RPS-BLAST 2.2.22 [Sep-27-2009]

Database: CddB 
           21,608 sequences; 5,994,473 total letters

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

Query= gi|254780147|ref|YP_003064560.1| 50S ribosomal protein L11
[Candidatus Liberibacter asiaticus str. psy62]
         (142 letters)



>gnl|CDD|162455 TIGR01632, L11_bact, 50S ribosomal protein L11.  This model
           represents bacterial, chloroplast, and most
           mitochondrial forms of 50S ribosomal protein L11.
          Length = 140

 Score =  219 bits (559), Expect = 3e-58
 Identities = 74/140 (52%), Positives = 100/140 (71%)

Query: 3   KVVSRIVKLQIESGSAKPSPPVGPAIGQAGIPIMAFCKAFNAATEGMEKGIPIPTTVTCY 62
           K +  I+KLQ+ +G A P+PPVGPA+GQ G+ IM FCK FNA T   E G+P+P  +T Y
Sbjct: 1   KKIVGIIKLQVPAGQANPAPPVGPALGQRGVNIMEFCKQFNARTADYEPGLPVPVVITVY 60

Query: 63  KDKSFTFTMSQPPVSFFLKKEVGIKSGSKLPGKESCGSITRENIRKIAQLKMQDMGAIDI 122
           +DKSFTF +  PPVS+ LKK  G++ GSK P KE  G ITR+ +R+IA++KM D+   DI
Sbjct: 61  EDKSFTFIVKTPPVSYLLKKAAGVEKGSKNPKKEKVGKITRKQVREIAEIKMSDLNTKDI 120

Query: 123 EGAMRMVEGSACSMGISVVD 142
           E AM+++ G+A SMGI +V 
Sbjct: 121 EAAMKIIAGTAKSMGIEIVG 140


>gnl|CDD|178895 PRK00140, rplK, 50S ribosomal protein L11; Validated.
          Length = 141

 Score =  213 bits (545), Expect = 1e-56
 Identities = 80/142 (56%), Positives = 97/142 (68%), Gaps = 1/142 (0%)

Query: 1   MAKVVSRIVKLQIESGSAKPSPPVGPAIGQAGIPIMAFCKAFNAATEGMEKGIPIPTTVT 60
           MAK V   +KLQI +G A P+PPVGPA+GQ G+ IM FCKAFNA T+   KG+PIP  +T
Sbjct: 1   MAKKVVGYIKLQIPAGKANPAPPVGPALGQRGVNIMEFCKAFNARTQDQ-KGLPIPVVIT 59

Query: 61  CYKDKSFTFTMSQPPVSFFLKKEVGIKSGSKLPGKESCGSITRENIRKIAQLKMQDMGAI 120
            Y+D+SFTF    PP S  LKK  GI+ GS  P KE  G ITR  +R+IA+ KM D+ A 
Sbjct: 60  VYEDRSFTFITKTPPASVLLKKAAGIEKGSGEPNKEKVGKITRAQVREIAETKMPDLNAA 119

Query: 121 DIEGAMRMVEGSACSMGISVVD 142
           DIE AMRM+ G+A SMGI V  
Sbjct: 120 DIEAAMRMIAGTARSMGIVVEG 141


>gnl|CDD|128897 smart00649, RL11, Ribosomal protein L11/L12. 
          Length = 132

 Score =  182 bits (464), Expect = 3e-47
 Identities = 71/133 (53%), Positives = 96/133 (72%), Gaps = 1/133 (0%)

Query: 9   VKLQIESGSAKPSPPVGPAIGQAGIPIMAFCKAFNAATEGMEKGIPIPTTVTCYKDKSFT 68
           +KLQI +G A P+PP+GPA+GQ GI IM FCK FNA T+  +KG+PIP  +T Y DKSFT
Sbjct: 1   IKLQIPAGKANPAPPLGPALGQLGINIMEFCKEFNARTKD-KKGLPIPVKITVYNDKSFT 59

Query: 69  FTMSQPPVSFFLKKEVGIKSGSKLPGKESCGSITRENIRKIAQLKMQDMGAIDIEGAMRM 128
           F +  PP SF LKK  GI+ GSK PGK+  G+IT + + +IA++K  D+ A D+E A++ 
Sbjct: 60  FIIKTPPASFLLKKAAGIEKGSKKPGKKKVGNITLDQVYEIAKIKRPDLNAKDLEAAVKE 119

Query: 129 VEGSACSMGISVV 141
           + G+A SMGI+V 
Sbjct: 120 ILGTARSMGITVE 132


>gnl|CDD|184732 PRK14539, PRK14539, 50S ribosomal protein L11/unknown domain fusion
           protein; Provisional.
          Length = 196

 Score = 99.6 bits (248), Expect = 2e-22
 Identities = 55/140 (39%), Positives = 77/140 (55%), Gaps = 5/140 (3%)

Query: 1   MAKVVSRIVKLQIESGSAKPSPPVGPAIGQAGIPIMAFCKAFNAATEGMEKGIPIPTTVT 60
             K V ++ KLQ  +G AKP    GP++   GI +  F K FN AT     G P+P  +T
Sbjct: 2   AKKEVVKVAKLQFNAGQAKP----GPSLAGVGINMPEFTKQFNDATRD-RGGEPVPVQIT 56

Query: 61  CYKDKSFTFTMSQPPVSFFLKKEVGIKSGSKLPGKESCGSITRENIRKIAQLKMQDMGAI 120
            YKDKSF F +   P SF +K+   IKSGS        G+IT   + +IA+ K+ D+   
Sbjct: 57  VYKDKSFDFKLFTAPASFKIKQAAKIKSGSANSKTTIVGTITLSQLEEIAKYKLPDLNTD 116

Query: 121 DIEGAMRMVEGSACSMGISV 140
           D+E AM  + G+A +MG+ V
Sbjct: 117 DVEEAMHTIAGTAKNMGVLV 136


>gnl|CDD|179232 PRK01143, rpl11p, 50S ribosomal protein L11P; Validated.
          Length = 163

 Score = 97.7 bits (244), Expect = 1e-21
 Identities = 48/135 (35%), Positives = 80/135 (59%), Gaps = 2/135 (1%)

Query: 7   RIVKLQIESGSAKPSPPVGPAIGQAGIPIMAFCKAFNAATEGMEKGIPIPTTVTCYKD-K 65
           ++V++ +E G A P PP+GPA+G  G+ +    +  N  T+   KG+ +P  V    D K
Sbjct: 3   KVVEVLVEGGKATPGPPLGPALGPLGLNVKQVVQEINEKTKDF-KGMQVPVKVIVDTDTK 61

Query: 66  SFTFTMSQPPVSFFLKKEVGIKSGSKLPGKESCGSITRENIRKIAQLKMQDMGAIDIEGA 125
            F   +  PP +  +KKE+GI+ GS  PG E  G+++ E + KIA +K  D+ + D++ A
Sbjct: 62  KFEIEVGIPPTTALIKKELGIEKGSGEPGHEVVGNLSFEQVVKIAIMKKDDLLSYDLKAA 121

Query: 126 MRMVEGSACSMGISV 140
           ++ V G+  SMG++V
Sbjct: 122 VKEVLGTCVSMGVTV 136


>gnl|CDD|140342 PTZ00321, PTZ00321, ribosomal protein L11; Provisional.
          Length = 342

 Score = 65.0 bits (158), Expect = 6e-12
 Identities = 40/136 (29%), Positives = 66/136 (48%), Gaps = 7/136 (5%)

Query: 13  IESGSAKPSPPVGPAIGQAGIPIMAFCKAFNAATE-GMEKGIPIPTTVTCYKDKSFTFTM 71
           I++G A   PPVG    + G+  M F K+FN  T+   +  + +   +  Y DKS+ FT+
Sbjct: 57  IKAGKAATGPPVGQEFSKLGLKAMDFAKSFNDRTKPHFKDDVELIVRIQVYFDKSYLFTI 116

Query: 72  SQPPVSFFLKKEVGIKSGSKLP---GKESCGSITRENIRKIAQLKMQDMGAID---IEGA 125
             PP ++F+ + +  K     P       C  +T E   +IA++K +  G  +   IE  
Sbjct: 117 EPPPTAWFILRALRKKRRETGPVPLRGHYCALMTLEMAYEIAKMKPRSWGRPEYPLIETR 176

Query: 126 MRMVEGSACSMGISVV 141
           +R V G A  MG+  +
Sbjct: 177 VRRVVGQARRMGVCFI 192


>gnl|CDD|184471 PRK14039, PRK14039, ADP-dependent glucokinase; Provisional.
          Length = 453

 Score = 29.0 bits (65), Expect = 0.48
 Identities = 22/81 (27%), Positives = 36/81 (44%), Gaps = 3/81 (3%)

Query: 61  CYKDKSFTFTMSQPPVSFFLKKEVGIKSGSKLPGK-ESCGSI-TRENIRKIA-QLKMQDM 117
               + F   +S+P V    KK   ++ G K  G   + GS+  RE + K A +L+  D 
Sbjct: 328 IIHTREFVLCVSKPDVKMAKKKIEAMEFGLKCAGVYAASGSLDGREFVEKEASKLQESDF 387

Query: 118 GAIDIEGAMRMVEGSACSMGI 138
           G   +E  ++   G A  +G 
Sbjct: 388 GREQVELFLKAFGGKALGLGA 408


>gnl|CDD|178621 PLN03072, PLN03072, 60S ribosomal protein L12; Provisional.
          Length = 166

 Score = 28.2 bits (63), Expect = 0.82
 Identities = 10/42 (23%), Positives = 26/42 (61%)

Query: 99  GSITRENIRKIAQLKMQDMGAIDIEGAMRMVEGSACSMGISV 140
           G+I+ +++ +IA++      A ++ G ++ + G+  S+G +V
Sbjct: 103 GNISLDDVIEIAKIMRPRSMAKELAGTVKEILGTCVSVGCTV 144


>gnl|CDD|185273 PRK15375, PRK15375, pathogenicity island 1 effector protein StpP;
           Provisional.
          Length = 535

 Score = 27.1 bits (59), Expect = 1.5
 Identities = 16/64 (25%), Positives = 27/64 (42%), Gaps = 3/64 (4%)

Query: 12  QIESGSAKPSPPVGPAIGQAGIPIMAFCKAFNAATE-GMEKGIPIPTTVTCYKDKSFTFT 70
           +IE+G+  P    GP +G A   + +     N  T+  +  G+P+P     +  K     
Sbjct: 281 KIEAGAPMPQTMSGPTLGLARFAVSSI--PINQQTQVKLSDGMPVPVNTLTFDGKPVALA 338

Query: 71  MSQP 74
            S P
Sbjct: 339 GSYP 342


>gnl|CDD|179714 PRK04023, PRK04023, DNA polymerase II large subunit; Validated.
          Length = 1121

 Score = 26.8 bits (60), Expect = 1.8
 Identities = 23/80 (28%), Positives = 38/80 (47%), Gaps = 17/80 (21%)

Query: 47  EGMEKGI-PIPTTVTCYKDKSFTFTMSQPPVSFFLKKEVGIKSGSKL---------PGKE 96
           E +EKGI      V  +KD +  + M+  P++ F  +E+G+ S  KL          G  
Sbjct: 717 EPLEKGILRAKHDVYVFKDGTVRYDMTDLPLTHFRPREIGV-SVEKLRELGYTHDIYGNP 775

Query: 97  SCGSITRENIRKIAQLKMQD 116
               +  E+  +I +LK+QD
Sbjct: 776 ----LESED--QIVELKVQD 789


>gnl|CDD|165527 PHA03269, PHA03269, envelope glycoprotein C; Provisional.
          Length = 566

 Score = 27.0 bits (59), Expect = 1.9
 Identities = 19/71 (26%), Positives = 29/71 (40%), Gaps = 3/71 (4%)

Query: 14  ESGSAKPSPPVGPAIGQAGIPIMAFCKAFNAATEGMEKGIPIPTTVTCYK-DKSFTFTMS 72
           ++ S  P P V P +  A  P  A  +AF +A +  E      T+    K D +     S
Sbjct: 90  QAASRAPDPAVAPQLAAAPKPDAA--EAFTSAAQAHEAPADAGTSAASKKPDPAAHTQHS 147

Query: 73  QPPVSFFLKKE 83
            PP ++    E
Sbjct: 148 PPPFAYTRSME 158


>gnl|CDD|184800 PRK14714, PRK14714, DNA polymerase II large subunit; Provisional.
          Length = 1337

 Score = 27.0 bits (60), Expect = 2.0
 Identities = 14/41 (34%), Positives = 23/41 (56%), Gaps = 1/41 (2%)

Query: 47  EGMEKGI-PIPTTVTCYKDKSFTFTMSQPPVSFFLKKEVGI 86
           E +EKGI      V  +KD +  + M+  PV+ F  +E+G+
Sbjct: 764 EPLEKGILRAKHDVYVFKDGTVRYDMTDLPVTHFRPREIGV 804


>gnl|CDD|163319 TIGR03547, muta_rot_YjhT, mutatrotase, YjhT family.  Members of
           this protein family contain multiple copies of the
           beta-propeller-forming Kelch repeat. All are full-length
           homologs to YjhT of Escherichia coli, which has been
           identified as a mutarotase for sialic acid. This protein
           improves bacterial ability to obtain host sialic acid,
           and thus serves as a virulence factor. Some bacteria
           carry what appears to be a cyclically permuted homolog
           of this protein.
          Length = 346

 Score = 25.7 bits (57), Expect = 3.9
 Identities = 11/44 (25%), Positives = 17/44 (38%), Gaps = 9/44 (20%)

Query: 71  MSQPPVSFFLKKEVGI--------KSGSKLPGKESCGS-ITREN 105
            SQPP  +F  K V          ++  + P   + GS I  + 
Sbjct: 157 FSQPPEDYFWNKNVLSYDPSTNQWRNLGENPFLGTAGSAIVHKG 200


>gnl|CDD|171764 PRK12845, PRK12845, 3-ketosteroid-delta-1-dehydrogenase; Reviewed.
          Length = 564

 Score = 25.9 bits (57), Expect = 4.4
 Identities = 16/54 (29%), Positives = 21/54 (38%), Gaps = 15/54 (27%)

Query: 20  PSPPVGPAIGQAGIPIMAFCKAFNAATEG----------MEKGIPIPTTVTCYK 63
           P  P G A G+        C+ F+ A  G          ME  IP+P T   Y+
Sbjct: 131 PEQPGGSAAGRT-----CECRPFDTAVLGEYRPRLRPGVMEVSIPMPVTGADYR 179


>gnl|CDD|161834 TIGR00354, polC, DNA polymerase, archaeal type II, large subunit.
           This model represents the large subunit, DP2, of a two
           subunit novel Archaeal replicative DNA polymerase first
           characterized for Pyrococcus furiosus. Structure of DP2
           appears to be organized as a ~950 residue component
           separated from a ~300 residue component by a ~150
           residue intein. The other subunit, DP1, has sequence
           similarity to the eukaryotic DNA polymerase delta small
           subunit.
          Length = 1095

 Score = 25.6 bits (56), Expect = 5.3
 Identities = 19/74 (25%), Positives = 35/74 (47%), Gaps = 3/74 (4%)

Query: 47  EGMEKGI-PIPTTVTCYKDKSFTFTMSQPPVSFFLKKEVG--IKSGSKLPGKESCGSITR 103
           E +EKGI      V  +KD +  F  +  P++ F   E+G  ++   +L  +        
Sbjct: 692 EPLEKGILRAKNGVYVFKDGTARFDATDLPITHFKPAEIGVSVEKLRELGYERDYYGAEL 751

Query: 104 ENIRKIAQLKMQDM 117
           ++  +I +LK QD+
Sbjct: 752 KDENQIVELKPQDV 765


>gnl|CDD|130311 TIGR01244, TIGR01244, conserved hypothetical protein TIGR01244.
          No member of this family is characterized. The member
          from Xylella fastidiosa is a longer protein with an
          N-terminal region described by this model, followed by
          a metallo-beta-lactamase family domain and an
          additional C-terminal region. Members scoring above the
          trusted cutoff are limited to the proteobacteria.
          Length = 135

 Score = 25.3 bits (55), Expect = 5.7
 Identities = 7/15 (46%), Positives = 12/15 (80%)

Query: 27 AIGQAGIPIMAFCKA 41
          AIG A  P++A+C++
Sbjct: 81 AIGAAEGPVLAYCRS 95


>gnl|CDD|148653 pfam07168, FAE_3-kCoA_syn1, Fatty acid elongase 3-ketoacyl-CoA
           synthase 1.  This family contains fatty acid elongase
           3-ketoacyl-CoA synthase 1, a plant enzyme approximately
           350 residues long.
          Length = 336

 Score = 25.2 bits (55), Expect = 5.8
 Identities = 16/46 (34%), Positives = 23/46 (50%), Gaps = 8/46 (17%)

Query: 31  AGIPIMAFCKAFNAAT----EGMEKGIPIPTTVTCYKDKSFTFTMS 72
           AG+    F  AFN AT      ++KG+P  T  T +    F F++S
Sbjct: 227 AGVCFSLFSPAFNLATNDQWHTLKKGVPHLTVYTAF----FYFSIS 268


>gnl|CDD|180459 PRK06195, PRK06195, DNA polymerase III subunit epsilon; Validated.
          Length = 309

 Score = 25.1 bits (55), Expect = 6.5
 Identities = 12/26 (46%), Positives = 14/26 (53%), Gaps = 1/26 (3%)

Query: 116 DMGAIDIEGAMRMVEGSACSMGISVV 141
           +  AID E A      S CS+GI VV
Sbjct: 2   NFVAIDFETANEK-RNSPCSIGIVVV 26


>gnl|CDD|185454 PTZ00112, PTZ00112, origin recognition complex 1 protein;
           Provisional.
          Length = 1164

 Score = 25.0 bits (54), Expect = 6.6
 Identities = 12/48 (25%), Positives = 23/48 (47%)

Query: 87  KSGSKLPGKESCGSITRENIRKIAQLKMQDMGAIDIEGAMRMVEGSAC 134
           K  S LP  E  G    E    I +  M+++  +  +  +++VE ++C
Sbjct: 388 KRSSMLPMSEQKGRGASEKSEYIKEFTMEEVAKLTKDTTIKLVEENSC 435


>gnl|CDD|180418 PRK06133, PRK06133, glutamate carboxypeptidase; Reviewed.
          Length = 410

 Score = 24.6 bits (54), Expect = 8.5
 Identities = 12/46 (26%), Positives = 23/46 (50%), Gaps = 2/46 (4%)

Query: 73  QPPVSFFLKKEVGIKSGSK-LPGKESCGSITRENIRKI-AQLKMQD 116
           QP     LK+ V I+SGS    G +   ++  E ++ + A+++   
Sbjct: 36  QPAYLDTLKELVSIESGSGDAEGLKQVAALLAERLKALGAKVERAP 81


>gnl|CDD|184801 PRK14715, PRK14715, DNA polymerase II large subunit; Provisional.
          Length = 1627

 Score = 24.4 bits (53), Expect = 9.5
 Identities = 23/81 (28%), Positives = 38/81 (46%), Gaps = 17/81 (20%)

Query: 47  EGMEKGI-PIPTTVTCYKDKSFTFTMSQPPVSFFLKKEVGIKSGSKLP---------GKE 96
           E +EKGI      V  +KD +  F  +  P++ F   E+ + S  KL          GK 
Sbjct: 741 EPLEKGILRAKNDVYVFKDGTIRFDCTDVPITHFKPSEINV-SVEKLRELGYDKDIEGKP 799

Query: 97  SCGSITRENIRKIAQLKMQDM 117
               + R++  +I +LK+QD+
Sbjct: 800 ----LERDD--QILELKVQDV 814


  Database: CddB
    Posted date:  Feb 4, 2011  9:54 PM
  Number of letters in database: 5,994,473
  Number of sequences in database:  21,608
  
Lambda     K      H
   0.317    0.133    0.379 

Gapped
Lambda     K      H
   0.267   0.0722    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 2,213,649
Number of extensions: 126564
Number of successful extensions: 272
Number of sequences better than 10.0: 1
Number of HSP's gapped: 266
Number of HSP's successfully gapped: 30
Length of query: 142
Length of database: 5,994,473
Length adjustment: 84
Effective length of query: 58
Effective length of database: 4,179,401
Effective search space: 242405258
Effective search space used: 242405258
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 52 (23.8 bits)