RPS-BLAST 2.2.26 [Sep-21-2011]
Database: scop70_1_75
13,730 sequences; 2,407,596 total letters
Searching..................................................done
Query= psy800
(204 letters)
>d2fwka1 b.38.1.1 (A:24-115) U6 snRNA-associated sm-like protein
LSM5 {Cryptosporidium parvum [TaxId: 5807]}
Length = 92
Score = 74.1 bits (182), Expect = 2e-18
Identities = 39/85 (45%), Positives = 56/85 (65%), Gaps = 12/85 (14%)
Query: 114 STLLPLELVDKCIGSRIHIIMKNDKEIVGTLNGFDDFVNMLLEDVTEYESTPEGRRIT-- 171
+ +LPL L+DKCIG+RI+++MK DKE G L GFD++VNM+L+DV EY + I+
Sbjct: 2 NIILPLALIDKCIGNRIYVVMKGDKEFSGVLRGFDEYVNMVLDDVQEYGFKADEEDISGG 61
Query: 172 ----------KLDQILLNGNNITML 186
+L+ ILL+GNN+ ML
Sbjct: 62 NKKLKRVMVNRLETILLSGNNVAML 86
Score = 58.3 bits (141), Expect = 2e-12
Identities = 27/47 (57%), Positives = 39/47 (82%)
Query: 11 STLLPLELVDKCIGSRIHIIMKNDKEIVGTLNGFDDFVNMLLEDVTD 57
+ +LPL L+DKCIG+RI+++MK DKE G L GFD++VNM+L+DV +
Sbjct: 2 NIILPLALIDKCIGNRIYVVMKGDKEFSGVLRGFDEYVNMVLDDVQE 48
>d1ljoa_ b.38.1.1 (A:) Archaeal homoheptameric Sm protein {Archaeon
Archaeoglobus fulgidus, AF-Sm2 [TaxId: 2234]}
Length = 75
Score = 67.5 bits (165), Expect = 5e-16
Identities = 23/74 (31%), Positives = 44/74 (59%), Gaps = 4/74 (5%)
Query: 114 STLLPLELVDKCIGSRIHIIMKNDK-EIVGTLNGFDDFVNMLLEDVTEYESTPEGRRITK 172
+ +LP ++V +G I + MK ++ ++VG L G DD++N+ L + E + + R
Sbjct: 2 AMVLPNQMVKSMVGKIIRVEMKGEENQLVGKLEGVDDYMNLYLTNAMECKGEEKVR---S 58
Query: 173 LDQILLNGNNITML 186
L +I+L GNN+ ++
Sbjct: 59 LGEIVLRGNNVVLI 72
Score = 51.3 bits (123), Expect = 7e-10
Identities = 16/52 (30%), Positives = 31/52 (59%), Gaps = 1/52 (1%)
Query: 11 STLLPLELVDKCIGSRIHIIMKNDK-EIVGTLNGFDDFVNMLLEDVTDCHDS 61
+ +LP ++V +G I + MK ++ ++VG L G DD++N+ L + +C
Sbjct: 2 AMVLPNQMVKSMVGKIIRVEMKGEENQLVGKLEGVDDYMNLYLTNAMECKGE 53
>d1mgqa_ b.38.1.1 (A:) Archaeal homoheptameric Sm protein {Archaeon
Methanobacterium thermoautotrophicum [TaxId: 145262]}
Length = 74
Score = 65.9 bits (161), Expect = 2e-15
Identities = 22/69 (31%), Positives = 37/69 (53%), Gaps = 3/69 (4%)
Query: 118 PLELVDKCIGSRIHIIMKNDKEIVGTLNGFDDFVNMLLEDVTEYESTPEGRRITKLDQIL 177
PL+ + + S + I +K D+E G L FD +N++L D E E +G +L +L
Sbjct: 7 PLDALGNSLNSPVIIKLKGDREFRGVLKSFDLHMNLVLNDAEELE---DGEVTRRLGTVL 63
Query: 178 LNGNNITML 186
+ G+NI +
Sbjct: 64 IRGDNIVYI 72
Score = 50.5 bits (121), Expect = 2e-09
Identities = 15/46 (32%), Positives = 25/46 (54%)
Query: 15 PLELVDKCIGSRIHIIMKNDKEIVGTLNGFDDFVNMLLEDVTDCHD 60
PL+ + + S + I +K D+E G L FD +N++L D + D
Sbjct: 7 PLDALGNSLNSPVIIKLKGDREFRGVLKSFDLHMNLVLNDAEELED 52
>d1h641_ b.38.1.1 (1:) Archaeal homoheptameric Sm protein {Archaeon
Pyrococcus abyssi [TaxId: 29292]}
Length = 71
Score = 65.5 bits (160), Expect = 3e-15
Identities = 16/69 (23%), Positives = 38/69 (55%), Gaps = 3/69 (4%)
Query: 118 PLELVDKCIGSRIHIIMKNDKEIVGTLNGFDDFVNMLLEDVTEYESTPEGRRITKLDQIL 177
PL+++ + + + +I+K E G L G+D +N++L D + +G + + +I+
Sbjct: 3 PLDVIHRSLDKDVLVILKKGFEFRGRLIGYDIHLNVVLADAEMIQ---DGEVVKRYGKIV 59
Query: 178 LNGNNITML 186
+ G+N+ +
Sbjct: 60 IRGDNVLAI 68
Score = 51.2 bits (123), Expect = 8e-10
Identities = 13/47 (27%), Positives = 25/47 (53%)
Query: 15 PLELVDKCIGSRIHIIMKNDKEIVGTLNGFDDFVNMLLEDVTDCHDS 61
PL+++ + + + +I+K E G L G+D +N++L D D
Sbjct: 3 PLDVIHRSLDKDVLVILKKGFEFRGRLIGYDIHLNVVLADAEMIQDG 49
>d1i4k1_ b.38.1.1 (1:) Archaeal homoheptameric Sm protein {Archaeon
Archaeoglobus fulgidus, AF-Sm1 [TaxId: 2234]}
Length = 72
Score = 65.1 bits (159), Expect = 3e-15
Identities = 17/69 (24%), Positives = 41/69 (59%), Gaps = 3/69 (4%)
Query: 118 PLELVDKCIGSRIHIIMKNDKEIVGTLNGFDDFVNMLLEDVTEYESTPEGRRITKLDQIL 177
PL+++++ + S + + +K +E GTL+G+D +N++L D E + G + K+ ++
Sbjct: 4 PLDVLNRSLKSPVIVRLKGGREFRGTLDGYDIHMNLVLLDAEEIQ---NGEVVRKVGSVV 60
Query: 178 LNGNNITML 186
+ G+ + +
Sbjct: 61 IRGDTVVFV 69
Score = 49.7 bits (119), Expect = 3e-09
Identities = 13/46 (28%), Positives = 30/46 (65%)
Query: 15 PLELVDKCIGSRIHIIMKNDKEIVGTLNGFDDFVNMLLEDVTDCHD 60
PL+++++ + S + + +K +E GTL+G+D +N++L D + +
Sbjct: 4 PLDVLNRSLKSPVIVRLKGGREFRGTLDGYDIHMNLVLLDAEEIQN 49
>d1th7a1 b.38.1.1 (A:3-78) Archaeal homoheptameric Sm protein
{Sulfolobus solfataricus [TaxId: 2287]}
Length = 76
Score = 64.7 bits (158), Expect = 6e-15
Identities = 17/69 (24%), Positives = 40/69 (57%), Gaps = 3/69 (4%)
Query: 118 PLELVDKCIGSRIHIIMKNDKEIVGTLNGFDDFVNMLLEDVTEYESTPEGRRITKLDQIL 177
+++ + + + + + +K +KE+ G L +D +N++L D E +S G+ KL I+
Sbjct: 8 AHKVLAESLNNLVLVKLKGNKEVRGMLRSYDQHMNLVLSDSEEIQSDGSGK---KLGTIV 64
Query: 178 LNGNNITML 186
+ G+N+ ++
Sbjct: 65 IRGDNVILI 73
Score = 48.9 bits (117), Expect = 6e-09
Identities = 9/43 (20%), Positives = 25/43 (58%)
Query: 15 PLELVDKCIGSRIHIIMKNDKEIVGTLNGFDDFVNMLLEDVTD 57
+++ + + + + + +K +KE+ G L +D +N++L D +
Sbjct: 8 AHKVLAESLNNLVLVKLKGNKEVRGMLRSYDQHMNLVLSDSEE 50
>d1d3ba_ b.38.1.1 (A:) D3 core SNRNP protein {Human (Homo sapiens)
[TaxId: 9606]}
Length = 72
Score = 62.9 bits (153), Expect = 3e-14
Identities = 13/70 (18%), Positives = 31/70 (44%), Gaps = 3/70 (4%)
Query: 117 LPLELVDKCIGSRIHIIMKNDKEIVGTLNGFDDFVNMLLEDVTEYESTPEGRRITKLDQI 176
+P++++ + G + + G L +D +N + ++T R+ +L+Q+
Sbjct: 2 VPIKVLHEAEGHIVTCETNTGEVYRGKLIEAEDNMNCQMSNITVT---YRDGRVAQLEQV 58
Query: 177 LLNGNNITML 186
+ G I L
Sbjct: 59 YIRGCKIRFL 68
Score = 50.5 bits (121), Expect = 1e-09
Identities = 7/48 (14%), Positives = 21/48 (43%)
Query: 14 LPLELVDKCIGSRIHIIMKNDKEIVGTLNGFDDFVNMLLEDVTDCHDS 61
+P++++ + G + + G L +D +N + ++T +
Sbjct: 2 VPIKVLHEAEGHIVTCETNTGEVYRGKLIEAEDNMNCQMSNITVTYRD 49
>d1m5q1_ b.38.1.1 (1:) Sm-Like archaeal protein Smap3 {Archaeon
Pyrobaculum aerophilum [TaxId: 13773]}
Length = 127
Score = 59.3 bits (144), Expect = 3e-12
Identities = 9/70 (12%), Positives = 30/70 (42%), Gaps = 7/70 (10%)
Query: 119 LELVDKCIGSRIHIIMKNDKEIVGTLNGFDDFVNMLLEDVTEYESTPEGRRITKLDQILL 178
+ ++ +G + +++ N + G L+ D+ +N++L + + K +++ +
Sbjct: 2 VAELNNLLGREVQVVLSNGEVYKGVLHAVDNQLNIVLANASNKAG-------EKFNRVFI 54
Query: 179 NGNNITMLGL 188
I +
Sbjct: 55 MYRYIVHIDS 64
Score = 49.3 bits (118), Expect = 1e-08
Identities = 7/42 (16%), Positives = 24/42 (57%)
Query: 16 LELVDKCIGSRIHIIMKNDKEIVGTLNGFDDFVNMLLEDVTD 57
+ ++ +G + +++ N + G L+ D+ +N++L + ++
Sbjct: 2 VAELNNLLGREVQVVLSNGEVYKGVLHAVDNQLNIVLANASN 43
>d1d3bb_ b.38.1.1 (B:) B core SNRNP protein {Human (Homo sapiens)
[TaxId: 9606]}
Length = 81
Score = 57.1 bits (138), Expect = 6e-12
Identities = 17/70 (24%), Positives = 31/70 (44%), Gaps = 7/70 (10%)
Query: 124 KCIGSRIHIIMKNDKEIVGTLNGFDDFVNMLLEDVTEY-------ESTPEGRRITKLDQI 176
+ I R+ I+++ + +GT FD +N++L D E+ E L +
Sbjct: 5 QHIDYRMRCILQDGRIFIGTFKAFDKHMNLILCDCDEFRKIKPKNSKQAEREEKRVLGLV 64
Query: 177 LLNGNNITML 186
LL G N+ +
Sbjct: 65 LLRGENLVSM 74
Score = 43.6 bits (103), Expect = 5e-07
Identities = 10/37 (27%), Positives = 21/37 (56%)
Query: 21 KCIGSRIHIIMKNDKEIVGTLNGFDDFVNMLLEDVTD 57
+ I R+ I+++ + +GT FD +N++L D +
Sbjct: 5 QHIDYRMRCILQDGRIFIGTFKAFDKHMNLILCDCDE 41
>d1b34b_ b.38.1.1 (B:) D2 core SNRNP protein {Human (Homo sapiens)
[TaxId: 9606]}
Length = 93
Score = 57.2 bits (138), Expect = 6e-12
Identities = 17/82 (20%), Positives = 41/82 (50%), Gaps = 13/82 (15%)
Query: 118 PLELVDKCI--GSRIHIIMKNDKEIVGTLNGFDDFVNMLLEDVTEYESTPEGRRITK--- 172
PL ++ + + +++ I +N+K+++G + FD NM+LE+V E + K
Sbjct: 3 PLSVLTQSVKNNTQVLINCRNNKKLLGRVKAFDRHCNMVLENVKEMWTEVPKSGKGKKKS 62
Query: 173 --------LDQILLNGNNITML 186
+ ++ L G+++ ++
Sbjct: 63 KPVNKDRYISKMFLRGDSVIVV 84
Score = 46.8 bits (111), Expect = 4e-08
Identities = 13/45 (28%), Positives = 29/45 (64%), Gaps = 2/45 (4%)
Query: 15 PLELVDKCI--GSRIHIIMKNDKEIVGTLNGFDDFVNMLLEDVTD 57
PL ++ + + +++ I +N+K+++G + FD NM+LE+V +
Sbjct: 3 PLSVLTQSVKNNTQVLINCRNNKKLLGRVKAFDRHCNMVLENVKE 47
>d1i8fa_ b.38.1.1 (A:) Archaeal homoheptameric Sm protein {Archaeon
Pyrobaculum aerophilum [TaxId: 13773]}
Length = 71
Score = 56.6 bits (137), Expect = 7e-12
Identities = 18/65 (27%), Positives = 30/65 (46%), Gaps = 4/65 (6%)
Query: 123 DKCIGSRIHIIMKNDKEIVGTLNGFDDFVNMLLEDVTEYESTPEGRRITKLDQILLNGNN 182
IG ++ + +++ EI G L FD VN+LLED E K +++ G N
Sbjct: 8 QDSIGKQVLVKLRDSHEIRGILRSFDQHVNLLLEDAEEIIDGNV----YKRGTMVVRGEN 63
Query: 183 ITMLG 187
+ +
Sbjct: 64 VLFIS 68
Score = 43.9 bits (104), Expect = 3e-07
Identities = 15/43 (34%), Positives = 24/43 (55%)
Query: 20 DKCIGSRIHIIMKNDKEIVGTLNGFDDFVNMLLEDVTDCHDSH 62
IG ++ + +++ EI G L FD VN+LLED + D +
Sbjct: 8 QDSIGKQVLVKLRDSHEIRGILRSFDQHVNLLLEDAEEIIDGN 50
>d1n9ra_ b.38.1.1 (A:) Small nuclear ribonucleoprotein F, Smf
{Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}
Length = 68
Score = 54.7 bits (132), Expect = 3e-11
Identities = 16/65 (24%), Positives = 29/65 (44%), Gaps = 4/65 (6%)
Query: 124 KCIGSRIHIIMK-NDKEIVGTLNGFDDFVNMLLEDVTEYESTPEGRRITKLDQILLNGNN 182
+ R+ + +K N E GTL D++ N+ L + E+ G L +I + NN
Sbjct: 3 GLVNHRVGVKLKFNSTEYRGTLVSTDNYFNLQLNEAEEFV---AGVSHGTLGEIFIRCNN 59
Query: 183 ITMLG 187
+ +
Sbjct: 60 VLYIR 64
Score = 38.9 bits (91), Expect = 2e-05
Identities = 10/42 (23%), Positives = 19/42 (45%), Gaps = 1/42 (2%)
Query: 21 KCIGSRIHIIMK-NDKEIVGTLNGFDDFVNMLLEDVTDCHDS 61
+ R+ + +K N E GTL D++ N+ L + +
Sbjct: 3 GLVNHRVGVKLKFNSTEYRGTLVSTDNYFNLQLNEAEEFVAG 44
>d1b34a_ b.38.1.1 (A:) D1 core SNRNP protein {Human (Homo sapiens)
[TaxId: 9606]}
Length = 80
Score = 52.0 bits (125), Expect = 4e-10
Identities = 19/68 (27%), Positives = 32/68 (47%), Gaps = 3/68 (4%)
Query: 121 LVDKCIGSRIHIIMKNDKEIVGTLNGFDDFVNMLLEDVTEYESTPEGRRITKLDQILLNG 180
+ K + I +KN ++ GT+ G D +N L+ V T + R +L+ + + G
Sbjct: 5 FLMKLSHETVTIELKNGTQVHGTITGVDVSMNTHLKAVKM---TLKNREPVQLETLSIRG 61
Query: 181 NNITMLGL 188
NNI L
Sbjct: 62 NNIRYFIL 69
Score = 37.8 bits (88), Expect = 7e-05
Identities = 11/39 (28%), Positives = 19/39 (48%)
Query: 18 LVDKCIGSRIHIIMKNDKEIVGTLNGFDDFVNMLLEDVT 56
+ K + I +KN ++ GT+ G D +N L+ V
Sbjct: 5 FLMKLSHETVTIELKNGTQVHGTITGVDVSMNTHLKAVK 43
>d2vxfa1 b.38.1.5 (A:6-85) LSM14 homolog A (Lsm14a) {Zebrafish
(Danio rerio) [TaxId: 7955]}
Length = 80
Score = 31.2 bits (71), Expect = 0.014
Identities = 19/68 (27%), Positives = 29/68 (42%), Gaps = 7/68 (10%)
Query: 126 IGSRIHIIMKNDKEIVGTLNGFDDFVNML-LEDVTEY--ESTPEGRRI----TKLDQILL 178
IGS+I +I K + G L D + + L V + E P R I + I+
Sbjct: 3 IGSKISLISKAEIRYEGILYTIDTENSTVALAKVRSFGTEDRPTDRPIAPRDETFEYIIF 62
Query: 179 NGNNITML 186
G++I L
Sbjct: 63 RGSDIKDL 70
Score = 25.8 bits (57), Expect = 1.2
Identities = 9/23 (39%), Positives = 12/23 (52%)
Query: 23 IGSRIHIIMKNDKEIVGTLNGFD 45
IGS+I +I K + G L D
Sbjct: 3 IGSKISLISKAEIRYEGILYTID 25
>d1ycya1 b.38.1.4 (A:5-70) Hypothetical protein PF1955 {Pyrococcus
furiosus [TaxId: 2261]}
Length = 66
Score = 29.1 bits (65), Expect = 0.069
Identities = 16/60 (26%), Positives = 30/60 (50%), Gaps = 5/60 (8%)
Query: 121 LVDKCI----GSRIHIIMKNDKEIVGTLNGFDDFVNMLLEDVTEYESTPEGRRITKLDQI 176
L++K + G ++ + + D GTL FD+ V +LL+DV + + + L+ I
Sbjct: 2 LLEKVLKEWKGHKVAVSVGGDHSFTGTLEDFDEEV-ILLKDVVDVIGNRGKQMLIGLEDI 60
>d1jfib_ a.22.1.3 (B:) Negative cofactor 2, NC2, beta chain {Human
(Homo sapiens) [TaxId: 9606]}
Length = 135
Score = 26.4 bits (58), Expect = 1.4
Identities = 9/47 (19%), Positives = 17/47 (36%)
Query: 123 DKCIGSRIHIIMKNDKEIVGTLNGFDDFVNMLLEDVTEYESTPEGRR 169
+ C S I GF +++ + E + E ++ RR
Sbjct: 48 EICNKSEKKTISPEHVIQALESLGFGSYISEVKEVLQECKTVALKRR 94
>d1zfsa1 a.39.1.2 (A:1-93) Calcyclin (S100) {Rat (Rattus
norvegicus), s100a1 [TaxId: 10116]}
Length = 93
Score = 25.7 bits (56), Expect = 2.1
Identities = 7/35 (20%), Positives = 17/35 (48%), Gaps = 1/35 (2%)
Query: 29 IIMKNDKEIVGTLNGFDDFVNMLLEDVTDCHDSHL 63
I+ + D+ G ++ F +FV ++ C++
Sbjct: 57 IMKELDENGDGEVD-FQEFVVLVAALTVACNNFFW 90
>d1a4pa_ a.39.1.2 (A:) Calcyclin (S100) {Human (Homo sapiens), P11
s100a10, calpactin [TaxId: 9606]}
Length = 92
Score = 24.2 bits (52), Expect = 6.7
Identities = 7/37 (18%), Positives = 16/37 (43%), Gaps = 1/37 (2%)
Query: 29 IIMKNDKEIVGTLNGFDDFVNMLLEDVTDCHDSHLLS 65
I+ D+ G + F F +++ C+D ++
Sbjct: 54 IMKDLDQCRDGKVG-FQSFFSLIAGLTIACNDYFVVH 89
>d3c1va1 a.39.1.2 (A:2-94) Calcyclin (S100) {Human (Homo sapiens),
s100a4 [TaxId: 9606]}
Length = 93
Score = 24.1 bits (52), Expect = 6.9
Identities = 4/34 (11%), Positives = 12/34 (35%), Gaps = 1/34 (2%)
Query: 29 IIMKNDKEIVGTLNGFDDFVNMLLEDVTDCHDSH 62
++ D ++ F ++ L C++
Sbjct: 57 LMSNLDSNRDNEVD-FQEYCVFLSCIAMMCNEFF 89
>d1o1xa_ c.121.1.1 (A:) Putative sugar-phosphate isomerase
{Thermotoga maritima [TaxId: 2336]}
Length = 145
Score = 24.5 bits (53), Expect = 7.6
Identities = 9/52 (17%), Positives = 17/52 (32%), Gaps = 13/52 (25%)
Query: 125 CIGSRIHIIMKNDKEIVGTLNGFDDFVNMLLEDVTEYESTPEGRRITKLDQI 176
+ R+ V+ L T ++ RRI K+D++
Sbjct: 107 VLPGRLI-----------GAELAFWIVDTFLS--TPFDGGRHERRIRKIDEV 145
>d1m1nb_ c.92.2.3 (B:) Nitrogenase iron-molybdenum protein, beta
chain {Azotobacter vinelandii [TaxId: 354]}
Length = 522
Score = 25.0 bits (54), Expect = 7.6
Identities = 8/32 (25%), Positives = 11/32 (34%), Gaps = 4/32 (12%)
Query: 39 GTLNGFDDFVNMLLEDVTDCHDSHLLSYFASD 70
G + VN +LE D A+D
Sbjct: 488 GAMQILTTLVNSILER----LDEETRGMQATD 515
>d2gkpa1 d.351.1.1 (A:1-164) Hypothetical protein NMB0488
{Neisseria meningitidis [TaxId: 487]}
Length = 164
Score = 24.4 bits (53), Expect = 8.0
Identities = 9/38 (23%), Positives = 18/38 (47%)
Query: 10 PSTLLPLELVDKCIGSRIHIIMKNDKEIVGTLNGFDDF 47
P +LPL+ ++ +G+ + + N + V DF
Sbjct: 38 PPHILPLDTDNETLGTTVLQALANSRTFVYDSPEDQDF 75
Score = 24.4 bits (53), Expect = 8.0
Identities = 9/38 (23%), Positives = 18/38 (47%)
Query: 113 PSTLLPLELVDKCIGSRIHIIMKNDKEIVGTLNGFDDF 150
P +LPL+ ++ +G+ + + N + V DF
Sbjct: 38 PPHILPLDTDNETLGTTVLQALANSRTFVYDSPEDQDF 75
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
0.322 0.138 0.417
Gapped
Lambda K H
0.267 0.0616 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 768,373
Number of extensions: 35130
Number of successful extensions: 159
Number of sequences better than 10.0: 1
Number of HSP's gapped: 150
Number of HSP's successfully gapped: 49
Length of query: 204
Length of database: 2,407,596
Length adjustment: 81
Effective length of query: 123
Effective length of database: 1,295,466
Effective search space: 159342318
Effective search space used: 159342318
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 (21.9 bits)
S2: 51 (23.7 bits)