RPS-BLAST 2.2.22 [Sep-27-2009]
Database: mmdb70
33,805 sequences; 4,956,049 total letters
Searching..................................................done
Query= gi|254780885|ref|YP_003065298.1| hypothetical protein
CLIBASIA_03910 [Candidatus Liberibacter asiaticus str. psy62]
(207 letters)
>1ywu_A Hypothetical protein PA4608; PAT7, beta barrel, PILZ domain,
structural genomics, PSI, protein structure initiative;
NMR {Pseudomonas aeruginosa PAO1} (A:)
Length = 149
Score = 53.8 bits (129), Expect = 2e-08
Identities = 15/114 (13%), Positives = 37/114 (32%), Gaps = 8/114 (7%)
Query: 8 LQFIDQRAFQRVKVDLKGRFLLFDGTEYNCIVREISPGGLCIVCDVPMFL-VGERSIVFV 66
Q ++R F R+ D +L + ++ ++S G+ + +
Sbjct: 25 DQHDERRRFHRIAFDADSE-ILQGERRWEVLLHDVSLHGILVGQPQDWNGDPQRPFEARL 83
Query: 67 ----EKVGRIEGKVVNFDSNRGYAVRIVTSENERRKLADKLIWLANKDDLHLQD 116
+ + R+E + + + + +L+ L N D L +
Sbjct: 84 YLGLDVLIRMEISLAWAR-DGLLGFECQHIDLDSISHLRRLVEL-NLGDEELLE 135
Score = 35.7 bits (82), Expect = 0.005
Identities = 9/74 (12%), Positives = 23/74 (31%), Gaps = 13/74 (17%)
Query: 138 DNTKHSCKVIDISESGVSVS------------VDLQIEMFSKVLFNDILGRVVRIFPGGI 185
+ + D+S G+ V + ++ + VL + + G +
Sbjct: 47 GERRWEVLLHDVSLHGILVGQPQDWNGDPQRPFEARLYLGLDVLI-RMEISLAWARDGLL 105
Query: 186 AIEFSSVQESNIAF 199
E + +I+
Sbjct: 106 GFECQHIDLDSISH 119
>3cnr_A Type IV fimbriae assembly protein; PILZ, xanthomonas
citri, type IV pilus assembly, unknown function; HET:
MSE; 1.90A {Xanthomonas axonopodis PV} PDB: 3dsg_A (A:)
Length = 117
Score = 32.6 bits (74), Expect = 0.042
Identities = 11/95 (11%), Positives = 24/95 (25%), Gaps = 14/95 (14%)
Query: 15 AFQRVKVDLKGRFLLFDGTEYNCIVREISPGGLCIVCDVPMFLVGERSIVFVEKVG---- 70
A + L Y+ + GG+ + + +G+ + +
Sbjct: 3 AXNARQGILSLALKD-KPALYSAYXPFVKGGGIFVPTPKR-YXLGDEVFLLLTLPDSSER 60
Query: 71 -RIEGKVVNFDSNR-------GYAVRIVTSENERR 97
+ GKV+ G V+
Sbjct: 61 LPVAGKVIWTTPAGAQGNRAAGIGVQFPDGPEGEA 95
>2rde_A Uncharacterized protein VCA0042; C-DI-GMP, structural
genomics, PSI-2, protein structure initiative; HET: C2E;
1.92A {Vibrio cholerae O395} (A:138-251)
Length = 114
Score = 29.8 bits (67), Expect = 0.28
Identities = 19/100 (19%), Positives = 38/100 (38%), Gaps = 14/100 (14%)
Query: 18 RVKVDLKGRFLLFDGTEYNCIVREISPGGLCIVCDV--PMFLVGERSIVFVE-------K 68
R +++L G+ +LFD +C +R++S G + + VG+ + +
Sbjct: 2 RFELNLAGK-VLFDEHRGDCELRDLSRSGCRFITPPLGKTYQVGDLVALEIFSDLRGTKT 60
Query: 69 VGRIEGKVVN-FDSNRGYAVRIV---TSENERRKLADKLI 104
+ GK+ N S + N + L +L
Sbjct: 61 FPPLTGKICNLQRSLHHARYGLEFNEEGRNNAKNLLAQLK 100
Score = 28.3 bits (63), Expect = 0.70
Identities = 13/96 (13%), Positives = 39/96 (40%), Gaps = 22/96 (22%)
Query: 129 EVDAQLVLNDNTKHSCKVIDISESGV---------------SVSVDLQIEMFSKVLFNDI 173
+ +++ +++ + C++ D+S SG V++++ ++ F +
Sbjct: 6 NLAGKVLFDEH-RGDCELRDLSRSGCRFITPPLGKTYQVGDLVALEIFSDLRGTKTFPPL 64
Query: 174 LGRVVRIFPGG----IAIEFSSVQESNIAFKSLINH 205
G++ + +EF+ +N K+L+
Sbjct: 65 TGKICNLQRSLHHARYGLEFNEEGRNNA--KNLLAQ 98
>2cqm_A Ribosomal protein L17 isolog; alpha and beta (A+B),
structural genomics, NPPSFA, national project on protein
structural and functional analyses; NMR {Homo sapiens}
(A:)
Length = 122
Score = 28.6 bits (64), Expect = 0.61
Identities = 11/46 (23%), Positives = 16/46 (34%), Gaps = 3/46 (6%)
Query: 88 RIVTSEN---ERRKLADKLIWLANKDDLHLQDCRAYGRKITRDREV 130
RI E R A+KLI D + + R +T +
Sbjct: 21 RIEAPWARVDEMRGYAEKLIDYGKLGDTNERAMRMADFWLTEKDLI 66
>2c35_B Human RPB7, DNA-directed RNA polymerase II 19 kDa
polypeptide; transcription, nucleotidyltransferase;
2.70A {Homo sapiens} (B:81-172)
Length = 92
Score = 28.2 bits (63), Expect = 0.79
Identities = 8/66 (12%), Positives = 17/66 (25%)
Query: 19 VKVDLKGRFLLFDGTEYNCIVREISPGGLCIVCDVPMFLVGERSIVFVEKVGRIEGKVVN 78
+V+ G F I P + +++ I K+V
Sbjct: 10 TQVNKVGLFTEIGPMSCFISRHSIPSEMEFDPNSNPPCYKTMDEDIVIQQDDEIRLKIVG 69
Query: 79 FDSNRG 84
++
Sbjct: 70 TRVDKN 75
>2gjg_A Hypothetical protein PP4397; structural genomics, joint
center for structural genomics, JCSG, protein structure
initiative, PSI; 2.25A {Pseudomonas putida KT2440}
(A:124-248)
Length = 125
Score = 27.6 bits (61), Expect = 1.4
Identities = 12/106 (11%), Positives = 27/106 (25%), Gaps = 20/106 (18%)
Query: 14 RAFQRVKVDLKGRFLLF-------DGTEYNCIVREISPGGLCIVCDVPMFLVGERSIVFV 66
R R + L + + +IS G + + + + V+
Sbjct: 1 RNAFRAALKLSQLVDIILDGAHLKGNGAXRGKLLDISATGCKLRFEGNVEDRLQLGQVYE 60
Query: 67 -------EKVGRIEGKVVNFDSNRG-----YAVRIVT-SENERRKL 99
+ ++ + VR S +RK+
Sbjct: 61 RFKAGNPLGLVDTXVELRHLHYEERINTTFAGVRFHNLSGQAQRKI 106
>3bbo_P Ribosomal protein L17; large ribosomal subunit, spinach
chloroplast ribosome, ribonucleoprotein particle,
macromolecular complex; 9.40A {Nicotiana tabacum} (P:)
Length = 205
Score = 26.9 bits (59), Expect = 2.1
Identities = 11/29 (37%), Positives = 15/29 (51%), Gaps = 3/29 (10%)
Query: 88 RIVTSEN---ERRKLADKLIWLANKDDLH 113
RI T++ RK DK+I +A LH
Sbjct: 122 RIKTTKARARAVRKYVDKMITMAKDGSLH 150
>3fov_A UPF0102 protein RPA0323; structural genomics, APC7380,
PSI-2, protein structure initiative; 1.88A
{Rhodopseudomonas palustris CGA009} (A:)
Length = 134
Score = 25.6 bits (56), Expect = 4.8
Identities = 13/71 (18%), Positives = 23/71 (32%), Gaps = 9/71 (12%)
Query: 48 CIVCDVPMFLVGERSIVFVEKVGRIEGKVVNFDSNRGYAVRIVTSENERRKLADKLIWLA 107
++ + + + FVE V N A VT + R +A WL+
Sbjct: 48 TRCGEIDLVAQRDALVAFVE---------VKARGNVDDAAYAVTPRQQSRIVAAAEAWLS 98
Query: 108 NKDDLHLQDCR 118
+ + R
Sbjct: 99 RHPEHAXSELR 109
>2zjr_K 50S ribosomal protein L17; ribosome, large ribosomal
subunit, ribonucleoprotein, RNA-binding, rRNA-binding,
tRNA-binding, methylation; 2.91A {Deinococcus
radiodurans} (K:)
Length = 116
Score = 25.5 bits (56), Expect = 5.6
Identities = 11/29 (37%), Positives = 14/29 (48%), Gaps = 3/29 (10%)
Query: 88 RIVTSEN---ERRKLADKLIWLANKDDLH 113
RI T+ E R ++LI A DLH
Sbjct: 33 RIQTTLTKAKELRPFVEQLITTAKGGDLH 61
>3i1n_N 50S ribosomal protein L17; ribosome structure, protein-RNA
complex, acetylation, ribonucleoprotein, ribosomal
protein, RNA-binding, rRNA- binding, methylation; 3.19A
{Escherichia coli k-12} PDB: 1p85_L 1p86_L 1vs8_N 2aw4_N
2awb_N 1vs6_N 2i2v_N 2j28_N 2i2t_N* 2qao_N* 2qba_N*
2qbc_N* 2qbe_N 2qbg_N 2qbi_N* 2qbk_N* 2qov_N 2qox_N
2qoz_N* 2qp1_N* ... (N:)
Length = 127
Score = 25.1 bits (55), Expect = 6.7
Identities = 9/29 (31%), Positives = 14/29 (48%), Gaps = 3/29 (10%)
Query: 88 RIVTSEN---ERRKLADKLIWLANKDDLH 113
I T+ E R++ + LI LA D +
Sbjct: 33 IIKTTLPKAKELRRVVEPLITLAKTDSVA 61
>1gd8_A 50S ribosomal protein L17; two domains, ribosomal protein
S8-like domain, Trp repressor-like domain,
helix-turn-helix motif; 2.30A {Thermus thermophilus}
(A:)
Length = 118
Score = 25.2 bits (55), Expect = 7.3
Identities = 13/29 (44%), Positives = 15/29 (51%), Gaps = 3/29 (10%)
Query: 88 RIVTSEN---ERRKLADKLIWLANKDDLH 113
RI T+ E R D LI LA + DLH
Sbjct: 33 RITTTVPKAKELRGFVDHLIHLAKRGDLH 61
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
0.326 0.142 0.418
Gapped
Lambda K H
0.267 0.0580 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 33805
Number of Hits to DB: 1,553,687
Number of extensions: 67560
Number of successful extensions: 192
Number of sequences better than 10.0: 1
Number of HSP's gapped: 190
Number of HSP's successfully gapped: 19
Length of query: 207
Length of database: 4,956,049
Length adjustment: 84
Effective length of query: 123
Effective length of database: 2,116,429
Effective search space: 260320767
Effective search space used: 260320767
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 52 (24.1 bits)