RPS-BLAST 2.2.22 [Sep-27-2009]
Database: pdb70
24,244 sequences; 5,693,230 total letters
Searching..................................................done
Query= gi|254780305|ref|YP_003064718.1| hypothetical protein
CLIBASIA_00950 [Candidatus Liberibacter asiaticus str. psy62]
(95 letters)
>3maj_A DNA processing chain A; MCSG, PSI-2, structural genomics, protein
structure initiati midwest center for structural
genomics; HET: DNA; 2.05A {Rhodopseudomonas palustris}
Length = 382
Score = 55.7 bits (134), Expect = 2e-09
Identities = 26/54 (48%), Positives = 33/54 (61%)
Query: 35 ERVRIKQSLNNVPIHIDDIIHHTGIEAPVVYLVLLELDLAGRLCHHPEGKVSLT 88
+R RI L P+ IDD+I +GI VV +LLEL+LAGRL H VSL+
Sbjct: 329 DRTRILALLGPSPVGIDDLIRLSGISPAVVRTILLELELAGRLERHGGSLVSLS 382
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna;
HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 29.2 bits (64), Expect = 0.24
Identities = 11/54 (20%), Positives = 17/54 (31%), Gaps = 30/54 (55%)
Query: 40 KQSLN----NVPIHIDDIIHHTGIEAPVVYLVLLELDLAGRLCHHPEGKVSLTM 89
KQ+L ++ ++ DD AP LA + TM
Sbjct: 19 KQALKKLQASLKLYADD-------SAPA---------LA----------IKATM 46
>2odr_B Phosphoseryl-tRNA synthetase; phosphoserine tRNA synthetase class
II, ligase; 3.23A {Methanococcus maripaludis S2}
Length = 648
Score = 26.1 bits (57), Expect = 2.1
Identities = 4/37 (10%), Positives = 11/37 (29%), Gaps = 2/37 (5%)
Query: 26 THYPEYTQCERVRIKQ--SLNNVPIHIDDIIHHTGIE 60
+H Y + +N+ + ++ G
Sbjct: 243 SHLMTYHSASCAIAGEGVDINDGKAIAEGLLSQFGFT 279
>1b7y_A Phers, protein (phenylalanyl-tRNA synthetase); enzyme, alpha/beta
homodimer; HET: FYA; 2.50A {Thermus thermophilus} SCOP:
d.104.1.1 PDB: 1b70_A* 1eiy_A 1jjc_A* 1pys_A 2iy5_A*
3hfz_A* 2aly_A* 2akw_A* 2amc_A*
Length = 350
Score = 25.8 bits (56), Expect = 2.2
Identities = 4/31 (12%), Positives = 12/31 (38%)
Query: 19 HTKNINITHYPEYTQCERVRIKQSLNNVPIH 49
+ + TH + Q E + + + + +
Sbjct: 204 RFEQTDATHEAVFHQLEGLVVGEGIAMAHLK 234
>2odr_D Phosphoseryl-tRNA synthetase; phosphoserine tRNA synthetase class
II, ligase; 3.23A {Methanococcus maripaludis S2}
Length = 685
Score = 25.7 bits (56), Expect = 2.7
Identities = 4/37 (10%), Positives = 11/37 (29%), Gaps = 2/37 (5%)
Query: 26 THYPEYTQCERVRIKQ--SLNNVPIHIDDIIHHTGIE 60
+H Y + +N+ + ++ G
Sbjct: 243 SHLMTYHSASCAIAGEGVDINDGKAIAEGLLSQFGFT 279
>2odr_A Phosphoseryl-tRNA synthetase; phosphoserine tRNA synthetase class
II, ligase; 3.23A {Methanococcus maripaludis S2}
Length = 665
Score = 25.7 bits (56), Expect = 2.8
Identities = 4/37 (10%), Positives = 11/37 (29%), Gaps = 2/37 (5%)
Query: 26 THYPEYTQCERVRIKQ--SLNNVPIHIDDIIHHTGIE 60
+H Y + +N+ + ++ G
Sbjct: 243 SHLMTYHSASCAIAGEGVDINDGKAIAEGLLSQFGFT 279
>2qx2_A Sex pheromone staph-CAM373; structural genomics, PSI-2, protein
structure initiative, midwest center for structural
genomics, MCSG; 1.90A {Staphylococcus aureus subsp}
Length = 344
Score = 25.5 bits (56), Expect = 3.2
Identities = 6/16 (37%), Positives = 9/16 (56%)
Query: 35 ERVRIKQSLNNVPIHI 50
R+R L ++PIH
Sbjct: 175 SRLRENDDLKDIPIHF 190
>3n2q_A Sex pheromone staph-CAM373; structural genomics, MCSG, PSI-2,
protein structure initiati midwest center for structural
genomics; 2.55A {Bacillus cereus}
Length = 287
Score = 25.3 bits (55), Expect = 3.8
Identities = 4/16 (25%), Positives = 5/16 (31%)
Query: 35 ERVRIKQSLNNVPIHI 50
E + N PI
Sbjct: 119 EAINKNDKYNKSPITF 134
>2r7r_A RNA-dependent RNA polymerase; viral protein, RNA-dependent RNA
polymerase, single subunit polymerase fold, fingers,
PALM, thumb; 2.60A {Simian rotavirus} PDB: 2r7q_A 2r7s_A
2r7t_A 2r7u_A 2r7v_A 2r7w_A* 2r7x_A* 2r7o_A
Length = 1095
Score = 25.0 bits (54), Expect = 4.4
Identities = 12/38 (31%), Positives = 18/38 (47%)
Query: 14 QSDTNHTKNINITHYPEYTQCERVRIKQSLNNVPIHID 51
Q T +T+N++ Y EYT R + + L H D
Sbjct: 346 QLKTEYTENVDDEMYREYTMLIRDEVVKMLEEPVKHDD 383
>3lu0_D DNA-directed RNA polymerase subunit beta'; E. coli RNA polymerase,
nucleotidyltransferase, transcription, transferase;
11.20A {Escherichia coli} PDB: 3iyd_D*
Length = 1407
Score = 23.9 bits (51), Expect = 8.2
Identities = 10/33 (30%), Positives = 16/33 (48%)
Query: 35 ERVRIKQSLNNVPIHIDDIIHHTGIEAPVVYLV 67
ERV +++ P DI+ G+ A Y+V
Sbjct: 1202 ERVERGDVISDGPEAPHDILRLRGVHAVTRYIV 1234
>2odr_C Phosphoseryl-tRNA synthetase; phosphoserine tRNA synthetase class
II, ligase; 3.23A {Methanococcus maripaludis S2}
Length = 701
Score = 23.8 bits (51), Expect = 8.7
Identities = 2/19 (10%), Positives = 6/19 (31%)
Query: 26 THYPEYTQCERVRIKQSLN 44
+H Y + ++
Sbjct: 243 SHLMTYHSASCAIAGEGVD 261
>3iyd_D DNA-directed RNA polymerase subunit beta; transcription, initiation,
class I, activator, RNA polymerase, holoenzyme, sigma70,
open complex, CAP, CRP, CAMP-dependent; HET: DNA CMP;
19.80A {Escherichia coli k-12}
Length = 1413
Score = 24.0 bits (51), Expect = 8.7
Identities = 10/33 (30%), Positives = 16/33 (48%)
Query: 35 ERVRIKQSLNNVPIHIDDIIHHTGIEAPVVYLV 67
ERV +++ P DI+ G+ A Y+V
Sbjct: 1202 ERVERGDVISDGPEAPHDILRLRGVHAVTRYIV 1234
>1zrh_A Heparan sulfate glucosamine 3-O-sulfotransferase 1, heparan sulfate
D-; SGC, sulfotransferase HS3ST1, structural genomics;
HET: A3P; 2.10A {Homo sapiens} PDB: 1vkj_A*
Length = 274
Score = 23.7 bits (50), Expect = 9.3
Identities = 8/83 (9%), Positives = 24/83 (28%), Gaps = 5/83 (6%)
Query: 3 HPQI-----EQNFFSSQSDTNHTKNINITHYPEYTQCERVRIKQSLNNVPIHIDDIIHHT 57
HP + E +FF + +H ++ P + K + + ++
Sbjct: 44 HPDVAAAENEVHFFDWEEHYSHGLGWYLSQMPFSWPHQLTVEKTPAYFTSPKVPERVYSM 103
Query: 58 GIEAPVVYLVLLELDLAGRLCHH 80
++ ++ +
Sbjct: 104 NPSIRLLLILRDPSERVLSDYTQ 126
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 0.136 0.415
Gapped
Lambda K H
0.267 0.0597 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 861,302
Number of extensions: 33549
Number of successful extensions: 79
Number of sequences better than 10.0: 1
Number of HSP's gapped: 79
Number of HSP's successfully gapped: 17
Length of query: 95
Length of database: 5,693,230
Length adjustment: 61
Effective length of query: 34
Effective length of database: 4,214,346
Effective search space: 143287764
Effective search space used: 143287764
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 (23.3 bits)