RPS-BLAST 2.2.26 [Sep-21-2011]
Database: scop70_1_75
13,730 sequences; 2,407,596 total letters
Searching..................................................done
Query= psy1222
(60 letters)
>d1d3bb_ b.38.1.1 (B:) B core SNRNP protein {Human (Homo sapiens)
[TaxId: 9606]}
Length = 81
Score = 56.4 bits (136), Expect = 2e-13
Identities = 21/58 (36%), Positives = 36/58 (62%), Gaps = 1/58 (1%)
Query: 1 MTDGRVLVGTFLCTDRDANVILGSCGEYLSPEVFESKEENGAQEARLLGLVMVPGQHI 58
+ DGR+ +GTF D+ N+IL C E+ + SK+ +E R+LGLV++ G+++
Sbjct: 15 LQDGRIFIGTFKAFDKHMNLILCDCDEFRKIKPKNSKQAER-EEKRVLGLVLLRGENL 71
>d2fwka1 b.38.1.1 (A:24-115) U6 snRNA-associated sm-like protein
LSM5 {Cryptosporidium parvum [TaxId: 5807]}
Length = 92
Score = 47.6 bits (113), Expect = 8e-10
Identities = 9/62 (14%), Positives = 21/62 (33%), Gaps = 4/62 (6%)
Query: 1 MTDGRVLVGTFLCTDRDANVILGSCGEYL----SPEVFESKEENGAQEARLLGLVMVPGQ 56
M + G D N++L EY ++ ++ L +++ G
Sbjct: 22 MKGDKEFSGVLRGFDEYVNMVLDDVQEYGFKADEEDISGGNKKLKRVMVNRLETILLSGN 81
Query: 57 HI 58
++
Sbjct: 82 NV 83
>d1h641_ b.38.1.1 (1:) Archaeal homoheptameric Sm protein
{Archaeon Pyrococcus abyssi [TaxId: 29292]}
Length = 71
Score = 38.5 bits (90), Expect = 2e-06
Identities = 9/58 (15%), Positives = 18/58 (31%), Gaps = 11/58 (18%)
Query: 1 MTDGRVLVGTFLCTDRDANVILGSCGEYLSPEVFESKEENGAQEARLLGLVMVPGQHI 58
+ G G + D NV+L E + G +++ G ++
Sbjct: 19 LKKGFEFRGRLIGYDIHLNVVLADAEMIQDGE-----------VVKRYGKIVIRGDNV 65
>d1i4k1_ b.38.1.1 (1:) Archaeal homoheptameric Sm protein
{Archaeon Archaeoglobus fulgidus, AF-Sm1 [TaxId: 2234]}
Length = 72
Score = 38.1 bits (89), Expect = 2e-06
Identities = 13/58 (22%), Positives = 21/58 (36%), Gaps = 11/58 (18%)
Query: 1 MTDGRVLVGTFLCTDRDANVILGSCGEYLSPEVFESKEENGAQEARLLGLVMVPGQHI 58
+ GR GT D N++L E + E R +G V++ G +
Sbjct: 20 LKGGREFRGTLDGYDIHMNLVLLDAEEIQNGE-----------VVRKVGSVVIRGDTV 66
>d1mgqa_ b.38.1.1 (A:) Archaeal homoheptameric Sm protein
{Archaeon Methanobacterium thermoautotrophicum [TaxId:
145262]}
Length = 74
Score = 37.8 bits (88), Expect = 3e-06
Identities = 13/58 (22%), Positives = 19/58 (32%), Gaps = 11/58 (18%)
Query: 1 MTDGRVLVGTFLCTDRDANVILGSCGEYLSPEVFESKEENGAQEARLLGLVMVPGQHI 58
+ R G D N++L E E R LG V++ G +I
Sbjct: 23 LKGDREFRGVLKSFDLHMNLVLNDAEELEDGE-----------VTRRLGTVLIRGDNI 69
>d1th7a1 b.38.1.1 (A:3-78) Archaeal homoheptameric Sm protein
{Sulfolobus solfataricus [TaxId: 2287]}
Length = 76
Score = 37.0 bits (86), Expect = 8e-06
Identities = 9/58 (15%), Positives = 21/58 (36%), Gaps = 11/58 (18%)
Query: 1 MTDGRVLVGTFLCTDRDANVILGSCGEYLSPEVFESKEENGAQEARLLGLVMVPGQHI 58
+ + + G D+ N++L E S + LG +++ G ++
Sbjct: 24 LKGNKEVRGMLRSYDQHMNLVLSDSEEIQSDG-----------SGKKLGTIVIRGDNV 70
>d1i8fa_ b.38.1.1 (A:) Archaeal homoheptameric Sm protein
{Archaeon Pyrobaculum aerophilum [TaxId: 13773]}
Length = 71
Score = 35.8 bits (83), Expect = 2e-05
Identities = 10/58 (17%), Positives = 21/58 (36%), Gaps = 12/58 (20%)
Query: 1 MTDGRVLVGTFLCTDRDANVILGSCGEYLSPEVFESKEENGAQEARLLGLVMVPGQHI 58
+ D + G D+ N++L E + V G ++V G+++
Sbjct: 19 LRDSHEIRGILRSFDQHVNLLLEDAEEIIDGNV------------YKRGTMVVRGENV 64
>d1b34b_ b.38.1.1 (B:) D2 core SNRNP protein {Human (Homo sapiens)
[TaxId: 9606]}
Length = 93
Score = 32.5 bits (74), Expect = 5e-04
Identities = 10/61 (16%), Positives = 23/61 (37%), Gaps = 3/61 (4%)
Query: 1 MTDGRVLVGTFLCTDRDANVILGSCGEYLSP---EVFESKEENGAQEARLLGLVMVPGQH 57
+ + L+G DR N++L + E + K+ + R + + + G
Sbjct: 21 CRNNKKLLGRVKAFDRHCNMVLENVKEMWTEVPKSGKGKKKSKPVNKDRYISKMFLRGDS 80
Query: 58 I 58
+
Sbjct: 81 V 81
>d1ljoa_ b.38.1.1 (A:) Archaeal homoheptameric Sm protein
{Archaeon Archaeoglobus fulgidus, AF-Sm2 [TaxId: 2234]}
Length = 75
Score = 30.1 bits (68), Expect = 0.004
Identities = 12/56 (21%), Positives = 21/56 (37%), Gaps = 11/56 (19%)
Query: 3 DGRVLVGTFLCTDRDANVILGSCGEYLSPEVFESKEENGAQEARLLGLVMVPGQHI 58
+ LVG D N+ L + E E + R LG +++ G ++
Sbjct: 25 EENQLVGKLEGVDDYMNLYLTNAMECKGEE-----------KVRSLGEIVLRGNNV 69
>d1n9ra_ b.38.1.1 (A:) Small nuclear ribonucleoprotein F, Smf
{Baker's yeast (Saccharomyces cerevisiae) [TaxId:
4932]}
Length = 68
Score = 25.4 bits (56), Expect = 0.21
Identities = 9/57 (15%), Positives = 19/57 (33%), Gaps = 11/57 (19%)
Query: 2 TDGRVLVGTFLCTDRDANVILGSCGEYLSPEVFESKEENGAQEARLLGLVMVPGQHI 58
+ GT + TD N+ L E+++ LG + + ++
Sbjct: 15 FNSTEYRGTLVSTDNYFNLQLNEAEEFVAGVSH-----------GTLGEIFIRCNNV 60
>d1ztwa1 e.8.1.2 (A:24-278) MMLV reverse transcriptase {Moloney
murine leukemia virus, MoMLV [TaxId: 11801]}
Length = 255
Score = 24.5 bits (52), Expect = 0.80
Identities = 9/36 (25%), Positives = 17/36 (47%), Gaps = 4/36 (11%)
Query: 21 ILGSCGEYLSPEVFESKEENGAQEARLLGLVMVPGQ 56
LG+ G S + K + ++ + LG ++ GQ
Sbjct: 223 TLGNLGYRASAK----KAQICQKQVKYLGYLLKEGQ 254
>d1m5q1_ b.38.1.1 (1:) Sm-Like archaeal protein Smap3 {Archaeon
Pyrobaculum aerophilum [TaxId: 13773]}
Length = 127
Score = 22.8 bits (49), Expect = 2.8
Identities = 6/25 (24%), Positives = 12/25 (48%)
Query: 1 MTDGRVLVGTFLCTDRDANVILGSC 25
+++G V G D N++L +
Sbjct: 17 LSNGEVYKGVLHAVDNQLNIVLANA 41
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 0.138 0.408
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: 219,172
Number of extensions: 7039
Number of successful extensions: 17
Number of sequences better than 10.0: 1
Number of HSP's gapped: 16
Number of HSP's successfully gapped: 12
Length of query: 60
Length of database: 2,407,596
Length adjustment: 30
Effective length of query: 30
Effective length of database: 1,995,696
Effective search space: 59870880
Effective search space used: 59870880
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: 47 (22.1 bits)