RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy9430
(255 letters)
>1j3a_A 50S ribosomal protein L13P; rRNA binding, ribosomal assembly,
ribosome; 1.60A {Pyrococcus horikoshii} SCOP: c.21.1.1
Length = 142
Score = 199 bits (508), Expect = 1e-65
Identities = 57/143 (39%), Positives = 78/143 (54%), Gaps = 2/143 (1%)
Query: 87 ILIDGRGHLLGRLASIVAKTILNGNRVVVVRAELLNISGNFFRNKLKYLAFLNKRCNVNP 146
+I+ G +LGRLAS VAK +L G VV+V AE I+GN KY R NP
Sbjct: 2 RIINADGLILGRLASRVAKMLLEGEEVVIVNAEKAVITGNREVIFSKYKQRTGLRTLTNP 61
Query: 147 ARGPFHYRAPARIFWKTVRGMTPHKLDRGAKALKRLKVYEGIPPKYARRQRLCVPTALRT 206
RGPF+ + I +T+RGM P K DRG KA +RLKVY GIP ++ +Q + A +
Sbjct: 62 RRGPFYPKRSDEIVRRTIRGMLPWKTDRGRKAFRRLKVYVGIPKEFQDKQLETIVEAHVS 121
Query: 207 VCLKPGRSYCSVGRISHEVGWKY 229
Y +VG ++ +G K+
Sbjct: 122 --RLSRPKYVTVGEVAKFLGGKF 142
Score = 117 bits (295), Expect = 2e-33
Identities = 32/77 (41%), Positives = 41/77 (53%)
Query: 9 ILIDGRGHLLGRLASIVAKTILNGNRVVVVRAELLNISGNFFRNKLKYLAFLNKRCNVNP 68
+I+ G +LGRLAS VAK +L G VV+V AE I+GN KY R NP
Sbjct: 2 RIINADGLILGRLASRVAKMLLEGEEVVIVNAEKAVITGNREVIFSKYKQRTGLRTLTNP 61
Query: 69 ARGPFHYRAPARIFWKT 85
RGPF+ + I +T
Sbjct: 62 RRGPFYPKRSDEIVRRT 78
>3jyw_M 60S ribosomal protein L16(A); eukaryotic ribosome, RACK1 protein,
flexible fitting; 8.90A {Thermomyces lanuginosus} PDB:
1s1i_M
Length = 178
Score = 199 bits (508), Expect = 5e-65
Identities = 89/158 (56%), Positives = 113/158 (71%)
Query: 87 ILIDGRGHLLGRLASIVAKTILNGNRVVVVRAELLNISGNFFRNKLKYLAFLNKRCNVNP 146
++IDG+GHL+GRLAS+VAK +LNG ++VVVRAE LNISG FFRNKLKY FL K N
Sbjct: 1 VVIDGKGHLVGRLASVVAKQLLNGQKIVVVRAEELNISGEFFRNKLKYHDFLRKATAFNK 60
Query: 147 ARGPFHYRAPARIFWKTVRGMTPHKLDRGAKALKRLKVYEGIPPKYARRQRLCVPTALRT 206
RGPFH+RAP+RIF+K +RGM HK RG AL+RLKV+EGIPP Y +++R+ VP ALR
Sbjct: 61 TRGPFHFRAPSRIFYKALRGMVSHKTARGKAALERLKVFEGIPPPYDKKKRVVVPQALRV 120
Query: 207 VCLKPGRSYCSVGRISHEVGWKYKTIVRHLERKRREKS 244
+ LKPGR Y ++G++S VGWK +
Sbjct: 121 LRLKPGRKYTTLGKLSTSVGWKAAAAAAAAAAAAAAAA 158
Score = 106 bits (267), Expect = 6e-29
Identities = 52/77 (67%), Positives = 63/77 (81%)
Query: 9 ILIDGRGHLLGRLASIVAKTILNGNRVVVVRAELLNISGNFFRNKLKYLAFLNKRCNVNP 68
++IDG+GHL+GRLAS+VAK +LNG ++VVVRAE LNISG FFRNKLKY FL K N
Sbjct: 1 VVIDGKGHLVGRLASVVAKQLLNGQKIVVVRAEELNISGEFFRNKLKYHDFLRKATAFNK 60
Query: 69 ARGPFHYRAPARIFWKT 85
RGPFH+RAP+RIF+K
Sbjct: 61 TRGPFHFRAPSRIFYKA 77
>4a17_I RPL13A, 60S ribosomal protein L13A; eukaryotic ribosome, ribosome,
eukaryotic initiation factor 60S, translation, large
ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB:
4a1a_I 4a1c_I 4a1e_I
Length = 198
Score = 187 bits (475), Expect = 6e-60
Identities = 84/163 (51%), Positives = 113/163 (69%)
Query: 84 KTPILIDGRGHLLGRLASIVAKTILNGNRVVVVRAELLNISGNFFRNKLKYLAFLNKRCN 143
++ID +GHLLGRLAS VAK +L+G R+VVVR E +NISG+ FRN++K+ FLNK N
Sbjct: 3 DKLVVIDAKGHLLGRLASYVAKELLSGQRIVVVRTEAINISGSLFRNRVKFSEFLNKWMN 62
Query: 144 VNPARGPFHYRAPARIFWKTVRGMTPHKLDRGAKALKRLKVYEGIPPKYARRQRLCVPTA 203
NP RG H+RAP+RIFW+ VRGM PHK +GA AL+RLK++EGIP Y R ++ V A
Sbjct: 63 HNPRRGVQHFRAPSRIFWRAVRGMLPHKTPKGAAALERLKIFEGIPTPYDRVKKQVVVDA 122
Query: 204 LRTVCLKPGRSYCSVGRISHEVGWKYKTIVRHLERKRREKSIE 246
L+ L+ R C +G +S VGW +T++ LE KRR ++
Sbjct: 123 LKVQRLRNSRPVCKLGDLSASVGWGKQTLIEKLEEKRRARAKT 165
Score = 104 bits (260), Expect = 1e-27
Identities = 48/82 (58%), Positives = 63/82 (76%)
Query: 4 ISRKPILIDGRGHLLGRLASIVAKTILNGNRVVVVRAELLNISGNFFRNKLKYLAFLNKR 63
+ K ++ID +GHLLGRLAS VAK +L+G R+VVVR E +NISG+ FRN++K+ FLNK
Sbjct: 1 MFDKLVVIDAKGHLLGRLASYVAKELLSGQRIVVVRTEAINISGSLFRNRVKFSEFLNKW 60
Query: 64 CNVNPARGPFHYRAPARIFWKT 85
N NP RG H+RAP+RIFW+
Sbjct: 61 MNHNPRRGVQHFRAPSRIFWRA 82
>3izc_K 60S ribosomal protein RPL16 (L13P); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins; NMR {Saccharomyces cerevisiae} PDB: 3izs_K
3o58_P 3o5h_P 3u5e_O 3u5i_O
Length = 199
Score = 186 bits (474), Expect = 9e-60
Identities = 97/163 (59%), Positives = 124/163 (76%)
Query: 84 KTPILIDGRGHLLGRLASIVAKTILNGNRVVVVRAELLNISGNFFRNKLKYLAFLNKRCN 143
+ ++IDG+GHL+GRLAS+VAK +LNG ++VVVRAE LNISG FFRNKLKY FL K
Sbjct: 4 EPVVVIDGKGHLVGRLASVVAKQLLNGQKIVVVRAEELNISGEFFRNKLKYHDFLRKATA 63
Query: 144 VNPARGPFHYRAPARIFWKTVRGMTPHKLDRGAKALKRLKVYEGIPPKYARRQRLCVPTA 203
N RGPFH+RAP+RIF+K +RGM HK RG AL+RLKV+EGIPP Y +++R+ VP A
Sbjct: 64 FNKTRGPFHFRAPSRIFYKALRGMVSHKTARGKAALERLKVFEGIPPPYDKKKRVVVPQA 123
Query: 204 LRTVCLKPGRSYCSVGRISHEVGWKYKTIVRHLERKRREKSIE 246
LR + LKPGR Y ++G++S VGWKY+ +V LE KR+ S E
Sbjct: 124 LRVLRLKPGRKYTTLGKLSTSVGWKYEDVVAKLEAKRKVSSAE 166
Score = 104 bits (261), Expect = 8e-28
Identities = 52/80 (65%), Positives = 63/80 (78%)
Query: 6 RKPILIDGRGHLLGRLASIVAKTILNGNRVVVVRAELLNISGNFFRNKLKYLAFLNKRCN 65
++IDG+GHL+GRLAS+VAK +LNG ++VVVRAE LNISG FFRNKLKY FL K
Sbjct: 4 EPVVVIDGKGHLVGRLASVVAKQLLNGQKIVVVRAEELNISGEFFRNKLKYHDFLRKATA 63
Query: 66 VNPARGPFHYRAPARIFWKT 85
N RGPFH+RAP+RIF+K
Sbjct: 64 FNKTRGPFHFRAPSRIFYKA 83
>1vq8_J 50S ribosomal protein L13P; ribosome 50S, protein-protein complex,
RNA-RNA complex, PROT complex, peptidyl transferase
reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A
{Haloarcula marismortui} SCOP: c.21.1.1 PDB: 1giy_M
1jj2_I 1k73_K* 1k8a_K* 1k9m_K* 1kc8_K* 1kd1_K* 1kqs_I*
1m1k_K* 1m90_K* 1ml5_m* 1n8r_K* 1nji_K* 1q7y_K* 1q81_K*
1q82_K* 1q86_K* 1qvf_I 1qvg_I 1s72_J* ...
Length = 145
Score = 182 bits (465), Expect = 7e-59
Identities = 46/146 (31%), Positives = 72/146 (49%), Gaps = 9/146 (6%)
Query: 84 KTPILIDGRGHLLGRLASIVAKTILNGNRVVVVRAELLNISGNFFRNKLKYLAFLNKRCN 143
+++D R ++GR+AS VA+ L+G V VV AE I+G + KY KR +
Sbjct: 7 DADVIVDARDCIMGRVASQVAEQALDGETVAVVNAERAVITGREEQIVEKY----EKRVD 62
Query: 144 VNPARGPFHYRAPARIFWKTVRGMTPHKLDRGAKALKRLKVYEGIPPKYARRQRLCVPTA 203
+ G F+ + P IF +T+RGM PHK RG +A + ++VY G P T+
Sbjct: 63 IGNDNGYFYPKRPDGIFKRTIRGMLPHKKQRGREAFESVRVYLGNPYDEDGEV--LDGTS 120
Query: 204 LRTVCLKPGRSYCSVGRISHEVGWKY 229
L + + ++G IS +G
Sbjct: 121 LDRL---SNIKFVTLGEISETLGANK 143
Score = 112 bits (283), Expect = 1e-31
Identities = 27/79 (34%), Positives = 42/79 (53%), Gaps = 4/79 (5%)
Query: 7 KPILIDGRGHLLGRLASIVAKTILNGNRVVVVRAELLNISGNFFRNKLKYLAFLNKRCNV 66
+++D R ++GR+AS VA+ L+G V VV AE I+G + KY KR ++
Sbjct: 8 ADVIVDARDCIMGRVASQVAEQALDGETVAVVNAERAVITGREEQIVEKY----EKRVDI 63
Query: 67 NPARGPFHYRAPARIFWKT 85
G F+ + P IF +T
Sbjct: 64 GNDNGYFYPKRPDGIFKRT 82
>3iz5_K 60S ribosomal protein L13A (L13P); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins, ribosome; 5.50A {Triticum aestivum} PDB:
3izr_K
Length = 206
Score = 179 bits (454), Expect = 1e-56
Identities = 89/161 (55%), Positives = 115/161 (71%)
Query: 84 KTPILIDGRGHLLGRLASIVAKTILNGNRVVVVRAELLNISGNFFRNKLKYLAFLNKRCN 143
+++D R H+LGRLASIVAK +LNG RVVVVR E + +SG R K+KYL FL KR N
Sbjct: 9 AKRVVVDARHHMLGRLASIVAKELLNGQRVVVVRCEEICMSGGLVRQKMKYLRFLRKRMN 68
Query: 144 VNPARGPFHYRAPARIFWKTVRGMTPHKLDRGAKALKRLKVYEGIPPKYARRQRLCVPTA 203
P+ GP H+RAPA+I W+T+RGM PHK RG AL RLK YEG+PP Y R +R+ +P A
Sbjct: 69 TKPSHGPIHFRAPAKILWRTIRGMIPHKTARGEAALARLKAYEGVPPPYDRTKRMVIPDA 128
Query: 204 LRTVCLKPGRSYCSVGRISHEVGWKYKTIVRHLERKRREKS 244
L+ + L+PG YC +G++S EVGW Y +R LE KR+EK+
Sbjct: 129 LKVLRLQPGHRYCLLGQLSKEVGWNYADTIRELEEKRKEKA 169
Score = 105 bits (262), Expect = 6e-28
Identities = 48/83 (57%), Positives = 61/83 (73%)
Query: 3 GISRKPILIDGRGHLLGRLASIVAKTILNGNRVVVVRAELLNISGNFFRNKLKYLAFLNK 62
G+ K +++D R H+LGRLASIVAK +LNG RVVVVR E + +SG R K+KYL FL K
Sbjct: 6 GVCAKRVVVDARHHMLGRLASIVAKELLNGQRVVVVRCEEICMSGGLVRQKMKYLRFLRK 65
Query: 63 RCNVNPARGPFHYRAPARIFWKT 85
R N P+ GP H+RAPA+I W+T
Sbjct: 66 RMNTKPSHGPIHFRAPAKILWRT 88
>2zkr_j 60S ribosomal protein L13A; protein-RNA complex, 60S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris}
Length = 203
Score = 172 bits (437), Expect = 4e-54
Identities = 99/166 (59%), Positives = 128/166 (77%)
Query: 84 KTPILIDGRGHLLGRLASIVAKTILNGNRVVVVRAELLNISGNFFRNKLKYLAFLNKRCN 143
+++DGRGHLLGRLA+IVAK +L G +VVVVR E +NISGNF+RNKL YLAFL KR N
Sbjct: 4 VQVLVLDGRGHLLGRLAAIVAKQVLLGRKVVVVRCEGINISGNFYRNKLNYLAFLRKRMN 63
Query: 144 VNPARGPFHYRAPARIFWKTVRGMTPHKLDRGAKALKRLKVYEGIPPKYARRQRLCVPTA 203
NP+RGP+ +RAP+RIFW+TVRGM PHK RG AL RLKV++GIPP Y +++R+ VP A
Sbjct: 64 TNPSRGPYDFRAPSRIFWRTVRGMLPHKTKRGQAALDRLKVFDGIPPPYDKKKRMVVPAA 123
Query: 204 LRTVCLKPGRSYCSVGRISHEVGWKYKTIVRHLERKRREKSIEKIK 249
L+ V LKP R + +GR++HEVGWKY+ + LE KR+EK+ +
Sbjct: 124 LKVVRLKPTRKFAYLGRLAHEVGWKYQAVTATLEEKRKEKAKIHYR 169
Score = 98.2 bits (244), Expect = 3e-25
Identities = 54/80 (67%), Positives = 68/80 (85%)
Query: 6 RKPILIDGRGHLLGRLASIVAKTILNGNRVVVVRAELLNISGNFFRNKLKYLAFLNKRCN 65
+ +++DGRGHLLGRLA+IVAK +L G +VVVVR E +NISGNF+RNKL YLAFL KR N
Sbjct: 4 VQVLVLDGRGHLLGRLAAIVAKQVLLGRKVVVVRCEGINISGNFYRNKLNYLAFLRKRMN 63
Query: 66 VNPARGPFHYRAPARIFWKT 85
NP+RGP+ +RAP+RIFW+T
Sbjct: 64 TNPSRGPYDFRAPSRIFWRT 83
>3r8s_J 50S ribosomal protein L13; protein biosynthesis, RNA, tRNA,
transfer RNA, 23S ribosomal subunit, ribosome recycling
factor, RRF, ribosome; 3.00A {Escherichia coli} PDB:
1p85_H 1p86_H 1vs8_J 1vs6_J 2aw4_J 2awb_J 2gya_H 2gyc_H
1vt2_J 2i2v_J 2i2t_J* 2qao_J* 2qba_J* 2qbc_J* 2qbe_J
2qbg_J 2qbi_J* 2qbk_J* 2qov_J 2qox_J ...
Length = 142
Score = 55.6 bits (135), Expect = 4e-10
Identities = 31/126 (24%), Positives = 50/126 (39%), Gaps = 39/126 (30%)
Query: 87 ILIDGRGHLLGRLASIVAKTIL-------------NGNRVVVVRAELLNISGNFFRNK-- 131
++D G LGRLA+ +A+ L G+ ++V+ A+ + ++GN +K
Sbjct: 16 YVVDATGKTLGRLATELAR-RLRGKHKAEYTPHVDTGDYIIVLNADKVAVTGNKRTDKVY 74
Query: 132 ---------LKYLAFLNKRCNVNPARGPFHYRAPARIFWKTVRGMTPH-KLDRGAKALKR 181
+K F R P R+ V+GM P L G ++
Sbjct: 75 YHHTGHIGGIKQATF-----------EEMIARRPERVIEIAVKGMLPKGPL--GRAMFRK 121
Query: 182 LKVYEG 187
LKVY G
Sbjct: 122 LKVYAG 127
Score = 40.2 bits (95), Expect = 1e-04
Identities = 17/66 (25%), Positives = 33/66 (50%), Gaps = 14/66 (21%)
Query: 4 ISRKPILIDGRGHLLGRLASIVAKTIL-------------NGNRVVVVRAELLNISGNFF 50
+ R ++D G LGRLA+ +A+ L G+ ++V+ A+ + ++GN
Sbjct: 11 VKRDWYVVDATGKTLGRLATELAR-RLRGKHKAEYTPHVDTGDYIIVLNADKVAVTGNKR 69
Query: 51 RNKLKY 56
+K+ Y
Sbjct: 70 TDKVYY 75
>3v2d_N 50S ribosomal protein L13; ribosome associated inhibitor A, RAIA,
protein Y, stress RES stationary phase, ribosome
hibernation, ribosome; 2.70A {Thermus thermophilus} PDB:
2hgq_M 2hgj_M 2hgu_M 2j03_N 2jl6_N 2jl8_N 2v47_N 2v49_N
2wdi_N 2wdj_N 2wdl_N 2wdn_N 2wh2_N 2wh4_N 2wrj_N 2wrl_N
2wro_N 2wrr_N 2x9s_N 2x9u_N ...
Length = 140
Score = 55.6 bits (135), Expect = 4e-10
Identities = 36/126 (28%), Positives = 49/126 (38%), Gaps = 39/126 (30%)
Query: 87 ILIDGRGHLLGRLASIVAKTIL-------------NGNRVVVVRAELLNISGNFFRNK-- 131
+LID G LGRLA+ +A +L G+ VVVV A+ + ++G K
Sbjct: 14 VLIDAEGKTLGRLATKIAT-LLRGKHRPDWTPNVAMGDFVVVVNADKIRVTGKKLEQKIY 72
Query: 132 ---------LKYLAFLNKRCNVNPARGPFHYRAPARIFWKTVRGMTPH-KLDRGAKALKR 181
LK + P R+ V+GM P L G + KR
Sbjct: 73 TRYSGYPGGLKKIPL-----------EKMLATHPERVLEHAVKGMLPKGPL--GRRLFKR 119
Query: 182 LKVYEG 187
LKVY G
Sbjct: 120 LKVYAG 125
Score = 40.6 bits (96), Expect = 9e-05
Identities = 19/66 (28%), Positives = 31/66 (46%), Gaps = 14/66 (21%)
Query: 4 ISRKPILIDGRGHLLGRLASIVAKTIL-------------NGNRVVVVRAELLNISGNFF 50
+ + +LID G LGRLA+ +A +L G+ VVVV A+ + ++G
Sbjct: 9 VEPRWVLIDAEGKTLGRLATKIAT-LLRGKHRPDWTPNVAMGDFVVVVNADKIRVTGKKL 67
Query: 51 RNKLKY 56
K+
Sbjct: 68 EQKIYT 73
>2ftc_H L13MT, MRP-L13, 39S ribosomal protein L13, mitochondrial;
mitochondrial ribosome, large ribosomal subunit,
ribosomal R ribosome; 12.10A {Bos taurus}
Length = 148
Score = 55.3 bits (134), Expect = 6e-10
Identities = 22/125 (17%), Positives = 41/125 (32%), Gaps = 37/125 (29%)
Query: 87 ILIDGRGHLLGRLASIVAKTIL------------NGNRVVVVRAELLNISGNFFRNK--- 131
L+DG+ G+LA++ + + G+ VV++ + SGN + K
Sbjct: 19 YLLDGKMQPPGKLAAMASIRLQGLHKPVYHALSDCGDHVVIMNTRHIAFSGNKWEQKVYS 78
Query: 132 --------LKYLAFLNKRCNVNPARGPFHYRAPARIFWKTVRGMTPH-KLDRGAKALKRL 182
+ + H R P I + GM P ++RL
Sbjct: 79 SHTGYPGGFRQVTA-----------AQLHLRDPVAIVKLAIYGMLPKNLH--RRTMMERL 125
Query: 183 KVYEG 187
++
Sbjct: 126 HLFPD 130
Score = 39.5 bits (93), Expect = 2e-04
Identities = 14/65 (21%), Positives = 28/65 (43%), Gaps = 12/65 (18%)
Query: 4 ISRKPILIDGRGHLLGRLASIVAKTIL------------NGNRVVVVRAELLNISGNFFR 51
+R L+DG+ G+LA++ + + G+ VV++ + SGN +
Sbjct: 14 FARIWYLLDGKMQPPGKLAAMASIRLQGLHKPVYHALSDCGDHVVIMNTRHIAFSGNKWE 73
Query: 52 NKLKY 56
K+
Sbjct: 74 QKVYS 78
>3f1f_N 50S ribosomal protein L13; RF2, ribosome, termination, tRNA; 3.00A
{Thermus thermophilus} PDB: 1vsa_H 3d5d_N 3d5b_N 3f1h_N
Length = 163
Score = 54.5 bits (132), Expect = 1e-09
Identities = 36/126 (28%), Positives = 49/126 (38%), Gaps = 39/126 (30%)
Query: 87 ILIDGRGHLLGRLASIVAKTIL-------------NGNRVVVVRAELLNISGNFFRNK-- 131
+LID G LGRLA+ +A +L G+ VVVV A+ + ++G K
Sbjct: 37 VLIDAEGKTLGRLATKIAT-LLRGKHRPDWTPNVAMGDFVVVVNADKIRVTGKKLEQKIY 95
Query: 132 ---------LKYLAFLNKRCNVNPARGPFHYRAPARIFWKTVRGMTPH-KLDRGAKALKR 181
LK + P R+ V+GM P L G + KR
Sbjct: 96 TRYSGYPGGLKKIPL-----------EKMLATHPERVLEHAVKGMLPKGPL--GRRLFKR 142
Query: 182 LKVYEG 187
LKVY G
Sbjct: 143 LKVYAG 148
Score = 39.9 bits (94), Expect = 2e-04
Identities = 19/66 (28%), Positives = 31/66 (46%), Gaps = 14/66 (21%)
Query: 4 ISRKPILIDGRGHLLGRLASIVAKTIL-------------NGNRVVVVRAELLNISGNFF 50
+ + +LID G LGRLA+ +A +L G+ VVVV A+ + ++G
Sbjct: 32 VEPRWVLIDAEGKTLGRLATKIAT-LLRGKHRPDWTPNVAMGDFVVVVNADKIRVTGKKL 90
Query: 51 RNKLKY 56
K+
Sbjct: 91 EQKIYT 96
>2zjr_G 50S ribosomal protein L13; ribosome, large ribosomal subunit,
ribonucleoprotein, RNA-binding, rRNA-binding,
tRNA-binding, methylation; 2.91A {Deinococcus
radiodurans} SCOP: c.21.1.1 PDB: 1nwx_H* 1nwy_H* 1sm1_H*
1xbp_H* 2zjp_G* 2zjq_G 1nkw_H 3cf5_G* 3dll_G* 3pio_G*
3pip_G* 1pnu_H 1pny_H 1vor_K 1vou_K 1vow_K 1voy_K 1vp0_K
Length = 174
Score = 54.6 bits (132), Expect = 2e-09
Identities = 30/126 (23%), Positives = 46/126 (36%), Gaps = 39/126 (30%)
Query: 87 ILIDGRGHLLGRLASIVAKTIL-------------NGNRVVVVRAELLNISGNFFRNK-- 131
+++D G LGRLA+++A + G+ VVV+ A + ++G +K
Sbjct: 42 VVVDASGVPLGRLATLIAS-RIRGKHRPDFTPNMIQGDFVVVINAAQVALTGKKLDDKVY 100
Query: 132 ---------LKYLAFLNKRCNVNPARGPFHYRAPARIFWKTVRGMTPH-KLDRGAKALKR 181
LK + P R+ V GM P + G R
Sbjct: 101 TRYTGYQGGLKTETA-----------REALSKHPERVIEHAVFGMLPKGRQ--GRAMHTR 147
Query: 182 LKVYEG 187
LKVY G
Sbjct: 148 LKVYAG 153
Score = 39.5 bits (93), Expect = 3e-04
Identities = 15/66 (22%), Positives = 30/66 (45%), Gaps = 14/66 (21%)
Query: 4 ISRKPILIDGRGHLLGRLASIVAKTIL-------------NGNRVVVVRAELLNISGNFF 50
+ +++D G LGRLA+++A + G+ VVV+ A + ++G
Sbjct: 37 DEQNWVVVDASGVPLGRLATLIAS-RIRGKHRPDFTPNMIQGDFVVVINAAQVALTGKKL 95
Query: 51 RNKLKY 56
+K+
Sbjct: 96 DDKVYT 101
>3bbo_L Ribosomal protein L13; large ribosomal subunit, spinach chloroplast
ribosome, ribonucleoprotein particle, macromolecular
complex; 9.40A {Spinacea oleracea} SCOP: i.1.1.1
Length = 250
Score = 54.4 bits (131), Expect = 5e-09
Identities = 34/126 (26%), Positives = 46/126 (36%), Gaps = 39/126 (30%)
Query: 87 ILIDGRGHLLGRLASIVAKTIL-------------NGNRVVVVRAELLNISGNFFRNK-- 131
++D +LGR+AS +A + G V+VV A+ + +SG K
Sbjct: 115 YVVDATDLILGRMASTIAI-HIRGKNLASYTPSVDMGAFVIVVNADKVAVSGKKRTQKLY 173
Query: 132 ---------LKYLAFLNKRCNVNPARGPFHYRAPARIFWKTVRGMTPH-KLDRGAKALKR 181
LK F R P RI VRGM P +L G
Sbjct: 174 RRHSGRPGGLKEETF-----------DQLQKRIPERIIEHAVRGMLPKGRL--GRYLFNH 220
Query: 182 LKVYEG 187
LKVY+G
Sbjct: 221 LKVYKG 226
Score = 39.8 bits (93), Expect = 4e-04
Identities = 17/66 (25%), Positives = 28/66 (42%), Gaps = 14/66 (21%)
Query: 4 ISRKPILIDGRGHLLGRLASIVAKTIL-------------NGNRVVVVRAELLNISGNFF 50
+K ++D +LGR+AS +A + G V+VV A+ + +SG
Sbjct: 110 TDKKWYVVDATDLILGRMASTIAI-HIRGKNLASYTPSVDMGAFVIVVNADKVAVSGKKR 168
Query: 51 RNKLKY 56
KL
Sbjct: 169 TQKLYR 174
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 35.0 bits (80), Expect = 0.027
Identities = 32/208 (15%), Positives = 55/208 (26%), Gaps = 90/208 (43%)
Query: 56 YLAFLNKRCNVNPARGPF-------HYRAPARIFWKTPILIDGRGHLLGRLASIVAKTIL 108
YL + P P HY A++ TP G L S +
Sbjct: 230 YLLSI-------PISCPLIGVIQLAHYVVTAKLLGFTP----------GELRSYLKGATG 272
Query: 109 NGNRVVVVRAELLNISG-----NFFRNKLKYLAFLNKRCNVNPARGPFHYRAPARIFWKT 163
+ +V A I+ +FF + K + L F+
Sbjct: 273 HSQGLVTAVA----IAETDSWESFFVSVRKAITVL---------------------FFIG 307
Query: 164 VRGMTPHKLDRGAKALKRLKVYEGIPPKYARRQRLCVPTALRTVCLKPGRSYCSVGRISH 223
VR YE P +P ++ L+ G S
Sbjct: 308 VRC------------------YEAYP-------NTSLPPSILEDSLENNE-----GVPSP 337
Query: 224 EVGWKYKTIVRHLERKRREKSIEKIKLH 251
+ + +L +++ + + K H
Sbjct: 338 MLS------ISNLTQEQVQDYVNKTNSH 359
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 28.8 bits (63), Expect = 1.1
Identities = 10/37 (27%), Positives = 16/37 (43%), Gaps = 16/37 (43%)
Query: 177 KALKRL----KVYEGIPPKYARRQRLCVPT-ALR-TV 207
+ALK+L K+Y A P A++ T+
Sbjct: 20 QALKKLQASLKLYA---DDSA-------PALAIKATM 46
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 29.1 bits (64), Expect = 1.7
Identities = 40/279 (14%), Positives = 70/279 (25%), Gaps = 96/279 (34%)
Query: 7 KPIL-------IDGRGHLLGRLASIVAKTILNGNRVV-VVRAELLNISGNFFRNKLK--- 55
K IL I + + + +V E+L I+ F + +K
Sbjct: 43 KSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQ 102
Query: 56 ---------YLAFLNKRCNVNPARGPFH-YRAPARIFWKTPILIDGRGHLLG-RLASIVA 104
Y+ ++ N N ++ R + K R LL R A V
Sbjct: 103 RQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQP--YLKL------RQALLELRPAKNVL 154
Query: 105 --------KTILNGNRVVVVRAELLNISGNFFRNKLKYLAFLNKRCNVNPARGPFHYRAP 156
KT + + V + +
Sbjct: 155 IDGVLGSGKTWVALD---VCLSY------------------------------KVQCKMD 181
Query: 157 ARIFWKTVRGMTPHKLDRGAKALKRLKVYEGIPPKYARRQRLCVPTALRTVCLKPGRSYC 216
+IFW ++ + L+ L Q+L + S
Sbjct: 182 FKIFWLNLK-----NCNSPETVLEML-------------QKLLY-QIDPNWTSRSDHSS- 221
Query: 217 SVGRISHEVGWKYKTIVRHLERKRREKSIEKIKLHTVYN 255
I + + R L+ K E + + L V N
Sbjct: 222 ---NIKLRIHSIQAELRRLLKSKPYENCL--LVLLNVQN 255
>3ab4_A Aspartokinase; aspartate kinase, concerted inhibition,
alternative initiati amino-acid biosynthesis,
ATP-binding; HET: LYS; 2.47A {Corynebacterium
glutamicum} PDB: 3aaw_A* 3ab2_A
Length = 421
Score = 27.1 bits (61), Expect = 6.4
Identities = 8/17 (47%), Positives = 9/17 (52%)
Query: 22 ASIVAKTILNGNRVVVV 38
A + T GN VVVV
Sbjct: 23 AERIVATKKAGNDVVVV 39
Score = 27.1 bits (61), Expect = 6.4
Identities = 8/17 (47%), Positives = 9/17 (52%)
Query: 100 ASIVAKTILNGNRVVVV 116
A + T GN VVVV
Sbjct: 23 AERIVATKKAGNDVVVV 39
>3l76_A Aspartokinase; allostery, ACT domains, kinase transferase; HET:
LYS; 2.54A {Synechocystis}
Length = 600
Score = 27.2 bits (61), Expect = 6.7
Identities = 7/19 (36%), Positives = 12/19 (63%)
Query: 20 RLASIVAKTILNGNRVVVV 38
+A + +T+ GN +VVV
Sbjct: 21 AVAQRIKRTVQGGNSLVVV 39
Score = 27.2 bits (61), Expect = 6.7
Identities = 7/19 (36%), Positives = 12/19 (63%)
Query: 98 RLASIVAKTILNGNRVVVV 116
+A + +T+ GN +VVV
Sbjct: 21 AVAQRIKRTVQGGNSLVVV 39
>3o8j_A 2-methylcitrate synthase; short chain fatty acids, propionate
metabolism, 2-methylcitr cycle, PRPC or 2-MCS, GLTA or
CS, 2-methy synthase; 2.41A {Salmonella enterica}
Length = 404
Score = 26.7 bits (60), Expect = 7.3
Identities = 8/37 (21%), Positives = 15/37 (40%), Gaps = 2/37 (5%)
Query: 17 LLGRLASIVA--KTILNGNRVVVVRAELLNISGNFFR 51
LL L+SI+ + + + +I G+F
Sbjct: 154 LLASLSSILLYWYHYSHNGERIQPETDDDSIGGHFLH 190
Score = 26.7 bits (60), Expect = 7.3
Identities = 8/37 (21%), Positives = 15/37 (40%), Gaps = 2/37 (5%)
Query: 95 LLGRLASIVA--KTILNGNRVVVVRAELLNISGNFFR 129
LL L+SI+ + + + +I G+F
Sbjct: 154 LLASLSSILLYWYHYSHNGERIQPETDDDSIGGHFLH 190
>2zkr_u 60S ribosomal protein L24; protein-RNA complex, 60S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris}
Length = 157
Score = 26.2 bits (57), Expect = 8.5
Identities = 15/68 (22%), Positives = 21/68 (30%), Gaps = 8/68 (11%)
Query: 127 FFRNKLKYLAFLNKRCNVNPARGPFHYRAPARIFWKTVRGMTPHKLDRGAKALKRLKVYE 186
+ R K FLN +C R P +I W + K KR +
Sbjct: 21 YARTDGKVFQFLNAKCESAFLSK----RNPRQINWTVLYRRKHKKGQSEEIQKKRTRR-- 74
Query: 187 GIPPKYAR 194
K+ R
Sbjct: 75 --AVKFQR 80
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.327 0.142 0.442
Gapped
Lambda K H
0.267 0.0586 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,111,650
Number of extensions: 248473
Number of successful extensions: 637
Number of sequences better than 10.0: 1
Number of HSP's gapped: 603
Number of HSP's successfully gapped: 46
Length of query: 255
Length of database: 6,701,793
Length adjustment: 91
Effective length of query: 164
Effective length of database: 4,160,982
Effective search space: 682401048
Effective search space used: 682401048
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 56 (25.7 bits)