RPS-BLAST 2.2.26 [Sep-21-2011]
Database: scop70_1_75
13,730 sequences; 2,407,596 total letters
Searching..................................................done
Query= psy9158
(133 letters)
>d1b34a_ b.38.1.1 (A:) D1 core SNRNP protein {Human (Homo sapiens)
[TaxId: 9606]}
Length = 80
Score = 48.9 bits (117), Expect = 2e-09
Identities = 15/74 (20%), Positives = 30/74 (40%), Gaps = 9/74 (12%)
Query: 18 LACLAKSLVGMITCVDLRNESSVSGRLEHVDGFMNIYMS---------RELTFESLFIQS 68
L L ++L+N + V G + VD MN ++ + E+L I+
Sbjct: 2 LVRFLMKLSHETVTIELKNGTQVHGTITGVDVSMNTHLKAVKMTLKNREPVQLETLSIRG 61
Query: 69 RNVMFIHIPRHVSI 82
N+ + +P + +
Sbjct: 62 NNIRYFILPDSLPL 75
>d1d3ba_ b.38.1.1 (A:) D3 core SNRNP protein {Human (Homo sapiens)
[TaxId: 9606]}
Length = 72
Score = 45.9 bits (109), Expect = 2e-08
Identities = 13/66 (19%), Positives = 23/66 (34%), Gaps = 9/66 (13%)
Query: 21 LAKSLVGMITCVDLRNESSVSGRLEHVDGFMNIYMS---------RELTFESLFIQSRNV 71
+ G I + G+L + MN MS R E ++I+ +
Sbjct: 6 VLHEAEGHIVTCETNTGEVYRGKLIEAEDNMNCQMSNITVTYRDGRVAQLEQVYIRGCKI 65
Query: 72 MFIHIP 77
F+ +P
Sbjct: 66 RFLILP 71
>d1m5q1_ b.38.1.1 (1:) Sm-Like archaeal protein Smap3 {Archaeon
Pyrobaculum aerophilum [TaxId: 13773]}
Length = 127
Score = 44.7 bits (106), Expect = 2e-07
Identities = 16/60 (26%), Positives = 24/60 (40%), Gaps = 5/60 (8%)
Query: 23 KSLVGMITCVDLRNESSVSGRLEHVDGFMNIYMS-----RELTFESLFIQSRNVMFIHIP 77
+L+G V L N G L VD +NI ++ F +FI R ++ I
Sbjct: 6 NNLLGREVQVVLSNGEVYKGVLHAVDNQLNIVLANASNKAGEKFNRVFIMYRYIVHIDST 65
>d1i8fa_ b.38.1.1 (A:) Archaeal homoheptameric Sm protein
{Archaeon Pyrobaculum aerophilum [TaxId: 13773]}
Length = 71
Score = 38.5 bits (90), Expect = 1e-05
Identities = 14/67 (20%), Positives = 26/67 (38%), Gaps = 8/67 (11%)
Query: 17 TLACLAKSLVGMITCVDLRNESSVSGRLEHVDGFMNIYMS--------RELTFESLFIQS 68
TL + +G V LR+ + G L D +N+ + ++ ++
Sbjct: 2 TLGATLQDSIGKQVLVKLRDSHEIRGILRSFDQHVNLLLEDAEEIIDGNVYKRGTMVVRG 61
Query: 69 RNVMFIH 75
NV+FI
Sbjct: 62 ENVLFIS 68
>d1i4k1_ b.38.1.1 (1:) Archaeal homoheptameric Sm protein
{Archaeon Archaeoglobus fulgidus, AF-Sm1 [TaxId: 2234]}
Length = 72
Score = 33.9 bits (78), Expect = 6e-04
Identities = 11/62 (17%), Positives = 20/62 (32%), Gaps = 9/62 (14%)
Query: 23 KSLVGMITCVDLRNESSVSGRLEHVDGFMNIYMS---------RELTFESLFIQSRNVMF 73
+ V L+ G L+ D MN+ + S+ I+ V+F
Sbjct: 9 NRSLKSPVIVRLKGGREFRGTLDGYDIHMNLVLLDAEEIQNGEVVRKVGSVVIRGDTVVF 68
Query: 74 IH 75
+
Sbjct: 69 VS 70
>d1n9ra_ b.38.1.1 (A:) Small nuclear ribonucleoprotein F, Smf
{Baker's yeast (Saccharomyces cerevisiae) [TaxId:
4932]}
Length = 68
Score = 33.9 bits (78), Expect = 7e-04
Identities = 16/63 (25%), Positives = 26/63 (41%), Gaps = 10/63 (15%)
Query: 23 KSLVGMITCVDLR-NESSVSGRLEHVDGFMNIYMS---------RELTFESLFIQSRNVM 72
K LV V L+ N + G L D + N+ ++ T +FI+ NV+
Sbjct: 2 KGLVNHRVGVKLKFNSTEYRGTLVSTDNYFNLQLNEAEEFVAGVSHGTLGEIFIRCNNVL 61
Query: 73 FIH 75
+I
Sbjct: 62 YIR 64
>d1h641_ b.38.1.1 (1:) Archaeal homoheptameric Sm protein
{Archaeon Pyrococcus abyssi [TaxId: 29292]}
Length = 71
Score = 33.5 bits (77), Expect = 0.001
Identities = 11/61 (18%), Positives = 21/61 (34%), Gaps = 9/61 (14%)
Query: 23 KSLVGMITCVDLRNESSVSGRLEHVDGFMNIYMS---------RELTFESLFIQSRNVMF 73
+ V L+ GRL D +N+ ++ + + I+ NV+
Sbjct: 8 HRSLDKDVLVILKKGFEFRGRLIGYDIHLNVVLADAEMIQDGEVVKRYGKIVIRGDNVLA 67
Query: 74 I 74
I
Sbjct: 68 I 68
>d1th7a1 b.38.1.1 (A:3-78) Archaeal homoheptameric Sm protein
{Sulfolobus solfataricus [TaxId: 2287]}
Length = 76
Score = 33.2 bits (76), Expect = 0.002
Identities = 13/62 (20%), Positives = 22/62 (35%), Gaps = 9/62 (14%)
Query: 23 KSLVGMITCVDLRNESSVSGRLEHVDGFMNIYMS---------RELTFESLFIQSRNVMF 73
+ + V L+ V G L D MN+ +S ++ I+ NV+
Sbjct: 13 AESLNNLVLVKLKGNKEVRGMLRSYDQHMNLVLSDSEEIQSDGSGKKLGTIVIRGDNVIL 72
Query: 74 IH 75
I
Sbjct: 73 IS 74
>d1mgqa_ b.38.1.1 (A:) Archaeal homoheptameric Sm protein
{Archaeon Methanobacterium thermoautotrophicum [TaxId:
145262]}
Length = 74
Score = 32.7 bits (75), Expect = 0.002
Identities = 9/61 (14%), Positives = 24/61 (39%), Gaps = 9/61 (14%)
Query: 23 KSLVGMITCVDLRNESSVSGRLEHVDGFMNIYMS---------RELTFESLFIQSRNVMF 73
+ + + L+ + G L+ D MN+ ++ ++ I+ N+++
Sbjct: 12 GNSLNSPVIIKLKGDREFRGVLKSFDLHMNLVLNDAEELEDGEVTRRLGTVLIRGDNIVY 71
Query: 74 I 74
I
Sbjct: 72 I 72
>d1ljoa_ b.38.1.1 (A:) Archaeal homoheptameric Sm protein
{Archaeon Archaeoglobus fulgidus, AF-Sm2 [TaxId: 2234]}
Length = 75
Score = 32.0 bits (73), Expect = 0.004
Identities = 18/62 (29%), Positives = 35/62 (56%), Gaps = 10/62 (16%)
Query: 23 KSLVGMITCVDLRN-ESSVSGRLEHVDGFMNIYMS---------RELTFESLFIQSRNVM 72
KS+VG I V+++ E+ + G+LE VD +MN+Y++ + + + ++ NV+
Sbjct: 11 KSMVGKIIRVEMKGEENQLVGKLEGVDDYMNLYLTNAMECKGEEKVRSLGEIVLRGNNVV 70
Query: 73 FI 74
I
Sbjct: 71 LI 72
>d2fwka1 b.38.1.1 (A:24-115) U6 snRNA-associated sm-like protein
LSM5 {Cryptosporidium parvum [TaxId: 5807]}
Length = 92
Score = 27.5 bits (61), Expect = 0.20
Identities = 7/34 (20%), Positives = 15/34 (44%)
Query: 23 KSLVGMITCVDLRNESSVSGRLEHVDGFMNIYMS 56
+G V ++ + SG L D ++N+ +
Sbjct: 11 DKCIGNRIYVVMKGDKEFSGVLRGFDEYVNMVLD 44
>d1wi9a_ a.4.5.47 (A:) Hypothetical protein C20orf116 homolog {Mouse
(Mus musculus) [TaxId: 10090]}
Length = 72
Score = 26.2 bits (58), Expect = 0.52
Identities = 7/24 (29%), Positives = 12/24 (50%)
Query: 110 NLMQQEVLEKIQALKKQKMAQGVM 133
L Q+ + +IQ L + GV+
Sbjct: 32 GLRTQDAINRIQDLLTEGTLTGVI 55
>d1d3bb_ b.38.1.1 (B:) B core SNRNP protein {Human (Homo sapiens)
[TaxId: 9606]}
Length = 81
Score = 25.9 bits (57), Expect = 0.67
Identities = 5/25 (20%), Positives = 10/25 (40%)
Query: 32 VDLRNESSVSGRLEHVDGFMNIYMS 56
L++ G + D MN+ +
Sbjct: 13 CILQDGRIFIGTFKAFDKHMNLILC 37
>d1b34b_ b.38.1.1 (B:) D2 core SNRNP protein {Human (Homo sapiens)
[TaxId: 9606]}
Length = 93
Score = 24.1 bits (52), Expect = 4.0
Identities = 9/37 (24%), Positives = 18/37 (48%), Gaps = 1/37 (2%)
Query: 18 LACLAKSL-VGMITCVDLRNESSVSGRLEHVDGFMNI 53
L+ L +S+ ++ RN + GR++ D N+
Sbjct: 4 LSVLTQSVKNNTQVLINCRNNKKLLGRVKAFDRHCNM 40
>d2oeba1 a.70.2.1 (A:2-153) Hypothetical protein AF1862
{Archaeoglobus fulgidus [TaxId: 2234]}
Length = 152
Score = 24.2 bits (52), Expect = 5.1
Identities = 8/30 (26%), Positives = 15/30 (50%)
Query: 102 RTLKQKRANLMQQEVLEKIQALKKQKMAQG 131
R ++Q+RA+ + V + + K QG
Sbjct: 3 REIEQERASFAFKVVSDIKDKYSQNKKVQG 32
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
0.321 0.130 0.352
Gapped
Lambda K H
0.267 0.0538 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 420,842
Number of extensions: 15809
Number of successful extensions: 51
Number of sequences better than 10.0: 1
Number of HSP's gapped: 48
Number of HSP's successfully gapped: 16
Length of query: 133
Length of database: 2,407,596
Length adjustment: 76
Effective length of query: 57
Effective length of database: 1,364,116
Effective search space: 77754612
Effective search space used: 77754612
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 (21.9 bits)
S2: 48 (22.7 bits)