RPS-BLAST 2.2.22 [Sep-27-2009]
Database: pdb70
24,244 sequences; 5,693,230 total letters
Searching..................................................done
Query= gi|254780646|ref|YP_003065059.1| 50S ribosomal protein L21
[Candidatus Liberibacter asiaticus str. psy62]
(103 letters)
>3bbo_T Ribosomal protein L21; large ribosomal subunit, spinach chloroplast
ribosome, ribonucleoprotein particle, macromolecular
complex; 9.40A {Spinacea oleracea}
Length = 257
Score = 133 bits (336), Expect = 9e-33
Identities = 40/102 (39%), Positives = 58/102 (56%), Gaps = 1/102 (0%)
Query: 1 MFAIIEHGGKQSRVSATDTITVEKI-VAKDGDNIRFDNVLAVGKDEHLSVGTPRVEGAYV 59
+FA++ G +Q V I +++ A D I + VL VG +GTP V A V
Sbjct: 124 IFAVVVIGSRQYIVIPGRWIYTQRLKGATVNDKIVLNKVLLVGTKASTYIGTPIVTNAAV 183
Query: 60 EAEVVKQLRTKKVVVFKKRRRQNYRRTHGHRQEMTVVRITSI 101
A V +QL KV+VFK ++++NYRR GHRQ +T ++IT I
Sbjct: 184 HAVVEEQLLDDKVIVFKYKKKKNYRRNIGHRQPITRIKITGI 225
>3ofq_R 50S ribosomal protein L21; protein biosynthesis, ribosomes, RNA,
tRNA, transfer, antibi EXIT, peptidyl, ribosomal
subunit, large; 3.10A {Escherichia coli} PDB: 1vs8_R
1vs6_R 2aw4_R 2awb_R 1vt2_R 2i2v_R 2j28_R 2i2t_R*
2qao_R* 2qba_R* 2qbc_R* 2qbe_R 2qbg_R 2qbi_R* 2qbk_R*
2qov_R 2qox_R 2qoz_R* 2qp1_R* 2rdo_R ...
Length = 103
Score = 118 bits (297), Expect = 3e-28
Identities = 43/101 (42%), Positives = 63/101 (62%)
Query: 1 MFAIIEHGGKQSRVSATDTITVEKIVAKDGDNIRFDNVLAVGKDEHLSVGTPRVEGAYVE 60
M+A+ + GGKQ RVS T+ +EK+ G+ + F VL + E + +G P V+G ++
Sbjct: 1 MYAVFQSGGKQHRVSEGQTVRLEKLDIATGETVEFAEVLMIANGEEVKIGVPFVDGGVIK 60
Query: 61 AEVVKQLRTKKVVVFKKRRRQNYRRTHGHRQEMTVVRITSI 101
AEVV R +KV + K RRR++YR+ GHRQ T V+IT I
Sbjct: 61 AEVVAHGRGEKVKIVKFRRRKHYRKQQGHRQWFTDVKITGI 101
>3i1n_R 50S ribosomal protein L21; ribosome structure, protein-RNA complex,
acetylation, ribonucleoprotein, ribosomal protein,
RNA-binding, rRNA- binding, methylation; 3.19A
{Escherichia coli k-12} PDB: 1vs8_R 2aw4_R 2awb_R 1vs6_R
2i2v_R 2j28_R 2i2t_R* 2qao_R* 2qba_R* 2qbc_R* 2qbe_R
2qbg_R 2qbi_R* 2qbk_R* 2qov_R 2qox_R 2qoz_R* 2qp1_R*
2rdo_R 2vhm_R ...
Length = 103
Score = 109 bits (275), Expect = 1e-25
Identities = 43/101 (42%), Positives = 63/101 (62%)
Query: 1 MFAIIEHGGKQSRVSATDTITVEKIVAKDGDNIRFDNVLAVGKDEHLSVGTPRVEGAYVE 60
M+A+ + GGKQ RVS T+ +EK+ G+ + F VL + E + +G P V+G ++
Sbjct: 1 MYAVFQSGGKQHRVSEGQTVRLEKLDIATGETVEFAEVLMIANGEEVKIGVPFVDGGVIK 60
Query: 61 AEVVKQLRTKKVVVFKKRRRQNYRRTHGHRQEMTVVRITSI 101
AEVV R +KV + K RRR++YR+ GHRQ T V+IT I
Sbjct: 61 AEVVAHGRGEKVKIVKFRRRKHYRKQQGHRQWFTDVKITGI 101
>2zjr_O 50S ribosomal protein L21; ribosome, large ribosomal subunit,
ribonucleoprotein, RNA-binding, rRNA-binding,
tRNA-binding, methylation; 2.91A {Deinococcus
radiodurans} SCOP: b.155.1.1 PDB: 1nwx_P* 1nwy_P* 1pnu_P
1pny_P 1sm1_P* 1vor_S 1vou_S 1vow_S 1voy_S 1vp0_S
1xbp_P* 1yl3_2 2b66_V 2b9n_V 2b9p_V 2zjp_O* 2zjq_O
1nkw_P 3cf5_O* 3dll_O*
Length = 100
Score = 102 bits (255), Expect = 3e-23
Identities = 38/101 (37%), Positives = 51/101 (50%), Gaps = 3/101 (2%)
Query: 1 MFAIIEHGGKQSRVSATDTITVEKIVAKDGDNIRFDNVLAVGKDEHLSVGTPRVEGAYVE 60
MFAII+ GGKQ RVS D I VE + + GD + + G+ V+
Sbjct: 1 MFAIIQTGGKQYRVSEGDVIRVESLQGEAGDKVELKALFVGGEQTV---FGEDAGKYTVQ 57
Query: 61 AEVVKQLRTKKVVVFKKRRRQNYRRTHGHRQEMTVVRITSI 101
AEVV+ R KK+ + K + YRR GHRQ T ++I I
Sbjct: 58 AEVVEHGRGKKIYIRKYKSGVQYRRRTGHRQNFTAIKILGI 98
>2j01_V 50S ribosomal protein L21; ribosome, tRNA, paromomycin, mRNA,
translation; 2.8A {Thermus thermophilus} SCOP: b.155.1.1
PDB: 1vsp_P 2hgj_U 2hgq_U 2hgu_U 1vsa_P 2j03_V 2jl6_V
2jl8_V 2v47_V 2v49_V 2wdi_V 2wdj_V 2wdl_V 2wdn_V 2wh2_V
2wh4_V 3d5b_V 3d5d_V 3f1f_V 3f1h_V ...
Length = 101
Score = 99.5 bits (248), Expect = 1e-22
Identities = 44/101 (43%), Positives = 58/101 (57%), Gaps = 2/101 (1%)
Query: 1 MFAIIEHGGKQSRVSATDTITVEKIVAKDGDNIRFDNVLAVGKDEHLSVGTPRVEGAYVE 60
MFAI++ GGKQ RV + VEK+ A+ G + +L G+ VGTP VEGA V
Sbjct: 1 MFAIVKTGGKQYRVEPGLKLRVEKLDAEPGATVELPVLLLGGEKTV--VGTPVVEGASVV 58
Query: 61 AEVVKQLRTKKVVVFKKRRRQNYRRTHGHRQEMTVVRITSI 101
AEV+ R KK++V K + + YRR GHRQ T + I I
Sbjct: 59 AEVLGHGRGKKILVSKFKAKVQYRRKKGHRQPYTELLIKEI 99
>1bdo_A Acetyl-COA carboxylase; BCCPSC, carboxyl transferase, fatty acid
biosynthesis, hammerhead structure, selenomethionine,
ligase; HET: BTN; 1.80A {Escherichia coli} SCOP:
b.84.1.1 PDB: 2bdo_A* 1a6x_A 3bdo_A
Length = 80
Score = 30.3 bits (68), Expect = 0.10
Identities = 11/41 (26%), Positives = 20/41 (48%)
Query: 1 MFAIIEHGGKQSRVSATDTITVEKIVAKDGDNIRFDNVLAV 41
I+E +++ A + TV+ I+ + G + FD L V
Sbjct: 38 TLCIVEAMKMMNQIEADKSGTVKAILVESGQPVEFDEPLVV 78
>1gjx_A Pyruvate dehydrogenase; oxidoreductase, lipoyl domain,
dihydrolipoyl dehydrogenase, multienzyme complex,
post-translational modification; NMR {Neisseria
meningitidis} SCOP: b.84.1.1
Length = 81
Score = 26.6 bits (59), Expect = 1.5
Identities = 9/39 (23%), Positives = 15/39 (38%)
Query: 3 AIIEHGGKQSRVSATDTITVEKIVAKDGDNIRFDNVLAV 41
+E V A V+++ K GD I ++ V
Sbjct: 36 ITLETDKATMDVPAEVAGVVKEVKVKVGDKISEGGLIVV 74
>2k7v_A Dihydrolipoyllysine-residue acetyltransferase component of
pyruvate dehydrogenase...; misfolded dimer,
acyltransferase, glycolysis; NMR {Escherichia coli}
Length = 85
Score = 25.6 bits (56), Expect = 2.9
Identities = 6/39 (15%), Positives = 16/39 (41%)
Query: 3 AIIEHGGKQSRVSATDTITVEKIVAKDGDNIRFDNVLAV 41
+E V A V+++ GD ++ +++ +
Sbjct: 31 ITVEGDKASMEVPAPFAGVVKELKVNVGDKVKTGSLIMI 69
>1qjo_A Dihydrolipoamide acetyltransferase; lipoyl domain, pyruvate
dehydrogenase; NMR {Escherichia coli} SCOP: b.84.1.1
Length = 80
Score = 25.5 bits (56), Expect = 3.0
Identities = 6/39 (15%), Positives = 16/39 (41%)
Query: 3 AIIEHGGKQSRVSATDTITVEKIVAKDGDNIRFDNVLAV 41
+E V A V+++ GD ++ +++ +
Sbjct: 35 ITVEGDKASMEVPAPFAGVVKELKVNVGDKVKTGSLIMI 73
>1dcz_A Transcarboxylase 1.3S subunit; antiparallel beta sheet,
hammerhead, biocytin; NMR {Propionibacterium
freudenreichiisubsp} SCOP: b.84.1.1 PDB: 1dd2_A 1o78_A
Length = 77
Score = 25.2 bits (55), Expect = 3.2
Identities = 8/39 (20%), Positives = 19/39 (48%)
Query: 3 AIIEHGGKQSRVSATDTITVEKIVAKDGDNIRFDNVLAV 41
++E ++ ++A VEK++ K+ D ++ L
Sbjct: 37 LVLEAMKMETEINAPTDGKVEKVLVKERDAVQGGQGLIK 75
>2d5d_A Methylmalonyl-COA decarboxylase gamma chain; biotin, domain,
BCCP, X-RAY diffraction, structural genomics, NPPSFA;
1.55A {Pyrococcus horikoshii OT3} PDB: 2ejf_C* 2ejg_C*
2evb_A
Length = 74
Score = 25.1 bits (55), Expect = 3.4
Identities = 6/39 (15%), Positives = 18/39 (46%)
Query: 3 AIIEHGGKQSRVSATDTITVEKIVAKDGDNIRFDNVLAV 41
++E ++ + + V++I+ K+G+ + L
Sbjct: 34 LVLEAMKMENEIPSPRDGVVKRILVKEGEAVDTGQPLIE 72
>2jku_A Propionyl-COA carboxylase alpha chain, mitochondrial; ligase,
biotin, ATP-binding, polymorphism, disease mutation,
nucleotide-binding; HET: PG4; 1.5A {Homo sapiens}
Length = 94
Score = 25.3 bits (55), Expect = 3.5
Identities = 10/39 (25%), Positives = 20/39 (51%)
Query: 3 AIIEHGGKQSRVSATDTITVEKIVAKDGDNIRFDNVLAV 41
+IE Q+ ++A T TV+ + + GD + ++L
Sbjct: 54 CVIEAMKMQNSMTAGKTGTVKSVHCQAGDTVGEGDLLVE 92
>1k8m_A E2 component of branched-chain ahpha-ketoacid dehydrogenase;
lipoyl acid bearing, human BCKD, experimental DATA,
average structure, transferase; NMR {Homo sapiens}
SCOP: b.84.1.1 PDB: 1k8o_A
Length = 93
Score = 25.1 bits (55), Expect = 3.8
Identities = 3/39 (7%), Positives = 11/39 (28%)
Query: 3 AIIEHGGKQSRVSATDTITVEKIVAKDGDNIRFDNVLAV 41
++ +++ ++K+ D L
Sbjct: 39 CEVQSDKASVTITSRYDGVIKKLYYNLDDIAYVGKPLVD 77
>1iyu_A E2P, dihydrolipoamide acetyltransferase component of pyruvate
dehydrogenase complex; glycolysis, acyltransferase,
lipoyl; NMR {Azotobacter vinelandii} SCOP: b.84.1.1
PDB: 1iyv_A
Length = 79
Score = 25.1 bits (55), Expect = 4.2
Identities = 6/39 (15%), Positives = 15/39 (38%)
Query: 3 AIIEHGGKQSRVSATDTITVEKIVAKDGDNIRFDNVLAV 41
++E V + V+ + K GD ++ + +
Sbjct: 33 VVLESAKASMEVPSPKAGVVKSVSVKLGDKLKEGDAIIE 71
>1y8o_B Dihydrolipoyllysine-residue acetyltransferase component of pyruvate
dehydrogenase...; pyruvate dehydrogenase kinase 3,
lipoyl-bearing domain; HET: LPA ADP; 2.48A {Homo
sapiens} SCOP: b.84.1.1 PDB: 1y8n_B* 1y8p_B* 2pnr_C*
2q8i_B* 1fyc_A
Length = 128
Score = 24.5 bits (53), Expect = 5.5
Identities = 7/46 (15%), Positives = 17/46 (36%), Gaps = 1/46 (2%)
Query: 1 MFAIIEHGGKQSRVSATDTITVEKIVAKDGD-NIRFDNVLAVGKDE 45
+ A IE + + KI+ +G ++ L + ++
Sbjct: 60 LLAEIETDKATIGFEVQEEGYLAKILVPEGTRDVPLGTPLCIIVEK 105
>1pmr_A Dihydrolipoyl succinyltransferase; 2-oxoglutarate dehydrogenase,
lipoyl domain, complex, glycolysis; NMR {Escherichia
coli} SCOP: b.84.1.1
Length = 80
Score = 24.7 bits (54), Expect = 5.5
Identities = 6/39 (15%), Positives = 14/39 (35%)
Query: 3 AIIEHGGKQSRVSATDTITVEKIVAKDGDNIRFDNVLAV 41
IE V A+ ++ ++ +G + +L
Sbjct: 37 VEIETDKVVLEVPASADGILDAVLEDEGTTVTSRQILGR 75
>1ia5_A Polygalacturonase; glycosylhydrolase; HET: MAN NAG; 2.00A
{Aspergillus aculeatus} SCOP: b.80.1.3 PDB: 1ib4_A*
Length = 339
Score = 24.2 bits (52), Expect = 7.8
Identities = 5/29 (17%), Positives = 10/29 (34%)
Query: 32 NIRFDNVLAVGKDEHLSVGTPRVEGAYVE 60
N+ F + + D + + T V
Sbjct: 219 NVTFVDSTIINSDNGVRIKTNIDTTGSVS 247
>2dne_A Dihydrolipoyllysine-residue acetyltransferase component of
pyruvate dehydrogenase...; lipoyl domain, lipoic acid,
2-oxoacid dehydrogenase; NMR {Homo sapiens}
Length = 108
Score = 24.1 bits (52), Expect = 8.2
Identities = 5/42 (11%), Positives = 17/42 (40%), Gaps = 1/42 (2%)
Query: 1 MFAIIEHGGKQSRVSATDTITVEKIVAKDGD-NIRFDNVLAV 41
+ A +E + + + KI+ +G ++ ++ +
Sbjct: 40 LIAEVETDKATVGFESLEECYMAKILVAEGTRDVPIGAIICI 81
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 0.133 0.363
Gapped
Lambda K H
0.267 0.0677 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 853,606
Number of extensions: 35607
Number of successful extensions: 106
Number of sequences better than 10.0: 1
Number of HSP's gapped: 103
Number of HSP's successfully gapped: 33
Length of query: 103
Length of database: 5,693,230
Length adjustment: 68
Effective length of query: 35
Effective length of database: 4,044,638
Effective search space: 141562330
Effective search space used: 141562330
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 (23.1 bits)