RPS-BLAST 2.2.26 [Sep-21-2011]
Database: scop70_1_75
13,730 sequences; 2,407,596 total letters
Searching..................................................done
Query= psy9934
(158 letters)
>d1i4k1_ b.38.1.1 (1:) Archaeal homoheptameric Sm protein {Archaeon
Archaeoglobus fulgidus, AF-Sm1 [TaxId: 2234]}
Length = 72
Score = 85.9 bits (213), Expect = 1e-23
Identities = 26/72 (36%), Positives = 38/72 (52%)
Query: 76 PCNPKPFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEVL 135
P P LN VI +LK G E++G L D +MN L EEI +G K+G V+
Sbjct: 1 PPRPLDVLNRSLKSPVIVRLKGGREFRGTLDGYDIHMNLVLLDAEEIQNGEVVRKVGSVV 60
Query: 136 IRCNNILYIRGA 147
IR + ++++ A
Sbjct: 61 IRGDTVVFVSPA 72
Score = 74.0 bits (182), Expect = 6e-19
Identities = 25/62 (40%), Positives = 32/62 (51%)
Query: 6 PCNPKPFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEVL 65
P P LN VI +LK G E++G L D +MN L EEI +G K+G V+
Sbjct: 1 PPRPLDVLNRSLKSPVIVRLKGGREFRGTLDGYDIHMNLVLLDAEEIQNGEVVRKVGSVV 60
Query: 66 IR 67
IR
Sbjct: 61 IR 62
>d1mgqa_ b.38.1.1 (A:) Archaeal homoheptameric Sm protein {Archaeon
Methanobacterium thermoautotrophicum [TaxId: 145262]}
Length = 74
Score = 83.2 bits (206), Expect = 1e-22
Identities = 30/67 (44%), Positives = 38/67 (56%)
Query: 78 NPKPFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEVLIR 137
P L VI KLK E++G+L S D +MN L EE+ DG T +LG VLIR
Sbjct: 6 RPLDALGNSLNSPVIIKLKGDREFRGVLKSFDLHMNLVLNDAEELEDGEVTRRLGTVLIR 65
Query: 138 CNNILYI 144
+NI+YI
Sbjct: 66 GDNIVYI 72
Score = 70.9 bits (174), Expect = 8e-18
Identities = 26/60 (43%), Positives = 32/60 (53%)
Query: 8 NPKPFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEVLIR 67
P L VI KLK E++G+L S D +MN L EE+ DG T +LG VLIR
Sbjct: 6 RPLDALGNSLNSPVIIKLKGDREFRGVLKSFDLHMNLVLNDAEELEDGEVTRRLGTVLIR 65
>d1h641_ b.38.1.1 (1:) Archaeal homoheptameric Sm protein {Archaeon
Pyrococcus abyssi [TaxId: 29292]}
Length = 71
Score = 80.1 bits (198), Expect = 2e-21
Identities = 23/67 (34%), Positives = 37/67 (55%)
Query: 78 NPKPFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEVLIR 137
P ++ K V+ LK G E++G L+ D ++N LA E I DG + G+++IR
Sbjct: 2 RPLDVIHRSLDKDVLVILKKGFEFRGRLIGYDIHLNVVLADAEMIQDGEVVKRYGKIVIR 61
Query: 138 CNNILYI 144
+N+L I
Sbjct: 62 GDNVLAI 68
Score = 68.2 bits (167), Expect = 7e-17
Identities = 20/60 (33%), Positives = 32/60 (53%)
Query: 8 NPKPFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEVLIR 67
P ++ K V+ LK G E++G L+ D ++N LA E I DG + G+++IR
Sbjct: 2 RPLDVIHRSLDKDVLVILKKGFEFRGRLIGYDIHLNVVLADAEMIQDGEVVKRYGKIVIR 61
>d1n9ra_ b.38.1.1 (A:) Small nuclear ribonucleoprotein F, Smf
{Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}
Length = 68
Score = 79.7 bits (197), Expect = 2e-21
Identities = 34/68 (50%), Positives = 39/68 (57%), Gaps = 1/68 (1%)
Query: 83 LNLLTGKSVICKLKWGH-EYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEVLIRCNNI 141
L L V KLK+ EY+G LVSTD Y N QL EE + G G LGE+ IRCNN+
Sbjct: 1 LKGLVNHRVGVKLKFNSTEYRGTLVSTDNYFNLQLNEAEEFVAGVSHGTLGEIFIRCNNV 60
Query: 142 LYIRGAEE 149
LYIR
Sbjct: 61 LYIRELPN 68
Score = 64.0 bits (156), Expect = 3e-15
Identities = 27/56 (48%), Positives = 31/56 (55%), Gaps = 1/56 (1%)
Query: 13 LNLLTGKSVICKLKWGH-EYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEVLIR 67
L L V KLK+ EY+G LVSTD Y N QL EE + G G LGE+ IR
Sbjct: 1 LKGLVNHRVGVKLKFNSTEYRGTLVSTDNYFNLQLNEAEEFVAGVSHGTLGEIFIR 56
>d1d3ba_ b.38.1.1 (A:) D3 core SNRNP protein {Human (Homo sapiens)
[TaxId: 9606]}
Length = 72
Score = 79.1 bits (195), Expect = 5e-21
Identities = 18/67 (26%), Positives = 30/67 (44%)
Query: 79 PKPFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEVLIRC 138
P L+ G V C+ G Y+G L+ + MNCQ+++ +L +V IR
Sbjct: 3 PIKVLHEAEGHIVTCETNTGEVYRGKLIEAEDNMNCQMSNITVTYRDGRVAQLEQVYIRG 62
Query: 139 NNILYIR 145
I ++
Sbjct: 63 CKIRFLI 69
Score = 65.6 bits (160), Expect = 1e-15
Identities = 17/59 (28%), Positives = 27/59 (45%)
Query: 9 PKPFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEVLIR 67
P L+ G V C+ G Y+G L+ + MNCQ+++ +L +V IR
Sbjct: 3 PIKVLHEAEGHIVTCETNTGEVYRGKLIEAEDNMNCQMSNITVTYRDGRVAQLEQVYIR 61
>d1b34a_ b.38.1.1 (A:) D1 core SNRNP protein {Human (Homo sapiens)
[TaxId: 9606]}
Length = 80
Score = 77.0 bits (190), Expect = 4e-20
Identities = 19/64 (29%), Positives = 30/64 (46%)
Query: 82 FLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEVLIRCNNI 141
FL L+ ++V +LK G + G + D MN L + + + +L + IR NNI
Sbjct: 5 FLMKLSHETVTIELKNGTQVHGTITGVDVSMNTHLKAVKMTLKNREPVQLETLSIRGNNI 64
Query: 142 LYIR 145
Y
Sbjct: 65 RYFI 68
Score = 64.3 bits (157), Expect = 3e-15
Identities = 15/56 (26%), Positives = 26/56 (46%)
Query: 12 FLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEVLIR 67
FL L+ ++V +LK G + G + D MN L + + + +L + IR
Sbjct: 5 FLMKLSHETVTIELKNGTQVHGTITGVDVSMNTHLKAVKMTLKNREPVQLETLSIR 60
>d1i8fa_ b.38.1.1 (A:) Archaeal homoheptameric Sm protein {Archaeon
Pyrobaculum aerophilum [TaxId: 13773]}
Length = 71
Score = 75.9 bits (187), Expect = 9e-20
Identities = 27/64 (42%), Positives = 38/64 (59%), Gaps = 1/64 (1%)
Query: 82 FLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEVLIRCNNI 141
L GK V+ KL+ HE +GIL S D ++N L EEIIDG+ K G +++R N+
Sbjct: 6 TLQDSIGKQVLVKLRDSHEIRGILRSFDQHVNLLLEDAEEIIDGNVY-KRGTMVVRGENV 64
Query: 142 LYIR 145
L+I
Sbjct: 65 LFIS 68
Score = 63.6 bits (155), Expect = 5e-15
Identities = 26/67 (38%), Positives = 39/67 (58%), Gaps = 3/67 (4%)
Query: 12 FLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEVLIR--SL 69
L GK V+ KL+ HE +GIL S D ++N L EEIIDG+ K G +++R ++
Sbjct: 6 TLQDSIGKQVLVKLRDSHEIRGILRSFDQHVNLLLEDAEEIIDGNVY-KRGTMVVRGENV 64
Query: 70 TMSTPLP 76
+P+P
Sbjct: 65 LFISPVP 71
>d1th7a1 b.38.1.1 (A:3-78) Archaeal homoheptameric Sm protein
{Sulfolobus solfataricus [TaxId: 2287]}
Length = 76
Score = 75.9 bits (187), Expect = 9e-20
Identities = 23/67 (34%), Positives = 34/67 (50%)
Query: 78 NPKPFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEVLIR 137
L V+ KLK E +G+L S D +MN L+ +EEI KLG ++IR
Sbjct: 7 TAHKVLAESLNNLVLVKLKGNKEVRGMLRSYDQHMNLVLSDSEEIQSDGSGKKLGTIVIR 66
Query: 138 CNNILYI 144
+N++ I
Sbjct: 67 GDNVILI 73
Score = 64.7 bits (158), Expect = 2e-15
Identities = 23/70 (32%), Positives = 35/70 (50%), Gaps = 2/70 (2%)
Query: 8 NPKPFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEVLIR 67
L V+ KLK E +G+L S D +MN L+ +EEI KLG ++IR
Sbjct: 7 TAHKVLAESLNNLVLVKLKGNKEVRGMLRSYDQHMNLVLSDSEEIQSDGSGKKLGTIVIR 66
Query: 68 --SLTMSTPL 75
++ + +PL
Sbjct: 67 GDNVILISPL 76
>d1ljoa_ b.38.1.1 (A:) Archaeal homoheptameric Sm protein {Archaeon
Archaeoglobus fulgidus, AF-Sm2 [TaxId: 2234]}
Length = 75
Score = 74.4 bits (183), Expect = 4e-19
Identities = 19/69 (27%), Positives = 33/69 (47%), Gaps = 1/69 (1%)
Query: 78 NPKPFLNLLTGKSVICKLKWG-HEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEVLI 136
P + + GK + ++K ++ G L D YMN L + E LGE+++
Sbjct: 5 LPNQMVKSMVGKIIRVEMKGEENQLVGKLEGVDDYMNLYLTNAMECKGEEKVRSLGEIVL 64
Query: 137 RCNNILYIR 145
R NN++ I+
Sbjct: 65 RGNNVVLIQ 73
Score = 61.7 bits (150), Expect = 3e-14
Identities = 16/61 (26%), Positives = 27/61 (44%), Gaps = 1/61 (1%)
Query: 8 NPKPFLNLLTGKSVICKLKWG-HEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEVLI 66
P + + GK + ++K ++ G L D YMN L + E LGE+++
Sbjct: 5 LPNQMVKSMVGKIIRVEMKGEENQLVGKLEGVDDYMNLYLTNAMECKGEEKVRSLGEIVL 64
Query: 67 R 67
R
Sbjct: 65 R 65
>d1m5q1_ b.38.1.1 (1:) Sm-Like archaeal protein Smap3 {Archaeon
Pyrobaculum aerophilum [TaxId: 13773]}
Length = 127
Score = 72.1 bits (177), Expect = 1e-17
Identities = 21/68 (30%), Positives = 28/68 (41%), Gaps = 4/68 (5%)
Query: 82 FLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEVLIRCNNI 141
LN L G+ V L G YKG+L + D +N LA+ K V I I
Sbjct: 4 ELNNLLGREVQVVLSNGEVYKGVLHAVDNQLNIVLANASNKAG----EKFNRVFIMYRYI 59
Query: 142 LYIRGAEE 149
++I E
Sbjct: 60 VHIDSTER 67
Score = 58.2 bits (141), Expect = 2e-12
Identities = 18/56 (32%), Positives = 23/56 (41%), Gaps = 4/56 (7%)
Query: 12 FLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEVLIR 67
LN L G+ V L G YKG+L + D +N LA+ K V I
Sbjct: 4 ELNNLLGREVQVVLSNGEVYKGVLHAVDNQLNIVLANASNKAG----EKFNRVFIM 55
>d2fwka1 b.38.1.1 (A:24-115) U6 snRNA-associated sm-like protein
LSM5 {Cryptosporidium parvum [TaxId: 5807]}
Length = 92
Score = 59.9 bits (145), Expect = 3e-13
Identities = 15/82 (18%), Positives = 28/82 (34%), Gaps = 15/82 (18%)
Query: 78 NPKPFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEII-------------- 123
P ++ G + +K E+ G+L D Y+N L +E
Sbjct: 5 LPLALIDKCIGNRIYVVMKGDKEFSGVLRGFDEYVNMVLDDVQEYGFKADEEDISGGNKK 64
Query: 124 -DGHCTGKLGEVLIRCNNILYI 144
+L +L+ NN+ +
Sbjct: 65 LKRVMVNRLETILLSGNNVAML 86
Score = 49.1 bits (117), Expect = 3e-09
Identities = 13/75 (17%), Positives = 24/75 (32%), Gaps = 15/75 (20%)
Query: 8 NPKPFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEII-------------- 53
P ++ G + +K E+ G+L D Y+N L +E
Sbjct: 5 LPLALIDKCIGNRIYVVMKGDKEFSGVLRGFDEYVNMVLDDVQEYGFKADEEDISGGNKK 64
Query: 54 -DGHCTGKLGEVLIR 67
+L +L+
Sbjct: 65 LKRVMVNRLETILLS 79
>d1d3bb_ b.38.1.1 (B:) B core SNRNP protein {Human (Homo sapiens)
[TaxId: 9606]}
Length = 81
Score = 56.7 bits (137), Expect = 3e-12
Identities = 15/67 (22%), Positives = 26/67 (38%), Gaps = 10/67 (14%)
Query: 88 GKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEII----------DGHCTGKLGEVLIR 137
+ C L+ G + G + D +MN L +E + LG VL+R
Sbjct: 8 DYRMRCILQDGRIFIGTFKAFDKHMNLILCDCDEFRKIKPKNSKQAEREEKRVLGLVLLR 67
Query: 138 CNNILYI 144
N++ +
Sbjct: 68 GENLVSM 74
Score = 46.7 bits (111), Expect = 2e-08
Identities = 14/60 (23%), Positives = 22/60 (36%), Gaps = 10/60 (16%)
Query: 18 GKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEII----------DGHCTGKLGEVLIR 67
+ C L+ G + G + D +MN L +E + LG VL+R
Sbjct: 8 DYRMRCILQDGRIFIGTFKAFDKHMNLILCDCDEFRKIKPKNSKQAEREEKRVLGLVLLR 67
>d1b34b_ b.38.1.1 (B:) D2 core SNRNP protein {Human (Homo sapiens)
[TaxId: 9606]}
Length = 93
Score = 36.4 bits (84), Expect = 2e-04
Identities = 7/77 (9%), Positives = 28/77 (36%), Gaps = 14/77 (18%)
Query: 82 FLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEII--------------DGHC 127
++ V+ + + G + + D + N L + +E+ +
Sbjct: 8 TQSVKNNTQVLINCRNNKKLLGRVKAFDRHCNMVLENVKEMWTEVPKSGKGKKKSKPVNK 67
Query: 128 TGKLGEVLIRCNNILYI 144
+ ++ +R ++++ +
Sbjct: 68 DRYISKMFLRGDSVIVV 84
Score = 33.3 bits (76), Expect = 0.003
Identities = 13/85 (15%), Positives = 29/85 (34%), Gaps = 6/85 (7%)
Query: 12 FLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEVLIRSLTM 71
++ V+ + + G + + D + N L + +E+ G+ + +
Sbjct: 8 TQSVKNNTQVLINCRNNKKLLGRVKAFDRHCNMVLENVKEMWTEVPKSGKGKKKSKPVNK 67
Query: 72 STPLPCNPKPFLNLLTGKSVICKLK 96
+ L G SVI L+
Sbjct: 68 DRYIS------KMFLRGDSVIVVLR 86
>d1gwya_ b.97.1.1 (A:) Sticholysin II {Carribean sea anemone
(Stoichactis helianthus) [TaxId: 6123]}
Length = 175
Score = 25.6 bits (56), Expect = 2.7
Identities = 6/38 (15%), Positives = 11/38 (28%)
Query: 6 PCNPKPFLNLLTGKSVICKLKWGHEYKGILVSTDGYMN 43
+ + +L G W + G + G M
Sbjct: 125 RADQGMYEDLYYGNPYRGDNGWHEKNLGYGLRMKGIMT 162
Score = 25.6 bits (56), Expect = 2.7
Identities = 6/38 (15%), Positives = 11/38 (28%)
Query: 76 PCNPKPFLNLLTGKSVICKLKWGHEYKGILVSTDGYMN 113
+ + +L G W + G + G M
Sbjct: 125 RADQGMYEDLYYGNPYRGDNGWHEKNLGYGLRMKGIMT 162
>d1oqek_ g.24.1.2 (K:) Tumor necrosis factor receptor superfamily
member 13c, BAFF-R, Br3 {Human (Homo sapiens) [TaxId:
9606]}
Length = 31
Score = 21.9 bits (46), Expect = 9.4
Identities = 10/29 (34%), Positives = 11/29 (37%)
Query: 4 PLPCNPKPFLNLLTGKSVICKLKWGHEYK 32
P PC P +LL V C L K
Sbjct: 1 PTPCVPAECFDLLVRHCVACGLLRTPRPK 29
Score = 21.9 bits (46), Expect = 9.4
Identities = 10/29 (34%), Positives = 11/29 (37%)
Query: 74 PLPCNPKPFLNLLTGKSVICKLKWGHEYK 102
P PC P +LL V C L K
Sbjct: 1 PTPCVPAECFDLLVRHCVACGLLRTPRPK 29
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
0.318 0.139 0.438
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: 635,412
Number of extensions: 28669
Number of successful extensions: 74
Number of sequences better than 10.0: 1
Number of HSP's gapped: 67
Number of HSP's successfully gapped: 32
Length of query: 158
Length of database: 2,407,596
Length adjustment: 78
Effective length of query: 80
Effective length of database: 1,336,656
Effective search space: 106932480
Effective search space used: 106932480
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: 49 (22.9 bits)