RPS-BLAST 2.2.22 [Sep-27-2009]

Database: CddB 
           21,608 sequences; 5,994,473 total letters

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

Query= gi|254780898|ref|YP_003065311.1| hypothetical protein
CLIBASIA_03975 [Candidatus Liberibacter asiaticus str. psy62]
         (207 letters)



>gnl|CDD|178328 PLN02727, PLN02727, NAD kinase.
          Length = 986

 Score = 43.0 bits (101), Expect = 6e-05
 Identities = 26/142 (18%), Positives = 64/142 (45%), Gaps = 5/142 (3%)

Query: 69  EYGIKSILNLRGK-LPESWHKEEEKAANDLG-IQLINFPLSATRELNDEQIKQLISILK- 125
           E G K+I++LR + + +++++     A   G I+++  P+      + EQ+++  S++  
Sbjct: 279 EKGFKTIVDLRAEIVKDNFYQAAVDDAISSGKIEVVKIPVEVRTAPSAEQVEKFASLVSD 338

Query: 126 TAPKPLLIHCKSGADRTGLASAVYLYIVAHYPKEEAHRQLSMLYGHFPVLKTITMDITFE 185
           ++ KP+ +H K G  RT    + +   +    +    +   +        +T ++  T +
Sbjct: 339 SSKKPIYLHSKEGVWRTSAMVSRWKQYMTRSAERLLGQNSVVNGNGKLDQETGSLQETND 398

Query: 186 KITQLYPNNVSKGDTEQPMNAT 207
           K +    N    G++    + T
Sbjct: 399 KDSS--SNGSESGESCSIKDET 418


>gnl|CDD|128492 smart00195, DSPc, Dual specificity phosphatase, catalytic domain. 
          Length = 138

 Score = 32.6 bits (75), Expect = 0.077
 Identities = 19/107 (17%), Positives = 38/107 (35%), Gaps = 14/107 (13%)

Query: 48  VPHEIYRSAQPNGTFIEYLKKEYGIKSILNLRGKLPESWHKEEEKAANDLGIQLINFPLS 107
           +   +Y  +  +   +  L K+ GI  ++N+           E    N  G   +  P+ 
Sbjct: 4   ILPHLYLGSYSSALNLA-LLKKLGITHVINV---------TNEVPNLNKKGFTYLGVPIL 53

Query: 108 ATRELND----EQIKQLISILKTAPKPLLIHCKSGADRTGLASAVYL 150
              E        +  + I   +     +L+HC++G  R+      YL
Sbjct: 54  DNTETKISPYFPEAVEFIEDAEKKGGKVLVHCQAGVSRSATLIIAYL 100


>gnl|CDD|165105 PHA02738, PHA02738, hypothetical protein; Provisional.
          Length = 320

 Score = 31.8 bits (72), Expect = 0.13
 Identities = 14/47 (29%), Positives = 24/47 (51%), Gaps = 5/47 (10%)

Query: 100 QLINFPL---SATRELNDEQIKQLISILKTAPKPLLIHCKSGADRTG 143
           + +NF L      +EL  E ++  I   +  P P+++HC +G  RT 
Sbjct: 198 EFLNFVLEVRQCQKELAQESLQ--IGHNRLQPPPIVVHCNAGLGRTP 242


>gnl|CDD|180919 PRK07282, PRK07282, acetolactate synthase catalytic subunit;
           Reviewed.
          Length = 566

 Score = 30.2 bits (68), Expect = 0.42
 Identities = 13/33 (39%), Positives = 20/33 (60%), Gaps = 1/33 (3%)

Query: 102 INFP-LSATRELNDEQIKQLISILKTAPKPLLI 133
           +N P    T E ND QIK+++  L  A KP+++
Sbjct: 184 VNLPSYQPTLEPNDMQIKKILKQLSKAKKPVIL 216


>gnl|CDD|128683 smart00404, PTPc_motif, Protein tyrosine phosphatase, catalytic
           domain motif. 
          Length = 105

 Score = 29.6 bits (67), Expect = 0.60
 Identities = 8/24 (33%), Positives = 13/24 (54%), Gaps = 1/24 (4%)

Query: 129 KPLLIHCKSGADRTG-LASAVYLY 151
            P+++HC +G  RTG   +   L 
Sbjct: 40  GPVVVHCSAGVGRTGTFVALDILL 63


>gnl|CDD|128329 smart00012, PTPc_DSPc, Protein tyrosine phosphatase, catalytic
           domain, undefined specificity.  Protein tyrosine
           phosphatases. Homologues detected by this profile and
           not by those of "PTPc" or  "DSPc" are predicted to be
           protein phosphatases with a similar fold to DSPs and
           PTPs, yet with unpredicted specificities.
          Length = 105

 Score = 29.6 bits (67), Expect = 0.60
 Identities = 8/24 (33%), Positives = 13/24 (54%), Gaps = 1/24 (4%)

Query: 129 KPLLIHCKSGADRTG-LASAVYLY 151
            P+++HC +G  RTG   +   L 
Sbjct: 40  GPVVVHCSAGVGRTGTFVALDILL 63


>gnl|CDD|128491 smart00194, PTPc, Protein tyrosine phosphatase, catalytic domain. 
          Length = 258

 Score = 29.5 bits (67), Expect = 0.60
 Identities = 8/29 (27%), Positives = 17/29 (58%)

Query: 115 EQIKQLISILKTAPKPLLIHCKSGADRTG 143
           + ++ +     T+  P+++HC +G  RTG
Sbjct: 180 DLVRAVRKSQSTSTGPIVVHCSAGVGRTG 208


>gnl|CDD|183984 PRK13340, PRK13340, alanine racemase; Reviewed.
          Length = 406

 Score = 28.8 bits (65), Expect = 1.1
 Identities = 22/69 (31%), Positives = 28/69 (40%), Gaps = 20/69 (28%)

Query: 113 NDEQIKQLISILKTAPKPLLIHCK---SGADRTGL--------------ASAVYLYIVA- 154
           +DEQ K L +I K   KP+ IH      G  R GL              A+   L IV  
Sbjct: 140 DDEQAKLLAAIAKKNGKPIDIHLALNSGGMSRNGLDMSTARGKWEALRIATLPSLGIVGI 199

Query: 155 --HYPKEEA 161
             H+P E+ 
Sbjct: 200 MTHFPNEDE 208


>gnl|CDD|182692 PRK10744, pstB, phosphate transporter ATP-binding protein;
           Provisional.
          Length = 260

 Score = 28.4 bits (64), Expect = 1.3
 Identities = 16/58 (27%), Positives = 24/58 (41%), Gaps = 21/58 (36%)

Query: 163 RQLSMLYGHFPVLKTITMDI---------------------TFEKITQLYPNNVSKGD 199
           R L+  YG F  LK I +DI                     TF ++ +LYP   ++G+
Sbjct: 17  RNLNFYYGKFHALKNINLDIAKNQVTAFIGPSGCGKSTLLRTFNRMYELYPEQRAEGE 74


>gnl|CDD|184586 PRK14240, PRK14240, phosphate transporter ATP-binding protein;
           Provisional.
          Length = 250

 Score = 28.5 bits (64), Expect = 1.4
 Identities = 11/28 (39%), Positives = 16/28 (57%)

Query: 163 RQLSMLYGHFPVLKTITMDITFEKITQL 190
           + L + YG F  LK I +DI   ++T L
Sbjct: 7   KDLDLFYGDFQALKKINLDIEENQVTAL 34


>gnl|CDD|161942 TIGR00587, nfo, apurinic endonuclease (APN1).  All proteins in this
           family for which functions are known are 5' AP
           endonculeases that are used in base excision repair and
           the repair of abasic sites in DNA.This family is based
           on the phylogenomic analysis of JA Eisen (1999, Ph.D.
           Thesis, Stanford University).
          Length = 274

 Score = 28.1 bits (63), Expect = 1.9
 Identities = 14/43 (32%), Positives = 20/43 (46%), Gaps = 1/43 (2%)

Query: 89  EEEKAANDLGIQLINFPLSATRELNDEQ-IKQLISILKTAPKP 130
           EE K    LGI L NF   +  + ++E+ +  LI  L    K 
Sbjct: 92  EELKRCELLGIMLYNFHPGSALKCSEEEGLDNLIESLNVVIKE 134


>gnl|CDD|130311 TIGR01244, TIGR01244, conserved hypothetical protein TIGR01244.  No
           member of this family is characterized. The member from
           Xylella fastidiosa is a longer protein with an
           N-terminal region described by this model, followed by a
           metallo-beta-lactamase family domain and an additional
           C-terminal region. Members scoring above the trusted
           cutoff are limited to the proteobacteria.
          Length = 135

 Score = 27.6 bits (61), Expect = 2.5
 Identities = 15/71 (21%), Positives = 35/71 (49%), Gaps = 4/71 (5%)

Query: 71  GIKSILNLR--GKLPESWHKEE-EKAANDLGIQLINFPLSATRELNDEQIKQLISILKTA 127
           G K+++N R   +        + + AA   G+   + P++A  ++  + ++   + +  A
Sbjct: 27  GFKTVINNRPDREEESQPDFAQIKAAAEAAGVTYHHQPVTA-GDITPDDVETFRAAIGAA 85

Query: 128 PKPLLIHCKSG 138
             P+L +C+SG
Sbjct: 86  EGPVLAYCRSG 96


>gnl|CDD|119193 pfam10673, DUF2487, Protein of unknown function (DUF2487).  This is
           a bacterial family of uncharacterized proteins.
          Length = 143

 Score = 27.7 bits (62), Expect = 2.5
 Identities = 17/45 (37%), Positives = 27/45 (60%), Gaps = 4/45 (8%)

Query: 84  ESWHKEEEKAANDL----GIQLINFPLSATRELNDEQIKQLISIL 124
            SW +EEE+   DL     I L +   S  R++ D+Q+KQL+++L
Sbjct: 95  SSWKEEEEELEGDLFWLPAIPLEHMSDSLKRKIVDDQVKQLLNLL 139


>gnl|CDD|184109 PRK13520, PRK13520, L-tyrosine decarboxylase; Provisional.
          Length = 371

 Score = 27.5 bits (62), Expect = 2.6
 Identities = 14/41 (34%), Positives = 24/41 (58%)

Query: 82  LPESWHKEEEKAANDLGIQLINFPLSATRELNDEQIKQLIS 122
           +PES H   +KAA+ LG++L   PL     ++ + ++ LI 
Sbjct: 109 VPESAHFSFDKAADMLGVELRRAPLDDDYRVDVKAVEDLID 149


>gnl|CDD|181124 PRK07803, sdhA, succinate dehydrogenase flavoprotein subunit;
           Reviewed.
          Length = 626

 Score = 27.3 bits (61), Expect = 2.6
 Identities = 16/38 (42%), Positives = 20/38 (52%), Gaps = 2/38 (5%)

Query: 148 VYLYIVAHYPKEEAHRQLSMLYGHFPVLKTITMDITFE 185
           VYL I +  P EE  R+L  +Y  F  L  +  DIT E
Sbjct: 344 VYLDIASRLPAEEIKRRLPSMYHQFKELADV--DITKE 379


>gnl|CDD|130045 TIGR00972, 3a0107s01c2, phosphate ABC transporter, ATP-binding
           protein.  This model represents the ATP-binding protein
           of a family of ABC transporters for inorganic phosphate.
           In the model species Escherichia coli, a constitutive
           transporter for inorganic phosphate, with low affinity,
           is also present. The high affinity transporter that
           includes this polypeptide is induced when extracellular
           phosphate concentrations are low. The proteins most
           similar to the members of this family but not included
           appear to be amino acid transporters.
          Length = 247

 Score = 27.6 bits (62), Expect = 2.6
 Identities = 10/28 (35%), Positives = 15/28 (53%)

Query: 163 RQLSMLYGHFPVLKTITMDITFEKITQL 190
             L++ YG    LK I +DI   ++T L
Sbjct: 5   ENLNLFYGEKEALKNINLDIPKNQVTAL 32


>gnl|CDD|185330 PRK15432, PRK15432, autoinducer 2 ABC transporter permease LsrC;
           Provisional.
          Length = 344

 Score = 27.0 bits (60), Expect = 3.2
 Identities = 8/28 (28%), Positives = 14/28 (50%)

Query: 20  LGVLVLCAVSLGLYFLTITTFTQNFHAV 47
           +G L L  +    + L  T F ++F+A 
Sbjct: 162 IGWLTLILILAMAWLLAKTAFGRSFYAT 189


>gnl|CDD|177772 PLN00177, PLN00177, sulfite oxidase; Provisional.
          Length = 393

 Score = 27.1 bits (60), Expect = 3.4
 Identities = 10/17 (58%), Positives = 13/17 (76%)

Query: 72  IKSILNLRGKLPESWHK 88
           ++SI NLRG L  SWH+
Sbjct: 367 VESIWNLRGILNTSWHR 383


>gnl|CDD|161992 TIGR00676, fadh2, 5,10-methylenetetrahydrofolate reductase,
           prokaryotic form.  This protein is an FAD-containing
           flavoprotein.
          Length = 272

 Score = 27.2 bits (61), Expect = 3.5
 Identities = 14/47 (29%), Positives = 22/47 (46%), Gaps = 7/47 (14%)

Query: 63  IEYLKKEY---GIKSILNLRGKLPESWHKEEEKA---ANDLGIQLIN 103
           I  + +EY   GI+ IL LRG  P+            A++L ++ I 
Sbjct: 75  IREILREYRELGIRHILALRGDPPKGEGTPTPGGFNYASEL-VEFIR 120


>gnl|CDD|129583 TIGR00492, alr, alanine racemase.  This enzyme interconverts
           L-alanine and D-alanine. Its primary function is to
           generate D-alanine for cell wall formation. With
           D-alanine-D-alanine ligase, it makes up the D-alanine
           branch of the peptidoglycan biosynthetic route. It is a
           monomer with one pyridoxal phosphate per subunit. In E.
           coli, the ortholog is duplicated so that a second
           isozyme, DadX, is present. DadX, a paralog of the
           biosynthetic Alr, is induced by D- or L-alanine and is
           involved in catabolism.
          Length = 367

 Score = 26.9 bits (60), Expect = 3.9
 Identities = 20/83 (24%), Positives = 33/83 (39%), Gaps = 5/83 (6%)

Query: 113 NDEQIKQLISILKTAPKPLLIHCK--SGADRTGLASAVYLYIVAHYPKEEAHRQLSMLYG 170
           + EQ++ L   L   PK L +H K  +G +R G+        V    + +   +L  ++ 
Sbjct: 102 SVEQLQALEEALLKEPKRLKVHLKIDTGMNRLGVKPDEAALFVQKLRQLKKFLELEGIFS 161

Query: 171 HFPV---LKTITMDITFEKITQL 190
           HF      KT T     E+    
Sbjct: 162 HFATADEPKTGTTQKQIERFNSF 184


>gnl|CDD|151053 pfam10493, Rod_C, Rough deal protein C-terminal region.  Rod, the
           Rough deal protein, displays a dynamic intracellular
           staining pattern, localising first to kinetochores in
           pro-metaphase, but moving to kinetochore microtubules at
           metaphase. Early in anaphase the protein is once again
           restricted to the kinetochores, where it persists until
           the end of telophase. This behaviour is in all respects
           similar to that described for ZW10, and indeed the two
           proteins function together, localisation of each
           depending upon the other. These two proteins are found
           at the kinetochore in complex with a third, Zwilch, in
           both flies and humans. The C-terminus is the most
           conserved part of the protein. During pro-metaphase, the
           ZW10-Rod complex, dynein/dynactin, and Mad2 all
           accumulate on unattached kinetochores; microtubule
           capture leads to Mad2 depletion as it is carried off by
           dynein/dynactin; ZW10-Rod complex accumulation
           continues, replenishing kinetochore dynein. The
           continuing recruitment of the ZW10-Rod complex during
           metaphase may serve to maintain adequate dynein/dynactin
           complex on kinetochores for assisting chromatid movement
           during anaphase. The ZW10-Rod complex acts as a bridge
           whose association with Zwint-1 links Mad1 and Mad2,
           components that are directly responsible for generating
           the diffusible 'wait anaphase' signal, to a structural,
           inner kinetochore complex containing Mis12 and
           KNL-1AF15q14, the last of which has been proved to be
           essential for kinetochore assembly in C. elegans.
           Removal of ZW10 or Rod inactivates the mitotic
           checkpoint.
          Length = 555

 Score = 26.7 bits (59), Expect = 4.2
 Identities = 27/143 (18%), Positives = 46/143 (32%), Gaps = 25/143 (17%)

Query: 64  EYLKKEYGIKSILNLRGKLPE-----SWHKEEEKAANDLGIQLINFPLSATRELNDEQIK 118
           +Y        SI   + +L E     SWH + +  A    I      L     +++ +  
Sbjct: 59  DYFCMSAVKNSIKEYKPQLLEKAPAESWHLQPKNNAFLQSI------LRYVDSVSNPEWA 112

Query: 119 QLISILKTAPKPLLIHCKSGADRTGLASAVYLYIVAHY----PKEEAHRQLSMLYGHFPV 174
             I    T   P       GAD+         +            EA  ++  +   +P+
Sbjct: 113 LAILYYITNEAP------DGADQVEALYFCLKFAEKWKKNLSGDPEAREKIEKIKRKYPI 166

Query: 175 LKT----ITMDITFEKITQLYPN 193
            KT    I   +  EK+ +L  N
Sbjct: 167 SKTQHLLIQYGLNDEKLLRLIGN 189


>gnl|CDD|180207 PRK05696, fliL, flagellar basal body-associated protein FliL;
          Reviewed.
          Length = 170

 Score = 26.8 bits (60), Expect = 4.5
 Identities = 9/30 (30%), Positives = 15/30 (50%), Gaps = 3/30 (10%)

Query: 6  KPRKNLLIFYIKILLGVLVLCAVSLGLYFL 35
          K +K L+I    I++GVL+        +F 
Sbjct: 15 KSKKKLIII---IVIGVLLALGGGGAAWFF 41


>gnl|CDD|131767 TIGR02720, pyruv_oxi_spxB, pyruvate oxidase.  Members of this
           family are examples of pyruvate oxidase (EC 1.2.3.3), an
           enzyme with FAD and TPP as cofactors that catalyzes the
           reaction pyruvate + phosphate + O2 + H2O = acetyl
           phosphate + CO2 + H2O2. It should not be confused with
           pyruvate dehydrogenase [cytochrome] (EC 1.2.2.2) as in
           E. coli PoxB, although the E. coli enzyme is closely
           homologous and has pyruvate oxidase as an alternate
           name.
          Length = 575

 Score = 26.7 bits (59), Expect = 4.5
 Identities = 11/67 (16%), Positives = 27/67 (40%), Gaps = 11/67 (16%)

Query: 100 QLINFPLSATRELNDEQIKQLISILKTAPKPLLIHC-----KSGADRTGLASAVYLYIVA 154
           Q    P       + E + + +  LK A +P +I+      K+G +   L+  + + +++
Sbjct: 178 QTPLLP-----APDVEAVTRAVQTLKAAERP-VIYYGIGARKAGEELEALSEKLKIPLIS 231

Query: 155 HYPKEEA 161
               +  
Sbjct: 232 TGLAKGI 238


>gnl|CDD|180540 PRK06354, PRK06354, pyruvate kinase; Provisional.
          Length = 590

 Score = 26.4 bits (59), Expect = 5.7
 Identities = 13/36 (36%), Positives = 20/36 (55%), Gaps = 2/36 (5%)

Query: 152 IVAHYPKEEAHRQLSMLYGHFP--VLKTITMDITFE 185
           I+A  P E   R+L +++G  P  VL   + D TF+
Sbjct: 403 ILAVTPNESVARRLQLVWGVTPLLVLDAPSTDETFD 438


>gnl|CDD|165114 PHA02747, PHA02747, protein tyrosine phosphatase; Provisional.
          Length = 312

 Score = 26.1 bits (57), Expect = 6.2
 Identities = 8/19 (42%), Positives = 13/19 (68%)

Query: 130 PLLIHCKSGADRTGLASAV 148
           P+++HC  G  +TG+  AV
Sbjct: 231 PIVVHCSDGVGKTGIFCAV 249


>gnl|CDD|181458 PRK08527, PRK08527, acetolactate synthase 3 catalytic subunit;
           Validated.
          Length = 563

 Score = 25.8 bits (57), Expect = 7.2
 Identities = 9/20 (45%), Positives = 11/20 (55%)

Query: 113 NDEQIKQLISILKTAPKPLL 132
           N  QIK+    +K A KPL 
Sbjct: 189 NSRQIKKAAEAIKEAKKPLF 208


>gnl|CDD|183473 PRK12361, PRK12361, hypothetical protein; Provisional.
          Length = 547

 Score = 26.1 bits (58), Expect = 7.2
 Identities = 25/92 (27%), Positives = 39/92 (42%), Gaps = 11/92 (11%)

Query: 63  IEYLKKEYGIKSILNLRGKLPE-SWHKEEEKAANDLGIQLINFPLSATRELNDEQIKQLI 121
           +E LK    I +IL++  +     W   EE       I  +N P+         Q+ Q I
Sbjct: 113 LEKLKSN-KITAILDVTAEFDGLDWSLTEED------IDYLNIPILDHSVPTLAQLNQAI 165

Query: 122 SILKT---APKPLLIHCKSGADRTGLASAVYL 150
           + +     A K +++HC  G  R+ L  A YL
Sbjct: 166 NWIHRQVRANKSVVVHCALGRGRSVLVLAAYL 197


>gnl|CDD|172386 PRK13865, PRK13865, type IV secretion system protein VirB8;
           Provisional.
          Length = 229

 Score = 26.0 bits (57), Expect = 7.5
 Identities = 9/29 (31%), Positives = 17/29 (58%)

Query: 162 HRQLSMLYGHFPVLKTITMDITFEKITQL 190
           +++   + G  PV+ T T  + +EK+T L
Sbjct: 177 YKRTLTMDGKMPVVSTWTATVRYEKVTSL 205


>gnl|CDD|185417 PTZ00053, PTZ00053, methionine aminopeptidase 2; Provisional.
          Length = 470

 Score = 25.8 bits (57), Expect = 8.5
 Identities = 10/18 (55%), Positives = 11/18 (61%)

Query: 63  IEYLKKEYGIKSILNLRG 80
           +E   K Y IKSI NL G
Sbjct: 305 VEIKGKTYPIKSIRNLNG 322


  Database: CddB
    Posted date:  Feb 4, 2011  9:54 PM
  Number of letters in database: 5,994,473
  Number of sequences in database:  21,608
  
Lambda     K      H
   0.321    0.138    0.399 

Gapped
Lambda     K      H
   0.267   0.0710    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 3,298,589
Number of extensions: 201612
Number of successful extensions: 606
Number of sequences better than 10.0: 1
Number of HSP's gapped: 605
Number of HSP's successfully gapped: 46
Length of query: 207
Length of database: 5,994,473
Length adjustment: 89
Effective length of query: 118
Effective length of database: 4,071,361
Effective search space: 480420598
Effective search space used: 480420598
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)