RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780823|ref|YP_003065236.1| double-strand break repair
protein AddB [Candidatus Liberibacter asiaticus str. psy62]
         (1040 letters)



>3h4r_A Exodeoxyribonuclease 8; exonuclease, recombination, hydrolase;
            2.80A {Escherichia coli k-12} (A:)
          Length = 265

 Score = 98.2 bits (243), Expect = 5e-21
 Identities = 33/256 (12%), Positives = 59/256 (23%), Gaps = 20/256 (7%)

Query: 761  PPLEAQPRTYSFSEIKQLINDPYAVYARRILKLDFIPHFKKDPDRTDRGTLFHNIITELI 820
                      S S++  + + P     R+   +D            D GT FH  + EL 
Sbjct: 4    MENYHAGPGISKSQLDDIADTPALYLWRKNAPVD-----TTKTKTLDLGTAFHCRVLELE 58

Query: 821  KKRINKNTPE-INHLMKQIIDSHFEKE-----NLPPHIDIIWRHLFHKISHSFLEHEEKI 874
            +           N       +                I          +  S +      
Sbjct: 59   EFSNRFIVAPEFNRRTNAGKEEEKAFLMECASTGKTVITAEEGRKIELMYQSVMALPLGQ 118

Query: 875  QSSIEKIFVNIPAKMAIESIGIHLTGFADRIDLLKSGFVDITDYKTGDNPKKETAQKLI- 933
                                GI      D+I      F  I D KT  + ++        
Sbjct: 119  WLVESAGHAESSIYWEDPETGILCRCRPDKII---PEFHWIMDVKTTADIQRFKTAYYDY 175

Query: 934  --DPQLSLEAAALKAGSFSQIDCRKVANLFYIRLKQKFKIDCITNDKKKYSADELSEKSL 991
                Q +  +   +A    Q        L      +  +         + +     ++  
Sbjct: 176  RYHVQDAFYSDGYEAQFGVQPT---FVFLVASTTIECGRYPVEIFMMGEEAKLAGQQEYH 232

Query: 992  KNLIEIVTLLQNGEQP 1007
            +NL  +   L   E P
Sbjct: 233  RNLRTLSDCLNTDEWP 248


>3l0a_A Putative exonuclease; RER070207002219, structural genomics,
           joint center for structural genomics, JCSG, protein
           structure initiative, PSI-2; HET: PE4; 2.19A
           {Eubacterium rectale} (A:)
          Length = 266

 Score = 57.9 bits (139), Expect = 6e-09
 Identities = 20/224 (8%), Positives = 44/224 (19%), Gaps = 40/224 (17%)

Query: 764 EAQPRTYSFSEIKQLINDPYAVYARRILKLDFIPHFK-KDPDRTDRGTLFHNIITELIKK 822
           EA     S S  K                      ++ +       G+   +     +  
Sbjct: 13  EANKEYXSVSGYKDFAGTYGKXPCEFYGXEKLNGRWEDEKSTALLVGSYVDSYFEGSLD- 71

Query: 823 RINKNTPEINHLMKQIIDSHFEKENLPPHIDIIWRHLFHKISHSFLEHEEKIQSSIEKIF 882
                        K   +   +K  L  +       +           E   +       
Sbjct: 72  ----------QFKKDNPEIFTQKGELKANFKQAEEII-----ARIERDEYFXKYXS--GQ 114

Query: 883 VNIPAKMAIESIGIHLTGFADRIDLLKSGFVDITDYKTGDNPKKET-----------AQK 931
             +     +   G       D         V I D K   +                   
Sbjct: 115 KQVIXTGELF--GAKWKIKXDSYI----PGVAIVDLKVXASITDLKWVKDIGYLDFVRYW 168

Query: 932 LIDPQLSLEAAALKAGSFSQIDCRKVANLFYIRLKQKFKIDCIT 975
             D Q ++    ++  +  ++       +     + +  I  I 
Sbjct: 169 GYDIQGAVYQEIVRQNTGEKLPFF----IAGATKQTEPDIRIIH 208


>1w36_B RECB, exodeoxyribonuclease V beta chain; recombination,
           helicase, hydrolase, DNA repair; HET: DNA; 3.1A
           {Escherichia coli} (B:444-587,B:727-885)
          Length = 303

 Score = 40.3 bits (93), Expect = 0.001
 Identities = 22/174 (12%), Positives = 44/174 (25%), Gaps = 19/174 (10%)

Query: 607 DIITRLIDGETVKPKIEKSSTLFILGTLE-SRLLNFDTLILGGLNEGVWPKNTAKNPFLS 665
           +I +  +       ++E    L  + T+  S+ L +  + L  +      +    +   S
Sbjct: 132 EIPSVYLSNRDSVMRLESDKHLVQIVTIHKSKGLEYPLVWLPFITNFRVQEQAFYHDRHS 191

Query: 666 RVMQSDLNLKTAEKYIGQAAHDFE-----MANGTR-----HLIYTRSLRENNIPTIASRW 715
                DLN       + +A    E         TR      L     +R        +  
Sbjct: 192 FEAVLDLNAAPESVDLAEAERLAEDLRLLYVALTRSVWHCSLGVAPLVRRRGDKKGDTDV 251

Query: 716 LQRLLVLGGTDFFDNLKKRGQCYLDWTRKLDYTTKQPHYKRPKPFPPLEAQPRT 769
            Q  L           + +    L    +             +     + QP  
Sbjct: 252 HQSAL----GRLLQKGEPQDAAGLRTCIE----ALCDDDIAWQTAQTGDNQPWQ 297


>1uaa_A REP helicase, protein (ATP-dependent DNA helicase REP.);
           complex (helicase/DNA), DNA unwinding, hydrolase/DNA
           complex; HET: DNA; 3.00A {Escherichia coli}
           (A:278-376,A:544-673)
          Length = 229

 Score = 32.4 bits (73), Expect = 0.28
 Identities = 22/101 (21%), Positives = 40/101 (39%), Gaps = 12/101 (11%)

Query: 340 RNTDILENKIPNIQKCFSDVALIEADNEREEAISIA---IALRMSLDENKKKSALITADR 396
            N  + E ++ +     +++ ++ A+NE  EA  +    IA         K  A++    
Sbjct: 16  NNPHVFEKRLFSELGYGAELKVLSANNEEHEAERVTGELIAHHFVNKTQYKDYAILYRGN 75

Query: 397 NLARRVKLELTRFGINIDISAGIPLS---------TTLHSS 428
           + +R  +  L +  I   IS G   S          TLH+S
Sbjct: 76  HQSRVFEKFLMQNRIPYKISGGTSESEEELDQVQLMTLHAS 116


>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} (A:1221-1330,A:1541-1688)
          Length = 258

 Score = 30.6 bits (69), Expect = 0.89
 Identities = 18/101 (17%), Positives = 29/101 (28%), Gaps = 25/101 (24%)

Query: 565 CLDEHRKLPNLWFEEEGKTLSSLFSKIIETGSCIKA-NAIEWIDIITRLIDGETVKPKIE 623
            L         W E E + L             I + +  E++   TR I  E      +
Sbjct: 32  QLVTREAQIKDWVENELEALK-------LEAEEIPSEDQNEFLLERTREIHNEAES---Q 81

Query: 624 KSSTLFILGTLESRLLNF---DTLIL---GGLNEGVWPKNT 658
             +     G       +F   D  I    G L    + K++
Sbjct: 82  LRAAQQQWGN------DFYKRDPRIAPLRGAL--ATYSKDS 114


>2hjn_A MPS1 binder 1, maintenance of ploidy protein MOB1;
           homodimer, cell cycle; 2.00A {Saccharomyces cerevisiae}
           (A:)
          Length = 236

 Score = 29.9 bits (67), Expect = 1.6
 Identities = 15/70 (21%), Positives = 25/70 (35%), Gaps = 8/70 (11%)

Query: 839 IDSHFEKENLPPHIDIIWRHLFHKISHSFLEHEEKIQSSIEKIFVNIPAKMAIESIGIHL 898
           +   F +  +   I  I R LF   +H +  H  +I     +  +N   +        H 
Sbjct: 157 VTGTFPEGFIQRVIQPILRRLFRVYAHIYCHHFNEILELNLQTVLNTSFR--------HF 208

Query: 899 TGFADRIDLL 908
             FA   +LL
Sbjct: 209 CLFAQEFELL 218


>2ixd_A LMBE-related protein; hexamer, deacetylase, rossman fold,
           zinc-dependent metalloenzyme, hydrolase; 1.8A {Bacillus
           cereus} (A:)
          Length = 242

 Score = 29.8 bits (66), Expect = 1.6
 Identities = 18/109 (16%), Positives = 35/109 (32%), Gaps = 9/109 (8%)

Query: 118 IWRNKLPDIIKDLYPESPLSLPISPANAIWLAKNLADIIDIIETEEKKWEDLHALKNEKY 177
           I+   +   + +L P    S        I         IDI E    K E L A +++  
Sbjct: 124 IFSAGIRKYMPELSPHRVESFY---NYMINGFHKPNFCIDISEYLSIKVEALEAYESQFS 180

Query: 178 GMWWLLAADFLKIASKYWTERLVELNASSPVGYQIALMRAEAEHLMKGT 226
                +        ++ + E ++        G ++ ++ AE     K  
Sbjct: 181 TGSDGVKTPL----TEGYVETVIAREKM--FGKEVGVLYAEGFMSKKPV 223


>1k6d_A Acetate COA-transferase alpha subunit; structural genomics,
           PSI, protein structure initiative, midwest center for
           structural genomics, MCSG; 1.90A {Escherichia coli}
           (A:1-99,A:149-220)
          Length = 171

 Score = 28.5 bits (64), Expect = 4.0
 Identities = 12/74 (16%), Positives = 24/74 (32%), Gaps = 4/74 (5%)

Query: 782 PYAVYARRILKLDFIPHFKKDPDRTDRGTLFHNIITELIKKRINKNTPEINHLMKQIIDS 841
             A+    +  L  I         T  G L  N     ++K I  +        +++I  
Sbjct: 36  VEALLESGVRDLTLI-ANDTAFVDTGIGPLIVN---GRVRKVIASHIGTNPETGRRMISG 91

Query: 842 HFEKENLPPHIDII 855
             +   +P  + +I
Sbjct: 92  EMDVVLVPADLALI 105


>1w36_C RECC, exodeoxyribonuclease V gamma chain; recombination,
           helicase, hydrolase, DNA repair; HET: DNA; 3.1A
           {Escherichia coli} (C:371-446,C:653-739,C:781-807)
          Length = 190

 Score = 28.4 bits (63), Expect = 4.0
 Identities = 17/113 (15%), Positives = 32/113 (28%), Gaps = 11/113 (9%)

Query: 631 LGTLE-SRLLNFDTLILGGLNEGVWPKNTAKNPFLSRVMQSDLNLKTAEKYIGQAAHDFE 689
           + TL   R + F  + L G+N+GV+P+  A   F    M          +         E
Sbjct: 85  ICTLMPMRSIPFKVVCLLGMNDGVYPRQLAPLGFDL--MSQKPKRGDRSRRDDDRYLFLE 142

Query: 690 MANGTRH---LIYTRSLRENNIPTIASRWLQRLLVLGGTDFFDNLKKRGQCYL 739
                +    + Y     ++N                        +   + +L
Sbjct: 143 ALISAQQKLYISYIGRSIQDNTCLHTRMPFDPQNYQ-----PGERQSYAREWL 190


>3hy0_A Alanyl-tRNA synthetase; aminoacyl-tRNA synthetase, ligase,
           protein biosynthesis, nucleotide-binding, amino
           acid-binding, acetylation; HET: G5A EPE; 1.90A
           {Escherichia coli} PDB: 3hxz_A* 3hy1_A* 3hxv_A* 3hxu_A*
           3hxw_A* 3hxx_A* 3hxy_A* (A:253-368)
          Length = 116

 Score = 28.6 bits (64), Expect = 4.2
 Identities = 7/68 (10%), Positives = 22/68 (32%), Gaps = 21/68 (30%)

Query: 106 IQRLLELARLILIWRNKLPDII-------KDLYPESPLSLPISPANAIWLAKNLADIIDI 158
           I+R +    ++         ++            +              L +  A +  +
Sbjct: 61  IRRAVRHGNMLGAKETFFYKLVGPLIDVMGSAGED--------------LKRQQAQVEQV 106

Query: 159 IETEEKKW 166
           ++TEE+++
Sbjct: 107 LKTEEEQF 114


>1yfs_A Alanyl-tRNA synthetase; alpha-beta fold, helix-loop-helix
           motif, amino acid binding, ligase; 2.08A {Aquifex
           aeolicus} (A:238-355)
          Length = 118

 Score = 28.6 bits (64), Expect = 4.2
 Identities = 12/68 (17%), Positives = 24/68 (35%), Gaps = 21/68 (30%)

Query: 106 IQRLLELARLILIWRNKLPDII-------KDLYPESPLSLPISPANAIWLAKNLADIIDI 158
           ++R +     + I    L   +       K+ YPE              L  +   +  I
Sbjct: 63  LRRAMRFGYKLGIENPFLYKGVDLVVDIMKEPYPE--------------LELSREFVKGI 108

Query: 159 IETEEKKW 166
           ++ EEK++
Sbjct: 109 VKGEEKRF 116


>1pi1_A MOB1A; mitotic EXIT network, mitosis, DBF2, cell cycle;
           2.00A {Homo sapiens} (A:)
          Length = 185

 Score = 28.3 bits (63), Expect = 4.6
 Identities = 18/93 (19%), Positives = 31/93 (33%), Gaps = 22/93 (23%)

Query: 831 INHLMKQI-------------IDSHFEKENLPPHIDIIWRHLFHKISHSFLEHEEKIQSS 877
           I++LM  +             I   F K N       I + LF   +H + +H + +   
Sbjct: 84  IDYLMTWVQDQLDDETLFPSKIGVPFPK-NFMSVAKTILKRLFRVYAHIYHQHFDSVMQL 142

Query: 878 IEKIFVNIPAKMAIESIGIHLTGFADRIDLLKS 910
            E+  +N   K        H   F    +L+  
Sbjct: 143 QEEAHLNTSFK--------HFIFFVQEFNLIDR 167


>3iev_A GTP-binding protein ERA; ERA, GTPase, KH domain, anti-SD,
           16S rRNA, 30S ribosome assembly, GTP-binding; HET: GNP;
           1.90A {Aquifex aeolicus} (A:191-294)
          Length = 104

 Score = 28.2 bits (63), Expect = 5.7
 Identities = 8/50 (16%), Positives = 19/50 (38%), Gaps = 3/50 (6%)

Query: 806 TDRGTLFHNIITELIKKRINKNTP-EINHLMKQIIDSHFEKENLPPHIDI 854
           TD       +  E+++++    T  E+   +   I+     +  P  + I
Sbjct: 3   TDLPLRL--LAAEIVREKAMMLTREEVPTSIAVKINEIKPGDANPNMLVI 50


>1l8n_A Alpha-D-glucuronidase; hydrolase; HET: GCW XYP; 1.50A
          {Geobacillus stearothermophilus} (A:1-141)
          Length = 141

 Score = 27.7 bits (61), Expect = 6.5
 Identities = 6/46 (13%), Positives = 15/46 (32%), Gaps = 6/46 (13%)

Query: 35 RYDPLNPLLLASVTIYVPT------KRAIQELRSEFIEITGKKSTI 74
          RY+  +          V        + A++EL+     +   +  +
Sbjct: 11 RYERKDQYSRLRFEEIVAKRTSPIFQAAVEELQKGLRSMMEIEPQV 56


>1hm9_A GLMU, UDP-N-acetylglucosamine-1-phosphate uridyltransferase;
           acetyltransferase, bifunctional, crystallography, drug
           design; HET: ACO UD1; 1.75A {Streptococcus pneumoniae}
           (A:1-232)
          Length = 232

 Score = 27.9 bits (60), Expect = 7.2
 Identities = 11/60 (18%), Positives = 17/60 (28%), Gaps = 3/60 (5%)

Query: 215 MRAEAEHLMKGTKGPIIIAGSTGS--IPATARLMSTVANHPNGAIVLPGLDCHIPTAIWN 272
           MR    H        II+A   G+       +++  VA       V   +    P     
Sbjct: 1   MRGSHHHHHHSNFA-IILAAGKGTRMKSDLPKVLHKVAGISMLEHVFRSVGAIQPEKTVT 59


>1xvi_A MPGP, YEDP, putative mannosyl-3-phosphoglycerate
           phosphatase; hypothetical protein, conserved protein,
           phophatase-like domain; HET: 1PE PG4 PGE; 2.26A
           {Escherichia coli K12} (A:1-97,A:188-275)
          Length = 185

 Score = 27.6 bits (61), Expect = 8.5
 Identities = 21/145 (14%), Positives = 44/145 (30%), Gaps = 17/145 (11%)

Query: 26  LNGTLVENFRYDP------LNPLLLASVTIYVPTKRAIQELRSEFIEITGKKSTILPIIK 79
           L+GTL+++  YD       L  L  A+V + + + +   E+      +       LP+I 
Sbjct: 16  LDGTLLDSHSYDWQPAAPWLTRLREANVPVILCSSKTSAEMLYLQKTL---GLQGLPLIA 72

Query: 80  SLGDVVEEKFTADLLLSYNLNP-----PVSNIQRLLELARLILIWRNKLP---DIIKDLY 131
             G V++       +  +                ++   + +   R       D   D  
Sbjct: 73  ENGAVIQLAEQWQEIDGFPRIISGIAGKDQAANWIIATYQQLSGKRPTTLGLGDGPNDAP 132

Query: 132 PESPLSLPISPANAIWLAKNLADII 156
               +   +          +L D  
Sbjct: 133 LLEVMDYAVIVKGLNREGVHLHDED 157


>1nyo_A Immunogenic protein MPT70; seven-stranded beta-barrel,
           fasciclin domain, structural genomics, PSI, protein
           structure initiative; NMR {Mycobacterium tuberculosis}
           (A:)
          Length = 163

 Score = 27.3 bits (60), Expect = 9.4
 Identities = 18/94 (19%), Positives = 33/94 (35%), Gaps = 4/94 (4%)

Query: 1   MHNKKPNVFTIAPSSPFFREMIPALLNGTLVENFRYDPLNPLLLASVTIYVPTKRAIQEL 60
               +  V   A ++P    +  A L+G L                 T++ PT  A  +L
Sbjct: 23  QGMSQDPVAVAASNNPELTTLT-AALSGQLNPQVNLVDTLNS--GQYTVFAPTNAAFSKL 79

Query: 61  RSEFIEITGKKSTILPIIKSLGDVVEEKFTADLL 94
            +  I+     S++L  I     VV  + +   +
Sbjct: 80  PASTIDELKTNSSLLTSI-LTYHVVAGQTSPANV 112


  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
   0.319    0.135    0.394 

Gapped
Lambda     K      H
   0.267   0.0478    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 33805
Number of Hits to DB: 7,823,288
Number of extensions: 362944
Number of successful extensions: 1011
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1007
Number of HSP's successfully gapped: 32
Length of query: 1040
Length of database: 4,956,049
Length adjustment: 97
Effective length of query: 943
Effective length of database: 1,676,964
Effective search space: 1581377052
Effective search space used: 1581377052
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 (21.7 bits)
S2: 59 (27.1 bits)