RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780557|ref|YP_003064970.1| dinucleoside polyphosphate
hydrolase [Candidatus Liberibacter asiaticus str. psy62]
         (160 letters)



>gnl|CDD|179094 PRK00714, PRK00714, RNA pyrophosphohydrolase; Reviewed.
          Length = 156

 Score =  185 bits (472), Expect = 5e-48
 Identities = 66/158 (41%), Positives = 92/158 (58%), Gaps = 12/158 (7%)

Query: 2   YRRGVGILILNQDDLVWVGRRCFHDNNKHLSLWQMPQGGINPQEDPLDAAYRELYEETGI 61
           YR  VGI++LN+   V+ GRR           WQ PQGGI+P E P  A YRELYEE G+
Sbjct: 7   YRPNVGIILLNRQGQVFWGRR-----IGQGHSWQFPQGGIDPGETPEQAMYRELYEEVGL 61

Query: 62  KS--ISLLGQGDSYIQYDFPAHCI--QENGYVGQMQKWFAFRFQGLTSEICVDRTAYGYE 117
           +   + +L +   +++YD P   +   +  Y GQ QKWF  R  G  SEI ++ T++   
Sbjct: 62  RPEDVEILAETRDWLRYDLPKRLVRRSKGVYRGQKQKWFLLRLTGDDSEINLNTTSHP-- 119

Query: 118 SEFDAWTWVSLWDTPNIVVDFKKEAYRQVVADFAYLIK 155
            EFDAW WVS W   + VV FK++ YR+V+ +FA L+ 
Sbjct: 120 -EFDAWRWVSYWYPLDQVVPFKRDVYRRVLKEFARLLM 156


>gnl|CDD|180046 PRK05379, PRK05379, bifunctional nicotinamide mononucleotide
           adenylyltransferase/ADP-ribose pyrophosphatase;
           Provisional.
          Length = 340

 Score = 40.4 bits (95), Expect = 2e-04
 Identities = 16/30 (53%), Positives = 19/30 (63%)

Query: 33  LWQMPQGGINPQEDPLDAAYRELYEETGIK 62
           LW +P G +   E  LDA  REL EETG+K
Sbjct: 229 LWALPGGFLEQDETLLDACLRELREETGLK 258


>gnl|CDD|182721 PRK10776, PRK10776, nucleoside triphosphate pyrophosphohydrolase;
          Provisional.
          Length = 129

 Score = 39.2 bits (92), Expect = 4e-04
 Identities = 27/78 (34%), Positives = 39/78 (50%), Gaps = 13/78 (16%)

Query: 6  VGILILNQDDLVWVGRRC--FHDNNKHLSLWQMPQGGINPQEDPLDAAYRELYEETGI-- 61
          VGI I N ++ +++ RR    H   K    W+ P G I   E P  A  REL EE GI  
Sbjct: 8  VGI-IRNPNNEIFITRRAADAHMAGK----WEFPGGKIEAGETPEQALIRELQEEVGITV 62

Query: 62 KSISLLGQGDSYIQYDFP 79
          +  +L  +    ++Y+FP
Sbjct: 63 QHATLFEK----LEYEFP 76


>gnl|CDD|181607 PRK08999, PRK08999, hypothetical protein; Provisional.
          Length = 312

 Score = 39.1 bits (92), Expect = 6e-04
 Identities = 20/54 (37%), Positives = 26/54 (48%), Gaps = 4/54 (7%)

Query: 9  LILNQDDLVWVGRRCFHDNNKHLS-LWQMPQGGINPQEDPLDAAYRELYEETGI 61
          +I + D  + + RR      KH   LW+ P G + P E    A  REL EE GI
Sbjct: 11 VIRDADGRILLARRPEG---KHQGGLWEFPGGKVEPGETVEQALARELQEELGI 61


>gnl|CDD|131752 TIGR02705, nudix_YtkD, nucleoside triphosphatase YtkD.  The
          functional assignment to the proteins of this family is
          contentious. Reference challenges the findings of
          reference, both in interpretation and in enzyme assay
          results. This protein belongs to the nudix family and
          shares some sequence identity with E. coli MutT but
          appears not to be functionally interchangeable with it.
          Length = 156

 Score = 38.9 bits (91), Expect = 6e-04
 Identities = 15/35 (42%), Positives = 21/35 (60%), Gaps = 2/35 (5%)

Query: 37 PQGGINPQEDPLDAAYRELYEETG--IKSISLLGQ 69
          P G + P E   +AA RE+ EETG  +K +  +GQ
Sbjct: 50 PGGKVEPGETSKEAAIREVMEETGAIVKELHYIGQ 84


>gnl|CDD|181858 PRK09438, nudB, dihydroneopterin triphosphate pyrophosphatase;
          Provisional.
          Length = 148

 Score = 37.6 bits (88), Expect = 0.002
 Identities = 13/28 (46%), Positives = 15/28 (53%)

Query: 34 WQMPQGGINPQEDPLDAAYRELYEETGI 61
          WQ   G +   E P   A RE+ EETGI
Sbjct: 33 WQSVTGSLEEGETPAQTAIREVKEETGI 60


>gnl|CDD|183303 PRK11762, nudE, adenosine nucleotide hydrolase NudE; Provisional.
          Length = 185

 Score = 36.3 bits (85), Expect = 0.004
 Identities = 18/38 (47%), Positives = 23/38 (60%), Gaps = 8/38 (21%)

Query: 37  PQGGINPQEDPLDAAYRELYEETG--------IKSISL 66
           P+G I+P E PL+AA REL EE G        +K +SL
Sbjct: 79  PKGLIDPGETPLEAANRELKEEVGFGARQLTFLKELSL 116


>gnl|CDD|177959 PLN02325, PLN02325, nudix hydrolase.
          Length = 144

 Score = 32.1 bits (73), Expect = 0.061
 Identities = 18/60 (30%), Positives = 30/60 (50%), Gaps = 4/60 (6%)

Query: 3  RRGVGILILNQDDLVWVGRRCFHDNNKHLSLWQMPQGGINPQEDPLDAAYRELYEETGIK 62
          R  V + +L   + V +GRR     +   S + +P G +   E   + A RE+ EETG++
Sbjct: 9  RVAVVVFLLK-GNSVLLGRRRSSIGD---STFALPGGHLEFGESFEECAAREVKEETGLE 64


>gnl|CDD|185291 PRK15393, PRK15393, NUDIX hydrolase YfcD; Provisional.
          Length = 180

 Score = 30.5 bits (69), Expect = 0.22
 Identities = 11/29 (37%), Positives = 14/29 (48%)

Query: 45  EDPLDAAYRELYEETGIKSISLLGQGDSY 73
           E  L++A RE  EE GI  +     G  Y
Sbjct: 79  EQLLESARREAEEELGIAGVPFAEHGQFY 107


>gnl|CDD|129674 TIGR00586, mutt, mutator mutT protein.  All proteins in this
          family for which functions are known are involved in
          repairing oxidative damage to dGTP (they are
          8-oxo-dGTPases). This family is based on the
          phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis,
          Stanford University).
          Length = 128

 Score = 30.2 bits (68), Expect = 0.26
 Identities = 21/79 (26%), Positives = 30/79 (37%), Gaps = 6/79 (7%)

Query: 6  VGILILNQDDLVWVGRRCF-HDNNKHLSLWQMPQGGINPQEDPLDAAYRELYEETGIKSI 64
             +I N++  + + RR   H   K   L + P G     E P  A  REL EE GI   
Sbjct: 7  AVGIIRNENGEIIITRRADGHMFAK---LLEFPGGKEEGGETPEQAVVRELEEEIGI--P 61

Query: 65 SLLGQGDSYIQYDFPAHCI 83
              + +      +P H  
Sbjct: 62 QHFSEFEKLEYEFYPRHIT 80


>gnl|CDD|182536 PRK10546, PRK10546, pyrimidine (deoxy)nucleoside triphosphate
          pyrophosphohydrolase; Provisional.
          Length = 135

 Score = 29.3 bits (66), Expect = 0.41
 Identities = 13/29 (44%), Positives = 15/29 (51%)

Query: 33 LWQMPQGGINPQEDPLDAAYRELYEETGI 61
          LW+   G + P E    A  REL EE GI
Sbjct: 31 LWEFAGGKVEPGESQPQALIRELREELGI 59


>gnl|CDD|185369 PRK15472, PRK15472, nucleoside triphosphatase NudI; Provisional.
          Length = 141

 Score = 28.9 bits (65), Expect = 0.56
 Identities = 11/27 (40%), Positives = 15/27 (55%)

Query: 34 WQMPQGGINPQEDPLDAAYRELYEETG 60
          W +  GG+ P E   +A  RE+ EE G
Sbjct: 33 WALSGGGVEPGERIEEALRREIREELG 59


>gnl|CDD|182753 PRK10814, PRK10814, outer membrane-specific lipoprotein transporter
           subunit LolC; Provisional.
          Length = 399

 Score = 27.4 bits (61), Expect = 1.6
 Identities = 12/39 (30%), Positives = 18/39 (46%), Gaps = 5/39 (12%)

Query: 37  PQGGINPQEDPLDAAYRELYEETGIKSISLLGQGDSYIQ 75
             G +NPQ+ P  A   +     G+  I+ L  GD  +Q
Sbjct: 71  EHGSLNPQQLPASALKLD-----GVNRIAPLTTGDVVLQ 104


>gnl|CDD|177797 PLN00207, PLN00207, polyribonucleotide nucleotidyltransferase;
           Provisional.
          Length = 891

 Score = 27.6 bits (61), Expect = 1.7
 Identities = 9/18 (50%), Positives = 12/18 (66%)

Query: 73  YIQYDFPAHCIQENGYVG 90
           Y+QY FP  C+ E G +G
Sbjct: 502 YLQYSFPPSCVGEVGRIG 519


>gnl|CDD|182682 PRK10729, nudF, ADP-ribose pyrophosphatase NudF; Provisional.
          Length = 202

 Score = 26.2 bits (58), Expect = 3.5
 Identities = 12/30 (40%), Positives = 14/30 (46%)

Query: 33  LWQMPQGGINPQEDPLDAAYRELYEETGIK 62
           L +M  G I   E   D A RE  EE G+ 
Sbjct: 83  LLEMVAGMIEEGESVEDVARREAIEEAGLI 112


>gnl|CDD|184631 PRK14335, PRK14335, (dimethylallyl)adenosine tRNA
           methylthiotransferase; Provisional.
          Length = 455

 Score = 26.0 bits (57), Expect = 4.4
 Identities = 13/30 (43%), Positives = 19/30 (63%), Gaps = 3/30 (10%)

Query: 47  PLDAAYREL--YEETGIKSISLLGQG-DSY 73
            LDA  +E+    E G++ I+LLGQ  +SY
Sbjct: 182 DLDAILQEIDVLSEKGVREITLLGQNVNSY 211


>gnl|CDD|180368 PRK06048, PRK06048, acetolactate synthase 3 catalytic subunit;
           Reviewed.
          Length = 561

 Score = 25.5 bits (56), Expect = 6.2
 Identities = 22/82 (26%), Positives = 37/82 (45%), Gaps = 6/82 (7%)

Query: 74  IQYDFPAH-CIQENGYVGQMQKWFAFRFQGLTSEICVDRTAYGYESEFDAWTWVSLWDT- 131
           +Q D P    I  NGY+G +++W    +    S  C+ + +  +    +A+  + L    
Sbjct: 455 VQNDIPVIVAILNNGYLGMVRQWQELFYDKRYSHTCI-KGSVDFVKLAEAYGALGLRVEK 513

Query: 132 PNIVVDFKKEAY---RQVVADF 150
           P+ V    +EA    R VV DF
Sbjct: 514 PSEVRPAIEEAVASDRPVVIDF 535


>gnl|CDD|152663 pfam12228, DUF3604, Protein of unknown function (DUF3604).  This
           family of proteins is found in bacteria. Proteins in
           this family are typically between 621 and 693 amino
           acids in length.
          Length = 592

 Score = 25.3 bits (56), Expect = 6.8
 Identities = 8/51 (15%), Positives = 10/51 (19%), Gaps = 3/51 (5%)

Query: 76  YDFPAHCIQENGYVGQMQKWFAFR---FQGLTSEICVDRTAYGYESEFDAW 123
                  +  NG                 G   E   D    G +    AW
Sbjct: 86  TGQEWAELLRNGPEDAGTAAALLISAAAAGFLPEALRDPLDGGLDIARSAW 136


>gnl|CDD|129413 TIGR00313, cobQ, cobyric acid synthase CobQ. 
          Length = 475

 Score = 25.1 bits (55), Expect = 7.5
 Identities = 15/50 (30%), Positives = 20/50 (40%), Gaps = 7/50 (14%)

Query: 44  QEDPLDAAYRELYEETGIKSISLLGQGDSYIQYDFPAH---CIQENGYVG 90
             D L +   +L E TGI  + +L     Y +  FP      IQE    G
Sbjct: 198 NVDVLKSGIEKLEELTGIPVLGVL----PYDENLFPEEDSLVIQERRSRG 243


>gnl|CDD|179387 PRK02228, PRK02228, V-type ATP synthase subunit F; Provisional.
          Length = 100

 Score = 25.3 bits (56), Expect = 7.6
 Identities = 7/14 (50%), Positives = 10/14 (71%)

Query: 3  RRGVGILILNQDDL 16
             VGIL+++ DDL
Sbjct: 42 DDDVGILVMHDDDL 55


>gnl|CDD|130609 TIGR01546, GAPDH-II_archae, glyceraldehyde-3-phosphate
           dehydrogenase, type II.  All of the members of the seed
           are characterized. See, for instance. This model is very
           solid, there are no species falling between trusted and
           noise at this time. The closest relatives scoring in the
           noise are the class I GAPDH's.
          Length = 333

 Score = 25.2 bits (55), Expect = 9.0
 Identities = 10/33 (30%), Positives = 15/33 (45%)

Query: 50  AAYRELYEETGIKSISLLGQGDSYIQYDFPAHC 82
           A  + LYE+ G+K+I   G+        F A  
Sbjct: 89  AKNKPLYEKAGVKAIFQGGEKAEVADVSFVAQA 121


>gnl|CDD|129162 TIGR00052, TIGR00052, nudix-type nucleoside diphosphatase,
           YffH/AdpP family. 
          Length = 185

 Score = 25.2 bits (55), Expect = 9.2
 Identities = 19/67 (28%), Positives = 29/67 (43%), Gaps = 6/67 (8%)

Query: 1   MYRRGVGILIL----NQDDLVWVG--RRCFHDNNKHLSLWQMPQGGINPQEDPLDAAYRE 54
           +Y RG    +L     +D +V +   R   + N +   L ++  G +   E P D A RE
Sbjct: 40  IYDRGNAAAVLLYDPKKDTVVLIEQFRIAAYVNGEEPWLLELSAGMVEKGESPEDVARRE 99

Query: 55  LYEETGI 61
             EE G 
Sbjct: 100 AIEEAGY 106


>gnl|CDD|162608 TIGR01928, menC_lowGC/arch, o-succinylbenzoic acid (OSB)
           synthetase.  This model describes the enzyme
           o-succinylbenzoic acid synthetase (menC) that is
           involved in one of the steps of the menaquinone
           biosynthesis pathway. It takes SHCHC and makes it into
           2-succinylbenzoate. Included in this model are low GC
           gram positive bacteria and archaea. Also included in the
           seed and in the model are enzymes with the com-name of
           N-acylamino acid racemase (or the more general term,
           racemase / racemase family), which refers to the
           enzyme's industrial application as racemases, and not to
           its biological function as o-succinylbenzoic acid
           synthetase.
          Length = 324

 Score = 24.8 bits (54), Expect = 9.7
 Identities = 9/46 (19%), Positives = 18/46 (39%), Gaps = 3/46 (6%)

Query: 114 YGYESEFDAWTWVSLWDTPNIVVDFKKEAYRQVVADFAYLIKSEPM 159
           Y +E+       +  +  PNI  +F+   +     +    +K  PM
Sbjct: 48  YTHETIATVKHIIEDFFEPNINKEFE---HPSEALELVRSLKGTPM 90


>gnl|CDD|179786 PRK04207, PRK04207, glyceraldehyde-3-phosphate dehydrogenase;
           Provisional.
          Length = 341

 Score = 24.8 bits (55), Expect = 9.8
 Identities = 8/15 (53%), Positives = 12/15 (80%)

Query: 50  AAYRELYEETGIKSI 64
           A  +ELYE+ G+K+I
Sbjct: 92  AKNKELYEKAGVKAI 106


  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
   0.322    0.140    0.457 

Gapped
Lambda     K      H
   0.267   0.0731    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 2,763,450
Number of extensions: 162771
Number of successful extensions: 330
Number of sequences better than 10.0: 1
Number of HSP's gapped: 326
Number of HSP's successfully gapped: 33
Length of query: 160
Length of database: 5,994,473
Length adjustment: 86
Effective length of query: 74
Effective length of database: 4,136,185
Effective search space: 306077690
Effective search space used: 306077690
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 (21.9 bits)
S2: 53 (24.2 bits)