RPS-BLAST 2.2.26 [Sep-21-2011]
Database: scop70_1_75
13,730 sequences; 2,407,596 total letters
Searching..................................................done
Query= psy11512
(62 letters)
>d1th7a1 b.38.1.1 (A:3-78) Archaeal homoheptameric Sm protein
{Sulfolobus solfataricus [TaxId: 2287]}
Length = 76
Score = 61.7 bits (150), Expect = 1e-15
Identities = 18/60 (30%), Positives = 34/60 (56%)
Query: 1 MSKSHPPELKKFMDKKVTLKLNANRNVTGILRGFDPFMNLVLDEGVEYRKDNTVHNIGMV 60
++++ L + ++ V +KL N+ V G+LR +D MNLVL + E + D + +G +
Sbjct: 4 LAETAHKVLAESLNNLVLVKLKGNKEVRGMLRSYDQHMNLVLSDSEEIQSDGSGKKLGTI 63
>d1i4k1_ b.38.1.1 (1:) Archaeal homoheptameric Sm protein
{Archaeon Archaeoglobus fulgidus, AF-Sm1 [TaxId: 2234]}
Length = 72
Score = 56.6 bits (137), Expect = 1e-13
Identities = 17/52 (32%), Positives = 25/52 (48%)
Query: 9 LKKFMDKKVTLKLNANRNVTGILRGFDPFMNLVLDEGVEYRKDNTVHNIGMV 60
L + + V ++L R G L G+D MNLVL + E + V +G V
Sbjct: 8 LNRSLKSPVIVRLKGGREFRGTLDGYDIHMNLVLLDAEEIQNGEVVRKVGSV 59
>d1mgqa_ b.38.1.1 (A:) Archaeal homoheptameric Sm protein
{Archaeon Methanobacterium thermoautotrophicum [TaxId:
145262]}
Length = 74
Score = 55.5 bits (134), Expect = 4e-13
Identities = 17/52 (32%), Positives = 26/52 (50%)
Query: 9 LKKFMDKKVTLKLNANRNVTGILRGFDPFMNLVLDEGVEYRKDNTVHNIGMV 60
L ++ V +KL +R G+L+ FD MNLVL++ E +G V
Sbjct: 11 LGNSLNSPVIIKLKGDREFRGVLKSFDLHMNLVLNDAEELEDGEVTRRLGTV 62
>d1d3bb_ b.38.1.1 (B:) B core SNRNP protein {Human (Homo sapiens)
[TaxId: 9606]}
Length = 81
Score = 55.6 bits (134), Expect = 4e-13
Identities = 13/46 (28%), Positives = 23/46 (50%)
Query: 8 ELKKFMDKKVTLKLNANRNVTGILRGFDPFMNLVLDEGVEYRKDNT 53
++ + +D ++ L R G + FD MNL+L + E+RK
Sbjct: 2 KMLQHIDYRMRCILQDGRIFIGTFKAFDKHMNLILCDCDEFRKIKP 47
>d1h641_ b.38.1.1 (1:) Archaeal homoheptameric Sm protein
{Archaeon Pyrococcus abyssi [TaxId: 29292]}
Length = 71
Score = 55.1 bits (133), Expect = 5e-13
Identities = 13/52 (25%), Positives = 23/52 (44%)
Query: 9 LKKFMDKKVTLKLNANRNVTGILRGFDPFMNLVLDEGVEYRKDNTVHNIGMV 60
+ + +DK V + L G L G+D +N+VL + + V G +
Sbjct: 7 IHRSLDKDVLVILKKGFEFRGRLIGYDIHLNVVLADAEMIQDGEVVKRYGKI 58
>d1i8fa_ b.38.1.1 (A:) Archaeal homoheptameric Sm protein
{Archaeon Pyrobaculum aerophilum [TaxId: 13773]}
Length = 71
Score = 53.2 bits (128), Expect = 3e-12
Identities = 17/52 (32%), Positives = 28/52 (53%), Gaps = 1/52 (1%)
Query: 9 LKKFMDKKVTLKLNANRNVTGILRGFDPFMNLVLDEGVEYRKDNTVHNIGMV 60
L+ + K+V +KL + + GILR FD +NL+L++ E N G +
Sbjct: 7 LQDSIGKQVLVKLRDSHEIRGILRSFDQHVNLLLEDAEEIIDGNVYK-RGTM 57
>d1n9ra_ b.38.1.1 (A:) Small nuclear ribonucleoprotein F, Smf
{Baker's yeast (Saccharomyces cerevisiae) [TaxId:
4932]}
Length = 68
Score = 53.2 bits (128), Expect = 3e-12
Identities = 15/53 (28%), Positives = 25/53 (47%), Gaps = 1/53 (1%)
Query: 9 LKKFMDKKVTLKLNAN-RNVTGILRGFDPFMNLVLDEGVEYRKDNTVHNIGMV 60
LK ++ +V +KL N G L D + NL L+E E+ + +G +
Sbjct: 1 LKGLVNHRVGVKLKFNSTEYRGTLVSTDNYFNLQLNEAEEFVAGVSHGTLGEI 53
>d1ljoa_ b.38.1.1 (A:) Archaeal homoheptameric Sm protein
{Archaeon Archaeoglobus fulgidus, AF-Sm2 [TaxId: 2234]}
Length = 75
Score = 52.0 bits (125), Expect = 8e-12
Identities = 13/55 (23%), Positives = 27/55 (49%), Gaps = 1/55 (1%)
Query: 7 PELKKFMDKKVTLKL-NANRNVTGILRGFDPFMNLVLDEGVEYRKDNTVHNIGMV 60
+K + K + +++ + G L G D +MNL L +E + + V ++G +
Sbjct: 8 QMVKSMVGKIIRVEMKGEENQLVGKLEGVDDYMNLYLTNAMECKGEEKVRSLGEI 62
>d2fwka1 b.38.1.1 (A:24-115) U6 snRNA-associated sm-like protein
LSM5 {Cryptosporidium parvum [TaxId: 5807]}
Length = 92
Score = 50.2 bits (120), Expect = 8e-11
Identities = 13/44 (29%), Positives = 27/44 (61%)
Query: 9 LKKFMDKKVTLKLNANRNVTGILRGFDPFMNLVLDEGVEYRKDN 52
+ K + ++ + + ++ +G+LRGFD ++N+VLD+ EY
Sbjct: 10 IDKCIGNRIYVVMKGDKEFSGVLRGFDEYVNMVLDDVQEYGFKA 53
>d1m5q1_ b.38.1.1 (1:) Sm-Like archaeal protein Smap3 {Archaeon
Pyrobaculum aerophilum [TaxId: 13773]}
Length = 127
Score = 49.3 bits (118), Expect = 3e-10
Identities = 10/45 (22%), Positives = 19/45 (42%)
Query: 8 ELKKFMDKKVTLKLNANRNVTGILRGFDPFMNLVLDEGVEYRKDN 52
EL + ++V + L+ G+L D +N+VL +
Sbjct: 4 ELNNLLGREVQVVLSNGEVYKGVLHAVDNQLNIVLANASNKAGEK 48
>d1b34a_ b.38.1.1 (A:) D1 core SNRNP protein {Human (Homo sapiens)
[TaxId: 9606]}
Length = 80
Score = 47.0 bits (112), Expect = 9e-10
Identities = 13/52 (25%), Positives = 20/52 (38%)
Query: 9 LKKFMDKKVTLKLNANRNVTGILRGFDPFMNLVLDEGVEYRKDNTVHNIGMV 60
L K + VT++L V G + G D MN L K+ + +
Sbjct: 6 LMKLSHETVTIELKNGTQVHGTITGVDVSMNTHLKAVKMTLKNREPVQLETL 57
>d1d3ba_ b.38.1.1 (A:) D3 core SNRNP protein {Human (Homo sapiens)
[TaxId: 9606]}
Length = 72
Score = 45.9 bits (109), Expect = 3e-09
Identities = 11/52 (21%), Positives = 17/52 (32%)
Query: 9 LKKFMDKKVTLKLNANRNVTGILRGFDPFMNLVLDEGVEYRKDNTVHNIGMV 60
L + VT + N G L + MN + +D V + V
Sbjct: 7 LHEAEGHIVTCETNTGEVYRGKLIEAEDNMNCQMSNITVTYRDGRVAQLEQV 58
>d1b34b_ b.38.1.1 (B:) D2 core SNRNP protein {Human (Homo sapiens)
[TaxId: 9606]}
Length = 93
Score = 40.6 bits (95), Expect = 4e-07
Identities = 10/46 (21%), Positives = 22/46 (47%), Gaps = 2/46 (4%)
Query: 9 LKKFM--DKKVTLKLNANRNVTGILRGFDPFMNLVLDEGVEYRKDN 52
L + + + +V + N+ + G ++ FD N+VL+ E +
Sbjct: 7 LTQSVKNNTQVLINCRNNKKLLGRVKAFDRHCNMVLENVKEMWTEV 52
>d1biaa2 b.34.1.1 (A:271-317) Biotin repressor/biotin holoenzyme
synthetase, C-terminal domain {Escherichia coli [TaxId:
562]}
Length = 47
Score = 27.3 bits (61), Expect = 0.033
Identities = 11/38 (28%), Positives = 21/38 (55%), Gaps = 3/38 (7%)
Query: 12 FMDKKVTLKLNANRNVTGILRGFDPFMNLVL--DEGVE 47
F+++ V L + ++ + GI RG D L+L D ++
Sbjct: 1 FINRPVKL-IIGDKEIFGISRGIDKQGALLLEQDGIIK 37
>d1ycya1 b.38.1.4 (A:5-70) Hypothetical protein PF1955 {Pyrococcus
furiosus [TaxId: 2261]}
Length = 66
Score = 26.0 bits (57), Expect = 0.13
Identities = 9/27 (33%), Positives = 15/27 (55%)
Query: 9 LKKFMDKKVTLKLNANRNVTGILRGFD 35
LK++ KV + + + + TG L FD
Sbjct: 7 LKEWKGHKVAVSVGGDHSFTGTLEDFD 33
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
0.317 0.136 0.388
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: 232,324
Number of extensions: 8056
Number of successful extensions: 32
Number of sequences better than 10.0: 1
Number of HSP's gapped: 30
Number of HSP's successfully gapped: 16
Length of query: 62
Length of database: 2,407,596
Length adjustment: 32
Effective length of query: 30
Effective length of database: 1,968,236
Effective search space: 59047080
Effective search space used: 59047080
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: 41 (21.6 bits)
S2: 47 (22.1 bits)