RPS-BLAST 2.2.22 [Sep-27-2009]

Database: pdb70 
           24,244 sequences; 5,693,230 total letters

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

Query= gi|254780801|ref|YP_003065214.1| hypothetical protein
CLIBASIA_03460 [Candidatus Liberibacter asiaticus str. psy62]
         (222 letters)



>1ct5_A Protein (yeast hypothetical protein, selenoMet); TIM barrel,
           pyridoxal-5'-phosphate, selenomethionine, MAD,
           structural genomics, PSI; HET: PLP; 2.00A {Saccharomyces
           cerevisiae} SCOP: c.1.6.2 PDB: 1b54_A*
          Length = 256

 Score =  192 bits (490), Expect = 5e-50
 Identities = 66/237 (27%), Positives = 101/237 (42%), Gaps = 22/237 (9%)

Query: 3   LGNKLQVFKQKIENSA--ILAKRPKDSVSLVAVSKMVDSKKIRVALSCGQVIFAENKLQE 60
           L  + +  ++ +   A  +        + L+ VSK+  +  I++    G   F EN +QE
Sbjct: 14  LIAQYESVREVVNAEAKNVHVNENASKILLLVVSKLKPASDIQILYDHGVREFGENYVQE 73

Query: 61  AKKKWIPLRKEWDVQLRFIGSLQSNKVSEIVSL--FDVIETVSREKTASLLSLEMIK--- 115
             +K   L    D++  FIG LQ+NK  ++  +     +ET+   K A  L+    K   
Sbjct: 74  LIEKAKLLPD--DIKWHFIGGLQTNKCKDLAKVPNLYSVETIDSLKKAKKLNESRAKFQP 131

Query: 116 QSRFLPVYIQVNTGYEIQKSGIMPNQTKDFV---ILCRQKYQLNVEGLMCIP-----PAM 167
               +   +Q+NT +E QKSG+        V    L  +   + + GLM I         
Sbjct: 132 DCNPILCNVQINTSHEDQKSGLNNEAEIFEVIDFFLSEECKYIKLNGLMTIGSWNVSHED 191

Query: 168 GNPKPHFYLLSEIARECK-----LTKLSMGMTRDFELAIASGATSVRIGSGIFGERP 219
                 F  L E  ++         KLSMGM+ DF  AI  G   VRIG+ IFG RP
Sbjct: 192 SKENRDFATLVEWKKKIDAKFGTSLKLSMGMSADFREAIRQGTAEVRIGTDIFGARP 248


>3cpg_A Uncharacterized protein; unknown protein, TIM barrel, monomer,
           structural genomics, PSI-2, protein structure
           initiative; 1.71A {Bifidobacterium adolescentis
           ATCC15703}
          Length = 282

 Score =  176 bits (448), Expect = 3e-45
 Identities = 67/243 (27%), Positives = 101/243 (41%), Gaps = 31/243 (12%)

Query: 7   LQVFKQKIENSAILAKRPKDSVSLVAVSKMVDSKKIRVALSCGQVIFAENKLQEAKKKWI 66
           +     +I  +   A R   SV L+A +K  D  +I  A+  G  +  EN+ QE   K  
Sbjct: 29  VHRVLDRIAAAEEQAGREAGSVRLLAATKTRDIGEIMAAIDAGVRMIGENRPQEVTAKAE 88

Query: 67  PLRK-------------------EWDVQLRFIGSLQSNKVSEIVSLFDVIETVSREKTAS 107
            L +                      +    IG LQSNK+ +++ + D IE+V     A 
Sbjct: 89  GLARRCAERGFSLGVAGAAPDAAAEHIPFHLIGQLQSNKIGKVLPVVDTIESVDSIDLAE 148

Query: 108 LLSLEMIKQSRFLPVYIQVNTGYEIQKSGIMPNQTKDFVILCRQKYQLNVEGLMCIPPAM 167
            +S   + +   + V ++VN   E  KSG  P               + ++GLM I   +
Sbjct: 149 KISRRAVARGITVGVLLEVNESGEESKSGCDPAHAIRIAQKIGTLDGIELQGLMTIGAHV 208

Query: 168 GNP---KPHFYLLSEIARECK---------LTKLSMGMTRDFELAIASGATSVRIGSGIF 215
            +    +  F  L +                 +LSMGMT D ELAIA G+T VR+G+ IF
Sbjct: 209 HDETVIRRGFSHLRKTRDLILASGEPGTDRCRELSMGMTGDMELAIAEGSTIVRVGTAIF 268

Query: 216 GER 218
           GER
Sbjct: 269 GER 271


>1w8g_A YGGS, hypothetical UPF0001 protein YGGS; structural genomics,
           hypothetical protein, putative enzyme with PLP-binding
           domain; HET: PLP ICT; 2.0A {Escherichia coli}
          Length = 234

 Score =  146 bits (370), Expect = 3e-36
 Identities = 72/229 (31%), Positives = 109/229 (47%), Gaps = 11/229 (4%)

Query: 1   MS-LGNKLQVFKQKIENSAILAKRPKDSVSLVAVSKMVDSKKIRVALSCGQVIFAENKLQ 59
           M+ + + L   + KI  +A    R  + ++L+AVSK   +  I  A+  GQ  F EN +Q
Sbjct: 1   MNDIAHNLAQVRDKISAAATRCGRSPEEITLLAVSKTKPASAIAEAIDAGQRQFGENYVQ 60

Query: 60  E--AKKKWIPLRKEWDVQLRFIGSLQSNKVSEIVSLFDVIETVSREKTASLLSLEMIKQS 117
           E   K +         ++  FIG LQSNK   +   FD   T+ R + A+ L+ +   + 
Sbjct: 61  EGVDKIRHFQELGVTGLEWHFIGPLQSNKSRLVAEHFDWCHTIDRLRIATRLNDQRPAEL 120

Query: 118 RFLPVYIQVNTGYEIQKSGIMPNQTKDFVILCRQKYQLNVEGLMCIPPAMGNPKPHFYLL 177
             L V IQ+N   E  KSGI   +  +      +  +L + GLM IP         F + 
Sbjct: 121 PPLNVLIQINISDENSKSGIQLAELDELAAAVAELPRLRLRGLMAIPAPESEYVRQFEVA 180

Query: 178 SEIARECK--------LTKLSMGMTRDFELAIASGATSVRIGSGIFGER 218
            ++A            +  LS+GM+ D E AIA+G+T VRIG+ IFG R
Sbjct: 181 RQMAVAFAGLKTRYPHIDTLSLGMSDDMEAAIAAGSTMVRIGTAIFGAR 229


>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
           acyl-carrier-protein, beta-ketoacyl reductase,
           beta-ketoacyl synthase, dehydratase; 4.00A
           {Saccharomyces cerevisiae}
          Length = 2006

 Score = 43.0 bits (101), Expect = 6e-05
 Identities = 42/218 (19%), Positives = 67/218 (30%), Gaps = 93/218 (42%)

Query: 12  QKIENSAILAKRPKDSVSLVAVSKMVDSKKIRVALSCGQVIF-----AENKLQEAKKKWI 66
            K  NSA+     + +  LVA                   IF      ++  +E      
Sbjct: 138 DKKSNSALFRAVGEGNAQLVA-------------------IFGGQGNTDDYFEE------ 172

Query: 67  PLRKEWDVQLRFIGSLQSNKVSEIVSLFDVIETVSREKTASLLSLEMIKQSRFLPVYIQV 126
            LR  +      +G              D+I+  + E  + L+            V+ Q 
Sbjct: 173 -LRDLYQTYHVLVG--------------DLIKFSA-ETLSELIRTT----LDAEKVFTQ- 211

Query: 127 NTGYEIQK--SGIMPNQTKDFVILCRQKYQLNVEGLMCIP---PAMGNPKPHFYLLSEIA 181
             G  I +      P+ T D      + Y      L+ IP   P +G        + ++A
Sbjct: 212 --GLNILEWLEN--PSNTPD------KDY------LLSIPISCPLIG--------VIQLA 247

Query: 182 R---ECKLTKLSMGMTRDFELAIASGATSVRIG-S-GI 214
                 KL   + G  R + L    GAT    G S G+
Sbjct: 248 HYVVTAKLLGFTPGELRSY-L---KGAT----GHSQGL 277



 Score = 28.0 bits (62), Expect = 1.6
 Identities = 33/158 (20%), Positives = 53/158 (33%), Gaps = 75/158 (47%)

Query: 28  VSLVAVSKMVDS---------KKIRVALSCG---QVIF-----AENKLQEAKK--KWIP- 67
           V+ VA++   DS         K I V    G      +       + L+++ +  + +P 
Sbjct: 278 VTAVAIA-ETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPS 336

Query: 68  -------LRKEWDVQLRFIG----SLQSNK-VSEIVSLFD-----VIETVSREKT---AS 107
                  L +E  VQ  ++      L + K V   +SL +     V+       +    S
Sbjct: 337 PMLSISNLTQE-QVQ-DYVNKTNSHLPAGKQVE--ISLVNGAKNLVV-------SGPPQS 385

Query: 108 L----LSLEMIK------QSR-------------FLPV 122
           L    L+L   K      QSR             FLPV
Sbjct: 386 LYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPV 423


>2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-; fatty
            acid synthase, acyl-carrier-protein, beta-ketoacyl
            reductase, beta-ketoacyl synthase, dehydratase; 4.00A
            {Saccharomyces cerevisiae}
          Length = 1688

 Score = 29.8 bits (66), Expect = 0.46
 Identities = 33/139 (23%), Positives = 57/139 (41%), Gaps = 47/139 (33%)

Query: 54   AENKLQEAKKKW-----------IPLRKEWDVQLRFIGSLQSN--KVSEI-VSLFDVIET 99
            AE++L+ A+++W            PLR          G+L +    + ++ V+ F    T
Sbjct: 1298 AESQLRAAQQQWGNDFYKRDPRIAPLR----------GALATYGLTIDDLGVASFHGTST 1347

Query: 100  VSREKTASLLSLEMIKQ-------------SRFLPVYIQ-------VNTGYEIQKSGIMP 139
             + +K  S    EM+K               +FL  + +       +N   +I  SGI+P
Sbjct: 1348 KANDKNESATINEMMKHLGRSEGNPVIGVFQKFLTGHPKGAAGAWMMNGALQILNSGIIP 1407

Query: 140  -NQTKDFV--ILCRQKYQL 155
             N+  D V  IL + +Y L
Sbjct: 1408 GNRNADNVDKILEQFEYVL 1426


>3cpr_A Dihydrodipicolinate synthetase; (beta/alpha)8-barrel fold with A
           C-terminal alpha-helical segment, amino-acid
           biosynthesis, cytoplasm; HET: MCL; 2.20A
           {Corynebacterium glutamicum}
          Length = 304

 Score = 27.5 bits (60), Expect = 2.8
 Identities = 10/67 (14%), Positives = 20/67 (29%), Gaps = 2/67 (2%)

Query: 106 ASLLSLEMIKQSRFLPVYIQVNTGYEIQKSGIMPNQTKDFVILCRQKYQLNVEGLMCIPP 165
           +   +     +   L    +         +G+  N T+  V L         +GL+ + P
Sbjct: 63  SPTTTAAEKLE--LLKAVREEVGDRAKLIAGVGTNNTRTSVELAEAAASAGADGLLVVTP 120

Query: 166 AMGNPKP 172
               P  
Sbjct: 121 YYSKPSQ 127


>3noe_A DAP-A, dihydrodipicolinate synthase; Lys biosynthesis pathway,
           lyase; 2.95A {Pseudomonas aeruginosa}
          Length = 292

 Score = 26.8 bits (59), Expect = 3.9
 Identities = 11/65 (16%), Positives = 22/65 (33%), Gaps = 2/65 (3%)

Query: 106 ASLLSLEMIKQSRFLPVYIQVNTGYEIQKSGIMPNQTKDFVILCRQKYQLNVEGLMCIPP 165
           ++ L +E   Q   +   +    G     +G   N T++ V L         +  + + P
Sbjct: 48  SATLDVEEHIQ--VVRRVVDQVKGRIPVIAGTGANSTREAVALTEAAKSGGADACLLVTP 105

Query: 166 AMGNP 170
               P
Sbjct: 106 YYNKP 110


>2zjr_R 50S ribosomal protein L24; ribosome, large ribosomal subunit,
           ribonucleoprotein, RNA-binding, rRNA-binding,
           tRNA-binding, methylation; 2.91A {Deinococcus
           radiodurans} SCOP: b.34.5.1 PDB: 1nwx_S* 1nwy_S* 1sm1_S*
           1xbp_S* 2d3o_S 2zjp_R* 2zjq_R 1nkw_S 3cf5_R* 3dll_R*
           1pnu_S 1pny_S 1vor_V 1vou_V 1vow_V 1voy_V 1vp0_V
          Length = 115

 Score = 26.6 bits (59), Expect = 4.3
 Identities = 9/18 (50%), Positives = 15/18 (83%)

Query: 35  KMVDSKKIRVALSCGQVI 52
           ++VD KK+RVA++ G+ I
Sbjct: 97  QIVDGKKVRVAVASGKTI 114


>3bbo_W Ribosomal protein L24; large ribosomal subunit, spinach chloroplast
           ribosome, ribonucleoprotein particle, macromolecular
           complex; 9.40A {Spinacea oleracea}
          Length = 191

 Score = 26.4 bits (58), Expect = 4.8
 Identities = 6/27 (22%), Positives = 16/27 (59%)

Query: 38  DSKKIRVALSCGQVIFAENKLQEAKKK 64
           D +K+R  +  G+++   ++ +E + K
Sbjct: 154 DVRKVRYLIKTGEIVDTPDRWKEIQNK 180


>3bi8_A Dihydrodipicolinate synthase; TIM-barrel, amino-acid biosynthesis,
           cytoplasm, diaminopimelate biosynthesis, lyase, lysine
           biosynthesis; HET: MLT; 1.96A {Clostridium botulinum}
           PDB: 3ird_A*
          Length = 291

 Score = 26.3 bits (57), Expect = 5.2
 Identities = 10/56 (17%), Positives = 18/56 (32%), Gaps = 8/56 (14%)

Query: 136 GIMPNQTKDFVILCRQKYQLNVEGLMCIPPAMGNPKP-----HFYLLSEIARECKL 186
           G   N T   + + +    + V+GL+ I P            HF     ++     
Sbjct: 76  GTGSNNTAASIAMSKWAESIGVDGLLVITPYYNKTTQKGLVKHF---KAVSDAVST 128


>1y0e_A Putative N-acetylmannosamine-6-phosphate 2- epimerase; mannac-6-P
           epimerase, NANE, structural genomics, protein structure
           initiative; 1.95A {Staphylococcus aureus subsp} SCOP:
           c.1.2.5
          Length = 223

 Score = 26.4 bits (57), Expect = 5.6
 Identities = 11/84 (13%), Positives = 24/84 (28%), Gaps = 5/84 (5%)

Query: 139 PNQTKDFVILCRQKYQLNVEGLMCIPPAMGNPKPHFYLLSEIARECKLTKLSMGMTR--- 195
             + K+   L        + G           +  F  L ++ +      ++ G      
Sbjct: 129 VEEAKNAARLGFDYIGTTLHGYTSYTQGQLLYQNDFQFLKDVLQSVDAKVIAEGNVITPD 188

Query: 196 DFELAIASGATSVRIGSGIFGERP 219
            ++  +  G     +G  I   RP
Sbjct: 189 MYKRVMDLGVHCSVVGGAIT--RP 210


>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
           vesicle, membrane, Ca structural protein; 7.94A {Bos
           taurus}
          Length = 190

 Score = 26.0 bits (56), Expect = 6.7
 Identities = 21/95 (22%), Positives = 36/95 (37%), Gaps = 32/95 (33%)

Query: 60  EAKKKWIPLRKEWDVQLRFIGSLQSNKVSEIVSLFDVIETVSREKTASLLSLEMIKQSRF 119
           E+ +KW   R+E           Q  ++ E+ +   V+E   REK    L     +QS  
Sbjct: 85  ESIRKW---REE-----------QRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSE- 129

Query: 120 LPVYIQVNTGYEIQKSGIMPNQTKDFVILCRQKYQ 154
                      +++K+ I  N+  D     +  YQ
Sbjct: 130 -----------QVEKNKI-NNRIAD-----KAFYQ 147


>3ofq_U 50S ribosomal protein L24; protein biosynthesis, ribosomes, RNA,
           tRNA, transfer, antibi EXIT, peptidyl, ribosomal
           subunit, large; 3.10A {Escherichia coli} PDB: 2j28_U*
           3fik_U 2wwq_U 3ofr_U* 3i1n_U 1vs8_U 1vs6_U 1vt2_U 3i1p_U
           3i1r_U 3i1t_U 3i20_U 3i22_U 3kcr_U 3orb_U* 3e1b_O 3e1d_O
           2qam_U* 1p85_S 1p86_S ...
          Length = 102

 Score = 25.8 bits (57), Expect = 7.6
 Identities = 6/18 (33%), Positives = 9/18 (50%)

Query: 35  KMVDSKKIRVALSCGQVI 52
           +  D KK+R   S  + I
Sbjct: 85  RFEDGKKVRFFKSNSETI 102


  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    0.134    0.378 

Gapped
Lambda     K      H
   0.267   0.0697    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 1,758,281
Number of extensions: 75654
Number of successful extensions: 244
Number of sequences better than 10.0: 1
Number of HSP's gapped: 234
Number of HSP's successfully gapped: 19
Length of query: 222
Length of database: 5,693,230
Length adjustment: 89
Effective length of query: 133
Effective length of database: 3,535,514
Effective search space: 470223362
Effective search space used: 470223362
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: 55 (25.0 bits)