RPS-BLAST 2.2.26 [Sep-21-2011]
Database: scop70_1_75
13,730 sequences; 2,407,596 total letters
Searching..................................................done
Query= psy1140
(142 letters)
>d1d3bb_ b.38.1.1 (B:) B core SNRNP protein {Human (Homo sapiens)
[TaxId: 9606]}
Length = 81
Score = 51.0 bits (122), Expect = 4e-10
Identities = 19/51 (37%), Positives = 27/51 (52%), Gaps = 6/51 (11%)
Query: 12 FQGTLKGFDQTINIILDDSHERV------YSPTAGVEQVVLGLHIIRGDNI 56
F GT K FD+ +N+IL D E E+ VLGL ++RG+N+
Sbjct: 21 FIGTFKAFDKHMNLILCDCDEFRKIKPKNSKQAEREEKRVLGLVLLRGENL 71
>d1n9ra_ b.38.1.1 (A:) Small nuclear ribonucleoprotein F, Smf
{Baker's yeast (Saccharomyces cerevisiae) [TaxId:
4932]}
Length = 68
Score = 47.0 bits (112), Expect = 9e-09
Identities = 15/46 (32%), Positives = 23/46 (50%), Gaps = 4/46 (8%)
Query: 12 FQGTLKGFDQTINIILDDSHERVYSPTAGVEQVVLGLHIIRGDNIK 57
++GTL D N+ L+++ E V GV LG IR +N+
Sbjct: 20 YRGTLVSTDNYFNLQLNEAEEFVA----GVSHGTLGEIFIRCNNVL 61
>d1ljoa_ b.38.1.1 (A:) Archaeal homoheptameric Sm protein
{Archaeon Archaeoglobus fulgidus, AF-Sm2 [TaxId: 2234]}
Length = 75
Score = 46.3 bits (110), Expect = 2e-08
Identities = 12/46 (26%), Positives = 22/46 (47%), Gaps = 4/46 (8%)
Query: 12 FQGTLKGFDQTINIILDDSHERVYSPTAGVEQVVLGLHIIRGDNIK 57
G L+G D +N+ L ++ E + LG ++RG+N+
Sbjct: 29 LVGKLEGVDDYMNLYLTNAMECKG----EEKVRSLGEIVLRGNNVV 70
>d2fwka1 b.38.1.1 (A:24-115) U6 snRNA-associated sm-like protein
LSM5 {Cryptosporidium parvum [TaxId: 5807]}
Length = 92
Score = 46.4 bits (110), Expect = 2e-08
Identities = 15/56 (26%), Positives = 25/56 (44%), Gaps = 11/56 (19%)
Query: 12 FQGTLKGFDQTINIILDDSHERVYSP-----------TAGVEQVVLGLHIIRGDNI 56
F G L+GFD+ +N++LDD E + V L ++ G+N+
Sbjct: 28 FSGVLRGFDEYVNMVLDDVQEYGFKADEEDISGGNKKLKRVMVNRLETILLSGNNV 83
>d1th7a1 b.38.1.1 (A:3-78) Archaeal homoheptameric Sm protein
{Sulfolobus solfataricus [TaxId: 2287]}
Length = 76
Score = 46.3 bits (110), Expect = 2e-08
Identities = 16/45 (35%), Positives = 24/45 (53%), Gaps = 4/45 (8%)
Query: 12 FQGTLKGFDQTINIILDDSHERVYSPTAGVEQVVLGLHIIRGDNI 56
+G L+ +DQ +N++L DS E LG +IRGDN+
Sbjct: 30 VRGMLRSYDQHMNLVLSDSEEIQSDG----SGKKLGTIVIRGDNV 70
>d1h641_ b.38.1.1 (1:) Archaeal homoheptameric Sm protein
{Archaeon Pyrococcus abyssi [TaxId: 29292]}
Length = 71
Score = 45.1 bits (107), Expect = 4e-08
Identities = 15/46 (32%), Positives = 23/46 (50%), Gaps = 4/46 (8%)
Query: 12 FQGTLKGFDQTINIILDDSHERVYSPTAGVEQVVLGLHIIRGDNIK 57
F+G L G+D +N++L D+ G G +IRGDN+
Sbjct: 25 FRGRLIGYDIHLNVVLADAEMIQD----GEVVKRYGKIVIRGDNVL 66
>d1mgqa_ b.38.1.1 (A:) Archaeal homoheptameric Sm protein
{Archaeon Methanobacterium thermoautotrophicum [TaxId:
145262]}
Length = 74
Score = 45.1 bits (107), Expect = 5e-08
Identities = 19/46 (41%), Positives = 26/46 (56%), Gaps = 4/46 (8%)
Query: 12 FQGTLKGFDQTINIILDDSHERVYSPTAGVEQVVLGLHIIRGDNIK 57
F+G LK FD +N++L+D+ E G LG +IRGDNI
Sbjct: 29 FRGVLKSFDLHMNLVLNDAEELED----GEVTRRLGTVLIRGDNIV 70
>d1i4k1_ b.38.1.1 (1:) Archaeal homoheptameric Sm protein
{Archaeon Archaeoglobus fulgidus, AF-Sm1 [TaxId: 2234]}
Length = 72
Score = 44.7 bits (106), Expect = 6e-08
Identities = 16/46 (34%), Positives = 25/46 (54%), Gaps = 4/46 (8%)
Query: 12 FQGTLKGFDQTINIILDDSHERVYSPTAGVEQVVLGLHIIRGDNIK 57
F+GTL G+D +N++L D+ E G +G +IRGD +
Sbjct: 26 FRGTLDGYDIHMNLVLLDAEEIQN----GEVVRKVGSVVIRGDTVV 67
>d1b34b_ b.38.1.1 (B:) D2 core SNRNP protein {Human (Homo sapiens)
[TaxId: 9606]}
Length = 93
Score = 45.3 bits (107), Expect = 6e-08
Identities = 10/55 (18%), Positives = 21/55 (38%), Gaps = 10/55 (18%)
Query: 12 FQGTLKGFDQTINIILDDSHERVYSPTAGVEQV----------VLGLHIIRGDNI 56
G +K FD+ N++L++ E + + +RGD++
Sbjct: 27 LLGRVKAFDRHCNMVLENVKEMWTEVPKSGKGKKKSKPVNKDRYISKMFLRGDSV 81
>d1i8fa_ b.38.1.1 (A:) Archaeal homoheptameric Sm protein
{Archaeon Pyrobaculum aerophilum [TaxId: 13773]}
Length = 71
Score = 42.4 bits (100), Expect = 5e-07
Identities = 13/45 (28%), Positives = 25/45 (55%), Gaps = 5/45 (11%)
Query: 12 FQGTLKGFDQTINIILDDSHERVYSPTAGVEQVVLGLHIIRGDNI 56
+G L+ FDQ +N++L+D+ E + G ++RG+N+
Sbjct: 25 IRGILRSFDQHVNLLLEDAEEIIDG-----NVYKRGTMVVRGENV 64
>d1d3ba_ b.38.1.1 (A:) D3 core SNRNP protein {Human (Homo sapiens)
[TaxId: 9606]}
Length = 72
Score = 33.2 bits (76), Expect = 0.002
Identities = 8/46 (17%), Positives = 15/46 (32%), Gaps = 4/46 (8%)
Query: 12 FQGTLKGFDQTINIILDDSHERVYSPTAGVEQVVLGLHIIRGDNIK 57
++G L + +N + + L IRG I+
Sbjct: 25 YRGKLIEAEDNMNCQMSNITVTYRDG----RVAQLEQVYIRGCKIR 66
>d1m5q1_ b.38.1.1 (1:) Sm-Like archaeal protein Smap3 {Archaeon
Pyrobaculum aerophilum [TaxId: 13773]}
Length = 127
Score = 32.8 bits (75), Expect = 0.005
Identities = 9/46 (19%), Positives = 17/46 (36%), Gaps = 8/46 (17%)
Query: 12 FQGTLKGFDQTINIILDDSHERVYSPTAGVEQVVLGLHIIRGDNIK 57
++G L D +NI+L ++ + +V I I
Sbjct: 23 YKGVLHAVDNQLNIVLANASNKAGE---KFNRVF-----IMYRYIV 60
>d1b34a_ b.38.1.1 (A:) D1 core SNRNP protein {Human (Homo sapiens)
[TaxId: 9606]}
Length = 80
Score = 31.2 bits (71), Expect = 0.010
Identities = 14/46 (30%), Positives = 19/46 (41%), Gaps = 4/46 (8%)
Query: 12 FQGTLKGFDQTINIILDDSHERVYSPTAGVEQVVLGLHIIRGDNIK 57
GT+ G D ++N L E V L IRG+NI+
Sbjct: 24 VHGTITGVDVSMNTHLKAVKM----TLKNREPVQLETLSIRGNNIR 65
>d1nbwb_ c.51.3.2 (B:) Glycerol dehydratase reactivase, beta subunit
{Klebsiella pneumoniae [TaxId: 573]}
Length = 113
Score = 24.3 bits (53), Expect = 4.2
Identities = 10/42 (23%), Positives = 15/42 (35%)
Query: 72 DPQLTDNFILLPQIWGIERRTLSFMRFGYRPSVDVLHLSASA 113
DP+ + WG+E + + Y D L A A
Sbjct: 9 DPRGHHAGAINELCWGLEEQGVPCQTITYDGGGDAAALGALA 50
>d1chda_ c.40.1.1 (A:) Methylesterase CheB, C-terminal domain
{Salmonella typhimurium [TaxId: 90371]}
Length = 198
Score = 24.1 bits (52), Expect = 6.8
Identities = 16/102 (15%), Positives = 34/102 (33%), Gaps = 16/102 (15%)
Query: 44 VVLGLHIIRGDNIKIPTKISSSTRSPV-----PDPQLTDNFILLPQ--IWGIERRTLSFM 96
V++ H+ G +++ + V + L + + P + R ++
Sbjct: 34 VIITQHMPPGFTRSFAERLNKLCQISVKEAEDGERVLPGHAYIAPGDKHMELARSGANYQ 93
Query: 97 --------RFGYRPSVDVLHLSASAL-KVESMAFIMGLTLPC 129
+RPSVDVL S + ++ I+
Sbjct: 94 IKIHDGPPVNRHRPSVDVLFHSVAKHAGRNAVGVILTGMGND 135
>d2croa_ a.35.1.2 (A:) cro 434 {Bacteriophage 434 [TaxId: 10712]}
Length = 65
Score = 22.9 bits (49), Expect = 7.8
Identities = 7/38 (18%), Positives = 16/38 (42%)
Query: 87 GIERRTLSFMRFGYRPSVDVLHLSASALKVESMAFIMG 124
G++++++ + G L A AL + + G
Sbjct: 27 GVKQQSIQLIEAGVTKRPRFLFEIAMALNCDPVWLQYG 64
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
0.325 0.140 0.424
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: 519,733
Number of extensions: 21882
Number of successful extensions: 64
Number of sequences better than 10.0: 1
Number of HSP's gapped: 52
Number of HSP's successfully gapped: 16
Length of query: 142
Length of database: 2,407,596
Length adjustment: 77
Effective length of query: 65
Effective length of database: 1,350,386
Effective search space: 87775090
Effective search space used: 87775090
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 48 (22.5 bits)