RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780172|ref|YP_003064585.1| general L-amino acid transport
system permease protein [Candidatus Liberibacter asiaticus str. psy62]
         (386 letters)



>3dhw_A D-methionine transport system permease protein METI;
           ABC-transporter, methionine uptake transporter, membrane
           protein, amino-acid transport; 3.70A {Escherichia coli
           K12} (A:)
          Length = 217

 Score = 77.3 bits (190), Expect = 3e-15
 Identities = 42/220 (19%), Positives = 91/220 (41%), Gaps = 12/220 (5%)

Query: 166 LSIVETSLWGGLLVTLVISFFGIIISMPLGILLAL---GRNSNIPVLRYACITFIELFRG 222
           + ++   +W  L +T V  FFG +I +P+G+LL +   G+      L       + +FR 
Sbjct: 6   MWLLVRGVWETLAMTFVSGFFGFVIGLPVGVLLYVTRPGQIIANAKLYRTVSAIVNIFRS 65

Query: 223 VPLVTVLFMASIMLPLFLPDTWDVDKLLRALLGVSAFASAYIAEVLRGGLQSISKGQFEA 282
           +P + +L        + +        L  A++ ++  A+ +IA ++   L  I  G  EA
Sbjct: 66  IPFIILLVWMIPFTRVIV---GTSIGLQAAIVPLTVGAAPFIARMVENALLEIPTGLIEA 122

Query: 283 ANSLGLSYLQKMRLIIMPQVIKRVIPGIVNTFIGLFKDSSLISIINMFDLLGIVRVNFSE 342
           + ++G + +Q +R +++P+ +  ++     T I L   S++   +    L  I       
Sbjct: 123 SRAMGATPMQIVRKVLLPEALPGLVNAATITLITLVGYSAMGGAVGAGGLGQIGYQYGYI 182

Query: 343 STWISSVTPTTGLIFIGFVFWIFCFSISLYSVFIEKTLHK 382
                     T +  +  +  I  + I      I + + +
Sbjct: 183 GYN------ATVMNTVLVLLVILVYLIQFAGDRIVRAVTR 216


>2r6g_F Maltose transport system permease protein MALF; ABC
           transporter, catalytic intermediate, E. coli maltose
           transporter, MBP; HET: MAL ATP; 2.80A {Escherichia coli
           K12} (F:269-326,F:360-453)
          Length = 152

 Score = 65.2 bits (159), Expect = 2e-11
 Identities = 26/159 (16%), Positives = 61/159 (38%), Gaps = 19/159 (11%)

Query: 170 ETSLWGGLLVTLVISFFGIIISMPLGILLA-LGRNSNIPVLRYACITFIELFRGVPLVTV 228
           +       + T+V S   + +++ +G++LA L +   +                      
Sbjct: 6   QKPFLAIFVWTVVFSLITVFLTVAVGMVLACLVQWEALRGKA------------------ 47

Query: 229 LFMASIMLPLFLPDTWDVDKLLRALLGVSAFASAYIAEVLRGGLQSISKGQFEAANSLGL 288
           ++   ++LP     +         ++  +     Y+  +  G L++I    +EA+   G 
Sbjct: 48  VYRVLLILPYAAWFSDPTTARTMLIIVNTWLGYPYMMILCMGLLKAIPDDLYEASAMDGA 107

Query: 289 SYLQKMRLIIMPQVIKRVIPGIVNTFIGLFKDSSLISII 327
              Q    I +P +IK + P ++ +F   F +  LI ++
Sbjct: 108 GPFQNFFKITLPLLIKPLTPLMIASFAFNFNNFVLIQLL 146


>3d31_C Sulfate/molybdate ABC transporter, permease protein;
           ATP-binding, nucleotide-binding, membrane,
           transmembrane, transport protein; 3.00A {Methanosarcina
           acetivorans} (C:)
          Length = 295

 Score = 64.4 bits (156), Expect = 3e-11
 Identities = 37/261 (14%), Positives = 88/261 (33%), Gaps = 11/261 (4%)

Query: 112 PMAQRWRPILVFLTGSILLTPMLIPSFPRKFLNSILLFGLFPIFSFFVLYGGLGLSIVET 171
            M  + R    F   + + + +L+  F    L   L             + GL  +    
Sbjct: 23  HMKAKNRKTRKFEPLTFVFSFLLLVLF----LFIFLTLSNMIFEQITEDFSGLVKAAGNR 78

Query: 172 SLWGGLLVTLVISFFGIIISMPLGILLALGRNSNIPVLRYACITFIELFRGVPLVTVLFM 231
           S+   + ++L   F   ++++ LG              +    + I++   VP       
Sbjct: 79  SVISSIFLSLYAGFLATLLALLLGAPTGYILARFDFPGKRLVESIIDVPVVVPHTVAGIA 138

Query: 232 ASIMLPLFLPDTWDVDKLLR-------ALLGVSAFASAYIAEVLRGGLQSISKGQFEAAN 284
              +          ++  ++        ++ +   +  Y+A   R G +S+      AA 
Sbjct: 139 LLTVFGSRGLIGEPLESYIQFRDALPGIVVAMLFVSMPYLANSAREGFKSVDPRLENAAR 198

Query: 285 SLGLSYLQKMRLIIMPQVIKRVIPGIVNTFIGLFKDSSLISIINMFDLLGIVRVNFSEST 344
           SLG    +    + +P   + ++ G V T+     +   + I+  + ++G   +     +
Sbjct: 199 SLGAPLWKAFFFVTLPLSARYLLIGSVMTWARAISEFGAVVILAYYPMVGPTLIYDRFIS 258

Query: 345 WISSVTPTTGLIFIGFVFWIF 365
           +  S +    ++ I     IF
Sbjct: 259 YGLSASRPIAVLLILVTLSIF 279


>2onk_C Molybdate/tungstate ABC transporter, permease protein;
           membrane protein; 3.10A {Archaeoglobus fulgidus}
           (C:69-249)
          Length = 181

 Score = 62.6 bits (152), Expect = 8e-11
 Identities = 22/161 (13%), Positives = 55/161 (34%), Gaps = 5/161 (3%)

Query: 172 SLWGGLLVTLVISFFGIIISMPLGILLALGRNSNIPVLRYACITFIELFRGVPLVTVLFM 231
           ++W  +L T   +    +I++  G  LA          +      ++L   +P       
Sbjct: 1   AVWKVVLTTYYAALISTLIAVIFGTPLAYILARKSFPGKSVVEGIVDLPVVIPHTVAGIA 60

Query: 232 ASIMLPLFLPDTWD-----VDKLLRALLGVSAFASAYIAEVLRGGLQSISKGQFEAANSL 286
             ++               VD L   ++ +   +        + G  S+       A +L
Sbjct: 61  LLVVFGSSGLIGSFSPLKFVDALPGIVVAMLFVSVPIYINQAKEGFASVDVRLEHVARTL 120

Query: 287 GLSYLQKMRLIIMPQVIKRVIPGIVNTFIGLFKDSSLISII 327
           G S L+    + +P  ++ ++ G + ++     +   + +I
Sbjct: 121 GSSPLRVFFTVSLPLSVRHIVAGAIMSWARGISEFGAVVVI 161


>2r6g_G Maltose transport system permease protein MALG; ABC
           transporter, catalytic intermediate, E. coli maltose
           transporter, MBP; HET: MAL ATP; 2.80A {Escherichia coli
           K12} (G:73-244)
          Length = 172

 Score = 57.2 bits (138), Expect = 3e-09
 Identities = 21/156 (13%), Positives = 59/156 (37%), Gaps = 1/156 (0%)

Query: 173 LWGGLLVTLVISFFGIIISMPLGILLALGRNSNIPVLRYACITFIELFRGVP-LVTVLFM 231
           +   L  ++ ++    I  + L    A          +   +  + +F+  P +++++ +
Sbjct: 9   VLLWLWNSVKVAGISAIGIVALSTTCAYAFARMRFPGKATLLKGMLIFQMFPAVLSLVAL 68

Query: 232 ASIMLPLFLPDTWDVDKLLRALLGVSAFASAYIAEVLRGGLQSISKGQFEAANSLGLSYL 291
            ++   L     +        ++       A     ++G  ++I     EAA   G +  
Sbjct: 69  YALFDRLGEYIPFIGLNTHGGVIFAYLGGIALHVWTIKGYFETIDSSLEEAAALDGATPW 128

Query: 292 QKMRLIIMPQVIKRVIPGIVNTFIGLFKDSSLISII 327
           Q  RL+++P  +  +    + +FI    +  + S++
Sbjct: 129 QAFRLVLLPLSVPILAVVFILSFIAAITEVPVASLL 164


>1cii_A Colicin IA; bacteriocin, ION channel formation,
           transmembrane protein; 3.00A {Escherichia coli}
           (A:434-602)
          Length = 169

 Score = 27.8 bits (62), Expect = 2.3
 Identities = 10/29 (34%), Positives = 13/29 (44%)

Query: 169 VETSLWGGLLVTLVISFFGIIISMPLGIL 197
            ET + G     LV   F I+    LGI+
Sbjct: 116 TETIIAGNAATALVALVFSILTGSALGII 144


>1ni3_A YCHF GTPase, YCHF GTP-binding protein; structural genomics,
           GTP1OBG, PSI, protein structure initiative; 2.80A
           {Schizosaccharomyces pombe} (A:51-98,A:292-392)
          Length = 149

 Score = 27.7 bits (62), Expect = 2.4
 Identities = 11/39 (28%), Positives = 17/39 (43%), Gaps = 5/39 (12%)

Query: 304 KRVIPGIVNTFI---GLFKDSSLISIIN-MFDLLGIVRV 338
           K  +P  + T     GL K S L  II   ++ L ++  
Sbjct: 30  KSRVPAFL-TVFDIAGLTKGSXLPKIIVTGYNALNLINY 67


>2i88_A Colicin-E1; protein-membrane interactions, toxin-membrane
           interactions, toxin structure, voltage-gated channel,
           membrane protein; 2.50A {Escherichia coli} (A:)
          Length = 191

 Score = 27.4 bits (61), Expect = 2.9
 Identities = 6/29 (20%), Positives = 11/29 (37%)

Query: 169 VETSLWGGLLVTLVISFFGIIISMPLGIL 197
           +E       +  +V   F ++    LGI 
Sbjct: 136 LEKKAADAGVSYVVALLFSLLAGTTLGIW 164


>3cin_A Myo-Inositol-1-Phosphate Synthase- Related Protein (Tm1419)
           {Thermotoga Maritima} (A:)
          Length = 394

 Score = 27.1 bits (60), Expect = 3.6
 Identities = 7/42 (16%), Positives = 12/42 (28%), Gaps = 7/42 (16%)

Query: 96  WAFIYDRYEQFIFGNYPMAQRWRPILVFLTG--SILLTPMLI 135
             FI    E   F           +++      S  L  +L+
Sbjct: 301 KKFIAIHIEYVSFNGATDE-----LMINGRINDSPALGGLLV 337


>1rh1_A Colicin B; FEPA, cytotoxic bacterial protein, TONB,
           antibiotic; 2.50A {Escherichia coli} (A:290-511)
          Length = 222

 Score = 26.3 bits (58), Expect = 7.7
 Identities = 6/30 (20%), Positives = 13/30 (43%)

Query: 169 VETSLWGGLLVTLVISFFGIIISMPLGILL 198
           VE+ +  G+   + +S F + +   L    
Sbjct: 158 VESWVISGMASAVALSLFSLTLGSALIAFG 187


  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
   0.331    0.147    0.466 

Gapped
Lambda     K      H
   0.267   0.0361    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 33805
Number of Hits to DB: 3,011,727
Number of extensions: 135049
Number of successful extensions: 461
Number of sequences better than 10.0: 1
Number of HSP's gapped: 451
Number of HSP's successfully gapped: 34
Length of query: 386
Length of database: 4,956,049
Length adjustment: 90
Effective length of query: 296
Effective length of database: 1,913,599
Effective search space: 566425304
Effective search space used: 566425304
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.9 bits)
S2: 55 (26.0 bits)