RPS-BLAST 2.2.26 [Sep-21-2011]
Database: scop70_1_75
13,730 sequences; 2,407,596 total letters
Searching..................................................done
Query= psy6276
(271 letters)
>d2nn6i1 b.40.4.5 (I:61-185) Exosome component 1, EXOSC1 {Human
(Homo sapiens) [TaxId: 9606]}
Length = 125
Score = 104 bits (260), Expect = 8e-29
Identities = 45/98 (45%), Positives = 70/98 (71%), Gaps = 2/98 (2%)
Query: 66 IVPTPGDVVTARIMAVQQHLCKAHVISVGNTALSRTFRALLRRENVRATEIDRIEMYKCY 125
++P G +VT ++ ++ K H++ VG+ L +FR +R+E+VRATE D++E+YK +
Sbjct: 3 LLPDVGAIVTCKVSSINSRFAKVHILYVGSMPLKNSFRGTIRKEDVRATEKDKVEIYKSF 62
Query: 126 RPGDIILAR-LPLKELHS-YQLSTAENELGVVIALSEA 161
RPGDI+LA+ + L + S Y L+TAENELGVV+A SE+
Sbjct: 63 RPGDIVLAKVISLGDAQSNYLLTTAENELGVVVAHSES 100
>d2nn6i2 b.84.4.2 (I:6-60) Exosome component 1, EXOSC1 {Human
(Homo sapiens) [TaxId: 9606]}
Length = 55
Score = 58.2 bits (141), Expect = 2e-12
Identities = 21/57 (36%), Positives = 34/57 (59%), Gaps = 4/57 (7%)
Query: 7 CIPGQRICQLDSDIVGGRGTYVRQGYLYSTLAGTVSINKHVEDNKEVSVIEVSSYKK 63
CIPG+R+C L+ + G GTY R GY++S+LAG + + +N + V+ V +
Sbjct: 3 CIPGERLCNLE-EGSPGSGTYTRHGYIFSSLAGCLMKSS---ENGALPVVSVVRETE 55
>d2nn6h2 b.84.4.2 (H:25-72) Ribosomal RNA-processing protein 4,
RRP4 {Human (Homo sapiens) [TaxId: 9606]}
Length = 48
Score = 39.2 bits (92), Expect = 2e-05
Identities = 16/51 (31%), Positives = 28/51 (54%), Gaps = 6/51 (11%)
Query: 6 ICIPGQRICQLDSDIVGGRGTYVRQGYLYSTLAGTVSINKHVEDNKEVSVI 56
+ +PG I D+ + G GTY+ + L +++AG+V + V NK + V
Sbjct: 2 LVVPGDTITT-DTGFMRGHGTYMGEEKLIASVAGSV---ERV--NKLICVK 46
>d2ba0a2 b.84.4.2 (A:2-52) Exosome complex RNA-binding protein 1,
ECR1 {Archaeoglobus fulgidus [TaxId: 2234]}
Length = 51
Score = 38.4 bits (90), Expect = 3e-05
Identities = 14/51 (27%), Positives = 20/51 (39%), Gaps = 7/51 (13%)
Query: 6 ICIPGQRICQLDSDIVGGRGTYVRQGYLYSTLAGTVSINKHVEDNKEVSVI 56
I +PG + + G GTYV G +Y+ + G V VI
Sbjct: 3 IVLPGDLLS--TNPRAAGYGTYVEGGKVYAKIIGLFDQ-----TETHVRVI 46
>d2je6i2 b.84.4.2 (I:7-65) Exosome complex RNA-binding protein 1,
ECR1 {Sulfolobus solfataricus [TaxId: 2287]}
Length = 59
Score = 36.6 bits (85), Expect = 2e-04
Identities = 10/51 (19%), Positives = 19/51 (37%), Gaps = 5/51 (9%)
Query: 6 ICIPGQRICQLDSDIVGGRGTYVRQGYLYSTLAGTVSINKHVEDNKEVSVI 56
I +PG+ + + + I YST+ G + + + VI
Sbjct: 10 IVVPGELLAEGEFQIPWSPYILKINSKYYSTVVGLFDV-----KDTQFEVI 55
>d12asa_ d.104.1.1 (A:) Asparagine synthetase {Escherichia coli
[TaxId: 562]}
Length = 327
Score = 32.3 bits (74), Expect = 0.047
Identities = 11/38 (28%), Positives = 18/38 (47%), Gaps = 1/38 (2%)
Query: 165 FRSSEKLTNDIEFLK-QEKLKLYEELSSSQKENEILRQ 201
F + L + I F+ QE L Y +L + +E I +
Sbjct: 152 FGLAPFLPDQIHFVHSQELLSRYPDLDAKGRERAIAKD 189
>d2ja9a1 b.40.4.5 (A:62-151) S1-domain of exosome component 3
(RRP40) {Saccharomyces cerevisiae [TaxId: 4932]}
Length = 90
Score = 27.1 bits (60), Expect = 0.68
Identities = 11/68 (16%), Positives = 25/68 (36%), Gaps = 10/68 (14%)
Query: 67 VPTPGDVVTARIMAVQQHLCKAHVISVGNTALSRTFRALLRRENVRATEIDRIEMYKCYR 126
+P+ D V I+ K + ++++S ++ A + +
Sbjct: 4 IPSVNDFVIGVIIGTFSDSYKVS-LQNFSSSVSLSYMAFPNASK---------KNRPTLQ 53
Query: 127 PGDIILAR 134
GD++ AR
Sbjct: 54 VGDLVYAR 61
>d1v8qa_ b.84.4.1 (A:) Ribosomal protein L27 {Thermus thermophilus
[TaxId: 274]}
Length = 66
Score = 26.2 bits (58), Expect = 1.0
Identities = 10/49 (20%), Positives = 18/49 (36%), Gaps = 9/49 (18%)
Query: 20 IVGGRGTYVRQG---------YLYSTLAGTVSINKHVEDNKEVSVIEVS 59
+V RGT + G L++ + G V + V V ++
Sbjct: 18 LVRQRGTRFKPGKNVGMGRDFTLFALVDGVVEFQDRGRLGRYVHVRPLA 66
>d1uwva1 b.40.4.12 (A:15-74) rRNA (Uracil-5-)-methyltransferase
RumA, N-terminal domain {Escherichia coli [TaxId: 562]}
Length = 60
Score = 25.7 bits (57), Expect = 1.3
Identities = 5/33 (15%), Positives = 13/33 (39%), Gaps = 2/33 (6%)
Query: 63 KEVIVP--TPGDVVTARIMAVQQHLCKAHVISV 93
K + +P P + + ++ +A V+
Sbjct: 23 KTLFIPGLLPQENAEVTVTEDKKQYARAKVVRR 55
>d1tvia_ d.92.1.15 (A:) Hypothetical protein TM1509 {Thermotoga
maritima [TaxId: 2336]}
Length = 150
Score = 26.9 bits (59), Expect = 2.0
Identities = 17/67 (25%), Positives = 36/67 (53%), Gaps = 7/67 (10%)
Query: 175 IEFLKQEKLKLYEELSSSQKENEILRQTTGDLEVRLMQMNEVKGEMEFKIKELNKKNQSE 234
I L + K E + +K EI+++ GD+ V ++ ++E + IKELN++ + +
Sbjct: 2 IRILGEGKGSKLLE-NLKEKLEEIVKKEIGDVHVNVILVSEDE------IKELNQQFRGQ 54
Query: 235 SKLSDTI 241
+ +D +
Sbjct: 55 DRPTDVL 61
>d3besl1 a.26.1.3 (L:0-126) Interferon-gamma {Human (Homo sapiens)
[TaxId: 9606]}
Length = 127
Score = 26.6 bits (59), Expect = 2.1
Identities = 19/69 (27%), Positives = 30/69 (43%), Gaps = 8/69 (11%)
Query: 181 EKLKLYEELSSSQKEN------EILRQTTGDLEVRLMQMNEVKGEMEFKIKELNKKNQSE 234
E LK Y S + IL+ + + ++MQ V FK+ + K +QS
Sbjct: 10 ENLKKYFNAGHSDVADNGTLFLGILKNWKEESDRKIMQSQIV--SFYFKLFKNFKDDQSI 67
Query: 235 SKLSDTIRE 243
K +TI+E
Sbjct: 68 QKSVETIKE 76
>d1yvca1 b.40.4.12 (A:1-69) Hypothetical protein MMP0076
{Methanococcus maripaludis [TaxId: 39152]}
Length = 69
Score = 25.0 bits (55), Expect = 3.0
Identities = 8/31 (25%), Positives = 14/31 (45%), Gaps = 2/31 (6%)
Query: 63 KEVIVP--TPGDVVTARIMAVQQHLCKAHVI 91
V VP G V+ ++ AV++ A +
Sbjct: 39 FVVFVPNAEKGSVINVKVTAVKEKFAFAERV 69
>d2nn6g1 b.40.4.5 (G:107-194) S1-domain of exosome component 3
(RRP40) {Human (Homo sapiens) [TaxId: 9606]}
Length = 88
Score = 24.4 bits (53), Expect = 5.8
Identities = 14/69 (20%), Positives = 22/69 (31%), Gaps = 11/69 (15%)
Query: 67 VPTPGDVVTARIMAVQQHLCKAHVISVGNTALSRTFRALLRRENVRATEIDRIEMYKCYR 126
VP GD V + A + VG + A L + + E +
Sbjct: 3 VPVKGDHVIGIVTAKSG---DIFKVDVGG-----SEPASL---SYLSFEGATKRNRPNVQ 51
Query: 127 PGDIILARL 135
GD+I +
Sbjct: 52 VGDLIYGQF 60
>d1yeza1 b.40.4.12 (A:1-68) Hypothetical protein MM1357
{Methanosarcina mazei [TaxId: 2209]}
Length = 68
Score = 23.9 bits (52), Expect = 7.0
Identities = 8/31 (25%), Positives = 12/31 (38%), Gaps = 2/31 (6%)
Query: 63 KEVIVP--TPGDVVTARIMAVQQHLCKAHVI 91
+ VP GD V ++ V A V+
Sbjct: 37 FVIFVPGTKVGDEVRIKVERVLPKFAFASVV 67
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
0.313 0.130 0.347
Gapped
Lambda K H
0.267 0.0680 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 920,331
Number of extensions: 42082
Number of successful extensions: 135
Number of sequences better than 10.0: 1
Number of HSP's gapped: 132
Number of HSP's successfully gapped: 24
Length of query: 271
Length of database: 2,407,596
Length adjustment: 84
Effective length of query: 187
Effective length of database: 1,254,276
Effective search space: 234549612
Effective search space used: 234549612
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 52 (23.9 bits)