RPS-BLAST 2.2.26 [Sep-21-2011]
Database: scop70_1_75
13,730 sequences; 2,407,596 total letters
Searching..................................................done
Query= psy15782
(129 letters)
>d1b34a_ b.38.1.1 (A:) D1 core SNRNP protein {Human (Homo sapiens)
[TaxId: 9606]}
Length = 80
Score = 110 bits (277), Expect = 1e-33
Identities = 61/77 (79%), Positives = 71/77 (92%)
Query: 2 NFLMKLSHETVTIELKNGTQVHGTIQGVDVAMNTHLKTVKMTVKGKEPTTLDSISLRGNN 61
FLMKLSHETVTIELKNGTQVHGTI GVDV+MNTHLK VKMT+K +EP L+++S+RGNN
Sbjct: 4 RFLMKLSHETVTIELKNGTQVHGTITGVDVSMNTHLKAVKMTLKNREPVQLETLSIRGNN 63
Query: 62 IRYYILPDSLPLETLLI 78
IRY+ILPDSLPL+TLL+
Sbjct: 64 IRYFILPDSLPLDTLLV 80
>d1d3ba_ b.38.1.1 (A:) D3 core SNRNP protein {Human (Homo sapiens)
[TaxId: 9606]}
Length = 72
Score = 76.4 bits (188), Expect = 3e-20
Identities = 18/69 (26%), Positives = 30/69 (43%)
Query: 1 MNFLMKLSHETVTIELKNGTQVHGTIQGVDVAMNTHLKTVKMTVKGKEPTTLDSISLRGN 60
+ L + VT E G G + + MN + + +T + L+ + +RG
Sbjct: 4 IKVLHEAEGHIVTCETNTGEVYRGKLIEAEDNMNCQMSNITVTYRDGRVAQLEQVYIRGC 63
Query: 61 NIRYYILPD 69
IR+ ILPD
Sbjct: 64 KIRFLILPD 72
>d1m5q1_ b.38.1.1 (1:) Sm-Like archaeal protein Smap3 {Archaeon
Pyrobaculum aerophilum [TaxId: 13773]}
Length = 127
Score = 70.5 bits (173), Expect = 2e-17
Identities = 14/79 (17%), Positives = 21/79 (26%), Gaps = 4/79 (5%)
Query: 3 FLMKLSHETVTIELKNGTQVHGTIQGVDVAMNTHLKTVKMTVKGKEPTTLDSISLRGNNI 62
L L V + L NG G + VD +N L K + + I
Sbjct: 4 ELNNLLGREVQVVLSNGEVYKGVLHAVDNQLNIVLANASNKAGEKFN----RVFIMYRYI 59
Query: 63 RYYILPDSLPLETLLIDDA 81
+ + A
Sbjct: 60 VHIDSTERRIDMREFAKQA 78
>d1mgqa_ b.38.1.1 (A:) Archaeal homoheptameric Sm protein
{Archaeon Methanobacterium thermoautotrophicum [TaxId:
145262]}
Length = 74
Score = 67.4 bits (165), Expect = 7e-17
Identities = 17/64 (26%), Positives = 31/64 (48%)
Query: 1 MNFLMKLSHETVTIELKNGTQVHGTIQGVDVAMNTHLKTVKMTVKGKEPTTLDSISLRGN 60
++ L + V I+LK + G ++ D+ MN L + G+ L ++ +RG+
Sbjct: 8 LDALGNSLNSPVIIKLKGDREFRGVLKSFDLHMNLVLNDAEELEDGEVTRRLGTVLIRGD 67
Query: 61 NIRY 64
NI Y
Sbjct: 68 NIVY 71
>d1n9ra_ b.38.1.1 (A:) Small nuclear ribonucleoprotein F, Smf
{Baker's yeast (Saccharomyces cerevisiae) [TaxId:
4932]}
Length = 68
Score = 67.0 bits (164), Expect = 8e-17
Identities = 21/62 (33%), Positives = 29/62 (46%), Gaps = 1/62 (1%)
Query: 4 LMKLSHETVTIELK-NGTQVHGTIQGVDVAMNTHLKTVKMTVKGKEPTTLDSISLRGNNI 62
L L + V ++LK N T+ GT+ D N L + V G TL I +R NN+
Sbjct: 1 LKGLVNHRVGVKLKFNSTEYRGTLVSTDNYFNLQLNEAEEFVAGVSHGTLGEIFIRCNNV 60
Query: 63 RY 64
Y
Sbjct: 61 LY 62
>d1i4k1_ b.38.1.1 (1:) Archaeal homoheptameric Sm protein
{Archaeon Archaeoglobus fulgidus, AF-Sm1 [TaxId: 2234]}
Length = 72
Score = 66.7 bits (163), Expect = 2e-16
Identities = 16/64 (25%), Positives = 31/64 (48%)
Query: 1 MNFLMKLSHETVTIELKNGTQVHGTIQGVDVAMNTHLKTVKMTVKGKEPTTLDSISLRGN 60
++ L + V + LK G + GT+ G D+ MN L + G+ + S+ +RG+
Sbjct: 5 LDVLNRSLKSPVIVRLKGGREFRGTLDGYDIHMNLVLLDAEEIQNGEVVRKVGSVVIRGD 64
Query: 61 NIRY 64
+ +
Sbjct: 65 TVVF 68
>d1th7a1 b.38.1.1 (A:3-78) Archaeal homoheptameric Sm protein
{Sulfolobus solfataricus [TaxId: 2287]}
Length = 76
Score = 65.9 bits (161), Expect = 3e-16
Identities = 15/62 (24%), Positives = 27/62 (43%)
Query: 3 FLMKLSHETVTIELKNGTQVHGTIQGVDVAMNTHLKTVKMTVKGKEPTTLDSISLRGNNI 62
L + + V ++LK +V G ++ D MN L + L +I +RG+N+
Sbjct: 11 VLAESLNNLVLVKLKGNKEVRGMLRSYDQHMNLVLSDSEEIQSDGSGKKLGTIVIRGDNV 70
Query: 63 RY 64
Sbjct: 71 IL 72
>d1h641_ b.38.1.1 (1:) Archaeal homoheptameric Sm protein
{Archaeon Pyrococcus abyssi [TaxId: 29292]}
Length = 71
Score = 64.7 bits (158), Expect = 9e-16
Identities = 15/64 (23%), Positives = 30/64 (46%)
Query: 1 MNFLMKLSHETVTIELKNGTQVHGTIQGVDVAMNTHLKTVKMTVKGKEPTTLDSISLRGN 60
++ + + + V + LK G + G + G D+ +N L +M G+ I +RG+
Sbjct: 4 LDVIHRSLDKDVLVILKKGFEFRGRLIGYDIHLNVVLADAEMIQDGEVVKRYGKIVIRGD 63
Query: 61 NIRY 64
N+
Sbjct: 64 NVLA 67
>d1ljoa_ b.38.1.1 (A:) Archaeal homoheptameric Sm protein
{Archaeon Archaeoglobus fulgidus, AF-Sm2 [TaxId: 2234]}
Length = 75
Score = 63.2 bits (154), Expect = 4e-15
Identities = 17/65 (26%), Positives = 31/65 (47%), Gaps = 1/65 (1%)
Query: 1 MNFLMKLSHETVTIELKNG-TQVHGTIQGVDVAMNTHLKTVKMTVKGKEPTTLDSISLRG 59
+ + + + +E+K Q+ G ++GVD MN +L ++ +L I LRG
Sbjct: 7 NQMVKSMVGKIIRVEMKGEENQLVGKLEGVDDYMNLYLTNAMECKGEEKVRSLGEIVLRG 66
Query: 60 NNIRY 64
NN+
Sbjct: 67 NNVVL 71
>d1i8fa_ b.38.1.1 (A:) Archaeal homoheptameric Sm protein
{Archaeon Pyrobaculum aerophilum [TaxId: 13773]}
Length = 71
Score = 59.0 bits (143), Expect = 1e-13
Identities = 11/62 (17%), Positives = 29/62 (46%), Gaps = 1/62 (1%)
Query: 3 FLMKLSHETVTIELKNGTQVHGTIQGVDVAMNTHLKTVKMTVKGKEPTTLDSISLRGNNI 62
L + V ++L++ ++ G ++ D +N L+ + + G ++ +RG N+
Sbjct: 6 TLQDSIGKQVLVKLRDSHEIRGILRSFDQHVNLLLEDAEEIIDGNV-YKRGTMVVRGENV 64
Query: 63 RY 64
+
Sbjct: 65 LF 66
>d2fwka1 b.38.1.1 (A:24-115) U6 snRNA-associated sm-like protein
LSM5 {Cryptosporidium parvum [TaxId: 5807]}
Length = 92
Score = 37.5 bits (87), Expect = 4e-05
Identities = 17/87 (19%), Positives = 32/87 (36%), Gaps = 16/87 (18%)
Query: 1 MNFLMKLSHETVTIELKNGTQVHGTIQGVDVAMNTHLKTV---------------KMTVK 45
+ + K + + +K + G ++G D +N L V +K
Sbjct: 7 LALIDKCIGNRIYVVMKGDKEFSGVLRGFDEYVNMVLDDVQEYGFKADEEDISGGNKKLK 66
Query: 46 GKEPTTLDSISLRGNNIRYYILPDSLP 72
L++I L GNN+ ++P P
Sbjct: 67 RVMVNRLETILLSGNNVA-MLVPGGDP 92
>d1d3bb_ b.38.1.1 (B:) B core SNRNP protein {Human (Homo sapiens)
[TaxId: 9606]}
Length = 81
Score = 35.2 bits (81), Expect = 2e-04
Identities = 15/79 (18%), Positives = 28/79 (35%), Gaps = 11/79 (13%)
Query: 4 LMKLSHETVTIELKNGTQVHGTIQGVDVAMNTHLKTVK----------MTVKGKEPTTLD 53
+++ + L++G GT + D MN L + +E L
Sbjct: 3 MLQHIDYRMRCILQDGRIFIGTFKAFDKHMNLILCDCDEFRKIKPKNSKQAEREEKRVLG 62
Query: 54 SISLRGNNIRYYILPDSLP 72
+ LRG N+ + + P
Sbjct: 63 LVLLRGENL-VSMTVEGPP 80
>d1kq1a_ b.38.1.2 (A:) Pleiotropic translational regulator Hfq
{Staphylococcus aureus [TaxId: 1280]}
Length = 60
Score = 28.8 bits (65), Expect = 0.042
Identities = 9/30 (30%), Positives = 13/30 (43%), Gaps = 2/30 (6%)
Query: 3 FLMKL--SHETVTIELKNGTQVHGTIQGVD 30
L + VT+ NG Q+ G I+ D
Sbjct: 6 ALENFKANQTEVTVFFLNGFQMKGVIEEYD 35
>d1sg5a1 b.137.1.2 (A:1-86) Inhibitor of Rho Rof {Escherichia coli
[TaxId: 562]}
Length = 86
Score = 28.9 bits (65), Expect = 0.063
Identities = 11/49 (22%), Positives = 24/49 (48%), Gaps = 3/49 (6%)
Query: 9 HETVTIELKNGTQVHGTIQGVDVAMNTHLKTVKMTVKGKEPTT-LDSIS 56
H +T+ELK+G ++ D+ +++ + + G+ LD I+
Sbjct: 25 HLMLTLELKDGEKLQAKA--SDLVSRKNVEYLVVEAAGETRELRLDKIT 71
>d1u1sa1 b.38.1.2 (A:6-71) Pleiotropic translational regulator Hfq
{Pseudomonas aeruginosa [TaxId: 287]}
Length = 66
Score = 28.1 bits (63), Expect = 0.075
Identities = 10/30 (33%), Positives = 15/30 (50%), Gaps = 2/30 (6%)
Query: 3 FLMKL--SHETVTIELKNGTQVHGTIQGVD 30
+L L V+I L NG ++ G I+ D
Sbjct: 6 YLNTLRKERVPVSIYLVNGIKLQGQIESFD 35
>d1ej8a_ b.1.8.1 (A:) Copper chaperone for superoxide dismutase,
C-terminal domain {Baker's yeast (Saccharomyces
cerevisiae) [TaxId: 4932]}
Length = 140
Score = 28.8 bits (64), Expect = 0.12
Identities = 14/53 (26%), Positives = 20/53 (37%), Gaps = 2/53 (3%)
Query: 8 SHETVTIELKNGTQVHGTIQGVDVAMNTHLKTVKMTVKGKEPTTLDSISLRGN 60
+ + TI+ K T V G + V V N L +TV G S+
Sbjct: 9 TFQKYTIDQKKDTAVRGLARIVQVGENKTL--FDITVNGVPEAGNYHASIHEK 59
>d1b77a1 d.131.1.2 (A:1-110) gp45 sliding clamp {Bacteriophage
RB69 [TaxId: 12353]}
Length = 110
Score = 27.4 bits (61), Expect = 0.26
Identities = 14/70 (20%), Positives = 27/70 (38%), Gaps = 19/70 (27%)
Query: 5 MKLSHETVTIELKNGTQVHGTIQGVDVAMNTHLKTVKMTVKGKEPTTLDSISLRGNNIRY 64
MKLS +T+ I LKN ++ I + +GK + + ++ G
Sbjct: 1 MKLSKDTIAI-LKNFASINSGIL------------LS---QGK---FIMTRAVNGTTYAE 41
Query: 65 YILPDSLPLE 74
+ D + +
Sbjct: 42 ANISDEIDFD 51
>d1vqol1 c.12.1.1 (L:1-150) Ribosomal protein L15 (L15p) {Archaeon
Haloarcula marismortui [TaxId: 2238]}
Length = 150
Score = 27.3 bits (60), Expect = 0.47
Identities = 12/33 (36%), Positives = 13/33 (39%), Gaps = 3/33 (9%)
Query: 100 RGRGGRG---GRGGGRGGRGRGGPRGRGGPPRR 129
R RG R G R G G G RG G +
Sbjct: 6 RQRGSRTHGGGSHKNRRGAGHRGGRGDAGRDKH 38
>d2j01p1 c.12.1.1 (P:5-150) Ribosomal protein L15 (L15p) {Thermus
thermophilus [TaxId: 274]}
Length = 146
Score = 26.5 bits (58), Expect = 0.66
Identities = 16/48 (33%), Positives = 20/48 (41%), Gaps = 3/48 (6%)
Query: 80 DAPRSKGKRDSRRGGGAGGARGR-GGRGGRGG-GRGGRGRGGPRGRGG 125
P + KR R G G G G+ RG +G R G + R GG
Sbjct: 4 PNPGAN-KRRKRVGRGPGSGHGKTATRGHKGQKSRSGGLKDPRRFEGG 50
Score = 23.8 bits (51), Expect = 6.1
Identities = 15/38 (39%), Positives = 17/38 (44%), Gaps = 4/38 (10%)
Query: 95 GAGGARGRGGRGGRGGGRG---GRGRGGPRGRGGPPRR 129
GA R R GRG G G G RG G + R G +
Sbjct: 7 GANKRRKRVGRG-PGSGHGKTATRGHKGQKSRSGGLKD 43
>d2gycj1 c.12.1.1 (J:4-143) Ribosomal protein L15 (L15p)
{Escherichia coli [TaxId: 562]}
Length = 140
Score = 25.8 bits (56), Expect = 1.4
Identities = 17/47 (36%), Positives = 19/47 (40%), Gaps = 2/47 (4%)
Query: 80 DAPRSKGKRDSRRGGGAGGARGR-GGRGGRGGGRGGRGRGGPRGRGG 125
A SK K R G G G G+ GGRG +G G GG
Sbjct: 5 PAEGSK-KAGKRLGRGIGSGLGKTGGRGHKGQKSRSGGGVRRGFEGG 50
>d2zjri1 c.12.1.1 (I:4-144) Ribosomal protein L15 (L15p)
{Deinococcus radiodurans [TaxId: 1299]}
Length = 141
Score = 25.3 bits (55), Expect = 1.7
Identities = 13/36 (36%), Positives = 17/36 (47%), Gaps = 1/36 (2%)
Query: 95 GAGGARGRGGRGGRGGGR-GGRGRGGPRGRGGPPRR 129
G+ R R GRG G + GRG G + R G +
Sbjct: 8 GSRKDRKRVGRGPGGTDKTAGRGHKGQKSRSGAGKG 43
Score = 25.3 bits (55), Expect = 1.8
Identities = 15/45 (33%), Positives = 18/45 (40%), Gaps = 2/45 (4%)
Query: 83 RSKGKRDSRRGGGAGGARGRGGRGGRGGGRGGRGRGGPRGRGGPP 127
R KR R GG GRG +G + R G G+G G
Sbjct: 10 RKDRKRVGRGPGGTDKTAGRGHKGQK--SRSGAGKGAFFEGGRSR 52
>d2j12a1 b.21.1.1 (A:184-365) Adenovirus fiber protein "knob"
domain {Human adenovirus type 37 [TaxId: 52275]}
Length = 182
Score = 24.4 bits (53), Expect = 3.9
Identities = 5/31 (16%), Positives = 10/31 (32%), Gaps = 2/31 (6%)
Query: 17 KNGTQVHGT--IQGVDVAMNTHLKTVKMTVK 45
K G+Q+ + V + +K
Sbjct: 29 KCGSQILANVSLIVVAGKYHIINNKTNPKIK 59
>d1s95a_ d.159.1.3 (A:) Serine/threonine protein phosphatase 5, PP5
{Human (Homo sapiens) [TaxId: 9606]}
Length = 324
Score = 24.9 bits (54), Expect = 3.9
Identities = 16/50 (32%), Positives = 21/50 (42%), Gaps = 3/50 (6%)
Query: 46 GKEPTTLDSISLRGNNIRYYILPDSLPLETLLIDDAPRSKGKRDSRRGGG 95
++ TLD I R PDS P+ LL D G+ S+RG
Sbjct: 182 SEDGVTLDDIR---KIERNRQPPDSGPMCDLLWSDPQPQNGRSISKRGVS 228
>d1rqba1 a.5.7.2 (A:307-474) Transcarboxylase 5S subunit, C-terminal
domain {Propionibacterium freudenreichii shermanii
[TaxId: 1752]}
Length = 168
Score = 24.1 bits (52), Expect = 4.9
Identities = 7/57 (12%), Positives = 15/57 (26%)
Query: 1 MNFLMKLSHETVTIELKNGTQVHGTIQGVDVAMNTHLKTVKMTVKGKEPTTLDSISL 57
+ E + + + G + + + GK+P T L
Sbjct: 52 QAVFNVMMGEYKRMTGEFADIMLGYYGASPADRDPKVVKLAEEQSGKKPITQRPADL 108
>d1knba_ b.21.1.1 (A:) Adenovirus fiber protein "knob" domain
{Human adenovirus type 5 [TaxId: 28285]}
Length = 186
Score = 24.0 bits (52), Expect = 5.3
Identities = 7/28 (25%), Positives = 13/28 (46%), Gaps = 2/28 (7%)
Query: 17 KNGTQVHGT--IQGVDVAMNTHLKTVKM 42
K G+Q+ T + V ++ TV+
Sbjct: 32 KCGSQILATVSVLAVKGSLAPISGTVQS 59
>d2bmfa2 c.37.1.14 (A:178-482) Dengue virus helicase {Dengue virus
type 2 [TaxId: 11060]}
Length = 305
Score = 23.7 bits (50), Expect = 8.7
Identities = 10/60 (16%), Positives = 16/60 (26%), Gaps = 1/60 (1%)
Query: 58 RGNNIRYYILPDSLPLETLLIDDAPRSKGKRDSRRGGGAGGARGRGGRGGRGGGRGGRGR 117
G N + + D +I + A R GR GR + +
Sbjct: 236 MGANFKAERVIDPRRCMKPVILTDGEERVILAGPMPVTHSSAAQRRGRVGR-NPKNENDQ 294
>d2cfua1 d.106.1.3 (A:530-655) Alkylsulfatase SdsA1 {Pseudomonas
aeruginosa [TaxId: 287]}
Length = 126
Score = 23.3 bits (50), Expect = 9.0
Identities = 6/50 (12%), Positives = 16/50 (32%), Gaps = 3/50 (6%)
Query: 1 MNFLMKLSHETVTIELKNGTQVHG---TIQGVDVAMNTHLKTVKMTVKGK 47
+N + E +ELKN + + ++ + + +
Sbjct: 34 INLRLPDIGENYLLELKNSHLNNLRGVQSEDAGQTVSIDRADLNRLLLKE 83
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
0.316 0.141 0.417
Gapped
Lambda K H
0.267 0.0567 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 469,571
Number of extensions: 20456
Number of successful extensions: 142
Number of sequences better than 10.0: 1
Number of HSP's gapped: 102
Number of HSP's successfully gapped: 42
Length of query: 129
Length of database: 2,407,596
Length adjustment: 76
Effective length of query: 53
Effective length of database: 1,364,116
Effective search space: 72298148
Effective search space used: 72298148
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 48 (22.6 bits)