RPS-BLAST 2.2.22 [Sep-27-2009]

Database: mmdb70 
           33,805 sequences; 4,956,049 total letters

Searching..................................................done

Query= gi|254780646|ref|YP_003065059.1| 50S ribosomal protein L21
[Candidatus Liberibacter asiaticus str. psy62]
         (103 letters)



>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 ... (R:)
          Length = 103

 Score =  119 bits (300), Expect = 1e-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


>3bbo_T Ribosomal protein L21; large ribosomal subunit, spinach
           chloroplast ribosome, ribonucleoprotein particle,
           macromolecular complex; 9.40A {Spinacea oleracea} (T:)
          Length = 257

 Score =  117 bits (293), Expect = 7e-28
 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


>2zjr_O 50S ribosomal protein L21; ribosome, large ribosomal
           subunit, ribonucleoprotein, RNA-binding, rRNA-binding,
           tRNA-binding, methylation; 2.91A {Deinococcus
           radiodurans} (O:)
          Length = 100

 Score =  110 bits (276), Expect = 9e-26
 Identities = 39/101 (38%), Positives = 52/101 (51%), Gaps = 3/101 (2%)

Query: 1   MFAIIEHGGKQSRVSATDTITVEKIVAKDGDNIRFDNVLAVGKDEHLSVGTPRVEGAYVE 60
           MFAII+ GGKQ RVS  D I VE +  + GD +    +   G     +V         V+
Sbjct: 1   MFAIIQTGGKQYRVSEGDVIRVESLQGEAGDKVELKALFVGG---EQTVFGEDAGKYTVQ 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}
          (V:1-66,V:94-101)
          Length = 74

 Score = 74.6 bits (184), Expect = 5e-15
 Identities = 30/68 (44%), Positives = 39/68 (57%), Gaps = 2/68 (2%)

Query: 1  MFAIIEHGGKQSRVSATDTITVEKIVAKDGDNIRFDNVLAVGKDEHLSVGTPRVEGAYVE 60
          MFAI++ GGKQ RV     + VEK+ A+ G  +    +L  G+     VGTP VEGA V 
Sbjct: 1  MFAIVKTGGKQYRVEPGLKLRVEKLDAEPGATVELPVLLLGGEK--TVVGTPVVEGASVV 58

Query: 61 AEVVKQLR 68
          AEV+   R
Sbjct: 59 AEVLGHGR 66


>1bdo_A Acetyl-COA carboxylase; BCCPSC, carboxyl transferase,
          fatty acid biosynthesis, hammerhead structure,
          selenomethionine, ligase; HET: BTN; 1.80A {Escherichia
          coli} (A:)
          Length = 80

 Score = 26.7 bits (59), Expect = 1.1
 Identities = 11/40 (27%), Positives = 20/40 (50%)

Query: 2  FAIIEHGGKQSRVSATDTITVEKIVAKDGDNIRFDNVLAV 41
            I+E     +++ A  + TV+ I+ + G  + FD  L V
Sbjct: 39 LCIVEAMKMMNQIEADKSGTVKAILVESGQPVEFDEPLVV 78


>1k8m_A E2 component of branched-chain ahpha-ketoacid
          dehydrogenase; lipoyl acid bearing, human BCKD,
          experimental DATA, average structure, transferase; NMR
          {Homo sapiens} (A:)
          Length = 93

 Score = 26.3 bits (58), Expect = 1.4
 Identities = 3/39 (7%), Positives = 11/39 (28%)

Query: 3  AIIEHGGKQSRVSATDTITVEKIVAKDGDNIRFDNVLAV 41
            ++       +++     ++K+     D       L  
Sbjct: 39 CEVQSDKASVTITSRYDGVIKKLYYNLDDIAYVGKPLVD 77


>2ejm_A Methylcrotonoyl-COA carboxylase subunit alpha;
          biotin-requiring enzyme, biotin, actyl COA carboxylase,
          fatty acid synthesis, structural genomics; NMR {Homo
          sapiens} (A:)
          Length = 99

 Score = 26.3 bits (58), Expect = 1.5
 Identities = 6/44 (13%), Positives = 17/44 (38%)

Query: 2  FAIIEHGGKQSRVSATDTITVEKIVAKDGDNIRFDNVLAVGKDE 45
            ++     +  + +    TV+K+  ++G        L   ++E
Sbjct: 42 LMVMIAMKMEHTIKSPKDGTVKKVFYREGAQANRHTPLVEFEEE 85


>1qjo_A Dihydrolipoamide acetyltransferase; lipoyl domain,
          pyruvate dehydrogenase; NMR {Escherichia coli} (A:)
          Length = 80

 Score = 26.3 bits (58), Expect = 1.5
 Identities = 7/43 (16%), Positives = 18/43 (41%)

Query: 3  AIIEHGGKQSRVSATDTITVEKIVAKDGDNIRFDNVLAVGKDE 45
            +E       V A     V+++    GD ++  +++ + + E
Sbjct: 35 ITVEGDKASMEVPAPFAGVVKELKVNVGDKVKTGSLIMIFEVE 77


>3bg3_A Pyruvate carboxylase, mitochondrial; TIM barrel,
          ATP-binding, biotin, disease mutation, gluconeogenesis,
          ligase, lipid synthesis, manganese; HET: KCX BTI; 2.80A
          {Homo sapiens} PDB: 3bg9_A (A:644-718)
          Length = 75

 Score = 26.2 bits (58), Expect = 1.6
 Identities = 5/40 (12%), Positives = 16/40 (40%)

Query: 2  FAIIEHGGKQSRVSATDTITVEKIVAKDGDNIRFDNVLAV 41
            ++     ++ V++    TV K+       +  D+++  
Sbjct: 34 LCVLSAMKMETVVTSPMEGTVRKVHVTKDMTLEGDDLILE 73


>1gjx_A Pyruvate dehydrogenase; oxidoreductase, lipoyl domain,
          dihydrolipoyl dehydrogenase, multienzyme complex,
          post-translational modification; NMR {Neisseria
          meningitidis} (A:)
          Length = 81

 Score = 25.8 bits (57), Expect = 1.9
 Identities = 9/39 (23%), Positives = 15/39 (38%)

Query: 3  AIIEHGGKQSRVSATDTITVEKIVAKDGDNIRFDNVLAV 41
            +E       V A     V+++  K GD I    ++ V
Sbjct: 36 ITLETDKATMDVPAEVAGVVKEVKVKVGDKISEGGLIVV 74


>1dcz_A Transcarboxylase 1.3S subunit; antiparallel beta sheet,
          hammerhead, biocytin; NMR {Propionibacterium
          freudenreichiisubsp} (A:)
          Length = 77

 Score = 25.8 bits (57), Expect = 1.9
 Identities = 8/40 (20%), Positives = 19/40 (47%)

Query: 2  FAIIEHGGKQSRVSATDTITVEKIVAKDGDNIRFDNVLAV 41
            ++E    ++ ++A     VEK++ K+ D ++    L  
Sbjct: 36 VLVLEAMKMETEINAPTDGKVEKVLVKERDAVQGGQGLIK 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 (A:)
          Length = 74

 Score = 25.8 bits (57), Expect = 2.0
 Identities = 6/40 (15%), Positives = 18/40 (45%)

Query: 2  FAIIEHGGKQSRVSATDTITVEKIVAKDGDNIRFDNVLAV 41
            ++E    ++ + +     V++I+ K+G+ +     L  
Sbjct: 33 LLVLEAMKMENEIPSPRDGVVKRILVKEGEAVDTGQPLIE 72


>1iyu_A E2P, dihydrolipoamide acetyltransferase component of
          pyruvate dehydrogenase complex; glycolysis,
          acyltransferase, lipoyl; NMR {Azotobacter vinelandii}
          (A:)
          Length = 79

 Score = 25.9 bits (57), Expect = 2.0
 Identities = 6/39 (15%), Positives = 15/39 (38%)

Query: 3  AIIEHGGKQSRVSATDTITVEKIVAKDGDNIRFDNVLAV 41
           ++E       V +     V+ +  K GD ++  + +  
Sbjct: 33 VVLESAKASMEVPSPKAGVVKSVSVKLGDKLKEGDAIIE 71


>2qf7_A Pyruvate carboxylase protein; multi-domain,
          multi-functional, biotin-dependent, ligase; HET: KCX
          COA SAP; 2.00A {Rhizobium etli cfn 42} (A:1087-1165)
          Length = 79

 Score = 25.8 bits (57), Expect = 2.1
 Identities = 11/40 (27%), Positives = 20/40 (50%)

Query: 2  FAIIEHGGKQSRVSATDTITVEKIVAKDGDNIRFDNVLAV 41
             IE    ++ + A    T+ +++ K GD I   ++LAV
Sbjct: 37 LVSIEAMKMETAIHAEKDGTIAEVLVKAGDQIDAKDLLAV 76


>1ghj_A E2, E2, the dihydrolipoamide succinyltransferase component
          of 2-oxoglutarate dehydrogenase...; glycolysis,
          acyltransferase, lipoyl; NMR {Azotobacter vinelandii}
          (A:)
          Length = 79

 Score = 25.4 bits (56), Expect = 2.4
 Identities = 9/43 (20%), Positives = 15/43 (34%)

Query: 3  AIIEHGGKQSRVSATDTITVEKIVAKDGDNIRFDNVLAVGKDE 45
            IE       V A     + +IV  +GD +    +L    + 
Sbjct: 36 VDIETDKVVMEVLAEADGVIAEIVKNEGDTVLSGELLGKLTEG 78


>2jku_A Propionyl-COA carboxylase alpha chain, mitochondrial;
          ligase, biotin, ATP-binding, polymorphism, disease
          mutation, nucleotide-binding; HET: PG4; 1.5A {Homo
          sapiens} (A:)
          Length = 94

 Score = 25.6 bits (56), Expect = 2.5
 Identities = 10/40 (25%), Positives = 20/40 (50%)

Query: 2  FAIIEHGGKQSRVSATDTITVEKIVAKDGDNIRFDNVLAV 41
            +IE    Q+ ++A  T TV+ +  + GD +   ++L  
Sbjct: 53 ICVIEAMKMQNSMTAGKTGTVKSVHCQAGDTVGEGDLLVE 92


>3hbl_A Pyruvate carboxylase; TIM barrel, ligase; HET: BTI ADP;
          2.71A {Staphylococcus aureus subsp} PDB: 3bg5_A*
          3ho8_A* 3hb9_A* (A:1069-1150)
          Length = 82

 Score = 25.1 bits (55), Expect = 3.5
 Identities = 7/44 (15%), Positives = 18/44 (40%)

Query: 2  FAIIEHGGKQSRVSATDTITVEKIVAKDGDNIRFDNVLAVGKDE 45
            I E    ++ + A     ++++   +GD I   ++L   +  
Sbjct: 37 LLITEAMKMETTIQAPFDGVIKQVTVNNGDTIATGDLLIEIEKA 80


>2k7v_A Dihydrolipoyllysine-residue acetyltransferase component of
          pyruvate dehydrogenase...; misfolded dimer,
          acyltransferase, glycolysis; NMR {Escherichia coli}
          (A:)
          Length = 85

 Score = 24.7 bits (54), Expect = 3.9
 Identities = 6/39 (15%), Positives = 16/39 (41%)

Query: 3  AIIEHGGKQSRVSATDTITVEKIVAKDGDNIRFDNVLAV 41
            +E       V A     V+++    GD ++  +++ +
Sbjct: 31 ITVEGDKASMEVPAPFAGVVKELKVNVGDKVKTGSLIMI 69


>1pmr_A Dihydrolipoyl succinyltransferase; 2-oxoglutarate
          dehydrogenase, lipoyl domain, complex, glycolysis; NMR
          {Escherichia coli} (A:)
          Length = 80

 Score = 24.7 bits (54), Expect = 4.8
 Identities = 6/43 (13%), Positives = 16/43 (37%)

Query: 3  AIIEHGGKQSRVSATDTITVEKIVAKDGDNIRFDNVLAVGKDE 45
            IE       V A+    ++ ++  +G  +    +L   ++ 
Sbjct: 37 VEIETDKVVLEVPASADGILDAVLEDEGTTVTSRQILGRLREG 79


>1z6h_A Biotin/lipoyl attachment protein; solution structure,
          biosynthetic protein; HET: BTI; NMR {Bacillus subtilis}
          PDB: 1z7t_A 2b8f_A 2b8g_A* (A:)
          Length = 72

 Score = 24.6 bits (54), Expect = 5.1
 Identities = 10/44 (22%), Positives = 21/44 (47%)

Query: 2  FAIIEHGGKQSRVSATDTITVEKIVAKDGDNIRFDNVLAVGKDE 45
           AI+E    +  + A  +  V+++  K+GD +   +VL    + 
Sbjct: 27 VAILESMKMEIPIVADRSGIVKEVKKKEGDFVNEGDVLLELSNS 70


  Database: mmdb70
    Posted date:  Jun 20, 2010  3:12 AM
  Number of letters in database: 4,956,049
  Number of sequences in database:  33,805
  
Lambda     K      H
   0.320    0.133    0.363 

Gapped
Lambda     K      H
   0.267   0.0649    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 33805
Number of Hits to DB: 763,361
Number of extensions: 31007
Number of successful extensions: 128
Number of sequences better than 10.0: 1
Number of HSP's gapped: 125
Number of HSP's successfully gapped: 29
Length of query: 103
Length of database: 4,956,049
Length adjustment: 61
Effective length of query: 42
Effective length of database: 2,893,944
Effective search space: 121545648
Effective search space used: 121545648
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)