RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780763|ref|YP_003065176.1| hypothetical protein
CLIBASIA_03260 [Candidatus Liberibacter asiaticus str. psy62]
         (107 letters)



>1ybx_A Conserved hypothetical protein; structural genomics, PSI,
           protein structure initiative, southeast collaboratory
           for structural genomics; HET: MSE; 1.80A {Clostridium
           thermocellum} (A:)
          Length = 143

 Score =  100 bits (251), Expect = 7e-23
 Identities = 35/103 (33%), Positives = 59/103 (57%)

Query: 1   MSNIMKMVGQFKEIQGKMEKMKESITSLEAEGNAGGGMVSVRINGKNMLTGVKIDRSLLF 60
             NI  +V Q ++ Q   E+++E +     E +AGGG V+V   G+  +  + I   ++ 
Sbjct: 40  GGNINNLVKQAQKXQRDXERVQEELKEKTVEASAGGGAVTVVATGRKDIKEITIKPEVVD 99

Query: 61  EDNVEILEDLIIAAHSDAHKKIEDLVATKTQEITEGLPIPPGL 103
            D+VE L+DLI+AA ++A +K ++ V  +  +IT GL   PGL
Sbjct: 100 PDDVEXLQDLILAAVNEALRKADEXVTAEISKITGGLGGIPGL 142


>1j8b_A YBAB; hypothetical protein, structural genomics, structure 2
           function project, S2F, unknown function; HET: MSE; 1.75A
           {Haemophilus influenzae rd KW20} (A:)
          Length = 112

 Score = 95.2 bits (237), Expect = 3e-21
 Identities = 43/107 (40%), Positives = 61/107 (57%), Gaps = 1/107 (0%)

Query: 1   MSNIMKMVGQFKEIQGKMEKMKESITSLEAEGNAGGGMVSVRINGKNMLTGVKIDRSLLF 60
              +  +  Q ++ Q K +K +E I  LE  G +G G+V + ING +    + ID SL  
Sbjct: 7   KGGLGGLXKQAQQXQEKXQKXQEEIAQLEVTGESGAGLVKITINGAHNCRRIDIDPSLXE 66

Query: 61  EDNVEILEDLIIAAHSDAHKKIEDLVATKTQEITEGLPIPPGLKFPF 107
           +D  E LEDLI AA +DA ++ E+L   K   +T G P+PPG KFPF
Sbjct: 67  DD-KEXLEDLIAAAFNDAVRRAEELQKEKXASVTAGXPLPPGXKFPF 112


>3f42_A Protein HP0035; helicobacter pylori unknown-function,
          structural genomics, PSI-2, protein structure
          initiative; HET: MSE; 1.78A {Helicobacter pylori} (A:)
          Length = 99

 Score = 91.6 bits (228), Expect = 4e-20
 Identities = 21/98 (21%), Positives = 41/98 (41%), Gaps = 2/98 (2%)

Query: 1  MSNIMKMVGQFKEIQGKMEKMKESITSLEAEGNAGGGMVSVRINGKNMLTGVKIDRSLLF 60
            +  ++ G     + +  +++E          +GGG VSV  NG   L  ++ID SLL 
Sbjct: 2  HXDFSQLGGLLDGXKKEFSQLEEKNKDTIHTSKSGGGXVSVSFNGLGELVDLQIDDSLL- 60

Query: 61 EDNVEILEDLIIAAHSDAHKKIEDLVATKTQEITEGLP 98
           ++ E  +  + +A +D +K +E+              
Sbjct: 61 -EDKEAXQIYLXSALNDGYKAVEENRKNLAFNXLGNFA 97


>1f07_A Coenzyme F420-dependent N5,N10-
           methylenetetrahydromethanopterin reductase; (beta,
           alpha)8 barrel, TIM barrel; HET: MPO; 2.00A
           {Methanothermobacterthermautotrophicus}
           (A:1-205,A:281-321)
          Length = 246

 Score = 32.8 bits (74), Expect = 0.019
 Identities = 11/34 (32%), Positives = 17/34 (50%)

Query: 68  EDLIIAAHSDAHKKIEDLVATKTQEITEGLPIPP 101
            D+ +AA+++   KIE L      +   G PI P
Sbjct: 197 ADIDVAAYTEFIPKIEALGEMGVTQYVAGSPIGP 230


>1q1l_A Chorismate synthase; beta alpha beta sandwich, structural
           genomics, PSI, protein structure initiative, midwest
           center for structural genomics; 2.05A {Aquifex aeolicus}
           (A:)
          Length = 401

 Score = 26.7 bits (59), Expect = 1.0
 Identities = 8/29 (27%), Positives = 14/29 (48%)

Query: 17  KMEKMKESITSLEAEGNAGGGMVSVRING 45
           K E+ K  I  ++ +G + GG+  V    
Sbjct: 209 KDEEFKTYIDEVKEKGESLGGVFEVFALN 237


>1um0_A Chorismate synthase; beta-alpha-beta sandwich fold, lyase;
          HET: FMN; 1.95A {Helicobacter pylori} (A:146-299)
          Length = 154

 Score = 26.7 bits (59), Expect = 1.3
 Identities = 7/49 (14%), Positives = 17/49 (34%)

Query: 17 KMEKMKESITSLEAEGNAGGGMVSVRINGKNMLTGVKIDRSLLFEDNVE 65
          + E  K +I +     ++ GG+  +R         + I         ++
Sbjct: 37 QEEAQKTAIQNAIKNHDSIGGVALIRARSIKTNQKLPIGLGQGLYAKLD 85


>1qxo_A Chorismate synthase; beta-alpha-beta, flavoprotein,
          shikimate, anti-infective, lyase; HET: FMN EPS; 2.00A
          {Streptococcus pneumoniae} (A:155-315)
          Length = 161

 Score = 26.3 bits (58), Expect = 1.6
 Identities = 7/29 (24%), Positives = 18/29 (62%)

Query: 17 KMEKMKESITSLEAEGNAGGGMVSVRING 45
          + +++K+ I  ++ +G+  GG+V   + G
Sbjct: 42 REQEIKDYIDQIKRDGDTIGGVVETVVGG 70


>1yq2_A Beta-galactosidase; glycosyl hydrolase family 2, TIM
          barrel, hexamer; 1.90A {Arthrobacter SP} (A:728-1024)
          Length = 297

 Score = 25.8 bits (56), Expect = 2.0
 Identities = 3/28 (10%), Positives = 10/28 (35%)

Query: 36 GGMVSVRINGKNMLTGVKIDRSLLFEDN 63
              ++       ++G +++      DN
Sbjct: 18 FDAGTLVSLAGQPVSGPRLELWRAPTDN 45


>1y69_8 Ribosome recycling factor; RRF; 3.33A {Deinococcus
           radiodurans} (8:)
          Length = 113

 Score = 25.8 bits (57), Expect = 2.1
 Identities = 11/35 (31%), Positives = 17/35 (48%)

Query: 61  EDNVEILEDLIIAAHSDAHKKIEDLVATKTQEITE 95
           ED+    +D +      A KKIE  +A K  E+ +
Sbjct: 78  EDDDRRSQDDVQKLTDAAIKKIEAALADKEAELMQ 112


>1sq1_A Chorismate synthase; structural genomics, bifunctional
          alpha/beta tetrameric protein, PSI, protein structure
          initiative; 2.80A {Campylobacter jejuni} (A:145-309)
          Length = 165

 Score = 25.9 bits (57), Expect = 2.1
 Identities = 7/42 (16%), Positives = 15/42 (35%)

Query: 17 KMEKMKESITSLEAEGNAGGGMVSVRINGKNMLTGVKIDRSL 58
               K  I +     ++ G  V  +++G  +  G  +   L
Sbjct: 41 LESDFKNEILNARNSKDSVGAAVFTKVSGXLIGLGEVLYDKL 82


>1r53_A Chorismate synthase; two layers alpha-beta, lyase; 2.20A
          {Saccharomyces cerevisiae} (A:148-329)
          Length = 182

 Score = 25.6 bits (56), Expect = 2.3
 Identities = 7/42 (16%), Positives = 13/42 (30%)

Query: 17 KMEKMKESITSLEAEGNAGGGMVSVRINGKNMLTGVKIDRSL 58
              M + I       ++ GG+V+  +       G      L
Sbjct: 50 VAGLMVKEIEKYRGNKDSIGGVVTCVVRNLPTGLGEPCFDKL 91


>2o11_A Chorismate synthase; shikimate pathway, lyase; 1.65A
          {Mycobacterium tuberculosis H37RV} PDB: 2o12_A* 2qhf_A
          2g85_A 1ztb_A (A:160-372)
          Length = 213

 Score = 25.5 bits (56), Expect = 2.6
 Identities = 7/29 (24%), Positives = 12/29 (41%)

Query: 17 KMEKMKESITSLEAEGNAGGGMVSVRING 45
              M   I + + +G+  GG+V     G
Sbjct: 42 AEADMIAQIEAAKKDGDTLGGVVEAVALG 70


>1eh1_A Ribosome recycling factor; translation, hinge variability;
           2.60A {Thermus thermophilus} (A:1-35,A:106-185)
          Length = 115

 Score = 25.5 bits (56), Expect = 2.8
 Identities = 15/82 (18%), Positives = 29/82 (35%), Gaps = 14/82 (17%)

Query: 12  KEIQGKMEKMKESITSLEAEGNAGGGMVSVRINGKNMLTGVKIDRSLLFEDNVEILEDLI 71
           + ++   E+ + +I              ++R    + L  +  +  L  ED  +  E  I
Sbjct: 46  RAVRQYAEEGRVAI-------------RNIRREALDKLKKLAKELHLS-EDETKRAEAEI 91

Query: 72  IAAHSDAHKKIEDLVATKTQEI 93
                +   K + L   K QEI
Sbjct: 92  QKITDEFIAKADQLAEKKEQEI 113


>2prg_C Nuclear receptor coactivator SRC-1, peroxisome proliferator
           activated receptor gamma; complex
           (thiazolidinedione/receptor), ligand-binding domain;
           HET: BRL; 2.30A {Homo sapiens} (C:)
          Length = 88

 Score = 25.2 bits (55), Expect = 3.1
 Identities = 6/29 (20%), Positives = 10/29 (34%)

Query: 76  SDAHKKIEDLVATKTQEITEGLPIPPGLK 104
           S    K+  L+ T  ++      I    K
Sbjct: 5   SQTSHKLVQLLTTTAEQQLRHADIDTSCK 33


>3bga_A Beta-galactosidase; NYSGXRC, protein structure initiative
          II (PSI-II), glycosyl hydrolase family 2, jelly-roll
          fold; 2.10A {Bacteroides thetaiotaomicron vpi-5482}
          PDB: 3dec_A (A:729-1010)
          Length = 282

 Score = 25.3 bits (55), Expect = 3.3
 Identities = 5/16 (31%), Positives = 10/16 (62%)

Query: 36 GGMVSVRINGKNMLTG 51
          G + S+ ++GK +L  
Sbjct: 17 GALSSLTLDGKELLAA 32


>1wqg_A Ribosome recycling factor; translation factor, triple-helix
           bundle, protein synthesis; 2.15A {Mycobacterium
           tuberculosis} (A:1-32,A:105-185)
          Length = 113

 Score = 25.0 bits (55), Expect = 3.4
 Identities = 10/35 (28%), Positives = 15/35 (42%)

Query: 61  EDNVEILEDLIIAAHSDAHKKIEDLVATKTQEITE 95
           ED V   E  +         +I++LV  K  E+ E
Sbjct: 78  EDEVGRAEKDLDKTTHQYVTQIDELVKHKEGELLE 112


>1ge9_A Ribosome recycling factor; three-helix bundle; NMR {Aquifex
           aeolicus} (A:1-36,A:107-184)
          Length = 114

 Score = 25.1 bits (55), Expect = 3.5
 Identities = 7/35 (20%), Positives = 13/35 (37%)

Query: 61  EDNVEILEDLIIAAHSDAHKKIEDLVATKTQEITE 95
           ED  +   + +         +I  L+  K +EI  
Sbjct: 79  EDEKKRALERLQKLTDKYIDEINKLMEAKEKEIMS 113


>1is1_A Ribosome recycling factor; translation; 2.20A {Vibrio
           parahaemolyticus} (A:1-32,A:105-185)
          Length = 113

 Score = 25.0 bits (55), Expect = 3.7
 Identities = 18/84 (21%), Positives = 38/84 (45%), Gaps = 14/84 (16%)

Query: 12  KEIQGKMEKMKESITSLEAEGNAGGGMVSVRINGKNMLTGVKIDRSLLFEDNVEILEDLI 71
           K ++G+ E  + ++ +             +R +  N L  +  D+ +  ED     ++ I
Sbjct: 43  KIVRGEAEGGRVAVRN-------------IRRDANNDLKALLKDKEIS-EDEDRKAQEEI 88

Query: 72  IAAHSDAHKKIEDLVATKTQEITE 95
                 A KKI++++A K +E+ E
Sbjct: 89  QKLTDVAVKKIDEVLAAKEKELME 112


>1dd5_A Ribosome recycling factor; three-helix bundle,
           beta-alpha-beta sandwich; 2.55A {Thermotoga maritima}
           (A:1-33,A:105-185)
          Length = 114

 Score = 25.1 bits (55), Expect = 3.9
 Identities = 10/35 (28%), Positives = 20/35 (57%)

Query: 61  EDNVEILEDLIIAAHSDAHKKIEDLVATKTQEITE 95
           ED+ + LE+ I     +  +K++++   K +EI E
Sbjct: 79  EDDAKRLENEIQKLTDEFIEKLDEVFEIKKEEIME 113


>1ise_A Ribosome recycling factor; translation; 2.20A {Escherichia
           coli} (A:1-32,A:105-185)
          Length = 113

 Score = 25.0 bits (55), Expect = 4.0
 Identities = 11/35 (31%), Positives = 17/35 (48%)

Query: 61  EDNVEILEDLIIAAHSDAHKKIEDLVATKTQEITE 95
           ED+    +D +      A KKIE  +A K  E+ +
Sbjct: 78  EDDDRRSQDDVQKLTDAAIKKIEAALADKEAELMQ 112


>3h7f_A Serine hydroxymethyltransferase 1; cytoplasm, one-carbon
           metabolism, pyridoxal phosphate, structural genomics;
           HET: LLP; 1.50A {Mycobacterium tuberculosis}
           (A:1-54,A:297-447)
          Length = 205

 Score = 24.0 bits (52), Expect = 6.8
 Identities = 6/44 (13%), Positives = 15/44 (34%)

Query: 61  EDNVEILEDLIIAAHSDAHKKIEDLVATKTQEITEGLPIPPGLK 104
           +     + D+I  A +         +  +   +    P+  GL+
Sbjct: 155 DTEFTEVADIIATALATGSSVDVSALKDRATRLARAFPLYDGLE 198


>1c4z_A E6AP, ubiquitin-protein ligase E3A; bilobal structure,
          elongated shape, E3 ubiquitin ligase, E2 ubiquitin
          conjugating enzyme; 2.60A {Homo sapiens} (A:1-88)
          Length = 88

 Score = 24.0 bits (52), Expect = 7.7
 Identities = 7/31 (22%), Positives = 17/31 (54%)

Query: 52 VKIDRSLLFEDNVEILEDLIIAAHSDAHKKI 82
          +K+ R  + +D +  LE + +   +D  K++
Sbjct: 8  LKVRRDHIIDDALVRLEMIAMENPADLKKQL 38


>1cbk_A Protein (7,8-dihydro-6-hydroxymethylpterin-
           pyrophosphokinase); HET: ROI; 2.02A {Haemophilus
           influenzae} (A:)
          Length = 160

 Score = 23.7 bits (51), Expect = 8.7
 Identities = 12/49 (24%), Positives = 19/49 (38%), Gaps = 2/49 (4%)

Query: 54  IDRSLLFEDNVEILEDLIIAAHSDAHKKIEDLVATKTQEITEGLPIPPG 102
           +D  +L   N  I  + +   H D H +  + V     EI   L +P  
Sbjct: 94  LDLDILLYGNEIIQNERLTIPHYDMHNR--EFVIVPLFEIASDLVLPNS 140


  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
   0.314    0.134    0.363 

Gapped
Lambda     K      H
   0.267   0.0618    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 33805
Number of Hits to DB: 760,279
Number of extensions: 29902
Number of successful extensions: 115
Number of sequences better than 10.0: 1
Number of HSP's gapped: 113
Number of HSP's successfully gapped: 29
Length of query: 107
Length of database: 4,956,049
Length adjustment: 63
Effective length of query: 44
Effective length of database: 2,826,334
Effective search space: 124358696
Effective search space used: 124358696
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: 42 (22.0 bits)
S2: 50 (23.3 bits)