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)