RPS-BLAST 2.2.26 [Sep-21-2011]
Database: scop70_1_75
13,730 sequences; 2,407,596 total letters
Searching..................................................done
Query= psy10177
(116 letters)
>d1d3bb_ b.38.1.1 (B:) B core SNRNP protein {Human (Homo sapiens)
[TaxId: 9606]}
Length = 81
Score = 60.2 bits (146), Expect = 5e-14
Identities = 18/63 (28%), Positives = 30/63 (47%), Gaps = 7/63 (11%)
Query: 1 MVLLRDGRTLIGYLRSVDQFANLVLHKTIERIHVGNQYGDIPR-------GIFIIRGENV 53
+L+DGR IG ++ D+ NL+L E + + G+ ++RGEN+
Sbjct: 12 RCILQDGRIFIGTFKAFDKHMNLILCDCDEFRKIKPKNSKQAEREEKRVLGLVLLRGENL 71
Query: 54 VLM 56
V M
Sbjct: 72 VSM 74
>d1i8fa_ b.38.1.1 (A:) Archaeal homoheptameric Sm protein
{Archaeon Pyrobaculum aerophilum [TaxId: 13773]}
Length = 71
Score = 59.0 bits (143), Expect = 9e-14
Identities = 23/59 (38%), Positives = 30/59 (50%), Gaps = 4/59 (6%)
Query: 1 MVLLRDGRTLIGYLRSVDQFANLVLHKTIERIHVGNQYGDIPRGIFIIRGENVVLMGEV 59
+V LRD + G LRS DQ NL+L E I RG ++RGENV+ + V
Sbjct: 16 LVKLRDSHEIRGILRSFDQHVNLLLEDAEEIIDGNV----YKRGTMVVRGENVLFISPV 70
>d1i4k1_ b.38.1.1 (1:) Archaeal homoheptameric Sm protein
{Archaeon Archaeoglobus fulgidus, AF-Sm1 [TaxId: 2234]}
Length = 72
Score = 55.9 bits (135), Expect = 2e-12
Identities = 18/56 (32%), Positives = 24/56 (42%), Gaps = 3/56 (5%)
Query: 1 MVLLRDGRTLIGYLRSVDQFANLVLHKTIERIHVGNQYGDIPRGIFIIRGENVVLM 56
+V L+ GR G L D NLVL E + G +IRG+ VV +
Sbjct: 17 IVRLKGGREFRGTLDGYDIHMNLVLLDAEEIQNGEVV---RKVGSVVIRGDTVVFV 69
>d2fwka1 b.38.1.1 (A:24-115) U6 snRNA-associated sm-like protein
LSM5 {Cryptosporidium parvum [TaxId: 5807]}
Length = 92
Score = 56.0 bits (135), Expect = 3e-12
Identities = 12/68 (17%), Positives = 25/68 (36%), Gaps = 12/68 (17%)
Query: 1 MVLLRDGRTLIGYLRSVDQFANLVLHKTIERIHVGNQYGDIPR------------GIFII 48
V+++ + G LR D++ N+VL E ++ ++
Sbjct: 19 YVVMKGDKEFSGVLRGFDEYVNMVLDDVQEYGFKADEEDISGGNKKLKRVMVNRLETILL 78
Query: 49 RGENVVLM 56
G NV ++
Sbjct: 79 SGNNVAML 86
>d1th7a1 b.38.1.1 (A:3-78) Archaeal homoheptameric Sm protein
{Sulfolobus solfataricus [TaxId: 2287]}
Length = 76
Score = 55.1 bits (133), Expect = 3e-12
Identities = 21/59 (35%), Positives = 32/59 (54%), Gaps = 3/59 (5%)
Query: 1 MVLLRDGRTLIGYLRSVDQFANLVLHKTIERIHVGNQYGDIPRGIFIIRGENVVLMGEV 59
+V L+ + + G LRS DQ NLVL + E G+ G +IRG+NV+L+ +
Sbjct: 21 LVKLKGNKEVRGMLRSYDQHMNLVLSDSEEIQSDGSG---KKLGTIVIRGDNVILISPL 76
>d1h641_ b.38.1.1 (1:) Archaeal homoheptameric Sm protein
{Archaeon Pyrococcus abyssi [TaxId: 29292]}
Length = 71
Score = 53.2 bits (128), Expect = 2e-11
Identities = 15/56 (26%), Positives = 23/56 (41%), Gaps = 3/56 (5%)
Query: 1 MVLLRDGRTLIGYLRSVDQFANLVLHKTIERIHVGNQYGDIPRGIFIIRGENVVLM 56
+V+L+ G G L D N+VL G +IRG+NV+ +
Sbjct: 16 LVILKKGFEFRGRLIGYDIHLNVVLADAEMIQDGEVV---KRYGKIVIRGDNVLAI 68
>d1mgqa_ b.38.1.1 (A:) Archaeal homoheptameric Sm protein
{Archaeon Methanobacterium thermoautotrophicum [TaxId:
145262]}
Length = 74
Score = 53.2 bits (128), Expect = 2e-11
Identities = 17/56 (30%), Positives = 26/56 (46%), Gaps = 3/56 (5%)
Query: 1 MVLLRDGRTLIGYLRSVDQFANLVLHKTIERIHVGNQYGDIPRGIFIIRGENVVLM 56
++ L+ R G L+S D NLVL+ E G +IRG+N+V +
Sbjct: 20 IIKLKGDREFRGVLKSFDLHMNLVLNDAEELEDGEVT---RRLGTVLIRGDNIVYI 72
>d1n9ra_ b.38.1.1 (A:) Small nuclear ribonucleoprotein F, Smf
{Baker's yeast (Saccharomyces cerevisiae) [TaxId:
4932]}
Length = 68
Score = 49.7 bits (119), Expect = 4e-10
Identities = 17/61 (27%), Positives = 26/61 (42%), Gaps = 4/61 (6%)
Query: 1 MVLLRDGRTLI-GYLRSVDQFANLVLHKTIERIHVGNQYGDIPRGIFIIRGENVVLMGEV 59
V L+ T G L S D + NL L++ E + + G IR NV+ + E+
Sbjct: 10 GVKLKFNSTEYRGTLVSTDNYFNLQLNEAEEFVAGVSH---GTLGEIFIRCNNVLYIREL 66
Query: 60 D 60
Sbjct: 67 P 67
>d1b34b_ b.38.1.1 (B:) D2 core SNRNP protein {Human (Homo sapiens)
[TaxId: 9606]}
Length = 93
Score = 50.3 bits (120), Expect = 4e-10
Identities = 12/66 (18%), Positives = 29/66 (43%), Gaps = 11/66 (16%)
Query: 1 MVLLRDGRTLIGYLRSVDQFANLVLHKTIERIHVGNQYGDIPR-----------GIFIIR 49
++ R+ + L+G +++ D+ N+VL E + G + +R
Sbjct: 18 LINCRNNKKLLGRVKAFDRHCNMVLENVKEMWTEVPKSGKGKKKSKPVNKDRYISKMFLR 77
Query: 50 GENVVL 55
G++V++
Sbjct: 78 GDSVIV 83
>d1ljoa_ b.38.1.1 (A:) Archaeal homoheptameric Sm protein
{Archaeon Archaeoglobus fulgidus, AF-Sm2 [TaxId: 2234]}
Length = 75
Score = 48.6 bits (116), Expect = 1e-09
Identities = 16/56 (28%), Positives = 25/56 (44%), Gaps = 3/56 (5%)
Query: 1 MVLLRDGRTLIGYLRSVDQFANLVLHKTIERIHVGNQYGDIPRGIFIIRGENVVLM 56
+ + + L+G L VD + NL L +E G ++RG NVVL+
Sbjct: 20 VEMKGEENQLVGKLEGVDDYMNLYLTNAMECKGEEKV---RSLGEIVLRGNNVVLI 72
>d1m5q1_ b.38.1.1 (1:) Sm-Like archaeal protein Smap3 {Archaeon
Pyrobaculum aerophilum [TaxId: 13773]}
Length = 127
Score = 46.3 bits (110), Expect = 3e-08
Identities = 21/114 (18%), Positives = 42/114 (36%), Gaps = 20/114 (17%)
Query: 1 MVLLRDGRTLIGYLRSVDQFANLVLHKTIERIHVGNQYGDIPRGIFIIRGENVVLMGEVD 60
V+L +G G L +VD N+VL + G ++ + I +V + +
Sbjct: 14 QVVLSNGEVYKGVLHAVDNQLNIVLANASNK--AGEKFNRV-----FIMYRYIVHIDSTE 66
Query: 61 KE---KEHCPQLQQ-----VSVEDILNAQRKEQEVKQERSRM-----LAKRLKE 101
+ +E Q ++ V + N +V+ + +A+R K
Sbjct: 67 RRIDMREFAKQAEKIFPGMVKYIEETNVVLIGDKVRVSEIGVEGVGPVAERAKR 120
>d1d3ba_ b.38.1.1 (A:) D3 core SNRNP protein {Human (Homo sapiens)
[TaxId: 9606]}
Length = 72
Score = 36.3 bits (84), Expect = 6e-05
Identities = 9/58 (15%), Positives = 14/58 (24%), Gaps = 7/58 (12%)
Query: 1 MVLLRDGRTLIGYLRSVDQFANLVLHKTIERIHVGN--QYGDIPRGIFIIRGENVVLM 56
G G L + N + G Q + IRG + +
Sbjct: 16 TCETNTGEVYRGKLIEAEDNMNCQMSNITVTYRDGRVAQLEQV-----YIRGCKIRFL 68
>d1b34a_ b.38.1.1 (A:) D1 core SNRNP protein {Human (Homo sapiens)
[TaxId: 9606]}
Length = 80
Score = 32.4 bits (74), Expect = 0.003
Identities = 11/53 (20%), Positives = 19/53 (35%), Gaps = 3/53 (5%)
Query: 1 MVLLRDGRTLIGYLRSVDQFANLVLHKTIERIHVGNQYGDIPRGIFIIRGENV 53
+ L++G + G + VD N L + + IRG N+
Sbjct: 15 TIELKNGTQVHGTITGVDVSMNTHLKAVKMTLKNREP---VQLETLSIRGNNI 64
>d1wjxa_ b.111.1.1 (A:) Small protein B (SmpB) {Thermus thermophilus
[TaxId: 274]}
Length = 120
Score = 25.5 bits (56), Expect = 1.0
Identities = 10/53 (18%), Positives = 28/53 (52%)
Query: 56 MGEVDKEKEHCPQLQQVSVEDILNAQRKEQEVKQERSRMLAKRLKERGLSFVP 108
GE+ E + ++ S ++ ++++ + + R L +++++GL+ VP
Sbjct: 47 DGELYLENLYIAPYEKGSYANVDPRRKRKLLLHKHELRRLLGKVEQKGLTLVP 99
>d1d7ya3 d.87.1.1 (A:309-405) NADH-dependent ferredoxin reductase,
BphA4 {Pseudomonas sp., KKS102 [TaxId: 306]}
Length = 97
Score = 24.0 bits (52), Expect = 3.5
Identities = 5/23 (21%), Positives = 7/23 (30%)
Query: 91 RSRMLAKRLKERGLSFVPDLIND 113
R +RL G + D
Sbjct: 64 RDFAPLRRLLAVGAKPDRAALAD 86
>d1v9da_ a.207.1.1 (A:) Diaphanous protein homolog 1, dia1 {Mouse
(Mus musculus) [TaxId: 10090]}
Length = 332
Score = 24.2 bits (52), Expect = 5.6
Identities = 7/26 (26%), Positives = 16/26 (61%)
Query: 79 NAQRKEQEVKQERSRMLAKRLKERGL 104
N +R+E E K R+++ ++ ++ L
Sbjct: 307 NQKRRETEEKMRRAKLAKEKAEKERL 332
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
0.322 0.142 0.397
Gapped
Lambda K H
0.267 0.0615 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 419,576
Number of extensions: 18058
Number of successful extensions: 98
Number of sequences better than 10.0: 1
Number of HSP's gapped: 88
Number of HSP's successfully gapped: 21
Length of query: 116
Length of database: 2,407,596
Length adjustment: 73
Effective length of query: 43
Effective length of database: 1,405,306
Effective search space: 60428158
Effective search space used: 60428158
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: 47 (22.1 bits)