNQLVECQECHNLY 43
>d1yira1 c.1.17.2 (A:145-399) Nicotinate
phosphoribosyltransferase, C-terminal domain
{Pseudomonas aeruginosa [TaxId: 287]}
Length = 255
Score = 23.0 bits (49), Expect = 7.5
Identities = 7/17 (41%), Positives = 8/17 (47%)
Query: 3 VGTDNSLGDRLLDIPCK 19
VGT N R LD+
Sbjct: 61 VGTSNVHLARKLDLKPL 77
Database: scop70_1_75
Posted date: Mar 27, 2010 6:21 PM
Number of letters in database: 2,407,596
Number of sequences in database: 13,730
Lambda K H
0.326 0.140 0.474
Gapped
Lambda K H
0.267 0.0496 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 363,855
Number of extensions: 15541
Number of successful extensions: 108
Number of sequences better than 10.0: 1
Number of HSP's gapped: 96
Number of HSP's successfully gapped: 34
Length of query: 93
Length of database: 2,407,596
Length adjustment: 56
Effective length of query: 37
Effective length of database: 1,638,716
Effective search space: 60632492
Effective search space used: 60632492
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 47 (22.4 bits)