RPS-BLAST 2.2.26 [Sep-21-2011]
Database: scop70_1_75
13,730 sequences; 2,407,596 total letters
Searching..................................................done
Query= psy17024
(132 letters)
>d1d3ba_ b.38.1.1 (A:) D3 core SNRNP protein {Human (Homo sapiens)
[TaxId: 9606]}
Length = 72
Score = 94.5 bits (235), Expect = 2e-27
Identities = 50/72 (69%), Positives = 64/72 (88%)
Query: 4 GIPIKLLHEAEGHIITCETTNGDLFRGKLVEAEDNMNCAMADVTVTFRDGKVKPMANIYI 63
G+PIK+LHEAEGHI+TCET G+++RGKL+EAEDNMNC M+++TVT+RDG+V + +YI
Sbjct: 1 GVPIKVLHEAEGHIVTCETNTGEVYRGKLIEAEDNMNCQMSNITVTYRDGRVAQLEQVYI 60
Query: 64 RGSKIRFLILPD 75
RG KIRFLILPD
Sbjct: 61 RGCKIRFLILPD 72
>d1b34a_ b.38.1.1 (A:) D1 core SNRNP protein {Human (Homo sapiens)
[TaxId: 9606]}
Length = 80
Score = 92.5 bits (230), Expect = 2e-26
Identities = 20/76 (26%), Positives = 37/76 (48%)
Query: 7 IKLLHEAEGHIITCETTNGDLFRGKLVEAEDNMNCAMADVTVTFRDGKVKPMANIYIRGS 66
++ L + +T E NG G + + +MN + V +T ++ + + + IRG+
Sbjct: 3 VRFLMKLSHETVTIELKNGTQVHGTITGVDVSMNTHLKAVKMTLKNREPVQLETLSIRGN 62
Query: 67 KIRFLILPDMLKNAPM 82
IR+ ILPD L +
Sbjct: 63 NIRYFILPDSLPLDTL 78
>d1mgqa_ b.38.1.1 (A:) Archaeal homoheptameric Sm protein
{Archaeon Methanobacterium thermoautotrophicum [TaxId:
145262]}
Length = 74
Score = 74.7 bits (184), Expect = 1e-19
Identities = 13/72 (18%), Positives = 28/72 (38%)
Query: 1 MSIGIPIKLLHEAEGHIITCETTNGDLFRGKLVEAEDNMNCAMADVTVTFRDGKVKPMAN 60
+++ P+ L + + + FRG L + +MN + D + +
Sbjct: 2 VNVQRPLDALGNSLNSPVIIKLKGDREFRGVLKSFDLHMNLVLNDAEELEDGEVTRRLGT 61
Query: 61 IYIRGSKIRFLI 72
+ IRG I ++
Sbjct: 62 VLIRGDNIVYIS 73
>d1ljoa_ b.38.1.1 (A:) Archaeal homoheptameric Sm protein
{Archaeon Archaeoglobus fulgidus, AF-Sm2 [TaxId: 2234]}
Length = 75
Score = 71.7 bits (176), Expect = 2e-18
Identities = 16/72 (22%), Positives = 33/72 (45%), Gaps = 1/72 (1%)
Query: 2 SIGIPIKLLHEAEGHIITCETTNGDL-FRGKLVEAEDNMNCAMADVTVTFRDGKVKPMAN 60
++ +P +++ G II E + GKL +D MN + + + KV+ +
Sbjct: 2 AMVLPNQMVKSMVGKIIRVEMKGEENQLVGKLEGVDDYMNLYLTNAMECKGEEKVRSLGE 61
Query: 61 IYIRGSKIRFLI 72
I +RG+ + +
Sbjct: 62 IVLRGNNVVLIQ 73
>d1th7a1 b.38.1.1 (A:3-78) Archaeal homoheptameric Sm protein
{Sulfolobus solfataricus [TaxId: 2287]}
Length = 76
Score = 71.3 bits (175), Expect = 3e-18
Identities = 16/66 (24%), Positives = 29/66 (43%)
Query: 6 PIKLLHEAEGHIITCETTNGDLFRGKLVEAEDNMNCAMADVTVTFRDGKVKPMANIYIRG 65
K+L E+ +++ + RG L + +MN ++D DG K + I IRG
Sbjct: 8 AHKVLAESLNNLVLVKLKGNKEVRGMLRSYDQHMNLVLSDSEEIQSDGSGKKLGTIVIRG 67
Query: 66 SKIRFL 71
+ +
Sbjct: 68 DNVILI 73
>d1h641_ b.38.1.1 (1:) Archaeal homoheptameric Sm protein
{Archaeon Pyrococcus abyssi [TaxId: 29292]}
Length = 71
Score = 70.1 bits (172), Expect = 8e-18
Identities = 16/66 (24%), Positives = 30/66 (45%)
Query: 6 PIKLLHEAEGHIITCETTNGDLFRGKLVEAEDNMNCAMADVTVTFRDGKVKPMANIYIRG 65
P+ ++H + + G FRG+L+ + ++N +AD + VK I IRG
Sbjct: 3 PLDVIHRSLDKDVLVILKKGFEFRGRLIGYDIHLNVVLADAEMIQDGEVVKRYGKIVIRG 62
Query: 66 SKIRFL 71
+ +
Sbjct: 63 DNVLAI 68
>d1i4k1_ b.38.1.1 (1:) Archaeal homoheptameric Sm protein
{Archaeon Archaeoglobus fulgidus, AF-Sm1 [TaxId: 2234]}
Length = 72
Score = 69.3 bits (170), Expect = 2e-17
Identities = 15/66 (22%), Positives = 29/66 (43%)
Query: 6 PIKLLHEAEGHIITCETTNGDLFRGKLVEAEDNMNCAMADVTVTFRDGKVKPMANIYIRG 65
P+ +L+ + + G FRG L + +MN + D V+ + ++ IRG
Sbjct: 4 PLDVLNRSLKSPVIVRLKGGREFRGTLDGYDIHMNLVLLDAEEIQNGEVVRKVGSVVIRG 63
Query: 66 SKIRFL 71
+ F+
Sbjct: 64 DTVVFV 69
>d1m5q1_ b.38.1.1 (1:) Sm-Like archaeal protein Smap3 {Archaeon
Pyrobaculum aerophilum [TaxId: 13773]}
Length = 127
Score = 63.6 bits (155), Expect = 1e-14
Identities = 10/69 (14%), Positives = 28/69 (40%), Gaps = 4/69 (5%)
Query: 9 LLHEAEGHIITCETTNGDLFRGKLVEAEDNMNCAMADVTVTFRDGKVKPMANIYIRGSKI 68
L+ G + +NG++++G L ++ +N +A+ + + ++I I
Sbjct: 4 ELNNLLGREVQVVLSNGEVYKGVLHAVDNQLNIVLANASNKAGEK----FNRVFIMYRYI 59
Query: 69 RFLILPDML 77
+ +
Sbjct: 60 VHIDSTERR 68
>d1i8fa_ b.38.1.1 (A:) Archaeal homoheptameric Sm protein
{Archaeon Pyrobaculum aerophilum [TaxId: 13773]}
Length = 71
Score = 60.9 bits (148), Expect = 3e-14
Identities = 13/65 (20%), Positives = 26/65 (40%), Gaps = 1/65 (1%)
Query: 10 LHEAEGHIITCETTNGDLFRGKLVEAEDNMNCAMADVTVTFRDGKVKPMANIYIRGSKIR 69
L ++ G + + + RG L + ++N + D DG V + +RG +
Sbjct: 7 LQDSIGKQVLVKLRDSHEIRGILRSFDQHVNLLLEDAEEI-IDGNVYKRGTMVVRGENVL 65
Query: 70 FLILP 74
F+
Sbjct: 66 FISPV 70
>d1n9ra_ b.38.1.1 (A:) Small nuclear ribonucleoprotein F, Smf
{Baker's yeast (Saccharomyces cerevisiae) [TaxId:
4932]}
Length = 68
Score = 56.3 bits (136), Expect = 2e-12
Identities = 12/68 (17%), Positives = 26/68 (38%), Gaps = 2/68 (2%)
Query: 10 LHEAEGHIITCETTNGDL-FRGKLVEAEDNMNCAMADVTVTFRDGKVKPMANIYIRGSKI 68
L H + + +RG LV ++ N + + + I+IR + +
Sbjct: 1 LKGLVNHRVGVKLKFNSTEYRGTLVSTDNYFNLQLNEAEEFVAGVSHGTLGEIFIRCNNV 60
Query: 69 RFL-ILPD 75
++ LP+
Sbjct: 61 LYIRELPN 68
>d2fwka1 b.38.1.1 (A:24-115) U6 snRNA-associated sm-like protein
LSM5 {Cryptosporidium parvum [TaxId: 5807]}
Length = 92
Score = 34.8 bits (80), Expect = 5e-04
Identities = 13/76 (17%), Positives = 30/76 (39%)
Query: 2 SIGIPIKLLHEAEGHIITCETTNGDLFRGKLVEAEDNMNCAMADVTVTFRDGKVKPMANI 61
+I +P+ L+ + G+ I F G L ++ +N + DV + ++
Sbjct: 2 NIILPLALIDKCIGNRIYVVMKGDKEFSGVLRGFDEYVNMVLDDVQEYGFKADEEDISGG 61
Query: 62 YIRGSKIRFLILPDML 77
+ ++ L +L
Sbjct: 62 NKKLKRVMVNRLETIL 77
>d1vqoc1 c.22.1.1 (C:1-246) Ribosomal protein L4 {Archaeon
Haloarcula marismortui [TaxId: 2238]}
Length = 246
Score = 28.6 bits (63), Expect = 0.23
Identities = 10/55 (18%), Positives = 11/55 (20%), Gaps = 3/55 (5%)
Query: 76 MLKNAPMFKGKQGNKAGAAGRGKSGILRAQAARGRGRGG---PPQRGGRGGWGGP 127
N G G R QA + G PQ P
Sbjct: 38 AQANRKQDYGSDEYAGLRTPAESFGSGRGQAHVPKLDGRARRVPQAVKGRSAHPP 92
>d2o2aa1 d.33.1.2 (A:1-124) Hypothetical protein gbs1413
{Streptococcus agalactiae [TaxId: 1311]}
Length = 124
Score = 27.1 bits (60), Expect = 0.38
Identities = 9/42 (21%), Positives = 18/42 (42%)
Query: 34 EAEDNMNCAMADVTVTFRDGKVKPMANIYIRGSKIRFLILPD 75
E E+ + VTF+ A + + ++F+I+ D
Sbjct: 21 EWEEENGTPKTNFEVTFQLANRDEAAKVTSIVAVLQFVIVRD 62
>d3caoa_ a.138.1.1 (A:) Cytochrome c3 {Desulfovibrio africanus
[TaxId: 873]}
Length = 103
Score = 25.9 bits (56), Expect = 0.92
Identities = 12/52 (23%), Positives = 21/52 (40%)
Query: 11 HEAEGHIITCETTNGDLFRGKLVEAEDNMNCAMADVTVTFRDGKVKPMANIY 62
H + I +C + G L E ED++ +D +DG + + Y
Sbjct: 27 HNEKAGIESCNACHHVWVNGVLAEDEDSVGTPCSDCHALEQDGDTPGLQDAY 78
>d1urja_ e.58.1.1 (A:) Infected cell protein 8, ICP8 {Herpes simplex
virus 1 [TaxId: 10298]}
Length = 1122
Score = 24.8 bits (54), Expect = 4.3
Identities = 8/72 (11%), Positives = 25/72 (34%), Gaps = 5/72 (6%)
Query: 31 KLVEAEDNMNCAMADVTVTFRDGKVKPMANIYIRGSKIRFLILPDM-LKNAPMFKGKQGN 89
+ +E A + + ++ +++ ++ +K+ +F G N
Sbjct: 722 TVALSE--GAAICAPSLTAGQTAPAE--SSFEGDVARVTLGFPKELRVKSRVLFAGASAN 777
Query: 90 KAGAAGRGKSGI 101
+ AA + +
Sbjct: 778 ASEAAKARVASL 789
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
0.319 0.141 0.429
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: 504,825
Number of extensions: 22122
Number of successful extensions: 63
Number of sequences better than 10.0: 1
Number of HSP's gapped: 58
Number of HSP's successfully gapped: 20
Length of query: 132
Length of database: 2,407,596
Length adjustment: 76
Effective length of query: 56
Effective length of database: 1,364,116
Effective search space: 76390496
Effective search space used: 76390496
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 (21.7 bits)
S2: 48 (22.8 bits)