RPS-BLAST 2.2.22 [Sep-27-2009]
Database: pdb70
24,244 sequences; 5,693,230 total letters
Searching..................................................done
Query= gi|254780251|ref|YP_003064664.1| 50S ribosomal protein L14
[Candidatus Liberibacter asiaticus str. psy62]
(122 letters)
>2j01_O 50S ribosomal protein L14; ribosome, tRNA, paromomycin, mRNA,
translation; 2.8A {Thermus thermophilus} SCOP: b.39.1.1
PDB: 2j03_O 2jl6_O 2jl8_O 2v47_O 2v49_O 2wdi_O 2wdj_O
2wdl_O 2wdn_O 2wh2_O 2wh4_O 3fin_O 3hux_O 3huz_O 3f1f_O
1vsp_I 2hgj_N 2hgq_N 2hgu_N 1vsa_I ...
Length = 122
Score = 152 bits (387), Expect = 1e-38
Identities = 69/122 (56%), Positives = 91/122 (74%)
Query: 1 MIQMQTSLSISDNSGARLVKCIKVLGGSKRKCASIGDTVVVAVKEVIPRSKVKKGSVQKA 60
MIQ QT L ++DN+GAR + CI+VL GS K A++GD +V +VKE IPR VK+G V KA
Sbjct: 1 MIQPQTYLEVADNTGARKIMCIRVLKGSNAKYATVGDVIVASVKEAIPRGAVKEGDVVKA 60
Query: 61 IIVRVSYGIRRSDGSVVRFDKNAAVLIDNKKDLLASRVFGPVPRELRIKGHLKILSLAAE 120
++VR I+R DGS +RFD NAAV+I+N+ + +RVFGPV RELR KG +KI+SLA E
Sbjct: 61 VVVRTKKEIKRPDGSAIRFDDNAAVIINNQLEPRGTRVFGPVARELREKGFMKIVSLAPE 120
Query: 121 VV 122
V+
Sbjct: 121 VL 122
>1whi_A Ribosomal protein L14; rRNA-binding; 1.50A {Geobacillus
stearothermophilus} SCOP: b.39.1.1 PDB: 1giy_N 1ml5_n*
1c04_D 1yl3_N 2b66_O 2b9n_O 2b9p_O 487d_M
Length = 122
Score = 149 bits (378), Expect = 2e-37
Identities = 68/122 (55%), Positives = 87/122 (71%)
Query: 1 MIQMQTSLSISDNSGARLVKCIKVLGGSKRKCASIGDTVVVAVKEVIPRSKVKKGSVQKA 60
MIQ ++ L ++DNSGAR V IKVLGGS R+ A+IGD VV VK+ P VKKG V KA
Sbjct: 1 MIQQESRLKVADNSGAREVLVIKVLGGSGRRYANIGDVVVATVKDATPGGVVKKGQVVKA 60
Query: 61 IIVRVSYGIRRSDGSVVRFDKNAAVLIDNKKDLLASRVFGPVPRELRIKGHLKILSLAAE 120
++VR G+RR DGS +RFD+NA V+I + K +R+FGPV RELR K +KI+SLA E
Sbjct: 61 VVVRTKRGVRRPDGSYIRFDENACVIIRDDKSPRGTRIFGPVARELRDKDFMKIISLAPE 120
Query: 121 VV 122
V+
Sbjct: 121 VI 122
>3ofq_K 50S ribosomal protein L14; protein biosynthesis, ribosomes, RNA,
tRNA, transfer, antibi EXIT, peptidyl, ribosomal
subunit, large; 3.10A {Escherichia coli} PDB: 3ofr_K*
3i1n_K 1p85_I 1p86_I 1vs8_K 1vs6_K 2aw4_K 2awb_K 1vt2_K
2i2v_K 2i2t_K* 2qao_K* 2qba_K* 2qbc_K* 2qbe_K 2qbg_K
2qbi_K* 2qbk_K* 2qov_K 2qox_K ...
Length = 122
Score = 149 bits (377), Expect = 2e-37
Identities = 71/122 (58%), Positives = 92/122 (75%), Gaps = 1/122 (0%)
Query: 1 MIQMQTSLSISDNSGARLVKCIKVLGGSKRKCASIGDTVVVAVKEVIPRSKVKKGSVQKA 60
MIQ QT L+++DNSGAR V CIKVLGGS R+ A +GD + + +KE IPR KVKKG V KA
Sbjct: 1 MIQEQTMLNVADNSGARRVMCIKVLGGSHRRYAGVGDIIKITIKEAIPRGKVKKGDVLKA 60
Query: 61 IIVRVSYGIRRSDGSVVRFDKNAAVLIDNKKDL-LASRVFGPVPRELRIKGHLKILSLAA 119
++VR G+RR DGSV+RFD NA VL++N + + +R+FGPV RELR + +KI+SLA
Sbjct: 61 VVVRTKKGVRRPDGSVIRFDGNACVLLNNNSEQPIGTRIFGPVTRELRSEKFMKIISLAP 120
Query: 120 EV 121
EV
Sbjct: 121 EV 122
>3bbo_M Ribosomal protein L14; large ribosomal subunit, spinach chloroplast
ribosome, ribonucleoprotein particle, macromolecular
complex; 9.40A {Spinacea oleracea}
Length = 121
Score = 144 bits (365), Expect = 4e-36
Identities = 54/122 (44%), Positives = 86/122 (70%), Gaps = 1/122 (0%)
Query: 1 MIQMQTSLSISDNSGARLVKCIKVLGGSKRKCASIGDTVVVAVKEVIPRSKVKKGSVQKA 60
MIQ QT L+++DNSGAR + CI+++G S R+ A IGD +V +KE IP + +++ V +A
Sbjct: 1 MIQPQTHLNVADNSGARELMCIRIIGASNRRYARIGDVIVAVIKEAIPNTPLERSEVIRA 60
Query: 61 IIVRVSYGIRRSDGSVVRFDKNAAVLIDNKKDLLASRVFGPVPRELRIKGHLKILSLAAE 120
++VR ++R +G ++R+D NAAV+ID + + +R+FG + RELR + KI+SLA E
Sbjct: 61 VVVRTCKELKRDNGMIIRYDDNAAVIIDQEGNPKGTRIFGAIARELR-QKFAKIVSLAPE 119
Query: 121 VV 122
V+
Sbjct: 120 VL 121
>3i1n_K 50S ribosomal protein L14; ribosome structure, protein-RNA complex,
acetylation, ribonucleoprotein, ribosomal protein,
RNA-binding, rRNA- binding, methylation; 3.19A
{Escherichia coli k-12} PDB: 1p85_I 1p86_I 1vs8_K 2aw4_K
2awb_K 1vs6_K 2i2v_K 2i2t_K* 2qao_K* 2qba_K* 2qbc_K*
2qbe_K 2qbg_K 2qbi_K* 2qbk_K* 2qov_K 2qox_K 2qoz_K*
2qp1_K* 2rdo_K ...
Length = 123
Score = 139 bits (351), Expect = 2e-34
Identities = 71/123 (57%), Positives = 93/123 (75%), Gaps = 1/123 (0%)
Query: 1 MIQMQTSLSISDNSGARLVKCIKVLGGSKRKCASIGDTVVVAVKEVIPRSKVKKGSVQKA 60
MIQ QT L+++DNSGAR V CIKVLGGS R+ A +GD + + +KE IPR KVKKG V KA
Sbjct: 1 MIQEQTMLNVADNSGARRVMCIKVLGGSHRRYAGVGDIIKITIKEAIPRGKVKKGDVLKA 60
Query: 61 IIVRVSYGIRRSDGSVVRFDKNAAVLIDNKKDL-LASRVFGPVPRELRIKGHLKILSLAA 119
++VR G+RR DGSV+RFD NA VL++N + + +R+FGPV RELR + +KI+SLA
Sbjct: 61 VVVRTKKGVRRPDGSVIRFDGNACVLLNNNSEQPIGTRIFGPVTRELRSEKFMKIISLAP 120
Query: 120 EVV 122
EV+
Sbjct: 121 EVL 123
>1vq8_K 50S ribosomal protein L14P; ribosome 50S, protein-protein complex,
RNA-RNA complex, protein-RNA complex, peptidyl
transferase reaction; HET: 1MA OMU OMG UR3 PSU SPS;
2.20A {Haloarcula marismortui} SCOP: b.39.1.1 PDB:
1vq4_K* 1vq5_K* 1vq6_K* 1vq7_K* 1s72_K* 1vq9_K* 1vqk_K*
1vql_K* 1vqm_K* 1vqn_K* 1vqo_K* 1vqp_K* 1yhq_K* 1yi2_K*
1yij_K* 1yit_K* 1yj9_K* 1yjn_K* 1yjw_K* 2otj_K* ...
Length = 132
Score = 129 bits (325), Expect = 2e-31
Identities = 41/126 (32%), Positives = 70/126 (55%), Gaps = 8/126 (6%)
Query: 1 MIQMQTSLSISDNSGARLVKCIKVLGGSKRK----CASIGDTVVVAVKEVIPRSKVKKGS 56
++ + ++ +DN+GAR +K I V G S K A +GD + V+V + P +
Sbjct: 11 GLEKGSLITCADNTGARELKVISVHGYSGTKNRLPKAGLGDKITVSVTKGTPE---MRRQ 67
Query: 57 VQKAIIVRVSYGIRRSDGSVVRFDKNAAVLIDNKKDLLASRVFGPVPRELRIKGHLKILS 116
V +A++VR IRR DG+ V+F+ NAAV++D +D + + GP+ RE+ + + S
Sbjct: 68 VLEAVVVRQRKPIRRPDGTRVKFEDNAAVIVDENEDPRGTELKGPIAREVA-QRFGSVAS 126
Query: 117 LAAEVV 122
A +V
Sbjct: 127 AATMIV 132
>2zkr_k 60S ribosomal protein L23; protein-RNA complex, 60S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris} PDB: 1s1i_R
Length = 140
Score = 119 bits (300), Expect = 2e-28
Identities = 36/125 (28%), Positives = 62/125 (49%), Gaps = 8/125 (6%)
Query: 1 MIQMQTSLSISDNSGARLVKCIKVLGGSKR----KCASIGDTVVVAVKEVIPRSKVKKGS 56
+ + ++ +DN+GA+ + I V G R A +GD V+ VK+ P +
Sbjct: 19 GLPVGAVINCADNTGAKNLYIISVKGIKGRLNRLPAAGVGDMVMATVKKGKP---ELRKK 75
Query: 57 VQKAIIVRVSYGIRRSDGSVVRFDKNAAVLIDNKKDLLASRVFGPVPRELRIKGHLKILS 116
V A+++R RR DG + F+ NA V+++NK ++ S + GPV +E +I S
Sbjct: 76 VHPAVVIRQRKSYRRKDGVFLYFEDNAGVIVNNKGEMKGSAITGPVAKECADL-WPRIAS 134
Query: 117 LAAEV 121
A +
Sbjct: 135 NAGSI 139
>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 = 31.9 bits (71), Expect = 0.039
Identities = 8/22 (36%), Positives = 13/22 (59%), Gaps = 3/22 (13%)
Query: 3 QMQTSLSI-SDNSGARLVKCIK 23
++Q SL + +D+S L IK
Sbjct: 24 KLQASLKLYADDSAPALA--IK 43
>1b12_A Signal peptidase I; serine proteinase, serine-dependant hydrolase,
signal peptide processing, protein translocation,
membrane bound proteinase; HET: 1PN; 1.95A {Escherichia
coli} SCOP: b.87.1.2 PDB: 1t7d_A* 1kn9_A
Length = 248
Score = 28.8 bits (63), Expect = 0.30
Identities = 8/27 (29%), Positives = 14/27 (51%), Gaps = 1/27 (3%)
Query: 84 AVLIDNKKDLLASRVFGPVPRELRIKG 110
++ DN+ + SR +G VP + G
Sbjct: 194 FMMGDNRDNSADSRYWGFVPEA-NLVG 219
>1iq8_A Archaeosine tRNA-guanine transglycosylase; (alpha/beta)8 barrel,
riken structural genomics/proteomics initiative, RSGI;
2.20A {Pyrococcus horikoshii} SCOP: b.122.1.1 c.1.20.1
d.17.6.1 PDB: 1it7_A* 1it8_A* 1j2b_A
Length = 582
Score = 26.1 bits (57), Expect = 2.1
Identities = 9/31 (29%), Positives = 15/31 (48%)
Query: 76 VVRFDKNAAVLIDNKKDLLASRVFGPVPREL 106
V R + A + + +L+ +FG V R L
Sbjct: 381 VRRAKERAKSINERFGELVEHPIFGRVSRYL 411
>2i0e_A Protein kinase C-beta II; serine/threonine protein kinase,
transferase; HET: TPO SEP PDS; 2.60A {Homo sapiens}
Length = 353
Score = 25.5 bits (55), Expect = 3.0
Identities = 15/87 (17%), Positives = 31/87 (35%), Gaps = 12/87 (13%)
Query: 6 TSLSIS--DNSGARLV------KCIKVLG----GSKRKCASIGDTVVVAVKEVIPRSKVK 53
T+ ++S DN+G R + VLG G G + AVK + ++
Sbjct: 1 TTNTVSKFDNNGNRDRMKLTDFNFLMVLGKGSFGKVMLSERKGTDELYAVKILKKDVVIQ 60
Query: 54 KGSVQKAIIVRVSYGIRRSDGSVVRFD 80
V+ ++ + + + +
Sbjct: 61 DDDVECTMVEKRVLALPGKPPFLTQLH 87
>2k8i_A SLYD, peptidyl-prolyl CIS-trans isomerase; ppiase, chaperone,
rotamase; NMR {Escherichia coli}
Length = 171
Score = 25.4 bits (55), Expect = 3.4
Identities = 10/32 (31%), Positives = 16/32 (50%), Gaps = 7/32 (21%)
Query: 51 KVKKGSVQKAIIVRVSYGIRRSDGSVVRFDKN 82
KV K V V ++Y +R DG + D++
Sbjct: 2 KVAKDLV-----VSLAYQVRTEDGVL--VDES 26
>2kfw_A FKBP-type peptidyl-prolyl CIS-trans isomerase SLYD; protein,
cobalt, copper, cytoplasm, metal- binding, nickel,
rotamase, zinc; NMR {Escherichia coli}
Length = 196
Score = 25.0 bits (54), Expect = 4.2
Identities = 10/32 (31%), Positives = 16/32 (50%), Gaps = 7/32 (21%)
Query: 51 KVKKGSVQKAIIVRVSYGIRRSDGSVVRFDKN 82
KV K V V ++Y +R DG + D++
Sbjct: 2 KVAKDLV-----VSLAYQVRTEDGVL--VDES 26
>3c4z_A Rhodopsin kinase; Ser/Thr kinase, RGS homology domain, G protein
coupled receptor kinase, GRK, GRK1, P-loop,
autophosphorylation, ADP, ATP-binding; HET: ADP; 1.84A
{Bos taurus} PDB: 3c4x_A* 3c4y_A 3c4w_A* 3c50_A* 3c51_A*
2i94_B
Length = 543
Score = 25.0 bits (54), Expect = 5.0
Identities = 10/44 (22%), Positives = 17/44 (38%), Gaps = 4/44 (9%)
Query: 22 IKVLG----GSKRKCASIGDTVVVAVKEVIPRSKVKKGSVQKAI 61
+VLG G C + A K++ + K+ Q A+
Sbjct: 190 FRVLGRGGFGEVFACQMKATGKLYACKKLNKKRLKKRKGYQGAM 233
>2nn6_H Exosome complex exonuclease RRP4; RNA, exosome, PM/SCL,
phosphorolytic, hydrolase/transferase complex; 3.35A
{Homo sapiens} SCOP: b.40.4.5 b.84.4.2 d.51.1.1
Length = 308
Score = 24.9 bits (54), Expect = 5.3
Identities = 14/55 (25%), Positives = 24/55 (43%), Gaps = 1/55 (1%)
Query: 20 KCIKVLGGSKRKCASIGDTVVVAVKEVIPRS-KVKKGSVQKAIIVRVSYGIRRSD 73
K I V R +GD VV + EV + KV+ S ++++ S + +
Sbjct: 80 KLICVKALKTRYIGEVGDIVVGRITEVQQKRWKVETNSRLDSVLLLSSMNLPGGE 134
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl reductase,
beta-ketoacyl synthase, dehydratase; 4.00A
{Saccharomyces cerevisiae}
Length = 2006
Score = 24.9 bits (54), Expect = 5.5
Identities = 9/31 (29%), Positives = 17/31 (54%), Gaps = 6/31 (19%)
Query: 95 ASRVFGPVPRELR--IK---GHLK-ILSLAA 119
+++ G P ELR +K GH + +++ A
Sbjct: 252 TAKLLGFTPGELRSYLKGATGHSQGLVTAVA 282
>1xjd_A Protein kinase C, theta type; PKC-theta, ATP, AMP,, transferase;
HET: TPO SEP STU; 2.00A {Homo sapiens} SCOP: d.144.1.7
PDB: 2jed_A*
Length = 345
Score = 24.3 bits (52), Expect = 6.6
Identities = 11/81 (13%), Positives = 22/81 (27%), Gaps = 10/81 (12%)
Query: 3 QMQTSLSISDNSGARLVKCIKVLG----GSKRKCASIGDTVVVAVKEVIPRSKVKKGSVQ 58
+Q L I D K+LG G A+K + + V+
Sbjct: 9 SLQIKLKIED------FILHKMLGKGSFGKVFLAEFKKTNQFFAIKALKKDVVLMDDDVE 62
Query: 59 KAIIVRVSYGIRRSDGSVVRF 79
++ + + +
Sbjct: 63 CTMVEKRVLSLAWEHPFLTHM 83
>3kwd_A Carbon dioxide concentrating mechanism protein; LEFT-handed beta
helix, gamma carbonic anhydrase; 1.10A
{Thermosynechococcus elongatus} PDB: 3kwe_A 3kwc_A
Length = 213
Score = 24.5 bits (52), Expect = 7.1
Identities = 7/34 (20%), Positives = 11/34 (32%)
Query: 24 VLGGSKRKCASIGDTVVVAVKEVIPRSKVKKGSV 57
V + V++ E+ P V G V
Sbjct: 144 VFNARVGAGCVVMMHVLIQDVEIPPGKYVPSGMV 177
>2z0s_A Probable exosome complex RNA-binding protein 1; alpha/beta protein,
cytoplasm, structural genomics, NPPSFA; 3.20A {Aeropyrum
pernix} SCOP: b.40.4.5 d.51.1.1
Length = 235
Score = 24.2 bits (52), Expect = 8.2
Identities = 9/58 (15%), Positives = 20/58 (34%), Gaps = 1/58 (1%)
Query: 22 IKVLGGSKRKCASIGDTVVVAVKEVIPRS-KVKKGSVQKAIIVRVSYGIRRSDGSVVR 78
+ + GD V+ ++ V + V S A++ + R + +V
Sbjct: 53 RAFVKLKEIYVPQAGDVVIGLIQSVGIMNWFVDINSPYVAVLSVQDFLGRPFNPAVDD 110
Database: pdb70
Posted date: Jan 26, 2011 11:21 AM
Number of letters in database: 5,693,230
Number of sequences in database: 24,244
Lambda K H
0.320 0.135 0.363
Gapped
Lambda K H
0.267 0.0658 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 961,260
Number of extensions: 40941
Number of successful extensions: 102
Number of sequences better than 10.0: 1
Number of HSP's gapped: 93
Number of HSP's successfully gapped: 23
Length of query: 122
Length of database: 5,693,230
Length adjustment: 81
Effective length of query: 41
Effective length of database: 3,729,466
Effective search space: 152908106
Effective search space used: 152908106
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: 50 (23.2 bits)