RPS-BLAST 2.2.26 [Sep-21-2011]
Database: scop70_1_75
13,730 sequences; 2,407,596 total letters
Searching..................................................done
Query= 026665
(235 letters)
>d2zjrg1 c.21.1.1 (G:30-171) Ribosomal protein L13 {Deinococcus
radiodurans [TaxId: 1299]}
Length = 142
Score = 127 bits (319), Expect = 7e-38
Identities = 55/114 (48%), Positives = 77/114 (67%), Gaps = 5/114 (4%)
Query: 93 TWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNA 152
T+ PK ++ W VVDA+ LGRLA+ IA IRGK+ +TP++ G +V+V+NA
Sbjct: 2 TYIPKN-----DEQNWVVVDASGVPLGRLATLIASRIRGKHRPDFTPNMIQGDFVVVINA 56
Query: 153 EKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGR 206
+VA++GKK K+Y R++G GG+K ET + + PER+IEHAV GMLPKGR
Sbjct: 57 AQVALTGKKLDDKVYTRYTGYQGGLKTETAREALSKHPERVIEHAVFGMLPKGR 110
>d2gych1 c.21.1.1 (H:1-140) Ribosomal protein L13 {Escherichia coli
[TaxId: 562]}
Length = 140
Score = 119 bits (300), Expect = 5e-35
Identities = 62/115 (53%), Positives = 82/115 (71%), Gaps = 3/115 (2%)
Query: 93 TWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNA 152
T+ K + WYVVDAT K LGRLA+ +A +RGK+ A YTP VD G Y+IV+NA
Sbjct: 3 TFTAKPET---VKRDWYVVDATGKTLGRLATELARRLRGKHKAEYTPHVDTGDYIIVLNA 59
Query: 153 EKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGRV 207
+KVAV+G KRT K+Y H+G GG+K+ TF+++ R PER+IE AV+GMLPKG +
Sbjct: 60 DKVAVTGNKRTDKVYYHHTGHIGGIKQATFEEMIARRPERVIEIAVKGMLPKGPL 114
>d2j01n1 c.21.1.1 (N:1-139) Ribosomal protein L13 {Thermus
thermophilus [TaxId: 274]}
Length = 139
Score = 118 bits (296), Expect = 2e-34
Identities = 56/115 (48%), Positives = 80/115 (69%), Gaps = 5/115 (4%)
Query: 93 TWYPKAADHRHSDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNA 152
T+ PK + W ++DA K LGRLA+ IA +RGK+ +TP+V MG +V+VVNA
Sbjct: 3 TYVPKQVE-----PRWVLIDAEGKTLGRLATKIATLLRGKHRPDWTPNVAMGDFVVVVNA 57
Query: 153 EKVAVSGKKRTQKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGRV 207
+K+ V+GKK QKIY R+SG PGG+K+ +++ PER++EHAV+GMLPKG +
Sbjct: 58 DKIRVTGKKLEQKIYTRYSGYPGGLKKIPLEKMLATHPERVLEHAVKGMLPKGPL 112
>d1vqoj1 c.21.1.1 (J:4-145) Ribosomal protein L13 {Archaeon
Haloarcula marismortui [TaxId: 2238]}
Length = 142
Score = 84.6 bits (209), Expect = 2e-21
Identities = 26/103 (25%), Positives = 41/103 (39%), Gaps = 16/103 (15%)
Query: 104 SDKTWYVVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRT 163
+VDA D I+GR+AS +A G V VVNAE+ ++G++
Sbjct: 2 EFDADVIVDARDCIMGRVASQVAEQ------------ALDGETVAVVNAERAVITGREEQ 49
Query: 164 QKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGR 206
G + + P+ I + +RGMLP +
Sbjct: 50 IVEKYEKRVDIGNDNGYFYPKR----PDGIFKRTIRGMLPHKK 88
>d1j3aa_ c.21.1.1 (A:) Ribosomal protein L13 {Archaeon Pyrococcus
horikoshii [TaxId: 53953]}
Length = 142
Score = 74.7 bits (183), Expect = 1e-17
Identities = 23/95 (24%), Positives = 39/95 (41%), Gaps = 12/95 (12%)
Query: 110 VVDATDKILGRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKRTQKIYRR 169
+++A ILGRLAS +A + G V++VNAEK ++G + +
Sbjct: 3 IINADGLILGRLASRVAKML------------LEGEEVVIVNAEKAVITGNREVIFSKYK 50
Query: 170 HSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPK 204
+ + + I+ +RGMLP
Sbjct: 51 QRTGLRTLTNPRRGPFYPKRSDEIVRRTIRGMLPW 85
>d2v9va2 a.4.5.35 (A:438-510) C-terminal fragment of elongation
factor SelB {Moorella thermoacetica [TaxId: 1525]}
Length = 73
Score = 28.6 bits (64), Expect = 0.14
Identities = 11/46 (23%), Positives = 23/46 (50%)
Query: 164 QKIYRRHSGRPGGMKEETFDQLQHRIPERIIEHAVRGMLPKGRVSS 209
++ + R+ RPG +EE + R+P R+ + + +GR+
Sbjct: 15 EEFHSRYPLRPGLAREELRSRYFSRLPARVYQALLEEWSREGRLQL 60
>d2gtaa1 a.204.1.2 (A:1-98) Hypothetical protein YpjD {Bacillus
subtilis [TaxId: 1423]}
Length = 98
Score = 25.9 bits (57), Expect = 1.9
Identities = 6/34 (17%), Positives = 13/34 (38%)
Query: 177 MKEETFDQLQHRIPERIIEHAVRGMLPKGRVSSL 210
M ++T +Q + I + P ++ L
Sbjct: 1 MSDKTMKDIQAEVDRYIGQFKEGYFSPLAMMARL 34
>d1b26a1 c.2.1.7 (A:179-412) Glutamate dehydrogenase {Thermotoga
maritima [TaxId: 2336]}
Length = 234
Score = 25.5 bits (55), Expect = 5.7
Identities = 18/104 (17%), Positives = 36/104 (34%), Gaps = 6/104 (5%)
Query: 62 VRCCQNLSLVPDNQRWMFEQSEVNGPDIWNN---TWYPKAADHRHSDKTWYVVDATDKIL 118
V N P+ + + + PDI N + ++ +D L
Sbjct: 133 VVEGANGPTTPEADEILSRRGILVVPDILANAGGVTVSYFEWVQDLQSFFWDLDQVRNAL 192
Query: 119 GRLASTIAIHIRGKNLATYTPSVDMGAYVIVVNAEKVAVSGKKR 162
++ + K Y + AY++ + ++VA + KKR
Sbjct: 193 EKMMKGAFNDVM-KVKEKYNVDMRTAAYILAI--DRVAYATKKR 233
>d1jqka_ e.26.1.2 (A:) Ni-containing carbon monoxide dehydrogenase
{Rhodospirillum rubrum [TaxId: 1085]}
Length = 610
Score = 25.6 bits (56), Expect = 6.1
Identities = 17/104 (16%), Positives = 28/104 (26%), Gaps = 15/104 (14%)
Query: 109 YVVDATDKILGRLASTIAIHIRGKNLATYTPSV------DMGAYVIVVNAEKVAVSGKKR 162
Y + K L +A T+ + G+ L + D +A S R
Sbjct: 90 YSIRDEAK-LYAIAKTLGVATEGRGLLAIVGDLAAITLGDFQNQDYDKPCAWLAASLTPR 148
Query: 163 TQKIYRRHSGRPGGMKEETFDQLQHRI-------PERIIEHAVR 199
K P + + R P +I +R
Sbjct: 149 RVKRLGDLGLLPHNIDASVAQTM-SRTHVGCDADPTNLILGGLR 191
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
0.320 0.130 0.392
Gapped
Lambda K H
0.267 0.0556 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 835,637
Number of extensions: 36318
Number of successful extensions: 127
Number of sequences better than 10.0: 1
Number of HSP's gapped: 124
Number of HSP's successfully gapped: 14
Length of query: 235
Length of database: 2,407,596
Length adjustment: 83
Effective length of query: 152
Effective length of database: 1,268,006
Effective search space: 192736912
Effective search space used: 192736912
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 (21.8 bits)
S2: 51 (23.8 bits)